Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold173
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: 2040036
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 8 of 16
Found at i:983735 original size:21 final size:21
Alignment explanation
Indices: 983709--983772 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
983699 ATCATATCAC
983709 ATCAAAAGTTATTAAAATTAT
1 ATCAAAAGTTATTAAAATTAT
* *
983730 ATCAAAAGTTA-TAAACTTAA
1 ATCAAAAGTTATTAAAATTAT
* * *
983750 AACAAAAGTTTTTAAGATTAT
1 ATCAAAAGTTATTAAAATTAT
983771 AT
1 AT
983773 TAATGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (21 bp):
ATCAAAAGTTATTAAAATTAT
Found at i:983755 original size:20 final size:21
Alignment explanation
Indices: 983711--983769 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
983701 CATATCACAT
* *
983711 CAAAAGTTATTAAAATTATAT
1 CAAAAGTTATTAAAATTAAAA
*
983732 CAAAAGTTA-TAAACTTAAAA
1 CAAAAGTTATTAAAATTAAAA
* *
983752 CAAAAGTTTTTAAGATTA
1 CAAAAGTTATTAAAATTA
983770 TATTAATGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.34
Consensus pattern (21 bp):
CAAAAGTTATTAAAATTAAAA
Found at i:988060 original size:28 final size:32
Alignment explanation
Indices: 988001--988060 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
987991 TTTGACAATT
*
988001 TGTAATTATCATTATTTTAGTGTAATAAAGTA
1 TGTAATTATCATTATTGTAGTGTAATAAAGTA
988033 TGTAATTATCA-T-TTGTA-TGT-ATAAAGTA
1 TGTAATTATCATTATTGTAGTGTAATAAAGTA
988061 ATTTTATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 8 0.30
29 3 0.11
30 4 0.15
31 1 0.04
32 11 0.41
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (32 bp):
TGTAATTATCATTATTGTAGTGTAATAAAGTA
Found at i:990569 original size:16 final size:16
Alignment explanation
Indices: 990548--990581 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
990538 TGTTCAGTAT
990548 ATTAAAAAAATTAAAA
1 ATTAAAAAAATTAAAA
*
990564 ATTAAAAATATTAAAA
1 ATTAAAAAAATTAAAA
990580 AT
1 AT
990582 GTATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAAAAATTAAAA
Found at i:991162 original size:20 final size:20
Alignment explanation
Indices: 991122--991175 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
991112 TCACGATAGC
* *
991122 ATAAATATTATTTTATTAAAA
1 ATAATTATTAATTT-TTAAAA
* *
991143 ATATTTTTTAATTTTTAAAA
1 ATAATTATTAATTTTTAAAA
991163 ATAATTATTAATT
1 ATAATTATTAATT
991176 ATTTTTAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTATTAATTTTTAAAA
Found at i:992499 original size:2 final size:2
Alignment explanation
Indices: 992492--992527 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
992482 GAGTTATTGT
992492 TA TA TA TA TA 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 TA TA TA TA TA
992528 AACATGGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:992823 original size:21 final size:21
Alignment explanation
Indices: 992796--992873 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 21
992786 TTGTGTTTTT
992796 TTATAAAATTA-TATCAACTA
1 TTATAAAATTATTATCAACTA
*
992816 TTA-ATAAATTATTAT-AAATA
1 TTATA-AAATTATTATCAACTA
992836 TTATCAAAATTATTATCAAGCTA
1 TTAT-AAAATTATTATCAA-CTA
992859 -TATAAATAATTATTA
1 TTAT-AA-AATTATTA
992874 AAACTACTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
19 1 0.02
20 16 0.33
21 13 0.27
22 8 0.17
23 10 0.21
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.42
Consensus pattern (21 bp):
TTATAAAATTATTATCAACTA
Found at i:992886 original size:31 final size:31
Alignment explanation
Indices: 992828--992886 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
992818 AATAAATTAT
* *
992828 TATAAATATTATCAAAATTATTATCAAGCTA
1 TATAAATATTATCAAAACTACTATCAAGCTA
*
992859 TATAAATAATTATTAAAACTACT-TCAAG
1 TATAAAT-ATTATCAAAACTACTATCAAG
992887 TGTTACTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 12 0.50
32 12 0.50
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.37
Consensus pattern (31 bp):
TATAAATATTATCAAAACTACTATCAAGCTA
Found at i:993011 original size:21 final size:21
Alignment explanation
Indices: 992987--993092 Score: 77
Period size: 21 Copynumber: 5.4 Consensus size: 21
992977 AAGTCACATT
992987 AAAGATTATCAAAATTATATC
1 AAAGATTATCAAAATTATATC
* *
993008 AAAGCTTACCAAAATTATATC
1 AAAGATTATCAAAATTATATC
* *
993029 AAATATTAT--AAA-GATATC
1 AAAGATTATCAAAATTATATC
*
993047 ACAA-A-TAT---TATTATATC
1 A-AAGATTATCAAAATTATATC
*
993064 AAAAATTATCAAAATTATAT-
1 AAAGATTATCAAAATTATATC
993084 AAATGATTA
1 AAA-GATTA
993093 AAAAAATACT
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
16 3 0.04
17 10 0.15
18 10 0.15
19 5 0.07
20 3 0.04
21 36 0.54
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAGATTATCAAAATTATATC
Found at i:993172 original size:21 final size:20
Alignment explanation
Indices: 993106--993250 Score: 64
Period size: 21 Copynumber: 7.0 Consensus size: 20
993096 AAATACTAGT
* * *
993106 ATTAAATTAAAAGTTATTAAA
1 ATTATATTAAAAATTA-TCAA
*
993127 ATCATA-TAAAAGATTATC-A
1 ATTATATTAAAA-ATTATCAA
*
993146 ACTATATTAAAAATTATCCAA
1 ATTATATTAAAAATTAT-CAA
* *
993167 ATTATATCAAAAGTTATCAGA
1 ATTATATTAAAAATTATCA-A
* * *
993188 ATTATTATCAAAGATTAACAAA
1 ATTA-TATTAAAAATTATC-AA
*
993210 ATTATA--AAAAGGTTATCAAA
1 ATTATATTAAAA-ATTATC-AA
* * *
993230 ATTAAATCAAAGATTATCAA
1 ATTATATTAAAAATTATCAA
993250 A
1 A
993251 ATGACAAACA
Statistics
Matches: 96, Mismatches: 18, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
19 13 0.14
20 29 0.30
21 34 0.35
22 19 0.20
23 1 0.01
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (20 bp):
ATTATATTAAAAATTATCAA
Found at i:993194 original size:40 final size:38
Alignment explanation
Indices: 993111--993252 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 38
993101 CTAGTATTAA
* * * *
993111 ATTAAAAGTTATTAAAATCATATAAAAGATTATCAACTAT
1 ATTAAAAATTATCAAAATTATATAAAAG-TTATCAAAT-T
*
993151 ATTAAAAATTATCCAAATTATATCAAAAGTTATCAGAATT
1 ATTAAAAATTATCAAAATTATAT-AAAAGTTATCA-AATT
*
993191 ATTATCAAAGATTAACAAAATTATA-AAAAGGTTATCAAAATT
1 ATTA--AAA-ATTATCAAAATTATATAAAA-GTTATC-AAATT
* *
993233 AAATCAAAGATTATCAAAAT
1 --ATTAAAAATTATCAAAAT
993253 GACAAACATA
Statistics
Matches: 83, Mismatches: 10, Indels: 17
0.75 0.09 0.15
Matches are distributed among these distances:
40 30 0.36
41 21 0.25
42 15 0.18
43 14 0.17
44 3 0.04
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (38 bp):
ATTAAAAATTATCAAAATTATATAAAAGTTATCAAATT
Found at i:993239 original size:41 final size:42
Alignment explanation
Indices: 993165--993252 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 42
993155 AAAATTATCC
* *
993165 AAATTATATCAAAAGTTATCAGAATTATTATCAAAGATTAACA
1 AAATTATA-CAAAAGTTATCAAAATTATAATCAAAGATTAACA
*
993208 AAATTATA-AAAAGGTTATCAAAATTA-AATCAAAGATTATCA
1 AAATTATACAAAA-GTTATCAAAATTATAATCAAAGATTAACA
993249 AAAT
1 AAAT
993253 GACAAACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
41 21 0.51
42 12 0.29
43 8 0.20
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.31
Consensus pattern (42 bp):
AAATTATACAAAAGTTATCAAAATTATAATCAAAGATTAACA
Found at i:993251 original size:21 final size:22
Alignment explanation
Indices: 993158--993252 Score: 101
Period size: 21 Copynumber: 4.5 Consensus size: 22
993148 TATATTAAAA
*
993158 ATTATCCAAATTAT-ATCAAA-
1 ATTATCAAAATTATAATCAAAG
* *
993178 AGTTATCAGAATTATTATCAAAG
1 A-TTATCAAAATTATAATCAAAG
*
993201 ATTAACAAAATTATAA--AAAG
1 ATTATCAAAATTATAATCAAAG
*
993221 GTTATCAAAATTA-AATCAAAG
1 ATTATCAAAATTATAATCAAAG
993242 ATTATCAAAAT
1 ATTATCAAAAT
993253 GACAAACATA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
19 2 0.03
20 16 0.26
21 25 0.40
22 18 0.29
23 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (22 bp):
ATTATCAAAATTATAATCAAAG
Found at i:993312 original size:21 final size:21
Alignment explanation
Indices: 993289--993359 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
993279 TCATAATTTG
993289 TTACCAAAATTATATTGAATG-
1 TTACCAAAATTATATT-AATGA
* * *
993310 TTACCAAGATTA-GTTAATGC
1 TTACCAAAATTATATTAATGA
*
993330 TT-TCAAAATTATATTCAA-GA
1 TTACCAAAATTATATT-AATGA
993350 TTACCAAAAT
1 TTACCAAAAT
993360 AGTTATAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 11 0.28
20 9 0.23
21 19 0.49
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (21 bp):
TTACCAAAATTATATTAATGA
Found at i:993530 original size:21 final size:20
Alignment explanation
Indices: 993506--993578 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
993496 CATATCAACT
*
993506 ATTATTAAAATTATATAAAAA
1 ATTATCAAAATTATA-AAAAA
993527 ATTATCAAAATTATAACAAAA
1 ATTATCAAAATTATAA-AAAA
* * * *
993548 TTTACCCAAATTATATCAAAA
1 ATTATCAAAATTATA-AAAAA
*
993569 GTTATCAAAA
1 ATTATCAAAA
993579 CCAAAATTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.33
Consensus pattern (20 bp):
ATTATCAAAATTATAAAAAA
Found at i:993642 original size:21 final size:21
Alignment explanation
Indices: 993580--994080 Score: 146
Period size: 21 Copynumber: 24.2 Consensus size: 21
993570 TTATCAAAAC
* * *
993580 CAAAATTATAACAAAGGTTAA
1 CAAAATTATATCAAAGATTAT
* **
993601 CAAAATCATAGAAAACG-TTAT
1 CAAAATTATATCAAA-GATTAT
* *
993622 CGAAATTATATCAAATATTAT
1 CAAAATTATATCAAAGATTAT
* *
993643 -AGAAATTATATTAAAGATTAC
1 CA-AAATTATATCAAAGATTAT
993664 CAAAATTATA-CTAAAGATTAT
1 CAAAATTATATC-AAAGATTAT
* * *
993685 TAAAATTATATCAAATACTAT
1 CAAAATTATATCAAAGATTAT
* * *
993706 TAAAATCTAT-T-GAAGGTTA-
1 CAAAAT-TATATCAAAGATTAT
* *
993725 CTAAATTATACCAAATG-TTA-
1 CAAAATTATATCAAA-GATTAT
* **
993745 CTAAAATTATATTTAAAG-TTGC
1 C-AAAATTATA-TCAAAGATTAT
* * *
993767 CAAAATTATATTTAACG-TTAG
1 CAAAATTATA-TCAAAGATTAT
* * *
993788 GAAAATTATAT-ATGAGGTTAT
1 CAAAATTATATCA-AAGATTAT
* * * *
993809 C-AAATTCATCTTAAAAACTAT
1 CAAAATT-ATATCAAAGATTAT
* * *
993830 TAAAATCATATCAAAG-TTAAC
1 CAAAATTATATCAAAGATT-AT
** * * *
993851 CGGAATCATTTCAAA-AGTTAA
1 CAAAATTATATCAAAGA-TTAT
* * *
993872 C-AAATTATATCCAAGGTTGT
1 CAAAATTATATCAAAGATTAT
*
993892 C-AAATTACATCAAA-AGTTAT
1 CAAAATTATATCAAAGA-TTAT
* * *
993912 TAAAACTATATCAAAGACTAAT
1 CAAAATTATATCAAAGA-TTAT
* *
993934 -AAAATTATATCAAAGCTTCT
1 CAAAATTATATCAAAGATTAT
* *
993954 TAAAATTATAT-AAACATTAT
1 CAAAATTATATCAAAGATTAT
* **
993974 CAAAATTATATTAAA-AGTGGT
1 CAAAATTATATCAAAGA-TTAT
* * * *
993995 CAAAATTAGATAAAAAATTAC
1 CAAAATTATATCAAAGATTAT
* * *
994016 CAAAATTATCTTAAAGGTTAT
1 CAAAATTATATCAAAGATTAT
* *
994037 C-AAATTATATCAAAAATTAC
1 CAAAATTATATCAAAGATTAT
*
994057 CAAAATTATATCGAAGATTA-
1 CAAAATTATATCAAAGATTAT
994077 CAAA
1 CAAA
994081 TCAAAATTTT
Statistics
Matches: 351, Mismatches: 99, Indels: 61
0.69 0.19 0.12
Matches are distributed among these distances:
18 3 0.01
19 5 0.01
20 82 0.23
21 239 0.68
22 22 0.06
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.33
Consensus pattern (21 bp):
CAAAATTATATCAAAGATTAT
Found at i:994000 original size:41 final size:42
Alignment explanation
Indices: 993955--994067 Score: 140
Period size: 41 Copynumber: 2.7 Consensus size: 42
993945 AAAGCTTCTT
* * *
993955 AAAATTATAT-AAACATTATCAAAATTATATTAAAAGTGGTC
1 AAAATTATATAAAAAATTACCAAAATTATATTAAAAGTGATC
* * * *
993996 AAAATTAGATAAAAAATTACCAAAATTATCTTAAAGGTTATC
1 AAAATTATATAAAAAATTACCAAAATTATATTAAAAGTGATC
*
994038 -AAATTATATCAAAAATTACCAAAATTATAT
1 AAAATTATATAAAAAATTACCAAAATTATAT
994068 CGAAGATTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 36 0.59
42 25 0.41
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (42 bp):
AAAATTATATAAAAAATTACCAAAATTATATTAAAAGTGATC
Found at i:994121 original size:25 final size:26
Alignment explanation
Indices: 994070--994132 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
994060 AATTATATCG
* ***
994070 AAGATTACAAATCAAAATTTTCTTTA
1 AAGATTACAAATCAAAAATTAAATTA
994096 AAGATT-CAAATCAAAAATTAAATTA
1 AAGATTACAAATCAAAAATTAAATTA
*
994121 AAGTTTAACAAA
1 AAGATT-ACAAA
994133 AATAGGTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 20 0.67
26 6 0.20
27 4 0.13
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (26 bp):
AAGATTACAAATCAAAAATTAAATTA
Found at i:995017 original size:15 final size:15
Alignment explanation
Indices: 994999--995049 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
994989 ATTTAGTGTC
*
994999 AATATTTTTACACAT
1 AATATTTTTACATAT
* *
995014 AATATATATA-ATAT
1 AATATTTTTACATAT
995028 AATATTTTTACATAT
1 AATATTTTTACATAT
995043 AAT-TTTT
1 AATATTTT
995050 CTCCAAGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 15 0.50
15 15 0.50
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATTTTTACATAT
Found at i:996534 original size:20 final size:20
Alignment explanation
Indices: 996509--996553 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
996499 AAATATTATT
*
996509 TTATTAAAAATAATTTTTAA
1 TTATTAAAAATAATTATTAA
996529 TTATTAAAAATAATTATTAA
1 TTATTAAAAATAATTATTAA
996549 TTATT
1 TTATT
996554 TTTAATCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATTAAAAATAATTATTAA
Found at i:997125 original size:20 final size:20
Alignment explanation
Indices: 997100--997140 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
997090 AAATATTATT
*
997100 TTATTAAAAATAATTTTTAA
1 TTATTAAAAATAATTATTAA
997120 TTATTAAAAATAATTATTAA
1 TTATTAAAAATAATTATTAA
997140 T
1 T
997141 CATTTTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAAAATAATTATTAA
Found at i:997289 original size:294 final size:293
Alignment explanation
Indices: 996463--997358 Score: 1304
Period size: 285 Copynumber: 3.0 Consensus size: 293
996453 ACATTTGAGA
* *
996463 AATATAATTTTATAATACATTCAATCACAGTAACATAAATATTATTTTATTAAAAATAATTTTTA
1 AATATAAGTTTATAATGCATTCAATCACAGTAACATAAATATTATTTTATTAAAAATAATTTTTA
* *
996528 ATTATTAAAAATAATTATTAATTATTTTTAATCTCTTTAAACGTAAATTTAATAATACGTTCAAA
66 ATTATTAAAAATAATTATTAA-TA---TT--T-TC----AA--TAAATTTAATAATACATCCAAA
* * * * *
996593 TGACTTAAATAGTGGTTGAAATTTTATGGTACAAGCGTGCAGTTAGTTACGTAAAGTCCACAAGA
118 TGACTTAAATAGTGATTGAAATTTTATGGTACAAGTGTGTAGTTAGCTATGTAAAGTCCACAAGA
*
996658 ATGAACAATAGTTGGTGTCGACAATAAATGAATTCACACTATGATTTTATTTCTTTTGTCCAATG
183 ATGAACAATAGTTGGTGTCGATAATAAATGAATTCACACTATGATTTTATTTCTTTTGTCCAATG
*
996723 TCTTCTCTTTCTTCATTCGTTTACCATGTAACTTTACATGAACTTT
248 TCTTCTCTTTCTTCATTCGTTTACCATGTAACTTAACATGAACTTT
* *
996769 AATATAAGTTTATAATGCATTCAATTACAGTAACATAAATATTATTTTATTAAAAATAATTATTA
1 AATATAAGTTTATAATGCATTCAATCACAGTAACATAAATATTATTTTATTAAAAATAATTTTTA
*** * * *
996834 ATTATTTTTAAT--TTTTTAA-A---T--GTAAATTTAATAATACATCCAAATCACTTAAATAGT
66 ATTATTAAAAATAATTATTAATATTTTCAATAAATTTAATAATACATCCAAATGACTTAAATAGT
* *
996891 GATTGAAATTTTATGGTACAAGTATGTAGTTAGCTATGTAAAGTCCACAAGGATGAACAATAGTT
131 GATTGAAATTTTATGGTACAAGTGTGTAGTTAGCTATGTAAAGTCCACAAGAATGAACAATAGTT
* *
996956 GGTGTCGATAATAAATGAATTCACACTATGATCTTATTTCTTTTGTCTAATGTCTTCTCTTTCTT
196 GGTGTCGATAATAAATGAATTCACACTATGATTTTATTTCTTTTGTCCAATGTCTTCTCTTTCTT
* ** *
997021 CATTTGTTTATTATGTAACTTAAAATGAACTTT
261 CATTCGTTTACCATGTAACTTAACATGAACTTT
997054 AATATAAGTTTATAATGCATTCAATCACAGTAACATAAATATTATTTTATTAAAAATAATTTTTA
1 AATATAAGTTTATAATGCATTCAATCACAGTAACATAAATATTATTTTATTAAAAATAATTTTTA
997119 ATTATTAAAAATAATTATTAATCATTTTCAATAAATTTAATAATACATCCAAATGACTTAAATAG
66 ATTATTAAAAATAATTATTAAT-ATTTTCAATAAATTTAATAATACATCCAAATGACTTAAATAG
* * * *
997184 TAATTAAAATTTTATGGTACAAGTGTGTAGTTAGCTATGTAAAGTCCGCAAGAATAAACAATAGT
130 TGATTGAAATTTTATGGTACAAGTGTGTAGTTAGCTATGTAAAGTCCACAAGAATGAACAATAGT
* * *
997249 TGGTGTCGATAATAAATGAATTCACATTGTGATTTTATTTCTTTTGTCCAATGTCTTCTCTTTTT
195 TGGTGTCGATAATAAATGAATTCACACTATGATTTTATTTCTTTTGTCCAATGTCTTCTCTTTCT
997314 TCATTCGTTTACCATGTAACTTAACATGAACTTT
260 TCATTCGTTTACCATGTAACTTAACATGAACTTT
997348 AATATAAGTTT
1 AATATAAGTTT
997359 GTTTCTAATA
Statistics
Matches: 531, Mismatches: 50, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
285 252 0.47
287 6 0.01
289 1 0.00
292 1 0.00
293 1 0.00
294 193 0.36
302 1 0.00
304 6 0.01
306 70 0.13
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.41
Consensus pattern (293 bp):
AATATAAGTTTATAATGCATTCAATCACAGTAACATAAATATTATTTTATTAAAAATAATTTTTA
ATTATTAAAAATAATTATTAATATTTTCAATAAATTTAATAATACATCCAAATGACTTAAATAGT
GATTGAAATTTTATGGTACAAGTGTGTAGTTAGCTATGTAAAGTCCACAAGAATGAACAATAGTT
GGTGTCGATAATAAATGAATTCACACTATGATTTTATTTCTTTTGTCCAATGTCTTCTCTTTCTT
CATTCGTTTACCATGTAACTTAACATGAACTTT
Found at i:998673 original size:15 final size:14
Alignment explanation
Indices: 998641--998713 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
998631 TGCATATAAA
*
998641 TAATATA-ATAAAT
1 TAATATATATAATT
* *
998654 TAATATTATTTATTT
1 TAATA-TATATAATT
998669 TAATATATATAATT
1 TAATATATATAATT
*
998683 TAATA-ATATACTT
1 TAATATATATAATT
998696 T--TATATA-AATT
1 TAATATATATAATT
998707 T-ATATAT
1 TAATATAT
998714 TACTGTTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 6 0.12
12 8 0.16
13 13 0.27
14 14 0.29
15 8 0.16
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATATATAATT
Found at i:998756 original size:20 final size:21
Alignment explanation
Indices: 998728--998784 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
998718 GTTTTTTTGT
998728 ACAAAATTA-TATTAAATATTA
1 ACAAAATTATTA-TAAATATTA
998749 AC-AAATTATTATAAATATTA
1 ACAAAATTATTATAAATATTA
*
998769 TCAAAATTATTATAAA
1 ACAAAATTATTATAAA
998785 GTTACATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
ACAAAATTATTATAAATATTA
Found at i:998877 original size:20 final size:19
Alignment explanation
Indices: 998836--998881 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
998826 AAATTATATC
998836 AAAAATT-TTTAAAATTAT
1 AAAAATTATTTAAAATTAT
998854 AAAAATTATATTAAATATTA-
1 AAAAATTAT-TTAAA-ATTAT
998874 AAAAATTA
1 AAAAATTA
998882 CCAAAATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.28
19 1 0.04
20 13 0.52
21 4 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTATTTAAAATTAT
Found at i:998991 original size:21 final size:21
Alignment explanation
Indices: 998967--999066 Score: 96
Period size: 20 Copynumber: 4.8 Consensus size: 21
998957 CCATGTCACA
* *
998967 AAAAATTATTAAAATTGTATC
1 AAAAGTTATAAAAATTGTATC
**
998988 AAAAGTTA-AAAAATTAAATC
1 AAAAGTTATAAAAATTGTATC
*
999008 AAAAGTTATCAAAATTGTATC
1 AAAAGTTATAAAAATTGTATC
**
999029 AAAAGTTA-AAAAATTAAATC
1 AAAAGTTATAAAAATTGTATC
*
999049 AAAAAAGTTATCAAAATT
1 --AAAAGTTATAAAAATT
999067 ATATTAATGA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
20 26 0.41
21 24 0.38
22 8 0.12
23 6 0.09
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (21 bp):
AAAAGTTATAAAAATTGTATC
Found at i:999000 original size:20 final size:20
Alignment explanation
Indices: 998977--999043 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
998967 AAAAATTATT
998977 AAAATTGTATCAAAAGTTAA
1 AAAATTGTATCAAAAGTTAA
** *
998997 AAAATTAAATCAAAAGTTATC
1 AAAATTGTATCAAAAGTTA-A
999018 AAAATTGTATCAAAAGTTAA
1 AAAATTGTATCAAAAGTTAA
999038 AAAATT
1 AAAATT
999044 AAATCAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATTGTATCAAAAGTTAA
Found at i:999024 original size:41 final size:42
Alignment explanation
Indices: 998965--999066 Score: 170
Period size: 41 Copynumber: 2.4 Consensus size: 42
998955 TACCATGTCA
* *
998965 CAAAAAATTATTAAAATTGTATCAAAAGTTAAAAAATTAAAT
1 CAAAAAGTTATCAAAATTGTATCAAAAGTTAAAAAATTAAAT
999007 C-AAAAGTTATCAAAATTGTATCAAAAGTTAAAAAATTAAAT
1 CAAAAAGTTATCAAAATTGTATCAAAAGTTAAAAAATTAAAT
999048 CAAAAAAGTTATCAAAATT
1 C-AAAAAGTTATCAAAATT
999067 ATATTAATGA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
41 39 0.70
42 1 0.02
43 16 0.29
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (42 bp):
CAAAAAGTTATCAAAATTGTATCAAAAGTTAAAAAATTAAAT
Found at i:999049 original size:20 final size:20
Alignment explanation
Indices: 998985--999052 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
998975 TTAAAATTGT
998985 ATCAAAAGTTAAAAAATTAA
1 ATCAAAAGTTAAAAAATTAA
* **
999005 ATCAAAAGTTATCAAAATTGT
1 ATCAAAAGTTA-AAAAATTAA
999026 ATCAAAAGTTAAAAAATTAA
1 ATCAAAAGTTAAAAAATTAA
999046 ATCAAAA
1 ATCAAAA
999053 AAGTTATCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 24 0.59
21 17 0.41
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.26
Consensus pattern (20 bp):
ATCAAAAGTTAAAAAATTAA
Found at i:1003583 original size:38 final size:38
Alignment explanation
Indices: 1003541--1003625 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
1003531 ATATAAATTG
* *
1003541 AATTCTCTAGTAGCTAGCCACCTGTCAATTCCAAAGTA
1 AATTCTCTAGTAGCTAGCCACCAGCCAATTCCAAAGTA
* * * * *
1003579 AATTCTCTAGTTGTTAGCCACCAGCCAATTTCATATTA
1 AATTCTCTAGTAGCTAGCCACCAGCCAATTCCAAAGTA
1003617 AATTCTCTA
1 AATTCTCTA
1003626 ACCGTCAGCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (38 bp):
AATTCTCTAGTAGCTAGCCACCAGCCAATTCCAAAGTA
Found at i:1008250 original size:38 final size:39
Alignment explanation
Indices: 1008208--1008296 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 39
1008198 ATTCACGTTG
1008208 GAATTCCT-TAGTCACCAGCCACTAGCCAATTCCAAATT
1 GAATTCCTCTAGTCACCAGCCACTAGCCAATTCCAAATT
* * * * *
1008246 GAATT-CTCTAGTCGCTAGCCATTGGCCAATTCTAAATT
1 GAATTCCTCTAGTCACCAGCCACTAGCCAATTCCAAATT
1008284 GAATT-CTCTAGTC
1 GAATTCCTCTAGTC
1008297 GTCAGTCGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
37 2 0.04
38 43 0.96
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (39 bp):
GAATTCCTCTAGTCACCAGCCACTAGCCAATTCCAAATT
Found at i:1008321 original size:38 final size:38
Alignment explanation
Indices: 1008279--1008370 Score: 148
Period size: 38 Copynumber: 2.4 Consensus size: 38
1008269 GGCCAATTCT
* *
1008279 AAATTGAATTCTCTAGTCGTCAGTCGCCAGCTAATTTC
1 AAATTGAATTCTCTAATCGGCAGTCGCCAGCTAATTTC
* *
1008317 AAATTAAATTCTCTAATCGGCAGTTGCCAGCTAATTTC
1 AAATTGAATTCTCTAATCGGCAGTCGCCAGCTAATTTC
1008355 AAATTGAATTCTCTAA
1 AAATTGAATTCTCTAA
1008371 CCGTCAGCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (38 bp):
AAATTGAATTCTCTAATCGGCAGTCGCCAGCTAATTTC
Found at i:1009962 original size:11 final size:13
Alignment explanation
Indices: 1009945--1010010 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
1009935 TACAAACACA
*
1009945 TTTTTT-TCCTTC
1 TTTTTTCTCTTTC
1009957 TTTTTTCTCTTTC
1 TTTTTTCTCTTTC
*
1009970 --TTTTCTCTATC
1 TTTTTTCTCTTTC
* *
1009981 TTTTCTTCCCTTTT
1 TTTT-TTCTCTTTC
1009995 TATTTTTCT-TTTC
1 T-TTTTTCTCTTTC
1010008 TTT
1 TTT
1010011 CTTCCCTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 10 0.24
12 8 0.19
13 11 0.26
14 10 0.24
15 3 0.07
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTCTCTTTC
Found at i:1013572 original size:17 final size:17
Alignment explanation
Indices: 1013520--1013574 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
1013510 ATATATATTT
1013520 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
*
1013536 T-AAA-TTAT-TAATGTA
1 TAAAATTTATATAA-ATA
1013551 CTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
1013569 TAAAAT
1 TAAAAT
1013575 ATTTTAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 5 0.16
16 2 0.06
17 9 0.29
18 6 0.19
19 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:1015521 original size:18 final size:18
Alignment explanation
Indices: 1015498--1015537 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1015488 TATCGTACAT
*
1015498 AAATTTATTT-AATTTTTA
1 AAATTT-TTTAAATATTTA
1015516 AAATTTTTTAAATATTTA
1 AAATTTTTTAAATATTTA
1015534 AAAT
1 AAAT
1015538 ATCATACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATTTTTTAAATATTTA
Found at i:1021922 original size:22 final size:24
Alignment explanation
Indices: 1021897--1021946 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
1021887 TTTTTATTAT
*
1021897 TTTTTATTATTATT-T-AATATAA
1 TTTTAATTATTATTATAAATATAA
1021919 TTTTAATTATTATTCATAAATATAA
1 TTTTAATTATTATT-ATAAATATAA
1021944 TTT
1 TTT
1021947 GTATAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 13 0.54
24 1 0.04
25 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTAATTATTATTATAAATATAA
Found at i:1023726 original size:13 final size:15
Alignment explanation
Indices: 1023702--1023733 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1023692 TTGATATTTA
1023702 TTTATATATTTAAT-
1 TTTATATATTTAATG
1023716 TTTATAT-TTTAATG
1 TTTATATATTTAATG
1023730 TTTA
1 TTTA
1023734 AAAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTATATATTTAATG
Found at i:1030455 original size:2 final size:2
Alignment explanation
Indices: 1030448--1030516 Score: 57
Period size: 2 Copynumber: 33.5 Consensus size: 2
1030438 CTTTTAATGA
* * *
1030448 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT GT AT GCT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT -AT AT AT
* * * *
1030492 AC GT AC AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1030517 ATGATACATT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
2 49 0.96
3 2 0.04
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (2 bp):
AT
Found at i:1030952 original size:7 final size:7
Alignment explanation
Indices: 1030942--1030967 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1030932 TTTAATTATG
1030942 AATTTTC
1 AATTTTC
1030949 AATTTTC
1 AATTTTC
1030956 AATTTTC
1 AATTTTC
1030963 AATTT
1 AATTT
1030968 CTAAAGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTC
Found at i:1032572 original size:16 final size:16
Alignment explanation
Indices: 1032553--1032586 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1032543 TTTTTTGTTT
1032553 TTAATTATT-TATTATA
1 TTAA-TATTCTATTATA
1032569 TTAATATTCTATTATA
1 TTAATATTCTATTATA
1032585 TT
1 TT
1032587 TTTTTGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATATTCTATTATA
Found at i:1034717 original size:21 final size:21
Alignment explanation
Indices: 1034692--1034733 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1034682 TAAATATTCG
*
1034692 ATATAAATATGTATTTAATAT
1 ATATAAATATATATTTAATAT
*
1034713 ATATATATATATATTTAATAT
1 ATATAAATATATATTTAATAT
1034734 TTTTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATAAATATATATTTAATAT
Found at i:1036756 original size:27 final size:26
Alignment explanation
Indices: 1036726--1036776 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1036716 TTGTAATTAA
**
1036726 ATTTTAATATTTATGTTTTTTTTATGT
1 ATTTTAATA-TTATGACTTTTTTATGT
*
1036753 ATTTTCATATTATGACTTTTTTAT
1 ATTTTAATATTATGACTTTTTTAT
1036777 ATGAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (26 bp):
ATTTTAATATTATGACTTTTTTATGT
Found at i:1037161 original size:32 final size:31
Alignment explanation
Indices: 1037115--1037190 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 31
1037105 ATAACTATAA
* *
1037115 ATATTT-TTTATATAAATTTTAATATATTA-
1 ATATTTATTTATATAAATTTTAAAAAATTAT
1037144 ATAATTTATATTATATAAATTTTAAAAAATTAT
1 AT-ATTTAT-TTATATAAATTTTAAAAAATTAT
1037177 ATATTTATTTATAT
1 ATATTTATTTATAT
1037191 TATATTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 2 0.05
30 4 0.10
31 7 0.17
32 26 0.63
33 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
ATATTTATTTATATAAATTTTAAAAAATTAT
Found at i:1037164 original size:15 final size:14
Alignment explanation
Indices: 1037110--1037167 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 14
1037100 ATATTATAAC
*
1037110 TATAAATATTTTTTA
1 TATAAAT-TTTATTA
*
1037125 TATAAATTTTAATA
1 TATAAATTTTATTA
1037139 TATTAATAATTTATATTA
1 TA-T-A-AATTT-TATTA
1037157 TATAAATTTTA
1 TATAAATTTTA
1037168 AAAAATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 9 0.25
15 13 0.36
16 2 0.06
17 6 0.17
18 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATAAATTTTATTA
Found at i:1037208 original size:13 final size:15
Alignment explanation
Indices: 1037176--1037208 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1037166 TAAAAAATTA
1037176 TATATTTATTTATAT
1 TATATTTATTTATAT
1037191 TATATTT-TTTAT-T
1 TATATTTATTTATAT
1037204 TATAT
1 TATAT
1037209 AAATACCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 5 0.28
15 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATATTTATTTATAT
Found at i:1038365 original size:26 final size:26
Alignment explanation
Indices: 1038318--1038368 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
1038308 TATCATAATT
*
1038318 AATTTTAATATATTTTATATTTATAA
1 AATTTTAATATATTATATATTTATAA
1038344 AATTTTAATATATTA-ATAATTTATA
1 AATTTTAATATATTATAT-ATTTATA
1038369 TTATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTTTAATATATTATATATTTATAA
Found at i:1038367 original size:32 final size:33
Alignment explanation
Indices: 1038316--1038406 Score: 109
Period size: 32 Copynumber: 2.8 Consensus size: 33
1038306 TATATCATAA
1038316 TTAAT-TTTAATATATTTTATATTTATA-AAATT
1 TTAATATTTAATATA-TTTATATTTATATAAATT
*
1038348 TTAATATATTAATA-ATTTATA-TTATATATATT
1 TTAATAT-TTAATATATTTATATTTATATAAATT
1038380 TTAATATTTATATAATATTTATATTTA
1 TTAATATTTA-AT-ATATTTATATTTA
1038407 ATTTTTAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
31 8 0.16
32 24 0.47
33 3 0.06
34 13 0.25
35 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TTAATATTTAATATATTTATATTTATATAAATT
Found at i:1038397 original size:11 final size:11
Alignment explanation
Indices: 1038352--1038403 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
1038342 AAAATTTTAA
1038352 TATATTAATAATT
1 TATA-TAAT-ATT
* *
1038365 TATATTATATA
1 TATATAATATT
*
1038376 TATTTTAATATT
1 TA-TATAATATT
1038388 TATATAATATT
1 TATATAATATT
1038399 TATAT
1 TATAT
1038404 TTAATTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
11 17 0.53
12 11 0.34
13 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATAATATT
Found at i:1038406 original size:17 final size:17
Alignment explanation
Indices: 1038280--1038406 Score: 76
Period size: 16 Copynumber: 7.7 Consensus size: 17
1038270 ATAATGTATG
*
1038280 TATTTATA-TTATGTTAA
1 TATTTATATTTAT-ATAA
* *
1038297 TA-TTATTTTTATATCA
1 TATTTATATTTATATAA
*
1038313 TAATTA-ATTT-TA-ATA
1 TATTTATATTTATATA-A
*
1038328 TATTTTATATTTATAAAA
1 TA-TTTATATTTATATAA
*
1038346 T-TTTA-ATATAT-TAA
1 TATTTATATTTATATAA
1038360 TAATTTATA-TTATAT-A
1 T-ATTTATATTTATATAA
1038376 TATTTTAATATTTATATAA
1 TA-TTT-ATATTTATATAA
1038395 TATTTATATTTA
1 TATTTATATTTA
1038407 ATTTTTAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
14 3 0.03
15 11 0.13
16 30 0.35
17 25 0.29
18 13 0.15
19 4 0.05
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (17 bp):
TATTTATATTTATATAA
Found at i:1038769 original size:5 final size:5
Alignment explanation
Indices: 1038761--1038790 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
1038751 TGAAATCTAA
1038761 AATTT AATTT AATTT AATTT AATTT -ATTT A
1 AATTT AATTT AATTT AATTT AATTT AATTT A
1038791 TATAATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:1039537 original size:17 final size:18
Alignment explanation
Indices: 1039506--1039540 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1039496 TCATTAGTAA
*
1039506 ATTTAAATATGAATATAT
1 ATTTAAATATAAATATAT
1039524 ATTT-AATATAAATATAT
1 ATTTAAATATAAATATAT
1039541 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTTAAATATAAATATAT
Found at i:1039540 original size:15 final size:17
Alignment explanation
Indices: 1039506--1039544 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
1039496 TCATTAGTAA
1039506 ATTTAAATATGAATATAT
1 ATTT-AATATGAATATAT
1039524 ATTTAATAT-AA-ATAT
1 ATTTAATATGAATATAT
1039539 ATTTAA
1 ATTTAA
1039545 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 5 0.24
18 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
ATTTAATATGAATATAT
Found at i:1041975 original size:23 final size:24
Alignment explanation
Indices: 1041942--1041991 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
1041932 ATATTTTTTA
*
1041942 TTTTGAGTTTTTTA-TTTATATTT
1 TTTTGAATTTTTTATTTTATATTT
*
1041965 TTTTGAATTTTTTATTTTTTATTT
1 TTTTGAATTTTTTATTTTATATTT
1041989 TTT
1 TTT
1041992 CATGGGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (24 bp):
TTTTGAATTTTTTATTTTATATTT
Found at i:1041982 original size:6 final size:7
Alignment explanation
Indices: 1041933--1041991 Score: 50
Period size: 7 Copynumber: 8.1 Consensus size: 7
1041923 AGCCTATAAA
1041933 TATTTTT
1 TATTTTT
1041940 TA-TTTT
1 TATTTTT
*
1041946 GAGTTTTT
1 TA-TTTTT
1041954 TATTTATAT
1 TATTT-T-T
1041963 T-TTTTT
1 TATTTTT
*
1041969 GAATTTTT
1 -TATTTTT
1041977 TATTTTT
1 TATTTTT
1041984 TATTTTT
1 TATTTTT
1041991 T
1 T
1041992 CATGGGGATT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
6 6 0.14
7 20 0.48
8 14 0.33
9 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (7 bp):
TATTTTT
Found at i:1042204 original size:15 final size:15
Alignment explanation
Indices: 1042184--1042219 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1042174 AATTTTTAAA
*
1042184 AATTTAAATTGATAT
1 AATTTAAATTAATAT
*
1042199 AATTTAAATTAATTT
1 AATTTAAATTAATAT
1042214 AATTTA
1 AATTTA
1042220 TTAAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
AATTTAAATTAATAT
Found at i:1042240 original size:35 final size:35
Alignment explanation
Indices: 1042201--1042284 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 35
1042191 ATTGATATAA
1042201 TTTAAATTAATTTAATTTATTAA-ATTTTTAAAATT
1 TTTAAATTAATTTAATTTA-TAATATTTTTAAAATT
*
1042236 TTTAAAATTATATTT--TTTATAATATTTTTAAATTT
1 TTT-AAATTA-ATTTAATTTATAATATTTTTAAAATT
*
1042271 TTTATA-TAATTTAA
1 TTTAAATTAATTTAA
1042285 AAATAAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
32 4 0.10
33 2 0.05
34 5 0.12
35 21 0.50
36 6 0.14
37 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (35 bp):
TTTAAATTAATTTAATTTATAATATTTTTAAAATT
Found at i:1042246 original size:26 final size:26
Alignment explanation
Indices: 1042219--1042267 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1042209 AATTTAATTT
1042219 ATTA-AATTTTTA-AA-ATTTTTAAA
1 ATTATAATTTTTATAATATTTTTAAA
*
1042242 ATTATATTTTTTATAATATTTTTAAA
1 ATTATAATTTTTATAATATTTTTAAA
1042268 TTTTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 7 0.32
25 2 0.09
26 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTATAATTTTTATAATATTTTTAAA
Found at i:1042288 original size:20 final size:20
Alignment explanation
Indices: 1042247--1042288 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1042237 TTAAAATTAT
**
1042247 ATTTTTTATAATATTTTTAA
1 ATTTTTTATAATATTTAAAA
1042267 ATTTTTTAT-ATAATTTAAAA
1 ATTTTTTATAAT-ATTTAAAA
1042287 AT
1 AT
1042289 AAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTTATAATATTTAAAA
Found at i:1042460 original size:37 final size:40
Alignment explanation
Indices: 1042419--1042498 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 40
1042409 TTATTAATCC
*
1042419 TTAAAATAAAATCAAAT-TA-AATTT-AATAAAATTTTAA
1 TTAAAATAAAATCAAATAAATAATTTAAATAAAATTTTAA
*
1042456 TTAAAATTAAATCAAATACAATAATTTAAATAAAATTTTAA
1 TTAAAATAAAATCAAATA-AATAATTTAAATAAAATTTTAA
1042497 TT
1 TT
1042499 TTTTATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 16 0.43
39 1 0.03
40 5 0.14
41 15 0.41
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (40 bp):
TTAAAATAAAATCAAATAAATAATTTAAATAAAATTTTAA
Found at i:1043054 original size:12 final size:12
Alignment explanation
Indices: 1043021--1043059 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1043011 CTAAAATATA
*
1043021 TAAAAAATAATT
1 TAAAAAATATTT
1043033 TAAAAAATATTT
1 TAAAAAATATTT
* *
1043045 TAACAAATATCT
1 TAAAAAATATTT
1043057 TAA
1 TAA
1043060 GTCAGAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAAATATTT
Found at i:1043611 original size:23 final size:23
Alignment explanation
Indices: 1043576--1043621 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1043566 AAAAATATTA
1043576 TAAATATTAAAAT-TTAAATTTTT
1 TAAATATTAAAATATT-AATTTTT
1043599 TAAATTATT-AAATATTAATTTTT
1 TAAA-TATTAAAATATTAATTTTT
1043622 AATCATAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAAATATTAAAATATTAATTTTT
Found at i:1045271 original size:29 final size:30
Alignment explanation
Indices: 1045210--1045273 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
1045200 ATTAAAAGAA
* *
1045210 AAAAACTTATTTGAATGTAAATTAAAAATT
1 AAAAACTTATTTAAATATAAATTAAAAATT
1045240 AAAAACTTATTTAAATAT-AA-TAAAAATAT
1 AAAAACTTATTTAAATATAAATTAAAAAT-T
1045269 AAAAA
1 AAAAA
1045274 TTAAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 7 0.23
29 8 0.26
30 16 0.52
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAAACTTATTTAAATATAAATTAAAAATT
Found at i:1045362 original size:3 final size:3
Alignment explanation
Indices: 1045354--1045391 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1045344 ATGTTTACTT
1045354 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1045392 TAATCTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1046501 original size:47 final size:49
Alignment explanation
Indices: 1046448--1046570 Score: 124
Period size: 51 Copynumber: 2.5 Consensus size: 49
1046438 AATTTATAAT
*
1046448 TATTTATCAACATGTTCA-ATAA-TATACTTATGAACATATTTGTTCAA
1 TATTTATCAACAAGTTCATATAATTATACTTATGAACATATTTGTTCAA
* * * * *
1046495 TATTTATGAATAAGTTCATTTAATTTTGTTCTTATGAACATATTTGTTCAA
1 TATTTATCAACAAGTTCATATAA--TTATACTTATGAACATATTTGTTCAA
* * * *
1046546 TATTCATGAATAAGTTCATTTAATT
1 TATTTATCAACAAGTTCATATAATT
1046571 TAAATAAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
47 15 0.23
48 3 0.05
49 2 0.03
51 45 0.69
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (49 bp):
TATTTATCAACAAGTTCATATAATTATACTTATGAACATATTTGTTCAA
Found at i:1046536 original size:51 final size:51
Alignment explanation
Indices: 1046474--1046571 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
1046464 CAATAATATA
*
1046474 CTTATGAACATATTTGTTCAATATTTATGAATAAGTTCATTTAATTTTGTT
1 CTTATGAACATATTTGTTCAATATTCATGAATAAGTTCATTTAATTTTGTT
1046525 CTTATGAACATATTTGTTCAATATTCATGAATAAGTTCATTTAATTT
1 CTTATGAACATATTTGTTCAATATTCATGAATAAGTTCATTTAATTT
1046572 AAATAAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (51 bp):
CTTATGAACATATTTGTTCAATATTCATGAATAAGTTCATTTAATTTTGTT
Found at i:1049162 original size:2 final size:2
Alignment explanation
Indices: 1049155--1049179 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1049145 TTAATCAAAT
1049155 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
1049180 TTTTGGCCTT
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:1057862 original size:268 final size:268
Alignment explanation
Indices: 1057385--1057920 Score: 1054
Period size: 268 Copynumber: 2.0 Consensus size: 268
1057375 ACTCGAATTT
1057385 TTAAAGAGATGCCTCCAACCACTTTTCGAACAGGCTTCAGTTTGAACGTTTTGTGCTTTGGTGGA
1 TTAAAGAGATGCCTCCAACCACTTTTCGAACAGGCTTCAGTTTGAACGTTTTGTGCTTTGGTGGA
1057450 AAGATAAACAACATGTTGACACACCTAATTCTCAGGGAAATATGATTTTTCTAAAAACAACTATT
66 AAGATAAACAACATGTTGACACACCTAATTCTCAGGGAAATATGATTTTTCTAAAAACAACTATT
1057515 CCAACTATATCATATTCTTTAAGTTCTTTTCATCCTTTAAGTTTACCTGCAAATTTGACCCATTA
131 CCAACTATATCATATTCTTTAAGTTCTTTTCATCCTTTAAGTTTACCTGCAAATTTGACCCATTA
1057580 TTTGCACCCAAAATATTTGTTTCATAACATGCAAATATGCATCATTCCAGATGATTGAAGGGGGC
196 TTTGCACCCAAAATATTTGTTTCATAACATGCAAATATGCATCATTCCAGATGATTGAAGGGGGC
1057645 TCTGACAC
261 TCTGACAC
1057653 TTAAAGAGATGCCTCCAACCACTTTTCGAACAGGCTTCAGTTTGAACGTTTTGTGCTTTGGTGGA
1 TTAAAGAGATGCCTCCAACCACTTTTCGAACAGGCTTCAGTTTGAACGTTTTGTGCTTTGGTGGA
1057718 AAGATAAACAACATGTTGACACACCTAATTCTCAGGGAAATATGATTTTTCTAAAAACAACTATT
66 AAGATAAACAACATGTTGACACACCTAATTCTCAGGGAAATATGATTTTTCTAAAAACAACTATT
*
1057783 CCAACTATATCATATTCTTTAAGTTCTTTTCATCCTTTAAGTTTACCTGCAAATTTTACCCATTA
131 CCAACTATATCATATTCTTTAAGTTCTTTTCATCCTTTAAGTTTACCTGCAAATTTGACCCATTA
*
1057848 TTTGCACCCAAAATATTTGTTTCATAACATGCAAATATGCATCATTCTAGATGATTGAAGGGGGC
196 TTTGCACCCAAAATATTTGTTTCATAACATGCAAATATGCATCATTCCAGATGATTGAAGGGGGC
1057913 TCTGACAC
261 TCTGACAC
1057921 CATTGTTAAG
Statistics
Matches: 266, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
268 266 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (268 bp):
TTAAAGAGATGCCTCCAACCACTTTTCGAACAGGCTTCAGTTTGAACGTTTTGTGCTTTGGTGGA
AAGATAAACAACATGTTGACACACCTAATTCTCAGGGAAATATGATTTTTCTAAAAACAACTATT
CCAACTATATCATATTCTTTAAGTTCTTTTCATCCTTTAAGTTTACCTGCAAATTTGACCCATTA
TTTGCACCCAAAATATTTGTTTCATAACATGCAAATATGCATCATTCCAGATGATTGAAGGGGGC
TCTGACAC
Found at i:1062840 original size:21 final size:21
Alignment explanation
Indices: 1062793--1062850 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1062783 AAAATTTATC
*
1062793 CAAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGA
**
1062814 GGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATT-TGA
1062835 CAAATGTATCGATACA
1 CAAATGTATCGATACA
1062851 GGGTCCCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
CAAATGTATCGATACATTTGA
Found at i:1062910 original size:19 final size:19
Alignment explanation
Indices: 1062886--1062953 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
1062876 AATTCAACAA
1062886 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1062905 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1062920 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1062937 ATTT-TATCGATACATAA
1 -TTTGTATCGATACATAA
1062954 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 26 0.62
20 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1062925 original size:13 final size:13
Alignment explanation
Indices: 1062907--1062931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1062897 ACATAAGTTT
1062907 TGTATCGATACAA
1 TGTATCGATACAA
1062920 TGTATCGATACA
1 TGTATCGATACA
1062932 TAAGTATTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1062929 original size:32 final size:32
Alignment explanation
Indices: 1062888--1062950 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
1062878 TTCAACAATT
1062888 TGTATCGATACATAAGT-TTTGTATCGATACAA
1 TGTATCGATACATAAGTATTT-TATCGATACAA
1062920 TGTATCGATACATAAGTATTTTATCGATACA
1 TGTATCGATACATAAGTATTTTATCGATACA
1062951 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 27 0.90
33 3 0.10
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTTTATCGATACAA
Found at i:1063011 original size:13 final size:13
Alignment explanation
Indices: 1062993--1063018 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1062983 CATTTTTCTG
1062993 TGTATCGATACAT
1 TGTATCGATACAT
1063006 TGTATCGATACAT
1 TGTATCGATACAT
1063019 GGATCTTTGT
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):
TGTATCGATACAT
Found at i:1063015 original size:33 final size:33
Alignment explanation
Indices: 1062973--1063039 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1062963 GCCAAGGAAA
***
1062973 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1063006 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1063039 T
1 T
1063040 TGAAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1063679 original size:28 final size:27
Alignment explanation
Indices: 1063581--1063658 Score: 156
Period size: 27 Copynumber: 2.9 Consensus size: 27
1063571 TTTCTTCACA
1063581 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
1063608 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
1063635 ATCGGGGATACTCCAACCCCGTTA
1 ATCGGGGATACTCCAACCCCGTTA
1063659 TTTCCGAGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:1063694 original size:31 final size:28
Alignment explanation
Indices: 1063584--1063679 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 28
1063574 CTTCACAATC
* ***
1063584 GGGGATACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
* ***
1063611 GGGGATACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
1063638 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
1063666 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1063680 TCCGATTTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 48 0.75
28 16 0.25
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:1063738 original size:80 final size:80
Alignment explanation
Indices: 1063635--1063852 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 80
1063625 CCCGTTAATC
*
1063635 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCC-GATTTTATTTCCAAAA
1 ATCGAGGATACTCCAA-CCCGTTATTTCCGAGGGGATACTCCAACTCCTGATTTTATTTCCAAAA
*
1063699 ATACCAATTTTTCACA
65 ATACCAATTTCTCACA
* *** * * *
1063715 GTCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCTG-CTTTA-TTCCCAAA
1 ATCGAGGATACTCCAACC-CGTTATTTCCGAGGGGATACTCCAACTCCTGATTTTATTTCCAAAA
*** *
1063778 ATATTGATTTCTCATA
65 ATACCAATTTCTCACA
* * * *
1063794 ATTGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-TCCTGATTTTTTTTC
1 ATCGAGGATACTCCAACCC-GTTATTTCCGAGGGGATACTCCAACTCCTGATTTTATTTC
1063853 TAATCATCGA
Statistics
Matches: 110, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
78 5 0.05
79 58 0.53
80 46 0.42
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (80 bp):
ATCGAGGATACTCCAACCCGTTATTTCCGAGGGGATACTCCAACTCCTGATTTTATTTCCAAAAA
TACCAATTTCTCACA
Found at i:1063829 original size:79 final size:80
Alignment explanation
Indices: 1063635--1063920 Score: 226
Period size: 79 Copynumber: 3.6 Consensus size: 80
1063625 CCCGTTAATC
* * * *
1063635 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAA
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
*
1063700 TACCAATTTTTCACA
66 TACCAATTTCTCACA
* * *
1063715 GTCGAGGATACTCCAA-CCTCGTTA-TTTC-ATCGGGGATACTCCAACCCCTG-CTTTA-TTCCC
1 ATCGGGGATACTCCAACCCT-GTTATTTTCGA--GGGGATACTCCAACCCC-GACTTTATTTCCA
*** *
1063775 AAAATATTGATTTCTCATA
62 AAAATACCAATTTCTCACA
* * * * * * **
1063794 ATTGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAATCCTGATTTTTTTTCTAATCA
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
* *
1063859 T--CGATTTCTTACA
66 TACCAATTTCTCACA
* * * * * * *
1063872 ACCGGGGATACTCCAGCCCCGTTATTTTCAAGAGAACACTCCAACCCCG
1 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCG
1063921 TTATTATCTC
Statistics
Matches: 161, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
78 50 0.31
79 58 0.36
80 51 0.32
81 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
TACCAATTTCTCACA
Found at i:1074264 original size:15 final size:14
Alignment explanation
Indices: 1074240--1074333 Score: 72
Period size: 15 Copynumber: 6.9 Consensus size: 14
1074230 ACCTTCTCTT
*
1074240 CAAAA-AAAAAAAG
1 CAAAAGAAAAAAAA
1074253 CAAAAGAAAAAAAA
1 CAAAAGAAAAAAAA
**
1074267 -AGGA-AAAAAAAA
1 CAAAAGAAAAAAAA
*
1074279 CAAAAAAACAAAAAA
1 CAAAAGAA-AAAAAA
*
1074294 CAAAA-AAACAAAA
1 CAAAAGAAAAAAAA
*
1074307 C-AAAGAAAAAGAGA
1 CAAAAGAAAAA-AAA
*
1074321 GAAAAGAAAAAAA
1 CAAAAGAAAAAAA
1074334 CCTACTTAAG
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
12 11 0.17
13 19 0.30
14 14 0.22
15 20 0.31
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (14 bp):
CAAAAGAAAAAAAA
Found at i:1074265 original size:8 final size:8
Alignment explanation
Indices: 1074246--1074333 Score: 56
Period size: 8 Copynumber: 10.8 Consensus size: 8
1074236 TCTTCAAAAA
1074246 AAAAAAGCA
1 AAAAAAG-A
1074255 AAAGAAA-A
1 AAA-AAAGA
*
1074263 AAAAAGGA
1 AAAAAAGA
1074271 AAAAAA-A
1 AAAAAAGA
*
1074278 ACAAAAAAA
1 A-AAAAAGA
*
1074287 CAAAAAACA
1 -AAAAAAGA
*
1074296 AAAAAACA
1 AAAAAAGA
1074304 AAACAAAGA
1 AAA-AAAGA
*
1074313 AAAAGAG-
1 AAAAAAGA
*
1074320 AGAAAAGA
1 AAAAAAGA
1074328 AAAAAA
1 AAAAAA
1074334 CCTACTTAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
7 9 0.14
8 34 0.53
9 17 0.27
10 4 0.06
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:1074272 original size:11 final size:10
Alignment explanation
Indices: 1074241--1074331 Score: 62
Period size: 10 Copynumber: 8.8 Consensus size: 10
1074231 CCTTCTCTTC
1074241 AAAAAAAA-A
1 AAAAAAAAGA
**
1074250 AAGCAAAAGA
1 AAAAAAAAGA
1074260 AAAAAAAAGGA
1 AAAAAAAA-GA
*
1074271 AAAAAAAACA
1 AAAAAAAAGA
1074281 AAAAAACAA-A
1 AAAAAA-AAGA
1074291 AAACAAAAA-A
1 AAA-AAAAAGA
1074301 ACAAAACAAAGA
1 A-AAAA-AAAGA
* *
1074313 AAAAGAGAGA
1 AAAAAAAAGA
1074323 AAAGAAAAA
1 AAA-AAAAA
1074332 AACCTACTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
9 6 0.09
10 31 0.48
11 26 0.40
12 2 0.03
ACGTcount: A:0.84, C:0.07, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:1074333 original size:1 final size:1
Alignment explanation
Indices: 1074241--1074316 Score: 53
Period size: 1 Copynumber: 76.0 Consensus size: 1
1074231 CCTTCTCTTC
** * ** * * * *
1074241 AAAAAAAAAAAGCAAAAGAAAAAAAAAGGAAAAAAAAACAAAAAAACAAAAAACAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1074306 ACAAAGAAAAA
1 AAAAAAAAAAA
1074317 GAGAGAAAAG
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.86, C:0.08, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:1075476 original size:59 final size:59
Alignment explanation
Indices: 1075282--1076300 Score: 1332
Period size: 59 Copynumber: 17.3 Consensus size: 59
1075272 TCCGCTTTTT
* * * * * **
1075282 AGTCCTCAGAGAGCAGGATGCCTTTTCCTTTTAAAAACCCCCACAAGTTGGTGACATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
* * **
1075344 AGTCCTCAAAAAGCAGGACGCCTTTTCTTTTAAAGCCCATACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1075403 TAGTCCTCAAAGAGCAGGACGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* ** *
1075463 AGTCCTCAAAGAGCGGGACGTTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
1075522 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1075581 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
1075640 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1075699 AGTCCTCAAAGAGC-GAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTCC
1 AGTCCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1075758 AGTCCTCAAAAAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1075817 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
1075876 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1075935 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* *
1075996 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * * *
1076057 AGTCCCCAAAAAGCAGGAC-CC---CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * **
1076113 AGTCCCCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
1076168 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * *
1076222 AGTCCTCAAAGAGCAGGATG-CTTTTGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTT--CTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
* *
1076283 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1076301 TACACTTTAT
Statistics
Matches: 881, Mismatches: 60, Indels: 33
0.90 0.06 0.03
Matches are distributed among these distances:
53 1 0.00
54 20 0.02
55 73 0.08
56 50 0.06
57 5 0.01
58 2 0.00
59 479 0.54
60 125 0.14
61 103 0.12
62 23 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:1077083 original size:21 final size:21
Alignment explanation
Indices: 1077036--1077093 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1077026 AAATTTTATC
*
1077036 CAAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGA
**
1077057 GGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATT-TGA
1077078 CAAATGTATCGATACA
1 CAAATGTATCGATACA
1077094 GGGTCCCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
CAAATGTATCGATACATTTGA
Found at i:1077153 original size:19 final size:19
Alignment explanation
Indices: 1077129--1077196 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1077119 AATTCAACAA
1077129 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1077148 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1077163 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1077180 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1077197 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1077168 original size:13 final size:13
Alignment explanation
Indices: 1077150--1077174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1077140 ACATAAGTTT
1077150 TGTATCGATACAA
1 TGTATCGATACAA
1077163 TGTATCGATACA
1 TGTATCGATACA
1077175 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1077172 original size:32 final size:32
Alignment explanation
Indices: 1077131--1077193 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1077121 TTCAACAATT
*
1077131 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1077163 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1077194 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1077254 original size:13 final size:13
Alignment explanation
Indices: 1077236--1077261 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1077226 CATTTTTCTG
1077236 TGTATCGATACAT
1 TGTATCGATACAT
1077249 TGTATCGATACAT
1 TGTATCGATACAT
1077262 GGATCTTTGT
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):
TGTATCGATACAT
Found at i:1077258 original size:33 final size:33
Alignment explanation
Indices: 1077216--1077282 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1077206 GCCAAGGAAA
***
1077216 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1077249 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1077282 T
1 T
1077283 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1077994 original size:28 final size:27
Alignment explanation
Indices: 1077936--1078006 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
1077926 TCACAGTCGA
* *
1077936 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCA-CGG
1077964 GGATACTCCAACCCCGTTACTTC-CGAAG
1 GGATACTCCAACCCCGTTACTTCACG--G
*
1077992 GGATACTCGAACCCC
1 GGATACTCCAACCCC
1078007 TGCTTTATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
28 36 0.95
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTACTTCACGG
Found at i:1077997 original size:108 final size:108
Alignment explanation
Indices: 1077803--1077999 Score: 299
Period size: 108 Copynumber: 1.8 Consensus size: 108
1077793 AAAAAAACCA
* *
1077803 AAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTAATCATTGGGGATACTCCAAC
1 AAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAAC
*
1077868 CCCGTTATTTCCGAGGAGATACTCCAACTCCGATTTTATTTCC
66 CCCGTTACTTCCGAGGAGATACTCCAACTCCGATTTTATTTCC
* * * *
1077911 AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA
1 AAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTA-ATCATCGGGGATACTCCAA
1077975 CCCCGTTACTTCCGAAGG-GATACTC
65 CCCCGTTACTTCCG-AGGAGATACTC
1078000 GAACCCCTGC
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 27 0.34
108 50 0.62
109 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (108 bp):
AAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAAC
CCCGTTACTTCCGAGGAGATACTCCAACTCCGATTTTATTTCC
Found at i:1078014 original size:108 final size:108
Alignment explanation
Indices: 1077803--1078061 Score: 294
Period size: 108 Copynumber: 2.4 Consensus size: 108
1077793 AAAAAAACCA
* *
1077803 AAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTAATCATTGGGGATACTCCAAC
1 AAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAAC
* * * *
1077868 CCCGTTATTTCCGAGGAGATACTCCAACTCCGATTTTATTTCC
66 CCCGTTACTTCCGAGGAGATACTCCAACCCCGACTTTATTCCC
* * * *
1077911 AAAAATACCAATTT-TTCACAGTCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA
1 AAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTA-ATCATCGGGGATACTCCAA
*
1077975 CCCCGTTACTTCCGAAGG-GATACTCGAACCCCTG-CTTTATTCCC
65 CCCCGTTACTTCCG-AGGAGATACTCCAACCCC-GACTTTATTCCC
* *** * * *
1078019 -AAAATATTGATTTC-TCATAATTGGGGATACTCCAACCCCGTTA
1 AAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTA
1078062 TTTTTGAGGG
Statistics
Matches: 128, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
107 61 0.48
108 63 0.49
109 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (108 bp):
AAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAAC
CCCGTTACTTCCGAGGAGATACTCCAACCCCGACTTTATTCCC
Found at i:1078081 original size:28 final size:28
Alignment explanation
Indices: 1078041--1078094 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
1078031 TCTCATAATT
1078041 GGGGATACTCCAACCCCG-TTATTTTTGA
1 GGGGATACTCCAACCCCGATT-TTTTTGA
*
1078069 GGGGATACTCCAATCCCGATTTTTTT
1 GGGGATACTCCAACCCCGATTTTTTT
1078095 CTAATCATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGATTTTTTTGA
Found at i:1083210 original size:20 final size:20
Alignment explanation
Indices: 1083157--1083211 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1083147 AAAATTCCAG
**
1083157 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
1083177 ATGTATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
1083197 ATGTATCGATACATT
1 ATGTATCGATACATT
1083212 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1083249 original size:13 final size:13
Alignment explanation
Indices: 1083227--1083284 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1083217 GGCAGTAGCT
*
1083227 TTGTAGCGATACA
1 TTGTATCGATACA
1083240 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
1083256 CTTATGTATCGATACA
1 --T-TGTATCGATACA
1083272 TTGTATCGATACA
1 TTGTATCGATACA
1083285 AAACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1083265 original size:19 final size:19
Alignment explanation
Indices: 1083241--1083303 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1083231 AGCGATACAT
1083241 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1083260 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
1083273 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
1083292 TGTATCGATACA
1 TGTATCGATACA
1083304 TTTACTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 5 0.14
18 1 0.03
19 21 0.57
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1083274 original size:32 final size:32
Alignment explanation
Indices: 1083228--1083305 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
1083218 GCAGTAGCTT
* *
1083228 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
1083260 TGTATCGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
1083292 TGTATCGATACATT
1 TGTATCGATACATT
1083306 TACTGTTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:1084408 original size:20 final size:20
Alignment explanation
Indices: 1084365--1084418 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1084355 AAGTACCCAG
* * **
1084365 ATGTATCGATACATTTTTTC
1 ATGTATCGATACATGTATGA
1084385 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
*
1084405 ATGTATTGATACAT
1 ATGTATCGATACAT
1084419 CCTTCAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:1085387 original size:20 final size:21
Alignment explanation
Indices: 1085350--1085388 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1085340 GGCCTTTGAC
**
1085350 CATGCATTTTTTTTTATGTTT
1 CATGCATTTTTTAATATGTTT
1085371 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
1085389 CTAGCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:1089024 original size:42 final size:42
Alignment explanation
Indices: 1088946--1089031 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 42
1088936 CTCCAATTTT
*
1088946 TTAATTTATGCTTTTCCATCACTTCTTCTTTCAATTTAATTCC
1 TTAATTTATGCTTTTCCATCACTTCTTCTTTAAATTTAA-TCC
*
1088989 TTAATTT-TGCTTTTCCAT-ACTT-TGATTTTTAAATTTAATCC
1 TTAATTTATGCTTTTCCATCACTTCT--TCTTTAAATTTAATCC
1089030 TT
1 TT
1089032 CCACTAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
40 1 0.03
41 9 0.23
42 22 0.56
43 7 0.18
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (42 bp):
TTAATTTATGCTTTTCCATCACTTCTTCTTTAAATTTAATCC
Found at i:1094054 original size:18 final size:21
Alignment explanation
Indices: 1094015--1094054 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
1094005 TTCTTAAACG
1094015 TTTTTGATATTATTTATATTA
1 TTTTTGATATTATTTATATTA
1094036 TTTTT-ATA-TATTT-TATTA
1 TTTTTGATATTATTTATATTA
1094054 T
1 T
1094055 ATTATAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 3 0.16
21 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTTTGATATTATTTATATTA
Found at i:1094147 original size:18 final size:18
Alignment explanation
Indices: 1094126--1094188 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
1094116 AATTTTAAAA
1094126 TATATATTTATATTATAT
1 TATATATTTATATTATAT
1094144 TATAT-TTTA-ATTAT-T
1 TATATATTTATATTATAT
*
1094159 TA-AAATATTATATTTATAT
1 TATATAT-TTATA-TTATAT
*
1094178 AAATATATTTA
1 -TATATATTTA
1094189 AAATTATTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
14 1 0.03
15 4 0.11
16 8 0.23
17 5 0.14
18 9 0.26
19 1 0.03
20 4 0.11
21 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATATTTATATTATAT
Found at i:1094194 original size:38 final size:38
Alignment explanation
Indices: 1094119--1094196 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
1094109 ATTACAAAAT
* *
1094119 TTTAAAATATATATTTATATTATATTATATTTTAATTA
1 TTTAAAATATATATTTATATTATAATATATTTAAATTA
1094157 TTTAAAATATTATATTTATA-TA-AATATATTTAAAATTA
1 TTTAAAATA-TATATTTATATTATAATATATTT-AAATTA
1094195 TT
1 TT
1094197 GTAATTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 8 0.22
38 18 0.50
39 10 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTAAAATATATATTTATATTATAATATATTTAAATTA
Found at i:1094725 original size:29 final size:30
Alignment explanation
Indices: 1094683--1094744 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
1094673 TTATCGTATT
*
1094683 TATATTTAAAATTT-TA-ATATATATAATAA
1 TATATGTAAAATTTATATATATATA-AATAA
* *
1094712 TATATGTAATATTTATATTTATATAAATAA
1 TATATGTAAAATTTATATATATATAAATAA
1094742 TAT
1 TAT
1094745 TAAAAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 12 0.43
30 10 0.36
31 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
TATATGTAAAATTTATATATATATAAATAA
Found at i:1094735 original size:21 final size:21
Alignment explanation
Indices: 1094679--1094745 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1094669 ATATTTATCG
* *
1094679 TATTTATATTTA-AAATTTTAA
1 TATTTATATTTATATA-TATAA
* * * *
1094700 TATATATAATAATATATGTAA
1 TATTTATATTTATATATATAA
*
1094721 TATTTATATTTATATAAATAA
1 TATTTATATTTATATATATAA
1094742 TATT
1 TATT
1094746 AAAAGAAATA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (21 bp):
TATTTATATTTATATATATAA
Found at i:1095314 original size:43 final size:40
Alignment explanation
Indices: 1095264--1095364 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
1095254 ATTTAAAATA
**
1095264 ATTTAATTTAAATTATTATTTAAATAATA-AAAAATATTATTTT
1 ATTTAATTTAAATTA-TAAAT-AATAATATAAAAATA--ATTTT
1095307 ATTTAATTT-AATTATAAATAATAATATAAAAATAATTTT
1 ATTTAATTTAAATTATAAATAATAATATAAAAATAATTTT
* * *
1095346 ATATATTTTAAATAATAAA
1 ATTTAATTTAAATTATAAA
1095365 ATTAATTTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 12 0.24
40 15 0.29
41 10 0.20
42 5 0.10
43 9 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (40 bp):
ATTTAATTTAAATTATAAATAATAATATAAAAATAATTTT
Found at i:1095345 original size:39 final size:38
Alignment explanation
Indices: 1095258--1095356 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 38
1095248 TTTTTAATTT
* *
1095258 AAAATAATTTAATTTAAATT-ATTATTTAAATAATAAAA
1 AAAATAATTTTATTTAATTTAATTA-TTAAATAATAAAA
* *
1095296 AATATTATTTTATTTAATTTAATTA-TAAATAATAATATA
1 AAAATAATTTTATTTAATTTAATTATTAAATAATAA-A-A
* *
1095335 AAAATAATTTTATATATTTTAA
1 AAAATAATTTTATTTAATTTAA
1095357 ATAATAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 10 0.20
38 17 0.34
39 23 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
AAAATAATTTTATTTAATTTAATTATTAAATAATAAAA
Found at i:1102502 original size:27 final size:28
Alignment explanation
Indices: 1102471--1102524 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1102461 ATATTTTAAT
*
1102471 ATATTT-ATTTTGTGTTG-TTTTTTTTAG
1 ATATTTGATTTGGT-TTGATTTTTTTTAG
1102498 ATATTTGATTTGGTTTGATTTTTTTTA
1 ATATTTGATTTGGTTTGATTTTTTTTA
1102525 TTTTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.69
Consensus pattern (28 bp):
ATATTTGATTTGGTTTGATTTTTTTTAG
Found at i:1102785 original size:19 final size:18
Alignment explanation
Indices: 1102745--1102786 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1102735 AAATAAGAAT
*
1102745 TTTAATTTATAAATTATT
1 TTTAATTTATAAATTATA
1102763 TTTAATTT-TAAATAATATA
1 TTTAATTTATAAAT--TATA
1102782 TTTAA
1 TTTAA
1102787 AGAAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAATTTATAAATTATA
Found at i:1105907 original size:29 final size:29
Alignment explanation
Indices: 1105877--1105935 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1105867 TAATTTTTTT
1105877 AAATATAATATAAAAATAAAATATTGTTTAA
1 AAATAT-ATATAAAAA-AAAATATTGTTTAA
* * *
1105908 AAATATATATGATAAAAAATATTTTTTA
1 AAATATATATAAAAAAAAATATTGTTTA
1105936 GATTGACAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
AAATATATATAAAAAAAAATATTGTTTAA
Found at i:1108880 original size:3 final size:3
Alignment explanation
Indices: 1108872--1108898 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1108862 ACCAATAAAA
1108872 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1108899 AGAACATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1109628 original size:56 final size:54
Alignment explanation
Indices: 1109474--1109631 Score: 126
Period size: 53 Copynumber: 2.9 Consensus size: 54
1109464 AAAAATTTAA
* * * *
1109474 ATTTTTTATTTAAATTTAAATTTAATCTATTTTAATTTTTTAAATTATTTATATTTATT
1 ATTTTATAATTAAATTTAAA-ATAAT-TATTTTAA--TTTTAAA-TATTAATATTTATT
* ** ** * *
1109533 A-TTTATACTT-AATAAAAAATAAAAAATTT-ATTTT-TATATTAATATTTATAT
1 ATTTTATAATTAAATTTAAAATAATTATTTTAATTTTAAATATTAATATTTAT-T
1109584 ATTTTATAATTAAATTTAAAATAATTATTTTAATTATTAAATATTAAT
1 ATTTTATAATTAAATTTAAAATAATTATTTTAATT-TTAAATATTAAT
1109632 TTAAGTTAAT
Statistics
Matches: 76, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
50 12 0.16
51 3 0.04
52 12 0.16
53 14 0.18
54 4 0.05
55 6 0.08
56 11 0.14
57 6 0.08
58 7 0.09
59 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (54 bp):
ATTTTATAATTAAATTTAAAATAATTATTTTAATTTTAAATATTAATATTTATT
Found at i:1109829 original size:18 final size:19
Alignment explanation
Indices: 1109806--1109854 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
1109796 ATTTAAAATA
*
1109806 ATATTAAAAATT-ATTTTT
1 ATATTAAAAATTAATATTT
*
1109824 ATATT-AATATTAATATTT
1 ATATTAAAAATTAATATTT
1109842 ATATT-AAAATTAA
1 ATATTAAAAATTAA
1109855 AATAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTAAAAATTAATATTT
Found at i:1109843 original size:24 final size:25
Alignment explanation
Indices: 1109790--1109851 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
1109780 AAAAGTTTAT
1109790 TTTATTATTTAAAATAATATTAAAA
1 TTTATTATTTAAAATAATATTAAAA
* * * *
1109815 ATTATT-TTTATATTAATATTAATA
1 TTTATTATTTAAAATAATATTAAAA
1109839 TTTA-TA-TTAAAAT
1 TTTATTATTTAAAAT
1109852 TAAAATAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 6 0.21
24 18 0.62
25 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTATTATTTAAAATAATATTAAAA
Found at i:1109916 original size:10 final size:9
Alignment explanation
Indices: 1109900--1109926 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1109890 AAATTAGATT
1109900 AAATTTTTA
1 AAATTTTTA
1109909 AAATTTTTA
1 AAATTTTTA
1109918 AAATTTTTA
1 AAATTTTTA
1109927 TCCAGATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AAATTTTTA
Found at i:1110576 original size:21 final size:21
Alignment explanation
Indices: 1110529--1110576 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
1110519 TTGAATAGAT
*
1110529 TTAATAGTTAAAAGAAAAAAA
1 TTAAAAGTTAAAAGAAAAAAA
* *
1110550 TCAAAAGTTAAAA-ATAAATAA
1 TTAAAAGTTAAAAGA-AAAAAA
1110571 TTAAAA
1 TTAAAA
1110577 AATAATAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (21 bp):
TTAAAAGTTAAAAGAAAAAAA
Found at i:1111775 original size:28 final size:28
Alignment explanation
Indices: 1111734--1111788 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1111724 TAGTATTTTA
* *
1111734 ATTTTTTTTAATAATTTAAAATTAAAAT
1 ATTTTTTTTAATAATATAAAAATAAAAT
1111762 ATTTATTTTT-ATAATATAAAAATAAAA
1 ATTT-TTTTTAATAATATAAAAATAAAA
1111789 ATAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTTTTTTAATAATATAAAAATAAAAT
Found at i:1111783 original size:29 final size:28
Alignment explanation
Indices: 1111734--1111791 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
1111724 TAGTATTTTA
* *
1111734 ATTTTTTTTAATAATTTAAAATTAAAAT
1 ATTTTTTTTAATAATTAAAAATAAAAAT
1111762 ATTTATTTTT-ATAATATAAAAATAAAAAT
1 ATTT-TTTTTAATAAT-TAAAAATAAAAAT
1111791 A
1 A
1111792 AATAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTTTTTTAATAATTAAAAATAAAAAT
Found at i:1113205 original size:10 final size:10
Alignment explanation
Indices: 1113192--1113224 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
1113182 AAAGCTCAGA
1113192 AAAAAAAAAG
1 AAAAAAAAAG
1113202 AAAAAAAAAG
1 AAAAAAAAAG
*
1113212 AAAAGAAAAG
1 AAAAAAAAAG
1113222 AAA
1 AAA
1113225 GAAACCAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1113209 original size:15 final size:15
Alignment explanation
Indices: 1113191--1113220 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1113181 AAAAGCTCAG
1113191 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
*
1113206 AAAAAGAAAAGAAAA
1 AAAAAAAAAAGAAAA
1113221 GAAAGAAACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:1113374 original size:2 final size:2
Alignment explanation
Indices: 1113369--1113403 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1113359 TTCTCTCTTT
*
1113369 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1113404 TTTGTTCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Done.