5_5_cal_LD.ipynb

{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 1,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "'\\n\\njupyter nbconvert 5_association.ipynb --to script\\npython 5_association.py albumin 2 0\\n\\nfor i in {00..101};do python 5_association.py $i 2 1;done\\n\\n\\nfor i in {00..10};do python 5_association.py $i 2 0;done\\nfor i in {11..20};do python 5_association.py $i 2 0;done\\nfor i in {21..30};do python 5_association.py $i 2 0;done\\nfor i in {31..40};do python 5_association.py $i 2 0;done\\nfor i in {41..50};do python 5_association.py $i 2 0;done\\nfor i in {51..60};do python 5_association.py $i 2 0;done\\nfor i in {61..70};do python 5_association.py $i 2 0;done\\nfor i in {71..80};do python 5_association.py $i 2 0;done\\nfor i in {91..90};do python 5_association.py $i 2 0;done\\nfor i in {91..101};do python 5_association.py $i 2 0;done\\nfor i in {51..60};do python 5_association.py $i 2 0;done\\nfor i in {51..60};do python 5_association.py $i 2 0;done\\nfor i in {51..60};do python 5_association.py $i 2 0;done\\n\\nfor i in {00..101};do python 5_association.py $i 1 0,2;done\\nfor i in {00..101};do python 5_association.py $i 1 1;done\\n\\nfor i in {00..20};do python 5_association.py $i 1 1;done\\nfor i in {21..40};do python 5_association.py $i 1 1;done\\nfor i in {41..60};do python 5_association.py $i 1 1;done\\nfor i in {61..80};do python 5_association.py $i 1 1;done\\nfor i in {81..101};do python 5_association.py $i 1 1;done\\n\\n'"
      ]
     },
     "execution_count": 1,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "import os\n",
    "import sys\n",
    "\n",
    "import logging\n",
    "import re\n",
    "import pathlib\n",
    "\n",
    "import datetime\n",
    "\n",
    "import numpy as np\n",
    "import pandas as pd\n",
    "from scipy.stats import pearsonr\n",
    "\n",
    "import matplotlib.pyplot as plt\n",
    "\n",
    "from pyplink import PyPlink\n",
    "import seaborn as sns\n",
    "\n",
    "import statsmodels.api as sm\n",
    "\n",
    "import matplotlib.patches as patches\n",
    "import matplotlib\n",
    "\n",
    "from basic_tools import *\n",
    "\n",
    "\"\"\"\n",
    "\n",
    "jupyter nbconvert 5_association.ipynb --to script\n",
    "python 5_association.py albumin 2 0\n",
    "\n",
    "for i in {00..101};do python 5_association.py $i 2 1;done\n",
    "\n",
    "\n",
    "for i in {00..10};do python 5_association.py $i 2 0;done\n",
    "for i in {11..20};do python 5_association.py $i 2 0;done\n",
    "for i in {21..30};do python 5_association.py $i 2 0;done\n",
    "for i in {31..40};do python 5_association.py $i 2 0;done\n",
    "for i in {41..50};do python 5_association.py $i 2 0;done\n",
    "for i in {51..60};do python 5_association.py $i 2 0;done\n",
    "for i in {61..70};do python 5_association.py $i 2 0;done\n",
    "for i in {71..80};do python 5_association.py $i 2 0;done\n",
    "for i in {91..90};do python 5_association.py $i 2 0;done\n",
    "for i in {91..101};do python 5_association.py $i 2 0;done\n",
    "for i in {51..60};do python 5_association.py $i 2 0;done\n",
    "for i in {51..60};do python 5_association.py $i 2 0;done\n",
    "for i in {51..60};do python 5_association.py $i 2 0;done\n",
    "\n",
    "for i in {00..101};do python 5_association.py $i 1 0,2;done\n",
    "for i in {00..101};do python 5_association.py $i 1 1;done\n",
    "\n",
    "for i in {00..20};do python 5_association.py $i 1 1;done\n",
    "for i in {21..40};do python 5_association.py $i 1 1;done\n",
    "for i in {41..60};do python 5_association.py $i 1 1;done\n",
    "for i in {61..80};do python 5_association.py $i 1 1;done\n",
    "for i in {81..101};do python 5_association.py $i 1 1;done\n",
    "\n",
    "\"\"\""
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "metadata": {},
   "outputs": [],
   "source": [
    "plink_KCHIP_HLA_AA_SNP_1000G=PyPlink(plink_KCHIP_HLA_AA_SNP_1000G_path)\n",
    "plink_KCHIP_HLA_AA_SNP_1000G_fam=plink_KCHIP_HLA_AA_SNP_1000G.get_fam().astype({'fid':str,'iid':str}).rename(columns={'fid':'FID','iid':'IID'})\n",
    "plink_KCHIP_HLA_AA_SNP_1000G_bim=plink_KCHIP_HLA_AA_SNP_1000G.get_bim()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "metadata": {},
   "outputs": [],
   "source": [
    "phenotypes=pd.read_csv(pheno_all_file_path,sep='\\t')\n",
    "phenotypes=phenotypes.set_index('ID').loc[plink_KCHIP_HLA_AA_SNP_1000G_fam['IID']]\n",
    "\n",
    "binary_continuous_traits=sorted(phenotypes.columns[~phenotypes.columns.str.contains('x_ray')])    "
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "metadata": {},
   "outputs": [],
   "source": [
    "#result_all[result_all['step']!=1]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "metadata": {},
   "outputs": [],
   "source": [
    "r2_df=pd.read_csv('data/r2.tsv',sep='\\t',index_col=0)\n",
    "#r2_df=pd.DataFrame(index=plink_KCHIP_HLA_AA_SNP_1000G_bim.index)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 9,
   "metadata": {},
   "outputs": [],
   "source": [
    "#result_all"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 10,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "(168, 50)"
      ]
     },
     "execution_count": 10,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "result_all=pd.read_csv('data/result_concat_1_top_all.tsv',sep='\\t')\n",
    "len(result_all['marker_name']),len(result_all[result_all['P']<5e-8]['marker_name'].unique())"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "50"
      ]
     },
     "execution_count": 7,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "len(result_all[result_all['P']<5e-8]['marker_name'].unique())"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 11,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "50"
      ]
     },
     "execution_count": 11,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "top_markers=pd.Series(result_all[result_all['P']<5e-8]['marker_name'].unique())\n",
    "len(top_markers)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 12,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "38"
      ]
     },
     "execution_count": 12,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "top_markers_SNP=top_markers[~((top_markers.str.slice(stop=3)=='HLA')|(top_markers.str.slice(stop=3)=='AA_')|(top_markers.str.slice(stop=3)=='SNP'))]\n",
    "len(top_markers_SNP)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 13,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "1\n"
     ]
    }
   ],
   "source": [
    "print(1)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 14,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "6:34172055_C/A continue\n",
      "6:34205465_G/GGAGCCC continue\n",
      "6:34215221_G/A continue\n",
      "AX-15354567 continue\n",
      "6:32632237_C/T continue\n",
      "6:31351530_T/C continue\n",
      "6:34178764_A/C continue\n",
      "6:33076268_T/C continue\n",
      "6:29896680_A/G continue\n",
      "6:29190624_G/A continue\n",
      "6:30737591_G/C continue\n",
      "6:31237858_T/C continue\n",
      "AX-11365330 continue\n",
      "6:31371397_C/T continue\n",
      "6:31358559_C/T continue\n",
      "6:32377408_T/C continue\n",
      "6:34810172_T/C continue\n",
      "6:34207474_T/TAA continue\n",
      "6:34967349_G/A continue\n",
      "AX-11435484 continue\n",
      "6:32149801_C/T continue\n",
      "6:29698050_A/G continue\n",
      "6:34231005_T/C continue\n",
      "6:28749731_TA/T continue\n",
      "6:31538497_T/A continue\n",
      "6:32638199_C/G continue\n",
      "AX-41961031 continue\n",
      "6:32324081_A/AT continue\n",
      "AX-11397307 continue\n",
      "6:34205822_T/C continue\n",
      "6:32109294_A/G continue\n",
      "6:29938478_A/G continue\n",
      "6:34185749_C/T continue\n",
      "6:31428911_A/G continue\n",
      "6:34234974_A/G continue\n",
      "6:32569297_A/G continue\n",
      "6:28861320_A/G continue\n",
      "6:30990019_A/G continue\n"
     ]
    }
   ],
   "source": [
    "for marker_name in top_markers_SNP.values:\n",
    "    if marker_name in r2_df.columns:\n",
    "        print(marker_name,'continue')\n",
    "        continue\n",
    "    else:\n",
    "        print(marker_name,'test')\n",
    "    marker_dosage=plink_KCHIP_HLA_AA_SNP_1000G.get_geno_marker(marker_name)\n",
    "    print(marker_name)\n",
    "    r2_list=[]\n",
    "    for idx_bim,(SNP,row) in enumerate(plink_KCHIP_HLA_AA_SNP_1000G_bim.iterrows()):\n",
    "        r2=pearsonr(marker_dosage,plink_KCHIP_HLA_AA_SNP_1000G.get_geno_marker(SNP))[0]**2\n",
    "        r2_list.append(r2)\n",
    "    \n",
    "    r2_df[marker_name]=r2_list\n",
    "    \n",
    "    #r2_df_temp=pd.DataFrame(r2_list,index=plink_KCHIP_HLA_AA_SNP_1000G_bim.index)\n",
    "    #r2_df['here']=marker_name\n",
    "    #r2_df=r2_df.sort_values(0,ascending=False)\n",
    "    \n",
    "    #r2_df_dict[marker_name]=r2_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 29,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/plain": [
       "snp\n",
       "6:28000361_T/C               0.003062\n",
       "6:28000610_C/A               0.003059\n",
       "6:28001003_A/C               0.002887\n",
       "6:28001033_T/C               0.014531\n",
       "6:28001610_T/C               0.014504\n",
       "6:28002045_G/A               0.003117\n",
       "6:28002139_G/A               0.004478\n",
       "6:28002388_G/A               0.005030\n",
       "6:28002818_C/T               0.014531\n",
       "6:28002853_T/C               0.014531\n",
       "6:28002963_A/G               0.003059\n",
       "6:28003195_CTG/C             0.037027\n",
       "6:28003205_G/A               0.005026\n",
       "6:28003222_C/T               0.003765\n",
       "6:28003275_T/G               0.003062\n",
       "6:28004059_T/C               0.009317\n",
       "6:28004078_A/G               0.012635\n",
       "6:28004133_G/T               0.000319\n",
       "6:28004134_G/A               0.003062\n",
       "6:28004381_A/G               0.000489\n",
       "6:28004835_A/G               0.000422\n",
       "6:28005112_A/G               0.003061\n",
       "6:28006042_A/G               0.003075\n",
       "6:28006650_A/G               0.014641\n",
       "6:28007357_A/C               0.014640\n",
       "6:28007406_AG/A              0.009334\n",
       "6:28007419_C/T               0.003059\n",
       "6:28007595_CTT/C             0.001153\n",
       "6:28007911_A/C               0.000499\n",
       "6:28007930_C/A               0.003204\n",
       "                               ...   \n",
       "6:34982237_TC/T              0.000194\n",
       "6:34982599_C/T               0.006266\n",
       "6:34983275_C/CA              0.000290\n",
       "6:34984037_A/C               0.006274\n",
       "6:34984556_A/AG              0.000598\n",
       "6:34984558_A/G               0.000814\n",
       "6:34984712_CTT/C             0.002327\n",
       "6:34985133_TTCTC/T           0.000131\n",
       "6:34985563_G/A               0.000361\n",
       "6:34985985_G/A               0.000261\n",
       "6:34986340_CA/C              0.000395\n",
       "6:34986591_G/C               0.000406\n",
       "6:34986717_A/G               0.000414\n",
       "6:34988391_C/A               0.002794\n",
       "6:34988951_A/C               0.005599\n",
       "6:34989278_C/T               0.000324\n",
       "6:34989598_A/G               0.000324\n",
       "6:34989761_T/TA              0.000662\n",
       "6:34990203_G/C               0.000327\n",
       "6:34990968_C/T               0.000624\n",
       "6:34993233_T/TCCCTTGCTGCC    0.000926\n",
       "6:34994293_TTGA/T            0.000607\n",
       "6:34994686_A/G               0.000160\n",
       "6:34995973_T/C               0.000310\n",
       "6:34996132_A/T               0.000103\n",
       "6:34997188_C/T               0.000261\n",
       "6:34997259_G/A               0.000184\n",
       "6:34997606_T/A               0.008938\n",
       "6:34998418_G/A               0.000170\n",
       "6:34999077_C/T               0.000157\n",
       "Name: 6:32639786_G/A, Length: 70987, dtype: float64"
      ]
     },
     "execution_count": 29,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": []
  },
  {
   "cell_type": "code",
   "execution_count": 26,
   "metadata": {},
   "outputs": [],
   "source": [
    "r2_df.to_csv('data/r2.tsv',sep='\\t')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 27,
   "metadata": {},
   "outputs": [],
   "source": [
    "#pd.read_csv('data/result_concat_2_top_r2.tsv',sep='\\t',index_col=0)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 28,
   "metadata": {},
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
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       "    .dataframe tbody tr th:only-of-type {\n",
       "        vertical-align: middle;\n",
       "    }\n",
       "\n",
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       "    }\n",
       "\n",
       "    .dataframe thead th {\n",
       "        text-align: right;\n",
       "    }\n",
       "</style>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th>snp</th>\n",
       "      <th>6:31018788_T/G</th>\n",
       "      <th>AX-11396301</th>\n",
       "      <th>6:34205822_T/C</th>\n",
       "      <th>6:30426103_A/T</th>\n",
       "      <th>6:29916681_G/A</th>\n",
       "      <th>6:34178764_A/C</th>\n",
       "      <th>6:32610556_G/T</th>\n",
       "      <th>6:29903350_T/C</th>\n",
       "      <th>6:29190624_G/A</th>\n",
       "      <th>...</th>\n",
       "      <th>6:31217815_A/C</th>\n",
       "      <th>6:34185755_C/T</th>\n",
       "      <th>AX-11396692</th>\n",
       "      <th>6:32608334_GAAA/G</th>\n",
       "      <th>6:31430143_G/C</th>\n",
       "      <th>6:31612576_A/T</th>\n",
       "      <th>6:32641938_G/T</th>\n",
       "      <th>6:32453284_C/G</th>\n",
       "      <th>6:31237965_G/C</th>\n",
       "      <th>6:32639786_G/A</th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th>0</th>\n",
       "      <td>6:28000361_T/C</td>\n",
       "      <td>3.666156e-03</td>\n",
       "      <td>4.260964e-03</td>\n",
       "      <td>2.137551e-07</td>\n",
       "      <td>0.000260</td>\n",
       "      <td>1.470430e-02</td>\n",
       "      <td>0.000006</td>\n",
       "      <td>4.088835e-05</td>\n",
       "      <td>0.008630</td>\n",
       "      <td>6.181463e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008690</td>\n",
       "      <td>8.333004e-07</td>\n",
       "      <td>3.425234e-03</td>\n",
       "      <td>3.375568e-03</td>\n",
       "      <td>1.496911e-03</td>\n",
       "      <td>1.202219e-04</td>\n",
       "      <td>8.387405e-04</td>\n",
       "      <td>0.004130</td>\n",
       "      <td>2.638591e-03</td>\n",
       "      <td>0.003062</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>1</th>\n",
       "      <td>6:28000610_C/A</td>\n",
       "      <td>3.675666e-03</td>\n",
       "      <td>4.272276e-03</td>\n",
       "      <td>2.240948e-07</td>\n",
       "      <td>0.000256</td>\n",
       "      <td>1.471321e-02</td>\n",
       "      <td>0.000006</td>\n",
       "      <td>3.894912e-05</td>\n",
       "      <td>0.008652</td>\n",
       "      <td>6.161490e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008708</td>\n",
       "      <td>8.768338e-07</td>\n",
       "      <td>3.416371e-03</td>\n",
       "      <td>3.388951e-03</td>\n",
       "      <td>1.500515e-03</td>\n",
       "      <td>1.195473e-04</td>\n",
       "      <td>8.422021e-04</td>\n",
       "      <td>0.004125</td>\n",
       "      <td>2.643066e-03</td>\n",
       "      <td>0.003059</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>2</th>\n",
       "      <td>6:28001003_A/C</td>\n",
       "      <td>3.605884e-03</td>\n",
       "      <td>4.311554e-03</td>\n",
       "      <td>4.488192e-08</td>\n",
       "      <td>0.000483</td>\n",
       "      <td>1.455898e-02</td>\n",
       "      <td>0.000009</td>\n",
       "      <td>1.290955e-05</td>\n",
       "      <td>0.010450</td>\n",
       "      <td>1.350555e-03</td>\n",
       "      <td>...</td>\n",
       "      <td>0.010493</td>\n",
       "      <td>1.038748e-06</td>\n",
       "      <td>3.511401e-03</td>\n",
       "      <td>3.278527e-03</td>\n",
       "      <td>1.643766e-03</td>\n",
       "      <td>8.240188e-05</td>\n",
       "      <td>8.378525e-04</td>\n",
       "      <td>0.004104</td>\n",
       "      <td>2.983644e-03</td>\n",
       "      <td>0.002887</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>3</th>\n",
       "      <td>6:28001033_T/C</td>\n",
       "      <td>1.225358e-02</td>\n",
       "      <td>1.596598e-02</td>\n",
       "      <td>2.559257e-04</td>\n",
       "      <td>0.010612</td>\n",
       "      <td>4.393968e-03</td>\n",
       "      <td>0.000016</td>\n",
       "      <td>1.745961e-04</td>\n",
       "      <td>0.033688</td>\n",
       "      <td>2.946780e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001422</td>\n",
       "      <td>3.264348e-05</td>\n",
       "      <td>1.129006e-02</td>\n",
       "      <td>1.237641e-02</td>\n",
       "      <td>1.024276e-02</td>\n",
       "      <td>1.354072e-03</td>\n",
       "      <td>7.606545e-04</td>\n",
       "      <td>0.022062</td>\n",
       "      <td>6.714384e-03</td>\n",
       "      <td>0.014531</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>4</th>\n",
       "      <td>6:28001610_T/C</td>\n",
       "      <td>1.221706e-02</td>\n",
       "      <td>1.593404e-02</td>\n",
       "      <td>2.555497e-04</td>\n",
       "      <td>0.010590</td>\n",
       "      <td>4.385190e-03</td>\n",
       "      <td>0.000016</td>\n",
       "      <td>1.763490e-04</td>\n",
       "      <td>0.033672</td>\n",
       "      <td>2.943337e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001424</td>\n",
       "      <td>3.247498e-05</td>\n",
       "      <td>1.128701e-02</td>\n",
       "      <td>1.235676e-02</td>\n",
       "      <td>1.023484e-02</td>\n",
       "      <td>1.353724e-03</td>\n",
       "      <td>7.629240e-04</td>\n",
       "      <td>0.022036</td>\n",
       "      <td>6.708046e-03</td>\n",
       "      <td>0.014504</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>5</th>\n",
       "      <td>6:28002045_G/A</td>\n",
       "      <td>3.709945e-03</td>\n",
       "      <td>4.308135e-03</td>\n",
       "      <td>2.068386e-06</td>\n",
       "      <td>0.000231</td>\n",
       "      <td>1.446525e-02</td>\n",
       "      <td>0.000011</td>\n",
       "      <td>3.780738e-05</td>\n",
       "      <td>0.008818</td>\n",
       "      <td>6.716327e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008900</td>\n",
       "      <td>3.240125e-06</td>\n",
       "      <td>3.574697e-03</td>\n",
       "      <td>3.336865e-03</td>\n",
       "      <td>1.442906e-03</td>\n",
       "      <td>1.103783e-04</td>\n",
       "      <td>8.448383e-04</td>\n",
       "      <td>0.004193</td>\n",
       "      <td>2.667608e-03</td>\n",
       "      <td>0.003117</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>6</th>\n",
       "      <td>6:28002139_G/A</td>\n",
       "      <td>2.770758e-03</td>\n",
       "      <td>6.110681e-03</td>\n",
       "      <td>1.414713e-06</td>\n",
       "      <td>0.000073</td>\n",
       "      <td>1.864266e-02</td>\n",
       "      <td>0.000015</td>\n",
       "      <td>3.725136e-04</td>\n",
       "      <td>0.020102</td>\n",
       "      <td>1.201678e-03</td>\n",
       "      <td>...</td>\n",
       "      <td>0.013736</td>\n",
       "      <td>2.395392e-05</td>\n",
       "      <td>1.255236e-03</td>\n",
       "      <td>6.496790e-03</td>\n",
       "      <td>5.453314e-05</td>\n",
       "      <td>1.341837e-05</td>\n",
       "      <td>1.878771e-03</td>\n",
       "      <td>0.007409</td>\n",
       "      <td>4.561641e-03</td>\n",
       "      <td>0.004478</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>7</th>\n",
       "      <td>6:28002388_G/A</td>\n",
       "      <td>6.917218e-03</td>\n",
       "      <td>1.116468e-02</td>\n",
       "      <td>7.349156e-05</td>\n",
       "      <td>0.001241</td>\n",
       "      <td>1.174252e-02</td>\n",
       "      <td>0.000108</td>\n",
       "      <td>1.742837e-04</td>\n",
       "      <td>0.025617</td>\n",
       "      <td>3.425640e-03</td>\n",
       "      <td>...</td>\n",
       "      <td>0.006913</td>\n",
       "      <td>8.690279e-05</td>\n",
       "      <td>4.914715e-03</td>\n",
       "      <td>1.014473e-02</td>\n",
       "      <td>1.002076e-02</td>\n",
       "      <td>1.170967e-04</td>\n",
       "      <td>1.024570e-03</td>\n",
       "      <td>0.008464</td>\n",
       "      <td>6.083654e-04</td>\n",
       "      <td>0.005030</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>8</th>\n",
       "      <td>6:28002818_C/T</td>\n",
       "      <td>1.225358e-02</td>\n",
       "      <td>1.596598e-02</td>\n",
       "      <td>2.559257e-04</td>\n",
       "      <td>0.010612</td>\n",
       "      <td>4.393968e-03</td>\n",
       "      <td>0.000016</td>\n",
       "      <td>1.745961e-04</td>\n",
       "      <td>0.033688</td>\n",
       "      <td>2.946780e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001422</td>\n",
       "      <td>3.264348e-05</td>\n",
       "      <td>1.129006e-02</td>\n",
       "      <td>1.237641e-02</td>\n",
       "      <td>1.024276e-02</td>\n",
       "      <td>1.354072e-03</td>\n",
       "      <td>7.606545e-04</td>\n",
       "      <td>0.022062</td>\n",
       "      <td>6.714384e-03</td>\n",
       "      <td>0.014531</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>9</th>\n",
       "      <td>6:28002853_T/C</td>\n",
       "      <td>1.225358e-02</td>\n",
       "      <td>1.596598e-02</td>\n",
       "      <td>2.559257e-04</td>\n",
       "      <td>0.010612</td>\n",
       "      <td>4.393968e-03</td>\n",
       "      <td>0.000016</td>\n",
       "      <td>1.745961e-04</td>\n",
       "      <td>0.033688</td>\n",
       "      <td>2.946780e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001422</td>\n",
       "      <td>3.264348e-05</td>\n",
       "      <td>1.129006e-02</td>\n",
       "      <td>1.237641e-02</td>\n",
       "      <td>1.024276e-02</td>\n",
       "      <td>1.354072e-03</td>\n",
       "      <td>7.606545e-04</td>\n",
       "      <td>0.022062</td>\n",
       "      <td>6.714384e-03</td>\n",
       "      <td>0.014531</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>10</th>\n",
       "      <td>6:28002963_A/G</td>\n",
       "      <td>3.675666e-03</td>\n",
       "      <td>4.272276e-03</td>\n",
       "      <td>2.240948e-07</td>\n",
       "      <td>0.000256</td>\n",
       "      <td>1.471321e-02</td>\n",
       "      <td>0.000006</td>\n",
       "      <td>3.894912e-05</td>\n",
       "      <td>0.008652</td>\n",
       "      <td>6.161490e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008708</td>\n",
       "      <td>8.768338e-07</td>\n",
       "      <td>3.416371e-03</td>\n",
       "      <td>3.388951e-03</td>\n",
       "      <td>1.500515e-03</td>\n",
       "      <td>1.195473e-04</td>\n",
       "      <td>8.422021e-04</td>\n",
       "      <td>0.004125</td>\n",
       "      <td>2.643066e-03</td>\n",
       "      <td>0.003059</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>11</th>\n",
       "      <td>6:28003195_CTG/C</td>\n",
       "      <td>3.952001e-03</td>\n",
       "      <td>6.771249e-03</td>\n",
       "      <td>3.116917e-06</td>\n",
       "      <td>0.000001</td>\n",
       "      <td>6.853222e-02</td>\n",
       "      <td>0.000032</td>\n",
       "      <td>1.536911e-03</td>\n",
       "      <td>0.036601</td>\n",
       "      <td>3.047618e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.071753</td>\n",
       "      <td>2.632147e-05</td>\n",
       "      <td>9.858472e-03</td>\n",
       "      <td>1.518321e-02</td>\n",
       "      <td>8.468618e-05</td>\n",
       "      <td>6.163690e-03</td>\n",
       "      <td>7.552269e-03</td>\n",
       "      <td>0.027309</td>\n",
       "      <td>2.157137e-02</td>\n",
       "      <td>0.037027</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>12</th>\n",
       "      <td>6:28003205_G/A</td>\n",
       "      <td>7.249565e-03</td>\n",
       "      <td>1.146207e-02</td>\n",
       "      <td>8.273348e-05</td>\n",
       "      <td>0.001084</td>\n",
       "      <td>1.099047e-02</td>\n",
       "      <td>0.000107</td>\n",
       "      <td>2.311285e-04</td>\n",
       "      <td>0.027214</td>\n",
       "      <td>4.086061e-03</td>\n",
       "      <td>...</td>\n",
       "      <td>0.007005</td>\n",
       "      <td>8.902949e-05</td>\n",
       "      <td>4.322703e-03</td>\n",
       "      <td>1.012887e-02</td>\n",
       "      <td>9.874541e-03</td>\n",
       "      <td>1.063494e-04</td>\n",
       "      <td>1.170384e-03</td>\n",
       "      <td>0.008546</td>\n",
       "      <td>8.513624e-04</td>\n",
       "      <td>0.005026</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>13</th>\n",
       "      <td>6:28003222_C/T</td>\n",
       "      <td>5.332718e-03</td>\n",
       "      <td>6.231887e-03</td>\n",
       "      <td>2.027068e-06</td>\n",
       "      <td>0.000153</td>\n",
       "      <td>9.453146e-03</td>\n",
       "      <td>0.000002</td>\n",
       "      <td>2.043394e-05</td>\n",
       "      <td>0.011922</td>\n",
       "      <td>2.586770e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.011985</td>\n",
       "      <td>4.821548e-07</td>\n",
       "      <td>4.093143e-03</td>\n",
       "      <td>5.183031e-03</td>\n",
       "      <td>9.371583e-04</td>\n",
       "      <td>1.838975e-04</td>\n",
       "      <td>2.102719e-03</td>\n",
       "      <td>0.005455</td>\n",
       "      <td>4.907251e-03</td>\n",
       "      <td>0.003765</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>14</th>\n",
       "      <td>6:28003275_T/G</td>\n",
       "      <td>3.666156e-03</td>\n",
       "      <td>4.260964e-03</td>\n",
       "      <td>2.137551e-07</td>\n",
       "      <td>0.000260</td>\n",
       "      <td>1.470430e-02</td>\n",
       "      <td>0.000006</td>\n",
       "      <td>4.088835e-05</td>\n",
       "      <td>0.008630</td>\n",
       "      <td>6.181463e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008690</td>\n",
       "      <td>8.333004e-07</td>\n",
       "      <td>3.425234e-03</td>\n",
       "      <td>3.375568e-03</td>\n",
       "      <td>1.496911e-03</td>\n",
       "      <td>1.202219e-04</td>\n",
       "      <td>8.387405e-04</td>\n",
       "      <td>0.004130</td>\n",
       "      <td>2.638591e-03</td>\n",
       "      <td>0.003062</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>15</th>\n",
       "      <td>6:28004059_T/C</td>\n",
       "      <td>6.656534e-03</td>\n",
       "      <td>9.246612e-03</td>\n",
       "      <td>3.187540e-04</td>\n",
       "      <td>0.016356</td>\n",
       "      <td>1.581650e-04</td>\n",
       "      <td>0.000035</td>\n",
       "      <td>3.750812e-04</td>\n",
       "      <td>0.019838</td>\n",
       "      <td>3.023427e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000575</td>\n",
       "      <td>4.598354e-05</td>\n",
       "      <td>6.068494e-03</td>\n",
       "      <td>7.060412e-03</td>\n",
       "      <td>7.378255e-03</td>\n",
       "      <td>1.108412e-03</td>\n",
       "      <td>1.190001e-04</td>\n",
       "      <td>0.014806</td>\n",
       "      <td>1.662746e-02</td>\n",
       "      <td>0.009317</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>16</th>\n",
       "      <td>6:28004078_A/G</td>\n",
       "      <td>8.243434e-05</td>\n",
       "      <td>1.030088e-04</td>\n",
       "      <td>2.785967e-06</td>\n",
       "      <td>0.000007</td>\n",
       "      <td>9.009813e-03</td>\n",
       "      <td>0.000023</td>\n",
       "      <td>4.974380e-04</td>\n",
       "      <td>0.001527</td>\n",
       "      <td>1.833847e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.017322</td>\n",
       "      <td>7.397531e-06</td>\n",
       "      <td>1.579112e-03</td>\n",
       "      <td>1.085706e-03</td>\n",
       "      <td>3.579572e-04</td>\n",
       "      <td>7.449863e-03</td>\n",
       "      <td>1.568668e-03</td>\n",
       "      <td>0.004537</td>\n",
       "      <td>4.893063e-03</td>\n",
       "      <td>0.012635</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>17</th>\n",
       "      <td>6:28004133_G/T</td>\n",
       "      <td>8.288888e-03</td>\n",
       "      <td>7.477143e-03</td>\n",
       "      <td>5.298745e-05</td>\n",
       "      <td>0.012604</td>\n",
       "      <td>3.874384e-03</td>\n",
       "      <td>0.000007</td>\n",
       "      <td>5.812950e-04</td>\n",
       "      <td>0.004512</td>\n",
       "      <td>5.292074e-03</td>\n",
       "      <td>...</td>\n",
       "      <td>0.005185</td>\n",
       "      <td>1.088404e-04</td>\n",
       "      <td>7.725564e-03</td>\n",
       "      <td>6.814677e-03</td>\n",
       "      <td>6.463953e-04</td>\n",
       "      <td>4.286015e-04</td>\n",
       "      <td>6.201134e-04</td>\n",
       "      <td>0.000734</td>\n",
       "      <td>1.255124e-02</td>\n",
       "      <td>0.000319</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>18</th>\n",
       "      <td>6:28004134_G/A</td>\n",
       "      <td>3.666156e-03</td>\n",
       "      <td>4.260964e-03</td>\n",
       "      <td>2.137551e-07</td>\n",
       "      <td>0.000260</td>\n",
       "      <td>1.470430e-02</td>\n",
       "      <td>0.000006</td>\n",
       "      <td>4.088835e-05</td>\n",
       "      <td>0.008630</td>\n",
       "      <td>6.181463e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008690</td>\n",
       "      <td>8.333004e-07</td>\n",
       "      <td>3.425234e-03</td>\n",
       "      <td>3.375568e-03</td>\n",
       "      <td>1.496911e-03</td>\n",
       "      <td>1.202219e-04</td>\n",
       "      <td>8.387405e-04</td>\n",
       "      <td>0.004130</td>\n",
       "      <td>2.638591e-03</td>\n",
       "      <td>0.003062</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>19</th>\n",
       "      <td>6:28004381_A/G</td>\n",
       "      <td>4.083467e-03</td>\n",
       "      <td>4.650468e-03</td>\n",
       "      <td>2.748887e-05</td>\n",
       "      <td>0.011897</td>\n",
       "      <td>1.443199e-02</td>\n",
       "      <td>0.000004</td>\n",
       "      <td>8.081782e-04</td>\n",
       "      <td>0.004743</td>\n",
       "      <td>5.877728e-03</td>\n",
       "      <td>...</td>\n",
       "      <td>0.009521</td>\n",
       "      <td>1.064708e-07</td>\n",
       "      <td>1.126295e-02</td>\n",
       "      <td>8.392139e-03</td>\n",
       "      <td>6.729558e-04</td>\n",
       "      <td>4.801117e-04</td>\n",
       "      <td>1.460876e-03</td>\n",
       "      <td>0.000453</td>\n",
       "      <td>1.621619e-03</td>\n",
       "      <td>0.000489</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>20</th>\n",
       "      <td>6:28004835_A/G</td>\n",
       "      <td>1.054675e-02</td>\n",
       "      <td>9.267093e-03</td>\n",
       "      <td>5.184351e-04</td>\n",
       "      <td>0.007012</td>\n",
       "      <td>4.937725e-03</td>\n",
       "      <td>0.001977</td>\n",
       "      <td>3.198348e-04</td>\n",
       "      <td>0.005475</td>\n",
       "      <td>6.167247e-03</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008485</td>\n",
       "      <td>1.926587e-03</td>\n",
       "      <td>1.238457e-02</td>\n",
       "      <td>5.311313e-03</td>\n",
       "      <td>8.438396e-02</td>\n",
       "      <td>5.015424e-04</td>\n",
       "      <td>8.704828e-04</td>\n",
       "      <td>0.000865</td>\n",
       "      <td>1.546563e-02</td>\n",
       "      <td>0.000422</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>21</th>\n",
       "      <td>6:28005112_A/G</td>\n",
       "      <td>3.662767e-03</td>\n",
       "      <td>4.257546e-03</td>\n",
       "      <td>1.864056e-07</td>\n",
       "      <td>0.000261</td>\n",
       "      <td>1.469453e-02</td>\n",
       "      <td>0.000006</td>\n",
       "      <td>4.102099e-05</td>\n",
       "      <td>0.008626</td>\n",
       "      <td>6.171787e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008686</td>\n",
       "      <td>7.887408e-07</td>\n",
       "      <td>3.424751e-03</td>\n",
       "      <td>3.373093e-03</td>\n",
       "      <td>1.494017e-03</td>\n",
       "      <td>1.200869e-04</td>\n",
       "      <td>8.394322e-04</td>\n",
       "      <td>0.004129</td>\n",
       "      <td>2.636577e-03</td>\n",
       "      <td>0.003061</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>22</th>\n",
       "      <td>6:28006042_A/G</td>\n",
       "      <td>3.166726e-03</td>\n",
       "      <td>3.621915e-03</td>\n",
       "      <td>8.692142e-08</td>\n",
       "      <td>0.000163</td>\n",
       "      <td>1.496721e-02</td>\n",
       "      <td>0.000005</td>\n",
       "      <td>1.107618e-04</td>\n",
       "      <td>0.009279</td>\n",
       "      <td>3.951263e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008709</td>\n",
       "      <td>3.194034e-07</td>\n",
       "      <td>3.363849e-03</td>\n",
       "      <td>4.043514e-03</td>\n",
       "      <td>1.447346e-03</td>\n",
       "      <td>1.246374e-04</td>\n",
       "      <td>9.059950e-04</td>\n",
       "      <td>0.004278</td>\n",
       "      <td>2.419516e-03</td>\n",
       "      <td>0.003075</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>23</th>\n",
       "      <td>6:28006650_A/G</td>\n",
       "      <td>1.254291e-02</td>\n",
       "      <td>1.635017e-02</td>\n",
       "      <td>2.438791e-04</td>\n",
       "      <td>0.010887</td>\n",
       "      <td>4.460373e-03</td>\n",
       "      <td>0.000015</td>\n",
       "      <td>1.817722e-04</td>\n",
       "      <td>0.034128</td>\n",
       "      <td>2.921621e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001475</td>\n",
       "      <td>3.039641e-05</td>\n",
       "      <td>1.114494e-02</td>\n",
       "      <td>1.231511e-02</td>\n",
       "      <td>1.010407e-02</td>\n",
       "      <td>1.328999e-03</td>\n",
       "      <td>7.667194e-04</td>\n",
       "      <td>0.022268</td>\n",
       "      <td>6.661668e-03</td>\n",
       "      <td>0.014641</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>24</th>\n",
       "      <td>6:28007357_A/C</td>\n",
       "      <td>1.251929e-02</td>\n",
       "      <td>1.632969e-02</td>\n",
       "      <td>2.449697e-04</td>\n",
       "      <td>0.010874</td>\n",
       "      <td>4.472822e-03</td>\n",
       "      <td>0.000016</td>\n",
       "      <td>1.813844e-04</td>\n",
       "      <td>0.034173</td>\n",
       "      <td>2.919797e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001476</td>\n",
       "      <td>3.077283e-05</td>\n",
       "      <td>1.115502e-02</td>\n",
       "      <td>1.232913e-02</td>\n",
       "      <td>1.010728e-02</td>\n",
       "      <td>1.329737e-03</td>\n",
       "      <td>7.690793e-04</td>\n",
       "      <td>0.022258</td>\n",
       "      <td>6.636090e-03</td>\n",
       "      <td>0.014640</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>25</th>\n",
       "      <td>6:28007406_AG/A</td>\n",
       "      <td>6.833025e-03</td>\n",
       "      <td>9.454392e-03</td>\n",
       "      <td>3.166167e-04</td>\n",
       "      <td>0.016527</td>\n",
       "      <td>1.226522e-04</td>\n",
       "      <td>0.000036</td>\n",
       "      <td>3.858595e-04</td>\n",
       "      <td>0.020041</td>\n",
       "      <td>3.038409e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000532</td>\n",
       "      <td>4.566112e-05</td>\n",
       "      <td>5.935834e-03</td>\n",
       "      <td>6.949736e-03</td>\n",
       "      <td>7.295150e-03</td>\n",
       "      <td>1.101435e-03</td>\n",
       "      <td>1.104889e-04</td>\n",
       "      <td>0.014878</td>\n",
       "      <td>1.638696e-02</td>\n",
       "      <td>0.009334</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>26</th>\n",
       "      <td>6:28007419_C/T</td>\n",
       "      <td>3.665823e-03</td>\n",
       "      <td>4.247301e-03</td>\n",
       "      <td>8.938475e-08</td>\n",
       "      <td>0.000258</td>\n",
       "      <td>1.471576e-02</td>\n",
       "      <td>0.000005</td>\n",
       "      <td>4.036997e-05</td>\n",
       "      <td>0.008649</td>\n",
       "      <td>6.156973e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.008687</td>\n",
       "      <td>5.479730e-07</td>\n",
       "      <td>3.426533e-03</td>\n",
       "      <td>3.388207e-03</td>\n",
       "      <td>1.499794e-03</td>\n",
       "      <td>1.196821e-04</td>\n",
       "      <td>8.437159e-04</td>\n",
       "      <td>0.004120</td>\n",
       "      <td>2.639261e-03</td>\n",
       "      <td>0.003059</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>27</th>\n",
       "      <td>6:28007595_CTT/C</td>\n",
       "      <td>2.070761e-03</td>\n",
       "      <td>2.824015e-03</td>\n",
       "      <td>3.162758e-05</td>\n",
       "      <td>0.016322</td>\n",
       "      <td>7.797615e-03</td>\n",
       "      <td>0.000051</td>\n",
       "      <td>1.127919e-03</td>\n",
       "      <td>0.015795</td>\n",
       "      <td>6.024455e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.006054</td>\n",
       "      <td>3.740497e-05</td>\n",
       "      <td>3.503786e-03</td>\n",
       "      <td>4.544917e-03</td>\n",
       "      <td>3.760314e-04</td>\n",
       "      <td>2.078859e-05</td>\n",
       "      <td>5.315666e-06</td>\n",
       "      <td>0.002243</td>\n",
       "      <td>2.963001e-03</td>\n",
       "      <td>0.001153</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>28</th>\n",
       "      <td>6:28007911_A/C</td>\n",
       "      <td>8.254178e-04</td>\n",
       "      <td>9.737300e-04</td>\n",
       "      <td>1.358395e-05</td>\n",
       "      <td>0.002928</td>\n",
       "      <td>2.995987e-04</td>\n",
       "      <td>0.000003</td>\n",
       "      <td>2.063980e-04</td>\n",
       "      <td>0.002483</td>\n",
       "      <td>1.096099e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000229</td>\n",
       "      <td>7.786571e-08</td>\n",
       "      <td>3.783907e-04</td>\n",
       "      <td>8.401388e-04</td>\n",
       "      <td>9.721386e-04</td>\n",
       "      <td>1.397019e-04</td>\n",
       "      <td>2.163289e-03</td>\n",
       "      <td>0.000706</td>\n",
       "      <td>1.228718e-03</td>\n",
       "      <td>0.000499</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>29</th>\n",
       "      <td>6:28007930_C/A</td>\n",
       "      <td>2.461366e-04</td>\n",
       "      <td>8.398042e-05</td>\n",
       "      <td>2.806759e-04</td>\n",
       "      <td>0.023033</td>\n",
       "      <td>2.485977e-02</td>\n",
       "      <td>0.000492</td>\n",
       "      <td>2.131567e-03</td>\n",
       "      <td>0.000069</td>\n",
       "      <td>3.719069e-02</td>\n",
       "      <td>...</td>\n",
       "      <td>0.020203</td>\n",
       "      <td>5.117655e-04</td>\n",
       "      <td>7.997520e-04</td>\n",
       "      <td>1.022462e-07</td>\n",
       "      <td>2.773148e-05</td>\n",
       "      <td>1.377251e-03</td>\n",
       "      <td>6.123551e-04</td>\n",
       "      <td>0.004617</td>\n",
       "      <td>5.116014e-02</td>\n",
       "      <td>0.003204</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70957</th>\n",
       "      <td>6:34982237_TC/T</td>\n",
       "      <td>1.961764e-03</td>\n",
       "      <td>1.991792e-03</td>\n",
       "      <td>1.970332e-03</td>\n",
       "      <td>0.000567</td>\n",
       "      <td>3.267558e-04</td>\n",
       "      <td>0.003058</td>\n",
       "      <td>3.487792e-04</td>\n",
       "      <td>0.000756</td>\n",
       "      <td>2.059811e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001126</td>\n",
       "      <td>3.128143e-03</td>\n",
       "      <td>2.012580e-03</td>\n",
       "      <td>3.547209e-03</td>\n",
       "      <td>1.551636e-04</td>\n",
       "      <td>3.483281e-05</td>\n",
       "      <td>4.029265e-04</td>\n",
       "      <td>0.000352</td>\n",
       "      <td>2.595193e-03</td>\n",
       "      <td>0.000194</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70958</th>\n",
       "      <td>6:34982599_C/T</td>\n",
       "      <td>6.680373e-04</td>\n",
       "      <td>9.155512e-04</td>\n",
       "      <td>5.000698e-05</td>\n",
       "      <td>0.001599</td>\n",
       "      <td>1.582591e-03</td>\n",
       "      <td>0.000791</td>\n",
       "      <td>4.330843e-04</td>\n",
       "      <td>0.001349</td>\n",
       "      <td>1.361325e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001634</td>\n",
       "      <td>4.248096e-04</td>\n",
       "      <td>7.644070e-04</td>\n",
       "      <td>2.581858e-03</td>\n",
       "      <td>2.236480e-04</td>\n",
       "      <td>1.227813e-03</td>\n",
       "      <td>1.857766e-03</td>\n",
       "      <td>0.007224</td>\n",
       "      <td>9.326027e-04</td>\n",
       "      <td>0.006266</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70959</th>\n",
       "      <td>6:34983275_C/CA</td>\n",
       "      <td>2.395850e-04</td>\n",
       "      <td>1.591269e-04</td>\n",
       "      <td>1.516841e-03</td>\n",
       "      <td>0.000428</td>\n",
       "      <td>6.539533e-04</td>\n",
       "      <td>0.004501</td>\n",
       "      <td>1.200706e-05</td>\n",
       "      <td>0.000144</td>\n",
       "      <td>1.228138e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000815</td>\n",
       "      <td>4.272253e-03</td>\n",
       "      <td>1.213598e-03</td>\n",
       "      <td>2.068254e-04</td>\n",
       "      <td>5.159150e-03</td>\n",
       "      <td>1.514187e-04</td>\n",
       "      <td>3.525467e-04</td>\n",
       "      <td>0.000068</td>\n",
       "      <td>1.725065e-03</td>\n",
       "      <td>0.000290</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70960</th>\n",
       "      <td>6:34984037_A/C</td>\n",
       "      <td>6.715169e-04</td>\n",
       "      <td>9.194409e-04</td>\n",
       "      <td>4.941345e-05</td>\n",
       "      <td>0.001601</td>\n",
       "      <td>1.577448e-03</td>\n",
       "      <td>0.000792</td>\n",
       "      <td>4.343541e-04</td>\n",
       "      <td>0.001345</td>\n",
       "      <td>1.365609e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001634</td>\n",
       "      <td>4.257016e-04</td>\n",
       "      <td>7.667096e-04</td>\n",
       "      <td>2.595826e-03</td>\n",
       "      <td>2.223827e-04</td>\n",
       "      <td>1.224553e-03</td>\n",
       "      <td>1.854191e-03</td>\n",
       "      <td>0.007251</td>\n",
       "      <td>9.297690e-04</td>\n",
       "      <td>0.006274</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70961</th>\n",
       "      <td>6:34984556_A/AG</td>\n",
       "      <td>1.500659e-04</td>\n",
       "      <td>9.213282e-05</td>\n",
       "      <td>3.923044e-03</td>\n",
       "      <td>0.000181</td>\n",
       "      <td>2.039195e-06</td>\n",
       "      <td>0.000818</td>\n",
       "      <td>1.966528e-06</td>\n",
       "      <td>0.000605</td>\n",
       "      <td>1.668301e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000244</td>\n",
       "      <td>8.932726e-04</td>\n",
       "      <td>7.878179e-04</td>\n",
       "      <td>2.801835e-04</td>\n",
       "      <td>5.869834e-04</td>\n",
       "      <td>5.384707e-07</td>\n",
       "      <td>4.868047e-05</td>\n",
       "      <td>0.000308</td>\n",
       "      <td>2.746007e-04</td>\n",
       "      <td>0.000598</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70962</th>\n",
       "      <td>6:34984558_A/G</td>\n",
       "      <td>7.023714e-07</td>\n",
       "      <td>4.099215e-06</td>\n",
       "      <td>4.913149e-03</td>\n",
       "      <td>0.000028</td>\n",
       "      <td>1.546834e-04</td>\n",
       "      <td>0.001705</td>\n",
       "      <td>2.056100e-05</td>\n",
       "      <td>0.000919</td>\n",
       "      <td>3.096237e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000003</td>\n",
       "      <td>1.712891e-03</td>\n",
       "      <td>1.326818e-03</td>\n",
       "      <td>4.158562e-05</td>\n",
       "      <td>5.142005e-04</td>\n",
       "      <td>8.038541e-06</td>\n",
       "      <td>1.323389e-04</td>\n",
       "      <td>0.000410</td>\n",
       "      <td>5.198877e-05</td>\n",
       "      <td>0.000814</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70963</th>\n",
       "      <td>6:34984712_CTT/C</td>\n",
       "      <td>7.329160e-04</td>\n",
       "      <td>7.536175e-04</td>\n",
       "      <td>4.508471e-04</td>\n",
       "      <td>0.000552</td>\n",
       "      <td>4.529735e-04</td>\n",
       "      <td>0.002527</td>\n",
       "      <td>1.015472e-05</td>\n",
       "      <td>0.000594</td>\n",
       "      <td>1.432009e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000637</td>\n",
       "      <td>2.718396e-03</td>\n",
       "      <td>1.275833e-03</td>\n",
       "      <td>1.105200e-04</td>\n",
       "      <td>9.253559e-07</td>\n",
       "      <td>6.165468e-06</td>\n",
       "      <td>3.683330e-04</td>\n",
       "      <td>0.002168</td>\n",
       "      <td>9.600210e-05</td>\n",
       "      <td>0.002327</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70964</th>\n",
       "      <td>6:34985133_TTCTC/T</td>\n",
       "      <td>3.785013e-05</td>\n",
       "      <td>4.594090e-05</td>\n",
       "      <td>5.002612e-03</td>\n",
       "      <td>0.000027</td>\n",
       "      <td>4.080157e-05</td>\n",
       "      <td>0.003770</td>\n",
       "      <td>3.715289e-06</td>\n",
       "      <td>0.000011</td>\n",
       "      <td>7.838210e-07</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000121</td>\n",
       "      <td>3.549269e-03</td>\n",
       "      <td>1.172945e-09</td>\n",
       "      <td>1.293580e-04</td>\n",
       "      <td>1.743052e-04</td>\n",
       "      <td>3.824515e-05</td>\n",
       "      <td>4.387235e-04</td>\n",
       "      <td>0.000086</td>\n",
       "      <td>9.095877e-05</td>\n",
       "      <td>0.000131</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70965</th>\n",
       "      <td>6:34985563_G/A</td>\n",
       "      <td>1.835402e-05</td>\n",
       "      <td>8.903616e-06</td>\n",
       "      <td>2.602067e-03</td>\n",
       "      <td>0.000075</td>\n",
       "      <td>2.275194e-04</td>\n",
       "      <td>0.004236</td>\n",
       "      <td>1.537179e-05</td>\n",
       "      <td>0.000574</td>\n",
       "      <td>6.986096e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000894</td>\n",
       "      <td>4.157315e-03</td>\n",
       "      <td>3.065225e-04</td>\n",
       "      <td>1.822422e-04</td>\n",
       "      <td>4.754317e-05</td>\n",
       "      <td>3.754796e-05</td>\n",
       "      <td>1.132504e-06</td>\n",
       "      <td>0.000403</td>\n",
       "      <td>3.414678e-06</td>\n",
       "      <td>0.000361</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70966</th>\n",
       "      <td>6:34985985_G/A</td>\n",
       "      <td>1.270089e-03</td>\n",
       "      <td>1.532635e-03</td>\n",
       "      <td>1.665651e-03</td>\n",
       "      <td>0.001395</td>\n",
       "      <td>1.632084e-03</td>\n",
       "      <td>0.000942</td>\n",
       "      <td>4.097535e-04</td>\n",
       "      <td>0.000042</td>\n",
       "      <td>2.658907e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000806</td>\n",
       "      <td>2.180667e-03</td>\n",
       "      <td>2.110651e-03</td>\n",
       "      <td>2.882597e-03</td>\n",
       "      <td>5.216756e-04</td>\n",
       "      <td>1.787501e-04</td>\n",
       "      <td>1.030568e-03</td>\n",
       "      <td>0.000202</td>\n",
       "      <td>2.630520e-03</td>\n",
       "      <td>0.000261</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70967</th>\n",
       "      <td>6:34986340_CA/C</td>\n",
       "      <td>6.646096e-06</td>\n",
       "      <td>8.648749e-07</td>\n",
       "      <td>2.734839e-03</td>\n",
       "      <td>0.000084</td>\n",
       "      <td>2.050873e-04</td>\n",
       "      <td>0.004361</td>\n",
       "      <td>7.958241e-06</td>\n",
       "      <td>0.000549</td>\n",
       "      <td>5.743467e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000844</td>\n",
       "      <td>4.414224e-03</td>\n",
       "      <td>2.720488e-04</td>\n",
       "      <td>1.724286e-04</td>\n",
       "      <td>4.004113e-05</td>\n",
       "      <td>2.725689e-05</td>\n",
       "      <td>3.747047e-06</td>\n",
       "      <td>0.000363</td>\n",
       "      <td>8.186007e-06</td>\n",
       "      <td>0.000395</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70968</th>\n",
       "      <td>6:34986591_G/C</td>\n",
       "      <td>1.142641e-05</td>\n",
       "      <td>2.673394e-06</td>\n",
       "      <td>2.794718e-03</td>\n",
       "      <td>0.000101</td>\n",
       "      <td>2.053021e-04</td>\n",
       "      <td>0.004448</td>\n",
       "      <td>8.426698e-06</td>\n",
       "      <td>0.000511</td>\n",
       "      <td>7.333614e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000832</td>\n",
       "      <td>4.497149e-03</td>\n",
       "      <td>2.907442e-04</td>\n",
       "      <td>1.602305e-04</td>\n",
       "      <td>3.428136e-05</td>\n",
       "      <td>3.440510e-05</td>\n",
       "      <td>9.496494e-06</td>\n",
       "      <td>0.000376</td>\n",
       "      <td>5.049341e-06</td>\n",
       "      <td>0.000406</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70969</th>\n",
       "      <td>6:34986717_A/G</td>\n",
       "      <td>4.508901e-05</td>\n",
       "      <td>6.150380e-05</td>\n",
       "      <td>2.263655e-03</td>\n",
       "      <td>0.000115</td>\n",
       "      <td>6.470093e-04</td>\n",
       "      <td>0.001335</td>\n",
       "      <td>1.445215e-04</td>\n",
       "      <td>0.000221</td>\n",
       "      <td>4.330211e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000018</td>\n",
       "      <td>1.222550e-03</td>\n",
       "      <td>7.427528e-04</td>\n",
       "      <td>1.253748e-04</td>\n",
       "      <td>4.502795e-06</td>\n",
       "      <td>7.524506e-07</td>\n",
       "      <td>2.184683e-04</td>\n",
       "      <td>0.000341</td>\n",
       "      <td>5.467905e-04</td>\n",
       "      <td>0.000414</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70970</th>\n",
       "      <td>6:34988391_C/A</td>\n",
       "      <td>1.223865e-03</td>\n",
       "      <td>1.191862e-03</td>\n",
       "      <td>1.330489e-03</td>\n",
       "      <td>0.001073</td>\n",
       "      <td>3.674920e-05</td>\n",
       "      <td>0.000865</td>\n",
       "      <td>5.940455e-05</td>\n",
       "      <td>0.000545</td>\n",
       "      <td>1.542019e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000506</td>\n",
       "      <td>7.509840e-04</td>\n",
       "      <td>1.549873e-03</td>\n",
       "      <td>5.306777e-04</td>\n",
       "      <td>5.874407e-04</td>\n",
       "      <td>1.033423e-05</td>\n",
       "      <td>4.829730e-04</td>\n",
       "      <td>0.001744</td>\n",
       "      <td>1.226732e-05</td>\n",
       "      <td>0.002794</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70971</th>\n",
       "      <td>6:34988951_A/C</td>\n",
       "      <td>7.517865e-04</td>\n",
       "      <td>9.948555e-04</td>\n",
       "      <td>7.395990e-05</td>\n",
       "      <td>0.001747</td>\n",
       "      <td>1.571996e-03</td>\n",
       "      <td>0.000237</td>\n",
       "      <td>6.255414e-04</td>\n",
       "      <td>0.001160</td>\n",
       "      <td>1.035181e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.001544</td>\n",
       "      <td>6.033931e-05</td>\n",
       "      <td>6.212721e-04</td>\n",
       "      <td>1.987111e-03</td>\n",
       "      <td>2.926937e-04</td>\n",
       "      <td>1.312140e-03</td>\n",
       "      <td>1.523128e-03</td>\n",
       "      <td>0.006640</td>\n",
       "      <td>9.343189e-04</td>\n",
       "      <td>0.005599</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70972</th>\n",
       "      <td>6:34989278_C/T</td>\n",
       "      <td>6.322573e-05</td>\n",
       "      <td>5.817801e-05</td>\n",
       "      <td>9.716544e-06</td>\n",
       "      <td>0.000010</td>\n",
       "      <td>1.420545e-05</td>\n",
       "      <td>0.000439</td>\n",
       "      <td>4.107131e-04</td>\n",
       "      <td>0.000017</td>\n",
       "      <td>3.023366e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000112</td>\n",
       "      <td>3.381974e-04</td>\n",
       "      <td>1.271382e-09</td>\n",
       "      <td>3.629737e-04</td>\n",
       "      <td>1.801207e-05</td>\n",
       "      <td>3.056720e-05</td>\n",
       "      <td>5.862529e-05</td>\n",
       "      <td>0.000170</td>\n",
       "      <td>1.165441e-04</td>\n",
       "      <td>0.000324</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70973</th>\n",
       "      <td>6:34989598_A/G</td>\n",
       "      <td>6.322573e-05</td>\n",
       "      <td>5.817801e-05</td>\n",
       "      <td>9.716544e-06</td>\n",
       "      <td>0.000010</td>\n",
       "      <td>1.420545e-05</td>\n",
       "      <td>0.000439</td>\n",
       "      <td>4.107131e-04</td>\n",
       "      <td>0.000017</td>\n",
       "      <td>3.023366e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000112</td>\n",
       "      <td>3.381974e-04</td>\n",
       "      <td>1.271382e-09</td>\n",
       "      <td>3.629737e-04</td>\n",
       "      <td>1.801207e-05</td>\n",
       "      <td>3.056720e-05</td>\n",
       "      <td>5.862529e-05</td>\n",
       "      <td>0.000170</td>\n",
       "      <td>1.165441e-04</td>\n",
       "      <td>0.000324</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70974</th>\n",
       "      <td>6:34989761_T/TA</td>\n",
       "      <td>3.903436e-04</td>\n",
       "      <td>2.634513e-04</td>\n",
       "      <td>3.482106e-03</td>\n",
       "      <td>0.000563</td>\n",
       "      <td>3.190409e-06</td>\n",
       "      <td>0.000551</td>\n",
       "      <td>2.156085e-09</td>\n",
       "      <td>0.000514</td>\n",
       "      <td>7.844476e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000035</td>\n",
       "      <td>6.526998e-04</td>\n",
       "      <td>7.741242e-04</td>\n",
       "      <td>4.275544e-04</td>\n",
       "      <td>1.189792e-03</td>\n",
       "      <td>2.577166e-05</td>\n",
       "      <td>5.206048e-05</td>\n",
       "      <td>0.000117</td>\n",
       "      <td>1.998065e-04</td>\n",
       "      <td>0.000662</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70975</th>\n",
       "      <td>6:34990203_G/C</td>\n",
       "      <td>9.724513e-05</td>\n",
       "      <td>8.865797e-05</td>\n",
       "      <td>6.813113e-05</td>\n",
       "      <td>0.000016</td>\n",
       "      <td>1.474771e-05</td>\n",
       "      <td>0.000758</td>\n",
       "      <td>4.041883e-04</td>\n",
       "      <td>0.000006</td>\n",
       "      <td>2.996958e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000093</td>\n",
       "      <td>6.206357e-04</td>\n",
       "      <td>4.218210e-06</td>\n",
       "      <td>3.706868e-04</td>\n",
       "      <td>2.434810e-06</td>\n",
       "      <td>5.668019e-05</td>\n",
       "      <td>3.636530e-05</td>\n",
       "      <td>0.000153</td>\n",
       "      <td>1.460397e-04</td>\n",
       "      <td>0.000327</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70976</th>\n",
       "      <td>6:34990968_C/T</td>\n",
       "      <td>1.744302e-04</td>\n",
       "      <td>1.036176e-04</td>\n",
       "      <td>3.657082e-03</td>\n",
       "      <td>0.000155</td>\n",
       "      <td>2.641505e-06</td>\n",
       "      <td>0.000539</td>\n",
       "      <td>1.408198e-05</td>\n",
       "      <td>0.000340</td>\n",
       "      <td>1.450136e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000145</td>\n",
       "      <td>6.539108e-04</td>\n",
       "      <td>6.628498e-04</td>\n",
       "      <td>1.468151e-04</td>\n",
       "      <td>4.953072e-04</td>\n",
       "      <td>1.682591e-05</td>\n",
       "      <td>2.636427e-05</td>\n",
       "      <td>0.000049</td>\n",
       "      <td>1.419469e-04</td>\n",
       "      <td>0.000624</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70977</th>\n",
       "      <td>6:34993233_T/TCCCTTGCTGCC</td>\n",
       "      <td>9.374983e-05</td>\n",
       "      <td>1.213411e-04</td>\n",
       "      <td>7.819441e-04</td>\n",
       "      <td>0.000159</td>\n",
       "      <td>1.991278e-04</td>\n",
       "      <td>0.000536</td>\n",
       "      <td>1.605855e-04</td>\n",
       "      <td>0.000574</td>\n",
       "      <td>6.818908e-08</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000908</td>\n",
       "      <td>5.015787e-04</td>\n",
       "      <td>1.724328e-04</td>\n",
       "      <td>1.249498e-03</td>\n",
       "      <td>1.808768e-04</td>\n",
       "      <td>6.393657e-06</td>\n",
       "      <td>3.998349e-04</td>\n",
       "      <td>0.000922</td>\n",
       "      <td>1.651365e-04</td>\n",
       "      <td>0.000926</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70978</th>\n",
       "      <td>6:34994293_TTGA/T</td>\n",
       "      <td>1.891953e-04</td>\n",
       "      <td>1.170467e-04</td>\n",
       "      <td>3.599481e-03</td>\n",
       "      <td>0.000175</td>\n",
       "      <td>2.534160e-06</td>\n",
       "      <td>0.000507</td>\n",
       "      <td>1.331302e-05</td>\n",
       "      <td>0.000315</td>\n",
       "      <td>1.341587e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000129</td>\n",
       "      <td>6.179207e-04</td>\n",
       "      <td>6.190461e-04</td>\n",
       "      <td>1.685182e-04</td>\n",
       "      <td>5.202121e-04</td>\n",
       "      <td>1.620657e-05</td>\n",
       "      <td>2.130763e-05</td>\n",
       "      <td>0.000042</td>\n",
       "      <td>1.159545e-04</td>\n",
       "      <td>0.000607</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70979</th>\n",
       "      <td>6:34994686_A/G</td>\n",
       "      <td>1.092479e-05</td>\n",
       "      <td>2.146473e-06</td>\n",
       "      <td>2.990846e-03</td>\n",
       "      <td>0.000089</td>\n",
       "      <td>1.231731e-04</td>\n",
       "      <td>0.004708</td>\n",
       "      <td>2.722596e-05</td>\n",
       "      <td>0.000452</td>\n",
       "      <td>6.514670e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000608</td>\n",
       "      <td>4.809654e-03</td>\n",
       "      <td>3.255185e-04</td>\n",
       "      <td>4.674901e-05</td>\n",
       "      <td>4.562854e-05</td>\n",
       "      <td>2.519131e-05</td>\n",
       "      <td>1.500190e-07</td>\n",
       "      <td>0.000175</td>\n",
       "      <td>1.729725e-09</td>\n",
       "      <td>0.000160</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70980</th>\n",
       "      <td>6:34995973_T/C</td>\n",
       "      <td>4.544221e-05</td>\n",
       "      <td>3.899058e-05</td>\n",
       "      <td>9.781791e-06</td>\n",
       "      <td>0.000024</td>\n",
       "      <td>6.906647e-06</td>\n",
       "      <td>0.000451</td>\n",
       "      <td>3.794774e-04</td>\n",
       "      <td>0.000014</td>\n",
       "      <td>3.868697e-05</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000124</td>\n",
       "      <td>3.421827e-04</td>\n",
       "      <td>7.563460e-07</td>\n",
       "      <td>3.801515e-04</td>\n",
       "      <td>2.092760e-05</td>\n",
       "      <td>3.796568e-05</td>\n",
       "      <td>1.043427e-04</td>\n",
       "      <td>0.000166</td>\n",
       "      <td>8.164369e-05</td>\n",
       "      <td>0.000310</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70981</th>\n",
       "      <td>6:34996132_A/T</td>\n",
       "      <td>1.203886e-04</td>\n",
       "      <td>1.630915e-04</td>\n",
       "      <td>3.841725e-03</td>\n",
       "      <td>0.000019</td>\n",
       "      <td>7.045225e-08</td>\n",
       "      <td>0.004847</td>\n",
       "      <td>5.206097e-06</td>\n",
       "      <td>0.000205</td>\n",
       "      <td>2.384925e-06</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000272</td>\n",
       "      <td>5.161307e-03</td>\n",
       "      <td>1.753046e-05</td>\n",
       "      <td>6.716914e-07</td>\n",
       "      <td>4.354284e-05</td>\n",
       "      <td>8.151995e-05</td>\n",
       "      <td>1.650525e-06</td>\n",
       "      <td>0.000098</td>\n",
       "      <td>4.404313e-05</td>\n",
       "      <td>0.000103</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70982</th>\n",
       "      <td>6:34997188_C/T</td>\n",
       "      <td>1.642962e-04</td>\n",
       "      <td>9.499229e-05</td>\n",
       "      <td>4.025654e-03</td>\n",
       "      <td>0.000266</td>\n",
       "      <td>3.258389e-07</td>\n",
       "      <td>0.001005</td>\n",
       "      <td>7.106535e-05</td>\n",
       "      <td>0.000535</td>\n",
       "      <td>1.545637e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000129</td>\n",
       "      <td>1.081237e-03</td>\n",
       "      <td>9.675059e-04</td>\n",
       "      <td>1.045904e-04</td>\n",
       "      <td>6.226630e-04</td>\n",
       "      <td>8.930660e-08</td>\n",
       "      <td>4.699347e-05</td>\n",
       "      <td>0.000037</td>\n",
       "      <td>2.780048e-04</td>\n",
       "      <td>0.000261</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70983</th>\n",
       "      <td>6:34997259_G/A</td>\n",
       "      <td>1.640890e-04</td>\n",
       "      <td>2.135870e-04</td>\n",
       "      <td>8.433617e-04</td>\n",
       "      <td>0.000012</td>\n",
       "      <td>6.030485e-06</td>\n",
       "      <td>0.001079</td>\n",
       "      <td>6.436719e-04</td>\n",
       "      <td>0.000003</td>\n",
       "      <td>7.219809e-06</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000479</td>\n",
       "      <td>1.158848e-03</td>\n",
       "      <td>4.793466e-05</td>\n",
       "      <td>3.533790e-04</td>\n",
       "      <td>1.041858e-07</td>\n",
       "      <td>5.235520e-07</td>\n",
       "      <td>1.703987e-04</td>\n",
       "      <td>0.000123</td>\n",
       "      <td>8.797792e-05</td>\n",
       "      <td>0.000184</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70984</th>\n",
       "      <td>6:34997606_T/A</td>\n",
       "      <td>1.149787e-03</td>\n",
       "      <td>1.356930e-03</td>\n",
       "      <td>1.659516e-03</td>\n",
       "      <td>0.002258</td>\n",
       "      <td>1.397079e-03</td>\n",
       "      <td>0.003383</td>\n",
       "      <td>4.975688e-04</td>\n",
       "      <td>0.002309</td>\n",
       "      <td>3.887441e-04</td>\n",
       "      <td>...</td>\n",
       "      <td>0.002596</td>\n",
       "      <td>2.661057e-03</td>\n",
       "      <td>1.971916e-03</td>\n",
       "      <td>3.212241e-03</td>\n",
       "      <td>7.690548e-04</td>\n",
       "      <td>1.191375e-03</td>\n",
       "      <td>1.743753e-03</td>\n",
       "      <td>0.008110</td>\n",
       "      <td>4.118997e-04</td>\n",
       "      <td>0.008938</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70985</th>\n",
       "      <td>6:34998418_G/A</td>\n",
       "      <td>2.075309e-04</td>\n",
       "      <td>2.554163e-04</td>\n",
       "      <td>8.171011e-04</td>\n",
       "      <td>0.000028</td>\n",
       "      <td>9.879748e-06</td>\n",
       "      <td>0.001017</td>\n",
       "      <td>6.671476e-04</td>\n",
       "      <td>0.000011</td>\n",
       "      <td>4.129340e-06</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000559</td>\n",
       "      <td>1.140226e-03</td>\n",
       "      <td>4.352811e-05</td>\n",
       "      <td>2.685821e-04</td>\n",
       "      <td>1.059916e-07</td>\n",
       "      <td>5.684927e-11</td>\n",
       "      <td>2.069286e-04</td>\n",
       "      <td>0.000101</td>\n",
       "      <td>1.512593e-04</td>\n",
       "      <td>0.000170</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>70986</th>\n",
       "      <td>6:34999077_C/T</td>\n",
       "      <td>2.148830e-04</td>\n",
       "      <td>2.612230e-04</td>\n",
       "      <td>8.725049e-04</td>\n",
       "      <td>0.000026</td>\n",
       "      <td>9.256601e-06</td>\n",
       "      <td>0.001054</td>\n",
       "      <td>6.286013e-04</td>\n",
       "      <td>0.000014</td>\n",
       "      <td>4.913125e-06</td>\n",
       "      <td>...</td>\n",
       "      <td>0.000555</td>\n",
       "      <td>1.177095e-03</td>\n",
       "      <td>3.411103e-05</td>\n",
       "      <td>2.630357e-04</td>\n",
       "      <td>2.603459e-09</td>\n",
       "      <td>5.919933e-07</td>\n",
       "      <td>2.321558e-04</td>\n",
       "      <td>0.000091</td>\n",
       "      <td>1.213076e-04</td>\n",
       "      <td>0.000157</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>70987 rows × 93 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                             snp  6:31018788_T/G   AX-11396301  \\\n",
       "0                 6:28000361_T/C    3.666156e-03  4.260964e-03   \n",
       "1                 6:28000610_C/A    3.675666e-03  4.272276e-03   \n",
       "2                 6:28001003_A/C    3.605884e-03  4.311554e-03   \n",
       "3                 6:28001033_T/C    1.225358e-02  1.596598e-02   \n",
       "4                 6:28001610_T/C    1.221706e-02  1.593404e-02   \n",
       "5                 6:28002045_G/A    3.709945e-03  4.308135e-03   \n",
       "6                 6:28002139_G/A    2.770758e-03  6.110681e-03   \n",
       "7                 6:28002388_G/A    6.917218e-03  1.116468e-02   \n",
       "8                 6:28002818_C/T    1.225358e-02  1.596598e-02   \n",
       "9                 6:28002853_T/C    1.225358e-02  1.596598e-02   \n",
       "10                6:28002963_A/G    3.675666e-03  4.272276e-03   \n",
       "11              6:28003195_CTG/C    3.952001e-03  6.771249e-03   \n",
       "12                6:28003205_G/A    7.249565e-03  1.146207e-02   \n",
       "13                6:28003222_C/T    5.332718e-03  6.231887e-03   \n",
       "14                6:28003275_T/G    3.666156e-03  4.260964e-03   \n",
       "15                6:28004059_T/C    6.656534e-03  9.246612e-03   \n",
       "16                6:28004078_A/G    8.243434e-05  1.030088e-04   \n",
       "17                6:28004133_G/T    8.288888e-03  7.477143e-03   \n",
       "18                6:28004134_G/A    3.666156e-03  4.260964e-03   \n",
       "19                6:28004381_A/G    4.083467e-03  4.650468e-03   \n",
       "20                6:28004835_A/G    1.054675e-02  9.267093e-03   \n",
       "21                6:28005112_A/G    3.662767e-03  4.257546e-03   \n",
       "22                6:28006042_A/G    3.166726e-03  3.621915e-03   \n",
       "23                6:28006650_A/G    1.254291e-02  1.635017e-02   \n",
       "24                6:28007357_A/C    1.251929e-02  1.632969e-02   \n",
       "25               6:28007406_AG/A    6.833025e-03  9.454392e-03   \n",
       "26                6:28007419_C/T    3.665823e-03  4.247301e-03   \n",
       "27              6:28007595_CTT/C    2.070761e-03  2.824015e-03   \n",
       "28                6:28007911_A/C    8.254178e-04  9.737300e-04   \n",
       "29                6:28007930_C/A    2.461366e-04  8.398042e-05   \n",
       "...                          ...             ...           ...   \n",
       "70957            6:34982237_TC/T    1.961764e-03  1.991792e-03   \n",
       "70958             6:34982599_C/T    6.680373e-04  9.155512e-04   \n",
       "70959            6:34983275_C/CA    2.395850e-04  1.591269e-04   \n",
       "70960             6:34984037_A/C    6.715169e-04  9.194409e-04   \n",
       "70961            6:34984556_A/AG    1.500659e-04  9.213282e-05   \n",
       "70962             6:34984558_A/G    7.023714e-07  4.099215e-06   \n",
       "70963           6:34984712_CTT/C    7.329160e-04  7.536175e-04   \n",
       "70964         6:34985133_TTCTC/T    3.785013e-05  4.594090e-05   \n",
       "70965             6:34985563_G/A    1.835402e-05  8.903616e-06   \n",
       "70966             6:34985985_G/A    1.270089e-03  1.532635e-03   \n",
       "70967            6:34986340_CA/C    6.646096e-06  8.648749e-07   \n",
       "70968             6:34986591_G/C    1.142641e-05  2.673394e-06   \n",
       "70969             6:34986717_A/G    4.508901e-05  6.150380e-05   \n",
       "70970             6:34988391_C/A    1.223865e-03  1.191862e-03   \n",
       "70971             6:34988951_A/C    7.517865e-04  9.948555e-04   \n",
       "70972             6:34989278_C/T    6.322573e-05  5.817801e-05   \n",
       "70973             6:34989598_A/G    6.322573e-05  5.817801e-05   \n",
       "70974            6:34989761_T/TA    3.903436e-04  2.634513e-04   \n",
       "70975             6:34990203_G/C    9.724513e-05  8.865797e-05   \n",
       "70976             6:34990968_C/T    1.744302e-04  1.036176e-04   \n",
       "70977  6:34993233_T/TCCCTTGCTGCC    9.374983e-05  1.213411e-04   \n",
       "70978          6:34994293_TTGA/T    1.891953e-04  1.170467e-04   \n",
       "70979             6:34994686_A/G    1.092479e-05  2.146473e-06   \n",
       "70980             6:34995973_T/C    4.544221e-05  3.899058e-05   \n",
       "70981             6:34996132_A/T    1.203886e-04  1.630915e-04   \n",
       "70982             6:34997188_C/T    1.642962e-04  9.499229e-05   \n",
       "70983             6:34997259_G/A    1.640890e-04  2.135870e-04   \n",
       "70984             6:34997606_T/A    1.149787e-03  1.356930e-03   \n",
       "70985             6:34998418_G/A    2.075309e-04  2.554163e-04   \n",
       "70986             6:34999077_C/T    2.148830e-04  2.612230e-04   \n",
       "\n",
       "       6:34205822_T/C  6:30426103_A/T  6:29916681_G/A  6:34178764_A/C  \\\n",
       "0        2.137551e-07        0.000260    1.470430e-02        0.000006   \n",
       "1        2.240948e-07        0.000256    1.471321e-02        0.000006   \n",
       "2        4.488192e-08        0.000483    1.455898e-02        0.000009   \n",
       "3        2.559257e-04        0.010612    4.393968e-03        0.000016   \n",
       "4        2.555497e-04        0.010590    4.385190e-03        0.000016   \n",
       "5        2.068386e-06        0.000231    1.446525e-02        0.000011   \n",
       "6        1.414713e-06        0.000073    1.864266e-02        0.000015   \n",
       "7        7.349156e-05        0.001241    1.174252e-02        0.000108   \n",
       "8        2.559257e-04        0.010612    4.393968e-03        0.000016   \n",
       "9        2.559257e-04        0.010612    4.393968e-03        0.000016   \n",
       "10       2.240948e-07        0.000256    1.471321e-02        0.000006   \n",
       "11       3.116917e-06        0.000001    6.853222e-02        0.000032   \n",
       "12       8.273348e-05        0.001084    1.099047e-02        0.000107   \n",
       "13       2.027068e-06        0.000153    9.453146e-03        0.000002   \n",
       "14       2.137551e-07        0.000260    1.470430e-02        0.000006   \n",
       "15       3.187540e-04        0.016356    1.581650e-04        0.000035   \n",
       "16       2.785967e-06        0.000007    9.009813e-03        0.000023   \n",
       "17       5.298745e-05        0.012604    3.874384e-03        0.000007   \n",
       "18       2.137551e-07        0.000260    1.470430e-02        0.000006   \n",
       "19       2.748887e-05        0.011897    1.443199e-02        0.000004   \n",
       "20       5.184351e-04        0.007012    4.937725e-03        0.001977   \n",
       "21       1.864056e-07        0.000261    1.469453e-02        0.000006   \n",
       "22       8.692142e-08        0.000163    1.496721e-02        0.000005   \n",
       "23       2.438791e-04        0.010887    4.460373e-03        0.000015   \n",
       "24       2.449697e-04        0.010874    4.472822e-03        0.000016   \n",
       "25       3.166167e-04        0.016527    1.226522e-04        0.000036   \n",
       "26       8.938475e-08        0.000258    1.471576e-02        0.000005   \n",
       "27       3.162758e-05        0.016322    7.797615e-03        0.000051   \n",
       "28       1.358395e-05        0.002928    2.995987e-04        0.000003   \n",
       "29       2.806759e-04        0.023033    2.485977e-02        0.000492   \n",
       "...               ...             ...             ...             ...   \n",
       "70957    1.970332e-03        0.000567    3.267558e-04        0.003058   \n",
       "70958    5.000698e-05        0.001599    1.582591e-03        0.000791   \n",
       "70959    1.516841e-03        0.000428    6.539533e-04        0.004501   \n",
       "70960    4.941345e-05        0.001601    1.577448e-03        0.000792   \n",
       "70961    3.923044e-03        0.000181    2.039195e-06        0.000818   \n",
       "70962    4.913149e-03        0.000028    1.546834e-04        0.001705   \n",
       "70963    4.508471e-04        0.000552    4.529735e-04        0.002527   \n",
       "70964    5.002612e-03        0.000027    4.080157e-05        0.003770   \n",
       "70965    2.602067e-03        0.000075    2.275194e-04        0.004236   \n",
       "70966    1.665651e-03        0.001395    1.632084e-03        0.000942   \n",
       "70967    2.734839e-03        0.000084    2.050873e-04        0.004361   \n",
       "70968    2.794718e-03        0.000101    2.053021e-04        0.004448   \n",
       "70969    2.263655e-03        0.000115    6.470093e-04        0.001335   \n",
       "70970    1.330489e-03        0.001073    3.674920e-05        0.000865   \n",
       "70971    7.395990e-05        0.001747    1.571996e-03        0.000237   \n",
       "70972    9.716544e-06        0.000010    1.420545e-05        0.000439   \n",
       "70973    9.716544e-06        0.000010    1.420545e-05        0.000439   \n",
       "70974    3.482106e-03        0.000563    3.190409e-06        0.000551   \n",
       "70975    6.813113e-05        0.000016    1.474771e-05        0.000758   \n",
       "70976    3.657082e-03        0.000155    2.641505e-06        0.000539   \n",
       "70977    7.819441e-04        0.000159    1.991278e-04        0.000536   \n",
       "70978    3.599481e-03        0.000175    2.534160e-06        0.000507   \n",
       "70979    2.990846e-03        0.000089    1.231731e-04        0.004708   \n",
       "70980    9.781791e-06        0.000024    6.906647e-06        0.000451   \n",
       "70981    3.841725e-03        0.000019    7.045225e-08        0.004847   \n",
       "70982    4.025654e-03        0.000266    3.258389e-07        0.001005   \n",
       "70983    8.433617e-04        0.000012    6.030485e-06        0.001079   \n",
       "70984    1.659516e-03        0.002258    1.397079e-03        0.003383   \n",
       "70985    8.171011e-04        0.000028    9.879748e-06        0.001017   \n",
       "70986    8.725049e-04        0.000026    9.256601e-06        0.001054   \n",
       "\n",
       "       6:32610556_G/T  6:29903350_T/C  6:29190624_G/A  ...  6:31217815_A/C  \\\n",
       "0        4.088835e-05        0.008630    6.181463e-04  ...        0.008690   \n",
       "1        3.894912e-05        0.008652    6.161490e-04  ...        0.008708   \n",
       "2        1.290955e-05        0.010450    1.350555e-03  ...        0.010493   \n",
       "3        1.745961e-04        0.033688    2.946780e-02  ...        0.001422   \n",
       "4        1.763490e-04        0.033672    2.943337e-02  ...        0.001424   \n",
       "5        3.780738e-05        0.008818    6.716327e-04  ...        0.008900   \n",
       "6        3.725136e-04        0.020102    1.201678e-03  ...        0.013736   \n",
       "7        1.742837e-04        0.025617    3.425640e-03  ...        0.006913   \n",
       "8        1.745961e-04        0.033688    2.946780e-02  ...        0.001422   \n",
       "9        1.745961e-04        0.033688    2.946780e-02  ...        0.001422   \n",
       "10       3.894912e-05        0.008652    6.161490e-04  ...        0.008708   \n",
       "11       1.536911e-03        0.036601    3.047618e-02  ...        0.071753   \n",
       "12       2.311285e-04        0.027214    4.086061e-03  ...        0.007005   \n",
       "13       2.043394e-05        0.011922    2.586770e-05  ...        0.011985   \n",
       "14       4.088835e-05        0.008630    6.181463e-04  ...        0.008690   \n",
       "15       3.750812e-04        0.019838    3.023427e-02  ...        0.000575   \n",
       "16       4.974380e-04        0.001527    1.833847e-02  ...        0.017322   \n",
       "17       5.812950e-04        0.004512    5.292074e-03  ...        0.005185   \n",
       "18       4.088835e-05        0.008630    6.181463e-04  ...        0.008690   \n",
       "19       8.081782e-04        0.004743    5.877728e-03  ...        0.009521   \n",
       "20       3.198348e-04        0.005475    6.167247e-03  ...        0.008485   \n",
       "21       4.102099e-05        0.008626    6.171787e-04  ...        0.008686   \n",
       "22       1.107618e-04        0.009279    3.951263e-05  ...        0.008709   \n",
       "23       1.817722e-04        0.034128    2.921621e-02  ...        0.001475   \n",
       "24       1.813844e-04        0.034173    2.919797e-02  ...        0.001476   \n",
       "25       3.858595e-04        0.020041    3.038409e-02  ...        0.000532   \n",
       "26       4.036997e-05        0.008649    6.156973e-04  ...        0.008687   \n",
       "27       1.127919e-03        0.015795    6.024455e-02  ...        0.006054   \n",
       "28       2.063980e-04        0.002483    1.096099e-02  ...        0.000229   \n",
       "29       2.131567e-03        0.000069    3.719069e-02  ...        0.020203   \n",
       "...               ...             ...             ...  ...             ...   \n",
       "70957    3.487792e-04        0.000756    2.059811e-04  ...        0.001126   \n",
       "70958    4.330843e-04        0.001349    1.361325e-04  ...        0.001634   \n",
       "70959    1.200706e-05        0.000144    1.228138e-04  ...        0.000815   \n",
       "70960    4.343541e-04        0.001345    1.365609e-04  ...        0.001634   \n",
       "70961    1.966528e-06        0.000605    1.668301e-04  ...        0.000244   \n",
       "70962    2.056100e-05        0.000919    3.096237e-04  ...        0.000003   \n",
       "70963    1.015472e-05        0.000594    1.432009e-04  ...        0.000637   \n",
       "70964    3.715289e-06        0.000011    7.838210e-07  ...        0.000121   \n",
       "70965    1.537179e-05        0.000574    6.986096e-05  ...        0.000894   \n",
       "70966    4.097535e-04        0.000042    2.658907e-04  ...        0.000806   \n",
       "70967    7.958241e-06        0.000549    5.743467e-05  ...        0.000844   \n",
       "70968    8.426698e-06        0.000511    7.333614e-05  ...        0.000832   \n",
       "70969    1.445215e-04        0.000221    4.330211e-05  ...        0.000018   \n",
       "70970    5.940455e-05        0.000545    1.542019e-04  ...        0.000506   \n",
       "70971    6.255414e-04        0.001160    1.035181e-04  ...        0.001544   \n",
       "70972    4.107131e-04        0.000017    3.023366e-05  ...        0.000112   \n",
       "70973    4.107131e-04        0.000017    3.023366e-05  ...        0.000112   \n",
       "70974    2.156085e-09        0.000514    7.844476e-05  ...        0.000035   \n",
       "70975    4.041883e-04        0.000006    2.996958e-05  ...        0.000093   \n",
       "70976    1.408198e-05        0.000340    1.450136e-04  ...        0.000145   \n",
       "70977    1.605855e-04        0.000574    6.818908e-08  ...        0.000908   \n",
       "70978    1.331302e-05        0.000315    1.341587e-04  ...        0.000129   \n",
       "70979    2.722596e-05        0.000452    6.514670e-05  ...        0.000608   \n",
       "70980    3.794774e-04        0.000014    3.868697e-05  ...        0.000124   \n",
       "70981    5.206097e-06        0.000205    2.384925e-06  ...        0.000272   \n",
       "70982    7.106535e-05        0.000535    1.545637e-04  ...        0.000129   \n",
       "70983    6.436719e-04        0.000003    7.219809e-06  ...        0.000479   \n",
       "70984    4.975688e-04        0.002309    3.887441e-04  ...        0.002596   \n",
       "70985    6.671476e-04        0.000011    4.129340e-06  ...        0.000559   \n",
       "70986    6.286013e-04        0.000014    4.913125e-06  ...        0.000555   \n",
       "\n",
       "       6:34185755_C/T   AX-11396692  6:32608334_GAAA/G  6:31430143_G/C  \\\n",
       "0        8.333004e-07  3.425234e-03       3.375568e-03    1.496911e-03   \n",
       "1        8.768338e-07  3.416371e-03       3.388951e-03    1.500515e-03   \n",
       "2        1.038748e-06  3.511401e-03       3.278527e-03    1.643766e-03   \n",
       "3        3.264348e-05  1.129006e-02       1.237641e-02    1.024276e-02   \n",
       "4        3.247498e-05  1.128701e-02       1.235676e-02    1.023484e-02   \n",
       "5        3.240125e-06  3.574697e-03       3.336865e-03    1.442906e-03   \n",
       "6        2.395392e-05  1.255236e-03       6.496790e-03    5.453314e-05   \n",
       "7        8.690279e-05  4.914715e-03       1.014473e-02    1.002076e-02   \n",
       "8        3.264348e-05  1.129006e-02       1.237641e-02    1.024276e-02   \n",
       "9        3.264348e-05  1.129006e-02       1.237641e-02    1.024276e-02   \n",
       "10       8.768338e-07  3.416371e-03       3.388951e-03    1.500515e-03   \n",
       "11       2.632147e-05  9.858472e-03       1.518321e-02    8.468618e-05   \n",
       "12       8.902949e-05  4.322703e-03       1.012887e-02    9.874541e-03   \n",
       "13       4.821548e-07  4.093143e-03       5.183031e-03    9.371583e-04   \n",
       "14       8.333004e-07  3.425234e-03       3.375568e-03    1.496911e-03   \n",
       "15       4.598354e-05  6.068494e-03       7.060412e-03    7.378255e-03   \n",
       "16       7.397531e-06  1.579112e-03       1.085706e-03    3.579572e-04   \n",
       "17       1.088404e-04  7.725564e-03       6.814677e-03    6.463953e-04   \n",
       "18       8.333004e-07  3.425234e-03       3.375568e-03    1.496911e-03   \n",
       "19       1.064708e-07  1.126295e-02       8.392139e-03    6.729558e-04   \n",
       "20       1.926587e-03  1.238457e-02       5.311313e-03    8.438396e-02   \n",
       "21       7.887408e-07  3.424751e-03       3.373093e-03    1.494017e-03   \n",
       "22       3.194034e-07  3.363849e-03       4.043514e-03    1.447346e-03   \n",
       "23       3.039641e-05  1.114494e-02       1.231511e-02    1.010407e-02   \n",
       "24       3.077283e-05  1.115502e-02       1.232913e-02    1.010728e-02   \n",
       "25       4.566112e-05  5.935834e-03       6.949736e-03    7.295150e-03   \n",
       "26       5.479730e-07  3.426533e-03       3.388207e-03    1.499794e-03   \n",
       "27       3.740497e-05  3.503786e-03       4.544917e-03    3.760314e-04   \n",
       "28       7.786571e-08  3.783907e-04       8.401388e-04    9.721386e-04   \n",
       "29       5.117655e-04  7.997520e-04       1.022462e-07    2.773148e-05   \n",
       "...               ...           ...                ...             ...   \n",
       "70957    3.128143e-03  2.012580e-03       3.547209e-03    1.551636e-04   \n",
       "70958    4.248096e-04  7.644070e-04       2.581858e-03    2.236480e-04   \n",
       "70959    4.272253e-03  1.213598e-03       2.068254e-04    5.159150e-03   \n",
       "70960    4.257016e-04  7.667096e-04       2.595826e-03    2.223827e-04   \n",
       "70961    8.932726e-04  7.878179e-04       2.801835e-04    5.869834e-04   \n",
       "70962    1.712891e-03  1.326818e-03       4.158562e-05    5.142005e-04   \n",
       "70963    2.718396e-03  1.275833e-03       1.105200e-04    9.253559e-07   \n",
       "70964    3.549269e-03  1.172945e-09       1.293580e-04    1.743052e-04   \n",
       "70965    4.157315e-03  3.065225e-04       1.822422e-04    4.754317e-05   \n",
       "70966    2.180667e-03  2.110651e-03       2.882597e-03    5.216756e-04   \n",
       "70967    4.414224e-03  2.720488e-04       1.724286e-04    4.004113e-05   \n",
       "70968    4.497149e-03  2.907442e-04       1.602305e-04    3.428136e-05   \n",
       "70969    1.222550e-03  7.427528e-04       1.253748e-04    4.502795e-06   \n",
       "70970    7.509840e-04  1.549873e-03       5.306777e-04    5.874407e-04   \n",
       "70971    6.033931e-05  6.212721e-04       1.987111e-03    2.926937e-04   \n",
       "70972    3.381974e-04  1.271382e-09       3.629737e-04    1.801207e-05   \n",
       "70973    3.381974e-04  1.271382e-09       3.629737e-04    1.801207e-05   \n",
       "70974    6.526998e-04  7.741242e-04       4.275544e-04    1.189792e-03   \n",
       "70975    6.206357e-04  4.218210e-06       3.706868e-04    2.434810e-06   \n",
       "70976    6.539108e-04  6.628498e-04       1.468151e-04    4.953072e-04   \n",
       "70977    5.015787e-04  1.724328e-04       1.249498e-03    1.808768e-04   \n",
       "70978    6.179207e-04  6.190461e-04       1.685182e-04    5.202121e-04   \n",
       "70979    4.809654e-03  3.255185e-04       4.674901e-05    4.562854e-05   \n",
       "70980    3.421827e-04  7.563460e-07       3.801515e-04    2.092760e-05   \n",
       "70981    5.161307e-03  1.753046e-05       6.716914e-07    4.354284e-05   \n",
       "70982    1.081237e-03  9.675059e-04       1.045904e-04    6.226630e-04   \n",
       "70983    1.158848e-03  4.793466e-05       3.533790e-04    1.041858e-07   \n",
       "70984    2.661057e-03  1.971916e-03       3.212241e-03    7.690548e-04   \n",
       "70985    1.140226e-03  4.352811e-05       2.685821e-04    1.059916e-07   \n",
       "70986    1.177095e-03  3.411103e-05       2.630357e-04    2.603459e-09   \n",
       "\n",
       "       6:31612576_A/T  6:32641938_G/T  6:32453284_C/G  6:31237965_G/C  \\\n",
       "0        1.202219e-04    8.387405e-04        0.004130    2.638591e-03   \n",
       "1        1.195473e-04    8.422021e-04        0.004125    2.643066e-03   \n",
       "2        8.240188e-05    8.378525e-04        0.004104    2.983644e-03   \n",
       "3        1.354072e-03    7.606545e-04        0.022062    6.714384e-03   \n",
       "4        1.353724e-03    7.629240e-04        0.022036    6.708046e-03   \n",
       "5        1.103783e-04    8.448383e-04        0.004193    2.667608e-03   \n",
       "6        1.341837e-05    1.878771e-03        0.007409    4.561641e-03   \n",
       "7        1.170967e-04    1.024570e-03        0.008464    6.083654e-04   \n",
       "8        1.354072e-03    7.606545e-04        0.022062    6.714384e-03   \n",
       "9        1.354072e-03    7.606545e-04        0.022062    6.714384e-03   \n",
       "10       1.195473e-04    8.422021e-04        0.004125    2.643066e-03   \n",
       "11       6.163690e-03    7.552269e-03        0.027309    2.157137e-02   \n",
       "12       1.063494e-04    1.170384e-03        0.008546    8.513624e-04   \n",
       "13       1.838975e-04    2.102719e-03        0.005455    4.907251e-03   \n",
       "14       1.202219e-04    8.387405e-04        0.004130    2.638591e-03   \n",
       "15       1.108412e-03    1.190001e-04        0.014806    1.662746e-02   \n",
       "16       7.449863e-03    1.568668e-03        0.004537    4.893063e-03   \n",
       "17       4.286015e-04    6.201134e-04        0.000734    1.255124e-02   \n",
       "18       1.202219e-04    8.387405e-04        0.004130    2.638591e-03   \n",
       "19       4.801117e-04    1.460876e-03        0.000453    1.621619e-03   \n",
       "20       5.015424e-04    8.704828e-04        0.000865    1.546563e-02   \n",
       "21       1.200869e-04    8.394322e-04        0.004129    2.636577e-03   \n",
       "22       1.246374e-04    9.059950e-04        0.004278    2.419516e-03   \n",
       "23       1.328999e-03    7.667194e-04        0.022268    6.661668e-03   \n",
       "24       1.329737e-03    7.690793e-04        0.022258    6.636090e-03   \n",
       "25       1.101435e-03    1.104889e-04        0.014878    1.638696e-02   \n",
       "26       1.196821e-04    8.437159e-04        0.004120    2.639261e-03   \n",
       "27       2.078859e-05    5.315666e-06        0.002243    2.963001e-03   \n",
       "28       1.397019e-04    2.163289e-03        0.000706    1.228718e-03   \n",
       "29       1.377251e-03    6.123551e-04        0.004617    5.116014e-02   \n",
       "...               ...             ...             ...             ...   \n",
       "70957    3.483281e-05    4.029265e-04        0.000352    2.595193e-03   \n",
       "70958    1.227813e-03    1.857766e-03        0.007224    9.326027e-04   \n",
       "70959    1.514187e-04    3.525467e-04        0.000068    1.725065e-03   \n",
       "70960    1.224553e-03    1.854191e-03        0.007251    9.297690e-04   \n",
       "70961    5.384707e-07    4.868047e-05        0.000308    2.746007e-04   \n",
       "70962    8.038541e-06    1.323389e-04        0.000410    5.198877e-05   \n",
       "70963    6.165468e-06    3.683330e-04        0.002168    9.600210e-05   \n",
       "70964    3.824515e-05    4.387235e-04        0.000086    9.095877e-05   \n",
       "70965    3.754796e-05    1.132504e-06        0.000403    3.414678e-06   \n",
       "70966    1.787501e-04    1.030568e-03        0.000202    2.630520e-03   \n",
       "70967    2.725689e-05    3.747047e-06        0.000363    8.186007e-06   \n",
       "70968    3.440510e-05    9.496494e-06        0.000376    5.049341e-06   \n",
       "70969    7.524506e-07    2.184683e-04        0.000341    5.467905e-04   \n",
       "70970    1.033423e-05    4.829730e-04        0.001744    1.226732e-05   \n",
       "70971    1.312140e-03    1.523128e-03        0.006640    9.343189e-04   \n",
       "70972    3.056720e-05    5.862529e-05        0.000170    1.165441e-04   \n",
       "70973    3.056720e-05    5.862529e-05        0.000170    1.165441e-04   \n",
       "70974    2.577166e-05    5.206048e-05        0.000117    1.998065e-04   \n",
       "70975    5.668019e-05    3.636530e-05        0.000153    1.460397e-04   \n",
       "70976    1.682591e-05    2.636427e-05        0.000049    1.419469e-04   \n",
       "70977    6.393657e-06    3.998349e-04        0.000922    1.651365e-04   \n",
       "70978    1.620657e-05    2.130763e-05        0.000042    1.159545e-04   \n",
       "70979    2.519131e-05    1.500190e-07        0.000175    1.729725e-09   \n",
       "70980    3.796568e-05    1.043427e-04        0.000166    8.164369e-05   \n",
       "70981    8.151995e-05    1.650525e-06        0.000098    4.404313e-05   \n",
       "70982    8.930660e-08    4.699347e-05        0.000037    2.780048e-04   \n",
       "70983    5.235520e-07    1.703987e-04        0.000123    8.797792e-05   \n",
       "70984    1.191375e-03    1.743753e-03        0.008110    4.118997e-04   \n",
       "70985    5.684927e-11    2.069286e-04        0.000101    1.512593e-04   \n",
       "70986    5.919933e-07    2.321558e-04        0.000091    1.213076e-04   \n",
       "\n",
       "       6:32639786_G/A  \n",
       "0            0.003062  \n",
       "1            0.003059  \n",
       "2            0.002887  \n",
       "3            0.014531  \n",
       "4            0.014504  \n",
       "5            0.003117  \n",
       "6            0.004478  \n",
       "7            0.005030  \n",
       "8            0.014531  \n",
       "9            0.014531  \n",
       "10           0.003059  \n",
       "11           0.037027  \n",
       "12           0.005026  \n",
       "13           0.003765  \n",
       "14           0.003062  \n",
       "15           0.009317  \n",
       "16           0.012635  \n",
       "17           0.000319  \n",
       "18           0.003062  \n",
       "19           0.000489  \n",
       "20           0.000422  \n",
       "21           0.003061  \n",
       "22           0.003075  \n",
       "23           0.014641  \n",
       "24           0.014640  \n",
       "25           0.009334  \n",
       "26           0.003059  \n",
       "27           0.001153  \n",
       "28           0.000499  \n",
       "29           0.003204  \n",
       "...               ...  \n",
       "70957        0.000194  \n",
       "70958        0.006266  \n",
       "70959        0.000290  \n",
       "70960        0.006274  \n",
       "70961        0.000598  \n",
       "70962        0.000814  \n",
       "70963        0.002327  \n",
       "70964        0.000131  \n",
       "70965        0.000361  \n",
       "70966        0.000261  \n",
       "70967        0.000395  \n",
       "70968        0.000406  \n",
       "70969        0.000414  \n",
       "70970        0.002794  \n",
       "70971        0.005599  \n",
       "70972        0.000324  \n",
       "70973        0.000324  \n",
       "70974        0.000662  \n",
       "70975        0.000327  \n",
       "70976        0.000624  \n",
       "70977        0.000926  \n",
       "70978        0.000607  \n",
       "70979        0.000160  \n",
       "70980        0.000310  \n",
       "70981        0.000103  \n",
       "70982        0.000261  \n",
       "70983        0.000184  \n",
       "70984        0.008938  \n",
       "70985        0.000170  \n",
       "70986        0.000157  \n",
       "\n",
       "[70987 rows x 93 columns]"
      ]
     },
     "execution_count": 28,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "pd.read_csv('data/r2.tsv',sep='\\t')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": []
  }
 ],
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