Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 8 of 74
Found at i:2137271 original size:33 final size:30
Alignment explanation
Indices: 2137221--2137289 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
2137211 GAAAAAAATA
* * *
2137221 AAATTGTATAATTCTTTAAAAATAATATACAT
1 AAATTTTATAATCCTTT-AAAATAA-ATACAC
2137253 AAATTTTATAAATCCTTTAAAATAAATACAC
1 AAATTTTAT-AATCCTTTAAAATAAATACAC
2137284 AAATTT
1 AAATTT
2137290 ATATTTTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 11 0.33
32 15 0.45
33 7 0.21
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (30 bp):
AAATTTTATAATCCTTTAAAATAAATACAC
Found at i:2152670 original size:14 final size:14
Alignment explanation
Indices: 2152637--2152670 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2152627 TAGTAATCTC
*
2152637 TTTAATTTAAAATT
1 TTTATTTTAAAATT
2152651 TGTTATTTTAAAATT
1 T-TTATTTTAAAATT
2152666 TTTAT
1 TTTAT
2152671 ATACAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTATTTTAAAATT
Found at i:2153327 original size:23 final size:22
Alignment explanation
Indices: 2153303--2153362 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
2153293 GAAATTCGTA
2153303 TTTAATTTATAAAATATTATTTAT
1 TTTAATTTATAAAAT-TTA-TTAT
* * *
2153327 TTTGATTTAAAAAATTTATAAT
1 TTTAATTTATAAAATTTATTAT
*
2153349 TTTATTTTATAAAA
1 TTTAATTTATAAAA
2153363 AATATTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 14 0.47
23 3 0.10
24 13 0.43
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAATTTATAAAATTTATTAT
Found at i:2153350 original size:22 final size:23
Alignment explanation
Indices: 2153302--2153372 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
2153292 AGAAATTCGT
* * *
2153302 ATTTAATTTATAAAATATTATTT
1 ATTTTATTTAAAAAATATTATTA
2153325 ATTTTGATTTAAAAAAT-TTA-TA
1 ATTTT-ATTTAAAAAATATTATTA
2153347 ATTTTATTTTATAAAAAATATT-TTA
1 ATTTTA--TT-TAAAAAATATTATTA
2153372 A
1 A
2153373 AATTTTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
21 1 0.03
22 6 0.15
23 9 0.23
24 18 0.46
25 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
ATTTTATTTAAAAAATATTATTA
Found at i:2154282 original size:32 final size:31
Alignment explanation
Indices: 2154246--2154307 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
2154236 GAAAAAAATA
*
2154246 AAATTGTAT-AATTCTTTAAAAATAATATACAT
1 AAATTGTATAAATCCTTT-AAAATAA-ATACAT
*
2154278 AAATTTTATAAATCCTTTAAAATAAATACA
1 AAATTGTATAAATCCTTTAAAATAAATACA
2154308 CAAGAGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 15 0.56
33 7 0.26
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (31 bp):
AAATTGTATAAATCCTTTAAAATAAATACAT
Found at i:2162569 original size:14 final size:14
Alignment explanation
Indices: 2162550--2162600 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
2162540 CATTAATTAA
2162550 ATTTTTAAATATTT
1 ATTTTTAAATATTT
*
2162564 ATTTTTATTCAAT-TTA
1 ATTTTTA---AATATTT
2162580 ATTTTTAAATATTT
1 ATTTTTAAATATTT
2162594 ATTTTTA
1 ATTTTTA
2162601 TCTCAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 3 0.10
14 16 0.52
16 9 0.29
17 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTTTAAATATTT
Found at i:2162569 original size:15 final size:15
Alignment explanation
Indices: 2162551--2162599 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
2162541 ATTAATTAAA
2162551 TTTTTAAATATTTAT
1 TTTTTAAATATTTAT
** *
2162566 TTTTATTCA-ATTTAA
1 TTTT-TAAATATTTAT
2162581 TTTTTAAATATTTAT
1 TTTTTAAATATTTAT
2162596 TTTT
1 TTTT
2162600 ATCTCAATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTAAATATTTAT
Found at i:2162585 original size:30 final size:30
Alignment explanation
Indices: 2162532--2162613 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
2162522 CTTTGAATGT
*
2162532 TTTATTTTCATT-AATTAAATTTTTAAATA
1 TTTATTTTTATTCAATTAAATTTTTAAATA
*
2162561 TTTATTTTTATTCAATTTAATTTTTAAATA
1 TTTATTTTTATTCAATTAAATTTTTAAATA
*
2162591 TTTATTTTTATCTCAATAAAATT
1 TTTATTTTTAT-TCAATTAAATT
2162614 CTAGATTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
29 11 0.23
30 27 0.57
31 9 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTATTTTTATTCAATTAAATTTTTAAATA
Found at i:2163952 original size:19 final size:21
Alignment explanation
Indices: 2163924--2163963 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
2163914 TTAGACTCAC
2163924 ATTTAATTT-ATA-AAATATT
1 ATTTAATTTAATATAAATATT
*
2163943 ATTTATTTTAATATAAATATT
1 ATTTAATTTAATATAAATATT
2163964 TCATTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAATTTAATATAAATATT
Found at i:2164696 original size:23 final size:23
Alignment explanation
Indices: 2164670--2164719 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2164660 TCATCAATGT
2164670 AATTAAGATTTAT-AATTTTATTA
1 AATTAAGATTTATAAATTTT-TTA
***
2164693 AATTTTTATTTATAAATTTTTTA
1 AATTAAGATTTATAAATTTTTTA
2164716 AATT
1 AATT
2164720 TATAAACGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AATTAAGATTTATAAATTTTTTA
Found at i:2164720 original size:23 final size:23
Alignment explanation
Indices: 2164677--2164720 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
2164667 TGTAATTAAG
2164677 ATTTATAATTTTATTAAATTTTT
1 ATTTATAATTTTATTAAATTTTT
2164700 ATTTATAAATTTT-TTAAATTT
1 ATTTAT-AATTTTATTAAATTT
2164721 ATAAACGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTATAATTTTATTAAATTTTT
Found at i:2169745 original size:13 final size:13
Alignment explanation
Indices: 2169729--2169753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2169719 ACCAAAATAT
2169729 TTAATATTAAAAA
1 TTAATATTAAAAA
2169742 TTAATATTAAAA
1 TTAATATTAAAA
2169754 TTACTCCAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAATATTAAAAA
Found at i:2170257 original size:23 final size:23
Alignment explanation
Indices: 2170231--2170295 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
2170221 ATGTATGGGA
2170231 AAGAAATTAATAATAATGAAATT
1 AAGAAATTAATAATAATGAAATT
* * *
2170254 AAGAAAATAATAATAATCAAAAT
1 AAGAAATTAATAATAATGAAATT
*
2170277 -A-AAATAAATAA-AATGAAAT
1 AAGAAATTAATAATAATGAAAT
2170296 AGAAAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 6 0.17
21 8 0.23
22 1 0.03
23 20 0.57
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (23 bp):
AAGAAATTAATAATAATGAAATT
Found at i:2170359 original size:26 final size:25
Alignment explanation
Indices: 2170272--2170359 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
2170262 AATAATAATC
* * *
2170272 AAAATAAAATAAATAAAATGAAATAG
1 AAAATAAAA-AAATTAAATGAAAAAT
*
2170298 AAAATAAAAAAATTTAGAA--AAAATT
1 AAAATAAAAAAA-TTA-AATGAAAAAT
*
2170323 AAAA-AATAAAATGTAAATGAAAAAT
1 AAAATAAAAAAAT-TAAATGAAAAAT
2170348 AAAATAAAAAAA
1 AAAATAAAAAAA
2170360 AAAACCTGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
23 3 0.06
24 8 0.16
25 19 0.39
26 17 0.35
27 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (25 bp):
AAAATAAAAAAATTAAATGAAAAAT
Found at i:2170363 original size:44 final size:44
Alignment explanation
Indices: 2170272--2170363 Score: 100
Period size: 45 Copynumber: 2.1 Consensus size: 44
2170262 AATAATAATC
* *
2170272 AAAATAAAATAAATAAAATGAAATAGAAAATAAAAAAATTTAGAA
1 AAAATAAAATAAATAAAATGAAATAGAAAATAAAAAAA-TAAAAA
* *
2170317 AAAATTAAA-AAATAAAATGTAAAT-GAAAAATAAAATAA-AAAAA
1 AAAATAAAATAAATAAAATG-AAATAG-AAAATAAAAAAATAAAAA
2170360 AAAA
1 AAAA
2170364 CCTGTGATCG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
43 7 0.17
44 11 0.27
45 23 0.56
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (44 bp):
AAAATAAAATAAATAAAATGAAATAGAAAATAAAAAAATAAAAA
Found at i:2171544 original size:4 final size:4
Alignment explanation
Indices: 2171535--2171602 Score: 66
Period size: 4 Copynumber: 15.8 Consensus size: 4
2171525 AATTAAGAAA
*
2171535 AAAT AAAT AAAT AAAAT AAAT AAAAT GAAAT AAA- AAAT AAAA AAATT
1 AAAT AAAT AAAT -AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAA-T
2171582 AGAAT AAAT AAAAT AAAT AAA
1 A-AAT AAAT -AAAT AAAT AAA
2171603 ATGTAAATGA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.05
4 31 0.56
5 19 0.35
6 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:2171553 original size:9 final size:9
Alignment explanation
Indices: 2171535--2171604 Score: 85
Period size: 9 Copynumber: 8.0 Consensus size: 9
2171525 AATTAAGAAA
2171535 AAAT-AAAT
1 AAATAAAAT
2171543 AAATAAAAT
1 AAATAAAAT
2171552 AAATAAAAT
1 AAATAAAAT
2171561 GAAAT-AAA-
1 -AAATAAAAT
2171569 AAATAAAA-
1 AAATAAAAT
*
2171577 AAATTAGAAT
1 AAA-TAAAAT
2171587 AAATAAAAT
1 AAATAAAAT
2171596 AAATAAAAT
1 AAATAAAAT
2171605 GTAAATGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
7 4 0.07
8 10 0.18
9 34 0.62
10 7 0.13
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:2171573 original size:30 final size:31
Alignment explanation
Indices: 2171531--2171602 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
2171521 ATGAAATTAA
2171531 GAAA-AAATAAATAAATAAAA-TA-AATAAAAT
1 GAAATAAATAAATAAA-AAAATTAGAAT-AAAT
2171561 GAAATAAA-AAATAAAAAAATTAGAATAAAT
1 GAAATAAATAAATAAAAAAATTAGAATAAAT
*
2171591 AAAATAAATAAA
1 GAAATAAATAAA
2171603 ATGTAAATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 4 0.11
30 24 0.65
31 9 0.24
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (31 bp):
GAAATAAATAAATAAAAAAATTAGAATAAAT
Found at i:2171594 original size:44 final size:43
Alignment explanation
Indices: 2171532--2171621 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 43
2171522 TGAAATTAAG
2171532 AAAAAATAAATAAATAAAATAAATAAAATG-AAATAAAAAATA
1 AAAAAATAAATAAATAAAATAAATAAAATGTAAATAAAAAATA
*
2171574 AAAAAATTAGAATAAATAAAATAAATAAAATGTAAATGAAAAATA
1 AAAAAA-TA-AATAAATAAAATAAATAAAATGTAAATAAAAAATA
2171619 AAA
1 AAA
2171622 TTTAAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
42 6 0.14
43 2 0.05
44 22 0.50
45 14 0.32
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (43 bp):
AAAAAATAAATAAATAAAATAAATAAAATGTAAATAAAAAATA
Found at i:2171620 original size:11 final size:10
Alignment explanation
Indices: 2171539--2171620 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 10
2171529 AAGAAAAAAT
2171539 AAATAAAT-A
1 AAATAAATAA
2171548 AAATAAAT-A
1 AAATAAATAA
2171557 AAATGAAAT--
1 AAAT-AAATAA
2171566 AAA-AAAT-A
1 AAATAAATAA
*
2171574 AAA-AAATTA
1 AAATAAATAA
*
2171583 GAATAAAT-A
1 AAATAAATAA
2171592 AAATAAATAA
1 AAATAAATAA
*
2171602 AATGTAAATGAA
1 AA-ATAAAT-AA
2171614 AAATAAA
1 AAATAAA
2171621 ATTTAAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
7 4 0.06
8 7 0.11
9 27 0.44
10 11 0.18
11 9 0.15
12 4 0.06
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (10 bp):
AAATAAATAA
Found at i:2172021 original size:23 final size:23
Alignment explanation
Indices: 2171980--2172037 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
2171970 AACCAAAAAT
*
2171980 TCAAACCTA-AAT-CCAGAAACG
1 TCAAACCCAGAATCCCAGAAACG
*
2172001 TCAAACCCAGAATCCCAGAAACT
1 TCAAACCCAGAATCCCAGAAACG
*
2172024 TTAAACCCAGAATC
1 TCAAACCCAGAATC
2172038 TTTAAACCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 8 0.25
22 3 0.09
23 21 0.66
ACGTcount: A:0.45, C:0.31, G:0.09, T:0.16
Consensus pattern (23 bp):
TCAAACCCAGAATCCCAGAAACG
Found at i:2172034 original size:15 final size:15
Alignment explanation
Indices: 2172014--2172047 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2172004 AACCCAGAAT
2172014 CCCAGAAACTTTAAA
1 CCCAGAAACTTTAAA
*
2172029 CCCAGAATCTTTAAA
1 CCCAGAAACTTTAAA
2172044 CCCA
1 CCCA
2172048 AAAAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (15 bp):
CCCAGAAACTTTAAA
Found at i:2172397 original size:3 final size:3
Alignment explanation
Indices: 2172391--2172417 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2172381 GATGATGATG
2172391 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
2172418 TCATCTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2174525 original size:58 final size:58
Alignment explanation
Indices: 2174397--2174715 Score: 376
Period size: 58 Copynumber: 5.6 Consensus size: 58
2174387 TTGTACAGAA
* *
2174397 AAAATTGATACTTTCAACTTTTT-CTCAAAAATA-TTTTT-GAAA-CTTTAATTTCGAA-A
1 AAAATTGATACTTTCAA-TTTTTCCTCAAAAATATTTTTTAGAAAGC-TTATTTTC-AAGG
* *
2174453 AAAATCGATACTTTCAATTTTTCCTCAAAAA-ATTCATTTT--AAAGACTTATTTTTAAGG
1 AAAATTGATACTTTCAATTTTTCCTCAAAAATATT--TTTTAGAAAG-CTTATTTTCAAGG
* * *
2174511 AAAATTGATACTTTCAACTTTTCCTC-AAAATA-TTTTT-GAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
* *
2174566 AAAATTGATACTTTTAACTTTTT-CTCAAAAATATTTTTTAGAAAGTTTATTTTCAAGG
1 AAAATTGATACTTTCAA-TTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
2174624 AAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAA-TTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
* *
2174682 AAAATTGATACTTTCAACTTTCCCTCAAAAATAT
1 AAAATTGATACTTTCAATTTTTCCTCAAAAATAT
2174716 ATATTTTTTG
Statistics
Matches: 233, Mismatches: 16, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
55 42 0.18
56 38 0.16
57 18 0.08
58 134 0.58
59 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
Found at i:2174596 original size:113 final size:114
Alignment explanation
Indices: 2174397--2174715 Score: 418
Period size: 113 Copynumber: 2.8 Consensus size: 114
2174387 TTGTACAGAA
* * *
2174397 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTG-AAACTTTAATTTCGAA-AAAAATCG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGAAAAC-TTATTTTC-AAGGAAAATTG
*
2174460 ATACTTTCAA-TTTTTCCTCAAAAA-ATTCATTTT--AAAGACTTATTTTTAAGG
64 ATACTTTCAACTTTTT-CTCAAAAATATT--TTTTAGAAAG-CTTATTTTCAAGG
* *
2174511 AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTGAAAACTTATTTTTAAGGAAAATTGAT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGAAAACTTATTTTCAAGGAAAATTGAT
* *
2174575 ACTTTTAACTTTTTCTCAAAAATATTTTTTAGAAAGTTTATTTTCAAGG
66 ACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
*
2174624 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTT-GAAAACTTATTTTCAAGGAAAATTG
**
2174689 ATACTTTCAACTTTCCCTCAAAAATAT
64 ATACTTTCAACTTTTTCTCAAAAATAT
2174716 ATATTTTTTG
Statistics
Matches: 182, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
112 6 0.03
113 77 0.42
114 47 0.26
115 5 0.03
116 47 0.26
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGAAAACTTATTTTCAAGGAAAATTGAT
ACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
Found at i:2174687 original size:171 final size:168
Alignment explanation
Indices: 2174397--2174711 Score: 467
Period size: 171 Copynumber: 1.9 Consensus size: 168
2174387 TTGTACAGAA
2174397 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGAAACTTTAATTTCGAAAAAAATCGAT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGAAACTTTAATTTCGAAAAAAATCGAT
*
2174462 ACTTTCAATTTTTCCTCAAAAAATTCATTTTAAAGACTTATTTTTAAGGAAAATTGATACTTTCA
66 ACTTTCAATTTTTCCTCAAAAAATT-ATTTTAAAGACTTATTTTCAAGGAAAATTGATACTTTCA
*
2174527 ACTTTTCCTCAAAATATTTTTGAAAACTTATTTTTAAGG
130 ACTTTCCCTCAAAATATTTTTGAAAACTTATTTTTAAGG
* * * * *
2174566 AAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTAGAAAGTTTATTTTC-AAGGAAAATT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTT-GAAACTTTAATTTCGAA-AAAAATC
2174630 GATACTTTCAACTTTTT-CTCAAAAATATT-TTTTAGAA-AGCTTATTTTCAAGGAAAATTGATA
63 GATACTTTCAA-TTTTTCCTCAAAAA-ATTATTTTA-AAGA-CTTATTTTCAAGGAAAATTGATA
2174692 CTTTCAACTTTCCCTCAAAA
124 CTTTCAACTTTCCCTCAAAA
2174712 ATATATATTT
Statistics
Matches: 132, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
169 32 0.24
170 13 0.10
171 79 0.60
172 8 0.06
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (168 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGAAACTTTAATTTCGAAAAAAATCGAT
ACTTTCAATTTTTCCTCAAAAAATTATTTTAAAGACTTATTTTCAAGGAAAATTGATACTTTCAA
CTTTCCCTCAAAATATTTTTGAAAACTTATTTTTAAGG
Found at i:2174763 original size:6 final size:6
Alignment explanation
Indices: 2174752--2174842 Score: 138
Period size: 6 Copynumber: 16.0 Consensus size: 6
2174742 ATAAAATAAT
2174752 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
2174799 AAAATA AAAAT- -AAAGA AAAAT- AAAATA AAAAT- AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
2174843 TTAAACAATT
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
4 3 0.04
5 15 0.19
6 60 0.77
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:2174769 original size:12 final size:11
Alignment explanation
Indices: 2174749--2174842 Score: 145
Period size: 11 Copynumber: 8.4 Consensus size: 11
2174739 GAAATAAAAT
2174749 AATAAAATAAA
1 AATAAAATAAA
2174760 AATAAAAATAAA
1 AAT-AAAATAAA
2174772 AATAAAAATAAA
1 AAT-AAAATAAA
2174784 AATAAAAATAAA
1 AAT-AAAATAAA
2174796 AATAAAATAAA
1 AATAAAATAAA
*
2174807 AAT-AAAGAAA
1 AATAAAATAAA
2174817 AATAAAATAAA
1 AATAAAATAAA
2174828 AATAAAATAAA
1 AATAAAATAAA
2174839 AATA
1 AATA
2174843 TTAAACAATT
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
10 9 0.11
11 35 0.44
12 35 0.44
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:2175711 original size:21 final size:20
Alignment explanation
Indices: 2175686--2175886 Score: 104
Period size: 20 Copynumber: 10.3 Consensus size: 20
2175676 AAAAGAAAAA
*
2175686 AAAAATATTAATAGATAATT
1 AAAAATATTAATAGATAAAT
*
2175706 AAAAA-AATAATCAGATAAAT
1 AAAAATATTAAT-AGATAAAT
* *
2175726 GAAAATATTAACAGATAAAT
1 AAAAATATTAATAGATAAAT
*
2175746 AAAAATAAATAATAGATAAAT
1 AAAAAT-ATTAATAGATAAAT
* * *
2175767 ATAAATA--CATATATATAAT
1 AAAAATATTAATAGATA-AAT
*
2175786 AATAGATA--AATA-ATAAAT
1 AA-AAATATTAATAGATAAAT
* * *
2175804 ATATATATTAACAGATAAAT
1 AAAAATATTAATAGATAAAT
*
2175824 AAAAA-A-TAA-AAATGAAAT
1 AAAAATATTAATAGAT-AAAT
* *
2175842 AAATATA-T-ATAAATAAAT
1 AAAAATATTAATAGATAAAT
*
2175860 AAATAATA--AATACATAAGAT
1 AAA-AATATTAATAGATAA-AT
2175880 AAAAATA
1 AAAAATA
2175887 AAAGAAAAAT
Statistics
Matches: 144, Mismatches: 23, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
17 7 0.05
18 29 0.20
19 36 0.25
20 51 0.35
21 21 0.15
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAAATATTAATAGATAAAT
Found at i:2175721 original size:20 final size:20
Alignment explanation
Indices: 2175670--2175767 Score: 80
Period size: 21 Copynumber: 5.0 Consensus size: 20
2175660 AATTTCAGCC
2175670 AAAAAAA-AA-AGA-AAA-A
1 AAAAAAATAATAGATAAATA
* *
2175686 AAAAATATTAATAGAT-AATT
1 AAAAA-AATAATAGATAAATA
*
2175706 AAAAAAATAATCAGATAAATG
1 AAAAAAATAAT-AGATAAATA
* * *
2175727 AAAATATTAACAGATAAATA
1 AAAAAAATAATAGATAAATA
2175747 AAAATAAATAATAGATAAATA
1 AAAA-AAATAATAGATAAATA
2175768 TAAATACATA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.08
17 1 0.02
18 2 0.03
19 10 0.16
20 21 0.33
21 24 0.38
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.21
Consensus pattern (20 bp):
AAAAAAATAATAGATAAATA
Found at i:2175732 original size:18 final size:18
Alignment explanation
Indices: 2175708--2175897 Score: 73
Period size: 19 Copynumber: 10.1 Consensus size: 18
2175698 AGATAATTAA
*
2175708 AAAAATAATCAGATAAAT
1 AAAAATAAACAGATAAAT
*
2175726 GAAAATATTAACAGATAAAT
1 -AAAA-ATAAACAGATAAAT
*
2175746 AAAAATAAATAATAGATAAAT
1 AAAAAT--A-AACAGATAAAT
* * * *
2175767 ATAAATACATATATATAAT
1 AAAAATAAACAGATA-AAT
* *
2175786 AATAGATAAATA-ATAAAT
1 AA-AAATAAACAGATAAAT
* *
2175804 ATATATATTAACAGATAAAT
1 A-A-AAATAAACAGATAAAT
2175824 AAAAAATAAA-A-ATGAAAT
1 -AAAAATAAACAGAT-AAAT
* * * *
2175842 AAATATATATAAATAAAT
1 AAAAATAAACAGATAAAT
* *
2175860 AAATAATAAATACATAAGAT
1 AAA-AATAAACAGATAA-AT
*
2175880 AAAAATAAA-AGAAAAAT
1 AAAAATAAACAGATAAAT
2175897 A
1 A
2175898 TATAAAATAA
Statistics
Matches: 135, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
17 12 0.09
18 29 0.21
19 47 0.35
20 31 0.23
21 16 0.12
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAATAAACAGATAAAT
Found at i:2175733 original size:40 final size:41
Alignment explanation
Indices: 2175687--2175833 Score: 130
Period size: 37 Copynumber: 3.7 Consensus size: 41
2175677 AAAGAAAAAA
* *
2175687 AAAATATTAATAGAT-AATTAAAA-AAATAATCAGATAAATG
1 AAAATATTAACAGATAAATAAAAATAAATAAT-AGATAAATG
2175727 AAAATATTAACAGATAAATAAAAATAAATAATAGATAAAT-
1 AAAATATTAACAGATAAATAAAAATAAATAATAGATAAATG
* * * * *
2175767 ATAA-A-T-ACATATATATAATAATAGATAAATA-ATAAAT-
1 AAAATATTAACAGATAAATAAAAATAAAT-AATAGATAAATG
*
2175804 ATATATATTAACAGATAAATAAAAAATAAA
1 A-AAATATTAACAGATAAAT-AAAAATAAA
2175834 AATGAAATAA
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
37 23 0.27
38 6 0.07
39 2 0.02
40 18 0.21
41 23 0.27
42 14 0.16
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (41 bp):
AAAATATTAACAGATAAATAAAAATAAATAATAGATAAATG
Found at i:2175764 original size:7 final size:7
Alignment explanation
Indices: 2175740--2175938 Score: 87
Period size: 7 Copynumber: 27.7 Consensus size: 7
2175730 ATATTAACAG
2175740 ATAAATA
1 ATAAATA
2175747 A-AAATA
1 ATAAATA
2175753 A-ATAATA
1 ATA-AATA
2175760 GATAAAT-
1 -ATAAATA
2175767 ATAAATA
1 ATAAATA
2175774 CATATATATA
1 -ATA-A-ATA
2175784 AT-AATA
1 ATAAATA
2175790 GATAAATA
1 -ATAAATA
2175798 ATAAATA
1 ATAAATA
*
2175805 TATATATTA
1 -ATA-AATA
* *
2175814 ACAGATAA
1 ATAAAT-A
*
2175822 ATAAAAA
1 ATAAATA
2175829 ATAAA-A
1 ATAAATA
2175835 ATGAAATA
1 AT-AAATA
*
2175843 A-ATATA
1 ATAAATA
2175849 TATAAATAA
1 -ATAAAT-A
2175858 ATAAATA
1 ATAAATA
2175865 ATAAATA
1 ATAAATA
2175872 CATAAGATA
1 -ATAA-ATA
2175881 A-AAATA
1 ATAAATA
* *
2175887 AAAGAAAA
1 ATA-AATA
*
2175895 ATATATA
1 ATAAATA
*
2175902 A-AATAAA
1 ATAA-ATA
*
2175909 ATAAAAA
1 ATAAATA
2175916 ATAAA-A
1 ATAAATA
2175922 ATAAA-A
1 ATAAATA
2175928 ATAAA-A
1 ATAAATA
2175934 ATAAA
1 ATAAA
2175939 ATGAGCCTAT
Statistics
Matches: 154, Mismatches: 15, Indels: 47
0.71 0.07 0.22
Matches are distributed among these distances:
6 46 0.30
7 51 0.33
8 43 0.28
9 11 0.07
10 3 0.02
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (7 bp):
ATAAATA
Found at i:2175770 original size:27 final size:28
Alignment explanation
Indices: 2175740--2175938 Score: 84
Period size: 25 Copynumber: 7.2 Consensus size: 28
2175730 ATATTAACAG
* * *
2175740 ATAAATAA-AAATAAATAATAGATAAAT
1 ATAAATAATAGATAAATAATAAATAAAA
* *
2175767 ATAAATACATATATATAATAATAGATAAATA
1 ATAAATA-ATAGATA-AATAATAAATAAA-A
* * *
2175798 ATAAATATATATATTAACAGATAAATAAAAA
1 ATAAATA-ATAGATAAATA-ATAAAT-AAAA
* *
2175829 ATAAA-AAT-G--AAATAAATATATATAA
1 ATAAATAATAGATAAAT-AATAAATAAAA
2175854 ATAAATAAATA-ATAAATACATAAGATAAAA
1 ATAAAT-AATAGATAAATA-ATAA-ATAAAA
*
2175884 AT--A-AA-AGAAAAATATATAAA-ATAAA
1 ATAAATAATAGATAAATA-ATAAATA-AAA
*
2175909 ATAAAAAATA-A-AAATAA-AAATAAAA
1 ATAAATAATAGATAAATAATAAATAAAA
2175934 ATAAA
1 ATAAA
2175939 ATGAGCCTAT
Statistics
Matches: 136, Mismatches: 15, Indels: 44
0.70 0.08 0.23
Matches are distributed among these distances:
24 1 0.01
25 26 0.19
26 21 0.15
27 17 0.12
28 6 0.04
29 14 0.10
30 24 0.18
31 24 0.18
32 3 0.02
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (28 bp):
ATAAATAATAGATAAATAATAAATAAAA
Found at i:2175789 original size:30 final size:31
Alignment explanation
Indices: 2175753--2175875 Score: 115
Period size: 31 Copynumber: 3.8 Consensus size: 31
2175743 AATAAAAATA
2175753 AATAATAGATAAAT-ATAAATACATATATAT
1 AATAATAGATAAATAATAAATACATATATAT
*
2175783 AATAATAGATAAATAATAAATATATATAT-T
1 AATAATAGATAAATAATAAATACATATATAT
* * * * *
2175813 AACAGATAAATAAAAAATAAAAATGAAATAAATAT
1 AATA-ATAGATAAATAAT--AAAT-ACATATATAT
*
2175848 ATATAAATAAATAAATAATAAATACATA
1 A-AT-AATAGATAAATAATAAATACATA
2175876 AGATAAAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
30 18 0.24
31 24 0.32
33 8 0.11
34 10 0.13
35 2 0.03
36 13 0.17
37 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (31 bp):
AATAATAGATAAATAATAAATACATATATAT
Found at i:2175818 original size:78 final size:78
Alignment explanation
Indices: 2175730--2175876 Score: 208
Period size: 78 Copynumber: 1.9 Consensus size: 78
2175720 ATAAATGAAA
* * * *
2175730 ATATTAACAGATAAAT-AAAAATAAATAAT-AGATAAATATAAATACATATATATAATAATAGAT
1 ATATTAACAGATAAATAAAAAATAAA-AATGAAATAAATATAAATAAATAAATA-AATAATAAAT
2175793 AAATAATAAATATAT
64 AAATAATAAATATAT
* *
2175808 ATATTAACAGATAAATAAAAAATAAAAATGAAATAAATATATATAAATAAATAAATAATAAATAC
1 ATATTAACAGATAAATAAAAAATAAAAATGAAATAAATATAAATAAATAAATAAATAATAAATAA
2175873 ATAA
66 ATAA
2175877 GATAAAAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
78 33 0.54
79 28 0.46
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (78 bp):
ATATTAACAGATAAATAAAAAATAAAAATGAAATAAATATAAATAAATAAATAAATAATAAATAA
ATAATAAATATAT
Found at i:2175836 original size:6 final size:6
Alignment explanation
Indices: 2175820--2175939 Score: 84
Period size: 6 Copynumber: 18.3 Consensus size: 6
2175810 ATTAACAGAT
* *
2175820 AAATAAA AAATAA AAAT-G AAATAA ATATATAT AAATAAA TAAATAA TAAATACA
1 AAAT-AA AAATAA AAATAA AAATAA A-A-ATAA AAAT-AA -AAATAA -AAATA-A
2175874 TAAGATAA AAATAA AAGA-AA AATATATA AAAT-A AAATAAA AAATAA
1 -AA-ATAA AAATAA AA-ATAA AA-ATA-A AAATAA AAAT-AA AAATAA
2175920 AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AA
2175940 TGAGCCTATC
Statistics
Matches: 96, Mismatches: 5, Indels: 25
0.76 0.04 0.20
Matches are distributed among these distances:
5 9 0.09
6 42 0.44
7 26 0.27
8 16 0.17
9 3 0.03
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:2175841 original size:5 final size:4
Alignment explanation
Indices: 2175740--2175920 Score: 79
Period size: 4 Copynumber: 47.2 Consensus size: 4
2175730 ATATTAACAG
* * *
2175740 ATAA AT-A A-AA ATAA AT-A ATAG ATAA AT-- ATAA ATAC ATAT ATATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A
* * * * * *
2175784 AT-A ATAG ATAA AT-A ATAA ATAT ATAT ATTA ACAG ATAA ATAA A-AA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
*
2175829 AT-A A-AA ATGAA ATAA ATATA TATAA ATAA ATAA AT-A ATAA ATAC ATAA
1 ATAA ATAA AT-AA ATAA ATA-A -ATAA ATAA ATAA ATAA ATAA ATAA ATAA
*
2175877 GAT-A A-AA ATAA A-AGA A-AA ATAT ATAAA ATAAA ATAA A-AA ATAA
1 -ATAA ATAA ATAA ATA-A ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA
2175920 A
1 A
2175921 AATAAAAATA
Statistics
Matches: 136, Mismatches: 19, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
2 2 0.01
3 32 0.24
4 81 0.60
5 18 0.13
6 3 0.02
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:2175858 original size:25 final size:25
Alignment explanation
Indices: 2175827--2175940 Score: 101
Period size: 24 Copynumber: 4.6 Consensus size: 25
2175817 GATAAATAAA
*
2175827 AAATAAAAATGAAATAAATATATAT
1 AAATAAAAATAAAATAAATATATAT
* *
2175852 AAATAAATAA-ATAATAAATACATA-
1 AAATAAA-AATAAAATAAATATATAT
* * *
2175876 AGATAAAAATAAAAGAAAAATATAT
1 AAATAAAAATAAAATAAATATATAT
* *
2175901 AAAATAAAATAAAAAATAAA-A-ATAA
1 -AAATAAAA-ATAAAATAAATATATAT
2175926 AAATAAAAATAAAAT
1 AAATAAAAATAAAAT
2175941 GAGCCTATCC
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
23 8 0.11
24 24 0.34
25 21 0.30
26 10 0.14
27 8 0.11
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.22
Consensus pattern (25 bp):
AAATAAAAATAAAATAAATATATAT
Found at i:2176568 original size:17 final size:17
Alignment explanation
Indices: 2176546--2176582 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
2176536 AATATATGTG
2176546 AAAATGATTAAAAAAAT
1 AAAATGATTAAAAAAAT
2176563 AAAATGATTAAAAAAAT
1 AAAATGATTAAAAAAAT
2176580 AAA
1 AAA
2176583 GGTGTTGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (17 bp):
AAAATGATTAAAAAAAT
Found at i:2177257 original size:22 final size:21
Alignment explanation
Indices: 2177157--2177478 Score: 127
Period size: 22 Copynumber: 15.3 Consensus size: 21
2177147 AATTTACACA
* * *
2177157 AAATCAATAATAACTTTATACT
1 AAAT-AATGATAACTTAATAGT
*
2177179 AAATTAATGATAA-TTGTATAGT
1 AAA-TAATGATAACTT-AATAGT
*
2177201 AAATTATGAATAACTTAATAGT
1 AAATAATG-ATAACTTAATAGT
*
2177223 AAAATAATAATAACTTAATAGT
1 -AAATAATGATAACTTAATAGT
2177245 AAATAATTGATAA---AATAGT
1 AAATAA-TGATAACTTAATAGT
* * *
2177264 --GT-ATGATAACATAATAAT
1 AAATAATGATAACTTAATAGT
* * * * *
2177282 AGATACATAATAACATAGTAGG
1 AAATA-ATGATAACTTAATAGT
** *
2177304 AAATAACAAATAACTTAACAGT
1 AAATAA-TGATAACTTAATAGT
* *
2177326 AAATAAT-TTATA-TATAATTGT
1 AAATAATGATA-ACT-TAATAGT
* *
2177347 AAAT-GT-ATAACATATATTAGT
1 AAATAATGATAAC-T-TAATAGT
*
2177368 AAATTAAGGATAA--TAA-A--
1 AAA-TAATGATAACTTAATAGT
*
2177385 AAATAAGTGATAACTCAATAGTT
1 AAATAA-TGATAACTTAATAG-T
* * *
2177408 AATTATTGATAACTTAATAAT
1 AAATAATGATAACTTAATAGT
*
2177429 AAATCAATGATAACTTAATAAT
1 AAAT-AATGATAACTTAATAGT
*
2177451 AAATTAATGATAACTTAATATT
1 AAA-TAATGATAACTTAATAGT
2177473 AAATAA
1 AAATAA
2177479 GATTCAGTTT
Statistics
Matches: 230, Mismatches: 40, Indels: 61
0.69 0.12 0.18
Matches are distributed among these distances:
15 6 0.03
16 4 0.02
17 9 0.04
18 5 0.02
19 10 0.04
20 10 0.04
21 40 0.17
22 128 0.56
23 14 0.06
24 4 0.02
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (21 bp):
AAATAATGATAACTTAATAGT
Found at i:2177441 original size:11 final size:11
Alignment explanation
Indices: 2177408--2177469 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
2177398 CTCAATAGTT
*
2177408 AATTATTGATA
1 AATTAATGATA
* *
2177419 ACTTAATAATA
1 AATTAATGATA
*
2177430 AATCAATGATA
1 AATTAATGATA
* *
2177441 ACTTAATAATA
1 AATTAATGATA
2177452 AATTAATGATA
1 AATTAATGATA
*
2177463 ACTTAAT
1 AATTAAT
2177470 ATTAAATAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (11 bp):
AATTAATGATA
Found at i:2178036 original size:22 final size:22
Alignment explanation
Indices: 2177799--2178049 Score: 88
Period size: 22 Copynumber: 11.2 Consensus size: 22
2177789 AGCTTAGTAA
* *
2177799 TAAATCAATGATAATTTAATAG
1 TAAATCAATTATAACTTAATAG
2177821 TAAAT-AATTTATAAC-TAAGTAG
1 TAAATCAA-TTATAACTTAA-TAG
* * * *
2177843 TAATTAAT-AATTAGAAATTAAAAA
1 T-A--AATCAATTATAACTTAATAG
* *
2177867 TAAAT-AAATATAACATAATAG
1 TAAATCAATTATAACTTAATAG
* *
2177888 T-AATC-ATCAGTAAATTAATAG
1 TAAATCAATTA-TAACTTAATAG
* * * *
2177909 TTAATCAATAATAATTTAGTATAA
1 TAAATCAATTATAACTTA--ATAG
* *
2177933 TAAATTAGAGGTATAACTTAATAG
1 TAAATCA-A-TTATAACTTAATAG
* * *
2177957 TATATCAATTATAATTTAGTAG
1 TAAATCAATTATAACTTAATAG
* * *
2177979 TAAATTAGTAATAA-TATAATAG
1 TAAATCAATTATAACT-TAATAG
* * *
2178001 TCAAAGC-ATAATAACTTAATAA
1 T-AAATCAATTATAACTTAATAG
*
2178023 TAAATCAATTATAA-TGTAATTG
1 TAAATCAATTATAACT-TAATAG
2178045 TAAAT
1 TAAAT
2178050 GCATAATAAC
Statistics
Matches: 167, Mismatches: 43, Indels: 38
0.67 0.17 0.15
Matches are distributed among these distances:
20 5 0.03
21 35 0.21
22 78 0.47
23 10 0.06
24 23 0.14
25 9 0.05
26 7 0.04
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAATCAATTATAACTTAATAG
Found at i:2178133 original size:22 final size:22
Alignment explanation
Indices: 2178108--2178160 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
2178098 CTTAATAGTT
* *
2178108 AATCATTGATAATTTAGTAATA
1 AATCAGTGAAAATTTAGTAATA
2178130 AATCAGTGAAAATTTAGTAATA
1 AATCAGTGAAAATTTAGTAATA
*
2178152 AATTAGTGA
1 AATCAGTGA
2178161 TAGCATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (22 bp):
AATCAGTGAAAATTTAGTAATA
Found at i:2178348 original size:22 final size:22
Alignment explanation
Indices: 2178323--2178395 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
2178313 AACAGTATAG
*
2178323 TAGTAAATCACTAATAATTTAA
1 TAGTAAATCACTAATAACTTAA
* * * *
2178345 TAGTGAATTA-TCGATAACTTAG
1 TAGTAAATCACT-AATAACTTAA
*
2178367 TAGTAAATCACTAATAACGTAA
1 TAGTAAATCACTAATAACTTAA
2178389 TAGTAAA
1 TAGTAAA
2178396 AAATTGATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
21 1 0.03
22 37 0.95
23 1 0.03
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.33
Consensus pattern (22 bp):
TAGTAAATCACTAATAACTTAA
Found at i:2178405 original size:44 final size:44
Alignment explanation
Indices: 2178320--2178405 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
2178310 CATAACAGTA
** * **
2178320 TAGTAGTAAATCACTAATAATTTAATAGTGAATTATCGATAACT
1 TAGTAGTAAATCACTAATAACGTAATAGTAAAAAATCGATAACT
*
2178364 TAGTAGTAAATCACTAATAACGTAATAGTAAAAAATTGATAA
1 TAGTAGTAAATCACTAATAACGTAATAGTAAAAAATCGATAA
2178406 TTTAATTGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (44 bp):
TAGTAGTAAATCACTAATAACGTAATAGTAAAAAATCGATAACT
Found at i:2178411 original size:22 final size:22
Alignment explanation
Indices: 2178386--2178431 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
2178376 ACTAATAACG
2178386 TAATAGTAAAAAATTGATAATT
1 TAATAGTAAAAAATTGATAATT
* ***
2178408 TAATTGTAATTTATTGATAATT
1 TAATAGTAAAAAATTGATAATT
2178430 TA
1 TA
2178432 TTTATAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (22 bp):
TAATAGTAAAAAATTGATAATT
Found at i:2178419 original size:11 final size:12
Alignment explanation
Indices: 2178397--2178453 Score: 59
Period size: 11 Copynumber: 5.1 Consensus size: 12
2178387 AATAGTAAAA
2178397 AATTGATAATTT
1 AATTGATAATTT
2178409 AATTG-TAATTT
1 AATTGATAATTT
2178420 -ATTGATAATTT
1 AATTGATAATTT
* *
2178431 -ATTTATAAATT
1 AATTGATAATTT
*
2178442 AA-AGATAATTT
1 AATTGATAATTT
2178453 A
1 A
2178454 GTTATAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
10 4 0.11
11 28 0.74
12 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (12 bp):
AATTGATAATTT
Found at i:2178448 original size:22 final size:22
Alignment explanation
Indices: 2178423--2178464 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2178413 GTAATTTATT
*
2178423 GATAATTTATTTATAAATTAAA
1 GATAATTTAGTTATAAATTAAA
2178445 GATAATTTAGTTATAAATTA
1 GATAATTTAGTTATAAATTA
2178465 GTTAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
GATAATTTAGTTATAAATTAAA
Found at i:2178500 original size:22 final size:23
Alignment explanation
Indices: 2178472--2178645 Score: 141
Period size: 22 Copynumber: 8.0 Consensus size: 23
2178462 TTAGTTAATT
*
2178472 ATTAATAACTTTA-TAGTAAATC
1 ATTAATAACTTTAGTAATAAATC
* *
2178494 ATCAATAACTTTA-TAATAAATA
1 ATTAATAACTTTAGTAATAAATC
* * *
2178516 AGTAATAACATTA-TAATAAATT
1 ATTAATAACTTTAGTAATAAATC
* * *
2178538 ATTAATAAC-TTAATAGTAAATT
1 ATTAATAACTTTAGTAATAAATC
*
2178560 ATCAATAA-TTTAGTAATAAATC
1 ATTAATAACTTTAGTAATAAATC
* *
2178582 ATTTATAAC-TTAGTAGTAAATC
1 ATTAATAACTTTAGTAATAAATC
* *
2178604 ATTTATAAC-TTACTAATAAATC
1 ATTAATAACTTTAGTAATAAATC
* *
2178626 A-TGATAA-TTTAGTAGTAAAT
1 ATTAATAACTTTAGTAATAAAT
2178646 TACTGATAAG
Statistics
Matches: 127, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
21 18 0.14
22 109 0.86
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.39
Consensus pattern (23 bp):
ATTAATAACTTTAGTAATAAATC
Found at i:2178590 original size:66 final size:66
Alignment explanation
Indices: 2178468--2178645 Score: 209
Period size: 66 Copynumber: 2.7 Consensus size: 66
2178458 TAAATTAGTT
*
2178468 AATTATTAATAACTTTATAGTAAATCATCAATAACTTTA-TAATAAATAAGTAATAACATTA-TA
1 AATTATTAATAACTTAATAGTAAATCATCAATAA-TTTAGTAATAAATAAGTAATAAC-TTAGTA
2178531 ATA
64 ATA
* * * * *
2178534 AATTATTAATAACTTAATAGTAAATTATCAATAATTTAGTAATAAATCATTTATAACTTAGTAGT
1 AATTATTAATAACTTAATAGTAAATCATCAATAATTTAGTAATAAATAAGTAATAACTTAGTAAT
2178599 A
66 A
* * * * * *
2178600 AATCATTTATAACTTACTAATAAATCAT-GATAATTTAGTAGTAAAT
1 AATTATTAATAACTTAATAGTAAATCATCAATAATTTAGTAATAAAT
2178646 TACTGATAAG
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
65 23 0.24
66 74 0.76
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.39
Consensus pattern (66 bp):
AATTATTAATAACTTAATAGTAAATCATCAATAATTTAGTAATAAATAAGTAATAACTTAGTAAT
A
Found at i:2178664 original size:43 final size:44
Alignment explanation
Indices: 2178529--2178665 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
2178519 AATAACATTA
* * * * * **
2178529 TAATAAATTATTAATAACTTAATAGTAAATTA-TCAATAATTTAG
1 TAATAAATCATTGATAACTTAGTAGTAAATCACT-GATAACGTAG
* * * * *
2178573 TAATAAATCATTTATAACTTAGTAGTAAATCATTTATAACTTAC
1 TAATAAATCATTGATAACTTAGTAGTAAATCACTGATAACGTAG
* * *
2178617 TAATAAATCA-TGATAATTTAGTAGTAAATTACTGATAAGGTAG
1 TAATAAATCATTGATAACTTAGTAGTAAATCACTGATAACGTAG
2178660 TAATAA
1 TAATAA
2178666 GTGAGTAGTA
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
43 31 0.40
44 45 0.58
45 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.39
Consensus pattern (44 bp):
TAATAAATCATTGATAACTTAGTAGTAAATCACTGATAACGTAG
Found at i:2178891 original size:31 final size:31
Alignment explanation
Indices: 2178855--2178946 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
2178845 ATATAAAAAG
2178855 AAAATTATCTCATATATTGTAATTAATTGAT
1 AAAATTATCTCATATATTGTAATTAATTGAT
* * *
2178886 AAAATTA----ATAGTA-TATCA-TAA--G-G
1 AAAATTATCTCATA-TATTGTAATTAATTGAT
2178909 AAAATTATCTCATATATTGTAATTAATTGAT
1 AAAATTATCTCATATATTGTAATTAATTGAT
2178940 AAAATTA
1 AAAATTA
2178947 ATGGTATATC
Statistics
Matches: 45, Mismatches: 6, Indels: 20
0.63 0.08 0.28
Matches are distributed among these distances:
23 7 0.16
24 1 0.02
26 5 0.11
27 12 0.27
28 5 0.11
30 1 0.02
31 14 0.31
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (31 bp):
AAAATTATCTCATATATTGTAATTAATTGAT
Found at i:2178925 original size:54 final size:54
Alignment explanation
Indices: 2178854--2178960 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
2178844 TATATAAAAA
2178854 GAAAATTATCTCATATATTGTAATTAATTGATAAAATTAATAGTATATCATAAG
1 GAAAATTATCTCATATATTGTAATTAATTGATAAAATTAATAGTATATCATAAG
*
2178908 GAAAATTATCTCATATATTGTAATTAATTGATAAAATTAATGGTATATCATAA
1 GAAAATTATCTCATATATTGTAATTAATTGATAAAATTAATAGTATATCATAA
2178961 ATAACTAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (54 bp):
GAAAATTATCTCATATATTGTAATTAATTGATAAAATTAATAGTATATCATAAG
Found at i:2179008 original size:22 final size:21
Alignment explanation
Indices: 2178983--2179043 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
2178973 TAATTCAATA
2178983 ATAATTTAGTAGTAAATAATTG
1 ATAATTTAGTAGTAAAT-ATTG
* * *
2179005 ATAACTTAATAGCTAACTATTG
1 ATAATTTAGTAG-TAAATATTG
* *
2179027 AAAATTTAGTAATAAAT
1 ATAATTTAGTAGTAAAT
2179044 TAATGGTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
21 4 0.13
22 22 0.73
23 4 0.13
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
ATAATTTAGTAGTAAATATTG
Found at i:2179187 original size:22 final size:21
Alignment explanation
Indices: 2179162--2179318 Score: 81
Period size: 22 Copynumber: 7.3 Consensus size: 21
2179152 GATAATTTTG
*
2179162 TAGTAAATCATCGATAACTTCA
1 TAGTAAATCATCAATAACTT-A
* *
2179184 TAGTAAATTAGT-TATAACTTTA
1 TAGTAAATCA-TCAATAAC-TTA
* * *
2179206 TAATAAATTATTAATAACTTA
1 TAGTAAATCATCAATAACTTA
** *
2179227 GTACCAACTCATCAATAACTTA
1 -TAGTAAATCATCAATAACTTA
2179249 GTAGTAAATCATTC-ATAACTTAA
1 -TAGTAAATCA-TCAATAACTT-A
* * *
2179272 TAGTAAGTCATTAATAATTTAA
1 TAGTAAATCATCAATAACTT-A
*
2179294 TAATAAATCA-CTAATAA--TA
1 TAGTAAATCATC-AATAACTTA
2179313 TAGTAA
1 TAGTAA
2179319 TAAACTAGTA
Statistics
Matches: 108, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
19 6 0.06
20 1 0.01
21 5 0.05
22 90 0.83
23 6 0.06
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.36
Consensus pattern (21 bp):
TAGTAAATCATCAATAACTTA
Found at i:2179245 original size:44 final size:44
Alignment explanation
Indices: 2179197--2179310 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
2179187 TAAATTAGTT
* *
2179197 ATAACTTTATAATAAATTATTAATAACTTAGTACCAACTCATCA
1 ATAACTTTATAATAAATCATTAATAACTTAATACCAACTCATCA
* * ** * *
2179241 ATAAC-TTAGTAGTAAATCATTCATAACTTAATAGTAAGTCATTA
1 ATAACTTTA-TAATAAATCATTAATAACTTAATACCAACTCATCA
*
2179285 ATAA-TTTAATAATAAATCACTAATAA
1 ATAACTTT-ATAATAAATCATTAATAA
2179311 TATAGTAATA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
43 3 0.05
44 52 0.93
45 1 0.02
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.36
Consensus pattern (44 bp):
ATAACTTTATAATAAATCATTAATAACTTAATACCAACTCATCA
Found at i:2179513 original size:17 final size:17
Alignment explanation
Indices: 2179491--2179523 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2179481 TAATTTAGTT
*
2179491 ATAAATCAGTGATAACA
1 ATAAATCAATGATAACA
2179508 ATAAATCAATGATAAC
1 ATAAATCAATGATAAC
2179524 TTATTAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
ATAAATCAATGATAACA
Found at i:2181066 original size:11 final size:11
Alignment explanation
Indices: 2181041--2181069 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
2181031 AAATCCACCA
2181041 CTAAAAAAGCT
1 CTAAAAAAGCT
2181052 -TAAAAAAGCT
1 CTAAAAAAGCT
2181062 CTAAAAAA
1 CTAAAAAA
2181070 ACATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (11 bp):
CTAAAAAAGCT
Found at i:2181404 original size:6 final size:6
Alignment explanation
Indices: 2181383--2181419 Score: 53
Period size: 5 Copynumber: 6.7 Consensus size: 6
2181373 TATCAAAATT
2181383 ATTAT- ATTAT- ATTATA ATTATA ATTATA ATT-TA ATTA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTA
2181420 ACAATCACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 15 0.50
6 15 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTATA
Found at i:2183206 original size:29 final size:28
Alignment explanation
Indices: 2183151--2183207 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2183141 TTAGAAAAAA
*
2183151 AAAAAAAAAGATGAACAAAGCTTCATTT
1 AAAAAAAAAGATGAACAAAGCTCCATTT
*
2183179 AAAAAAAAAGTATGCAA-AATGCTCCATTT
1 AAAAAAAAAG-ATG-AACAAAGCTCCATTT
2183208 TGCCGATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 13 0.52
30 2 0.08
ACGTcount: A:0.54, C:0.12, G:0.11, T:0.23
Consensus pattern (28 bp):
AAAAAAAAAGATGAACAAAGCTCCATTT
Found at i:2188495 original size:24 final size:24
Alignment explanation
Indices: 2188453--2188500 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2188443 TCATCCAATT
* * *
2188453 CACTAACTGTGTATAAAATTTATA
1 CACTAACAGTATATAAAATATATA
*
2188477 CACTAACAGTATATCAAATATATA
1 CACTAACAGTATATAAAATATATA
2188501 TATATTACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (24 bp):
CACTAACAGTATATAAAATATATA
Found at i:2194568 original size:29 final size:30
Alignment explanation
Indices: 2194529--2194587 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
2194519 TATTTAACTC
*
2194529 AAATTATTTATGAATTTAATTAAAATTTTA
1 AAATTATTTATGAATTTAATTAAAAATTTA
* *
2194559 AAATT-TTTATTATTTTAATTAAAAATTTA
1 AAATTATTTATGAATTTAATTAAAAATTTA
2194588 TTATTTTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
AAATTATTTATGAATTTAATTAAAAATTTA
Found at i:2194702 original size:13 final size:13
Alignment explanation
Indices: 2194684--2194708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2194674 ATTTATTTTT
2194684 ATTAAATAAATTA
1 ATTAAATAAATTA
2194697 ATTAAATAAATT
1 ATTAAATAAATT
2194709 TAAATAATTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTAAATAAATTA
Found at i:2196052 original size:24 final size:24
Alignment explanation
Indices: 2196020--2196105 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 24
2196010 TATATATAAA
*
2196020 TTATTTTTAATTAATTAATTAATT
1 TTATATTTAATTAATTAATTAATT
*
2196044 TTATATTTATATATATATTTATATAATT
1 TTATATTTA-AT-TA-ATTAAT-TAATT
* * *
2196072 TTATATTTATTTAA-AAATAATATT
1 TTATATTTAATTAATTAATTA-ATT
2196096 TTATATTTAA
1 TTATATTTAA
2196106 AAATAATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
23 1 0.02
24 22 0.44
25 3 0.06
26 4 0.08
27 6 0.12
28 14 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATATTTAATTAATTAATTAATT
Found at i:2196096 original size:17 final size:17
Alignment explanation
Indices: 2196074--2196116 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 17
2196064 ATATAATTTT
2196074 ATATTTATTTAAAAATA
1 ATATTTATTTAAAAATA
2196091 ATATTTTATATTTAAAAATA
1 ATA--TT-TATTTAAAAATA
2196111 ATATTT
1 ATATTT
2196117 TATTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.17
18 2 0.09
19 2 0.09
20 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTATTTAAAAATA
Found at i:2196102 original size:20 final size:20
Alignment explanation
Indices: 2196079--2196119 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2196069 ATTTTATATT
2196079 TATTTAAAAATAATATTTTA
1 TATTTAAAAATAATATTTTA
2196099 TATTTAAAAATAATATTTTA
1 TATTTAAAAATAATATTTTA
2196119 T
1 T
2196120 TAATTTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTAAAAATAATATTTTA
Found at i:2200212 original size:3 final size:3
Alignment explanation
Indices: 2200204--2200238 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2200194 TTGTAATTCA
2200204 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
2200239 ATGGTATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:2201537 original size:14 final size:14
Alignment explanation
Indices: 2201518--2201546 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2201508 ATTAAAAATA
2201518 ATAATTATAATTTT
1 ATAATTATAATTTT
2201532 ATAATTATAATTTT
1 ATAATTATAATTTT
2201546 A
1 A
2201547 AAAAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATAATTATAATTTT
Found at i:2216660 original size:42 final size:42
Alignment explanation
Indices: 2216565--2216680 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 42
2216555 ACAAATCAGT
*
2216565 TATTGGAGTTCAATCCCCCAGGCTCCCAGAGAACAAATTGGA
1 TATTGGAGTTCAATCACCCAGGCTCCCAGAGAACAAATTGGA
* * * *
2216607 TAGTGCAGTTCAATCACCCAGGCTCCCAGAGGACAAATTTGA
1 TATTGGAGTTCAATCACCCAGGCTCCCAGAGAACAAATTGGA
* ** * *
2216649 TATTGGTGTTCAATTTCCTAGGCTCCCTGAGA
1 TATTGGAGTTCAATCACCCAGGCTCCCAGAGA
2216681 TTGGGAAAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (42 bp):
TATTGGAGTTCAATCACCCAGGCTCCCAGAGAACAAATTGGA
Found at i:2236229 original size:30 final size:30
Alignment explanation
Indices: 2236193--2236249 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
2236183 CGAAATTAAT
* *
2236193 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATATTTA
*
2236223 AAAATATTATTATATAAATATATATAT
1 AAAATATTATTATATAAATATAAATAT
2236250 AAATAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATATTTA
Found at i:2236258 original size:24 final size:23
Alignment explanation
Indices: 2236210--2236274 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
2236200 TATTTTTTAA
2236210 ATATAAATATTTAAAAATATTATT
1 ATATAAATATTTAAAAATA-TATT
*
2236234 ATATAAATATATATATAAATA-ATT
1 ATATAAATAT-T-TAAAAATATATT
* * *
2236258 AAATAATTAATTAAAAA
1 ATATAAATATTTAAAAA
2236275 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 5 0.15
23 1 0.03
24 20 0.59
25 1 0.03
26 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAAATATTTAAAAATATATT
Found at i:2236263 original size:12 final size:12
Alignment explanation
Indices: 2236212--2236280 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
2236202 TTTTTTAAAT
*
2236212 ATAAATATTTAA
1 ATAAATAATTAA
* *
2236224 A-AATATTATTAT
1 ATAA-ATAATTAA
*
2236236 ATAAAT-ATATAT
1 ATAAATAAT-TAA
2236248 ATAAATAATTAA
1 ATAAATAATTAA
*
2236260 ATAATTAATTAA
1 ATAAATAATTAA
2236272 A-AAATAATT
1 ATAAATAATT
2236281 TTTTATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
11 11 0.23
12 32 0.68
13 4 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:2236746 original size:14 final size:14
Alignment explanation
Indices: 2236729--2236755 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2236719 TAATTATGTT
2236729 ATAATAATAATAAA
1 ATAATAATAATAAA
2236743 ATAATAATAATAA
1 ATAATAATAATAA
2236756 GAAGTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAAA
Found at i:2236994 original size:19 final size:21
Alignment explanation
Indices: 2236970--2237029 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
2236960 TATAAATTTT
* *
2236970 AAATTATTTAA-TA-TTTATA
1 AAATTATTAAATTATTTTAAA
*
2236989 AAATTAATAAATTATTTTAAA
1 AAATTATTAAATTATTTTAAA
*
2237010 AAATTATTAAAGTAATTTTA
1 AAATTATTAAA-TTATTTTA
2237030 TATCAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 9 0.27
20 2 0.06
21 15 0.45
22 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATTATTAAATTATTTTAAA
Found at i:2237113 original size:32 final size:32
Alignment explanation
Indices: 2237042--2237132 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
2237032 TCAAATAATT
*
2237042 ATTTATT-AATAAATAAATAAAAATTATTTACTA
1 ATTTATTAAAT-AAT-AATAAAATTTATTTACTA
*
2237075 ATTTTATTAAATAATAATAAAATTTATTTATTA
1 A-TTTATTAAATAATAATAAAATTTATTTACTA
* * *
2237108 ATTTATTATATAATAGTAAATTTTA
1 ATTTATTAAATAATAATAAAATTTA
2237133 ATTTTATATT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
32 21 0.41
33 18 0.35
34 9 0.18
35 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (32 bp):
ATTTATTAAATAATAATAAAATTTATTTACTA
Found at i:2237392 original size:3 final size:3
Alignment explanation
Indices: 2237384--2237414 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2237374 AAGGGAAAAG
2237384 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2237415 GAAAAAGCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2248053 original size:2 final size:2
Alignment explanation
Indices: 2248046--2248071 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2248036 TCCCTTCCTC
2248046 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
2248072 ACTCCGTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2269981 original size:17 final size:18
Alignment explanation
Indices: 2269954--2269987 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2269944 TATTAAATTT
*
2269954 ATTTATAAATTTTATTAA
1 ATTTATAAATTATATTAA
2269972 ATTT-TAAATTATATTA
1 ATTTATAAATTATATTA
2269988 TTTTTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTATAAATTATATTAA
Found at i:2270000 original size:24 final size:24
Alignment explanation
Indices: 2269973--2270020 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2269963 TTTTATTAAA
*
2269973 TTTTAAATTATATTATTTTTATAT
1 TTTTAAATTATATTATTTTCATAT
* *
2269997 TTTTTATTTATATTATTTTCATAT
1 TTTTAAATTATATTATTTTCATAT
2270021 CGTTATATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTAAATTATATTATTTTCATAT
Found at i:2270012 original size:29 final size:30
Alignment explanation
Indices: 2269932--2270012 Score: 76
Period size: 33 Copynumber: 2.6 Consensus size: 30
2269922 TATAAAATAT
*
2269932 AATTTTTTATTT-TATTAAATTTATTTATA
1 AATTTTTTATTTATATTATATTTATTTATA
* *
2269961 AATTTTATTAAATTTTAAATTATA-TTATTTTTA
1 AATTTT-TT--A-TTTATATTATATTTATTTATA
*
2269994 TATTTTTTATTTATATTAT
1 AATTTTTTATTTATATTAT
2270013 TTTCATATCG
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
29 15 0.36
30 3 0.07
32 3 0.07
33 16 0.38
34 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
AATTTTTTATTTATATTATATTTATTTATA
Found at i:2291259 original size:25 final size:25
Alignment explanation
Indices: 2291225--2291300 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
2291215 TCATGGCAAG
2291225 CCACAAAAGCTTCTCCATTGCCACT
1 CCACAAAAGCTTCTCCATTGCCACT
2291250 CCACAAAAGCTTCTCCATTGCCACT
1 CCACAAAAGCTTCTCCATTGCCACT
2291275 CCACAAAAGCTTCTCCATTGCCACT
1 CCACAAAAGCTTCTCCATTGCCACT
2291300 C
1 C
2291301 AACCCCACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.28, C:0.41, G:0.08, T:0.24
Consensus pattern (25 bp):
CCACAAAAGCTTCTCCATTGCCACT
Found at i:2294041 original size:26 final size:26
Alignment explanation
Indices: 2294012--2294068 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
2294002 AAATAAATCG
2294012 ATATATATAAT-TATTTATTTAATTTT
1 ATAT-TATAATATATTTATTTAATTTT
* *
2294038 ATATTTTTATATATTTATTTAATTTT
1 ATATTATAATATATTTATTTAATTTT
2294064 ATATT
1 ATATT
2294069 TATATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
ATATTATAATATATTTATTTAATTTT
Found at i:2294098 original size:18 final size:16
Alignment explanation
Indices: 2294067--2294111 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
2294057 TAATTTTATA
2294067 TTTATATTAAAAATAT
1 TTTATATTAAAAATAT
2294083 TTTATATTTAAAAAATAT
1 TTTATA-TT-AAAAATAT
*
2294101 TATTTTATTAA
1 T-TTATATTAA
2294112 TTTCGAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.24
17 4 0.16
18 11 0.44
19 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTATATTAAAAATAT
Found at i:2299122 original size:23 final size:24
Alignment explanation
Indices: 2299096--2299147 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
2299086 TTAATTTATG
*
2299096 TTAAAAG-TTTATTTAAAT-TCAAA
1 TTAAAAGATCTATTTAAATAT-AAA
2299119 TT-AAAGATCTATTTAAATATAAA
1 TTAAAAGATCTATTTAAATATAAA
2299142 TTAAAA
1 TTAAAA
2299148 ATAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.16
23 17 0.68
24 4 0.16
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
TTAAAAGATCTATTTAAATATAAA
Found at i:2299713 original size:8 final size:8
Alignment explanation
Indices: 2299700--2299729 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
2299690 GGGCCTGCCC
2299700 GCCCATGT
1 GCCCATGT
2299708 GCCCATGT
1 GCCCATGT
2299716 GCCCATGT
1 GCCCATGT
2299724 GCCCAT
1 GCCCAT
2299730 ATCCCCAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.13, C:0.40, G:0.23, T:0.23
Consensus pattern (8 bp):
GCCCATGT
Found at i:2299736 original size:16 final size:16
Alignment explanation
Indices: 2299701--2299736 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2299691 GGCCTGCCCG
* *
2299701 CCCATGTGCCCATGTG
1 CCCATGTGCCCATATC
2299717 CCCATGTGCCCATATC
1 CCCATGTGCCCATATC
2299733 CCCA
1 CCCA
2299737 ACTCCTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.44, G:0.17, T:0.22
Consensus pattern (16 bp):
CCCATGTGCCCATATC
Found at i:2299842 original size:17 final size:16
Alignment explanation
Indices: 2299807--2299845 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2299797 TATTAATAAT
2299807 ATATTAATTTATTTAA
1 ATATTAATTTATTTAA
* *
2299823 ATATTTATTTAATTTTA
1 ATATTAATTT-ATTTAA
2299840 ATATTA
1 ATATTA
2299846 CTATTCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTAATTTATTTAA
Found at i:2303290 original size:5 final size:5
Alignment explanation
Indices: 2303280--2303316 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
2303270 CAGAGATGTG
2303280 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
2303317 GTTGTGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:2303751 original size:24 final size:24
Alignment explanation
Indices: 2303724--2303776 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2303714 TTTTAAATAC
* *
2303724 GATATG-ATAATATAATATAAAAAT
1 GATATGAATAA-AAAATAAAAAAAT
2303748 GATATGAATAAAAAATAAAAAAAT
1 GATATGAATAAAAAATAAAAAAAT
*
2303772 AATAT
1 GATAT
2303777 TATTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (24 bp):
GATATGAATAAAAAATAAAAAAAT
Found at i:2311798 original size:14 final size:14
Alignment explanation
Indices: 2311781--2311829 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
2311771 TTTAATTATA
*
2311781 TATATTTATATAAT
1 TATATTTAAATAAT
*
2311795 TATATTTAAATATT
1 TATATTTAAATAAT
*
2311809 TATATTTAAAAAAT
1 TATATTTAAATAAT
*
2311823 AATATTT
1 TATATTT
2311830 TATATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTTAAATAAT
Found at i:2311827 original size:28 final size:27
Alignment explanation
Indices: 2311766--2311853 Score: 83
Period size: 28 Copynumber: 3.3 Consensus size: 27
2311756 AATTTATTTT
* * *
2311766 TAATTTTTAATTATATATATTTATATAA
1 TAATATTTAA-TATATATATTTAAAAAA
* *
2311794 TTATATTTAAATATTTATATTTAAAAAA
1 TAATATTT-AATATATATATTTAAAAAA
*
2311822 TAATATTT--TATATAT-TTTTAAAAA
1 TAATATTTAATATATATATTTAAAAAA
2311846 TAATATTT
1 TAATATTT
2311854 TATTAATTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
24 16 0.31
25 6 0.12
28 27 0.53
29 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TAATATTTAATATATATATTTAAAAAA
Found at i:2311862 original size:24 final size:24
Alignment explanation
Indices: 2311809--2311856 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
2311799 TTTAAATATT
*
2311809 TATA-TTTAAAAAATAATATTTTA
1 TATATTTTTAAAAATAATATTTTA
2311832 TATATTTTTAAAAATAATATTTTA
1 TATATTTTTAAAAATAATATTTTA
2311856 T
1 T
2311857 TAATTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATTTTTAAAAATAATATTTTA
Found at i:2311942 original size:16 final size:16
Alignment explanation
Indices: 2311923--2311975 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
2311913 TATAAAAAAA
2311923 TTAAATTTAATTAAAT
1 TTAAATTTAATTAAAT
2311939 TTAAATTTAA-TAAAT
1 TTAAATTTAATTAAAT
* *
2311954 ATAAAATTAAATTAAAT
1 -TTAAATTTAATTAAAT
2311971 TTAAA
1 TTAAA
2311976 ACGAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 5 0.16
16 22 0.69
17 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAATTTAATTAAAT
Found at i:2311967 original size:5 final size:5
Alignment explanation
Indices: 2311920--2311971 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
2311910 GAATATAAAA
* *
2311920 AAATT AAATT TAATT AAATTT AAATT TAA-T AAATAT AAAATT AAATT
1 AAATT AAATT AAATT AAA-TT AAATT AAATT AAAT-T -AAATT AAATT
2311967 AAATT
1 AAATT
2311972 TAAAACGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 3 0.08
5 25 0.64
6 7 0.18
7 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AAATT
Found at i:2312020 original size:2 final size:2
Alignment explanation
Indices: 2312013--2312049 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2312003 TTTCACTCTA
*
2312013 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2312050 CAGTGTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2320410 original size:20 final size:21
Alignment explanation
Indices: 2320385--2320432 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2320375 TTTTTTTAAA
*
2320385 AATAAATAATTTAAA-AT-TTT
1 AATAAA-AATATAAATATATTT
2320405 AATAAAAATATAAATATATTT
1 AATAAAAATATAAATATATTT
2320426 AATAAAA
1 AATAAAA
2320433 TTAAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAAAAATATAAATATATTT
Found at i:2320428 original size:21 final size:19
Alignment explanation
Indices: 2320385--2320440 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
2320375 TTTTTTTAAA
*
2320385 AATAAATAATTTAAAATTTT
1 AATAAA-AATATAAAATTTT
2320405 AATAAAAATATAAATATATTT
1 AATAAAAATATAAA-AT-TTT
2320426 AAT-AAAAT-TAAAATT
1 AATAAAAATATAAAATT
2320441 AAAATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 11 0.33
20 13 0.39
21 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAAAAATATAAAATTTT
Found at i:2322387 original size:33 final size:33
Alignment explanation
Indices: 2322329--2322395 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 33
2322319 GGTTATGGAT
*
2322329 TTTAAATTTTTAAATATTATTTTAATA-AAAAA
1 TTTAAATTTTTAAATATAATTTTAATATAAAAA
2322361 TTTAAATATATTTAAATA-AATTTTAATATAAAAA
1 TTTAAAT-T-TTTAAATATAATTTTAATATAAAAA
2322395 T
1 T
2322396 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 7 0.23
33 10 0.32
34 14 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
TTTAAATTTTTAAATATAATTTTAATATAAAAA
Found at i:2326120 original size:74 final size:74
Alignment explanation
Indices: 2326030--2326174 Score: 202
Period size: 74 Copynumber: 2.0 Consensus size: 74
2326020 TTTAAAAAAA
** * * * *
2326030 TAAAACTCGATCAAATTTAAATCAAATTCGAATCTTGAATTTTGATTCGAACT-CGAGTTTAATA
1 TAAAACTAAATCAAATTCAAATCAAATTCAAACCTTAAATTTTGATTCGAACTCCG-GTTTAATA
2326094 CTATATCGAT
65 CTATATCGAT
* *
2326104 TAAAACTAAATCAAATTCAAGTCAAATTCAAACCTTAAATTTTGATTGGAACTCCGGTTTAATAC
1 TAAAACTAAATCAAATTCAAATCAAATTCAAACCTTAAATTTTGATTCGAACTCCGGTTTAATAC
2326169 TATATC
66 TATATC
2326175 CTCTAGTAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 60 0.97
75 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (74 bp):
TAAAACTAAATCAAATTCAAATCAAATTCAAACCTTAAATTTTGATTCGAACTCCGGTTTAATAC
TATATCGAT
Found at i:2330848 original size:22 final size:22
Alignment explanation
Indices: 2330791--2330864 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
2330781 TTATAGACAT
**
2330791 TTAAATTTAAAATTTAAATT-TA
1 TTAAATTT-AAATTTATTTTATA
* *
2330813 TCAAATATTTAATTTATTTTATA
1 TTAAAT-TTAAATTTATTTTATA
*
2330836 TTAAATTTAAATTT-TTTTATTT
1 TTAAATTTAAATTTATTTTA-TA
2330858 TTAAATT
1 TTAAATT
2330865 ATGATTTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 5 0.12
22 28 0.67
23 9 0.21
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAAATTTAAATTTATTTTATA
Found at i:2344390 original size:28 final size:25
Alignment explanation
Indices: 2344330--2344390 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 25
2344320 TATTTTATAT
*
2344330 AATATTAATGAATTAAATGATAATA
1 AATATTAATAAATTAAATGATAATA
* *
2344355 ACTCATTAATAAATTGAATCAGATAATAA
1 AAT-ATTAATAAATTAAAT--GATAAT-A
2344384 AATATTA
1 AATATTA
2344391 TTAATGAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
25 2 0.07
26 13 0.46
28 10 0.36
29 3 0.11
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (25 bp):
AATATTAATAAATTAAATGATAATA
Found at i:2345051 original size:18 final size:19
Alignment explanation
Indices: 2345028--2345063 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2345018 ATACGATACG
*
2345028 AATATGATA-TAAAATTAA
1 AATATGAAAGTAAAATTAA
2345046 AATATGAAAGTAAAATTA
1 AATATGAAAGTAAAATTA
2345064 TTTAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
AATATGAAAGTAAAATTAA
Found at i:2363867 original size:15 final size:15
Alignment explanation
Indices: 2363847--2363878 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2363837 GTTTCTGATC
2363847 ATTTTCTTCTAGTTA
1 ATTTTCTTCTAGTTA
2363862 ATTTTCTTCTAGTTA
1 ATTTTCTTCTAGTTA
2363877 AT
1 AT
2363879 ACATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTTCTTCTAGTTA
Found at i:2365781 original size:106 final size:107
Alignment explanation
Indices: 2365613--2365813 Score: 314
Period size: 106 Copynumber: 1.9 Consensus size: 107
2365603 TTCGGTCAGC
* * * * *
2365613 GATGTGATGTTTGATGCACCTAAAGGCCAAAACTAGTCGTTGGGTCACAAGGGTCAAGGCTTTCA
1 GATGTAATGTTTGATGCACCCAAAGGCCAAAACTAGTCGTTGGATCACAAGGCTCAAAGCTTTCA
*
2365678 GGCCATTATAGAGGTTTTTAACATTGAGGCTATCTAATGCAG
66 AGCCATTATAGAGGTTTTTAACATTGAGGCTATCTAATGCAG
*
2365720 GATGTAATGTTTGATGCACCCAAAGGTC-AAACTAGTCGTTGGATCACAAGGCTCAAAGCTTTCA
1 GATGTAATGTTTGATGCACCCAAAGGCCAAAACTAGTCGTTGGATCACAAGGCTCAAAGCTTTCA
* *
2365784 AGCCTTTATGGAGGTTTTTAACATTGAGGC
66 AGCCATTATAGAGGTTTTTAACATTGAGGC
2365814 CTTTATCTAC
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
106 60 0.71
107 25 0.29
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (107 bp):
GATGTAATGTTTGATGCACCCAAAGGCCAAAACTAGTCGTTGGATCACAAGGCTCAAAGCTTTCA
AGCCATTATAGAGGTTTTTAACATTGAGGCTATCTAATGCAG
Found at i:2369727 original size:23 final size:23
Alignment explanation
Indices: 2369701--2369744 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2369691 CCAAATTAAG
2369701 ATTTATAAATTCATTAGATTTTT
1 ATTTATAAATTCATTAGATTTTT
* **
2369724 ATTTGTAAATTTTTTAGATTT
1 ATTTATAAATTCATTAGATTT
2369745 ACAAATAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
ATTTATAAATTCATTAGATTTTT
Found at i:2374013 original size:97 final size:97
Alignment explanation
Indices: 2373847--2374039 Score: 289
Period size: 97 Copynumber: 2.0 Consensus size: 97
2373837 CATGCATGAA
* *
2373847 GCAAACAAATAAGACTAAAGGAATAGGCACTCTTAGAGCTTTCCCGACAGAAGACTGAAAATGCC
1 GCAAACAAACAAGACTAAAGGAATACGCACTCTTAGAGCTTTCCCGACAGAAGACTGAAAATGCC
**
2373912 AATTTTTACTAATGAAAATCTATGGTAATGCT
66 AATTTTTACTAACAAAAATCTATGGTAATGCT
* * ** *
2373944 GCAAACAAACAAGACTAAAGGAATCCGCACT-TCTAGAGCTTTCCTGTTAGAAGACTGGAAATGC
1 GCAAACAAACAAGACTAAAGGAATACGCACTCT-TAGAGCTTTCCCGACAGAAGACTGAAAATGC
2374008 CAATTTTTACTAACAAAAATCTATGGTAATGC
65 CAATTTTTACTAACAAAAATCTATGGTAATGC
2374040 CTAATGGTAA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 1 0.01
97 85 0.99
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (97 bp):
GCAAACAAACAAGACTAAAGGAATACGCACTCTTAGAGCTTTCCCGACAGAAGACTGAAAATGCC
AATTTTTACTAACAAAAATCTATGGTAATGCT
Found at i:2386524 original size:2 final size:2
Alignment explanation
Indices: 2386517--2386549 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2386507 TGGTTTTCTT
2386517 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2386550 AGGTACAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2387394 original size:14 final size:14
Alignment explanation
Indices: 2387377--2387416 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
2387367 TATGTATTTT
*
2387377 TTAATTTATTTTAA
1 TTAATTTATTTGAA
*
2387391 TTAATTTAATTGAA
1 TTAATTTATTTGAA
2387405 TTAAATTTATTT
1 TT-AATTTATTT
2387417 AACTAACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
TTAATTTATTTGAA
Found at i:2388223 original size:135 final size:135
Alignment explanation
Indices: 2387981--2388252 Score: 517
Period size: 135 Copynumber: 2.0 Consensus size: 135
2387971 AAACTAAAAT
* *
2387981 CTCAGATTTGGTGTCCAGGTAACAGGCAAGAGGGGCCTTGCTTTAAGTACTGGTATTTGATCTTT
1 CTCAGATTTGGTGTCCACGTAACAGGCAAGAGGGGCCTTCCTTTAAGTACTGGTATTTGATCTTT
2388046 AAAGCAATAGAAAGAATCCAATAGCTTACTAAAATAAAAATACAACTACGGCGACAGCTGCAGTT
66 AAAGCAATAGAAAGAATCCAATAGCTTACTAAAATAAAAATACAACTACGGCGACAGCTGCAGTT
2388111 TATGA
131 TATGA
*
2388116 CTCAGATTTGGTGTCCACGTAACGGGCAAGAGGGGCCTTCCTTTAAGTACTGGTATTTGATCTTT
1 CTCAGATTTGGTGTCCACGTAACAGGCAAGAGGGGCCTTCCTTTAAGTACTGGTATTTGATCTTT
2388181 AAAGCAATAGAAAGAATCCAATAGCTTACTAAAATAAAAATACAACTACGGCGACAGCTGCAGTT
66 AAAGCAATAGAAAGAATCCAATAGCTTACTAAAATAAAAATACAACTACGGCGACAGCTGCAGTT
2388246 TATGA
131 TATGA
2388251 CT
1 CT
2388253 GGGCTTGAGC
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 134 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (135 bp):
CTCAGATTTGGTGTCCACGTAACAGGCAAGAGGGGCCTTCCTTTAAGTACTGGTATTTGATCTTT
AAAGCAATAGAAAGAATCCAATAGCTTACTAAAATAAAAATACAACTACGGCGACAGCTGCAGTT
TATGA
Found at i:2388508 original size:18 final size:19
Alignment explanation
Indices: 2388485--2388521 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2388475 TCCGTATAAT
*
2388485 TTTGTTATAT-AAATATTA
1 TTTGTTAAATAAAATATTA
2388503 TTTGTTAAATAAAATATTA
1 TTTGTTAAATAAAATATTA
2388522 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTGTTAAATAAAATATTA
Found at i:2388847 original size:30 final size:30
Alignment explanation
Indices: 2388813--2388884 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
2388803 ATTTTTATTC
*
2388813 TATCAAAATATATTTTTTAAT-TTTAATTTG
1 TATCAAAATA-AATTTTTAATATTTAATTTG
*
2388843 TATCAAAATAAATTTTTATTATTTAATTTG
1 TATCAAAATAAATTTTTAATATTTAATTTG
* *
2388873 TACCTAAATAAA
1 TATCAAAATAAA
2388885 CTTAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 8 0.22
30 29 0.78
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (30 bp):
TATCAAAATAAATTTTTAATATTTAATTTG
Found at i:2388964 original size:29 final size:29
Alignment explanation
Indices: 2388921--2388991 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
2388911 AAATAAAGCA
*
2388921 TACTTGAATATAAATAAAAAAATAAAAATT
1 TACTTGAATA-AAATAAAAAAATAAAAACT
* *
2388951 TATTTGAATAAAATAAAAATATAAAAACT
1 TACTTGAATAAAATAAAAAAATAAAAACT
*
2388980 TACTTAAATAAA
1 TACTTGAATAAA
2388992 GTGATAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 27 0.75
30 9 0.25
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (29 bp):
TACTTGAATAAAATAAAAAAATAAAAACT
Found at i:2389592 original size:18 final size:19
Alignment explanation
Indices: 2389562--2389602 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
2389552 ATTTTTATTT
2389562 TATAAAAATTTAAAAAATA
1 TATAAAAATTTAAAAAATA
*
2389581 TATAAAAA-TTAAATAATA
1 TATAAAAATTTAAAAAATA
2389599 TATA
1 TATA
2389603 TAATTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TATAAAAATTTAAAAAATA
Found at i:2398911 original size:12 final size:12
Alignment explanation
Indices: 2398896--2398920 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2398886 TAATTTTATA
2398896 TATATATATATT
1 TATATATATATT
2398908 TATATATATATT
1 TATATATATATT
2398920 T
1 T
2398921 TTGTTTAAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATATT
Found at i:2400278 original size:16 final size:17
Alignment explanation
Indices: 2400259--2400293 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2400249 TCTGATTTGA
*
2400259 TTTTTTTAAGTTAA-TT
1 TTTTTTTAAATTAAGTT
2400275 TTTTTTTAAATTAAGTT
1 TTTTTTTAAATTAAGTT
2400292 TT
1 TT
2400294 AGATCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTTTTAAATTAAGTT
Found at i:2400475 original size:41 final size:41
Alignment explanation
Indices: 2400429--2400509 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
2400419 AATTTTAAAT
* *
2400429 TAAA-TTAAATA-AAATATAATTTATATAATATTAAATCAAAC
1 TAAATTTAAATATAAAAAAAATTTAT-TAA-ATTAAATCAAAC
2400470 TAAATTTAAATATAAAAAAAATTTATTAAATTAAATCAAA
1 TAAATTTAAATATAAAAAAAATTTATTAAATTAAATCAAA
2400510 TCAAATTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 15 0.42
42 10 0.28
43 11 0.31
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (41 bp):
TAAATTTAAATATAAAAAAAATTTATTAAATTAAATCAAAC
Found at i:2400495 original size:78 final size:73
Alignment explanation
Indices: 2400423--2400565 Score: 166
Period size: 73 Copynumber: 2.0 Consensus size: 73
2400413 TTTATTAATT
* * * *
2400423 TTAAATTAAATTAAATAAAATATA-AT-TTATATAATATTAAATCAAACTAAATTTAAATAT-AA
1 TTAAATTAAATCAAATCAAATAAATATATTATA-AATATAAAATCAAACTAAATTTAAA-ATGAA
2400485 AAAAAATTTA
64 AAAAAATTTA
** * * *
2400495 TTAAATTAAATCAAATCAAATTCATATATTATAAATATAAAATTAAATTAAATTTAAAATGAACA
1 TTAAATTAAATCAAATCAAATAAATATATTATAAATATAAAATCAAACTAAATTTAAAATGAAAA
2400560 AAAATT
66 AAAATT
2400566 CGTTTCGACT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
72 22 0.37
73 33 0.55
74 5 0.08
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (73 bp):
TTAAATTAAATCAAATCAAATAAATATATTATAAATATAAAATCAAACTAAATTTAAAATGAAAA
AAAATTTA
Found at i:2400516 original size:41 final size:42
Alignment explanation
Indices: 2400425--2400516 Score: 111
Period size: 41 Copynumber: 2.2 Consensus size: 42
2400415 TATTAATTTT
* * *
2400425 AAATTAAA-TTAAATAAAATATAATTTATATAATATTAAATC
1 AAATCAAATTTAAATAAAAAAAAATTTATATAATATTAAATC
2400466 AAA-CTAAATTTAAATATAAAAAAAATTTAT-TAA-ATTAAATC
1 AAATC-AAATTTAAATA-AAAAAAAATTTATATAATATTAAATC
2400507 AAATCAAATT
1 AAATCAAATT
2400517 CATATATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
41 22 0.50
42 11 0.25
43 11 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (42 bp):
AAATCAAATTTAAATAAAAAAAAATTTATATAATATTAAATC
Found at i:2400522 original size:67 final size:67
Alignment explanation
Indices: 2400427--2400553 Score: 159
Period size: 67 Copynumber: 1.9 Consensus size: 67
2400417 TTAATTTTAA
* * *
2400427 ATTAAATTAAATAAAATATAATTTATATAATATTAA-ATCAAACTAAATTTAAATATAAAAAAAA
1 ATTAAATTAAATAAAATATAATTCATATAATATAAATATAAAACTAAA-TTAAATATAAAAAAAA
2400491 TTT
65 TTT
* * * *
2400494 ATTAAATTAAATCAAATCA-AATTCATATATTATAAATATAAAATTAAATTAAATTTAAAA
1 ATTAAATTAAATAAAAT-ATAATTCATATAATATAAATATAAAACTAAATTAAATATAAAA
2400554 TGAACAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
67 41 0.80
68 10 0.20
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (67 bp):
ATTAAATTAAATAAAATATAATTCATATAATATAAATATAAAACTAAATTAAATATAAAAAAAAT
TT
Done.