Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1783
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 282363
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2200 original size:20 final size:19
Alignment explanation
Indices: 2176--5993 Score: 1017
Period size: 19 Copynumber: 201.9 Consensus size: 19
2166 ACCTTCATTT
2176 TTTTATTATATTTATTTTTA
1 TTTTATTAT-TTTATTTTTA
* * * *
2196 GTTTATTA-TCTCTTTCT-
1 TTTTATTATTTTATTTTTA
2213 TTTT-TT-TTTTATTTTTA
1 TTTTATTATTTTATTTTTA
*
2230 TTTTATTAACTTTATTTTTA
1 TTTTATT-ATTTTATTTTTA
* *
2250 TTTTTTTATTTTATTTAT-
1 TTTTATTATTTTATTTTTA
*
2268 TTTTATT-TTTT-TTGTTA
1 TTTTATTATTTTATTTTTA
*
2285 ATTT-TTA-TTTA-TTTTA
1 TTTTATTATTTTATTTTTA
*
2301 TTTTATCTTATTTTATTATTA
1 TTTTA--TTATTTTATTTTTA
* *
2322 TTTT-TTTTCTTTAATTTTA
1 TTTTATTAT-TTTATTTTTA
* *
2341 ATTTATTTTTTTATTTTTA
1 TTTTATTATTTTATTTTTA
*
2360 TTTTCATTTTTTTATTTTTATA
1 TTTT-ATTATTTTA-TTTT-TA
*
2382 TTTTATTA-TTTATATTTTC
1 TTTTATTATTTTAT-TTTTA
2401 TTTT-TT-TTTT-TTTTTA
1 TTTTATTATTTTATTTTTA
* *
2417 TTTT-TTTTTATTAATTTTTT
1 TTTTATTATT-TT-ATTTTTA
2437 TTTTA-TATTTTTATTTTTA
1 TTTTATTA-TTTTATTTTTA
* *
2456 TCTTATTTTCTTTTATTTTATA
1 T-TT-TATTATTTTATTTT-TA
*
2478 TTTAATT-TTTTATTTTTA
1 TTTTATTATTTTATTTTTA
*
2496 -TTTATTATTTTTATTAATTA
1 TTTTATTA-TTTTATT-TTTA
* *
2516 TATTATATATTTTTTTTTATA
1 TTTTAT-TATTTTATTTT-TA
*
2537 TTTTTTTATTTATTATTTTTAA
1 TTTTATTA-TT-TTATTTTT-A
** *
2559 TTTT-TTA-TAAATTTTCA
1 TTTTATTATTTTATTTTTA
*
2576 TTTTTTTATTTTTATATTTT-
1 TTTTATTA-TTTTAT-TTTTA
* * *
2596 TCTTATT-TATT-TTTATA
1 TTTTATTATTTTATTTTTA
*
2613 TATTTATAATTTT-TTTTTACAA
1 T-TTTATTATTTTATTTTT---A
2635 TTTCT-TTATTTT-TTTTTA
1 TTT-TATTATTTTATTTTTA
*
2653 -TTT-TTATTTTTTTTTTA
1 TTTTATTATTTTATTTTTA
* *
2670 TTTTTATTTTTTTTTTTTTA
1 -TTTTATTATTTTATTTTTA
*
2690 TTTTCTT-TTTT-TTATCTTA
1 TTTTATTATTTTATT-T-TTA
*
2709 TTTTACTATTTT-TTTATATA
1 TTTTATTATTTTATTT-T-TA
2729 TTTTATTATTTT-TTTTT-
1 TTTTATTATTTTATTTTTA
*
2746 CTTT-TTATTTT-TTTTTA
1 TTTTATTATTTTATTTTTA
*
2763 TTTTA-TA-ATT-TTTTTA
1 TTTTATTATTTTATTTTTA
*
2779 -TTTATT-TTTTATTATTTT
1 TTTTATTATTTTATT-TTTA
*
2797 TTTTATTTTTTTATTTTTA
1 TTTTATTATTTTATTTTTA
**
2816 TTTT-TTATTTTAAATTTA
1 TTTTATTATTTTATTTTTA
2834 --TT-TT-TTTTATTTTTA
1 TTTTATTATTTTATTTTTA
2849 TTTT-TT-TTTTATTTTTA
1 TTTTATTATTTTATTTTTA
2866 TTTTA-TA-TTT-TTTTTA
1 TTTTATTATTTTATTTTTA
*
2882 TTTT-TAATTTTATTTTT-
1 TTTTATTATTTTATTTTTA
2899 TTTATATTATTTATATTATTTA
1 TTT-TATTATTT-TATT-TTTA
*
2921 ATTT-TTATATTT-TTTTT-
1 TTTTATTAT-TTTATTTTTA
2938 TTTT-TTA-TTTATTTTTA
1 TTTTATTATTTTATTTTTA
*
2955 --TTATT-TTTTTTTTTTA
1 TTTTATTATTTTATTTTTA
*
2971 TTTTTTTATTTTTTATTTTT-
1 TTTTATTA--TTTTATTTTTA
* * **
2991 TTTTTTTATTGTT-TTCTCC
1 TTTTATTATT-TTATTTTTA
* * **
3010 TTTTATT-TCTTGTAATTA
1 TTTTATTATTTTATTTTTA
*
3028 TTTTATTTTTTTATTTTT-
1 TTTTATTATTTTATTTTTA
3046 TCTTTA-T-TTTTATTTTT-
1 T-TTTATTATTTTATTTTTA
*
3063 TTTT-TAATTCTTATTTCTTTA
1 TTTTATTATT-TTA-TT-TTTA
* *
3084 TTTT-TTA-TGTATTTTTT
1 TTTTATTATTTTATTTTTA
* * *
3101 TTTTTTTTTTTTCATTTAT-
1 TTTTATTATTTT-ATTTTTA
* *
3120 TTTTCTTTTTTTATTTTTTA
1 TTTTATTATTTTA-TTTTTA
*
3140 TATTTATGT-TTTATATTTTTT
1 T-TTTAT-TATTT-TATTTTTA
*
3161 TTATTATTATTTT-TTTTCA
1 TT-TTATTATTTTATTTTTA
* *
3180 TTTTTAATATTTT-TTCTGTA
1 -TTTTATTATTTTATT-TTTA
* *
3200 TATTATTATTTTTAATTTT-
1 TTTTATTA-TTTTATTTTTA
*
3219 TTTTAATATTTT-TATTTT-
1 TTTTATTATTTTAT-TTTTA
*
3237 TTTGATT-TTTATATTTATTA
1 TTTTATTATTT-TATTT-TTA
* * *
3257 TTAATAATATTTT-TAATTTA
1 TT-TTATTATTTTAT-TTTTA
3277 TTTTATT-TTTT-TTTTGT-
1 TTTTATTATTTTATTTT-TA
3294 TTTT-TTAATTTT-TTTCTT-
1 TTTTATT-ATTTTATTT-TTA
* *
3312 TTTT-TTATTTTTTTTTTC
1 TTTTATTATTTTATTTTTA
* *
3330 TTTT-TTATATTATTTTTC
1 TTTTATTATTTTATTTTTA
*
3348 TTTT-TTATAATTTATATTTA
1 TTTTATTAT--TTTATTTTTA
3368 TTATTATTATTTT-TTTATTA
1 TT-TTATTATTTTATTT-TTA
* *
3388 TATATT-TTTTTTTTTTTTTA
1 T-T-TTATTATTTTATTTTTA
* *
3408 TTTTTTTTTATCTTATTTTTA
1 --TTTTATTATTTTATTTTTA
3429 -TTTATT-TTTT-TTATTTA
1 TTTTATTATTTTATT-TTTA
3446 TGTTATATTAATTTT-TTTTT-
1 T-TT-TATT-ATTTTATTTTTA
*
3466 TTTTTTTATTTT-TTTTTAA
1 TTTTATTATTTTATTTTT-A
* * **
3485 TTTTTTTATTATATTTAAA
1 TTTTATTATTTTATTTTTA
*
3504 ATTTATTTATTTTTAATTTTTGA
1 TTTTA-TTA-TTTT-ATTTTT-A
3527 TTAGTATATTA-TTTA-TTTTA
1 TT--T-TATTATTTTATTTTTA
* * *
3547 ATTTATT-CTTTATTATTTG
1 TTTTATTATTTTATT-TTTA
3566 TTTT-TT-TTTTATCTTTT-
1 TTTTATTATTTTAT-TTTTA
* *
3583 TTATT-TCATTTTATTTATA
1 TT-TTATTATTTTATTTTTA
*
3602 TTTT-TTTTTTTATTTTTA
1 TTTTATTATTTTATTTTTA
* *
3620 TTTTATT-TTTTCTTTTAA
1 TTTTATTATTTTATTTTTA
* *
3638 TTTTTTTTTTTTTATTTATTA
1 -TTTTATTATTTTATTT-TTA
*
3659 TTTTTATT-TTTTTTTTTTA
1 -TTTTATTATTTTATTTTTA
3678 TTTT-TTATTATT-TTTTTA
1 TTTTATTATT-TTATTTTTA
* *
3696 TTTTAAT-TTTTATTTTTTT
1 TTTTATTATTTTA-TTTTTA
*
3715 TTTTATTACTTTA-TTTTA
1 TTTTATTATTTTATTTTTA
** * *
3733 TATTTAAAATTTT-TTATCA
1 T-TTTATTATTTTATTTTTA
* *
3752 TTTTTTTCTTTT-TTTTTA
1 TTTTATTATTTTATTTTTA
*
3770 TTTTATTACTTTT-TTATTTCC
1 TTTTATTA-TTTTATT-TTT-A
* *
3791 TTTT-TTCTTTCT-TTATTA
1 TTTTATTATTT-TATTTTTA
*
3809 TTATACTT-TTTTATTTTT-
1 TTTTA-TTATTTTATTTTTA
* *
3827 TTTTCTT-TTTTCTTTTCTA
1 TTTTATTATTTTATTTT-TA
* * *
3846 -ATT-TT-TTTTAGTATT-
1 TTTTATTATTTTATTTTTA
* *
3861 TTTTATTCATCTTATGTTTA
1 TTTTATT-ATTTTATTTTTA
* *
3881 TTATA-TATTTTTTTTTTA
1 TTTTATTATTTTATTTTTA
3899 TTTTA-TATTTTTATTTATTTA
1 TTTTATTA-TTTTA-TT-TTTA
*
3920 TTTTATTATTTTTTTTTTA
1 TTTTATTATTTTATTTTTA
* * * *
3939 TTATTCTTATGATCAATATATATA
1 TT-TTATTAT--T--TTATTTTTA
3963 TCATTTA-TATTTT-TTTTCTA
1 T--TTTATTATTTTATTTT-TA
3983 TTTTAATTCATTTT-TTTTAATA
1 TTTT-ATT-ATTTTATTTT--TA
*
4005 TTTTTTTATTTTAATTTTT-
1 TTTTATTATTTT-ATTTTTA
*
4024 TTTTATT-TTTTTTTTTATA
1 TTTTATTATTTTATTTT-TA
*
4043 TATTTTTTATTCTTAATTTTTTA
1 T-TTTATTATT-TT-A-TTTTTA
* *
4066 TTTT-TTATATTATTGTTA
1 TTTTATTATTTTATTTTTA
*
4084 TTTT-TTATTTCT-TTCTTTG
1 TTTTATTATTT-TATT-TTTA
*
4103 TTTTTTTA-TTTATTTTTTA
1 TTTTATTATTTTA-TTTTTA
*
4122 TTATTATTATTTT-TTGTTA
1 TT-TTATTATTTTATTTTTA
* *
4141 TTTTCATTA-TTCATTTCTACA
1 TTTT-ATTATTTTATTT-T-TA
* *
4162 TTTT-TTCTTATTGACTTGATTA
1 TTTTATTATT-TT-A-TT-TTTA
** *
4184 TTAAATTATTTTTTTTTTA
1 TTTTATTATTTTATTTTTA
*
4203 TATT-TT-TTTTATTTTT-
1 TTTTATTATTTTATTTTTA
*
4219 TATTT-TTATCTTATTTTCTA
1 T-TTTATTATTTTATTTT-TA
* *
4239 TATTATTATTTTCTTTTT-
1 TTTTATTATTTTATTTTTA
* *
4257 TTTATTTTATTTAATTTATTA
1 TTT-TATTATTTTATTT-TTA
4278 TTTT-TT-TTTTATTTTT-
1 TTTTATTATTTTATTTTTA
*
4294 TTATA-TATTTT-TTGTTATA
1 TTTTATTATTTTATT-TT-TA
*
4313 TATTT-TTATTTTTTTATTTA
1 T-TTTATTATTTTATT-TTTA
4333 TTTTAATT-TTTTATTATTT-
1 TTTT-ATTATTTTATT-TTTA
*
4352 TTTT-TT-TTCTATATTTTTG
1 TTTTATTATT-T-TATTTTTA
*
4371 TTTTA-TA-ATTATTTTTA
1 TTTTATTATTTTATTTTTA
4388 TTTATAATT-TTTTATTTTT-
1 TTT-T-ATTATTTTATTTTTA
* * *
4407 TTTT-TTTTTTTTTTTTTT
1 TTTTATTATTTTATTTTTA
4425 TTTTATTATTATTAATTTTT-
1 TTTTATTATT-TT-ATTTTTA
* **
4445 TTTT-TTA-TATA-TTGCA
1 TTTTATTATTTTATTTTTA
*
4461 TATTA-TATCTTTATTTTCT-
1 TTTTATTAT-TTTATTTT-TA
* *
4480 TTTTATT-TTTTTTTTTTT
1 TTTTATTATTTTATTTTTA
* *
4498 TTTATAATTATTTAATTTTTT
1 TTT-T-ATTATTTTATTTTTA
* *
4519 TTCTTTTTAATTTTATTTTAA
1 TT-TTATT-ATTTTATTTTTA
* *
4540 TCTTTATCTATTCTT-TTCTAA
1 T-TTTAT-TATT-TTATTTTTA
*
4561 TTTTATTCTTTATATTTTTTA
1 TTTTATTATTT-TA-TTTTTA
* * *
4582 TTATATTTTTTTATTATTA
1 TTTTATTATTTTATTTTTA
4601 TTTT-TTATTTTTTATTATTTA
1 TTTTATTA--TTTTATT-TTTA
4622 TTTTATT-TTATTATTTTCTA
1 TTTTATTATT-TTATTTT-TA
* *
4642 TTTT-TCTA-TTCA-CTTTA
1 TTTTAT-TATTTTATTTTTA
* *
4659 TATTT-TT-TCTTATTTATA
1 T-TTTATTATTTTATTTTTA
*
4677 TATTTATTATCATTATCTTTTAA
1 T-TTTATTAT-TTTAT-TTTT-A
* * * *
4700 TTCT-TTATATTGTTTCT-
1 TTTTATTATTTTATTTTTA
* * *
4717 CTTTCTTA-TTTCTTTTTA
1 TTTTATTATTTTATTTTTA
* *
4735 TTTTATTCTATTATTATTT-
1 TTTTATTATTTTATT-TTTA
4754 TTTT-TTCATTTTACTTTCTT-
1 TTTTATT-ATTTTA-TTT-TTA
*
4774 TCTTATTTTATTTTATTTTTA
1 T-TT-TATTATTTTATTTTTA
* *
4795 TTTT-TT-TTTTTTTTATTT
1 TTTTATTATTTTATTT-TTA
4813 TTTTATTATCTTT-TTATTTA
1 TTTTATTAT-TTTATT-TTTA
*
4833 TTTTATTA--ATATTTTT-
1 TTTTATTATTTTATTTTTA
*
4849 TTTAATTATTTT-TTTTTAA
1 TTTTATTATTTTATTTTT-A
*
4868 TTTT-TT-TTTT-TTTCTCTC
1 TTTTATTATTTTATTT-T-TA
*
4886 TTTTATTATTGTTTTTCTTTA
1 TTTTATTATT-TTATT-TTTA
*
4907 TTTT-TT-TTATATTTTT-
1 TTTTATTATTTTATTTTTA
*
4923 TTTTTTTATTTT-TTTTT-
1 TTTTATTATTTTATTTTTA
4940 TTTTATT-TTTT-TTTATTA
1 TTTTATTATTTTATTT-TTA
4958 TTTT-TTATTTT-TATTTTA
1 TTTTATTATTTTAT-TTTTA
* *
4976 TTACTGTT-TTTTATTTTT-
1 TT-TTATTATTTTATTTTTA
*
4994 TTTTTTTA-TTTATTTCATT-
1 TTTTATTATTTTATTT--TTA
*
5013 TTTTCTTATTTTA-TTTT-
1 TTTTATTATTTTATTTTTA
*
5030 TTTTATTTATTATTCTTTTT-
1 TTTTA-TTATT-TTATTTTTA
*
5050 TTTT-TTAATTTTATTTATCA
1 TTTTATT-ATTTTATTT-TTA
*
5070 TTTTAATA-TTT-TTTTTA
1 TTTTATTATTTTATTTTTA
** *
5087 TTTT-TT-TGGATATTGTCTA
1 TTTTATTAT-TTTATT-TTTA
* *
5106 TTATATTTTTTTATTCTTTA
1 TTTTATTATTTTATT-TTTA
5126 TTTTTTATTATTTT-TTTTTA
1 --TTTTATTATTTTATTTTTA
** *
5146 TTTTTATTGAAGATAATTTCTT-
1 -TTTTATT--ATTTTATTT-TTA
* *
5168 TTTT-TT-TTTTTTTTTTC
1 TTTTATTATTTTATTTTTA
* * *
5185 TTTTTTTAATTATATTTTCTT
1 TTTTATT-ATTTTATTTT-TA
* *
5206 TTTTTTTTTTTTATATTTATA
1 TTTTATTATTTTAT-TTT-TA
** *
5227 TAATATT-TTGTATTTATTA
1 TTTTATTATTTTATTT-TTA
* *
5246 TTTTTTTGTTTT-TTTTTA
1 TTTTATTATTTTATTTTTA
* *
5264 TTTTTTTAATTTTAATTCATTA
1 TTTTATT-ATTTT-ATT-TTTA
* *
5286 TTTT-TTTTTTTGTATTTTA
1 TTTTATTATTTTAT-TTTTA
* *
5305 TTTTTTTATTTTTTTTTTA
1 TTTTATTATTTTATTTTTA
* * *
5324 GTTTATATTTTTTTGTTTTTC
1 -TTT-TATTATTTTATTTTTA
5345 TTTTATT-TTTTATTTTT-
1 TTTTATTATTTTATTTTTA
*
5362 TATTTATTATATTA--TTTA
1 T-TTTATTATTTTATTTTTA
5380 TTTTATT-TTTT-TTTTT-
1 TTTTATTATTTTATTTTTA
5396 TTTT-TTATCTTT-TTTTT-
1 TTTTATTAT-TTTATTTTTA
5413 TTTT-TTA-TTT-TTTTTA
1 TTTTATTATTTTATTTTTA
5429 TTCTTATTTATTTTATTTTTA
1 TT-TTA-TTATTTTATTTTTA
* *
5450 -TTTATT-TTTT-TCTCTCA
1 TTTTATTATTTTAT-TTTTA
*
5467 TTTTTTTTATTTT-TTTTTCA
1 -TTTTATTATTTTATTTTT-A
*
5487 TTATT-TTTTTTTA-TTTTA
1 TT-TTATTATTTTATTTTTA
*
5505 TTTT-TTAATTT-TTTTTA
1 TTTTATTATTTTATTTTTA
*
5522 TTTTATT-TTTTTTTGTTTA
1 TTTTATTATTTTATT-TTTA
*
5541 ATTT-TTATTTTATTTTTGTA
1 TTTTATTATTTTA-TTTT-TA
* *
5561 TGTT-TT-CTTTATTTTT-
1 TTTTATTATTTTATTTTTA
* *
5577 TATT-TT-TTTTATTTTTGG
1 TTTTATTATTTTATTTTT-A
* *
5595 TTTTCTT-TTTTCTCATTTT-
1 TTTTATTATTTTAT--TTTTA
5614 TTTTATT-TTTTATTTTT-
1 TTTTATTATTTTATTTTTA
**
5631 TTTT-TTAAACTT-TTTTTA
1 TTTTATT-ATTTTATTTTTA
*
5649 TTTTTCTTATATTTAATTTTTTA
1 -TTTTATTAT-TTT-A-TTTTTA
5672 CTTTT-TCTATTTTATTTTT-
1 -TTTTAT-TATTTTATTTTTA
* *
5691 TTTTTTTATTTTATTTTTT
1 TTTTATTATTTTATTTTTA
* *
5710 TTTTCTTATTATTAATTCTT-
1 TTTTATTATT-TT-ATTTTTA
* **
5730 TTTTATTTTTTTATCATTA
1 TTTTATTATTTTATTTTTA
* * * *
5749 TTTTTTTTTTTTCCTTTTCA
1 TTTTATTATTTT-ATTTTTA
*
5769 -TTT-TT-TTTGATTTTATAA
1 TTTTATTATTTTATTTT-T-A
*
5787 TTTTATT-TATTTATTCATTTT
1 TTTTATTAT-TTTATT--TTTA
* *
5808 TTTTAATACTTTT-TTATT-
1 TTTTATTA-TTTTATTTTTA
*
5826 TTTTATTTATTTT-TATTTA
1 TTTTA-TTATTTTATTTTTA
5845 TTTTATTATTTTATTTTT-
1 TTTTATTATTTTATTTTTA
* *
5863 TTATATT-TTTTTTTTAGTTA
1 TTTTATTATTTTATTT--TTA
* * *
5883 -TTTATTTTTTTTTTTTTT
1 TTTTATTATTTTATTTTTA
*
5901 TTTTTTTATTCTTATTTTT-
1 TTTTATTATT-TTATTTTTA
* *
5920 TTTT-TTTTTTTTTTTTTA
1 TTTTATTATTTTATTTTTA
**
5938 AATT-TT-TTTTATTTATT-
1 TTTTATTATTTTATTT-TTA
* * *
5955 TTTTTTTATTTTAATATTA
1 TTTTATTATTTTATTTTTA
5974 TTTTTATTATTTTTATTTTT
1 -TTTTATTA-TTTTATTTTT
5994 TTTAATTGTT
Statistics
Matches: 2903, Mismatches: 451, Indels: 887
0.68 0.11 0.21
Matches are distributed among these distances:
15 30 0.01
16 175 0.06
17 407 0.14
18 550 0.19
19 649 0.22
20 539 0.19
21 368 0.13
22 125 0.04
23 38 0.01
24 13 0.00
25 6 0.00
26 3 0.00
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (19 bp):
TTTTATTATTTTATTTTTA
Found at i:2229 original size:34 final size:33
Alignment explanation
Indices: 2175--3737 Score: 326
Period size: 32 Copynumber: 48.3 Consensus size: 33
2165 TACCTTCATT
* *
2175 TTTTTATTATATTTATTTTTAGTTTATTATCTCTT-
1 TTTTTATT-TTTTTATTTTTA-TTTATTAACT-TTA
2210 TCTTTT-TTTTTTTATTTTTATTTTATTAACTTTA
1 T-TTTTATTTTTTTATTTTTA-TTTATTAACTTTA
2244 TTTTTATTTTTTTA-TTTTATTTATT---TTTA
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
* * * *
2273 TTTTT-TTTGTTAATTTTTATTTATTTTATTTTA
1 TTTTTATTTTTTTATTTTTATTTA-TTAACTTTA
* * *
2306 TCTTATT-TTATTATTATTTTT-TTTCTTTAATTTTA
1 T-TT-TTATT-TTTTTATTTTTATTT-ATTAACTTTA
* **
2341 -ATTTATTTTTTTATTTTTATTTTCATT-TTTTTA
1 TTTTTATTTTTTTATTTTTA-TTT-ATTAACTTTA
*
2374 TTTTTA-TATTTTATTATTTATATT-TT--CTTT-
1 TTTTTATTTTTTTATT-TTTAT-TTATTAACTTTA
* * *
2404 TTTTT-TTTTTTTATTTTTTTTTATTAATTTTT
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
* **
2436 TTTTTATATTTTTATTTTTATCTTATTTTCTTTTA
1 TTTTTATTTTTTTATTTTTAT-TTATTAAC-TTTA
**
2471 TTTTATATTTAATTTTTTATTTTTATTTATTATTTTTA
1 TTTT-TA--T--TTTTTTATTTTTATTTATTAACTTTA
* * * *
2509 TTAATTATATTATATATTTTTTTTTA-T-A--TT-
1 TT-TTTAT-TTTTTTATTTTTATTTATTAACTTTA
* * **
2539 TTTTTA-TTTATTATTTTTAATTT-TTTA-TAAA
1 TTTTTATTTTTTTATTTTT-ATTTATTAACTTTA
* * *
2570 TTTTCATTTTTTTATTTTTATATTTTTCTTA-TTTA
1 TTTTTATTTTTTTA-TTTT-TATTTAT-TAACTTTA
* * * *
2605 TTTTTATATATTTATAATTTT-TTT-TTACAATTTC
1 TTTTTAT-T-TTTTTATTTTTATTTATTA-ACTTTA
**
2639 TTTATT-TTTTTTTATTTTTATTT-TT-TTTTTA
1 TTT-TTATTTTTTTATTTTTATTTATTAACTTTA
*
2670 TTTTTATTTTTTTTTTTTTA-TT-TT--CTTT-
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
*
2698 TTTTTATCTTATTTTACTATTTT-TTTA-TATATTTTA
1 TTTTTAT-TT-TTTTA-T-TTTTATTTATTA-ACTTTA
* * *
2734 TTATT-TTTTTTTCTTTTTATTT-TT--TTTTA
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
*
2763 TTTTATAATTTTTTTATTTATTTTTTATT-A-TTT-
1 TTTT-T-ATTTTTTTATTT-TTATTTATTAACTTTA
* *
2796 TTTTTATTTTTTTATTTTTATTT-TTTATTTTA
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
** **
2828 AATTTATTTTTTTTATTTTTATTT-TT-TTTTTA
1 TTTTTA-TTTTTTTATTTTTATTTATTAACTTTA
* *
2860 TTTTTATTTTATATTTTTTTTATTT-TTAATTTTA
1 TTTTTATTTT-T-TTATTTTTATTTATTAACTTTA
* *
2894 TTTTT-TTTATATTATTTATA-TTATTTAA-TTT-
1 TTTTTATTT-TTTTATTTTTATTTA-TTAACTTTA
**
2925 TTATATT-TTTTTTT-TTTTTATTTATT-TTTATTA
1 TT-T-TTATTTTTTTATTTTTATTTATTAACT-TTA
* ** *
2958 TTTTT-TTTTTTTATTTTTTTATTTTTTATTTTTTT
1 TTTTTATTTTTTTA--TTTTTATTTATTA-ACTTTA
** * * *
2993 TTTTTATTGTTTTCTCCTTTTATTTCTTGTA-ATTA
1 TTTTTATT-TTTT-TATTTTTATTTATT-AACTTTA
*
3028 -TTTTATTTTTTTATTTTTTCTTTATT---TTTA
1 TTTTTATTTTTTTA-TTTTTATTTATTAACTTTA
* * * *
3058 -TTTT-TTTTTTAATTCTTATTTCTTTA-TTT-
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
* *
3087 TTTATGTATTTTTTT-TTTTT-TTTTTTCA-TTTA
1 TTT-T-TATTTTTTTATTTTTATTTATTAACTTTA
* * * *
3119 TTTTTCTTTTTTTATTTTT-TATATTTA-TGT-
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
* *
3149 TTTATATTTTTTTTATTATTATTT-TT---TTTCA
1 TTTTTA-TTTTTTTATTTTTATTTATTAACTTT-A
* * * **
3180 TTTTTAATATTTTT-TCTGTATATTATTATTTTTA
1 TTTTT-ATTTTTTTATTTTTAT-TTATTAACTTTA
* ** *
3214 ATTTT-TTTTAATATTTTTATTT-TT---TTGA
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
* *
3242 TTTTTATATTTATTATTAATAATATTT-TTAA-TTTA
1 TTTTTAT-TTTTTTATT--T-TTATTTATTAACTTTA
3277 -TTTTATTTTTTT-TTTGTT-TTT-TTAA-TTT-
1 TTTTTATTTTTTTATTT-TTATTTATTAACTTTA
3305 TTTTCT-TTTTTTTATTTTT-TTT-TT--CTTT-
1 TTTT-TATTTTTTTATTTTTATTTATTAACTTTA
* * *
3333 TTTATATTATTTT-TCTTT-TTTA-TAA-TTTA
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
* *
3362 TATTTATTATTATTA-TTTT-TTTATTATA-TATT-
1 TTTTTATT-TTTTTATTTTTATTTATTA-ACT-TTA
* * *
3394 TTTTTTTTTTTTTATTTTTTTTTATCTTA-TTT-
1 TTTTTATTTTTTTATTTTTATTTAT-TAACTTTA
* *
3426 TTATTTATTTTTTTTATTTATGTTATATTAA-TTT-
1 TT-TTTA-TTTTTTTATTTTTATT-TATTAACTTTA
* *
3460 TTTTTTTTTTTTTA-TTTT-TTT-TTAA-TTTT
1 TTTTTATTTTTTTATTTTTATTTATTAACTTTA
*** *
3489 TTTATTATATTTAAAATTTATTTATTT-TTAATTTTTGA
1 TTT-TTAT-TTTTTTA-TT-TTTATTTATTAA-CTTT-A
** * *
3527 TTAGTATATTATTTATTTTAATTTATT--CTTTA
1 TTTTTAT-TTTTTTATTTTTATTTATTAACTTTA
* * * * *
3559 TTATTTGTTTTTTTTTTATCTTTTTTATTTCATTTTA
1 TT-TTTATTTTTTTATT-T-TTATTTA-TTAACTTTA
* * * * *
3596 TTTATATTTTTTT-TTTTATTTTTATTTTATTTTT
1 TTTTTATTTTTTTATTTT-TATTTA-TTAACTTTA
* **
3630 TCTTTTAATTTTTTTTTTTTTATTTATTATTTTTA
1 T-TTTT-ATTTTTTTATTTTTATTTATTAACTTTA
**
3665 TTTTT-TTTTTTTATTTTT-TATTATT-TTTTTA
1 TTTTTATTTTTTTATTTTTAT-TTATTAACTTTA
* *
3696 TTTTAATTTTTATT-TTTTTTTTTATT-ACTTTA
1 TTTTTATTTTT-TTATTTTTATTTATTAACTTTA
3728 TTTTATATTT
1 TTTT-TATTT
3738 AAAATTTTTT
Statistics
Matches: 1181, Mismatches: 182, Indels: 332
0.70 0.11 0.20
Matches are distributed among these distances:
27 18 0.02
28 57 0.05
29 90 0.08
30 91 0.08
31 153 0.13
32 195 0.17
33 187 0.16
34 162 0.14
35 103 0.09
36 64 0.05
37 29 0.02
38 12 0.01
39 7 0.01
40 13 0.01
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (33 bp):
TTTTTATTTTTTTATTTTTATTTATTAACTTTA
Found at i:2244 original size:43 final size:39
Alignment explanation
Indices: 2173--5994 Score: 461
Period size: 39 Copynumber: 96.6 Consensus size: 39
2163 ATTACCTTCA
* * * *
2173 TTTTTTTATTATATTTA-TTTTTAGTTTATTATCTCTTTCT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATT-TCTATTT-T
*
2213 TTTTTTTTTTATTTTTATTTTATTAACTTTATTTTTATTTT
1 TTTTTTTTTTATTTTTATTTT-TT-ACTTTATTTCTATTTT
* *
2254 TTTATTTTATTTATTTTTATTTTTT-TTGTTAATTTTTA-TTT
1 TTT-TTTT-TTTATTTTTATTTTTTACT-TT-ATTTCTATTTT
* * *
2295 ATTTTATTTTA-TCTTATTTTATTA--TTATTT-T-TTTT
1 TTTTTTTTTTATTTTTATTTT-TTACTTTATTTCTATTTT
* ** * *
2330 CTTTAATTTTA-ATTTATTTTTTTATTTTTATTT-TCA-TTT
1 TTTTTTTTTTATTTTTA-TTTTTTA-CTTTATTTCT-ATTTT
* * *
2369 TTTTATTTTTATATTTTATTATTTA-TAT-TTTCT-TTTT
1 TTTTTTTTTTAT-TTTTATTTTTTACTTTATTTCTATTTT
*
2406 TTTTTTTTTTA--TTT-TTTTTTA-TTAATTT-T-TTTT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
* * * *
2439 TTATATTTTTATTTTTATCTTATTTTCTTTTATTTTATATTTAAT
1 TTTTTTTTTTATTTTTAT-TT-TTTAC-TTTA-TTTCTATTT--T
* *
2484 TTTTTATTTTTATTTATTATTTTTATTAATTATATTATATATTTT
1 TTTTT-TTTTTATTT-TTA-TTTT-TTACTT-TATT-TCTATTTT
* * * *
2529 TTTTTATATTTTTTTATTTATTATTTTTAATTT-TTTATAAATTT
1 TTTTT-T-TTTTATT-TTTA-T-TTTTTACTTTATTTCT-ATTTT
**
2573 TCATTTTTTTATTTTTATATTTTT-C-TTA-TT-TA-TTT
1 TTTTTTTTTTATTTTTAT-TTTTTACTTTATTTCTATTTT
* * * * *
2608 TTATATATTTATAATTT-TTTTTTAC--AATTTC---TTT
1 TTTTTTTTTTAT-TTTTATTTTTTACTTTATTTCTATTTT
* * *
2642 ATTTTTTTTTATTTTTATTTTTT-TTTTATTTTTA-TTT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
*
2679 TTTTTTTTTTATTTTCTTTTTTTTA-TCTTATTTTACTATTTT
1 TTTTTTTTTTATTTT-TATTTTTTACT-TTA-TTT-CTATTTT
* * * * * *
2721 TTTATATATT-TTATTATTTTTT--TTTCTTTTTATTTT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
* *
2757 TTTTTATTTTATAATTTTT-TTATTTA-TTT-TTTATTATTTTT
1 TTTTT-TTTT-T-ATTTTTATTTTTTACTTTATTT-CTA-TTTT
* *
2798 TTTATTTTTTTATTTTTATTTTTTATTTTAAATT-TATTTT
1 TTT-TTTTTTTATTTTTATTTTTTACTTT-ATTTCTATTTT
* *
2838 TTTTATTTTTA-TTTT-TTTTTTATTTTTATTT-TATATTT
1 TTTTTTTTTTATTTTTATTTTTTA-CTTTATTTCTAT-TTT
* *
2876 TTTTTATTTTTAATTTTATTTTTTTTA-TATTATTTATATTATT
1 TTTTT-TTTTT-ATTTT-TATTTTTTACT-TTATTTCTATT-TT
*
2919 TAATTTTTATATTT-TTTTT-TTTTTTA-TTTATTTTTATTATT
1 T--TTTTT-T-TTTATTTTTATTTTTTACTTTATTTCTATT-TT
* *
2960 TTTTTTTTTTATTTTTTTATTTTTTA-TTT-TTTTTTTTTAT
1 TTTTTTTTTTA--TTTTTATTTTTTACTTTATTTCTATTT-T
3000 TGTTTTCTCCTTTTATTTCTTGTAATTATTTTA-TTT-TTT-TATTTT
1 T-TTTT-T--TTTTA-TT-TT-T-ATT-TTTTACTTTATTTCTATTTT
* *
3045 TTCTTTATTTTTATTTTT-TTTTTAATTCTTATTTCTTTATTTT
1 TT-TTT-TTTTTATTTTTATTTTTTACT-TTATTTC--TATTTT
* * *
3088 TTATGTATTTTTT-TTTTT-TTTTTTTCATTTATTTTTCTTTT
1 TT-T-T-TTTTTTATTTTTATTTTTTAC-TTTATTTCTATTTT
* * *
3129 TTTATTTTTTATATTTATGTTTTATA-TTT-TTTTTATTATT
1 TTTTTTTTTTATTTTTAT-TTTT-TACTTTATTTCTATT-TT
* * * * * *
3169 ATTTTTTTTCATTTTTAATATTTTTTCTGTATAT-TATTAT
1 TTTTTTTTTTATTTTT-AT-TTTTTACTTTATTTCTATTTT
** *
3209 TTTTAATTTT-TTTTAATATTTTTA-TTT-TTT-TGATTTT
1 TTTTTTTTTTATTTTTAT-TTTTTACTTTATTTCT-ATTTT
* * * * * *
3246 TATATTTATTATTAATAATATTTTTAATTTATTT-TATTTT
1 TTTTTTTTTTATT-TTTAT-TTTTTACTTTATTTCTATTTT
* * * *
3286 TTTTTTGTTT-TTTTAATTTTTTTCTTT-TTTTTATTTT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
* * * * *
3323 TTTTTTCTTT-TTTATATTATTTTTCTTT-TTTATA-ATT
1 TTTTTTTTTTATTTTTATT-TTTTACTTTATTTCTATTTT
* * * * * *
3360 TATATTTATTATTATTATTTTTT--TATTATATAT-TTTT
1 TTTTTTTTTTATTTTTATTTTTTACT-TTATTTCTATTTT
* *
3397 TTTTTTTTTTATTTTT-TTTTAT-C-TTATTTTTATTTAT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTT-T
*
3434 TTTTTTTATTTATGTTATATTAATTTT--TTT-TTT-T-TTTT
1 TTTTTTT-TTTAT-TTTTATT--TTTTACTTTATTTCTATTTT
* *
3472 TATTTTTTTTTAATTTTT-TTATTATA-TTTAAAATT-TATTTAT
1 T-TTTTTTTTT-ATTTTTATT-TTTTACTTT--ATTTCTATTT-T
* * * * *
3514 TTTTAATTTTTGATTAGTATATTATTTATTTTAATT-TATTCTT
1 TTTT--TTTTTTATT--TTTATTTTTTACTTTATTTCTATT-TT
*
3557 TATTATTTGTTTTTTTTTTATCTTTTTTA-TTTCATTT-TATTTATAT
1 T-TT-TTT-TTTTATTTTTA--TTTTTTACTTT-ATTTCTA-TT-T-T
* * *
3603 TTTTTTTTTTATTTTTATTTTATT-TTTTCTTT-TAATTT
1 TTTTTTTTTTATTTTTATTTT-TTACTTTATTTCTATTTT
3641 TTTTTTTTTTATTTATTA-TTTTTA-TTT-TTT-T-TTTT
1 TTTTTTTTTTATTT-TTATTTTTTACTTTATTTCTATTTT
* *
3676 TATTTTTTATTATTTTT-TTATTTTA----ATTTTTATTTT
1 T-TTTTTTTTTATTTTTATT-TTTTACTTTATTTCTATTTT
* * * * *
3712 TTTTTTTATTA-CTTTATTTTATA-TTTAAAATTTTTTATCATT
1 TTTTTTTTTTATTTTTATTTTTTACTTT---A-TTTCTAT-TTT
* *
3754 TTTTTCTTTT-TTTTTATTTTATTACTTT-TTTAT-TTCCTT
1 TTTTTTTTTTATTTTTATTTT-TTACTTTATTTCTATT--TT
* * *
3793 TTTTCTTTCTTTATTATTATACTTTTTTA-TTTTTTTTTCTTTT
1 TTTT-TTT-TTTATT-TT-TA-TTTTTTACTTTATTTCTATTTT
* * * ** * * *
3836 TTCTTTTCTAATTTTT-TTTAGTATTTTTTATTC-ATCTTA
1 TTTTTTTTTTATTTTTATTTTTTACTTTAT-TTCTAT-TTT
* * * * *
3875 TGTTTATTATATATTTT-TTTTTTATTTTATATTTTTATTTAT
1 TTTTTTTTTTAT-TTTTATTTTTTA-CTT-TATTTCTATTT-T
* * * * * * * *
3917 TTATTTTATTATTTTTTTTTTATTATTCTTATGATCAATATA
1 TTTTTTTTTTATTTTTATTTT-TTACT-TTAT-TTCTATTTT
* * ** * * * *
3959 TATATCATTTATATTTT-TTTTCTATTTTAATTCATTTTTT
1 TTTTTTTTTTAT-TTTTATTTTTTACTTTATTTC-TATTTT
* *
3999 TTAATATTTTTTTATTTTAATTTTTT--TTTATTT-TTTTTT
1 TT--T-TTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
* *
4038 TTATATATTTTTTATTCTTAATTTTTTA-TTT-TTTATATTATT
1 TT-T-T-TTTTTTATT-TTTATTTTTTACTTTATTTCTATT-TT
* * **
4080 GTTATTTTTTATTTCTT-TCTTTGTTTTTTTA-TT-TATTTT
1 TTTTTTTTTTATTT-TTAT-TTT-TTACTTTATTTCTATTTT
* *
4119 TTATTATTATTATTTTTTGTTATTTTCATTA-TTCATTTCTACATTTT
1 TT-TT-TT-TT-TTATTT-TTATTTT--TTACTTTATTTCT--ATTTT
* * * *
4166 TTCTTATTGACTTGATTATTAAATTATTTT--TTT-TTTATATTTT
1 TT-TT-TT--TTTTATT-TT-TATT-TTTTACTTTATTTCTATTTT
* *
4209 TTTTATTTTTTATTTTTATCTTATTTTCTATATTAT-TA-TTT
1 TTTT-TTTTTTATTTTTAT-TT-TTTACTTTATT-TCTATTTT
*
4250 TCTTTTTTTTA-TTTTATTTAATTTA--TTATTT-T-TTTT
1 TTTTTTTTTTATTTTTATTT--TTTACTTTATTTCTATTTT
* * * *
4286 TTATTTTTTTATATATTT-TTTGTTA-TATATTTTTATTTT
1 TT-TTTTTTT-TATTTTTATTTTTTACTTTATTTCTATTTT
*
4325 TTTATTTATTTTAATTTTTTATTATTTT--TTTTTTTCTATATTT
1 TTT-TTT-TTTT-A-TTTTTATT-TTTTACTTTATTTCTAT-TTT
* * *
4368 TTGTTTTATAATTATTTTTA-TTTATA-ATT-TTT-TATTTT
1 TT-TTTT-T-TTTATTTTTATTTTTTACTTTATTTCTATTTT
* * *
4406 TTTTTTTTTTTTTTTTTTTTTTTA--TTATTAT-TAATTT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATT-TCTATTTT
* ** * * *
4443 TTTTTTTTATATATTGCATATTATATCTTTATTT-T-CTTT
1 TTTTTTTTTTAT-TTTTATTTTTTA-CTTTATTTCTATTTT
* * * *
4482 TTATTTTTTT-TTTTT-TTTTATA-ATTATTT-AATTTT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
* * *
4517 TTTTCTTTTTAATTTTA-TTTTAATCTTTA--TCTATTCTT
1 TTTTTTTTTTATTTTTATTTTTTA-CTTTATTTCTATT-TT
* * *
4555 TTCTAATTTTATTCTTTATATTTTTTA-TTATATTT-T-TTTAT
1 TT-T--TTTTTTTATTTTTATTTTTTACTT-TATTTCTATTT-T
* * *
4596 TATTATTTTTTATTTTTTATTATTTATTTTATTT-TATTATT
1 T-TTTTTTTTTA-TTTTTATTTTTTACTTTATTTCTATT-TT
* * * *
4637 TTCTATTTTTCTATTCACTTTATATTTTTTC-TTATTTATATATT
1 TT-T-TTTTTTTATT---TTTAT-TTTTTACTTTATTTCTATTTT
* * ** * * *
4681 TATTATCATTATCTTTTAATTCTTTA-TATTGTTTCTCTTTCT
1 TTTTTTTTTTAT-TTTT-ATTTTTTACT-TTATTTCTATTT-T
* * *
4723 TATTTCTTTTTA-TTTTATTCTATTATTA-TTTTTTTTTCATTTT
1 T-TTTTTTTTTATTTTTA-T-T-TT-TTACTTTATTTCT-ATTTT
* *
4766 ACTTTCTTTCTTA-TTTTATTTTATT--TTTATTT-T-TTTT
1 --TTTTTTTTTTATTTTTATTTT-TTACTTTATTTCTATTTT
*
4803 TTTTTTATTTT-TTTATTATCTTTTTA-TTTATTT-TATTAAT
1 TTTTTT-TTTTATTT-TTAT-TTTTTACTTTATTTCTATT-TT
* * *
4843 ATTTTTTTTAATTATTT-TTTTTTAATTT-TTT-T-TTTT
1 TTTTTTTTTTATT-TTTATTTTTTACTTTATTTCTATTTT
* * *
4879 TTCTCTCTTTTATTATTGTTT-TTCTTTA-TTT-TTTTTATATT
1 TT-T-T-TTTT-TTATT-TTTATTTTTTACTTTATTTCTATTTT
4920 TTTTTTTTTTA-TTTT-TTTTTT--TTTATTT-T-TTTT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
*
4953 TATTATTTTTTATTTTTATTTTATTACTGTT-TTT-TATTTT
1 T-TTTTTTTTTATTTTTATTTT-TTACT-TTATTTCTATTTT
*
4993 TTTTTTTTATT-TATTTCATTTTTT-C-TTATTT-TATTTT
1 TTTTTTTT-TTAT-TTTTATTTTTTACTTTATTTCTATTTT
* *
5030 TTTTATTTATTATTCTTT-TTTTTT--TTAATTT-TATTTAT
1 TTTT-TTTTTTATT-TTTATTTTTTACTTTATTTCTATTT-T
* * ****
5068 CATTTTAATATTT-TTTTTATTTTTTTGGATATTGTCTA--TT
1 --TTTT-TTTTTTATTTTTATTTTTTACTTTATT-TCTATTTT
* *
5108 ATATTTTTTTATTCTTTATTTTTTA--TTATTT-T-TTTT
1 TTTTTTTTTTATT-TTTATTTTTTACTTTATTTCTATTTT
* * *** *
5144 TATTTTTATTGAAGATAATTTCTTT--TTT-TTT-T-TTTT
1 T-TTTTTTTTTATTTTTATTT-TTTACTTTATTTCTATTTT
** *
5180 TTTTCTTTTTT-TAATTATATTTT-C-TT-TTT-T-TTTT
1 TTTT-TTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
* * ** *
5214 TTTTATATTTATATAATATTTTGTA-TTTATTAT-T-TTTT
1 TTTTTTTTTTAT-TTTTATTTTTTACTTTATT-TCTATTTT
* *
5252 TGTTTTTTTTTATTTTT-TTAATTTTAATTCATTAT-T-TTTT
1 T-TTTTTTTTTATTTTTATT--TTTTACTTTATT-TCTATTTT
* *
5292 TTTTTGTATTTTATTTTTTTATTTTTT-TTTTAGTTTATATTTTTT
1 TTTTT-T-TTTTA--TTTTTATTTTTTACTTTA-TTTCTA--TTTT
*
5337 TGTTTTTCTTTTATTTTTTATTTTTTA-TTTA-TTATATTATT
1 T-TTTTT-TTTTA-TTTTTATTTTTTACTTTATTTCTATT-TT
* *
5378 TATTTTATTTTT-TTTTTTTTTTTTATCTTT-TTT-TTTTTT
1 T-TTTT-TTTTTATTTTTATTTTTTA-CTTTATTTCTATTTT
* * *
5417 TTATTTTTTTTATTCTTA---TTTATTTTATTTTTATTTAT
1 TT-TTTTTTTTATTTTTATTTTTTACTTTATTTCTATTT-T
* *
5455 TTTTTTCTCTCATTTTT-TTTATTT--TTT-TTTCATTATTTT
1 TTTTTT-TTTTATTTTTATTT-TTTACTTTATTTC--TATTTT
* *
5494 TTTTTATTTTATTTTTTAATTTTT--TTTATTT-TATTTT
1 TTTTTTTTTTA-TTTTTATTTTTTACTTTATTTCTATTTT
* * *
5531 TTTTTGTTTAATTTTTATTTTATT-TTTGTATGTTTTCTTTATTTT
1 TTTTTTTTTTATTTTTATTTT-TTACTT-TA---TTTC--TATTTT
**
5576 TTATTTTTTTTATTTTT-GGTTTT-CTTT-TTTCTCATTTT
1 TT-TTTTTTTTATTTTTATTTTTTACTTTATTTCT-ATTTT
5614 TTTTATTTTTTATTTTT-TTTTTTAAACTTT-TTT-TATTTT
1 TTTT-TTTTTTATTTTTATTTTTT--ACTTTATTTCTATTTT
* * * *
5653 TCTTATATTTAATTTTTTACTTTTTCTATTTTA-TT-T-TTTT
1 T-TTTTTTTTTA-TTTTTA-TTTTT-TACTTTATTTCTATTTT
* * * * *
5693 TTTTTATTTTATTTTTTTTTTCTTATTATTAATTCTTTTTT
1 TTTTTTTTTTATTTTTATTTT-TTACT-TTATTTCTATTTT
* *
5734 ATTTTTTTATCATTATTTTT-TTTTTTTC-CT-TTTC-ATTTT
1 -TTTTTTT-T--TTATTTTTATTTTTTACTTTATTTCTATTTT
* * *
5773 TTTTGATTTTATAATTTTATTTATTTA-TTCATTT-T-TTTT
1 TTTT--TTTTTTATTTTTATTT-TTTACTTTATTTCTATTTT
*
5812 AATACTTTTTTATTTTTTATTTA-TTTTTA-TTTATTT-TATTATT
1 --T--TTTTTT-TTTATT-TTTATTTTTTACTTTATTTCTATT-TT
* * *
5855 TTATTTTTTTATATTTT-TTTTTTA-GTTATTTAT-TTTT
1 TTTTTTTTTTAT-TTTTATTTTTTACTTTATTTCTATTTT
* * *
5892 TTTTTTTTTTTTTTTTA-TTCTTA-TTT-TTT-TTTTTT
1 TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
* *
5927 TTTTTTTTTTAAATTTTT-TTTATTTA-TTTTTTTTTATTTT
1 TTTTTTTTTT--ATTTTTATTT-TTTACTTTATTTCTATTTT
5967 AATATTATTTTTATTATTTTTATTTTTT
1 --T-TT-TTTTT-TTATTTTTATTTTTT
5995 TTAATTGTTT
Statistics
Matches: 2887, Mismatches: 438, Indels: 911
0.68 0.10 0.22
Matches are distributed among these distances:
33 32 0.01
34 77 0.03
35 145 0.05
36 165 0.06
37 332 0.11
38 311 0.11
39 368 0.13
40 343 0.12
41 312 0.11
42 225 0.08
43 227 0.08
44 144 0.05
45 87 0.03
46 61 0.02
47 49 0.02
48 7 0.00
49 2 0.00
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (39 bp):
TTTTTTTTTTATTTTTATTTTTTACTTTATTTCTATTTT
Found at i:2271 original size:116 final size:110
Alignment explanation
Indices: 2146--5993 Score: 971
Period size: 112 Copynumber: 34.9 Consensus size: 110
2136 TACTCTTCTC
* * *
2146 ATTTTTTTTTATTTATTATTACCTTCATTTTTTTATTATATTTATTTTTAGTTTATTATCTCTTT
1 ATTTATTTTTATTTATTATT---TTCATTTTTTTATTTTATTTATTTTTATTTTATTAT-T-TTT
*
2211 CTTTTTTTTTTTATTTTTATTTTATTAACTTTATTTTTATTTTTTTATTTT
61 -TTTTTTTTTTTATTTTTATTTTATTATCTTTATTTTTATTTTTTTATTTT
* * *
2262 ATTTATTTTTATTT-TTTTTGTTAATTTTTATTTATTTTATTT-TATCTTATTTTATTATTATTT
1 ATTTATTTTTATTTATTATT-TTCA-TTTT-TTTATTTTATTTAT-TTTTATTTTATTATT-TTT
* * * *
2325 TTTTTCTTTAATTT-TAATTTATTTTTTTATTTTTATTTTCATTTTTTTATTTTT
61 TTTTT-TTT--TTTAT-TTTTATTTTATTATCTTTATTTTTATTTTTTTA-TTTT
* *
2379 ATATT-TTATTATTTA-TATTTTC-TTTTTTT-TTTTTTTTATTTTT-TTTTATTAATTTTTTTT
1 AT-TTATTTTTATTTATTATTTTCATTTTTTTATTTTATTTATTTTTATTTTATT-ATTTTTTTT
* * * *
2439 TTATATTTTTATTTTTATCTTATTTTCTTT-TATTTTA--TATTTAATTT
64 TT-T-TTTTTATTTTTATTTTATTATCTTTAT-TTTTATTTTTTTATTTT
* ** * *
2486 -TTTATTTTTATTTATTATTTTTA-TTAATTATATTATATATTTTT-TTTTA-TATTTTTTTATT
1 ATTTATTTTTATTTATTATTTTCATTTTTTTATTTTATTTATTTTTATTTTATTA-TTTTTT-TT
** * * *
2547 TATTATTTTTAATTTTT-TATAAATTTTCATT-TTTTTATTTTTATATTTT
64 T-TT-TTTTT-ATTTTTAT-TTTATTATCTTTATTTTTATTTTTTTATTTT
* ** * *
2596 -TCTTATTTATT-TTTATATATTTATAATTTTTTT-TTACAATTTCTTTATT-TTTTTTTATTTT
1 AT-TTATTT-TTATTTAT-TATTT-TCATTTTTTTATT-TTATTTATTT-TTATTTTATTATTTT
* * * * *
2657 TATTTTTTTTTTATTTTTATTTTTTTTTTTTTATTTTCT-TTTTTTTATCTT
60 TTTTTTTTTTTTATTTTTATTTTATTATCTTTATTTT-TATTTTTTTATTTT
* *
2708 ATTTTACTATTTT-TTTATATATTTT-ATTATTTTTTTTTCTTTTTATTTTT-TTTTATT-TTAT
1 A-TTTA-T-TTTTATTTAT-TATTTTCATT-TTTTTATTT-TATTTATTTTTATTTTATTATT-T
** * * * *
2769 AATTTTTTTATTTATTTTT-TATTATTTTTTTTATTTTT-TTATTTTTA-TTT
59 TTTTTTTTTTTTTATTTTTATTTTATTATCTTTATTTTTATT-TTTTTATTTT
* * * *
2819 -TTTATTTTAAATTTATTTTTTTTATTTTTATT-TTTTTTTTATTTTTATTTTA-TATTTTTTTT
1 ATTTATTTT-TATTTATTATTTTCATTTTT-TTATTTTATTTATTTTTATTTTATTA-TTTTTTT
*
2881 ATTTTTAATTTTATTTTT-TTTATATTAT-TTATATTATTTAATTTTTATATTTT
63 -TTTTT--TTTTATTTTTATTT-TATTATCTT-TATT-TTT-ATTTTTTTATTTT
* * * *
2934 TTTTTTTTTTATTTATT-TTTATTATTTTTTTTTTTTA-TT-TTTTTATTTT-TTATTTTTTTTT
1 ATTTATTTTTATTTATTATTT-TCATTTTTTTATTTTATTTATTTTTATTTTATTATTTTTTTTT
* **
2995 TTTATTGTT-TTCTCCTTTTATT-TCTTGTAATTATTTTATTTTTTTATTTTTT
65 TTT-TT-TTATTTTTATTTTATTATCTT-T-A-T-TTTTATTTTTTTA--TTTT
* * * *
3047 CTTTATTTTTATTT-TTTTTTTAATTCTTATTT-CTTTATTT-TTTATGTATTTT-TT-TTTTTT
1 ATTTATTTTTATTTATTATTTTCATT-TT-TTTATTTTATTTATTT-T-TATTTTATTATTTTTT
* * * * * *
3107 TTTTTTCATTTATTTTTCTTTTTTTATTTTTTATATTTATGTTTTATATTTT
62 TTTTTT-TTTTATTTTTATTTTATTA-TCTTTATTTTTAT-TTTTTTATTTT
* * * * * * *
3159 TTTTATTATTA-TT-TT-TTTTCA-TTTTTAATATT-TTT-TCTGTATATTATTATTTTTAATTT
1 ATTTATTTTTATTTATTATTTTCATTTTTTTATTTTATTTATTTTTATTTTATTATTTTT--TTT
** * * * *
3218 TTTTTAATATTTTTATTTTTTTGATTTTTATATTTATTATTAATAATATTTTT
64 TTTTTTTTATTTTTATTTTATT-ATCTTTATTTTTATT-TT--T-TTA-TTTT
** *
3271 AATTTA-TTTTATTT-TT-TTTTTGTTTTTTTAATTTT-TTT-CTTTT-TTTTA-T-TTTTTTTT
1 -ATTTATTTTTATTTATTATTTTCATTTTTTT-ATTTTATTTATTTTTATTTTATTATTTTTTTT
* * * * *
3328 TCTTTTTTA-TATTATTTT-TCT-TTTTTATAATTTATATTTATTATTATT
64 TTTTTTTTATTTTTATTTTAT-TATCTTTAT-TTTTAT-TTTTTTATT-TT
* * * *
3376 A-TT-TTTTTA-TTATATATTTT--TTTTTTT-TTTTATTTTTTTTTATCTTATT-TTTATTTAT
1 ATTTATTTTTATTTAT-TATTTTCATTTTTTTATTTTATTTATTTTTATTTTATTATTTTTTTTT
* * *
3434 TTTTTTTATTTATGTTATATTAAT-TTT-TTTTT-TTTTTTTATTTTT
65 TTTTTTTATTTTTATTTTATT-ATCTTTATTTTTATTTTTTTA-TTTT
* * * * *
3479 TTTTAATTTT-TTTATTATATTTAAAATTTATTTA-TTT-TTAATTTTTGATTAGTATATTATTT
1 ATTTATTTTTATTTATTAT-TTT--CATTTTTTTATTTTATTTATTTTT-ATT--T-TATTA-TT
* * *
3541 ATTTTAATTTATTCTTTATTATTTGTTTTTTTTTTATCTTTTTTATTTCATTTTATTTATATTT
58 -TTTT--TTT-TT-TTT-TTATTT-TTATTTTATTATCTTTATT-TTT-ATTTT-TTTAT-TTT
* * *
3605 -TTT-TTTTTATTT-TTATTTT-ATTTTTTCT-TTTAATTT-TTTTTTTTTTATTTATTATTTTT
1 ATTTATTTTTATTTATTATTTTCATTTTTT-TATTTTATTTATTTTTATTTTA-TTATTTTTTTT
* **
3664 ATTTTTTT-TTTTTATTTT-TTAT-TATT-TTTTTATTTTAAT-TTTT
64 TTTTTTTTATTTTTATTTTATTATCT-TTATTTTTATTTTTTTATTTT
* * * * *
3707 ATTT-TTTTT-TTTATTACTTT-A-TTTTATATTTAAAATTT-TTTATCATTTT-TT-TCTTTTT
1 ATTTATTTTTATTTATTATTTTCATTTTTTTATTT--TATTTATTT-TTATTTTATTATTTTTTT
* * * *
3765 TTTTATTTTATTACTT-TTTTATT-TCCTTTTTTCTTTCTTTATTATTATACTTT
63 TTTTTTTTTATT-TTTATTTTATTAT-CTTTATT-TTTATTT-TT-TTAT--TTT
* * * * * * *
3818 -TTTATTTTTTTTTCTT-TTTTC-TTTTCTAATTTTTTTTAGTATT-TTTTATTCATCTTATGTT
1 ATTTATTTTTATTTATTATTTTCATTTTTTTATTTTATTTATTTTTATTTTATT-AT-TT-T-TT
* *
3879 TATTATATATTTTT-TTTTTATTTTA-TATTTTTATTTATTTATTTTATTATTTT
62 T-TT-T-T-TTTTTATTTTTATTTTATTATCTTTA-TT-TTTATTTTTTTATTTT
* ** * * *
3932 -TTT-TTTATTA-TTCTTATGATCAATATATATATCATTTATATTTTTTTTCTATTTTA--ATTC
1 ATTTATTT-TTATTTATTATTTTC-AT-T-T-TTTTATTT-TATTTATTTT-TATTTTATTATT-
** *
3992 ATTTTTTTTAATATT-TTTTTATTTTA--AT-TTT-TTTTTATTTTTTT-TTTT
58 -TTTTTTTTTTTTTTATTTTTATTTTATTATCTTTATTTTTATTTTTTTATTTT
* * * * *
4040 A--TATATTT-TTTATTC--TTAATTTTTTATTTTTTATATTATTGTTATTTT-TTATTTCTTTC
1 ATTTATTTTTATTTATTATTTTCATTTTTT-TATTTTAT-TTATTTTTATTTTATTATTT-TTT-
4099 TTTGTTTTTTTATTTATT-TTTTATTAT-TATTATTTTT-TGTTATTTTCA--TT
62 TTT-TTTTTTTATTT-TTATTTTATTATCT-TTATTTTTAT-TT-TTTT-ATTTT
* * * * * * ** * * *
4149 ATTCATTTCTACATTTTTTCTTATTGACTTGATTA-TTAAATTATTTTTTTTTTA-TA-TTTTTT
1 ATTTATTT-T-TATTTATTATT-TTCATTTTTTTATTTTATTTATTTTTATTTTATTATTTTTTT
* * * * * *
4211 TTATTTTTTATTTTTATCTTATTTTCTATATTATTATTTTCTTTTTTTT
63 TTTTTTTTTATTTTTATTTTATTATCTTTATTTTTATTTT-TTTATTTT
* * * * *
4260 ATTT-TATTTAATTTATTATTTT-TTTTTTATTTTTTTATATATTTTT-TGTTATATATTTTTAT
1 ATTTAT-TTTTATTTATTATTTTCATTTTT-TTATTTTATTTATTTTTATTTTAT-TATTTTT-T
* * * * * *
4322 TTTTTTATTTATTTTAATTTTTTATTATTTTTTTTTTTCTATATTTTTGTTTT
62 TTTTTTTTTTATTTT--TATTTTATTA-TCTTTATTTT-TATTTTTTTATTTT
* * * * * *
4375 ATAATTATTTTTATTTATAATTTTTTATTTTTTTTTTTTTTTTTTTTTTTTTTTATTATTATTAA
1 AT--TTATTTTTATTTATTA-TTTTCATTTTTTTATTTTATTTATTTTTATTTTATTATT-TT--
** *
4440 TTTTTTTTTTTATATATTGCATATTA-TATCTTTATTTTCT-TTTTATTT-TTTT
60 TTTTTTTTTTT-TAT-TTTTATTTTATTATCTTTATTTT-TATTTT-TTTATTTT
* * * * * * * * *
4492 -TTTTTTTTTA-TAATTA-TTTAATTTTTTT-TCTT-TTTAATTTTATTTTAATCTTTATCTATT
1 ATTTATTTTTATTTATTATTTTCATTTTTTTATTTTATTTATTTTTATTTTATTATTT-TTTTTT
* * * * * *
4552 CTTTTCTAATTTTATTCT-TTATATTT-TTTATTATATTTTTT-TATT
65 TTTTTTTATTTTTATTTTATTATCTTTATTT-TTAT-TTTTTTATTTT
*
4597 A-TTATTTTTTATTT-TT-TATT-ATTTATTTTATTTTA-TTATTTTCTATTTT-TCTATTCACT
1 ATTTA-TTTTTATTTATTATTTTCATTT-TTTTATTTTATTTATTTT-TATTTTAT-TATT---T
* * * * * * *
4656 TTATATTTTTTCTTATTTATATATTTATTATCATTATCTTTTAATTCTTTATATT
59 TT-TTTTTTTTTTTATTTTTAT-TTTATTATCTTTAT-TTTTATTTTTTTATTTT
* * * * * * *
4711 GTTTCTCTTT-CTTATTTCTTTTTATTTTATTCTATTATTATTTTTTTTTCATTTTACTT-TCTT
1 ATTTATTTTTATTTA-TTATTTTCATTTT-TT-TATT-TTATTTATTTTT-ATTTTA-TTAT-TT
* *
4774 TCTTATTTTATTTTATTTTTA-TTT-TT-T-TTT-TTTTTATTTTTTTA--TT
59 T-TTTTTTTTTTTTATTTTTATTTTATTATCTTTATTTTTATTTTTTTATTTT
* * * * *
4820 A--TCTTTTTATTTATT-TTATT-AATATTTT-TTTTAATTATTTTT-TTTTAATTTTTTTTTTT
1 ATTTATTTTTATTTATTATT-TTCATTTTTTTATTTTATTTATTTTTATTTT-ATTATTTTTTTT
* *
4879 TTCTCTCTTTTATTATTGT-TTTTCTTTAT-TTT-TTTTATATTTTTTTTTTTT
64 TT-T-T-TTTTATT-TT-TATTTT-ATTATCTTTATTTT-TATTTTTTTATTTT
*
4930 ATTT-TTTTT-TTT-TTATTTT--TTTTTATTA-TTT-TTTATTTTTATTTTATTACTGTTTTTT
1 ATTTATTTTTATTTATTATTTTCATTTTT-TTATTTTATTTATTTTTATTTTATTA-TTTTTTTT
* *
4988 ATTTTTTT-TTTTTA-TTTATT-TC---A---TT-TTTTCTTATTTT
64 TTTTTTTTATTTTTATTTTATTATCTTTATTTTTATTTTTTTATTTT
* *
5025 ATTT-TTTTTATTTATTA--TTC-TTTTTTT-TTTTAATTTTATTTATCATTTTAATATTTTTTT
1 ATTTATTTTTATTTATTATTTTCATTTTTTTATTTT-A-TTTATTT-TTATTTTATTATTTTTTT
* * *
5085 TATTTTTTTGGATATTGTCTATTATATT-TTTTTATTCTTTATTTTTTATTATTTTT
63 T-TTTTTTT---TATT-TTTATTTTATTATCTTTATT-TTTA-TTTTT-TTA-TTTT
* * * * * * *
5141 TTTTATTTTTATTGAAGATAATTTC-TTTTTTT-TTTT-TTTTTTTCTTTTTTTAATTATATTTT
1 ATTTATTTTTATT-TA-TTATTTTCATTTTTTTATTTTATTTATTT-TTATTTT-ATTATTTTTT
* ** *
5203 CTTTTTTTTT-TTTTTATATTTA-TAT-AATATTTTGTA-TTTATTATTTT
62 TTTTTTTTTTATTTTTAT-TTTATTATCTTTATTTT-TATTTTTTTATTTT
* * * * * * * *
5250 -TTTGTTTTTTTTTATTTTTTTAATTTTAATTCATTATTTTTTTTTTTGTATTTTATT-TTTTTA
1 ATTTATTTTTATTTATTATTTTCATTTT--TTTATT-TTATTTATTTT-TATTTTATTATTTTTT
* * *
5313 TTTTTTTTTTAGTTTATATTTT-TT-TGTTTTTCTTTTA-TTTTTTA-TTT
62 TTTTTTTTTTA-TTTTTATTTTATTATCTTTAT-TTTTATTTTTTTATTTT
* *
5360 -TTTATTTATTATATTATTTATTTT-ATTTTTTT-TTTT-TTT-TTTATCTTTT-TT-TTTTTTT
1 ATTTATTT-TTAT-TTA-TTATTTTCATTTTTTTATTTTATTTATTTTTATTTTATTATTTTTTT
* * * * * *
5418 TATTTTTTTTATTCTTATTTATTTTAT-TTT-TATTTATTTTTTTCTCTC
63 T-TTTTTTTTATTTTTATTT-TATTATCTTTATTTTTATTTTTTTATTTT
*
5466 ATTT-TTTTTATTT-TT-TTTTCATTATTTTT-TTTTATTTTATTTTTTAATTTTTTTTATTTTA
1 ATTTATTTTTATTTATTATTTTCATT-TTTTTATTTTA-TTTA-TTTTT-A-TTTTATTATTTT-
* *
5527 TTTTTTTTTGTTTAATTTTTATTTTATT-T-TTGTATGTTTT-CTTTATT-TTTT
60 TTTTTTTTT-TTT-ATTTTTATTTTATTATCTT-TAT-TTTTATTTTTTTATTTT
* * *
5578 ATTT-TTTTTATTT-TTGGTTTTC-TTTTTTCTCATTTTTTTTATTTTTTATTTT-TT-TTTTTA
1 ATTTATTTTTATTTATT-ATTTTCATTTTTT-T-ATTTTATTTA-TTTTTATTTTATTATTTTTT
*** * * *
5638 AACTTTTTTTA-TTTT-TCTTA-TAT-TTAATTTTTTACTTTTTCTATTTT
62 TTTTTTTTTTATTTTTATTTTATTATCTTTA-TTTTTA-TTTTTTTATTTT
* * *
5685 ATTT-TTTTTTTTTATTTTATTTT-TTTTTTCTTATTATTAATTCT-TTTTTATTTTTTTATCAT
1 ATTTATTTTTATTTA--TTATTTTCATTTTT-TTATT-TT-ATT-TATTTTTATTTTATTAT--T
** * *
5747 TATTTTTTTTTTTTCCTTTTCA-TTT-TT-T-TTGATTTTATAATTTTATTTA-TTT
58 T-TTTTTTTTTTTTTATTTTTATTTTATTATCTTTATTTT-T-ATTTT-TTTATTTT
* * * *
5799 ATTCATTTTT-TTTAATACTTTT-TTATTTTTTA-TTTATTT-TTATTTATTTTATTA--TTTTA
1 ATTTATTTTTATTTATTA-TTTTCAT-TTTTTTATTTTATTTATT-TTTATTTTATTATTTTTTT
* * *
5858 TTTTTTTATATTTTTTTTTTAGTTA--TTTATTTTT-TTTTTTTTTTTT
63 TTTTTTTTTATTTTTATTTTA-TTATCTTTATTTTTATTTTTTTATTTT
* * * * *
5904 TTTTATTCTTATTT-TT-TTTT--TTTTTTT-TTTT-TTAAATTTT-TTTTATT-TATTTTTTTT
1 ATTTATTTTTATTTATTATTTTCATTTTTTTATTTTATTTATTTTTATTTTATTATTTTTTTTTT
* * * *
5961 TATTTTAATATTATTTTTATTATTTTTATTTTT
66 TTTTTTATTTTTA-TTTTATTATCTTTATTTTT
5994 TTTAATTGTT
Statistics
Matches: 2842, Mismatches: 451, Indels: 892
0.68 0.11 0.21
Matches are distributed among these distances:
95 26 0.01
96 9 0.00
97 4 0.00
98 14 0.00
99 27 0.01
100 34 0.01
101 41 0.01
102 80 0.03
103 80 0.03
104 86 0.03
105 161 0.06
106 93 0.03
107 145 0.05
108 200 0.07
109 199 0.07
110 171 0.06
111 205 0.07
112 238 0.08
113 195 0.07
114 226 0.08
115 154 0.05
116 96 0.03
117 76 0.03
118 106 0.04
119 46 0.02
120 48 0.02
121 38 0.01
122 12 0.00
123 6 0.00
124 8 0.00
125 11 0.00
126 7 0.00
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (110 bp):
ATTTATTTTTATTTATTATTTTCATTTTTTTATTTTATTTATTTTTATTTTATTATTTTTTTTTT
TTTTTTATTTTTATTTTATTATCTTTATTTTTATTTTTTTATTTT
Found at i:2647 original size:1 final size:1
Alignment explanation
Indices: 2643--3138 Score: 164
Period size: 1 Copynumber: 496.0 Consensus size: 1
2633 AATTTCTTTA
* * * * * * * *
2643 TTTTTTTTTATTTTTATTTTTTTTTTATTTTTATTTTTTTTTTTTTATTTTCTTTTTTTTATCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** * * * * * * * * * * **
2708 ATTTTACTATTTTTTTATATATTTTATTATTTTTTTTTCTTTTTATTTTTTTTTATTTTATAATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * *** *
2773 TTTTTATTTATTTTTTATTATTTTTTTTATTTTTTTATTTTTATTTTTTATTTTAAATTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * ** * *
2838 TTTTATTTTTATTTTTTTTTTATTTTTATTTTATATTTTTTTTATTTTTAATTTTATTTTTTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * ** * * * * * *
2903 TATTATTTATATTATTTAATTTTTATATTTTTTTTTTTTTTATTTATTTTTATTATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * ** * * * ** * *
2968 TTATTTTTTTATTTTTTATTTTTTTTTTTTATTGTTTTCTCCTTTTATTTCTTGTAATTATTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * ** * * * * * * *
3033 TTTTTTTATTTTTTCTTTATTTTTATTTTTTTTTTAATTCTTATTTCTTTATTTTTTATGTATTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * *
3098 TTTTTTTTTTTTTTTCATTTATTTTTCTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3139 ATATTTATGT
Statistics
Matches: 329, Mismatches: 166, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 329 1.00
ACGTcount: A:0.15, C:0.03, G:0.01, T:0.81
Consensus pattern (1 bp):
T
Found at i:3491 original size:1 final size:1
Alignment explanation
Indices: 3277--3482 Score: 70
Period size: 1 Copynumber: 206.0 Consensus size: 1
3267 TTTTAATTTA
* * ** * * * * * *
3277 TTTTATTTTTTTTTTGTTTTTTTAATTTTTTTCTTTTTTTTATTTTTTTTTTCTTTTTTATATTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** * * * * * * * * * *
3342 TTTTTCTTTTTTATAATTTATATTTATTATTATTATTTTTTTATTATATATTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * * **
3407 ATTTTTTTTTATCTTATTTTTATTTATTTTTTTTATTTATGTTATATTAATTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
3472 TATTTTTTTTT
1 TTTTTTTTTTT
3483 AATTTTTTTA
Statistics
Matches: 135, Mismatches: 70, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 135 1.00
ACGTcount: A:0.16, C:0.02, G:0.01, T:0.82
Consensus pattern (1 bp):
T
Found at i:3608 original size:1 final size:1
Alignment explanation
Indices: 3602--3718 Score: 81
Period size: 1 Copynumber: 117.0 Consensus size: 1
3592 TTTATTTATA
* * * * ** * * * *
3602 TTTTTTTTTTTATTTTTATTTTATTTTTTCTTTTAATTTTTTTTTTTTTATTTATTATTTTTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * ** *
3667 TTTTTTTTTTATTTTTTATTATTTTTTTATTTTAATTTTTATTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3719 ATTACTTTAT
Statistics
Matches: 86, Mismatches: 30, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 86 1.00
ACGTcount: A:0.14, C:0.01, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:3829 original size:34 final size:34
Alignment explanation
Indices: 3607--3842 Score: 120
Period size: 31 Copynumber: 6.9 Consensus size: 34
3597 TTATATTTTT
* *
3607 TTTTTTATTTTTATTTTATTT-TTTCTTTTAATT--
1 TTTTTTATTTTT-TTTTCTTTCTTTATTTT-ATTAC
* * *
3640 TTTTTT-TTTTTATTTATTATTTTTATTTT-TT--
1 TTTTTTATTTTTTTTTCTT-TCTTTATTTTATTAC
* * *
3671 TTTTTTATTTTTTATTATTTTTTTATTTTA--A-
1 TTTTTTATTTTTTTTTCTTTCTTTATTTTATTAC
* *
3702 -TTTTTATTTTTTTTTTTATTACTTTATTTTATATTTAAAA
1 TTTTTTATTTTTTTTTCT-TT-CTTTA-TTT-TA-TT--AC
* *
3742 TTTTTTATCATTTTTTTCTTTTTTTTTATTTTATTAC
1 TTTTTTAT--TTTTTTT-TCTTTCTTTATTTTATTAC
3779 TTTTTTATTTCCTTTTTTCTTTCTTTATTATTA-TAC
1 TTTTTTATTT--TTTTTTCTTTCTTTATT-TTATTAC
*
3815 TTTTTTATTTTTTTTTCTTT-TTTCTTTT
1 TTTTTTATTTTTTTTTCTTTCTTTATTTT
3843 CTAATTTTTT
Statistics
Matches: 169, Mismatches: 12, Indels: 45
0.75 0.05 0.20
Matches are distributed among these distances:
30 15 0.09
31 26 0.15
32 22 0.13
33 21 0.12
34 12 0.07
35 2 0.01
36 23 0.14
37 17 0.10
39 3 0.02
40 2 0.01
41 10 0.06
42 4 0.02
43 9 0.05
44 3 0.02
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (34 bp):
TTTTTTATTTTTTTTTCTTTCTTTATTTTATTAC
Found at i:4283 original size:74 final size:70
Alignment explanation
Indices: 2214--5996 Score: 903
Period size: 68 Copynumber: 53.7 Consensus size: 70
2204 TCTCTTTCTT
* *
2214 TTTTTTTTTA-TTTTTATTTTATTAACTTTATTTTTATTTTTTTATTTTATTTATTTTTATTTT-
1 TTTTTTTTTATTTTTTA-TTT-TT-A-TTTATTTTTATATTATTATTTT-TTT-TTTTTATTTTA
2277 TTT-TGTTA--A
60 TTTAT-TTATTA
* *
2286 TTTTTATTTA--TTTTA-TTTTATCTTA--TTT-TATTATTATTTTTTTTCTTTAATTTTAATTT
1 TTTTTTTTTATTTTTTATTTTTAT-TTATTTTTATATTATTATTTTTTTT-TTTTATTTT-ATTT
*
2345 ATTTTTTTA
63 A-TTTATTA
*
2354 TTTTTATTTTCATTTTTTTATTTTTATATTTTATTATTTATATT-TTCTTTTTTTTTTTT-TTTA
1 TTTTT-TTTT-A-TTTTTTA-TTTT-TA-TTTATT-TTTATATTATTATTTTTTTTTTTTATTT-
* *
2417 TTTTTTTTTATTAA
58 TATTTATTTATT-A
* **
2431 TTTTTTTTTTATATTTTTATTTTTATCTTATTTTCTTTTATT-TTATATTTAATTTTTTATTTTT
1 -TTTTTTTTTAT-TTTTTATTTTTAT-TTA-TTT-TTATATTATTAT-TTTTTTTTTTTA-TTTT
*
2495 ATTTA-TTATTT
59 ATTTATTTATTA
2506 TTATTAATTATATTATATATTTT-TTTTTATATT-TTTTTAT-TTATTATTTTTAATTTTTTATA
1 TT-TT--TT-T-TTAT-T-TTTTATTTTTAT-TTATTTTTATATTATTATTTTT--TTTTTT-T-
*
2568 AATTTTCATTTTTTTATT-
54 -ATTTT-ATTTATTTATTA
* * * * **** *
2586 TTTATATTTTTCTTATTTATTTTTATATATTTATA-ATT-TT-TTTTTACAATTT-CTTTATTT-
1 TTT-T-TTTTTATTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATTTA
*
2646 TTTTTTA
64 TTTATTA
*
2653 TTTTTATTTT-TTTTTTATTTTTATTT-TTTTT-T-TT-TTATTTTCTTTTTTTTATCTTA--T-
1 TTTTT-TTTTATTTTTTATTTTTATTTATTTTTATATTATTATTTT-TTTTTTTTATTTTATTTA
*
2710 TTTACTA
64 TTTATTA
* * * *
2717 TTTTTTTATATATTTTATTATTTTTTTTTCTTTTTATTTTTTTTTATTTTATAATTTTTTTA-TT
1 TTTTTTT-T-TATTTT-TTATTTTTATTTATTTTTA--TATTATTATTTT-T--TTTTTTTATTT
2781 TATTT-TTTATTA
58 TATTTATTTATTA
* * *
2793 -TTTTTTTTATTTTTTTATTTTTA--T-TTTTTATTTTA-AATTTATTTTTTTTATTTT-TATT-
1 TTTTTTTTTA-TTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTAT-TTA
2851 TTT-TT-
64 TTTATTA
* * *
2856 TTTATTTTTATTTTATATTTTT-TTTATTTTTA-ATT-TTATTTTTTTTATATTA-TTTATATTA
1 TTTTTTTTTATTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTT-TTTTATTTTAT-TTA
2917 TTTA--A
64 TTTATTA
*
2922 TTTTTATATTT-TTTTTT-TTTTTATTTA-TTTT-TATTATT-TTTTTTTTTTATTTTTTTATTT
1 TTTTT-T-TTTATTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTT-TTATTTTATTT
*
2982 -TTTATTT
63 ATTTATTA
* * * * *
2989 TTTTTTTTTATTGTTTTCTCCTTTTATTT-CTTGTA-ATTATT-TTATTTTTTTATT-TTTTCTT
1 TTTTTTTTTATT-TTTTAT--TTTTATTTATTTTTATATTATTATT-TTTTTTTTTTATTTTATT
3050 TATTT-TTA
62 TATTTATTA
* * *
3058 TTTTTTTTTTAATTCTTA--TTTCTTTATTTTT-TATGTATT-TTTTTTTTTTTT-TTTTCATTT
1 -TTTTTTTTTATTTTTTATTTTTATTTATTTTTATAT-TATTATTTTTTTTTTTTATTTT-ATTT
*
3118 ATTT-TTCT
63 ATTTATT-A
* *
3126 TTTTTTATTTTTTATATTTATGTTTTATATTTTTTTTATTATTATT-TTTTTTCATTTTTAATAT
1 TTTTTT-TTTATT-T-TTTAT-TTTTAT-TTATTTTTA-TATTATTATTTTTT--TTTTT--TAT
*
3190 TTTTTCTGTATATTATTA
56 TTTAT-T-TAT-TTATTA
* * * * * * **
3208 TTTTTAATTTT-TTTTAATATTTTTATTT-TTTTGAT-TT-TTATATTTATTATTAATAATATTT
1 TTTTT--TTTTATTTT-TTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATTT
*
3269 -TTAATTTA
63 ATTTA-TTA
* * *
3277 TTTTATTTTT-TTTTTGTTTTTTTAATTT-TTTTCT-TTTTTTTATTTTTTTTTTCTT-TTTTAT
1 TTTT-TTTTTATTTTT-TATTTTT-ATTTATTTT-TATATTATTATTTTTTTTTT-TTATTTTAT
3338 ATTATTT-TT-
61 -TTATTTATTA
* * * * *
3347 CTTTTTTATAATTTATATTTATTATTATTATTTTTTTATTA-TATATTTTTTTTTTT-TTTTATT
1 TTTTTTTTTATTTTTTATTT-TTA-T-TTATTTTTATATTATTAT-TTTTTTTTTTTATTTTATT
*
3410 T-TTTTTTA
62 TATTTATTA
* *
3418 TCTTATTTTTATTTATTT-TTTTTATTTA-TGTTATATTA--ATTTTTTTTTTTT-TTTTATTT-
1 T-TTTTTTTTATTT-TTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATTTA
*
3477 TTTTTTAA
64 TTTATT-A
* * ** * * * *
3485 TTTTTTTATTATATTTAAAATTTATTTATTTTTA-ATTTTTGATTAGTATATTATTTATTTTAAT
1 TTTTTTT-TTATTTTTTATTTTTATTTATTTTTATATTATT-ATT--TTTTTTTTTTATTTT-AT
3549 TTATTCT-TTA
61 TTATT-TATTA
* * * *
3559 TTATTTGTTTT-TTTTTTATCTTT-TTTA-TTTCATTTTATTTATATTTTTTTTTTTATTTT-TA
1 TT-TTT-TTTTATTTTTTATTTTTATTTATTTTTATATTA-TTAT-TTTTTTTTTTTATTTTATT
3620 T-TTTATT-
62 TATTTATTA
* * *
3627 TTTTCTTTTAATTTTT-TTTTT-TTTATTTATTAT-TT-TTATTTTTTTTTTTTATTTTTTATTA
1 TTTTTTTTTATTTTTTATTTTTATTTATTT-TTATATTATTATTTTTTTTTTTTATTTTAT-TTA
*
3688 TTTTTTTA
64 -TTTATTA
* **
3696 TTTTAATTTTTATTTTTT-TTTTTATTACTTTATTTTATATTTAAAATTTTTTATCATTTTT-TT
1 TTTT--TTTTTATTTTTTATTTTTATT--TAT-TTTTATA-TTATTATTTTTT-T--TTTTTATT
*
3759 CTT-TTTTTTTATTTTA
57 -TTATTTATTTA--TTA
* * * * * *
3775 TTACTTTTTTATTTCCTTTTTTCTTTCTTTATTATTATACTT-TT-TTATTTTTTTTTCTTTT-T
1 TT-TTTTTTTATTT--TTTATT-TTTATTTATTTTTATA-TTATTATTTTTTTTTTTTATTTTAT
* *
3837 TCT-TTTCTAA
61 T-TATTTATTA
* * *
3847 TTTTTTTTAGTATTTTTTA--TTCATCTTATGTTTATTATATATTTTTTTTTTATTTTATATTTT
1 TTTTTTTT--TATTTTTTATTTTTAT-TTATTTTTA-TAT-TATTATTTTTTT-TTTT-TA-TTT
3910 TATTTATTTATTTTA
58 TATTTATTTA--TTA
* ** * * * * *
3925 TTATTTTTTT-TTTATTATTCTTATGATCAATATATATATCATTTATATTTTTTTTCTATTTTAA
1 TT-TTTTTTTATTTTTTATT-TT-T-ATTTATTTTTATATTA-TTATTTTTTTTTTTTATTTT-A
* *
3989 TTCATTTTTTTTAA
60 TT--TATTTATT-A
* * * * * * * *
4003 TATTTTTTTA-TTTTAATTTTTTTTTATTTTTTTTTTTATATATTTTTTATTCTTAATTT-TTTA
1 TTTTTTTTTATTTTTTATTTTTATTTA-TTTTTATATTAT-TATTTTTTTTTTTTATTTTATTTA
*
4066 TTTTTTA
64 TTTATTA
* * * * * *
4073 TATTATTGTTATTTTTTATTTCTTTCTTTGTTTTTTTA-T-TTATTTTTTATTATTATTATTTTT
1 T-TTTTTTTTATTTTTTA-TT-TTTATTTATTTTTATATTATTATTTTTT-TT-TT-TTATTTTA
4136 TGTTATTTTCATTA
60 T-TTA-TTT-ATTA
* ** * * * * * *
4150 TTCATTTCTACATTTTTTCTTATTGACTTGATTATTA-A--ATTATTTTTTTTTTATATTTTTTT
1 TT--TTTTTTTATTTTTTATT-TTTA-TTTATTTTTATATTATTATTTTTTTTTTTTATTTTATT
*
4212 TATTTTTTA
62 TATTTATTA
* * * **
4221 TTTTTATCTTATTTTCTATATTATTATTT-TCTTT-T-TT-TTATTTTATTTAATTTATTATT-T
1 TTTTT-TTTTATTTT-T-TATTTTTATTTATTTTTATATTATTATTTT-TTTTTTTTATT-TTAT
4281 TT-TTT-TTA
61 TTATTTATTA
* * * * * * *
4289 TTTTTTTATATATTTT-TTGTTATATA-TTTT-TATT-TT-TTTATTTATTTTAATTT-TTTA-T
1 TTTTTTTTTATTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATTTATT
*
4347 TATTT
66 TATTA
* * *
4352 TTTTTTTTCTATATTTTTGTTTTATAATTATTTTTAT-TTATAATTTTTTATTTTTT-TTTT-TT
1 TTTTTTTT-TAT-TTTTTATTTT-TATTTATTTTTATATTATTATTTTTT-TTTTTTATTTTATT
4414 T-TTT-TT-
62 TATTTATTA
*
4420 TTTTTTTTTATTATTATTAATTTTT-TTT-TTTATATATTGCA-TATTATATCTTTATTTTCT-T
1 TTTTTTTTTATT-TT-TT-ATTTTTATTTATTTTTATATT--ATTATT-T-T-TTT-TTTT-TAT
4481 TTTATTT-TTT-TT-
56 TTTATTTATTTATTA
* * ** * *
4493 TTTTTTTTATAATTATTTAATTTTT-TTTCTTTTTA-ATT-TTA-TTTTAATCTTTA-TCTATTC
1 TTTTTTTT-T-ATT-TTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATT-
* *
4553 T-TTTCTAA
62 TATTTATTA
* * *
4561 TTTTATTCTTTATATTTT-TTATTA--TATTTTTTTATTATTATTTTTTATTTTTTA--TTATTT
1 TTTT-TT-TTTATTTTTTATTTTTATTTATTTTTATATTATTATTTTTT-TTTTTTATTTTATTT
4621 ATTTTATT-
63 A-TTTATTA
* * * **
4629 TTATTATTTTCTATTTTTCTATTCACTTTATATTTTTTCTTAT-TTATATATTTATTATCATTAT
1 TT-TT-TTTT-TATTTTT-TATT---TTTAT-TTATTT-TTATATTAT-TATTTTTTTTTTTTAT
* *
4693 CTT-TTAATTCT-TTA
56 TTTATTTATT-TATTA
* * * * *
4707 TATTGTTTCTCTTTCTTATTTCTT-TTTA-TTTTAT-TCTATTATTATTTTTTTTTCATTTTACT
1 T-TTTTTTTTATTTTTTATTT-TTATTTATTTTTATAT-TATTATT-TTTTTTTTTTATTTTA-T
* *
4769 TTCTTTCTTA
61 TTATTTATTA
* * * * *
4779 TTTTATTTTA-TTTTTATTTTT-TTTTTTTTTATTTTTTTATTATCTTTTTATTTATTTTATTAA
1 TTTTTTTTTATTTTTTATTTTTATTTATTTTTATATTATTATT-T-TTTTTTTTTATTTTATT--
4842 TATTT-TT-
62 TATTTATTA
* * * * * * *
4849 TTTAATTATTTT-TTTTTAATTTTTTTTTTTTTCTCTCTTTTATTATTGTTTTTCTTTATTTT-T
1 TTT--TT-TTTTATTTTTTATTTTTATTTATTT-T-TATATTATTATTTTTTTTTTTTATTTTAT
* *
4912 TT-TATATTT
61 TTATTTATTA
* * *
4921 TTTTTTTTTA-TTTTT-TTTTT-TTTATTTTT-TTTTATTATTTTTTATTTTTATTTTATTACTG
1 TTTTTTTTTATTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATT--TA
*
4982 TTTTTTA
64 TTTATTA
* * *
4989 TTTTTTTTT-TTTATTTA-TTTCATTT-TTTCTTATTTTATT-TTTTTTATTTATTATTCTT-TT
1 TTTTTTTTTATTT-TTTATTTTTATTTATTT-TTATATTATTATTTTTT-TTTTTTATT-TTATT
*
5049 T-TTTTTTAA
62 TATTTATT-A
* * * * *
5058 TTTTATTTATCATTTTAATATTTTT-TTTATTTTTTTGGATATTGTCTATTATATTTTTTTATTC
1 TTTT-TTT-TTATTTT-TTATTTTTATTTA--TTTTT--ATATTAT-TATTTTTTTTTTTTA-T-
5122 TTTATTT-TTTATTA
56 TTTATTTATTTATTA
* * * * *
5136 TTTTTTTTTA-TTTTTATTGAAGATAATTTCTTTTT-T-TT-TT-TTTTTTTTCTTT-TTTTAAT
1 TTTTTTTTTATTTTTTATT----TTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATT
*
5195 TATATT-TTC
62 TAT-TTATTA
* *
5204 TTTTTTTTT-TTTTTATATTTATATAATATTTTGTAT-TTATTATTTTTTTGTTTTT-TTTTATT
1 TTTTTTTTTATTTTT-TATTTTTAT-TTATTTT-TATATTATTATTTTTTT-TTTTTATTTTATT
*
5266 T-TTT-TAA
62 TATTTATTA
** * *
5273 TTTTAATTCATTATTTT-TTTTT-TTGTA-TTTTAT-TT-TT-TTATTTTTTTTTTAGTTTATAT
1 TTTTTTTTTATT-TTTTATTTTTATT-TATTTTTATATTATTATT-TTTTTTTTTTATTTTAT-T
*
5332 T-TTT-TTG
62 TATTTATTA
5339 TTTTTCTTTTATTTTTTATTTTTTATTTATTATATTAT-TTATT-TTATTTTTTTTTT-TTTT-T
1 TTTTT-TTTTATTTTTTA-TTTTTATTTATT-T-TTATATTATTATT-TTTTTTTTTTATTTTAT
*
5400 TTATCTT-TTT
61 TTAT-TTATTA
* * * * *
5410 TTTTTTTTTATTTTTTTTATTCTTATTTA-TTTTAT-TT-TTA-TTTATTTTTTTCTCTCATTT-
1 TTTTTTTTTA--TTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATTTA
5470 TTT-TTA
64 TTTATTA
*
5476 TTTTTTTTTCATTATTTT-TTTTTATTTTATTTTT-TA--A-T-TTTTTTTATTTTATTTT-TTT
1 TTTTTTTTT-ATT-TTTTATTTTTA-TTTATTTTTATATTATTATTTTTTTTTTTTATTTTATTT
5534 -TTGT-TTAA
63 ATT-TATT-A
* * ** *
5542 TTTTTATTTTATTTTTGTATGTTTTCTTTATTTTT-TA-T-TT-TTTTTATTTTTGGTTTTCTTT
1 TTTTT-TTTTATTTTT-TAT-TTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATTT
* *
5603 -TTTCTCA
63 ATTTATTA
** * * * *
5610 -TTTTTTTTATTTTTTATTTTT-TTT-TTTAAACTTTTTTTATTTTTCTTATATTTAATTT-TTT
1 TTTTTTTTTATTTTTTATTTTTATTTATTTTTA-TATTATTATTTTT-TT-TTTTTATTTTATTT
*
5671 ACTTTTTCTA
63 A-TTTAT-TA
* * * * *
5681 TTTTATTTTTTTTTTTTA-TTTTATTT-TTTTTTTCTTATTATTAATTCTTTTTTATTTT-TTTA
1 TTTT-TTTTTATTTTTTATTTTTATTTATTTTTATATTATTATT-TTTTTTTTTTATTTTATTTA
*
5743 -TCATTA
64 TTTATTA
** * * * * * *
5749 --TTTTTTT-TTTTTCCTTTTCATTT-TTTTTGATTTTATAATTTTATTTATTTA-TTCATTT-T
1 TTTTTTTTTATTTTTTATTTTTATTTATTTTT-ATATTATTATTTTTTTTTTTTATTTTATTTAT
5808 TT-TTAA
65 TTATT-A
** *
5814 TACTTTTTTATTTTTTATTTATT-TTTATTTAT-T-TTATTATTTTATTTTTTTATATTTT-TTT
1 TTTTTTTTTATTTTTTATTT-TTATTTATTTTTATATTATTATTTT-TTTTTTT-TATTTTATTT
5875 -TTTAGTTA
63 ATTTA-TTA
* * *
5883 TTTATTTTTT-TTTTTT-TTTTTTTTTATTCTTAT-TT-TTTTTTTTTTTTTTT-TTTTAAATTT
1 TTT-TTTTTTATTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTT--ATTT
5943 -TTT-TTA
63 ATTTATTA
* * *
5949 --TTTATTT-TTTTTTATTTTAATATTATTTTTATTATTTTTATTTTTTTT
1 TTTTTTTTTATTTTTTATTTTTAT-TTATTTTTA-TATTATTATTTTTTTT
5997 AATTGTTTAA
Statistics
Matches: 2819, Mismatches: 441, Indels: 906
0.68 0.11 0.22
Matches are distributed among these distances:
62 11 0.00
63 60 0.02
64 150 0.05
65 175 0.06
66 245 0.09
67 214 0.08
68 259 0.09
69 212 0.08
70 218 0.08
71 214 0.08
72 168 0.06
73 144 0.05
74 124 0.04
75 120 0.04
76 120 0.04
77 123 0.04
78 86 0.03
79 94 0.03
80 46 0.02
81 16 0.01
82 14 0.00
83 5 0.00
84 1 0.00
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (70 bp):
TTTTTTTTTATTTTTTATTTTTATTTATTTTTATATTATTATTTTTTTTTTTTATTTTATTTATT
TATTA
Found at i:4448 original size:1 final size:1
Alignment explanation
Indices: 4395--4428 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
4385 TTATTTATAA
*
4395 TTTTTTATTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4429 ATTATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:5755 original size:582 final size:574
Alignment explanation
Indices: 4779--5997 Score: 1259
Period size: 582 Copynumber: 2.1 Consensus size: 574
4769 TTCTTTCTTA
*
4779 TTTTATTTTATTTTTATTTTTTTTTTTTTTATTTTTTTATTATCTTTTTATTTATTTTATTAATA
1 TTTTA-TTTATTTTTA-TTTTATTTTTTTTATTTTTTTATTATCTTTTTATTTATTTTATT-ATA
* * *
4844 TTTTTTTTAATTATTTTTTTTTAATTTTTTTTTTTTTCTCTCTTTTATTATTGTTTTTCTTTATT
63 TTTTTTTTAATTATTTTTTTTTAATTTATTTTTTTCTCTCTCTTTTATTATTGTTTTTCATTATT
* * * *
4909 TTTTTTATATTTTTTTTTTTTATTTTTTTTTTTTTATTTTTTTTTATTATTTTTTATTTTTATTT
128 TTTTTTATATTTTATTTTTTAATTTTTTTTATTTTATTTTTTTTTATTAATTTTTATTTTTATTT
*
4974 TATTACTGTTTTTTATTTTTTTTTTTTATTTATTTCATTTTTTCTTATTTTATTTTTTTTATTTA
193 TATTACTGTTTTTTATTTTTTATTTTTATTTATTT-ATTTTTTCTTATTTTATTTTTTTTATTTA
* * *
5039 TTATTCTTTTTTTTTTTAATTTTATTTATCATTTTAATATTTTTTTTATTTTTTTGGATATTGTC
257 TTATTCTTTTTTTTTTAAATTTTATTTATCATTTTAATATTTTTTTTATTTTTCT-GATATTATC
5104 TATTATATTTTTTTATTCTTTATTTTTTATTATTTTTTTTTATTTTTATTGAAGATAATTTC-TT
321 TATTATATTTTTTTATTCTTTATTTTTTATTATTTTTTTTTATTTTTATT--A-ATAATTTCATT
** * * * * *
5168 TTTTTTTTTTTTTTTTC-TTTTTTTAATTATAT-TTTCTTTTTTTTTTTTTTATATTTATATAAT
383 TTTTTTTTTTCCTTTTCATTTTTTTAATTATATAATT-TTATTTATTTATTCAT-TTTATATAAT
* *
5231 A-TTTTGTATTTATTATTT-TTTTGT-TTTTTTTTATTTTTTTAATTTTAATTCATTATTTTTTT
446 ACTTTTGTATTTATTATTTATTTT-TATTTATTTTATTATTTT-ATTTT--TTCA-TATTTTTTT
*
5293 TTTTG-TA-TT-TTATTTTTTTATTTTTTTTTTAGTT-TATATTTTTTTGTTTTTCTTTTATTTT
506 TTTAGTTATTTATTATTTTTTTATTTTTTTTTTA-TTCT-TATTTTTTT-TTTTT-TTTT-TTTT
*
5354 TT-ATTTTT
566 TTAAATTTT
* * *
5362 TATTTATTATATTATTTATTTTATTTTTTTT-TTTTTTT-TTATCTTTTTTTTTTTTTTATT-TT
1 T-TTTATT-TATT-TTTATTTTATTTTTTTTATTTTTTTATTATCTTTTTATTTATTTTATTATA
* * *
5424 TTTTATTCTTATTTATTTTATTTTT-ATTTATTTTTTTCTCTCAT-TTTTTTTATTTTTTTTTCA
63 TTTT-TT-TTAATTATTTT-TTTTTAATTTATTTTTTTCTCTC-TCTTTTATTA-TTGTTTTTCA
*
5487 TTATTTTTTTT-TATTTTATTTTTTAATTTTTTTTATTTTATTTTTTTTTGTTTAATTTTTA-TT
123 TTATTTTTTTTATATTTTATTTTTTAATTTTTTTTATTTTATTTTTTTTT-ATTAATTTTTATTT
*
5550 TTATTTT-TGTA-TGTTTTCTTTATTTTTTATTTTT-TTTATTT-TTGGTTTTCTTTTTTCTCAT
187 TTATTTTAT-TACTG-TTT-TTTATTTTTTATTTTTATTTATTTATT--TTTTCTTATTT-T-AT
* * *
5611 TTTTTTTATTTTTTA-T-TTTTTTTTTTAAACTTTT-TTTAT-TTTTCTTATATTTAATTTTTTA
245 TTTTTTTATTTATTATTCTTTTTTTTTTAAA-TTTTATTTATCATTT-TAATA-TT--TTTTTTA
* * * * * *
5672 CTTTTTCT-ATTTTATTTTTTTTTTTTATTTTATT-TTTTTTTTCTTATTATTAATTCTTTTTTA
305 -TTTTTCTGATATTATCTATTATATTT-TTTTATTCTTTATTTT-TTATTA-T--TT-TTTTTTA
* * *
5735 TTTTT-TT-ATCA-TT-ATTTTTTTTTTTTCCTTTTCATTTTTTTTGATTTTATAATTTTATTTA
363 TTTTTATTAATAATTTCATTTTTTTTTTTTCCTTTTCA-TTTTTTTAATTATATAATTTTATTTA
* * * *
5796 TTTATTCATTTTTTTTAATACTTTTTTATTTTTTATTTATTTTTATTTATTTTATTATTTTATTT
427 TTTATTCATTTTATATAATACTTTTGTATTTATTATTTATTTTTATTTATTTTATTATTTTATTT
* * *
5861 TTTTATATTTTTTTTTTAGTTATTTATTTTTTTTTTTTTTTTTTTTTATTCTTATTTTTTTTTTT
492 TTTCATATTTTTTTTTTAGTTATTTATTATTTTTTTATTTTTTTTTTATTCTTATTTTTTTTTTT
5926 TTTTTTTTTTTAAATTTT
557 TTTTTTTTTTTAAATTTT
** *
5944 TTTTATTTATTTTT-TTTTA-TTTTAATATTATTTTTATTA--TTTTTATTTTTTTTA
1 TTTTATTTATTTTTATTTTATTTTTTTTATT-TTTTTATTATCTTTTTATTTATTTTA
5998 ATTGTTTAAG
Statistics
Matches: 540, Mismatches: 53, Indels: 91
0.79 0.08 0.13
Matches are distributed among these distances:
577 5 0.01
578 21 0.04
579 8 0.01
580 14 0.03
581 20 0.04
582 162 0.30
583 96 0.18
584 80 0.15
585 91 0.17
586 27 0.05
588 4 0.01
589 12 0.02
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (574 bp):
TTTTATTTATTTTTATTTTATTTTTTTTATTTTTTTATTATCTTTTTATTTATTTTATTATATTT
TTTTTAATTATTTTTTTTTAATTTATTTTTTTCTCTCTCTTTTATTATTGTTTTTCATTATTTTT
TTTATATTTTATTTTTTAATTTTTTTTATTTTATTTTTTTTTATTAATTTTTATTTTTATTTTAT
TACTGTTTTTTATTTTTTATTTTTATTTATTTATTTTTTCTTATTTTATTTTTTTTATTTATTAT
TCTTTTTTTTTTAAATTTTATTTATCATTTTAATATTTTTTTTATTTTTCTGATATTATCTATTA
TATTTTTTTATTCTTTATTTTTTATTATTTTTTTTTATTTTTATTAATAATTTCATTTTTTTTTT
TTCCTTTTCATTTTTTTAATTATATAATTTTATTTATTTATTCATTTTATATAATACTTTTGTAT
TTATTATTTATTTTTATTTATTTTATTATTTTATTTTTTCATATTTTTTTTTTAGTTATTTATTA
TTTTTTTATTTTTTTTTTATTCTTATTTTTTTTTTTTTTTTTTTTTTAAATTTT
Found at i:7225 original size:13 final size:13
Alignment explanation
Indices: 7207--7234 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7197 TTTGAATTTG
7207 TTGCCTAAAAGAT
1 TTGCCTAAAAGAT
7220 TTGCCTAAAAGAT
1 TTGCCTAAAAGAT
7233 TT
1 TT
7235 ATCAAGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (13 bp):
TTGCCTAAAAGAT
Found at i:13448 original size:26 final size:24
Alignment explanation
Indices: 13398--13450 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 24
13388 CGTTGTTGTT
*
13398 AAAAAAAACAACGAAATTGACCAA
1 AAAAAAAACAACGAAATGGACCAA
13422 AAAAAAAATCAAGCGGAAATGGA-CAA
1 AAAAAAAA-CAA-C-GAAATGGACCAA
13448 AAA
1 AAA
13451 GGACATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 3 0.12
26 7 0.28
27 7 0.28
ACGTcount: A:0.66, C:0.13, G:0.13, T:0.08
Consensus pattern (24 bp):
AAAAAAAACAACGAAATGGACCAA
Found at i:14615 original size:45 final size:43
Alignment explanation
Indices: 14536--14623 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 43
14526 CAATATTATG
*
14536 ATTTTAACTAAAGTTTAATTTTTTTATAATAATTTTTAATAAA
1 ATTTTAACTAAAATTTAATTTTTTTATAATAATTTTTAATAAA
*
14579 ATTTTAATTAAAATTTAATTTATTTTTATAATAATTTTTAATAAA
1 ATTTTAACTAAAATTTAA-TT-TTTTTATAATAATTTTTAATAAA
14624 TATATTTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 16 0.39
44 2 0.05
45 23 0.56
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (43 bp):
ATTTTAACTAAAATTTAATTTTTTTATAATAATTTTTAATAAA
Found at i:23776 original size:58 final size:58
Alignment explanation
Indices: 23681--23798 Score: 173
Period size: 58 Copynumber: 2.0 Consensus size: 58
23671 GGTAAATCAT
* * * * *
23681 ATACTTTAATGCTCACATAGAGCTACTGTAGTCCACAACTTATGCGGAATTACTGCCA
1 ATACATTAATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCA
* *
23739 ATACATTAATGCTCACACAGAGCTACGGTAGCCCACAACTTATGTGGAATTGCTACCA
1 ATACATTAATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCA
23797 AT
1 AT
23799 CACTATATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (58 bp):
ATACATTAATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCA
Found at i:24701 original size:4 final size:4
Alignment explanation
Indices: 24692--24716 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
24682 CCTTTTTCTT
24692 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
24717 CTCCTGTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:24768 original size:8 final size:8
Alignment explanation
Indices: 24750--24830 Score: 69
Period size: 8 Copynumber: 9.9 Consensus size: 8
24740 TGTTTCTTAT
24750 TATATATAA
1 TATA-ATAA
24759 TATAATAA
1 TATAATAA
24767 TATAATAA
1 TATAATAA
24775 TATAATAA
1 TATAATAA
24783 TATAAATTAA
1 TAT-AA-TAA
* *
24793 TATATTAC
1 TATAATAA
*
24801 T-TAATTA
1 TATAATAA
24808 T-TAAGTTAA
1 TATAA--TAA
24817 TATAAT-A
1 TATAATAA
24824 TATAATA
1 TATAATA
24831 TATTTTTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
7 14 0.23
8 27 0.45
9 10 0.17
10 9 0.15
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (8 bp):
TATAATAA
Found at i:26414 original size:22 final size:23
Alignment explanation
Indices: 26389--26434 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
26379 CAACCAATTC
26389 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
26411 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
26434 A
1 A
26435 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:26440 original size:23 final size:23
Alignment explanation
Indices: 26396--26440 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
26386 TTCAATTCAA
*
26396 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
26419 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
26441 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:30045 original size:33 final size:33
Alignment explanation
Indices: 30008--30073 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
29998 TCTGTCTGAG
30008 GATGAAATGCAGTGCTGAAATACAACTGAGTAC
1 GATGAAATGCAGTGCTGAAATACAACTGAGTAC
30041 GATGAAATGCAGTGCTGAAATACAACTGAGTAC
1 GATGAAATGCAGTGCTGAAATACAACTGAGTAC
30074 CCAAGGCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (33 bp):
GATGAAATGCAGTGCTGAAATACAACTGAGTAC
Found at i:34114 original size:22 final size:23
Alignment explanation
Indices: 34088--34133 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
34078 CAACCAATTC
34088 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
34110 AATTCATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
34133 A
1 A
34134 CGTCACCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:38106 original size:41 final size:38
Alignment explanation
Indices: 38006--38109 Score: 93
Period size: 41 Copynumber: 2.7 Consensus size: 38
37996 AGTTCAAAGC
* *
38006 AAAGTTGACACTCAGTGTCTCATCG-GCCTAGCCGAAGT
1 AAAG-TGACACCCAGTGTCTCATCGAACCTAGCCGAAGT
** ** * *
38044 AAAGTGATGCCCAGTACCTCATCGAATCTATCCGAAGT
1 AAAGTGACACCCAGTGTCTCATCGAACCTAGCCGAAGT
38082 AATAGAATGACACCCAGTGTCTCATCGA
1 AA-AG--TGACACCCAGTGTCTCATCGA
38110 CTCGAGGTCG
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
37 15 0.30
38 16 0.32
39 2 0.04
41 17 0.34
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (38 bp):
AAAGTGACACCCAGTGTCTCATCGAACCTAGCCGAAGT
Found at i:39722 original size:3 final size:3
Alignment explanation
Indices: 39714--39789 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
39704 TTAATTTATT
* * ** *
39714 TAA TAA TAA TAC TAA TAA TAA TAA T-C TAA T-A TAA -AA CCA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
39759 TAA TTAA TAA TTA TAA TAA TTA TATA TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TA
39790 TTTAAATATA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
2 5 0.09
3 44 0.80
4 6 0.11
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:41524 original size:50 final size:50
Alignment explanation
Indices: 41400--41648 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
41390 GATAATAACA
* * ** * *
41400 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
41451 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
41501 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
41551 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
41606 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
41649 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:41578 original size:100 final size:104
Alignment explanation
Indices: 41399--41648 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
41389 TGATAATAAC
**
41399 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
41464 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
41501 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
41564 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
41606 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
41649 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:41764 original size:13 final size:13
Alignment explanation
Indices: 41743--41774 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
41733 GCTTGGATCA
*
41743 TCATCAAATAAAT
1 TCATAAAATAAAT
41756 TCATAAAATAAAT
1 TCATAAAATAAAT
41769 TCATAA
1 TCATAA
41775 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:42021 original size:30 final size:30
Alignment explanation
Indices: 41986--42043 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
41976 CCTCGACTCT
*
41986 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
42016 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
42044 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:49094 original size:50 final size:50
Alignment explanation
Indices: 48970--49218 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
48960 GATAATAACA
* * ** * *
48970 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
49021 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
49071 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
49121 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
49176 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
49219 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:49148 original size:100 final size:104
Alignment explanation
Indices: 48969--49218 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
48959 TGATAATAAC
**
48969 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
49034 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
49071 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
49134 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
49176 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49219 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:51366 original size:27 final size:27
Alignment explanation
Indices: 51303--51479 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
51293 ATATTGAGTC
* * * *
51303 CGCACACTCAGTGCTATATAATC-ACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
51329 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51356 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
51384 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
51411 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
51438 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51465 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51480 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
26 20 0.16
27 85 0.66
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:51395 original size:55 final size:54
Alignment explanation
Indices: 51303--51479 Score: 205
Period size: 55 Copynumber: 3.3 Consensus size: 54
51293 ATATTGAGTC
* * * * *
51303 CGCACACTCAGTGCTATATAATC-ACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
51356 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
51411 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
51465 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51480 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 20 0.19
54 40 0.38
55 44 0.42
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:51422 original size:82 final size:81
Alignment explanation
Indices: 51328--51478 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
51318 ATATAATCAC
* *
51328 TCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACT
1 TCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACT
51392 TAGTGCCGCATGGTCAAT
64 TAGTGCCGCATGGTCAAT
* **
51410 TCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
51475 GTGC
66 GTGC
51479 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:59430 original size:27 final size:27
Alignment explanation
Indices: 59400--59577 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59390 ATATTGAGTC
* * * *
59400 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59427 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59454 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59482 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59509 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59536 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59563 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59578 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59539 original size:82 final size:81
Alignment explanation
Indices: 59421--59576 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59411 TGCTATATAA
* *
59421 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59486 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59503 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59567 CACTTAGTGC
65 CACTTAGTGC
59577 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:68963 original size:46 final size:50
Alignment explanation
Indices: 68913--69079 Score: 141
Period size: 52 Copynumber: 3.3 Consensus size: 50
68903 TAGCCCTGCC
* *
68913 ATGGTCTTACACGG-ATCACA-TA-ACAT-ACCGATGCCACATCCCAGAT
1 ATGGTCTTATACGGAATCACATTACACATCACCGATGCCACAGCCCAGAT
* * *
68959 ATGGTCTTTTACGGAATCACATTATCACATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTA-CACAT--CACCGATGCCACAGCCCAGAT
* * *
69012 ATGGTCTTATACGGGAACTCGA-A-T-CACATTGTACCGATGCCATAGCCCAGCT
1 ATGGTCTTATAC-GGAA-TC-ACATTACACA-T-CACCGATGCCACAGCCCAGAT
69064 ATGGTCTTATACGGAA
1 ATGGTCTTATACGGAA
69080 GCCATATCAC
Statistics
Matches: 102, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
46 12 0.12
47 6 0.06
48 2 0.02
50 4 0.04
51 4 0.04
52 36 0.35
53 29 0.28
54 5 0.05
55 3 0.03
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
ATGGTCTTATACGGAATCACATTACACATCACCGATGCCACAGCCCAGAT
Found at i:69009 original size:53 final size:51
Alignment explanation
Indices: 68939--69092 Score: 184
Period size: 52 Copynumber: 3.0 Consensus size: 51
68929 CACATAACAT
* * * *
68939 ACCGATGCCACATCCCAGATATGGTCTTTTACGGAATCACATTATCACATCAC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATC-CA-TATCACATCAC
* ***
68992 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACTCGA-ATCACATTGT
1 ACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAA-TCCATATCACATCAC
*
69044 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCCATATCACATC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCCATATCACATC
69093 TTTTCCGTCA
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.02
51 11 0.13
52 39 0.45
53 28 0.32
54 5 0.06
55 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (51 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCCATATCACATCAC
Found at i:69749 original size:22 final size:23
Alignment explanation
Indices: 69703--69749 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
69693 AAATCATCAT
* **
69703 AAACTTTCAACACTTATTCATGA
1 AAACTTTCAACAATTACCCATGA
69726 AAACTTTCAA-AATTACCCATGA
1 AAACTTTCAACAATTACCCATGA
69748 AA
1 AA
69750 TCAAAAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (23 bp):
AAACTTTCAACAATTACCCATGA
Found at i:69925 original size:11 final size:12
Alignment explanation
Indices: 69905--69947 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
69895 GGAGAGGATA
69905 AAGAAAAAAATG
1 AAGAAAAAAATG
69917 AAGAAAAAAATG
1 AAGAAAAAAATG
69929 AAGAAAAAAATG
1 AAGAAAAAAATG
69941 AAGAAAA
1 AAGAAAA
69948 CTCTAGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (12 bp):
AAGAAAAAAATG
Found at i:71476 original size:5 final size:6
Alignment explanation
Indices: 71447--71473 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
71437 GTCAAGGATG
71447 GGGGAA GGGGAA GGGGAA GGGGAA GGG
1 GGGGAA GGGGAA GGGGAA GGGGAA GGG
71474 AAGATCGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:76418 original size:27 final size:22
Alignment explanation
Indices: 76367--76418 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
76357 GATGGTAACT
76367 TTTTATTTTTACTTTACTTAAA
1 TTTTATTTTTACTTTACTTAAA
*
76389 TTTTATTTTTACTTTACTTAAG
1 TTTTATTTTTACTTTACTTAAA
76411 TTTTATTT
1 TTTTATTT
76419 ACATAATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTACTTTACTTAAA
Found at i:79549 original size:27 final size:27
Alignment explanation
Indices: 79511--80010 Score: 651
Period size: 27 Copynumber: 18.4 Consensus size: 27
79501 CGTACCTGAA
*
79511 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
79538 CCCTCATGTGATAAAATAACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
79565 CCCTCATGTGATAAAATGACGATTTTTG
1 CCCTCATGTGATAAAATGACGA-TTTTG
* *
79593 CCCTTATGTGATAAAATGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
79620 CCCTCATGTGATAAAAAGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
79647 CCCTCATGTGATAAAAAGATGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
79674 CCCTCATGTGATAAAATGATG-TTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
*
79700 CTCTCTCATGTGATAAAATGACGATTTTT
1 C-C-CTCATGTGATAAAATGACGATTTTG
* * *
79729 CCCTTATGTGATAAAATAACGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
*
79756 CCCTCATGTGATAAAATGACGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
* * * * * *
79783 CCCTTATATAATAAAATAATGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
79810 CCCTCATGTGATAAAATGACGATTTTTG
1 CCCTCATGTGATAAAATGACGA-TTTTG
* * *
79838 CCCTTATGTGATAAAATGATGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
*
79865 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
** *
79892 CCCTCACATGATAAAATGACAAATTTTG
1 CCCTCATGTGATAAAATGAC-GATTTTG
* *
79920 CCCTTATGTGATAAAATGAAGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
79947 CCCTCATGTGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
*
79974 CCCTCATGTGATAAAATGACGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
*
80001 CCCTTATGTG
1 CCCTCATGTG
80011 TTTTGCCTTT
Statistics
Matches: 421, Mismatches: 46, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
26 5 0.01
27 320 0.76
28 90 0.21
29 6 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTG
Found at i:79648 original size:82 final size:81
Alignment explanation
Indices: 79511--80010 Score: 655
Period size: 82 Copynumber: 6.1 Consensus size: 81
79501 CGTACCTGAA
*
79511 CCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATA-ACGATTTTGCCCTCATGTG
1 CCCTTATGTGATAAAATGATGATTTTGCCCTCATGTGATAAAA-AGACGATTTTGCCCTCATGTG
79575 ATAAAATGACGATTTTTG
65 ATAAAATGACGA-TTTTG
*
79593 CCCTTATGTGATAAAATGATGATTTTGCCCTCATGTGATAAAAAGATGATTTTGCCCTCATGTGA
1 CCCTTATGTGATAAAATGATGATTTTGCCCTCATGTGATAAAAAGACGATTTTGCCCTCATGTGA
* *
79658 TAAAAAGATGATTTTG
66 TAAAATGACGATTTTG
* * * * *
79674 CCCTCATGTGATAAAATGATG-TTTTTCTCTCTCATGTGATAAAATGACGATTTTTCCCTTATGT
1 CCCTTATGTGATAAAATGATGATTTTGC-C-CTCATGTGATAAAAAGACGATTTTGCCCTCATGT
* *
79738 GATAAAATAACGATTTTA
64 GATAAAATGACGATTTTG
* * * * * * * *
79756 CCCTCATGTGATAAAATGACGATTTTACCCTTATATAATAAAATA-ATGATTTTTCCCTCATGTG
1 CCCTTATGTGATAAAATGATGATTTTGCCCTCATGTGATAAAA-AGACGATTTTGCCCTCATGTG
79820 ATAAAATGACGATTTTTG
65 ATAAAATGACGA-TTTTG
* * * **
79838 CCCTTATGTGATAAAATGATGATTTTTCCCTTATGTGATAAAATGACGATTTTGCCCTCACATGA
1 CCCTTATGTGATAAAATGATGATTTTGCCCTCATGTGATAAAAAGACGATTTTGCCCTCATGTGA
*
79903 TAAAATGACAAATTTTG
66 TAAAATGAC-GATTTTG
* * *
79920 CCCTTATGTGATAAAATGAAGATTTTGCCCTCATGTGATAAAATGACGATTTTTCCCTCATGTGA
1 CCCTTATGTGATAAAATGATGATTTTGCCCTCATGTGATAAAAAGACGATTTTGCCCTCATGTGA
*
79985 TAAAATGACGATTTTA
66 TAAAATGACGATTTTG
80001 CCCTTATGTG
1 CCCTTATGTG
80011 TTTTGCCTTT
Statistics
Matches: 367, Mismatches: 43, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
80 5 0.01
81 81 0.22
82 275 0.75
83 6 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (81 bp):
CCCTTATGTGATAAAATGATGATTTTGCCCTCATGTGATAAAAAGACGATTTTGCCCTCATGTGA
TAAAATGACGATTTTG
Found at i:79711 original size:109 final size:108
Alignment explanation
Indices: 79511--80010 Score: 669
Period size: 109 Copynumber: 4.6 Consensus size: 108
79501 CGTACCTGAA
*
79511 CCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATAACGATTTTGCCCTCATGTGA
1 CCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACGATTTTGCCCTCATGTGA
* * *
79576 TAAAATGACGATTTTTGCCCTTATGTGATAAAATGATGATTTTG
66 TAAAATGATGATTTTT-CCCTCATGTGATAAAATGACGATTTTG
* * * * *
79620 CCCTCATGTGATAAAAAGATGATTTTGCCCTCATGTGATAAAAAGATGATTTTGCCCTCATGTGA
1 CCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACGATTTTGCCCTCATGTGA
*
79685 TAAAATGATG-TTTTTCTCTCTCATGTGATAAAATGACGATTTTT
66 TAAAATGATGATTTTTC-C-CTCATGTGATAAAATGACGATTTTG
* * * * * *
79729 CCCTTATGTGATAAAATAACGATTTTACCCTCATGTGATAAAATGACGATTTTACCCTTATATAA
1 CCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACGATTTTGCCCTCATGTGA
*
79794 TAAAATAATGATTTTTCCCTCATGTGATAAAATGACGATTTTTG
66 TAAAATGATGATTTTTCCCTCATGTGATAAAATGACGA-TTTTG
* * * **
79838 CCCTTATGTGATAAAATGATGATTTTTCCCTTATGTGATAAAATGACGATTTTGCCCTCACATGA
1 CCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACGATTTTGCCCTCATGTGA
** * * *
79903 TAAAATGACAAATTTTGCCCTTATGTGATAAAATGAAGATTTTG
66 TAAAATGA-TGATTTTTCCCTCATGTGATAAAATGACGATTTTG
* * * *
79947 CCCTCATGTGATAAAATGACGATTTTTCCCTCATGTGATAAAATGACGATTTTACCCTTATGTG
1 CCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACGATTTTGCCCTCATGTG
80011 TTTTGCCTTT
Statistics
Matches: 342, Mismatches: 44, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
107 1 0.00
108 26 0.08
109 284 0.83
110 31 0.09
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (108 bp):
CCCTTATGTGATAAAATGACGATTTTGCCCTCATGTGATAAAATGACGATTTTGCCCTCATGTGA
TAAAATGATGATTTTTCCCTCATGTGATAAAATGACGATTTTG
Found at i:80046 original size:27 final size:27
Alignment explanation
Indices: 80023--80087 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
80013 TTGCCTTTTT
*
80023 TGAT-AAATTGACTATTTTACCCTTATG
1 TGATCAAA-TGACAATTTTACCCTTATG
*
80050 TGATCAAATGACAATTTTGCCCTTATG
1 TGATCAAATGACAATTTTACCCTTATG
80077 TGATCAAATGA
1 TGATCAAATGA
80088 TCGAAATACC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 32 0.91
28 3 0.09
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (27 bp):
TGATCAAATGACAATTTTACCCTTATG
Found at i:80099 original size:27 final size:26
Alignment explanation
Indices: 80040--80102 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
80030 TTGACTATTT
*
80040 TACCCTTATGTGATCAAATGACAATTT
1 TACCCTTATGTGATCAAATGACAA-TA
*
80067 TGCCCTTATGTGATCAAATGATCGAA-A
1 TACCCTTATGTGATCAAATGA-C-AATA
80094 TACCCTTAT
1 TACCCTTAT
80103 AGGGTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 28 0.90
28 1 0.03
29 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (26 bp):
TACCCTTATGTGATCAAATGACAATA
Found at i:80131 original size:27 final size:27
Alignment explanation
Indices: 80082--80169 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
80072 TTATGTGATC
**
80082 AAATGA-TCGAAATACCCTTATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
*
80109 AAATGACTGAAATACCCCCATAGGATA
1 AAATGACTGAAATACCCCCATAGGGTA
* * * * *
80136 GAATAATTGTAATA-CCCCAGTAAGGTA
1 AAATGACTGAAATACCCCCA-TAGGGTA
80163 AAATGAC
1 AAATGAC
80170 ATATTTATTC
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 5 0.11
27 41 0.87
28 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCATAGGGTA
Found at i:80251 original size:23 final size:22
Alignment explanation
Indices: 80204--80259 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
80194 CTATATTTGA
80204 GCATGCCATGTTATATGTATATT
1 GCAT-CCATGTTATATGTATATT
*
80227 GCATCCATGTATGATAT-TATGTT
1 GCATCCATGT-T-ATATGTATATT
80250 GCATCGCATG
1 GCATC-CATG
80260 GGGTGGGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.21
23 15 0.52
24 8 0.28
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (22 bp):
GCATCCATGTTATATGTATATT
Found at i:80538 original size:18 final size:18
Alignment explanation
Indices: 80512--80568 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
80502 GTTTGCATTT
*
80512 TGCACTGATTACTGTTAC
1 TGCATTGATTACTGTTAC
*
80530 TGCATTGATCA-TGGTTAC
1 TGCATTGATTACT-GTTAC
*
80548 TGCATTGATTACTGCTAC
1 TGCATTGATTACTGTTAC
80566 TGC
1 TGC
80569 TACTATTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (18 bp):
TGCATTGATTACTGTTAC
Found at i:87205 original size:27 final size:27
Alignment explanation
Indices: 87167--87218 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
87157 TTCTACAGAC
87167 AGTTTGAAATGTGTTGTTAGCGGAGAG
1 AGTTTGAAATGTGTTGTTAGCGGAGAG
87194 AGTTTGAAATGTGTTGTTAGCGGAG
1 AGTTTGAAATGTGTTGTTAGCGGAG
87219 TACTAATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.04, G:0.37, T:0.35
Consensus pattern (27 bp):
AGTTTGAAATGTGTTGTTAGCGGAGAG
Found at i:88752 original size:3 final size:3
Alignment explanation
Indices: 88711--88830 Score: 52
Period size: 3 Copynumber: 38.3 Consensus size: 3
88701 TTTTTTAACC
* *
88711 TTA TTT TTA -TA TTA TATA TTA TAA TTA TT- TTA TTA -TA TTA TT-
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
88753 TATA TTA TTA TTA TCTA TTG TATA TTG TTT TTCA CAAA TTA TTA TTA
1 T-TA TTA TTA TTA T-TA TTA T-TA TTA TTA TT-A -TTA TTA TTA TTA
88800 TT- TTA CGTTA TTA CTTA TATA TTA TTA TTA T
1 TTA TTA --TTA TTA -TTA T-TA TTA TTA TTA T
88831 GTTTTTACTT
Statistics
Matches: 89, Mismatches: 13, Indels: 30
0.67 0.10 0.23
Matches are distributed among these distances:
2 9 0.10
3 61 0.69
4 16 0.18
5 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:88771 original size:22 final size:23
Alignment explanation
Indices: 88720--88766 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
88710 CTTATTTTTA
88720 TATTATA-TA-TTATAATTATTT
1 TATTATATTATTTATAATTATTT
88741 TATTATATTATTTAT-ATTATTAT
1 TATTATATTATTTATAATTATT-T
88764 TAT
1 TAT
88767 CTATTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.30
22 8 0.35
23 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATATTATTTATAATTATTT
Found at i:88776 original size:20 final size:17
Alignment explanation
Indices: 88712--88778 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 17
88702 TTTTTAACCT
88712 TATT-TTTATATTA-TA
1 TATTATTTATATTATTA
*
88727 TATTATAATTATTTTATTA
1 TATTAT--TTATATTATTA
88746 TATTATTTATATTATTA
1 TATTATTTATATTATTA
88763 TTATCTATTGTATATT
1 -TAT-TATT-TATATT
88779 GTTTTTCACA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 4 0.09
16 1 0.02
17 10 0.23
18 10 0.23
19 12 0.28
20 6 0.14
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (17 bp):
TATTATTTATATTATTA
Found at i:89184 original size:20 final size:22
Alignment explanation
Indices: 89114--89185 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 22
89104 CATTAATTAC
* *
89114 TTATTTCATAT-TATTCTA-AA
1 TTATTTTATATATATTATATAA
89134 CTTATATTTATATATATTATATAA
1 -TTAT-TTTATATATATTATATAA
*
89158 TTATTTTAT-TATTTTATA-AA
1 TTATTTTATATATATTATATAA
*
89178 TTCTTTTA
1 TTATTTTA
89186 CATACTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.20
21 12 0.27
22 11 0.25
23 10 0.23
24 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTTTATATATATTATATAA
Found at i:101599 original size:204 final size:205
Alignment explanation
Indices: 101242--101825 Score: 884
Period size: 206 Copynumber: 2.8 Consensus size: 205
101232 TAGGCCGCAG
* ** * * * * *
101242 CATAACAGATCTGGCCTTCAGATGCTTGTACTGAAGTAGATCCAAGATGGTTTGGCATCTTTGTA
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* **
101307 CTTACAAGAAAAAAAATCGAAGACATAGCTGATTTGGCTTTCACGTATTTACGTTGAAGCAAATC
66 CTTACAAG--AACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATC
101372 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCAT-TTCGAC
129 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATATTCGAC
*
101436 GGAGAGCAGATA
194 GGAGAGCAGACA
* * *
101448 CATAGCAGATCTCACCTTCAGATGATCT-TACCGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTAACCTTCAGATGAT-TATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
101512 GCTTACAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCT
65 GCTTACAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCT
* *
101577 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGTATCTCCATATTCGACG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATATTCGACG
*
101642 GAGGGCAGACA
195 GAGAGCAGACA
* *
101653 CATAGCAGATCTAACCTTCAAATGATTAGACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * *
101718 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGTTTTCACGTGCTTATGCTGAAGCAAATCT
66 CTTACAA-GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCT
*
101783 AAGATGATTTGGCATCTCTGTATTGTCAGAGACCAAATCGAAG
130 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
101826 AAGCAGATTT
Statistics
Matches: 346, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
204 109 0.32
205 80 0.23
206 156 0.45
207 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (205 bp):
CATAGCAGATCTAACCTTCAGATGATTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
CTTACAAGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAGCAAATCTA
AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATATTCGACGG
AGAGCAGACA
Found at i:103412 original size:7 final size:7
Alignment explanation
Indices: 103400--103461 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 7
103390 ACCTTATTTT
103400 TATATTA
1 TATATTA
103407 TATATTA
1 TATATTA
103414 TA-ATTA
1 TATATTA
*
103420 TTTATTA
1 TATATTA
103427 TATATTA
1 TATATTA
103434 TTTATATTA
1 --TATATTA
103443 T-TATTA
1 TATATTA
* *
103449 TCTATTG
1 TATATTA
103456 TATATT
1 TATATT
103462 GTTTTTCACA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
6 11 0.23
7 29 0.62
9 7 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:103427 original size:20 final size:19
Alignment explanation
Indices: 103393--103461 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
103383 TTTTTTAACC
*
103393 TTATTTTTA-TATTATATA
1 TTATTTATATTATTATATA
103411 TTATAATTAT-TTATTATATA
1 TTAT--TTATATTATTATATA
103431 TTATTTATATTATTAT-TA
1 TTATTTATATTATTATATA
103449 TCTATTGTATATT
1 T-TATT-TATATT
103462 GTTTTTCACA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
18 11 0.25
19 11 0.25
20 22 0.50
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
TTATTTATATTATTATATA
Found at i:103435 original size:3 final size:3
Alignment explanation
Indices: 103393--103513 Score: 52
Period size: 3 Copynumber: 38.3 Consensus size: 3
103383 TTTTTTAACC
* *
103393 TTA TTT TTA -TA TTA TATA TTA TAA TTA TTTA TTA TATA TTA TT- TATA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA TTA T-TA
* * * **
103440 TTA TTA TTA TCTA TTG TATA TTG TTT TTCA CAAA TTA TTA TTA TT- TTA
1 TTA TTA TTA T-TA TTA T-TA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA
*
103488 -CA TTA TTA CTTA TATA TTA TTA TTA T
1 TTA TTA TTA -TTA T-TA TTA TTA TTA T
103514 GTTTTTACTT
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
2 6 0.07
3 61 0.69
4 22 0.25
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:103439 original size:29 final size:30
Alignment explanation
Indices: 103402--103461 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
103392 CTTATTTTTA
*
103402 TATTATATATTATAATTATTTATTATATAT
1 TATTATATATTATAATTATCTATTATATAT
* *
103432 TATT-TATATTATTATTATCTATTGTATAT
1 TATTATATATTATAATTATCTATTATATAT
103461 T
1 T
103462 GTTTTTCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
TATTATATATTATAATTATCTATTATATAT
Found at i:103563 original size:17 final size:18
Alignment explanation
Indices: 103523--103564 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
103513 TGTTTTTACT
*
103523 TGTATTATATATTTATTAA
1 TGTATT-TATATATATTAA
103542 T-TATTTATATATATT-A
1 TGTATTTATATATATTAA
103558 TGTATTT
1 TGTATTT
103565 TTTTTGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 14 0.67
18 4 0.19
19 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TGTATTTATATATATTAA
Found at i:113439 original size:38 final size:38
Alignment explanation
Indices: 113388--113466 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
113378 CACATATCGT
*
113388 ACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATC
1 ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
113426 ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
1 ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
113464 ACA
1 ACA
113467 TATCGATGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (38 bp):
ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATC
Found at i:113551 original size:56 final size:56
Alignment explanation
Indices: 113491--113683 Score: 307
Period size: 56 Copynumber: 3.4 Consensus size: 56
113481 TCCAAGACAA
* * **
113491 GGTCTTACTTGCACACATATAACGGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
*
113547 GGTCTTACTCACACACATATATCGGAATCACATATCGAT-CGCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGC-CAACATATTAAACGT
* *
113603 GGTCTTACTCGTACACATATATCAGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
113659 GGTCTTACTCGCACACATATATCGG
1 GGTCTTACTCGCACACATATATCGG
113684 TGTCATGGCC
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
55 1 0.01
56 123 0.98
57 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
Found at i:117713 original size:17 final size:17
Alignment explanation
Indices: 117691--117724 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117681 CCACCATCAG
*
117691 TTGAAATGTTACTCGAT
1 TTGAAATGCTACTCGAT
117708 TTGAAATGCTACTCGAT
1 TTGAAATGCTACTCGAT
117725 CTCAAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (17 bp):
TTGAAATGCTACTCGAT
Found at i:120604 original size:56 final size:56
Alignment explanation
Indices: 120544--120735 Score: 278
Period size: 56 Copynumber: 3.4 Consensus size: 56
120534 CCCAGACAAT
* * *
120544 GTCTTACTTGCACACATATGA-CGGAATCACATATCAATGCCAACGTATTAAACGTG
1 GTCTTACTCGCACACATAT-ATCGAAATCACATATCGATGCCAACGTATTAAACGTG
* * *
120600 GTCTTACTCACATACATATATCGAAATCACATATCGATGCCAACATATTAAACGTG
1 GTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTG
* * *
120656 GTCTTACTTGCACACATATATCAAAATCATATATCGATGCCAACGTATTAAACGTG
1 GTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTG
*
120712 ATCTTACTCGCACACATATATCGA
1 GTCTTACTCGCACACATATATCGA
120736 TGCCATGGTC
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
55 1 0.01
56 119 0.99
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (56 bp):
GTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTG
Found at i:123573 original size:26 final size:27
Alignment explanation
Indices: 123517--123573 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
123507 TTTTACCTTG
* **
123517 AACCCCAAACCCAAAACCCTAACCTTG
1 AACCCCAAACCCAAAACCCGAACCTCA
* *
123544 AACCCCAAA-CCAAAACTCGAATCTCA
1 AACCCCAAACCCAAAACCCGAACCTCA
123570 AACC
1 AACC
123574 TTGAACAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.44, C:0.42, G:0.04, T:0.11
Consensus pattern (27 bp):
AACCCCAAACCCAAAACCCGAACCTCA
Found at i:128770 original size:2 final size:2
Alignment explanation
Indices: 128763--128803 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
128753 AACCGTCCAT
128763 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
128804 TTCCCTCCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:132645 original size:14 final size:14
Alignment explanation
Indices: 132628--132657 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
132618 TTAAAGCAAG
*
132628 AATTAAGAACACAT
1 AATTAAGAACAAAT
132642 AATTAAGAACAAAT
1 AATTAAGAACAAAT
132656 AA
1 AA
132658 GTATTTATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (14 bp):
AATTAAGAACAAAT
Found at i:144797 original size:6 final size:6
Alignment explanation
Indices: 144776--144816 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
144766 ACTCCCATCC
*
144776 TTCTTT TCCATTT TTCTTT TTCTTT TTC-TT TTC-TT TTCTTT
1 TTCTTT TTC-TTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
144817 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 10 0.32
6 16 0.52
7 5 0.16
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:146576 original size:13 final size:14
Alignment explanation
Indices: 146558--146587 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
146548 TTCCATTTAA
146558 TTTTCAA-TTTATT
1 TTTTCAAGTTTATT
146571 TTTTCAAGTTTATT
1 TTTTCAAGTTTATT
146585 TTT
1 TTT
146588 ATTTTTGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTCAAGTTTATT
Found at i:149704 original size:52 final size:52
Alignment explanation
Indices: 149626--149728 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
149616 TGTTCGATAG
**
149626 TTACGCTTGCCTTAAGTTGAATTTTTAGTTAGTTTCACGACCATCAATTGTA
1 TTACGCTTGCCTTAAGTCAAATTTTTAGTTAGTTTCACGACCATCAATTGTA
149678 TTACGCCTT-CCTTAAGTCAAATTTTTAGTTAGTTTCACGACCATCAATTGT
1 TTACG-CTTGCCTTAAGTCAAATTTTTAGTTAGTTTCACGACCATCAATTGT
149729 CATGTTAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 45 0.94
53 3 0.06
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (52 bp):
TTACGCTTGCCTTAAGTCAAATTTTTAGTTAGTTTCACGACCATCAATTGTA
Found at i:160533 original size:15 final size:16
Alignment explanation
Indices: 160513--160542 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
160503 GAGTATAGTA
160513 AAATA-TTAAAAAAAT
1 AAATATTTAAAAAAAT
160528 AAATATTTAAAAAAA
1 AAATATTTAAAAAAA
160543 GAGATATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:161671 original size:21 final size:21
Alignment explanation
Indices: 161631--161680 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
161621 CTGTTCCCAT
*
161631 GGCCATGTCCTTGGTCCACAC
1 GGCCATGTCCTTAGTCCACAC
*
161652 GGGCATGTACCTTAGT-CACAC
1 GGCCATGT-CCTTAGTCCACAC
161673 GGCCATGT
1 GGCCATGT
161681 GCTTCTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.24
Consensus pattern (21 bp):
GGCCATGTCCTTAGTCCACAC
Found at i:161695 original size:22 final size:22
Alignment explanation
Indices: 161667--161760 Score: 125
Period size: 22 Copynumber: 4.3 Consensus size: 22
161657 TGTACCTTAG
* * *
161667 TCACACGGCCATGTGCTTCTCT
1 TCACACGGGCGTGTGCCTCTCT
161689 TCACACGGGCGTGTGCCTCTCT
1 TCACACGGGCGTGTGCCTCTCT
161711 TCACACGGGCGTGTGCCTCTCT
1 TCACACGGGCGTGTGCCTCTCT
* * *
161733 TCACATGGGTGTGTGCTTCTCT
1 TCACACGGGCGTGTGCCTCTCT
*
161755 TTACAC
1 TCACAC
161761 AAGCATGTGC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.12, C:0.33, G:0.23, T:0.32
Consensus pattern (22 bp):
TCACACGGGCGTGTGCCTCTCT
Found at i:161770 original size:44 final size:44
Alignment explanation
Indices: 161676--161771 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
161666 GTCACACGGC
* **
161676 CATGTGCTTCTCTTCACACGGGCGTGTGCCTCTCTTCACACGGG
1 CATGTGCCTCTCTTCACACGGGCGTGTGCCTCTCTTCACACAAG
* * * * *
161720 CGTGTGCCTCTCTTCACATGGGTGTGTGCTTCTCTTTACACAAG
1 CATGTGCCTCTCTTCACACGGGCGTGTGCCTCTCTTCACACAAG
161764 CATGTGCC
1 CATGTGCC
161772 CCAGCTACAC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.12, C:0.31, G:0.24, T:0.32
Consensus pattern (44 bp):
CATGTGCCTCTCTTCACACGGGCGTGTGCCTCTCTTCACACAAG
Found at i:170018 original size:40 final size:42
Alignment explanation
Indices: 169931--170048 Score: 111
Period size: 39 Copynumber: 2.8 Consensus size: 42
169921 TTAAGGTCCC
169931 AAAATTATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTT
1 AAAA-TATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTT
* * *
169974 -AAATATT-TTTTAG-ATTTTTTTTAA-TTTTATACTTTTTTT
1 AAAATATTATTTTAGAATATTTTTAAATTTTTA-ACTTTCTTT
* *
170013 AAAATATAAATTTTGGAAT-TTTTGTAAATATTTTAA
1 AAAATAT-TATTTTAGAATATTTT-TAAAT-TTTTAA
170049 ATTTTTTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
38 5 0.08
39 17 0.28
40 12 0.20
41 4 0.07
42 12 0.20
43 5 0.08
44 1 0.02
45 5 0.08
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (42 bp):
AAAATATTATTTTAGAATATTTTTAAATTTTTAACTTTCTTT
Found at i:175799 original size:15 final size:15
Alignment explanation
Indices: 175779--175808 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
175769 TTGAATAAAT
*
175779 TATTAAAAATAAAAA
1 TATTAAAAAGAAAAA
175794 TATTAAAAAGAAAAA
1 TATTAAAAAGAAAAA
175809 AAATTGTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
TATTAAAAAGAAAAA
Found at i:182243 original size:23 final size:24
Alignment explanation
Indices: 182186--182244 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
182176 ATCATATTAT
182186 TTATATTATTATATATTCTATTTA
1 TTATATTATTATATATTCTATTTA
* *
182210 TAAATTTTATTATATA-TCT-TTTA
1 T-TATATTATTATATATTCTATTTA
182233 TTATATGTATTA
1 TTATAT-TATTA
182245 ACCCTTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.10
23 10 0.34
24 4 0.14
25 12 0.41
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (24 bp):
TTATATTATTATATATTCTATTTA
Found at i:182283 original size:15 final size:15
Alignment explanation
Indices: 182260--182293 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
182250 TACTTTATTT
*
182260 TTATTTTATTATATA
1 TTATGTTATTATATA
*
182275 TTATGTTATTATTTA
1 TTATGTTATTATATA
182290 TTAT
1 TTAT
182294 TAATATACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATGTTATTATATA
Found at i:193671 original size:53 final size:53
Alignment explanation
Indices: 193591--193697 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
193581 TATTGAAACA
193591 GATTCTTCCTATACAAAAGGACTTTATAGGAAAATGGATGCCGAATTGGGAAG
1 GATTCTTCCTATACAAAAGGACTTTATAGGAAAATGGATGCCGAATTGGGAAG
193644 GATTCTTCCTATACAAAAGGACTTTATAGGAAAATGGATGCCGAATTGGGAAG
1 GATTCTTCCTATACAAAAGGACTTTATAGGAAAATGGATGCCGAATTGGGAAG
193697 G
1 G
193698 GTCGTATGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (53 bp):
GATTCTTCCTATACAAAAGGACTTTATAGGAAAATGGATGCCGAATTGGGAAG
Found at i:193876 original size:5 final size:5
Alignment explanation
Indices: 193866--193894 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
193856 AGATTTCTGC
193866 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
193895 AACAGAGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:194824 original size:44 final size:44
Alignment explanation
Indices: 194774--195354 Score: 659
Period size: 44 Copynumber: 13.2 Consensus size: 44
194764 TCACATATAA
* * * *
194774 CAGATTTGGAGTCTCTATATTGTCGGAGAGCAGATCGACGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
194818 CAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
** *
194862 CAGATTTGGAATCTCTGTATTGTCAGAGAGCAGATCGACGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
194906 CAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
194950 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATC-AATAATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA-GATAG
* *
194994 CAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGGAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
195038 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAAATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* *
195082 CAAATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGACGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * *
195126 CAAATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGGAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
** * * * * * *
195170 TTGATTTGGCGTCTCTGTATTAAT-GGGGAGCAGATTGGAGAAAG
1 CAGATTTGGCGTCTCTGTATT-GTCAGAGAGCAGATCGAAGATAG
* * *
195214 CACG-TTTGGCATCTCTGTATTGACAGAGAGGAGATCGAAGATAG
1 CA-GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * *
195258 CTGATTTGGCGTCTCTATATTGAT-GGGGAGCAGATCGAAGAT-G
1 CAGATTTGGCGTCTCTGTATTG-TCAGAGAGCAGATCGAAGATAG
* ** * * * *
195301 ATAGATTTGGTATCTTTGTATTAGACGGGGAGCAGATCGAAGATAG
1 -CAGATTTGGCGTCTCTGTATT-GTCAGAGAGCAGATCGAAGATAG
*
195347 CATATTTG
1 CAGATTTG
195355 ACATTCGTAT
Statistics
Matches: 459, Mismatches: 67, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
43 4 0.01
44 426 0.93
45 28 0.06
46 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
Found at i:195380 original size:45 final size:45
Alignment explanation
Indices: 195331--195444 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
195321 TTAGACGGGG
*
195331 AGCAGATCGAAGATAGCATATTTGACATTCGTATGTTCACATCGA
1 AGCAGATCGAAGATAGCAGATTTGACATTCGTATGTTCACATCGA
* ** * *
195376 AGCAGATTGAAGATAGTGGATCTGACATTCGTGTGTTCACATCGA
1 AGCAGATCGAAGATAGCAGATTTGACATTCGTATGTTCACATCGA
*
195421 AGCAGATCGAAGATAACAGATTTG
1 AGCAGATCGAAGATAGCAGATTTG
195445 GCGTTTCTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (45 bp):
AGCAGATCGAAGATAGCAGATTTGACATTCGTATGTTCACATCGA
Found at i:196140 original size:25 final size:25
Alignment explanation
Indices: 196106--196164 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
196096 GCTGATTCTA
196106 CAAAAGAAGGAAAGAACCACAGCAG
1 CAAAAGAAGGAAAGAACCACAGCAG
196131 CAAAAGAAGGAAAGAACCACAGCAG
1 CAAAAGAAGGAAAGAACCACAGCAG
196156 CAAAAGAAG
1 CAAAAGAAG
196165 TAAACTTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.58, C:0.19, G:0.24, T:0.00
Consensus pattern (25 bp):
CAAAAGAAGGAAAGAACCACAGCAG
Found at i:197172 original size:23 final size:24
Alignment explanation
Indices: 197115--197173 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
197105 ATCATATTAT
197115 TTATATTATTATATATTCTATTTA
1 TTATATTATTATATATTCTATTTA
* *
197139 TAAATTTTATTATATA-TCT-TTTA
1 T-TATATTATTATATATTCTATTTA
197162 TTATATGTATTA
1 TTATAT-TATTA
197174 ACCCTTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.10
23 10 0.34
24 4 0.14
25 12 0.41
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (24 bp):
TTATATTATTATATATTCTATTTA
Found at i:197212 original size:15 final size:15
Alignment explanation
Indices: 197189--197222 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
197179 TACTTTATTT
*
197189 TTATTTTATTATATA
1 TTATGTTATTATATA
*
197204 TTATGTTATTATTTA
1 TTATGTTATTATATA
197219 TTAT
1 TTAT
197223 TAATATACAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATGTTATTATATA
Found at i:203132 original size:14 final size:14
Alignment explanation
Indices: 203111--203151 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
203101 CTTACCTAAT
*
203111 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTAA
*
203125 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTAA
203139 TGTGCAAGTTGTA
1 TGTGCAAGTTGTA
203152 CAAGCTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTAA
Found at i:207224 original size:40 final size:40
Alignment explanation
Indices: 207175--207315 Score: 212
Period size: 40 Copynumber: 3.5 Consensus size: 40
207165 CGGATGTAAC
*
207175 AACCAGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
207215 AACCCGCACGAAAGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
207255 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTGTAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
207295 AACTAGCAC-AATTGCCTTCGG
1 AACCAGCACGAA-TGCCTTCGG
207316 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.02
40 91 0.98
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:208849 original size:13 final size:13
Alignment explanation
Indices: 208833--208860 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
208823 TTTATTATTT
208833 TTAACACAAAATA
1 TTAACACAAAATA
208846 TTAACACAAAATA
1 TTAACACAAAATA
208859 TT
1 TT
208861 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:215882 original size:62 final size:57
Alignment explanation
Indices: 215756--215894 Score: 161
Period size: 62 Copynumber: 2.3 Consensus size: 57
215746 TTTAATTCAT
* * * *
215756 ATAATAATTATATTAAGAATGTTATTGAATTGTATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGATTGAATTGTATATTATTTTATAAAAATATATTTA
* *
215814 ATAATAATTATGTTAAAATATGATTGAATTATTTATTATTATTTTTAATAAAAATATATTTA
1 ATAATAATTATATTAAAATATGATTGAA-T-TGTA-TATTA-TTTT-ATAAAAATATATTTA
*
215876 ATAATAATTTTATTAAAAT
1 ATAATAATTATATTAAAAT
215895 TTAATAACAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
57 10 0.15
58 16 0.24
59 3 0.04
60 5 0.07
61 4 0.06
62 30 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGATTGAATTGTATATTATTTTATAAAAATATATTTA
Found at i:216653 original size:24 final size:24
Alignment explanation
Indices: 216608--216654 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
216598 ATTTATTAAT
*
216608 ATAATATATTTTGCATTTATTAGC
1 ATAATATATTTTGCATTGATTAGC
216632 ATAATATA-TTTGACATTGATTAG
1 ATAATATATTTTG-CATTGATTAG
216655 AATTAGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (24 bp):
ATAATATATTTTGCATTGATTAGC
Found at i:218127 original size:51 final size:51
Alignment explanation
Indices: 218049--218156 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
218039 AAGTTATCCG
* * *
218049 GATGAAATATGAATCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCCA
1 GATGAAATACGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCA
*
218100 GATGAAATACGAAGCTCTTGTTAAAGCTAGGGCAACAAAGTAATAATTCCA
1 GATGAAATACGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCA
218151 GATGAA
1 GATGAA
218157 GTATGAAGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (51 bp):
GATGAAATACGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCA
Found at i:219046 original size:46 final size:46
Alignment explanation
Indices: 218979--219206 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
218969 GGTTTCTGAA
* *
218979 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGGAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
219025 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
219071 ATGAAATGTGTAAGACCATGGTTGAAGGATACCATGGCAAAATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
219117 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
219163 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
219207 TCGAAGATAA
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:223360 original size:11 final size:12
Alignment explanation
Indices: 223330--223362 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
223320 GTTACAAGTG
223330 AATTAATTCACA
1 AATTAATTCACA
*
223342 AATGAATTCA-A
1 AATTAATTCACA
223353 AATTAATTCA
1 AATTAATTCA
223363 TTCTGGATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:226396 original size:3 final size:3
Alignment explanation
Indices: 226373--226414 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
226363 TTTTATACTA
*
226373 AAT AATT AAC AAT AA- AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
226415 TCTCATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:227260 original size:69 final size:69
Alignment explanation
Indices: 227177--227314 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
227167 TCATAGATCG
*
227177 AGTTAATGCAACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAGTTG
1 AGTTAATGCAACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAATTG
227242 TTCT
66 TTCT
*
227246 AGTTAATGCGACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAATTG
1 AGTTAATGCAACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAATTG
227311 TTCT
66 TTCT
227315 TACTCTCGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (69 bp):
AGTTAATGCAACAATAAGGGTTTTAATTAGAAAGAGATTTCAATCAATCAACCTAGAGTCAATTG
TTCT
Found at i:227512 original size:14 final size:14
Alignment explanation
Indices: 227493--227563 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
227483 GTTGTGTTTG
227493 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
*
227507 TAGTTAATTTAGAT
1 TAGTTAAATTAGAT
*** *
227521 TAAAAACAATTTG--
1 TAGTTA-AATTAGAT
227534 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
227548 TAG-TAAATTTAGAT
1 TAGTTAAA-TTAGAT
227562 TA
1 TA
227564 AAAACAATCA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
12 5 0.12
13 7 0.16
14 27 0.63
15 4 0.09
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.42
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:227534 original size:41 final size:41
Alignment explanation
Indices: 227489--227571 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
227479 CTCTGTTGTG
*
227489 TTTGTAGTTAAATTAGATTAGTTAATTTAGATTAAAAACAA
1 TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
227530 TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
1 TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
227571 T
1 T
227572 CACTTCAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (41 bp):
TTTGTAGTTAAATTAGATTAGTAAATTTAGATTAAAAACAA
Found at i:227777 original size:6 final size:6
Alignment explanation
Indices: 227766--227830 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
227756 TAATTTAGCC
* * * *
227766 ATTTTT ATTTTT A-TTAT ATTTTT ATTTTT AGTTTA ATTTTT GTTTTCT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT-T
*
227814 AATTTTT -CTTTT ATTTT
1 -ATTTTT ATTTTT ATTTT
227831 CTTCTGACAG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
5 8 0.18
6 31 0.69
7 2 0.04
8 4 0.09
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:227805 original size:17 final size:17
Alignment explanation
Indices: 227768--227805 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
227758 ATTTAGCCAT
*
227768 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAA
227785 TTTTATTTTTAGTT-TAA
1 TTTTATTTTTA-TTATAA
227802 TTTT
1 TTTT
227806 TGTTTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAA
Found at i:233380 original size:6 final size:6
Alignment explanation
Indices: 233369--233410 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
233359 AGTTTATTTG
233369 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT GTTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTA
233411 ACCCGTATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:238036 original size:17 final size:17
Alignment explanation
Indices: 238014--238068 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
238004 ACACGGGTTG
238014 GCCACACGCCCGTGTGA
1 GCCACACGCCCGTGTGA
238031 GCCACACG---G-GCTG-
1 GCCACACGCCCGTG-TGA
*
238044 GCCACACACCCGTGTGA
1 GCCACACGCCCGTGTGA
238061 GCCACACG
1 GCCACACG
238069 GGCTGGCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
13 8 0.27
14 3 0.10
16 3 0.10
17 16 0.53
ACGTcount: A:0.20, C:0.42, G:0.29, T:0.09
Consensus pattern (17 bp):
GCCACACGCCCGTGTGA
Found at i:238036 original size:30 final size:30
Alignment explanation
Indices: 238002--238089 Score: 149
Period size: 30 Copynumber: 2.9 Consensus size: 30
237992 CTGGGCATTT
*
238002 CCACACGGGTTGGCCACACGCCCGTGTGAG
1 CCACACGGGCTGGCCACACGCCCGTGTGAG
*
238032 CCACACGGGCTGGCCACACACCCGTGTGAG
1 CCACACGGGCTGGCCACACGCCCGTGTGAG
*
238062 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTGGCCACACGCCCGTGTG
238090 CCAGCCCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.18, C:0.40, G:0.31, T:0.11
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCCCGTGTGAG
Found at i:238237 original size:23 final size:23
Alignment explanation
Indices: 238187--238237 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
238177 TATCAATTAG
*
238187 AAGAAGACTTAAGGGGACACTGA
1 AAGAAGACTTAAGGGAACACTGA
* *
238210 GAGAAGA-TTGAAGGGAACACTTA
1 AAGAAGACTT-AAGGGAACACTGA
238233 AAGAA
1 AAGAA
238238 CACCATTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.47, C:0.10, G:0.29, T:0.14
Consensus pattern (23 bp):
AAGAAGACTTAAGGGAACACTGA
Found at i:241827 original size:31 final size:30
Alignment explanation
Indices: 241783--241857 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 30
241773 TCTGTCGCAA
*
241783 TCTTAGATAATTAGTTTTAGATTAAAAATTC
1 TCTTA-ATTATTAGTTTTAGATTAAAAATTC
241814 TCTTAATTGATTAGTTTTAGATTAAAAATTC
1 TCTTAATT-ATTAGTTTTAGATTAAAAATTC
241845 TCTTAATTATTAG
1 TCTTAATTATTAG
241858 GCTAGATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 7 0.17
31 35 0.83
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (30 bp):
TCTTAATTATTAGTTTTAGATTAAAAATTC
Found at i:241872 original size:31 final size:31
Alignment explanation
Indices: 241800--241864 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
241790 TAATTAGTTT
**
241800 TAGATTAAAAATTCTCTTAATTGATTAGTTT
1 TAGATTAAAAATTCTCTTAATTGATTAGTGC
241831 TAGATTAAAAATTCTCTTAATT-ATTAG-GC
1 TAGATTAAAAATTCTCTTAATTGATTAGTGC
241860 TAGAT
1 TAGAT
241865 AATAAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 5 0.16
30 5 0.16
31 22 0.69
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (31 bp):
TAGATTAAAAATTCTCTTAATTGATTAGTGC
Found at i:250301 original size:87 final size:87
Alignment explanation
Indices: 250155--250431 Score: 500
Period size: 87 Copynumber: 3.2 Consensus size: 87
250145 CCGTTGGAGT
*
250155 TGGAGGCCGAGGAGGTTGACATGAGGGAGGTAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
1 TGGAGGCCGAGGAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
*
250220 TAATAGGTGGAAGACTTTGTGG
66 TAATAGGTGGACGACTTTGTGG
*
250242 TGGAGGCCGAGGAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGAAATGAAGGAGTACGTC
1 TGGAGGCCGAGGAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
250307 TAATAGGTGGACGACTTTGTGG
66 TAATAGGTGGACGACTTTGTGG
250329 TGGAGGCCGAGGAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
1 TGGAGGCCGAGGAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
*
250394 TAATAGGTGGACGACTTCGTGG
66 TAATAGGTGGACGACTTTGTGG
* *
250416 TGGAGACCGAGAAGGT
1 TGGAGGCCGAGGAGGT
250432 GATCGAGTAT
Statistics
Matches: 183, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 183 1.00
ACGTcount: A:0.27, C:0.10, G:0.43, T:0.20
Consensus pattern (87 bp):
TGGAGGCCGAGGAGGTTGACATGAGGGAGGAAATGTACGAGGCGGTGGATATGAAGGAGTACGTC
TAATAGGTGGACGACTTTGTGG
Found at i:250863 original size:13 final size:13
Alignment explanation
Indices: 250845--250869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250835 AGGAAATCAA
250845 GAATGAAATGAAT
1 GAATGAAATGAAT
250858 GAATGAAATGAA
1 GAATGAAATGAA
250870 AACTAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.20
Consensus pattern (13 bp):
GAATGAAATGAAT
Found at i:251379 original size:17 final size:17
Alignment explanation
Indices: 251356--251391 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
251346 AATATTATAA
*
251356 ATAAATTTAAATTATTTT
1 ATAATTTTAAATT-TTTT
251374 ATAATTTTAAATTTTTT
1 ATAATTTTAAATTTTTT
251391 A
1 A
251392 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATAATTTTAAATTTTTT
Found at i:251384 original size:28 final size:28
Alignment explanation
Indices: 251298--251385 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
251288 GTATGAACTA
*
251298 AAATATATTAAAATTATTTTATAATTTT
1 AAATAAATTAAAATTATTTTATAATTTT
* * ** * *
251326 ATATAAA-TGACTTTATGATTA-ATATTAT
1 AAATAAATTAAAATTAT-TTTATA-ATTTT
*
251354 AAATAAATTTAAATTATTTTATAATTTT
1 AAATAAATTAAAATTATTTTATAATTTT
251382 AAAT
1 AAAT
251386 TTTTTAATTT
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
27 7 0.16
28 29 0.67
29 7 0.16
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (28 bp):
AAATAAATTAAAATTATTTTATAATTTT
Found at i:254892 original size:34 final size:34
Alignment explanation
Indices: 254844--254909 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
254834 CTCTTGTTAG
* *
254844 AGTTTTAAGTCTTATTATTTTTATTTCATTTTTT
1 AGTTTTAAGCCTTATCATTTTTATTTCATTTTTT
*
254878 AGTTTTAAGCCTTATCATTTTTGTTTCATTTT
1 AGTTTTAAGCCTTATCATTTTTATTTCATTTT
254910 GGTGAATACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.20, C:0.09, G:0.08, T:0.64
Consensus pattern (34 bp):
AGTTTTAAGCCTTATCATTTTTATTTCATTTTTT
Found at i:265247 original size:18 final size:18
Alignment explanation
Indices: 265226--265269 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
265216 GCGTCTAACA
*
265226 GGTGGAGGCGAAGAAGGT
1 GGTGGAGGCCAAGAAGGT
265244 GGTGGAGGCCAAGAAGGT
1 GGTGGAGGCCAAGAAGGT
265262 GGTGGAGG
1 GGTGGAGG
265270 TGGACTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.57, T:0.11
Consensus pattern (18 bp):
GGTGGAGGCCAAGAAGGT
Found at i:267661 original size:33 final size:33
Alignment explanation
Indices: 267619--267686 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
267609 GGCTTTTGGA
267619 GATAAATTAAGTTGCTATGAAACTGCTGTGTGG
1 GATAAATTAAGTTGCTATGAAACTGCTGTGTGG
267652 GATAAATTAAGTTGCTATGAAACTGCTGTGTGG
1 GATAAATTAAGTTGCTATGAAACTGCTGTGTGG
267685 GA
1 GA
267687 GGGGAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (33 bp):
GATAAATTAAGTTGCTATGAAACTGCTGTGTGG
Done.