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Table 1 Comparison of STRScan and lobSTR on STR identification from shotgun sequencing reads

From: STRScan: targeted profiling of short tandem repeats in whole-genome sequencing data

STR markers Chromosome / location # in reference genome Copy number of identified STRs (number of supporting reads)
    Venter HG00145 HG00140
    STRScan lobSTR STRScan lobSTR STRScan lobSTR
YSTR (on Y chromosome) panel
DYS19 chrY 9521989-9522052 15 14(1) - - - - -
DYS385a chrY 20801599-20801642 11 11(2) 11(1) 11(3) - 12(1) -
  chrY 20842518-20842573 14 14(1) 14(1)     
DYS388 chrY 14747535-14747570 12 12(2) 12(1) - - - -
DYS389I chrY 14612242-14612289 12 13(3) 13(1) - - - -
DYS389II chrY 14612242-14612405 29 29(2) 29(2) - - - -
DYS390 chrY 17274947-17275042 24 23(1) 23(1) 15(1) - - -
DYS391 chrY 14102795-14102838 11 10(1) 10(1) - - 10(2) 10(2)
DYS392 chrY 22633873-22633911 13 13(2) 13(2) - -   
DYS393 chrY 3131152-3131199 12 13(2) - - - - -
DYS426 chrY 19134850-19134885 12 12(1) 12(1) - - - -
DYS437 chrY 14466994-14467057 16 - - - - 16(2) -
DYS438 chrY 14937824-14937873 10 12(1) 12(1) - - 10(1) 10(1)
DYS439 chrY 14515312-14515363 13 12(1) 12(1) - - 11(1) 11(1)
DYS447 chrY 15278740-15278854 23 25(1) - - - - -
DYS448 chrY 24365070-24365225 19 - - - - - 8(1)
DYS460 (A7.1) chrY 21050842-21050881 10 12(2) - - - 11(1) -
H4 chrY 18743553-18743600 12 - - 12(1) 12(1) 11(2) -
YCAIIa chrY 19622111-19622156 23, 23 19(3), 23(5) 19(3), 23(4) 19(1) 19(2) - -
  Total 18 15(31) 11(20) 4(6) 2(3) 7(10) 4(5)
CODIS (on autosomes) panel
CSF1PO chr5 149455887-149455938 13 11(7) 11(5) - - 11(1) 11(1)
D13S317a chr13 82722160-82722203 11 12(1),13(2) 11(1) - - - -
D16S539 chr16 86386308-86386351 11 12(2) - 13(1) - 11(2) 11(1)
D18S51 chr18 60948900-60948971 18 14(2) 14(2) - - 15(1) -
D21S11 chr21 20554291-20554417 29 - - - - - -
D3S1358a chr3 45582231-45582294 16 16(3) 16(3) - - - -
D5S818 chr5 123111250-123111293 11 - - - - - -
D7S820 chr7 83789542-83789593 13 10(3) 10(2) - - 8(3) -
D8S1179 chr8 125907107-125907158 13 12(1) 12(1) 8(1) 6(2) - 13(1)
FGAa chr4 155508888-155508975 22 26(1), 21(1) 26(1), 21(1) - - - -
PentaD chr21 45056086-45056150 13 13(2) - 9(1) 9(1) - -
PentaE chr15 97374245-97374269 5 12(2) 12(1) - - 13(1) 13(1)
TH01 chr11 2192318-2192345 7 6(2) - - - 5(1),10(2) 10(2)
TPOX chr2 1493425-1493456 8 8(5) 8(4) - - 8(1) 8(1)
  Total 14 12(34) 9(21) 3(3) 2(4) 7(12) 6(7)
  1. aMulti-allelic STR markers, each with two alleles on the reference human genome