Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006591.1 Hibiscus syriacus cultivar Beakdansim tig00016170_pilon, whole genome shotgun sequence
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: 156397
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
File 1 of 2
Found at i:5703 original size:14 final size:14
Alignment explanation
Indices: 5673--5717 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
5663 TCCATTTACA
5673 TTAGGGTTT-GTGAT
1 TTAGGGTTTAGTG-T
*
5687 TTAGGGTTTAATGT
1 TTAGGGTTTAGTGT
*
5701 TTAGTGTTTAGTGT
1 TTAGGGTTTAGTGT
5715 TTA
1 TTA
5718 TAGTTTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 25 0.93
15 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (14 bp):
TTAGGGTTTAGTGT
Found at i:5710 original size:21 final size:21
Alignment explanation
Indices: 5678--5730 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
5668 TTACATTAGG
5678 GTTT-GTGATTTAGGGTTTA-A
1 GTTTAGTG-TTTAGGGTTTATA
*
5698 TGTTTAGTGTTTAGTGTTTATA
1 -GTTTAGTGTTTAGGGTTTATA
*
5720 GTTTAGGGTTT
1 GTTTAGTGTTT
5731 CTATAAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (21 bp):
GTTTAGTGTTTAGGGTTTATA
Found at i:5766 original size:49 final size:50
Alignment explanation
Indices: 5713--5821 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 50
5703 AGTGTTTAGT
* * *
5713 GTTTATAGTTTAGGGTTTCTATAAACTATATAATTTA-TTACTTTATATA
1 GTTTATAGTTTAAGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
** * * *
5762 GTTTAT-GCATAATGTTTCTGTAAACTATATAAGTAATTTAGTTTATATA
1 GTTTATAGTTTAAGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
5811 GTTTATA-TTTA
1 GTTTATAGTTTA
5822 CTATACATGG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
48 23 0.48
49 25 0.52
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (50 bp):
GTTTATAGTTTAAGGTTTCTATAAACTATATAAGTAATTTACTTTATATA
Found at i:6205 original size:14 final size:14
Alignment explanation
Indices: 6187--6247 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
6177 TAGAGTTTGT
6187 GATTTAGGGTTTAA
1 GATTTAGGGTTTAA
* * *
6201 TATTTAGTGTTTAG
1 GATTTAGGGTTTAA
*
6215 GGTTTAGGGTTTAA
1 GATTTAGGGTTTAA
* *
6229 GATTTAGGTTTTAG
1 GATTTAGGGTTTAA
6243 GATTT
1 GATTT
6248 CTATAAACTA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
GATTTAGGGTTTAA
Found at i:6212 original size:28 final size:27
Alignment explanation
Indices: 6187--6247 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
6177 TAGAGTTTGT
*
6187 GATTTAGGGTTTAATATTTAGTGTTTAG
1 GATTTAGGGTTTAAGATTTAG-GTTTAG
*
6215 GGTTTAGGGTTTAAGATTTAGGTTTTAG
1 GATTTAGGGTTTAAGATTTAGG-TTTAG
6243 GATTT
1 GATTT
6248 CTATAAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (27 bp):
GATTTAGGGTTTAAGATTTAGGTTTAG
Found at i:6227 original size:21 final size:22
Alignment explanation
Indices: 6176--6242 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
6166 TCCATTTATA
6176 TTAGAGTTT-GTGATTTAGGGT
1 TTAGAGTTTAGTGATTTAGGGT
*
6197 TTA-ATATTTAGTG-TTTAGGGT
1 TTAGA-GTTTAGTGATTTAGGGT
* * *
6218 TTAGGGTTTA-AGATTTAGGTT
1 TTAGAGTTTAGTGATTTAGGGT
6239 TTAG
1 TTAG
6243 GATTTCTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 2 0.05
21 32 0.86
22 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
TTAGAGTTTAGTGATTTAGGGT
Found at i:6393 original size:2 final size:2
Alignment explanation
Indices: 6331--6378 Score: 53
Period size: 2 Copynumber: 23.0 Consensus size: 2
6321 TTATATAGTT
*
6331 TA TA TA TA TA TA TGA -A TA TA TA TA TA TA TA AA CTA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
6374 CTA TA
1 -TA TA
6379 CATGGTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 1 0.03
2 35 0.88
3 4 0.10
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:6917 original size:7 final size:7
Alignment explanation
Indices: 6880--6924 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
6870 GGTTTTGTGA
6880 TTTAGGG
1 TTTAGGG
**
6887 TTTAATG
1 TTTAGGG
6894 TTTAGGG
1 TTTAGGG
**
6901 TTTAAAG
1 TTTAGGG
6908 TTTAGGG
1 TTTAGGG
6915 TTTAGGG
1 TTTAGGG
6922 TTT
1 TTT
6925 TTATAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:6924 original size:14 final size:14
Alignment explanation
Indices: 6880--6918 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
6870 GGTTTTGTGA
*
6880 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
6894 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
6908 TTTAGGGTTTA
1 TTTAGGGTTTA
6919 GGGTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:7013 original size:2 final size:2
Alignment explanation
Indices: 7008--7108 Score: 107
Period size: 2 Copynumber: 51.0 Consensus size: 2
6998 TTATATAGTT
** * **
7008 TA TA TA TA TA TA TA GG T- TA TA TA TA CA TA TA TA TA TA GG T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
7048 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
7090 TA TA TT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA -TA TA
7109 CATGGTTTAT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
1 2 0.02
2 78 0.95
3 2 0.02
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7315 original size:608 final size:594
Alignment explanation
Indices: 6547--8179 Score: 2245
Period size: 608 Copynumber: 2.8 Consensus size: 594
6537 ATAAAATTAT
* *
6547 TTAATAAAATT-TTT-AATGTAAATTATATAAA-CATGATTAATTAGGTGTT-AATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
6608 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
6673 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
6738 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACA
196 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGT-CATTTACATTAGTTTACA
6803 TAGGCCCAATACATAAGGCTACTCTTTTATTAC-AA-ATATATGCATTAGTGCTAGTCCATTTAT
260 TAGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
*
6866 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTTTATAA
325 ATTAGG-TTTGTGATTTA-GGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTCTATAA
6931 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
388 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAA-TTA
6996 CTTTATATAGTTTATATATATATATAGGTTATATATACATATATATATAGGTTATATATATATCT
452 CTTTATATAGTTTATATATATATATA-GTT-TATAT--ATATATATATAGGTTATATATATA--T
7061 ATATATATATATATATATATAGATATATATATATTTATATATACTATACATGGTTTATACATACA
511 ATATATATATATATATATAT--ATATATA-AT-TTTATATAT-CTATACATGG-TTATACATACA
7126 TATTATATAAAATTATTTAATAAAA
570 TATTATATAAAATTATTTAATAAAA
*
7151 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATTATTTGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
7216 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
* * *
7281 TAGTAGTTTAGTTGCATGTTAGGTTAATTCACATTAACAGCCTATTTATTTTGTTGTTATGAATA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
*
7346 AGTAATAATAAAACAAAAAAATAAGTCCATTTTCATTAGTGCTAGTGCATTTACATTAGTTTACA
196 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGT-CATTTACATTAGTTTACA
7411 TAGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
260 TAGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
7476 ATTAGGTTT-TG---T--G----A--TTTAGGGTTT-AA---T---GTTTAGGGTTTCTATAAAA
325 ATTAGGTTTGTGATTTAGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTCTATAAAA
7522 TACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAAC--TAT-A--AA--A---
390 TACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTACTT
* *
7577 -GTA-A-TTT-TCT-T-TATATAGTTTATATATATATATATAGGTTATATATATATATATATATA
455 TATATAGTTTATATATATATATAGTTTATATATATATATATAGGTTATATATATATATATATATA
*
7636 TATATATATATATATATAGTTTTATATATCTATACATGGTTATACATACATATTATAT-AAA--A
520 TATATATATATATATATAATTTTATATATCTATACATGGTTATACATACATATTATATAAAATTA
7698 -TT-AT----
585 TTTAATAAAA
7702 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
* * *
7767 GTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTTATATTAATTTCATTTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
*
7832 TAGTATTTTAGTTGAATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
**
7897 AGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTA--G-T-G-------C--TAG------T
196 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCATTTACATTAGTTTACAT
* * * * *
7943 AGGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGTATTAGTGCTAGTCTATTTACA
261 AGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATA
* * *
8008 TTAGAGTTTGTGATTTATGGTTTAATGTTTAGGGTTTAGGGTTTAGGATTTAGGTTTTAGGATTT
326 TTAG-GTTTGTGATTTA-GGTTTAATGTTTAGGGTTTA------AAG-TTTAGGGTTTAGGGTTT
* * * *
8073 CTATAAACTATATAATTTATTACTTTATATCGTTTATGCATAATGTTTCTATAAACTATATAAGT
382 CTATAAAATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGT
* * *
8138 AATCTACTTTATATTGTTTATATAAATATATA-TATATATATA
447 AAT-TACTTTATATAGTTTATATATATATATAGTTTATATATA
8180 GGTTATATAT
Statistics
Matches: 938, Mismatches: 40, Indels: 131
0.85 0.04 0.12
Matches are distributed among these distances:
531 65 0.07
532 4 0.00
533 2 0.00
536 1 0.00
537 3 0.00
539 2 0.00
543 1 0.00
545 10 0.01
547 1 0.00
548 1 0.00
549 1 0.00
551 222 0.24
552 1 0.00
555 2 0.00
556 3 0.00
557 1 0.00
559 64 0.07
560 19 0.02
561 13 0.01
562 10 0.01
563 1 0.00
564 9 0.01
566 21 0.02
567 1 0.00
568 24 0.03
570 5 0.01
571 5 0.01
572 6 0.01
573 4 0.00
574 4 0.00
575 12 0.01
576 7 0.01
577 2 0.00
581 1 0.00
584 2 0.00
586 1 0.00
587 3 0.00
589 66 0.07
592 1 0.00
595 2 0.00
596 10 0.01
598 1 0.00
602 1 0.00
604 11 0.01
605 4 0.00
606 16 0.02
607 18 0.02
608 235 0.25
609 5 0.01
610 34 0.04
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (594 bp):
TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCATTTACATTAGTTTACAT
AGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATA
TTAGGTTTGTGATTTAGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTCTATAAAAT
ACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTACTTT
ATATAGTTTATATATATATATAGTTTATATATATATATATAGGTTATATATATATATATATATAT
ATATATATATATATATAATTTTATATATCTATACATGGTTATACATACATATTATATAAAATTAT
TTAATAAAA
Found at i:7664 original size:2 final size:2
Alignment explanation
Indices: 7597--7653 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
7587 TTATATAGTT
**
7597 TA TA TA TA TA TA TA TA GG T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7638 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
7654 GTTTTATATA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7702 original size:13 final size:13
Alignment explanation
Indices: 7692--7718 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7682 TACATATTAT
7692 ATAAAATTATTTA
1 ATAAAATTATTTA
7705 ATAAAATTATTTA
1 ATAAAATTATTTA
7718 A
1 A
7719 ATGTAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:8044 original size:7 final size:7
Alignment explanation
Indices: 8034--8068 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
8024 ATGGTTTAAT
8034 GTTTAGG
1 GTTTAGG
8041 GTTTAGG
1 GTTTAGG
8048 GTTTAGG
1 GTTTAGG
*
8055 ATTTAGG
1 GTTTAGG
*
8062 TTTTAGG
1 GTTTAGG
8069 ATTTCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:8051 original size:14 final size:14
Alignment explanation
Indices: 8034--8072 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
8024 ATGGTTTAAT
*
8034 GTTTAGGGTTTAGG
1 GTTTAGGATTTAGG
8048 GTTTAGGATTTAGG
1 GTTTAGGATTTAGG
*
8062 TTTTAGGATTT
1 GTTTAGGATTT
8073 CTATAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (14 bp):
GTTTAGGATTTAGG
Found at i:8189 original size:551 final size:533
Alignment explanation
Indices: 7039--8199 Score: 1416
Period size: 551 Copynumber: 2.1 Consensus size: 533
7029 TATACATATA
* * * *
7039 TATATAG-GTTATATATATATCTATATATATATA-TATATATATAGATATATATATATTTATATA
1 TATATAGTTTTATATAAATATATATATATATATATTATATATATATATATATATATATTTATATA
7102 TACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATTTA
66 TACTATACATGGTTTATACATACATATTATATAAAA-TATTTAAT---ATTAATAAAATTATTTA
*
7167 AATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATTATTTGTATGTCACATTGCATATTA
127 AATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTATGTCACATTGCATATTA
* *
7232 TATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCATTAGTAGTTTAGTTGCA
192 TATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTAGTTTAGTTGAA
*
7297 TGTTAGGTTAATTCACATTAACAGCCTATTTATTTTGTTGTTATGAATAAGTAATAATAAAACAA
257 TGTTAGGTTAATTCACATTAACAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACAA
*
7362 AAAAATAAGTCCATTTTCATTAGTGCTAGTGCATTTACATTAGTTTACATAGGCCCAATACATAA
322 AAAAATAAGTCCATTTGC--TAGT-CTAGTG----T-CA-TAG--T---TAGGCCCAATACATAA
* *
7427 GGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATATTAGGTTTTGTGATT
373 GCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATATTAGGTTTTGTGATT
*
7492 TAGGGTTTAATGTTTAGGGTTTCTATAAAATACATAATTTATTACTTTATATAGTTTATGCATAA
438 TAGGGTTTAATGTTTAGGATTTCTATAAAATACATAATTTATTACTTTATATAGTTTATGCATAA
* *
7557 TGTCTCTATAAACTATAAAAGTAATTTTCTT
503 TGTCTCTATAAACTATAAAAGTAATCTACTT
7588 TATATAGTTTATATATATATATATAGGTTATATATATATATATATATATATATATATATATATAT
1 TATATAGTTT-TATATA-A-ATATA---TATATATATATAT-TATATATATATATATATATATAT
*
7653 AGTTTTATATATCTATACATGG-TTATACATACATATTATAT-AAA-A-TT-AT-TTAATAAAAT
59 --TTATATATA-CTATACATGGTTTATACATACATATTATATAAAATATTTAATATTAATAAAAT
7712 TATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTATGTCACATTGC
121 TATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTATGTCACATTGC
* * *
7777 ATATTATATGGTTCATAAATTGTAGTACATGTTATATTAATTTCATTTGCATAATTAGTATTTTA
186 ATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTAGTTTA
*
7842 GTTGAATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATA
251 GTTGAATGTTAGGTTAATTCACATTAACAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATA
**
7907 AAACCCAAAAATAAGTCCATTTGC-A-T-TAGTG-C-TAG-TAGGCCCAATACATAAGCCCACTC
316 AAACAAAAAAATAAGTCCATTTGCTAGTCTAGTGTCATAGTTAGGCCCAATACATAAGCCCACTC
* *
7966 TTTTATTACAAATATATATGTATTAGTGCTAGTCTATTTACATTAGAGTTTGTGATTTATGGTTT
381 TTTTATTACAAATATATATGCATTAGTGCTAGTC------C-----A-TTTAT-A-TTA-GGTTT
* * *
8031 AATGTTTAGGGTTTAGGGTTTAGGATTTAGGTTTTAGGATTTCTATAAACTATATAATTTATTAC
431 --TG--T--GATTTAGGGTTTA--A--T--G-TTTAGGATTTCTATAAAATACATAATTTATTAC
* * *
8096 TTTATATCGTTTATGCATAATGTTTCTATAAACTATATAAGTAATCTACTT
483 TTTATATAGTTTATGCATAATGTCTCTATAAACTATAAAAGTAATCTACTT
*
8147 TATATTG-TTTATATAAATATATATATATATATAGGTTATATATATATACTATA
1 TATATAGTTTTATATAAATATATATATATATATA--TTATATATATATA-TATA
8200 CATGGTTTAT
Statistics
Matches: 539, Mismatches: 30, Indels: 81
0.83 0.05 0.12
Matches are distributed among these distances:
531 55 0.10
537 4 0.01
539 1 0.00
542 1 0.00
543 4 0.01
544 1 0.00
545 8 0.01
546 5 0.01
547 1 0.00
548 3 0.01
549 7 0.01
550 2 0.00
551 224 0.42
552 24 0.04
553 16 0.03
554 6 0.01
555 7 0.01
556 16 0.03
557 7 0.01
558 25 0.05
559 85 0.16
560 27 0.05
561 10 0.02
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (533 bp):
TATATAGTTTTATATAAATATATATATATATATATTATATATATATATATATATATATTTATATA
TACTATACATGGTTTATACATACATATTATATAAAATATTTAATATTAATAAAATTATTTAAATG
TAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTATGTCACATTGCATATTATATG
GTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTAGTTTAGTTGAATGTT
AGGTTAATTCACATTAACAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACAAAAAA
ATAAGTCCATTTGCTAGTCTAGTGTCATAGTTAGGCCCAATACATAAGCCCACTCTTTTATTACA
AATATATATGCATTAGTGCTAGTCCATTTATATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGG
ATTTCTATAAAATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATAA
AAGTAATCTACTT
Found at i:8398 original size:15 final size:14
Alignment explanation
Indices: 8361--8389 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8351 GACCTATTAT
8361 ATAAAATTA-TTTA
1 ATAAAATTATTTTA
8374 ATAAAATTATTTTA
1 ATAAAATTATTTTA
8388 AT
1 AT
8390 GTAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTTTA
Found at i:8713 original size:7 final size:7
Alignment explanation
Indices: 8701--8731 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
8691 GGGTTTGTGT
8701 TTTAGGG
1 TTTAGGG
8708 TTTAGGG
1 TTTAGGG
8715 TTTAGGG
1 TTTAGGG
8722 TTTAGGG
1 TTTAGGG
8729 TTT
1 TTT
8732 CTATAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:8833 original size:15 final size:14
Alignment explanation
Indices: 8806--8852 Score: 69
Period size: 15 Copynumber: 3.3 Consensus size: 14
8796 TAATTTACTT
8806 TATATA-GTTTATA
1 TATATAGGTTTATA
8819 TATATAGGTTATATA
1 TATATAGGTT-TATA
8834 TATATATGGTTTATA
1 TATATA-GGTTTATA
8849 TATA
1 TATA
8853 CTATACATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.19
14 3 0.10
15 18 0.58
16 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (14 bp):
TATATAGGTTTATA
Found at i:8837 original size:17 final size:16
Alignment explanation
Indices: 8815--8857 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 16
8805 TTATATAGTT
8815 TATATATATAGG-TTA
1 TATATATATAGGTTTA
8830 TATATATATATGGTTTA
1 TATATATATA-GGTTTA
8847 TATATACTATA
1 TATATA-TATA
8858 CATGGTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.40
16 2 0.08
17 9 0.36
18 4 0.16
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (16 bp):
TATATATATAGGTTTA
Found at i:8862 original size:20 final size:20
Alignment explanation
Indices: 8828--8873 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
8818 ATATATAGGT
*
8828 TATATA-TATATATGGTTTA
1 TATATACTATACATGGTTTA
8847 TATATACTATACATGGTTTA
1 TATATACTATACATGGTTTA
*
8867 TACATAC
1 TATATAC
8874 ATATTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (20 bp):
TATATACTATACATGGTTTA
Found at i:9268 original size:21 final size:21
Alignment explanation
Indices: 9244--9296 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
9234 AGGGTTCAAT
*
9244 GTTTAGTGTTTATGA-TTTAGG
1 GTTTAGTGTTTA-CATTTTAGG
9265 GTTTA-TAGTTTACATTTTAGG
1 GTTTAGT-GTTTACATTTTAGG
*
9286 GTTTAGGGTTT
1 GTTTAGTGTTT
9297 CTATAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.53
Consensus pattern (21 bp):
GTTTAGTGTTTACATTTTAGG
Found at i:9726 original size:518 final size:514
Alignment explanation
Indices: 8355--9909 Score: 1776
Period size: 518 Copynumber: 3.0 Consensus size: 514
8345 TAAATAGACC
*
8355 TATTATATAAAATTATTTAATAAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGT
1 TATTATATAAAATTATTTAAT-AAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGT
8420 GTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTA
65 GTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTA
* *
8485 ATTTCATTTGCATCATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCTATTTAT
130 ATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTAT
*
8550 TTTGTTGTTA-GAATAA-TAATAATAAAA-CAAAAAATAAGTCCATTTGCATTATGCTACCATTT
195 TTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTTCATTTGCATTATG--------T
8612 ACATTAGGTTACATAGGCCCAATACATAAGCCAACTCTTTTATTAC--A-ATATATGCATTAGTG
252 ACA-TA-G-T---TAGGCCCAATACATAAGCC-ACTCTTTTATTACAAATATATATGCATTAGTG
* * * ** * **
8674 CTAGTCCATTTATAATTGGGTTTGTGTTTTAGGGTTTAGGGTTTAGGGTTTAGGGTTTCTATAAA
310 CTAGTCCATTTA-CATTAGGTTTGTGATTTAGGGTTTAATGTTTAGGGTTTA-GG-AT-T-TAGG
* ** * ** ** * * *
8739 CTACATAATTTATTACTTTATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTAC
370 GTTTATAGTTTAGCA-TTT-TAGGGTTTA-G-----GGTTTCTATAAACTATATAATTTA-TTAC
* *
8804 TTTATATAGTTTAT--AT-A-----TAT-AGGT-TAT-A-T-A--TA---TATATGGTTTATATA
426 TTTATATAGTTTATGCATAATGTTCTATAAGCTATATAAGTAATTTACTTTATATAGTTTATATA
8851 TACTATACATGGTTTATACATACA
491 TACTATACATGGTTTATACATACA
*
8875 TATTATATAAAATTATTTAATAAATTATTTAAATGTAAACTATATAAAACATGATTAATTAGGTG
1 TATTATATAAAATTATTTAATAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTG
* *
8940 TTAAATAATTAGTATGCCATATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAA
66 TTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAA
*
9005 TTTCATTTGCATAATTAGTATTTTAGTTTCATGTTAGGTTAATTCACATTAATAGCCC-TTTATT
131 TTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATT
* *
9069 TTGTTGTTATGAATAAGTAATAATAAAACAAAAAAAAAATTAGTTCATTTGCATTGGTTCTATTC
196 TTGTTGTTATGAATAAGTAATAATAAAAC---CAAAAAATAAGTTCA--T---TT-G--C-ATT-
* *
9134 CATTTACATTAGTTTACATAGGCCCAATACATAATCCCACTCTTTTATTACAAATATATATGCAT
248 -ATGTACA-TAG--T---TAGGCCCAATACATAA-GCCACTCTTTTATTACAAATATATATGCAT
* ** * * *
9199 TAGTGCTAGTTCATTTACATTATGGTTTGCAATTTAGGGTTCAATGTTTAGTGTTTATGATTTAG
305 TAGTGCTAGTCCATTTACATTA-GGTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAGGATTTAG
9264 GGTTTATAGTTTA-CATTTTAGGGTTTAGGGTTTCTATAAACTATATAATTTATTACTTTATATA
369 GGTTTATAGTTTAGCATTTTAGGGTTTAGGGTTTCTATAAACTATATAATTTATTACTTTATATA
* *
9328 GTTTATGCATAATGCTTCTGTAAACTATATAAGTAATTTACTTTATATAG-TTATATATACTATA
434 GTTTATGCATAATG-TTCTATAAGCTATATAAGTAATTTACTTTATATAGTTTATATATACTATA
9392 CATGGTTTATACATACA
498 CATGGTTTATACATACA
9409 TATTATATAAATTATTTAATTAAATTAATAAATTATTTAAATGT-AATTATAT-AAACATGATTA
1 TATTATATAAA--A-TT-A-T---TTAATAAATTATTTAAATGTAAATTATATAAAACATGATTA
*
9472 ATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGT
58 ATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGT
9537 CATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCC
123 CATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCC
* * * *
9602 CATTTATTTTGTTTTTATGAACAAGTAATAATAAAACCCAAAAATAAGTTCATTTGCATTA-GTG
188 CATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTTCATTTGCATTATGTA
* *
9666 C-TAG-TAGGTCCAATACATAAGCTCACTCTTTTATTACAAATATATATGCATTACTGCTAGTCC
253 CATAGTTAGGCCCAATACATAAGC-CACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCC
* * *
9729 ATTTACATTAGAGTTTGTGATTTAGGGTTTAATATTTAGGGTTTAGGGTTTAGGGTTTA-GGATT
317 ATTTACATTAG-GTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAGGATTTAGGGTTTATAG-TT
* * * * *
9793 TAGGA-TTTAGGATTTAGGATTTTTATAAACTATATAATTTATTACTTTATATAGTTTTTGCATA
380 TAGCATTTTAGGGTTTAGGGTTTCTATAAACTATATAATTTATTACTTTATATAGTTTATGCATA
9857 ATGTTTCTATAAGCTATATAAGTAATTTACTTTATATAGTTTATATATA-TATA
445 ATG-TTCTATAAGCTATATAAGTAATTTACTTTATATAGTTTATATATACTATA
9910 TATATATTTA
Statistics
Matches: 907, Mismatches: 72, Indels: 114
0.83 0.07 0.10
Matches are distributed among these distances:
516 18 0.02
517 24 0.03
518 219 0.24
519 177 0.20
520 32 0.04
522 1 0.00
523 7 0.01
524 18 0.02
525 3 0.00
526 16 0.02
527 46 0.05
528 4 0.00
529 11 0.01
530 56 0.06
532 4 0.00
533 5 0.01
534 42 0.05
535 8 0.01
536 2 0.00
537 2 0.00
538 13 0.01
539 1 0.00
540 138 0.15
541 40 0.04
542 20 0.02
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (514 bp):
TATTATATAAAATTATTTAATAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTG
TTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAA
TTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATT
TTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTTCATTTGCATTATGTACATAGTTA
GGCCCAATACATAAGCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTACATT
AGGTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAGGATTTAGGGTTTATAGTTTAGCATTTTAG
GGTTTAGGGTTTCTATAAACTATATAATTTATTACTTTATATAGTTTATGCATAATGTTCTATAA
GCTATATAAGTAATTTACTTTATATAGTTTATATATACTATACATGGTTTATACATACA
Found at i:9773 original size:7 final size:7
Alignment explanation
Indices: 9747--9814 Score: 82
Period size: 7 Copynumber: 9.7 Consensus size: 7
9737 TAGAGTTTGT
9747 GATTTAG
1 GATTTAG
* *
9754 GGTTTAA
1 GATTTAG
*
9761 TATTTAG
1 GATTTAG
*
9768 GGTTTAG
1 GATTTAG
*
9775 GGTTTAG
1 GATTTAG
*
9782 GGTTTAG
1 GATTTAG
9789 GATTTAG
1 GATTTAG
9796 GATTTAG
1 GATTTAG
9803 GATTTAG
1 GATTTAG
9810 GATTT
1 GATTT
9815 TTATAAACTA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (7 bp):
GATTTAG
Found at i:9787 original size:21 final size:21
Alignment explanation
Indices: 9747--9814 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
9737 TAGAGTTTGT
**
9747 GATTTAGGGTTTAATATTTAG
1 GATTTAGGGTTTAGGATTTAG
* *
9768 GGTTTAGGGTTTAGGGTTTAG
1 GATTTAGGGTTTAGGATTTAG
*
9789 GATTTAGGATTTAGGATTTAG
1 GATTTAGGGTTTAGGATTTAG
9810 GATTT
1 GATTT
9815 TTATAAACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
GATTTAGGGTTTAGGATTTAG
Found at i:9814 original size:14 final size:14
Alignment explanation
Indices: 9747--9810 Score: 92
Period size: 14 Copynumber: 4.6 Consensus size: 14
9737 TAGAGTTTGT
*
9747 GATTTAGGGTTTAA
1 GATTTAGGGTTTAG
*
9761 TATTTAGGGTTTAG
1 GATTTAGGGTTTAG
*
9775 GGTTTAGGGTTTAG
1 GATTTAGGGTTTAG
*
9789 GATTTAGGATTTAG
1 GATTTAGGGTTTAG
9803 GATTTAGG
1 GATTTAGG
9811 ATTTTTATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
GATTTAGGGTTTAG
Found at i:9946 original size:21 final size:21
Alignment explanation
Indices: 9904--9964 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
9894 AGTTTATATA
** **
9904 TATATATATATATTTAAAGTT
1 TATATATATATATACATGGTT
9925 TATATATATATATACATGGTT
1 TATATATATATATACATGGTT
*
9946 TATATACATAT-TACCATGG
1 TATATATATATATA-CATGG
9965 ACGAAATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (21 bp):
TATATATATATATACATGGTT
Found at i:10450 original size:14 final size:14
Alignment explanation
Indices: 10433--10480 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10423 TAGGTTTAAT
*
10433 GTTTAGTTTTTATG
1 GTTTAGATTTTATG
**
10447 GTTTAGGGTTTATG
1 GTTTAGATTTTATG
* *
10461 GTTTACATTTTAGG
1 GTTTAGATTTTATG
10475 GTTTAG
1 GTTTAG
10481 GGTTTCTATA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (14 bp):
GTTTAGATTTTATG
Found at i:10574 original size:2 final size:2
Alignment explanation
Indices: 10569--10644 Score: 125
Period size: 2 Copynumber: 37.0 Consensus size: 2
10559 TTATATAGTT
10569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
10611 TA TA TA TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
10645 CATGGTTTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 67 0.96
3 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10689 original size:23 final size:25
Alignment explanation
Indices: 10663--10721 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 25
10653 ATACATACAT
10663 ATTATATAAAATTATTTAA-T-AAA
1 ATTATATAAAATTATTTAATTGAAA
*
10686 ATTA-ATAAAAATTATTTAATTGTAA
1 ATTATAT-AAAATTATTTAATTGAAA
10711 ATTATATAAAA
1 ATTATATAAAA
10722 CATGATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 2 0.06
23 16 0.52
24 1 0.03
25 10 0.32
26 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTATATAAAATTATTTAATTGAAA
Found at i:10730 original size:26 final size:25
Alignment explanation
Indices: 10684--10732 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
10674 TTATTTAATA
*
10684 AAATTAATAAAAATTATTTAATTGT
1 AAATTAATAAAAATGATTTAATTGT
10709 AAATTATATAAAACATGA-TTAATT
1 AAATTA-ATAAAA-ATGATTTAATT
10733 AGGTGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 12 0.57
27 3 0.14
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (25 bp):
AAATTAATAAAAATGATTTAATTGT
Found at i:11054 original size:21 final size:21
Alignment explanation
Indices: 11007--11050 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
10997 GAGTTTTTGA
11007 TTTAGGGTTTAATGTTTAGTG
1 TTTAGGGTTTAATGTTTAGTG
11028 TTTAGGGTTT-ATGGTTTAG-G
1 TTTAGGGTTTAAT-GTTTAGTG
11048 TTT
1 TTT
11051 TAGGATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.55
Consensus pattern (21 bp):
TTTAGGGTTTAATGTTTAGTG
Found at i:11353 original size:15 final size:14
Alignment explanation
Indices: 11316--11344 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11306 TACCTATTAT
11316 ATAAAATTA-TTTA
1 ATAAAATTATTTTA
11329 ATAAAATTATTTTA
1 ATAAAATTATTTTA
11343 AT
1 AT
11345 GTAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTTTA
Found at i:11698 original size:13 final size:14
Alignment explanation
Indices: 11665--11702 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
11655 GGTTTTGTGA
*
11665 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
11679 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
11693 -TTAGGGTTTA
1 TTTAGGGTTTA
11703 GGGTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:11801 original size:15 final size:16
Alignment explanation
Indices: 11781--11815 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
11771 TAATTTACTT
11781 TATAGTTTATATATA-
1 TATAGTTTATATATAC
11796 TATAGTTTATATATAC
1 TATAGTTTATATATAC
11812 TATA
1 TATA
11816 CATGGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (16 bp):
TATAGTTTATATATAC
Found at i:12213 original size:14 final size:14
Alignment explanation
Indices: 12196--12229 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12186 GGTTTTGTGA
*
12196 TTTAGGGTGTAATG
1 TTTAGGGTGTAAAG
*
12210 TTTAGGGTTTAAAG
1 TTTAGGGTGTAAAG
12224 TTTAGG
1 TTTAGG
12230 ATTTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
TTTAGGGTGTAAAG
Found at i:12329 original size:2 final size:2
Alignment explanation
Indices: 12324--12363 Score: 53
Period size: 2 Copynumber: 19.0 Consensus size: 2
12314 TTATATAGTT
*
12324 TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
12364 CATGGTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 31 0.91
3 3 0.09
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12340 original size:531 final size:533
Alignment explanation
Indices: 11326--12878 Score: 2267
Period size: 531 Copynumber: 2.9 Consensus size: 533
11316 ATAAAATTAT
* * * *
11326 TTAATAAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
11391 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
11456 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
131 TAGTA-TTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
11521 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCTTTTACATTAGTTTACA
195 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCC-TTTACATTAGTTTACA
11586 TAGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
259 TAGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
*
11651 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAG-TTAGGGTTTAGGGTTTTTAT-A
324 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGATTTAGGGTTTTTATAA
11714 AATACATAATTTA-TACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
389 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
11778 C-TT-TATAGTTTATATATATATAGTTTATATATACTATACATGG-TTATACATACATATTATAT
454 CTTTATATAGTTTATATATATATA--TTATATATACTATACATGGTTTATACATACATATTATAT
11840 AAAATTATTTAATAAAA
517 AAAATTATTTAATAAAA
11857 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
11922 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
*
11987 TAGTAGTTTAGTTGCATGTTAGGTTAATTCACATTAACAGCCCATTTATTTTGTTGTTATGAATA
131 TAGTA-TTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
*
12052 AGTAATAATAAAACAAAAAAATAAGTCCATTTTCATTAGTGCTAGTCCATTTACATTAGTTTACA
195 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCC-TTTACATTAGTTTACA
*
12117 TAGGCCCAATAAATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
259 TAGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
* *
12182 ATTAGGTTTTGTGATTTAGGGTGTAATGTTTAGGGTTTAAAGTTTAGGATTTAGGGTTTCTATAA
324 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGATTTAGGGTTTTTATAA
12247 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
389 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
12312 CTTTATATAGTTTATATATATATATATATATATATAGTTTATATATACTATACATGGTTTATACA
454 CTTTATATAG----------T-T-TATATATATATA--TTATATATACTATACATGGTTTATACA
12377 TACATATTATATAAAATTATTTAATAAAA
505 TACATATTATATAAAATTATTTAATAAAA
12406 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
* * *
12471 GTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTTATATTAATTTCATTTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
* *
12536 TA-TATTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTA-TTTGTTTTTATGAACAA
131 TAGTATTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAA
** *
12599 GTAATAATAAAACCCAAAAATAAGTTCATTTGCATTA--G-T-G-------C--TAG------TA
196 GTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCTTTACATTAGTTTACATA
* * *
12645 GGTCCAATACATAA-GCTCACTCTTTTATTAC-AA-ATATATGCATTACTGCTAGTCCATTTACA
261 GGCCCAATACATAAGGCT-ACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATA
*
12707 TTAGAG--TTGTGATTTAGGGTTTAATATTTAGGTTTAGGGTTTAGGATTTAGGATTTAGGTTTT
325 TTAG-GTTTTGTGATTTAGGGTTT-A-A--T--GTTTAGGGTTTA--A---A-G-TTTAGGATTT
* * * * * *
12770 AGGATTTTTTATAAACTATATAATTTATTACTTTATATAGTTTTTGCATAATGTTTTCTATAAGC
376 AGG-GTTTTTATAAAATACATAATTTATTACTTTATATAGTTTATGCATAATG-TCTCTATAAAC
*
12835 TATATAA-TAATTTACTTTATAT-GTTTATATATATGTA-TATATAT
439 TATATAAGTAATTTACTTTATATAGTTTATATATATATATTATATAT
12879 TTAAGTTTAT
Statistics
Matches: 951, Mismatches: 36, Indels: 80
0.89 0.03 0.07
Matches are distributed among these distances:
521 7 0.01
523 15 0.02
524 43 0.05
525 8 0.01
526 28 0.03
527 1 0.00
529 12 0.01
531 358 0.38
532 21 0.02
533 14 0.01
534 54 0.06
535 3 0.00
536 18 0.02
537 59 0.06
538 16 0.02
542 1 0.00
543 1 0.00
544 1 0.00
546 49 0.05
547 42 0.04
548 35 0.04
549 165 0.17
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (533 bp):
TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
TAGTATTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAA
GTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCTTTACATTAGTTTACATA
GGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATAT
TAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGATTTAGGGTTTTTATAAAA
TACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTACT
TTATATAGTTTATATATATATATTATATATACTATACATGGTTTATACATACATATTATATAAAA
TTATTTAATAAAA
Found at i:12744 original size:20 final size:21
Alignment explanation
Indices: 12717--12776 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
12707 TTAGAGTTGT
*
12717 GATTTAGGGTTTAATATTTAG
1 GATTTAGGGTTTAAGATTTAG
*
12738 G-TTTAGGGTTTAGGATTTAG
1 GATTTAGGGTTTAAGATTTAG
* *
12758 GATTTAGGTTTTAGGATTT
1 GATTTAGGGTTTAAGATTT
12777 TTTATAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (21 bp):
GATTTAGGGTTTAAGATTTAG
Found at i:12747 original size:7 final size:7
Alignment explanation
Indices: 12717--12776 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
12707 TTAGAGTTGT
12717 GATTTAG
1 GATTTAG
* *
12724 GGTTTAA
1 GATTTAG
*
12731 TATTTAG
1 GATTTAG
12738 G-TTTAG
1 GATTTAG
*
12744 GGTTTAG
1 GATTTAG
12751 GATTTAG
1 GATTTAG
12758 GATTTAG
1 GATTTAG
*
12765 GTTTTAG
1 GATTTAG
12772 GATTT
1 GATTT
12777 TTTATAAACT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
6 6 0.14
7 37 0.86
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GATTTAG
Found at i:12906 original size:549 final size:541
Alignment explanation
Indices: 11779--12911 Score: 1513
Period size: 549 Copynumber: 2.1 Consensus size: 541
11769 AGTAATTTAC
11779 TTTATAGTTTATATATATATAGTTTATATATACTATACATGGTTATACATACATATTATATAAAA
1 TTTA-AGTTTATATATATATA--TTATATATACTATACATGGTTATACATACATATTATATAAAA
11844 TTATTTAATAAAATTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTT
63 TTATTTAATAAAATTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTT
11909 AAATAATTTGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATT
128 AAATAATTTGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATT
*
11974 TCATTTGCATCATTAGTAGTTTAGTTGCATGTTAGGTTAATTCACATTAACAGCCCATTTATTTT
193 TCATTTGCATAATTAGTAGTTTAGTTGCATGTTAGGTTAATTCACATTAACAGCCCATTTATTTT
* *
12039 GTTGTTATGAATAAGTAATAATAAAACAAAAAAATAAGTCCATTTTCATTAGTGCTAGTCCATTT
258 GTTGTTATGAACAAGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAG-GCTAG------T
*
12104 ACATTAGTTTACATAGGCCCAATAAATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTG
316 -CA-TAG--T---TAGGCCCAATAAATAAGGCTACTCTTTTATTACAAATATATATGCATTACTG
*
12169 CTAGTCCATTTATATTAGGTTTTGTGATTTAGGGTGTAATGTTTAGGGTTTAAAGTTTAGGATTT
374 CTAGTCCATTTACATTAGG-TTTGTGATTTAGGGTGTAATGTTTAGGGTTTAAAGTTTAGGATTT
12234 AGGGTTTCTATAAAATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTA
438 AGGGTTTCTATAAAATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTA
12299 TATAAGTAATTTACTTTATATAGTTTATATATATATATA
503 TATAAGTAATTTACTTTATATAGTTTATATATATATATA
*
12338 --T-A---TATATATA-GT-TTATATATACTATACATGGTTTATACATACATATTATATAAAATT
1 TTTAAGTTTATATATATATATTATATATACTATACATGG-TTATACATACATATTATATAAAATT
12395 ATTTAATAAAATTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAA
65 ATTTAATAAAATTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAA
* *
12460 ATAATTTGTATGTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTTATATTAATTTC
130 ATAATTTGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTC
*
12525 ATTTGCATAATTA-TA-TTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTA-TTTGT
195 ATTTGCATAATTAGTAGTTTAGTTGCATGTTAGGTTAATTCACATTAACAGCCCATTTATTTTGT
* ** *
12587 TTTTATGAACAAGTAATAATAAAACCCAAAAATAAGTTCATTTGCATTA-G-T-G-C-TAG-TAG
260 TGTTATGAACAAGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGGCTAGTCATAGTTAG
* *
12646 GTCCAATACATAA-GCTCACTCTTTTATTAC-AA-ATATATGCATTACTGCTAGTCCATTTACAT
325 GCCCAATAAATAAGGCT-ACTCTTTTATTACAAATATATATGCATTACTGCTAGTCCATTTACAT
* *
12708 TAGAG-TTGTGATTTAGGGTTTAATATTTAGGTTTAGGGTTTAGGATTTAGGATTTAGGTTTTAG
389 TAG-GTTTGTGATTTAGGGTGT-A-A--T--GTTTAGGGTTTA--A---A-G-TTTAGGATTTAG
* * * * * * *
12772 GATTTTTTATAAACTATATAATTTATTACTTTATATAGTTTTTGCATAATGTTTTCTATAAGCTA
440 G-GTTTCTATAAAATACATAATTTATTACTTTATATAGTTTATGCATAATG-TCTCTATAAACTA
12837 TATAA-TAATTTACTTTATAT-GTTTATATATATGTATATATA
503 TATAAGTAATTTACTTTATATAG-TT-TATATA--TATATATA
12878 TTTAAGTTTATATATATATATATATATATA-TATA
1 TTTAAGTTTATATATATATAT-TATATATACTATA
12912 TATATATATA
Statistics
Matches: 518, Mismatches: 25, Indels: 73
0.84 0.04 0.12
Matches are distributed among these distances:
523 15 0.03
524 32 0.06
525 7 0.01
526 27 0.05
527 1 0.00
529 12 0.02
531 1 0.00
532 3 0.01
534 2 0.00
535 1 0.00
536 13 0.03
537 61 0.12
538 22 0.04
540 8 0.02
542 2 0.00
543 2 0.00
544 1 0.00
546 56 0.11
547 42 0.08
548 26 0.05
549 173 0.33
551 1 0.00
552 8 0.02
555 1 0.00
557 1 0.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (541 bp):
TTTAAGTTTATATATATATATTATATATACTATACATGGTTATACATACATATTATATAAAATTA
TTTAATAAAATTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAA
TAATTTGTATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCA
TTTGCATAATTAGTAGTTTAGTTGCATGTTAGGTTAATTCACATTAACAGCCCATTTATTTTGTT
GTTATGAACAAGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGGCTAGTCATAGTTAGG
CCCAATAAATAAGGCTACTCTTTTATTACAAATATATATGCATTACTGCTAGTCCATTTACATTA
GGTTTGTGATTTAGGGTGTAATGTTTAGGGTTTAAAGTTTAGGATTTAGGGTTTCTATAAAATAC
ATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTACTTTA
TATAGTTTATATATATATATA
Found at i:12964 original size:2 final size:2
Alignment explanation
Indices: 12860--12949 Score: 137
Period size: 2 Copynumber: 45.0 Consensus size: 2
12850 TTTATATGTT
* * *
12860 TA TA TA TA TG TA TA TA TA TT TA -A GTT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
12902 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12944 TA TA TA
1 TA TA TA
12950 CATGGTTTAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.01
2 79 0.99
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13486 original size:28 final size:28
Alignment explanation
Indices: 13455--13520 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
13445 GGGTTTGTGA
** *
13455 TTTAGGGTTTA-ATGTTTAGTTTTTATGG
1 TTTAGGGTTTATA-GTTTACATTTTAGGG
13483 TTTAGGGTTTATAGTTTACATTTTAGGG
1 TTTAGGGTTTATAGTTTACATTTTAGGG
13511 TTTAGGGTTT
1 TTTAGGGTTT
13521 CTATAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.26, T:0.55
Consensus pattern (28 bp):
TTTAGGGTTTATAGTTTACATTTTAGGG
Found at i:13492 original size:21 final size:22
Alignment explanation
Indices: 13442--13493 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
13432 TCTATTTACA
13442 TTAGGGTTT-GTGATTTAGGGT
1 TTAGGGTTTAGTGATTTAGGGT
** * *
13463 TTAATGTTTAGT-TTTTATGGT
1 TTAGGGTTTAGTGATTTAGGGT
13484 TTAGGGTTTA
1 TTAGGGTTTA
13494 TAGTTTACAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (22 bp):
TTAGGGTTTAGTGATTTAGGGT
Found at i:13494 original size:14 final size:14
Alignment explanation
Indices: 13442--13520 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
13432 TCTATTTACA
* *
13442 TTAGGGTTTGTGAT
1 TTAGGGTTTATGGT
13456 TTAGGGTTTAAT-GT
1 TTAGGGTTT-ATGGT
**
13470 TTAGTTTTTATGGT
1 TTAGGGTTTATGGT
*
13484 TTAGGGTTTATAGT
1 TTAGGGTTTATGGT
*** *
13498 TTACATTTTAGGGT
1 TTAGGGTTTATGGT
13512 TTAGGGTTT
1 TTAGGGTTT
13521 CTATAAACTA
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
13 2 0.04
14 45 0.94
15 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.28, T:0.53
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:13610 original size:2 final size:2
Alignment explanation
Indices: 13605--13666 Score: 97
Period size: 2 Copynumber: 30.0 Consensus size: 2
13595 TTATATAGTT
13605 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
13647 TA TA GTT TA TA TA TA CTA TA
1 TA TA -TA TA TA TA TA -TA TA
13667 CATGGTTTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 53 0.95
3 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13735 original size:22 final size:21
Alignment explanation
Indices: 13685--13737 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
13675 ATACATACAT
13685 ATTATAAAATTATTTAATAAA
1 ATTATAAAATTATTTAATAAA
* *
13706 ATTAATAAAATTATTTATTGTAA
1 ATT-ATAAAATTATTTAAT-AAA
13729 ATTATAAAA
1 ATTATAAAA
13738 CATGATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 20 0.71
23 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTATAAAATTATTTAATAAA
Found at i:14070 original size:21 final size:21
Alignment explanation
Indices: 14023--14066 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
14013 GAGTTTTTGA
14023 TTTAGGGTTTAATGTTTAGTG
1 TTTAGGGTTTAATGTTTAGTG
14044 TTTAGGGTTT-ATGGTTTAG-G
1 TTTAGGGTTTAAT-GTTTAGTG
14064 TTT
1 TTT
14067 TAGGATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.55
Consensus pattern (21 bp):
TTTAGGGTTTAATGTTTAGTG
Found at i:14371 original size:15 final size:14
Alignment explanation
Indices: 14334--14362 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14324 TACCTATTAT
14334 ATAAAATTA-TTTA
1 ATAAAATTATTTTA
14347 ATAAAATTATTTTA
1 ATAAAATTATTTTA
14361 AT
1 AT
14363 GTAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTTTA
Found at i:14720 original size:7 final size:7
Alignment explanation
Indices: 14683--14727 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
14673 GGTTTTGTGA
14683 TTTAGGG
1 TTTAGGG
**
14690 TTTAATG
1 TTTAGGG
14697 TTTAGGG
1 TTTAGGG
**
14704 TTTAAAG
1 TTTAGGG
14711 TTTAGGG
1 TTTAGGG
14718 TTTAGGG
1 TTTAGGG
14725 TTT
1 TTT
14728 TTATAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:14727 original size:14 final size:14
Alignment explanation
Indices: 14683--14721 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
14673 GGTTTTGTGA
*
14683 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
14697 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
14711 TTTAGGGTTTA
1 TTTAGGGTTTA
14722 GGGTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:14813 original size:2 final size:2
Alignment explanation
Indices: 14808--14868 Score: 70
Period size: 2 Copynumber: 30.0 Consensus size: 2
14798 TTATATAGTT
**
14808 TA TA TA TA TA TA TA TA TA GG T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
14849 TA TA GTT TA TA TA TA CTA TA
1 TA TA -TA TA TA TA TA -TA TA
14869 CATGGTTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
1 1 0.02
2 47 0.92
3 3 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14825 original size:21 final size:21
Alignment explanation
Indices: 14799--14868 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
14789 TAATTTACTT
14799 TATATAGTTTATATATATATA
1 TATATAGTTTATATATATATA
*
14820 TATATAGGTTATATATATATA
1 TATATAGTTTATATATATATA
* *
14841 TATATA-TATATAGTTTATATA
1 TATATAGTTTATA-TATATATA
14862 TACTATA
1 TA-TATA
14869 CATGGTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 4 0.09
21 35 0.81
22 4 0.09
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (21 bp):
TATATAGTTTATATATATATA
Found at i:14838 original size:27 final size:27
Alignment explanation
Indices: 14808--14868 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 27
14798 TTATATAGTT
14808 TATATATATATATATATAGGTTATATA
1 TATATATATATATATATAGGTTATATA
*
14835 TATATATATATATATATAGTTTATATA
1 TATATATATATATATATAGGTTATATA
14862 TACTATA
1 TA-TATA
14869 CATGGTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (27 bp):
TATATATATATATATATAGGTTATATA
Found at i:14916 original size:9 final size:10
Alignment explanation
Indices: 14887--14920 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
14877 ATACATACAT
14887 TTATATAAAA
1 TTATATAAAA
14897 TTATTATAAAA
1 TTA-TATAAAA
14908 TTA-ATAAAA
1 TTATATAAAA
14917 TTAT
1 TTAT
14921 TTAATGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.41
10 3 0.14
11 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTATATAAAA
Found at i:15263 original size:14 final size:14
Alignment explanation
Indices: 15246--15278 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15236 GGTTTTGTGA
*
15246 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
15260 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
15274 TTTAG
1 TTTAG
15279 TTTAGGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:15308 original size:23 final size:21
Alignment explanation
Indices: 15259--15314 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 21
15249 AGGGTTTAAT
15259 GTTTAGGG-TT-TAAAGTTTA
1 GTTTAGGGTTTCTAAAGTTTA
15278 GTTTAGGGTTTCTAAAGTTTA
1 GTTTAGGGTTTCTAAAGTTTA
15299 GGGTTTAGGGTTTCTA
1 --GTTTAGGGTTTCTA
15315 TAAAATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.24
20 2 0.06
21 9 0.27
23 14 0.42
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (21 bp):
GTTTAGGGTTTCTAAAGTTTA
Found at i:15399 original size:2 final size:2
Alignment explanation
Indices: 15394--15452 Score: 91
Period size: 2 Copynumber: 29.0 Consensus size: 2
15384 TTATATAGTT
15394 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
**
15436 TA CC TA TA TA TA CTA TA
1 TA TA TA TA TA TA -TA TA
15453 CATGGTTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 50 0.96
3 2 0.04
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15820 original size:14 final size:15
Alignment explanation
Indices: 15798--15855 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
15788 TCCATTTACA
*
15798 TTAGAGTTT-GTGAT
1 TTAGGGTTTAGTGAT
*
15812 TTAGGGTTTAAT-AT
1 TTAGGGTTTAGTGAT
*
15826 TTAGGGTTTAG-GGT
1 TTAGGGTTTAGTGAT
15840 TTAGGGTTTAG-GAT
1 TTAGGGTTTAGTGAT
15854 TT
1 TT
15856 TTATAAACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 36 0.97
15 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (15 bp):
TTAGGGTTTAGTGAT
Found at i:15835 original size:7 final size:7
Alignment explanation
Indices: 15811--15851 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
15801 GAGTTTGTGA
15811 TTTAGGG
1 TTTAGGG
***
15818 TTTAATA
1 TTTAGGG
15825 TTTAGGG
1 TTTAGGG
15832 TTTAGGG
1 TTTAGGG
15839 TTTAGGG
1 TTTAGGG
15846 TTTAGG
1 TTTAGG
15852 ATTTTTATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:16007 original size:2 final size:2
Alignment explanation
Indices: 15939--15992 Score: 54
Period size: 2 Copynumber: 26.0 Consensus size: 2
15929 TTATATAGTT
* * * *
15939 TA TA TA TA TA TG TA TA TA TA TA TT TA AA GTT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
15982 TA TA TA CTA TA
1 TA TA TA -TA TA
15993 CATGGTTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16185 original size:15 final size:14
Alignment explanation
Indices: 16148--16176 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16138 TATACCTATT
16148 ATAAAATTA-TTTA
1 ATAAAATTATTTTA
16161 ATAAAATTATTTTA
1 ATAAAATTATTTTA
16175 AT
1 AT
16177 GTAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTTTA
Found at i:16528 original size:28 final size:28
Alignment explanation
Indices: 16497--16562 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
16487 GGGTTTGTGA
** *
16497 TTTAGGGTTTAAT-GTTTAGTTTTTATGG
1 TTTAGGGTTT-ATGGTTTACATTTTAGGG
16525 TTTAGGGTTTATGGTTTACATTTTAGGG
1 TTTAGGGTTTATGGTTTACATTTTAGGG
16553 TTTAGGGTTT
1 TTTAGGGTTT
16563 CTATAAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.06
28 32 0.94
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.55
Consensus pattern (28 bp):
TTTAGGGTTTATGGTTTACATTTTAGGG
Found at i:16536 original size:14 final size:14
Alignment explanation
Indices: 16484--16562 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
16474 TCTATTTATA
* *
16484 TTAGGGTTTGTGAT
1 TTAGGGTTTATGGT
16498 TTAGGGTTTAAT-GT
1 TTAGGGTTT-ATGGT
**
16512 TTAGTTTTTATGGT
1 TTAGGGTTTATGGT
16526 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*** *
16540 TTACATTTTAGGGT
1 TTAGGGTTTATGGT
16554 TTAGGGTTT
1 TTAGGGTTT
16563 CTATAAACTA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
13 2 0.04
14 47 0.94
15 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.29, T:0.53
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:16556 original size:7 final size:7
Alignment explanation
Indices: 16484--16562 Score: 52
Period size: 7 Copynumber: 11.3 Consensus size: 7
16474 TCTATTTATA
16484 TTAGGGT
1 TTAGGGT
*
16491 TT-GTGAT
1 TTAG-GGT
16498 TTAGGGT
1 TTAGGGT
**
16505 TTAATGT
1 TTAGGGT
**
16512 TTAGTTT
1 TTAGGGT
*
16519 TTATGGT
1 TTAGGGT
16526 TTAGGGT
1 TTAGGGT
*
16533 TTATGGT
1 TTAGGGT
***
16540 TTACATT
1 TTAGGGT
16547 TTAGGGT
1 TTAGGGT
16554 TTAGGGT
1 TTAGGGT
16561 TT
1 TT
16563 CTATAAACTA
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
6 1 0.02
7 51 0.96
8 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.29, T:0.53
Consensus pattern (7 bp):
TTAGGGT
Found at i:16661 original size:19 final size:20
Alignment explanation
Indices: 16632--16703 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
16622 ATAAGTAATT
*
16632 TACTTTATATAGTTTATATA
1 TACTATATATAGTTTATATA
16652 TA-TATATATAGTTTATATA
1 TACTATATATAGTTTATATA
* * *
16671 TACTATACATGGTTTATACA
1 TACTATATATAGTTTATATA
16691 TACATATTATATA
1 TAC-TA-TATATA
16704 AAATTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 18 0.42
20 19 0.44
21 2 0.05
22 4 0.09
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (20 bp):
TACTATATATAGTTTATATA
Found at i:16722 original size:23 final size:25
Alignment explanation
Indices: 16696--16754 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 25
16686 ATACATACAT
16696 ATTATATAAAATTATTTAA-T-AAA
1 ATTATATAAAATTATTTAATTGAAA
*
16719 ATTA-ATAAAGATTATTTAATTGTAA
1 ATTATATAAA-ATTATTTAATTGAAA
16744 ATTATATAAAA
1 ATTATATAAAA
16755 CATGATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 5 0.16
23 13 0.42
24 1 0.03
25 7 0.23
26 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
ATTATATAAAATTATTTAATTGAAA
Found at i:17060 original size:20 final size:20
Alignment explanation
Indices: 17037--17079 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17027 GAGTTTTTGA
17037 TTTAGGGTTAAT-GTTTAGTG
1 TTTAGGGTTAATGGTTTAG-G
*
17057 TTTAGGGTTTATGGTTTAGG
1 TTTAGGGTTAATGGTTTAGG
17077 TTT
1 TTT
17080 TAGGATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.53
Consensus pattern (20 bp):
TTTAGGGTTAATGGTTTAGG
Found at i:17383 original size:15 final size:14
Alignment explanation
Indices: 17346--17374 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17336 TACCTATTAT
17346 ATAAAATTA-TTTA
1 ATAAAATTATTTTA
17359 ATAAAATTATTTTA
1 ATAAAATTATTTTA
17373 AT
1 AT
17375 GTAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTTTA
Found at i:17712 original size:14 final size:14
Alignment explanation
Indices: 17695--17739 Score: 90
Period size: 14 Copynumber: 3.2 Consensus size: 14
17685 GGTTTTGTGA
17695 TTTAGGGTTTAATG
1 TTTAGGGTTTAATG
17709 TTTAGGGTTTAATG
1 TTTAGGGTTTAATG
17723 TTTAGGGTTTAATG
1 TTTAGGGTTTAATG
17737 TTT
1 TTT
17740 TTATAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTAATG
Found at i:17828 original size:2 final size:2
Alignment explanation
Indices: 17823--17893 Score: 90
Period size: 2 Copynumber: 35.0 Consensus size: 2
17813 TTATATAGTT
**
17823 TA TA TA TA TA TA TA GG T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
17864 TA TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
17894 CATGGTTTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
1 1 0.02
2 57 0.93
3 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18220 original size:577 final size:574
Alignment explanation
Indices: 17356--19005 Score: 2488
Period size: 577 Copynumber: 2.9 Consensus size: 574
17346 ATAAAATTAT
* * * *
17356 TTAATAAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
*
17421 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
66 GTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTCATATTAATTTCATTTGCATCAT
17486 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
131 TAG-ATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
17551 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCTTTTACATTAGTTTACA
195 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCC-TTTACATTAGTTTACA
17616 TAGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
259 TAGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
* *
17681 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAATGTTTAGGGTTTAATGTTTTTATAA
324 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTT-AGGTTTTTATAA
*
17746 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCGATAAACTATATAAGTAATTTA
388 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
17811 CTTTATATAGTTTATATATATATATAGGTTATATATATATATATATATATATATATATATATATA
453 CTTTATATAGTTTATATATATATATA---TATATATATATATATATATATATATATATATATATA
17876 TAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAA
515 TAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAA
*
17936 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATTATTTGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
18001 GTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTCATATTAATTTCATTTGCATCAT
66 GTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTCATATTAATTTCATTTGCATCAT
*
18066 TAG-TTTTAG-TGCATGTTAGGTTAATTCACATTAAAAGCCCATTTATTTTGTTGTTATGAATAA
131 TAGATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAA
*
18129 GTAATAATAAAACAAAAAAATAAGTCCATTTTCATTAGTGCTAGTCCATTTACATTAGTTTACAT
196 GTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCC-TTTACATTAGTTTACAT
18194 AGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATA
260 AGGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATA
*
18259 TTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTCTATAAA
325 TTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTA-GGTTTTTATAAA
18324 ATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAAACTATATAAGTAATTTA
389 ATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTAT-AAACTATATAAGTAATTTA
18389 C-TTATATAG----T-T-TATATATATATATATATATATATA-ATATATATATATATATATA-A-
453 CTTTATATAGTTTATATATATATATATATATATATATATATATATATATATATATATATATATAG
**
18444 CCTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAA
518 TTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAA
18501 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
* * *
18566 GTCACATTGC--A-TATATGGTTCAT-AATTGTAGTACATGTTATATTAATTTCATTTACATAAT
66 GTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTCATATTAATTTCATTTGCATCAT
*
18627 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAG-CCATTTATTTTGTT-TTATG-ACA
131 TAG-ATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
** *
18689 AGTAATAATAAAACCCAAAAATAAGTTCATTTGCATTA--G-T-G-------C--TAG------T
195 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCTTTACATTAGTTTACAT
* * *
18735 AGGTCCAATACATAA-GCTCACTCTTTTATTACAAATATATATGCATTACTGCTAGTCCATTTAC
260 AGGCCCAATACATAAGGCT-ACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTAT
* **
18799 ATTTAGAG-TTTGTGA-TTAGGGTTTAATATTTAGGGTTTAGGGTTTA-GGTTT-GGATTTTTAT
324 A-TTAG-GTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGG-TTTTTAT
* * * * * *
18860 AAACTATATAATTTATTACTTTATATAGTTTTTTTCATAATGTTTCTATAAGCTATATAAGTAAT
386 AAAATACATAATTTATTACTTTATATAG-TTTATGCATAATGTCTCTATAAACTATATAAGTAAT
* * *
18925 TTACTTTATATAGTTTATATATATATGTATATATATAT-TAAAGTTATATATATAGATATACTAT
450 TTACTTTATATAGTTTATATATATATATATATATATATATATA--TATATATATATATATA-TAT
* *
18989 ACATGGTTTATATATAC
512 ATATAGTTTATATATAC
19006 ATATTACCAT
Statistics
Matches: 1002, Mismatches: 45, Indels: 75
0.89 0.04 0.07
Matches are distributed among these distances:
538 2 0.00
539 51 0.05
540 33 0.03
541 87 0.09
542 11 0.01
543 1 0.00
544 1 0.00
545 4 0.00
546 16 0.02
547 5 0.00
548 12 0.01
549 6 0.01
551 9 0.01
557 1 0.00
558 1 0.00
559 1 0.00
561 74 0.07
562 17 0.02
563 21 0.02
564 27 0.03
565 129 0.13
566 1 0.00
567 19 0.02
568 16 0.02
571 8 0.01
572 1 0.00
573 1 0.00
576 1 0.00
577 293 0.29
578 26 0.03
580 127 0.13
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (574 bp):
TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
GTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTCATATTAATTTCATTTGCATCAT
TAGATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAA
GTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCTTTACATTAGTTTACATA
GGCCCAATACATAAGGCTACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCCATTTATAT
TAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGTTTTTATAAAAT
ACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTACTT
TATATAGTTTATATATATATATATATATATATATATATATATATATATATATATATATATAGTTT
ATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAA
Found at i:18309 original size:7 final size:7
Alignment explanation
Indices: 18272--18316 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
18262 GGTTTTGTGA
18272 TTTAGGG
1 TTTAGGG
**
18279 TTTAATG
1 TTTAGGG
18286 TTTAGGG
1 TTTAGGG
**
18293 TTTAAAG
1 TTTAGGG
18300 TTTAGGG
1 TTTAGGG
18307 TTTAGGG
1 TTTAGGG
18314 TTT
1 TTT
18317 CTATAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:18316 original size:14 final size:14
Alignment explanation
Indices: 18272--18310 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
18262 GGTTTTGTGA
*
18272 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
18286 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
18300 TTTAGGGTTTA
1 TTTAGGGTTTA
18311 GGGTTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:18443 original size:19 final size:19
Alignment explanation
Indices: 18400--18458 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 19
18390 TTATATAGTT
18400 TATAT-ATATATATATATA
1 TATATAATATATATATATA
18418 TATATAATATATATATATA
1 TATATAATATATATATATA
18437 TATATAACCTATATATACTATA
1 TATATAA--TATATATA-TATA
18459 CATGGTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.14
19 20 0.54
21 8 0.22
22 4 0.11
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATAATATATATATATA
Found at i:18453 original size:2 final size:2
Alignment explanation
Indices: 18400--18442 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
18390 TTATATAGTT
18400 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18441 TA
1 TA
18443 ACCTATATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19639 original size:20 final size:21
Alignment explanation
Indices: 19611--19683 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 21
19601 ATAAGTAATT
*
19611 TACTTTATATAGTTTATATCA
1 TACTATATATAGTTTATATCA
*
19632 TATATATATATAGTTTATAT-A
1 TA-CTATATATAGTTTATATCA
* *
19653 TACTATACATGGTTTATA-CA
1 TACTATATATAGTTTATATCA
19673 TAC-ATTATATA
1 TACTA-TATATA
19684 AAAATTAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.02
20 21 0.50
21 5 0.12
22 15 0.36
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (21 bp):
TACTATATATAGTTTATATCA
Found at i:19650 original size:11 final size:11
Alignment explanation
Indices: 19616--19654 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
19606 TAATTTACTT
19616 TATATAGTTTA
1 TATATAGTTTA
*
19627 TATCATA-TATA
1 TAT-ATAGTTTA
19638 TATATAGTTTA
1 TATATAGTTTA
19649 TATATA
1 TATATA
19655 CTATACATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:20045 original size:13 final size:13
Alignment explanation
Indices: 20020--20053 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
20010 AGGGTTTAAT
20020 GTTTAGTGTTTAGG
1 GTTTAG-GTTTAGG
20034 GTTTAGGTTTAGG
1 GTTTAGGTTTAGG
*
20047 TTTTAGG
1 GTTTAGG
20054 ATTTCTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (13 bp):
GTTTAGGTTTAGG
Found at i:20662 original size:14 final size:14
Alignment explanation
Indices: 20645--20689 Score: 90
Period size: 14 Copynumber: 3.2 Consensus size: 14
20635 GGTTTTGTGA
20645 TTTAGGGTTTAATG
1 TTTAGGGTTTAATG
20659 TTTAGGGTTTAATG
1 TTTAGGGTTTAATG
20673 TTTAGGGTTTAATG
1 TTTAGGGTTTAATG
20687 TTT
1 TTT
20690 TTATAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (14 bp):
TTTAGGGTTTAATG
Found at i:20787 original size:2 final size:2
Alignment explanation
Indices: 20782--20829 Score: 71
Period size: 2 Copynumber: 24.0 Consensus size: 2
20772 TTATATAGGT
*
20782 TA TA TA TA GA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20823 TA CTA TA
1 TA -TA TA
20830 CATGGTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 39 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:20790 original size:23 final size:23
Alignment explanation
Indices: 20781--20824 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
20771 ATTATATAGG
20781 TTATATATAGATATATATATATA
1 TTATATATAGATATATATATATA
*
20804 TTATATATATATATATATATA
1 TTATATATAGATATATATATA
20825 CTATACATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATATATAGATATATATATATA
Found at i:20823 original size:21 final size:21
Alignment explanation
Indices: 20784--20829 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
20774 ATATAGGTTA
*
20784 TATATAGATATATATATATAT
1 TATATAGATATATATATATAC
*
20805 TATATATATATATATATATAC
1 TATATAGATATATATATATAC
20826 TATA
1 TATA
20830 CATGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TATATAGATATATATATATAC
Found at i:21105 original size:20 final size:20
Alignment explanation
Indices: 21080--21117 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21070 AAAAAAAAAA
*
21080 TAGTCCATTTTCATTAGTGC
1 TAGTCCATTTACATTAGTGC
21100 TAGTCCATTTACATTAGT
1 TAGTCCATTTACATTAGT
21118 TTACATAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (20 bp):
TAGTCCATTTACATTAGTGC
Found at i:21315 original size:2 final size:2
Alignment explanation
Indices: 21308--21397 Score: 125
Period size: 2 Copynumber: 47.0 Consensus size: 2
21298 CTTTATAGTT
**
21308 TA TA TA TA T- TA TA TA TA TA GG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21349 TA TA -A TA TA TA TA TA -A TA TA TA TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
21388 TC TA TA TA TA
1 TA TA TA TA TA
21398 GTTATACTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
1 4 0.05
2 74 0.95
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:21448 original size:12 final size:12
Alignment explanation
Indices: 21426--21465 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
21416 TATACATACA
21426 TATTATATAAAAT
1 TATT-TATAAAAT
21439 TATTTATAAAAT
1 TATTTATAAAAT
21451 TA---ATAAAAT
1 TATTTATAAAAT
21460 TATTTA
1 TATTTA
21466 AATGTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 9 0.38
12 11 0.46
13 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATTTATAAAAT
Found at i:21819 original size:14 final size:14
Alignment explanation
Indices: 21771--21822 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
21761 ATGGTTTAAT
*
21771 GTTTAGGGTTTAGG
1 GTTTAGGATTTAGG
**
21785 GTTTATTA-TTAGG
1 GTTTAGGATTTAGG
21798 GTTTAGGATTTAGG
1 GTTTAGGATTTAGG
*
21812 TTTTAGGATTT
1 GTTTAGGATTT
21823 CTATAAACTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (14 bp):
GTTTAGGATTTAGG
Found at i:21934 original size:23 final size:22
Alignment explanation
Indices: 21908--21974 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
21898 TGTTTATAAA
*
21908 TATATATATATATATATATAGGT
1 TATATATATATATATACAT-GGT
21931 TATATATATATACTATACATGGT
1 TATATATATATA-TATACATGGT
*
21954 TATATATACATAT-TACCATGG
1 TATATATATATATATA-CATGG
21975 ACGAAATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.05
22 6 0.15
23 26 0.65
24 6 0.15
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.43
Consensus pattern (22 bp):
TATATATATATATATACATGGT
Found at i:21949 original size:539 final size:540
Alignment explanation
Indices: 20315--21968 Score: 1663
Period size: 577 Copynumber: 3.0 Consensus size: 540
20305 TATAAATTAT
* * * *
20315 TTAATAAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGTGTTAAATAATTAGTATG
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAA-T-GTGTTAAATAATTTGTATG
20380 TCACCATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
64 TCA-CATTGCATATTATATGGTTCAT-AATAGTAGTACATGTCATATTAATTTC-TTTG-ATCAT
20445 TAGTATTTTAGTTGCATGTTA-GTTAATTCACATT-ATAGCCCATTTATTTTGTTGTTTATGAAT
125 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTG-TTATGAAT
*
20508 AAGTAATAATAAAACAAAAAAATAAGTCCATTTGCTTAGTGCTAGTCCTTTTACATTAGTTTACA
189 AAGTAATAAT-AAACAAAAAAATAAGTCCATTTGC--A-T--TAG-----TTGCA-TAG--T---
20573 TAGGCCCAATACATAAGGCTAC-TTTTATTACAAATAATATGCATTAGTGCTAGTCCA--T-ATT
237 TAGGCCCAATACATAAGGCTACTTTTTATTACAAAT-ATATGCATTAGTGCTAGTCCATTTAATT
*
20634 AGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTA------ATGT-TTAGGGTTTAA-T-G--T
301 AGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAGGGTTTATATATTAGGGTTTAATTAGTTT
* * * *
20688 ----TTT-TATAAAATACATAATTTATTACTTTATA-TTTATGCATAATGTCTCGATAAACTATA
366 AGGATTTCTATAAACTATATAATTTATTACTTTATAGTTTATGC-TAATGTTTCTAT-AACTATA
20747 TAAGTAATTTACTTTATATAGTTTATTATATAGGTTATATATAGATATATATATATATTATATAT
429 TAAGTAATTTAC-TT-T-TA--TTATT-TATA---TA-ATAT--ATATATATATATA-TATATAT
20812 ATATATATATATACTATACATGGTTTATACATACATA-T-TATAAAATTATTTAATAAAA
481 ATATATATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAAA
* *
20870 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTATTAGGTGTT-AATTATTTGTATG
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTA--ATGTGTTAAATAATTTGTATG
*
20934 TCACATTGCATATTATATGGTTCA-AATAGTAGTACATGTCATATTAATTTCATTGCATCATTAG
64 TCACATTGCATATTATATGGTTCATAATAGTAGTACATGTCATATTAATTTCTTTG-ATCATTAG
* *
20998 TAGTTTAGTTGCATGTTAGGTTAATTCACATTAAAAGCCCATTTATTTTGTTGTTATGAATAAGT
128 TATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGT
* *
21063 AATAATAAAAAAAAAAAT-AGTCCATTTTCATTAGTGCTAGTCCATTTACATTAGTTTACATAGG
193 AATAATAAACAAAAAAATAAGTCCATTTGCATTAGT--T-G--------CA-TAG--T---TAGG
21127 CCC-ATACATAAGGCTACTCTTTTATTAC-AATATATGCATTAGTGCTAGTCCATTTATATTAGG
241 CCCAATACATAAGGCTACT-TTTTATTACAAATATATGCATTAGTGCTAGTCCATTTA-ATTAGG
* ***
21190 TTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAGGGTTTCTATAAAATACATAATTTATTACTAT
304 TTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAGGG-TT-TAT---ATA-TTAGGGT-TTA--AT
* * *
21255 ATAGTTTAGGCATAATGTCTCTATAAACTATATAAGTAATTTACTTTATAGTTTAT-ATATAT-T
360 -TAGTTTAGG----AT-T-TCTATAAACTATATAATTTA-TTACTTTATAGTTTATGCTA-ATGT
* ** * * *
21318 ATATATATAGGTATATATA-TATATATATA-TATATAATATATATATAATATATATATATTATAT
416 -T-TCTATAACTATATA-AGTA-AT-T-TACT-TTTATTATTTATATAATATATATATA-TATAT
*
21381 ATATATATCTATATATAGTTATACTATACATGGTTTATACATACATATTATATAAAATTATTT-A
473 ATATATATATATATATA--TATACTATACATGGTTTATACATACATATTATATAAAATTATTTAA
21445 TAAAA
536 TAAAA
21450 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATGTGTTAAATAATTTGTATGTC
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATGTGTTAAATAATTTGTATGTC
* * *
21515 ACATTGCATATTATATGGTTCATAATTGTAGTACATGTTATATTAATTT-TTTG-TAATTAGTAT
66 ACATTGCATATTATATGGTTCATAATAGTAGTACATGTCATATTAATTTCTTTGATCATTAGTAT
21578 TTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAAT
131 TTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAAT
** * *
21643 AATAAACCCAAAAATAAGTCCA-TTGCATTAG-TGC-TAG-TAGGCCCAATACATAAGCCCACTT
196 AATAAACAAAAAAATAAGTCCATTTGCATTAGTTGCATAGTTAGGCCCAATACATAAGGCTACTT
* * * * *
21704 TTTATTACAATATATATGTATTAGTGCTAGTCTATTTACATTAGAGTTTGGTGGTTTATGGTTTA
261 TTTATTACAA-ATATATGCATTAGTGCTAGTCCATTTA-ATTAG-GTTTTGTGATTTAGGGTTTA
21769 ATGTTTAGGGTTTAGGGTTTAT-TATTAGGGTTTAGGATTTAGGTTTTAGGATTTCTATAAACTA
323 ATGTTTAGGGTTTAGGGTTTATATATTAGGGTTTA--A-TTA-G-TTTAGGATTTCTATAAACTA
21833 TAT-ATTTATTACTTTATATCGTTTATGCTAATGTTTCTATAACTATATAAGTAATTTACTTTTA
383 TATAATTTATTACTTTATA--GTTTATGCTAATGTTTCTATAACTATATAAGTAATTTACTTTTA
* ** *
21897 TTGTTTATA-AATATATATATATATATATATAGGT-TATATATATATACTATACATGG-TTATAT
446 TTATTTATATAATATATATATATATATATATATATATATATATATATACTATACATGGTTTATAC
21959 ATACATATTA
511 ATACATATTA
21969 CCATGGACGA
Statistics
Matches: 945, Mismatches: 70, Indels: 185
0.79 0.06 0.15
Matches are distributed among these distances:
538 15 0.02
539 15 0.02
541 9 0.01
542 11 0.01
543 12 0.01
544 14 0.01
545 2 0.00
546 14 0.01
547 17 0.02
548 23 0.02
549 49 0.05
550 64 0.07
551 68 0.07
552 25 0.03
553 65 0.07
554 22 0.02
555 44 0.05
557 17 0.02
558 17 0.02
559 32 0.03
560 34 0.04
561 2 0.00
563 3 0.00
564 1 0.00
565 1 0.00
566 3 0.00
567 3 0.00
569 1 0.00
571 1 0.00
572 1 0.00
573 1 0.00
574 2 0.00
577 114 0.12
578 18 0.02
579 71 0.08
580 75 0.08
581 13 0.01
582 1 0.00
583 5 0.01
584 4 0.00
585 17 0.02
586 23 0.02
587 12 0.01
588 2 0.00
589 2 0.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.44
Consensus pattern (540 bp):
TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATGTGTTAAATAATTTGTATGTC
ACATTGCATATTATATGGTTCATAATAGTAGTACATGTCATATTAATTTCTTTGATCATTAGTAT
TTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAAT
AATAAACAAAAAAATAAGTCCATTTGCATTAGTTGCATAGTTAGGCCCAATACATAAGGCTACTT
TTTATTACAAATATATGCATTAGTGCTAGTCCATTTAATTAGGTTTTGTGATTTAGGGTTTAATG
TTTAGGGTTTAGGGTTTATATATTAGGGTTTAATTAGTTTAGGATTTCTATAAACTATATAATTT
ATTACTTTATAGTTTATGCTAATGTTTCTATAACTATATAAGTAATTTACTTTTATTATTTATAT
AATATATATATATATATATATATATATATATATATATACTATACATGGTTTATACATACATATTA
TATAAAATTATTTAATAAAA
Found at i:22444 original size:7 final size:7
Alignment explanation
Indices: 22418--22478 Score: 68
Period size: 7 Copynumber: 8.7 Consensus size: 7
22408 TAGAGTTTGT
22418 GATTTAG
1 GATTTAG
* *
22425 GGTTTAA
1 GATTTAG
*
22432 TATTTAG
1 GATTTAG
*
22439 GGTTTAG
1 GATTTAG
*
22446 GGTTTAG
1 GATTTAG
*
22453 GATTTAA
1 GATTTAG
22460 GATTTAG
1 GATTTAG
22467 GATTTAG
1 GATTTAG
22474 GATTT
1 GATTT
22479 TTATAAACTA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (7 bp):
GATTTAG
Found at i:22457 original size:21 final size:21
Alignment explanation
Indices: 22418--22478 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
22408 TAGAGTTTGT
** *
22418 GATTTAGGGTTTAATATTTAG
1 GATTTAGGGTTTAGGATTTAA
*
22439 GGTTTAGGGTTTAGGATTTAA
1 GATTTAGGGTTTAGGATTTAA
*
22460 GATTTAGGATTTAGGATTT
1 GATTTAGGGTTTAGGATTT
22479 TTATAAACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
GATTTAGGGTTTAGGATTTAA
Found at i:22635 original size:2 final size:2
Alignment explanation
Indices: 22555--22620 Score: 69
Period size: 2 Copynumber: 32.0 Consensus size: 2
22545 TTATATAGTT
* * * * *
22555 TA TA TA TA TA TG TA TA TA GA TA TT TA AA GTT TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
22598 TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA -TA TA
22621 CATGGTTTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 50 0.96
3 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:22797 original size:13 final size:14
Alignment explanation
Indices: 22774--22803 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22764 TAAATATACC
22774 TTTATATAAAATTA
1 TTTATATAAAATTA
22788 TTTA-ATAAAATTA
1 TTTATATAAAATTA
22801 TTT
1 TTT
22804 TAATGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTATATAAAATTA
Found at i:22816 original size:15 final size:14
Alignment explanation
Indices: 22774--22807 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
22764 TAAATATACC
22774 TTTATATAAAATTA-
1 TTTA-ATAAAATTAT
22788 TTTAATAAAATTAT
1 TTTAATAAAATTAT
22802 TTTAAT
1 TTTAAT
22808 GTAAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAATAAAATTAT
Found at i:23139 original size:14 final size:13
Alignment explanation
Indices: 23110--23156 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
23100 GTCTATTTAC
*
23110 TTAGGGTTTGTGT
1 TTAGGGTTTATGT
23123 TTAGGGTTTAATGT
1 TTAGGGTTT-ATGT
* *
23137 TTA-GTTTTATGG
1 TTAGGGTTTATGT
23149 TTAGGGTT
1 TTAGGGTT
23157 ATAGTTTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 16 0.57
14 6 0.21
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (13 bp):
TTAGGGTTTATGT
Found at i:23269 original size:9 final size:9
Alignment explanation
Indices: 23255--23288 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
23245 AGTAATTTAC
23255 TTTATATAG
1 TTTATATAG
23264 TTTATATA-
1 TTTATATAG
*
23272 TATATATAG
1 TTTATATAG
23281 TTTATATA
1 TTTATATA
23289 TACTATACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (9 bp):
TTTATATAG
Found at i:23279 original size:17 final size:18
Alignment explanation
Indices: 23257--23318 Score: 72
Period size: 17 Copynumber: 3.3 Consensus size: 18
23247 TAATTTACTT
23257 TATATAGTTTATATATA-
1 TATATAGTTTATATATAC
23274 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
23292 TATACATGGTTTATACATAC
1 TAT--ATAGTTTATATATAC
23312 ATATATA
1 -TATATA
23319 TAAAATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 17 0.45
18 3 0.08
19 2 0.05
20 13 0.34
21 3 0.08
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:23377 original size:25 final size:25
Alignment explanation
Indices: 23332--23379 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23322 AATTATTTTA
*
23332 AAATTAATAAAAATTATTTAATTGT
1 AAATTAATAAAAATGATTTAATTGT
*
23357 AAATTATATAAACATGA-TTAATT
1 AAATTA-ATAAAAATGATTTAATT
23380 AGGTGTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
AAATTAATAAAAATGATTTAATTGT
Found at i:23963 original size:13 final size:13
Alignment explanation
Indices: 23947--23974 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23937 AAATATACCT
23947 ATAAAATTATTTA
1 ATAAAATTATTTA
23960 ATAAAATTATTTA
1 ATAAAATTATTTA
23973 AT
1 AT
23975 GTAATATATA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:24325 original size:7 final size:7
Alignment explanation
Indices: 24288--24332 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
24278 GGTTTTGTGA
24288 TTTAGGG
1 TTTAGGG
**
24295 TTTAATG
1 TTTAGGG
24302 TTTAGGG
1 TTTAGGG
**
24309 TTTAAAG
1 TTTAGGG
24316 TTTAGGG
1 TTTAGGG
24323 TTTAGGG
1 TTTAGGG
24330 TTT
1 TTT
24333 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:24332 original size:14 final size:14
Alignment explanation
Indices: 24288--24326 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
24278 GGTTTTGTGA
*
24288 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
24302 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
24316 TTTAGGGTTTA
1 TTTAGGGTTTA
24327 GGGTTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:24420 original size:2 final size:2
Alignment explanation
Indices: 24415--24525 Score: 117
Period size: 2 Copynumber: 58.0 Consensus size: 2
24405 TTATATAGTT
**
24415 TA TA TA TA TA TA GG T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** **
24456 -A TA TA TA TA TA TA GG T- TA TA TA TA TA TA TA T- TA TA TA GG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24495 T- TA TA TA TA TA TA TA TA TA TA GT- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
24526 ATACATGGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
1 6 0.06
2 86 0.92
3 1 0.01
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24637 original size:615 final size:603
Alignment explanation
Indices: 23957--27252 Score: 2488
Period size: 615 Copynumber: 5.4 Consensus size: 603
23947 ATAAAATTAT
* *
23957 TTAATAAAATTATTT-AATGT-AA-TATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
24019 GTCACATTGCATATTATATGG-TCATAAATAGTAGTAC-TGTCATATT-ATTTCATTTGCATCAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
*
24081 TAGTA-TTTAGTTGCATATTAGGTTAATTCACATTAATAG-CCATTTATTTTGTTGTTATGAATA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
24144 AGTAATAATAAAACAAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTAC
196 AGTAATAATAAAAC-AAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTAC
24209 ATAGGCCCAATACATAAGGCTACTCTTTTATTACAATATATATGCATTAGTGCTAGTCCATTTAT
260 ATAGGCCCAATACATAAGGCTACTCTTTTATTACAATATATATGCATTAGTGCTAGTCCATTTAT
24274 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTTTTAAA
325 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTTTTAAA
24339 AATACATAA-TTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
390 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
24403 CTTTATATAGTTTATATATATATAGGTTATATATATATATATATATATATATAATATATATATAT
455 CTTTATATAGTTTATATATATATA---TATATATATATATATATATATATAT-ATATATATATAT
*
24468 AGGTTATATATATATATATTATATAGGTTATATATATATATATATATAGTTATATATAATACATG
516 A---TATATAT-TATATA-TATATA---TATATATATATA-ACATATA--TATA-AT-ATACATG
24533 GTTTATACATACAT-TATATAAAATTATTTAATAAAA
568 GTTTATACATACATAT-TATAAAATTATTTAATAAAA
24569 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTTGTT-AATAATTTGTA
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGG-TGTTAAATAATTTGTA
24633 TGTCACATTGCATATTATATGGTTCAT-AATAGTAGTACATGTCATATTAATTTCATTTGCATCA
65 TGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCA
* *
24697 TTAGTAGTTTAGTTGCATGTTAGG-TAATTCACATTAACAGCCCATTTATTTTG-TGTTATGAAT
130 TTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
*
24760 AAGTAATAAT-AAACAAAAAAATAAGTCCATTTTCATTAGTGCTAGTCCATTTACATTAGTTTAC
195 AAGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTAC
24824 ATAGGCCCAATACATAAGGCTACTCTTTTATTACAATATATATGCATTAGTGCTAGTCCATTTAT
260 ATAGGCCCAATACATAAGGCTACTCTTTTATTACAATATATATGCATTAGTGCTAGTCCATTTAT
* *
24889 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGG-TTTCTATA
325 ATTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTTTTAAA
24953 AATACATAATTTATTACTTTATATAGTTTATGC---ATGTCTC--TAAACTAT-TAAGTAA-TTA
390 AATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTA
25011 CTTTATATAG----T-T-TATATATATATATATATATATATATATATATATATATATATATATAT
455 CTTTATATAGTTTATATATATATATATATATATATATATATATATATATATATATATATATATAT
* *
25070 ATATTATATATATATATATATATATATAACCTATATATACTATACATGGTTTATACATACATATT
520 ATATTATATATATATATATATATATATAACATATATATAATATACATGGTTTATACATACATATT
25135 ATAAAATTATTTAATAAAA
585 ATAAAATTATTTAATAAAA
25154 TTAATAAAATTATTTAAATGTAAACTATAT-AAGCATGATT-ATTAGGTGTTAAATAATTTGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
* * *
25217 GTCACATTGCATA-TATATGGTTCATAAATTGTAGTACATGTCACATTAATTTCATTTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
* *
25281 TAGTATTTTTTGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTTTTATGAA-
131 TAGTA-TTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAAT
**
25345 AAGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAG-----------TAG----C
195 AAGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTAC
* *
25395 -T-----CAATACATAAGCCCACTC-TTTATTACAAATATATATGCATTAGTGCTAGTCCA-TTA
260 ATAGGCCCAATACATAAGGCTACTCTTTTATTAC-AATATATATGCATTAGTGCTAGTCCATTTA
* ** * *
25452 TATTAGAGTTTT-TGATTTAGGG-TTAATGTTTAGTGTTTAGGGTTTATGGTTTAGGTTTTAGGA
324 TATTAG-GTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGG-GTT----
* * *
25515 TTTCTATAAACTATATAATTTATTAC--T-TATAGTTTATGCATAATGTTTCTATAAACTATATA
383 TTT-TA-AAAATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATA
* * * * * *
25577 AGTAATTTGCTTTATATAGTTTATATATATATATACTATACATGGTTTATATACATAT-TACCAT
446 AGTAATTTACTTTATATAGTTTATATATATATATA-TATATAT-ATATATATATATATATA-TAT
* * * * * * * * * *
25641 GGACGAAATTATAAGTTTTAAAATTATGAGT-TTTAGTTTAAGATGAAATTAGAAAATTAATATG
508 --A-TATA-TAT-A--TAT-ATATTAT-A-TATATA-TAT-ATAT-ATA-TATAACA-T-ATAT-
* * * * *
25705 ATTACTTTTTAAAT-GTTATAATAAATATTATTATTATAATTAATTAATAAATAGACCTATTATA
556 A-TA--ATATACATGGTT-T-ATACATA-CA-TATTATAA--AATT-AT---T-----TA--ATA
25769 TAAA
601 -AAA
* * * * * *
25773 TTATTTAATAAAGTATTTTAATGTAAATTATATAAAACATGATTAATTA---G-T---TAATTAG
1 TTA-AT-A-AAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTG
25831 TATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCAT
63 TATGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCAT
*
25896 CATTAGTATTTTAGTTGCATGTTAGGTTAATT--CATTAATAGCCCATTTA-TTTGTTTTTATGA
128 CATTAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGA
* ** *
25958 ACAAGTAATAATAAAACCCAAAAATAAGTTCATTTGCATTA--G-T-G--------C--TAG---
193 ATAAGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTT
* *
26006 ---TAGGTCCAATACATAA-GCTCACTCTTTTATTACAA-ATATATGCATTACTGCTAGTCCATT
258 ACATAGGCCCAATACATAAGGCT-ACTCTTTTATTACAATATATATGCATTAGTGCTAGTCCATT
* * * * *
26066 TACATTAGAG--TTGTGATTTAGGGTTTAATATTTA-GGTTT-AGGTTTAGGATTTAGGATTTAG
322 TATATTAG-GTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTT--
* ** * *
26127 GATTTAGGATTTAGGATTTTTATAAACTATATAATTAC-TTATATAGTTTTTGCATAATGTTTCT
384 --TTTA--A---A--A-ATACAT-AA-T-T-T-ATTACTTTATATAGTTTATGCATAATGTCTCT
* * * * *
26191 ATAAGCTATATAAGTAA-TTACTTTATATAGTTTATATATGTATATATATATTTAAAGT-TTTAT
434 ATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATATATA-TATATAT
* * * * * * * * *
26254 ATATATATACTATACATGGTTTATATA-TACATAT-TACCATGGACGAAAT-TATAAGATTTA-A
498 ATATATATA-TATATAT-ATATATATATTATATATATA-TAT--A-TATATATATAACATATATA
* * * ** * * *
26315 TAAAAT-TATGAGTTTTTAGTTTA-AGATGTAATTAAAAATTAATATGATTACTTTTGAAATG
557 TAATATACATG-GTTTATA-CATACATAT-T-A-T-AAAA-T--TAT--TTA---AT-AAA-A
* * * * **
26376 TTATATAAATATTTATTATGATAAT-TAAATTAATAAATATACCTAT-ATATAAAATTA-TTAAT
1 TTA-ATAAA-A-TTATT-T-A-AATGTAAACT-AT--ATAAAGC-ATGAT-T--AATTAGGTGTT
* * *
26438 AAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTTAATAATTAGTATGTCCACA
53 AAA-TA-ATT--TGT------------------------A--TG-TCA-CATT-G--------C-
*
26503 TGCATATTATATGGTTCAT-AATAGTAGTACATGTCATATTAATCTCATTTGCATCATTAGTATT
76 ---ATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCATTAGTATT
*
26567 TTAGTTGCATGTTAGGTTAATTCACATT-ATAGCCCATTTATTTGGTTGTTATGAATAAGT-ATA
138 TTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATA
* * *
26630 AT-AAA-AAAAAAAT-AGTCAACTTGCATTAGTGCTAATCCATTTACATTAGTTTACATAGGCCC
203 ATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACATAGGCCC
* * * *
26692 AATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGT--ATTTACATTAGGG
268 AATACATAAGGCTACTCTTTTATTAC-AATATATATGCATTAGTGCTAGTCCATTTATATTAGGT
** **
26755 TTTGTGATTTAGGGTTTAATGTTTAGTTTTTATGGTTTAGGGTTTTTTTACTTTTAGGGTTTAGG
332 TTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGG----------TTTAGGG-TT---
* * *
26820 GTTTCTATAAACTAAATAATTTATTACTTTATATAGTTTATGCATAATGTTTCTATAAACTATAT
383 -TTT-TA-AAAATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATAT
*
26885 -AGTAATTTACTTTATATAGTTTATATATATATATATATATATCTATA-ATATATATATATATAT
445 AAGTAATTTACTTTATATAGTTTATATATATATATATATATATATATATATATATATATATATAT
* ** * *
26948 ATATAGT-TATATA-TACTATACAT-GGT-T-TATACAT-AC-TAT-TAT-ATA-A-A---ATTA
510 ATATA-TATATATATTA-TATATATATATATATATATATAACATATATATAATATACATGGTTTA
*
26999 T---T---TA--ATAAAATTA-AT-A-AAAA
573 TACATACATATTATAAAATTATTTAATAAAA
* * *
27019 TT-AT----TTAATT----GTAAA-T-TATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
* * *
27073 GTCACATTGCATATTATATGGTTCATAAATTGTAGTACATGTCACATTAATTTCATTTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
* *
27138 TAG--TTTT-GTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTA-TTTGTTTTTATGAACA
131 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
**
27199 AGTAATAATAAAACCCAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTAC
196 AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTAC
27253 TTTATATAGT
Statistics
Matches: 2222, Mismatches: 198, Indels: 561
0.75 0.07 0.19
Matches are distributed among these distances:
563 29 0.01
564 27 0.01
565 48 0.02
568 12 0.01
569 3 0.00
570 3 0.00
571 23 0.01
573 8 0.00
574 7 0.00
575 56 0.03
576 21 0.01
577 19 0.01
578 43 0.02
579 29 0.01
580 1 0.00
581 9 0.00
582 24 0.01
583 84 0.04
584 26 0.01
585 110 0.05
586 44 0.02
587 7 0.00
588 1 0.00
589 6 0.00
590 17 0.01
591 8 0.00
592 6 0.00
593 9 0.00
594 10 0.00
595 9 0.00
596 4 0.00
597 1 0.00
598 17 0.01
599 26 0.01
600 2 0.00
601 7 0.00
602 19 0.01
603 19 0.01
604 5 0.00
605 21 0.01
606 13 0.01
607 11 0.00
608 25 0.01
609 12 0.01
610 8 0.00
611 10 0.00
612 29 0.01
613 16 0.01
614 51 0.02
615 354 0.16
616 63 0.03
617 111 0.05
618 91 0.04
619 12 0.01
620 7 0.00
621 15 0.01
622 28 0.01
623 21 0.01
624 25 0.01
625 28 0.01
626 39 0.02
628 1 0.00
629 4 0.00
634 1 0.00
635 4 0.00
641 2 0.00
643 2 0.00
644 3 0.00
645 1 0.00
647 2 0.00
648 2 0.00
649 3 0.00
650 2 0.00
653 2 0.00
655 1 0.00
656 4 0.00
657 1 0.00
658 2 0.00
659 12 0.01
660 6 0.00
661 70 0.03
662 35 0.02
663 20 0.01
664 1 0.00
668 3 0.00
671 1 0.00
672 1 0.00
673 5 0.00
674 4 0.00
675 3 0.00
676 2 0.00
678 1 0.00
679 39 0.02
680 35 0.02
681 32 0.01
682 32 0.01
683 71 0.03
684 1 0.00
685 1 0.00
686 2 0.00
687 3 0.00
688 1 0.00
690 1 0.00
692 6 0.00
693 5 0.00
694 2 0.00
697 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.43
Consensus pattern (603 bp):
TTAATAAAATTATTTAAATGTAAACTATATAAAGCATGATTAATTAGGTGTTAAATAATTTGTAT
GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATA
AGTAATAATAAAACAAAAAAATAAGTCCATTTGCATTAGTGCTAGTCCATTTACATTAGTTTACA
TAGGCCCAATACATAAGGCTACTCTTTTATTACAATATATATGCATTAGTGCTAGTCCATTTATA
TTAGGTTTTGTGATTTAGGGTTTAATGTTTAGGGTTTAAAGTTTAGGGTTTAGGGTTTTTTAAAA
ATACATAATTTATTACTTTATATAGTTTATGCATAATGTCTCTATAAACTATATAAGTAATTTAC
TTTATATAGTTTATATATATATATATATATATATATATATATATATATATATATATATATATATA
TATTATATATATATATATATATATATAACATATATATAATATACATGGTTTATACATACATATTA
TAAAATTATTTAATAAAA
Found at i:24940 original size:7 final size:7
Alignment explanation
Indices: 24903--24947 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
24893 GGTTTTGTGA
24903 TTTAGGG
1 TTTAGGG
**
24910 TTTAATG
1 TTTAGGG
24917 TTTAGGG
1 TTTAGGG
**
24924 TTTAAAG
1 TTTAGGG
24931 TTTAGGG
1 TTTAGGG
24938 TTTAGGG
1 TTTAGGG
24945 TTT
1 TTT
24948 CTATAAATAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:24947 original size:14 final size:14
Alignment explanation
Indices: 24903--24941 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
24893 GGTTTTGTGA
*
24903 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
24917 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
24931 TTTAGGGTTTA
1 TTTAGGGTTTA
24942 GGGTTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:25108 original size:2 final size:2
Alignment explanation
Indices: 25023--25097 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
25013 TTATATAGTT
25023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25065 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25098 ACCTATATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 71 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25490 original size:20 final size:20
Alignment explanation
Indices: 25467--25509 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
25457 GAGTTTTTGA
25467 TTTAGGGTTAAT-GTTTAGTG
1 TTTAGGGTTAATGGTTTAG-G
*
25487 TTTAGGGTTTATGGTTTAGG
1 TTTAGGGTTAATGGTTTAGG
25507 TTT
1 TTT
25510 TAGGATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.53
Consensus pattern (20 bp):
TTTAGGGTTAATGGTTTAGG
Found at i:25664 original size:15 final size:15
Alignment explanation
Indices: 25646--25675 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25636 ACCATGGACG
25646 AAATTATAAGTTTTA
1 AAATTATAAGTTTTA
*
25661 AAATTATGAGTTTTA
1 AAATTATAAGTTTTA
25676 GTTTAAGATG
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:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
AAATTATAAGTTTTA
Found at i:26118 original size:7 final size:7
Alignment explanation
Indices: 26080--26145 Score: 91
Period size: 7 Copynumber: 9.7 Consensus size: 7
26070 TTAGAGTTGT
26080 GATTTAG
1 GATTTAG
* *
26087 GGTTTAA
1 GATTTAG
*
26094 TATTTAG
1 GATTTAG
26101 G-TTTAG
1 GATTTAG
26107 G-TTTAG
1 GATTTAG
26113 GATTTAG
1 GATTTAG
26120 GATTTAG
1 GATTTAG
26127 GATTTAG
1 GATTTAG
26134 GATTTAG
1 GATTTAG
26141 GATTT
1 GATTT
26146 TTATAAACTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
6 12 0.23
7 40 0.77
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (7 bp):
GATTTAG
Found at i:26799 original size:21 final size:21
Alignment explanation
Indices: 26749--26823 Score: 53
Period size: 21 Copynumber: 3.4 Consensus size: 21
26739 AGTATTTACA
26749 TTAGGGTTTGTGATTTAGGGT
1 TTAGGGTTTGTGATTTAGGGT
** * *
26770 TTAATGTTTAGT-TTTTATGGT
1 TTAGGGTTT-GTGATTTAGGGT
* *
26791 TTAGGGTTTTTTTACTTTTAGGGT
1 TTAGGG-TTTGTGA--TTTAGGGT
26815 TTAGGGTTT
1 TTAGGGTTT
26824 CTATAAACTA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
21 19 0.47
22 5 0.12
23 3 0.08
24 13 0.32
ACGTcount: A:0.15, C:0.01, G:0.28, T:0.56
Consensus pattern (21 bp):
TTAGGGTTTGTGATTTAGGGT
Found at i:26911 original size:2 final size:2
Alignment explanation
Indices: 26906--26967 Score: 83
Period size: 2 Copynumber: 31.0 Consensus size: 2
26896 TTATATAGTT
*
26906 TA TA TA TA TA TA TA TA TA TA TC TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26947 TA TA TA GT- TA TA TA TA CTA TA
1 TA TA TA -TA TA TA TA TA -TA TA
26968 CATGGTTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
1 2 0.04
2 49 0.91
3 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:26977 original size:20 final size:19
Alignment explanation
Indices: 26900--26986 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 19
26890 TTTACTTTAT
*
26900 ATAGTT-TATATA-TATAT
1 ATAGTTATATATACTATAC
26917 ATA--TATATAT-CTATA-
1 ATAGTTATATATACTATAC
*
26932 ATA-TATATATATA-TATAT
1 ATAGT-TATATATACTATAC
26950 ATAGTTATATATACTATAC
1 ATAGTTATATATACTATAC
* *
26969 ATGGTTTATACATACTAT
1 ATAG-TTATATATACTAT
26987 TATATAAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
15 4 0.07
16 9 0.16
17 14 0.24
18 11 0.19
19 8 0.14
20 12 0.21
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAGTTATATATACTATAC
Found at i:27011 original size:656 final size:636
Alignment explanation
Indices: 25153--27014 Score: 1996
Period size: 656 Copynumber: 2.9 Consensus size: 636
25143 ATTTAATAAA
* * * *
25153 ATTAATAAAATTATTTAAATGTAAACTATAT-AAGCATGATT-ATTAGGTGTTAAATAATTTGTA
1 ATTAAT-AAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTT-AATAATTAGTA
* * *
25216 TGTCACATTGCATA-TATATGGTTCATAAATTGTAGTACATGTCACATTAATTTCATTTGCATAA
64 TGTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCA
*
25280 TTAGTATTTTTTGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTTGTTTTTATGAA
129 TTAGTA-TTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTA-TTTGTTTTTATGAA
*
25345 AAGTAATAATAAAACCCAAAAATAAG-TCCATTTGCATTAGTGCTAGTA-GCTCAATACATAAGC
192 AAGTAATAATAAAACCCAAAAATAAGTTCCATTTGCATTAGTGCTAGTAGGCCCAATACATAAGC
* *
25408 CCACTC-TTTATTACAAATATATATGCATTAGTGCTAGTCCA-TTATATTAGAGTTTTTGATTTA
257 CCACTCTTTTATTACAAATATATATGCATTAGTGCTAGT-CATTTACATTAGAGTTTGTGATTTA
* * *
25471 GGG-TTAATGTTTAG----T-GTTTAGGG--TTTAT-GGTTTAGGTTTTAGGATTTCTATAAACT
321 GGGTTTAATGTTTAGTTTATGGTTTAGGGTTTTTTTAGATTTAGGATTTAGGATTTCTATAAACT
*
25527 ATATAATTTATTAC-T-TATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTGCTTT
386 A-ATAATTTATTACTTATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTACTTT
* ** * * * *
25590 ATATAGTTTATATATATATATA-CTATA-CATGGTTTATATACATAT-TACCATG-GACGA-A-A
450 ATATAGTTTATATATATATATATATATATCATAATATATATATATATATA-CATGTTA-TATATA
* * * * * * * *
25649 TTATA-A-GTTTTA-AAATTATGAGTTTTAGTTTAAGATGAAATT-AGAAAATTAATATGATTAC
513 CTATACATGGTTTATACA-TA--A-TATTA-TATAAGAT-TATTTAATAAAATTAATATGATTAC
* *
25710 TTTTTAAATGTTATAATAAATATTATTATTATAATTAATTAATAAATAGACCTATTATATAAATT
572 TTTTGAAATGTTATAATAAATATTATTATGATAATTAATTAATAAATAGACCTATTATATAAATT
*
25775 ATTTAATAAAGTATTTTAATGTAAATTATATAAAACATGATTAATTA---G-T--TAATTAGTAT
1 A-TTAATAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTTAATAATTAGTAT
25834 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
65 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
25899 TAGTATTTTAGTTGCATGTTAGGTTAATT--CATTAATAGCCCATTTATTTGTTTTTATGAACAA
130 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTGTTTTTATGAA-AA
* *
25962 GTAATAATAAAACCCAAAAATAAGTT-CATTTGCATTAGTGCTAGTAGGTCCAATACATAAGCTC
194 GTAATAATAAAACCCAAAAATAAGTTCCATTTGCATTAGTGCTAGTAGGCCCAATACATAAGCCC
*
26026 ACTCTTTTATTAC-AA-ATATATGCATTACTGCTAGTCCATTTACATTAGAG-TTGTGATTTAGG
259 ACTCTTTTATTACAAATATATATGCATTAGTGCTAGT-CATTTACATTAGAGTTTGTGATTTAGG
* * * *
26088 GTTTAATATTTAGGTTTA-GGTTTAGGATTTAGGATTTAGGATTTAGGATTTAGGATTTTTATAA
323 GTTTAATGTTTA-GTTTATGGTTTAGGGTTT---TTTTA-GATTTAGGATTTAGGATTTCTATAA
* * *
26152 ACT-AT-A-TAATTACTTATATAGTTTTTGCATAATGTTTCTATAAGCTATATAAGTAA-TTACT
383 ACTAATAATTTATTACTTATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTACT
* * * **
26213 TTATATAGTTTATATATGTATATATATATTTAAAGTTTTATATATATATACTATACATGGTTTAT
448 TTATATAGTTTATATATATATATATATATAT-CA-TAATATATATATATA-TATACAT-G-TTAT
* * * * *
26278 ATATACATATTACCATGGACGAAATTATAAGATTTAATAAAATTATGAGTTTTTAGTTTAAGATG
508 ATATAC-TA-TA-CAT-G--G--TTTAT-ACA--TAAT---ATTAT-A----TAAGATT---ATT
26343 TAATTAAAAATTAATATGATTACTTTTGAAATGTTAT-ATAAATATTTATTATGATAATTAAATT
551 TAA-T-AAAATTAATATGATTACTTTTGAAATGTTATAATAAATA-TTATTATGATAATT-AATT
*
26407 AATAAATATACCTA-TATATAAAATT
612 AATAAATAGACCTATTATAT-AAATT
26432 ATTAATAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTTAATAATTAGTATG
1 ATTAATAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTTAATAATTAGTATG
*
26497 TCCACA-TGCATATTATATGGTTCAT-AATAGTAGTACATGTCATATTAATCTCATTTGCATCAT
66 T-CACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCAT
*
26560 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATT-ATAGCCCATTTATTTGGTTGTTATGAATA
130 TAGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTT-GTTTTTATGAA-A
*** * * *
26624 AGT-ATAATAAAAAAAAAATAGTCAACTTGCATTAGTGCTAATCCATTTACATTAGT-TTACATA
193 AGTAATAAT-AAAACCCAA-A---AA--T--A--A--G-T--TCCATTTGCATTAGTGCTA-GTA
26687 GGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGT-ATTTACATT
241 GGCCCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCTAGTCATTTACATT
* ** *
26751 AGGGTTTGTGATTTAGGGTTTAATGTTTAGTTTTTATGGTTTAGGGTTTTTTTACTTTTAGGGTT
306 AGAGTTTGTGATTTAGGGTTTAATGTTTAG--TTTATGGTTTAGGGTTTTTTTAGATTTAGGATT
*
26816 TAGGGTTTCTATAAACTAAATAATTTATTACTTTATATAGTTTATGCATAATGTTTCTATAAACT
369 TAGGATTTCTATAAACT-AATAATTTATTAC-TTATATAGTTTATGCATAATGTTTCTATAAACT
26881 ATAT-AGTAATTTACTTTATATAGTTTATATATATATATATATATATCTATAATATATATATATA
432 ATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATATC-ATAATATATATATATA
* * *
26945 TATATATAGTTATATATACTATACATGGTTTATACATACTATTATATAAAATTATTTAATAAAAT
496 TATACAT-GTTATATATACTATACATGGTTTATACATAATATTATATAAGATTATTTAATAAAAT
27010 TAATA
560 TAATA
27015 AAAATTATTT
Statistics
Matches: 1043, Mismatches: 90, Indels: 180
0.79 0.07 0.14
Matches are distributed among these distances:
614 14 0.01
615 97 0.09
616 40 0.04
617 54 0.05
618 53 0.05
620 1 0.00
621 8 0.01
622 22 0.02
623 15 0.01
624 10 0.01
625 29 0.03
626 45 0.04
628 26 0.02
629 11 0.01
630 4 0.00
631 3 0.00
632 1 0.00
633 2 0.00
634 1 0.00
635 2 0.00
636 2 0.00
638 1 0.00
640 1 0.00
644 4 0.00
645 1 0.00
646 3 0.00
647 6 0.01
651 4 0.00
653 2 0.00
654 1 0.00
655 7 0.01
656 102 0.10
657 24 0.02
658 5 0.00
659 1 0.00
660 1 0.00
661 70 0.07
662 51 0.05
663 28 0.03
664 1 0.00
665 1 0.00
666 5 0.00
667 2 0.00
669 4 0.00
671 3 0.00
672 4 0.00
673 1 0.00
674 1 0.00
675 1 0.00
676 2 0.00
677 3 0.00
678 28 0.03
679 62 0.06
680 37 0.04
681 31 0.03
682 35 0.03
683 70 0.07
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (636 bp):
ATTAATAAATTATTTTAATGTAAATTATATAAAACATGATTAATTAGGTGTTAATAATTAGTATG
TCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATCATT
AGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATAGCCCATTTATTTGTTTTTATGAAAAGT
AATAATAAAACCCAAAAATAAGTTCCATTTGCATTAGTGCTAGTAGGCCCAATACATAAGCCCAC
TCTTTTATTACAAATATATATGCATTAGTGCTAGTCATTTACATTAGAGTTTGTGATTTAGGGTT
TAATGTTTAGTTTATGGTTTAGGGTTTTTTTAGATTTAGGATTTAGGATTTCTATAAACTAATAA
TTTATTACTTATATAGTTTATGCATAATGTTTCTATAAACTATATAAGTAATTTACTTTATATAG
TTTATATATATATATATATATATCATAATATATATATATATATACATGTTATATATACTATACAT
GGTTTATACATAATATTATATAAGATTATTTAATAAAATTAATATGATTACTTTTGAAATGTTAT
AATAAATATTATTATGATAATTAATTAATAAATAGACCTATTATATAAATT
Found at i:27041 original size:23 final size:21
Alignment explanation
Indices: 26989--27041 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
26979 CATACTATTA
26989 TATAAAATTATTTAATAAAAT
1 TATAAAATTATTTAATAAAAT
*
27010 TAATAAAAATTATTTAATTGTAAAT
1 T-AT-AAAATTATTTAA-T-AAAAT
27035 TATAAAA
1 TATAAAA
27042 CATGATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.04
22 2 0.07
23 16 0.59
24 3 0.11
25 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TATAAAATTATTTAATAAAAT
Found at i:27050 original size:24 final size:25
Alignment explanation
Indices: 27006--27052 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
26996 TTATTTAATA
*
27006 AAATTAATAAAAATTATTTAATTGT
1 AAATTAATAAAAATGATTTAATTGT
27031 AAATT-ATAAAACATGA-TTAATT
1 AAATTAATAAAA-ATGATTTAATT
27053 AGGTGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (25 bp):
AAATTAATAAAAATGATTTAATTGT
Found at i:27370 original size:2 final size:2
Alignment explanation
Indices: 27313--27355 Score: 50
Period size: 2 Copynumber: 20.0 Consensus size: 2
27303 TTATATAGTT
*
27313 TA TA TA TA TA TA TGA TA TA TA TA TA AA CTA TA TA TA TA CTA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA -TA TA TA TA TA -TA TA
27356 CATGGTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 31 0.86
3 5 0.14
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:27554 original size:15 final size:14
Alignment explanation
Indices: 27517--27545 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27507 TACCTATTAT
27517 ATAAAATTA-TTTA
1 ATAAAATTATTTTA
27530 ATAAAATTATTTTA
1 ATAAAATTATTTTA
27544 AT
1 AT
27546 GTAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAAATTATTTTA
Found at i:27903 original size:7 final size:7
Alignment explanation
Indices: 27866--27910 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
27856 GGTTTTGTGA
27866 TTTAGGG
1 TTTAGGG
**
27873 TTTAATG
1 TTTAGGG
27880 TTTAGGG
1 TTTAGGG
**
27887 TTTAAAG
1 TTTAGGG
27894 TTTAGGG
1 TTTAGGG
27901 TTTAGGG
1 TTTAGGG
27908 TTT
1 TTT
27911 TTATAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:27910 original size:14 final size:14
Alignment explanation
Indices: 27866--27904 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
27856 GGTTTTGTGA
*
27866 TTTAGGGTTTAATG
1 TTTAGGGTTTAAAG
27880 TTTAGGGTTTAAAG
1 TTTAGGGTTTAAAG
27894 TTTAGGGTTTA
1 TTTAGGGTTTA
27905 GGGTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:27999 original size:2 final size:2
Alignment explanation
Indices: 27994--28101 Score: 139
Period size: 2 Copynumber: 54.0 Consensus size: 2
27984 TTATATAGTT
**
27994 TA TA TA TA TA TA GG T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
**
28035 TA TA TA TA TA TA TA GG T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
28076 TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA -TA TA TA TA TA -TA TA
28102 CATGGTTTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
1 2 0.02
2 89 0.95
3 3 0.03
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Done.