Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2006
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: 83871
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Found at i:2222 original size:26 final size:27
Alignment explanation
Indices: 2170--2248 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 27
2160 TTCGGACGTG
*
2170 ATTAACAAA-ATGATATGATATAATTT-
1 ATTAATAAATATGATAT-ATATAATTTA
2196 ATTAATAAATATGATAT-TATAAGTTTA
1 ATTAATAAATATGATATATATAA-TTTA
* *
2223 CATATAATTAATATGATATATTTAAT
1 -AT-TAATAAATATGATATATATAAT
2249 ATATTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.11
26 11 0.25
27 7 0.16
28 2 0.05
29 15 0.34
30 4 0.09
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (27 bp):
ATTAATAAATATGATATATATAATTTA
Found at i:2308 original size:20 final size:19
Alignment explanation
Indices: 2239--2323 Score: 61
Period size: 20 Copynumber: 4.5 Consensus size: 19
2229 ATTAATATGA
*
2239 TATATTTAA--TATATTAT
1 TATATTTAATTTATAATAT
* *
2256 TTTATTTATATTTA-AAAATT
1 TATATTTA-ATTTATAATA-T
* *
2276 TATATATTAATTTTTTATAT
1 TATAT-TTAATTTATAATAT
2296 TATATTTATATTTATAATAT
1 TATATTTA-ATTTATAATAT
2316 TA-ATTTAA
1 TATATTTAA
2324 AAAATATAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
17 7 0.13
18 2 0.04
19 10 0.19
20 28 0.54
21 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTTAATTTATAATAT
Found at i:2346 original size:2 final size:2
Alignment explanation
Indices: 2341--2383 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2331 AAAATAACAC
2341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2383 A
1 A
2384 AGTTATTAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2781 original size:22 final size:20
Alignment explanation
Indices: 2744--2789 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
2734 TGCTTGAGTA
2744 AAAAGTGAAAAGATAAGAATAG
1 AAAAGTGAAAAGATAA-AA-AG
2766 AAAAGTAGAAAA-ATAAAAAG
1 AAAAGT-GAAAAGATAAAAAG
2786 AAAA
1 AAAA
2790 TAAATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.26
21 2 0.09
22 10 0.43
23 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (20 bp):
AAAAGTGAAAAGATAAAAAG
Found at i:3493 original size:22 final size:24
Alignment explanation
Indices: 3450--3494 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
3440 GAAAAAGAAA
*
3450 AAAGATGAGATGAAAAGTAAAGAG
1 AAAGATGAGATGAAAAGAAAAGAG
3474 AAAGATGA-AT-AAAAGAAAAGA
1 AAAGATGAGATGAAAAGAAAAGA
3495 AATAGAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.11
Consensus pattern (24 bp):
AAAGATGAGATGAAAAGAAAAGAG
Found at i:3740 original size:16 final size:16
Alignment explanation
Indices: 3715--3750 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
3705 GTTAAGAATG
3715 ATATTTTATAAATA-A
1 ATATTTTATAAATATA
3730 ATATCTTTATAAATATA
1 ATAT-TTTATAAATATA
3747 ATAT
1 ATAT
3751 AAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 10 0.53
17 5 0.26
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTTATAAATATA
Found at i:3764 original size:20 final size:22
Alignment explanation
Indices: 3721--3768 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
3711 AATGATATTT
3721 TATAA-ATAAATATCTTTATAAA
1 TATAATATAAATA-CTTTATAAA
3743 TATAATATAAATA-TTT-TAAA
1 TATAATATAAATACTTTATAAA
3763 TATAAT
1 TATAAT
3769 TAAGTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.40
21 3 0.12
22 5 0.20
23 7 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAATATAAATACTTTATAAA
Found at i:4957 original size:23 final size:23
Alignment explanation
Indices: 4930--4986 Score: 98
Period size: 22 Copynumber: 2.5 Consensus size: 23
4920 AATTTTCAAT
4930 TTTTTTAATTTTGAATTAAAAATA
1 TTTTTT-ATTTTGAATTAAAAATA
4954 TTTTTTA-TTTGAATTAAAAATA
1 TTTTTTATTTTGAATTAAAAATA
4976 TTTTTTATTTT
1 TTTTTTATTTT
4987 ATGAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 22 0.69
23 4 0.12
24 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTTTATTTTGAATTAAAAATA
Found at i:5105 original size:25 final size:25
Alignment explanation
Indices: 5053--5108 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
5043 TACTTGTTTT
**
5053 TTTTATAAAATTTTTTTATTGTTGAA
1 TTTT-TAAAATTTTTTTATAATTGAA
5079 TTTTTAAAATTTTTTTATAATAT-AA
1 TTTTTAAAATTTTTTTATAAT-TGAA
5104 TTTTT
1 TTTTT
5109 TTTTACGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTTAAAATTTTTTTATAATTGAA
Found at i:5486 original size:25 final size:25
Alignment explanation
Indices: 5418--5495 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 25
5408 ATGATAGTTA
*
5418 TTTTGTATTTGTCAAAAATTGTGATTC
1 TTTTGTATTTGTCAAAAATTGTG--GC
* *
5445 TTTTTTGTTTGTCAAAAATTGTGGC
1 TTTTGTATTTGTCAAAAATTGTGGC
5470 TTGTTGT-TTTGTC-AAAATTGGTGGC
1 TT-TTGTATTTGTCAAAAATT-GTGGC
5495 T
1 T
5496 AATTTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.13
25 15 0.33
26 3 0.07
27 21 0.47
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.51
Consensus pattern (25 bp):
TTTTGTATTTGTCAAAAATTGTGGC
Found at i:7046 original size:505 final size:505
Alignment explanation
Indices: 6094--7103 Score: 2002
Period size: 505 Copynumber: 2.0 Consensus size: 505
6084 GCATATGGTA
6094 CAATCCGATCCTGTCTATCTAGAGAGCAGAGATATGCCTTTTCTAAAGAGACTTTTGCAAGTAGG
1 CAATCCGATCCTGTCTATCTAGAGAGCAGAGATATGCCTTTTCTAAAGAGACTTTTGCAAGTAGG
6159 TTATGGACAGCTTTGGAGGAGAAATTCTTGAAGAAGAGCAGTCAGAATAAACTCTATATGAAGAA
66 TTATGGACAGCTTTGGAGGAGAAATTCTTGAAGAAGAGCAGTCAGAATAAACTCTATATGAAGAA
6224 GCGATTGTTTCGCTTCACCTATGTTGCAGGTACCACTATGAATGATCATATTACCAGTTTCAATC
131 GCGATTGTTTCGCTTCACCTATGTTGCAGGTACCACTATGAATGATCATATTACCAGTTTCAATC
6289 AACTGGTTACTGATATGATGAACGTTGATGAATCTTTCAAAGATGAGGATCAGCATTGATGCTGT
196 AACTGGTTACTGATATGATGAACGTTGATGAATCTTTCAAAGATGAGGATCAGCATTGATGCTGT
6354 TGGGGTCACTTCCAGAGGAGTTTGAGTTTCTCGAAACAACTCTACTCCATGGGAAAGCTGCAGTA
261 TGGGGTCACTTCCAGAGGAGTTTGAGTTTCTCGAAACAACTCTACTCCATGGGAAAGCTGCAGTA
6419 TCCCTTAGTGAAGTATGTGCAGCTTTGTATAGTTATGAACTAAGGAAGAAAGACAAACAAGGAAG
326 TCCCTTAGTGAAGTATGTGCAGCTTTGTATAGTTATGAACTAAGGAAGAAAGACAAACAAGGAAG
6484 CTTTGATAGAAATGCAGAAGCTTTGGTGGTCAGAGGTCGTTCTCAGAACTAGAAGAAGGGAAACA
391 CTTTGATAGAAATGCAGAAGCTTTGGTGGTCAGAGGTCGTTCTCAGAACTAGAAGAAGGGAAACA
6549 GAGGGAGATCAAAGTCGAAACCCAGACTGGAAAAGATGAATGCGCCTTTT
456 GAGGGAGATCAAAGTCGAAACCCAGACTGGAAAAGATGAATGCGCCTTTT
6599 CAATCCGATCCTGTCTATCTAGAGAGCAGAGATATGCCTTTTCTAAAGAGACTTTTGCAAGTAGG
1 CAATCCGATCCTGTCTATCTAGAGAGCAGAGATATGCCTTTTCTAAAGAGACTTTTGCAAGTAGG
*
6664 TTATGGACAGCTTTGGAGGAGAAATTCTTGAAGAAGAGTAGTCAGAATAAACTCTATATGAAGAA
66 TTATGGACAGCTTTGGAGGAGAAATTCTTGAAGAAGAGCAGTCAGAATAAACTCTATATGAAGAA
6729 GCGATTGTTTCGCTTCACCTATGTTGCAGGTACCACTATGAATGATCATATTACCAGTTTCAATC
131 GCGATTGTTTCGCTTCACCTATGTTGCAGGTACCACTATGAATGATCATATTACCAGTTTCAATC
6794 AACTGGTTACTGATATGATGAACGTTGATGAATCTTTCAAAGATGAGGATCAGCATTGATGCTGT
196 AACTGGTTACTGATATGATGAACGTTGATGAATCTTTCAAAGATGAGGATCAGCATTGATGCTGT
6859 TGGGGTCACTTCCAGAGGAGTTTGAGTTTCTCGAAACAACTCTACTCCATGGGAAAGCTGCAGTA
261 TGGGGTCACTTCCAGAGGAGTTTGAGTTTCTCGAAACAACTCTACTCCATGGGAAAGCTGCAGTA
6924 TCCCTTAGTGAAGTATGTGCAGCTTTGTATAGTTATGAACTAAGGAAGAAAGACAAACAAGGAAG
326 TCCCTTAGTGAAGTATGTGCAGCTTTGTATAGTTATGAACTAAGGAAGAAAGACAAACAAGGAAG
*
6989 CTTTGATAGAAATGCAGAAGCTTTGGTGGTCAGAGGTCGTTCTCAGAACTGGAAGAAGGGAAACA
391 CTTTGATAGAAATGCAGAAGCTTTGGTGGTCAGAGGTCGTTCTCAGAACTAGAAGAAGGGAAACA
7054 GAGGGAGATCAAAGTCGAAACCCAGACTGGAAAAGATGAATGCGCCTTTT
456 GAGGGAGATCAAAGTCGAAACCCAGACTGGAAAAGATGAATGCGCCTTTT
7104 GTCATGAGCA
Statistics
Matches: 503, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
505 503 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (505 bp):
CAATCCGATCCTGTCTATCTAGAGAGCAGAGATATGCCTTTTCTAAAGAGACTTTTGCAAGTAGG
TTATGGACAGCTTTGGAGGAGAAATTCTTGAAGAAGAGCAGTCAGAATAAACTCTATATGAAGAA
GCGATTGTTTCGCTTCACCTATGTTGCAGGTACCACTATGAATGATCATATTACCAGTTTCAATC
AACTGGTTACTGATATGATGAACGTTGATGAATCTTTCAAAGATGAGGATCAGCATTGATGCTGT
TGGGGTCACTTCCAGAGGAGTTTGAGTTTCTCGAAACAACTCTACTCCATGGGAAAGCTGCAGTA
TCCCTTAGTGAAGTATGTGCAGCTTTGTATAGTTATGAACTAAGGAAGAAAGACAAACAAGGAAG
CTTTGATAGAAATGCAGAAGCTTTGGTGGTCAGAGGTCGTTCTCAGAACTAGAAGAAGGGAAACA
GAGGGAGATCAAAGTCGAAACCCAGACTGGAAAAGATGAATGCGCCTTTT
Found at i:10492 original size:27 final size:26
Alignment explanation
Indices: 10461--10562 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 26
10451 AAAAGCCACC
10461 CTTTGTATTTGTCAAAAATGGTGGTT
1 CTTTGTATTTGTCAAAAATGGTGGTT
*
10487 ACTTTGTATTTGTCAAAAATGGTGATT
1 -CTTTGTATTTGTCAAAAATGGTGGTT
* * *
10514 CTTTTTTGTTTGTCAAAAATTGTGGCTT
1 C-TTTGTATTTGTCAAAAATGGTGG-TT
* *
10542 -GTTGT-TTTGTCAAAATTGGTG
1 CTTTGTATTTGTCAAAAATGGTG
10563 ACTAATTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 14 0.22
26 4 0.06
27 44 0.69
28 2 0.03
ACGTcount: A:0.23, C:0.08, G:0.22, T:0.48
Consensus pattern (26 bp):
CTTTGTATTTGTCAAAAATGGTGGTT
Found at i:10572 original size:52 final size:53
Alignment explanation
Indices: 10468--10572 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 53
10458 ACCCTTTGTA
* * **
10468 TTTGTCAAAAATGGTGGTTACTTTGTATTTGTCAAAAATGGTGATTCTTTTTTG
1 TTTGTCAAAAATGGTGGTTA-GTTGTATTTGTCAAAAATGGTGACTAATTTTTG
* *
10522 TTTGTCAAAAATTGTGGCTT-GTTGT-TTTGTCAAAATTGGTGACTAATTTTT
1 TTTGTCAAAAATGGTGG-TTAGTTGTATTTGTCAAAAATGGTGACTAATTTTT
10573 ATTGCAAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
52 22 0.50
53 4 0.09
54 16 0.36
55 2 0.05
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.49
Consensus pattern (53 bp):
TTTGTCAAAAATGGTGGTTAGTTGTATTTGTCAAAAATGGTGACTAATTTTTG
Found at i:10644 original size:13 final size:13
Alignment explanation
Indices: 10628--10652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10618 CTGCCTCTCA
10628 TGTATCTCTCTTT
1 TGTATCTCTCTTT
10641 TGTATCTCTCTT
1 TGTATCTCTCTT
10653 CAATTCTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.24, G:0.08, T:0.60
Consensus pattern (13 bp):
TGTATCTCTCTTT
Found at i:20085 original size:19 final size:19
Alignment explanation
Indices: 20076--20118 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
20066 AAGTAAACAT
20076 AAAAAACAAAACAAACAAA
1 AAAAAACAAAACAAACAAA
20095 AAAAAAC-AAACAAA-AAA
1 AAAAAACAAAACAAACAAA
20112 ACAAAAA
1 A-AAAAA
20119 TGCAAAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 12 0.52
19 7 0.30
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAACAAAACAAACAAA
Found at i:20087 original size:14 final size:12
Alignment explanation
Indices: 20070--20118 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
20060 AGTCAAAAGT
20070 AAACATAAAAAACA
1 AAACA-AAAAAA-A
20084 AAACAAACAAAAAA
1 AAAC-AA-AAAAAA
*
20098 AAACAAACAAAA
1 AAACAAAAAAAA
20110 AAACAAAAA
1 AAACAAAAA
20119 TGCAAAGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 13 0.42
13 2 0.06
14 10 0.32
15 6 0.19
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (12 bp):
AAACAAAAAAAA
Found at i:21637 original size:65 final size:64
Alignment explanation
Indices: 21503--21645 Score: 162
Period size: 65 Copynumber: 2.2 Consensus size: 64
21493 CTTTTCTTGT
* * * *
21503 AAGTCCACGACTCAATGGCATCTTTTTTCTTCAAAATCCACAACTCAGTGGCATCTTTTTTCTCT
1 AAGTCCACGACTCAATGGCATCTTTTTTCTTCAAAATCCACAACTAAGTGGCATC-TTCTTCCCA
* * * * *
21568 AAGTCCATGACTCAGTGGCATCTTTTTTTTTTCCAAGTCCACAACTAAGTGGCAATC-TCTTCCC
1 AAGTCCACGACTCAATGGCATC-TTTTTTCTTCAAAATCCACAACTAAGTGGC-ATCTTCTTCCC
21632 A
64 A
*
21633 AAGTCCACAACTC
1 AAGTCCACGACTC
21646 TGTGGCAACT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 36 0.55
66 26 0.40
67 3 0.05
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (64 bp):
AAGTCCACGACTCAATGGCATCTTTTTTCTTCAAAATCCACAACTAAGTGGCATCTTCTTCCCA
Found at i:21669 original size:98 final size:96
Alignment explanation
Indices: 21428--21693 Score: 280
Period size: 98 Copynumber: 2.8 Consensus size: 96
21418 CAATTCTTCA
*
21428 CATCTCTTCTCAAAGTCCACAACTAAGTGGC-A--TCTCTTTTCTAAGTCCACGACTCAGTGGCA
1 CATCTCTTCTCAAAGTCCACAACTCAGTGGCAACTTCTCTTTTCTAAGTCCACGACTCAGTGGCA
*
21490 TCTCTTTTCTTGTAAGTCCACGACTCAATGG
66 TCTCTTTTCTTGTAAGTCCACAACTCAATGG
* * * *
21521 CATCTTTTTTCTTCAAAATCCACAACTCAGTGGCATCTT-T-TTTCTCTAAGTCCATGACTCAGT
1 CATC--TCTTC-TCAAAGTCCACAACTCAGTGGCAACTTCTCTTT-TCTAAGTCCACGACTCAGT
* *
21584 GGCATCT-TTTTTTTTTCCAAGTCCACAACT-AAGTGG
62 GGCATCTCTTTTCTTGT--AAGTCCACAACTCAA-TGG
* * *
21620 CAATCTCTTCCCAAAGTCCACAACTCTGTGGCAACTTGCTCTTTT-TAAGTCCACGACTCTGTGG
1 C-ATCTCTTCTCAAAGTCCACAACTCAGTGGCAACTT-CTCTTTTCTAAGTCCACGACTCAGTGG
*
21684 CA-CCCTTTTC
64 CATCTCTTTTC
21694 CCTTTCAAGC
Statistics
Matches: 141, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
93 4 0.03
95 4 0.03
96 20 0.14
97 34 0.24
98 55 0.39
99 18 0.13
100 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (96 bp):
CATCTCTTCTCAAAGTCCACAACTCAGTGGCAACTTCTCTTTTCTAAGTCCACGACTCAGTGGCA
TCTCTTTTCTTGTAAGTCCACAACTCAATGG
Found at i:21760 original size:34 final size:33
Alignment explanation
Indices: 21440--21959 Score: 240
Period size: 33 Copynumber: 15.6 Consensus size: 33
21430 TCTCTTCTCA
**
21440 AAGTCCACAACTAAGTGGCATCTCTTTT-C---T
1 AAGTCCACAACTCTGTGGCA-CTCTTTTCCTTTT
* * *
21470 AAGTCCACGACTCAGTGGCATCTCTTTT-CTTGT
1 AAGTCCACAACTCTGTGGCA-CTCTTTTCCTTTT
* ** * **
21503 AAGTCCACGACTCAATGGCA-TCTTTTTTCTTCA
1 AAGTCCACAACTCTGTGGCACTC-TTTTCCTTTT
* *
21536 AAATCCACAACTCAGTGGCA-TCTTTT--TTCTCT
1 AAGTCCACAACTCTGTGGCACTCTTTTCCTT-T-T
** * **
21568 AAGTCCATGACTCAGTGGCA-TCTTTTTTTTTT
1 AAGTCCACAACTCTGTGGCACTCTTTTCCTTTT
** * * **
21600 CCAAGTCCACAACTAAGTGGCAATCTCTTCC--CA
1 --AAGTCCACAACTCTGTGGCACTCTTTTCCTTTT
** *
21633 AAGTCCACAACTCTGTGGCAACT-TGCTCTTTTT
1 AAGTCCACAACTCTGTGGC-ACTCTTTTCCTTTT
* *
21666 AAGTCCACGACTCTGTGGCACCCTTTTCCCTTTCAAGCCCT
1 AAGTCCACAACTCTGTGGCACTCTTTT-CCTTT-------T
*
21707 CAAGCCCACAACTCTGTGGCACTCTTTATCCTTTT
1 -AAGTCCACAACTCTGTGGCACTCTTT-TCCTTTT
*
21742 AAGTCCACAACTCCGTGGCA--C----CCTTTT
1 AAGTCCACAACTCTGTGGCACTCTTTTCCTTTT
* **
21769 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTAA
1 AAGTCCACAACTCTGTGGCACTC-TTTTCCTTTT
* *
21803 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACTC-TTTTCCTTTT
* *
21836 AAAAAGCCCACAACTTTGTGGCA-TCCTTTTCCTTTT
1 ---AAGTCCACAACTCTGTGGCACT-CTTTTCCTTTT
* *
21872 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACTC-TTTTCCTTTT
* *
21905 AAAGCCCACAACTCTGTGGCAGAT-TTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCA-CTCTTTTCCTTTT
* *
21939 AAGTCCACAACCCTATGGCAC
1 AAGTCCACAACTCTGTGGCAC
21960 CCCCTTCTAA
Statistics
Matches: 383, Mismatches: 64, Indels: 84
0.72 0.12 0.16
Matches are distributed among these distances:
27 24 0.06
29 1 0.00
30 29 0.08
31 22 0.06
32 38 0.10
33 115 0.30
34 91 0.24
35 6 0.02
36 26 0.07
37 1 0.00
41 1 0.00
42 28 0.07
43 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCACTCTTTTCCTTTT
Found at i:21766 original size:27 final size:27
Alignment explanation
Indices: 21736--21795 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
21726 CACTCTTTAT
*
21736 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
21763 CCTTTTAAGCCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
21790 TCTTTT
1 CCTTTT
21796 TCCTTAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:21807 original size:61 final size:63
Alignment explanation
Indices: 21708--21977 Score: 296
Period size: 61 Copynumber: 4.1 Consensus size: 63
21698 TCAAGCCCTC
*
21708 AAGCCCACAACTCTGTGGCACTCTTTATCCTTTTAAGTCCACAACTCCGTGGCACC-C-TTTT-
1 AAGCCCACAACTCTGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTCTTTTTA
**
21769 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTAAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAGCCCACAACTCTGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC----TCTTT
21834 TTAAA
61 TT--A
* *
21839 AAGCCCACAACTTTGTGGCATCCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGCCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC----TCTTTT
21904 TA
62 TA
** * * * *
21906 AAGCCCACAACTCTGTGGCAGATTTTTCCTTTTAAGTCCACAAC-CCTATGGCACCCCCTTCTA
1 AAGCCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCC-GTGGCACCTCTTTTTA
21969 AAGCCCACA
1 AAGCCCACA
21978 TAAGTCGGTG
Statistics
Matches: 184, Mismatches: 15, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
61 53 0.29
63 14 0.08
66 3 0.02
67 52 0.28
69 43 0.23
70 19 0.10
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.32
Consensus pattern (63 bp):
AAGCCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTCTTTTTA
Found at i:21887 original size:69 final size:67
Alignment explanation
Indices: 21708--21949 Score: 336
Period size: 61 Copynumber: 3.7 Consensus size: 67
21698 TCAAGCCCTC
*
21708 AAGCCCACAACTCTGTGGCACTCTTTATCCTTTTAAGTCCACAACTCCGTGGCACC-----C-TT
1 AAGCCCACAACTCTGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
21767 TT-
65 TTA
**
21769 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTAAAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAGCCCACAACTCTGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
21834 TTAAA
65 TT--A
* *
21839 AAGCCCACAACTTTGTGGCATCCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGCCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
21904 TA
66 TA
**
21906 AAGCCCACAACTCTGTGGCAGATTTTTCCTTTTAAGTCCACAAC
1 AAGCCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAAC
21950 CCTATGGCAC
Statistics
Matches: 161, Mismatches: 11, Indels: 12
0.88 0.06 0.07
Matches are distributed among these distances:
61 53 0.33
66 1 0.01
67 45 0.28
69 43 0.27
70 19 0.12
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (67 bp):
AAGCCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
TA
Found at i:21958 original size:33 final size:33
Alignment explanation
Indices: 21712--21959 Score: 158
Period size: 34 Copynumber: 7.5 Consensus size: 33
21702 GCCCTCAAGC
*
21712 CCACAACTCTGTGGCAC-TCTTTATCCTTTTAAGT
1 CCACAACCCTGTGGCACAT-TTT-TCCTTTTAAGT
*
21746 CCACAACTCC-GTGGCAC------CCTTTTAAGC
1 CCACAAC-CCTGTGGCACATTTTTCCTTTTAAGT
* * **
21773 CCACAACTCTGTGGCACTCTTTTTCCTTAAAAGT
1 CCACAACCCTGTGGCAC-ATTTTTCCTTTTAAGT
* * *
21807 CCACAACTCC-GTGGCACCTTTTTCTTTTTAAAAAGC
1 CCACAAC-CCTGTGGCACATTTTTCCTTTT---AAGT
** *
21843 CCACAACTTTGTGGCATC-CTTTTCCTTTTAAGT
1 CCACAACCCTGTGGCA-CATTTTTCCTTTTAAGT
* * *
21876 CCACAACTCC-GTGGCACCTTTTTCTTTTTAAAGC
1 CCACAAC-CCTGTGGCACATTTTTCCTTTT-AAGT
* *
21910 CCACAACTCTGTGGCAGATTTTTCCTTTTAAGT
1 CCACAACCCTGTGGCACATTTTTCCTTTTAAGT
*
21943 CCACAACCCTATGGCAC
1 CCACAACCCTGTGGCAC
21960 CCCCTTCTAA
Statistics
Matches: 166, Mismatches: 29, Indels: 39
0.71 0.12 0.17
Matches are distributed among these distances:
26 1 0.01
27 23 0.14
32 1 0.01
33 52 0.31
34 61 0.37
35 2 0.01
36 25 0.15
37 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.34
Consensus pattern (33 bp):
CCACAACCCTGTGGCACATTTTTCCTTTTAAGT
Found at i:22002 original size:33 final size:33
Alignment explanation
Indices: 21965--22059 Score: 172
Period size: 33 Copynumber: 2.9 Consensus size: 33
21955 GGCACCCCCT
* *
21965 TCTAAAGCCCACATAAGTCGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTTGGTGGCAACCATTC
21998 TCTAAAGCCCACACAAGTTGGTGGCAACCATTC
1 TCTAAAGCCCACACAAGTTGGTGGCAACCATTC
22031 TCTAAAGCCCACACAAGTTGGTGGCAACC
1 TCTAAAGCCCACACAAGTTGGTGGCAACC
22060 CTTTTAAGCC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.20
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTTGGTGGCAACCATTC
Found at i:22231 original size:48 final size:48
Alignment explanation
Indices: 22062--22392 Score: 394
Period size: 49 Copynumber: 6.8 Consensus size: 48
22052 TGGCAACCCT
* * * *
22062 TTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCACT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCACC
* * *
22111 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC-CTCACC
* * *
22160 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCACC
* * *
22208 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCACC
* * *
22257 -TTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCACC
* * * *
22304 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC-CTCACC
* * * * *
22353 TTTAAGTCTAATGTAGTTGGCCTTGAATCAGTACATTGGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC
22393 CTTGAATCAG
Statistics
Matches: 240, Mismatches: 38, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
47 3 0.01
48 117 0.49
49 120 0.50
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (48 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCACC
Found at i:22409 original size:19 final size:19
Alignment explanation
Indices: 22369--22411 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
22359 TCTAATGTAG
*
22369 TTGGCCTTGAATCAGTACA
1 TTGGCCTTGAATCAGCACA
*
22388 TTGGCCTTGAATCAGCATA
1 TTGGCCTTGAATCAGCACA
22407 TTGGC
1 TTGGC
22412 ACTTTGTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (19 bp):
TTGGCCTTGAATCAGCACA
Found at i:22446 original size:67 final size:68
Alignment explanation
Indices: 22321--22459 Score: 226
Period size: 67 Copynumber: 2.1 Consensus size: 68
22311 CCAATATAGC
* * * *
22321 TGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGTCTAATGTAGTTGGCCTTGAATCAGTA
1 TGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCA
22386 CAT
66 CAT
*
22389 TGGCCTTGAATCAGCATATTGGCAC-TTTGTCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCA
22453 CAT
66 CAT
22456 TGGC
1 TGGC
22460 ACCTTTAAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 41 0.62
68 25 0.38
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (68 bp):
TGGCCTTGAATCAGCATATTGGCACATTTATCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCA
CAT
Found at i:22534 original size:49 final size:49
Alignment explanation
Indices: 22389--22794 Score: 412
Period size: 49 Copynumber: 8.4 Consensus size: 49
22379 ATCAGTACAT
* *
22389 TGGCCTTGAATCAGCATATTGGCACTTT-GTCTTTAAGACCAATGTAGC
1 TGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTAGC
* *
22437 TGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCA-C
1 TGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGT-AGC
* * *
22480 TGGCCTTGAATCAACATATTGGCACTTTCATCTTTAAGTGCAATGTAGT
1 TGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTAGC
* *
22529 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGC
1 TGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTAGC
* * *
22578 TGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTAGC
* *
22621 TGGCCTTGAATCAGTATATTGGCACCTTTTTCATCTTTAAGTCCAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCA-C--TTTCATCTTTAAGTCCAATGTAGC
* * *
22673 TGGCCTTTAATCAGCATATTGGCACCTTT-ATCTTTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCATATTGGCA-CTTTCATCTTTAAGTCCAATGTAGC
* * *
22722 TGGCCTTGAATCAGCATATTGATGC-CTTTGTCATATTTAAGTCTAATGTCGC
1 TGGCCTTGAATCAGCATATTG--GCAC-TT-TCATCTTTAAGTCCAATGTAGC
* * *
22774 TGACCGTGAATCAGCACATTG
1 TGGCCTTGAATCAGCATATTG
22795 ACATCCTTTT
Statistics
Matches: 307, Mismatches: 28, Indels: 42
0.81 0.07 0.11
Matches are distributed among these distances:
43 74 0.24
44 1 0.00
45 1 0.00
47 1 0.00
48 24 0.08
49 121 0.39
50 6 0.02
51 3 0.01
52 76 0.25
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (49 bp):
TGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTAGC
Found at i:22641 original size:141 final size:143
Alignment explanation
Indices: 22388--22742 Score: 554
Period size: 141 Copynumber: 2.5 Consensus size: 143
22378 AATCAGTACA
* *
22388 TTGGCCTTGAATCAGCATATTGGCA-CTTTGTCTTTAAGACCAATGTAGCTGGCCTTGAATCAGC
1 TTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
22452 ACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCA-C-TTTCATCTTT
66 ACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTTCATCTTT
*
22515 AAGTGCAATGTAG
131 AAGTCCAATGTAG
* *
22528 TTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
1 TTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
* **
22593 ACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTTTCATCTT
66 ACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACC-TTTTCATCTT
*
22658 TAAGTCCAATGTCG
130 TAAGTCCAATGTAG
* * * *
22672 CTGGCCTTTAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 TTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
*
22737 ATATTG
66 ACATTG
22743 ATGCCTTTGT
Statistics
Matches: 195, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
140 24 0.12
141 85 0.44
142 1 0.01
144 85 0.44
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (143 bp):
TTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
ACATTGGCACCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTTCATCTTT
AAGTCCAATGTAG
Found at i:22685 original size:52 final size:52
Alignment explanation
Indices: 22603--22840 Score: 268
Period size: 52 Copynumber: 4.6 Consensus size: 52
22593 ACATTGGCAC
* *
22603 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTTTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTTTTCAT
* * *
22655 CTTTAAGTCCAATGTCGCTGGCCTTTAATCAGCATATTGGCACC--TTT-AT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTTTTCAT
** *
22704 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGATGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTTTTCAT
* * * * * *
22756 ATTTAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACA-CC-TTTT-TCAT
** *
22811 CTTTAAACCCAATATCG-TGGCCGTGAATCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCA
22841 ACGTATTGGT
Statistics
Matches: 156, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 41 0.26
50 3 0.02
51 2 0.01
52 77 0.49
53 2 0.01
54 15 0.10
55 16 0.10
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTTTTCAT
Found at i:22763 original size:101 final size:97
Alignment explanation
Indices: 22389--22794 Score: 422
Period size: 101 Copynumber: 4.2 Consensus size: 97
22379 ATCAGTACAT
* * * * * *
22389 TGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCAC
1 TGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
* * *
22454 ATTGG------CACCTTTAAGTCCAATATCAC
66 ATTGGCCTTTTCATCTTTAAGTCCAATGTCGC
* * * * * *
22480 TGGCCTTGAATCAACATATTGGCACTTTCATCTTTAAGTGCAATGTAGTTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCACTTT-ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
* * *
22545 CATTGGCAC-CTTCATCTTTAAGTCCAATGTAGC
65 TATTGGC-CTTTTCATCTTTAAGTCCAATGTCGC
*
22578 TGGCCTTGAATCAGCACATTGGCAC-----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTAT
1 TGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
22638 ATTGGCACCTTTTTCATCTTTAAGTCCAATGTCGC
66 ATTGG--CC-TTTTCATCTTTAAGTCCAATGTCGC
* *
22673 TGGCCTTTAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCA-CTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
* *
22738 TATTGATGCCTTTGTCATATTTAAGTCTAATGTCGC
65 TATTG--GCCTTT-TCATCTTTAAGTCCAATGTCGC
* *
22774 TGACCGTGAATCAGCACATTG
1 TGGCCTTGAATCAGCACATTG
22795 ACATCCTTTT
Statistics
Matches: 267, Mismatches: 28, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
91 27 0.10
92 72 0.27
93 1 0.00
94 1 0.00
95 44 0.16
96 1 0.00
98 40 0.15
100 3 0.01
101 77 0.29
103 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (97 bp):
TGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCCTTTTCATCTTTAAGTCCAATGTCGC
Found at i:24299 original size:16 final size:17
Alignment explanation
Indices: 24268--24301 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24258 TTTGTCTCTC
24268 CAAAACCAGCAAAATAG
1 CAAAACCAGCAAAATAG
*
24285 CAAAA-CAGCATAATAG
1 CAAAACCAGCAAAATAG
24301 C
1 C
24302 TTGTGTTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.56, C:0.24, G:0.12, T:0.09
Consensus pattern (17 bp):
CAAAACCAGCAAAATAG
Found at i:27059 original size:19 final size:18
Alignment explanation
Indices: 27018--27052 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27008 AAATTTGCTA
27018 ATTTTTGAAAAATAAGGT
1 ATTTTTGAAAAATAAGGT
*
27036 ATTTTTGTAAAA-AAGGT
1 ATTTTTGAAAAATAAGGT
27053 GGATTTTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (18 bp):
ATTTTTGAAAAATAAGGT
Found at i:28659 original size:6 final size:6
Alignment explanation
Indices: 28648--28678 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
28638 AACTAGTCTA
28648 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
28679 GCCTTCGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:32110 original size:17 final size:17
Alignment explanation
Indices: 32088--32124 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32078 TTAAACAAGT
32088 AATGATGAGAATAACAA
1 AATGATGAGAATAACAA
32105 AATGATGAGAATAACAA
1 AATGATGAGAATAACAA
32122 AAT
1 AAT
32125 CAGCAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.19
Consensus pattern (17 bp):
AATGATGAGAATAACAA
Found at i:32217 original size:172 final size:172
Alignment explanation
Indices: 31931--32263 Score: 666
Period size: 172 Copynumber: 1.9 Consensus size: 172
31921 AAAGCTCACT
31931 AAAATGATGAGAATAACAAAATCAGCAAGTGAAAGTGAAAAAGTTTAAAAATATACCAACAAGAT
1 AAAATGATGAGAATAACAAAATCAGCAAGTGAAAGTGAAAAAGTTTAAAAATATACCAACAAGAT
31996 AGAAATCTGATTTGTTGGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCTAATAG
66 AGAAATCTGATTTGTTGGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCTAATAG
32061 AAATCTGATTTGTTAGCTTAAACAAGTAATGATGAGAATAAC
131 AAATCTGATTTGTTAGCTTAAACAAGTAATGATGAGAATAAC
32103 AAAATGATGAGAATAACAAAATCAGCAAGTGAAAGTGAAAAAGTTTAAAAATATACCAACAAGAT
1 AAAATGATGAGAATAACAAAATCAGCAAGTGAAAGTGAAAAAGTTTAAAAATATACCAACAAGAT
32168 AGAAATCTGATTTGTTGGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCTAATAG
66 AGAAATCTGATTTGTTGGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCTAATAG
32233 AAATCTGATTTGTTAGCTTAAACAAGTAATG
131 AAATCTGATTTGTTAGCTTAAACAAGTAATG
32264 TAACTTGTTT
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 161 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (172 bp):
AAAATGATGAGAATAACAAAATCAGCAAGTGAAAGTGAAAAAGTTTAAAAATATACCAACAAGAT
AGAAATCTGATTTGTTGGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCTAATAG
AAATCTGATTTGTTAGCTTAAACAAGTAATGATGAGAATAAC
Found at i:32238 original size:63 final size:63
Alignment explanation
Indices: 32166--32290 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
32156 TACCAACAAG
*
32166 ATAGAAATCTGATTTGTTGGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCTA
1 ATAGAAATCTGATTTGTTAGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCTA
32229 ATAGAAATCTGATTTGTTAGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCT
1 ATAGAAATCTGATTTGTTAGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCT
32291 GAAAACAAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (63 bp):
ATAGAAATCTGATTTGTTAGCTTAAACAAGTAATGTAACTTGTTTAACACCTTTGTGTGGCTA
Found at i:32960 original size:20 final size:20
Alignment explanation
Indices: 32934--32988 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
32924 AAAAAGACAG
*
32934 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
32954 CATGTATCGATACGTTGAAA
1 AATGTATCGATACATTCAAA
32974 AATGTATCGATACAT
1 AATGTATCGATACAT
32989 CTGGGTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:33914 original size:28 final size:28
Alignment explanation
Indices: 33830--34342 Score: 544
Period size: 28 Copynumber: 18.0 Consensus size: 28
33820 TTTAAAAAAA
*
33830 GTGCCACTAACTTGTACGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGT--GGGCTTTG-AAAG-G
* * * *
33862 TTGTCACCGACTTGTGTAAGCTTTGAAAGG
1 GTGCCACTGACTTGTG--GGCTTTGAAAGG
** *
33892 GTGCCACCAACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
33920 GTATGCCACTGACTTGTGGGCTTTGAAAGG
1 G--TGCCACTGACTTGTGGGCTTTGAAAGG
* *
33950 GTGCCACTAACTTGTGGGCTTTGAAGGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
33978 GTATGCCACTAACTTGTGGGCTTTGAAAGG
1 G--TGCCACTGACTTGTGGGCTTTGAAAGG
* * *
34008 GTACCATTGACTTGTGGGCTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* **
34036 ATGCCACTGACTTGTGATCTTTTG-AAGAG
1 GTGCCACTGACTTGTGGGC-TTTGAAAG-G
* * *
34065 ATACCATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
34093 ATGCCACTGACTTGTGGGCTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
34121 GTGCCACTGGCTTGTGAGCTTTGATAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
34149 GTGCCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
34177 ATGCCACTGACTTGTGGGCTTTAAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
34205 ATGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
34233 GTGCCAATGACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
34261 GTGTCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
34289 ATGCCACTGACTTATGGGTTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
34317 ATGCCACTGACTTGTGGGCTTT-AAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAG
34343 AGATGATGTT
Statistics
Matches: 414, Mismatches: 58, Indels: 23
0.84 0.12 0.05
Matches are distributed among these distances:
27 3 0.01
28 301 0.73
29 22 0.05
30 67 0.16
31 4 0.01
32 17 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:43094 original size:13 final size:13
Alignment explanation
Indices: 43076--43101 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43066 ATACATTACT
43076 CATTGTATCGATA
1 CATTGTATCGATA
43089 CATTGTATCGATA
1 CATTGTATCGATA
43102 TATTAATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:45435 original size:51 final size:51
Alignment explanation
Indices: 45370--45538 Score: 203
Period size: 51 Copynumber: 3.3 Consensus size: 51
45360 ATTTTTCATC
* * * **
45370 TCGGGGATACTCCAATTCCGGTTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAA
* * ** ** *
45421 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATTGATTTACCGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAA
*
45472 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCATTTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAA
**
45523 TTTGGGATACTCCAAC
1 TCGGGGATACTCCAAC
45539 CCCGTTATTT
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 97 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAA
Found at i:45558 original size:28 final size:28
Alignment explanation
Indices: 45526--45598 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
45516 TTCACAATTT
*
45526 GGGATACTCCAACCCCGTTATTTCAT-CG
1 GGGATACTCCAACCCCGTTATTTC-TGAG
*
45554 GGGATACTCCAACCTCGTTATTTCTGAG
1 GGGATACTCCAACCCCGTTATTTCTGAG
45582 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
45599 GCTTTATATC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCTGAG
Found at i:45663 original size:109 final size:107
Alignment explanation
Indices: 45475--45754 Score: 328
Period size: 109 Copynumber: 2.6 Consensus size: 107
45465 ACCGCAATCG
* * * * * * * **
45475 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCATTTTTTCACAATTTGGGATACTCCAACC
1 GGGATACTCCAACCCCGACTTTATATCTAAAATAACAATTTTTCACAATCGGGGATACTCCAACC
* * * *
45540 CCGTTATTTCATCGGGGATACTCCAA-CCTCGTTATTTCTGAG
66 CCGTTATGTAATCGGGGATACTCCAATCC-CGTTATTTCCGAA
* ** * * *
45582 GGGATACTCCAACCCCGGCTTTATATCTAAAATATTGATTTTTTCAGAATCAGGGGGTACTCCAA
1 GGGATACTCCAACCCCGACTTTATATCTAAAATA-ACAATTTTTCACAATC-GGGGATACTCCAA
*
45647 CCCCGTTATGTAATCGGGGATACTCTAATCCCGTTATTTCCGAA
64 CCCCGTTATGTAATCGGGGATACTCCAATCCCGTTATTTCCGAA
* *
45691 GGGATACTCCAACCCCGATTTTATTTCTAAAATAACAATTTTTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATATCTAAAATAACAATTTTTCACAATCGGGGATACTCCAAC
45755 TTCGATTTTA
Statistics
Matches: 146, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
107 41 0.28
108 25 0.17
109 78 0.53
110 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (107 bp):
GGGATACTCCAACCCCGACTTTATATCTAAAATAACAATTTTTCACAATCGGGGATACTCCAACC
CCGTTATGTAATCGGGGATACTCCAATCCCGTTATTTCCGAA
Found at i:45670 original size:28 final size:27
Alignment explanation
Indices: 45629--45707 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 27
45619 ATTTTTTCAG
*
45629 AATCAGGGGGTACTCCAACCCCGTTATGT
1 AATC-GGGGATACTCCAACCCCGTTAT-T
* *
45658 AATCGGGGATACTCTAATCCCGTTATT
1 AATCGGGGATACTCCAACCCCGTTATT
45685 --TCCGAAGGGATACTCCAACCCCG
1 AAT-CG--GGGATACTCCAACCCCG
45708 ATTTTATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 1 0.02
26 2 0.05
27 1 0.02
28 34 0.81
29 4 0.10
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (27 bp):
AATCGGGGATACTCCAACCCCGTTATT
Found at i:45754 original size:51 final size:50
Alignment explanation
Indices: 45691--45807 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 50
45681 TATTTCCGAA
* *
45691 GGGATACTCCAACCCCGATTTTATTTCTAAAATAACAATTTTTCACAATC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACAACAATTTCTCACAATC
** * * * *
45741 GGGGATACTCCAACTTCGATTTTATTTTTGAAACACCAATTTCTCGCAATC
1 -GGGATACTCCAACCCCGATTTTATTTCTAAAACAACAATTTCTCACAATC
45792 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
45808 ATTATTTTCA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 14 0.25
51 42 0.75
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACAACAATTTCTCACAATC
Found at i:45910 original size:79 final size:76
Alignment explanation
Indices: 45740--45958 Score: 242
Period size: 79 Copynumber: 2.8 Consensus size: 76
45730 TTTTCACAAT
** * * *
45740 CGGGGATACTCCAACTTCGATTTTATTTTTGAAACACCAATTTCTCGCAATCGGGATACTCCAAC
1 CGGGGATACTCCAACCCCGATTTTATTTTT-AAACACCGATTTTTCACAATCGGGATACT-CAAC
45805 CCCATTATTTTCA
64 CCCATTATTTTCA
* * *
45818 CGGGGATACTCCAACCCCGGTTTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCAAT
1 CGGGGATACTCCAACCCCGATTTTATTTTTAAA-CACCGATTTTTCACAATC-GGGATACTCAA-
* *
45883 CCTCGTTATTTTCA
63 CCCCATTATTTTCA
* * *
45897 TGGGGATACTCCAATCCCGATTTTATTTTTAAAACACCGA-TTTTCTATAATCAGGGATACTC
1 CGGGGATACTCCAACCCCGATTTTATTTTT-AAACACCGATTTTTC-ACAATC-GGGATACTC
45959 CAGCCCCGTT
Statistics
Matches: 119, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
77 3 0.03
78 48 0.40
79 65 0.55
80 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (76 bp):
CGGGGATACTCCAACCCCGATTTTATTTTTAAACACCGATTTTTCACAATCGGGATACTCAACCC
CATTATTTTCA
Found at i:50860 original size:24 final size:25
Alignment explanation
Indices: 50820--50876 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
50810 AAAGCGATTT
50820 AGAAAAAAGAAACAAAA-GAGAAAA
1 AGAAAAAAGAAACAAAATGAGAAAA
* *
50844 AGAAAAAAGCATA-AAAATGAGAAAC
1 AGAAAAAAG-AAACAAAATGAGAAAA
*
50869 ACAAAAAA
1 AGAAAAAA
50877 TGGGGGAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.75, C:0.07, G:0.14, T:0.04
Consensus pattern (25 bp):
AGAAAAAAGAAACAAAATGAGAAAA
Found at i:52257 original size:62 final size:61
Alignment explanation
Indices: 52102--52432 Score: 445
Period size: 61 Copynumber: 5.4 Consensus size: 61
52092 TAGCCCTTCC
* * *
52102 AGTCCTCAAAGAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
** *
52163 AGTCCT-AAAAGAGCAGGACACCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAA-AGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC-TTT
* *
52225 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTTAAGGCCCACGCAAGTTGGTGGCACCTTT
1 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
52286 AGTCCTCAAAAAGCAGGATGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
1 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
* ** * * *
52348 AGTCCTCAAAGAGCAGGACACGTTCTTC--TTTAAAG-CCACACAAGTTGGTGGCACCTCCT
1 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT-TT
*
52407 AGTCCTCAAAGAGCAGGATGCACTTT
1 AGTCCTCAAAAAGCAGGATGC-CTTT
52433 ATTTTCCTCT
Statistics
Matches: 240, Mismatches: 24, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
58 3 0.01
59 38 0.16
60 12 0.05
61 104 0.43
62 79 0.33
63 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (61 bp):
AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:52321 original size:123 final size:124
Alignment explanation
Indices: 52102--52432 Score: 467
Period size: 123 Copynumber: 2.7 Consensus size: 124
52092 TAGCCCTTCC
* *
52102 AGTCCTCAAAGAGTAGGATGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
** *
52167 CT-AAAAGAGCAGGACACC-TTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
66 CTCAAAA-AGCAGGATGCCTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
* * *
52225 AGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTTAAGGCCCACGCAAGTTGGTGGCACCTTTAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
52290 CTCAAAAAGCAGGATGCCTTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
66 CTCAAAAAGCAGGATGCCTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
** * * *
52348 AGTCCTCAAAGAGCAGGACACGTTCTTC--TTTAAAG-CCACACAAGTTGGTGGCACCTCCTAGT
1 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT-TTAGT
*
52410 CCTCAAAGAGCAGGATGCACTTT
65 CCTCAAAAAGCAGGATGC-CTTT
52433 ATTTTCCTCT
Statistics
Matches: 187, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
120 20 0.11
121 27 0.14
122 4 0.02
123 126 0.67
124 10 0.05
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (124 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
CTCAAAAAGCAGGATGCCTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
Found at i:52470 original size:43 final size:43
Alignment explanation
Indices: 52408--52655 Score: 272
Period size: 43 Copynumber: 5.7 Consensus size: 43
52398 GCACCTCCTA
*
52408 GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTCTTTC-CCCTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTTCCT-TTTCTCCTTT
* * *
52451 ATCCTCAAAGAGCAGGATGCACTTCA-TTTCCTTTTTTCCCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTTCC--TTTTCTCCTTT
* *
52495 GTCCTCAAAGAGCAGGACGTACTTTATTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTTTTCTCCTTT
* * * * *
52538 GTCCTCAAAAAGCATGACGCATTTTACTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTTTTCTCCTTT
52581 GTCCTCAAAGAGCAGGA--CACATTTCATTCCCTT-CTTTTCTCCTTTT
1 GTCCTCAAAGAGCAGGATGCAC-TTT-ATT---TTCCTTTTCTCC-TTT
*
52627 GTCCTCAAAGAGCAGGATGCACTTCATTT
1 GTCCTCAAAGAGCAGGATGCACTTTATTT
52656 CTTTCTTTTC
Statistics
Matches: 175, Mismatches: 18, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.01
42 8 0.05
43 94 0.54
44 27 0.15
45 14 0.08
46 25 0.14
47 2 0.01
48 3 0.02
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTTTTCTCCTTT
Found at i:52524 original size:87 final size:87
Alignment explanation
Indices: 52408--52689 Score: 299
Period size: 87 Copynumber: 3.2 Consensus size: 87
52398 GCACCTCCTA
* * *
52408 GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTCTTTC-CCCTTATCCTCAAAGAGCAGGATGCA
1 GTCCTCAAAGAGCAGGACG-ACTTTATTTTCCTCTTTCTCCTTTGTCCTCAAAGAGCAGGATGCA
52472 CTTCATTTCCTTTTTTCCCCTTT
65 CTTCATTTCCTTTTTTCCCCTTT
* * *
52495 GTCCTCAAAGAGCAGGACGTACTTTATTTTCCT-TTTCTCCTTTGTCCTCAAAAAGCATGACGCA
1 GTCCTCAAAGAGCAGGACG-ACTTTATTTTCCTCTTTCTCCTTTGTCCTCAAAGAGCAGGATGCA
* * *
52559 TTTTACTTTCC--TTTTCTCCTTT
65 CTTCA-TTTCCTTTTTTCCCCTTT
*
52581 GTCCTCAAAGAGCAGGAC-ACATTTCA-TTCCCTTCTTTTCTCCTTTTGTCCTCAAAGAGCAGGA
1 GTCCTCAAAGAGCAGGACGAC-TTT-ATTTTCC-TC-TTTCTCC-TTTGTCCTCAAAGAGCAGGA
* *
52644 TGCACTTCATTT-CTTTCTTTTCCTTTT
61 TGCACTTCATTTCCTTT-TTTCCCCTTT
* *
52671 AGCCCTTAAAGAGCAGGAC
1 -GTCCTCAAAGAGCAGGAC
52690 ACCTTTTTTT
Statistics
Matches: 162, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
84 2 0.01
85 7 0.04
86 34 0.21
87 56 0.35
88 15 0.09
89 25 0.15
90 7 0.04
91 16 0.10
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (87 bp):
GTCCTCAAAGAGCAGGACGACTTTATTTTCCTCTTTCTCCTTTGTCCTCAAAGAGCAGGATGCAC
TTCATTTCCTTTTTTCCCCTTT
Found at i:52800 original size:61 final size:61
Alignment explanation
Indices: 52668--53054 Score: 548
Period size: 61 Copynumber: 6.3 Consensus size: 61
52658 TTCTTTTCCT
* *
52668 TTTAGCCCTTAAAGAGCAGGACACCTTTTT-TTTTC-AAGCCCACACGAGTTGGTGGCACAC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC-C
** * *
52728 TTTAGTCCTCAAAGAATAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
* * **
52789 TTTAGTCCTCAAGGAGCAGGACACC-TTTTCTTTTTAAAGCCCACATAAGTTGGTGGCACC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
*
52849 TTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACT
1 -TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
*
52911 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
* * * * * *
52972 TTCCAGTCCTCAAAGAGTAGGACGCC-TTTTCATTTCAAAGCTCACACGAGTTGGTGGCACTT
1 TT-TAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC-C
53034 TTTAGTCCTCAAAGAGCAGGA
1 TTTAGTCCTCAAAGAGCAGGA
53055 TGTCTTTTCC
Statistics
Matches: 291, Mismatches: 30, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
60 56 0.19
61 159 0.55
62 76 0.26
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (61 bp):
TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
Found at i:53039 original size:184 final size:182
Alignment explanation
Indices: 52665--53054 Score: 584
Period size: 184 Copynumber: 2.1 Consensus size: 182
52655 TCTTTCTTTT
* *
52665 CCTTTTAGCCCTTAAAGAGCAGGACACCTTTTTTTTTCAAGCCCACACGAGTTGGTGGCACACTT
1 CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTTTTTCAAGCCCACACGAGTTGGTGGCACACTT
* * * *
52730 TAGTCCTCAAAGAATAAGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGT
66 TAGTCCTCAAAGAACAAGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * * *
52795 CCTCAAGGAGCAGGACACCTTTTCTTTTTAAAGCCCACATAAGTTGGTGGCA
131 CCTCAAAGAGCAGGACACCTTTTCATTTCAAAGCCCACACAAGTTGGTGGCA
*
52847 CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC-T
1 CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTT-TTTTC-AAGCCCACACGAGTTGGTGGCACAC
* *
52911 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
64 TTTAGTCCTCAAAGAACAAGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-C
* * * *
52976 AGTCCTCAAAGAGTAGGACGCCTTTTCATTTCAAAGCTCACACGAGTTGGTGGCA
128 AGTCCTCAAAGAGCAGGACACCTTTTCATTTCAAAGCCCACACAAGTTGGTGGCA
*
53031 CTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTTAGTCCTCAAAGAGCAGGA
53055 TGTCTTTTCC
Statistics
Matches: 187, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
182 31 0.17
183 63 0.34
184 93 0.50
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (182 bp):
CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTTTTTCAAGCCCACACGAGTTGGTGGCACACTT
TAGTCCTCAAAGAACAAGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGT
CCTCAAAGAGCAGGACACCTTTTCATTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:53322 original size:40 final size:41
Alignment explanation
Indices: 53229--53328 Score: 116
Period size: 41 Copynumber: 2.4 Consensus size: 41
53219 GGACGTACTC
*
53229 TTTTTCACTTTGTCCTCAAGAAGCAAAACACTTTCCTTTTCT
1 TTTTTC-CTTTGTCCTCAAGAAGCAAAACACTTTCCTATTCT
* * *
53271 TTCTTT-CTTTGTCCTCAAGGAGCAAGAC-CTATTTC-ATTCT
1 TT-TTTCCTTTGTCCTCAAGAAGCAAAACACT-TTCCTATTCT
53311 TTTTTCCTTTGTCCTCAA
1 TTTTTCCTTTGTCCTCAA
53329 AAAATGGGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
39 3 0.06
40 20 0.39
41 23 0.45
42 2 0.04
43 3 0.06
ACGTcount: A:0.20, C:0.26, G:0.09, T:0.45
Consensus pattern (41 bp):
TTTTTCCTTTGTCCTCAAGAAGCAAAACACTTTCCTATTCT
Found at i:53925 original size:13 final size:13
Alignment explanation
Indices: 53909--53938 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
53899 ATACATTGTT
53909 CATTGTATTGATA
1 CATTGTATTGATA
53922 CATTGTATTGATA
1 CATTGTATTGATA
53935 CATT
1 CATT
53939 CTGGCTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (13 bp):
CATTGTATTGATA
Found at i:53979 original size:20 final size:19
Alignment explanation
Indices: 53954--54027 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
53944 TTTACCTAGA
53954 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
53974 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
53994 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
*
54014 TATATCGATACATT
1 TGTATCGATACATT
54028 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:56376 original size:51 final size:51
Alignment explanation
Indices: 56321--56489 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 51
56311 ACTTTTCATC
* * **
56321 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTTTCGCAA
* * ** **
56372 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATTGATTTACCGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCGCAA
* *
56423 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCATTTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCGCAA
* * *
56474 TTGAGGATATTCCAAC
1 TCGGGGATACTCCAAC
56490 CCCGTTATTT
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
51 95 0.99
52 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCGCAA
Found at i:56515 original size:28 final size:27
Alignment explanation
Indices: 56478--56549 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
56468 TCACAATTGA
*
56478 GGATATTCCAACCCCGTTA-TTTCATCGG
1 GGATACTCCAACCCCGTTATTTTCA--GG
* *
56506 GGATGCTCCAACCCTGTTATTTTCGAGG
1 GGATACTCCAACCCCGTTATTTTC-AGG
56534 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
56550 GCTTTATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTTTCAGG
Found at i:56683 original size:109 final size:109
Alignment explanation
Indices: 56484--56684 Score: 271
Period size: 109 Copynumber: 1.8 Consensus size: 109
56474 TTGAGGATAT
* * *
56484 TCCAACCCCGTTATTTCATCGGGGATGCTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCC
1 TCCAACCCCGTTATGTCATCGGGGATACTCAAACCCTGTTATTTTCGAGGGGATACTCCAACCCC
* ***
56549 GGCTTTATATCTAAAATATTGATTTTTTCGTGATCAGGGGCTAC
66 GACTTTATATCTAAAATACCAATTTTTTCGTGATCAGGGGCTAC
*
56593 TCCAACCCCGTTATGTCATCGGGGATACTCAAATCCC-GTTA-TTTCTGAGGGGATACTCTAACC
1 TCCAACCCCGTTATGTCATCGGGGATACTCAAA-CCCTGTTATTTTC-GAGGGGATACTCCAACC
* * *
56656 TCGATTTTATTTCTAAAATACCAATTTTT
64 CCGACTTTATATCTAAAATACCAATTTTT
56685 CACAATCGGG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
108 4 0.05
109 72 0.91
110 3 0.04
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (109 bp):
TCCAACCCCGTTATGTCATCGGGGATACTCAAACCCTGTTATTTTCGAGGGGATACTCCAACCCC
GACTTTATATCTAAAATACCAATTTTTTCGTGATCAGGGGCTAC
Found at i:56701 original size:51 final size:52
Alignment explanation
Indices: 56641--56757 Score: 193
Period size: 51 Copynumber: 2.3 Consensus size: 52
56631 TTATTTCTGA
*
56641 GGGGATACTCTAACCTC-GATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCTAACCTCTGATTTTATTTCTAAAATACCAATTTCTCACAATC
* *
56692 GGGGATACTCCAA-CTCTGATTTTATTTCTGAAATACCAATTTCTCACAATC
1 GGGGATACTCTAACCTCTGATTTTATTTCTAAAATACCAATTTCTCACAATC
56743 GGGGATACTCTAACC
1 GGGGATACTCTAACC
56758 CCGTTATTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 3 0.05
51 56 0.93
52 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (52 bp):
GGGGATACTCTAACCTCTGATTTTATTTCTAAAATACCAATTTCTCACAATC
Found at i:56805 original size:28 final size:28
Alignment explanation
Indices: 56742--56811 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
56732 TTCTCACAAT
*
56742 CGGGGATACTCTAACCCCGTTATTTTCA
1 CGGGGATACTCCAACCCCGTTATTTTCA
* ** * **
56770 CGGAGATACTCCAACCTTGTTTTTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTCA
56798 CGGGGATACTCCAA
1 CGGGGATACTCCAA
56812 TCCTGATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCA
Found at i:60324 original size:79 final size:79
Alignment explanation
Indices: 60188--60490 Score: 455
Period size: 79 Copynumber: 3.8 Consensus size: 79
60178 CATTTTGACG
* * *
60188 AAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGGGTATCTCCGATTATGAAAAATTG
1 AAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTG
60253 ATGTTTTAGAAATA
66 ATGTTTTAGAAATA
* ** * *
60267 AAATCGGGGTTAAAGTATCCCCTCAGAAATAACGGGGTTTGAGTATCCCCGAGTATGAAAAATTG
1 AAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTG
* *
60332 ATATTTTAGAGATA
66 ATGTTTTAGAAATA
* *
60346 AAACCGGGGTTGGACTATCTCCTC-GAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATT
1 AAACCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATT
60410 GATGTTTTAGAAATA
65 GATGTTTTAGAAATA
* * *
60425 AAACCGGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTAGAGTATCCCCGATTGTGAAAAATTG
1 AAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTG
60490 A
66 A
60491 GAAAATTAAA
Statistics
Matches: 198, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
78 1 0.01
79 196 0.99
80 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
AAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTG
ATGTTTTAGAAATA
Found at i:61878 original size:35 final size:34
Alignment explanation
Indices: 61858--62024 Score: 280
Period size: 35 Copynumber: 4.8 Consensus size: 34
61848 TCCTCTTTTT
*
61858 CCCATCATTCCATGCCTTCATTTTTATCTTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATT-CATG
*
61893 CCCATCATTCCATGCCTCCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATT-CATG
61928 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATT-CATG
61963 CCCATCATTCCATGCCTTCATTTTTATATTCCATG
1 CCCATCATTCCATGCCTTCATTTTTATATT-CATG
61998 CCCATCATTCCATGCCTTCATTTTTAT
1 CCCATCATTCCATGCCTTCATTTTTAT
62025 TATTTTTTTA
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 129 1.00
ACGTcount: A:0.19, C:0.33, G:0.05, T:0.43
Consensus pattern (34 bp):
CCCATCATTCCATGCCTTCATTTTTATATTCATG
Found at i:61924 original size:21 final size:21
Alignment explanation
Indices: 61899--61999 Score: 68
Period size: 21 Copynumber: 5.5 Consensus size: 21
61889 CATGCCCATC
61899 ATTCCATGCCTCCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
61920 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
61934 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
*
61955 ATTCCATG-C-CCA----T-C
1 ATTCCATGCCTCCATTTTTAT
*
61969 ATTCCATGCCTTCATTTTTAT
1 ATTCCATGCCTCCATTTTTAT
61990 ATTCCATGCC
1 ATTCCATGCC
62000 CATCATTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 28
0.63 0.07 0.30
Matches are distributed among these distances:
14 16 0.27
15 4 0.07
16 4 0.07
19 5 0.08
20 4 0.07
21 26 0.44
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTCCATGCCTCCATTTTTAT
Found at i:61971 original size:70 final size:70
Alignment explanation
Indices: 61858--62024 Score: 316
Period size: 70 Copynumber: 2.4 Consensus size: 70
61848 TCCTCTTTTT
*
61858 CCCATCATTCCATGCCTTCATTTTTATCTTCCATGCCCATCATTCCATGCCTCCATTTTTATATT
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATT
61923 CCATG
66 CCATG
*
61928 CCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTTCATTTTTATATT
1 CCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATT
61993 CCATG
66 CCATG
61998 CCCATCATTCCATGCCTTCATTTTTAT
1 CCCATCATTCCATGCCTTCATTTTTAT
62025 TATTTTTTTA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 95 1.00
ACGTcount: A:0.19, C:0.33, G:0.05, T:0.43
Consensus pattern (70 bp):
CCCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGCCTCCATTTTTATATT
CCATG
Found at i:62064 original size:6 final size:6
Alignment explanation
Indices: 62030--62057 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
62020 TTTATTATTT
62030 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
62058 TGATTTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:62815 original size:61 final size:61
Alignment explanation
Indices: 62725--63097 Score: 389
Period size: 61 Copynumber: 6.2 Consensus size: 61
62715 AAAAAAGTGT
* * *
62725 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTCAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTCAAAAGAAAAGGC
* * * *
62786 GTCCTGCTCTTTAAAGACT-AGAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTT-CAAAAGA-AAAGGC
* * *
62847 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTCAAAAGAAAAGGC
* * *
62908 GTCCTGCTCTTTGAGGACTG-AAAGATGCCACCAATTAGTGTTGGATTTGCAAAA-AGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTT-CAAAAGA-AAAGGC
* * * *
62969 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTCAAAA-GAAAAGGC
* * *
63030 GTCCTGCTCTTTGAGGACT-TAAGGTGCC-CTCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCAC-CAACTAGTGTGGGCTTTCAAAAGAAAAGGC
63084 GTCCTGCTCTTTGA
1 GTCCTGCTCTTTGA
63098 AATGTAAAGG
Statistics
Matches: 266, Mismatches: 32, Indels: 35
0.80 0.10 0.11
Matches are distributed among these distances:
54 18 0.07
55 1 0.00
59 5 0.02
60 41 0.15
61 178 0.67
62 23 0.09
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTCAAAAGAAAAGGC
Found at i:63042 original size:122 final size:121
Alignment explanation
Indices: 62726--63048 Score: 522
Period size: 122 Copynumber: 2.6 Consensus size: 121
62716 AAAAAGTGTG
* * *
62726 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTCAAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCT
* *
62791 GCTCTTTAAAGACTAGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
65 GCTCTTTGAGGACTAGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
62848 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCT
* *
62913 GCTCTTTGAGGACT-GAAAGATGCCACCAATTAGTGTTGGATTTGCAAAAAGAAAGCA
65 GCTCTTTGAGGACTAG-AAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
* *
62970 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCT
63035 GCTCTTTGAGGACT
65 GCTCTTTGAGGACT
63049 TAAGGTGCCC
Statistics
Matches: 189, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
121 5 0.03
122 184 0.97
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (121 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
CTCTTTGAGGACTAGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
Found at i:63113 original size:122 final size:118
Alignment explanation
Indices: 62726--63097 Score: 468
Period size: 122 Copynumber: 3.1 Consensus size: 118
62716 AAAAAGTGTG
* * * *
62726 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTCAAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
* * *
62791 GCTCTTTAAAGACT-AGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCA
66 GCTCTTTGAGGACTGA-AAGATGCCACCAATTAGTGTGGGATTTG--AAAAG--AGCA
62848 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
*
62913 GCTCTTTGAGGACTGAAAGATGCCACCAATTAGTGTTGGATTTGCAAAAAGAAAGCA
66 GCTCTTTGAGGACTGAAAGATGCCACCAATTAGTGTGGGATTTG--AAAAG--AGCA
* * *
62970 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
* * * *
63035 GCTCTTTGAGGACT-TAAGGTGCC-CTCAACTT-GTGTGGGCTTTG-AAAG-GCG
66 GCTCTTTGAGGACTGAAAGATGCCAC-CAA-TTAGTGTGGGATTTGAAAAGAGCA
63085 TCCTGCTCTTTGA
1 TCCTGCTCTTTGA
63098 AATGTAAAGG
Statistics
Matches: 231, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
115 15 0.06
118 4 0.02
120 1 0.00
121 20 0.09
122 190 0.82
123 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (118 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCCT
GCTCTTTGAGGACTGAAAGATGCCACCAATTAGTGTGGGATTTGAAAAGAGCA
Found at i:63275 original size:209 final size:212
Alignment explanation
Indices: 62906--63949 Score: 774
Period size: 209 Copynumber: 4.9 Consensus size: 212
62896 AAAAGAAAAG
* * * *
62906 GCGTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAA-TTAGTGTTGGATTTGCAAAAAGAAAGC
1 GCGTCCTGCTCTTTGAGGACTAGGAAG-TGCCACCAACTT-GTGTGGGCTTT--AAAAAGAGAG-
* * *
62969 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCC
61 -TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
*
63034 TGCTCTTTGAGGACT-TAAGGTGCC-CTCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
125 TGCTCTTTGAGGACTAAAAGGTGCCAC-CAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
* *
63097 A-AATGTAAAGGGTGAAAGGAGAGA
189 AGAA-CTAAAGGGCGAAAGGAGAGA
*
63121 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAGTCCTG
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAGTCCTA
* *
63184 CTCTTTGAGGACTGAAAGGTGCCACCTACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCT
66 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCT
* *
63249 TTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAGGCGTCCTACTCTTTGA
131 TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTGA
* ** * ** ** *
63313 GGACTAGAAAAGTGCCACCA-A-C
190 GAACTA-AAGGGCGAAAGGAGAGA
** * ** * ** * * ** * * * * * ***
63335 TTGT-GTGGGCTTT-A-CAAAAAGAA-AG-CATCCTGCTCTTTGAGGAC--TGAAAAGTGCCACC
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCA-CCAACT-TGTGTGGGCTTTAAAAAGAGAGTCC
* * * * * * ** * * * ** *
63393 AACT-TGTGTGGGCTTTAAAAGGCGTCCTGC-TCTT-TGAGGACTAAAGGGCGAAAGGAG-GGAG
64 TACTCTTTGAGGAC--TGAAAGGTG-CCACCAACTTGTGTGGGCTTTA-----AAAGGAGAAG-G
* * * * *
63454 CGTCTTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCT
120 CGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
63518 CTTTGAGGACTAAAGGGCGAAAGGAGAGA
184 CTTTGAGAACTAAAGGGCGAAAGGAGAGA
* * *
63547 GCGTCCTACTCTTTGAGGACTAAGAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAGAAAGTAT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAG--AG--T
* * * *
63612 CCTATTTTTTGAGGATTG-AAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCATCCTG
62 CCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
* * * * *
63670 TTCTTTGAGGACTAAAAAGTGTCACCAACTTGTGTGGGCTTTGAAAAGCGTCCTGCTCTTTGAGG
127 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGA
* *
63735 ACAAAAAGGCGAAAGGAGAGA
192 ACTAAAGGGCGAAAGGAGAGA
*
63756 GCGTCCTGCTCTTTGAGGACAAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCGT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAG--A--GT
* *
63821 CCTACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT---A--A-AACGCGTCCTG
62 CCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
* *
63879 CTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
127 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGA
63944 ACTAAA
192 ACTAAA
63950 AAATGCCACC
Statistics
Matches: 655, Mismatches: 128, Indels: 98
0.74 0.15 0.11
Matches are distributed among these distances:
208 2 0.00
209 360 0.55
210 25 0.04
211 52 0.08
212 19 0.03
213 14 0.02
214 4 0.01
215 73 0.11
216 44 0.07
217 32 0.05
218 6 0.01
219 8 0.01
220 7 0.01
221 4 0.01
222 5 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (212 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAGTCCTA
CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCT
TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGAACTA
AAGGGCGAAAGGAGAGA
Found at i:63363 original size:122 final size:119
Alignment explanation
Indices: 63124--63411 Score: 408
Period size: 122 Copynumber: 2.4 Consensus size: 119
63114 GGAGAGAGCG
*
63124 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT--A---AAAGGAGTCCTG
1 TCCTGCTCTTTGAGGACT--GAAGTGCCACCAACTTGTGTGGGCTTTAAAGGCAAAGGAGTCCTA
* * * *
63184 CTCTTTGAGGACTGAAAGGTGCCACCTACTTGTGTGGGCTTTAAAAGGAGAAGGCA
64 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAAGCA
*
63240 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAGGCGTCCTA
1 TCCTGCTCTTTGAGGACTGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAGGCAAAGGAGTCCTA
63305 CTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTACAAA-AAGAAAGCA
64 CTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTA-AAAGAAGAAAGCA
63362 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 TCCTGCTCTTTGAGGACTG--AAGTGCCACCAACTTGTGTGGGCTTTAAA
63412 AGGCGTCCTG
Statistics
Matches: 155, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
114 3 0.02
115 24 0.15
116 18 0.12
118 1 0.01
121 23 0.15
122 57 0.37
123 27 0.17
124 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCTGCTCTTTGAGGACTGAAGTGCCACCAACTTGTGTGGGCTTTAAAGGCAAAGGAGTCCTACT
CTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAAGCA
Found at i:63409 original size:61 final size:60
Alignment explanation
Indices: 63124--63434 Score: 369
Period size: 55 Copynumber: 5.3 Consensus size: 60
63114 GGAGAGAGCG
* *
63124 TCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTT--AAAAG-GAG--
1 TCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
* * * *
63179 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCTACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-AAGAAAGCA
* * * *
63240 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-GAAAGGCAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAG-AAA-GCA
*
63300 TCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTACAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTA-AAAAAGAAAGCA
*
63362 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAG---GCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
63417 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
63435 AAAGGGCGAA
Statistics
Matches: 224, Mismatches: 19, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
55 62 0.28
56 1 0.00
57 2 0.01
58 8 0.04
59 5 0.02
60 45 0.20
61 49 0.22
62 45 0.20
63 3 0.01
64 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
Found at i:63528 original size:94 final size:94
Alignment explanation
Indices: 63362--63600 Score: 399
Period size: 94 Copynumber: 2.5 Consensus size: 94
63352 AAAGAAAGCA
* *
63362 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1 TCCTACTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
63426 TTGAGGACTAAAGGGCGAAAGGAGGGAGCG
65 TTGAGGACTAAAGGGCGAAAGGAGAGAGCG
* *
63456 TCTTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
63521 TGAGGACTAAAGGGCGAAAGGAGAGAGCG
66 TGAGGACTAAAGGGCGAAAGGAGAGAGCG
* *
63550 TCCTACTCTTTGAGGACTAAGAAGTGCCACCAACTCGTGTGGGCTTTAAAA
1 TCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
63601 AGAGAAAGTA
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
94 134 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (94 bp):
TCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
TGAGGACTAAAGGGCGAAAGGAGAGAGCG
Found at i:63706 original size:55 final size:56
Alignment explanation
Indices: 63556--63742 Score: 193
Period size: 55 Copynumber: 3.3 Consensus size: 56
63546 AGCGTCCTAC
* * * *
63556 TCTTTGAGGACTAAGAAGTGCCACCAACTCGTGTGGGCTTTAAAAAGAGAAAGTATCCTAT
1 TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA-AG---GCATCCTGT
* ** *
63617 TTTTTGAGGA-TTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCATCCTGT
1 TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGT
* * * *
63671 TCTTTGAGGACTAAAAAGTGTCACCAACTTGTGTGGGCTTTGAAAA-GCGTCCTGC
1 TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGT
63726 TCTTTGAGGAC-AAAAAG
1 TCTTTGAGGACTAAAAAG
63743 GCGAAAGGAG
Statistics
Matches: 109, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
54 22 0.20
55 44 0.40
56 4 0.04
57 2 0.02
58 3 0.03
60 25 0.23
61 9 0.08
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (56 bp):
TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGT
Found at i:64029 original size:116 final size:114
Alignment explanation
Indices: 63756--64245 Score: 514
Period size: 116 Copynumber: 4.2 Consensus size: 114
63746 AAAGGAGAGA
* *
63756 GCGTCCTGCTCTTTGAGGACAAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCG
1 GCGTCCTGCTCTTTGAGGAC-TGGAAGGTGCCACCAACTTGTGTGGGCTTT----AGA-AAGGCG
* * * ** *
63820 TCCTACTTTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT---AAAAC
60 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAAG
* **
63871 GCGTCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-GAAAGGCGTCCTGC
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTGC
63935 TCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
66 TCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT---AAGAAAAG
* * * * *
63987 GTGTCCTGCTCTTTAAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTA-AGAGGCATCCTGC
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTGC
** *
64051 TCTTTGAGGACTGGAAAATGCCACCAACTTTTGTGGGCTTTAAG---AG
66 TCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAAG
* *
64097 GCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGGCG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT---A-G--AAAGGCG
***
64162 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
60 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT--AA-GAAAAG
* *
64220 GTGTTCTGCTCTTTGAGGACTGGAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAG
64246 AGCTAAAAGA
Statistics
Matches: 316, Mismatches: 37, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
109 21 0.07
110 74 0.23
113 4 0.01
114 2 0.01
115 43 0.14
116 97 0.31
117 46 0.15
119 2 0.01
120 1 0.00
123 26 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (114 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCCTGC
TCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAAG
Found at i:64088 original size:171 final size:169
Alignment explanation
Indices: 63751--64212 Score: 644
Period size: 171 Copynumber: 2.7 Consensus size: 169
63741 AGGCGAAAGG
*
63751 AGAGAGCGTCCTGCTCTTTGAGGAC-AAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGA
1 AGAG-GCGTCCTGCTCTTTGAGGACTAA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-A
* * *
63815 AA-GCGTCCTACTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAACGCGTCCTG
63 AAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAACGCATCCTG
63879 CTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGA
128 CTCTTTGAAGACTAAAA-GTGCCACCAACTTGTGTGGGCTTT-A
*
63923 A-AGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 AGAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
* * * * *
63987 GTGTCCTGCTCTTTAAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTTAAGAGGCATCCTGCT
66 GCGTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAACGCATCCTGCT
* *
64052 CTTTGAGGACTGGAAAA-TGCCACCAACTTTTGTGGGCTTTA
130 CTTTGAAGACT--AAAAGTGCCACCAACTTGTGTGGGCTTTA
* * * * *
64093 AGAGGCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA
1 AGAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AAAA
*
64158 GGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAA
65 GGCGTCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAA
64213 GGAAAAGGTG
Statistics
Matches: 259, Mismatches: 23, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
169 3 0.01
170 71 0.27
171 129 0.50
172 52 0.20
173 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (169 bp):
AGAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
GCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAACGCATCCTGCTC
TTTGAAGACTAAAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:64192 original size:62 final size:61
Alignment explanation
Indices: 63756--64241 Score: 472
Period size: 55 Copynumber: 8.4 Consensus size: 61
63746 AAAGGAGAGA
* * * *
63756 GCGTCCTGCTCTTTGAGGACAAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAA-
1 GCGTTCTGCTCTTTGAGGAC-TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAG
* * * *
63817 GCGTCCTACTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT------AAAAC
1 GCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
63871 GCGTCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
1 GCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * ** *
63926 GCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * * *
63987 GTGTCCTGCTCTTTAAGGACTGGAAGGTGCCACCAACCTGTGTGGGCTTT--AA-G---AG
1 GCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
64042 GCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTTTGTGGGCTTT--AA-G---AG
1 GCGTTCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
64097 GCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAG
1 GCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAG
*
64159 GCGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTTCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
64220 GTGTTCTGCTCTTTGAGGACTG
1 GCGTTCTGCTCTTTGAGGACTG
64242 GAAGAGCTAA
Statistics
Matches: 371, Mismatches: 33, Indels: 41
0.83 0.07 0.09
Matches are distributed among these distances:
53 3 0.01
54 23 0.06
55 164 0.44
56 3 0.01
57 2 0.01
58 2 0.01
59 4 0.01
60 26 0.07
61 92 0.25
62 52 0.14
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (61 bp):
GCGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:68421 original size:28 final size:27
Alignment explanation
Indices: 68360--68441 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 27
68350 TTTTGGAGAT
*
68360 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAAC-GGGTTGGAGT-ATCCC-CGATGA
*
68388 AGTAACAGGGTTGGAGTATCCCCGATGA
1 AATAAC-GGGTTGGAGTATCCCCGATGA
*
68416 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACG-GGTTGGAGTATCCCCGAT
68442 TGTGAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
26 2 0.04
27 5 0.11
28 39 0.85
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (27 bp):
AATAACGGGTTGGAGTATCCCCGATGA
Found at i:68485 original size:52 final size:51
Alignment explanation
Indices: 68424--68555 Score: 165
Period size: 52 Copynumber: 2.5 Consensus size: 51
68414 GAAATAACGA
* * * * *
68424 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGT-GTTTTGAAAATAAAACCGG
* * *
68476 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAACCGG
*
68528 GGTTGGAGTATCCCCAATTATGAAAAAT
1 GGTTGGAGTATCCCCGATTATGAAAAAT
68556 CAATATTTCG
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
51 7 0.10
52 50 0.75
53 10 0.15
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:68615 original size:28 final size:27
Alignment explanation
Indices: 68579--68648 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
68569 ATAAAGTCGA
*
68579 GGTTAGAGTATCCCCTCA-GAAATAACGG
1 GGTTGGAGTATCCCC-CATG-AATAACGG
* *
68607 GGTTGGAGTATCCCCGATGATTAACGG
1 GGTTGGAGTATCCCCCATGAATAACGG
*
68634 GGTTGGAGTGTCCCC
1 GGTTGGAGTATCCCC
68649 GATTGTGAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCCATGAATAACGG
Found at i:68727 original size:211 final size:211
Alignment explanation
Indices: 68380--68760 Score: 577
Period size: 211 Copynumber: 1.8 Consensus size: 211
68370 TTGGAGTGTT
* * *
68380 CCCTCGGAAGTAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
1 CCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGT
* **
68445 GAAAAATTGGTATTTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
66 GAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAATG
* *
68510 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTCGGAAATAAAG
131 TTTTGAAAATAAAACCGGAGTTGGAATATCCCCAATTATGAAAAATCAATATTTCGGAAATAAAG
68575 TCGAGGTTAGAGTATC
196 TCGAGGTTAGAGTATC
* * * *
68591 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTGTCCCCGATTGT
1 CCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGT
* *
68655 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATA-GAAAATTAA
66 GAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAA
* * *
68719 TGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTATG
129 TGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCAATTATG
68761 GAGAATTGAG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
210 28 0.19
211 84 0.56
212 39 0.26
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (211 bp):
CCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTGT
GAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAATG
TTTTGAAAATAAAACCGGAGTTGGAATATCCCCAATTATGAAAAATCAATATTTCGGAAATAAAG
TCGAGGTTAGAGTATC
Found at i:71137 original size:33 final size:33
Alignment explanation
Indices: 71095--71157 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
71085 TTTCCAAATG
***
71095 TATCGATACAAAGATCCATGTATCGATACAATA
1 TATCGATACAAAGAAAAATGTATCGATACAATA
*
71128 TATCGATACACAGAAAAATGTATCGATACA
1 TATCGATACAAAGAAAAATGTATCGATACA
71158 TTTCCTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (33 bp):
TATCGATACAAAGAAAAATGTATCGATACAATA
Found at i:71217 original size:13 final size:13
Alignment explanation
Indices: 71199--71225 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71189 ACAATACTTA
71199 TGTATCGATACAT
1 TGTATCGATACAT
71212 TGTATCGATACAT
1 TGTATCGATACAT
71225 T
1 T
71226 TGGAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72054 original size:55 final size:55
Alignment explanation
Indices: 71970--73189 Score: 1861
Period size: 55 Copynumber: 22.3 Consensus size: 55
71960 ATAAACTGTA
* * * * * *
71970 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
72025 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
72080 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
72135 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
72190 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
72245 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
72300 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
**
72355 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
72410 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
72465 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
72520 TCCTGCTCTTTGGGGACTGAAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
72575 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
** *
72630 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
72685 TCCTGCTCTTTGGGGACTGAAAGGTGCAACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
72740 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
72795 TCCTGCTCTTTGAGGACTGGAAA-ATGCTACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
72850 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
72905 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
72960 TCCTGCTCTTTG-GGACTG-AAGGTGCCACC-ACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
73012 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
73067 TCCTGCTCTTTG-GGACTGAAA--TGCCACCAACTTGTGTGGGCTTTAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
73118 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
73172 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
73190 AAAAAGCGGA
Statistics
Matches: 1090, Mismatches: 51, Indels: 49
0.92 0.04 0.04
Matches are distributed among these distances:
51 19 0.02
52 66 0.06
53 28 0.03
54 77 0.07
55 878 0.81
56 22 0.02
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:72134 original size:29 final size:28
Alignment explanation
Indices: 72044--73171 Score: 123
Period size: 28 Copynumber: 41.2 Consensus size: 28
72034 TTGAGGACTG
72044 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * ** *
72072 GAAAGGTGTCCTGC-TCTT-TG-GGGAATG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
72099 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
72127 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
72155 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
72182 GAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
*
72210 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
* ** * * * *
72237 AAGAGGTATCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGT-GCCACCAACTTGTGTGGGCTTT
* *
72264 GAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
72292 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
72319 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
72347 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
**
72374 AAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
72402 GAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
*
72430 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
72457 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
72484 GAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
72512 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
*
72539 AAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
72567 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
72594 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
72622 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
** *
72649 AAAAATGCCACCAACTTGGGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
72677 GAAAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 -AAAGGTG-CCACCAACTTGTGTGGG-CTTT
*
72704 AAAGGTGCAACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
72732 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
72760 AAA-ATGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
72787 GAAAGGTGTCCTGC-TCTT-TGAGGACTGG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
* *
72815 AAA-ATGCTACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
72842 AAGAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
72869 GAAGGCGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
72897 AAGAGGTGTCCTGC-TCTT-TG-GGGAC-TG
1 AA-AGGTG-CCACCAACTTGTGTGGG-CTTT
72924 AAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * *
72952 AAGAGGTGTCCTGC-TCTT-TG-GGAC--T
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
*
72977 GAAGGTGCCACC-ACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * **
73004 AAGAGGTGTCCTGC-TCTT-TGAGGACTGG
1 AA-AGGTG-CCACCAACTTGTGTGGGCTTT
* *
73032 AAA-ATGCCACCAACTTGGGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * *
73059 GAAAGGTGTCCTGC-TCTT-TG-GGAC-TG
1 -AAAGGTG-CCACCAACTTGTGTGGGCTTT
73085 AAA--TGCCACCAACTTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
73111 AAAGGTGTCCTGC-TCTT-TGAGGAC-TG
1 AAAGGTG-CCACCAACTTGTGTGGGCTTT
73137 AAAGGTGCCACCAACTTGTGT-GGCTTT
1 AAAGGTGCCACCAACTTGTGTGGGCTTT
73164 AAGAGGTG
1 AA-AGGTG
73172 TCCTGCTCTT
Statistics
Matches: 714, Mismatches: 272, Indels: 227
0.59 0.22 0.19
Matches are distributed among these distances:
22 3 0.00
23 11 0.02
24 9 0.01
25 63 0.09
26 131 0.18
27 156 0.22
28 157 0.22
29 132 0.18
30 52 0.07
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (28 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:72817 original size:27 final size:27
Alignment explanation
Indices: 72735--72817 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
72725 GGGCTTTAAG
72735 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
72762 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
72790 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
72817 A
1 A
72818 ATGCTACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:74194 original size:8 final size:8
Alignment explanation
Indices: 74172--74239 Score: 50
Period size: 9 Copynumber: 8.0 Consensus size: 8
74162 TTTTCTCTCT
74172 TTTTCTTTG
1 TTTT-TTTG
*
74181 TTTTGTTTT
1 TTTT-TTTG
74190 TTTGTTTTG
1 TTT-TTTTG
74199 TTTTTTTGG
1 TTTTTTT-G
*
74208 TTTTTTTC
1 TTTTTTTG
74216 TTTTTTT-
1 TTTTTTTG
74223 TTTGCTTTT-
1 TTT--TTTTG
74232 TTTTTTTG
1 TTTTTTTG
74240 AAGAGAAGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 7 0.14
8 11 0.22
9 31 0.62
10 1 0.02
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (8 bp):
TTTTTTTG
Found at i:74195 original size:13 final size:13
Alignment explanation
Indices: 74172--74239 Score: 75
Period size: 13 Copynumber: 5.0 Consensus size: 13
74162 TTTTCTCTCT
74172 TTTTCTTTGTTTTG
1 TTTT-TTTGTTTTG
74186 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
*
74199 TTTTTTTGGTTTTT
1 TTTTTTT-GTTTTG
*
74213 TTCTTTTTTTTTTG
1 TT-TTTTTGTTTTG
74227 CTTTTTTT-TTTTG
1 -TTTTTTTGTTTTG
74240 AAGAGAAGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
13 21 0.44
14 20 0.42
15 7 0.15
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:74213 original size:11 final size:10
Alignment explanation
Indices: 74181--74236 Score: 53
Period size: 11 Copynumber: 5.4 Consensus size: 10
74171 TTTTTCTTTG
74181 TTTTGTTTTT
1 TTTTGTTTTT
74191 TTGTT-TTGTTT
1 TT-TTGTT-TTT
74202 TTTTGGTTTTT
1 TTTT-GTTTTT
*
74213 TTCT-TTTTT
1 TTTTGTTTTT
74222 TTTTGCTTTTT
1 TTTTG-TTTTT
74233 TTTT
1 TTTT
74237 TTGAAGAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
9 8 0.21
10 6 0.16
11 22 0.58
12 2 0.05
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (10 bp):
TTTTGTTTTT
Done.