Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 40 of 402
Found at i:8021748 original size:25 final size:24
Alignment explanation
Indices: 8021699--8021744 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
8021689 AAAAATTCTC
8021699 ATTTATTTTTCACCTCTAAAAATA
1 ATTTATTTTTCACCTCTAAAAATA
8021723 ATTTATTTTTCACCTCTAAAAA
1 ATTTATTTTTCACCTCTAAAAA
8021745 ATAAACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTTATTTTTCACCTCTAAAAATA
Found at i:8023070 original size:35 final size:35
Alignment explanation
Indices: 8023031--8023165 Score: 112
Period size: 35 Copynumber: 3.9 Consensus size: 35
8023021 TGACTCATAA
* *
8023031 TTCAATCTTGATCATTTTTACTTTCTGACTTGCAG
1 TTCAATCCTGATCATTTTTACTTTTTGACTTGCAG
* * * * **
8023066 TTCAAT-CTCGATCAATATT-CTTTATAACTTGTGG
1 TTCAATCCT-GATCATTTTTACTTTTTGACTTGCAG
* * *
8023100 TTCAATCCTGTTTATCTTTACTTTTTGACTTGCAG
1 TTCAATCCTGATCATTTTTACTTTTTGACTTGCAG
* * * *
8023135 TTCAGTCCTGGTCATATTTATTTTTTGACTT
1 TTCAATCCTGATCATTTTTACTTTTTGACTT
8023166 ATGGTTCAAT
Statistics
Matches: 76, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
34 23 0.30
35 53 0.70
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.50
Consensus pattern (35 bp):
TTCAATCCTGATCATTTTTACTTTTTGACTTGCAG
Found at i:8023173 original size:35 final size:34
Alignment explanation
Indices: 8023092--8023193 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 34
8023082 ATTCTTTATA
* * *
8023092 ACTTGTGGTTCAATCCTGTTTATCTTTACTTTTTG
1 ACTTGTGGTTCAATCCTGGTCAT-TTTATTTTTTG
** *
8023127 ACTTGCAGTTCAGTCCTGGTCATATTTATTTTTTG
1 ACTTGTGGTTCAATCCTGGTCAT-TTTATTTTTTG
* **
8023162 ACTTATGGTTCAATTTTGGTCATTTTATTTTT
1 ACTTGTGGTTCAATCCTGGTCATTTTATTTTT
8023194 CAATTTGCAG
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
34 9 0.17
35 45 0.83
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.54
Consensus pattern (34 bp):
ACTTGTGGTTCAATCCTGGTCATTTTATTTTTTG
Found at i:8023257 original size:12 final size:12
Alignment explanation
Indices: 8023240--8023328 Score: 62
Period size: 12 Copynumber: 7.7 Consensus size: 12
8023230 GATGTTCTTT
8023240 AAACAAAAAACA
1 AAACAAAAAACA
*
8023252 AAAC-AAAAA-T
1 AAACAAAAAACA
*
8023262 AAACACAAAACA
1 AAACAAAAAACA
***
8023274 AAA-ACTTAACA
1 AAACAAAAAACA
*
8023285 TAACAAAAAACA
1 AAACAAAAAACA
*
8023297 TAAA-AAAAAAAA
1 -AAACAAAAAACA
8023309 AAACAAAACAACA
1 AAACAAAA-AACA
8023322 AAA-AAAA
1 AAACAAAA
8023329 TGAAACAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
10 4 0.07
11 20 0.34
12 27 0.46
13 8 0.14
ACGTcount: A:0.80, C:0.15, G:0.00, T:0.06
Consensus pattern (12 bp):
AAACAAAAAACA
Found at i:8023309 original size:17 final size:17
Alignment explanation
Indices: 8023240--8023341 Score: 59
Period size: 17 Copynumber: 5.9 Consensus size: 17
8023230 GATGTTCTTT
*
8023240 AAACA-AAAAACAAAACA
1 AAACATAAAAA-AAAAAA
*
8023257 AAA-ATAAACACAAAACAA
1 AAACATAAA-A-AAAAAAA
* * * *
8023275 AAACTTAACATAACAAA
1 AAACATAAAAAAAAAAA
8023292 AAACATAAAAAAAAAAA
1 AAACATAAAAAAAAAAA
* *
8023309 AAACA-AAACAACAAAA
1 AAACATAAAAAAAAAAA
8023325 AAA-ATGAAACAAAAAAA
1 AAACAT-AAA-AAAAAAA
8023342 TCCAAAATGA
Statistics
Matches: 63, Mismatches: 15, Indels: 13
0.69 0.16 0.14
Matches are distributed among these distances:
15 1 0.02
16 13 0.21
17 31 0.49
18 14 0.22
19 4 0.06
ACGTcount: A:0.79, C:0.14, G:0.01, T:0.06
Consensus pattern (17 bp):
AAACATAAAAAAAAAAA
Found at i:8023348 original size:32 final size:32
Alignment explanation
Indices: 8023240--8023341 Score: 89
Period size: 32 Copynumber: 3.0 Consensus size: 32
8023230 GATGTTCTTT
*
8023240 AAACAAAA-AACAAAACAAAAATAAACACAAAACAA
1 AAACAAAACAAC-AAA-AAAAATAAA-A-AAAAAAA
* * *
8023275 AAACTTAACATAACAAAAAACATAAAAAAAAAAA
1 AAAC--AAAACAACAAAAAAAATAAAAAAAAAAA
* *
8023309 AAACAAAACAACAAAAAAAATGAAACAAAAAA
1 AAACAAAACAACAAAAAAAATAAAAAAAAAAA
8023341 A
1 A
8023342 TCCAAAATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
32 24 0.43
34 10 0.18
35 5 0.09
36 8 0.14
37 6 0.11
38 3 0.05
ACGTcount: A:0.79, C:0.14, G:0.01, T:0.06
Consensus pattern (32 bp):
AAACAAAACAACAAAAAAAATAAAAAAAAAAA
Found at i:8024511 original size:24 final size:24
Alignment explanation
Indices: 8024478--8024548 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
8024468 TCTAAATCAT
* *
8024478 GAAACTCTAAAACTCTT-AAGCCTC
1 GAAACCCTAAAA-TCTTAAAACCTC
* *
8024502 GAATCCCTAAAATCTTAAAACCTT
1 GAAACCCTAAAATCTTAAAACCTC
*
8024526 GAAACCCTAAAATCTCAAAACCT
1 GAAACCCTAAAATCTTAAAACCT
8024549 TAAAATCTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.10
24 36 0.90
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.24
Consensus pattern (24 bp):
GAAACCCTAAAATCTTAAAACCTC
Found at i:8024549 original size:24 final size:24
Alignment explanation
Indices: 8024462--8024549 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 24
8024452 CATATTTCCA
* * * *
8024462 AAAATCTCTAAATCATGAAACTCT
1 AAAATCTCAAAACCTTGAAACCCT
* * * *
8024486 AAAA-CTCTTAAGCCTCGAATCCCT
1 AAAATCTC-AAAACCTTGAAACCCT
*
8024510 AAAATCTTAAAACCTTGAAACCCT
1 AAAATCTCAAAACCTTGAAACCCT
8024534 AAAATCTCAAAACCTT
1 AAAATCTCAAAACCTT
8024550 AAAATCTTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 3 0.06
24 45 0.90
25 2 0.04
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.26
Consensus pattern (24 bp):
AAAATCTCAAAACCTTGAAACCCT
Found at i:8026274 original size:61 final size:58
Alignment explanation
Indices: 8026198--8026337 Score: 167
Period size: 61 Copynumber: 2.4 Consensus size: 58
8026188 CTATTTAAAA
* * *
8026198 TTTTA-AAATGTTAATTCTAAAAGTATTAAAAGTGATTAATTAAAATA-TCTTTAGTAATTT
1 TTTTATAAATTTTAATT-TAAAAATATTAAAAGTGATTAATTAAAATAGT-ATTAGTAA--T
* *
8026258 TTTTATAAATTTTAATTTAAAAAATTTTAAAAGTGATTGATTAAAATAGTATTAGTAAT
1 TTTTATAAATTTTAATTT-AAAAATATTAAAAGTGATTAATTAAAATAGTATTAGTAAT
*
8026317 TTATATAAATTTTAATTTAAA
1 TTTTATAAATTTTAATTTAAA
8026338 TGTCTTTATT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
58 3 0.04
59 18 0.25
60 6 0.08
61 43 0.61
62 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (58 bp):
TTTTATAAATTTTAATTTAAAAATATTAAAAGTGATTAATTAAAATAGTATTAGTAAT
Found at i:8028552 original size:15 final size:15
Alignment explanation
Indices: 8028532--8028564 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8028522 TTTTAATATT
8028532 TTTATGTAATAA-AAA
1 TTTATGTAA-AATAAA
8028547 TTTATGTAAAATAAA
1 TTTATGTAAAATAAA
8028562 TTT
1 TTT
8028565 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
TTTATGTAAAATAAA
Found at i:8030233 original size:22 final size:21
Alignment explanation
Indices: 8030186--8030267 Score: 58
Period size: 22 Copynumber: 3.8 Consensus size: 21
8030176 ATGATCATCG
* *
8030186 ATAACTTAGTAATAAATTTGTA
1 ATAACTTAGTAGTAAA-TGGTA
* *
8030208 ATAACTTATTAGTAAATGAGTG
1 ATAACTTAGTAGTAAATG-GTA
* *
8030230 ATAATTTAGTAGTCAAA-GTTA
1 ATAACTTAGTAGT-AAATGGTA
**
8030251 ATAACTTTTTAGTAAAT
1 ATAACTTAGTAGTAAAT
8030268 CAATAACAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
20 3 0.07
21 12 0.26
22 28 0.61
23 3 0.07
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (21 bp):
ATAACTTAGTAGTAAATGGTA
Found at i:8030385 original size:22 final size:22
Alignment explanation
Indices: 8030357--8030439 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
8030347 AAAATAAATG
*
8030357 ATAACTTAATAGTTAATTATTA
1 ATAACTTAATAGTAAATTATTA
* * * *
8030379 ATAACTTAGTAATAAATTAATG
1 ATAACTTAATAGTAAATTATTA
*
8030401 ATAATTTAATAGTAAATT-TGTA
1 ATAACTTAATAGTAAATTAT-TA
*
8030423 ATAATTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
8030440 CAATTTCAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.42
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTATTA
Found at i:8030399 original size:33 final size:34
Alignment explanation
Indices: 8030357--8030435 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 34
8030347 AAAATAAATG
* * *
8030357 ATAACTTAATAGTTAA-TTATTAATAACTTAGTA
1 ATAAATTAATAGTTAATTTAATAATAAATTAGTA
* * *
8030390 ATAAATTAAT-GATAATTTAATAGTAAATTTGTA
1 ATAAATTAATAGTTAATTTAATAATAAATTAGTA
*
8030423 ATAATTTAATAGT
1 ATAAATTAATAGT
8030436 AAATCAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
32 4 0.11
33 31 0.86
34 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.43
Consensus pattern (34 bp):
ATAAATTAATAGTTAATTTAATAATAAATTAGTA
Found at i:8030439 original size:44 final size:44
Alignment explanation
Indices: 8030334--8030439 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
8030324 TATAAAAAGG
* * *
8030334 ATAACTTAACAAAAAAATAAATGATAACTTAATAGTTAATTATTA
1 ATAACTTAA-TAATAAATAAATGATAACTTAATAGTAAATTATTA
* * *
8030379 ATAACTTAGTAATAAATTAATGATAATTTAATAGTAAATT-TGTA
1 ATAACTTAATAATAAATAAATGATAACTTAATAGTAAATTAT-TA
* *
8030423 ATAATTTAATAGTAAAT
1 ATAACTTAATAATAAAT
8030440 CAATTTCAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 42 0.82
45 8 0.16
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (44 bp):
ATAACTTAATAATAAATAAATGATAACTTAATAGTAAATTATTA
Found at i:8030531 original size:22 final size:22
Alignment explanation
Indices: 8030490--8030540 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
8030480 ATAAATAGCG
8030490 TAGTAGTAAATAAATTATAAAT
1 TAGTAGTAAATAAATTATAAAT
* *
8030512 TATTAGTAAAT-AATTGATAATT
1 TAGTAGTAAATAAATT-ATAAAT
8030534 TAGTAGT
1 TAGTAGT
8030541 TATTTATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (22 bp):
TAGTAGTAAATAAATTATAAAT
Found at i:8030630 original size:44 final size:43
Alignment explanation
Indices: 8030562--8030653 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 43
8030552 AATTTAAAAG
* * * *
8030562 AACTTAATAGTATATCATTGATAATATAATAGTTAATTAATGAT
1 AACTTAATAGTAAATCATTGATAATATAATA-TAAATCAATAAT
*
8030606 AACTTAATAGTAAATCATAT-ATAATTTAATATAAATCAATAAT
1 AACTTAATAGTAAATCAT-TGATAATATAATATAAATCAATAAT
8030649 AACTT
1 AACTT
8030654 TGTACTTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 14 0.33
44 27 0.64
45 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (43 bp):
AACTTAATAGTAAATCATTGATAATATAATATAAATCAATAAT
Found at i:8030650 original size:21 final size:22
Alignment explanation
Indices: 8030562--8030653 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 22
8030552 AATTTAAAAG
*
8030562 AACTTAATAGTATATCAT-TGAT
1 AACTTAATAGTAAATCATAT-AT
* *
8030584 AA-TATAATAGTTAATTA-ATGAT
1 AACT-TAATAGTAAATCATAT-AT
8030606 AACTTAATAGTAAATCATATAT
1 AACTTAATAGTAAATCATATAT
*
8030628 AATTTAATA-TAAATCA-ATAAT
1 AACTTAATAGTAAATCATAT-AT
8030649 AACTT
1 AACTT
8030654 TGTACTTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
20 2 0.03
21 14 0.24
22 39 0.67
23 3 0.05
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (22 bp):
AACTTAATAGTAAATCATATAT
Found at i:8030745 original size:22 final size:22
Alignment explanation
Indices: 8030720--8030782 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
8030710 TTAAAGCTTA
8030720 AATAGTAAATCAATGATAACAT
1 AATAGTAAATCAATGATAACAT
* * *
8030742 AATAATAAAT-ATATAAAAACAT
1 AATAGTAAATCA-ATGATAACAT
*
8030764 AATAGTAAATCATTGATAA
1 AATAGTAAATCAATGATAA
8030783 TTTAGTAGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (22 bp):
AATAGTAAATCAATGATAACAT
Found at i:8030791 original size:22 final size:22
Alignment explanation
Indices: 8030779--8030882 Score: 97
Period size: 22 Copynumber: 4.9 Consensus size: 22
8030769 TAAATCATTG
8030779 ATAATTTAGTAGTAAA-T--TA
1 ATAATTTAGTAGTAAATTACTA
* *
8030798 ATAACTTAGTAATAAATTACTA
1 ATAATTTAGTAGTAAATTACTA
* *
8030820 ATAATGTAATAGTAAATTACTA
1 ATAATTTAGTAGTAAATTACTA
* ** * *
8030842 ATAATTTAGTAATAAAAAAGTG
1 ATAATTTAGTAGTAAATTACTA
*
8030864 CTAATTTAGTAGTAAATTA
1 ATAATTTAGTAGTAAATTA
8030883 GTTAATTATT
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
19 14 0.22
20 1 0.02
22 50 0.77
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.38
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATTACTA
Found at i:8030801 original size:19 final size:19
Alignment explanation
Indices: 8030779--8030821 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8030769 TAAATCATTG
*
8030779 ATAATTTAGTAGTAAATTA
1 ATAATTTAGTAATAAATTA
*
8030798 ATAACTTAGTAATAAATTA
1 ATAATTTAGTAATAAATTA
*
8030817 CTAAT
1 ATAAT
8030822 AATGTAATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (19 bp):
ATAATTTAGTAATAAATTA
Found at i:8030812 original size:11 final size:11
Alignment explanation
Indices: 8030796--8030857 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
8030786 AGTAGTAAAT
* *
8030796 TAATAACTTAG
1 TAATAAATTAC
8030807 TAATAAATTAC
1 TAATAAATTAC
*
8030818 TAAT-AATGTAA
1 TAATAAAT-TAC
*
8030829 TAGTAAATTAC
1 TAATAAATTAC
* *
8030840 TAATAATTTAG
1 TAATAAATTAC
8030851 TAATAAA
1 TAATAAA
8030858 AAAGTGCTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
10 3 0.08
11 34 0.85
12 3 0.08
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (11 bp):
TAATAAATTAC
Found at i:8030877 original size:44 final size:43
Alignment explanation
Indices: 8030779--8030882 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 43
8030769 TAAATCATTG
**
8030779 ATAATTTAGTAGTAAA-T-TAATAACTTAGTAATAAATTACTA
1 ATAATTTAGTAGTAAATTATAATAACTTAGTAATAAAAAACTA
* * * * *
8030820 ATAATGTAATAGTAAATTACTAATAATTTAGTAATAAAAAAGTG
1 ATAATTTAGTAGTAAATTA-TAATAACTTAGTAATAAAAAACTA
*
8030864 CTAATTTAGTAGTAAATTA
1 ATAATTTAGTAGTAAATTA
8030883 GTTAATTATT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 14 0.28
42 1 0.02
44 35 0.70
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.38
Consensus pattern (43 bp):
ATAATTTAGTAGTAAATTATAATAACTTAGTAATAAAAAACTA
Found at i:8030967 original size:22 final size:22
Alignment explanation
Indices: 8030942--8031053 Score: 62
Period size: 22 Copynumber: 5.1 Consensus size: 22
8030932 TACCAACAAT
*
8030942 TTAATGGTAAATCATTTATAAC
1 TTAATAGTAAATCATTTATAAC
* * * * *
8030964 TTAATGGCACATCATTCATAAA
1 TTAATAGTAAATCATTTATAAC
* * * * **
8030986 TTAGTAGTACATTATTGATAGT
1 TTAATAGTAAATCATTTATAAC
* * *
8031008 TTAATAGTAAATAACTAATAAC
1 TTAATAGTAAATCATTTATAAC
* * *
8031030 TTAATTGTCAATCATTTAGAAC
1 TTAATAGTAAATCATTTATAAC
8031052 TT
1 TT
8031054 CTAGTATATT
Statistics
Matches: 66, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (22 bp):
TTAATAGTAAATCATTTATAAC
Found at i:8031568 original size:22 final size:22
Alignment explanation
Indices: 8031543--8031619 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
8031533 GTTAATTATC
*
8031543 AATAACTTAATAGTTAATCAAT
1 AATAACTTAATAGTAAATCAAT
* *
8031565 AATAATTTAGTAGTAAATC-AT
1 AATAACTTAATAGTAAATCAAT
* * *
8031586 AGATAATTTAA-AATAAATCAGT
1 A-ATAACTTAATAGTAAATCAAT
*
8031608 GATAACTTAATA
1 AATAACTTAATA
8031620 ATGAATCATA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 18 0.41
22 26 0.59
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (22 bp):
AATAACTTAATAGTAAATCAAT
Found at i:8031711 original size:22 final size:22
Alignment explanation
Indices: 8031686--8031744 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
8031676 AAATTAAATG
*
8031686 GTAAATCAATGATAACATAGTA
1 GTAAATCAATGATAACATAATA
*
8031708 GTAAATGC-ATAATAACATAATA
1 GTAAAT-CAATGATAACATAATA
*
8031730 GTAAATCATTGATAA
1 GTAAATCAATGATAA
8031745 TTTAAATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (22 bp):
GTAAATCAATGATAACATAATA
Found at i:8031815 original size:22 final size:22
Alignment explanation
Indices: 8031703--8031997 Score: 132
Period size: 22 Copynumber: 13.1 Consensus size: 22
8031693 AATGATAACA
**
8031703 TAGTAGTAAATGCA-TAATAACA
1 TAGTAGTAAAT-CATTAATAATT
* *
8031725 TAATAGTAAATCATTGATAATT
1 TAGTAGTAAATCATTAATAATT
* * *
8031747 TA-AATGTAAATTATTAATAACT
1 TAGTA-GTAAATCATTAATAATT
* * *
8031769 TAGTAGTAAATTACTGATAATT
1 TAGTAGTAAATCATTAATAATT
* *
8031791 TAGTTGTAAATCAGTAATAATT
1 TAGTAGTAAATCATTAATAATT
* *
8031813 TAGTAGTAAATTAGTTAATTATCGACAACT
1 TAGTAGTAAATCA-TT-A--AT----AATT
** * *
8031843 TTATAGTAAATCATTGATAAAT
1 TAGTAGTAAATCATTAATAATT
*
8031865 TAATAGTAAATCAATT-ATAAATT
1 TAGTAGTAAATC-ATTAAT-AATT
** * *
8031888 TA-TAACAAATCATCAATGATT
1 TAGTAGTAAATCATTAATAATT
* * *
8031909 TAGTAGTAAATCAATCATAACT
1 TAGTAGTAAATCATTAATAATT
* * *
8031931 T-GTAGTAAATTATTTATAAAT
1 TAGTAGTAAATCATTAATAATT
* ** *
8031952 TAGTAGTAAATCAATGCTAGTT
1 TAGTAGTAAATCATTAATAATT
* *
8031974 TAATAGTAAATCATTGATAATT
1 TAGTAGTAAATCATTAATAATT
8031996 TA
1 TA
8031998 ATAATATATT
Statistics
Matches: 205, Mismatches: 52, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
21 27 0.13
22 148 0.72
23 10 0.05
24 1 0.00
26 4 0.02
29 2 0.01
30 13 0.06
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (22 bp):
TAGTAGTAAATCATTAATAATT
Found at i:8031826 original size:11 final size:11
Alignment explanation
Indices: 8031752--8031827 Score: 55
Period size: 11 Copynumber: 6.9 Consensus size: 11
8031742 TAATTTAAAT
*
8031752 GTAAATTATTA
1 GTAAATTAGTA
* *
8031763 ATAACTTAGTA
1 GTAAATTAGTA
*
8031774 GTAAATTACT-
1 GTAAATTAGTA
* *
8031784 GATAATTTAGTT
1 G-TAAATTAGTA
*
8031796 GTAAATCAGTA
1 GTAAATTAGTA
* *
8031807 ATAATTTAGTA
1 GTAAATTAGTA
8031818 GTAAATTAGT
1 GTAAATTAGT
8031828 TAATTATCGA
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
10 1 0.02
11 45 0.96
12 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (11 bp):
GTAAATTAGTA
Found at i:8031890 original size:44 final size:43
Alignment explanation
Indices: 8031842--8032000 Score: 149
Period size: 44 Copynumber: 3.7 Consensus size: 43
8031832 TATCGACAAC
*
8031842 TTTATAGTAAATCATTGATAAATTAATAGTAAATCAATTATAAA
1 TTTATAGTAAATCATTGATAAATTAATAGTAAATCAATCAT-AA
** ** * * *
8031886 TTTATAACAAATCATCAATGATTTAGTAGTAAATCAATCATAA
1 TTTATAGTAAATCATTGATAAATTAATAGTAAATCAATCATAA
* * * * * *
8031929 CTTGTAGTAAATTATTTATAAATTAGTAGTAAATCAATGC-TAG
1 TTTATAGTAAATCATTGATAAATTAATAGTAAATCAAT-CATAA
*
8031972 TTTAATAGTAAATCATTGATAATTTAATA
1 TTT-ATAGTAAATCATTGATAAATTAATA
8032001 ATATATTATT
Statistics
Matches: 89, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
43 35 0.39
44 54 0.61
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (43 bp):
TTTATAGTAAATCATTGATAAATTAATAGTAAATCAATCATAA
Found at i:8031998 original size:22 final size:22
Alignment explanation
Indices: 8031845--8032025 Score: 116
Period size: 22 Copynumber: 8.3 Consensus size: 22
8031835 CGACAACTTT
*
8031845 ATAGTAAATCATTGATAAATTA
1 ATAGTAAATCATTGATAATTTA
8031867 ATAGTAAATCAATT-ATAAATTT-
1 ATAGTAAATC-ATTGAT-AATTTA
** ** *
8031889 ATAACAAATCATCAATGATTTA
1 ATAGTAAATCATTGATAATTTA
* * * *
8031911 GTAGTAAATCAATCATAACTT-
1 ATAGTAAATCATTGATAATTTA
* * * *
8031932 GTAGTAAATTATTTATAAATTA
1 ATAGTAAATCATTGATAATTTA
* * * *
8031954 GTAGTAAATCAATGCTAGTTTA
1 ATAGTAAATCATTGATAATTTA
8031976 ATAGTAAATCATTGATAATTTA
1 ATAGTAAATCATTGATAATTTA
* * * **
8031998 ATAATATATTATTGATAGCTTA
1 ATAGTAAATCATTGATAATTTA
8032020 ATAGTA
1 ATAGTA
8032026 CATTGCTAAA
Statistics
Matches: 121, Mismatches: 33, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
21 23 0.19
22 91 0.75
23 7 0.06
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (22 bp):
ATAGTAAATCATTGATAATTTA
Found at i:8032425 original size:21 final size:21
Alignment explanation
Indices: 8032400--8032488 Score: 83
Period size: 21 Copynumber: 4.2 Consensus size: 21
8032390 AGAAGTTATT
*
8032400 AAAATTTTATAAAAAATTACC
1 AAAATTTTATAAAAAGTTACC
*
8032421 AAAA--TTATAATATAAGTTACA
1 AAAATTTTATAA-A-AAGTTACC
* *
8032442 AAAATTATATCAAAAGTTACC
1 AAAATTTTATAAAAAGTTACC
* * *
8032463 AAAATTTTATCAAAGGTTATC
1 AAAATTTTATAAAAAGTTACC
8032484 AAAAT
1 AAAAT
8032489 CAAATTTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.11
20 1 0.02
21 44 0.79
22 1 0.02
23 4 0.07
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAATTTTATAAAAAGTTACC
Found at i:8032488 original size:42 final size:41
Alignment explanation
Indices: 8032392--8032488 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 41
8032382 TTACATCAAG
* * * *
8032392 AAGTTATTAAAATTTTATAAAAAATTACCAAAATTATAAT-A
1 AAGTTATCAAAATTATATCAAAAGTTACCAAAATT-TAATCA
*
8032433 TAAGTTA-CAAAAATTATATCAAAAGTTACCAAAATTTTATCA
1 -AAGTTATC-AAAATTATATCAAAAGTTACCAAAATTTAATCA
8032475 AAGGTTATCAAAAT
1 AA-GTTATCAAAAT
8032489 CAAATTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
41 5 0.11
42 40 0.87
43 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (41 bp):
AAGTTATCAAAATTATATCAAAAGTTACCAAAATTTAATCA
Found at i:8032508 original size:27 final size:26
Alignment explanation
Indices: 8032464--8032515 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
8032454 AAAGTTACCA
* *
8032464 AAATTTTATCAAAGGTTATCAAAATC
1 AAATTTTATAAAAAGTTATCAAAATC
8032490 AAATTTATATAAAAAGTTATCAAAAT
1 AAATTT-TATAAAAAGTTATCAAAAT
8032516 TTACTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (26 bp):
AAATTTTATAAAAAGTTATCAAAATC
Found at i:8033392 original size:1 final size:1
Alignment explanation
Indices: 8033386--8033413 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
8033376 CTAATAAGAG
8033386 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
8033414 CTGATAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8033620 original size:12 final size:12
Alignment explanation
Indices: 8033603--8033627 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8033593 AAAATGAAGC
8033603 GTCCAAACATTT
1 GTCCAAACATTT
8033615 GTCCAAACATTT
1 GTCCAAACATTT
8033627 G
1 G
8033628 ATTCAATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (12 bp):
GTCCAAACATTT
Found at i:8037987 original size:27 final size:27
Alignment explanation
Indices: 8037957--8038045 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
8037947 ATTTTTAAGG
8037957 AAAATTGATACTTTCAACTTTTCTCAA
1 AAAATTGATACTTTCAACTTTTCTCAA
** * * *
8037984 AAAA-T-ATTTTTTGGAAATTTATTTCTAA
1 AAAATTGATACTTT-CAACTTT-TCTC-AA
*
8038012 GGAAAATTGATACTTTCAACTTTTCTCCA
1 --AAAATTGATACTTTCAACTTTTCTCAA
8038041 AAAAT
1 AAAAT
8038046 ATTTTTTGGA
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 6 0.14
27 12 0.27
28 2 0.05
29 1 0.02
30 7 0.16
31 6 0.14
32 5 0.11
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCTCAA
Found at i:8038137 original size:58 final size:58
Alignment explanation
Indices: 8037895--8038168 Score: 390
Period size: 57 Copynumber: 4.7 Consensus size: 58
8037885 TTGTGTGGGG
* * *
8037895 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCTTTTTCTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTT-TTTTGAAAATTTATTTTTAAGA
* * * * *
8037957 AAAATTGATACTTTCAACTTTTCTCAAAAAATA-TTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
* *
8038014 AAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTGGAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
*
8038071 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
*
8038129 AAAATTGATACTTTCAACTTTTCCCCAAAACTATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
8038169 TTATTTAAAT
Statistics
Matches: 198, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
57 106 0.54
58 63 0.32
59 1 0.01
62 28 0.14
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
Found at i:8038183 original size:5 final size:5
Alignment explanation
Indices: 8038175--8038278 Score: 56
Period size: 5 Copynumber: 20.4 Consensus size: 5
8038165 TTTTTTATTT
*
8038175 AAATA AAATA AAACA AAATA AAAGTGA AAAT- AAATA AAGAT- AAA-A
1 AAATA AAATA AAATA AAATA AAA-T-A AAATA AAATA AA-ATA AAATA
* * *
8038220 AAATA AAGA-A AAGTA AAACAA AAATAA AAATA AGATA AAGATA AAA-A
1 AAATA AA-ATA AAATA AAA-TA AAAT-A AAATA AAATA AA-ATA AAATA
* *
8038267 ATATT AAATA AA
1 AAATA AAATA AA
8038279 TCTAATCTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 24
0.68 0.11 0.22
Matches are distributed among these distances:
4 11 0.15
5 41 0.55
6 19 0.25
7 4 0.05
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:8038224 original size:18 final size:17
Alignment explanation
Indices: 8038201--8038248 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
8038191 AATAAAAGTG
8038201 AAAATAAATAAAGATAAA
1 AAAATAAATAAA-ATAAA
*
8038219 AAAATAAAGAAAAGTAAA
1 AAAATAAATAAAA-TAAA
*
8038237 ACAA-AAATAAAA
1 AAAATAAATAAAA
8038249 ATAAGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAATAAATAAAATAAA
Found at i:8039315 original size:24 final size:25
Alignment explanation
Indices: 8039270--8039326 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
8039260 ACAATAAGAT
**
8039270 AAATCAAAAAAATATTACAAAATAAA
1 AAAT-AAAAAAATAAGACAAAATAAA
*
8039296 AAATAAAAAAATAAGA-AAAATAAT
1 AAATAAAAAAATAAGACAAAATAAA
8039320 AAATAAA
1 AAATAAA
8039327 TTATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 14 0.50
25 10 0.36
26 4 0.14
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (25 bp):
AAATAAAAAAATAAGACAAAATAAA
Found at i:8039366 original size:25 final size:26
Alignment explanation
Indices: 8039304--8039390 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 26
8039294 AAAAATAAAA
**
8039304 AAATAAGAA-AAATAATAAATAAATTAT
1 AAATAA-AATAAAT-ATAAATCTATTAT
*
8039331 AATATATAATAAATATAGAA-CTA-TAT
1 AA-ATAAAATAAATATA-AATCTATTAT
* *
8039357 AAATAAAATACATATAAATCTATTCT
1 AAATAAAATAAATATAAATCTATTAT
8039383 AAATAAAA
1 AAATAAAA
8039391 AATAAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
24 2 0.04
25 15 0.31
26 15 0.31
27 8 0.16
28 9 0.18
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (26 bp):
AAATAAAATAAATATAAATCTATTAT
Found at i:8039452 original size:9 final size:9
Alignment explanation
Indices: 8039419--8039458 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
8039409 TACATATATT
8039419 AATACATAA
1 AATACATAA
8039428 TAATA-AT-A
1 -AATACATAA
8039436 AATA-ATAA
1 AATACATAA
8039444 AATACATAA
1 AATACATAA
8039453 AATACA
1 AATACA
8039459 AAAGGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 6 0.21
8 6 0.21
9 12 0.43
10 4 0.14
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (9 bp):
AATACATAA
Found at i:8039653 original size:1 final size:1
Alignment explanation
Indices: 8039642--8039715 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
8039632 AACATTGTCA
* * * * * * * * *
8039642 TTTTTTGTTTTTTGTGTTTTTTTGTTTTTTTTTTGTTTTTTTTTGTTTTTTTTATGTTTTTTTAT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
8039707 GTTTTTTTT
1 TTTTTTTTT
8039716 ACCAAAGCTC
Statistics
Matches: 53, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:8039675 original size:21 final size:20
Alignment explanation
Indices: 8039644--8039715 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 20
8039634 CATTGTCATT
8039644 TTTTGTTTTTTGTGTTTTTTTG
1 TTTT-TTTTTTGT-TTTTTTTG
8039666 TTTTTTTTTTGTTTTTTTTTG
1 TTTTTTTTTTG-TTTTTTTTG
*
8039687 TTTTTTTTATGTTTTTTTATG
1 TTTTTTTTTTGTTTTTTT-TG
8039708 TTTTTTTT
1 TTTTTTTT
8039716 ACCAAAGCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
20 7 0.15
21 35 0.74
22 5 0.11
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTTGTTTTTTTTG
Found at i:8039716 original size:11 final size:10
Alignment explanation
Indices: 8039649--8039715 Score: 98
Period size: 10 Copynumber: 6.5 Consensus size: 10
8039639 TCATTTTTTG
*
8039649 TTTTTTGTGT
1 TTTTTTGTTT
8039659 TTTTTTGTTTT
1 TTTTTTG-TTT
8039670 TTTTTTGTTT
1 TTTTTTGTTT
8039680 TTTTTTGTTT
1 TTTTTTGTTT
8039690 TTTTTATGTTT
1 TTTTT-TGTTT
*
8039701 TTTTATGTTT
1 TTTTTTGTTT
8039711 TTTTT
1 TTTTT
8039716 ACCAAAGCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
10 34 0.65
11 18 0.35
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:8039857 original size:41 final size:41
Alignment explanation
Indices: 8039723--8039942 Score: 291
Period size: 42 Copynumber: 5.3 Consensus size: 41
8039713 TTTACCAAAG
* * * *
8039723 CTCCTCTAAATAGAGGCTCAACGACTTTGCGAAACA-TAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTT--GAAA-AGTAAATTA
* *
8039766 CTCCTCTAAACAGAGGCACCACAATTTTGAAAA-TAAATTA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTA
8039806 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTA
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTA
* * *
8039847 CTCCTATAAACAGAGGCACCACAACTTTTGAAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTA
*
8039889 CTCCTCTAAACAGAGGCACCATGACTTTGGAAAAGTAAATTA
1 CTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTA
8039931 CTCCTCTAAACA
1 CTCCTCTAAACA
8039943 ATTACTCATC
Statistics
Matches: 159, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
40 38 0.24
41 37 0.23
42 61 0.38
43 23 0.14
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (41 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTA
Found at i:8039886 original size:83 final size:82
Alignment explanation
Indices: 8039723--8039942 Score: 327
Period size: 83 Copynumber: 2.7 Consensus size: 82
8039713 TTTACCAAAG
* * * *
8039723 CTCCTCTAAATAGAGGCTCAACGACTTTGCGAAACA-TAAATTGCTCCTCTAAACAGAGGCACCA
1 CTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-AGTAAATTACTCCTCTAAACAGAGGCACCA
8039787 CAATTTTGAAAATAAATTA
64 CAATTTTGAAAATAAATTA
*
8039806 CTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTACTCCTATAAACAGAGGCACCACA
1 CTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACA
*
8039870 ACTTTTGAAAAGTAAATTG
66 A-TTTTGAAAA-TAAATTA
*
8039889 CTCCTCTAAACAGAGGCACCATGACTTTGGAAAAGTAAATTACTCCTCTAAACA
1 CTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTACTCCTCTAAACA
8039943 ATTACTCATC
Statistics
Matches: 125, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
80 1 0.01
81 33 0.26
82 9 0.07
83 58 0.46
84 24 0.19
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (82 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACA
ATTTTGAAAATAAATTA
Found at i:8039947 original size:16 final size:16
Alignment explanation
Indices: 8039926--8039958 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8039916 TGGAAAAGTA
*
8039926 AATTACTCCTCTAAAC
1 AATTACTCATCTAAAC
8039942 AATTACTCATCTAAAC
1 AATTACTCATCTAAAC
8039958 A
1 A
8039959 GAGGCACCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTACTCATCTAAAC
Found at i:8040014 original size:99 final size:101
Alignment explanation
Indices: 8039842--8040042 Score: 316
Period size: 100 Copynumber: 2.0 Consensus size: 101
8039832 TTGAAAAGTA
*
8039842 AATTACTCCTATAAACAGAGGCACCACAACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
1 AATTACTCATATAAACAGAGGCACCACAACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
* *
8039907 CCATGAC-TTTGGAAAAGTAAATTACTCCTCTAAAC
66 CCACGACTTTTGGAAAAGTAAATTACTCATCTAAAC
* * * *
8039942 AATTACTCATCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATTGCTCCTCTAGACAGAGGCA
1 AATTACTCATATAAACAGAGGCACCACAACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
*
8040006 CCACGACTTTTGGAAAAGTAAATTGCTCATCTAAAC
66 CCACGACTTTTGGAAAAGTAAATTACTCATCTAAAC
8040042 A
1 A
8040043 GAGGCACCAT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 38 0.41
100 54 0.59
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (101 bp):
AATTACTCATATAAACAGAGGCACCACAACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA
CCACGACTTTTGGAAAAGTAAATTACTCATCTAAAC
Found at i:8040044 original size:43 final size:43
Alignment explanation
Indices: 8039942--8040078 Score: 215
Period size: 43 Copynumber: 3.2 Consensus size: 43
8039932 TCCTCTAAAC
*
8039942 AATTACTCATCTAAACAGAGGCACCACGAC-TTTGG-AAAGTA
1 AATTGCTCATCTAAACAGAGGCACCACGACTTTTGGAAAAGTA
* *
8039983 AATTGCTCCTCTAGACAGAGGCACCACGACTTTTGGAAAAGTA
1 AATTGCTCATCTAAACAGAGGCACCACGACTTTTGGAAAAGTA
* *
8040026 AATTGCTCATCTAAACAGAGGCACCATGACTTTTGAAAAAGTA
1 AATTGCTCATCTAAACAGAGGCACCACGACTTTTGGAAAAGTA
8040069 AATTGCTCAT
1 AATTGCTCAT
8040079 TGACAATCAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 27 0.31
42 5 0.06
43 55 0.63
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (43 bp):
AATTGCTCATCTAAACAGAGGCACCACGACTTTTGGAAAAGTA
Found at i:8040085 original size:141 final size:141
Alignment explanation
Indices: 8039801--8040078 Score: 448
Period size: 141 Copynumber: 2.0 Consensus size: 141
8039791 TTTGAAAATA
*
8039801 AATTACTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTATAAACAGAGGCAC
1 AATTACTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTATAAACAGAGGCAC
* *
8039866 CACAACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGAAAAGTAAATTA
66 CACAACTTTTGAAAAGTAAATTGCTCATCTAAACAGAGGCACCATGACTTTGAAAAAGTAAATTA
*
8039931 CTCCTCTAAAC
131 CTCATCTAAAC
* * * *
8039942 AATTACTCATCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAGACAGAGGCAC
1 AATTACTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTATAAACAGAGGCAC
*
8040007 CACGACTTTTGGAAAAGTAAATTGCTCATCTAAACAGAGGCACCATGACTTTTGAAAAAGTAAAT
66 CACAACTTTT-GAAAAGTAAATTGCTCATCTAAACAGAGGCACCATGAC-TTTGAAAAAGTAAAT
*
8040072 TGCTCAT
129 TACTCAT
8040079 TGACAATCAT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
141 69 0.55
142 37 0.30
143 19 0.15
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (141 bp):
AATTACTCATCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTACTCCTATAAACAGAGGCAC
CACAACTTTTGAAAAGTAAATTGCTCATCTAAACAGAGGCACCATGACTTTGAAAAAGTAAATTA
CTCATCTAAAC
Found at i:8046675 original size:23 final size:21
Alignment explanation
Indices: 8046634--8046675 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
8046624 AATATCAAGC
*
8046634 AATCATGCAATAAATATTAAA
1 AATCATGCAATAAAAATTAAA
8046655 AATCATGCCATATAAAAATTA
1 AATCATG-CA-ATAAAAATTA
8046676 TCATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.29
Consensus pattern (21 bp):
AATCATGCAATAAAAATTAAA
Found at i:8046840 original size:18 final size:20
Alignment explanation
Indices: 8046795--8046832 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8046785 CAAATATATT
*
8046795 ATAATATAAAATGCCATGTA
1 ATAATATAAAATACCATGTA
8046815 ATAATATAAAATACCATG
1 ATAATATAAAATACCATG
8046833 CAAATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
ATAATATAAAATACCATGTA
Found at i:8046841 original size:20 final size:20
Alignment explanation
Indices: 8046795--8046843 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
8046785 CAAATATATT
* *
8046795 ATAATATAAAATGCCATGTA
1 ATAATATAAAATACCATGAA
8046815 ATAATATAAAATACCATGCAA
1 ATAATATAAAATACCATG-AA
8046836 AT-ATATAA
1 ATAATATAA
8046844 TCATGAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (20 bp):
ATAATATAAAATACCATGAA
Found at i:8047098 original size:21 final size:21
Alignment explanation
Indices: 8047062--8047191 Score: 128
Period size: 21 Copynumber: 6.3 Consensus size: 21
8047052 TAATCATATG
8047062 ATTAAATATAT-AATCATGCA
1 ATTAAATATATAAATCATGCA
*
8047082 ATTAACA-ATGTAAATCATGCA
1 ATTAA-ATATATAAATCATGCA
8047103 ATTAAATATATAAATCATGCA
1 ATTAAATATATAAATCATGCA
*
8047124 ATTAAATATAT-TATCGA-GCA
1 ATTAAATATATAAATC-ATGCA
* ***
8047144 ATTAACA-ATATAAAACAAATA
1 ATTAA-ATATATAAATCATGCA
*
8047165 AATAAATATAT-AATCATGCA
1 ATTAAATATATAAATCATGCA
8047185 ATTAAAT
1 ATTAAAT
8047192 CGAAATCAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
20 37 0.42
21 52 0.58
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (21 bp):
ATTAAATATATAAATCATGCA
Found at i:8047128 original size:62 final size:61
Alignment explanation
Indices: 8047035--8047191 Score: 174
Period size: 62 Copynumber: 2.6 Consensus size: 61
8047025 ATACAATCAC
* *** *
8047035 ACAAATAAATAAAT-TAATAATCATATGATTAAATATATAATC-ATGCAATTAACAATGTAAA
1 ACAAACAAATAAATAT-ATAATCATGCAATTAAATATATAATCGA-GCAATTAACAATATAAA
* ** * *
8047096 TCATGCAATTAAATATATAAATCATGCAATTAAATATATTATCGAGCAATTAACAATATAAA
1 ACAAACAAATAAATATAT-AATCATGCAATTAAATATATAATCGAGCAATTAACAATATAAA
*
8047158 ACAAATAAATAAATATATAATCATGCAATTAAAT
1 ACAAACAAATAAATATATAATCATGCAATTAAAT
8047192 CGAAATCAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
61 27 0.35
62 50 0.64
63 1 0.01
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (61 bp):
ACAAACAAATAAATATATAATCATGCAATTAAATATATAATCGAGCAATTAACAATATAAA
Found at i:8047155 original size:41 final size:41
Alignment explanation
Indices: 8047065--8047207 Score: 102
Period size: 41 Copynumber: 3.5 Consensus size: 41
8047055 TCATATGATT
*
8047065 AAATATATAATCATGCAATTAACAATGTAAATCATGCAATTA
1 AAATATA-AATCATGCAATTAACAATATAAATCATGCAATTA
*
8047107 AATATATAAATCATGCAATT-A-AATATATTATCGA-GCAATTA
1 AA-ATATAAATCATGCAATTAACAATATA-AATC-ATGCAATTA
* * *
8047148 ACAATATAAAACA---AATAAATAAATATATAATCATGCAATT-
1 A-AATATAAATCATGCAATTAA-CAATATA-AATCATGCAATTA
**
8047188 AAATCGAAATCAATGCAATT
1 AAATATAAATC-ATGCAATT
8047208 TAAATCACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
38 3 0.04
39 8 0.10
40 8 0.10
41 37 0.46
42 16 0.20
43 8 0.10
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.30
Consensus pattern (41 bp):
AAATATAAATCATGCAATTAACAATATAAATCATGCAATTA
Found at i:8047203 original size:20 final size:20
Alignment explanation
Indices: 8047176--8047213 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8047166 ATAAATATAT
8047176 AATCATGCAA-TTAAATCGA
1 AATCATGCAATTTAAATCGA
8047195 AATCAATGCAATTTAAATC
1 AATC-ATGCAATTTAAATC
8047214 ACAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (20 bp):
AATCATGCAATTTAAATCGA
Found at i:8047903 original size:11 final size:11
Alignment explanation
Indices: 8047889--8047973 Score: 73
Period size: 11 Copynumber: 7.5 Consensus size: 11
8047879 AAATAAACAA
8047889 AAAACTAAAA-T
1 AAAA-TAAAATT
*
8047900 AAAATTAAAATC
1 AAAA-TAAAATT
* *
8047912 AAAATTAAACT
1 AAAATAAAATT
*
8047923 AAAATCAAAACT
1 AAAAT-AAAATT
8047935 AAAATACAAATT
1 AAAATA-AAATT
*
8047947 AAAATCAAATT
1 AAAATAAAATT
*
8047958 AAAATCAAATT
1 AAAATAAAATT
8047969 AAAAT
1 AAAAT
8047974 TAAGATAAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
11 40 0.63
12 23 0.37
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:8047908 original size:6 final size:6
Alignment explanation
Indices: 8047889--8047976 Score: 69
Period size: 6 Copynumber: 15.3 Consensus size: 6
8047879 AAATAAACAA
* * * * *
8047889 AAAACT AAAA-T AAAATT AAAATC AAAATT -AAACT AAAATC AAAACT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* *
8047935 AAAA-T ACAAATT AAAA-T CAAATT AAAA-T CAAATT AAAATT AA
1 AAAATT A-AAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
8047977 GATAAGGTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 19 0.29
6 44 0.68
7 2 0.03
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (6 bp):
AAAATT
Found at i:8047909 original size:17 final size:17
Alignment explanation
Indices: 8047895--8047976 Score: 94
Period size: 17 Copynumber: 4.8 Consensus size: 17
8047885 ACAAAAAACT
8047895 AAAATAAAATTAAAATC
1 AAAATAAAATTAAAATC
* *
8047912 AAAATTAAACTAAAATC
1 AAAATAAAATTAAAATC
*
8047929 AAAACTAAAA-TACAAATT
1 AAAA-TAAAATTA-AAATC
*
8047947 AAAATCAAATTAAAATC
1 AAAATAAAATTAAAATC
*
8047964 AAATTAAAATTAA
1 AAAATAAAATTAA
8047977 GATAAGGTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
17 40 0.74
18 14 0.26
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAAAATTAAAATC
Found at i:8048349 original size:45 final size:43
Alignment explanation
Indices: 8048287--8048414 Score: 150
Period size: 44 Copynumber: 2.9 Consensus size: 43
8048277 CCCATTTTCC
* * *
8048287 CCCACAACTAAGACTTTGAAACTTTTGAAAAAAATAAAATGTTC-
1 CCCATAACTAAGGCTTTGAAACTTTTG--GAAAATAAAATGTTCT
* *
8048331 CCCTATAATTAAGGCTTTGAAACTTGTTGGAAAATAAAATATTCT
1 CCC-ATAACTAAGGCTTTGAAACTT-TTGGAAAATAAAATGTTCT
* *
8048376 CCCATAGCTGAGGCTTTGAAACTTTTGGAAAATAAAATG
1 CCCATAACTAAGGCTTTGAAACTTTTGGAAAATAAAATG
8048415 AGATCATTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
43 14 0.19
44 34 0.47
45 21 0.29
46 3 0.04
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (43 bp):
CCCATAACTAAGGCTTTGAAACTTTTGGAAAATAAAATGTTCT
Found at i:8049581 original size:1 final size:1
Alignment explanation
Indices: 8049577--8049661 Score: 62
Period size: 1 Copynumber: 85.0 Consensus size: 1
8049567 TGAGTTTTCA
* ** * * * * * * *
8049577 TTTTTCTTTTTTTTTCCTATTTTTTTTCTTTTTTTTTCTTTTTTTATTTTTTTTCTTTGTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
8049642 TTTTTGTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
8049662 AAGTAATATT
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.86
Consensus pattern (1 bp):
T
Found at i:8049605 original size:22 final size:20
Alignment explanation
Indices: 8049577--8049661 Score: 79
Period size: 22 Copynumber: 4.2 Consensus size: 20
8049567 TGAGTTTTCA
8049577 TTTTTCTTTTTTTTTCCTATTT
1 TTTTTCTTTTTTTTT-CT-TTT
8049599 TTTTTCTTTTTTTTTC--TT
1 TTTTTCTTTTTTTTTCTTTT
*
8049617 TTTTT-ATTTTTTTTCTTTGT
1 TTTTTCTTTTTTTTTCTTT-T
*
8049637 TTTTGT-TTTTGTTTTTATTTT
1 TTTT-TCTTTT-TTTTTCTTTT
8049658 TTTT
1 TTTT
8049662 AAGTAATATT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
17 9 0.16
18 7 0.13
19 1 0.02
20 5 0.09
21 10 0.18
22 23 0.42
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.86
Consensus pattern (20 bp):
TTTTTCTTTTTTTTTCTTTT
Found at i:8049608 original size:27 final size:27
Alignment explanation
Indices: 8049571--8049645 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
8049561 TTACCTTGAG
*
8049571 TTTTCATTTTTCTTTTTTTTTCCTATTTT
1 TTTTC-TTTTT-TTTTCTTTTCCTATTTT
**
8049600 TTTTCTTTTTTTTTCTTTTTTTATTTT
1 TTTTCTTTTTTTTTCTTTTCCTATTTT
* *
8049627 TTTTCTTTGTTTTTGTTTT
1 TTTTCTTTTTTTTTCTTTT
8049646 TGTTTTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 31 0.76
28 5 0.12
29 5 0.12
ACGTcount: A:0.04, C:0.09, G:0.03, T:0.84
Consensus pattern (27 bp):
TTTTCTTTTTTTTTCTTTTCCTATTTT
Found at i:8049614 original size:39 final size:39
Alignment explanation
Indices: 8049570--8049660 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 39
8049560 TTTACCTTGA
*
8049570 GTTTTCATTTTTCTT-TTTTTTTCCTATTTTTTTTCTTTTT
1 GTTTTCATTTTT-TTATTTTTTTCCT-TTGTTTTTCTTTTT
* *
8049610 -TTTTC-TTTTTTTATTTTTTTTCTTTGTTTTTGTTTTT
1 GTTTTCATTTTTTTATTTTTTTCCTTTGTTTTTCTTTTT
*
8049647 GTTTTTATTTTTTT
1 GTTTTCATTTTTTT
8049661 TAAGTAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
37 14 0.32
38 18 0.41
39 12 0.27
ACGTcount: A:0.04, C:0.08, G:0.04, T:0.84
Consensus pattern (39 bp):
GTTTTCATTTTTTTATTTTTTTCCTTTGTTTTTCTTTTT
Found at i:8049646 original size:27 final size:27
Alignment explanation
Indices: 8049594--8049646 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
8049584 TTTTTTTTCC
*
8049594 TATTTTTTTTCTTTTTTTTTCTTTTTT
1 TATTTTTTTTCTTTGTTTTTCTTTTTT
*
8049621 TATTTTTTTTCTTTGTTTTTGTTTTT
1 TATTTTTTTTCTTTGTTTTTCTTTTT
8049647 GTTTTTATTT
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:0.04, C:0.06, G:0.04, T:0.87
Consensus pattern (27 bp):
TATTTTTTTTCTTTGTTTTTCTTTTTT
Found at i:8049657 original size:27 final size:25
Alignment explanation
Indices: 8049596--8049657 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
8049586 TTTTTTCCTA
*
8049596 TTTTTTTTCTTTTTTTTTCTTTTTTT
1 TTTTTTTTCTTTGTTTTTC-TTTTTT
*
8049622 ATTTTTTTTCTTTGTTTTTGTTTTTGT
1 -TTTTTTTTCTTTGTTTTTCTTTTT-T
8049649 TTTTATTTT
1 TTTT-TTTT
8049658 TTTTAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.29
27 22 0.71
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.87
Consensus pattern (25 bp):
TTTTTTTTCTTTGTTTTTCTTTTTT
Found at i:8052263 original size:19 final size:19
Alignment explanation
Indices: 8052235--8052278 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
8052225 CGATAAACGA
*
8052235 ATGATAATGATGATTTATG
1 ATGATAATGATAATTTATG
*
8052254 ATGATGATGATAATTTATG
1 ATGATAATGATAATTTATG
8052273 ATGATA
1 ATGATA
8052279 TTTAATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (19 bp):
ATGATAATGATAATTTATG
Found at i:8068232 original size:26 final size:25
Alignment explanation
Indices: 8068203--8068281 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 25
8068193 ATCAAGCAAT
8068203 CATGCAATAAATATTAAAAATCATAC
1 CATGCAATAAATA-TAAAAATCATAC
* *
8068229 CATGCAA-AAATAT-AAAATTATAT
1 CATGCAATAAATATAAAAATCATAC
*
8068252 CATGCAATCACATCATAAAAATCAT-C
1 CATGCAAT-AAAT-ATAAAAATCATAC
8068278 CATG
1 CATG
8068282 TAAATATACA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
23 15 0.34
24 1 0.02
25 8 0.18
26 13 0.30
27 7 0.16
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.27
Consensus pattern (25 bp):
CATGCAATAAATATAAAAATCATAC
Found at i:8068374 original size:20 final size:20
Alignment explanation
Indices: 8068349--8068395 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
8068339 AATATATTAT
* *
8068349 AATATAAAATGCCATGTAAA
1 AATATAAAATACCATGCAAA
8068369 AATATAAAATACCATGCAAA
1 AATATAAAATACCATGCAAA
*
8068389 TATATAA
1 AATATAA
8068396 TCATAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (20 bp):
AATATAAAATACCATGCAAA
Found at i:8068529 original size:25 final size:24
Alignment explanation
Indices: 8068485--8068531 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
8068475 TATCATTCAA
*
8068485 ATATAATATTAATCATGCAATAAC
1 ATATAATATCAATCATGCAATAAC
8068509 ATATAATATCATATCATGCAATA
1 ATATAATATCA-ATCATGCAATA
8068532 TAAAATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATAATATCAATCATGCAATAAC
Found at i:8068539 original size:15 final size:16
Alignment explanation
Indices: 8068521--8068551 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8068511 ATAATATCAT
8068521 ATCATGCAA-TATAAA
1 ATCATGCAATTATAAA
8068536 ATCATGCAATTATAAA
1 ATCATGCAATTATAAA
8068552 TAAATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (16 bp):
ATCATGCAATTATAAA
Found at i:8068569 original size:12 final size:12
Alignment explanation
Indices: 8068551--8068602 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
8068541 GCAATTATAA
8068551 ATAAATAATTAT
1 ATAAATAATTAT
* *
8068563 GTAAATAAATAT
1 ATAAATAATTAT
* *
8068575 ATTAATAATCAT
1 ATAAATAATTAT
*
8068587 ACAAATAATTAT
1 ATAAATAATTAT
8068599 ATAA
1 ATAA
8068603 TCATAAAATT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAAATAATTAT
Found at i:8068592 original size:20 final size:19
Alignment explanation
Indices: 8068553--8068611 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
8068543 AATTATAAAT
*
8068553 AAATAATTATGTAA--AT-
1 AAATAATTATATAATCATA
8068569 AAATATATTA-ATAATCATA
1 AAATA-ATTATATAATCATA
8068588 CAAATAATTATATAATCATA
1 -AAATAATTATATAATCATA
8068608 AAAT
1 AAAT
8068612 TAACAATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 8 0.22
17 4 0.11
18 2 0.06
19 8 0.22
20 14 0.39
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
AAATAATTATATAATCATA
Found at i:8068641 original size:41 final size:41
Alignment explanation
Indices: 8068596--8068730 Score: 175
Period size: 41 Copynumber: 3.3 Consensus size: 41
8068586 TACAAATAAT
*
8068596 TATATAATCATAAAATTAACAATGTAAAACATGCAATTAAA
1 TATATAATCATAAAATTAACAATATAAAACATGCAATTAAA
* *
8068637 TATATGATCATACAAA-TAA-ATATATAAATCATGCAATTAAA
1 TATATAATCATA-AAATTAACA-ATATAAAACATGCAATTAAA
* * *
8068678 TATATTATCATGAAATTAACAATATAAAACATGTAATTAAA
1 TATATAATCATAAAATTAACAATATAAAACATGCAATTAAA
8068719 TATATAAATCAT
1 TATAT-AATCAT
8068731 GCAATTAAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
40 4 0.05
41 68 0.84
42 9 0.11
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (41 bp):
TATATAATCATAAAATTAACAATATAAAACATGCAATTAAA
Found at i:8068658 original size:20 final size:20
Alignment explanation
Indices: 8068579--8068688 Score: 89
Period size: 20 Copynumber: 5.4 Consensus size: 20
8068569 AAATATATTA
*
8068579 ATAATCATACAAATAATTAT
1 ATAATCATACAAATAAATAT
8068599 ATAATCATA-AAATTAACA-AT
1 ATAATCATACAAA-TAA-ATAT
* * * *
8068619 GTAAAACATGCAATTAAATAT
1 AT-AATCATACAAATAAATAT
*
8068640 ATGATCATACAAATAAATAT
1 ATAATCATACAAATAAATAT
* *
8068660 ATAAATCATGCAATTAAATAT
1 AT-AATCATACAAATAAATAT
*
8068681 ATTATCAT
1 ATAATCAT
8068689 GAAATTAACA
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
19 3 0.04
20 37 0.53
21 28 0.40
22 2 0.03
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATCATACAAATAAATAT
Found at i:8068694 original size:82 final size:86
Alignment explanation
Indices: 8068527--8068742 Score: 244
Period size: 82 Copynumber: 2.5 Consensus size: 86
8068517 TCATATCATG
* * **
8068527 CAATATAAAATCATGCAATTATAA-ATAAATAATTATGTAAATAAATATATTAATAATCATACAA
1 CAATATAAAA-CATGCAATTA-AATATATA-AATCATACAAATAAATATATTAATAATCATACAA
*
8068591 ATAATTATATAATCATAAAATTAA
63 ATAAATATATAATCATAAAATTAA
* * * *
8068615 CAATGTAAAACATGCAATTAAATATAT-GATCATACAAATAAATATA-T-A-AATCATGCAATTA
1 CAATATAAAACATGCAATTAAATATATAAATCATACAAATAAATATATTAATAATCATACAAATA
* *
8068676 AATATATTATCATGAAATTAA
66 AATATATAATCATAAAATTAA
* * *
8068697 CAATATAAAACATGTAATTAAATATATAAATCATGCAATTAAATAT
1 CAATATAAAACATGCAATTAAATATATAAATCATACAAATAAATAT
8068743 GTTATTATGC
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
82 54 0.49
83 16 0.15
84 1 0.01
85 15 0.14
86 2 0.02
87 13 0.12
88 9 0.08
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (86 bp):
CAATATAAAACATGCAATTAAATATATAAATCATACAAATAAATATATTAATAATCATACAAATA
AATATATAATCATAAAATTAA
Found at i:8068719 original size:62 final size:62
Alignment explanation
Indices: 8068649--8068799 Score: 232
Period size: 62 Copynumber: 2.5 Consensus size: 62
8068639 TATGATCATA
*
8068649 CAAATAAATATATAAATCATGCAATTAAATATATTATCATGAAATTAACAATATAAAACATG
1 CAAATAAATATATAAATCATGCAATTAAATATATTATCATGAAATTAACAATATAAAACAAG
* * * * *
8068711 TAATTAAATATATAAATCATGCAATTAAATATGTTATTATGCAATTAACAATATAAAACAAG
1 CAAATAAATATATAAATCATGCAATTAAATATATTATCATGAAATTAACAATATAAAACAAG
*
8068773 CAAATAAATATAT-AATCATGTAATTAA
1 CAAATAAATATATAAATCATGCAATTAA
8068800 TCTAAATCAA
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
61 13 0.16
62 67 0.84
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (62 bp):
CAAATAAATATATAAATCATGCAATTAAATATATTATCATGAAATTAACAATATAAAACAAG
Found at i:8068757 original size:41 final size:39
Alignment explanation
Indices: 8068476--8068799 Score: 142
Period size: 41 Copynumber: 7.8 Consensus size: 39
8068466 GCCATTAGAT
* *
8068476 ATCATTCAAATATAATATTAATCATGCAATAACATATAATATCA
1 ATCATGCAAATA-AATATTAATCATGCAATTA-A-AT-ATAT-A
* *
8068520 TATCATGC-AAT--ATA-AAATCATGCAATTATAAATAAATA
1 -ATCATGCAAATAAATATTAATCATGCAA-T-TAAATATATA
* * * * *
8068558 ATTATGTAAATAAATATATTAATAATCATACAAATAATTATATA
1 ATCATGCAAAT-AA-ATA-T--TAATCATGCAATTAAATATATA
* * *
8068602 ATCAT-AAAATTAACA-ATGTAAAACATGCAATTAAATATATG
1 ATCATGCAAA-TAA-ATAT-T-AATCATGCAATTAAATATATA
* *
8068643 ATCATACAAATAAATATATAAATCATGCAATTAAATATATT
1 ATCATGCAAATAAATAT-T-AATCATGCAATTAAATATATA
* * *
8068684 ATCATG-AAATTAACAATATAAAACATGTAATTAAATATATAA
1 ATCATGCAAA-T-A-AATATTAATCATGCAATTAAATATAT-A
* * *
8068726 ATCATGCAATTAAATATGTTATTATGCAATTAACA-ATATAA
1 ATCATGCAAATAAATAT-TAATCATGCAATTAA-ATATAT-A
* * *
8068767 AACAAGCAAATAAATATATAATCATGTAATTAA
1 ATCATGCAAATAAATAT-TAATCATGCAATTAA
8068800 TCTAAATCAA
Statistics
Matches: 215, Mismatches: 42, Indels: 48
0.70 0.14 0.16
Matches are distributed among these distances:
37 5 0.02
38 4 0.02
39 3 0.01
40 22 0.10
41 120 0.56
42 17 0.08
43 13 0.06
44 16 0.07
45 6 0.03
46 9 0.04
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (39 bp):
ATCATGCAAATAAATATTAATCATGCAATTAAATATATA
Found at i:8069442 original size:12 final size:12
Alignment explanation
Indices: 8069422--8069460 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8069412 AATCGATATC
*
8069422 AAACAAAAATCA
1 AAACTAAAATCA
*
8069434 AAACTAAAATCC
1 AAACTAAAATCA
*
8069446 AAATTAAAATCA
1 AAACTAAAATCA
8069458 AAA
1 AAA
8069461 TTATAATTAA
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:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (12 bp):
AAACTAAAATCA
Found at i:8069461 original size:12 final size:12
Alignment explanation
Indices: 8069427--8069463 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8069417 ATATCAAACA
*
8069427 AAAATCAAAACT
1 AAAATCAAAATT
*
8069439 AAAATCCAAATT
1 AAAATCAAAATT
8069451 AAAATCAAAATT
1 AAAATCAAAATT
8069463 A
1 A
8069464 TAATTAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATCAAAATT
Found at i:8070121 original size:17 final size:17
Alignment explanation
Indices: 8070099--8070141 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
8070089 CTAGCACCCA
*
8070099 CAAGCCTCCATTGGTGC
1 CAAGCCACCATTGGTGC
8070116 CAAGCCACCATTGGTGC
1 CAAGCCACCATTGGTGC
8070133 CAAGCCACC
1 CAAGCCACC
8070142 CTAGCTTGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.40, G:0.21, T:0.16
Consensus pattern (17 bp):
CAAGCCACCATTGGTGC
Found at i:8077844 original size:16 final size:16
Alignment explanation
Indices: 8077814--8077858 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
8077804 ATTAAATTAA
8077814 TAAAA-TTA-TTT-TT
1 TAAAATTTATTTTATT
8077827 TAAAATTTATTTTATT
1 TAAAATTTATTTTATT
**
8077843 TATTATTTATTTTATT
1 TAAAATTTATTTTATT
8077859 ATAATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 3 0.11
16 16 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TAAAATTTATTTTATT
Found at i:8077882 original size:13 final size:13
Alignment explanation
Indices: 8077864--8077888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8077854 TTATTATAAT
8077864 TAAAATTATATTA
1 TAAAATTATATTA
8077877 TAAAATTATATT
1 TAAAATTATATT
8077889 TATTTTTTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAATTATATTA
Found at i:8079066 original size:3 final size:3
Alignment explanation
Indices: 8079060--8079121 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
8079050 CAACAACAAC
8079060 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8079108 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
8079122 GATATTCTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8079419 original size:2 final size:2
Alignment explanation
Indices: 8079412--8079444 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8079402 AGTCAAGTTT
8079412 TA TA TA TA 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 TA TA TA TA T
8079445 TAATTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8081683 original size:3 final size:3
Alignment explanation
Indices: 8081675--8081721 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
8081665 TATTTTGTTT
8081675 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8081722 TTAATTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8081832 original size:13 final size:14
Alignment explanation
Indices: 8081814--8081845 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8081804 TATATACGAT
8081814 AAAAATT-ATTTAC
1 AAAAATTAATTTAC
8081827 AAAAATTAATTTAC
1 AAAAATTAATTTAC
8081841 AAAAA
1 AAAAA
8081846 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATTAATTTAC
Found at i:8085894 original size:34 final size:33
Alignment explanation
Indices: 8085856--8085928 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
8085846 TAACGGCTTT
* *
8085856 TTTTTTTCTATAAATGCCATTAAATTTAATGACA
1 TTTTTTACTAT-AACGCCATTAAATTTAATGACA
* * **
8085890 TTTTTCAGTATAACGCTGTTAAATTTAATGACA
1 TTTTTTACTATAACGCCATTAAATTTAATGACA
8085923 TTTTTT
1 TTTTTT
8085929 GTCAAAACAC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
33 24 0.75
34 8 0.25
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (33 bp):
TTTTTTACTATAACGCCATTAAATTTAATGACA
Found at i:8091431 original size:24 final size:24
Alignment explanation
Indices: 8091398--8091463 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 24
8091388 AAATGTTGAC
8091398 AAACTTTACAAAGTAATTAATTAA
1 AAACTTTACAAAGTAATTAATTAA
* *
8091422 AAACTCTAC-AA-TTATT--TT-A
1 AAACTTTACAAAGTAATTAATTAA
*
8091441 AGACTTTACAAAGTAATTAATTA
1 AAACTTTACAAAGTAATTAATTA
8091464 TATAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
19 8 0.25
20 4 0.12
21 4 0.12
22 4 0.12
23 4 0.12
24 8 0.25
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (24 bp):
AAACTTTACAAAGTAATTAATTAA
Found at i:8095722 original size:21 final size:21
Alignment explanation
Indices: 8095684--8095731 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8095674 ATTTTTCTTA
*
8095684 TATTAATGTTAATGTTAATAT
1 TATTAATGTTAATATTAATAT
* *
8095705 TATTATTGTTATTATTAAT-T
1 TATTAATGTTAATATTAATAT
*
8095725 AATTAAT
1 TATTAAT
8095732 TAATTAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TATTAATGTTAATATTAATAT
Found at i:8096540 original size:11 final size:11
Alignment explanation
Indices: 8096526--8096591 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
8096516 TTTCTTCTCT
8096526 TTTTATTTTTA
1 TTTTATTTTTA
*
8096537 TTTTCTGTTTTGA
1 TTTTAT-TTTT-A
*
8096550 TTTTGATTTTGA
1 TTTT-ATTTTTA
8096562 -TTTA-TTTTA
1 TTTTATTTTTA
*
8096571 TGTTATTTTTA
1 TTTTATTTTTA
*
8096582 TGTTATTTTT
1 TTTTATTTTT
8096592 TATAATAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 23 0.51
12 5 0.11
13 8 0.18
14 1 0.02
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:8096542 original size:19 final size:19
Alignment explanation
Indices: 8096520--8096559 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8096510 AAGTTTTTTC
* *
8096520 TTCTCTTTTTATTTTTATT
1 TTCTCTTTTGATTTTGATT
*
8096539 TTCTGTTTTGATTTTGATT
1 TTCTCTTTTGATTTTGATT
8096558 TT
1 TT
8096560 GATTTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.75
Consensus pattern (19 bp):
TTCTCTTTTGATTTTGATT
Found at i:8096910 original size:14 final size:13
Alignment explanation
Indices: 8096873--8096915 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
8096863 AATAAAATAA
* *
8096873 AAATAAATTGTTT
1 AAATGAATTTTTT
8096886 AAATGAATTTTTT
1 AAATGAATTTTTT
8096899 AAATGTAATTTTTT
1 AAATG-AATTTTTT
8096913 AAA
1 AAA
8096916 AAAGCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (13 bp):
AAATGAATTTTTT
Found at i:8097380 original size:49 final size:51
Alignment explanation
Indices: 8097319--8097421 Score: 129
Period size: 51 Copynumber: 2.1 Consensus size: 51
8097309 CCAAAATTGA
* * **
8097319 GATAATCCTAAAACTT-GTTCA-AAATTTTAGGATTTCACCAAAGAGTCGG
1 GATAATCCTAAAACTTAGTTAATAAATTTTAGAAACTCACCAAAGAGTCGG
* * *
8097368 GATAATCTTAAAATTTATTTAATAAATTTTAGAAACTCACCAAAGAGTCGG
1 GATAATCCTAAAACTTAGTTAATAAATTTTAGAAACTCACCAAAGAGTCGG
8097419 GAT
1 GAT
8097422 GTCCCTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 14 0.31
50 3 0.07
51 28 0.62
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (51 bp):
GATAATCCTAAAACTTAGTTAATAAATTTTAGAAACTCACCAAAGAGTCGG
Found at i:8109189 original size:40 final size:40
Alignment explanation
Indices: 8109134--8109220 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
8109124 GCCTTTTAGA
* *
8109134 TTTTTAACATTTAAAGTTCATTGCCTCTAGTCATAGGAGC
1 TTTTTAACATTTAAAGTTCATTGCCTCTAGTCAGAGAAGC
** *
8109174 TTTTTAACATTTAAAGTTTGTTGCCTCTGGTCAGAGAAGC
1 TTTTTAACATTTAAAGTTCATTGCCTCTAGTCAGAGAAGC
8109214 TTTTTAA
1 TTTTTAA
8109221 TTTTAAGAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (40 bp):
TTTTTAACATTTAAAGTTCATTGCCTCTAGTCAGAGAAGC
Found at i:8109525 original size:39 final size:38
Alignment explanation
Indices: 8109306--8109670 Score: 282
Period size: 39 Copynumber: 9.4 Consensus size: 38
8109296 TCCTCTCAGA
*
8109306 TTTTT-AATTTAAAGTTTGTTGCCTTTAGTTAAAGGAGC
1 TTTTTAAATTTAAAGTTTGTTGCCTTTGGTTAAA-GAGC
* ** *
8109344 ------CATTTAAAGTTCATTGCCTTTGGTCAGAAGAGGC
1 TTTTTAAATTTAAAGTTTGTTGCCTTTGGTTA-AAGA-GC
*
8109378 -TTTTAATATTTAAAGTTTGTTACCTTTGGTTAAAGAAGC
1 TTTTTAA-ATTTAAAGTTTGTTGCCTTTGGTTAAAG-AGC
* ** *
8109417 TCTTTTGAACCTAAAGTTTGTTGCCTCTT-GTGAAAAGAGC
1 T-TTTTAAATTTAAAGTTTGTTGCCT-TTGGT-TAAAGAGC
** * *
8109457 TTTTTAACATTTAAAGTTCATTGTCTTTAGTTAAATGAGC
1 TTTTTAA-ATTTAAAGTTTGTTGCCTTTGGTTAAA-GAGC
* *
8109497 TTTTTAAATTTAAAGTTTGTTGCTTTTAGTTAAAGGAGC
1 TTTTTAAATTTAAAGTTTGTTGCCTTTGGTTAAA-GAGC
* * * * *
8109536 TTTTGAAATTTTAAGTTTGTTGCCTCTGGTGAGAAAAGC
1 TTTTTAAATTTAAAGTTTGTTGCCTTTGGTTA-AAGAGC
* * * *
8109575 TTTTTAACATTTAAAGTTCGTTGCCTCTGGTGAGATGAGC
1 TTTTTAA-ATTTAAAGTTTGTTGCCTTTGGTTA-AAGAGC
8109615 -TTTTAGAATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGC
1 TTTTTA-AATTTAAAGTTTGTTGCCTTTGGTTAAAG-AGC
*
8109654 TTTTTGAATTTAAAGTT
1 TTTTTAAATTTAAAGTT
8109671 CATTACCTCT
Statistics
Matches: 262, Mismatches: 44, Indels: 41
0.76 0.13 0.12
Matches are distributed among these distances:
33 23 0.09
34 4 0.02
38 2 0.01
39 118 0.45
40 104 0.40
41 11 0.04
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (38 bp):
TTTTTAAATTTAAAGTTTGTTGCCTTTGGTTAAAGAGC
Found at i:8109536 original size:79 final size:76
Alignment explanation
Indices: 8109378--8109670 Score: 273
Period size: 79 Copynumber: 3.7 Consensus size: 76
8109368 CAGAAGAGGC
* * **
8109378 TTTTAATATTTAAAGTTTGTTACCTTTGGTTAAAGAAGCTCTTTTGAACCTAAAGTTTGTTGCCT
1 TTTTAA-ATTTAAAGTTTGTTGCCTTTGGTTAAAG-AGCT-TTTTAAATTTAAAGTTTGTTG-CT
*
8109443 CTTGTGAAAAGAGCT
62 TTTGTGAAAAGAGCT
** * *
8109458 TTTTAACATTTAAAGTTCATTGTCTTTAGTTAAATGAGCTTTTTAAATTTAAAGTTTGTTGCTTT
1 TTTTAA-ATTTAAAGTTTGTTGCCTTTGGTTAAA-GAGCTTTTTAAATTTAAAGTTTGTTGCTTT
* *
8109523 TAGTTAAAGGAGCT
64 T-GTGAAAAGAGCT
* * * * * * *
8109537 TTTGAAATTTTAAGTTTGTTGCCTCTGGTGAGAAAAGCTTTTTAACATTTAAAGTTCGTTGCCTC
1 TTTTAAATTTAAAGTTTGTTGCCTTTGGTTA-AAGAGCTTTTTAA-ATTTAAAGTTTGTTG-CTT
* * *
8109602 TGGTGAGATGAGC-
63 TTGTGAAAAGAGCT
*
8109615 TTTTAGAATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCTTTTTGAATTTAAAGTT
1 TTTTA-AATTTAAAGTTTGTTGCCTTTGGTTAAAG-AGCTTTTTAAATTTAAAGTT
8109671 CATTACCTCT
Statistics
Matches: 173, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
78 48 0.28
79 89 0.51
80 35 0.20
81 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.44
Consensus pattern (76 bp):
TTTTAAATTTAAAGTTTGTTGCCTTTGGTTAAAGAGCTTTTTAAATTTAAAGTTTGTTGCTTTTG
TGAAAAGAGCT
Found at i:8109694 original size:39 final size:39
Alignment explanation
Indices: 8109345--8109709 Score: 239
Period size: 39 Copynumber: 9.3 Consensus size: 39
8109335 TAAAGGAGCC
* * * * *
8109345 ATTTAAAGTTCATTGCCTTTGGTCAGAAGAGGC-TTTTAA
1 ATTTAAAGTTCGTTGCCTCTGGTGAGAGGA-GCTTTTTGA
* * * * * *
8109384 TATTTAAAGTTTGTTACCTTTGGTTAAAGAAGCTCTTTTGA
1 -ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCT-TTTTGA
** * * * * *
8109425 ACCTAAAGTTTGTTGCCTCTTGTGAAAAGAGCTTTTTAA
1 ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCTTTTTGA
* * * * * * * *
8109464 CATTTAAAGTTCATTGTCTTTAGTTAAATGAGCTTTTTAA
1 -ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCTTTTTGA
* * * * * *
8109504 ATTTAAAGTTTGTTGCTTTTAGTTAAAGGAGC-TTTTGAA
1 ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCTTTTTG-A
* * ** *
8109543 ATTTTAAGTTTGTTGCCTCTGGTGAGAAAAGCTTTTTAA
1 ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCTTTTTGA
* *
8109582 CATTTAAAGTTCGTTGCCTCTGGTGAGATGAGCTTTTAGA
1 -ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCTTTTTGA
* * * * *
8109622 ATTTAAAGTTTGTTGCCTTTGGTTAAAGAAGCTTTTTGA
1 ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCTTTTTGA
* * *
8109661 ATTTAAAGTTCATTACCTCTGATGAGAGGAGCTTTTTGA
1 ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCTTTTTGA
8109700 ATTTAAAGTT
1 ATTTAAAGTT
8109710 TCATAACCTC
Statistics
Matches: 257, Mismatches: 62, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
38 4 0.02
39 133 0.52
40 115 0.45
41 5 0.02
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (39 bp):
ATTTAAAGTTCGTTGCCTCTGGTGAGAGGAGCTTTTTGA
Found at i:8109721 original size:118 final size:116
Alignment explanation
Indices: 8109344--8109709 Score: 430
Period size: 118 Copynumber: 3.1 Consensus size: 116
8109334 TTAAAGGAGC
* * *
8109344 CATTTAAAGTTCATTGCCTTTGGTCAGAAGAGGCTTTTAATATTTAAAGTTTGTTACCTTTGGTT
1 CATTTAAAGTTCATTGCCTCTGGTCAGATGA-GCTTTTAA-ATTTAAAGTTTGTTGCCTTTGGTT
** *
8109409 AAAGAAGCTCTTTTGAACCTAAAGTTTGTTGCCTCTTGTGAAAAGAGCTTTTTAA
64 AAAGAAGCT-TTTTGAATTTAAAGTTTGTTGCCTC-TGTGAGAAGAGCTTTTTAA
* * * * * * *
8109464 CATTTAAAGTTCATTGTCTTTAGTTAAATGAGCTTTTTAAATTTAAAGTTTGTTGCTTTTAGTTA
1 CATTTAAAGTTCATTGCCTCTGGTCAGATGAGC-TTTTAAATTTAAAGTTTGTTGCCTTTGGTTA
* * *
8109529 AAGGAGC-TTTTGAAATTTTAAGTTTGTTGCCTCTGGTGAGAAAAGCTTTTTAA
65 AAGAAGCTTTTTG-AATTTAAAGTTTGTTGCCTCT-GTGAGAAGAGCTTTTTAA
* *
8109582 CATTTAAAGTTCGTTGCCTCTGGTGAGATGAGCTTTTAGAATTTAAAGTTTGTTGCCTTTGGTTA
1 CATTTAAAGTTCATTGCCTCTGGTCAGATGAGCTTTTA-AATTTAAAGTTTGTTGCCTTTGGTTA
** * * *
8109647 AAGAAGCTTTTTGAATTTAAAGTTCATTACCTCTGATGAGAGGAGCTTTTTGA
65 AAGAAGCTTTTTGAATTTAAAGTTTGTTGCCTCTG-TGAGAAGAGCTTTTTAA
8109700 -ATTTAAAGTT
1 CATTTAAAGTT
8109710 TCATAACCTC
Statistics
Matches: 210, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
117 22 0.10
118 121 0.58
119 35 0.17
120 32 0.15
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (116 bp):
CATTTAAAGTTCATTGCCTCTGGTCAGATGAGCTTTTAAATTTAAAGTTTGTTGCCTTTGGTTAA
AGAAGCTTTTTGAATTTAAAGTTTGTTGCCTCTGTGAGAAGAGCTTTTTAA
Found at i:8109729 original size:40 final size:40
Alignment explanation
Indices: 8109572--8109732 Score: 148
Period size: 39 Copynumber: 4.1 Consensus size: 40
8109562 TGGTGAGAAA
* * * * * *
8109572 AGCTTTTTAACATTTAAAG-TTCGTTGCCTCTGGTGAGATG
1 AGCTTTTTGA-ATTTAAAGTTTCATTACCTCTGATTAGAGG
* * * * * * *
8109612 AGCTTTTAGAATTTAAAGTTT-GTTGCCTTTGGTTAAAGA
1 AGCTTTTTGAATTTAAAGTTTCATTACCTCTGATTAGAGG
*
8109651 AGCTTTTTGAATTTAAAG-TTCATTACCTCTGATGAGAGG
1 AGCTTTTTGAATTTAAAGTTTCATTACCTCTGATTAGAGG
* *
8109690 AGCTTTTTGAATTTAAAGTTTCATAACCTCTGTTTAGAGG
1 AGCTTTTTGAATTTAAAGTTTCATTACCTCTGATTAGAGG
8109730 AGC
1 AGC
8109733 CTTTCAAATT
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 2 0.02
39 67 0.67
40 31 0.31
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (40 bp):
AGCTTTTTGAATTTAAAGTTTCATTACCTCTGATTAGAGG
Found at i:8109743 original size:40 final size:39
Alignment explanation
Indices: 8109660--8109743 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
8109650 AAGCTTTTTG
* * **
8109660 AATTTAAAGTTCATTACCTCTGATGAGAGGAGCTTTTTG
1 AATTTAAAGTTCATAACCTCTGATGAGAGGAGCCTTTCA
* *
8109699 AATTTAAAGTTTCATAACCTCTGTTTAGAGGAGCCTTTCA
1 AATTTAAAG-TTCATAACCTCTGATGAGAGGAGCCTTTCA
8109739 AATTT
1 AATTT
8109744 TTTTTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
39 9 0.24
40 29 0.76
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (39 bp):
AATTTAAAGTTCATAACCTCTGATGAGAGGAGCCTTTCA
Found at i:8109913 original size:6 final size:6
Alignment explanation
Indices: 8109902--8109931 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
8109892 AATTTTTCTT
8109902 ATATTA ATATTA ATATTA ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA
8109932 TTAAGTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:8109946 original size:12 final size:12
Alignment explanation
Indices: 8109931--8109955 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8109921 TATTAATATT
8109931 ATTAAGTAATTA
1 ATTAAGTAATTA
8109943 ATTAAGTAATTA
1 ATTAAGTAATTA
8109955 A
1 A
8109956 AAAAAAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTAAGTAATTA
Found at i:8110825 original size:15 final size:14
Alignment explanation
Indices: 8110805--8110836 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
8110795 TTTTTTATAA
8110805 TATTATTGTTATTGT
1 TATTATTGTTATT-T
8110820 TATTATTGTTATTT
1 TATTATTGTTATTT
8110834 TAT
1 TAT
8110837 GTTGTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (14 bp):
TATTATTGTTATTT
Found at i:8111064 original size:17 final size:17
Alignment explanation
Indices: 8111044--8111092 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
8111034 ATTTTTGCTA
8111044 AAAAAATAATAAATTAT
1 AAAAAATAATAAATTAT
*
8111061 AAAAAATGATAAA-TA-
1 AAAAAATAATAAATTAT
8111076 AAATAAA-AATAAATTAT
1 AAA-AAATAATAAATTAT
8111093 TTAAATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 8 0.30
16 7 0.26
17 12 0.44
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAAAATAATAAATTAT
Found at i:8111067 original size:10 final size:11
Alignment explanation
Indices: 8111051--8111092 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8111041 CTAAAAAAAT
8111051 AATAAATTATA
1 AATAAATTATA
*
8111062 AA-AAATGATA
1 AATAAATTATA
* *
8111072 AATAAAATAAA
1 AATAAATTATA
8111083 AATAAATTAT
1 AATAAATTAT
8111093 TTAAATGAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
AATAAATTATA
Found at i:8112193 original size:26 final size:23
Alignment explanation
Indices: 8112161--8112207 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 23
8112151 TATATATTAA
8112161 TAATGAATCAAATGATATAATTTTAT
1 TAATGAAT-AAAT-AT-TAATTTTAT
8112187 TAATGAATAAATATTAATTTT
1 TAATGAATAAATATTAATTTT
8112208 TAAAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 2 0.10
25 4 0.19
26 8 0.38
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (23 bp):
TAATGAATAAATATTAATTTTAT
Found at i:8112896 original size:29 final size:27
Alignment explanation
Indices: 8112851--8112907 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 27
8112841 GTATATAAAT
8112851 TAATTAAATGAACAATTTCAAAAACAAAA
1 TAATTAAATGAACAATTT-AAAAA-AAAA
*
8112880 TAATTAAATGAAGAATTTAAAAAAAAA
1 TAATTAAATGAACAATTTAAAAAAAAA
8112907 T
1 T
8112908 TGAACCAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
28 5 0.19
29 17 0.63
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (27 bp):
TAATTAAATGAACAATTTAAAAAAAAA
Found at i:8118574 original size:15 final size:15
Alignment explanation
Indices: 8118554--8118593 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
8118544 CAATAAGGTC
*
8118554 TGGGCCTAAGCCCAT
1 TGGGCCCAAGCCCAT
8118569 TGGGCCCAAGCCCAT
1 TGGGCCCAAGCCCAT
8118584 TGGGCCCAAG
1 TGGGCCCAAG
8118594 TCAATGGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (15 bp):
TGGGCCCAAGCCCAT
Found at i:8118648 original size:18 final size:18
Alignment explanation
Indices: 8118625--8118708 Score: 58
Period size: 18 Copynumber: 4.8 Consensus size: 18
8118615 GGCCCCATTG
8118625 TTTATTATTTTATTTTAT
1 TTTATTATTTTATTTTAT
*
8118643 TTTA-T-TTTGATTCTTAT
1 TTTATTATTTTATT-TTAT
8118660 TCTTA-T-TTTTATTTT-T
1 T-TTATTATTTTATTTTAT
8118676 ATTT-TTATTTT-TTATTA-
1 -TTTATTATTTTATT-TTAT
8118693 TTTATTTATTTTATTT
1 TTTA-TTATTTTATTT
8118709 AAGATACGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
16 15 0.28
17 15 0.28
18 22 0.41
19 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.77
Consensus pattern (18 bp):
TTTATTATTTTATTTTAT
Found at i:8118663 original size:6 final size:5
Alignment explanation
Indices: 8118629--8118708 Score: 76
Period size: 5 Copynumber: 15.2 Consensus size: 5
8118619 CCATTGTTTA
8118629 TTATT TTATT TTATT TTATT TTGATT CTTATT CTTATTT TTATTT TTATTT
1 TTATT TTATT TTATT TTATT TT-ATT -TTATT -TTA-TT TTA-TT TTA-TT
8118680 TTATT TT-TT ATTA-T TTA-T TTATT TTATT T
1 TTATT TTATT -TTATT TTATT TTATT TTATT T
8118709 AAGATACGAG
Statistics
Matches: 69, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
4 9 0.13
5 31 0.45
6 25 0.36
7 4 0.06
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:8122053 original size:54 final size:54
Alignment explanation
Indices: 8121988--8122094 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
8121978 TTTTAAAACA
* *
8121988 AAAAAAAAAGAAAAAAAATCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATT
1 AAAAAAAAAGAAAAAAAATCTAAATAGACCCAAATGGTGAAAAATTTAGAAATT
* ** * * *
8122042 AAAAAAAAAGAAAATATTTCTAAATTGACCTAAATGTTGAAAAATTTAGAAAT
1 AAAAAAAAAGAAAAAAAATCTAAATAGACCCAAATGGTGAAAAATTTAGAAAT
8122095 CCAACAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (54 bp):
AAAAAAAAAGAAAAAAAATCTAAATAGACCCAAATGGTGAAAAATTTAGAAATT
Found at i:8122104 original size:54 final size:54
Alignment explanation
Indices: 8121988--8122106 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
8121978 TTTTAAAACA
* * *
8121988 AAAAAAAAAGAAAAAAAATCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATT
1 AAAAAAAAAGAAAAAAAATCTAAATAGACCCAAATGGTGAAAAATTTAGAAATC
* ** * * *
8122042 AAAAAAAAAGAAAATATTTCTAAATTGACCTAAATGTTGAAAAATTTAGAAATCC
1 AAAAAAAAAGAAAAAAAATCTAAATAGACCCAAATGGTGAAAAATTTAGAAAT-C
8122097 AACAAAAAAA
1 AA-AAAAAAA
8122107 ATAAAAGAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 45 0.83
55 2 0.04
56 7 0.13
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (54 bp):
AAAAAAAAAGAAAAAAAATCTAAATAGACCCAAATGGTGAAAAATTTAGAAATC
Found at i:8123010 original size:10 final size:10
Alignment explanation
Indices: 8122995--8123022 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
8122985 CCTTATTAGT
8122995 CTATGATGGA
1 CTATGATGGA
8123005 CTATGATGGA
1 CTATGATGGA
8123015 CTATGATG
1 CTATGATG
8123023 TAAAGAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (10 bp):
CTATGATGGA
Found at i:8126206 original size:8 final size:7
Alignment explanation
Indices: 8126179--8126250 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
8126169 CAATAATACG
8126179 AGAAAAA
1 AGAAAAA
*
8126186 TGAAAGAA
1 AGAAA-AA
8126194 AGAAAAA
1 AGAAAAA
8126201 AGGAAAAA
1 A-GAAAAA
*
8126209 ATAAAAA
1 AGAAAAA
8126216 A-ATAAAA
1 AGA-AAAA
8126223 A-AAATAA
1 AGAAA-AA
8126230 A-AAAAA
1 AGAAAAA
*
8126236 TGAAAAA
1 AGAAAAA
*
8126243 ATAAAAA
1 AGAAAAA
8126250 A
1 A
8126251 TAGGTAGTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
6 5 0.09
7 36 0.67
8 13 0.24
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (7 bp):
AGAAAAA
Found at i:8126216 original size:17 final size:16
Alignment explanation
Indices: 8126196--8126250 Score: 74
Period size: 17 Copynumber: 3.3 Consensus size: 16
8126186 TGAAAGAAAG
*
8126196 AAAAAAGGAAAAAATA
1 AAAAAAAGAAAAAATA
*
8126212 AAAAAATAAAAAAAATA
1 AAAAAA-AGAAAAAATA
8126229 AAAAAAATGAAAAAATA
1 AAAAAAA-GAAAAAATA
8126246 AAAAA
1 AAAAA
8126251 TAGGTAGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 7 0.21
17 27 0.79
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.09
Consensus pattern (16 bp):
AAAAAAAGAAAAAATA
Found at i:8126217 original size:10 final size:9
Alignment explanation
Indices: 8126204--8126250 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
8126194 AGAAAAAAGG
8126204 AAAAAAT-A
1 AAAAAATAA
8126212 AAAAAATAA
1 AAAAAATAA
8126221 AAAAAATAA
1 AAAAAATAA
*
8126230 AAAAAAT-G
1 AAAAAATAA
8126238 AAAAAATAA
1 AAAAAATAA
8126247 AAAA
1 AAAA
8126251 TAGGTAGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
8 14 0.40
9 21 0.60
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:8127360 original size:57 final size:57
Alignment explanation
Indices: 8127275--8127551 Score: 237
Period size: 57 Copynumber: 4.8 Consensus size: 57
8127265 AAAAATAAAT
*
8127275 AAAGAGAAAATATTTCTAAATTA-ACCCAAATGGTGGAAAATTTAGAAATCAAACAAAAA
1 AAAGAG-AAA-ATTTCTAAA-TAGGCCCAAATGGTGGAAAATTTAGAAATCAAACAAAAA
* * **
8127334 AAAGAGAGAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAAT--TTCAAAAA
1 AAAGAGAAAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATCAAACAAAAA
* * * * *
8127389 AAA-AGAAAATACTTCTAAAT-GACCCAGATAGT-GAAAATTTTAAAAATCCAACAAAAA
1 AAAGAGAAAAT--TTCTAAATAGGCCCAAATGGTGGAAAA-TTTAGAAATCAAACAAAAA
* * ** *
8127446 AAAGA-AATTATTTCTAAATAGGCTCAAATGGTGG-AAATTTAGAAGCCTAAAAAAAATA
1 AAAGAGAA-AATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATC-AAACAAAA-A
* * * *
8127504 AATAAAGAAAATTTCTAAATAGGCCTAAATGGTGAAAAATTTAAAAAT
1 AA-AGAGAAAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAAT
8127552 TCCAAAAGAG
Statistics
Matches: 172, Mismatches: 31, Indels: 29
0.74 0.13 0.12
Matches are distributed among these distances:
54 10 0.06
55 26 0.15
56 25 0.15
57 61 0.35
58 9 0.05
59 30 0.17
60 11 0.06
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.24
Consensus pattern (57 bp):
AAAGAGAAAATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATCAAACAAAAA
Found at i:8127443 original size:112 final size:112
Alignment explanation
Indices: 8127279--8127489 Score: 291
Period size: 112 Copynumber: 1.9 Consensus size: 112
8127269 ATAAATAAAG
* * * *
8127279 AGAAAATATTTCTAAATTAACCCAAATGGTGGAAAATTTAGAAATCAAACAAAAAAAAGAGAGAA
1 AGAAAATACTTCTAAATTAACCCAAATAGTGGAAAATTTAAAAATCAAACAAAAAAAAGAAAGAA
8127344 TTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCAAAAAAAA
66 TTTCTAAATAGGCCCAAATGGTG-AAAATTTAGAAATTTCAAAAAAAA
* * * **
8127392 AGAAAATACTTCTAAA-TGACCCAGATAGT-GAAAATTTTAAAAATCCAACAAAAAAAAGAAATT
1 AGAAAATACTTCTAAATTAACCCAAATAGTGGAAAA-TTTAAAAATCAAACAAAAAAAAGAAAGA
* *
8127455 ATTTCTAAATAGGCTCAAATGGTGGAAATTTAGAA
65 ATTTCTAAATAGGCCCAAATGGTGAAAATTTAGAA
8127490 GCCTAAAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
111 15 0.17
112 56 0.65
113 15 0.17
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.24
Consensus pattern (112 bp):
AGAAAATACTTCTAAATTAACCCAAATAGTGGAAAATTTAAAAATCAAACAAAAAAAAGAAAGAA
TTTCTAAATAGGCCCAAATGGTGAAAATTTAGAAATTTCAAAAAAAA
Done.