Table 1.
Comparison of STRScan and lobSTR on STR identification from shotgun sequencing reads
| 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) | |
aMulti-allelic STR markers, each with two alleles on the reference human genome