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#!/bin/bash
touch genecounts1.txt
while read id start stop mid gene;
do
count=$(grep -w $mid simple.counts.1.txt | awk '{print $2}')
if [[ "$count" == "" ]] ; then
count=0
fi
echo -e "$count\t $gene" >> genecounts1.txt
done < Bthuringiensis_gene_map.txt