Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 92 of 97
Found at i:36307037 original size:23 final size:23
Alignment explanation
Indices: 36307006--36307061 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
36306996 AAAATTTAAT
36307006 ATTTATAAAAATA-AAATCATAAA
1 ATTT-TAAAAATATAAATCATAAA
* *
36307029 ATATTTAAAAATATATATTATAAA
1 AT-TTTAAAAATATAAATCATAAA
36307053 ATTTTAAAA
1 ATTTTAAAA
36307062 CTTTAAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTTAAAAATATAAATCATAAA
Found at i:36307054 original size:14 final size:15
Alignment explanation
Indices: 36306965--36307054 Score: 54
Period size: 15 Copynumber: 6.4 Consensus size: 15
36306955 ATATTTGAGG
36306965 TAAAA-ATAATATTTA
1 TAAAATATAATA-TTA
*
36306980 TAAAATAATCATATTA
1 TAAAAT-ATAATATTA
*
36306996 -AAAATTTAATATTTA
1 TAAAATATAATA-TTA
* *
36307011 TAAAA-ATAAAATCA
1 TAAAATATAATATTA
36307025 T-AAA-AT-AT-TTA
1 TAAAATATAATATTA
36307036 -AAAATAT-ATATTA
1 TAAAATATAATATTA
36307049 TAAAAT
1 TAAAAT
36307055 TTTAAAACTT
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
11 5 0.08
12 5 0.08
13 8 0.14
14 12 0.20
15 17 0.29
16 7 0.12
17 5 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAATATAATATTA
Found at i:36307441 original size:15 final size:15
Alignment explanation
Indices: 36307423--36307487 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 15
36307413 ATTTTTATTT
36307423 TTTAAATATTAATAA
1 TTTAAATATTAATAA
*
36307438 TTT--ATA--ATTAA
1 TTTAAATATTAATAA
36307449 -TTAAACTATTAATAA
1 TTTAAA-TATTAATAA
*
36307464 TTTAAATATTAATAT
1 TTTAAATATTAATAA
*
36307479 TTTTAATAT
1 TTTAAATAT
36307488 AGTTTAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
10 2 0.05
11 4 0.10
12 1 0.03
13 5 0.12
15 23 0.57
16 5 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAAATATTAATAA
Found at i:36307499 original size:26 final size:24
Alignment explanation
Indices: 36307431--36307515 Score: 75
Period size: 26 Copynumber: 3.4 Consensus size: 24
36307421 TTTTTAAATA
* *
36307431 TTAATAATTTATAATTAATTAA-ACTA
1 TTAATAATTTA-AA-T-ATTAATATTT
36307457 TTAATAATTTAAATATTAATATTT
1 TTAATAATTTAAATATTAATATTT
*
36307481 TTAATATAGTTTAATTATTAATA-TT
1 TTAATA-A-TTTAAATATTAATATTT
36307506 TTAATTAATT
1 TTAA-TAATT
36307516 ATATTTTTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
23 5 0.10
24 11 0.21
25 10 0.19
26 26 0.50
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (24 bp):
TTAATAATTTAAATATTAATATTT
Found at i:36307520 original size:41 final size:41
Alignment explanation
Indices: 36307423--36307541 Score: 120
Period size: 41 Copynumber: 2.9 Consensus size: 41
36307413 ATTTTTATTT
* *
36307423 TTTAAATATTAATA-ATTTATA-ATTAATTAAACTATTAATAA
1 TTTAAATATTAATATTTTTATATA-TAATTTAA-TATTAATAA
* *
36307464 TTTAAATATTAATATTTTTA-ATATAGTTTAATTATTAATAT
1 TTTAAATATTAATATTTTTATATATAATTTAA-TATTAATAA
* *
36307505 TTTAATTAATT-ATATTTTTATTTATAATTTAATATTA
1 TTTAAAT-ATTAATATTTTTATATATAATTTAATATTA
36307542 TTTTTGATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 49 0.74
42 17 0.26
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (41 bp):
TTTAAATATTAATATTTTTATATATAATTTAATATTAATAA
Found at i:36307524 original size:16 final size:15
Alignment explanation
Indices: 36307455--36307522 Score: 56
Period size: 15 Copynumber: 4.8 Consensus size: 15
36307445 TTAATTAAAC
* *
36307455 TATTAATAATTTAAA
1 TATTAATATTTTAAT
36307470 TATTAATA-TTT--T
1 TATTAATATTTTAAT
* *
36307482 TAAT-ATAGTTTAAT
1 TATTAATATTTTAAT
36307496 TATTAATATTTTAAT
1 TATTAATATTTTAAT
36307511 TAATT-ATATTTT
1 T-ATTAATATTTT
36307523 TATTTATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
11 3 0.07
12 6 0.14
14 7 0.16
15 25 0.57
16 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (15 bp):
TATTAATATTTTAAT
Found at i:36307605 original size:8 final size:8
Alignment explanation
Indices: 36307594--36307667 Score: 57
Period size: 8 Copynumber: 9.5 Consensus size: 8
36307584 CATTAAAATT
36307594 TTAATATA
1 TTAATATA
36307602 TTAATA-A
1 TTAATATA
36307609 TTTAATA-A
1 -TTAATATA
* *
36307617 ATAAAATA
1 TTAATATA
36307625 TTAATATA
1 TTAATATA
36307633 TTAATA-A
1 TTAATATA
36307640 TTTAATA-A
1 -TTAATATA
* *
36307648 ATAAAATA
1 TTAATATA
*
36307656 TTAATATT
1 TTAATATA
36307664 TTAA
1 TTAA
36307668 ATTTTACAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 10 0.19
8 43 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAATATA
Found at i:36307623 original size:31 final size:31
Alignment explanation
Indices: 36307587--36307667 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
36307577 TTATACTCAT
*
36307587 TAAAATTTTAATATATTAATAATTTAATAAA
1 TAAAATATTAATATATTAATAATTTAATAAA
36307618 TAAAATATTAATATATTAATAATTTAATAAA
1 TAAAATATTAATATATTAATAATTTAATAAA
*
36307649 TAAAATATTAATATTTTAA
1 TAAAATATTAATATATTAA
36307668 ATTTTACAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAAATATTAATATATTAATAATTTAATAAA
Found at i:36308062 original size:23 final size:23
Alignment explanation
Indices: 36308018--36308062 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36308008 TCTAATTAGA
*
36308018 GTGAGAATGAGAGAGGAAAGAAC
1 GTGAGAATGAGAGAGAAAAGAAC
36308041 GTGAGAA-GAGAGAGAAAGAGAA
1 GTGAGAATGAGAGAGAAA-AGAA
36308063 GGAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.51, C:0.02, G:0.40, T:0.07
Consensus pattern (23 bp):
GTGAGAATGAGAGAGAAAAGAAC
Found at i:36333349 original size:21 final size:20
Alignment explanation
Indices: 36333302--36333349 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
36333292 TTAGACAAAA
36333302 ATAT-TTTAAAAAAATTTTT
1 ATATATTTAAAAAAATTTTT
* *
36333321 AAATTATTTAAGAAAATTTTT
1 ATA-TATTTAAAAAAATTTTT
36333342 CATATATT
1 -ATATATT
36333350 AACTAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 1 0.04
21 18 0.78
22 2 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATATTTAAAAAAATTTTT
Found at i:36347074 original size:65 final size:65
Alignment explanation
Indices: 36346944--36347067 Score: 185
Period size: 65 Copynumber: 1.9 Consensus size: 65
36346934 CATACCTGTT
* * * * *
36346944 ACCTTACTAGTAGAGAGGTGTCTATTTATCTAATTACTTCATTTAATTTGATGTCCAGTAGGAGA
1 ACCTTACTAGCACAGAGGTGTCTACTGATCTAATTACTTCATTTAATTTGACGTCCAGTAGGAGA
* *
36347009 ACCTTACTAGCACAGAGGTGTCTACTGATCTAATTATTTCTTTTAATTTGACGTCCAGT
1 ACCTTACTAGCACAGAGGTGTCTACTGATCTAATTACTTCATTTAATTTGACGTCCAGT
36347068 CTGAGAATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (65 bp):
ACCTTACTAGCACAGAGGTGTCTACTGATCTAATTACTTCATTTAATTTGACGTCCAGTAGGAGA
Found at i:36349437 original size:9 final size:9
Alignment explanation
Indices: 36349423--36349458 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
36349413 AAGATTCATC
36349423 CCTCTTCCT
1 CCTCTTCCT
36349432 CCTCTT-CT
1 CCTCTTCCT
36349440 -CT-TTCCT
1 CCTCTTCCT
36349447 CCTCTTCCT
1 CCTCTTCCT
36349456 CCT
1 CCT
36349459 ACTTTCATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
6 2 0.08
7 4 0.17
8 4 0.17
9 14 0.58
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (9 bp):
CCTCTTCCT
Found at i:36349715 original size:21 final size:21
Alignment explanation
Indices: 36349678--36349718 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36349668 AATCTGAACT
*
36349678 CTCACTCTCATCTTCCTCCTC
1 CTCACTCTCATCCTCCTCCTC
36349699 CTCACTCTCCA-CCTCCTCCT
1 CTCACTCT-CATCCTCCTCCT
36349719 TCCCATTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.10, C:0.56, G:0.00, T:0.34
Consensus pattern (21 bp):
CTCACTCTCATCCTCCTCCTC
Found at i:36351532 original size:53 final size:53
Alignment explanation
Indices: 36351452--36351558 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
36351442 TTACACTGAG
36351452 AAAGAACCCTACAATTATCCTCTTCCTGGAACTCTTCCAAGCATATAAATAAT
1 AAAGAACCCTACAATTATCCTCTTCCTGGAACTCTTCCAAGCATATAAATAAT
*
36351505 AAAGAACCCTACAATTATCCTCTTCCTGGAACTCTTCCAAGCATATATATAAT
1 AAAGAACCCTACAATTATCCTCTTCCTGGAACTCTTCCAAGCATATAAATAAT
36351558 A
1 A
36351559 CAATCGGTGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.29
Consensus pattern (53 bp):
AAAGAACCCTACAATTATCCTCTTCCTGGAACTCTTCCAAGCATATAAATAAT
Found at i:36368091 original size:16 final size:17
Alignment explanation
Indices: 36368067--36368100 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36368057 TGCATTCAGA
36368067 TATAATATA-GTTTTTT
1 TATAATATAGGTTTTTT
*
36368083 TATAGTATAGGTTTTTT
1 TATAATATAGGTTTTTT
36368100 T
1 T
36368101 TTCTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
TATAATATAGGTTTTTT
Found at i:36370187 original size:20 final size:21
Alignment explanation
Indices: 36370164--36370204 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36370154 CTAAATTACT
36370164 AATT-TTTTTGGGTTTTTTTA
1 AATTATTTTTGGGTTTTTTTA
*
36370184 AATTATTTTTGGTTTTTTTTA
1 AATTATTTTTGGGTTTTTTTA
36370205 CACGGTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (21 bp):
AATTATTTTTGGGTTTTTTTA
Found at i:36372915 original size:2 final size:2
Alignment explanation
Indices: 36372908--36372941 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
36372898 GAATCATATT
*
36372908 TC TC TC TC TC TC TC ATC TC TG TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC -TC TC TC TC TC TC TC TC TC T
36372942 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.03, C:0.44, G:0.03, T:0.50
Consensus pattern (2 bp):
TC
Found at i:36372959 original size:13 final size:13
Alignment explanation
Indices: 36372941--36372976 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
36372931 TCTCTCTCTC
36372941 TATATATATATAA
1 TATATATATATAA
36372954 TATATATATATAA
1 TATATATATATAA
*
36372967 AATA-ATATAT
1 TATATATATAT
36372977 GTATAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATATATATAA
Found at i:36375551 original size:21 final size:22
Alignment explanation
Indices: 36375511--36375551 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
36375501 AGCAAAATAC
* *
36375511 ACAAATTAAATAAAGTTTTAGG
1 ACAAATAAAATAAAGGTTTAGG
36375533 ACAAATAAAAT-AAGGTTTA
1 ACAAATAAAATAAAGGTTTA
36375552 AAGAGGGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.05, G:0.12, T:0.29
Consensus pattern (22 bp):
ACAAATAAAATAAAGGTTTAGG
Found at i:36377238 original size:101 final size:101
Alignment explanation
Indices: 36377126--36377326 Score: 271
Period size: 101 Copynumber: 2.0 Consensus size: 101
36377116 CTTTTCATCA
* * * * *
36377126 ATTAATTATATATTTAAAAC-TTTCTTTATATCTTTGATAGTAAAA-TCATAAAAATACTGTTTA
1 ATTAACTATATATTT-AAACTTTTCTTTACATCTTCGATAATAAAACT-ACAAAAATACTGTTTA
* * * *
36377189 TGAAAAATAAGCTGTTAAATATTGTTTTGATACTTACT
64 TAAAAAATAAACGGTTAAATATTGTTTTGATAATTACT
* *
36377227 ATTAACTATATATTTGAACTTTTCTTTACATCTTCGTTAATAAAACTACAAAAATACTGTTTATA
1 ATTAACTATATATTTAAACTTTTCTTTACATCTTCGATAATAAAACTACAAAAATACTGTTTATA
36377292 AAAAATAAACGGTTAAATATTGTTTTGATAATTAC
66 AAAAATAAACGGTTAAATATTGTTTTGATAATTAC
36377327 AAGTTAAATA
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
100 3 0.03
101 83 0.95
102 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.43
Consensus pattern (101 bp):
ATTAACTATATATTTAAACTTTTCTTTACATCTTCGATAATAAAACTACAAAAATACTGTTTATA
AAAAATAAACGGTTAAATATTGTTTTGATAATTACT
Found at i:36377315 original size:28 final size:26
Alignment explanation
Indices: 36377278--36377353 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
36377268 AAAACTACAA
*
36377278 AAATACTGTTTATAAAAAATAAACGGTT
1 AAATATTGTTTATAAAAAATAAA--GTT
* * *
36377306 AAATATTGTTT-TGATAATTACAAGTT
1 AAATATTGTTTATAAAAAATA-AAGTT
*
36377332 AAATATTGTTTATTAAAAATAA
1 AAATATTGTTTATAAAAAATAA
36377354 TCAGTTGAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
26 15 0.38
27 12 0.31
28 12 0.31
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.39
Consensus pattern (26 bp):
AAATATTGTTTATAAAAAATAAAGTT
Found at i:36378608 original size:27 final size:27
Alignment explanation
Indices: 36378556--36378608 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
36378546 TCCTTTAGAA
*
36378556 AGAGGGTTCATGTCGGGTCCGATTGAG
1 AGAGGGTTCATGTCGGGTCCCATTGAG
*
36378583 AGAGGGTTCATGTCGGGTCCCCTTGA
1 AGAGGGTTCATGTCGGGTCCCATTGA
36378609 TAATATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.26
Consensus pattern (27 bp):
AGAGGGTTCATGTCGGGTCCCATTGAG
Found at i:36380483 original size:8 final size:8
Alignment explanation
Indices: 36380470--36380506 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
36380460 ATAGAAATTA
36380470 AAATGAGC
1 AAATGAGC
36380478 AAATGAGC
1 AAATGAGC
36380486 AAATGAGC
1 AAATGAGC
36380494 AAATGAGC
1 AAATGAGC
36380502 AAATG
1 AAATG
36380507 GGTAAAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.51, C:0.11, G:0.24, T:0.14
Consensus pattern (8 bp):
AAATGAGC
Found at i:36399303 original size:3 final size:3
Alignment explanation
Indices: 36399295--36399324 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
36399285 CTCTAAAATA
36399295 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36399325 CAATTTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36402678 original size:69 final size:70
Alignment explanation
Indices: 36402596--36402736 Score: 221
Period size: 70 Copynumber: 2.0 Consensus size: 70
36402586 TTCTATTCCG
* * * * *
36402596 GGTTTGAGTTTGAATAAAGAATAG-AAAATGATAGTTTATGCTTTCTTTTGTTATAAAAAATTAT
1 GGTTTAAGTTTGAATAAAGAATAGCAAAATGATAGTTCATGCTTTCTTCTGTAACAAAAAATTAT
36402660 CTCTT
66 CTCTT
*
36402665 GGTTTAAGTTTGAATAAAGAATAGCAAAATGATAGTTCATGTTTTCTTCTGTAACAAAAAATTAT
1 GGTTTAAGTTTGAATAAAGAATAGCAAAATGATAGTTCATGCTTTCTTCTGTAACAAAAAATTAT
36402730 CTCTT
66 CTCTT
36402735 GG
1 GG
36402737 ATTATAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
69 23 0.35
70 42 0.65
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.40
Consensus pattern (70 bp):
GGTTTAAGTTTGAATAAAGAATAGCAAAATGATAGTTCATGCTTTCTTCTGTAACAAAAAATTAT
CTCTT
Found at i:36402906 original size:28 final size:28
Alignment explanation
Indices: 36402866--36402920 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
36402856 GGTTAATTGG
* *
36402866 CTAGTTAGCTAGTTAGATTACCATTTAC
1 CTAGTTAACTAGTTAAATTACCATTTAC
36402894 CTAGTTAACTAGTTAAATTACCATTTA
1 CTAGTTAACTAGTTAAATTACCATTTA
36402921 TATTACAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (28 bp):
CTAGTTAACTAGTTAAATTACCATTTAC
Found at i:36402994 original size:102 final size:102
Alignment explanation
Indices: 36402888--36403071 Score: 305
Period size: 102 Copynumber: 1.8 Consensus size: 102
36402878 TTAGATTACC
*
36402888 ATTTACCTAGTTAACTAGTTAAATTACCATTTATATTACAATATCATTAGCTAATTAAAATATAA
1 ATTTACCTAGTTAACTAGTTAAATTACCATTTAGATTACAATATCATTAGCTAATTAAAATATAA
36402953 TATTATTTGCTAGTTAGGTTAGTCATTAGATTACTAT
66 TATTATTTGCTAGTTAGGTTAGTCATTAGATTACTAT
* * * ** *
36402990 ATTTAGCTAGTTAACTAGTTAGATTACCATTTGGATTACAATATCATTAGCTAATTAGGATATAC
1 ATTTACCTAGTTAACTAGTTAAATTACCATTTAGATTACAATATCATTAGCTAATTAAAATATAA
36403055 TATTATTTGCTAGTTAG
66 TATTATTTGCTAGTTAG
36403072 ATTACAATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 75 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (102 bp):
ATTTACCTAGTTAACTAGTTAAATTACCATTTAGATTACAATATCATTAGCTAATTAAAATATAA
TATTATTTGCTAGTTAGGTTAGTCATTAGATTACTAT
Found at i:36403084 original size:102 final size:101
Alignment explanation
Indices: 36402888--36403094 Score: 299
Period size: 102 Copynumber: 2.0 Consensus size: 101
36402878 TTAGATTACC
*
36402888 ATTTACCTAGTTAACTAGTTAAATTACCATTTATATTACAATATCATTAGCTAATTAAAATATAA
1 ATTTACCTAGTTAACTAGTTAAATTACCATTTAGATTACAATATCATTAGCTAATTAAAATATAA
* *
36402953 TATTATTTGCTAGTTAGGTTAGTCATTAGATTACTAT
66 TATTATTTGCTAGTTAGATTAG-CATTAGATTACAAT
* * * ** *
36402990 ATTTAGCTAGTTAACTAGTTAGATTACCATTTGGATTACAATATCATTAGCTAATTAGGATATAC
1 ATTTACCTAGTTAACTAGTTAAATTACCATTTAGATTACAATATCATTAGCTAATTAAAATATAA
36403055 TATTATTTGCTAGTTAGATTA-CAATTTAGATTACAAT
66 TATTATTTGCTAGTTAGATTAGC-A-TTAGATTACAAT
36403092 ATT
1 ATT
36403095 ATTAGCTAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
100 1 0.01
101 1 0.01
102 92 0.98
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (101 bp):
ATTTACCTAGTTAACTAGTTAAATTACCATTTAGATTACAATATCATTAGCTAATTAAAATATAA
TATTATTTGCTAGTTAGATTAGCATTAGATTACAAT
Found at i:36406897 original size:13 final size:13
Alignment explanation
Indices: 36406879--36406903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36406869 TACAAGATAA
36406879 TTAGAGAGAGAAT
1 TTAGAGAGAGAAT
36406892 TTAGAGAGAGAA
1 TTAGAGAGAGAA
36406904 GCTCTCAAGT
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:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (13 bp):
TTAGAGAGAGAAT
Found at i:36407194 original size:29 final size:29
Alignment explanation
Indices: 36407131--36407187 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
36407121 GAGGTGTAAA
36407131 AGAATAGGTACAAGAGAAGAAGCTGTACG
1 AGAATAGGTACAAGAGAAGAAGCTGTACG
36407160 AGAATAGGTACAAGAG-AGTAAGCTGTAC
1 AGAATAGGTACAAGAGAAG-AAGCTGTAC
36407188 ATGAATAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.44, C:0.11, G:0.30, T:0.16
Consensus pattern (29 bp):
AGAATAGGTACAAGAGAAGAAGCTGTACG
Found at i:36407205 original size:29 final size:29
Alignment explanation
Indices: 36407131--36407198 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
36407121 GAGGTGTAAA
*
36407131 AGAATAGGTACAAGAGAAG-AAGCTGTACG
1 AGAATAAGTACAAGAG-AGTAAGCTGTACG
*
36407160 AGAATAGGTACAAGAGAGTAAGCTGTAC-
1 AGAATAAGTACAAGAGAGTAAGCTGTACG
36407188 ATGAATAAGTA
1 A-GAATAAGTA
36407199 TACGAGAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 3 0.08
29 33 0.92
ACGTcount: A:0.46, C:0.09, G:0.28, T:0.18
Consensus pattern (29 bp):
AGAATAAGTACAAGAGAGTAAGCTGTACG
Found at i:36417960 original size:14 final size:13
Alignment explanation
Indices: 36417940--36417973 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
36417930 AAAAAAAGTC
*
36417940 TTTTTTATTTTTT
1 TTTTTTAGTTTTT
36417953 TATTTTTAGTTTTT
1 T-TTTTTAGTTTTT
36417967 TTTTTTA
1 TTTTTTA
36417974 ATTGTATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTTTTAGTTTTT
Found at i:36435641 original size:14 final size:14
Alignment explanation
Indices: 36435611--36435652 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
36435601 AAATAATCAT
*
36435611 ATTTTTTATCAAATA
1 ATTTTTTAT-AATTA
36435626 ATTTTTTATAATTA
1 ATTTTTTATAATTA
*
36435640 A-TCTTTATAATTA
1 ATTTTTTATAATTA
36435653 CTTAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.44
14 5 0.20
15 9 0.36
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTTTATAATTA
Found at i:36444584 original size:2 final size:2
Alignment explanation
Indices: 36444464--36444568 Score: 128
Period size: 2 Copynumber: 53.5 Consensus size: 2
36444454 CCACCAAACC
*
36444464 CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
** *
36444506 CT CT NAA CC CT AC- CT C- CT C- CT C- CT CT CT CT CT CT CT CT CT
1 CT CT -CT CT CT -CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
36444546 CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
36444569 CCTTCCCTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
1 4 0.04
2 85 0.94
3 1 0.01
ACGTcount: A:0.03, C:0.52, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:36448122 original size:2 final size:2
Alignment explanation
Indices: 36448117--36448141 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36448107 CTCTCTCTAA
36448117 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 A
36448142 CCATGAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36461215 original size:21 final size:21
Alignment explanation
Indices: 36461189--36461228 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
36461179 TATTTATAAA
36461189 TAATCAAATGTTATATTTAGT
1 TAATCAAATGTTATATTTAGT
36461210 TAATCAAATGTTATATTTA
1 TAATCAAATGTTATATTTA
36461229 AAATTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (21 bp):
TAATCAAATGTTATATTTAGT
Found at i:36474037 original size:31 final size:31
Alignment explanation
Indices: 36474002--36474064 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
36473992 ACTTGGAGAA
36474002 AGGTTATCCAAAGTACTATAGATATCAAAGG
1 AGGTTATCCAAAGTACTATAGATATCAAAGG
36474033 AGGTTATCCAAAGTACTATAGATATCAAAGG
1 AGGTTATCCAAAGTACTATAGATATCAAAGG
36474064 A
1 A
36474065 AACAGAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (31 bp):
AGGTTATCCAAAGTACTATAGATATCAAAGG
Found at i:36477004 original size:16 final size:15
Alignment explanation
Indices: 36476983--36477017 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
36476973 ATATTTTATT
*
36476983 TAATAATTAATATAAA
1 TAATAAATAATA-AAA
36476999 TAATAAATAATAAAA
1 TAATAAATAATAAAA
36477014 TAAT
1 TAAT
36477018 TTCACTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:36477087 original size:6 final size:6
Alignment explanation
Indices: 36477045--36477093 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
36477035 ATTTTTAAAA
* *
36477045 ATTTTA ATTTTT ATTATT ATTTTT ATTTTT ATTTTTT ATTTTT CATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTTT ATTTTT -ATTTT
36477094 CATTCTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 27 0.71
7 11 0.29
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:36477102 original size:25 final size:25
Alignment explanation
Indices: 36477052--36477103 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
36477042 AAAATTTTAA
* *
36477052 TTTTTATTATTATTTTTATTTTTAT
1 TTTTTATTATTATTTTCATTTCTAT
*
36477077 TTTTTATTTTTCATTTTCA-TTCTAT
1 TTTTTATTATT-ATTTTCATTTCTAT
36477102 TT
1 TT
36477104 GTTCATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTTATTATTATTTTCATTTCTAT
Found at i:36478081 original size:24 final size:23
Alignment explanation
Indices: 36478024--36478086 Score: 58
Period size: 24 Copynumber: 2.8 Consensus size: 23
36478014 ATGCAGAAGC
* *
36478024 ATTTA-GAATTTTATTTTATTTA
1 ATTTAGGATTTTTATTTTAATTA
**
36478046 ATTTAGTTTTTTTAATTTTAATTA
1 ATTTAGGATTTTT-ATTTTAATTA
*
36478070 GTTTAGGA-TTTTATTTT
1 ATTTAGGATTTTTATTTT
36478087 TTTATTCTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
22 10 0.31
23 8 0.25
24 14 0.44
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (23 bp):
ATTTAGGATTTTTATTTTAATTA
Found at i:36480162 original size:25 final size:25
Alignment explanation
Indices: 36480134--36480198 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
36480124 TCTGTTTCTA
36480134 GTTTTATTGTGAGTTTTTCTGAAAG
1 GTTTTATTGTGAGTTTTTCTGAAAG
36480159 GTTTTATTGTGAGTTTTTCTGAAAG
1 GTTTTATTGTGAGTTTTTCTGAAAG
*
36480184 GCTTTATTGTGAGTT
1 GTTTTATTGTGAGTT
36480199 AATTAGGGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.18, C:0.05, G:0.25, T:0.52
Consensus pattern (25 bp):
GTTTTATTGTGAGTTTTTCTGAAAG
Found at i:36484989 original size:31 final size:28
Alignment explanation
Indices: 36484938--36485003 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 28
36484928 ACTATTAATT
*
36484938 ATAAAAAATTATTTGATATAA-AATAAAA
1 ATAAAAAATTAATTGATATAATAA-AAAA
*
36484966 ATAAAATAACTTAATTGAATATAATAAAATA
1 ATAAAA-AA-TTAATTG-ATATAATAAAAAA
36484997 ATAAAAA
1 ATAAAAA
36485004 TTTATTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 6 0.19
29 2 0.06
30 7 0.22
31 15 0.47
32 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (28 bp):
ATAAAAAATTAATTGATATAATAAAAAA
Found at i:36491261 original size:2 final size:2
Alignment explanation
Indices: 36491254--36491285 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36491244 TCTGTAAGCA
36491254 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36491286 GGTTGCCTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36498996 original size:21 final size:21
Alignment explanation
Indices: 36498951--36498990 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36498941 TGTTTTAACC
36498951 AAAAAATATATTTATTAAATA
1 AAAAAATATATTTATTAAATA
*
36498972 AAAAAATTTATTTA-TAAAT
1 AAAAAATATATTTATTAAAT
36498991 TTAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAAATATATTTATTAAATA
Found at i:36500555 original size:69 final size:69
Alignment explanation
Indices: 36500463--36500759 Score: 348
Period size: 69 Copynumber: 4.3 Consensus size: 69
36500453 CGGATAAGCA
* * * * * * * *
36500463 TATGCATCTTGTTCGAAA-TGTGAAATTATTTTTGAAAATAATGTATGCTTTTTTCATTTACGAT
1 TATGTATCTTATT-GAAAGTGTGAAATTAATATCGAAAATAATTTATGATTTTTTCATTAACGAT
*
36500527 AAAGG
65 AAATG
* * * *
36500532 TATGTATCTTATTGAAAGCGTGAAATTATTATCAAAAATAATTTATGA-TTTTTCATTAACAATA
1 TATGTATCTTATTGAAAGTGTGAAATTAATATCGAAAATAATTTATGATTTTTTCATTAACGATA
36500596 AACT-
66 AA-TG
* * * * *
36500600 TATGTATCTAATTGGAAGTGTAAAATTAATATCGAAAATAATTTGTGATTTTTTCATTAATGATA
1 TATGTATCTTATTGAAAGTGTGAAATTAATATCGAAAATAATTTATGATTTTTTCATTAACGATA
36500665 AATG
66 AATG
* *
36500669 TATGTATCTTATAGAAAGTGTGAAATTAATGTCGAAAATAATTTATGATTTTTTCCATTAACGAT
1 TATGTATCTTATTGAAAGTGTGAAATTAATATCGAAAATAATTTATGATTTTTT-CATTAACGAT
*
36500734 AAATA
65 AAATG
*
36500739 TATGTATCTTATTGGAAGTGT
1 TATGTATCTTATTGAAAGTGT
36500760 TTATGATTTT
Statistics
Matches: 193, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
68 62 0.32
69 99 0.51
70 32 0.17
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (69 bp):
TATGTATCTTATTGAAAGTGTGAAATTAATATCGAAAATAATTTATGATTTTTTCATTAACGATA
AATG
Found at i:36500692 original size:137 final size:139
Alignment explanation
Indices: 36500496--36500759 Score: 381
Period size: 137 Copynumber: 1.9 Consensus size: 139
36500486 AATTATTTTT
* * * *
36500496 GAAAATAATGTATGCTTTTTTCATTTACGATAAAGGTATGTATCTTATTGAAAGCGTGAAATTAT
1 GAAAATAATGTATGATTTTTTCATTAACGATAAAGGTATGTATCTTATAGAAAGCGTGAAATTAA
36500561 TATCAAAAATAATTTATGA-TTTTT-CATTAACAATAAACT-TATGTATCTAATTGGAAGTGTAA
66 TATCAAAAATAATTTATGATTTTTTCCATTAACAATAAA-TATATGTATCTAATTGGAAGTGTAA
36500623 AATTAATATC
130 AATTAATATC
* * * * *
36500633 GAAAATAATTTGTGATTTTTTCATTAATGATAAATGTATGTATCTTATAGAAAGTGTGAAATTAA
1 GAAAATAATGTATGATTTTTTCATTAACGATAAAGGTATGTATCTTATAGAAAGCGTGAAATTAA
* * * *
36500698 TGTCGAAAATAATTTATGATTTTTTCCATTAACGATAAATATATGTATCTTATTGGAAGTGT
66 TATCAAAAATAATTTATGATTTTTTCCATTAACAATAAATATATGTATCTAATTGGAAGTGT
36500760 TTATGATTTT
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
137 73 0.66
138 6 0.05
139 32 0.29
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (139 bp):
GAAAATAATGTATGATTTTTTCATTAACGATAAAGGTATGTATCTTATAGAAAGCGTGAAATTAA
TATCAAAAATAATTTATGATTTTTTCCATTAACAATAAATATATGTATCTAATTGGAAGTGTAAA
ATTAATATC
Found at i:36500767 original size:49 final size:49
Alignment explanation
Indices: 36500710--36500808 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
36500700 TCGAAAATAA
*
36500710 TTTATGATTTTTTCCATTAACGATAAATATATGTATCTTATTGGAAGTG
1 TTTATGATTTTTTCCATTAACGATAAAGATATGTATCTTATTGGAAGTG
*** * * *
36500759 TTTATGATTTTTTTTGTTAATGATGAAGGTATGTATCTTATTGGAAGTG
1 TTTATGATTTTTTCCATTAACGATAAAGATATGTATCTTATTGGAAGTG
36500808 T
1 T
36500809 GAAATTAATG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.49
Consensus pattern (49 bp):
TTTATGATTTTTTCCATTAACGATAAAGATATGTATCTTATTGGAAGTG
Found at i:36514885 original size:16 final size:16
Alignment explanation
Indices: 36514864--36514924 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
36514854 TATTAAGAAG
36514864 AATTAATAGTAAACTT
1 AATTAATAGTAAACTT
*
36514880 AATT-A-A-T-AA-TG
1 AATTAATAGTAAACTT
36514891 AATTAATAGTAAACTT
1 AATTAATAGTAAACTT
* *
36514907 AATTAATAATATACTT
1 AATTAATAGTAAACTT
36514923 AA
1 AA
36514925 AATATATTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
11 5 0.14
12 3 0.08
13 2 0.06
14 2 0.06
15 3 0.08
16 21 0.58
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (16 bp):
AATTAATAGTAAACTT
Found at i:36514894 original size:27 final size:27
Alignment explanation
Indices: 36514855--36514916 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
36514845 TTTTATATAT
*
36514855 ATTAAGAA-GAATTAATAGTAAACTTA
1 ATTAATAATGAATTAATAGTAAACTTA
36514881 ATTAATAATGAATTAATAGTAAACTTA
1 ATTAATAATGAATTAATAGTAAACTTA
36514908 ATTAATAAT
1 ATTAATAAT
36514917 ATACTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.35
Consensus pattern (27 bp):
ATTAATAATGAATTAATAGTAAACTTA
Found at i:36515696 original size:15 final size:17
Alignment explanation
Indices: 36515667--36515699 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
36515657 TAATAAAGTA
36515667 ATATATTATATATTTAT
1 ATATATTATATATTTAT
36515684 ATATATT-TA-ATTTAT
1 ATATATTATATATTTAT
36515699 A
1 A
36515700 CATAATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTATATATTTAT
Found at i:36515852 original size:27 final size:28
Alignment explanation
Indices: 36515822--36515878 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
36515812 AAACTAATTC
* *
36515822 TATATTTGGTCGA-TTTGATTATTTTTT
1 TATATTTGGTCGATTTTGATCAATTTTT
*
36515849 TATATTTGGTTGATTTTGATCAATTTTT
1 TATATTTGGTCGATTTTGATCAATTTTT
36515877 TA
1 TA
36515879 AAAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.21, C:0.04, G:0.14, T:0.61
Consensus pattern (28 bp):
TATATTTGGTCGATTTTGATCAATTTTT
Found at i:36517245 original size:29 final size:30
Alignment explanation
Indices: 36517187--36517246 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
36517177 TTAATTTTTA
* *
36517187 AATTTATTTATTAATGAGATGATAATATTT
1 AATTTATTTAATAATGAGATGACAATATTT
*
36517217 AATTTA-TTAATAATGTATATGACAA-ATTT
1 AATTTATTTAATAATG-AGATGACAATATTT
36517246 A
1 A
36517247 TATAAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (30 bp):
AATTTATTTAATAATGAGATGACAATATTT
Found at i:36518280 original size:2 final size:2
Alignment explanation
Indices: 36518273--36518310 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
36518263 CATAGTATCA
36518273 TC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
36518311 ACACCTAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:36522695 original size:33 final size:33
Alignment explanation
Indices: 36522648--36522723 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
36522638 GCCTAGGTCT
* *
36522648 CCACGGCCACAACGTGGAAATCTTATCACTAAA
1 CCACAGCCACAACGTGGAAATCTTACCACTAAA
* *
36522681 CTACAGCCACAACGTGGAATTCTTACCACTAAA
1 CCACAGCCACAACGTGGAAATCTTACCACTAAA
36522714 CCACAGCCAC
1 CCACAGCCAC
36522724 TGATGGCCTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.36, C:0.34, G:0.13, T:0.17
Consensus pattern (33 bp):
CCACAGCCACAACGTGGAAATCTTACCACTAAA
Found at i:36550513 original size:37 final size:39
Alignment explanation
Indices: 36550472--36550545 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
36550462 TGTTTTCTCT
*
36550472 TTTGCATTTTT-AC-TTTTTCC-GATTCCGTTTTAAGCCA
1 TTTGC-TTTTTCACTTTTTTCCGGATTCCATTTTAAGCCA
36550509 TTTGCTTTTTCACTTTTTTCCGGATTCCATTTTAAGC
1 TTTGCTTTTTCACTTTTTTCCGGATTCCATTTTAAGC
36550546 TTAAAACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 5 0.15
37 7 0.21
38 7 0.21
39 14 0.42
ACGTcount: A:0.15, C:0.22, G:0.11, T:0.53
Consensus pattern (39 bp):
TTTGCTTTTTCACTTTTTTCCGGATTCCATTTTAAGCCA
Found at i:36554467 original size:15 final size:14
Alignment explanation
Indices: 36554447--36554481 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
36554437 CAAACAGCAG
36554447 TAATAACAATCACAA
1 TAATAACAATC-CAA
36554462 TAATAACAATCCAA
1 TAATAACAATCCAA
36554476 -AATAAC
1 TAATAAC
36554482 CTGTGATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (14 bp):
TAATAACAATCCAA
Found at i:36557003 original size:14 final size:14
Alignment explanation
Indices: 36556984--36557010 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36556974 TAAACCCACT
36556984 AAACCCTAAACTTA
1 AAACCCTAAACTTA
36556998 AAACCCTAAACTT
1 AAACCCTAAACTT
36557011 GATAGTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCCTAAACTTA
Found at i:36560130 original size:39 final size:39
Alignment explanation
Indices: 36560076--36560154 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
36560066 AGGTGGAGAT
36560076 AAACAAGTATATATAAACATTCCATATTATTCATGTTTC
1 AAACAAGTATATATAAACATTCCATATTATTCATGTTTC
36560115 AAACAAGTATATATAAACATTCCATATTATTCATGTTTC
1 AAACAAGTATATATAAACATTCCATATTATTCATGTTTC
36560154 A
1 A
36560155 CTCTTTTCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (39 bp):
AAACAAGTATATATAAACATTCCATATTATTCATGTTTC
Found at i:36561527 original size:15 final size:15
Alignment explanation
Indices: 36561509--36561548 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
36561499 CCTCCGATGG
36561509 CTTCTCAGCTGGCTT
1 CTTCTCAGCTGGCTT
* *
36561524 CTTCTCGGCCGGCTT
1 CTTCTCAGCTGGCTT
36561539 CTTCTCAGCT
1 CTTCTCAGCT
36561549 TTTGGCGCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.20, T:0.38
Consensus pattern (15 bp):
CTTCTCAGCTGGCTT
Found at i:36563570 original size:2 final size:2
Alignment explanation
Indices: 36563563--36563603 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
36563553 ACATGTATGC
*
36563563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36563604 AATTTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:36564001 original size:17 final size:17
Alignment explanation
Indices: 36563979--36564012 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36563969 TCATATGTAG
36563979 CAAAAAAATATTATATT
1 CAAAAAAATATTATATT
* *
36563996 CAAAAAAGTATTTTATT
1 CAAAAAAATATTATATT
36564013 AGAGTTTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
CAAAAAAATATTATATT
Found at i:36569763 original size:92 final size:92
Alignment explanation
Indices: 36569606--36569790 Score: 334
Period size: 92 Copynumber: 2.0 Consensus size: 92
36569596 CACTGTTTCA
36569606 GCAATGAACTGTAAACTTGAAATCACCTGAAAATTCTTCACATTTAACTGGCCTAAATGCAATAT
1 GCAATGAACTGTAAACTTGAAATCACCTGAAAATTCTTCACATTTAACTGGCCTAAATGCAATAT
36569671 TCCAACCTTAAGAGTATTAACTAACTG
66 TCCAACCTTAAGAGTATTAACTAACTG
* *
36569698 GCAATGGACTGTAAACTTGAAATCACTTGAAAATTCTTCACATTTAACTGGCCTAAATGCAATAT
1 GCAATGAACTGTAAACTTGAAATCACCTGAAAATTCTTCACATTTAACTGGCCTAAATGCAATAT
* *
36569763 TCCAATCTTTAGAGTATTAACTAACTG
66 TCCAACCTTAAGAGTATTAACTAACTG
36569790 G
1 G
36569791 GGCCACTCTG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (92 bp):
GCAATGAACTGTAAACTTGAAATCACCTGAAAATTCTTCACATTTAACTGGCCTAAATGCAATAT
TCCAACCTTAAGAGTATTAACTAACTG
Found at i:36573968 original size:14 final size:15
Alignment explanation
Indices: 36573949--36573980 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36573939 ATGCAACGTA
36573949 ATTAC-AGTAATGTG
1 ATTACAAGTAATGTG
36573963 ATTACAAGTAATGTG
1 ATTACAAGTAATGTG
36573978 ATT
1 ATT
36573981 GTAGGGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (15 bp):
ATTACAAGTAATGTG
Found at i:36579599 original size:49 final size:49
Alignment explanation
Indices: 36579509--36579614 Score: 133
Period size: 49 Copynumber: 2.1 Consensus size: 49
36579499 GGCTACATAC
* * * *
36579509 AAAAACAAGACAACACAATACAATAATCGGTCAAACTCTATGATTTTCAT
1 AAAAA-AAGACAACACAATACAAGAACCGGTCAAACACTATGATTTCCAT
* *
36579559 AGAAAAAGACAATC-CAATACAAGAACCGGTTAAACACTATGATTTCCAT
1 AAAAAAAGACAA-CACAATACAAGAACCGGTCAAACACTATGATTTCCAT
36579608 AAAAAAA
1 AAAAAAA
36579615 AAGGAAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 43 0.90
50 5 0.10
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (49 bp):
AAAAAAAGACAACACAATACAAGAACCGGTCAAACACTATGATTTCCAT
Found at i:36582579 original size:14 final size:13
Alignment explanation
Indices: 36582526--36582581 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
36582516 AAATATTGAT
*
36582526 AATAGAAATATAA
1 AATATAAATATAA
36582539 AAT-TAAATATAA
1 AATATAAATATAA
*
36582551 AACTATAATTGATAA
1 AA-TATAAAT-ATAA
36582566 AATATAAATAATAA
1 AATATAAAT-ATAA
36582580 AA
1 AA
36582582 AATGATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 10 0.28
13 4 0.11
14 16 0.44
15 6 0.17
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (13 bp):
AATATAAATATAA
Found at i:36585572 original size:16 final size:16
Alignment explanation
Indices: 36585551--36585582 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36585541 GTTGCCGCCA
36585551 TTTTTAGCTTCAGATT
1 TTTTTAGCTTCAGATT
36585567 TTTTTAGCTTCAGATT
1 TTTTTAGCTTCAGATT
36585583 GAGGTGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (16 bp):
TTTTTAGCTTCAGATT
Found at i:36587568 original size:20 final size:23
Alignment explanation
Indices: 36587518--36587567 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
36587508 TTTTATTATG
36587518 ATATATAATAATTAAATTTTTTA
1 ATATATAATAATTAAATTTTTTA
36587541 ATATATAATAATTAAA-TTTTTA
1 ATATATAATAATTAAATTTTTTA
36587563 ATATA
1 ATATA
36587568 ACGTGTAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATATAATAATTAAATTTTTTA
Found at i:36587581 original size:27 final size:27
Alignment explanation
Indices: 36587550--36587624 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
36587540 AATATATAAT
* *
36587550 AATTAAATTTTTAATATAACGTGTAAC
1 AATTAAATTTTTAATATGACGTCTAAC
* * * * *
36587577 GATTATATTTTTCA-ATGACATCTAAT
1 AATTAAATTTTTAATATGACGTCTAAC
36587603 AATTAAATTTTTAATATGACGT
1 AATTAAATTTTTAATATGACGT
36587625 ATAATAACTA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
26 19 0.53
27 17 0.47
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (27 bp):
AATTAAATTTTTAATATGACGTCTAAC
Found at i:36587629 original size:27 final size:27
Alignment explanation
Indices: 36587507--36587693 Score: 125
Period size: 27 Copynumber: 7.1 Consensus size: 27
36587497 TTTAATAATT
* *
36587507 TTTTTATTATGATATATAATAATTAAA
1 TTTTTAATATGACATATAATAATTAAA
*
36587534 TTTTT--TA--ATATATAATAATTAAA
1 TTTTTAATATGACATATAATAATTAAA
* * * ** *
36587557 TTTTTAATATAACGTGTAACGATTATA
1 TTTTTAATATGACATATAATAATTAAA
* *
36587584 TTTTTCA-ATGACATCTAATAATTAAA
1 TTTTTAATATGACATATAATAATTAAA
* *
36587610 TTTTTAATATGACGTATAATAACT-AA
1 TTTTTAATATGACATATAATAATTAAA
* * * ** *
36587636 TTTATAACATAATTTATAATAACTAAA
1 TTTTTAATATGACATATAATAATTAAA
* * * *
36587663 TTTTTAACATAACATATAAAAATTACA
1 TTTTTAATATGACATATAATAATTAAA
36587690 TTTT
1 TTTT
36587694 CAACACGATT
Statistics
Matches: 126, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
23 21 0.17
25 4 0.03
26 40 0.32
27 61 0.48
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (27 bp):
TTTTTAATATGACATATAATAATTAAA
Found at i:36589146 original size:15 final size:15
Alignment explanation
Indices: 36589122--36589163 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
36589112 CCGTCATCTT
* *
36589122 CTTCTCCTCTGCGGG
1 CTTCTTCTCTGCCGG
36589137 CTTCTTCTCTGCCGG
1 CTTCTTCTCTGCCGG
*
36589152 CTTTTTCTCTGC
1 CTTCTTCTCTGC
36589164 TTTTGGTGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.00, C:0.38, G:0.19, T:0.43
Consensus pattern (15 bp):
CTTCTTCTCTGCCGG
Found at i:36591778 original size:16 final size:15
Alignment explanation
Indices: 36591755--36591796 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
36591745 AAGCAGTTTT
36591755 TTTTAAAAAATAAAA-
1 TTTTAAAAAA-AAAAG
36591770 TTTTGAAAAAAAAAAG
1 TTTT-AAAAAAAAAAG
36591786 TTTTAAAAAAA
1 TTTTAAAAAAA
36591797 CGTCCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (15 bp):
TTTTAAAAAAAAAAG
Found at i:36593174 original size:11 final size:11
Alignment explanation
Indices: 36593158--36593183 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36593148 AAAGTTAAGG
36593158 AAAAAAAGAAA
1 AAAAAAAGAAA
36593169 AAAAAAAGAAA
1 AAAAAAAGAAA
36593180 AAAA
1 AAAA
36593184 TAATTTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:36594039 original size:22 final size:22
Alignment explanation
Indices: 36594020--36594093 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 22
36594010 TATTTATTTT
*
36594020 TATTTTATTTTTTAAATATTAA
1 TATTTTATTATTTAAATATTAA
36594042 TATTTTATTATTTAATTAAAATATTAA
1 TATTTTATTA--T--TT-AAATATTAA
* *
36594069 TAATTTATAATTTAAAATATTAA
1 TATTTTATTATTTAA-ATATTAA
36594092 TA
1 TA
36594094 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
22 11 0.26
23 11 0.26
24 1 0.02
25 1 0.02
26 2 0.05
27 17 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTATTATTTAAATATTAA
Found at i:36594047 original size:27 final size:27
Alignment explanation
Indices: 36594017--36594076 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
36594007 GATTATTTAT
*
36594017 TTTTATTTTATTT-TTTAAATATTAATA
1 TTTTA-TTTATTTATTAAAATATTAATA
36594044 TTTTA-TTATTTAATTAAAATATTAATA
1 TTTTATTTATTT-ATTAAAATATTAATA
*
36594071 ATTTAT
1 TTTTAT
36594077 AATTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
27 22 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTATTTATTTATTAAAATATTAATA
Found at i:36594218 original size:8 final size:8
Alignment explanation
Indices: 36594196--36594282 Score: 52
Period size: 8 Copynumber: 10.6 Consensus size: 8
36594186 NNNNNNNTTT
36594196 TTTTAA-A
1 TTTTAATA
*
36594203 TATTAATA
1 TTTTAATA
36594211 TTTTAATA
1 TTTTAATA
36594219 TTTTAATCA
1 TTTTAAT-A
*
36594228 TATTAATA
1 TTTTAATA
* *
36594236 TTAATAATG
1 TT-TTAATA
36594245 TTTTAATTA
1 TTTTAA-TA
* *
36594254 TATATAAAA
1 T-TTTAATA
*
36594263 TATTAATA
1 TTTTAATA
*
36594271 -TTTAAAA
1 TTTTAATA
36594278 TTTTA
1 TTTTA
36594283 TAAATATTTT
Statistics
Matches: 59, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
7 10 0.17
8 28 0.47
9 17 0.29
10 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (8 bp):
TTTTAATA
Found at i:36594243 original size:26 final size:26
Alignment explanation
Indices: 36594202--36594270 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
36594192 NTTTTTTTAA
*
36594202 ATATTAATATT-TTAATATTTTAATC
1 ATATTAATATTAATAATATTTTAATC
* *
36594227 ATATTAATATTAATAATGTTTTAATT
1 ATATTAATATTAATAATATTTTAATC
36594253 ATATATAAAATATTAATA
1 ATAT-T--AATATTAATA
36594271 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 11 0.30
26 15 0.41
27 1 0.03
29 10 0.27
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
ATATTAATATTAATAATATTTTAATC
Found at i:36594315 original size:16 final size:17
Alignment explanation
Indices: 36594289--36594321 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36594279 TTTATAAATA
*
36594289 TTTTTCTCTTTTTCTTT
1 TTTTTCTCTTTTCCTTT
36594306 TTTTTC-CTTTTCCTTT
1 TTTTTCTCTTTTCCTTT
36594322 CTTCTTCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTCTTTTCCTTT
Found at i:36609141 original size:22 final size:23
Alignment explanation
Indices: 36609113--36609158 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
36609103 TAAAGTACTT
*
36609113 TTAGGGATAAAACA-CTTTCGGA
1 TTAGGGAAAAAACATCTTTCGGA
*
36609135 TTAGGGAAAAAACATCTTTTGGA
1 TTAGGGAAAAAACATCTTTCGGA
36609158 T
1 T
36609159 AAATATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (23 bp):
TTAGGGAAAAAACATCTTTCGGA
Found at i:36609376 original size:30 final size:30
Alignment explanation
Indices: 36609335--36609393 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
36609325 TTTTAAGCCA
36609335 ATTCAATGTTCTTT-ATTGGTAGGGGATGAT
1 ATTCAATGTTCTTTCA-TGGTAGGGGATGAT
* *
36609365 ATTCGATGTTCTTTCATGGTCGGGGATGA
1 ATTCAATGTTCTTTCATGGTAGGGGATGA
36609394 GAAAGTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.10, G:0.29, T:0.41
Consensus pattern (30 bp):
ATTCAATGTTCTTTCATGGTAGGGGATGAT
Found at i:36614409 original size:11 final size:11
Alignment explanation
Indices: 36614388--36614416 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
36614378 TAATATTTTG
36614388 ATTAA-TAATA
1 ATTAATTAATA
36614398 ATTAATTAATA
1 ATTAATTAATA
36614409 ATTAATTA
1 ATTAATTA
36614417 TAAAAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAATTAATA
Found at i:36615440 original size:4 final size:4
Alignment explanation
Indices: 36615431--36615455 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
36615421 ATCTGCATTC
36615431 TGCA TGCA TGCA TGCA TGCA TGCA T
1 TGCA TGCA TGCA TGCA TGCA TGCA T
36615456 TTGTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (4 bp):
TGCA
Found at i:36618055 original size:22 final size:23
Alignment explanation
Indices: 36618018--36618060 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36618008 TATTAGCCAT
*
36618018 TCTAAAAATATAAAAATTTTACA
1 TCTAAAAAAATAAAAATTTTACA
36618041 TCTAAAAAAAT-AAAATTTTA
1 TCTAAAAAAATAAAAATTTTA
36618061 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (23 bp):
TCTAAAAAAATAAAAATTTTACA
Found at i:36632017 original size:23 final size:23
Alignment explanation
Indices: 36631980--36632059 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
36631970 ATATGCTGTT
36631980 ATTTAAAAATAAAATATTTTTAAA
1 ATTTAAAAAT-AAATATTTTTAAA
*
36632004 ATTTTAAAATAAATATTTTTAAA
1 ATTTAAAAATAAATATTTTTAAA
* **
36632027 A-TTATAAATATTTATGTTTTAAA
1 ATTTAAAAATAAATAT-TTTTAAA
36632050 ATTTAAAAAT
1 ATTTAAAAAT
36632060 TTTAAATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.21
23 22 0.46
24 16 0.33
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
ATTTAAAAATAAATATTTTTAAA
Found at i:36644232 original size:175 final size:174
Alignment explanation
Indices: 36644044--36644385 Score: 630
Period size: 175 Copynumber: 2.0 Consensus size: 174
36644034 AGAAGAGAAG
36644044 AAAAAGCTATTCCTTGAAGTTTTTTTTTAAGCTCTTTTTTAAAAAATTTTGTTCTTAAAAAAAAA
1 AAAAAGCTATTCCTTGAAGTTTTTTTTTAAGCTCTTTTTTAAAAAATTTTGTTCTTAAAAAAAAA
* * *
36644109 ACTGTTTTTTTTTAAGAACTTTTCAAAAGATCATGTTTGGCATGACTTTTGCTTTTAAGAGGTAA
66 ACTGTTTTTTTTTAAGAACTTTTCAAAAGATCATGTTTGGCATGACTTTTACTTATAAGAGATAA
*
36644174 ATAAGTTGAAAAAAAGCTAGGCCAAACAAGCTCTTAATCAATTT
131 ATAAGTTGAAAAAAAGCTAGGCCAAACAAGCACTTAATCAATTT
36644218 NAAAAAGCTATTCCTTGAAGTTTTTTTTTAAGCTCTTTTTTAAAAAATTTTGTTCTTAAAAAAAA
1 -AAAAAGCTATTCCTTGAAGTTTTTTTTTAAGCTCTTTTTTAAAAAATTTTGTTCTTAAAAAAAA
36644283 AACTGTTTTTTTTTAAGAACTTTTCAAAAGATCATGTTTGGCATGACTTTTACTTATAAGAGATA
65 AACTGTTTTTTTTTAAGAACTTTTCAAAAGATCATGTTTGGCATGACTTTTACTTATAAGAGATA
*
36644348 AATAAGTTGAAAAAAAGCTAGGCCAAACATGCACTTAA
130 AATAAGTTGAAAAAAAGCTAGGCCAAACAAGCACTTAA
36644386 CAGTTTTTTA
Statistics
Matches: 162, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
175 162 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.39
Consensus pattern (174 bp):
AAAAAGCTATTCCTTGAAGTTTTTTTTTAAGCTCTTTTTTAAAAAATTTTGTTCTTAAAAAAAAA
ACTGTTTTTTTTTAAGAACTTTTCAAAAGATCATGTTTGGCATGACTTTTACTTATAAGAGATAA
ATAAGTTGAAAAAAAGCTAGGCCAAACAAGCACTTAATCAATTT
Found at i:36647202 original size:17 final size:17
Alignment explanation
Indices: 36647176--36647220 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
36647166 AAATAAAAAA
36647176 TAAA-TATATTTATATT
1 TAAAGTATATTTATATT
36647192 TAAAGTATATTTATATT
1 TAAAGTATATTTATATT
*
36647209 AAAAGTAT-TTTA
1 TAAAGTATATTTA
36647221 GTGTATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (17 bp):
TAAAGTATATTTATATT
Found at i:36647887 original size:17 final size:17
Alignment explanation
Indices: 36647857--36647907 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
36647847 AAATAGAAAA
*
36647857 TAAA-TATATTTATATT
1 TAAAGTATATATATATT
*
36647873 TAAAGTATATATATACT
1 TAAAGTATATATATATT
*
36647890 AAAAGTATTAATATATAT
1 TAAAGTA-T-ATATATAT
36647908 AATATAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 1 0.04
19 7 0.25
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (17 bp):
TAAAGTATATATATATT
Found at i:36654223 original size:17 final size:18
Alignment explanation
Indices: 36654201--36654237 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36654191 TTAATATCTA
*
36654201 AACTTA-AATATAAAATT
1 AACTTACAATACAAAATT
36654218 AACTTACAATACAAAATT
1 AACTTACAATACAAAATT
36654236 AA
1 AA
36654238 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (18 bp):
AACTTACAATACAAAATT
Found at i:36661671 original size:25 final size:25
Alignment explanation
Indices: 36661637--36661686 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
36661627 ATCGAATTCA
36661637 ACCATATACTTTTCTTTTAGCATAC
1 ACCATATACTTTTCTTTTAGCATAC
36661662 ACCATATACTTTTCTTTTAGCATAC
1 ACCATATACTTTTCTTTTAGCATAC
36661687 TTTTACACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.04, T:0.44
Consensus pattern (25 bp):
ACCATATACTTTTCTTTTAGCATAC
Found at i:36662854 original size:84 final size:86
Alignment explanation
Indices: 36662634--36663039 Score: 331
Period size: 86 Copynumber: 4.7 Consensus size: 86
36662624 TTATTTAATC
* * * * *
36662634 ATAATTTTACCTAATTATTTCCTCT-CGAGTTCAATGAATTTTTACATCTATAAAAATTACTCTC
1 ATAATTTTATCTAATTATTTCAT-TGTGAATTCAATTAATTTTTACATCTATAAAAATTACTCTC
*
36662698 -GATATTAAATATATTTATATTATA
65 AG-TATTAAAAATATTT-TA-TATA
* ** * *
36662722 AGTTTAATTTTACCTAATTATTTCATCATGAGTTCAATGAATTTTTACA-CTATAAAAATTACTC
1 A---TAATTTTATCTAATTATTTCATTGTGAATTCAATTAATTTTTACATCTATAAAAATTACTC
36662786 TCAGTATTAAAAATATTTTA-ATA
63 TCAGTATTAAAAATATTTTATATA
* * * * * *
36662809 TTAATTTTATCTAATTATTTCATTGTGAATTCGATTAAATATTACATGGTATAAAAATGACTC-C
1 ATAATTTTATCTAATTATTTCATTGTGAATTCAATTAATTTTTACAT-CTATAAAAATTACTCTC
* * * *
36662873 TAGTGTTAGAAATATTCTA-GTA
65 -AGTATTAAAAATATTTTATATA
* * * *
36662895 ATAATTTTGAT-TAATTATTTCATTGCGAATTCAATTAATTTTTACATGTATAAAAATTAGTCTT
1 ATAATTTT-ATCTAATTATTTCATTGTGAATTCAATTAATTTTTACATCTATAAAAATTACTCTC
* * * *
36662959 AATTTTAAAAATATTTTAGAGCA
65 AGTATTAAAAATATTTTATA-TA
* * * * * ** *
36662982 ATAATTTTAACTAATTATTTTATCGTGAGTTCAATGAATTTTTATGTGTATAAAAATT
1 ATAATTTTATCTAATTATTTCATTGTGAATTCAATTAATTTTTACATCTATAAAAATT
36663040 CAAATAAGTA
Statistics
Matches: 264, Mismatches: 41, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
84 37 0.14
85 28 0.11
86 70 0.27
87 54 0.20
88 1 0.00
89 2 0.01
90 30 0.11
91 42 0.16
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (86 bp):
ATAATTTTATCTAATTATTTCATTGTGAATTCAATTAATTTTTACATCTATAAAAATTACTCTCA
GTATTAAAAATATTTTATATA
Found at i:36664549 original size:2 final size:2
Alignment explanation
Indices: 36664544--36664572 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36664534 AACATTGTGT
36664544 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
36664573 CCATCTCTTT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36682805 original size:20 final size:19
Alignment explanation
Indices: 36682775--36682837 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
36682765 CCTATTGTTC
36682775 ATTTTTTTAAATTTAATTT
1 ATTTTTTTAAATTTAATTT
*
36682794 ATTTTTTATAAATTTATTTT
1 ATTTTTT-TAAATTTAATTT
* *
36682814 AATTTATT-AATTTCAATTTT
1 ATTTTTTTAAATTT-AA-TTT
36682834 ATTT
1 ATTT
36682838 ATAATATACA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.14
19 9 0.25
20 22 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTTAAATTTAATTT
Found at i:36683585 original size:6 final size:7
Alignment explanation
Indices: 36683560--36683595 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
36683550 ATTGAATTTC
36683560 AAAAATAT
1 AAAAA-AT
36683568 AAAAAAT
1 AAAAAAT
36683575 AAAAAAT
1 AAAAAAT
36683582 AAAAAAT
1 AAAAAAT
36683589 AACAAAA
1 AA-AAAA
36683596 AAGAAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.67
8 9 0.33
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:36683896 original size:15 final size:16
Alignment explanation
Indices: 36683866--36683899 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
36683856 TATTGAATTT
36683866 TAAAAATATAAAAAAA
1 TAAAAATATAAAAAAA
*
36683882 TAAAAAT-TAAGAAAA
1 TAAAAATATAAAAAAA
36683897 TAA
1 TAA
36683900 CCAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAAAATATAAAAAAA
Found at i:36683978 original size:308 final size:309
Alignment explanation
Indices: 36683426--36684043 Score: 1062
Period size: 308 Copynumber: 2.0 Consensus size: 309
36683416 ATGGACTCAA
*
36683426 ATTTATTTGTCAACATAATCCAAGGATAATTAGAAATATAATTTTTGCGTAGCTCACAAATAATG
1 ATTTATTTGTCAACATAATCCAAGGATAACTAGAAATATAATTTTTGCGTAGCTCACAAATAA--
* * * *
36683491 TGTGTGTATATATATAAACATTCAAACGTAGTAGACACCTCAATTTGTCTGAGGTGTTTATTGAA
64 --TGTGTATATATATAAACATTCAAACATAGCAGACACATCAATTTGTCTGAAGTGTTTATTGAA
*
36683556 TTTCAAAAATATAAAAAATAAAAAATAAAAAATAACAAAAAAGAAGAGAGATAAACATGAAGAAG
127 TTTCAAAAATATAAAAAATAAAAAATAAAAAATAACAAAAAAGAAGAGAGATAAACATGAAAAAG
36683621 GTAAAATAGATTTACACAAATCCTAATTCTATATGAACTTAAAAATCTAAAAAAAAAATTAAGTT
192 GTAAAATAGATTTACACAAATCCTAATTCTATATGAACTTAAAAATCTAAAAAAAAAATTAAGTT
36683686 AGATTGAAAATTAAAAAGGATATTAAGTTAAATTGAATCAAAACTCAAAATTT
257 AGATTGAAAATTAAAAAGGATATTAAGTTAAATTGAATCAAAACTCAAAATTT
36683739 ATTTATTTGTCAACATAATCCAAGGATAACTAGAAATATAATTTTTGCGTAGCTCACAAAT-A-G
1 ATTTATTTGTCAACATAATCCAAGGATAACTAGAAATATAATTTTTGCGTAGCTCACAAATAATG
* * *
36683802 TGTATATATATAAACATTTAAACATAGCAGACACATCAATTTGTTTGAAGTGTTTATTGAATTTT
66 TGTATATATATAAACATTCAAACATAGCAGACACATCAATTTGTCTGAAGTGTTTATTGAATTTC
* *
36683867 AAAAATATAAAAAAATAAAAATTAAGAAAATAACCAAAAA-AAGAGAGATAAACATGAAAAAGGT
131 AAAAATAT-AAAAAATAAAAAATAA-AAAATAACAAAAAAGAAGAGAGATAAACATGAAAAAGGT
36683931 AAAATAGATTTACACAAATCCTAATTCTATATGAACTTAAAAATCTAAAAAAAAAATTAAGTTAG
194 AAAATAGATTTACACAAATCCTAATTCTATATGAACTTAAAAATCTAAAAAAAAAATTAAGTTAG
36683996 ATTGAAAATTAAAAAGGATATTAAGTTAAATTGAATCAAAACTCAAAA
259 ATTGAAAATTAAAAAGGATATTAAGTTAAATTGAATCAAAACTCAAAA
36684044 AACCAATTTA
Statistics
Matches: 292, Mismatches: 11, Indels: 9
0.94 0.04 0.03
Matches are distributed among these distances:
307 67 0.23
308 151 0.52
309 13 0.04
312 1 0.00
313 60 0.21
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.29
Consensus pattern (309 bp):
ATTTATTTGTCAACATAATCCAAGGATAACTAGAAATATAATTTTTGCGTAGCTCACAAATAATG
TGTATATATATAAACATTCAAACATAGCAGACACATCAATTTGTCTGAAGTGTTTATTGAATTTC
AAAAATATAAAAAATAAAAAATAAAAAATAACAAAAAAGAAGAGAGATAAACATGAAAAAGGTAA
AATAGATTTACACAAATCCTAATTCTATATGAACTTAAAAATCTAAAAAAAAAATTAAGTTAGAT
TGAAAATTAAAAAGGATATTAAGTTAAATTGAATCAAAACTCAAAATTT
Found at i:36684272 original size:36 final size:35
Alignment explanation
Indices: 36684214--36684290 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 35
36684204 GTGAGTTTTC
36684214 TTTTATTTTTTTTATATCGAAATTAGTTTAATTGA
1 TTTTATTTTTTTTATATCGAAATTAGTTTAATTGA
*
36684249 TTTTATTTTCTTTTATATTGAAATTAGTTTAATTGA
1 TTTTATTTT-TTTTATATCGAAATTAGTTTAATTGA
36684285 TATTTA
1 T-TTTA
36684291 GTGTTGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 9 0.23
36 26 0.67
37 4 0.10
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (35 bp):
TTTTATTTTTTTTATATCGAAATTAGTTTAATTGA
Found at i:36688190 original size:2 final size:2
Alignment explanation
Indices: 36688183--36688208 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36688173 CTTTCCCACT
36688183 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
36688209 ATCAACTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36691498 original size:3 final size:3
Alignment explanation
Indices: 36691485--36691516 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
36691475 GACTGCTTTC
36691485 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
36691517 CTCAATGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:36704846 original size:23 final size:25
Alignment explanation
Indices: 36704806--36704853 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
36704796 TCATATAGTC
*
36704806 TATAATTAATCTAAG-TTTATTCCA
1 TATAATTAATCCAAGTTTTATTCCA
*
36704830 TATAA-TAATCCATGTTTTATTCCA
1 TATAATTAATCCAAGTTTTATTCCA
36704854 AACACACAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (25 bp):
TATAATTAATCCAAGTTTTATTCCA
Found at i:36711751 original size:30 final size:30
Alignment explanation
Indices: 36711701--36711758 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
36711691 AAAATTCTCT
36711701 TAAAAATAATATTATAAAATTTTTAAAACAA
1 TAAAAATAATATTATAAAA-TTTTAAAACAA
* *
36711732 TAAAAAT-GTATTATGAAATTTTAAAAC
1 TAAAAATAATATTATAAAATTTTAAAAC
36711759 TTGAAGGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
30 9 0.36
31 7 0.28
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (30 bp):
TAAAAATAATATTATAAAATTTTAAAACAA
Found at i:36715515 original size:2 final size:2
Alignment explanation
Indices: 36715475--36715499 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36715465 AAAAACATCT
36715475 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
36715500 CCGTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36728683 original size:12 final size:12
Alignment explanation
Indices: 36728649--36728687 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36728639 GCAAGAGAAT
*
36728649 TACATATATATA
1 TACATATATACA
*
36728661 TATATATATACA
1 TACATATATACA
*
36728673 TACATACATACA
1 TACATATATACA
36728685 TAC
1 TAC
36728688 CTATTAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (12 bp):
TACATATATACA
Found at i:36730421 original size:11 final size:11
Alignment explanation
Indices: 36730405--36730430 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36730395 CTTATATTTT
36730405 TTTTAAAGATA
1 TTTTAAAGATA
36730416 TTTTAAAGATA
1 TTTTAAAGATA
36730427 TTTT
1 TTTT
36730431 TTATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TTTTAAAGATA
Found at i:36731437 original size:4 final size:4
Alignment explanation
Indices: 36731428--36731481 Score: 65
Period size: 4 Copynumber: 13.0 Consensus size: 4
36731418 TGTAGACACT
*
36731428 TAAA TAAA TAAA TATAA -ATA TAAA TAAAA TAAA TAAA TAAA TAAA TAAAA
1 TAAA TAAA TAAA TA-AA TAAA TAAA T-AAA TAAA TAAA TAAA TAAA T-AAA
36731478 TAAA
1 TAAA
36731482 ATAATAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 1 0.02
4 33 0.75
5 10 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:36731459 original size:21 final size:22
Alignment explanation
Indices: 36731429--36731485 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 22
36731419 GTAGACACTT
36731429 AAATAAATAAATATAAATATAA-
1 AAATAAATAAA-ATAAATATAAT
*
36731451 ATA-AAAT-AAATAAATA-AAT
1 AAATAAATAAAATAAATATAAT
36731470 AAATAAAATAAAATAA
1 AAAT-AAATAAAATAA
36731486 TAAAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 2 0.07
19 9 0.31
20 2 0.07
21 8 0.28
22 8 0.28
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATAAATAAAATAAATATAAT
Found at i:36731461 original size:25 final size:25
Alignment explanation
Indices: 36731429--36731489 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 25
36731419 GTAGACACTT
36731429 AAATAAATAAAT-ATAAATATAAATA
1 AAATAAATAAATAATAAATA-AAATA
36731454 AAATAAATAAATAAATAAATAAAATA
1 AAATAAATAAAT-AATAAATAAAATA
36731480 AAAT-AATAAA
1 AAATAAATAAA
36731490 AAAAATCGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 18 0.53
26 9 0.26
27 7 0.21
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (25 bp):
AAATAAATAAATAATAAATAAAATA
Found at i:36731467 original size:17 final size:18
Alignment explanation
Indices: 36731428--36731481 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 18
36731418 TGTAGACACT
36731428 TAAATAAATAAATATAAA
1 TAAATAAATAAATATAAA
36731446 T--ATAAATAAA-ATAAA
1 TAAATAAATAAATATAAA
36731461 TAAATAAATAAATA-AAA
1 TAAATAAATAAATATAAA
36731478 TAAA
1 TAAA
36731482 ATAATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
15 6 0.18
16 9 0.27
17 16 0.48
18 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAATAAATAAATATAAA
Found at i:36731487 original size:17 final size:18
Alignment explanation
Indices: 36731430--36731495 Score: 75
Period size: 17 Copynumber: 3.7 Consensus size: 18
36731420 TAGACACTTA
36731430 AATAAAT-AAATATAAAT
1 AATAAATAAAATATAAAT
36731447 -ATAAATAAAATAAATAAAT
1 AATAAATAAAAT--ATAAAT
36731466 AAATAAATAAAATA-AAAT
1 -AATAAATAAAATATAAAT
*
36731484 AATAAAAAAAAT
1 AATAAATAAAAT
36731496 CGGGATGGCT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
16 6 0.14
17 15 0.35
18 4 0.09
19 7 0.16
21 11 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AATAAATAAAATATAAAT
Found at i:36731487 original size:21 final size:21
Alignment explanation
Indices: 36731428--36731489 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
36731418 TGTAGACACT
*
36731428 TAAAT-AAATAAATATAA-ATA
1 TAAATAAAATAAA-ATAATAAA
36731448 TAAATAAAAT-AAATAAATAAA
1 TAAATAAAATAAAAT-AATAAA
36731469 TAAATAAAATAAAATAATAAA
1 TAAATAAAATAAAATAATAAA
36731490 AAAAATCGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 2 0.05
20 9 0.24
21 22 0.59
22 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAATAAAATAAAATAATAAA
Found at i:36731724 original size:15 final size:14
Alignment explanation
Indices: 36731684--36731728 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
36731674 GATTAGCCAC
36731684 ACAAAAAAACACAAA
1 ACAAAAAAACA-AAA
* *
36731699 AGAAAGAAACAAAA
1 ACAAAAAAACAAAA
36731713 ACAAAAACAACAAAA
1 ACAAAAA-AACAAAA
36731728 A
1 A
36731729 AGGAGGGGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.80, C:0.16, G:0.04, T:0.00
Consensus pattern (14 bp):
ACAAAAAAACAAAA
Found at i:36740066 original size:26 final size:28
Alignment explanation
Indices: 36740028--36740079 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
36740018 TTAAAATATG
* *
36740028 AAAATATTATAATTTTTTAATTTTAATT
1 AAAATATTATAATTTTATAAGTTTAATT
36740056 AAAATA-T-TAATTTTATAAGTTTAA
1 AAAATATTATAATTTTATAAGTTTAA
36740080 GTTTGTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 1 0.05
28 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
AAAATATTATAATTTTATAAGTTTAATT
Found at i:36743567 original size:21 final size:23
Alignment explanation
Indices: 36743543--36743588 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
36743533 ACTTATCAAA
*
36743543 TAAACAATT-AATTAA-TTTTTT
1 TAAACAATTAAATTAACTTTATT
*
36743564 TAAACGATTAAATTAACTTTATT
1 TAAACAATTAAATTAACTTTATT
36743587 TA
1 TA
36743589 GTAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 6 0.29
23 7 0.33
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
TAAACAATTAAATTAACTTTATT
Found at i:36745304 original size:17 final size:18
Alignment explanation
Indices: 36745277--36745349 Score: 96
Period size: 17 Copynumber: 3.9 Consensus size: 18
36745267 TCATCATCAT
36745277 TTTTTTATTATTATTTTTA
1 TTTTTT-TTATTATTTTTA
36745296 -TTTTTTTATTATTTTTA
1 TTTTTTTTATTATTTTTA
36745313 TCTATTTTTTATT-TTTTTA
1 T-T-TTTTTTATTATTTTTA
36745332 TTTTTTTTATTTATTTTT
1 TTTTTTTTA-TTATTTTT
36745350 TTTAAAGTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
17 19 0.39
18 8 0.16
19 13 0.27
20 9 0.18
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTTATTATTTTTA
Found at i:36745322 original size:28 final size:28
Alignment explanation
Indices: 36745290--36745350 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
36745280 TTTATTATTA
36745290 TTTTTATTTTTTTATTATTTTTATCTAT
1 TTTTTATTTTTTTATTATTTTTATCTAT
* *
36745318 TTTTTATTTTTTTATTTTTTTTATTTAT
1 TTTTTATTTTTTTATTATTTTTATCTAT
36745346 TTTTT
1 TTTTT
36745351 TTAAAGTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.84
Consensus pattern (28 bp):
TTTTTATTTTTTTATTATTTTTATCTAT
Found at i:36745353 original size:9 final size:9
Alignment explanation
Indices: 36745277--36745349 Score: 78
Period size: 9 Copynumber: 7.9 Consensus size: 9
36745267 TCATCATCAT
36745277 TTTTTTATTA
1 TTTTTT-TTA
*
36745287 TTATTTTTA
1 TTTTTTTTA
36745296 -TTTTTTTA
1 TTTTTTTTA
*
36745304 TTATTTTTA
1 TTTTTTTTA
36745313 TCTATTTTTTA
1 T-T-TTTTTTA
36745324 -TTTTTTTA
1 TTTTTTTTA
36745332 TTTTTTTTA
1 TTTTTTTTA
36745341 TTTATTTTT
1 TTT-TTTTT
36745350 TTTAAAGTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
8 14 0.26
9 23 0.43
10 11 0.20
11 6 0.11
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:36746731 original size:39 final size:39
Alignment explanation
Indices: 36746677--36746753 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
36746667 GGGAACGCCA
*
36746677 ATCTGGTGCTCTCATGAGGAGATTTGGCTGGATCTAGCT
1 ATCTGGTGCTCTCATGAGGAGATTTGGCTAGATCTAGCT
36746716 ATCTGGTGCTCTCATGAGGAGATTTGGCTAGATCTAGC
1 ATCTGGTGCTCTCATGAGGAGATTTGGCTAGATCTAGC
36746754 ATTCCATAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.32
Consensus pattern (39 bp):
ATCTGGTGCTCTCATGAGGAGATTTGGCTAGATCTAGCT
Found at i:36756748 original size:30 final size:30
Alignment explanation
Indices: 36756714--36756774 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
36756704 AAGCAAAAGT
36756714 AAAAGCATAAATCACATGTTTGAGTTTAAC
1 AAAAGCATAAATCACATGTTTGAGTTTAAC
36756744 AAAAGCATAAATCACATGTTTGAGTTTAAC
1 AAAAGCATAAATCACATGTTTGAGTTTAAC
36756774 A
1 A
36756775 TTTAAGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (30 bp):
AAAAGCATAAATCACATGTTTGAGTTTAAC
Found at i:36757480 original size:21 final size:20
Alignment explanation
Indices: 36757434--36757481 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
36757424 GTGCAATTAA
* *
36757434 AAAATCTATGTAAATAAGAT
1 AAAATTTATGTAAATAACAT
* *
36757454 AGAATTTATGATAAATTACAT
1 AAAATTTATG-TAAATAACAT
36757475 AAAATTT
1 AAAATTT
36757482 TGAATTTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.35
Consensus pattern (20 bp):
AAAATTTATGTAAATAACAT
Found at i:36761918 original size:34 final size:34
Alignment explanation
Indices: 36761879--36761944 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
36761869 TGGGAAGAAT
*
36761879 CTGATAACATGGTGGCAAATGCAGCCAAATCATA
1 CTGATAACATGGAGGCAAATGCAGCCAAATCATA
36761913 CTGATAACATGGAGGCAAATGCAGCCAAATCA
1 CTGATAACATGGAGGCAAATGCAGCCAAATCA
36761945 CACCAGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (34 bp):
CTGATAACATGGAGGCAAATGCAGCCAAATCATA
Found at i:36763397 original size:8 final size:8
Alignment explanation
Indices: 36763384--36763414 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
36763374 ACTCCGAGGC
36763384 TCTCTCTG
1 TCTCTCTG
36763392 TCTCTCTG
1 TCTCTCTG
*
36763400 TCTCTCTC
1 TCTCTCTG
36763408 TCTCTCT
1 TCTCTCT
36763415 CCTTATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.42, G:0.06, T:0.52
Consensus pattern (8 bp):
TCTCTCTG
Done.