Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168315.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_54, 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: 150814
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 1 of 4
Found at i:122 original size:12 final size:13
Alignment explanation
Indices: 105--154 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
95 AGACATTCAC
105 AAATAAAT-AAAT
1 AAATAAATAAAAT
117 AAATAAATAAAAT
1 AAATAAATAAAAT
* *
130 AAACATATAAAAGT
1 AAATAAATAAAA-T
144 GAAA-AAATAAA
1 -AAATAAATAAA
155 GAAATGACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 8 0.25
13 14 0.44
14 7 0.22
15 3 0.09
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:3779 original size:19 final size:18
Alignment explanation
Indices: 3744--3779 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3734 ATACATAAAC
*
3744 AAAATAATTAATATTATT
1 AAAATAAATAATATTATT
3762 AAAATAAATAATTATTAT
1 AAAATAAATAA-TATTAT
3780 ATTTATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATAAATAATATTATT
Found at i:5966 original size:181 final size:180
Alignment explanation
Indices: 5395--7009 Score: 1194
Period size: 181 Copynumber: 9.0 Consensus size: 180
5385 AATACTTATT
* * * *
5395 ATTTGAAATAGATAATTATTCTAATAGTC-TAACTATTTGAAC-TGATTC-GACAAACACATTTA
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTAAACTTG-TTCAG-TAAACAGATTTA
* * * * * * * *
5457 TTTTTTTAAATC--T-CTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTGAATT-GAAT
64 -TTTTTTAAATCTTTACTTATTAATTTTTAGAATATTAATAAATTAGAATTATTTTATTTCAAAA
* * * * * *
5518 AAGCTAGTATGAAAAGAAACACTTGTTTTATGACAAAA-TAAATATCATAAAG
128 AAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * * *
5570 ATTTGAGATAGATAATTGTTCAAATAGTTATAAATATTTAAACTAT-TTCAGTAAATAGATTT-T
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTAAACT-TGTTCAGTAAACAGATTTAT
* * * * * * * ** *
5633 ATTTTTAAATC--T-CTTATTAATTATCAAAATATTAATATATCAGTATTATTATATTTTGAATA
65 -TTTTTAAATCTTTACTTATTAATTTTTAGAATATTAATAAATTAGAATTATTTTATTTCAAAAA
* * * ** *
5695 A--TTATACATGAATAGAAATAATCGTTTTACAACAAAACAAAATG-TCATTATG
129 AGCTTGT--ATGAATAGAAACAATTGTTTTATGACAAAACAAAA-GATCATAATG
* ** * * * *
5747 GTTTGAAATAGATAA-TAGTTCAAATAAACATGACTATTTAAACATGTTCGGTAAACAAATTTAT
1 ATTTGAAATAGATAATTA-TTCAAATAGTCATAACTATTTAAACTTGTTCAGTAAACAGATTTAT
** *
5811 TTTTTAAATCTCAAACTTATTAATTTTTAGAATACTAATAAATTAGAATTATTTTATTTCAAAAA
65 TTTTTAAATCT-TTACTTATTAATTTTTAGAATATTAATAAATTAGAATTATTTTATTTCAAAAA
** ** * *
5876 AAATTGTATGAATAGAATTAATTGTTTTATGACAAAATAAAAGATCATAACG
129 AGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * * *
5928 ATTTGAAATAAATAATTATTCCAATAGTCATAACTATTTGAACTTGCTCAATAAACAGATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCAGTAAACAGATTTATT
* * *
5993 TTTTAAATATTTTACTTATTAATTTTTTGAATTTTAATAAATTA-ATATTATTTTATTTCAAAAA
66 TTTTAAAT-CTTTACTTATTAATTTTTAGAATATTAATAAATTAGA-ATTATTTTATTTCAAAAA
* * * * *
6057 AGCTTTTATGAATAGAAACAGTTGGTTTATGACAAAACAAAAGGTCATAATA
129 AGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * *
6109 ATTTGAAATAGATAATTATTCAAATAGTTATAACTATTTGAAA-TTGTTCAGAAAATATATTTAT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTT-AAACTTGTTCAGTAAACAGATTTAT
* * * * *
6173 TTTTTAAAGT-TTTACTTATTAATTTTTGGAATATTAATAAATTTA-AATTACTTTAGTTGAAAT
65 TTTTTAAA-TCTTTACTTATTAATTTTTAGAATATTAATAAA-TTAGAATTATTTTATTTCAAAA
* * * * * *
6236 AAGCTTGCATGAACAGAATCAATTATTTAATGACAAAATAAAAGATCATAATG
128 AAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * * * * * *
6289 TTTTGAAATAAATAATTGTTCAGATAGTCATAATTATTTAAACTTATTCAGTAAATATATTCT-T
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCAGTAAACAGATT-TAT
* * * * * * * *
6353 TTTTTAATTCTCTTACTCATTAATTTTCAGAATATTAATGAATTAGTATTATCTTACTTCAAATA
65 TTTTTAAATCT-TTACTTATTAATTTTTAGAATATTAATAAATTAGAATTATTTTATTTCAAAAA
* * * * * * *
6418 AGCTTATATGAATTGAAACAAGTGTTTTATTATAAAAGAAAAGGTCATAATG
129 AGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * * * *
6470 ATTTGAAATAGATAATTATTCAAATATTCATGACTATTTGAACTTGTTTAGTAAATATATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCAGTAAACAGATTTATT
* * * * * * *
6535 TTTTAAATCTTTTACTTATTAATTGTCAAAATATTTATAAATTA-ATATTATTTTAATCCGAATA
66 TTTTAAATC-TTTACTTATTAATTTTTAGAATATTAATAAATTAGA-ATTATTTTATTTC-AAAA
* * * **
6599 AA-CTTGTATGAACAAAAATAATTGTTTTATGACAAAACAAAA-AGTCATAACA
128 AAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGA-TCATAATG
* * * * * **
6651 AGTTGAAATAAATAATTGCTT-AAATAGCCATAA-TGA-TTGAACTTGTTTGGTAAACAGATTTA
1 ATTTGAAATAGATAATT-ATTCAAATAGTCATAACT-ATTTAAACTTGTTCAGTAAACAGATTTA
*
6713 TTTTTTTAAATCTTTTACTTATTAATTGTCTT--AATATTAATAAA-TATGTATTATTTTA-TTC
64 -TTTTTTAAATC-TTTACTTATTAATT-T-TTAGAATATTAATAAATTA-GAATTATTTTATTTC
* * * * * * * * *
6774 AAAATAAGCTTAG-ATGAACAAAAAAAAAATCTTTTATGACAAAACAAAAGGTTATAGTT
124 AAAA-AAGCTT-GTATGAA-TAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATG
* * * * * * * * * *
6833 ATTTCAAATAGATAATTATGT-AAACAGTCCTAATTATTTAAATTTGTTTAGAAAACAAAGTCAT
1 ATTTGAAATAGATAATTAT-TCAAATAGTCATAACTATTTAAACTTGTTCAGTAAACAGATTTAT
* * * * * ** *
6897 TTTTTAAATCTCTTTA-TTATAAAATTTTGGATTATTAATAAATTAGTATTATTTTATTTTGAAT
65 TTTTTAAA--TCTTTACTTATTAATTTTTAGAATATTAATAAATTAGAATTATTTTATTTCAAAA
* * * * * *
6961 AAGTTTATATGAATTGAAACAATTCTTTTATGACAAAGCAAAAGGTCAT
128 AAGCTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCAT
7010 TAAAATAGAT
Statistics
Matches: 1146, Mismatches: 236, Indels: 110
0.77 0.16 0.07
Matches are distributed among these distances:
174 3 0.00
175 69 0.06
176 54 0.05
177 66 0.06
178 2 0.00
179 7 0.01
180 180 0.16
181 612 0.53
182 117 0.10
183 34 0.03
184 2 0.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (180 bp):
ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCAGTAAACAGATTTATT
TTTTAAATCTTTACTTATTAATTTTTAGAATATTAATAAATTAGAATTATTTTATTTCAAAAAAG
CTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAATG
Found at i:6358 original size:542 final size:537
Alignment explanation
Indices: 5395--6757 Score: 1309
Period size: 542 Copynumber: 2.5 Consensus size: 537
5385 AATACTTATT
* * *
5395 ATTTGAAATAGATAATTATTCTAATAGTC-TAACTATTTGAAC-TGATTCGACAAACACATTTAT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTG-TTCAATAAACACATTTAT
* * * * * * * * * *
5458 TTTTTTAA-A-TCT-CTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTGAATT-GAATA
65 TTTTTAAATATTTTACTTATTAATTTTTAGAATTTTAATAAATTAATATTATTTTAATTCAAAAA
* * * *
5519 AGCTAGTATGAAAAGAAACACTTGTTTTATGACAAAATAAATA-TCATAAAGATTTGAGATAGAT
130 AGCTTGTATGAAAAGAAACAATTGTTTTATGACAAAACAAA-AGTCATAAA-ATTTGAAATAGAT
* *
5583 AATTGTTCAAATAGTTATAAATATTT-AAACTAT-TTCAGTAAATAGATTT-TATTTTTAAA-TC
193 AATTATTCAAATAGTTAT-AATATTTGAAA-T-TGTTCAGTAAATAGATTTAT-TTTTTAAATTT
** * * * *
5644 T-CTTATTAATTATCAAAATATTAATATA-TCAGTATTATTATATTTTGAATAATTATACATGAA
254 TACTTATTAATT-T-TTAATATTAATAAATTCAGAATTATTATATGTTGAATAACTATACATGAA
* * * * *
5707 TAGAAATAATCGTTTTACAACAAAACAAAATGTCATTATGGTTTGAAATAGATAATAGTTCAAAT
317 CAGAAATAATCATTTAACAACAAAACAAAATGTCATAATGGTTTGAAATAAATAATAGTTCAAAT
* * * *
5772 AAACATGACTATTTAAACATGTTCGGTAAACAAATTTATTTTTTAAATCTCAAACTTATTAATTT
382 AAACATAACTATTTAAACATATTCAGTAAACAAATTTATTTTTTAAATCTCAAACTCATTAATTT
* * * * ** *
5837 TTAGAATACTAATAAATTAGAATTATTTTATTTCAAAAAAAATTGTATGAATAGAATTAATTGTT
447 TCAGAATACTAATAAATTAGAATTATCTTACTTCAAAAAAAATTATATGAATAGAAACAAGTGTT
*
5902 TTATGACAAAATAAAAGATCATAACG
512 TTATGACAAAAGAAAAGATCATAACG
* * * *
5928 ATTTGAAATAAATAATTATTCCAATAGTCATAACTATTTGAACTTGCTCAATAAACAGATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACACATTTATT
* *
5993 TTTTAAATATTTTACTTATTAATTTTTTGAATTTTAATAAATTAATATTATTTTATTTCAAAAAA
66 TTTTAAATATTTTACTTATTAATTTTTAGAATTTTAATAAATTAATATTATTTTAATTCAAAAAA
* * * *
6058 GCTTTTATGAATAGAAACAGTTGGTTTATGACAAAACAAAAGGTCATAATAATTTGAAATAGATA
131 GCTTGTATGAAAAGAAACAATTGTTTTATGACAAAACAAAA-GTCATAA-AATTTGAAATAGATA
* *
6123 ATTATTCAAATAGTTATAACTATTTGAAATTGTTCAGAAAATATATTTATTTTTTAAAGTTTTAC
194 ATTATTCAAATAGTTATAA-TATTTGAAATTGTTCAGTAAATAGATTTATTTTTTAAA-TTTTAC
* *
6188 TTATTAATTTTTGGAATATTAATAAATTTA-AATTACTT-TA-GTTGAAATAAGCT-TGCATGAA
257 TTATTAATTTTT--AATATTAATAAATTCAGAATTA-TTATATGTTG-AATAA-CTATACATGAA
* ** * * * *
6249 CAG-AATCAATTATTTAATGACAAAATAAAA-GATCATAATGTTTTGAAATAAATAATTGTTCAG
317 CAGAAAT-AATCATTTAACAACAAAACAAAATG-TCATAATGGTTTGAAATAAATAATAGTTCAA
** * * * * * **
6312 ATAGTCATAATTATTTAAACTTATTCAGTAAATATATTCT-TTTTTTAATTCTCTTACTCATTAA
380 ATAAACATAACTATTTAAACATATTCAGTAAACAAATT-TATTTTTTAAATCTCAAACTCATTAA
* * * * ** *
6376 TTTTCAGAATATTAATGAATTAGTATTATCTTACTTCAAATAAGCTTATATGAATTGAAACAAGT
444 TTTTCAGAATACTAATAAATTAGAATTATCTTACTTCAAAAAAAATTATATGAATAGAAACAAGT
* * * *
6441 GTTTTATTATAAAAGAAAAGGTCATAATG
509 GTTTTATGACAAAAGAAAAGATCATAACG
* * * * * *
6470 ATTTGAAATAGATAATTATTCAAATATTCATGACTATTTGAACTTGTTTAGTAAATATATTTATT
1 ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACACATTTATT
* * * * * *
6535 TTTTAAATCTTTTACTTATTAATTGTCAAAATATTT-ATAAATTAATATTATTTTAATCCGAATA
66 TTTTAAATATTTTACTTATTAATTTTTAGAAT-TTTAATAAATTAATATTATTTTAATTC-AAAA
* * *
6599 AA-CTTGTATGAACAA-AAATAATTGTTTTATGACAAAACAAAAAGTCATAACAAGTTGAAATAA
129 AAGCTTGTATGAA-AAGAAACAATTGTTTTATGACAAAAC-AAAAGTCATAA-AATTTGAAATAG
* ** * ** *
6662 ATAATTGCTT-AAATAGCCATAATGA-TTGAACTTGTTTGGTAAACAGATTTATTTTTTTAAATC
191 ATAATT-ATTCAAATAGTTATAAT-ATTTGAAATTGTTCAGTAAATAGATTTA-TTTTTTAAA--
6725 TTTTACTTATTAATTGTCTTAATATTAATAAAT
251 TTTTACTTATTAATT-T-TTAATATTAATAAAT
6758 ATGTATTATT
Statistics
Matches: 680, Mismatches: 115, Indels: 60
0.80 0.13 0.07
Matches are distributed among these distances:
533 27 0.04
534 34 0.05
535 3 0.00
536 2 0.00
537 38 0.06
538 41 0.06
539 63 0.09
540 5 0.01
541 31 0.05
542 384 0.56
543 49 0.07
544 1 0.00
545 2 0.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (537 bp):
ATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTCAATAAACACATTTATT
TTTTAAATATTTTACTTATTAATTTTTAGAATTTTAATAAATTAATATTATTTTAATTCAAAAAA
GCTTGTATGAAAAGAAACAATTGTTTTATGACAAAACAAAAGTCATAAAATTTGAAATAGATAAT
TATTCAAATAGTTATAATATTTGAAATTGTTCAGTAAATAGATTTATTTTTTAAATTTTACTTAT
TAATTTTTAATATTAATAAATTCAGAATTATTATATGTTGAATAACTATACATGAACAGAAATAA
TCATTTAACAACAAAACAAAATGTCATAATGGTTTGAAATAAATAATAGTTCAAATAAACATAAC
TATTTAAACATATTCAGTAAACAAATTTATTTTTTAAATCTCAAACTCATTAATTTTCAGAATAC
TAATAAATTAGAATTATCTTACTTCAAAAAAAATTATATGAATAGAAACAAGTGTTTTATGACAA
AAGAAAAGATCATAACG
Found at i:7287 original size:26 final size:25
Alignment explanation
Indices: 7247--7296 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
7237 ATTAATTATT
*
7247 AATTTGAATTAAATTAAAATATTTC
1 AATTTGAATAAAATTAAAATATTTC
*
7272 AATTTCGAATAAAATTAATATATTT
1 AATTT-GAATAAAATTAAAATATTT
7297 AAATATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTTGAATAAAATTAAAATATTTC
Found at i:7412 original size:37 final size:38
Alignment explanation
Indices: 7369--7472 Score: 110
Period size: 37 Copynumber: 2.8 Consensus size: 38
7359 TATTATTGAT
7369 ATTAATTATTAAATAATAATTATTAATATG-TTTAATA
1 ATTAATTATTAAATAATAATTATTAATATGATTTAATA
* * *
7406 ATTAATTATTAAA-ACTAATTAAT-ATATGAATTTATTA
1 ATTAATTATTAAATAATAATTATTAATATG-ATTTAATA
7443 ATTAATTA--AAATAATTAACTTATTTAATAT
1 ATTAATTATTAAATAA-TAA-TTA-TTAATAT
7473 TTATATAATC
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
35 8 0.15
36 9 0.16
37 30 0.55
38 3 0.05
39 1 0.02
40 4 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (38 bp):
ATTAATTATTAAATAATAATTATTAATATGATTTAATA
Found at i:7426 original size:17 final size:16
Alignment explanation
Indices: 7402--7466 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 16
7392 TAATATGTTT
7402 AATAATTAATTATTAA
1 AATAATTAATTATTAA
*
7418 AACTAATTAA-TATATGA
1 AA-TAATTAATTAT-TAA
* *
7435 ATTTATTAATTAATTAA
1 AATAATTAATT-ATTAA
7452 AATAATTAACTTATT
1 AATAATTAA-TTATT
7467 TAATATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
16 11 0.29
17 23 0.61
18 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (16 bp):
AATAATTAATTATTAA
Found at i:7427 original size:33 final size:33
Alignment explanation
Indices: 7355--7460 Score: 92
Period size: 33 Copynumber: 3.1 Consensus size: 33
7345 TATATCAATT
* *
7355 TTAATATTATTGATATTAATT-ATTAAATAATAATTA
1 TTAATA-TA-TGA-ATTAATTAATTAATTAA-AATAA
* *
7391 TTAATATGTTTAA-TAATTAATT-ATTAAAACTAA
1 TTAATAT-ATGAATTAATTAATTAATTAAAA-TAA
*
7424 TTAATATATGAATTTATTAATTAATTAAAATAA
1 TTAATATATGAATTAATTAATTAATTAAAATAA
7457 TTAA
1 TTAA
7461 CTTATTTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
32 5 0.09
33 33 0.57
34 11 0.19
35 3 0.05
36 6 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
TTAATATATGAATTAATTAATTAATTAAAATAA
Found at i:8529 original size:181 final size:180
Alignment explanation
Indices: 8215--8969 Score: 669
Period size: 181 Copynumber: 4.2 Consensus size: 180
8205 CTAGTTAGGT
* * *
8215 AAACAAAATT-ATTTTTTAAATCTCTTACTTATTATTTTTTGAAATATTAATAAATTC-ATTTTA
1 AAAC-AAATTCATTTTTTAAATCTCTTACTTATTAATTTTTGGAATATTAATAAA-TCAATATTA
* * **
8278 TTTTATTTCGAATAAGCTAGTATGAATTGAGAA-AATTATTTTATGACAAAACAAAAGGTCATAA
64 TTTTATTTTGAATAAGCTTGTATGAACAGA-AACAATTATTTTATGACAAAACAAAAGGTCATAA
* * * *
8342 TGATTTGAAATAGATAATTGTTCATATAGTCTTAACTATTTGAATTGGTTCGAC
128 TGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATT-GAC
* * * * * * *
8396 AAACAAATTTATTTTTTAAATCCCTTAGTTATTAATTTTTGGTATATTATTAGATCAATATTGTT
1 AAACAAATTCATTTTTTAAATCTCTTACTTATTAATTTTTGGAATATTAATAAATCAATATTATT
* * * * *
8461 TTATTTTGAATAAGCTTGTATGAACAGAAATAATTGTTTTATGACATAACAAAAGGTTATAGTGA
66 TTATTTTGAATAAGCTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAGGTCATAATGA
* * * *
8526 TTTGAAGTATATAATTGTTCAAATAGTCATAACTATTTGAACAGATTTGAT
131 TTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGA-TTGAC
* * * * *
8577 AAACAGATTCATTTTTTAAATCTCTTA-TTA--AATTTTT-CAAGATTAATAAATTATTATTATT
1 AAACAAATTCATTTTTTAAATCTCTTACTTATTAATTTTTGGAATATTAATAAATCAATATTATT
* * * * * * * *
8638 TTATTTTGAATAATCGTGTATGATA-AAAAACAATTGTTATATGACAAAAAAAAAGGTGATAACG
66 TTATTTTGAATAAGCTTGTATGA-ACAGAAACAATTATTTTATGACAAAACAAAAGGTCATAATG
* * * * * *
8702 ATTTGAAATAGATAATTGTTGAAAT-GACCATAATTATTTAAACTAATTTAGC
130 ATTTGAAATAGATAATTGTTCAAATAG-TCATAACTATTTGAACTGATTGA-C
* * * * * *
8754 AAATAGATTCACTTTTTAAATCGCTTACTTATTAATTTTTAGAATATTAATAAATTAGA-ATTAT
1 AAACAAATTCATTTTTTAAATCTCTTACTTATTAATTTTTGGAATATTAATAAATCA-ATATTAT
* * * *
8818 TTTATTTTGAATAAGCTTTTATGAACTGAAACAATTATTTTATGAC--AA-AATA--TCATAATA
65 TTTATTTTGAATAAGCTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAGGTCATAATG
* * * * * * * * * * *
8878 ATTTTAACTAGACAATTGTTTAAATAGTCGTAATTATCTGAATTTGCTCGAT
130 ATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAA-CTGATTGAC
* * *
8930 AAACAAATTTATTTTTTTAAA-CTCCTGCTTATTAATTTTT
1 AAACAAATTCA-TTTTTTAAATCTCTTACTTATTAATTTTT
8970 TTTTGGATAA
Statistics
Matches: 464, Mismatches: 94, Indels: 37
0.78 0.16 0.06
Matches are distributed among these distances:
176 65 0.14
177 140 0.30
178 14 0.03
179 2 0.00
180 20 0.04
181 221 0.48
182 2 0.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (180 bp):
AAACAAATTCATTTTTTAAATCTCTTACTTATTAATTTTTGGAATATTAATAAATCAATATTATT
TTATTTTGAATAAGCTTGTATGAACAGAAACAATTATTTTATGACAAAACAAAAGGTCATAATGA
TTTGAAATAGATAATTGTTCAAATAGTCATAACTATTTGAACTGATTGAC
Found at i:9640 original size:13 final size:13
Alignment explanation
Indices: 9624--9726 Score: 62
Period size: 13 Copynumber: 8.3 Consensus size: 13
9614 TTAATAAAAT
9624 TAATATTATTATA
1 TAATATTATTATA
*
9637 TAAT-TAAATTA-A
1 TAATAT-TATTATA
*
9649 TAATATAATTATA
1 TAATATTATTATA
9662 TAATA-T-TTAT-
1 TAATATTATTATA
*
9672 T-ATATTATAATA
1 TAATATTATTATA
9684 -AATATTTAATT-TA
1 TAATA-TT-ATTATA
*
9697 -AATATTTACTATA
1 TAATA-TTATTATA
*
9710 TAATAATATTATA
1 TAATATTATTATA
9723 TAAT
1 TAAT
9727 TAAATAATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 7 0.10
12 16 0.22
13 38 0.53
14 6 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:9640 original size:22 final size:25
Alignment explanation
Indices: 9615--9666 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
9605 ATCAATTGTT
9615 TAATAAAATTAAT-AT-T-ATTATA
1 TAATAAAATTAATAATATAATTATA
*
9637 TAATTAAATTAATAATATAATTATA
1 TAATAAAATTAATAATATAATTATA
9662 TAATA
1 TAATA
9667 TTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 2 0.08
24 1 0.04
25 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATAAAATTAATAATATAATTATA
Found at i:9643 original size:17 final size:17
Alignment explanation
Indices: 9615--9659 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
9605 ATCAATTGTT
*
9615 TAATAAAATTAATATT-A
1 TAATATAATTAA-ATTAA
*
9632 TTATATAATTAAATTAA
1 TAATATAATTAAATTAA
9649 TAATATAATTA
1 TAATATAATTA
9660 TATAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATAATTAAATTAA
Found at i:9682 original size:17 final size:17
Alignment explanation
Indices: 9660--9719 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
9650 AATATAATTA
9660 TATAATATTTATTATAT
1 TATAATATTTATTATAT
**
9677 TATAATAAATATT-TAAT
1 TATAATATTTATTAT-AT
*
9694 T-TAAATATTTACTATAT
1 TAT-AATATTTATTATAT
*
9711 AATAATATT
1 TATAATATT
9720 ATATAATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.06
17 29 0.88
18 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAATATTTATTATAT
Found at i:10612 original size:52 final size:52
Alignment explanation
Indices: 10519--10617 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 52
10509 ATTTGATTAT
* * *
10519 TTTTTTTGGATTTCTAAATTTTTCACCATTTGAGTCAATTTAGAAATATATA
1 TTTTTTTGAATTTCTAAATTTTTCACCATTTGAGCCAATTTAAAAATATATA
* * *
10571 TTTTTTTGAATTTCTAAATTTTTTACCATTTGGGCCTATTTAAAAAT
1 TTTTTTTGAATTTCTAAATTTTTCACCATTTGAGCCAATTTAAAAAT
10618 TTTTTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (52 bp):
TTTTTTTGAATTTCTAAATTTTTCACCATTTGAGCCAATTTAAAAATATATA
Found at i:11521 original size:23 final size:24
Alignment explanation
Indices: 11469--11525 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
11459 TTAGTATTCT
* *
11469 ATTAAT-TTAAGTATTGTAATAATA
1 ATTAATATTAAATATTATAAT-ATA
11493 ATTAATATTAAATATTATAAT-TA
1 ATTAATATTAAATATTATAATATA
11516 ATTAATATTA
1 ATTAATATTA
11526 TTAATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 12 0.40
24 6 0.20
25 12 0.40
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTAATATTAAATATTATAATATA
Found at i:11528 original size:13 final size:13
Alignment explanation
Indices: 11491--11548 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
11481 ATTGTAATAA
11491 TAATTAATATTA-
1 TAATTAATATTAT
* *
11503 -AA-TATTATAAT
1 TAATTAATATTAT
11514 TAATTAATATTAT
1 TAATTAATATTAT
*
11527 TAATTAATAAT-T
1 TAATTAATATTAT
11539 TAATATAATA
1 TAAT-TAATA
11549 AATATAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 6 0.16
11 2 0.05
12 7 0.19
13 22 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTAATATTAT
Found at i:11532 original size:23 final size:24
Alignment explanation
Indices: 11485--11561 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 24
11475 TTAAGTATTG
11485 TAATAA-TAATTAATATTAAATAT
1 TAATAATTAATTAATATTAAATAT
*
11508 T-ATAATTAATTAATATT-ATTAAT
1 TAATAATTAATTAATATTAAAT-AT
*
11531 TAATAATTTAA-T-ATAATAAATA-
1 TAATAA-TTAATTAATATTAAATAT
11553 TAATAATTA
1 TAATAATTA
11562 TTTATTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 3 0.07
22 12 0.26
23 20 0.43
24 7 0.15
25 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATAATTAATTAATATTAAATAT
Found at i:11587 original size:17 final size:17
Alignment explanation
Indices: 11485--11612 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
11475 TTAAGTATTG
11485 TAATA-ATAATTA-ATA
1 TAATATATAATTATATA
11500 TTAAATATTATAATTA-AT-
1 -T-AATA-TATAATTATATA
*
11518 TAATATTATTAATTAATAATT
1 TAATA-TA-TAATT-AT-ATA
*
11539 TAATATAATAAATATA-A
1 TAATAT-ATAATTATATA
* *
11556 TAATTATTTATTTATATA
1 TAA-TATATAATTATATA
*
11574 TAATATATAATTATACA
1 TAATATATAATTATATA
*
11591 T-ATATA-GATTATATA
1 TAATATATAATTATATA
*
11606 TATTATA
1 TAATATA
11613 GTAAATAAGA
Statistics
Matches: 89, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
15 8 0.09
16 17 0.19
17 31 0.35
18 9 0.10
19 11 0.12
20 7 0.08
21 6 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (17 bp):
TAATATATAATTATATA
Found at i:11587 original size:21 final size:21
Alignment explanation
Indices: 11569--11612 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11559 TTATTTATTT
11569 ATATATAATATATAATTATAC
1 ATATATAATATATAATTATAC
11590 ATATATAGATTATATATATTATA
1 ATATATA-A-TATATA-ATTATA
11613 GTAAATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 1 0.05
23 6 0.30
24 6 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATATAATATATAATTATAC
Found at i:11596 original size:25 final size:24
Alignment explanation
Indices: 11503--11612 Score: 72
Period size: 25 Copynumber: 4.6 Consensus size: 24
11493 ATTAATATTA
11503 AATATTATAATTAATTAATAT-TAT-T
1 AATA-TATAATT-A-TAATATATATAT
11528 AAT-TAATAATT-TAATATA-ATA-
1 AATAT-ATAATTATAATATATATAT
* *
11549 AATATAATAATTATTTATTTATATAT
1 AATAT-ATAATTA-TAATATATATAT
*
11575 AATATATAATTATACATATATAGAT
1 AATATATAATTATA-ATATATATAT
*
11600 TATATAT-ATTATA
1 AATATATAATTATA
11613 GTAAATAAGA
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
21 11 0.16
22 8 0.11
23 1 0.01
24 18 0.26
25 27 0.39
26 5 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
AATATATAATTATAATATATATAT
Found at i:12013 original size:13 final size:12
Alignment explanation
Indices: 11995--12068 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 12
11985 ATAATTATAG
*
11995 TTAATATATCAT
1 TTAATATATAAT
*
12007 TTGAATATTTAAT
1 TT-AATATATAAT
12020 TT-A-ATATAAT
1 TTAATATATAAT
12030 TT-ATA-ATAAT
1 TTAATATATAAT
12040 TATAATATAATAATT
1 T-TAATAT-ATAA-T
12055 ATTAATATATAAT
1 -TTAATATATAAT
12068 T
1 T
12069 ATATTTATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
10 15 0.29
11 3 0.06
12 6 0.12
13 11 0.22
14 8 0.16
15 7 0.14
16 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (12 bp):
TTAATATATAAT
Found at i:12050 original size:14 final size:14
Alignment explanation
Indices: 12031--12071 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
12021 TAATATAATT
12031 TATAATAATTATAA
1 TATAATAATTATAA
12045 TATAATAATTATTAA
1 TATAATAATTA-TAA
12060 TAT-ATAATTATA
1 TATAATAATTATA
12072 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.08
14 18 0.69
15 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATAATAATTATAA
Found at i:12681 original size:21 final size:23
Alignment explanation
Indices: 12655--12706 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
12645 AATTATAAAC
*
12655 AATTATTAAAT-TTATATTAT-T
1 AATTATTAAATAATATATTATAT
12676 AATTATT-AATAATATATTATAT
1 AATTATTAAATAATATATTATAT
*
12698 ACTTATTAA
1 AATTATTAA
12707 TATTATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 15 0.58
22 7 0.27
23 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTATTAAATAATATATTATAT
Found at i:13252 original size:14 final size:14
Alignment explanation
Indices: 13230--13265 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
13220 AATGAGATTT
13230 ATATATAACAATTA
1 ATATATAACAATTA
* *
13244 ATATTTAACAATTT
1 ATATATAACAATTA
13258 ATATATAA
1 ATATATAA
13266 TTTAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATAACAATTA
Found at i:14441 original size:178 final size:180
Alignment explanation
Indices: 14071--14842 Score: 698
Period size: 181 Copynumber: 4.3 Consensus size: 180
14061 GAATTGAAGT
* * * * * * *
14071 AATTATTTTATTACAAAAC-AAAAGCTCACAATGATTTGAAATAGATTATTATTTAAATAGTTAT
1 AATTATTTTATGACAAAACAAAAAG-TCATAACGATTTGAAATAAATAATTATTCAAATAGTCAT
* * ** * * * * *
14135 GACTATTTGAACTTGTTTGGCAAACATATTTATTTTTTAAATCTATTACTTATAAATTATCAAAA
65 AACGATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAA
*
14200 TATTAATAAATTAATATTATTTTATTTCGAATAAGCTAGTATGAACA-AAAA
130 TATTAATAAATTAATATTATTTTA-TTCGAATAAGCTTGTATGAACAGAAAA
* * *
14251 TAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAAATAATTGTTCAAATAGTCAT
1 -AATTATTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCAT
* **
14316 AACGATTTGAACTTGTTCAATAAA-AGATTTA-TTTTTAAATCTTTTACTTATTAATTGTCTTAA
65 AACGATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAA
** *
14379 T-TTAATAAATTTGTATTATTTTATTCAAAATAAGCTTGTATGAACAGAAAA
130 TATTAATAAATTAATATTATTTTATTC-GAATAAGCTTGTATGAACAGAAAA
* * * * * ** * *
14430 AATCATTTTATGATAAAGCAAAATGTTA-AAGCGATTTCCAATAAATAATTATTCAAATAATTAT
1 AATTATTTTATGACAAAACAAAAAGTCATAA-CGATTTGAAATAAATAATTATTCAAATAGTCAT
*** * * * * * *
14494 AATTTTTTAAACTTGTTCAGTAAATAGATTCATTTTTTAAATCTCTTAATTATTAATTTTCAAAA
65 AACGATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAA
* * * ** *
14559 TATTAATAACTTAATATTATTTTATTTTGAATAAGCTTATATGAATTGAAAT
130 TATTAATAAATTAATATTATTTTA-TTCGAATAAGCTTGTATGAACAGAAAA
* * * * * * *
14611 AATTTTTTTATGACAGAAGAAAAAGTCATAACGATTTGAAATAGATAACTATTCAAATAGCCATG
1 AATTATTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATA
* * * ** *
14676 ACTG-TTTG-ATTTAGTTTAGTAAACATATTTAATTTTTTTACGTATTTTACTTATTAATTGTCA
66 AC-GATTTGAACTT-GTTCAGTAAACAGATTT-A-TTTTTTAAATCTTTTACTTATTAATTGTCA
** * * * * *
14739 AAAT-TTAATAAATTTGTATTATTTTAATCCGAATAAGCTTGAATAAATAGAAAC
127 AAATATTAATAAATTAATATTATTTT-ATTCGAATAAGCTTGTATGAACAGAAAA
* * * * * *
14793 TATTATCTTATAACAGAACAAAAAGTTATAATGATTTGAAATAAATAATT
1 AATTATTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATT
14843 GCTTAAATAA
Statistics
Matches: 470, Mismatches: 107, Indels: 27
0.78 0.18 0.04
Matches are distributed among these distances:
177 5 0.01
178 105 0.22
179 38 0.08
180 37 0.08
181 167 0.36
182 89 0.19
183 29 0.06
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (180 bp):
AATTATTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATA
ACGATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAAT
ATTAATAAATTAATATTATTTTATTCGAATAAGCTTGTATGAACAGAAAA
Found at i:15746 original size:355 final size:354
Alignment explanation
Indices: 15026--16106 Score: 892
Period size: 355 Copynumber: 3.0 Consensus size: 354
15016 ATTATATTAG
* * * *
15026 TATTATTTTATTTTGAATAAACTTGTGTGAATAGAAATAATTGTTTTATGAGATAACAAAAGGTT
1 TATTATTTTATTTTGAAAAAACTTGTATGAATAGAAATAATTGTTTTATGAGAAAACAAAAGGTC
* * *
15091 ATAACAATTTGAAATATATAATTGTTCAAATAATCATAACTATTTGAACTGGTTCAGTAAATAGA
66 ATAACAATTTGAAATATATAATTGTTCAAATAATCATAACAATTTAAACTGATTCAGTAAATAGA
* * * * *
15156 TTAACTTTTTAAATCTTTTATTAATTTTTGAAATATTAGTAAATTAGTATTATTTTATTCCAAAT
131 TT-A-TTTTAAAATCTTTCATTAATTTTTGAAATATTAATAAATTAGTATTACTATATTCCAAAT
* * * * ** *
15221 AGGCTTTTATGATGAGAAACAATTGTTTTATGACAAAACAAAAGTTCATAACAATTTGAAATAGA
194 AAGCATGTATGATGAGAAACAATTATTTTATGACAAAACAAAAAATCAAAACAATTTGAAATAGA
*
15286 TAATTATTCATATAGCCATAATTATTTGAATAATTTGATAAACTAATTTATTTTTTAAAACTCCA
259 TAATTATTCATATAGCCATAACTATTTGAATAATTTGATAAACTAATTTATTTTTTAAAACTCC-
* *
15351 ACTTCTTAATTTTGGAAATATTAATAAAGCAA
323 ACTTATTAATTTTGGAAATAGTAATAAAGCAA
* * * * *
15383 TATTATTTTATTTTGAAAAAACTTTTATGTACT-GAAATAGTTGTTTTATGATAAAATAAAAGGT
1 TATTATTTTATTTTGAAAAAACTTGTATG-AATAGAAATAATTGTTTTATGAGAAAACAAAAGGT
* * * * **
15447 CATAACGATTTTAAATATATAATTGTTCAAATAGTCATAACAATTTAAACTTATTTGGTAAATAG
65 CATAACAATTTGAAATATATAATTGTTCAAATAATCATAACAATTTAAACTGATTCAGTAAATAG
* * *
15512 ATT-TTTTGAAAAT-TTCTCATTAATTTTCT-AAATTTTAATAAATTAGTATTACTATATTTCGA
130 ATTATTTT-AAAATCTT-TCATTAATTTT-TGAAATATTAATAAATTAGTATTACTATATTCCAA
* * * *
15574 ATAAGCATGTATGAACT-A-AAACAATTATTTTTTGACTAAACAAAAAATCAAAATAATTTGGAA
192 ATAAGCATGTATG-A-TGAGAAACAATTATTTTATGACAAAACAAAAAATCAAAACAATTTGAAA
* * **
15637 TAGATAATTATTC-TAATAGTCTTAACTATTTGAACTGTTTTGGA-AAAC-ACATTTA-TTTTT-
255 TAGATAATTATTCAT-ATAGCCATAACTATTTGAA-TAATTT-GATAAACTA-ATTTATTTTTTA
* * ****
15697 AAA-T-C-TTTATTAATTTTTGAAATAGTAATAAATTGG
316 AAACTCCACTTATTAATTTTGGAAATAGTAATAAAGCAA
* * ** * * * * * **
15733 TATTATTTTATTTTGTATAATTTTGTATGAATAGAAACAATTATTTTATAATAAAATAAAATATC
1 TATTATTTTATTTTGAAAAAACTTGTATGAATAGAAATAATTGTTTTATGAGAAAACAAAAGGTC
* * * * * * * * *
15798 ATAACGATTTAAAATAAATAATAGTTCAAATGGAT-ATGACTATTTAAACTTG-TTCGGTAAACA
66 ATAACAATTTGAAATATATAATTGTTCAAAT-AATCATAACAATTTAAAC-TGATTCAGTAAATA
* * * * * *
15861 GATTTATTTTTTAAATCTCTAACTTATTAATTTTT-AGAATAATAATAAACTAGTATTATTTTAT
129 GA-TTA-TTTTAAAATCT-T---TCATTAATTTTTGA-AATATTAATAAATTAGTATTACTATAT
* * * * * *
15925 TCCAAATAAACTTGTGTGAAT-AGAAACAATTATTTTATGATAAAACAAAAGATCATAAA-GATT
187 TCCAAATAAGCATGTATG-ATGAGAAACAATTATTTTATGACAAAACAAAAAATCA-AAACAATT
* * * ** * *
15988 TGAAATATATAATTGTTCAAATAGTAAT-ACTATTTGAAT--TTGCTCGATAAACAAATTTATTA
250 TGAAATAGATAATTATTCATATAGCCATAACTATTTGAATAATT--T-GATAAACTAATTTATTT
* ** * * **
16050 TTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAA
312 TTTAAA-ACTCCACTTATTAATTTTGGAAATAGTAATAAAGCAA
16094 TATTATTTTATTT
1 TATTATTTTATTT
16107 CGAATAAGCT
Statistics
Matches: 587, Mismatches: 103, Indels: 64
0.78 0.14 0.08
Matches are distributed among these distances:
349 2 0.00
350 124 0.21
351 4 0.01
352 7 0.01
353 6 0.01
354 15 0.03
355 146 0.25
356 121 0.21
357 119 0.20
358 3 0.01
359 1 0.00
361 39 0.07
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (354 bp):
TATTATTTTATTTTGAAAAAACTTGTATGAATAGAAATAATTGTTTTATGAGAAAACAAAAGGTC
ATAACAATTTGAAATATATAATTGTTCAAATAATCATAACAATTTAAACTGATTCAGTAAATAGA
TTATTTTAAAATCTTTCATTAATTTTTGAAATATTAATAAATTAGTATTACTATATTCCAAATAA
GCATGTATGATGAGAAACAATTATTTTATGACAAAACAAAAAATCAAAACAATTTGAAATAGATA
ATTATTCATATAGCCATAACTATTTGAATAATTTGATAAACTAATTTATTTTTTAAAACTCCACT
TATTAATTTTGGAAATAGTAATAAAGCAA
Found at i:16102 original size:180 final size:179
Alignment explanation
Indices: 14972--16123 Score: 898
Period size: 175 Copynumber: 6.5 Consensus size: 179
14962 TATAGCCAAT
* * * *
14972 AAATTTATTTTTTAAATCTCGTAGTTATTAATTTTTA-AAATATTATTATATTAGTATTATTTTA
1 AAATTTATTTTTAAAATCT--TACTTATTAA-TTTTAGAAATATTAATAAATTAGTATTATTTTA
** * * * * * * *
15036 TTTTGAATAAACTTGTGTGAATAGAAATAATTGTTTTATGAGATAACAAAAGGTTATAACA-ATT
63 TTTCAAATAAACTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGATCATAA-AGATT
* * *
15100 TGAAATATATAATTGTTCAAATAATCATAACTATTTGAACTGGTTC-AGTAAAT
127 TGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCGA-TAAAC
* * * *
15153 AGATTAACTTTTT-AAATCTT--TTATTAATTTTTGAAATATTAGTAAATTAGTATTATTTTATT
1 AAATTTA-TTTTTAAAATCTTACTTATTAATTTTAGAAATATTAATAAATTAGTATTATTTTATT
* ** * * * *
15215 CCAAATAGGCTTTTATG-ATGAGAAACAATTGTTTTATGACAAAACAAAAGTTCATAACA-ATTT
65 TCAAATAAACTTGTATGAAT-AGAAACAATTATTTTATGATAAAACAAAAGATCATAA-AGATTT
* * * * * ** *
15278 GAAATAGATAATTATTCATATAGCCATAATTATTTGAA-TAATTTGATAAAC
128 GAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCGATAAAC
* ** * * ** *
15329 TAATTTATTTTTTAAAACTCCAACTTCTTAATTTTGGAAATATTAATAAAGCAATATTATTTTAT
1 AAATTTA-TTTTTAAAA-TCTTACTTATTAATTTTAGAAATATTAATAAATTAGTATTATTTTA-
* * * * * * * * *
15394 TTTGAAA-AAACTTTTATGTACT-GAAATAGTTGTTTTATGATAAAATAAAAGGTCATAACGATT
63 TTTCAAATAAACTTGTATG-AATAGAAACAATTATTTTATGATAAAACAAAAGATCATAAAGATT
* * * * * * *
15457 TTAAATATATAATTGTTCAAATAGTCATAACAATTTAAACTTATTTGGTAAAT
127 TGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCGATAAAC
* * * ** * * *
15510 AGA-TT-TTTTGAAAAT-TT-CTCATTAATTTTCTAAATTTTAATAAATTAGTATTACTATATTT
1 AAATTTATTTTTAAAATCTTACTTATTAATTTTAGAAATATTAATAAATTAGTATTATTTTATTT
* * * * * *
15571 CGAATAAGCATGTATGAACTA-AAACAATTATTTTTTGACT-AAACAAAAAATCA-AAATAATTT
66 CAAATAAACTTGTATGAA-TAGAAACAATTATTTTATGA-TAAAACAAAAGATCATAAA-GATTT
* * * * * * *
15633 GGAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGTTTTGGA-AAAC
128 GAAATATATAATTGTTCAAATAGTCATAACTATTTGAACT-TGTTCGATAAAC
* * * *
15685 ACATTTATTTTT-AAATC-T--TTATTAATTTTTGAAATAGTAATAAATTGGTATTATTTTATTT
1 AAATTTATTTTTAAAATCTTACTTATTAATTTTAGAAATATTAATAAATTAGTATTATTTTATTT
*** ** * * * * *
15746 TGTATAATTTTGTATGAATAGAAACAATTATTTTATAATAAAATAAAATATCATAACGATTTAAA
66 CAAATAAACTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGATCATAAAGATTTGAA
* * * * * *
15811 ATAAATAATAGTTCAAATGGAT-ATGACTATTTAAACTTGTTCGGTAAAC
131 ATATATAATTGTTCAAATAG-TCATAACTATTTGAACTTGTTCGATAAAC
* * * *
15860 AGATTTATTTTTTAAATCTCTAACTTATTAATTTTTAG-AATAATAATAAACTAGTATTATTTTA
1 AAATTTATTTTTAAAATCT-T-ACTTATTAA-TTTTAGAAATATTAATAAATTAGTATTATTTTA
* *
15924 TTCCAAATAAACTTGTGTGAATAGAAACAATTATTTTATGATAAAACAAAAGATCATAAAGATTT
63 TTTCAAATAAACTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGATCATAAAGATTT
* * *
15989 GAAATATATAATTGTTCAAATAGTAAT-ACTATTTGAATTTGCTCGATAAAC
128 GAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCGATAAAC
* *
16040 AAATTTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTAT
1 AAATTTATT-TTTAAA-ATCTTACTTATTAATTTTAGAAATATTAATAAATTAGTATTATTTTAT
* * *
16105 TTCGAATAAGCTTATATGA
64 TTCAAATAAACTTGTATGA
16124 CAAAATAAAT
Statistics
Matches: 761, Mismatches: 172, Indels: 77
0.75 0.17 0.08
Matches are distributed among these distances:
174 15 0.02
175 225 0.30
176 42 0.06
177 123 0.16
178 11 0.01
179 7 0.01
180 186 0.24
181 138 0.18
182 14 0.02
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (179 bp):
AAATTTATTTTTAAAATCTTACTTATTAATTTTAGAAATATTAATAAATTAGTATTATTTTATTT
CAAATAAACTTGTATGAATAGAAACAATTATTTTATGATAAAACAAAAGATCATAAAGATTTGAA
ATATATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTCGATAAAC
Found at i:16249 original size:159 final size:159
Alignment explanation
Indices: 15977--16276 Score: 394
Period size: 159 Copynumber: 1.9 Consensus size: 159
15967 AAACAAAAGA
* * * * *
15977 TCATAAAGATTTGAAATATATAATTGTTCAAATAGTAATACTATTTGAATTTGCTCGATAAACAA
1 TCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATACTATTTGAATGTGCTCAAAAAACAA
16042 ATTTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTT
66 ATTTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTA-TT
16107 CG-AATAAGCTTATATGACAAAATAAATTG
130 CGAAATAAGCTTATATGACAAAATAAATTG
* *
16136 TCATAACA-ATTTGAAATAGATAATTGTTCAAACAGTTATAACTA-TTGAATGTGTTCAAAAAAA
1 TCATAA-AGATTTGAAATAGATAATTGTTCAAACAGTAAT-ACTATTTGAATGTGCTC-AAAAAA
* * * * * * *
16199 CATATTTATT-TTTAAA-ATTTTTATTTATTAATTTTTGGAGTTTTAATAAATTTATATTATTTT
63 CAAATTTATTATTTAAATA-TTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTT
16262 ATTCGAAATAAGCTT
127 ATTCGAAATAAGCTT
16277 GCATGAACAT
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
158 5 0.04
159 99 0.81
160 18 0.15
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (159 bp):
TCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATACTATTTGAATGTGCTCAAAAAACAA
ATTTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTC
GAAATAAGCTTATATGACAAAATAAATTG
Found at i:16431 original size:182 final size:179
Alignment explanation
Indices: 16144--16656 Score: 438
Period size: 181 Copynumber: 2.8 Consensus size: 179
16134 TGTCATAACA
* * * ** *** *
16144 ATTTGAAATAGATAATTGTTCAAACAGTTATAACTA-TTGAA-TGTGTTCAAAAAAACATATTTA
1 ATTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACT-TGTTC-GGTAAACATATTCA
* * * * *
16207 TTTTTAAAAT-TTTTATTTATTAATTTTTGGAGTTTTAATAAATTTATATTATTTTATTCGAAAT
64 TTTTTTAAATCTTTCACTCATTAATTTTTGGA-TATTAATAAATTTATATTATTTTATTCGAAAT
*
16271 AAGCTTGCATGAACAT-AACTAATTATTTTATGACAAAACA-AATGGTCATAATGT
128 AAGCTTG-ATGAACATAAAC-AATTATTTTATGACAAAACAGAA-GGTCACAAT-T
* *
16325 -TTTGAAAATAGATAAATATTTAGATAGCCATAACTATTTGAACTTGTTCGGTAAACATATTCAT
1 ATTTG-AAATAGATAAATATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACATATTCAT
* * *
16389 TTTTTAATTCTCTT-ACTCATTAATTTTTGGTATATTAATAAA-TTAGAGCTATTTTATTTC-AA
65 TTTTTAAATCT-TTCACTCATTAATTTTTGG-ATATTAATAAATTTATA-TTATTTTA-TTCGAA
* *
16451 ATAAGCTT-ATGTTAAC-TGAAACAATTATTTTATTACAAAATAGAAGGTCACAATT
126 ATAAGCTTGATG--AACAT-AAACAATTATTTTATGACAAAACAGAAGGTCACAATT
* * * ** * *
16506 ATTTGAAATAGATAATTATTCAAATAGTCTTGGCTATTTGAACTTGTTTGGTAAACATATTTATT
1 ATTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACATATTCATT
* * **** * *
16571 TTTTAAATCTTTCGCTTATTAATTGTCAAAATATTAATAAATTAATATTATTTTAATCCG-AATA
66 TTTTAAATCTTTCACTCATTAATT-TTTGGATATTAATAAATTTATATTATTTT-ATTCGAAATA
*
16635 AGCTTGTATGAACAGAAACAAT
129 AGCTTG-ATGAACATAAACAAT
16657 CATAACAATT
Statistics
Matches: 268, Mismatches: 42, Indels: 44
0.76 0.12 0.12
Matches are distributed among these distances:
180 9 0.03
181 155 0.58
182 89 0.33
183 15 0.06
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.42
Consensus pattern (179 bp):
ATTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACTTGTTCGGTAAACATATTCATT
TTTTAAATCTTTCACTCATTAATTTTTGGATATTAATAAATTTATATTATTTTATTCGAAATAAG
CTTGATGAACATAAACAATTATTTTATGACAAAACAGAAGGTCACAATT
Found at i:16655 original size:181 final size:182
Alignment explanation
Indices: 16241--16656 Score: 441
Period size: 181 Copynumber: 2.3 Consensus size: 182
16231 TTTTGGAGTT
* * *
16241 TTAATAAATTTATATTATTTT-ATTCGAAATAAGCTTGCATGAACA-TAACTAATTATTTTATGA
1 TTAATAAATTAATATTATTTTAATTCG-AATAAGCTTGTATGAACAGAAAC-AATTATTTTATGA
* * *
16304 CAAAACAAATGGTCATAATGTTTTGAAAATAGATAAATATTTAGATAGCCATAACTATTTGAACT
64 CAAAACAAATGGTCACAATGTTTTGAAAATAGATAAATATTCAAATAGCCATAACTATTTGAACT
* * ****
16369 TGTTCGGTAAACATATTCATTTTTTAATTCTCTTACTCATTAATTTTTGGTATA
129 TGTTCGGTAAACATATTCATTTTTTAAATCTCTTACTCATTAATTGTCAAAATA
** * * * * * * *
16423 TTAATAAATTAGA-GCTATTTTATTTCAAATAAGCTTATGTTAACTGAAACAATTATTTTATTAC
1 TTAATAAATTA-ATATTATTTTAATTCGAATAAGCTTGTATGAACAGAAACAATTATTTTATGAC
* * * * **
16487 AAAATAGAA-GGTCACAAT-TATTTG-AAATAGATAATTATTCAAATAGTCTTGGCTATTTGAAC
65 AAAACA-AATGGTCACAATGT-TTTGAAAATAGATAAATATTCAAATAGCCATAACTATTTGAAC
* * * *
16549 TTGTTTGGTAAACATATTTATTTTTTAAATCT-TTCGCTTATTAATTGTCAAAATA
128 TTGTTCGGTAAACATATTCATTTTTTAAATCTCTT-ACTCATTAATTGTCAAAATA
*
16604 TTAATAAATTAATATTATTTTAATCCGAATAAGCTTGTATGAACAGAAACAAT
1 TTAATAAATTAATATTATTTTAATTCGAATAAGCTTGTATGAACAGAAACAAT
16657 CATAACAATT
Statistics
Matches: 187, Mismatches: 40, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
180 3 0.02
181 116 0.62
182 59 0.32
183 9 0.05
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (182 bp):
TTAATAAATTAATATTATTTTAATTCGAATAAGCTTGTATGAACAGAAACAATTATTTTATGACA
AAACAAATGGTCACAATGTTTTGAAAATAGATAAATATTCAAATAGCCATAACTATTTGAACTTG
TTCGGTAAACATATTCATTTTTTAAATCTCTTACTCATTAATTGTCAAAATA
Found at i:17065 original size:181 final size:179
Alignment explanation
Indices: 16683--17323 Score: 621
Period size: 181 Copynumber: 3.5 Consensus size: 179
16673 ACAAAACTAT
* * * *
16683 TTCAAATCATTATGACTATTTGAATAATTATCTATTTCAAATTATTATTACCTTTTGTTTTGTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCA
* * * * * * *
16748 TAAAACAAATGTTTTTGTTCAAATAAGTTTGTTTGGAATAAAATAATATTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAAT-AAATAAT-TTAATTTATTAATATTT
** * * * *
16813 CAAAAATTAATACA-TAAGAGATTTTTAAAATAAATATGTTTGCCAT-ACCAA
129 CAAAAATTAATA-AGTAAGAGATTTAAAAAATGAATCTGTTTGAC-TGACCAG
* * * * * * *
16864 TTCAATTAGTTATAACTATTTGACCAAATATTTATTTCAAATTGTTATGA-CTATTTGTTTTATC
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCT-TTTGTTTTGTC
* * * * * *
16928 ATAAAATAATTGTTTCTGTTCATATAATCTTATTGGGAAGAAAGCAATGTTAATTTATTAATATT
65 ATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAAA-TAAT-TTAATTTATTAATATT
** * * *
16993 TTGAAAATTAATAAGTAATG-GATTTAGAAAATGTATCT-TTTGGCTTGACCAG
128 TCAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTGTTTGAC-TGACCAG
* * * * * * *
17045 TGCAAACAATTATGACTATTTGAATAATTATCTACTTCAAATCATTATGACCTTTTGTTTTCTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCA
* * *
17110 CAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAA-ATAATT-TAATTTATTAATATTT
* *
17175 CAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCTGTTT-ACTGAACAAG
129 CAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGACTG-ACCAG
* ** * * *
17226 TTCAAATAATTATAACTATTTGAACAATTATCTAGTTCAAATTGCTATAACTTTTTGTATTGTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCA
* *
17291 TAAAATAATT-TTTGCTATTCATACAAGCTTATT
66 TAAAACAATTGTTT-CTGTTCATACAAGCTTATT
17324 TCAAATTTGT
Statistics
Matches: 371, Mismatches: 77, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
180 19 0.05
181 345 0.93
182 7 0.02
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (179 bp):
TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAAATAATTTAATTTATTAATATTTCA
AAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGACTGACCAG
Found at i:18879 original size:14 final size:16
Alignment explanation
Indices: 18862--18893 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
18852 TTTATAGTAT
18862 TATAATTA-TA-AATA
1 TATAATTACTATAATA
18876 TATAATTACTATAATA
1 TATAATTACTATAATA
18892 TA
1 TA
18894 ATTTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAATTACTATAATA
Found at i:19130 original size:31 final size:31
Alignment explanation
Indices: 19094--19155 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
19084 ATAATTAAAA
*
19094 TTATTACTATTAGTT-ATATT-TTGACTATTAT
1 TTATTACTA-TAATTAATATTATT-ACTATTAT
*
19125 TTATTATTATAATTAATATTATTACTATTAT
1 TTATTACTATAATTAATATTATTACTATTAT
19156 AATATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.15
31 21 0.78
32 2 0.07
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (31 bp):
TTATTACTATAATTAATATTATTACTATTAT
Found at i:19338 original size:13 final size:13
Alignment explanation
Indices: 19322--19366 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
19312 ATTTTAATAA
19322 ATTATAATTATAT
1 ATTATAATTATAT
*
19335 ATTATAATTATTT
1 ATTATAATTATAT
* *
19348 AATATGATT-TAT
1 ATTATAATTATAT
19360 ATTATAA
1 ATTATAA
19367 ATAATTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
ATTATAATTATAT
Found at i:19490 original size:15 final size:16
Alignment explanation
Indices: 19462--19491 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19452 AATTTAATTA
19462 ATTAATATATATAATG
1 ATTAATATATATAATG
19478 ATTAATA-ATATAAT
1 ATTAATATATATAAT
19492 TTCATATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTAATATATATAATG
Found at i:20408 original size:9 final size:9
Alignment explanation
Indices: 20394--20418 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20384 AATATTATTA
20394 TTTAAATAT
1 TTTAAATAT
20403 TTTAAATAT
1 TTTAAATAT
20412 TTTAAAT
1 TTTAAAT
20419 CAATAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAAATAT
Found at i:20718 original size:6 final size:6
Alignment explanation
Indices: 20707--20745 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
20697 AATAAAAAGC
* *
20707 TTAATA TTAATA TCAATA TTAA-A TTAGTA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
20746 ACAATATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (6 bp):
TTAATA
Found at i:20741 original size:17 final size:17
Alignment explanation
Indices: 20707--20746 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
20697 AATAAAAAGC
20707 TTAATATTAATATCAATA
1 TTAA-ATTAATATCAATA
* *
20725 TTAAATTAGTATTAATA
1 TTAAATTAATATCAATA
20742 TTAAA
1 TTAAA
20747 CAATATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAATTAATATCAATA
Found at i:21417 original size:24 final size:23
Alignment explanation
Indices: 21386--21457 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
21376 TTGTTATTAA
21386 AAAT-TATAATAAGTAATTAGTAT
1 AAATATATAATAAGTAATTA-TAT
21409 AAATATATAATAAG-AATT-TA-
1 AAATATATAATAAGTAATTATAT
*
21429 AATTA-ATAATAAGTAATTAATAT
1 AAATATATAATAAGTAATT-ATAT
21452 AAATAT
1 AAATAT
21458 TATTTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 8 0.20
20 8 0.20
21 2 0.05
22 2 0.05
23 12 0.29
24 9 0.22
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
AAATATATAATAAGTAATTATAT
Found at i:21829 original size:23 final size:23
Alignment explanation
Indices: 21786--21829 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
21776 AGTACTAATA
* *
21786 ATATTTATTATTATAACTATAGT
1 ATATTTATTATTAAAAATATAGT
21809 ATATTTA-TATTTAAAAATATA
1 ATATTTATTA-TTAAAAATATA
21830 ACATCACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
ATATTTATTATTAAAAATATAGT
Found at i:21992 original size:18 final size:18
Alignment explanation
Indices: 21942--22003 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
21932 AATGATTTAA
21942 TAATT-TAGTAATTATAT
1 TAATTATAGTAATTATAT
* *
21959 T-A-TAT--TATTTAAAT
1 TAATTATAGTAATTATAT
21973 TAATTATAGTAATTATAT
1 TAATTATAGTAATTATAT
*
21991 TAAATATAGTAAT
1 TAATTATAGTAAT
22004 AAATTATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
14 8 0.23
15 2 0.06
16 5 0.14
17 1 0.03
18 19 0.54
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TAATTATAGTAATTATAT
Found at i:22043 original size:21 final size:21
Alignment explanation
Indices: 22005--22044 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21995 TATAGTAATA
*
22005 AATTATTAAATAATTTATTGG
1 AATTATTAAATAACTTATTGG
22026 AATTATT-AATATACTTATT
1 AATTATTAAATA-ACTTATT
22045 TATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTATTAAATAACTTATTGG
Found at i:22164 original size:32 final size:32
Alignment explanation
Indices: 22125--22195 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
22115 AATAACTAGT
*
22125 ATAATAT-AA-TATTACAATTATATGATATTTGA
1 ATAATATAAATTA-TACAATTA-ATAATATTTGA
**
22157 ATAATATAAATTATACAATTAATAATATTTTT
1 ATAATATAAATTATACAATTAATAATATTTGA
22189 ATAATAT
1 ATAATAT
22196 TATTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 22 0.65
33 10 0.29
34 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (32 bp):
ATAATATAAATTATACAATTAATAATATTTGA
Found at i:22431 original size:16 final size:15
Alignment explanation
Indices: 22410--22444 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
22400 GTTTATACAT
22410 GTTATAATTATAATAA
1 GTTATAATTATAAT-A
*
22426 GTTATAATTTTAATA
1 GTTATAATTATAATA
22441 GTTA
1 GTTA
22445 ATTTAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (15 bp):
GTTATAATTATAATA
Found at i:22732 original size:16 final size:15
Alignment explanation
Indices: 22699--22736 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
22689 TAATTAATTA
22699 TAATAATTATTATTT
1 TAATAATTATTATTT
22714 TAATACATTATT-TTAT
1 TAATA-ATTATTATT-T
22730 TAATAAT
1 TAATAAT
22737 AACAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATAATTATTATTT
Found at i:23486 original size:24 final size:21
Alignment explanation
Indices: 23431--23499 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
23421 ACTAAATAAC
*
23431 TATT-AATATTATTAATAAAT
1 TATTCAATATAATTAATAAAT
23451 TATTC-ATGATAATTAATATTAAT
1 TATTCAAT-ATAATTAATA--AAT
23474 TATATCAATATAAGTT-ATAAAT
1 TAT-TCAATATAA-TTAATAAAT
23496 TATT
1 TATT
23500 ACTATTAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
20 6 0.15
21 10 0.24
22 6 0.15
23 6 0.15
24 9 0.22
25 4 0.10
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (21 bp):
TATTCAATATAATTAATAAAT
Found at i:23579 original size:41 final size:40
Alignment explanation
Indices: 23529--23642 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 40
23519 GTTATGACCT
*
23529 TAACTATTAATATATATTTTAATATATAAATTATTAAATTA
1 TAACTATTAATATATATTATAATATATAAATTATTAAA-TA
*
23570 TAACTATTAATA-ATAGTTATAATAT-TACAA-TATGAAATA
1 TAACTATTAATATATA-TTATAATATATA-AATTATTAAATA
* *
23609 TAA-TAATAAT-TATATTAAAAT-TATAAAATTATTA
1 TAACTATTAATATATATTATAATATAT-AAATTATTA
23643 GAGTAAATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
36 1 0.02
37 9 0.15
38 14 0.23
39 5 0.08
40 11 0.18
41 22 0.35
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (40 bp):
TAACTATTAATATATATTATAATATATAAATTATTAAATA
Found at i:23596 original size:32 final size:30
Alignment explanation
Indices: 23560--23635 Score: 75
Period size: 32 Copynumber: 2.5 Consensus size: 30
23550 ATATATAAAT
* *
23560 TATTAAATTATAACTATTAATAATAGTTATAA
1 TATTAAATTATAAATA-TAATAATAATTAT-A
23592 TATTACAA-TATGAAATATAATAATAATTATA
1 TATTA-AATTAT-AAATATAATAATAATTATA
*
23623 T-TAAAATTATAAA
1 TATTAAATTATAAA
23636 ATTATTAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 5 0.13
30 5 0.13
31 2 0.05
32 20 0.53
33 6 0.16
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
TATTAAATTATAAATATAATAATAATTATA
Found at i:23780 original size:25 final size:22
Alignment explanation
Indices: 23749--23800 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 22
23739 TTAAACTAAA
23749 AATAATTAATATTAATAACTTTATT
1 AATAATTAATATT-ATAA--TTATT
**
23774 AATAATTTCTATTATAATTATT
1 AATAATTAATATTATAATTATT
23796 AATAA
1 AATAA
23801 AGTTTATCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.40
24 4 0.16
25 11 0.44
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTAATATTATAATTATT
Found at i:23866 original size:22 final size:23
Alignment explanation
Indices: 23817--23876 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 23
23807 TCCAAAATAA
*
23817 AATAACTATTTTATTATAATATTAT
1 AATAA-TA-TTTATTATAATAGTAT
23842 AAT-ATATTTATTATAAT-GTACT
1 AATAATATTTATTATAATAGTA-T
23864 AATAAATATTTAT
1 AAT-AATATTTAT
23877 ACTTATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.06
22 15 0.48
23 2 0.06
24 9 0.29
25 3 0.10
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (23 bp):
AATAATATTTATTATAATAGTAT
Found at i:24228 original size:18 final size:20
Alignment explanation
Indices: 24182--24228 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
24172 TTATAAATAT
24182 TATTATAAATTTATATAGTA
1 TATTATAAATTTATATAGTA
*
24202 T-TTATAAATTTA-ATTGTA
1 TATTATAAATTTATATAGTA
24220 TATTA-AAAT
1 TATTATAAAT
24229 AGTAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TATTATAAATTTATATAGTA
Found at i:24745 original size:142 final size:142
Alignment explanation
Indices: 24535--24815 Score: 318
Period size: 142 Copynumber: 2.0 Consensus size: 142
24525 TAGAACAAAT
* * * *
24535 TATTTGATGATAAAATAAAAAGTTATAACGATTCGAAATAGATAATTTTGAAAATAGTCAAAACT
1 TATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATTTTGAAAATAATCAAAACT
* * * *
24600 ATTTAAAATGGTT-TGATAACCA-AATTTACTTTTTAAATCTCTTA-TTGATTAATTTTTTAAAT
66 ATTTAAAATGGTTCAG-TAAACAGAA-TTACTTTTTAAATCTCTTACTT-ATAAATTTTTAAAAT
24662 ATTAATAAATTAGTA
128 ATTAATAAATTAGTA
* * * * * * * *
24677 TATTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTT-TAAGTAATTATAAT
1 TATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATT-TTGAAAATAATCAAAAC
* * * *
24741 TATTTGAACTGGTTCAGTAAATAGAATTATTTTTTAAATCTCTTACTTATAAATTTTTAAAATAT
65 TATTTAAAATGGTTCAGTAAACAGAATTACTTTTTAAATCTCTTACTTATAAATTTTTAAAATAT
24806 TAATAAATTA
130 TAATAAATTA
24816 CTTTCATTCT
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
142 108 0.94
143 7 0.06
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (142 bp):
TATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATTTTGAAAATAATCAAAACT
ATTTAAAATGGTTCAGTAAACAGAATTACTTTTTAAATCTCTTACTTATAAATTTTTAAAATATT
AATAAATTAGTA
Found at i:25407 original size:182 final size:180
Alignment explanation
Indices: 24679--26265 Score: 1004
Period size: 181 Copynumber: 8.8 Consensus size: 180
24669 AATTAGTATA
* ** * * *
24679 TTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAGTAATTATAATTAT
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAACTATAATTAT
* * * *
24744 TTGAACTGGTTCAGTAAA-TAGAATTATTTTTTAAATCTCTTACTTATAAATTTTTAAAATATTA
66 TTGAACTGATTCGGTAAACT-GATTTATTTTTTAAAT-TCTTACTTATTAATTTTTAAAATATTA
* * * * * * *
24808 ATAAATTACT-TTCATTCTATTTCGAATTAA-CTTGTATGAGCTGAAATAATTA
129 ATAAATTAGTATT-ATTTTATTTC-AAATAAGCTTGTATGAACTAAAACAATTG
* * * * * * * *
24860 TTTTATGATAAAATAAAAGGTTATAACAATTTGAAATAAATACTTGTTCATATAGACT-TAACTG
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATA-ACTATAATTA
** * * ** * * * * * *
24924 TTTGAAAGGGTTTGACAAGCGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTG
65 TTTGAACTGATTCGGTAAACTGATTTATTTTTTAAAT-TCTTACTTATTAATTTTTAAAATATTA
* * * *
24989 CTAAATTATTATTATTTTATTTCGAATAAGCTTGTATGAA-GAGAAACAATTG
129 ATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTA-AAACAATTG
* * ** * * * * *
25041 TTTTATGATAGAACAAAAGGTTGTAACAATTTGAAATAAAAAATTATTCAAAT-AGTCATAACTA
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAACT-ATAATTA
* ** * * *
25105 TTTAAACT-AGTTCAATAAACTAATTTATTTTTTAAA-T-GT-CTTATTAATTCTTAAAATATTA
65 TTTGAACTGA-TTCGGTAAACTGATTTATTTTTTAAATTCTTACTTATTAATTTTTAAAATATTA
* ****
25166 CTAAATTAGTA-TATTTTATTTCAAATAAGCTTGTATGTTGAAAAACAATTG
129 ATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTG
* * * **
25217 TTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGTTGTTTAAATGGCTATAATTAT
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAACTATAATTAT
* * *
25282 TTGAACTGATTGGGTAAACTGATTTATTCTTTTAAATTAGTTACTTATTAATTTTTGAAATATTA
66 TTGAACTGATTCGGTAAACTGATTTATT-TTTTAAATT-CTTACTTATTAATTTTTAAAATATTA
* * *** * *
25347 CTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAAAACAATTG
129 ATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTG
* * ** * * * *
25399 TTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCCATAATTAT
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAACTATAATTAT
** * * ** *
25464 TCAAACTTG-TTTGGTAAACAT-ATTTATTTTTTTAAATCTCATGA-TTATTAATTTTTTGAATG
66 TTGAAC-TGATTCGGTAAAC-TGATTTA-TTTTTTAAAT-TC-TTACTTATTAATTTTTAAAATA
* * * *
25526 TTAATAAATTAGTATTATTTTCTTTCAAATAAGCTTGTATGAACTGAAGCAATTA
126 TTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTG
** ** * * * ** * * * *
25581 TTACATGACTCAAGAAAAGGTCAGAATGATTTGAAATTGATAATTATTCTAATAGTCT-TAATTA
1 TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATA-ACTATAATTA
* ** * ** *
25645 TTTGAACTGGTTCGGTAAACACATTTATTTTTTGAA-TC-T-CTTATTAA-TTTTGGAATATTAT
65 TTTGAACTGATTCGGTAAACTGATTTATTTTTTAAATTCTTACTTATTAATTTTTAAAATATTAA
* * * * *
25706 TAAATTAGTAATATTTT-TATCTAAATAAGCTTGTATGATC-AGAAATAATTA
130 TAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGAACTA-AAACAATTG
* * * * * * *
25757 TTTTATGAGAAAAC-AAAGATCAA-GACAATTT-AAGATTGATATTTATTCAAATAACCATAATT
1 TTTTATGACAAAACAAAAGGT-AATAACAATTTGAA-ATAGATAATTGTTCAAATAACTATAATT
* * * * * * * *
25819 ATTTGAACTAATTTGGAAAAC-AATTTTAGTTTTTAAAAATCTTGCTTATTAATTTTCAAAATAT
64 ATTTGAACTGATTCGGTAAACTGA-TTTA-TTTTTTAAATTCTTACTTATTAATTTTTAAAATAT
* * * * * * * * *
25883 TAATAAAGTAGTATTATTTCATTTTAGATAAGTTTTTATAAATTGAAACAATTG
127 TAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTG
* * * * *
25937 TTTTATGACAATACAAAAGGTCATAATGACTTT-AAATAGATAATTGTTTAAATAA-TCA-AATT
1 TTTTATGACAAAACAAAAGGTAATAA-CAATTTGAAATAGATAATTGTTCAAATAACT-ATAA-T
* * * * * * * * ** *
25999 TATTTTAATTTATTCGATAAGCAGATTTATTTTTTAAATCTCATGCTTATTAATTTTTTGAATGT
63 TATTTGAACTGATTCGGTAAACTGATTTATTTTTTAAAT-TCTTACTTATTAATTTTTAAAATAT
* * * *
26064 TAATAAATTAGTATTAATTTA-TTCTAAATAAGCTTGTATGAATTGAAATAATTG
127 TAATAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGAACTAAAACAATTG
* * * ** * * ** * **
26118 TTTTGTAACTAAACAAAAGGTTAA-AATGATTTGAAATAGATAATT-ATCTTAATAGTTTTAACA
1 TTTTATGACAAAACAAAAGG-TAATAACAATTTGAAATAGATAATTGTTC-AAATAACTATAATT
* ** * ** * **
26181 ATTTGAACTGGTTTAGCAAACACATTTATTTTTTAAATCTCTTACTTACTAATTTTTGGAATATT
64 ATTTGAACTGATTCGGTAAACTGATTTATTTTTTAAAT-TCTTACTTATTAATTTTTAAAATATT
*
26246 ATTAAATTAGTATTATTTTA
128 AATAAATTAGTATTATTTTA
26266 ATATGAATAA
Statistics
Matches: 1087, Mismatches: 267, Indels: 104
0.75 0.18 0.07
Matches are distributed among these distances:
174 4 0.00
175 56 0.05
176 172 0.16
177 46 0.04
178 3 0.00
179 13 0.01
180 77 0.07
181 455 0.42
182 252 0.23
183 9 0.01
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (180 bp):
TTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAATTGTTCAAATAACTATAATTAT
TTGAACTGATTCGGTAAACTGATTTATTTTTTAAATTCTTACTTATTAATTTTTAAAATATTAAT
AAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAACTAAAACAATTG
Found at i:26173 original size:537 final size:538
Alignment explanation
Indices: 24940--26285 Score: 1485
Period size: 540 Copynumber: 2.5 Consensus size: 538
24930 AGGGTTTGAC
* * * * * ** *
24940 AAGCGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTGCTAAATTATTATTATT
1 AAGCAGATTTATTTTTTAAATCTCAT-GTTATTAATTTTTTGAATGTTAATAAATTAGTATTATT
* ** ** **
25005 TTATTTCGAATAAGCTTGTATGAAGAGAAACAATTGTTTTATGA-TAGAACAAAAGGTTGTAACA
65 TTATTTCAAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTA-AACAAAAGGTTAAAATG
* * * * * * *
25069 ATTTGAAATAAAAAATTATTCAAATAGTCATAACTATTTAAACTAGTTCAATAAACTA-ATTTAT
129 ATTTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCAGTAAAC-ACATTTAT
* ** * *
25133 TTTTTAAATGTCTTATTAATTCTTAAAATATTACTAAATTAGT-ATA-TTTTATTTCAAATAAGC
193 TTTTTAAATCTCTTATTAATT-TTGGAATATTATTAAATTAGTAATATTTTTATAT-AAATAAGC
* * * *
25196 TTGTATGTTGAAAAACAATTGTTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGT
256 TTGTATGATCAAAAACAATTATTTTATGACAAAAGAAAAGATAATAACAATTTGAAATAGATAGT
* * ** * * * * * * *
25261 TGTTTAAATGGCTATAATTATTTGAACTGATTGGGTAAACTGATTTATTCTTTTAAATTAGTTAC
321 TATTCAAATAACCATAATTATTTGAACTAATTGGGAAAACTAATTTATTCTTTAAAAATACTTAC
** * * * *
25326 TTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTAA
386 TTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAAACTTTTATAAACTAA
* * * *
25391 AACAATTGTTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCC
451 AACAATTGTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAAATAATTGTTCAAATAACC
* * *
25456 ATAATTATTCAAACTTGTTTGGT
516 ATAATTATTCAAACTTATTCGAT
* *
25479 AAACATATTTATTTTTTTAAATCTCATGATTATTAATTTTTTGAATGTTAATAAATTAGTATTAT
1 AAGCAGATTTA-TTTTTTAAATCTCATG-TTATTAATTTTTTGAATGTTAATAAATTAGTATTAT
* * * ** * * * *
25544 TTTCTTTCAAATAAGCTTGTATGAACTGAAGCAATTATTACATGACTCAAGAAAAGGTCAGAATG
64 TTTATTTCAAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTAAACAAAAGGTTAAAATG
* * *
25609 ATTTGAAATTGATAATTATTCTAATAGTCTTAATTATTTGAACTGGTTCGGTAAACACATTTATT
129 ATTTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCAGTAAACACATTTATT
* *
25674 TTTTGAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTG
194 TTTTAAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATATAAATAAGCTTG
* * * * * * *
25739 TATGATCAGAAATAATTATTTTATGAGAAAA-CAAAGATCAA-GACAATTT-AAGATTGATATTT
259 TATGATCAAAAACAATTATTTTATGACAAAAGAAAAGAT-AATAACAATTTGAA-ATAGATAGTT
* *
25801 ATTCAAATAACCATAATTATTTGAACTAATTTGGAAAAC-AATTTTAGTT-TTTAAAAAT-CTTG
322 ATTCAAATAACCATAATTATTTGAACTAATTGGGAAAACTAA-TTTA-TTCTTTAAAAATACTTA
** * *
25863 CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAAGTTTTTATAAATTG
385 CTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAAACTTTTATAAACTA
* * * *
25928 AAACAATTGTTTTATGACAATACAAAAGGTCATAATGACTTTAAATAGATAATTGTTTAAATAAT
450 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAAATAATTGTTCAAATAAC
** *
25993 CA-AATTTATTTTAATTTATTCGAT
515 CATAA-TTATTCAAACTTATTCGAT
*
26017 AAGCAGATTTATTTTTTAAATCTCATGCTTATTAATTTTTTGAATGTTAATAAATTAGTATTAAT
1 AAGCAGATTTATTTTTTAAATCTCATG-TTATTAATTTTTTGAATGTTAATAAATTAGTATTATT
* * * *
26082 TTA-TTCTAAATAAGCTTGTATGAATTGAAATAATTGTTTTGTAACTAAACAAAAGGTTAAAATG
65 TTATTTC-AAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTAAACAAAAGGTTAAAATG
* * * *
26146 ATTTGAAATAGATAATTA-TCTTAATAGTTTTAACAATTTGAACTGGTTTAGCAAACACATTTAT
129 ATTTGAAATAGATAATTATTC-TAATAGTCTTAACTATTTGAACTGGTTCAGTAAACACATTTAT
* * *
26210 TTTTTAAATCTCTTACTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTTAATATGAATA
193 TTTTTAAATCTCTTA--T--TAA-TTTTGGAATATTATTAAATTAGTAATATTTTTATATAAATA
*
26275 AGCTTATATGA
253 AGCTTGTATGA
26286 AAAGTCATAA
Statistics
Matches: 670, Mismatches: 119, Indels: 33
0.82 0.14 0.04
Matches are distributed among these distances:
536 5 0.01
537 169 0.25
538 141 0.21
539 91 0.14
540 206 0.31
541 11 0.02
542 47 0.07
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.43
Consensus pattern (538 bp):
AAGCAGATTTATTTTTTAAATCTCATGTTATTAATTTTTTGAATGTTAATAAATTAGTATTATTT
TATTTCAAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTAAACAAAAGGTTAAAATGAT
TTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCAGTAAACACATTTATTTT
TTAAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATATAAATAAGCTTGTA
TGATCAAAAACAATTATTTTATGACAAAAGAAAAGATAATAACAATTTGAAATAGATAGTTATTC
AAATAACCATAATTATTTGAACTAATTGGGAAAACTAATTTATTCTTTAAAAATACTTACTTATT
AATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAAACTTTTATAAACTAAAACAA
TTGTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAAATAATTGTTCAAATAACCATAAT
TATTCAAACTTATTCGAT
Found at i:26386 original size:113 final size:115
Alignment explanation
Indices: 26176--26388 Score: 261
Period size: 117 Copynumber: 1.9 Consensus size: 115
26166 TTAATAGTTT
* * ***
26176 TAACAATTTGAACTGGTTTAGCAAACACATTTATTTTTTAAATCTCTTACTTACTAATTTTTGGA
1 TAACAATTTGAACTGGTTTAGCAAACAAATTTAGTTTTTAAATCTCTTAC-TA-TAATTTTCAAA
* * *
26241 ATATTATTAAATTAGTATTATTTTAATATGAATAAGCTTATATGAAAAGTCA
64 ATATTAATAAATCAGTATTATTTGAATATGAATAAGCTTATATGAAAAGTCA
* * *
26293 TAACTATTTGAACT-GTTTCAGTAAATAAATTTAGTTTTTAAATCTCTTA-T-TAATTTTCAAAA
1 TAACAATTTGAACTGGTTT-AGCAAACAAATTTAGTTTTTAAATCTCTTACTATAATTTTCAAAA
* *
26355 TATTAATAAATCAGTATTATTTGATTCTGAATAA
65 TATTAATAAATCAGTATTATTTGAATATGAATAA
26389 TTTTGCATGA
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
113 38 0.46
115 1 0.01
116 4 0.05
117 39 0.48
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (115 bp):
TAACAATTTGAACTGGTTTAGCAAACAAATTTAGTTTTTAAATCTCTTACTATAATTTTCAAAAT
ATTAATAAATCAGTATTATTTGAATATGAATAAGCTTATATGAAAAGTCA
Found at i:26593 original size:180 final size:176
Alignment explanation
Indices: 26291--26807 Score: 522
Period size: 181 Copynumber: 2.9 Consensus size: 176
26281 TATGAAAAGT
* *
26291 CATAACTATTTGAACTGT-TTCAGTAAATAAATTTAGTTTTTAAATCTCT--TATTAATTTTCAA
1 CATAACTATTTGGACT-TATTCAGTAAATAAATTTA-TTTTTAAAACTCTACTATTAATTTTC-A
* ** ** * *
26353 AATATTAATAAATCAGTATTATTTGATTCTGAATAATTTTGCATGAACAGAAACAATTGTTTTAT
63 AATATTAATAAAT-AGTATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTAT
* * * * **
26418 GACAAAA-AAAAGGTCATAACTTTTTTAAATAGATAATTGTTCAAATGGA
127 GACAAAACAAAAGGTCATAACTATTTGAAATAAAAAATTGTTCAAACAGA
* * * *
26467 CATGACTATTTGGACTTATTCAGTAAATAGATTTATTTTTTAAAACTCCTAGCTACTAACTTTCA
1 CATAACTATTTGGACTTATTCAGTAAATAAATTTA-TTTTTAAAACT-CTA-CTATTAATTTTCA
* * *
26532 AAGTTTTAATCAACTAGTATTATTTTATTCCAAATAAACTTGTATGAACAAAAATAATTGTTTTA
63 AA-TATTAAT-AAATAGTATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTA
* * *
26597 GGACAAAACAAAAGATCATAACTATTTGAAATAAAAAATTGTTCAAACAGT
126 TGACAAAACAAAAGGTCATAACTATTTGAAATAAAAAATTGTTCAAACAGA
** * * * * *
26648 CATAAGGATTT-GAATTAGATCAGTAAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTT
1 CATAACTATTTGGACTTA-TTCAGTAAATAAATTTATTTTTAAAA--CTCTAC-TATTAA-TTTT
* * ** *
26712 GAAATATTAATAAATTAGTATTATTTTATTTCAAATATGCTTGTATGAACAAAAACAATTGGTTT
61 CAAATATTAATAAA-TAGTATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTT
*
26777 ATGACAAAACAAAGGGTCATAACTATTTGAA
125 ATGACAAAACAAAAGGTCATAACTATTTGAA
26808 CGTGTTTAGA
Statistics
Matches: 279, Mismatches: 48, Indels: 23
0.80 0.14 0.07
Matches are distributed among these distances:
175 1 0.00
176 40 0.14
177 2 0.01
179 3 0.01
180 81 0.29
181 145 0.52
182 7 0.03
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (176 bp):
CATAACTATTTGGACTTATTCAGTAAATAAATTTATTTTTAAAACTCTACTATTAATTTTCAAAT
ATTAATAAATAGTATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTATGACA
AAACAAAAGGTCATAACTATTTGAAATAAAAAATTGTTCAAACAGA
Found at i:26942 original size:145 final size:146
Alignment explanation
Indices: 26672--26952 Score: 381
Period size: 145 Copynumber: 1.9 Consensus size: 146
26662 TTAGATCAGT
*
26672 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
1 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTAATATT
* * * * *
26737 TTATTTCAAATATGCTTGTATGAACAAAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTA
66 TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACAAAAGATCATAACAA
26802 TTTGAACGTGTTTAGA
131 TTTGAACGTGTTTAGA
* * *
26818 AAACATATTTATTTTTTAAA-TTTTTAGTTATTAATTTTTGAAATATTAATAAATTTA-TAATAT
1 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTAATAT
* * * * *
26881 TTTA-TTCAAAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACAAAA-AGAAATATCATAA
65 TTTATTTC-AAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACA-AAAGATCATAA
26944 CAATTTGAA
128 CAATTTGAA
26953 ATAGATAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
144 4 0.03
145 93 0.79
146 21 0.18
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (146 bp):
AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTAATATT
TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACAAAAGATCATAACAA
TTTGAACGTGTTTAGA
Found at i:27147 original size:137 final size:138
Alignment explanation
Indices: 26991--27248 Score: 382
Period size: 138 Copynumber: 1.9 Consensus size: 138
26981 ATTTAAATTT
*
26991 GTTTGGTAAACAAATTTTTTTTT-AAATCTCCAACTTATTAATTTTTAG-AATATTAATT-AATT
1 GTTTGGTAAACAAATTTTTTTTTAAAATCTCCAACTTACTAATTTTT-GTAATATT-ATTAAATT
* *
27053 AGTATTATTTT-ATTTCGAATAAACTTGTATGAATAGAAAC-ATATGTTTTATGACAAAACCTAA
64 AGTATTATTTTAATAT-GAATAAACTTGTATGAAAAGAAACAAT-TGTTTTATGACAAAACCTAA
27116 CTATTTGTACTG
127 CTATTTGTACTG
* **
27128 GTTTGGTAAACACATTTTTTTTTAAAATCTCTTACTTACTAATTTTTGTAATATTATTAAATTAG
1 GTTTGGTAAACAAATTTTTTTTTAAAATCTCCAACTTACTAATTTTTGTAATATTATTAAATTAG
*
27193 TATTATTTTAATATGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
66 TATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
27249 TAAAAATCAT
Statistics
Matches: 109, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
137 26 0.24
138 78 0.72
139 5 0.05
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.45
Consensus pattern (138 bp):
GTTTGGTAAACAAATTTTTTTTTAAAATCTCCAACTTACTAATTTTTGTAATATTATTAAATTAG
TATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAACCTAACTAT
TTGTACTG
Found at i:27731 original size:181 final size:180
Alignment explanation
Indices: 27386--27818 Score: 494
Period size: 181 Copynumber: 2.4 Consensus size: 180
27376 ACAATTTTAC
* * *
27386 ATGAACAGAAACAATTGTTTTATGACAAAATAAAAAAGGTCATAACAATTTAAAATAAATAATTG
1 ATGAACAGAAACAATTGTTTTATGAC-AAA-ACAAAAGGTCATAACTATTTGAAATAAATAATTG
** * *** * * *
27451 TTCAAATGGACATGACTATTTAAACTTGTTCGACGAACATATTTATTTTTTAAATCTCCTACCTG
64 TTCAAATCAACATGACGATTTAAACTAACTCGACAAACAAATTTATTTTTAAAATCTCCTACCT-
* ** *
27516 CTAATTTTTAGAGTATTAATCAATTAGTATTATTTTA-TTCTAAATAAACTTGT
128 CTAATTTTTAGAATATTAAGAAATTAGAATTATTTTATTTC-AAATAAACTTGT
* * *
27569 ATGAACAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAATTATTTGAAATAAATAATTGTT
1 ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
* * **
27634 CAAA-CAATCATGACGATTTAAACTAACTCGATAAACAAATTTATTTTTAAAATTTTTTA-CTCA
66 CAAATCAA-CATGACGATTTAAACTAACTCGACAAACAAATTTATTTTTAAAATCTCCTACCTC-
* * * *
27697 TTAATTTTTGGAATATTAAGAAATTAGAATTATTTTATTTCGAATACATTTGT
129 -TAATTTTTAGAATATTAAGAAATTAGAATTATTTTATTTCAAATAAACTTGT
* * * * *
27750 ATGAATAGAAACAATTGGTTTATGACAAAACAAAGGGTCATACCTATTTGAAATAGATAATTGTT
1 ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
27815 CAAA
66 CAAA
27819 AAGTCATAAC
Statistics
Matches: 211, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
179 1 0.00
180 3 0.01
181 176 0.83
182 6 0.03
183 25 0.12
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (180 bp):
ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
CAAATCAACATGACGATTTAAACTAACTCGACAAACAAATTTATTTTTAAAATCTCCTACCTCTA
ATTTTTAGAATATTAAGAAATTAGAATTATTTTATTTCAAATAAACTTGT
Found at i:28137 original size:22 final size:21
Alignment explanation
Indices: 28106--28146 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
28096 GATTTTAATT
28106 ATTATATATTAATATTTATCA
1 ATTATATATTAATATTTATCA
*
28127 ATTATATTATTAATGTTTAT
1 ATTATA-TATTAATATTTAT
28147 AATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATATATTAATATTTATCA
Found at i:28285 original size:31 final size:30
Alignment explanation
Indices: 28250--28325 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
28240 TTAAAACATT
*
28250 TATTAATTATAATTATAATTAAATATTATAA
1 TATTAA-TATAATTATAATTAAATATTAAAA
* *
28281 TATT-ATATTAATTAATAATTTATTATTAAAA
1 TATTAATA-TAATT-ATAATTAAATATTAAAA
*
28312 TATTAAAATAATTA
1 TATTAATATAATTA
28326 ATATTTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 2 0.05
30 7 0.18
31 27 0.71
32 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTAATATAATTATAATTAAATATTAAAA
Found at i:28296 original size:15 final size:14
Alignment explanation
Indices: 28247--28345 Score: 52
Period size: 15 Copynumber: 7.2 Consensus size: 14
28237 TTATTAAAAC
28247 ATTTATTAATT-AT
1 ATTTATTAATTAAT
*
28260 AATTA-TAATTAA-
1 ATTTATTAATTAAT
28272 A--TATT-A-TAAT
1 ATTTATTAATTAAT
28282 ATTATATTAATTAAT
1 ATT-TATTAATTAAT
28297 AATTTATT-ATTAAAAT
1 -ATTTATTAATT--AAT
* *
28313 ATTAAAATAATTAAT
1 ATT-TATTAATTAAT
*
28328 ATTTATTTGATTAAT
1 ATTTA-TTAATTAAT
28343 ATT
1 ATT
28346 GTTTAGTACA
Statistics
Matches: 66, Mismatches: 6, Indels: 26
0.67 0.06 0.27
Matches are distributed among these distances:
9 3 0.05
10 4 0.06
11 1 0.02
12 6 0.09
13 9 0.14
14 5 0.08
15 27 0.41
16 8 0.12
17 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (14 bp):
ATTTATTAATTAAT
Found at i:28326 original size:31 final size:31
Alignment explanation
Indices: 28258--28334 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
28248 TTTATTAATT
* * * *
28258 ATAATT-ATAATTAAATATTATAATATTATA
1 ATAATTAATAATTTATTATTAAAATATTAAA
*
28288 TTAATTAATAATTTATTATTAAAATATTAAA
1 ATAATTAATAATTTATTATTAAAATATTAAA
28319 ATAATTAAT-ATTTATT
1 ATAATTAATAATTTATT
28335 TGATTAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 12 0.30
31 28 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
ATAATTAATAATTTATTATTAAAATATTAAA
Found at i:29098 original size:22 final size:20
Alignment explanation
Indices: 29073--29124 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
29063 TAGTAAAAAT
*
29073 TATTTTATAATCATATTATAAG
1 TATTTTAT-AT-AAATTATAAG
*
29095 TATTAGTTATATAAATTATAAT
1 TATT--TTATATAAATTATAAG
29117 TATTTTAT
1 TATTTTAT
29125 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
22 16 0.62
23 2 0.08
24 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTTTATATAAATTATAAG
Found at i:29271 original size:13 final size:13
Alignment explanation
Indices: 29253--29294 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
29243 TTGATTGTAT
*
29253 TTATTAATTATAC
1 TTATTAATTATAA
29266 TTATTAATTATAA
1 TTATTAATTATAA
29279 TTA-TAATTATTAA
1 TTATTAATTA-TAA
29292 TTA
1 TTA
29295 AAAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAATTATAA
Found at i:29279 original size:6 final size:6
Alignment explanation
Indices: 29257--29339 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
29247 TTGTATTTAT
* *
29257 TAATTA TACTTA TTAATTA TAATTA TAATTA TTAATTAA AAATT- T-ATTA
1 TAATTA TAATTA -TAATTA TAATTA TAATTA -TAATT-A TAATTA TAATTA
*
29306 GTTAA-TA TTAATTA -AATTA TAATCA -AATTA TAAT
1 --TAATTA -TAATTA TAATTA TAATTA TAATTA TAAT
29340 ACAAGTTAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
4 3 0.05
5 9 0.15
6 28 0.46
7 19 0.31
8 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:29279 original size:19 final size:19
Alignment explanation
Indices: 29257--29339 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
29247 TTGTATTTAT
*
29257 TAATTATACTTATTAATTA
1 TAATTATAATTATTAATTA
29276 TAATTATAATTATTAATTAA
1 TAATTATAATTATTAATT-A
*
29296 AAATT-T-ATTAGTTAA-TA
1 TAATTATAATTA-TTAATTA
*
29313 TTAATTA-AATTA-TAATCA
1 -TAATTATAATTATTAATTA
29331 -AATTATAAT
1 TAATTATAAT
29340 ACAAGTTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
16 5 0.09
17 7 0.13
18 10 0.19
19 26 0.49
20 5 0.09
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (19 bp):
TAATTATAATTATTAATTA
Found at i:30196 original size:14 final size:14
Alignment explanation
Indices: 30145--30197 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
30135 ATTTAATTAC
*
30145 TTAATATTTATAAT
1 TTAATAATTATAAT
30159 TTAATAA-T-TAAT
1 TTAATAATTATAAT
*
30171 TT-ATACTATATAAT
1 TTAATAAT-TATAAT
30185 TTAATAATTATAA
1 TTAATAATTATAA
30198 ATGTATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 3 0.09
12 6 0.19
13 2 0.06
14 17 0.53
15 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAATAATTATAAT
Found at i:30451 original size:13 final size:12
Alignment explanation
Indices: 30433--30463 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
30423 ATTTACTATA
30433 ATATATATAATCT
1 ATATATATAAT-T
30446 ATATATATAATT
1 ATATATATAATT
30458 ATATAT
1 ATATAT
30464 TATTTATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATATATAATT
Found at i:30785 original size:29 final size:29
Alignment explanation
Indices: 30730--30785 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
30720 TAAAATATTT
* * *
30730 ATAATTATATTTAATATTTATATAAATTA
1 ATAATTATATATAATATATATACAAATTA
30759 ATAATTATATATAATATA-ATTACAAAT
1 ATAATTATATATAATATATA-TACAAAT
30786 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.04
29 22 0.96
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
ATAATTATATATAATATATATACAAATTA
Found at i:31680 original size:19 final size:17
Alignment explanation
Indices: 31651--31699 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
31641 TAGTTCATAC
*
31651 AAATTTATAATAATAATT
1 AAATATATAATAATAA-T
*
31669 AAATAATATAATTATAAT
1 AAAT-ATATAATAATAAT
31687 AAATAT-TAATAAT
1 AAATATATAATAAT
31700 TAAGTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.22
17 2 0.07
18 9 0.33
19 10 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATAATAAT
Found at i:31700 original size:19 final size:19
Alignment explanation
Indices: 31656--31701 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
31646 CATACAAATT
*
31656 TATAATAATAATTAAATAA
1 TATAATTATAATTAAATAA
*
31675 TATAATTATAA-TAAATAT
1 TATAATTATAATTAAATAA
31693 TAATAATTA
1 T-ATAATTA
31702 AGTTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAATTATAATTAAATAA
Found at i:31796 original size:22 final size:19
Alignment explanation
Indices: 31760--31806 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
31750 ATAACATATA
31760 ATTTTAATATAAATATTAT
1 ATTTTAATATAAATATTAT
31779 ATTTATAATAATAGAATATTAT
1 ATTT-TAAT-ATA-AATATTAT
31801 AATTTT
1 -ATTTT
31807 TAGTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 3 0.12
22 9 0.38
23 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTTAATATAAATATTAT
Found at i:31925 original size:26 final size:25
Alignment explanation
Indices: 31896--31946 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
31886 ATATAGTTAA
31896 TAATTTT-TAATTATTAATTAAATTAT
1 TAATTTTATAA-TATT-ATTAAATTAT
31922 TAATTTTCATAATATTATTAAATTA
1 TAATTTT-ATAATATTATTAAATTA
31947 ATATTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 16 0.70
27 4 0.17
28 3 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATTTTATAATATTATTAAATTAT
Found at i:31978 original size:30 final size:31
Alignment explanation
Indices: 31905--31978 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 31
31895 ATAATTTTTA
*
31905 ATTATTAATTAA-ATTATTAATTTTCATAAT
1 ATTATTAATTAATATTATTAATTTACATAAT
31935 ATTATTAAATTAATATTA-T-ATTTACA-AATT
1 ATTATT-AATTAATATTATTAATTTACATAA-T
31965 ATTAGTTAATTAAT
1 ATTA-TTAATTAAT
31979 TAATATAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 2 0.05
30 24 0.62
31 9 0.23
32 4 0.10
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTATTAATTAATATTATTAATTTACATAAT
Found at i:32081 original size:3 final size:3
Alignment explanation
Indices: 32033--32062 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
32023 ATAACTTATT
32033 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32063 GTTACAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:32123 original size:24 final size:25
Alignment explanation
Indices: 32031--32131 Score: 82
Period size: 24 Copynumber: 4.0 Consensus size: 25
32021 TTATAACTTA
*
32031 TTATAATAATAATAATAATAATAA-
1 TTATAATAATAATATTAATAATAAT
* * **
32055 TAATAATAGTTACA-ATTTGTTAATAAT
1 TTATAATA-ATA-ATA-TTAATAATAAT
* *
32082 TTATAATAATTATATTAATATTAAT
1 TTATAATAATAATATTAATAATAAT
*
32107 TTAT-ATAATAATCTTAATAATAAT
1 TTATAATAATAATATTAATAATAAT
32131 T
1 T
32132 ACAATTAAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
24 25 0.43
25 16 0.28
26 10 0.17
27 7 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
TTATAATAATAATATTAATAATAAT
Found at i:32177 original size:14 final size:13
Alignment explanation
Indices: 32034--32180 Score: 60
Period size: 12 Copynumber: 11.4 Consensus size: 13
32024 TAACTTATTA
32034 TAATAATAATAA-
1 TAATAATAATAAT
32046 TAATAATAATAA-
1 TAATAATAATAAT
* * *
32058 TAATAGTTACAAT
1 TAATAATAATAAT
**
32071 T--TGTTAATAAT
1 TAATAATAATAAT
*
32082 TTATAATAATTATAT
1 TAATAATAA-TA-AT
*
32097 TAATATTAAT--T
1 TAATAATAATAAT
*
32108 TATATAATAAT-CT
1 TA-ATAATAATAAT
32121 TAATAATAATTACAAT
1 TAATAATAA-T--AAT
* *
32137 T-A-AATATTCAT
1 TAATAATAATAAT
32148 TACATAATAATAAT
1 TA-ATAATAATAAT
*
32162 TAATAATATTATAT
1 TAATAATAATA-AT
32176 TAATA
1 TAATA
32181 CGTTATACAT
Statistics
Matches: 102, Mismatches: 18, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
11 13 0.13
12 35 0.34
13 19 0.19
14 23 0.23
15 10 0.10
16 2 0.02
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (13 bp):
TAATAATAATAAT
Found at i:33083 original size:32 final size:31
Alignment explanation
Indices: 32997--33083 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 31
32987 GGATTTTATC
32997 TATTAATTTAT-AAT-TACTAGATAAA-ATTA
1 TATTAATTTATAAATATACTA-ATAAATATTA
* *
33026 -AATAA-TTATAAATATTCTAATTAAATATTA
1 TATTAATTTATAAATATACTAA-TAAATATTA
*
33056 TATTAATTTATAAATATAATATATAAAT
1 TATTAATTTATAAATATACTA-ATAAAT
33084 TGTTAAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
27 4 0.09
28 8 0.17
29 8 0.17
30 4 0.09
31 4 0.09
32 17 0.37
33 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (31 bp):
TATTAATTTATAAATATACTAATAAATATTA
Found at i:33598 original size:17 final size:17
Alignment explanation
Indices: 33578--33653 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 17
33568 TATATATAGT
*
33578 TTTATATATTTTAATTA
1 TTTATATATATTAATTA
33595 TTTA-ATATCATTAATTA
1 TTTATATAT-ATTAATTA
* *
33612 TTAAT-TA-ATGAA-TA
1 TTTATATATATTAATTA
* *
33626 TTGATATATTTTAATTTAA
1 TTTATATATATTAA-TT-A
33645 TTTATATAT
1 TTTATATAT
33654 CATTGATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
14 6 0.13
15 6 0.13
16 7 0.16
17 16 0.36
18 1 0.02
19 9 0.20
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATATATTAATTA
Found at i:33639 original size:24 final size:23
Alignment explanation
Indices: 33581--33641 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
33571 ATATAGTTTT
* *
33581 ATATATTTTAATTATTTAATATC
1 ATATATTTTAATTAATGAATATC
*
33604 AT-TAATTATTAATTAATGAATATTG
1 ATAT-ATT-TTAATTAATGAATA-TC
33629 ATATATTTTAATT
1 ATATATTTTAATT
33642 TAATTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.03
23 5 0.16
24 18 0.58
25 6 0.19
26 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (23 bp):
ATATATTTTAATTAATGAATATC
Found at i:34434 original size:178 final size:177
Alignment explanation
Indices: 34097--34823 Score: 597
Period size: 181 Copynumber: 4.1 Consensus size: 177
34087 GCTCGCAATG
* * * * ** * *
34097 ATTTGAAATATATTATTATTTTAAATAGTCATGACTATTTGAACTTGTTTGGCAAACATATTTAT
1 ATTTGAAATAAATAATTA-TTCAAATAGTCATGAC-GTTTGAACTTGTTCAGTAAACAGATTTAT
* * *
34162 TTTTTAAATCTATTACTTATAAATTATCAAAATATTAATAAATTAATATTATTTTATTTCGAATA
64 TTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATTATTTTA-TTCGAATA
*
34227 AGCTAGTATGAACAAAAATAATTATTTTATGACAAAACAAAAAGTCATGACA
128 AGCTTGTATGAACAAAAA-AATTATTTTATGACAAAACAAAAAGTCAT-ACA
* *
34279 ATTTGAAATAAATAATTATTCAAATAGTCATAACGATTTGAACTTGTTCAATAAA-AGATTTA-T
1 ATTTGAAATAAATAATTATTCAAATAGTCATGACG-TTTGAACTTGTTCAGTAAACAGATTTATT
** ** *
34342 TTTTAAATCTTTTACTTATTAATTGTCTTAAT-TTAATAAATTTGTATTATTTTATTCAAAATAA
65 TTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATTATTTTATTC-GAATAA
* * * * *
34406 GCTTGTATGAACAGAAAAAATCATTTTATGACAAAGCAAAATGTTATAGCG
129 GCTTGTATGAACA-AAAAAATTATTTTATGACAAAACAAAAAGTCATA-CA
** * * *
34457 ATTTCCAATAAATAATTA-T--AAT--T--T----TTTAAACTTGTTCAGTAAATAGATTCATTT
1 ATTTGAAATAAATAATTATTCAAATAGTCATGACGTTTGAACTTGTTCAGTAAACAGATTTATTT
* * * * * *
34511 TTTAAATCTCTTAATTATTAATTTTTAAAATATTAATAACTTAATATTATTTTATTTTGAATAAG
66 TTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATTATTTTA-TTCGAATAAG
* * * * * * *
34576 CTTATATGAATTAAAATAATTTTTTTATGACAGAAGAAAAGGTCATAACA
130 CTTGTATGAA-CAAAAAAATTATTTTATGACAAAACAAAAAGTCAT-ACA
* * * * * *
34626 ATTTGAAATAGATAACTATTCAAATAGCCATGACTGTTTG-ATTTAGTTTAGTAAACATATTTAA
1 ATTTGAAATAAATAATTATTCAAATAGTCATGAC-GTTTGAACTT-GTTCAGTAAACAGATTT-A
* * ** *
34690 TTTTTTACATATTTTACTTATTAATTGTCAAAA-ATTAATAAATTTGTATTATTTTAATTTGAAT
63 TTTTTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATTATTTT-ATTCGAAT
* * * ** * * * * *
34754 AAGCTTGAATAAATAGAAACTATTATCTTATAACAGAATAAAAAGTTATA-A
127 AAGCTTGTATGAACA-AAAAAATTATTTTATGACAAAACAAAAAGTCATACA
34805 TGATTTGAAATAAATAATT
1 --ATTTGAAATAAATAATT
34824 GCTTAAATAA
Statistics
Matches: 433, Mismatches: 84, Indels: 57
0.75 0.15 0.10
Matches are distributed among these distances:
166 17 0.04
167 6 0.01
168 27 0.06
169 74 0.17
170 5 0.01
171 1 0.00
172 3 0.01
173 1 0.00
175 3 0.01
176 1 0.00
177 5 0.01
178 79 0.18
179 33 0.08
180 12 0.03
181 121 0.28
182 45 0.10
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (177 bp):
ATTTGAAATAAATAATTATTCAAATAGTCATGACGTTTGAACTTGTTCAGTAAACAGATTTATTT
TTTAAATCTTTTACTTATTAATTGTCAAAATATTAATAAATTAATATTATTTTATTCGAATAAGC
TTGTATGAACAAAAAAATTATTTTATGACAAAACAAAAAGTCATACA
Found at i:35279 original size:177 final size:178
Alignment explanation
Indices: 34903--35320 Score: 473
Period size: 177 Copynumber: 2.3 Consensus size: 178
34893 TTGATTATTT
* * * * *
34903 AAACAAAAGGTAATAACAATTTGAAATAAAAAATTGTTCATATAGCCTTAAATATTTGAACTAGT
1 AAACAAAA-GTTATAACAATTTGAAATAAATAATTGTTCAAATAGCCATAAATATTTGAACCAGT
* * * *
34968 TCAGTAAATAAATTTATTTTTTAAATCTCGTAGTTATTAATTTTTAAAATATTATTATATTAGTA
65 TCAGTAAATAAATTAACTTTTTAAATCTC-TA-TTATTAATTTTTAAAATATTAGTAAATTAGTA
*** * * * * *
35033 TTATTTTATTTTGAATAAACTTGTGTGAATAGAAATAATTGTTTTATGAGA
128 TTATTTTATTCCAAATAAACTTGTATGAATAAAAACAAGTGTTTTATGACA
* * * ** * *
35084 TAACAAAAGGTTATAACAATTTGAAATATATAATTGTTCAAACAATCATAACTATTTGAACCGGT
1 AAACAAAA-GTTATAACAATTTGAAATAAATAATTGTTCAAATAGCCATAAATATTTGAACCAGT
* *
35149 TCAGTAAATAGATTAACTTTTTAAATCT-T-TTATTAATTTTTGAAATATTAGTAAATTAGTATT
65 TCAGTAAATAAATTAACTTTTTAAATCTCTATTATTAATTTTTAAAATATTAGTAAATTAGTATT
** *
35212 ATTTTATTCCAAATAGGCTTTTATG-ATGAAAAACAAGTGTTTTATGACA
130 ATTTTATTCCAAATAAACTTGTATGAAT-AAAAACAAGTGTTTTATGACA
* * *
35261 AAACAAAAGTTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATAATTATTTGAA
1 AAACAAAAGTT-ATAACAATTTGAAATAAATAATTGTTCAAATAGCCATAAATATTTGAA
35321 TAATTTGATA
Statistics
Matches: 199, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
176 5 0.03
177 115 0.58
179 1 0.01
181 78 0.39
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (178 bp):
AAACAAAAGTTATAACAATTTGAAATAAATAATTGTTCAAATAGCCATAAATATTTGAACCAGTT
CAGTAAATAAATTAACTTTTTAAATCTCTATTATTAATTTTTAAAATATTAGTAAATTAGTATTA
TTTTATTCCAAATAAACTTGTATGAATAAAAACAAGTGTTTTATGACA
Found at i:35305 original size:16 final size:17
Alignment explanation
Indices: 35284--35316 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
35274 TAACAATTTG
35284 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
35300 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
35317 TGAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:36157 original size:159 final size:159
Alignment explanation
Indices: 35958--36274 Score: 394
Period size: 159 Copynumber: 2.0 Consensus size: 159
35948 ACAATTATTT
* * *
35958 TATGATAAAACAAAAGATCATAAAGATTTGAAATATATAATTGTTCAAATAGTAAT-ACTATTTG
1 TATGACAAAACAAAAGATCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTA-TTG
* *
36022 AACT-TGCTC-GATAAACAAATTTATTATTT-AAATATTTTACTTATTAATTTTAGAAATATTAA
65 AA-TGTGCTCAAAAAAACAAATTTATT-TTTAAAAT-TTTTACTTATTAATTTTAGAAATATTAA
36084 TAAATTAATATTATTTTATTTCG-AATAAGCTTA
127 TAAATTAATATTATTTTA-TTCGAAATAAGCTTA
* * *
36117 TATGACAAAACAAATTG-TCATAATGATTTGAAATAGATAATTGTTCAAACAGTCATAACTATTG
1 TATGACAAAACAAA-AGATCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTATTG
* * * * * * *
36181 AATGTGTTCAAAAAAACATATTTATTTTTAAAATTTTTATTTATTAATTTTTGGAGTTTTAATAA
65 AATGTGCTCAAAAAAACAAATTTATTTTTAAAATTTTTACTTATTAATTTTAGAAATATTAATAA
*
36246 ATTTATATTATTTTATTCGAAATAAGCTT
130 ATTAATATTATTTTATTCGAAATAAGCTT
36275 GCATTAACAT
Statistics
Matches: 136, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
158 5 0.04
159 109 0.80
160 22 0.16
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.43
Consensus pattern (159 bp):
TATGACAAAACAAAAGATCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTATTGA
ATGTGCTCAAAAAAACAAATTTATTTTTAAAATTTTTACTTATTAATTTTAGAAATATTAATAAA
TTAATATTATTTTATTCGAAATAAGCTTA
Found at i:36591 original size:181 final size:180
Alignment explanation
Indices: 36117--36591 Score: 477
Period size: 181 Copynumber: 2.6 Consensus size: 180
36107 AATAAGCTTA
* * * * * *
36117 TATGACAAAACAAATTGTCATAATGATTTGAAATAGATAATTGTTCAAACAG-TCATAACTA-TT
1 TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCT-ATAACTATTT
*** * * * *
36180 GAA-TGTGTTCAAAAAAACATATTTATTTTTAAAATTTTTATTTATTAATTTTTGGAGTTTTAAT
65 GAACT-TGTTC-GGTAAACATATTTATTTTTTAAATCTTTACTTATTAATTTTTGGAGTATTAAT
* * *
36244 AAATTTATATTATTTTATTCGAAATAAGCTTGCATTAACATAACTAATTATTT
128 AAATTTAGACTATTTTATTCGAAATAAGCTTACATTAACATAACTAATTATTT
* * *
36297 TATGACAAAACAAATGGTCATAATGTTTTGAAATAGATAAATATTTAGATAGCTATAACTATTTG
1 TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCTATAACTATTTG
* * *
36362 AACTTGTTCGGTAAACATATTCATTTTTTAATTCTCTTACTCATTAATTTTTGGTA-TATTAATA
66 AACTTGTTCGGTAAACATATTTATTTTTTAAATCT-TTACTTATTAATTTTTGG-AGTATTAATA
**
36426 AA-TTAGAGCTATTTTATTTC-AAATAAGCTTATGTTAAC-TGAAAC-AATTATTT
129 AATTTAGA-CTATTTTA-TTCGAAATAAGCTTACATTAACAT--AACTAATTATTT
* * * **
36478 TATTACAAAATAGAA-GGTCACAAT-TATTTGAAATAGATAATTATTCAAATAGTCT-TGGCTAT
1 TATGACAAAACA-AATGGTCACAATGT-TTTGAAATAGATAAATATTCAAATAG-CTATAACTAT
* *
36540 TTGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTCGCTTATTAATT
63 TTGAACTTGTTCGGTAAACATATTTATTTTTTAAATCTTT-ACTTATTAATT
36592 GTCAAAATAT
Statistics
Matches: 247, Mismatches: 35, Indels: 25
0.80 0.11 0.08
Matches are distributed among these distances:
180 79 0.32
181 156 0.63
182 12 0.05
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (180 bp):
TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCTATAACTATTTG
AACTTGTTCGGTAAACATATTTATTTTTTAAATCTTTACTTATTAATTTTTGGAGTATTAATAAA
TTTAGACTATTTTATTCGAAATAAGCTTACATTAACATAACTAATTATTT
Found at i:37272 original size:181 final size:182
Alignment explanation
Indices: 36679--37281 Score: 623
Period size: 181 Copynumber: 3.3 Consensus size: 182
36669 TGACTATTTG
* * * * * * *
36679 AAATTGTTATTACCTTTTGTTTTGTCATAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGGAA
1 AAATTGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAA
* * *
36744 TAAAATAATATTAATTTATTAATATTTCAAAAATTAATACA-TAAGAGATTTTAAAAATAAATAT
66 T-AAATAATATTAATTTATTAATATTTCAAAAATTAATA-AGTAAGAGATTTAAAAAATGAATCT
* * * * * * * *
36808 GTTTGCCAT-ACCAA-TTCAATTAGTTATAACTATTTGACCAAATATTTATTTC
129 GTTTGACATGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTACTTC
* * * * *
36860 AAATTGTTATGACCATTTGTTTTATCATAAAACAATTGTTTCTGTTCATATAATCTTATTGGGAA
1 AAATTGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAA
* * ** * *
36925 GAAAGTAATGTTAATTTATTAATATTTTGAAAATTAATAAGTAATG-GATTTAGAAAATGTATCT
66 TAAA-TAATATTAATTTATTAATATTTCAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCT
* * * * * * *
36989 -TTTGGCTTG-ACCAGTGCAAACAATTATGACTATTTGAATAATTATCTACTTC
129 GTTTGACATGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTACTTC
** * * * *
37041 AAATCATTATGACCTTTTGTTTTCTCACAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAA
1 AAATTGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAA
* *
37106 TAACATAAT-TCTAATTTATTAATATTCCAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCT
66 TAA-ATAATAT-TAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCT
*
37170 GTTT-AC-TGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTAGTTC
129 GTTTGACATGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTACTTC
* * * * *
37222 AAATTGCTATAACCTTTTGTATTGTCATAAAATAATT-TTTGCTATTCATACAAGCTTATT
1 AAATTGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT-CTGTTCATACAAGCTTATT
37282 TCAAATTTGT
Statistics
Matches: 345, Mismatches: 66, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
180 19 0.06
181 321 0.93
182 5 0.01
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.42
Consensus pattern (182 bp):
AAATTGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAA
TAAATAATATTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGT
TTGACATGAACAAGTTCAAATAATTATAACTATTTGAACAATTATCTACTTC
Found at i:39061 original size:13 final size:13
Alignment explanation
Indices: 39043--39067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39033 TATTAATTAG
39043 TAGTTTAATTAAA
1 TAGTTTAATTAAA
39056 TAGTTTAATTAA
1 TAGTTTAATTAA
39068 TATTTTATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAGTTTAATTAAA
Found at i:39069 original size:12 final size:12
Alignment explanation
Indices: 39035--39074 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
39025 AATAATATTA
*
39035 TTAATTAGTAGT
1 TTAATTAATAGT
39047 TTAATTAAATAGT
1 TTAATT-AATAGT
*
39060 TTAATTAATATT
1 TTAATTAATAGT
39072 TTA
1 TTA
39075 TGAGTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (12 bp):
TTAATTAATAGT
Found at i:39276 original size:16 final size:16
Alignment explanation
Indices: 39234--39278 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
39224 ATTAATTTTT
39234 TAAATTTTAATAAATTA
1 TAAATTTT-ATAAATTA
* *
39251 TAAATATTATAAATTG
1 TAAATTTTATAAATTA
*
39267 TTAATTTTATAA
1 TAAATTTTATAA
39279 CAAATTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TAAATTTTATAAATTA
Found at i:39303 original size:14 final size:14
Alignment explanation
Indices: 39284--39321 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
39274 TATAACAAAT
39284 TATTATAATTATT-A
1 TATTATAATT-TTGA
*
39298 TATTATAATTTTGT
1 TATTATAATTTTGA
39312 TATTATAATT
1 TATTATAATT
39322 GATAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
TATTATAATTTTGA
Found at i:39666 original size:21 final size:21
Alignment explanation
Indices: 39642--39691 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
39632 AGATAATAAT
39642 TTATTATTAATAATTATTATA
1 TTATTATTAATAATTATTATA
* *
39663 TTATATACT-ATAATTGTTATA
1 TTAT-TATTAATAATTATTATA
39684 TT-TTATTA
1 TTATTATTA
39692 GCAATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 3 0.12
20 1 0.04
21 17 0.71
22 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTATTAATAATTATTATA
Found at i:39782 original size:23 final size:23
Alignment explanation
Indices: 39738--39782 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
39728 TTGATAATAA
**
39738 TAAATTATAAATTTAATTATTAT
1 TAAATTATAAATTTAACAATTAT
39761 TAAATTAT-AATCTTAACAATTA
1 TAAATTATAAAT-TTAACAATTA
39783 ATAAGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAATTATAAATTTAACAATTAT
Found at i:40013 original size:17 final size:17
Alignment explanation
Indices: 39993--40043 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
39983 ATTTATAATC
39993 TATAAATAAATTAATAA
1 TATAAATAAATTAATAA
* *
40010 TAT-AATAACAATAATTAT
1 TATAAATAA-ATTAA-TAA
*
40028 TATATATAAATTAATA
1 TATAAATAAATTAATA
40044 GGTCATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.19
17 9 0.33
18 9 0.33
19 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TATAAATAAATTAATAA
Found at i:41060 original size:24 final size:22
Alignment explanation
Indices: 41021--41064 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
41011 AATATGTTTA
41021 TTAGTTTAAAACTAATTATATAG
1 TTAGTTTAAAACTAA-TATATAG
41044 TTAGTTTTAAATA-TAATATAT
1 TTAG-TTTAAA-ACTAATATAT
41065 TTTAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.47
24 9 0.47
25 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAGTTTAAAACTAATATATAG
Found at i:41083 original size:27 final size:27
Alignment explanation
Indices: 41050--41105 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
41040 ATAGTTAGTT
* *
41050 TTAAATATAATATAT-TT-TAATTATAA
1 TTAAA-ATAATATATATTATTACTATAA
41076 TTAAAATAATATATATTATTACTATAA
1 TTAAAATAATATATATTATTACTATAA
41103 TTA
1 TTA
41106 TTTTAATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.35
26 7 0.27
27 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAAAATAATATATATTATTACTATAA
Found at i:41403 original size:3 final size:3
Alignment explanation
Indices: 41395--41428 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
41385 TAGCATTAGA
41395 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
41429 ACTTGATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:41590 original size:17 final size:16
Alignment explanation
Indices: 41539--41592 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
41529 AACTAATAAT
41539 ATATTATTTAATATATCA
1 ATATTATTTAAT-TAT-A
41557 ATATTA-TTAA-T-TA
1 ATATTATTTAATTATA
41570 ATATTATTTAAATTATA
1 ATATTATTT-AATTATA
41587 ATATTA
1 ATATTA
41593 AATTTATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.22
14 3 0.09
15 3 0.09
16 1 0.03
17 12 0.38
18 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTATTTAATTATA
Found at i:42868 original size:180 final size:179
Alignment explanation
Indices: 42625--43121 Score: 516
Period size: 180 Copynumber: 2.8 Consensus size: 179
42615 GATCAAGTTG
* *** * * *
42625 AAATAGTTATAACTATCCAAACAATTATCTATTCCAAA-AATTATGACATTTTGTTTCGTCATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACA-TTTGTTTTGTCATAA
* * * * *
42689 AACAATTGGTTCTGTTCATGCAAGCGTATTTTGAATAAAATAATATAAATTTATTAATATTCCAA
65 AACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAATAATAT-AATTTATTAATATTCCAA
* ** * **
42754 AAATTAATAAGTATAA-TTTTAGAAAATAAAGCTATTTTTTGA-ACACATTC
129 AAATTAATAAGTAAAAGAGTTAAAAAATAAAGCTATTTACTGAGACA-ATTC
* *
42804 AAATAGTTATGACTATTTGAATAATTATCTATTTTAAATCATTATGACCATTTGTTTTGTCATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CATTTGTTTTGTCATAA
* * * * * *
42869 ACCAATTATTTTTATTCAAACAAGCTTATTTGGAATAAAATAATTCTAATTAATTAATATTCC-A
65 AACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAATAA-TATAATTTATTAATATTCCAA
** ** *
42933 AAATTAATAAGTAAAAGAGTTAAAAAATAAATTTATTTACTGAGTGAGTTC
129 AAATTAATAAGTAAAAGAGTTAAAAAATAAAGCTATTTACTGAGACAATTC
* * * * * * *
42984 AAATAGTTATGATTGTTTGAACAATTATTTATTTCAAATCGTTATAATCTTTTGTTTTGTTATAA
1 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CATTTGTTTTGTCATAA
* * * * *
43049 AACAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAACAATACTAATATATTAACATTCTAA
65 AACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAATAATA-TAATTTATTAATATTCCAA
43114 AAATTAAT
129 AAATTAAT
43122 TAGTTTATCA
Statistics
Matches: 259, Mismatches: 52, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
179 48 0.19
180 197 0.76
181 14 0.05
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACATTTGTTTTGTCATAAA
ACAATTGTTTCTATTCATACAAGCTTATTTGGAATAAAATAATATAATTTATTAATATTCCAAAA
ATTAATAAGTAAAAGAGTTAAAAAATAAAGCTATTTACTGAGACAATTC
Found at i:43901 original size:21 final size:21
Alignment explanation
Indices: 43871--43912 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
43861 ATTAAATCTA
*
43871 ATTTATTTATATAA-TTAAAAT
1 ATTTACTTAT-TAATTTAAAAT
43892 ATTTACTTATTAATTTAAAAT
1 ATTTACTTATTAATTTAAAAT
43913 TAAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTACTTATTAATTTAAAAT
Found at i:45069 original size:23 final size:22
Alignment explanation
Indices: 45039--45081 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
45029 TTAAGATATA
*
45039 AATTATAATTAAAATTATAACT
1 AATTATAAATAAAATTATAACT
*
45061 AATTAATAAATAAACTTATAA
1 AATT-ATAAATAAAATTATAA
45082 TATAACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTATAAATAAAATTATAACT
Found at i:45451 original size:13 final size:15
Alignment explanation
Indices: 45433--45464 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
45423 ATATTACAAC
45433 TATATTTTT-G-TAT
1 TATATTTTTAGTTAT
45446 TATATTTTTAGTTAT
1 TATATTTTTAGTTAT
45461 TATA
1 TATA
45465 ATATAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TATATTTTTAGTTAT
Found at i:46061 original size:19 final size:19
Alignment explanation
Indices: 46037--46075 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46027 TTAATATACA
*
46037 ATTAATCTAATAAAATAAT
1 ATTAATATAATAAAATAAT
* *
46056 ATTAATATATTATAATAAT
1 ATTAATATAATAAAATAAT
46075 A
1 A
46076 AATTAATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAATATAATAAAATAAT
Found at i:46551 original size:26 final size:24
Alignment explanation
Indices: 46518--46587 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 24
46508 TTAATGCATT
*
46518 AATTATAATATAATATTTTATAAA
1 AATTATAATATAATATTATATAAA
* * *
46542 AATTAGATAATATATTATTATATGAT
1 AATT--ATAATATAATATTATATAAA
46568 AATTATAATATAATAATTAT
1 AATTATAATATAAT-ATTAT
46588 TATTATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 13 0.34
25 5 0.13
26 20 0.53
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (24 bp):
AATTATAATATAATATTATATAAA
Found at i:46578 original size:14 final size:14
Alignment explanation
Indices: 46548--46587 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
46538 TAAAAATTAG
*
46548 ATAATATATTATTAT
1 ATAATA-ATTATAAT
*
46563 ATGATAATTATAAT
1 ATAATAATTATAAT
46577 ATAATAATTAT
1 ATAATAATTAT
46588 TATTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATAATAATTATAAT
Found at i:47299 original size:7 final size:6
Alignment explanation
Indices: 47266--47312 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
47256 ATTATATTGT
47266 TTATAA TTATAA TTTATAA TTA-AA TTAATAA TTAT-- TTATAA TTATAA
1 TTATAA TTATAA -TTATAA TTATAA TT-ATAA TTATAA TTATAA TTATAA
47313 ACAGTCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 18 0.50
7 10 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTATAA
Found at i:47656 original size:181 final size:180
Alignment explanation
Indices: 47320--48422 Score: 851
Period size: 181 Copynumber: 6.1 Consensus size: 180
47310 TAAACAGTCA
* * * * * * * * * *
47320 AAAAATTAATAAGCAAAAGATATGAAAAAGTAAATTTGTTTACCGATCAAGTTTAAATAGCTATG
1 AAAAATTAATAAGTAAGA-AT-TTAAAAAATTAATTTGTTTACTGAACCAGTTCAAATAGTTATG
* ** ** *
47385 ACTATTTGAACAATTATTTATTTAAAA-TCGT-TGACCTTTTGTTTTAACAAAAAACAATTGTTT
64 ACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
* * * * *
47448 CAGTTCATACAAACTTATCCAAAATAAAATAATACTAATTTCTTAATATTTG
129 CAGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTC
* * *
47500 AAAAATTAATAAGTAAGATTTTAAAAAAATTAATTTGTTTACTGAACAAATTCAAATAGTTATGA
1 AAAAATTAATAAGTAAGAATTT-AAAAAATTAATTTGTTTACTGAACCAGTTCAAATAGTTATGA
* *
47565 CTATTTGAACAATTATCTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTC
65 CTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC
* ** *
47630 AGTTCATACAAGCTTATTTGAAATAAAATAATTGTAATTTATTAATATTCC
130 AGTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTC
* * * ** *
47681 AAAAATTACTAAGTAAGTGATTTAAAAAA-TAATTCTATTTACTGAATTAGTTCAAATAATTATG
1 AAAAATTAATAAGTAAG-AATTTAAAAAATTAATT-TGTTTACTGAACCAGTTCAAATAGTTATG
* * * * * * *
47745 GCTATTTCAACAATTATCTATTTGAAATTAATATTACCTTTTGTTTGGTCATATAACAATTGTTT
64 ACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
** *
47810 -TTTATCATACAAGC---TTC-AGAATAAAATAATACTAATTTATTAATCTTTC
129 CAGT-TCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAATATTTC
* * * * * * * *
47859 AAATATTAATAAGTAAGAAATTTAAAAAATAAATTTATTTATTGAACCCGTTTAAGTTGTTATGA
1 AAAAATTAATAAGTAAG-AATTTAAAAAATTAATTTGTTTACTGAACCAGTTCAAATAGTTATGA
* *
47924 CTATTTGAACAAATGTA-C-AGTTTAAATAAGTTATTTAAAAAATAAACCTTTTTTTTTCTGTCA
65 CTATTTGAAC-AAT-TATCTA-TTT-AA-AA-TTA-TT-----AT-GACC-TTTTGTTT-TGTCA
* * * * * * *
47987 TAAAGCAATT-ATTCATGTTCATACAAGCTTATTCGAAACAAAATGATACTAATCTAATAATA-C
115 TAAAACAATTGTTTCA-GTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATT
48050 TC
179 TC
* * * * * *
48052 TGAAAATTAATAATTAAGAGATTTAAAAAGTAAATTTGTTTACT-ATACCAGTTTAAATAGTTAA
1 -AAAAATTAATAAGTAAGA-ATTTAAAAAATTAATTTGTTTACTGA-ACCAGTTCAAATAGTTAT
* * * * * * * *
48116 GACTATATGAACAATTATCTGTTTTAAATTGTTATGACCTTTAGTTTTGTAATAAAATAATTTTT
63 GACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * * * *
48181 TCAATTCATACTAGCTTATTCAAAATAAAATAA-AATGAATTTATTAATATTTT
128 TCAGTTCATACAAGCTTATTCGAAATAAAATAATACT-AATTTATTAATATTTC
** * * *
48234 AAAAATTAATAAG--AG-ATTTAACCAA-TATTTCTGCTTACCT-AACCAGTTCAAATAATTATG
1 AAAAATTAATAAGTAAGAATTTAAAAAATTAATT-TGTTTA-CTGAACCAGTTCAAATAGTTATG
* * * * * * * *
48294 ATTATTCGAACAATTATTTATTTCAAATAATTATGACATTTTTTTTTGTCATAAAACAAATGTTT
64 ACTATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
** * * * * * * *
48359 TTGTCCATATAAGTTTGTTC-AGAATAAATTAATACTACTTTATTAATATTTT
129 CAGTTCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAATATTTC
48411 AAAAATTAATAA
1 AAAAATTAATAA
48423 TAGATCTAAA
Statistics
Matches: 733, Mismatches: 149, Indels: 85
0.76 0.15 0.09
Matches are distributed among these distances:
176 4 0.01
177 127 0.17
178 90 0.12
179 74 0.10
180 28 0.04
181 245 0.33
182 17 0.02
183 4 0.01
184 2 0.00
188 2 0.00
189 5 0.01
190 11 0.02
191 24 0.03
192 4 0.01
193 11 0.02
194 84 0.11
195 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
AAAAATTAATAAGTAAGAATTTAAAAAATTAATTTGTTTACTGAACCAGTTCAAATAGTTATGAC
TATTTGAACAATTATCTATTTAAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCA
GTTCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTC
Found at i:48965 original size:15 final size:15
Alignment explanation
Indices: 48947--48978 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48937 CTAATATTCT
*
48947 AAAATTTAATAAGTA
1 AAAATTTAATAAATA
48962 AAAATTTAATAAATA
1 AAAATTTAATAAATA
48977 AA
1 AA
48979 TTTGTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATTTAATAAATA
Found at i:49061 original size:109 final size:109
Alignment explanation
Indices: 48870--49095 Score: 337
Period size: 109 Copynumber: 2.1 Consensus size: 109
48860 GTTATAACCT
* * * * *
48870 TTTGTTTTGTCATAAAATAATTGTTTTTGTTCATACAAGCTTATTTCGAATAAAATAATTAAATT
1 TTTGTTTTGTCATAAAACAATTGTTTCTGTCCATACAAGCTTATTCCAAATAAAATAATTAAATT
* *
48935 AACTAATATTCTAAAATTTAATAAGTAAAAA-TTTAATAAATAAA
66 AACTAATATTCCAAAATTTAATAAGCAAAAATTTTAA-AAATAAA
* *
48979 TTTGTTTTGTGATAAACCAATTGTTTCTGTCCATACAAGCTTATTCCAAATAAAATAATTAAATT
1 TTTGTTTTGTCATAAAACAATTGTTTCTGTCCATACAAGCTTATTCCAAATAAAATAATTAAATT
* *
49044 TATTAATATTCCAAAATTTAATAAGCAAAAATTTTAAAAATAAA
66 AACTAATATTCCAAAATTTAATAAGCAAAAATTTTAAAAATAAA
49088 TTTGTTTT
1 TTTGTTTT
49096 TTGAACATGT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 100 0.95
110 5 0.05
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (109 bp):
TTTGTTTTGTCATAAAACAATTGTTTCTGTCCATACAAGCTTATTCCAAATAAAATAATTAAATT
AACTAATATTCCAAAATTTAATAAGCAAAAATTTTAAAAATAAA
Found at i:49367 original size:180 final size:178
Alignment explanation
Indices: 48979--50312 Score: 972
Period size: 180 Copynumber: 7.5 Consensus size: 178
48969 AATAAATAAA
* * * * *
48979 TTTGTTTTGTGATAAACCAATTGTTTCTGTCCATACAAGCTTATTCCAAATAAAATAAT--TAAA
1 TTTGTTTTGTCATAAAACAATTGTTTCTAT-TATACAAGCTTATTCAAAATAAAATAATACT-AA
* * * * ** * *
49042 TTTATTAATATTCCAAAATTTAATAAGCAA-AAATTTTAAAAATAAATTTGTTTTTTGAACATGT
64 TTTATTAATATTTCAAAA-TTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAGT
* *
49106 TCAAATAGATCTAACTATTTGAACAATTATCTATTTCAAATAATTATGA-CAT
128 TCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAAT-ATTATGATC-T
* * * * * *
49158 TTTCTTTTGTGATGAACCAATTATTTCTATCTATATAAGCTTATTCAAAATAAAATAATACTAAT
1 TTTGTTTTGTCATAAAACAATTGTTTCTAT-TATACAAGCTTATTCAAAATAAAATAATACTAAT
* * * * *
49223 TTAGTAATATTCCAACAATTAATAAGTAAAAGATTTAAAAAATAAATCTGTTTA-TAAAATAAGC
65 TTATTAATATTTCAA-AATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACT-AAACAAG-
* * *
49287 TT-AAATAGTTATAACTGTTTGAACAATT-TTTATTTCTAATAGTTATGATCT
127 TTCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAATA-TTATGATCT
* *
49338 TTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTCAAAATAAAATAATACTACT
1 TTTGTTTTGTCATAAAACAATTGTTTCTATT-ATACAAGCTTATTCAAAATAAAATAATACTAAT
** * * * * *
49403 TTATTAATATTTTGTAAATTAATAGGTAGGAGATTTAAAAAATAAATTTGTTTACTGAACAAGTT
65 TTATTAATA-TTTCAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAGTT
* ** * * * * *
49468 CAAATAGTCATGTCCATTAGAACAATTATCTATTTTAAATTGTTATGACCT
129 CAAATAGTTATAACTATTTGAACAATTATCTATTTCAAA-TATTATGATCT
* * * * * * ** *
49519 TATATTTTGTCATAAAACAATTGTTTTTGTT-CACACAGAATTATTCAAAATAAAATAATTTTGA
1 TTTGTTTTGTCATAAAACAATTGTTTCTATTATACA-AG-CTTATTCAAAATAAAATAATACTAA
* * * *
49583 TTTATTAATATTTTGAAAATTAAT----AAGAGATTTAAAAACTAAATCTATTTACTAAACCAGT
64 TTTATTAATA-TTTCAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAGT
* * **
49644 TCAAATAGTTA-GACTATTTGAACAATTATCTATCTCAAATCAAAATGATC-
128 TCAAATAGTTATAACTATTTGAACAATTATCTATTTCAAAT-ATTATGATCT
* * * * * *
49694 TTTATTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCTTATTCGAATTAAAATGATATTAA
1 TTTGTTTTGTCATAAAACAATTGTTT-CTATT-ATACAAGCTTATTCAAAATAAAATAATACTAA
* * * * *
49758 TTTAATAATATTTCAAAAATTAAT---C-AGAGATTTAAAAAATAAATAT-ATTAGCCAAACTAG
64 TTTATTAATATTTC-AAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTA-CTAAACAAG
* ** * *
49818 TTCAAATATTTA-AGACTATCAGAATAATTATCTATTTCAAATCATTCT-ATCCT
127 TTCAAATAGTTATA-ACTATTTGAACAATTATCTATTTCAAAT-ATTATGAT-CT
* * * ***
49871 TTTGTTTAGTCATAAAACAATTATTTC-AGTTCATTCAAGCTTATTTGGAATAAAATAATACTAA
1 TTTGTTTTGTCATAAAACAATTGTTTCTA-TT-ATACAAGCTTATTCAAAATAAAATAATACTAA
* * * *
49935 TTTATTAATA-TTCAAAAAATAA-AAGCAAGAGATTGAAAAAAATAAATCTGTTTACTGAACAAT
64 TTTATTAATATTTC-AAAATTAATAAGCAAGAGATT-TAAAAAATAAATCTGTTTACTAAACAAG
* * * * *
49998 TTCAAATAGATATGA-TAATTTAAACAATTATCTATTTAAAACTATTTTGA-CAT
127 TTCAAATAGTTATAACT-ATTTGAACAATTATCTATTTCAAA-TATTATGATC-T
* * *
50051 TTTGTTTTGTCATAAAACAATTGTTTC-AGTTAATAAAAACTTATAT-GAAATAAAATAATACTA
1 TTTGTTTTGTCATAAAACAATTGTTTCTA-TT-ATACAAGCTTAT-TCAAAATAAAATAATACTA
* * * * * *
50114 CTTTATTAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAACTAAAGCCGTTT-TTCAAAGC-
63 ATTTATTAATATTTC-AAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACT-AAA-CA
* * ** * * *
50177 AGTTCTAATAGTTATAATTATTTGAACAAACAT-TAATCTCAAATCATTGTAATC-
125 AGTTCAAATAGTTATAACTATTTGAACAATTATCT-ATTTCAAAT-ATTATGATCT
* * * * * * * * *
50231 TTTGTTTTGTCATAACATAATTATTTTTTATCATATAAGCTGATT-TAGATAAAAATAATACTAA
1 TTTGTTTTGTCATAAAACAATT-GTTTCTATTATACAAGCTTATTCAAAAT-AAAATAATACTAA
* *
50295 TTTAATAATATTTTAAAA
64 TTTATTAATATTTCAAAA
50313 ATAAATATGT
Statistics
Matches: 933, Mismatches: 171, Indels: 102
0.77 0.14 0.08
Matches are distributed among these distances:
174 6 0.01
175 103 0.11
176 71 0.08
177 104 0.11
178 1 0.00
179 76 0.08
180 341 0.37
181 212 0.23
182 19 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (178 bp):
TTTGTTTTGTCATAAAACAATTGTTTCTATTATACAAGCTTATTCAAAATAAAATAATACTAATT
TATTAATATTTCAAAATTAATAAGCAAGAGATTTAAAAAATAAATCTGTTTACTAAACAAGTTCA
AATAGTTATAACTATTTGAACAATTATCTATTTCAAATATTATGATCT
Found at i:50942 original size:31 final size:31
Alignment explanation
Indices: 50881--50942 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
50871 TTTTAAACTT
**
50881 TATTAATCTATTAAATCAATTTTATTTATTA
1 TATTAATCTATTAAATCAATTTTACATATTA
50912 TATTAATCTA-TAAAT-AATATTATACATATTA
1 TATTAATCTATTAAATCAAT-TT-TACATATTA
50943 CAATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 3 0.11
30 7 0.26
31 17 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTAATCTATTAAATCAATTTTACATATTA
Found at i:51894 original size:30 final size:28
Alignment explanation
Indices: 51860--51938 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 28
51850 GTTTATAATA
51860 ATATAATAATTAATTAATATTAAATATATC
1 ATATAATAATTAATTAATATTAAATA-A-C
*
51890 ATATAAT--TTAATTTTAAAATTAAATAAC
1 ATATAATAATTAA--TTAATATTAAATAAC
*
51918 TTGATAATAAATTAATTAATA
1 AT-ATAAT-AATTAATTAATA
51939 ATTTAATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
28 6 0.15
29 6 0.15
30 24 0.60
32 4 0.10
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATAATAATTAATTAATATTAAATAAC
Found at i:52100 original size:15 final size:14
Alignment explanation
Indices: 52080--52124 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
52070 TAATTTTTAG
52080 TAATTAGTATATTAA
1 TAATTA-TATATTAA
52095 TAATTATAATATT-A
1 TAATTAT-ATATTAA
52109 TAATTATA-ATTAA
1 TAATTATATATTAA
52122 TAA
1 TAA
52125 ATTAAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.11
13 5 0.18
14 9 0.32
15 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TAATTATATATTAA
Found at i:52113 original size:14 final size:15
Alignment explanation
Indices: 52088--52118 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
52078 AGTAATTAGT
52088 ATATTAATAATTATA
1 ATATTAATAATTATA
52103 ATATT-ATAATTATA
1 ATATTAATAATTATA
52117 AT
1 AT
52119 TAATAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTAATAATTATA
Found at i:52127 original size:14 final size:14
Alignment explanation
Indices: 52090--52138 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
52080 TAATTAGTAT
52090 ATTAAT-AATTATA
1 ATTAATAAATTATA
*
52103 A-TATTATAATTATA
1 ATTAATA-AATTATA
52117 ATTAATAAATTA-A
1 ATTAATAAATTATA
52130 ATTATATAA
1 ATTA-ATAA
52139 TAGTATTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 3 0.10
13 6 0.20
14 17 0.57
15 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTAATAAATTATA
Found at i:52137 original size:27 final size:29
Alignment explanation
Indices: 52080--52144 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 29
52070 TAATTTTTAG
52080 TAATTAGTATATTAATAATTATAATATTA
1 TAATTAGTATATTAATAATTATAATATTA
52109 TAATTA-TA-ATTAATAAATTA-AAT-TATA
1 TAATTAGTATATTAAT-AATTATAATAT-TA
52136 TAA-TAGTAT
1 TAATTAGTAT
52145 TAGTTTTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
26 3 0.09
27 16 0.50
28 7 0.22
29 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (29 bp):
TAATTAGTATATTAATAATTATAATATTA
Found at i:52322 original size:13 final size:13
Alignment explanation
Indices: 52299--52332 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
52289 TAAATATTAG
52299 TATTATGAATTAAA
1 TATTAT-AATTAAA
*
52313 TATTATAATTTAA
1 TATTATAATTAAA
52326 TATTATA
1 TATTATA
52333 TTCATTTAAT
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TATTATAATTAAA
Found at i:54906 original size:16 final size:16
Alignment explanation
Indices: 54870--54934 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
54860 AAAATTATTT
54870 TAATAT-TTAA-AATA
1 TAATATGTTAATAATA
*
54884 TTAAATATGTTATTAATA
1 -T-AATATGTTAATAATA
54902 TAATAT-TTAATAATA
1 TAATATGTTAATAATA
54917 TAA-ATAGTTAATAATA
1 TAATAT-GTTAATAATA
54933 TA
1 TA
54935 TTAAATTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
14 2 0.05
15 12 0.28
16 21 0.49
17 4 0.09
18 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TAATATGTTAATAATA
Found at i:54908 original size:32 final size:31
Alignment explanation
Indices: 54870--54934 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
54860 AAAATTATTT
*
54870 TAATATTTAA-AATATTAAATATGTTATTAATA
1 TAATATTTAATAATA-TAAATA-GTTAATAATA
54902 TAATATTTAATAATATAAATAGTTAATAATA
1 TAATATTTAATAATATAAATAGTTAATAATA
54933 TA
1 TA
54935 TTAAATTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 11 0.35
32 16 0.52
33 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
TAATATTTAATAATATAAATAGTTAATAATA
Found at i:55109 original size:13 final size:13
Alignment explanation
Indices: 55079--55154 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
55069 TCTTGTTTAG
*
55079 TATTATAATATAA
1 TATTATAATATTA
* *
55092 AATTATTATATTA
1 TATTATAATATTA
55105 TATTATAATATTA
1 TATTATAATATTA
*
55118 -ATTTTAATGA--A
1 TATTATAAT-ATTA
*
55129 TATTA-GATATTA
1 TATTATAATATTA
*
55141 TTTTATAATATTA
1 TATTATAATATTA
55154 T
1 T
55155 TCTTTCCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
10 1 0.02
11 3 0.06
12 15 0.31
13 29 0.60
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TATTATAATATTA
Done.