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Column Information for SNV list
Column# Column name Information
Column 1 chr chromosome in mm10
Column 2 position position in mm10
Column 3 ref reference base in mm10
Column 4 alt altered base in our basecall
Column 5 quality SNV call by samtools
Column 6 samtools_GT_RAW pairwise 8 genotype call (0:ref, 1:alt1, 2:alt2, c)
Column 7 min_depth minimum read depth in the 8 samples
Column 8 1RF #ref call in forward of the sample 1
Column 9 1RR #ref call in reverse of the sample 1
Column 10 1AF #alt call in forward of the sample 1
Column 11 1AR #alt call in reverse of the sample 1
Column 12 2RF #ref call in forward of the sample 2
Column 13 2RR #ref call in reverse of the sample 2
Column 14 2AF #alt call in forward of the sample 2
Column 15 2AR #alt call in reverse of the sample 2
Column 16 3RF #ref call in forward of the sample 3
Column 17 3RR #ref call in reverse of the sample 3
Column 18 3AF #alt call in forward of the sample 3
Column 19 3AR #alt call in reverse of the sample 3
Column 20 4RF #ref call in forward of the sample 4
Column 21 4RR #ref call in reverse of the sample 4
Column 22 4AF #alt call in forward of the sample 4
Column 23 4AR #alt call in reverse of the sample 4
Column 24 5RF #ref call in forward of the sample 5
Column 25 5RR #ref call in reverse of the sample 5
Column 26 5AF #alt call in forward of the sample 5
Column 27 5AR #alt call in reverse of the sample 5
Column 28 6RF #ref call in forward of the sample 6
Column 29 6RR #ref call in reverse of the sample 6
Column 30 6AF #alt call in forward of the sample 6
Column 31 6AR #alt call in reverse of the sample 6
Column 32 7RF #ref call in forward of the sample 7
Column 33 7RR #ref call in reverse of the sample 7
Column 34 7AF #alt call in forward of the sample 7
Column 35 7AR #alt call in reverse of the sample 7
Column 36 8RF #ref call in forward of the sample 8
Column 37 8RR #ref call in reverse of the sample 8
Column 38 8AF #alt call in forward of the sample 8
Column 39 8AR #alt call in reverse of the sample 8
Column 40 merge_repeat in any of the repeat sequences
Column 41 trfMask repeat: tandem repeat
Column 42 chromOut repeat: repeat masker
Column 43 simple repeat: simple repeat
Column 44 nested repeat: nested repeat
Column 45 segmentDup repeat: segmental duplication
Genomic DNA from eight independent C57BL/6JJcl females were sequenced. When the same homozygous base substitutions were called in all the eight genomic DNAs, such substitutions were identified as SNVs to the corresponding mm10 reference bases.
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