Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 67 of 127
Found at i:13076048 original size:404 final size:404
Alignment explanation
Indices: 13075298--13076112 Score: 1506
Period size: 404 Copynumber: 2.0 Consensus size: 404
13075288 ATAAATCCTA
*
13075298 AAAAAAAAAGCAAAAAGAATAACATTTATTAAGGAAAATAAAAATAGTTCTAATTCCTTTTGATT
1 AAAAAAAAACCAAAAAGAATAACATTTATTAAGGAAAATAAAAATAGTTCTAATTCCTTTTGATT
13075363 TATACAAATGAAAAATATATAAAAAAAAGTATTTCTTGAATTTCACTAAAATGTTAGGACGATTC
66 TATACAAATGAAAAATATATAAAAAAAAGTATTTCTTGAATTTCACTAAAATGTTAGGACGATTC
* *
13075428 AAAAAATTATTTTTATTATAAAAAAATATAAAATAATTATTATTATTACTTATTTGAATAAAACT
131 AAAAAATTATTTTTATTATAAAAAAATATAAAATAATAATAATTATTACTTATTTGAATAAAACT
*
13075493 TTTAAAAAATGCAATGTTTAAAGAAAATTGAAAAAGTTCAATTTTCTTTAATTAATGTAAATAAA
196 TTTAAAAAATGCAATCTTTAAAGAAAATTGAAAAAGTTCAATTTTCTTTAATTAATGTAAATAAA
*
13075558 AAATAATTTTAGATTTAATCGACGAGTCAAGGTAATCTAAAAATTATTTTTTTACTAAAATAAAA
261 AAATAATTTTAGATTTAATCGACGAGTCAAGGTAATCTAAAAATTATTTTTGTACTAAAATAAAA
13075623 TTTTGATTCAATAAAAAAACAATGAATAATAAAAATAAATAAAAATAAAAGTGTTTGTTTAAATA
326 TTTTGATTCAATAAAAAAACAATGAATAATAAAAATAAAT-AAAATAAAAGTGTTTGTTTAAATA
*
13075688 ATTTTTTTAATTATT
390 AATTTTTTAATTATT
13075703 AAAAAAAAACCAAAAAGAATAACATTTATTAAGGAAAATAAAAATAGTTCTAATTCCTTTTGATT
1 AAAAAAAAACCAAAAAGAATAACATTTATTAAGGAAAATAAAAATAGTTCTAATTCCTTTTGATT
13075768 TATACAAATGAAAAATATATAAAAAAAA-TATTTCTTGAATTTCACTAAAATGTTAGGACGATTC
66 TATACAAATGAAAAATATATAAAAAAAAGTATTTCTTGAATTTCACTAAAATGTTAGGACGATTC
* *
13075832 AAAAAATTATTTTTGTTATAAAAAAGTATAAAATAATAATAATTATTACTTATTTGAATAAAACT
131 AAAAAATTATTTTTATTATAAAAAAATATAAAATAATAATAATTATTACTTATTTGAATAAAACT
*
13075897 TTTAAAAAATGCAATCTTTAAAGAAAATTGAAAGAGTTCAATTTTCTTTAATTAATGTAAATAAA
196 TTTAAAAAATGCAATCTTTAAAGAAAATTGAAAAAGTTCAATTTTCTTTAATTAATGTAAATAAA
* * *
13075962 AAATAATTTTAGATTTAATTGATGAGTCAGGGTAATCTAAAAATTATTTTTGTACTAAAATAAAA
261 AAATAATTTTAGATTTAATCGACGAGTCAAGGTAATCTAAAAATTATTTTTGTACTAAAATAAAA
13076027 TTTTGATTCAATAAAAAAACAATGAATAATAAAAATAAATAAAATAAAAGTGTTTGTTTAAATAA
326 TTTTGATTCAATAAAAAAACAATGAATAATAAAAATAAATAAAATAAAAGTGTTTGTTTAAATAA
13076092 ATTTTTTAATTATT
391 ATTTTTTAATTATT
13076106 AAAAAAA
1 AAAAAAA
13076113 TATTTTTGGA
Statistics
Matches: 398, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
403 45 0.11
404 261 0.66
405 92 0.23
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (404 bp):
AAAAAAAAACCAAAAAGAATAACATTTATTAAGGAAAATAAAAATAGTTCTAATTCCTTTTGATT
TATACAAATGAAAAATATATAAAAAAAAGTATTTCTTGAATTTCACTAAAATGTTAGGACGATTC
AAAAAATTATTTTTATTATAAAAAAATATAAAATAATAATAATTATTACTTATTTGAATAAAACT
TTTAAAAAATGCAATCTTTAAAGAAAATTGAAAAAGTTCAATTTTCTTTAATTAATGTAAATAAA
AAATAATTTTAGATTTAATCGACGAGTCAAGGTAATCTAAAAATTATTTTTGTACTAAAATAAAA
TTTTGATTCAATAAAAAAACAATGAATAATAAAAATAAATAAAATAAAAGTGTTTGTTTAAATAA
ATTTTTTAATTATT
Found at i:13076268 original size:134 final size:134
Alignment explanation
Indices: 13076051--13076329 Score: 370
Period size: 135 Copynumber: 2.1 Consensus size: 134
13076041 AAAAACAATG
* * *
13076051 AATAATAAAAATAAATAAAATAAAAGTGTTTGTTTAAATAAATTTTTTAATTATTAAAAAAATAT
1 AATAAT-AAAATAAATAAAATAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTAAAAAAATAT
* *
13076116 TTTTGGATTTCACCAAAGAGTTAGGATAATCTA-AAAA-GT-TATTTTCACTAAATAAATATTTA
65 TTTTGGATTTCACCAAAGAGTTAGGAT-ATC-AGAAAATATATATTTTCACTAAATAAAGATTTA
13076178 TTTAAAT
128 TTTAAAT
* * *
13076185 AATAATAAAAT-AA-AAAGTAAAAGTTTTTCTTTAAATAAATCTCTTAATTATTACCAAAAATAT
1 AATAATAAAATAAATAAAATAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTA-AAAAAATAT
* *
13076248 ATTTTGAGATTTCACCAAAGAGTTGGGATATCAGAAAATATATATTTTTACTAAATAAAGATTTA
65 -TTTTG-GATTTCACCAAAGAGTTAGGATATCAGAAAATATATATTTTCACTAAATAAAGATTTA
13076313 TTTAAAT
128 TTTAAAT
*
13076320 AATAAGAAAA
1 AATAATAAAA
13076330 AGATGAAAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
131 35 0.27
132 11 0.09
133 17 0.13
134 28 0.22
135 37 0.29
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (134 bp):
AATAATAAAATAAATAAAATAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTAAAAAAATATT
TTTGGATTTCACCAAAGAGTTAGGATATCAGAAAATATATATTTTCACTAAATAAAGATTTATTT
AAAT
Found at i:13076357 original size:3 final size:3
Alignment explanation
Indices: 13076351--13076386 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
13076341 ATAAATAGCA
13076351 AAT AAT AAT AAT AA- AA- AAT AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13076387 TAATTAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.19
3 25 0.81
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:13076395 original size:18 final size:18
Alignment explanation
Indices: 13076316--13076382 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 18
13076306 AGATTTATTT
13076316 AAATAATAAGAAAA-AGATGA
1 AAATAATAA-AAAATA-AT-A
*
13076336 AAATAATAAATAGCA-AATA
1 AAATAATAAA-A-AATAATA
13076355 ATAATAATAAAAAATAATA
1 A-AATAATAAAAAATAATA
13076374 AAATAATAA
1 AAATAATAA
13076383 TAATTAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 9 0.22
19 9 0.22
20 21 0.51
21 2 0.05
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (18 bp):
AAATAATAAAAAATAATA
Found at i:13076773 original size:3 final size:3
Alignment explanation
Indices: 13076765--13076793 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13076755 TATGAAAATG
13076765 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13076794 TTCACAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13077817 original size:11 final size:12
Alignment explanation
Indices: 13077796--13077820 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13077786 TTTTTAATAA
13077796 TTTAATAAAAAT
1 TTTAATAAAAAT
13077808 TTTAATAAAAAT
1 TTTAATAAAAAT
13077820 T
1 T
13077821 CAAATTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTAATAAAAAT
Found at i:13082759 original size:38 final size:38
Alignment explanation
Indices: 13082717--13082823 Score: 89
Period size: 33 Copynumber: 2.9 Consensus size: 38
13082707 ACAACGGATA
13082717 CACTTTTTGAGACAGATTATTGAGGGTATGTTACTTAC
1 CACTTTTTGAGACAGATTATTGAGGGTATGTTACTTAC
* * *** **** *
13082755 CAC---TT-AGCCTGAGCCTTCCTTG-ATGGTACTTAC
1 CACTTTTTGAGACAGATTATTGAGGGTATGTTACTTAC
13082788 CACTTTTTGAGACAGATTATTGAGGGTATGTTACTT
1 CACTTTTTGAGACAGATTATTGAGGGTATGTTACTT
13082824 GCTGACTGAG
Statistics
Matches: 44, Mismatches: 20, Indels: 10
0.59 0.27 0.14
Matches are distributed among these distances:
33 13 0.30
34 8 0.18
35 2 0.05
36 2 0.05
37 8 0.18
38 11 0.25
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (38 bp):
CACTTTTTGAGACAGATTATTGAGGGTATGTTACTTAC
Found at i:13086645 original size:20 final size:18
Alignment explanation
Indices: 13086622--13086663 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
13086612 AAAATATTTT
*
13086622 AAAAATTTTAAAAGTTCAAA
1 AAAAAATTTAAAA-TT-AAA
13086642 AAAAAATTTAAAATTAAA
1 AAAAAATTTAAAATTAAA
13086660 AAAA
1 AAAA
13086664 TCTAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 2 0.10
20 12 0.57
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAAATTTAAAATTAAA
Found at i:13086660 original size:16 final size:16
Alignment explanation
Indices: 13086641--13086671 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13086631 AAAAGTTCAA
*
13086641 AAAAAAATTTAAAATT
1 AAAAAAATCTAAAATT
13086657 AAAAAAATCTAAAAT
1 AAAAAAATCTAAAAT
13086672 ATTTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAATCTAAAATT
Found at i:13086682 original size:35 final size:36
Alignment explanation
Indices: 13086643--13086726 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
13086633 AAGTTCAAAA
13086643 AAAAATT-TAAAATTAAAAAAAT-CTAAAATATTTTT
1 AAAAATTATAAAATTAAAAAAATAC-AAAATATTTTT
* * *
13086678 AAAAATTACAAAATTAAAAATATACAAAATGTTTTT
1 AAAAATTATAAAATTAAAAAAATACAAAATATTTTT
*
13086714 AGAAATTATAAAA
1 AAAAATTATAAAA
13086727 ATTTTAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 7 0.17
36 34 0.81
37 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (36 bp):
AAAAATTATAAAATTAAAAAAATACAAAATATTTTT
Found at i:13086696 original size:15 final size:16
Alignment explanation
Indices: 13086676--13086707 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
13086666 TAAAATATTT
13086676 TTAAAAAT-TACAAAA
1 TTAAAAATATACAAAA
13086691 TTAAAAATATACAAAA
1 TTAAAAATATACAAAA
13086707 T
1 T
13086708 GTTTTTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
TTAAAAATATACAAAA
Found at i:13086751 original size:18 final size:20
Alignment explanation
Indices: 13086724--13086773 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
13086714 AGAAATTATA
* *
13086724 AAAATTTTAAAAAATT-ACT
1 AAAATCTTAAAAAATTCAAT
*
13086743 AAAA-CTTAATAAATTCAAT
1 AAAATCTTAAAAAATTCAAT
13086762 AAAATCTTAAAA
1 AAAATCTTAAAA
13086774 TTTTAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATCTTAAAAAATTCAAT
Found at i:13086764 original size:19 final size:19
Alignment explanation
Indices: 13086733--13086784 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
13086723 AAAAATTTTA
*
13086733 AAAAATT-ACTAAAA-CTT
1 AAAAATTCAATAAAATCTT
13086750 AATAAATTCAATAAAATCTT
1 AA-AAATTCAATAAAATCTT
* *
13086770 AAAATTTTAATAAAA
1 AAAAATTCAATAAAA
13086785 ATCCAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 17 0.59
20 5 0.17
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAATAAAATCTT
Found at i:13086858 original size:17 final size:17
Alignment explanation
Indices: 13086814--13086851 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
13086804 TTTTGATATT
*
13086814 TTTTAA-AATAATAACAA
1 TTTTAATAAAAATAA-AA
13086831 TTTTAATAAAAATAAAA
1 TTTTAATAAAAATAAAA
13086848 TTTT
1 TTTT
13086852 CTTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTTAATAAAAATAAAA
Found at i:13087065 original size:20 final size:20
Alignment explanation
Indices: 13087040--13087084 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
13087030 GGAATATACT
13087040 AAAATTATTAAAAA-AAATAA
1 AAAATTATTAAAAATAAA-AA
*
13087060 AAAATTTTTAAAAATAAAAA
1 AAAATTATTAAAAATAAAAA
13087080 AAAAT
1 AAAAT
13087085 AAAAGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATTATTAAAAATAAAAA
Found at i:13087139 original size:20 final size:20
Alignment explanation
Indices: 13087092--13087133 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
13087082 AATAAAAGAA
13087092 TAAAAGAATT--TAAAATTT
1 TAAAAGAATTCATAAAATTT
13087110 TAAAAGAATTCATAAAATTAT
1 TAAAAGAATTCATAAAATT-T
13087131 TAA
1 TAA
13087134 GAAATTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
20 7 0.33
21 4 0.19
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAAAGAATTCATAAAATTT
Found at i:13087223 original size:20 final size:19
Alignment explanation
Indices: 13087198--13087237 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13087188 ATTTCAAATA
13087198 TTTAAAAATTTTTAGATTTT
1 TTTAAAAA-TTTTAGATTTT
13087218 TTTAAAAATTTTAGATTTT
1 TTTAAAAATTTTAGATTTT
13087237 T
1 T
13087238 ATTATTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTAAAAATTTTAGATTTT
Found at i:13087280 original size:35 final size:34
Alignment explanation
Indices: 13087215--13087280 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
13087205 ATTTTTAGAT
* *
13087215 TTTTTTAAAAATTTTAGATTTTTATTATTTTCCA
1 TTTTTAAAAAATTTTAGATTTTTATAATTTTCCA
*
13087249 TTTTTAAAAAATTTTTTGAATTTTT-TAATTTT
1 TTTTTAAAAAA-TTTTAG-ATTTTTATAATTTT
13087281 AAGAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 10 0.37
35 11 0.41
36 6 0.22
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (34 bp):
TTTTTAAAAAATTTTAGATTTTTATAATTTTCCA
Found at i:13087397 original size:18 final size:18
Alignment explanation
Indices: 13087350--13087399 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
13087340 AAATTATGAG
13087350 ATTTTTTT-AT-TTTTTT
1 ATTTTTTTAATATTTTTT
** *
13087366 AAGTTTTCATATATTTTTT
1 ATTTTTTTA-ATATTTTTT
13087385 ATTTTTTTAATATTT
1 ATTTTTTTAATATTT
13087400 CATATTTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 5 0.20
18 8 0.32
19 12 0.48
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTTTTTAATATTTTTT
Found at i:13087404 original size:25 final size:26
Alignment explanation
Indices: 13087352--13087421 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
13087342 ATTATGAGAT
13087352 TTTTTTATTTTTTTAAGT-TTTCATATA
1 TTTTTTATTTTTTTAA-TATTTCA-ATA
13087379 TTTTTTATTTTTTTAATATTTC-ATA
1 TTTTTTATTTTTTTAATATTTCAATA
* *
13087404 TTTTTAATTTTTTAAATA
1 TTTTTTATTTTTTTAATA
13087422 ATTTTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 19 0.47
26 1 0.03
27 20 0.50
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (26 bp):
TTTTTTATTTTTTTAATATTTCAATA
Found at i:13087475 original size:20 final size:19
Alignment explanation
Indices: 13087424--13087496 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 19
13087414 TTTAAATAAT
* *
13087424 TTTTTAAAA-TATTTCAGA
1 TTTTTAAAATTTTTTCAAA
13087442 TTTTTAAAATATTTTTTCAAA
1 TTTTT-AAA-ATTTTTTCAAA
* *
13087463 TTTTATAAAATTTTTGTGAAT
1 TTTT-TAAAATTTTT-TCAAA
*
13087484 TTTTTTAAATTTT
1 TTTTTAAAATTTT
13087497 AAAAAAATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
18 5 0.11
19 3 0.07
20 15 0.33
21 21 0.47
22 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTTTAAAATTTTTTCAAA
Found at i:13087476 original size:31 final size:30
Alignment explanation
Indices: 13087409--13087502 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
13087399 TCATATTTTT
* *
13087409 AATTTTTTAAATAATTTTTTAAAATATT-TCA
1 AATTTTTTAAAT-ATTTTTT-AAATTTTATAA
* *
13087440 GATTTTTAAAATATTTTTTCAAATTTTATAA
1 AATTTTTTAAATATTTTTT-AAATTTTATAA
* *
13087471 AATTTTTGTGAAT-TTTTTTAAATTTTAAAA
1 AATTTTT-TAAATATTTTTTAAATTTTATAA
13087501 AA
1 AA
13087503 ATTATCTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
30 25 0.48
31 24 0.46
32 3 0.06
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (30 bp):
AATTTTTTAAATATTTTTTAAATTTTATAA
Found at i:13087581 original size:28 final size:28
Alignment explanation
Indices: 13087541--13087596 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
13087531 GTCTCTGTCC
* *
13087541 GTACTTCTTAACACGTGTTAAAATATTA
1 GTACTTCTTAACACGCGATAAAATATTA
* *
13087569 GTACTTTTTAACATGCGATAAAATATTA
1 GTACTTCTTAACACGCGATAAAATATTA
13087597 TTTGATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (28 bp):
GTACTTCTTAACACGCGATAAAATATTA
Found at i:13099270 original size:64 final size:62
Alignment explanation
Indices: 13099197--13099364 Score: 158
Period size: 64 Copynumber: 2.7 Consensus size: 62
13099187 ACTTTGCATT
* * * * * *
13099197 GTTTGTATTCTGACTCTATTACTATGTTTTTATTCTTAAAAACATATTAATTATTTTTTACGTA
1 GTTTATATTCTGATTCTATTGCTATGTTTTTATTCTTAAAAACACAATAATTATTGTTT--GTA
** * * * * *
13099261 GTTTATATTCAAATTCTATTGCTATATATTTATTCTAAAAAATACAATAATTATTGTTTGTG
1 GTTTATATTCTGATTCTATTGCTATGTTTTTATTCTTAAAAACACAATAATTATTGTTTGTA
** *
13099323 GTTTATATT-TAGATTCTATTGCTGCGTTTATATTCTTAAAAA
1 GTTTATATTCT-GATTCTATTGCTATGTTTTTATTCTTAAAAA
13099365 TGCTATAATA
Statistics
Matches: 82, Mismatches: 21, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
62 35 0.43
64 47 0.57
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.51
Consensus pattern (62 bp):
GTTTATATTCTGATTCTATTGCTATGTTTTTATTCTTAAAAACACAATAATTATTGTTTGTA
Found at i:13099373 original size:62 final size:61
Alignment explanation
Indices: 13099224--13099373 Score: 142
Period size: 62 Copynumber: 2.4 Consensus size: 61
13099214 ATTACTATGT
* **
13099224 TTTTATTCTTAAAAA-CATATTAATTATTTTTTACGTAGTTTATATTCAAATTCTATTGCTATA
1 TTTTATTCTTAAAAATC-TA-TAATTATTGTTTA-GTAGTTTATATTCAAATTCTATTGCTACG
* * * * * *
13099287 TATTTATTCTAAAAAATACAATAATTATTGTTT-GTGGTTTATATTTAGATTCTATTGCTGCG
1 T-TTTATTCTTAAAAAT-CTATAATTATTGTTTAGTAGTTTATATTCAAATTCTATTGCTACG
13099349 TTTATATTCTTAAAAATGCTATAAT
1 TTT-TATTCTTAAAAAT-CTATAAT
13099374 AAAATAAATA
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
61 2 0.03
62 42 0.59
63 1 0.01
64 24 0.34
65 1 0.01
66 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (61 bp):
TTTTATTCTTAAAAATCTATAATTATTGTTTAGTAGTTTATATTCAAATTCTATTGCTACG
Found at i:13099406 original size:18 final size:18
Alignment explanation
Indices: 13099373--13099407 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13099363 AATGCTATAA
13099373 TAAAATAAATACAATATT
1 TAAAATAAATACAATATT
13099391 TAAAACTAAATA-AATAT
1 TAAAA-TAAATACAATAT
13099408 AATTACTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATAAATACAATATT
Found at i:13099895 original size:26 final size:26
Alignment explanation
Indices: 13099866--13099957 Score: 67
Period size: 34 Copynumber: 3.2 Consensus size: 26
13099856 TTATTTTAAG
13099866 TTTTTAAAATAATAAATTATTACATT
1 TTTTTAAAATAATAAATTATTACATT
* *
13099892 TTTTTAAGATAAATGTAATAATTATATATTATAT
1 TTTTTAAAAT-AA--T-A-AATTAT-TA-CAT-T
* *
13099926 TTTTTAAAATTAATCAATTACTACATT
1 TTTTTAAAA-TAATAAATTATTACATT
13099953 TTTTT
1 TTTTT
13099958 TAAAGCAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
26 9 0.18
27 8 0.16
28 2 0.04
29 3 0.06
30 6 0.12
31 6 0.12
32 3 0.06
33 2 0.04
34 11 0.22
35 1 0.02
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTTTAAAATAATAAATTATTACATT
Found at i:13099977 original size:63 final size:61
Alignment explanation
Indices: 13099828--13100016 Score: 202
Period size: 61 Copynumber: 3.0 Consensus size: 61
13099818 AAATATTATG
* * * * * * *
13099828 TTTTTTTAAAAATCAATGTAATAATTATTTATTTTAAGTTTTTAAAATAATAAATTATTACA
1 TTTTTTTTAAGATAAATGTAATAATTATATATTAT-ATTTTTTAAAATAATCAATTATTACA
*
13099890 -TTTTTTTAAGATAAATGTAATAATTATATATTATATTTTTTAAAATTAATCAATTACTACA
1 TTTTTTTTAAGATAAATGTAATAATTATATATTATATTTTTTAAAA-TAATCAATTATTACA
* * * *
13099951 TTTTTTTTAAAGCA-AAATGTAGTAATTGTATATTGTATTTTTTAAAAAACAATCAATTATTACA
1 TTTTTTTT-AAG-ATAAATGTAATAATTATATATTATATTTTTT--AAAATAATCAATTATTACA
13100015 TT
1 TT
13100017 CCTTTAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
60 10 0.09
61 42 0.39
62 7 0.06
63 29 0.27
64 16 0.15
65 4 0.04
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (61 bp):
TTTTTTTTAAGATAAATGTAATAATTATATATTATATTTTTTAAAATAATCAATTATTACA
Found at i:13102707 original size:6 final size:6
Alignment explanation
Indices: 13102691--13102721 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
13102681 GCAACATAAA
13102691 AAAAAT AAAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT
13102722 GCATGAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:13106084 original size:11 final size:11
Alignment explanation
Indices: 13106065--13106106 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
13106055 AATCTCATAA
*
13106065 GAGAATTGTTT
1 GAGATTTGTTT
*
13106076 GAGATTTGTTA
1 GAGATTTGTTT
13106087 GAGATTTGTTT
1 GAGATTTGTTT
13106098 CG-GATTTGT
1 -GAGATTTGT
13106107 CAGATATTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 26 0.96
12 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13106089 original size:22 final size:22
Alignment explanation
Indices: 13106064--13106106 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13106054 AAATCTCATA
13106064 AGAGAATTGTTT-GAGATTTGTT
1 AGAGAATTGTTTCG-GATTTGTT
*
13106086 AGAGATTTGTTTCGGATTTGT
1 AGAGAATTGTTTCGGATTTGT
13106107 CAGATATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (22 bp):
AGAGAATTGTTTCGGATTTGTT
Found at i:13106219 original size:52 final size:52
Alignment explanation
Indices: 13106131--13106287 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
13106121 TGGACAAGAA
* * *
13106131 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* *
13106183 GACTTGTAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
13106235 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
13106287 G
1 G
13106288 TATGGTTATA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 88 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:13106856 original size:31 final size:31
Alignment explanation
Indices: 13106772--13106856 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
13106762 AGGTTTTTAG
*
13106772 CCCAACAAATGGTATCAGAGCAGTGGTGATC
1 CCCAACAAATGGTATCAGAGCTGTGGTGATC
* *
13106803 CTCAACAAATGGTATCAGAGCTGTGGTGTTC
1 CCCAACAAATGGTATCAGAGCTGTGGTGATC
* *
13106834 CCCAACAAGTGGTATCAAAGCTG
1 CCCAACAAATGGTATCAGAGCTG
13106857 AAAGTTCAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTGTGGTGATC
Found at i:13106913 original size:25 final size:25
Alignment explanation
Indices: 13106884--13106936 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
13106874 AGAAATGTGA
13106884 AAGAGCTGAAA-G-TTCGAGATGTGGG
1 AAGAGCT-AAAGGTTTC-AGATGTGGG
13106909 AAGAGCTAAAGGTTTCAGATGTGGG
1 AAGAGCTAAAGGTTTCAGATGTGGG
13106934 AAG
1 AAG
13106937 TGCATGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 3 0.12
25 20 0.77
26 3 0.12
ACGTcount: A:0.34, C:0.08, G:0.38, T:0.21
Consensus pattern (25 bp):
AAGAGCTAAAGGTTTCAGATGTGGG
Found at i:13107205 original size:22 final size:22
Alignment explanation
Indices: 13107177--13107219 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13107167 AAATCTCATA
13107177 AGAGATTTGTTT-GAGATTTGTT
1 AGAGATTTGTTTGGA-ATTTGTT
13107199 AGAGATTTGTTTGGAATTTGT
1 AGAGATTTGTTTGGAATTTGT
13107220 CAGATATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGGAATTTGTT
Found at i:13107219 original size:11 final size:11
Alignment explanation
Indices: 13107178--13107211 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
13107168 AATCTCATAA
13107178 GAGATTTGTTT
1 GAGATTTGTTT
*
13107189 GAGATTTGTTA
1 GAGATTTGTTT
13107200 GAGATTTGTTT
1 GAGATTTGTTT
13107211 G
1 G
13107212 GAATTTGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:13107331 original size:52 final size:52
Alignment explanation
Indices: 13107244--13107400 Score: 226
Period size: 52 Copynumber: 3.0 Consensus size: 52
13107234 TGGACAAGAA
* *
13107244 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* *
13107296 GACTTGTAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
13107348 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
13107400 G
1 G
13107401 TATGGTTATA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 89 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:13116392 original size:2 final size:2
Alignment explanation
Indices: 13116385--13116409 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13116375 TTCATCTTCT
13116385 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
13116410 ATAAGATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13123841 original size:9 final size:10
Alignment explanation
Indices: 13123815--13123859 Score: 74
Period size: 10 Copynumber: 4.5 Consensus size: 10
13123805 TGAGACTTTT
13123815 TTTTTCTTAAA
1 TTTTT-TTAAA
13123826 TTTTTTTAAA
1 TTTTTTTAAA
13123836 TTTTTTTAAA
1 TTTTTTTAAA
13123846 -TTTTTTAAA
1 TTTTTTTAAA
13123855 TTTTT
1 TTTTT
13123860 ATTTTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.27
10 19 0.58
11 5 0.15
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:13123849 original size:17 final size:17
Alignment explanation
Indices: 13123821--13123891 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
13123811 TTTTTTTTTC
13123821 TTAAATTTTTTTAAATTTTT
1 TTAAATTTTTTTAAA---TT
13123841 TTAAA-TTTTTTAAATT
1 TTAAATTTTTTTAAATT
* * *
13123857 TTTATTTTTTTTACATT
1 TTAAATTTTTTTAAATT
* *
13123874 TTACATTTTTTTATATT
1 TTAAATTTTTTTAAATT
13123891 T
1 T
13123892 AATCATTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
16 5 0.12
17 24 0.56
19 9 0.21
20 5 0.12
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTAAATTTTTTTAAATT
Found at i:13123891 original size:10 final size:9
Alignment explanation
Indices: 13123824--13123875 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
13123814 TTTTTTCTTA
13123824 AATTTTTTT
1 AATTTTTTT
13123833 AAATTTTTTT
1 -AATTTTTTT
*
13123843 AAATTTTTT
1 AATTTTTTT
*
13123852 AA-ATTTTT
1 AATTTTTTT
*
13123860 ATTTTTTTT
1 AATTTTTTT
13123869 ACATTTT
1 A-ATTTT
13123876 ACATTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 6 0.17
9 16 0.46
10 13 0.37
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
AATTTTTTT
Found at i:13123898 original size:18 final size:17
Alignment explanation
Indices: 13123862--13123917 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
13123852 AAATTTTTAT
*
13123862 TTTTTTTACATTTTACA
1 TTTTTTTACATTTAACA
*
13123879 TTTTTTTATATTTAATCA
1 TTTTTTTACATTTAA-CA
*
13123897 -TTTTTTCCATTTAA-A
1 TTTTTTTACATTTAACA
13123912 TTTTTT
1 TTTTTT
13123918 AAAAGTGGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 1 0.03
16 5 0.15
17 25 0.76
18 2 0.06
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTTACATTTAACA
Found at i:13124468 original size:11 final size:11
Alignment explanation
Indices: 13124452--13124494 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
13124442 GATCTCTCTT
13124452 TTTATTTTTTC
1 TTTATTTTTTC
13124463 TTTATTTTTTC
1 TTTATTTTTTC
13124474 TTTAAATTTTTT-
1 TTT--ATTTTTTC
13124486 TTTATTTTT
1 TTTATTTTT
13124495 AATTAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.20
11 14 0.47
12 3 0.10
13 7 0.23
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTTTC
Found at i:13125376 original size:21 final size:22
Alignment explanation
Indices: 13125346--13125387 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13125336 GTGTCGTTTT
*
13125346 TTTTTACTTTTTTTTTCATTTC
1 TTTTTACTTTTTTTTTAATTTC
13125368 TTTTT-CTTTTTTTTTAATTT
1 TTTTTACTTTTTTTTTAATTT
13125388 TTTATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTACTTTTTTTTTAATTTC
Found at i:13125388 original size:11 final size:11
Alignment explanation
Indices: 13125342--13125390 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
13125332 TTACGTGTCG
*
13125342 TTTTTTTTTAC
1 TTTTTTTTTAA
*
13125353 TTTTTTTTTCA
1 TTTTTTTTTAA
* *
13125364 TTTCTTTTT-C
1 TTTTTTTTTAA
13125374 TTTTTTTTTAA
1 TTTTTTTTTAA
13125385 TTTTTT
1 TTTTTT
13125391 ATATATTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 8 0.26
11 23 0.74
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:13131204 original size:16 final size:16
Alignment explanation
Indices: 13131170--13131212 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
13131160 AAATTATATT
13131170 TTATTTATATAAATGTA
1 TTATTTA-ATAAATGTA
13131187 TTATTTAATAAA-GATA
1 TTATTTAATAAATG-TA
13131203 TTATTTAATA
1 TTATTTAATA
13131213 CTTTAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.04
16 17 0.68
17 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTATTTAATAAATGTA
Found at i:13131424 original size:25 final size:25
Alignment explanation
Indices: 13131371--13131424 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
13131361 TTGTTTTTTG
* *
13131371 TTTTTTTTTTTTTAATTACGTTTAG
1 TTTTTTTTTTTTTAATTACGTTAAA
*
13131396 TTTTTTTATTTTTTAATTATG-TAAA
1 TTTTTTT-TTTTTTAATTACGTTAAA
13131421 TTTT
1 TTTT
13131425 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.72
Consensus pattern (25 bp):
TTTTTTTTTTTTTAATTACGTTAAA
Found at i:13132263 original size:8 final size:7
Alignment explanation
Indices: 13132250--13132305 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
13132240 ATGAGTTCCC
13132250 TTATTTGT
1 TTATTT-T
13132258 TTATTTTT
1 TTA-TTTT
*
13132266 TTATCTT
1 TTATTTT
13132273 TTATTTT
1 TTATTTT
13132280 TT-TATTT
1 TTAT-TTT
13132287 TTATTTAT
1 TTATTT-T
*
13132295 TTATCTT
1 TTATTTT
13132302 TTAT
1 TTAT
13132306 GTTTAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
6 1 0.02
7 23 0.56
8 14 0.34
9 3 0.07
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (7 bp):
TTATTTT
Found at i:13132281 original size:14 final size:15
Alignment explanation
Indices: 13132257--13132305 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
13132247 CCCTTATTTG
13132257 TTTATTTTTTTATCT
1 TTTATTTTTTTATCT
13132272 TTTATTTTTTTAT-T
1 TTTATTTTTTTATCT
*
13132286 TTTATTTATTTATCT
1 TTTATTTTTTTATCT
13132301 TTTAT
1 TTTAT
13132306 GTTTAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 13 0.41
15 19 0.59
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTTTTTTATCT
Found at i:13132934 original size:29 final size:31
Alignment explanation
Indices: 13132885--13132952 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
13132875 TTTAATCTTA
13132885 TATTTATATATATTATATTAATAAAAT-TAT
1 TATTTATATATATTATATTAATAAAATATAT
* *
13132915 TATTTA-ATATTTTA-ATTTAATAAAATATTT
1 TATTTATATATATTATA-TTAATAAAATATAT
13132945 TATTTATA
1 TATTTATA
13132953 CATAATTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 17 0.52
30 14 0.42
31 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
TATTTATATATATTATATTAATAAAATATAT
Found at i:13133589 original size:16 final size:18
Alignment explanation
Indices: 13133568--13133607 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
13133558 TAAGAATATA
*
13133568 TATATTTTAT-TATTTAT
1 TATATTTTATATATGTAT
13133585 T-TATTTTATATATGTAT
1 TATATTTTATATATGTAT
13133602 TATATT
1 TATATT
13133608 AATAGTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TATATTTTATATATGTAT
Found at i:13133673 original size:22 final size:21
Alignment explanation
Indices: 13133623--13133676 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
13133613 TTATTATTTA
*
13133623 ATAATTTA-ATTTAATAAAAT
1 ATAATTTATATATAATAAAAT
13133643 ATTATATTTATATATAATTAAAAT
1 A-TA-ATTTATATATAA-TAAAAT
13133667 ATAATTTATA
1 ATAATTTATA
13133677 GTAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 2 0.07
22 12 0.41
23 7 0.24
24 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAATTTATATATAATAAAAT
Found at i:13138286 original size:13 final size:13
Alignment explanation
Indices: 13138268--13138305 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
13138258 TTTGCTTTCT
13138268 ATTTAAAAAGAGA
1 ATTTAAAAAGAGA
13138281 ATTTAAAAAGA-A
1 ATTTAAAAAGAGA
**
13138293 AAATAAAAAGAGA
1 ATTTAAAAAGAGA
13138306 CAGAAATGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTTAAAAAGAGA
Found at i:13138862 original size:2 final size:2
Alignment explanation
Indices: 13138813--13138848 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
13138803 TATAAAGAGC
*
13138813 CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT AT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
13138849 ATTCAAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:13143779 original size:11 final size:11
Alignment explanation
Indices: 13143765--13143801 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13143755 AAAAAATAAA
13143765 TTAAAAAATTT
1 TTAAAAAATTT
13143776 TTAAAAAA--T
1 TTAAAAAATTT
*
13143785 TCAAAAAATTT
1 TTAAAAAATTT
13143796 TTAAAA
1 TTAAAA
13143802 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAAAAATTT
Found at i:13143819 original size:18 final size:17
Alignment explanation
Indices: 13143762--13143829 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 17
13143752 ATTAAAAAAT
13143762 AAATTAAAAAATTTTTAAA
1 AAATTAAAAAA-TTTT-AA
*
13143781 AAATTCAAAAAATTTTTA
1 AAATT-AAAAAATTTTAA
13143799 AAATTAAAAAATTTCTAA
1 AAATTAAAAAATTT-TAA
**
13143817 AAAAAAAAAAATT
1 AAATTAAAAAATT
13143830 AAGGAAACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
17 9 0.21
18 19 0.44
19 9 0.21
20 6 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTAAAAAATTTTAA
Found at i:13143820 original size:49 final size:49
Alignment explanation
Indices: 13143693--13143821 Score: 118
Period size: 49 Copynumber: 2.6 Consensus size: 49
13143683 AAATTTATAC
* * *
13143693 ATTTTTAAAAACTTATAAAA-TTCCAAAAAAATTCTAAAAAAATTGCAAAG
1 ATTTTT-AAAA-TTAAAAAATTTCTAAAAAAATTCTAAAAAAATTGCAAAA
* * *** * * *
13143743 ATTCTAAAAATTAAAAAATAAATTAAAAAATTTTTAAAAAATT-CAAAAA
1 ATTTTTAAAATTAAAAAATTTCTAAAAAAATTCTAAAAAAATTGC-AAAA
13143792 ATTTTTAAAATTAAAAAATTTCTAAAAAAA
1 ATTTTTAAAATTAAAAAATTTCTAAAAAAA
13143822 AAAAAATTAA
Statistics
Matches: 60, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
48 8 0.13
49 48 0.80
50 4 0.07
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (49 bp):
ATTTTTAAAATTAAAAAATTTCTAAAAAAATTCTAAAAAAATTGCAAAA
Found at i:13143823 original size:16 final size:17
Alignment explanation
Indices: 13143787--13143825 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13143777 TAAAAAATTC
* *
13143787 AAAAAATTTTTAAAATT
1 AAAAAATTTCTAAAATA
13143804 AAAAAATTTCTAAAA-A
1 AAAAAATTTCTAAAATA
13143820 AAAAAA
1 AAAAAA
13143826 AATTAAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATTTCTAAAATA
Found at i:13144276 original size:18 final size:18
Alignment explanation
Indices: 13144253--13144309 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
13144243 AAAATTTAAG
13144253 AAAATTTTATATATTTTT
1 AAAATTTTATATATTTTT
*
13144271 AAAATTTT-TAAAATTTTT
1 AAAATTTTAT-ATATTTTT
*
13144289 GAAAATTTTATATTTTTTT
1 -AAAATTTTATATATTTTT
13144308 AA
1 AA
13144310 TTTTCACTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.03
18 17 0.52
19 14 0.42
20 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
AAAATTTTATATATTTTT
Found at i:13144277 original size:9 final size:9
Alignment explanation
Indices: 13144265--13144297 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
13144255 AATTTTATAT
13144265 ATTTTTAAA
1 ATTTTTAAA
13144274 ATTTTTAAA
1 ATTTTTAAA
13144283 ATTTTTGAAA
1 ATTTTT-AAA
13144293 ATTTT
1 ATTTT
13144298 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:13144371 original size:17 final size:18
Alignment explanation
Indices: 13144351--13144386 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13144341 AAACTTGAAG
13144351 AAAA-TTTAATTTTTTTT
1 AAAACTTTAATTTTTTTT
*
13144368 AAAACTTTCATTTTTTTT
1 AAAACTTTAATTTTTTTT
13144386 A
1 A
13144387 GTTTTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
AAAACTTTAATTTTTTTT
Found at i:13144401 original size:20 final size:20
Alignment explanation
Indices: 13144378--13144416 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13144368 AAAACTTTCA
*
13144378 TTTTT-TTTAGTTTTTTGAT
1 TTTTTATTTAATTTTTTGAT
13144397 TTTTTATTTAATTTTTTGAT
1 TTTTTATTTAATTTTTTGAT
13144417 AATTTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (20 bp):
TTTTTATTTAATTTTTTGAT
Found at i:13144484 original size:9 final size:8
Alignment explanation
Indices: 13144465--13144518 Score: 63
Period size: 9 Copynumber: 6.2 Consensus size: 8
13144455 TTATCCAATA
13144465 TTTAATATT
1 TTTAA-ATT
13144474 TTTAAATT
1 TTTAAATT
13144482 TTTAAAATT
1 TTT-AAATT
*
13144491 TTAAAATT
1 TTTAAATT
13144499 TTTAGAATT
1 TTTA-AATT
13144508 TTTAAGATT
1 TTTAA-ATT
13144517 TT
1 TT
13144519 ATTGAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
8 15 0.38
9 25 0.62
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (8 bp):
TTTAAATT
Found at i:13144491 original size:17 final size:17
Alignment explanation
Indices: 13144465--13144518 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
13144455 TTATCCAATA
*
13144465 TTTAATATTTTTAAATT
1 TTTAAAATTTTTAAATT
*
13144482 TTTAAAATTTTAAAATT
1 TTTAAAATTTTTAAATT
*
13144499 TTTAGAATTTTTAAGATT
1 TTTAAAATTTTTAA-ATT
13144517 TT
1 TT
13144519 ATTGAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 27 0.84
18 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
TTTAAAATTTTTAAATT
Found at i:13144519 original size:17 final size:17
Alignment explanation
Indices: 13144471--13144529 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
13144461 AATATTTAAT
*
13144471 ATTTTTAAATTTTTAAA
1 ATTTTTAAATTTTTAGA
*
13144488 ATTTTAAAATTTTTAGA
1 ATTTTTAAATTTTTAGA
*
13144505 ATTTTTAAGATTTTATTGA
1 ATTTTTAA-ATTTT-TAGA
13144524 ATTTTT
1 ATTTTT
13144530 TTTAGAACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 22 0.61
18 5 0.14
19 9 0.25
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTTTAAATTTTTAGA
Found at i:13147747 original size:44 final size:44
Alignment explanation
Indices: 13147684--13147774 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
13147674 ACTTAGTACT
* * * * * *
13147684 AATCATCGATAATTTAATAATTAATTAGTAATAATTTAATTGTA
1 AATCATCGATAACTCAATAATAAATTAGTAACAACTTAATAGTA
* *
13147728 AATCATGGATAACTCAATAATAAATTAGTGACAACTTAATAGTA
1 AATCATCGATAACTCAATAATAAATTAGTAACAACTTAATAGTA
13147772 AAT
1 AAT
13147775 TAATAATAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (44 bp):
AATCATCGATAACTCAATAATAAATTAGTAACAACTTAATAGTA
Found at i:13154463 original size:3 final size:3
Alignment explanation
Indices: 13154455--13154485 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13154445 TAATGCAAAT
13154455 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13154486 ATCATGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13155154 original size:15 final size:15
Alignment explanation
Indices: 13155134--13155163 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13155124 TCAATCCCAG
*
13155134 AAAAAACAAACAAAA
1 AAAAAAAAAACAAAA
13155149 AAAAAAAAAACAAAA
1 AAAAAAAAAACAAAA
13155164 TCAAGAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:13155699 original size:16 final size:17
Alignment explanation
Indices: 13155678--13155712 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13155668 ACATTTTTCA
13155678 TTTTTTCA-TTTTCATT
1 TTTTTTCACTTTTCATT
*
13155694 TTTTTTCACTTTTGATT
1 TTTTTTCACTTTTCATT
13155711 TT
1 TT
13155713 GACTCTGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTCACTTTTCATT
Found at i:13155752 original size:13 final size:13
Alignment explanation
Indices: 13155736--13155765 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13155726 AAACAAAAAT
*
13155736 AAAAATTAAACTA
1 AAAAACTAAACTA
13155749 AAAAACTAAACTA
1 AAAAACTAAACTA
13155762 AAAA
1 AAAA
13155766 TACAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAACTAAACTA
Found at i:13155834 original size:18 final size:19
Alignment explanation
Indices: 13155798--13155840 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
13155788 TTAGACCTAA
* *
13155798 AATTTCCTAGTTGAGACCC
1 AATTTACTAGTTGAAACCC
13155817 AATTTACTA-TTGAAACCC
1 AATTTACTAGTTGAAACCC
*
13155835 ATTTTA
1 AATTTA
13155841 ATGCCAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (19 bp):
AATTTACTAGTTGAAACCC
Found at i:13156134 original size:40 final size:41
Alignment explanation
Indices: 13156100--13156178 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
13156090 TCTCCCATTG
* * *
13156100 GAGGCTTTGAAACTTTTGAAAAA-AAATTGCTCTCCCCACAA
1 GAGGCTTGGAAACTTTGGAAAAACAAAATGCTCT-CCCACAA
13156141 GAGGCTTGGAAACTTTGGAAAAACAAAATGCTCCTCCC
1 GAGGCTTGGAAACTTTGGAAAAACAAAATGCT-CTCCC
13156179 CACTAGAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 21 0.64
42 10 0.30
43 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (41 bp):
GAGGCTTGGAAACTTTGGAAAAACAAAATGCTCTCCCACAA
Found at i:13156145 original size:41 final size:42
Alignment explanation
Indices: 13156100--13156508 Score: 212
Period size: 43 Copynumber: 9.7 Consensus size: 42
13156090 TCTCCCATTG
*
13156100 GAGGCTTTGAAACTTTTGAAAAA-AAATTGCTCTCCCCACAA
1 GAGGCTTTGAAACTTTTGAAAAATAAAATGCTCTCCCCACAA
* * * *
13156141 GAGGCTTGGAAACTTTGGAAAAACAAAATGCTCCTCCCCACTA
1 GAGGCTTTGAAACTTTTGAAAAATAAAATGCT-CTCCCCACAA
* * * ** * * * **
13156184 GAAGTTTTGAATCTTTCAAAAAATAAAGTGGTCTCCCTATTA
1 GAGGCTTTGAAACTTTTGAAAAATAAAATGCTCTCCCCACAA
* * * * * * *
13156226 GAGACTTTCAAACATTGGAAAAAATACAATGCTATCCCC-CATCG
1 GAGGCTTTGAAACTTTTG-AAAAATAAAATGCTCTCCCCACA--A
* **
13156270 GAGGTTTTGAAACTTTCAAAAAATAAAATGCTCTCCCCCACCAA
1 GAGGCTTTGAAACTTTTGAAAAATAAAATGCTCT-CCCCA-CAA
* * * *
13156314 -AGGCTTTGGAACTTTTAAAAAATAAAATACTC-CCCTTACTAA
1 GAGGCTTTGAAACTTTTGAAAAATAAAATGCTCTCCC-CAC-AA
* * * **
13156356 -AGGTTTTGAAACTTTTAAAAAAATAAAATGC-C-CCCTATTA
1 GAGGCTTTGAAACTTTT-GAAAAATAAAATGCTCTCCCCACAA
* * *
13156396 GAGGTTTTGAAACTTCTG-AAAAT-AAATGCT-TGCCCTCATC-G
1 GAGGCTTTGAAACTTTTGAAAAATAAAATGCTCT-CCC-CA-CAA
* * * *** *
13156437 GAGGCTTTGAAATTTTTGAAAAAAGAAAATACTCAATCCACCA
1 GAGGCTTTGAAACTTTTG-AAAAATAAAATGCTCTCCCCACAA
13156480 GAGGCTTT-AGAACTTTTGAAAAATAAAAT
1 GAGGCTTTGA-AACTTTTGAAAAATAAAAT
13156509 CTACCTATCG
Statistics
Matches: 279, Mismatches: 66, Indels: 45
0.72 0.17 0.12
Matches are distributed among these distances:
38 6 0.02
39 5 0.02
40 4 0.01
41 58 0.21
42 58 0.21
43 123 0.44
44 23 0.08
46 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (42 bp):
GAGGCTTTGAAACTTTTGAAAAATAAAATGCTCTCCCCACAA
Found at i:13156887 original size:197 final size:196
Alignment explanation
Indices: 13156526--13156903 Score: 630
Period size: 197 Copynumber: 1.9 Consensus size: 196
13156516 TCGGAAGCTA
* *
13156526 TGAAACTTTCAAAAAATAAAAGAGATTTATAGGATTTTCAAGAAAATGCCTTGAGGTCTTATAGA
1 TGAAACTTTCAAAAAATAAAAGAGATTTATAAGATTTTCAAGAAAATGCCTTGAGGCCTTATAGA
13156591 TCATTTTCATTTTTAAAAAACACCTCCTTAACAAAGATATTGAAACTTTAAAAAATATTCTTACC
66 TCATTTTCATTTTTAAAAAACACCTCCTTAACAAAGATATTGAAACTTTAAAAAATATTCTTACC
*
13156656 TTAAACTGATTCCTTTCATCTCAATCGGTTCATCATTAATTATTTCAATGTACCTACCAAAGGCT
131 TTAAACTGATTCCTTTCATCTCAACCGGTTCATCATTAATTATTTCAATGTACCTACCAAAGGCT
13156721 T
196 T
* **
13156722 TGAAACTTTCAAAAAATAAACGAGATTTATAAGATTTTCAAGCTAATGCCTTGAGGCCTTATAGA
1 TGAAACTTTCAAAAAATAAAAGAGATTTATAAGATTTTCAAGAAAATGCCTTGAGGCCTTATAGA
* * *
13156787 TTATTTTCATTTTTGAAAAAACACCTTCTTAACAAAGATATTGAAATTTTAAAAAATATTCTTAC
66 TCATTTTCATTTTT-AAAAAACACCTCCTTAACAAAGATATTGAAACTTTAAAAAATATTCTTAC
* * * *
13156852 CTTAAAGTGATTGCTTTCATCTTAACCGGTTCATCATTAATTGTTTCAATGT
130 CTTAAACTGATTCCTTTCATCTCAACCGGTTCATCATTAATTATTTCAATGT
13156904 TTCTTCTCAA
Statistics
Matches: 168, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
196 73 0.43
197 95 0.57
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (196 bp):
TGAAACTTTCAAAAAATAAAAGAGATTTATAAGATTTTCAAGAAAATGCCTTGAGGCCTTATAGA
TCATTTTCATTTTTAAAAAACACCTCCTTAACAAAGATATTGAAACTTTAAAAAATATTCTTACC
TTAAACTGATTCCTTTCATCTCAACCGGTTCATCATTAATTATTTCAATGTACCTACCAAAGGCT
T
Found at i:13164289 original size:56 final size:55
Alignment explanation
Indices: 13164212--13164687 Score: 233
Period size: 55 Copynumber: 8.8 Consensus size: 55
13164202 TATATCTTTC
* * *
13164212 ACTGATGGTTAAT-ACTCATCAGTATAGACTTGTATGTTTTAATTTCTCTTGCCTAT
1 ACTGATGGTTAATGCCT-GTCAGTATAGACTTGTATGTTTTAATTT-TCTTACCTAT
* * * * *
13164268 A-TCGACGGTTAATGCCTATCAGTATAGACTTGTA--ATTT--TTTT-AT-GC-AT
1 ACT-GATGGTTAATGCCTGTCAGTATAGACTTGTATGTTTTAATTTTCTTACCTAT
* * * * * *
13164316 ACTGATGCTTAAAGCCTGTCAATATAGATTTGTATGTTTTAATTTTCTCACTTAT
1 ACTGATGGTTAATGCCTGTCAGTATAGACTTGTATGTTTTAATTTTCTTACCTAT
* * * *
13164371 ACTGATGGCTAGTGCTTGTCAGTATAGACTTATATGTTTTAATTTTTCTTACCTAT
1 ACTGATGGTTAATGCCTGTCAGTATAGACTTGTATGTTTTAA-TTTTCTTACCTAT
* * * *
13164427 A-TCAATGGTTAATGTCTGTTAGTATAGACTTGTA------ATTTTTCTTACCTAT
1 ACT-GATGGTTAATGCCTGTCAGTATAGACTTGTATGTTTTAATTTTCTTACCTAT
** * * * * * * * *
13164476 ACCAACGCTTAGCAT-CC-GTTAATATAGGCTTATAATTTTTTAATTTTTTTACCTAT
1 ACTGATGGTTA--ATGCCTGTCAGTATAGACTTGT-ATGTTTTAATTTTCTTACCTAT
* * * *
13164532 ACTGATGGTTAGA-GACC-ATCAGTATAGAATTGTTTGCTTTAATTTTCTTACCTAT
1 ACTGATGGTTA-ATG-CCTGTCAGTATAGACTTGTATGTTTTAATTTTCTTACCTAT
* * * * * *
13164587 ACTGACGGTTAGA-GACTATCAATATAGAATTGTATGCTTTAATTTTTCTTACCTAT
1 ACTGATGGTTA-ATGCCTGTCAGTATAGACTTGTATGTTTTAA-TTTTCTTACCTAT
* * ** * * *
13164643 GCCGAT-GTTAGA-GATTGTTAGTATAGACTTATATATTTTAATTTT
1 ACTGATGGTTA-ATGCCTGTCAGTATAGACTTGTATGTTTTAATTTT
13164688 TTTATTATAT
Statistics
Matches: 321, Mismatches: 73, Indels: 54
0.72 0.16 0.12
Matches are distributed among these distances:
48 28 0.09
49 35 0.11
50 7 0.02
51 3 0.01
52 7 0.02
54 8 0.02
55 120 0.37
56 111 0.35
57 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.44
Consensus pattern (55 bp):
ACTGATGGTTAATGCCTGTCAGTATAGACTTGTATGTTTTAATTTTCTTACCTAT
Found at i:13164502 original size:49 final size:49
Alignment explanation
Indices: 13164410--13164515 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 49
13164400 TTATATGTTT
* * * ** * * *
13164410 TAATTTTTCTTACCTATATCAATGGTTAATGTCTGTTAGTATAGACTTG
1 TAATTTTTCTTACCTATACCAACGCTTAACATCCGTTAATATAGACTTA
* *
13164459 TAATTTTTCTTACCTATACCAACGCTTAGCATCCGTTAATATAGGCTTA
1 TAATTTTTCTTACCTATACCAACGCTTAACATCCGTTAATATAGACTTA
13164508 TAATTTTT
1 TAATTTTT
13164516 TAATTTTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.45
Consensus pattern (49 bp):
TAATTTTTCTTACCTATACCAACGCTTAACATCCGTTAATATAGACTTA
Found at i:13167205 original size:383 final size:379
Alignment explanation
Indices: 13166463--13167227 Score: 1280
Period size: 383 Copynumber: 2.0 Consensus size: 379
13166453 AAGTATATAC
*
13166463 TGTACCCATGCAACGAACACACCTCTCTTCAATCTTTTAACTTTTGAATAAACATCATCTTTCCA
1 TGTACCCATGCAACGAACACACCTCTCTTCAATCCTTTAACTTTTGAATAAACATCATCTTTCCA
*
13166528 TGACTCCCTTTAAAATTCTAAGCACTAGTTTAGCTCAAACCTTATTTTATGAGTTTCTAAAATTG
66 TGACTCCCTTCAAAATTCTAAGCACTAGTTTAGCTCAAACCTTATTTTATGAGTTTCTAAAATTG
13166593 TAAACAAACATTTTAGTATAAAAAAACTAAACATAAGTAAAAGCAAGTAATAACTAAATTAAATA
131 TAAACAAACATTTTAGTATAAAAAAACTAAACATAAGTAAAAGCAAGTAATAACTAAATTAAATA
* * * * *
13166658 TCACAATTTCAGTTATCTTGTCATTTATAATATTTCCATCTTTACGTATACGAGAAAAAATATAC
196 CCACAATTTCAATTATCTTGTCATTCATAATATTTCCATCTTTACATATACAAGAAAAAATATAC
* *
13166723 ATCTCAGTACGTGATGGTGGAATTCCATTAGCTTCTTCTTTCTATAAAGGTACAACATTAATTAT
261 ACCTCAGCACGTGATGGTGGAATTCCATTAGCTTCTTCTTTCTATAAAGGTACAACATTAATTAT
13166788 TGTAATGATAATATCACATATATAAAAAGTAAACTTCATATTCATTTAACTGAG
326 TGTAATGATAATATCACATATATAAAAAGTAAACTTCATATTCATTTAACTGAG
* * *
13166842 TGTACCCATGCAATGAACACACCATTTTCTCTCTGATCCTTTAACTTTTGAATAAACATCATCTT
1 TGTACCCATGCAACGAACACACC--TCTCT-TC-AATCCTTTAACTTTTGAATAAACATCATCTT
* * *
13166907 TCCATGACTCCCTTCAAAATTCTAAGCACTAGTTTCGCTCAAACTTTATTTTATGAGTTTTTAAA
62 TCCATGACTCCCTTCAAAATTCTAAGCACTAGTTTAGCTCAAACCTTATTTTATGAGTTTCTAAA
* * * *
13166972 ATTGTAAATAAACATTTTAGTATAAAGAAGCTAAACATAAGTAAAATCAAGTAATAACTAAATTA
127 ATTGTAAACAAACATTTTAGTATAAAAAAACTAAACATAAGTAAAAGCAAGTAATAACTAAATTA
* *
13167037 AATACCACAATTTCAATTATCTTGTCATTCATAATACTTT-CATCTTTACATGTACAAGAAAGAA
192 AATACCACAATTTCAATTATCTTGTCATTCATAATA-TTTCCATCTTTACATATACAAGAAAAAA
*
13167101 TATACACCTCAGCACGTGATGGTGGAATTCCATTAGCTTTTTCTTTCTATAAAGGTACAACATTA
256 TATACACCTCAGCACGTGATGGTGGAATTCCATTAGCTTCTTCTTTCTATAAAGGTACAACATTA
13167166 ATTATTGTAATGATAATATCACATATATAAAAAGTAAACTTCATATTCATTTAACTGAG
321 ATTATTGTAATGATAATATCACATATATAAAAAGTAAACTTCATATTCATTTAACTGAG
13167225 TGT
1 TGT
13167228 GACAAAAAAA
Statistics
Matches: 359, Mismatches: 22, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
379 22 0.06
381 4 0.01
382 2 0.01
383 328 0.91
384 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (379 bp):
TGTACCCATGCAACGAACACACCTCTCTTCAATCCTTTAACTTTTGAATAAACATCATCTTTCCA
TGACTCCCTTCAAAATTCTAAGCACTAGTTTAGCTCAAACCTTATTTTATGAGTTTCTAAAATTG
TAAACAAACATTTTAGTATAAAAAAACTAAACATAAGTAAAAGCAAGTAATAACTAAATTAAATA
CCACAATTTCAATTATCTTGTCATTCATAATATTTCCATCTTTACATATACAAGAAAAAATATAC
ACCTCAGCACGTGATGGTGGAATTCCATTAGCTTCTTCTTTCTATAAAGGTACAACATTAATTAT
TGTAATGATAATATCACATATATAAAAAGTAAACTTCATATTCATTTAACTGAG
Found at i:13169935 original size:27 final size:27
Alignment explanation
Indices: 13169902--13169955 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13169892 AGTTCAATAG
13169902 AAAAGATCATTAACAAACATCCTAGTT
1 AAAAGATCATTAACAAACATCCTAGTT
13169929 AAAAGATCATTAACAAACATCCTAGTT
1 AAAAGATCATTAACAAACATCCTAGTT
13169956 GAAATTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (27 bp):
AAAAGATCATTAACAAACATCCTAGTT
Found at i:13173589 original size:64 final size:63
Alignment explanation
Indices: 13173492--13173635 Score: 182
Period size: 64 Copynumber: 2.3 Consensus size: 63
13173482 TTTATGGCAA
* * * *
13173492 AAAATACCTTAAATAATCCTCTTCAATTTTTATGAGAAAATTATTGAAGGCATTTTTA-CTCAG
1 AAAATACCTTGAATAATCCCCTTCAATCTTTATGAGAAAATTATTAAAGGCATTTTTACCT-AG
* * * *
13173555 AAAATGCCTTGAATAATCCCCCTTCAATCTTTATGAGAAGATTATTAAAGGTATTTTTGCCTAG
1 AAAATACCTTGAATAAT-CCCCTTCAATCTTTATGAGAAAATTATTAAAGGCATTTTTACCTAG
*
13173619 AAAATACATTGAATAAT
1 AAAATACCTTGAATAAT
13173636 TGCTAACAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
63 15 0.22
64 52 0.75
65 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (63 bp):
AAAATACCTTGAATAATCCCCTTCAATCTTTATGAGAAAATTATTAAAGGCATTTTTACCTAG
Found at i:13177794 original size:122 final size:123
Alignment explanation
Indices: 13177598--13177873 Score: 296
Period size: 123 Copynumber: 2.2 Consensus size: 123
13177588 GAGAAAACAT
*
13177598 CTTGAATAATCTCTTAGAAAAAAATTGAATGGGGTTAGTAAAGGCGTTTATGACCAAAAATGCCT
1 CTTGAATAATCCCTTA-AAAAAAATTGAATGGGGTTAGTAAAGGCGTTTATGACCAAAAA-GCCT
* *
13177663 TGAATAATCCCTTTA-ATTTTTATGAAG-AGATTATTGAAA-GCATTTTTAA-CTAGAAAATGC
64 TGAATAATCCCCTTACATTTTTAT-AAGTAGATTATT-AAAGGCATTTTTAATC-A-AAAATAC
* * * * * *
13177723 CTTGAATAATCCCTTACAAAATATTGAAT-GGGTTATTGAATGCGTTTCT-AGCCAAAACA-CCT
1 CTTGAATAATCCCTTAAAAAAAATTGAATGGGGTTAGTAAAGGCGTTTATGA-CCAAAA-AGCCT
* * * * *
13177785 TGAATAATCCCCTTACTTTTTTATAAGTGGATTATTAAAGGCGTTTTTTATCAAAAATAT
64 TGAATAATCCCCTTACATTTTTATAAGTAGATTATTAAAGGCATTTTTAATCAAAAATAC
13177845 CTTGAATAATCCCTTAGAAAAAAATTGAA
1 CTTGAATAATCCCTTA-AAAAAAATTGAA
13177874 GGCGTTTATA
Statistics
Matches: 128, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
122 45 0.35
123 55 0.43
124 13 0.10
125 15 0.12
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (123 bp):
CTTGAATAATCCCTTAAAAAAAATTGAATGGGGTTAGTAAAGGCGTTTATGACCAAAAAGCCTTG
AATAATCCCCTTACATTTTTATAAGTAGATTATTAAAGGCATTTTTAATCAAAAATAC
Found at i:13179581 original size:12 final size:13
Alignment explanation
Indices: 13179565--13179597 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
13179555 AGGCTAAATA
*
13179565 AAATAATAGTAAT
1 AAATAATACTAAT
13179578 -AATAATACTAAT
1 AAATAATACTAAT
13179590 AAATAATA
1 AAATAATA
13179598 ATAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (13 bp):
AAATAATACTAAT
Found at i:13179645 original size:7 final size:7
Alignment explanation
Indices: 13179627--13179660 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
13179617 TAGGCTTGCA
*
13179627 AAAAAAT
1 AAAAATT
13179634 AAAAAGTT
1 AAAAA-TT
13179642 AAAAATT
1 AAAAATT
13179649 AAAAATT
1 AAAAATT
13179656 AAAAA
1 AAAAA
13179661 ATATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (7 bp):
AAAAATT
Found at i:13179651 original size:15 final size:14
Alignment explanation
Indices: 13179627--13179663 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
13179617 TAGGCTTGCA
13179627 AAAAAATAAAAAGTT
1 AAAAAATAAAAA-TT
*
13179642 AAAAATTAAAAATT
1 AAAAAATAAAAATT
13179656 AAAAAATA
1 AAAAAATA
13179664 TAATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (14 bp):
AAAAAATAAAAATT
Found at i:13181725 original size:13 final size:13
Alignment explanation
Indices: 13181707--13181734 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13181697 TTGGAAAATT
13181707 ATTAAAAATTAAA
1 ATTAAAAATTAAA
13181720 ATTAAAAATTAAA
1 ATTAAAAATTAAA
13181733 AT
1 AT
13181735 AAATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAAAAATTAAA
Found at i:13184998 original size:4 final size:4
Alignment explanation
Indices: 13184989--13185030 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
13184979 CAATAAACTA
*
13184989 AAAT AAAT AAAT AAAT AAAT AAAT AAAT GGAAT CAAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT
13185031 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 28 0.82
5 6 0.18
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:13185343 original size:21 final size:21
Alignment explanation
Indices: 13185319--13185360 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13185309 GCTCTTTCTC
* *
13185319 TCTTGATTTTTTTTAATTGAT
1 TCTTGATTGTTTCTAATTGAT
13185340 TCTTGATTGTTTCTAATTGAT
1 TCTTGATTGTTTCTAATTGAT
13185361 CTTAATATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.62
Consensus pattern (21 bp):
TCTTGATTGTTTCTAATTGAT
Found at i:13190396 original size:19 final size:19
Alignment explanation
Indices: 13190374--13190412 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13190364 TTTTAATTTA
*
13190374 ATAGTAATTAATTAAAAAT
1 ATAGTAATAAATTAAAAAT
* *
13190393 ATAGTAGTAAATTATAAAT
1 ATAGTAATAAATTAAAAAT
13190412 A
1 A
13190413 ACTTAGTAGT
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:0.00, G:0.08, T:0.36
Consensus pattern (19 bp):
ATAGTAATAAATTAAAAAT
Found at i:13190435 original size:22 final size:22
Alignment explanation
Indices: 13190344--13190644 Score: 98
Period size: 22 Copynumber: 13.8 Consensus size: 22
13190334 AGTGTCTATA
* *
13190344 ATAACTTAATACTAAATCAATT
1 ATAACTTAATAGTAAATCAATG
* * * *
13190366 TTAATTTAATAGT-AATTAATT
1 ATAACTTAATAGTAAATCAATG
* * * * *
13190387 AAAAATATAGTAGTAAAT-TATAA
1 ATAACT-TAATAGTAAATCAAT-G
*
13190410 ATAACTTAGTAGTAAATCAATG
1 ATAACTTAATAGTAAATCAATG
* * * *
13190432 ATAATTTAATACTTAATCATTG
1 ATAACTTAATAGTAAATCAATG
* *
13190454 AAAACTTAAAAGTAAATCAATG
1 ATAACTTAATAGTAAATCAATG
* * *
13190476 ATAATTTAATAGTAAAT-TATAA
1 ATAACTTAATAGTAAATCAAT-G
** *
13190498 ATATTTTAATA-TAAATCAGTG
1 ATAACTTAATAGTAAATCAATG
* * * *
13190519 ATAAATTAGTAGTGAAT-TATAG
1 ATAACTTAATAGTAAATCAAT-G
* * *
13190541 ATAATTTAATA-TAAATCACTA
1 ATAACTTAATAGTAAATCAATG
* * * *
13190562 ATAATTTTATAATAAAT-GATCG
1 ATAACTTAATAGTAAATCAAT-G
* *
13190584 AAAAC-TAAGTAGTAAATAAATG
1 ATAACTTAA-TAGTAAATCAATG
* * *
13190606 ATAACATAGTAGTAAAT-ATATA
1 ATAACTTAATAGTAAATCA-ATG
* *
13190628 ATAACATATTAGTAAAT
1 ATAACTTAATAGTAAAT
13190645 TATTAATAAT
Statistics
Matches: 205, Mismatches: 59, Indels: 30
0.70 0.20 0.10
Matches are distributed among these distances:
21 44 0.21
22 148 0.72
23 13 0.06
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATG
Found at i:13190537 original size:43 final size:43
Alignment explanation
Indices: 13190397--13190558 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
13190387 AAAAATATAG
* * *
13190397 TAGTAAATTATAAATAACTTAGTAGTAAATCAATGATAATTTAA
1 TAGTAAATTATAAATAATTTAATA-TAAATCAATGATAAATTAA
* * * * * * *
13190441 TACTTAATCATTGAA-AACTTAAAAGTAAATCAATGATAATTTAA
1 TAGTAAATTA-TAAATAATTTAATA-TAAATCAATGATAAATTAA
* * *
13190485 TAGTAAATTATAAATATTTTAATATAAATCAGTGATAAATTAG
1 TAGTAAATTATAAATAATTTAATATAAATCAATGATAAATTAA
* *
13190528 TAGTGAATTATAGATAATTTAATATAAATCA
1 TAGTAAATTATAAATAATTTAATATAAATCA
13190559 CTAATAATTT
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
43 47 0.48
44 47 0.48
45 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (43 bp):
TAGTAAATTATAAATAATTTAATATAAATCAATGATAAATTAA
Found at i:13190609 original size:65 final size:64
Alignment explanation
Indices: 13190464--13190609 Score: 140
Period size: 65 Copynumber: 2.2 Consensus size: 64
13190454 AAAACTTAAA
* *
13190464 AGTAAATCAATGATAATTTAATAGTAAATTATAAATATTTTAATATAAATCAGTGATAAATTAGT
1 AGTAAAT-AATGATAATTTAATAGTAAATCATAAATATTTTAATATAAATCAGTGATAAATAAGT
* * *
13190529 AGTGAATTATAGATAATTTAATA-TAAATCACT-AATAATTTT-ATAATAAATGA-TCGA-AAAC
1 AGTAAATAAT-GATAATTTAATAGTAAATCA-TAAAT-ATTTTAAT-ATAAATCAGT-GATAAA-
13190589 TAAGT
60 TAAGT
13190594 AGTAAATAAATGATAA
1 AGTAAAT-AATGATAA
13190610 CATAGTAGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
64 17 0.25
65 48 0.72
66 2 0.03
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.36
Consensus pattern (64 bp):
AGTAAATAATGATAATTTAATAGTAAATCATAAATATTTTAATATAAATCAGTGATAAATAAGT
Found at i:13190651 original size:22 final size:22
Alignment explanation
Indices: 13190606--13190673 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
13190596 TAAATAAATG
*
13190606 ATAACATAGTAGTAAA-TATATA
1 ATAACATAATAGTAAATTAT-TA
*
13190628 ATAACATATTAGTAAATTATTA
1 ATAACATAATAGTAAATTATTA
** *
13190650 ATAATTTAATAATAAATTATTA
1 ATAACATAATAGTAAATTATTA
13190672 AT
1 AT
13190674 TATTTAATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 37 0.93
23 3 0.08
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (22 bp):
ATAACATAATAGTAAATTATTA
Found at i:13190678 original size:22 final size:22
Alignment explanation
Indices: 13190640--13190682 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13190630 AACATATTAG
13190640 TAAATTATTAATAATTTAATAA
1 TAAATTATTAATAATTTAATAA
*
13190662 TAAATTATTAATTATTTAATA
1 TAAATTATTAATAATTTAATA
13190683 GCAGTAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATTATTAATAATTTAATAA
Found at i:13190908 original size:22 final size:23
Alignment explanation
Indices: 13190826--13190912 Score: 65
Period size: 22 Copynumber: 4.0 Consensus size: 23
13190816 AGTAACTTAT
* *
13190826 TAGTAAATCATA-AACAATTTAA
1 TAGTAAATCATACAATAATTTAG
* * *
13190848 TGGTAAATCATTC-ATAAATTAG
1 TAGTAAATCATACAATAATTTAG
* * **
13190870 TTGTAAATTA-ATGATAATTTAG
1 TAGTAAATCATACAATAATTTAG
13190892 TAGTAAATCA-ACAATAATTTA
1 TAGTAAATCATACAATAATTTA
13190913 ATTGTTAATT
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (23 bp):
TAGTAAATCATACAATAATTTAG
Found at i:13191232 original size:21 final size:21
Alignment explanation
Indices: 13191208--13191306 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
13191198 ATATCATAAA
13191208 TTACCAAAATTATATAAAAGG
1 TTACCAAAATTATATAAAAGG
* *
13191229 TTACCAAAATTACATTAAGAGG
1 TTACCAAAATTATA-TAAAAGG
* **
13191251 TTATCAAAAGTT-TATAAAAAA
1 TTACCAAAA-TTATATAAAAGG
* * *
13191272 TTACAAAAATTATATTAATGG
1 TTACCAAAATTATATAAAAGG
**
13191293 TTAAAAAAATTATA
1 TTACCAAAATTATA
13191307 ATTAATATCG
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
20 2 0.03
21 42 0.69
22 15 0.25
23 2 0.03
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (21 bp):
TTACCAAAATTATATAAAAGG
Found at i:13191258 original size:22 final size:21
Alignment explanation
Indices: 13191208--13191259 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
13191198 ATATCATAAA
*
13191208 TTACCAAAATTATATAAAAGG
1 TTACCAAAATTACATAAAAGG
*
13191229 TTACCAAAATTACATTAAGAGG
1 TTACCAAAATTACA-TAAAAGG
*
13191251 TTATCAAAA
1 TTACCAAAA
13191260 GTTTATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (21 bp):
TTACCAAAATTACATAAAAGG
Found at i:13191259 original size:43 final size:42
Alignment explanation
Indices: 13191212--13191306 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 42
13191202 CATAAATTAC
** * *
13191212 CAAAATTATATAAAAGGTTACCAAAATTACATTAAGAGGTTAT
1 CAAAATTATATAAAAAATTACAAAAATTACATTAA-AGGTTAA
* *
13191255 CAAAAGTT-TATAAAAAATTACAAAAATTATATTAATGGTTAA
1 CAAAA-TTATATAAAAAATTACAAAAATTACATTAAAGGTTAA
*
13191297 AAAAATTATA
1 CAAAATTATA
13191307 ATTAATATCG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.05
42 11 0.26
43 28 0.65
44 2 0.05
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (42 bp):
CAAAATTATATAAAAAATTACAAAAATTACATTAAAGGTTAA
Found at i:13191339 original size:21 final size:21
Alignment explanation
Indices: 13191315--13191371 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
13191305 TAATTAATAT
13191315 CGAAGGTTATCAAAATTGTAC
1 CGAAGGTTATCAAAATTGTAC
* * *
13191336 CGAAAGTTATCAAAATTTTAT
1 CGAAGGTTATCAAAATTGTAC
* *
13191357 CAAAGGTTATGAAAA
1 CGAAGGTTATCAAAA
13191372 CCTTTAATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (21 bp):
CGAAGGTTATCAAAATTGTAC
Found at i:13205583 original size:2 final size:2
Alignment explanation
Indices: 13205578--13205604 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13205568 TCTCTCTCTT
13205578 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13205605 CTAAAGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13208578 original size:23 final size:23
Alignment explanation
Indices: 13208550--13208648 Score: 67
Period size: 23 Copynumber: 4.2 Consensus size: 23
13208540 ATCTTTACTG
13208550 AAAATATAATATTTCTAAAATAA
1 AAAATATAATATTTCTAAAATAA
* * **
13208573 AAAATAGTATTTTTTAAAAACATAA
1 AAAATA-TAATATTTCTAAA-ATAA
*
13208598 AAAATAT-ATTTTTC-AAAATTCAA
1 AAAATATAATATTTCTAAAA-T-AA
* * * *
13208621 TAAAGATAACATTTCTAAGATAA
1 AAAATATAATATTTCTAAAATAA
13208644 AAAAT
1 AAAAT
13208649 GTTATCTTTG
Statistics
Matches: 57, Mismatches: 13, Indels: 12
0.70 0.16 0.15
Matches are distributed among these distances:
21 1 0.02
22 4 0.07
23 23 0.40
24 16 0.28
25 13 0.23
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (23 bp):
AAAATATAATATTTCTAAAATAA
Found at i:13208607 original size:24 final size:25
Alignment explanation
Indices: 13208569--13208615 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
13208559 TATTTCTAAA
*
13208569 ATAAAAAATAGTATTTTTTAAAAAC
1 ATAAAAAATAGTATTTTTCAAAAAC
13208594 ATAAAAAATA-TATTTTTCAAAA
1 ATAAAAAATAGTATTTTTCAAAA
13208616 TTCAATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAAAAAATAGTATTTTTCAAAAAC
Found at i:13208689 original size:73 final size:70
Alignment explanation
Indices: 13208555--13208728 Score: 208
Period size: 73 Copynumber: 2.4 Consensus size: 70
13208545 TACTGAAAAT
* * *
13208555 ATAATATTTCTAAAATAAAAAATAGTATTTTTTAAAAACATAAAAAATATATTTTTCAAAATTCA
1 ATAACATTTCTAAGATAAAAAATAGTATTTTTTAAAAACATAAAAAATATAGTTTTCAAAATTCA
13208620 ATAAA
66 ATAAA
* * *
13208625 GATAACATTTCTAAGATAAAAAAT-GTTATCTTTGTTGAAAACATGAAAACTATAGTTTTCAAAA
1 -ATAACATTTCTAAGATAAAAAATAG-TAT-TTT-TTAAAAACATAAAAAATATAGTTTTCAAAA
13208689 TTCAATAAA
62 TTCAATAAA
* * *
13208698 AGCAACATTTCTAAGCTAAAACATAGT-TTTT
1 A-TAACATTTCTAAGATAAAAAATAGTATTTT
13208729 GTTGAAAAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
70 1 0.01
71 27 0.30
72 5 0.06
73 55 0.62
74 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (70 bp):
ATAACATTTCTAAGATAAAAAATAGTATTTTTTAAAAACATAAAAAATATAGTTTTCAAAATTCA
ATAAA
Found at i:13208982 original size:37 final size:36
Alignment explanation
Indices: 13208895--13208982 Score: 86
Period size: 37 Copynumber: 2.4 Consensus size: 36
13208885 AAAATATGAA
* *
13208895 AAAATAAAAATAAAAGGTAAAATATCTTCATTTAAT
1 AAAATTAAAATAAAAGGTAAAATATATTCATTTAAT
** * ** *
13208931 ATTATTATATATAAAATTTAAAATATATTTATTTAAT
1 AAAATTA-AAATAAAAGGTAAAATATATTCATTTAAT
13208968 AAAATGTAAAATAAA
1 AAAAT-TAAAATAAA
13208983 GATCGATCTA
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
36 4 0.10
37 33 0.85
38 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (36 bp):
AAAATTAAAATAAAAGGTAAAATATATTCATTTAAT
Found at i:13210640 original size:31 final size:31
Alignment explanation
Indices: 13210605--13210666 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
13210595 GTTACTCAAA
13210605 ATAATGTTATACGAACAGATGTAGTAAAAAC
1 ATAATGTTATACGAACAGATGTAGTAAAAAC
*
13210636 ATAATGTTATACGAATAGATGTAGTAAAAAC
1 ATAATGTTATACGAACAGATGTAGTAAAAAC
13210667 TTGATATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.27
Consensus pattern (31 bp):
ATAATGTTATACGAACAGATGTAGTAAAAAC
Found at i:13211875 original size:25 final size:26
Alignment explanation
Indices: 13211821--13211892 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
13211811 CCCAAAAAGG
*
13211821 TGTTGATTTT-TATTTTAATTTTAAC
1 TGTTGATTTTATATTTTAATTTGAAC
* *
13211846 T-TTGATTTTATATTTTCATTTGGA-
1 TGTTGATTTTATATTTTAATTTGAAC
*
13211870 TGTTGATCTTTAAATTTTAATTT
1 TGTTGAT-TTTATATTTTAATTT
13211893 TAATATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 9 0.23
25 17 0.44
26 13 0.33
ACGTcount: A:0.24, C:0.04, G:0.10, T:0.62
Consensus pattern (26 bp):
TGTTGATTTTATATTTTAATTTGAAC
Found at i:13213145 original size:26 final size:26
Alignment explanation
Indices: 13213116--13213169 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
13213106 ACTTGTAAAT
13213116 TTATATTGTTCCTTGTATATATTATG
1 TTATATTGTTCCTTGTATATATTATG
*
13213142 TTATATTGTTCTTTGTATATATTATG
1 TTATATTGTTCCTTGTATATATTATG
13213168 TT
1 TT
13213170 TACTAACCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (26 bp):
TTATATTGTTCCTTGTATATATTATG
Found at i:13216763 original size:23 final size:24
Alignment explanation
Indices: 13216728--13216781 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
13216718 TTTGATGAGT
*
13216728 TTTTTTTACTGAGTTTA-TTTTAA
1 TTTTTTTACTGAGTTTAGGTTTAA
**
13216751 TTTTTTTGTTGAGTTTAGGGTTTAA
1 TTTTTTTACTGAGTTTA-GGTTTAA
13216776 TTTTTT
1 TTTTTT
13216782 GTTATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.58
25 11 0.42
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.67
Consensus pattern (24 bp):
TTTTTTTACTGAGTTTAGGTTTAA
Found at i:13216858 original size:59 final size:57
Alignment explanation
Indices: 13216789--13216936 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 57
13216779 TTTGTTATAA
13216789 ATTTGTTGAAATTTGTTTAGGTTTTGGTTACCAATATGTTGAGTTTTTATTAGCTAATT
1 ATTTGTTGAAATTTGTTTAGGTTTTGGTTACCAATATGTTGAGTTTTTATT-GCT-ATT
* * * * * * * *
13216848 ATTTGATGAAATTTATTT-GGATTTTGCTTAGCAATTTGTTGAGTTTTTGTTGGTTTT
1 ATTTGTTGAAATTTGTTTAGG-TTTTGGTTACCAATATGTTGAGTTTTTATTGCTATT
13216905 ATGTTTGTTGAAATTTGTTTAGGTTTTGGTTA
1 A--TTTGTTGAAATTTGTTTAGGTTTTGGTTA
13216937 TATATTAGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
57 3 0.04
58 4 0.05
59 65 0.88
60 2 0.03
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.55
Consensus pattern (57 bp):
ATTTGTTGAAATTTGTTTAGGTTTTGGTTACCAATATGTTGAGTTTTTATTGCTATT
Found at i:13217621 original size:331 final size:334
Alignment explanation
Indices: 13217120--13217786 Score: 1029
Period size: 331 Copynumber: 2.0 Consensus size: 334
13217110 TTGGGTTTTG
*
13217120 TTATATATTTCTTAACTTTTAGATGTGTAAGATTTAGGATTGGTTAATTTAGGTTTGATGTGTAT
1 TTATATATTTATTAACTTTTAGATGTGTAAGATTTAGGA-TGGTTAATTTAGGTTTGATGTGTAT
* * *
13217185 TAATATTTATATATATTTGTATGGATGTTTTATATTGAACATTTTCTAGATTTTAATAATAATTA
65 TAAGATTTATATATATTTGTATGGAAGTTTTATATTGAACATTTTCTAGATTTTAATAAAAATTA
* * * *
13217250 TAGAAATTAAAATTATTTATATTGATTTGAGATTATAATTTATATATTACTAATAG-CAAT-CTC
130 TAGAAATAAAAATTATTTATATTGAATTGAGATCATAATTTATATATTACTAATAGCCAATGATC
*
13217313 ATTTT-G-AAGTTATATATTATTAAGATTTATATTTGTTTTGAAATAGTTTATATATTTGATAAT
195 ATTTTAGTAAGTTATATATTATTAAGATTAATATTTGTTTTGAAATAGTTTATATATTTGATAAT
13217376 TTAGTGAAATTTATATATCACTAATTATTGAAATATTGTAGTTTGATTGTATCAATCAAACTTAA
260 TTAGTGAAATTTATATATCACTAATTATTGAAATATTGTAGTTTGATTGTATCAATCAAACTTAA
*
13217441 TATAAGTAAA
325 TATAAATAAA
*
13217451 TTATATATTTATTAACTTTTAGATGTGTAAGATTTAATGG-TGGTTAATTTGGGTTTGATGTGTA
1 TTATATATTTATTAACTTTTAGATGTGTAAGATTT-A-GGATGGTTAATTTAGGTTTGATGTGTA
* * * *
13217515 TTAAGATTTATATGTATTTTTATGGAAGTTTTATATTTAATATTTTCTAGATTTTAATAAAAATT
64 TTAAGATTTATATATATTTGTATGGAAGTTTTATATTGAACATTTTCTAGATTTTAATAAAAATT
* * *
13217580 ATAGAAATAAAAATTATTTATATTTAATTGGGGTCATAATTTATATATTACTAATAGCCAATGAT
129 ATAGAAATAAAAATTATTTATATTGAATTGAGATCATAATTTATATATTACTAATAGCCAATGAT
* *
13217645 CATTTTGAGTAAGTTATATATTATTAAGATTAATATTTGTTTTGAAGTAGTTTGTATATTTGATA
194 CATTTT-AGTAAGTTATATATTATTAAGATTAATATTTGTTTTGAAATAGTTTATATATTTGATA
* * * * **
13217710 GTTTAGTGAAATTTATATATTACTAATTATTGAAATATTTTAGTTTGATTTTATTGATCAAACTT
258 ATTTAGTGAAATTTATATATCACTAATTATTGAAATATTGTAGTTTGATTGTATCAATCAAACTT
13217775 AATATAAATAAA
323 AATATAAATAAA
13217787 ATAAATTATT
Statistics
Matches: 303, Mismatches: 26, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
331 166 0.55
332 5 0.02
333 9 0.03
335 1 0.00
336 122 0.40
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (334 bp):
TTATATATTTATTAACTTTTAGATGTGTAAGATTTAGGATGGTTAATTTAGGTTTGATGTGTATT
AAGATTTATATATATTTGTATGGAAGTTTTATATTGAACATTTTCTAGATTTTAATAAAAATTAT
AGAAATAAAAATTATTTATATTGAATTGAGATCATAATTTATATATTACTAATAGCCAATGATCA
TTTTAGTAAGTTATATATTATTAAGATTAATATTTGTTTTGAAATAGTTTATATATTTGATAATT
TAGTGAAATTTATATATCACTAATTATTGAAATATTGTAGTTTGATTGTATCAATCAAACTTAAT
ATAAATAAA
Found at i:13221863 original size:3 final size:3
Alignment explanation
Indices: 13221851--13221897 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
13221841 AGAAAAAGAA
* * * *
13221851 GAT GAA GAT GAT GAT GAT GAT GAT GAT AAT GAT AAT GAT GAT TAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
13221898 AACACATGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:13224545 original size:20 final size:20
Alignment explanation
Indices: 13224516--13224562 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
13224506 ATTATTTCAG
*
13224516 AATTTATACTTTTATCAATAA
1 AATTT-TACTATTATCAATAA
* *
13224537 AATTTTACTATTATCGATGA
1 AATTTTACTATTATCAATAA
13224557 AATTTT
1 AATTTT
13224563 TATTGTTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (20 bp):
AATTTTACTATTATCAATAA
Found at i:13224678 original size:21 final size:20
Alignment explanation
Indices: 13224639--13224755 Score: 87
Period size: 20 Copynumber: 5.9 Consensus size: 20
13224629 TGGATTTACT
* *
13224639 GATAGAATTTTACTATTATG
1 GATAGAATTTTATTATTATC
*
13224659 GATAAAATTTTAATTATTATC
1 GATAGAATTTT-ATTATTATC
* * *
13224680 AAT-GAATTTTTTTATTATT
1 GATAGAATTTTATTATTATC
**
13224699 GATCTAATTTTAATTATTATC
1 GATAGAATTTT-ATTATTATC
* * *
13224720 AATA-TATTTT-TTATTACC
1 GATAGAATTTTATTATTATC
*
13224738 GATGGAATTTTATTATTA
1 GATAGAATTTTATTATTA
13224756 CCAATGAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
18 9 0.12
19 14 0.19
20 33 0.45
21 18 0.24
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (20 bp):
GATAGAATTTTATTATTATC
Found at i:13224687 original size:20 final size:19
Alignment explanation
Indices: 13224664--13224766 Score: 84
Period size: 20 Copynumber: 5.3 Consensus size: 19
13224654 TTATGGATAA
13224664 AATTTTAATTATTATCAATG
1 AATTTT-ATTATTATCAATG
* ** *
13224684 AATTTTTTTATTATTGATCT
1 AATTTTATTATTATCAAT-G
13224704 AATTTTAATTATTATCAAT-
1 AATTTT-ATTATTATCAATG
* *
13224723 ATATTTT-TTATTACCGATGG
1 A-ATTTTATTATTATCAAT-G
*
13224743 AATTTTATTATTACCAATG
1 AATTTTATTATTATCAATG
13224762 AATTT
1 AATTT
13224767 ACCGATAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
18 9 0.13
19 21 0.31
20 28 0.42
21 9 0.13
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (19 bp):
AATTTTATTATTATCAATG
Found at i:13224687 original size:40 final size:39
Alignment explanation
Indices: 13224643--13224766 Score: 126
Period size: 40 Copynumber: 3.2 Consensus size: 39
13224633 TTTACTGATA
* *
13224643 GAATTTTACTATTATGGATAAAATTTTAATTATTATCAAT
1 GAATTTT-TTATTATCGATAAAATTTTAATTATTATCAAT
* **
13224683 GAATTTTTTTATTATTGATCTAATTTTAATTATTATCAAT
1 GAA-TTTTTTATTATCGATAAAATTTTAATTATTATCAAT
* ** *
13224723 -ATATTTTTTATTACCGATGGAATTTT-ATTATTACCAAT
1 GA-ATTTTTTATTATCGATAAAATTTTAATTATTATCAAT
13224761 GAATTT
1 GAATTT
13224767 ACCGATAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
38 15 0.21
39 21 0.29
40 32 0.44
41 4 0.06
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (39 bp):
GAATTTTTTATTATCGATAAAATTTTAATTATTATCAAT
Found at i:13224747 original size:39 final size:40
Alignment explanation
Indices: 13224664--13224766 Score: 131
Period size: 39 Copynumber: 2.6 Consensus size: 40
13224654 TTATGGATAA
** *
13224664 AATTTTAATTATTATCAATGAATTTTTTTATTATTGATCT
1 AATTTTAATTATTATCAATGAATTTTTTTATTACCGATCG
*
13224704 AATTTTAATTATTATCAAT--ATATTTTTTATTACCGATGG
1 AATTTTAATTATTATCAATGAAT-TTTTTTATTACCGATCG
*
13224743 AATTTT-ATTATTACCAATGAATTT
1 AATTTTAATTATTATCAATGAATTT
13224767 ACCGATAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
38 13 0.24
39 21 0.38
40 21 0.38
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (40 bp):
AATTTTAATTATTATCAATGAATTTTTTTATTACCGATCG
Found at i:13226313 original size:18 final size:19
Alignment explanation
Indices: 13226286--13226327 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
13226276 CATTGAATTA
* *
13226286 TGCATCTCATTCATT-CAT
1 TGCATTTCATGCATTGCAT
13226304 TGCATTTCATGCATTGCAT
1 TGCATTTCATGCATTGCAT
13226323 T-CATT
1 TGCATT
13226328 GAATCCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (19 bp):
TGCATTTCATGCATTGCAT
Found at i:13226749 original size:38 final size:38
Alignment explanation
Indices: 13226671--13226810 Score: 201
Period size: 38 Copynumber: 3.7 Consensus size: 38
13226661 TCATATATCC
*
13226671 ACTTTATTTTTCAAAAGTCGAAG-CTCGGTGGAGGAGT
1 ACTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAGGAGT
* * *
13226708 ACTTTATTTTTCAAAAGTTGAAGTCTTGGTGGAGGAAT
1 ACTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAGGAGT
* *
13226746 ACTTTATTTTTAAAAAATTGAAGCCTCGGTGGAGGAGT
1 ACTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAGGAGT
*
13226784 AGTTTATTTTTCAAAAAGTTGAAGCCT
1 ACTTTATTTTTC-AAAAGTTGAAGCCT
13226811 TGATAGAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
37 22 0.24
38 55 0.61
39 13 0.14
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (38 bp):
ACTTTATTTTTCAAAAGTTGAAGCCTCGGTGGAGGAGT
Found at i:13226796 original size:76 final size:76
Alignment explanation
Indices: 13226671--13226812 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 76
13226661 TCATATATCC
* * *
13226671 ACTTTATTTTTCAAAAGTCGAAGCTCGGTGGAGGAGTACTTTATTTTTC-AAAAGTTGAAGTCTT
1 ACTTTATTTTTAAAAAATCGAAGCTCGGTGGAGGAGTACTTTATTTTTCAAAAAGTTGAAGCCTT
13226735 GGTGGAGGAAT
66 GGTGGAGGAAT
* *
13226746 ACTTTATTTTTAAAAAATTGAAGCCTCGGTGGAGGAGTAGTTTATTTTTCAAAAAGTTGAAGCCT
1 ACTTTATTTTTAAAAAATCGAAG-CTCGGTGGAGGAGTACTTTATTTTTCAAAAAGTTGAAGCCT
13226811 TG
65 TG
13226813 ATAGAAAAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 20 0.33
76 25 0.42
77 15 0.25
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (76 bp):
ACTTTATTTTTAAAAAATCGAAGCTCGGTGGAGGAGTACTTTATTTTTCAAAAAGTTGAAGCCTT
GGTGGAGGAAT
Found at i:13226868 original size:37 final size:38
Alignment explanation
Indices: 13226825--13226922 Score: 144
Period size: 37 Copynumber: 2.6 Consensus size: 38
13226815 AGAAAAGTAC
* *
13226825 TTTATTTAAAGTTTTAAGCCTCAGTTGTAGGGGAG-AT
1 TTTATTTAAAGTTTAAAGCCTCAGTTGTAGGAGAGCAT
* *
13226862 TTTATTTAAAGTTTGAAGCCTCAGTTGTAGTAGAGCAT
1 TTTATTTAAAGTTTAAAGCCTCAGTTGTAGGAGAGCAT
13226900 TTTATTTAAAGTTTCAAAGCCTC
1 TTTATTTAAAGTTT-AAAGCCTC
13226923 TGTTAAGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 32 0.58
38 16 0.29
39 7 0.13
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (38 bp):
TTTATTTAAAGTTTAAAGCCTCAGTTGTAGGAGAGCAT
Found at i:13226937 original size:38 final size:38
Alignment explanation
Indices: 13226810--13226939 Score: 120
Period size: 37 Copynumber: 3.4 Consensus size: 38
13226800 AGTTGAAGCC
* * *
13226810 TTGATAGAAAAGTACTTTATTTAAAGTTTTAAGCCTCAG
1 TTGA-AGAAAAGCATTTTATTTAAAGTTTAAAGCCTCAG
* *** *
13226849 TTGTAGGGGAG-ATTTTATTTAAAGTTTGAAGCCTCAG
1 TTGAAGAAAAGCATTTTATTTAAAGTTTAAAGCCTCAG
* * * *
13226886 TTGTAGTAGAGCATTTTATTTAAAGTTTCAAAGCCTCTG
1 TTGAAGAAAAGCATTTTATTTAAAGTTT-AAAGCCTCAG
13226925 TT-AAGAAAAGCATTT
1 TTGAAGAAAAGCATTT
13226940 GTGATATTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
37 33 0.43
38 30 0.39
39 13 0.17
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (38 bp):
TTGAAGAAAAGCATTTTATTTAAAGTTTAAAGCCTCAG
Found at i:13227165 original size:6 final size:6
Alignment explanation
Indices: 13227150--13227226 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
13227140 AAAAGTGTTG
* * * * * *
13227150 ATTTTT ATTTTA ATTTTA ACTTTG ATTTTA ATTTTTT ATTTGA ATTTTG
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A-TTTTA ATTTTA ATTTTA
* *
13227199 ATCTTTAA ATTTAA ATTTAA ATTTTA AT
1 AT-TTT-A ATTTTA ATTTTA ATTTTA AT
13227227 ATTTTTGGTT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
6 43 0.78
7 10 0.18
8 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (6 bp):
ATTTTA
Done.