Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 105 of 144
Found at i:24624425 original size:39 final size:39
Alignment explanation
Indices: 24624361--24624435 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
24624351 TGTTATTAAC
*
24624361 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
*
24624400 ACTTTGTGTACTCTCTGATTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
24624436 TCTGTTACCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:24626368 original size:9 final size:9
Alignment explanation
Indices: 24626354--24626383 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24626344 CTCTCTTCAC
24626354 TTTTTTGCT
1 TTTTTTGCT
24626363 TTTTTTGCT
1 TTTTTTGCT
24626372 TTTTTT-CT
1 TTTTTTGCT
24626380 TTTT
1 TTTT
24626384 CCTCCTCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (9 bp):
TTTTTTGCT
Found at i:24630015 original size:2 final size:2
Alignment explanation
Indices: 24630008--24630036 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24629998 GACTAGTACA
24630008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24630037 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24635602 original size:22 final size:20
Alignment explanation
Indices: 24635560--24635597 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24635550 CACACATAAT
* *
24635560 AATATTTTTATATAACATGA
1 AATATTTTAATATAAAATGA
24635580 AATATTTTAATATAAAAT
1 AATATTTTAATATAAAAT
24635598 TTGAATTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AATATTTTAATATAAAATGA
Found at i:24641580 original size:158 final size:158
Alignment explanation
Indices: 24641289--24641611 Score: 421
Period size: 158 Copynumber: 2.0 Consensus size: 158
24641279 ATTTTTGGGT
* * ** *
24641289 TTACATGTTATATGGGTGTTGGTCATAGATATCTTACCGATGGCTGAGATTCGACATTTGTTCCG
1 TTACATGTTATATGAGTGCTGGTCATAGATATCTTACCGATGGCTGAGACCCGACATATGTTCCG
* * *
24641354 GATTCTCCACAGCTCGTGTGAGCAGCATTGTGTAGCCTAACATCTTGACCCACAGCTCGTGTGAG
66 GATTCTCCACAGCTCATGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAG
24641419 CAGACCCACTTCACAGCTCGTGTGAGCA
131 CAGACCCACTTCACAGCTCGTGTGAGCA
* * * * * *
24641447 TTACATGTTATATGAGTGCTGGTCTTAGATGTCTTGCTGATGGCTGAGACCCGGCATATGTTGCG
1 TTACATGTTATATGAGTGCTGGTCATAGATATCTTACCGATGGCTGAGACCCGACATATGTTCCG
* * * ** *
24641512 GATTCTCCACAGCTCATGTGAGCATCATCGTGTAGTCTAACATCTCGACTCGTAGCTCGTGTGGG
66 GATTCTCCACAGCTCATGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAG
* * * *
24641577 CAGATCTATTTCACAGTTCGTGTGAGCA
131 CAGACCCACTTCACAGCTCGTGTGAGCA
*
24641605 CTACATG
1 TTACATG
24641612 ATACAGAGAT
Statistics
Matches: 140, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
158 140 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (158 bp):
TTACATGTTATATGAGTGCTGGTCATAGATATCTTACCGATGGCTGAGACCCGACATATGTTCCG
GATTCTCCACAGCTCATGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAG
CAGACCCACTTCACAGCTCGTGTGAGCA
Found at i:24645007 original size:59 final size:58
Alignment explanation
Indices: 24644901--24645139 Score: 313
Period size: 59 Copynumber: 4.1 Consensus size: 58
24644891 GCTCTCTAGT
* *
24644901 CCCTAAACTTTCCAAAATTCCATTTTTGACCCCGAAACTTT-CAAAAATTACAATTTTA
1 CCCTAAACTTTCCAAAATTCCATTTTTAACCCCG-AATTTTCCAAAAATTACAATTTTA
* * *
24644959 CCTCTAAACTTTCCAAAATTCAATTTTTAACCCC-AATTTTACCCAAAATTACCATTTTA
1 CC-CTAAACTTTCCAAAATTCCATTTTTAACCCCGAATTTT-CCAAAAATTACAATTTTA
* *
24645018 CCCCTAAACTTTCCAAAATTCCATTTTTAACCTCG-ATTTTACCAAAAATTACCATTTTA
1 -CCCTAAACTTTCCAAAATTCCATTTTTAACCCCGAATTTT-CCAAAAATTACAATTTTA
* * *
24645077 CCCTTAAACTTTCCAAAATTCTATTTTTAACCCCGAATTTTCCCAAAATTACAATTTTG
1 CCC-TAAACTTTCCAAAATTCCATTTTTAACCCCGAATTTTCCAAAAATTACAATTTTA
24645136 CCCT
1 CCCT
24645140 CAAGAGCCAA
Statistics
Matches: 161, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
57 5 0.03
58 6 0.04
59 143 0.89
60 7 0.04
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (58 bp):
CCCTAAACTTTCCAAAATTCCATTTTTAACCCCGAATTTTCCAAAAATTACAATTTTA
Found at i:24645104 original size:29 final size:28
Alignment explanation
Indices: 24644901--24645105 Score: 173
Period size: 30 Copynumber: 7.0 Consensus size: 28
24644891 GCTCTCTAGT
24644901 CCCTAAACTTTCCAAAATTCCATTTTTGA
1 CCCTAAACTTTCCAAAATTCCATTTTT-A
* * * *
24644930 CCCCGAAACTTTCAAAAATTACAATTTTA
1 -CCCTAAACTTTCCAAAATTCCATTTTTA
*
24644959 CCTCTAAACTTTCCAAAATTCAATTTTTAA
1 CC-CTAAACTTTCCAAAATTCCATTTTT-A
* *
24644989 CCC-CAATTTTACCCAAAATTACCA-TTTTA
1 CCCTAAACTTT--CCAAAATT-CCATTTTTA
24645018 CCCCTAAACTTTCCAAAATTCCATTTTTA
1 -CCCTAAACTTTCCAAAATTCCATTTTTA
* ** *
24645047 ACCTCGATTTTACCAAAAATTACCA-TTTTA
1 CCCTAAACTTT-CC-AAAATT-CCATTTTTA
*
24645077 CCCTTAAACTTTCCAAAATTCTATTTTTA
1 CCC-TAAACTTTCCAAAATTCCATTTTTA
24645106 ACCCCGAATT
Statistics
Matches: 139, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
28 19 0.14
29 49 0.35
30 56 0.40
31 15 0.11
ACGTcount: A:0.35, C:0.26, G:0.01, T:0.38
Consensus pattern (28 bp):
CCCTAAACTTTCCAAAATTCCATTTTTA
Found at i:24645109 original size:118 final size:117
Alignment explanation
Indices: 24644901--24645134 Score: 348
Period size: 118 Copynumber: 2.0 Consensus size: 117
24644891 GCTCTCTAGT
*
24644901 CCCTAAACTTTCCAAAATTCCATTTTTGACCCCGAAACTTTCAAAAATTACAATTTTACCTCTAA
1 CCCTAAACTTTCCAAAATTCCATTTTTAACCCCG-AACTTTCAAAAATTACAATTTTACCTCTAA
*
24644966 ACTTTCCAAAATTCAATTTTTAACCCC-AATTTTACCCAAAATTACCATTTTAC
65 ACTTTCCAAAATTCAATTTTTAACCCCGAATTTT-CCCAAAATTACAATTTTAC
* * *
24645019 CCCTAAACTTTCCAAAATTCCATTTTTAACCTCG-ATTTTACCAAAAATTACCATTTTACC-CTT
1 CCCTAAACTTTCCAAAATTCCATTTTTAACCCCGAACTTT--CAAAAATTACAATTTTACCTC-T
*
24645082 AAACTTTCCAAAATTCTATTTTTAACCCCGAATTTTCCCAAAATTACAATTTT
63 AAACTTTCCAAAATTCAATTTTTAACCCCGAATTTTCCCAAAATTACAATTTT
24645135 GCCCTCAAGA
Statistics
Matches: 106, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
116 4 0.04
117 1 0.01
118 95 0.90
119 6 0.06
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (117 bp):
CCCTAAACTTTCCAAAATTCCATTTTTAACCCCGAACTTTCAAAAATTACAATTTTACCTCTAAA
CTTTCCAAAATTCAATTTTTAACCCCGAATTTTCCCAAAATTACAATTTTAC
Found at i:24662776 original size:24 final size:24
Alignment explanation
Indices: 24662735--24662785 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
24662725 ATAAAAAAAA
24662735 AAAACCTACAAAAAAGAAAGAAGAG
1 AAAACCTACAAAAAAGAAAGAAG-G
* * *
24662760 AAAA-CTAGAAAAGAGAAATAAGG
1 AAAACCTACAAAAAAGAAAGAAGG
24662783 AAA
1 AAA
24662786 CTGTGGCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.69, C:0.08, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAACCTACAAAAAAGAAAGAAGG
Found at i:24666674 original size:12 final size:13
Alignment explanation
Indices: 24666657--24666713 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 13
24666647 GGACAAAAAT
24666657 ATTTTCT-TTCCA
1 ATTTTCTCTTCCA
24666669 ATTTTCTCCTT-CA
1 ATTTTCT-CTTCCA
24666682 ATCTTTCATCTGTCCA
1 AT-TTTC-TCT-TCCA
24666698 ATTTTCT-TTCC-
1 ATTTTCTCTTCCA
24666709 ATTTT
1 ATTTT
24666714 ACCAAGCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
11 5 0.13
12 10 0.26
13 5 0.13
14 9 0.23
15 6 0.15
16 4 0.10
ACGTcount: A:0.16, C:0.26, G:0.02, T:0.56
Consensus pattern (13 bp):
ATTTTCTCTTCCA
Found at i:24670363 original size:20 final size:20
Alignment explanation
Indices: 24670340--24670387 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
24670330 TTACGTTTAT
24670340 TTTTATTAAATT-AAGAGTTA
1 TTTT-TTAAATTCAAGAGTTA
* *
24670360 TTTTTTAATTTCATGAGTTA
1 TTTTTTAAATTCAAGAGTTA
24670380 TTTATTTA
1 TTT-TTTA
24670388 TTTTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 14 0.58
21 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTTTAAATTCAAGAGTTA
Found at i:24681554 original size:16 final size:16
Alignment explanation
Indices: 24681533--24681582 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
24681523 TGATGGGGAT
24681533 ATTATTTTGGTAATTA
1 ATTATTTTGGTAATTA
*
24681549 ATTATTTT-TTATATT-
1 ATTATTTTGGTA-ATTA
24681564 A-TATTTTGGTAATTA
1 ATTATTTTGGTAATTA
24681579 ATTA
1 ATTA
24681583 ACTAGGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (16 bp):
ATTATTTTGGTAATTA
Found at i:24682512 original size:17 final size:17
Alignment explanation
Indices: 24682468--24682527 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
24682458 AAACACATTA
*
24682468 CTTTTTTTCTTTCTCCTT
1 CTTTCTTTC-TTCTCCTT
* *
24682486 CTTCCCTTCTTCTCCTT
1 CTTTCTTTCTTCTCCTT
24682503 CTTTCTTTCTT-TCTCTT
1 CTTTCTTTCTTCTC-CTT
*
24682520 TTTTCTTT
1 CTTTCTTT
24682528 TCCTCAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
16 2 0.06
17 27 0.77
18 6 0.17
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
CTTTCTTTCTTCTCCTT
Found at i:24682823 original size:94 final size:93
Alignment explanation
Indices: 24682723--24683072 Score: 561
Period size: 94 Copynumber: 3.8 Consensus size: 93
24682713 TATATTATTT
24682723 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTAC-TACTAACAACAAAATAAAAT
24682788 TACTAACT-ATTTTTTAAAACATTATTAAA
65 TACTAACTAATTTTTT-AAACATTATTAAA
* *
24682817 TTTTAAATCAATAAATATGAATAATGTTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
24682882 ACTAACTAATTTTTTTAAACATTATTAAA
66 ACTAACTAA-TTTTTTAAACATTATTAAA
24682911 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTA-T--TAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
***
24682973 ACTAACTAGCAAAATTTAAACATTATTAAA
66 ACTAACTA--ATTTTTTAAACATTATTAAA
24683003 TTTTAAATCAATAAATATGAACAATATTTTTTAC-T--TACTACTACTAACAACAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
24683065 ACTAACTA
66 ACTAACTA
24683073 GCAAAATTAA
Statistics
Matches: 242, Mismatches: 7, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
89 5 0.02
90 1 0.00
91 27 0.11
92 76 0.31
93 30 0.12
94 97 0.40
95 6 0.02
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.38
Consensus pattern (93 bp):
TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTACTAACAACAAAATAAAATT
ACTAACTAATTTTTTAAACATTATTAAA
Found at i:24683039 original size:186 final size:183
Alignment explanation
Indices: 24682723--24683072 Score: 562
Period size: 186 Copynumber: 1.9 Consensus size: 183
24682713 TATATTATTT
24682723 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTAC-TA-TAACAACAAAATAAAAT
*** * *
24682788 TACTAACTATTTTTTAAAACATTATTAAATTTTAAATCAATAAATATGAATAATGTTTTTTACTT
64 TACTAACTAAAATTTAAAACATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTTAC-T
24682853 ACTACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAA
128 --TACTACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAA
24682911 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTA-T-TAACAACAAAATAAAATTA
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTATAACAACAAAATAAAATTA
24682974 CTAACTAGCAAAATTT-AAACATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTTACT
66 CTAACT---AAAATTTAAAACATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTTACT
24683038 TACTACTACTAACAACAAAATAAAATTACTAACTA
128 TACTACTACTAACAACAAAATAAAATTACTAACTA
24683073 GCAAAATTAA
Statistics
Matches: 154, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
183 35 0.23
184 25 0.16
185 1 0.01
186 46 0.30
187 4 0.03
188 43 0.28
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.38
Consensus pattern (183 bp):
TTTTAAATCAATAAATATGAACAATATTTTTTACTTACTACTACTATAACAACAAAATAAAATTA
CTAACTAAAATTTAAAACATTATTAAATTTTAAATCAATAAATATGAACAATATTTTTTACTTAC
TACTACTAACAACAAAATAAAATTACTAACTAATTTTTTTAAACATTATTAAA
Found at i:24683069 original size:20 final size:21
Alignment explanation
Indices: 24683044--24683085 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24683034 TACTTACTAC
24683044 TACTAAC-AACAAAATAAAAT
1 TACTAACTAACAAAATAAAAT
* *
24683064 TACTAACTAGCAAAATTAAAT
1 TACTAACTAACAAAATAAAAT
24683085 T
1 T
24683086 CAAGTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (21 bp):
TACTAACTAACAAAATAAAAT
Found at i:24683465 original size:4 final size:4
Alignment explanation
Indices: 24683456--24683518 Score: 76
Period size: 4 Copynumber: 16.0 Consensus size: 4
24683446 TTTCCCTTCT
* * *
24683456 TTTC TTTC -TTC CTTC CTTC TTTC TTTC TTTC TTTC TTTC TTTC TCTTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC
24683504 TTTC TTTC TTT- TTTC
1 TTTC TTTC TTTC TTTC
24683519 CTTCAAATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
3 6 0.11
4 44 0.83
5 3 0.06
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:24684323 original size:15 final size:16
Alignment explanation
Indices: 24684299--24684339 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
24684289 TAATATTAAA
24684299 TAAATAAATAATTTTT
1 TAAATAAATAATTTTT
24684315 TAAAT-AATAATTTTT
1 TAAATAAATAATTTTT
*
24684330 TAAAAAAATA
1 TAAATAAATA
24684340 CTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATAAATAATTTTT
Found at i:24687386 original size:6 final size:6
Alignment explanation
Indices: 24687375--24687415 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
24687365 TAGAATTAAA
*
24687375 TATGTT TATGTT TATGTT TATGTT CT-TATT TATGTT TATGT
1 TATGTT TATGTT TATGTT TATGTT -TATGTT TATGTT TATGT
24687416 ATGCAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (6 bp):
TATGTT
Found at i:24687472 original size:19 final size:19
Alignment explanation
Indices: 24687448--24687485 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24687438 TTTTCTACAC
24687448 AACAACTACTTATGATCGT
1 AACAACTACTTATGATCGT
24687467 AACAACTACTTATGATCGT
1 AACAACTACTTATGATCGT
24687486 TTAATGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (19 bp):
AACAACTACTTATGATCGT
Found at i:24689188 original size:25 final size:26
Alignment explanation
Indices: 24689139--24689188 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
24689129 AACCTTCTGT
* *
24689139 TTCCTTTTCTTCTTCAAAACTTTTGC
1 TTCCTTTCCTTCTTCAAAACATTTGC
24689165 TTCCTTTCCTTCTTCAAAA-ATTTG
1 TTCCTTTCCTTCTTCAAAACATTTG
24689189 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.18, C:0.26, G:0.04, T:0.52
Consensus pattern (26 bp):
TTCCTTTCCTTCTTCAAAACATTTGC
Found at i:24689366 original size:15 final size:14
Alignment explanation
Indices: 24689346--24689375 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
24689336 CTTGTCAAAT
24689346 TTTAATTTTATTTAA
1 TTTAATTTT-TTTAA
24689361 TTTAATTTTTTTAA
1 TTTAATTTTTTTAA
24689375 T
1 T
24689376 ATAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTAATTTTTTTAA
Found at i:24690633 original size:27 final size:28
Alignment explanation
Indices: 24690603--24690679 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 28
24690593 AAAATATATA
24690603 TATTTATATTATTTAAGTTGT-TAATTT
1 TATTTATATTATTTAAGTTGTATAATTT
* ** *
24690630 TATTTTTTGTATTATATTCTGGTGTATAATTT
1 TA---TTTATATTAT-TTAAGTTGTATAATTT
*
24690662 TTTTTATATTATTTAAGT
1 TATTTATATTATTTAAGT
24690680 AAAAAAGGCT
Statistics
Matches: 36, Mismatches: 9, Indels: 9
0.67 0.17 0.17
Matches are distributed among these distances:
27 2 0.06
28 3 0.08
29 9 0.25
30 9 0.25
31 6 0.17
32 7 0.19
ACGTcount: A:0.26, C:0.01, G:0.09, T:0.64
Consensus pattern (28 bp):
TATTTATATTATTTAAGTTGTATAATTT
Found at i:24699947 original size:25 final size:26
Alignment explanation
Indices: 24699912--24699965 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
24699902 AACAAAATTT
24699912 TTAACGATAATGATCATTTTAAACAA
1 TTAACGATAATGATCATTTTAAACAA
24699938 TTAA-GATAATGATCATTTTAAACAA
1 TTAACGATAATGATCATTTTAAACAA
24699963 TTA
1 TTA
24699966 TCTTAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.37
Consensus pattern (26 bp):
TTAACGATAATGATCATTTTAAACAA
Found at i:24700665 original size:22 final size:22
Alignment explanation
Indices: 24700633--24700676 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24700623 ATTTTAGTTC
*
24700633 TAATTTTAAAAAT-TATAAAATA
1 TAATTTAAAAAATCT-TAAAATA
24700655 TAATTTAAAAAATCTTAAAATA
1 TAATTTAAAAAATCTTAAAATA
24700677 ACAAGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATTTAAAAAATCTTAAAATA
Found at i:24701413 original size:12 final size:12
Alignment explanation
Indices: 24701398--24701440 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
24701388 GTTACTGGTG
*
24701398 TTTTGGTGTTGT
1 TTTTGTTGTTGT
*
24701410 TTTTGTTGCTGT
1 TTTTGTTGTTGT
24701422 TTTTGTTGTTGT
1 TTTTGTTGTTGT
24701434 TTTTGTT
1 TTTTGTT
24701441 ATTTAGATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.02, G:0.26, T:0.72
Consensus pattern (12 bp):
TTTTGTTGTTGT
Found at i:24711507 original size:200 final size:201
Alignment explanation
Indices: 24711053--24711816 Score: 1148
Period size: 200 Copynumber: 3.8 Consensus size: 201
24711043 TGCAATCATC
* * * *
24711053 TGTTTTAATTCGATTCTTTGGATCTCCTCAAGAAGACGAATCTGGTCCACTTCCCTGTGTCTCAT
1 TGTTTTGATTCGCTTCTCTGGATCTCCTCAAGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
* * *
24711118 CAGGAAGTTAACCTTTTTATTGTTTCGACCTGCTTCTCAATGTCTCATCAGAAAGCTGGGTTCGA
66 CAGGAAGCTAACCTTTTTATTGTTTCAACCTGCTTCTCAATGTCTCATCAGGAAGCTGGGTTCGA
*
24711183 AGATTTGCTCGTGTTTGAGCGCTGAGTTGGTATTCTTCTCTGTATCTCATCAAGAAGATGACCGC
131 AGATTTGCTCGTGTTTGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAAGAAGATGACCGC
24711248 CTCGCT
196 CTCGCT
* * *
24711254 TGTTTTGATTCGCTTCTATGGATC-CTCTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCA
1 TGTTTTGATTCGCTTCTCTGGATCTC-CTCAAGAAGACGAATCTGGTCCACTTCTCTGTGTCTCA
*
24711318 TCAGGAAGCTAACCTTTTTATTGTTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCG
65 TCAGGAAGCTAACCTTTTTATTGTTTCAACCTGCTTCTCAATGTCTCATCAGGAAGCTGGGTTCG
* * * * *
24711383 AAGATTTGCTAGTG-TTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGGCCG
130 AAGATTTGCTCGTGTTTGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAAGAAGATGACCG
*
24711447 CTTCGCT
195 CCTCGCT
24711454 TGTTTTGATTCGCTTCTCTGGATCTCCTCAAGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
1 TGTTTTGATTCGCTTCTCTGGATCTCCTCAAGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
** *
24711519 CAGGAAGCTAACCTTTTTATTAATT-AGACTTGCTTCTCAATGTCTCATCAGGAAGCTGGGTTCG
66 CAGGAAGCTAACCTTTTTATTGTTTCA-ACCTGCTTCTCAATGTCTCATCAGGAAGCTGGGTTCG
* * * *
24711583 AAGATTTACTCGTGTTGGAGCGCTAAGTTGGTGTTCTTCTTTGTATCTCATCAAGAAGATGACCG
130 AAGATTTGCTCGTGTTTGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAAGAAGATGACCG
24711648 CCTCGCT
195 CCTCGCT
** *
24711655 TG---T--TTCGCTTCTCCAGATCTCCTCAGGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
1 TGTTTTGATTCGCTTCTCTGGATCTCCTCAAGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
* * * * *
24711715 CAAGAAGCTAACCTTTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGTTCGA
66 CAGGAAGCTAACCTTTTTATTGTTTCAACCTGCTTCTCAATGTCTCATCAGGAAGCTGGGTTCGA
*
24711780 AGATTTGCTCGTGTTTGAGCGCTAAGTTGGTGTTCTT
131 AGATTTGCTCGTGTTTGAGCGCTAAGTTGGTATTCTT
24711817 ATCATCAGGA
Statistics
Matches: 514, Mismatches: 44, Indels: 15
0.90 0.08 0.03
Matches are distributed among these distances:
196 146 0.28
198 1 0.00
199 1 0.00
200 184 0.36
201 182 0.35
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (201 bp):
TGTTTTGATTCGCTTCTCTGGATCTCCTCAAGAAGACGAATCTGGTCCACTTCTCTGTGTCTCAT
CAGGAAGCTAACCTTTTTATTGTTTCAACCTGCTTCTCAATGTCTCATCAGGAAGCTGGGTTCGA
AGATTTGCTCGTGTTTGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAAGAAGATGACCGC
CTCGCT
Found at i:24724028 original size:29 final size:28
Alignment explanation
Indices: 24723996--24724186 Score: 97
Period size: 29 Copynumber: 6.6 Consensus size: 28
24723986 CTCGGGGGCG
** *
24723996 AAATGGTAATTTTTGACTTTCGGGGGTAA
1 AAATGGTAATTTTTGAAGTTCAGGGGT-A
*
24724025 AAATGG-GATTTTTGAAAGTTCAGGGGTA
1 AAATGGTAATTTTTG-AAGTTCAGGGGTA
* * *
24724053 AAATGGTAATATTTGATGAAATTGA-GGTTAA
1 AAATGGTAAT-TTT--TGAAGTTCAGGGGT-A
* *
24724084 AAATGG-AATTTTGGAAAGTTCGGGGGTA
1 AAATGGTAATTTTTG-AAGTTCAGGGGTA
* * **
24724112 AAATGATAATTTTCGGTAAAATC-GGGGTTAA
1 AAATGGTAATTTT-TG-AAGTTCAGGGG-T-A
*
24724143 AAATGG-AATTTTGGAAAGTTC-GAGGGTA
1 AAATGGTAATTTTTG-AAGTTCAG-GGGTA
24724171 AAATGGTAATTTTTGA
1 AAATGGTAATTTTTGA
24724187 TGAAATCGGG
Statistics
Matches: 126, Mismatches: 22, Indels: 29
0.71 0.12 0.16
Matches are distributed among these distances:
27 1 0.01
28 32 0.25
29 48 0.38
30 25 0.20
31 18 0.14
32 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (28 bp):
AAATGGTAATTTTTGAAGTTCAGGGGTA
Found at i:24724101 original size:59 final size:58
Alignment explanation
Indices: 24724015--24724223 Score: 294
Period size: 59 Copynumber: 3.6 Consensus size: 58
24724005 TTTTTGACTT
* * *
24724015 TCGGGGGTAAAAATGGGATTTTTGAAAGTTCAGGGGTAAAATGGTAATATTTGATGAAA
1 TCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAAT-TTTGATGAAA
* * * * * *
24724074 TTGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGATAATTTTCGGTAAAA
1 TCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTT-GATGAAA
24724133 TCGGGGTTAAAAATGGAATTTTGGAAAGTTC-GAGGGTAAAATGGTAATTTTTGATGAAA
1 TCGGGGTTAAAAATGGAATTTTGGAAAGTTCAG-GGGTAAAATGGTAA-TTTTGATGAAA
24724192 TCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
1 TCGGGGTTAAAAATGGAATTTTGGAAAGTTCA
24724224 AGGACCTATA
Statistics
Matches: 132, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
58 4 0.03
59 124 0.94
60 4 0.03
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (58 bp):
TCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTGATGAAA
Found at i:24724144 original size:30 final size:28
Alignment explanation
Indices: 24724047--24724215 Score: 94
Period size: 29 Copynumber: 5.8 Consensus size: 28
24724037 TGAAAGTTCA
* * *
24724047 GGGG-TAAAATGGTAATATTTGATGAAATT
1 GGGGTTAAAAT-GTAAT-TTTGGTAAAATC
* * *
24724076 GAGGTTAAAAATGGAATTTTGG-AAAGTTC
1 GGGGTT-AAAATGTAATTTTGGTAAA-ATC
*
24724105 GGGGGTAAAATGATAATTTTCGGTAAAATC
1 GGGGTTAAAATG-TAATTTT-GGTAAAATC
* *
24724135 GGGGTTAAAAATGGAATTTTGG-AAAGTTC
1 GGGGTT-AAAATGTAATTTTGGTAAA-ATC
* *
24724164 GAGGG-TAAAATGGTAATTTTTGATGAAATC
1 G-GGGTTAAAAT-GTAA-TTTTGGTAAAATC
*
24724194 GGGGTTAAAAATGGAATTTTGG
1 GGGGTT-AAAATGTAATTTTGG
24724216 AAAGTTCAAG
Statistics
Matches: 107, Mismatches: 19, Indels: 28
0.69 0.12 0.18
Matches are distributed among these distances:
28 16 0.15
29 35 0.33
30 35 0.33
31 21 0.20
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (28 bp):
GGGGTTAAAATGTAATTTTGGTAAAATC
Found at i:24724214 original size:29 final size:29
Alignment explanation
Indices: 24724015--24724220 Score: 139
Period size: 30 Copynumber: 7.0 Consensus size: 29
24724005 TTTTTGACTT
* *
24724015 TCGGGGGTAAAAATGGGATTTT-TGAAAG
1 TCGGGGTTAAAAATGGAATTTTGTGAAAG
24724043 TTCAGGGG-T-AAAATGGTAATATTTGATGAAA-
1 -TC-GGGGTTAAAAATGG-AAT-TTTG-TGAAAG
* *
24724074 TTGAGGTTAAAAATGGAATTTTG-GAAAG
1 TCGGGGTTAAAAATGGAATTTTGTGAAAG
* * *
24724102 TTCGGGGGT-AAAATGATAATTTTCG-GTAAAA
1 -TCGGGGTTAAAAATG-GAATTTT-GTG-AAAG
24724133 TCGGGGTTAAAAATGGAATTTTG-GAAAG
1 TCGGGGTTAAAAATGGAATTTTGTGAAAG
24724161 TTCGAGGG-T-AAAATGGTAATTTTTGATGAAA-
1 -TCG-GGGTTAAAAATGG-AA-TTTTG-TGAAAG
24724192 TCGGGGTTAAAAATGGAATTTTG-GAAAG
1 TCGGGGTTAAAAATGGAATTTTGTGAAAG
24724220 T
1 T
24724221 TCAAGGACCT
Statistics
Matches: 144, Mismatches: 11, Indels: 45
0.72 0.05 0.22
Matches are distributed among these distances:
27 8 0.06
28 24 0.17
29 39 0.27
30 41 0.28
31 23 0.16
32 9 0.06
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (29 bp):
TCGGGGTTAAAAATGGAATTTTGTGAAAG
Found at i:24728208 original size:121 final size:121
Alignment explanation
Indices: 24727989--24728225 Score: 393
Period size: 121 Copynumber: 2.0 Consensus size: 121
24727979 ACAATGTACA
*
24727989 CACACCTTGCACACAGAGGTGCTCGAACCCGGATCTCTTAGGATGAACAATATTCTCTTAACCAC
1 CACACCTTGCACACAGAGGTGCTCGAACCCGGATCTCTTAGGATGAACAACATTCTCTTAACCAC
* * *
24728054 TGGAATCACTTGTTAGATTCTTAATTAATATTATAAACATAATTTGCTTTAATTAC
66 CGGAACCACTCGTTAGATTCTTAATTAATATTATAAACATAATTTGCTTTAATTAC
* * *
24728110 CACATCTTGCACACAGATGTGCTTGAACCCGGATCTCTTAGGATGAACAACATTCTCTTAACCAC
1 CACACCTTGCACACAGAGGTGCTCGAACCCGGATCTCTTAGGATGAACAACATTCTCTTAACCAC
* *
24728175 CGGAACCACTCGTTGGATTCTTAATTAATATTATTAACATAATTTGCTTTA
66 CGGAACCACTCGTTAGATTCTTAATTAATATTATAAACATAATTTGCTTTA
24728226 TTTTTTTTTT
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
121 107 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (121 bp):
CACACCTTGCACACAGAGGTGCTCGAACCCGGATCTCTTAGGATGAACAACATTCTCTTAACCAC
CGGAACCACTCGTTAGATTCTTAATTAATATTATAAACATAATTTGCTTTAATTAC
Found at i:24729032 original size:15 final size:15
Alignment explanation
Indices: 24729009--24729038 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24728999 TGGATAAGGG
*
24729009 CTAAGCTAACCTCTT
1 CTAACCTAACCTCTT
24729024 CTAACCTAACCTCTT
1 CTAACCTAACCTCTT
24729039 AGGGCATGGA
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:0.27, C:0.37, G:0.03, T:0.33
Consensus pattern (15 bp):
CTAACCTAACCTCTT
Found at i:24731919 original size:42 final size:42
Alignment explanation
Indices: 24731859--24731945 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
24731849 TAAATAATAA
*
24731859 TAATTAAATTTTATTTTAATTAT-TATTTATATAAAACTCTTT
1 TAATTAAATTCTATTTTAATTATCT-TTTATATAAAACTCTTT
*
24731901 TAATTAAAATTCTA-TTTAATTATCTTTTATTTAAAACTCTTT
1 TAATT-AAATTCTATTTTAATTATCTTTTATATAAAACTCTTT
24731943 TAA
1 TAA
24731946 ATAATAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 33 0.80
43 8 0.20
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (42 bp):
TAATTAAATTCTATTTTAATTATCTTTTATATAAAACTCTTT
Found at i:24731920 original size:16 final size:15
Alignment explanation
Indices: 24731890--24731945 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
24731880 ATTATTTATA
24731890 TAAAACTCTTTTAAT
1 TAAAACTCTTTTAAT
*
24731905 TAAAATTCTATTTAAT
1 TAAAACTCT-TTTAAT
*
24731921 T---A-TCTTTTATT
1 TAAAACTCTTTTAAT
24731932 TAAAACTCTTTTAA
1 TAAAACTCTTTTAA
24731946 ATAATAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
11 6 0.18
12 3 0.09
13 1 0.03
14 1 0.03
15 15 0.45
16 7 0.21
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAAACTCTTTTAAT
Found at i:24731932 original size:94 final size:97
Alignment explanation
Indices: 24731795--24732009 Score: 346
Period size: 97 Copynumber: 2.2 Consensus size: 97
24731785 TTGAATTTTA
*
24731795 AAAACTCTTTTAAATAATAATTTTTATTAAATTATCTTTTATTTAAAACTCTTTT-A-AATAATA
1 AAAACTCTTTTAAATAATAA-TTCTATTAAATTATCTTTTATTTAAAACTCTTTTAATAATAATA
*
24731858 ATAATTAAATTTTATTTTAATTATTATTTATAT
65 ATAATTAAATTCTATTTTAATTATTATTTATAT
* *
24731891 AAAACTCTTTTAATTAA-AATTCTATTTAATTATCTTTTATTTAAAACTCTTTTAAATAATAATA
1 AAAACTCTTTTAAATAATAATTCTATTAAATTATCTTTTATTTAAAACTCTTTT-AATAATAATA
*
24731955 ATAATTAAATTCTATTTTAATTATTATTTATCT
65 ATAATTAAATTCTATTTTAATTATTATTTATAT
24731988 AAAACTCTTTTAAATAATAATT
1 AAAACTCTTTTAAATAATAATT
24732010 AAATTCTATT
Statistics
Matches: 109, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
94 32 0.29
95 2 0.02
96 17 0.16
97 54 0.50
98 4 0.04
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (97 bp):
AAAACTCTTTTAAATAATAATTCTATTAAATTATCTTTTATTTAAAACTCTTTTAATAATAATAA
TAATTAAATTCTATTTTAATTATTATTTATAT
Found at i:24731975 original size:55 final size:55
Alignment explanation
Indices: 24731901--24732008 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 55
24731891 AAAACTCTTT
*
24731901 TAATTAAAATTCTATTTAATTATCT-TTTATTTAAAACTCTTTTAAATAATAATAA
1 TAATTAAAATTCTATTTAATTAT-TATTTATCTAAAACTCTTTTAAATAATAATAA
24731956 TAATT-AAATTCTATTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAAT
1 TAATTAAAATTCTA-TTTAATTATTATTTATCTAAAACTCTTTTAAATAATAAT
24732009 TAAATTCTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
54 9 0.18
55 41 0.82
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (55 bp):
TAATTAAAATTCTATTTAATTATTATTTATCTAAAACTCTTTTAAATAATAATAA
Found at i:24734408 original size:24 final size:23
Alignment explanation
Indices: 24734366--24734434 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 23
24734356 TTTAAGTTTA
24734366 TTAAAATATAAAAATATATTATAATT
1 TTAAAA-ATAAAAA-ATATT-TAATT
24734392 TTAAAAATAAAAAATATTTAA-T
1 TTAAAAATAAAAAATATTTAATT
*
24734414 TTAATTAAATATAAAATATTT
1 TTAA--AAATAAAAAATATTT
24734435 TAATAAATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
22 5 0.12
23 3 0.08
24 19 0.47
25 7 0.17
26 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAAAATAAAAAATATTTAATT
Found at i:24734421 original size:26 final size:25
Alignment explanation
Indices: 24734355--24734438 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 25
24734345 TAAAATTATG
24734355 ATTTAAGTTTATTAAAATATAAAAATAT
1 ATTTAA-TTTATTAAAA-ATAAAAA-AT
24734383 ATTATAA-TT-TTAAAAATAAAAAAT
1 ATT-TAATTTATTAAAAATAAAAAAT
* *
24734407 ATTTAATTTAATTAAATATAAAATAT
1 ATTTAATTT-ATTAAAAATAAAAAAT
24734433 -TTTAAT
1 ATTTAAT
24734439 AAATGATAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
23 3 0.06
24 7 0.14
25 13 0.26
26 19 0.38
27 2 0.04
28 3 0.06
29 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
ATTTAATTTATTAAAAATAAAAAAT
Found at i:24734438 original size:25 final size:26
Alignment explanation
Indices: 24734356--24734437 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 26
24734346 AAAATTATGA
24734356 TTTAAGTTT-ATTAAAATATAAAAATAT
1 TTTAAGTTTAATT-AAATAT-AAAATAT
* *
24734383 ATTATAATTTTAA--AAATAAAAAATA-
1 -TT-TAAGTTTAATTAAATATAAAATAT
24734408 TTTAA-TTTAATTAAATATAAAATAT
1 TTTAAGTTTAATTAAATATAAAATAT
24734433 TTTAA
1 TTTAA
24734438 TAAATGATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
22 5 0.11
23 3 0.07
24 13 0.28
25 5 0.11
26 6 0.13
27 5 0.11
28 2 0.04
29 6 0.13
30 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TTTAAGTTTAATTAAATATAAAATAT
Found at i:24734893 original size:21 final size:21
Alignment explanation
Indices: 24734869--24734912 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
24734859 AAAATATTGG
*
24734869 AAATTATTTTTTTAAT-TTTTA
1 AAATTA-TCTTTTAATCTTTTA
24734890 AAATTATCTTTTAATCTTTTA
1 AAATTATCTTTTAATCTTTTA
24734911 AA
1 AA
24734913 GAGGTTGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
AAATTATCTTTTAATCTTTTA
Found at i:24735702 original size:16 final size:17
Alignment explanation
Indices: 24735683--24735715 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24735673 AATGTTAGAG
24735683 CATATAAATTT-AAAAT
1 CATATAAATTTGAAAAT
*
24735699 CATATATATTTGAAAAT
1 CATATAAATTTGAAAAT
24735716 ATTTCAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
CATATAAATTTGAAAAT
Found at i:24737494 original size:29 final size:29
Alignment explanation
Indices: 24737452--24737510 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
24737442 ATTGAAAATC
24737452 TACTACTAGAAATAAGCACGTTTACTTTG
1 TACTACTAGAAATAAGCACGTTTACTTTG
* *
24737481 TACTACTGGAAATAAGCATGTTTACTTTG
1 TACTACTAGAAATAAGCACGTTTACTTTG
24737510 T
1 T
24737511 GCTGGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (29 bp):
TACTACTAGAAATAAGCACGTTTACTTTG
Found at i:24741138 original size:23 final size:23
Alignment explanation
Indices: 24741091--24741149 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
24741081 AACTTTCTTT
* * *
24741091 ATATAGTTTTAGATTTTTTTGAA
1 ATATAATTTTTGATTTTTTTAAA
24741114 ATA-AATTTTTGATTTTTTTAAAA
1 ATATAATTTTTGATTTTTTT-AAA
*
24741137 ATATAAATTTTGA
1 ATATAATTTTTGA
24741150 AAATTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 14 0.47
23 8 0.27
24 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
ATATAATTTTTGATTTTTTTAAA
Found at i:24741159 original size:18 final size:16
Alignment explanation
Indices: 24741138--24741180 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
24741128 TTTTTAAAAA
24741138 TATAAATTTTGAAAATTT
1 TATAAATTTT--AAATTT
24741156 TATAATATTTTAAATTT
1 TATAA-ATTTTAAATTT
*
24741173 TAAAAATT
1 TATAAATT
24741181 ATTTTGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 10 0.43
18 5 0.22
19 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATAAATTTTAAATTT
Found at i:24744268 original size:29 final size:27
Alignment explanation
Indices: 24744202--24744312 Score: 102
Period size: 28 Copynumber: 3.9 Consensus size: 27
24744192 ATCTTTTAAA
* *
24744202 GATTAAATTTTTTAAAATTAAAATTAT
1 GATTTAATTTTTTAAAATTAAAAATAT
24744229 GATTTAATTTTATTAAAATATAAAAATAT
1 GATTTAATTTT-TTAAAAT-TAAAAATAT
*
24744258 -A-TTATAGTTTTTAAGAATT-AAAATAAT
1 GATTTA-ATTTTTTAA-AATTAAAAAT-AT
24744285 GATTTAATTTTATTAAAGTATTAAAAAT
1 GATTTAATTTT-TTAAA--ATTAAAAAT
24744313 TTATTATAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
26 5 0.07
27 20 0.29
28 21 0.30
29 15 0.22
30 3 0.04
31 5 0.07
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (27 bp):
GATTTAATTTTTTAAAATTAAAAATAT
Found at i:24744295 original size:56 final size:55
Alignment explanation
Indices: 24744210--24744361 Score: 184
Period size: 56 Copynumber: 2.8 Consensus size: 55
24744200 AAGATTAAAT
*
24744210 TTTTTAA-AATTAAAATTATGATTTAATTTTATTAAAATATAAAAATATATTATA
1 TTTTTAAGAATTAAAATAATGATTTAATTTTATTAAAATATAAAAATATATTATA
* *
24744264 GTTTTTAAGAATTAAAATAATGATTTAATTTTATTAAAGTATTAAAAATTTATTATA
1 -TTTTTAAGAATTAAAATAATGATTTAATTTTATTAAAATA-TAAAAATATATTATA
* * * * *
24744321 ATTTAAAGAACTAAAA-AA-AATTTAATTTAATTAAATATATA
1 TTTTTAAGAATTAAAATAATGATTTAATTTTATTAAA-ATATA
24744362 TTTTGATAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
54 17 0.20
55 11 0.13
56 43 0.51
57 14 0.16
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.45
Consensus pattern (55 bp):
TTTTTAAGAATTAAAATAATGATTTAATTTTATTAAAATATAAAAATATATTATA
Found at i:24744504 original size:31 final size:30
Alignment explanation
Indices: 24744463--24744521 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
24744453 ACATTAATAT
* *
24744463 AAATATATATTATAATTTTATTAAAATATAA
1 AAATAAATATTAT-ATATTATTAAAATATAA
*
24744494 AAATAAATATTATATATTATTTAAATAT
1 AAATAAATATTATATATTATTAAAATAT
24744522 GATATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AAATAAATATTATATATTATTAAAATATAA
Found at i:24750100 original size:21 final size:21
Alignment explanation
Indices: 24750063--24750102 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24750053 GATTAATTTA
*
24750063 TATAGATATATCCAACTTTTC
1 TATAGATATATACAACTTTTC
*
24750084 TATAGATATATAGAACTTT
1 TATAGATATATACAACTTT
24750103 ATCAGCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
TATAGATATATACAACTTTTC
Found at i:24750134 original size:21 final size:21
Alignment explanation
Indices: 24750110--24750149 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24750100 TTTATCAGCA
*
24750110 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
24750131 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
24750150 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:24759547 original size:21 final size:22
Alignment explanation
Indices: 24759515--24759557 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
24759505 AAATATTTGA
*
24759515 TAAATAAATAATTATTTATATT
1 TAAATAAATAATTACTTATATT
24759537 TAAAT-AATAATTACTTATATT
1 TAAATAAATAATTACTTATATT
24759558 ATTAGATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATAAATAATTACTTATATT
Found at i:24760449 original size:23 final size:22
Alignment explanation
Indices: 24760416--24760464 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
24760406 TTTTTCCCAT
24760416 TCAATCATATTC-TCTCACTTCTC
1 TCAATCATATTCATCT-A-TTCTC
*
24760439 TCAATCTTATTCATCTATTCTC
1 TCAATCATATTCATCTATTCTC
24760461 TCAA
1 TCAA
24760465 CTATTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 12 0.50
24 3 0.12
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (22 bp):
TCAATCATATTCATCTATTCTC
Found at i:24760954 original size:20 final size:21
Alignment explanation
Indices: 24760925--24760964 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
24760915 GTGCGGTGAG
24760925 TGTAAAATTAC-ACTCGATTA
1 TGTAAAATTACAACTCGATTA
*
24760945 TGTAACATTACAACTCGATT
1 TGTAAAATTACAACTCGATT
24760965 TACCGGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (21 bp):
TGTAAAATTACAACTCGATTA
Found at i:24762594 original size:6 final size:6
Alignment explanation
Indices: 24762585--24762660 Score: 66
Period size: 6 Copynumber: 12.7 Consensus size: 6
24762575 CAAGATGTAC
* * *
24762585 ATGAAG ATGAAG ATGAAG ATGAAG -TCAATG -TCAGAG ATGAAG ATCAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAA-G ATGA-AG ATGAAG ATGAAG
* * *
24762633 ATCAAG ATGGAG GTGAAG ATGAAG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGA
24762661 TAAGCCAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
5 3 0.05
6 53 0.90
7 3 0.05
ACGTcount: A:0.45, C:0.05, G:0.32, T:0.18
Consensus pattern (6 bp):
ATGAAG
Found at i:24765777 original size:31 final size:30
Alignment explanation
Indices: 24765742--24765848 Score: 124
Period size: 31 Copynumber: 3.5 Consensus size: 30
24765732 TTCAAACTTC
*
24765742 AATATGAAAACAATTATCAAGTTTAAGCTTT
1 AATATGAAAACAATTATCAAGTTTAAG-TCT
*
24765773 AATATGAGAACAATTATCAAGTTTAAGTCT
1 AATATGAAAACAATTATCAAGTTTAAGTCT
* * * * *
24765803 AATATAAAAATAATTGTCAAGTTCAAATCT
1 AATATGAAAACAATTATCAAGTTTAAGTCT
*
24765833 CGATATGAAAACAATT
1 -AATATGAAAACAATT
24765849 GCTTAGTGCA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 26 0.41
31 38 0.59
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (30 bp):
AATATGAAAACAATTATCAAGTTTAAGTCT
Found at i:24767318 original size:140 final size:133
Alignment explanation
Indices: 24766949--24767331 Score: 437
Period size: 139 Copynumber: 2.8 Consensus size: 133
24766939 AAAACCCGAT
*
24766949 CACCATGTATTAATCTCAATATTTGTTTGGATTTTATGTTGATGTTTCGTCACTTATGTCTAAGA
1 CACCATGTATTAATCTCAATATTTGTTTGGATTTTATGTTGATGTTTTGTCACTTATGTCTAAGA
* * * *
24767014 TTCATTAAA-AGATCAATGTTCATTCATGTCTTGCTAATATAAGTGTCTGTGCAGTATAAAAATC
66 TTCATTAAAGAGATCAATGTTCATTCATAT-TTGCTAATATAAATGTCTGTGAAGTATAAAAACC
*
24767078 AATC
130 AAAC
** * *
24767082 TGCCATGTATTAATCTCAACATATTTGTTTGGATTTTATGTTGGTTTTTTTTTTGTCACTTATGT
1 CACCATGTATTAATCTC-A-ATATTTGTTTGGATTTTATGTT-G---ATGTTTTGTCACTTATGT
** * * * *
24767147 CTGTGATTCATT-ACGAGATCAATGTTTATTCATATATTGCTAGTATAAATGTCTGTGAAGTGTA
60 CTAAGATTCATTAAAGAGATCAATGTTCATTCATAT-TTGCTAATATAAATGTCTGTGAAGTAT-
24767211 AAAAACCAAAC
123 AAAAACCAAAC
* * *
24767222 CATCATGTATTTATCTCAATATGTCTGTTTGGATGTTTATGTTGATAGTTTTGTCAGTTATGTCT
1 CACCATGTATTAATCTCAATAT-T-TGTTTGGAT-TTTATGTTGAT-GTTTTGTCACTTATGTCT
* *
24767287 AACATTCATTAAAAGAGATCAATGCTCATTCATATTTGCTAATAT
62 AAGATTCATT-AAAGAGATCAATGTTCATTCATATTTGCTAATAT
24767332 TGCGATTTCG
Statistics
Matches: 205, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
133 15 0.07
134 1 0.00
135 22 0.11
136 1 0.00
137 1 0.00
138 28 0.14
139 77 0.38
140 52 0.25
141 8 0.04
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (133 bp):
CACCATGTATTAATCTCAATATTTGTTTGGATTTTATGTTGATGTTTTGTCACTTATGTCTAAGA
TTCATTAAAGAGATCAATGTTCATTCATATTTGCTAATATAAATGTCTGTGAAGTATAAAAACCA
AAC
Found at i:24767389 original size:21 final size:21
Alignment explanation
Indices: 24767365--24767404 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24767355 AGACCATGTA
24767365 ATGTGTTTGGATTTTATGTTG
1 ATGTGTTTGGATTTTATGTTG
* **
24767386 ATGTTTTTGTCTTTTATGT
1 ATGTGTTTGGATTTTATGT
24767405 CTAACATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.23, T:0.62
Consensus pattern (21 bp):
ATGTGTTTGGATTTTATGTTG
Found at i:24779783 original size:22 final size:19
Alignment explanation
Indices: 24779743--24779782 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
24779733 AGAGTCGTAG
24779743 TAATTAAAATAAAAATAAC
1 TAATTAAAATAAAAATAAC
*
24779762 TAATTAAAATAATAAT-AC
1 TAATTAAAATAAAAATAAC
24779780 TAA
1 TAA
24779783 CAATCAGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TAATTAAAATAAAAATAAC
Found at i:24787794 original size:3 final size:3
Alignment explanation
Indices: 24787786--24787834 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
24787776 AGATGATAAT
24787786 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24787834 A
1 A
24787835 AACAAATCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:24790122 original size:21 final size:21
Alignment explanation
Indices: 24790098--24790156 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
24790088 ATGTGAAAAT
* *
24790098 GTTCGCACAACATCTAAAAGA
1 GTTCGCATAACATATAAAAGA
* *
24790119 GTTCACATAGCATATAAAAGA
1 GTTCGCATAACATATAAAAGA
*
24790140 GTTTGCATAACATATAA
1 GTTCGCATAACATATAA
24790157 CTAGCTCGCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (21 bp):
GTTCGCATAACATATAAAAGA
Found at i:24792227 original size:72 final size:72
Alignment explanation
Indices: 24792145--24792292 Score: 201
Period size: 72 Copynumber: 2.1 Consensus size: 72
24792135 TTCCGGACTG
* * * *
24792145 TGTGTGTATACTGATTTGAGACAGAAGGGCTGGACACACGGACATG-CGTCAAACCT-TGTGTGC
1 TGTGTGTATACTAACTTGAGACAGAAGGGCTGGACACACGGACATGTC-CCAAA-CTGTGTATGC
24792208 ATACTGTTT
64 ATACTGTTT
* * *
24792217 TGTGTGTATACTAACTTGAGACATACGGGCTGGACACATGGACATGTCCCAAACTGTGTATGCAT
1 TGTGTGTATACTAACTTGAGACAGAAGGGCTGGACACACGGACATGTCCCAAACTGTGTATGCAT
24792282 ACTGTTT
66 ACTGTTT
24792289 TGTG
1 TGTG
24792293 ATTTAGTGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
71 2 0.03
72 64 0.96
73 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (72 bp):
TGTGTGTATACTAACTTGAGACAGAAGGGCTGGACACACGGACATGTCCCAAACTGTGTATGCAT
ACTGTTT
Found at i:24792742 original size:39 final size:39
Alignment explanation
Indices: 24792680--24792796 Score: 157
Period size: 39 Copynumber: 3.0 Consensus size: 39
24792670 ATCCATGTCG
24792680 AATGCAATACTGAACT-AGTAGTGACACTGTAAACACTGC
1 AATGCAATACTGAACTGA-TAGTGACACTGTAAACACTGC
* * * *
24792719 ATTGCAATACTGAACTGACAGTGACACTATAAACACTAC
1 AATGCAATACTGAACTGATAGTGACACTGTAAACACTGC
* *
24792758 AATGCAATATTGAACTGGTAGTGACAC-GTAAACACTGC
1 AATGCAATACTGAACTGATAGTGACACTGTAAACACTGC
24792796 A
1 A
24792797 CTACCTTACT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 10 0.15
39 56 0.84
40 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (39 bp):
AATGCAATACTGAACTGATAGTGACACTGTAAACACTGC
Found at i:24795330 original size:21 final size:22
Alignment explanation
Indices: 24795305--24795345 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24795295 TTTAAGAAAA
*
24795305 CACATTAGGGTTTAG-TTAAGT
1 CACATTAGGATTTAGCTTAAGT
24795326 CACATTAGGATTTAGCTTAA
1 CACATTAGGATTTAGCTTAA
24795346 TATTGTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (22 bp):
CACATTAGGATTTAGCTTAAGT
Found at i:24804142 original size:15 final size:16
Alignment explanation
Indices: 24804114--24804146 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24804104 TTAATAAACT
24804114 AAAAATTTAAGTATTG
1 AAAAATTTAAGTATTG
*
24804130 AAAAA-TTATGTATTG
1 AAAAATTTAAGTATTG
24804145 AA
1 AA
24804147 TTTTTACGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (16 bp):
AAAAATTTAAGTATTG
Found at i:24813086 original size:191 final size:188
Alignment explanation
Indices: 24812745--24813114 Score: 521
Period size: 191 Copynumber: 2.0 Consensus size: 188
24812735 TGCAAAATCG
24812745 GCATATATCTTTCATTGCAACACAAATGGTAAAATTAATTATTATTAAATATCGTTTAAATTGTA
1 GCATATATCTTTCATTGCAACACAAATGGTAAAATTAATTATTATTAAATATCGTTTAAATTGTA
* * *
24812810 ATAAATTAAATATTAAATTTTTTCATAAATAATAACGGGTTAAAAGATCGAATTGTCTGACCTTA
66 ATAAACTAAATATTAAATTTTTTCATAAATAATAACAGATTAAAAGATCGAATTGTCTGACCTTA
* *
24812875 CTTTAATTTAACTTTAGGTGTGTTGAACCCTCAAACCATCTCGCGCTTATGTTGACAT
131 CTTTAATTTAACTTTAGGTGTGTTGAACCCTCAAACCACCTCGCACTTATGTTGACAT
* * * * *
24812933 GCATATATCTTTCATTGCAACACAAATGGTAAAACTTGTTTATTTTTATTATATATTGTTTAGAT
1 GCATATATCTTTCATTGCAACACAAATGGTAAAA----TTAATTATTATTAAATATCGTTTAAAT
* * * *
24812998 TGTAATAAGCTAAATATT-AATTCTTTTCATAAATACTAATAGATT-AAAGATCGAATTGTTTGA
62 TGTAATAAACTAAATATTAAATT-TTTTCATAAATAATAACAGATTAAAAGATCGAATTGTCTGA
* *
24813061 -CTCTATTTTAATTTAACTTTAGGTGTGTTGGACCCTCAAACCACCTCGCACTTA
126 CCT-TACTTTAATTTAACTTTAGGTGTGTTGAACCCTCAAACCACCTCGCACTTA
24813115 CGGAGGGTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
188 34 0.21
190 2 0.01
191 68 0.43
192 56 0.35
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (188 bp):
GCATATATCTTTCATTGCAACACAAATGGTAAAATTAATTATTATTAAATATCGTTTAAATTGTA
ATAAACTAAATATTAAATTTTTTCATAAATAATAACAGATTAAAAGATCGAATTGTCTGACCTTA
CTTTAATTTAACTTTAGGTGTGTTGAACCCTCAAACCACCTCGCACTTATGTTGACAT
Found at i:24814057 original size:34 final size:34
Alignment explanation
Indices: 24814019--24814085 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
24814009 TTTTTAAATA
*
24814019 AATTT-GAGTTTAT-TTTAAATTCAAATTCATTTTG
1 AATTTGGA-TTTATCTTAAAATT-AAATTCATTTTG
*
24814053 AATTTGGATTTATCTTAAAATTAAATTTATTTT
1 AATTTGGATTTATCTTAAAATTAAATTCATTTT
24814086 TAAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 20 0.69
35 9 0.31
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (34 bp):
AATTTGGATTTATCTTAAAATTAAATTCATTTTG
Found at i:24814082 original size:17 final size:17
Alignment explanation
Indices: 24814060--24814095 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24814050 TTGAATTTGG
24814060 ATTTATCTTAAAATTAA
1 ATTTATCTTAAAATTAA
* *
24814077 ATTTATTTTTAAATTAA
1 ATTTATCTTAAAATTAA
24814094 AT
1 AT
24814096 AATAAGAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATCTTAAAATTAA
Found at i:24814921 original size:29 final size:29
Alignment explanation
Indices: 24814838--24815211 Score: 120
Period size: 29 Copynumber: 12.9 Consensus size: 29
24814828 CTCTTTAGGT
*
24814838 CCCTAAA-TTATCCAAAAATTACATTTTAAC
1 CCCTAAACTT-TCC-AAAATTACATTTTTAC
** *
24814868 CCAAAAACTTCCCAAAATTACATTTTTAC
1 CCCTAAACTTTCCAAAATTACATTTTTAC
24814897 CCCTAAACTTTCCAAAATT-CTATTTTTGA-
1 CCCTAAACTTTCCAAAATTAC-ATTTTT-AC
**
24814926 -CCTCGA-TTTCACCAAAAATTACCA-TTTTA-
1 CCCTAAACTTT--CC-AAAATTA-CATTTTTAC
* * * * *
24814955 TCGTCGAACTTTCCAAAATTCCATTTTGA-
1 CCCT-AAACTTTCCAAAATTACATTTTTAC
* *
24814984 CCCT-GA-TTTCACAAAAAATTACATTTTTGC
1 CCCTAAACTTTC-C--AAAATTACATTTTTAC
** *
24815014 CCCCGAACTTTCCAAAATTCCATTTTTA-
1 CCCTAAACTTTCCAAAATTACATTTTTAC
* * *
24815042 ACCTCAATTTTACCAAAAATTACCA-TTTTAC
1 CCCTAAACTTT-CC-AAAATTA-CATTTTTAC
* * * *
24815073 CCCTGAACTTTTCAAAACTCCATTTTTA-
1 CCCTAAACTTTCCAAAATTACATTTTTAC
* ** * *
24815101 ACCTCGATTTTACCCAAAATTCCA-TTTTAC
1 CCCTAAACTTT--CCAAAATTACATTTTTAC
*
24815131 CCC-AAACTTTCCAAAATTCCATTTTTGAC
1 CCCTAAACTTTCCAAAATTACATTTTT-AC
* *
24815160 CTCT--ATTTTACCAAAATTACCA-TTTTAC
1 CCCTAAACTTT-CCAAAATTA-CATTTTTAC
* * * *
24815188 CTC-GAACTTTCTAAAATTCCATTT
1 CCCTAAACTTTCCAAAATTACATTT
24815212 CTGACCCCGA
Statistics
Matches: 259, Mismatches: 51, Indels: 70
0.68 0.13 0.18
Matches are distributed among these distances:
26 4 0.02
27 18 0.07
28 45 0.17
29 118 0.46
30 50 0.19
31 16 0.06
32 8 0.03
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAATTACATTTTTAC
Found at i:24815152 original size:57 final size:58
Alignment explanation
Indices: 24814881--24815243 Score: 421
Period size: 59 Copynumber: 6.2 Consensus size: 58
24814871 AAAACTTCCC
* * * *
24814881 AAAATTA-CATTTTTACCCCTAAACTTTCCAAAATTCTATTTTTGACCTCGATTTCACCA
1 AAAATTACCA-TTTTACCCC-GAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
** * * * *
24814940 AAAATTACCATTTTATCGTCGAACTTTCCAAAATTCCATTTTGACCCT-GATTTCACAA
1 AAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
* *
24814998 AAAATTA-CATTTTTGCCCCCGAACTTTCCAAAATTCCATTTTTAACCTCAATTTTACCA
1 AAAATTACCA-TTTT-ACCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
* * *
24815057 AAAATTACCATTTTACCCCTGAACTTTTCAAAACTCCATTTTTAACCTCGATTTTACCC
1 AAAATTACCATTTTACCCC-GAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
* * *
24815116 AAAATT-CCATTTTACCCCAAACTTTCCAAAATTCCATTTTTGACCTCTATTTTACC-
1 AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
* * * * *
24815172 AAAATTACCATTTTACCTCGAACTTTCTAAAATTCCATTTCTGACCCCGATTTTACCA
1 AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
*
24815230 AAAATTACCGTTTT
1 AAAATTACCATTTT
24815244 GCCCTTAAAA
Statistics
Matches: 262, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
56 6 0.02
57 79 0.30
58 77 0.29
59 94 0.36
60 6 0.02
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCA
Found at i:24819777 original size:17 final size:17
Alignment explanation
Indices: 24819755--24819796 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
24819745 TCTAAAAAAT
*
24819755 TTTAAACTTAATATAAA
1 TTTAAACTTAAAATAAA
*
24819772 TTTAAATTTAAAATAAA
1 TTTAAACTTAAAATAAA
*
24819789 TATAAACT
1 TTTAAACT
24819797 AAATGTCTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAAACTTAAAATAAA
Found at i:24820231 original size:26 final size:26
Alignment explanation
Indices: 24820191--24820250 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
24820181 CCATCTTTGA
*
24820191 AAATCCAATACACGAACCCTGTTCTTG
1 AAAT-CAATACACGAACCCTGTTCTAG
* *
24820218 AAATCAATACACGAACTCTTTTCTAG
1 AAATCAATACACGAACCCTGTTCTAG
24820244 AAATCAA
1 AAATCAA
24820251 CACAAGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (26 bp):
AAATCAATACACGAACCCTGTTCTAG
Found at i:24820582 original size:3 final size:3
Alignment explanation
Indices: 24820568--24820645 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
24820558 TATTTTCAGA
* * ** **
24820568 AAT AAC AAT AAT AAT AAT AAT AAAT ATT TTT GGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
24820614 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24820646 AAGATTCGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:24820590 original size:34 final size:34
Alignment explanation
Indices: 24820548--24820624 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 34
24820538 TGCACCTTTT
*
24820548 TAATAATAACTATTTTCAGAAATAACAATAATAA
1 TAATAATAAATATTTTCAGAAATAACAATAATAA
** * *
24820582 TAATAATAAATATTTTTGGTAATAATAATAATAA
1 TAATAATAAATATTTTCAGAAATAACAATAATAA
24820616 TAATAATAA
1 TAATAATAA
24820625 TAATAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (34 bp):
TAATAATAAATATTTTCAGAAATAACAATAATAA
Found at i:24821731 original size:90 final size:89
Alignment explanation
Indices: 24821576--24821747 Score: 220
Period size: 90 Copynumber: 1.9 Consensus size: 89
24821566 ATAGGTCCCT
* * * * * *
24821576 AAACTGTCCAAAAATTATATTTTAACCCCAAAACTTTCTAAAAATTATATTTTAATCCTCGAACT
1 AAACTGTCCAAAAATTACATTTTAACCCCAAAACTTCCCAAAAATTACATTTTAACCCTCAAACT
24821641 TCTCCAAAATTATATTTTAACCTCA
66 T-TCCAAAATTATATTTTAACCTCA
* * * *
24821666 AAACTTTCTAAAAATTACATTTTAACCCCTAAACTTCCCAAAAATTACCA-TTTAACCCTTAAAC
1 AAACTGTCCAAAAATTACATTTTAACCCCAAAACTTCCCAAAAATTA-CATTTTAACCCTCAAAC
*
24821730 TTTCCAAAATTCTATTTT
65 TTTCCAAAATTATATTTT
24821748 TGACCTTAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
89 15 0.21
90 54 0.77
91 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.37
Consensus pattern (89 bp):
AAACTGTCCAAAAATTACATTTTAACCCCAAAACTTCCCAAAAATTACATTTTAACCCTCAAACT
TTCCAAAATTATATTTTAACCTCA
Found at i:24821766 original size:59 final size:58
Alignment explanation
Indices: 24821685--24821871 Score: 198
Period size: 59 Copynumber: 3.2 Consensus size: 58
24821675 AAAAATTACA
*
24821685 TTTTAACCCCTAAACTTC-CCAAAAATTACCATTTAACCCTTAAACTTTCCAAAATTCTAT
1 TTTTAACCCC--AATTTCACCAAAAATTACCATTT-ACCCTTAAACTTTCCAAAATTCTAT
* ** * * * *
24821745 TTTTGACCTTAATTTTACCAAAAATTACCACTCTACCCCTGAACTTTCCAAAATT-TCAT
1 TTTTAACCCCAATTTCACCAAAAATTACCA-TTTACCCTTAAACTTTCCAAAATTCT-AT
* ** *
24821804 TTTTAACCCCGATTTCACCAAAAATTATAATTTTACCCTCAAACTTTCCAAAATTCTAT
1 TTTTAACCCCAATTTCACCAAAAATTACCA-TTTACCCTTAAACTTTCCAAAATTCTAT
24821863 TTTTAACCC
1 TTTTAACCC
24821872 AAAATTTTCC
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
58 5 0.05
59 88 0.85
60 10 0.10
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (58 bp):
TTTTAACCCCAATTTCACCAAAAATTACCATTTACCCTTAAACTTTCCAAAATTCTAT
Found at i:24821855 original size:30 final size:30
Alignment explanation
Indices: 24821572--24821895 Score: 187
Period size: 30 Copynumber: 10.9 Consensus size: 30
24821562 CTCTATAGGT
*
24821572 CCCT-AAACTGTCCAAAAATTATATTTTAA
1 CCCTCAAACTTTCCAAAAATTATATTTTAA
*
24821601 CCC-CAAAACTTTCTAAAAATTATATTTTAA
1 CCCTC-AAACTTTCCAAAAATTATATTTTAA
* *
24821631 TCCTCGAACTTCTCC-AAAATTATATTTTAA
1 CCCTCAAACTT-TCCAAAAATTATATTTTAA
* *
24821661 -CCTCAAAACTTTCTAAAAATTACATTTTAA
1 CCCTC-AAACTTTCCAAAAATTATATTTTAA
* *
24821691 CCC-CTAAACTTCCCAAAAATTACCA-TTTAA
1 CCCTC-AAACTTTCCAAAAATTA-TATTTTAA
* * *
24821721 CCCTTAAACTTTCC-AAAATTCTATTTTTGA
1 CCCTCAAACTTTCCAAAAATTATA-TTTTAA
* * * * * *
24821751 -CCT-TAATTTTACCAAAAATTACCACTCTAC
1 CCCTCAAACTTT-CCAAAAATTA-TATTTTAA
* *
24821781 CCCT-GAACTTTCCAAAATTTCAT-TTTTAA
1 CCCTCAAACTTTCCAAAAATT-ATATTTTAA
*
24821810 CCC-C-GA-TTTCACCAAAAATTATAATTTT-A
1 CCCTCAAACTTT--CCAAAAATTAT-ATTTTAA
*
24821839 CCCTCAAACTTTCC-AAAATTCTATTTTTAA
1 CCCTCAAACTTTCCAAAAATTATA-TTTTAA
* * * *
24821869 CCC-AAAATTTTCCCAAAATTACATTTT
1 CCCTCAAACTTTCCAAAAATTATATTTT
24821896 TGCCACCTGG
Statistics
Matches: 229, Mismatches: 39, Indels: 54
0.71 0.12 0.17
Matches are distributed among these distances:
27 3 0.01
28 10 0.04
29 61 0.27
30 134 0.59
31 18 0.08
32 3 0.01
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATTATATTTTAA
Found at i:24821887 original size:59 final size:59
Alignment explanation
Indices: 24821572--24821895 Score: 195
Period size: 59 Copynumber: 5.5 Consensus size: 59
24821562 CTCTATAGGT
* * * * *
24821572 CCCTAAACTGTCCAAAAATTA-TATTTTAACCC-CAAAACTTTCTAAAAAT-TATATTTTAA
1 CCCTAAA-TTTCCCAAAATTACCATTTT-ACCCTCAAAACTTTCCAAAATTCTAT-TTTTAA
* * * * * *
24821631 TCCTCGAACTTCTCCAAAATTA-TATTTTAACCTCAAAACTTTCTAAAAATTAC-A-TTTTAA
1 CCCT-AAATTTC-CCAAAATTACCATTTTACCCTCAAAACTTTC-CAAAATT-CTATTTTTAA
* * * *
24821691 CCCCTAAACTTCCCAAAAATTACCATTTAACCCT-TAAACTTTCCAAAATTCTATTTTTGA
1 -CCCTAAATTTCCC-AAAATTACCATTTTACCCTCAAAACTTTCCAAAATTCTATTTTTAA
* * * * * **
24821751 CCTTAATTTTACCAAAAATTACCACTCTACCC-CTGAACTTTCCAAAATT-TCATTTTTAA
1 CCCTAAATTT-CCCAAAATTACCATTTTACCCTCAAAACTTTCCAAAATTCT-ATTTTTAA
** **
24821810 CCC-CGATTTCACCAAAAATTATAATTTTACCCTC-AAACTTTCCAAAATTCTATTTTTAA
1 CCCTAAATTTC-CC-AAAATTACCATTTTACCCTCAAAACTTTCCAAAATTCTATTTTTAA
*
24821869 CCCAAAATTTTCCCAAAATTA-CATTTT
1 CCCTAAA-TTTCCCAAAATTACCATTTT
24821896 TGCCACCTGG
Statistics
Matches: 207, Mismatches: 38, Indels: 41
0.72 0.13 0.14
Matches are distributed among these distances:
57 1 0.00
58 11 0.05
59 109 0.53
60 65 0.31
61 20 0.10
62 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (59 bp):
CCCTAAATTTCCCAAAATTACCATTTTACCCTCAAAACTTTCCAAAATTCTATTTTTAA
Found at i:24825575 original size:841 final size:841
Alignment explanation
Indices: 24823954--24826477 Score: 4985
Period size: 841 Copynumber: 3.0 Consensus size: 841
24823944 CAGATATTTT
*
24823954 ATCAAGATTATGGAGATCTACCTTACCTGCTGGAAGTAAAGATCGACAAGCACCTTTTTCGAGCC
1 ATCAAGATTATGGAGATCTACCTTACCTGCTGGAAGTAAAGATCGACAAGCACCTTTTCCGAGCC
* * *
24824019 TTTACTCAACACTGGAACCCAGCATATAATTGCTCCACCTTTGGACAACTGGACTTGACACCCAC
66 TTTACTCAACACTGGAACCCAGCATATAGTTGCTCCACCTTTGGGCACCTGGACTTGACACCCAC
*
24824084 GATAGAAGAATATACCGTTTTAATTCGCTGTCCTAGGATCCAAGTCGATAAAGCATATTCGAAAG
131 GATAGAAGAATATATCGTTTTAATTCGCTGTCCTAGGATCCAAGTCGATAAAGCATATTCGAAAG
24824149 ATGCGAGTGTTCCAACATTTCTGAAGAGATTGATGAGTGTAACAGGGATGAGCGAACAATGGGTC
196 ATGCGAGTGTTCCAACATTTCTGAAGAGATTGATGAGTGTAACAGGGATGAGCGAACAATGGGTC
24824214 GCTTCTCGGATAAAAGTGAAAGGAGACAACAGGCGCATCACTTGGAAGAGTTTGCGAGACCTGAT
261 GCTTCTCGGATAAAAGTGAAAGGAGACAACAGGCGCATCACTTGGAAGAGTTTGCGAGACCTGAT
24824279 TGCGACACATCTAGATATGAGGAGACGCATTGACAACTTCGCCCTCGGTATATACGGGTTGGTCT
326 TGCGACACATCTAGATATGAGGAGACGCATTGACAACTTCGCCCTCGGTATATACGGGTTGGTCT
24824344 TGTTCCCGAAAGCATTGGGGCACGTAGAGGATGCGGTGGTAGTGTTGTTCGATCGACTCAGTAGA
391 TGTTCCCGAAAGCATTGGGGCACGTAGAGGATGCGGTGGTAGTGTTGTTCGATCGACTCAGTAGA
24824409 AGAATCATCCTTGCAGAAACTTTCCGTTCGTTGAGTGCTTGTCGGAGAGAAGGAGAAGGAAGATT
456 AGAATCATCCTTGCAGAAACTTTCCGTTCGTTGAGTGCTTGTCGGAGAGAAGGAGAAGGAAGATT
24824474 TATCGGTTGCACGCAGCTTTTGATGGTTTGGTTTCACAGCCATTTCTGGAAAGTGGAGAAATTTT
521 TATCGGTTGCACGCAGCTTTTGATGGTTTGGTTTCACAGCCATTTCTGGAAAGTGGAGAAATTTT
24824539 CTTGTAAGGTATTCTCAACTGACTTCTCGCCTCTATAGAATTTTGTGGCTACGCAACAAGAACAA
586 CTTGTAAGGTATTCTCAACTGACTTCTCGCCTCTATAGAATTTTGTGGCTACGCAACAAGAACAA
24824604 AAAGTATCTGAAGAAAAGTGGGCGGCTATCCTCCAGAATCTCCAAGACGAGGACATCGAATAGTG
651 AAAGTATCTGAAGAAAAGTGGGCGGCTATCCTCCAGAATCTCCAAGACGAGGACATCGAATAGTG
24824669 CGCACCTTGGTTTCTTCCAAACGAGATCCTTTACCGCTGTGACGACTTCGATTGGGTCCCGTTAC
716 CGCACCTTGGTTTCTTCCAAACGAGATCCTTTACCGCTGTGACGACTTCGATTGGGTCCCGTTAC
24824734 TCGGAGTATGGGGTACCACTGGGTATGCTCCTCTGCTCGTCTTGAGATAGTACAAGACAAG
781 TCGGAGTATGGGGTACCACTGGGTATGCTCCTCTGCTCGTCTTGAGATAGTACAAGACAAG
24824795 ATCAAGATTATGGAGATCTACCTTACCTGCTGGAAGTAAAGATCGACAAGCACCTTTTCCGAGCC
1 ATCAAGATTATGGAGATCTACCTTACCTGCTGGAAGTAAAGATCGACAAGCACCTTTTCCGAGCC
24824860 TTTACTCAACACTGGAACCCAGCATATAGTTGCTCCACCTTTGGGCACCTGGACTTGACACCCAC
66 TTTACTCAACACTGGAACCCAGCATATAGTTGCTCCACCTTTGGGCACCTGGACTTGACACCCAC
24824925 GATAGAAGAATATATCGTTTTAATTCGCTGTCCTAGGATCCAAGTCGATAAAGCATATTCGAAAG
131 GATAGAAGAATATATCGTTTTAATTCGCTGTCCTAGGATCCAAGTCGATAAAGCATATTCGAAAG
24824990 ATGCGAGTGTTCCAACATTTCTGAAGAGATTGATGAGTGTAACAGGGATGAGCGAACAATGGGTC
196 ATGCGAGTGTTCCAACATTTCTGAAGAGATTGATGAGTGTAACAGGGATGAGCGAACAATGGGTC
24825055 GCTTCTCGGATAAAAGTGAAAGGAGACAACAGGCGCATCACTTGGAAGAGTTTGCGAGACCTGAT
261 GCTTCTCGGATAAAAGTGAAAGGAGACAACAGGCGCATCACTTGGAAGAGTTTGCGAGACCTGAT
24825120 TGCGACACATCTAGATATGAGGAGACGCATTGACAACTTCGCCCTCGGTATATACGGGTTGGTCT
326 TGCGACACATCTAGATATGAGGAGACGCATTGACAACTTCGCCCTCGGTATATACGGGTTGGTCT
24825185 TGTTCCCGAAAGCATTGGGGCACGTAGAGGATGCGGTGGTAGTGTTGTTCGATCGACTCAGTAGA
391 TGTTCCCGAAAGCATTGGGGCACGTAGAGGATGCGGTGGTAGTGTTGTTCGATCGACTCAGTAGA
24825250 AGAATCATCCTTGCAGAAACTTTCCGTTCGTTGAGTGCTTGTCGGAGAGAAGGAGAAGGAAGATT
456 AGAATCATCCTTGCAGAAACTTTCCGTTCGTTGAGTGCTTGTCGGAGAGAAGGAGAAGGAAGATT
24825315 TATCGGTTGCACGCAGCTTTTGATGGTTTGGTTTCACAGCCATTTCTGGAAAGTGGAGAAATTTT
521 TATCGGTTGCACGCAGCTTTTGATGGTTTGGTTTCACAGCCATTTCTGGAAAGTGGAGAAATTTT
24825380 CTTGTAAGGTATTCTCAACTGACTTCTCGCCTCTATAGAATTTTGTGGCTACGCAACAAGAACAA
586 CTTGTAAGGTATTCTCAACTGACTTCTCGCCTCTATAGAATTTTGTGGCTACGCAACAAGAACAA
24825445 AAAGTATCTGAAGAAAAGTGGGCGGCTATCCTCCAGAATCTCCAAGACGAGGACATCGAATAGTG
651 AAAGTATCTGAAGAAAAGTGGGCGGCTATCCTCCAGAATCTCCAAGACGAGGACATCGAATAGTG
24825510 CGCACCTTGGTTTCTTCCAAACGAGATCCTTTACCGCTGTGACGACTTCGATTGGGTCCCGTTAC
716 CGCACCTTGGTTTCTTCCAAACGAGATCCTTTACCGCTGTGACGACTTCGATTGGGTCCCGTTAC
24825575 TCGGAGTATGGGGTACCACTGGGTATGCTCCTCTGCTCGTCTTGAGATAGTACAAGACAAG
781 TCGGAGTATGGGGTACCACTGGGTATGCTCCTCTGCTCGTCTTGAGATAGTACAAGACAAG
24825636 ATCAAGATTATGGAGATCTACCTTACCTGCTGGAAGTAAAGATCGACAAGCACCTTTTCCGAGCC
1 ATCAAGATTATGGAGATCTACCTTACCTGCTGGAAGTAAAGATCGACAAGCACCTTTTCCGAGCC
24825701 TTTACTCAACACTGGAACCCAGCATATAGTTGCTCCACCTTTGGGCACCTGGACTTGACACCCAC
66 TTTACTCAACACTGGAACCCAGCATATAGTTGCTCCACCTTTGGGCACCTGGACTTGACACCCAC
24825766 GATAGAAGAATATATCGTTTTAATTCGCTGTCCTAGGATCCAAGTCGATAAAGCATATTCGAAAG
131 GATAGAAGAATATATCGTTTTAATTCGCTGTCCTAGGATCCAAGTCGATAAAGCATATTCGAAAG
24825831 ATGCGAGTGTTCCAACATTTCTGAAGAGATTGATGAGTGTAACAGGGATGAGCGAACAATGGGTC
196 ATGCGAGTGTTCCAACATTTCTGAAGAGATTGATGAGTGTAACAGGGATGAGCGAACAATGGGTC
*
24825896 GCTTCTCGGATAAAAGTGAAAGGAGAAAACAGGCGCATCACTTGGAAGAGTTTGCGAGACCTGAT
261 GCTTCTCGGATAAAAGTGAAAGGAGACAACAGGCGCATCACTTGGAAGAGTTTGCGAGACCTGAT
24825961 TGCGACACATCTAGATATGAGGAGACGCATTGACAACTTCGCCCTCGGTATATACGGGTTGGTCT
326 TGCGACACATCTAGATATGAGGAGACGCATTGACAACTTCGCCCTCGGTATATACGGGTTGGTCT
24826026 TGTTCCCGAAAGCATTGGGGCACGTAGAGGATGCGGTGGTAGTGTTGTTCGATCGACTCAGTAGA
391 TGTTCCCGAAAGCATTGGGGCACGTAGAGGATGCGGTGGTAGTGTTGTTCGATCGACTCAGTAGA
24826091 AGAATCATCCTTGCAGAAACTTTCCGTTCGTTGAGTGCTTGTCGGAGAGAAGGAGAAGGAAGATT
456 AGAATCATCCTTGCAGAAACTTTCCGTTCGTTGAGTGCTTGTCGGAGAGAAGGAGAAGGAAGATT
24826156 TATCGGTTGCACGCAGCTTTTGATGGTTTGGTTTCACAGCCATTTCTGGAAAGTGGAGAAATTTT
521 TATCGGTTGCACGCAGCTTTTGATGGTTTGGTTTCACAGCCATTTCTGGAAAGTGGAGAAATTTT
24826221 CTTGTAAGGTATTCTCAACTGACTTCTCGCCTCTATAGAATTTTGTGGCTACGCAACAAGAACAA
586 CTTGTAAGGTATTCTCAACTGACTTCTCGCCTCTATAGAATTTTGTGGCTACGCAACAAGAACAA
24826286 AAAGTATCTGAAGAAAAGTGGGCGGCTATCCTCCAGAATCTCCAAGACGAGGACATCGAATAGTG
651 AAAGTATCTGAAGAAAAGTGGGCGGCTATCCTCCAGAATCTCCAAGACGAGGACATCGAATAGTG
24826351 CGCACCTTGGTTTCTTCCAAACGAGATCCTTTACCGCTGTGACGACTTCGATTGGGTCCCGTTAC
716 CGCACCTTGGTTTCTTCCAAACGAGATCCTTTACCGCTGTGACGACTTCGATTGGGTCCCGTTAC
*
24826416 TCGGAGTATGGGGTGCCACTGGGTATGCTCCTCTGCTCGTCTTGAGATAGTACAAGACAAG
781 TCGGAGTATGGGGTACCACTGGGTATGCTCCTCTGCTCGTCTTGAGATAGTACAAGACAAG
24826477 A
1 A
24826478 CAGTTTATCC
Statistics
Matches: 1676, Mismatches: 7, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
841 1676 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (841 bp):
ATCAAGATTATGGAGATCTACCTTACCTGCTGGAAGTAAAGATCGACAAGCACCTTTTCCGAGCC
TTTACTCAACACTGGAACCCAGCATATAGTTGCTCCACCTTTGGGCACCTGGACTTGACACCCAC
GATAGAAGAATATATCGTTTTAATTCGCTGTCCTAGGATCCAAGTCGATAAAGCATATTCGAAAG
ATGCGAGTGTTCCAACATTTCTGAAGAGATTGATGAGTGTAACAGGGATGAGCGAACAATGGGTC
GCTTCTCGGATAAAAGTGAAAGGAGACAACAGGCGCATCACTTGGAAGAGTTTGCGAGACCTGAT
TGCGACACATCTAGATATGAGGAGACGCATTGACAACTTCGCCCTCGGTATATACGGGTTGGTCT
TGTTCCCGAAAGCATTGGGGCACGTAGAGGATGCGGTGGTAGTGTTGTTCGATCGACTCAGTAGA
AGAATCATCCTTGCAGAAACTTTCCGTTCGTTGAGTGCTTGTCGGAGAGAAGGAGAAGGAAGATT
TATCGGTTGCACGCAGCTTTTGATGGTTTGGTTTCACAGCCATTTCTGGAAAGTGGAGAAATTTT
CTTGTAAGGTATTCTCAACTGACTTCTCGCCTCTATAGAATTTTGTGGCTACGCAACAAGAACAA
AAAGTATCTGAAGAAAAGTGGGCGGCTATCCTCCAGAATCTCCAAGACGAGGACATCGAATAGTG
CGCACCTTGGTTTCTTCCAAACGAGATCCTTTACCGCTGTGACGACTTCGATTGGGTCCCGTTAC
TCGGAGTATGGGGTACCACTGGGTATGCTCCTCTGCTCGTCTTGAGATAGTACAAGACAAG
Found at i:24835926 original size:201 final size:200
Alignment explanation
Indices: 24835580--24836245 Score: 1154
Period size: 200 Copynumber: 3.3 Consensus size: 200
24835570 GGAGTAGTTC
* * * *
24835580 AACGCTCAATGCGAGCAAATCGTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCAAAG
1 AACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
* * * *
24835645 CAATAAAATGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATCCGTCTTCCTAAGAAGA
66 CAATAAAA-GGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGA
24835710 TCCAGAGAAGCGAATTAAAACAATCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGGATACC
130 TCCAGAGAAGCGAATTAAAACAATCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGGATACC
24835775 AACTCAA
195 AACTC-A
24835782 AACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
1 AACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
24835847 CAATAAAAGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGAT
66 CAATAAAAGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGAT
*
24835912 CCAGAGAAGCGAATTAAAACAATCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAAGATACCA
131 CCAGAGAAGCGAATTAAAACAATCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGGATACCA
24835977 ACTCA
196 ACTCA
* *
24835982 AACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATAAGACACTGAGAAGCAGGCCGAAG
1 AACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
*
24836047 CAATAAAAGGTTAGCTTCCTAATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGAT
66 CAATAAAAGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGAT
* * * *
24836112 CCAGAGAAACGAATTAAAACAAACGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGAATACCA
131 CCAGAGAAGCGAATTAAAACAATCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGGATACCA
24836177 ACTC-
196 ACTCA
*
24836181 AACGCTCAACGCGAGCCAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
1 AACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
24836246 TCAACAAACT
Statistics
Matches: 444, Mismatches: 20, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
199 62 0.14
200 192 0.43
201 121 0.27
202 69 0.16
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (200 bp):
AACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
CAATAAAAGGTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGAT
CCAGAGAAGCGAATTAAAACAATCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGGATACCA
ACTCA
Found at i:24836655 original size:17 final size:17
Alignment explanation
Indices: 24836633--24836667 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24836623 TCTACAAAAT
*
24836633 TTTAAAGTTAATATAAA
1 TTTAAAGTTAAAATAAA
*
24836650 TTTAAATTTAAAATAAA
1 TTTAAAGTTAAAATAAA
24836667 T
1 T
24836668 ATACACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTAAAGTTAAAATAAA
Found at i:24837124 original size:26 final size:26
Alignment explanation
Indices: 24837069--24837128 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
24837059 CTATCTTTGA
**
24837069 AAATCCAATACACGAACCCTGTTCTTG
1 AAAT-CAATACACGAACCCTGTTCCAG
* *
24837096 AAATCAATACACGAACTCTTTTCCAG
1 AAATCAATACACGAACCCTGTTCCAG
24837122 AAATCAA
1 AAATCAA
24837129 CACAAGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (26 bp):
AAATCAATACACGAACCCTGTTCCAG
Found at i:24837499 original size:18 final size:18
Alignment explanation
Indices: 24837456--24837501 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
24837446 AATAACAATA
*
24837456 ATAATAATAAATATTTTT
1 ATAATAATAAATATTTTG
*
24837474 ATATTAATAAATATTTTG
1 ATAATAATAAATATTTTG
*
24837492 GTAATAATAA
1 ATAATAATAA
24837502 TAATAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (18 bp):
ATAATAATAAATATTTTG
Found at i:24838386 original size:17 final size:18
Alignment explanation
Indices: 24838343--24838388 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
24838333 TAAGTTTTTC
*
24838343 TAAAATTTAAACTTAATAA
1 TAAAA-TTAAATTTAATAA
*
24838362 -AAATTTAAATTTAA-AA
1 TAAAATTAAATTTAATAA
24838378 TAAAATTAAAT
1 TAAAATTAAAT
24838389 GTCCAGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 18 0.78
18 3 0.13
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATTAAATTTAATAA
Found at i:24838561 original size:28 final size:28
Alignment explanation
Indices: 24838530--24838795 Score: 87
Period size: 29 Copynumber: 9.1 Consensus size: 28
24838520 CGAACTTTCT
* *
24838530 AAAATCCCATTTTTAACCCGATGTCACC
1 AAAATACCATTTTTAACCCGATCTCACC
* * *
24838558 AAAAATTACCA-TTTTACCCCTGAACT-TCC
1 -AAAA-TACCATTTTTAACCC-GATCTCACC
* *
24838587 AAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATACCATTTTTAA-CCCGATCTCACC
* * **
24838616 AAAAACTACCA-TTTTACCCCCGAACTTTCC
1 -AAAA-TACCATTTTTA-ACCCGATCTCACC
* * *
24838646 AAAATTCCA-TTTTAACCTCGATTTTACC
1 AAAATACCATTTTTAACC-CGATCTCACC
* * **
24838674 AAAAATTACCA-TTTT-ACCCTTAAACTTTCC
1 -AAAA-TACCATTTTTAACCC--GATCTCACC
* * *
24838704 AAAATTCCATTTTTAACCCTGATTTCATCG
1 AAAATACCATTTTTAACCC-GATCTCA-CC
* * **
24838734 AAAATTACCA-TTTTACCCTCGAACTTTCC
1 AAAA-TACCATTTTTAACC-CGATCTCACC
* *
24838763 AAAATTCCATTTTTAACCTCGATTTCACC
1 AAAATACCATTTTTAACC-CGATCTCACC
24838792 AAAA
1 AAAA
24838796 AGTATATTTT
Statistics
Matches: 172, Mismatches: 46, Indels: 38
0.67 0.18 0.15
Matches are distributed among these distances:
27 6 0.03
28 37 0.22
29 64 0.37
30 56 0.33
31 9 0.05
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAATACCATTTTTAACCCGATCTCACC
Found at i:24838608 original size:58 final size:59
Alignment explanation
Indices: 24838500--24838873 Score: 508
Period size: 59 Copynumber: 6.4 Consensus size: 59
24838490 CAAAACTTCA
* * *
24838500 AAAAATTACCATTTTACCCCCGAACTTTCTAAAATCCCATTTTTAA-CCCGATGTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
*
24838558 AAAAATTACCATTTTACCCCTGAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
24838616 AAAAACTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCTCGATTTTACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
*** * *
24838674 AAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCATC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
24838733 GAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
24838792 AAAAAGTA-TATTTTGACCCCCGAACTTTCCAAAATAT-CAATTTTAACCCCGATTTCACC
1 AAAAATTACCATTTT-ACCCCCGAACTTTCCAAAAT-TCCATTTTTAACCCCGATTTCACC
**
24838851 -AAAATTATGATTTTACCCCCGAA
1 AAAAATTACCATTTTACCCCCGAA
24838874 AGTCAAAAAT
Statistics
Matches: 280, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
57 18 0.06
58 130 0.46
59 131 0.47
60 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:24838747 original size:59 final size:59
Alignment explanation
Indices: 24838500--24838873 Score: 485
Period size: 58 Copynumber: 6.4 Consensus size: 59
24838490 CAAAACTTCA
* * *
24838500 AAAAATTACCATTTTACCCCCGAACTTTCTAAAATCCCATTTTTAACCC-GATGTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
* *
24838558 AAAAATTACCATTTTACCCCTGAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
* *
24838616 AAAAACTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAA-CCTCGATTTTACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCT-GATTTCACC
*** *
24838674 AAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCATC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
* *
24838733 GAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCT-GATTTCACC
* * * *
24838792 AAAAAGTA-TATTTTGACCCCCGAACTTTCCAAAATAT-CAATTTTAACCCCGATTTCACC
1 AAAAATTACCATTTT-ACCCCCGAACTTTCCAAAAT-TCCATTTTTAACCCTGATTTCACC
**
24838851 -AAAATTATGATTTTACCCCCGAA
1 AAAAATTACCATTTTACCCCCGAA
24838874 AGTCAAAAAT
Statistics
Matches: 280, Mismatches: 26, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
57 23 0.08
58 127 0.45
59 124 0.44
60 6 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
Found at i:24838891 original size:117 final size:117
Alignment explanation
Indices: 24838501--24838873 Score: 531
Period size: 117 Copynumber: 3.2 Consensus size: 117
24838491 AAAACTTCAA
* * *
24838501 AAAATTACCATTTTACCCCCGAACTTTCTAAAATCCCATTTTTAACC-CGATGTCACCAAAAATT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
24838565 ACCATTTTACCCCTGAAC-TTCCAAAATTCCATTTTTAACCCCGATTTCACC
66 ACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
24838616 AAAAACTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCTCGATTTTACCAAAAAT
1 -AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAAT
* * * *
24838680 TACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCATCG
65 TACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA-CC
* *
24838734 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAAGT
1 AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
* * *
24838799 A-TATTTTGACCCCCGAACTTTCCAAAATAT-CAATTTTAACCCCGATTTCACC
66 ACCATTTT-ACCCCTGAACTTTCCAAAAT-TCCATTTTTAACCCCGATTTCACC
**
24838851 AAAATTATGATTTTACCCCCGAA
1 AAAATTACCATTTTACCCCCGAA
24838874 AGTCAAAAAT
Statistics
Matches: 228, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
115 8 0.04
116 66 0.29
117 92 0.40
118 61 0.27
119 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.34
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATT
ACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:24840308 original size:30 final size:29
Alignment explanation
Indices: 24840237--24840455 Score: 187
Period size: 29 Copynumber: 7.4 Consensus size: 29
24840227 ATAGGTCCCT
* * * *
24840237 AAACTATCCAAAAATTATATTTTAACCCT
1 AAACTTTCTAAAAATTACATTTTAACCCC
24840266 AAACTTTCTAAAAATTACATTTTAACCCC
1 AAACTTTCTAAAAATTACATTTTAACCCC
*
24840295 AAACTTCTCT-AAAATTATATTTTAACCCC
1 AAACTT-TCTAAAAATTACATTTTAACCCC
* *
24840324 AAAAGTTTCTAAAAATTACATTTTGACCCC
1 -AAACTTTCTAAAAATTACATTTTAACCCC
*
24840354 TAAACTTCCTAAAAATTACTATTTT-ACCCAC
1 -AAACTTTCTAAAAATTAC-ATTTTAACCC-C
* * * *
24840385 GAACTTTC-CAAAATTCCATTTTTA-CCC
1 AAACTTTCTAAAAATTACATTTTAACCCC
* * *
24840412 TAA-TTTCACCAAAAATTATCATTTTACCCCC
1 AAACTTT--CTAAAAATTA-CATTTTAACCCC
*
24840443 AAACTTTCCAAAA
1 AAACTTTCTAAAA
24840456 TTCTATTTTT
Statistics
Matches: 157, Mismatches: 21, Indels: 23
0.78 0.10 0.11
Matches are distributed among these distances:
26 3 0.02
27 3 0.02
28 8 0.05
29 66 0.42
30 63 0.40
31 11 0.07
32 3 0.02
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.35
Consensus pattern (29 bp):
AAACTTTCTAAAAATTACATTTTAACCCC
Found at i:24840353 original size:59 final size:59
Alignment explanation
Indices: 24840233--24840455 Score: 226
Period size: 59 Copynumber: 3.8 Consensus size: 59
24840223 CTCTATAGGT
*
24840233 CCCTAAACTATCC-AAAAATTATATTTTAACCCTAAACTTTCTAAAAATTACATTTTAAC
1 CCCTAAACT-TCCTAAAAATTATATTTTAACCCAAAACTTTCTAAAAATTACATTTTAAC
* *
24840292 CCC-AAACTTCTCT-AAAATTATATTTTAACCCCAAAAGTTTCTAAAAATTACATTTTGAC
1 CCCTAAACTTC-CTAAAAATTATATTTTAA-CCCAAAACTTTCTAAAAATTACATTTTAAC
* * * *
24840351 CCCTAAACTTCCTAAAAATTACTATTTT-ACCCACGAACTTTC-CAAAATTCCATTTTTA-
1 CCCTAAACTTCCTAAAAATTA-TATTTTAACCCA-AAACTTTCTAAAAATTACATTTTAAC
* * * * *
24840409 CCCT-AATTTCACCAAAAATTATCATTTTACCCCCAAACTTTCCAAAA
1 CCCTAAACTTC-CTAAAAATTAT-ATTTTAACCCAAAACTTTCTAAAA
24840456 TTCTATTTTT
Statistics
Matches: 139, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
57 8 0.06
58 46 0.33
59 58 0.42
60 21 0.15
61 6 0.04
ACGTcount: A:0.39, C:0.26, G:0.01, T:0.35
Consensus pattern (59 bp):
CCCTAAACTTCCTAAAAATTATATTTTAACCCAAAACTTTCTAAAAATTACATTTTAAC
Found at i:24840465 original size:29 final size:29
Alignment explanation
Indices: 24840237--24840466 Score: 102
Period size: 30 Copynumber: 7.8 Consensus size: 29
24840227 ATAGGTCCCT
* * * *
24840237 AAACTATCCAAAAAT-TATATTTTAACCCT
1 AAACTTTCCAAAATTCTAT-TTTTACCCCC
* *
24840266 AAACTTTCTAAAAATTAC-A-TTTTAACCCC
1 AAACTTTC-CAAAATT-CTATTTTTACCCCC
* * * *
24840295 AAACTTCTCTAAAATTATATTTTAACCCCA
1 AAACTT-TCCAAAATTCTATTTTTACCCCC
* * * *
24840325 AAAGTTTCTAAAAATTAC-ATTTTGACCCCT
1 AAACTTTC-CAAAATT-CTATTTTTACCCCC
*
24840355 AAAC-TTCCTAAAAATTACTA-TTTTACCCAC
1 AAACTTTCC--AAAATT-CTATTTTTACCCCC
* *
24840385 GAACTTTCCAAAATTCCATTTTTA--CCC
1 AAACTTTCCAAAATTCTATTTTTACCCCC
* *
24840412 TAA-TTTCACCAAAAAT-TATCATTTTACCCCC
1 AAACTTT--CCAAAATTCTAT--TTTTACCCCC
24840443 AAACTTTCCAAAATTCTATTTTTA
1 AAACTTTCCAAAATTCTATTTTTA
24840467 ATCCCAAAAT
Statistics
Matches: 153, Mismatches: 27, Indels: 42
0.69 0.12 0.19
Matches are distributed among these distances:
26 3 0.02
27 6 0.04
28 9 0.06
29 55 0.36
30 63 0.41
31 14 0.09
32 3 0.02
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.37
Consensus pattern (29 bp):
AAACTTTCCAAAATTCTATTTTTACCCCC
Found at i:24840531 original size:28 final size:28
Alignment explanation
Indices: 24840470--24840531 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
24840460 ATTTTTAATC
*
24840470 CCAAAATTACATTTTTACCTCCGGGAGT
1 CCAAAATTACATTATTACCTCCGGGAGT
* *
24840498 CAAAAATTACCA-TATTACCTTCGGGTA-T
1 CCAAAATTA-CATTATTACCTCCGGG-AGT
24840526 CCAAAA
1 CCAAAA
24840532 GTCCCGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.29
Consensus pattern (28 bp):
CCAAAATTACATTATTACCTCCGGGAGT
Found at i:24842374 original size:21 final size:22
Alignment explanation
Indices: 24842350--24842421 Score: 103
Period size: 21 Copynumber: 3.4 Consensus size: 22
24842340 TTCAATGAAT
24842350 AAAAGA-AAGAAAAAAAAAAAA
1 AAAAGAGAAGAAAAAAAAAAAA
24842371 AAAA-AGAAGAAAAAAAAAAAA
1 AAAAGAGAAGAAAAAAAAAAAA
* *
24842392 AAAAGAGAAGAAAGAAAAAAGA
1 AAAAGAGAAGAAAAAAAAAAAA
*
24842414 AAAGGAGA
1 AAAAGAGA
24842422 GGTCGAGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.02
21 23 0.50
22 22 0.48
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAGAGAAGAAAAAAAAAAAA
Found at i:24842375 original size:22 final size:22
Alignment explanation
Indices: 24842350--24842416 Score: 93
Period size: 20 Copynumber: 3.1 Consensus size: 22
24842340 TTCAATGAAT
24842350 AAAAGAAAGAAAAAAAAAAAAA
1 AAAAGAAAGAAAAAAAAAAAAA
24842372 AAAAG-AAG-AAAAAAAAAAAA
1 AAAAGAAAGAAAAAAAAAAAAA
* *
24842392 AAAAGAGAAGAAAGAAAAAAGAA
1 AAAAGA-AAGAAAAAAAAAAAAA
24842415 AA
1 AA
24842417 GGAGAGGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 17 0.43
21 3 0.08
22 8 0.20
23 12 0.30
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAAAAAAAAAAAAA
Found at i:24842387 original size:25 final size:26
Alignment explanation
Indices: 24842351--24842416 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
24842341 TCAATGAATA
*
24842351 AAAGAAAGAAAAAAAAAAAAAAAAAG
1 AAAGAAAAAAAAAAAAAAAAAAAAAG
* *
24842377 -AAGAAAAAAAAAAAAAAAAGAGAAG
1 AAAGAAAAAAAAAAAAAAAAAAAAAG
*
24842402 AAAGAAAAAAGAAAA
1 AAAGAAAAAAAAAAA
24842417 GGAGAGGTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 22 0.63
26 13 0.37
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (26 bp):
AAAGAAAAAAAAAAAAAAAAAAAAAG
Found at i:24842411 original size:1 final size:1
Alignment explanation
Indices: 24842359--24842395 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
24842349 TAAAAGAAAG
* *
24842359 AAAAAAAAAAAAAAAAAGAAGAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24842396 GAGAAGAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:24842421 original size:22 final size:21
Alignment explanation
Indices: 24842350--24842417 Score: 93
Period size: 22 Copynumber: 3.2 Consensus size: 21
24842340 TTCAATGAAT
24842350 AAAAGA-AAGAAAAAAAAAAA
1 AAAAGAGAAGAAAAAAAAAAA
*
24842370 AAAAAAGAAGAAAAAAAAAAAA
1 AAAAGAGAAG-AAAAAAAAAAA
* *
24842392 AAAAGAGAAGAAAGAAAAAAG
1 AAAAGAGAAGAAAAAAAAAAA
24842413 AAAAG
1 AAAAG
24842418 GAGAGGTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 5 0.12
21 17 0.40
22 20 0.48
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAGAGAAGAAAAAAAAAAA
Found at i:24843511 original size:100 final size:99
Alignment explanation
Indices: 24843341--24843676 Score: 396
Period size: 100 Copynumber: 3.4 Consensus size: 99
24843331 TGAAGGGAAC
* * * *
24843341 GATCTAAG-CCGCAACGGCGGATCCAGTACC--ACGAAGATTTAAAAGGAAACGTCTAAGTCACA
1 GATCTAAGACCACAACGGCGGATCCAGTACCGTA-AAAGA--CAAAAGGAAAGGTCTAAGTCACA
* *
24843403 ACGGCAGACCGTGTACCTCAAAAGACACAACGGGAAA
63 ACGGCAGACCGTGTACCTCAAAAGACACAATGAGAAA
24843440 GATCTAAGACCACAACGGCGGATCCAGTACCGTAAAAGACAAAAGGGAAAGGTCTAAGT-AGCAA
1 GATCTAAGACCACAACGGCGGATCCAGTACCGTAAAAGACAAAA-GGAAAGGTCTAAGTCA-CAA
* *
24843504 CGACAGACCGTGTACCCCAAAAGACACAATGAGAAA
64 CGGCAGACCGTGTACCTCAAAAGACACAATGAGAAA
* ** *
24843540 GATATAAGACCGTAATGGCGGATCCAGTACCGTAAAAAGACAAAAAGGAAAGGTCTAAGTCACAA
1 GATCTAAGACCACAACGGCGGATCCAGTACCGT-AAAAGAC-AAAAGGAAAGGTCTAAGTCACAA
* *
24843605 CGGCAGACCATGTACCGTAAAAAG-C-CAGATGAGAAA
64 CGGCAGACCGTGTACC-TCAAAAGACACA-ATGAGAAA
* **
24843641 GATCTAAGACCACAATGGTAGATCCAGTACCGTAAA
1 GATCTAAGACCACAACGGCGGATCCAGTACCGTAAA
24843677 GACGTAAGAG
Statistics
Matches: 206, Mismatches: 21, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
99 13 0.06
100 103 0.50
101 79 0.38
102 11 0.05
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.13
Consensus pattern (99 bp):
GATCTAAGACCACAACGGCGGATCCAGTACCGTAAAAGACAAAAGGAAAGGTCTAAGTCACAACG
GCAGACCGTGTACCTCAAAAGACACAATGAGAAA
Found at i:24843637 original size:101 final size:101
Alignment explanation
Indices: 24843381--24843676 Score: 411
Period size: 100 Copynumber: 2.9 Consensus size: 101
24843371 ACGAAGATTT
* * *
24843381 AAAAGGAAACGTCTAAGTCACAACGGCAGACCGTGTACCTCAAAAGACACAACGGGAAAGATCTA
1 AAAAGGAAAGGTCTAAGTCACAACGGCAGACCGTGTACCTCAAAAGACACAATGAGAAAGATCTA
*
24843446 AGACCACAACGGCGGATCCAGTACCGT-AAAAGACA
66 AGACCACAATGGCGGATCCAGTACCGTAAAAAGACA
* * * *
24843481 AAAGGGAAAGGTCTAAGT-AGCAACGACAGACCGTGTACCCCAAAAGACACAATGAGAAAGATAT
1 AAAAGGAAAGGTCTAAGTCA-CAACGGCAGACCGTGTACCTCAAAAGACACAATGAGAAAGATCT
**
24843545 AAGACCGTAATGGCGGATCCAGTACCGTAAAAAGACA
65 AAGACCACAATGGCGGATCCAGTACCGTAAAAAGACA
* *
24843582 AAAAGGAAAGGTCTAAGTCACAACGGCAGACCATGTACCGTAAAAAG-C-CAGATGAGAAAGATC
1 AAAAGGAAAGGTCTAAGTCACAACGGCAGACCGTGTACC-TCAAAAGACACA-ATGAGAAAGATC
**
24843645 TAAGACCACAATGGTAGATCCAGTACCGTAAA
64 TAAGACCACAATGGCGGATCCAGTACCGTAAA
24843677 GACGTAAGAG
Statistics
Matches: 171, Mismatches: 20, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
99 1 0.01
100 82 0.48
101 82 0.48
102 6 0.04
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.13
Consensus pattern (101 bp):
AAAAGGAAAGGTCTAAGTCACAACGGCAGACCGTGTACCTCAAAAGACACAATGAGAAAGATCTA
AGACCACAATGGCGGATCCAGTACCGTAAAAAGACA
Found at i:24843739 original size:49 final size:49
Alignment explanation
Indices: 24843686--24843788 Score: 161
Period size: 49 Copynumber: 2.1 Consensus size: 49
24843676 AGACGTAAGA
* *
24843686 GAAAGATCTAAGCCGCGACAGCGGATCTAGTACCACGAAGACATGAAGG
1 GAAAGATCTAAACCGCGACAGCGGATCCAGTACCACGAAGACATGAAGG
* **
24843735 GAAAGATCTAAACCGCGACGGCGGATCCAGTACCACGAAGATTTGAAGG
1 GAAAGATCTAAACCGCGACAGCGGATCCAGTACCACGAAGACATGAAGG
24843784 GAAAG
1 GAAAG
24843789 GTTTAAGTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.21, G:0.29, T:0.13
Consensus pattern (49 bp):
GAAAGATCTAAACCGCGACAGCGGATCCAGTACCACGAAGACATGAAGG
Found at i:24844599 original size:197 final size:199
Alignment explanation
Indices: 24844166--24844806 Score: 923
Period size: 201 Copynumber: 3.2 Consensus size: 199
24844156 CCCAAACAAT
* * * *
24844166 GAGGCGGTTATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAACGCTCAATGTGAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAATGCGAGCAAAT
* **
24844231 CTTTGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATC-AAACGGTTAGCTT
66 CTTCGAACCTTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAA-CAAAACGGTTAGCTT
* *
24844295 CCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGGGAAGCGAATTAA
130 CCTGATGAGA-ACAGAGAAGTGGACCAAATTCTTCTTCCTGAGGAGATCCAGAGAAGCGAATTAA
24844360 AGCAAGC
194 A-CAAGC
24844367 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAATGCGAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAATGCGAGCAAAT
* *
24844432 CTTCGAA-CTTAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGTAACAAAACGGTTAGCTTC
66 CTTCGAACCTTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAACAAAACGGTTAGCTTC
* * *
24844496 CTGATGAG-ACAGAGAAGTTGACCAAATT-TTCTTCCTGATGAGATACAGAGAAGCGAATTGAAA
131 CTGATGAGAACAGAGAAGTGGACCAAATTCTTCTTCCTGAGGAGATCCAGAGAAGCGAATT-AAA
24844559 CAAGC
195 CAAGC
* *
24844564 GAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAATGCCAACTCAACGCTCAATACGAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAATGCGAGCAAAT
* ** * *
24844629 CTTCGAACCTTAGCTTCCTGATGAGACACTGAGAAGTAGGTCGAAGCATTAAAATGATTAGCTTC
66 CTTCGAACCTTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAACAAAACGGTTAGCTTC
*
24844694 CTGATGAGACACAGAGAAGTGGACCAAATTCGTT-TTCCTGAGGAGATCCAGAGAAGCGAATCAA
131 CTGATGAGA-ACAGAGAAGTGGACCAAATTC-TTCTTCCTGAGGAGATCCAGAGAAGCGAAT-TA
*
24844758 AACAAGT
193 AACAAGC
* * * * * *
24844765 GACGCGGTCGTCTTCTTGATCAGATACTGAGAAGAAGGCCAA
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAA
24844807 ACCAATGAAA
Statistics
Matches: 397, Mismatches: 35, Indels: 16
0.89 0.08 0.04
Matches are distributed among these distances:
197 102 0.26
198 80 0.20
199 1 0.00
200 78 0.20
201 134 0.34
202 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (199 bp):
GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAATGCGAGCAAAT
CTTCGAACCTTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAACAAAACGGTTAGCTTC
CTGATGAGAACAGAGAAGTGGACCAAATTCTTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAC
AAGC
Found at i:24846046 original size:28 final size:28
Alignment explanation
Indices: 24845996--24846068 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
24845986 AAATTATCCA
24845996 AAAATTACATTTAACCCAAAAAC-TTCTC
1 AAAATTACATTTAACCCAAAAACTTTC-C
** **
24846024 AAAATTACATTTCCCCCCCAAACTTTCC
1 AAAATTACATTTAACCCAAAAACTTTCC
*
24846052 AAAATTTCATTTTAACC
1 AAAATTACA-TTTAACC
24846069 TCGATTTCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 28 0.78
29 8 0.22
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.32
Consensus pattern (28 bp):
AAAATTACATTTAACCCAAAAACTTTCC
Found at i:24846152 original size:59 final size:59
Alignment explanation
Indices: 24846044--24846338 Score: 362
Period size: 59 Copynumber: 5.0 Consensus size: 59
24846034 TTCCCCCCCA
* * * *
24846044 AACTTTCCAAAATTTCA-TTTTAACCTCGATTTCACTAAAAATTATCATTTTACCCTCG
1 AACTTTCCAAAATTTCATTTTTGACCTCGATTTTACCAAAAATTACCATTTTACCCTCG
* * * * *
24846102 AACTTTCCACAATTTAATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCTTG
1 AACTTTCCAAAATTTCATTTTTGACCTCGATTTTACCAAAAATTACCATTTTACCCTCG
* * *
24846161 AACTTTTCAAAACTTCATTTTTGACCTCGATTTTACCTAAAATTACCATTTTACCC-CTG
1 AACTTTCCAAAATTTCATTTTTGACCTCGATTTTACCAAAAATTACCATTTTACCCTC-G
* * **
24846220 AACTTTCTAAAATTCCATTTTTGACCTTAATTTTACC-AAAATTACCATTTTACCCTCG
1 AACTTTCCAAAATTTCATTTTTGACCTCGATTTTACCAAAAATTACCATTTTACCCTCG
* * * * * *
24846278 AACTTTCTAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTGCCCCCG
1 AACTTTCCAAAATTTCATTTTTGACCTCGATTTTACCAAAAATTACCATTTTACCCTCG
24846337 AA
1 AA
24846339 AGTCCAAAAT
Statistics
Matches: 206, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
58 67 0.33
59 139 0.67
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.39
Consensus pattern (59 bp):
AACTTTCCAAAATTTCATTTTTGACCTCGATTTTACCAAAAATTACCATTTTACCCTCG
Found at i:24846299 original size:29 final size:29
Alignment explanation
Indices: 24846140--24846363 Score: 114
Period size: 29 Copynumber: 7.7 Consensus size: 29
24846130 GATTTCACCA
*
24846140 AAAATTACCATTTTACCCTTGAACTTT-T
1 AAAATTACCATTTTACCCTCGAACTTTCT
*
24846168 CAAAACTT--CATTTTTGA-CCTCG-ATTTTACCT
1 -AAAA-TTACCA-TTTT-ACCCTCGAACTTT--CT
24846199 AAAATTACCATTTTACCC-CTGAACTTTCT
1 AAAATTACCATTTTACCCTC-GAACTTTCT
* * *
24846228 AAAATT-CCATTTTTGA-CCT-TAATTTTACC
1 AAAATTACCA-TTTT-ACCCTCGAACTTT-CT
24846257 AAAATTACCATTTTACCCTCGAACTTTCT
1 AAAATTACCATTTTACCCTCGAACTTTCT
* *
24846286 AAAATT-CCATTTTTAACCC-CG-ATTTTACCA
1 AAAATTACCA-TTTT-ACCCTCGAACTTT--CT
* * ** *
24846316 AAAATTACCATTTTGCCCCCGAA-AGTCC
1 AAAATTACCATTTTACCCTCGAACTTTCT
*
24846344 AAAATTACTATTTTACCCTC
1 AAAATTACCATTTTACCCTC
24846364 CGGGTATCCA
Statistics
Matches: 152, Mismatches: 18, Indels: 51
0.69 0.08 0.23
Matches are distributed among these distances:
28 40 0.26
29 60 0.39
30 41 0.27
31 11 0.07
ACGTcount: A:0.31, C:0.26, G:0.04, T:0.38
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAACTTTCT
Found at i:24846357 original size:117 final size:117
Alignment explanation
Indices: 24846044--24846357 Score: 359
Period size: 117 Copynumber: 2.7 Consensus size: 117
24846034 TTCCCCCCCA
* * * * *
24846044 AACTTTCCAAAATTTCA-TTTTAACCTCGATTTCACTAAAAATTATCATTTTACCCTCGAACTTT
1 AACTTTCTAAAA-TTCATTTTTAACCTCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTT
* * *
24846108 CCACAATT-TAATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACCCTTG
65 CCAAAATTCT-ATTTTTGACCCCAATTTCACCAAAAATTACCATTTTACCCTCG
* * *
24846161 AACTTT-TCAAAACTTCATTTTTGACCTCGATTTTACCTAAAATTACCATTTTACCCCTGAACTT
1 AACTTTCT-AAAA-TTCATTTTTAACCTCGATTTTACCAAAAATTACCATTTTACCCCCGAACTT
* * ** *
24846225 TCTAAAATTCCATTTTTGACCTTAATTTTACC-AAAATTACCATTTTACCCTCG
64 TCCAAAATTCTATTTTTGACCCCAATTTCACCAAAAATTACCATTTTACCCTCG
* * **
24846278 AACTTTCTAAAATTCCATTTTTAACCCCGATTTTACCAAAAATTACCATTTTGCCCCCGAA-AGT
1 AACTTTCTAAAATT-CATTTTTAACCTCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTT
24846342 CCAAAATTACTATTTT
65 CCAAAATT-CTATTTT
24846358 ACCCTCCGGG
Statistics
Matches: 165, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
116 10 0.06
117 91 0.55
118 64 0.39
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (117 bp):
AACTTTCTAAAATTCATTTTTAACCTCGATTTTACCAAAAATTACCATTTTACCCCCGAACTTTC
CAAAATTCTATTTTTGACCCCAATTTCACCAAAAATTACCATTTTACCCTCG
Found at i:24849156 original size:9 final size:9
Alignment explanation
Indices: 24849142--24849166 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24849132 TGACTGTTTC
24849142 TTATTATCA
1 TTATTATCA
24849151 TTATTATCA
1 TTATTATCA
24849160 TTATTAT
1 TTATTAT
24849167 TATGCTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (9 bp):
TTATTATCA
Found at i:24850949 original size:31 final size:31
Alignment explanation
Indices: 24850913--24850989 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
24850903 AGTCTTTTTG
* *
24850913 GGTTC-AATTAGGTACTTGAACTTGGCTTCTT
1 GGTTCAAATT-GGTACCTAAACTTGGCTTCTT
24850944 GGTTCAAATTGGTACCTAAACTTGGCTT-TCT
1 GGTTCAAATTGGTACCTAAACTTGGCTTCT-T
* *
24850975 GGTCCAAATTAGTAC
1 GGTTCAAATTGGTAC
24850990 TTCTGATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 35 0.88
32 4 0.10
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (31 bp):
GGTTCAAATTGGTACCTAAACTTGGCTTCTT
Found at i:24855865 original size:18 final size:18
Alignment explanation
Indices: 24855817--24855874 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
24855807 AAGAAAATAT
*
24855817 ATTAATAACATTTATCAA
1 ATTAATAATATTTATCAA
24855835 ATTAAATTAATATTTAT-AA
1 ATT-AA-TAATATTTATCAA
*
24855854 ATATAATAATATCTA-CAA
1 AT-TAATAATATTTATCAA
24855872 ATT
1 ATT
24855875 CAATGAGACC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 15 0.44
19 8 0.24
20 10 0.29
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTAATAATATTTATCAA
Found at i:24857321 original size:28 final size:29
Alignment explanation
Indices: 24857236--24857373 Score: 76
Period size: 28 Copynumber: 4.8 Consensus size: 29
24857226 ACCCGGGGGC
* *
24857236 AAAATGGTAGATTTTGGTGAAATCG-GGGTT
1 AAAATGGTA-ATTTTAGTGAAATTGAGGG-T
* * *
24857266 AAAAATGG-GA-TTTAGGGAAGTTTGAGGGT
1 -AAAATGGTAATTTTAGTGAA-ATTGAGGGT
24857295 AAAATGGTAATTTTAGTGAAATT-AGGGTTT
1 AAAATGGTAATTTTAGTGAAATTGAGGG--T
* * * *
24857325 AAAATGG-GA-TTTAGGGAAGTTTGGGGGT
1 AAAATGGTAATTTTAGTGAA-ATTGAGGGT
24857353 AAAATGGTAATTTT--TGAAATT
1 AAAATGGTAATTTTAGTGAAATT
24857374 TTCGGGGTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
27 2 0.02
28 37 0.45
29 11 0.13
30 25 0.30
31 7 0.09
ACGTcount: A:0.34, C:0.01, G:0.31, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTAGTGAAATTGAGGGT
Found at i:24857323 original size:58 final size:57
Alignment explanation
Indices: 24857236--24857373 Score: 206
Period size: 58 Copynumber: 2.4 Consensus size: 57
24857226 ACCCGGGGGC
**
24857236 AAAATGGTAGATTTTGGTGAAATCGGGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGT
1 AAAATGGTA-ATTTT-GTGAAATTAGGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGT
* *
24857295 AAAATGGTAATTTTAGTGAAATTAGGGTTTAAAATGGGATTTAGGGAAGTTTGGGGGT
1 AAAATGGTAATTTT-GTGAAATTAGGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGT
24857353 AAAATGGTAATTTT-TGAAATT
1 AAAATGGTAATTTTGTGAAATT
24857374 TTCGGGGTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
56 7 0.09
58 58 0.78
59 9 0.12
ACGTcount: A:0.34, C:0.01, G:0.31, T:0.34
Consensus pattern (57 bp):
AAAATGGTAATTTTGTGAAATTAGGGTTAAAAATGGGATTTAGGGAAGTTTGAGGGT
Found at i:24857397 original size:30 final size:30
Alignment explanation
Indices: 24857344--24857604 Score: 316
Period size: 30 Copynumber: 8.7 Consensus size: 30
24857334 TTTAGGGAAG
* *
24857344 TTTGGGGGTAAAATGGTAATTTTTG-AAA-T
1 TTTGGGGTTAAAAT-GTAATTTTGGAAAAGT
*
24857373 TTTCGGGGTAAAAATGTAATTTTTTGG-AAA-T
1 TTT-GGGGTTAAAATGTAA--TTTTGGAAAAGT
* * *
24857404 TTTGGGGTTAAAATATGATTTTGGAAAAGC
1 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
24857434 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
1 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
24857464 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
1 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
*
24857494 TTTGGGGTTAAAATGTAATTTT-TAGAAAGT
1 TTTGGGGTTAAAATGTAATTTTGGA-AAAGT
* *
24857524 TTTAGGGTTAAAATATAATTTTGGAAAAGT
1 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
* *
24857554 TTTGGGGTCAAAATATAATTTTGGAAAAGT
1 TTTGGGGTTAAAATGTAATTTTGGAAAAGT
** *
24857584 TTAAGGGTCAAAATGTAATTT
1 TTTGGGGTTAAAATGTAATTT
24857605 CTAGACAATT
Statistics
Matches: 206, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
28 6 0.03
29 11 0.05
30 176 0.85
31 13 0.06
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (30 bp):
TTTGGGGTTAAAATGTAATTTTGGAAAAGT
Found at i:24857487 original size:19 final size:19
Alignment explanation
Indices: 24857434--24857487 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
24857424 TTGGAAAAGC
24857434 TTTGGGGTTAAAATGTAAT
1 TTTGGGGTTAAAATGTAAT
24857453 TTT--GG--AAAA-G---T
1 TTTGGGGTTAAAATGTAAT
24857464 TTTGGGGTTAAAATGTAAT
1 TTTGGGGTTAAAATGTAAT
24857483 TTTGG
1 TTTGG
24857488 AAAAGTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 16
0.63 0.00 0.37
Matches are distributed among these distances:
11 4 0.15
13 2 0.07
14 1 0.04
15 8 0.30
16 1 0.04
17 2 0.07
19 9 0.33
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.43
Consensus pattern (19 bp):
TTTGGGGTTAAAATGTAAT
Found at i:24859415 original size:11 final size:11
Alignment explanation
Indices: 24859399--24859428 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24859389 TTAAATTTTA
24859399 AATTTAAAATG
1 AATTTAAAATG
*
24859410 AATTTAAAATT
1 AATTTAAAATG
24859421 AATTTAAA
1 AATTTAAA
24859429 CTCAAAGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AATTTAAAATG
Found at i:24859928 original size:68 final size:68
Alignment explanation
Indices: 24859819--24860511 Score: 983
Period size: 68 Copynumber: 9.9 Consensus size: 68
24859809 GGAAATGATC
*
24859819 TTGCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
24859884 ACA
66 ACG
* *
24859887 TTGCTCTTACTTCAATTTCAGAGATAAAAACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
24859952 ACG
66 ACG
24859955 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCA-GA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAG-AGGA
24860019 TGACG
64 TGACG
* * *
24860024 TTGCTCTTACTTCATTTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGAAG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
24860089 ACG
66 ACG
* *
24860092 TTGCTCTTACTTCAATTTCAGAGAAAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
24860157 ACA
66 ACG
*
24860160 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
24860225 ACG
66 ACG
* * *
24860228 TTGCTCATACTTCATTTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
24860293 ATG
66 ACG
*
24860296 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTTCTTCAATTTCGAGCAGTCA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTC-A--AG--A
* *
24860361 GGAAAAGATCT
61 GG--ATGA-CG
* * *
24860372 TTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGCGGATT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA---GA--
*
24860437 GGAAATGATCT
61 GG--ATGA-CG
* * * *
24860448 TTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGAT
24860512 TGGAAATGAT
Statistics
Matches: 578, Mismatches: 31, Indels: 31
0.90 0.05 0.05
Matches are distributed among these distances:
68 375 0.65
69 68 0.12
70 1 0.00
71 4 0.01
73 4 0.01
74 1 0.00
75 4 0.01
76 121 0.21
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACG
Found at i:24860310 original size:31 final size:31
Alignment explanation
Indices: 24860068--24860315 Score: 118
Period size: 31 Copynumber: 7.4 Consensus size: 31
24860058 TTATCCACTC
*
24860068 TACTTCAATTTCAAGGGGAAGACGTTGCTCT
1 TACTTCAATTTCAAGGGGAAGATGTTGCTCT
*** * *
24860099 TACTTCAATTTCAGAGAAAAAGACGTGTTATCCACT
1 TACTTCAATTTCA-AGGGGAAGA--TG-T-TGCTCT
* **
24860135 CTACTTCAATTTCAAGGGGATGACATTGCTCT
1 -TACTTCAATTTCAAGGGGAAGATGTTGCTCT
*** * *
24860167 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACT
1 TACTTCAATTTCA-AGGGGAAGA--TG-T-TGCTCT
* * *
24860203 CTACTTCAATTTCAAGGGGATGACGTTGCTCA
1 -TACTTCAATTTCAAGGGGAAGATGTTGCTCT
* *** * *
24860235 TACTTCATTTTCAGAGATAAAGACGTGTTATCCACT
1 TACTTCAATTTCA-AGGGGAAGA--TG-T-TGCTCT
*
24860271 CTACTTCAATTTCAAGGGGATGATGTTGCTCT
1 -TACTTCAATTTCAAGGGGAAGATGTTGCTCT
24860303 TACTTCAATTTCA
1 TACTTCAATTTCA
24860316 GAGATAAAGA
Statistics
Matches: 153, Mismatches: 46, Indels: 36
0.65 0.20 0.15
Matches are distributed among these distances:
31 51 0.33
32 27 0.18
33 3 0.02
34 5 0.03
35 3 0.02
36 26 0.17
37 38 0.25
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAAGGGGAAGATGTTGCTCT
Found at i:24860422 original size:76 final size:76
Alignment explanation
Indices: 24860296--24860524 Score: 343
Period size: 76 Copynumber: 3.0 Consensus size: 76
24860286 GGGGATGATG
* * * * *
24860296 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTTCTTCAATTTCGAGCAG-TC
1 TTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGCAGAT-
24860360 AGGAAAAGATCT
65 AGGAAAAGATCT
* *
24860372 TTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGCGGATT
1 TTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGCAGATA
*
24860437 GGAAATGATCT
66 GGAAAAGATCT
* *
24860448 TTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGCGGATT
1 TTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGCAGATA
*
24860513 GGAAATGATCT
66 GGAAAAGATCT
24860524 T
1 T
24860525 GTTTGGTCTG
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 143 0.99
77 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (76 bp):
TTGCTCCTACTTCAATTTCAGAGATGAAGACTTGTTATCCACTCTACTTCAATTTCAAGCAGATA
GGAAAAGATCT
Found at i:24860458 original size:39 final size:40
Alignment explanation
Indices: 24860409--24860524 Score: 120
Period size: 37 Copynumber: 3.0 Consensus size: 40
24860399 AGACTTGTTA
24860409 TCCACTCTACTTCAATTTCAAGCGGATTGGAAATGATCTT
1 TCCACTCTACTTCAATTTCAAGCGGATTGGAAATGATCTT
* * * *
24860449 TGCTC-CTACTTCAATTTC-AG-AGA-T-GAAGACTTG-T-TA
1 TCCACTCTACTTCAATTTCAAGCGGATTGGAA-A--TGATCTT
24860485 TCCACTCTACTTCAATTTCAAGCGGATTGGAAATGATCTT
1 TCCACTCTACTTCAATTTCAAGCGGATTGGAAATGATCTT
24860525 GTTTGGTCTG
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
35 3 0.05
36 6 0.10
37 16 0.28
38 8 0.14
39 16 0.28
40 6 0.10
41 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (40 bp):
TCCACTCTACTTCAATTTCAAGCGGATTGGAAATGATCTT
Found at i:24866236 original size:29 final size:28
Alignment explanation
Indices: 24866206--24866513 Score: 120
Period size: 30 Copynumber: 10.5 Consensus size: 28
24866196 ATCGGGGTTA
*
24866206 AAAATGG-GATTTAGGAAAGTTTAAGGGT
1 AAAATGGTAATTTAGGAAAGTTT-AGGGT
24866234 AAAATGGTAATTTTAGTGAAA--TTAGGGTTT
1 AAAATGGTAA-TTTAG-GAAAGTTTAGGG--T
* *
24866264 AAAATGG-GATTTAGGGAAGTTTGAGGGT
1 AAAATGGTAATTTAGGAAAGTTT-AGGGT
** *
24866292 AAAATGGTAATTTTTGAAAGTTTCGGGGT
1 AAAATGGTAATTTAGGAAAGTTT-AGGGT
* * * *
24866321 AAAAAT-GCAATTTTTTGGAAATTTTGGGGT
1 -AAAATGGTAA--TTTAGGAAAGTTTAGGGT
* * *
24866351 CAAAAT-ATGATTTTGGAAAAGCTTTAGGGT
1 -AAAATGGTAATTTAGG-AAAG-TTTAGGGT
*
24866381 CAAAAT-GTAATTTTGGAAAAGTTTTAGGGT
1 -AAAATGGTAATTTAGG-AAAG-TTTAGGGT
*
24866411 CAAAAT-GTAATTTCTA-AAAAGTTTTAGGGT
1 -AAAATGGTAA-TT-TAGGAAAG-TTTAGGGT
24866441 CAAAAT-GTAATTTTTA-GAAAGTTTTAGGGTT
1 -AAAATGGTAA--TTTAGGAAAG-TTTAGGG-T
* *
24866472 AAAAT-ATAATTTTGGAAAAGTTTAGGGGT
1 AAAATGGTAATTTAGG-AAAGTTTA-GGGT
24866501 CAAAAT-GTAATTT
1 -AAAATGGTAATTT
24866514 CTGGACAATT
Statistics
Matches: 231, Mismatches: 27, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.01
28 33 0.14
29 33 0.14
30 140 0.61
31 21 0.09
32 1 0.00
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (28 bp):
AAAATGGTAATTTAGGAAAGTTTAGGGT
Found at i:24866262 original size:58 final size:58
Alignment explanation
Indices: 24866175--24866305 Score: 199
Period size: 58 Copynumber: 2.2 Consensus size: 58
24866165 ACTCGGGGGC
* *
24866175 AAAATGGTAGATTTTGGTGAAATCGGGGTTAAAAATGGGATTTAGGAAAGTTTAAGGGT
1 AAAATGGTA-ATTTTAGTGAAATCAGGGTTAAAAATGGGATTTAGGAAAGTTTAAGGGT
* * * *
24866234 AAAATGGTAATTTTAGTGAAATTAGGGTTTAAAATGGGATTTAGGGAAGTTTGAGGGT
1 AAAATGGTAATTTTAGTGAAATCAGGGTTAAAAATGGGATTTAGGAAAGTTTAAGGGT
24866292 AAAATGGTAATTTT
1 AAAATGGTAATTTT
24866306 TGAAAGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
58 57 0.86
59 9 0.14
ACGTcount: A:0.36, C:0.01, G:0.30, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTAGTGAAATCAGGGTTAAAAATGGGATTTAGGAAAGTTTAAGGGT
Found at i:24866267 original size:30 final size:30
Alignment explanation
Indices: 24866175--24866270 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
24866165 ACTCGGGGGC
* ** *
24866175 AAAATGGTAGATTTTGGTGAAATCGGGGTTA
1 AAAATGGTA-ATTTTAGTGAAATTAGGGTTT
*
24866206 AAAATGG-GA-TTTAG-GAAAGTTTAAGGG--T
1 AAAATGGTAATTTTAGTGAAA--TT-AGGGTTT
24866234 AAAATGGTAATTTTAGTGAAATTAGGGTTT
1 AAAATGGTAATTTTAGTGAAATTAGGGTTT
24866264 AAAATGG
1 AAAATGG
24866271 GATTTAGGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
27 4 0.08
28 15 0.29
29 5 0.10
30 16 0.31
31 11 0.22
ACGTcount: A:0.38, C:0.01, G:0.29, T:0.32
Consensus pattern (30 bp):
AAAATGGTAATTTTAGTGAAATTAGGGTTT
Found at i:24866291 original size:30 final size:27
Alignment explanation
Indices: 24866206--24866298 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 27
24866196 ATCGGGGTTA
*
24866206 AAAATGGGATTTAGGAAAGTTTAAGGGT
1 AAAATGGGATTTAGGGAAGTTT-AGGGT
* * *
24866234 AAAATGGTAATTTTAGTGAA-ATTAGGGTTT
1 AAAATGG-GA-TTTAGGGAAGTTTAGGG--T
24866264 AAAATGGGATTTAGGGAAGTTTGAGGGT
1 AAAATGGGATTTAGGGAAGTTT-AGGGT
24866292 AAAATGG
1 AAAATGG
24866299 TAATTTTTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
28 27 0.52
29 6 0.12
30 19 0.37
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (27 bp):
AAAATGGGATTTAGGGAAGTTTAGGGT
Done.