Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 198 of 204
Found at i:58523691 original size:31 final size:31
Alignment explanation
Indices: 58523656--58523729 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
58523646 AAGTATTAAT
58523656 TTGAACCAAAAAGCCAAGTTTAGGTACCAAA
1 TTGAACCAAAAAGCCAAGTTTAGGTACCAAA
** * *
58523687 TTGAA-CATTGAGGCCAAGTTTAGGTACCTAA
1 TTGAACCA-AAAAGCCAAGTTTAGGTACCAAA
* *
58523718 TTGGACAAAAAA
1 TTGAACCAAAAA
58523730 AACCTTATGT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
30 2 0.06
31 29 0.91
32 1 0.03
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (31 bp):
TTGAACCAAAAAGCCAAGTTTAGGTACCAAA
Found at i:58525843 original size:19 final size:19
Alignment explanation
Indices: 58525804--58525843 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58525794 ACTCATTGGT
* *
58525804 TTTTATTTAATATTTAGTA
1 TTTTATATAATATGTAGTA
*
58525823 TTTTATATAATATGTATTA
1 TTTTATATAATATGTAGTA
58525842 TT
1 TT
58525844 CCTTTTATTA
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:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTATATAATATGTAGTA
Found at i:58529843 original size:140 final size:141
Alignment explanation
Indices: 58529684--58529945 Score: 420
Period size: 140 Copynumber: 1.9 Consensus size: 141
58529674 CGAAAACCCA
* * *
58529684 ATTTTTTTAAAAAATTAAACATATTATGTCGATTATTCATTCATATCTCAATTCGAGTAATAAAA
1 ATTTTTTTAAAAAATTAAACATATTACGTCAATTATTCATTCATATCTAAATTCGAGTAATAAAA
58529749 AAATTAAAAA-CAACTATGTAAAAATATGAGGAAGAGAAAACAAAGTGAAAAGATAAAATTAATC
66 AAATTAAAAAGCAAC-ATGTAAAAATATGAGGAAGAGAAAACAAAGTGAAAAGATAAAATTAATC
58529813 CGAAACCCAATT
130 CGAAACCCAATT
58529825 ATTTTTTTAAAAAA-TAAACATATTACGTCAATTATTCATTCATATCTAAATTCGAGTAATAAAA
1 ATTTTTTTAAAAAATTAAACATATTACGTCAATTATTCATTCATATCTAAATTCGAGTAATAAAA
* * * * * *
58529889 AGATTAAAAAGGAGCATGTAAGAATATGAGGATGAGAAAGCAAAGTGAAAAGATAAA
66 AAATTAAAAAGCAACATGTAAAAATATGAGGAAGAGAAAACAAAGTGAAAAGATAAA
58529946 GTGATAAAAG
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
140 95 0.86
141 16 0.14
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (141 bp):
ATTTTTTTAAAAAATTAAACATATTACGTCAATTATTCATTCATATCTAAATTCGAGTAATAAAA
AAATTAAAAAGCAACATGTAAAAATATGAGGAAGAGAAAACAAAGTGAAAAGATAAAATTAATCC
GAAACCCAATT
Found at i:58536037 original size:14 final size:14
Alignment explanation
Indices: 58536020--58536046 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58536010 AACCATCTGG
58536020 AAAACACCAGATTA
1 AAAACACCAGATTA
58536034 AAAACACCAGATT
1 AAAACACCAGATT
58536047 GTGTAACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAACACCAGATTA
Found at i:58545629 original size:20 final size:20
Alignment explanation
Indices: 58545604--58545646 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
58545594 TTAGTTGATG
58545604 TGTGGCATTGATGGACCTTA
1 TGTGGCATTGATGGACCTTA
58545624 TGTGGCATTGATGGACCTTA
1 TGTGGCATTGATGGACCTTA
58545644 TGT
1 TGT
58545647 AATTTTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (20 bp):
TGTGGCATTGATGGACCTTA
Found at i:58550110 original size:31 final size:30
Alignment explanation
Indices: 58550040--58550112 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
58550030 AGACTTAAAA
* * *
58550040 AAAATAGCTTAGTGACTTAAATAAAATTTT
1 AAAATAGTTTAGAGACTTAAATAAAACTTT
58550070 AAAATAGTTTAGAGACTTAAATAAAAACTTT
1 AAAATAGTTTAGAGACTTAAAT-AAAACTTT
**
58550101 CGAATAGTTTAG
1 AAAATAGTTTAG
58550113 TGACCAAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 20 0.54
31 17 0.46
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (30 bp):
AAAATAGTTTAGAGACTTAAATAAAACTTT
Found at i:58550565 original size:31 final size:31
Alignment explanation
Indices: 58550525--58550584 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
58550515 TTATAGTCAC
*
58550525 CCAATTATTAATAAATTTATT-TTTTGATCAT
1 CCAACTATTAAT-AATTTATTGTTTTGATCAT
*
58550556 CCAACTATTAATAATTTTTTGTTTTGATC
1 CCAACTATTAATAATTTATTGTTTTGATC
58550585 CATAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.52
Consensus pattern (31 bp):
CCAACTATTAATAATTTATTGTTTTGATCAT
Found at i:58557891 original size:66 final size:65
Alignment explanation
Indices: 58557801--58557971 Score: 254
Period size: 66 Copynumber: 2.6 Consensus size: 65
58557791 TGGTTAAATA
* * * *
58557801 GAATAAATTATCGAATTTTTATTTAATTGAATAAATTATGTTTGATTATTTTATTC-AGTTTTAT
1 GAATAAATTATCG-ATTTTGATTTAATTGAATAAATTATGTTTGATTAGTTTACTCGA-TTTTAA
58557865 GT
64 GT
58557867 GAATAAATTATCGATTTTCGATTTAATTGAATAAATTATGTTTGATTAGTTTACTCGATTTTAAG
1 GAATAAATTATCGATTTT-GATTTAATTGAATAAATTATGTTTGATTAGTTTACTCGATTTTAAG
58557932 T
65 T
*
58557933 GAATAAATTATCAATTTTTGATTTAATTGAATAAATTAT
1 GAATAAATTATCGA-TTTTGATTTAATTGAATAAATTAT
58557972 CGATTTTATA
Statistics
Matches: 97, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
65 5 0.05
66 87 0.90
67 5 0.05
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (65 bp):
GAATAAATTATCGATTTTGATTTAATTGAATAAATTATGTTTGATTAGTTTACTCGATTTTAAGT
Found at i:58562361 original size:29 final size:28
Alignment explanation
Indices: 58562329--58562384 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
58562319 TATTTTATCC
58562329 TATACTTT-ATAATTAAATTTAAATAAAAG
1 TATACTTTAATAATTAAA-TTAAA-AAAAG
* *
58562358 TATATTTTAATTATTAAATTAAAAAAA
1 TATACTTTAATAATTAAATTAAAAAAA
58562385 CCCTTGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 12 0.50
30 8 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
TATACTTTAATAATTAAATTAAAAAAAG
Found at i:58563208 original size:22 final size:21
Alignment explanation
Indices: 58563166--58563209 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
58563156 TCAAATATTG
58563166 TATATTTATATAATTTATATA
1 TATATTTATATAATTTATATA
* *
58563187 TATATTTGTATTAATTTTTATA
1 TATATTTATA-TAATTTATATA
58563209 T
1 T
58563210 TACATTGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATATTTATATAATTTATATA
Found at i:58568392 original size:23 final size:24
Alignment explanation
Indices: 58568343--58568392 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
58568333 CTCATATTAT
58568343 TTTAATATATATATATTACTTTAA
1 TTTAATATATATATATTACTTTAA
* * *
58568367 TTTAATATTTA-ATATTATTTTTA
1 TTTAATATATATATATTACTTTAA
58568390 TTT
1 TTT
58568393 TATTTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTAATATATATATATTACTTTAA
Found at i:58568394 original size:24 final size:24
Alignment explanation
Indices: 58568339--58568394 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
58568329 TCCACTCATA
58568339 TTATTTTAATATATATATATTACT
1 TTATTTTAATATATATATATTACT
* * *
58568363 TTAATTTAATATTTA-ATATTATTT
1 TTATTTTAATATATATATATTA-CT
58568387 TTATTTTA
1 TTATTTTA
58568395 TTTTATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTTTAATATATATATATTACT
Found at i:58568938 original size:31 final size:29
Alignment explanation
Indices: 58568852--58568938 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
58568842 TTGGTCTTAT
* *
58568852 TTAATTCATTTTAATAATATAGAGACTAAA
1 TTAA-TCAATTTAATAATATAGGGACTAAA
* * * *
58568882 TTAATCTATTTAATAATAAATGGACTAAT
1 TTAATCAATTTAATAATATAGGGACTAAA
*
58568911 TTAAATCAATTTCTATAATATAGGGACT
1 TT-AATCAATTT-AATAATATAGGGACT
58568939 TCCAAGTTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 21 0.47
30 12 0.27
31 12 0.27
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (29 bp):
TTAATCAATTTAATAATATAGGGACTAAA
Found at i:58571465 original size:30 final size:30
Alignment explanation
Indices: 58571429--58571513 Score: 109
Period size: 29 Copynumber: 2.8 Consensus size: 30
58571419 TAAACGCTCG
* *
58571429 ACCTTTTTAAAAGTGTTCAAATAAAGGTCAA
1 ACCTTTTCAAAA-TGATCAAATAAAGGTCAA
*
58571460 A-CTTTTCAAAATGATCCAATAAAGGTCAA
1 ACCTTTTCAAAATGATCAAATAAAGGTCAA
*
58571489 ACCTTTTCGAAAATGCTCAAATAAA
1 ACCTTTTC-AAAATGATCAAATAAA
58571514 AGCTTCTCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 17 0.36
30 15 0.32
31 15 0.32
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (30 bp):
ACCTTTTCAAAATGATCAAATAAAGGTCAA
Found at i:58572671 original size:323 final size:322
Alignment explanation
Indices: 58572083--58572713 Score: 1093
Period size: 323 Copynumber: 2.0 Consensus size: 322
58572073 TACTCAAACT
* *
58572083 CACGTCTTCCTGCACTGACAACAATATTAACGCCAATCGAGCTAAGACTCAATCGGCAACATTCG
1 CACGTCTTACTGCACTAACAACAATATTAACGCCAATCGAGCTAAGACTCAATCGGCAACATTCG
*
58572148 GATTTTCTATTATAATATATGAATTAATTTTCCCCATATAAAGGAATTGATTATTTAACAAAATT
66 AATTTTCTATTATAATATATGAATTAATTTTCCCCATATAAAGGAATTGATTATTTAACAAAATT
* * * * *
58572213 TAAATGCATACTACAGGTGAAAGCATACCATTCAAAGGTGATGCTGGTCTAGATAATAAAGGGGT
131 TAAATACATACTACAGGTGAAAGCATAACATTCAAAGGTGATGCTGATCCAGATAATAAAGGGGC
58572278 AAATGATCCTGAGTTTGGTGCTTATTCCTACGGAGATGATTCAGAAAACCTTCCAGGTGTGTGTA
196 AAATGATCCTGAGTTTGGTGCTTATTCCTACGGAGATGATTCAGAAAACCTTCCAGGTGTGTGTA
58572343 TATGCAAACATTCTAGATTTTGGTCCCCTCTATTATATTTAAATTTAAAACTTAGTCTTCCTG
261 TATGCAAACATTCTAGATTTTGGT-CCCTCTATTATATTTAAATTTAAAACTTAGTCTTCCTG
* * *
58572406 CACGTCTTACTGCACTAACAATAATATTAACGCCAATCGAGCTAATACTCAATCGGCAATATTCG
1 CACGTCTTACTGCACTAACAACAATATTAACGCCAATCGAGCTAAGACTCAATCGGCAACATTCG
58572471 AATTTTCTATTATAATATATGAATTAATTTTCCCCATATAAAGGAATTGATTATTTAAC-AAATT
66 AATTTTCTATTATAATATATGAATTAATTTTCCCCATATAAAGGAATTGATTATTTAACAAAATT
* *
58572535 ATTAATACATACTATAGGTGAAAGCATAACATTCAAAGGTGATGCTGATCCAGATAATAAAGGGG
131 -TAAATACATACTACAGGTGAAAGCATAACATTCAAAGGTGATGCTGATCCAGATAATAAAGGGG
** *
58572600 CAAATGATCCTGAGTTTGGTGCTTATTGGTACGGAGATGATTCAGAAAATCTTCCAGGTGTGTGT
195 CAAATGATCCTGAGTTTGGTGCTTATTCCTACGGAGATGATTCAGAAAACCTTCCAGGTGTGTGT
58572665 ATATGCAAACATTCTAGATTTTGGTCCCTCTATTATATTTAAATTTAAA
260 ATATGCAAACATTCTAGATTTTGGTCCCTCTATTATATTTAAATTTAAA
58572714 TTTAATCTTT
Statistics
Matches: 291, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
322 29 0.10
323 262 0.90
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (322 bp):
CACGTCTTACTGCACTAACAACAATATTAACGCCAATCGAGCTAAGACTCAATCGGCAACATTCG
AATTTTCTATTATAATATATGAATTAATTTTCCCCATATAAAGGAATTGATTATTTAACAAAATT
TAAATACATACTACAGGTGAAAGCATAACATTCAAAGGTGATGCTGATCCAGATAATAAAGGGGC
AAATGATCCTGAGTTTGGTGCTTATTCCTACGGAGATGATTCAGAAAACCTTCCAGGTGTGTGTA
TATGCAAACATTCTAGATTTTGGTCCCTCTATTATATTTAAATTTAAAACTTAGTCTTCCTG
Found at i:58576099 original size:21 final size:22
Alignment explanation
Indices: 58576074--58576114 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58576064 TCAAATGGTT
*
58576074 AATATATCA-TTTGGTACTTTC
1 AATATATAATTTTGGTACTTTC
*
58576095 AATATTTAATTTTGGTACTT
1 AATATATAATTTTGGTACTT
58576115 AAATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (22 bp):
AATATATAATTTTGGTACTTTC
Found at i:58576760 original size:31 final size:31
Alignment explanation
Indices: 58576666--58576761 Score: 129
Period size: 31 Copynumber: 3.1 Consensus size: 31
58576656 TTTTTCTTTA
* *
58576666 TTTTTTGGGTTTTGTATTAATTTTCTATATG
1 TTTTATGGGTTTTGTATTAATTTTCGATATG
* * * *
58576697 TCTAATGGGTTTTGTTTTACTTTTCGATATG
1 TTTTATGGGTTTTGTATTAATTTTCGATATG
*
58576728 TTTTGTGGGTTTTGTATTAATTTTCGATATG
1 TTTTATGGGTTTTGTATTAATTTTCGATATG
58576759 TTT
1 TTT
58576762 GGTGTTTCTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.60
Consensus pattern (31 bp):
TTTTATGGGTTTTGTATTAATTTTCGATATG
Found at i:58587330 original size:34 final size:34
Alignment explanation
Indices: 58587287--58587352 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
58587277 TAAGGCAGAA
58587287 TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
1 TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
*
58587321 TTGTAGTAAAATTCAAGTTACCATTGTTCTTT
1 TTGTAGTAAAATTCAAGCTACCATTGTTCTTT
58587353 TTCTTACGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (34 bp):
TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
Found at i:58592001 original size:22 final size:22
Alignment explanation
Indices: 58591946--58592002 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
58591936 ACTTTTATAA
*
58591946 ATAATAAAAATTATATATATTT
1 ATAATAAAATTTATATATATTT
* *** *
58591968 ATATTTTTATTTATATATTTTT
1 ATAATAAAATTTATATATATTT
58591990 ATAATAAAATTTA
1 ATAATAAAATTTA
58592003 AATTAATTTT
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATAAAATTTATATATATTT
Found at i:58592429 original size:22 final size:23
Alignment explanation
Indices: 58592390--58592433 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
58592380 TTAATTAAAT
*
58592390 AAATAATATATTATTAAATATTA
1 AAATAATATAATATTAAATATTA
*
58592413 AAATAATTTAATA-TAAATATT
1 AAATAATATAATATTAAATATT
58592434 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATAATATAATATTAAATATTA
Found at i:58598272 original size:18 final size:18
Alignment explanation
Indices: 58598251--58598285 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58598241 TTTTTATAAA
*
58598251 AAAATTATTAATTATTTC
1 AAAATTATTAATAATTTC
*
58598269 AAAATTTTTAATAATTT
1 AAAATTATTAATAATTT
58598286 TAATTAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATTATTAATAATTTC
Found at i:58611380 original size:60 final size:60
Alignment explanation
Indices: 58611287--58611405 Score: 238
Period size: 60 Copynumber: 2.0 Consensus size: 60
58611277 ACAGCCATCT
58611287 ATGGACATCTCTTAGACCATGTCAAATGCTGCCATGTGTCCAACCGAGTAAAATAAATAG
1 ATGGACATCTCTTAGACCATGTCAAATGCTGCCATGTGTCCAACCGAGTAAAATAAATAG
58611347 ATGGACATCTCTTAGACCATGTCAAATGCTGCCATGTGTCCAACCGAGTAAAATAAATA
1 ATGGACATCTCTTAGACCATGTCAAATGCTGCCATGTGTCCAACCGAGTAAAATAAATA
58611406 AAAATGGAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (60 bp):
ATGGACATCTCTTAGACCATGTCAAATGCTGCCATGTGTCCAACCGAGTAAAATAAATAG
Found at i:58611748 original size:10 final size:10
Alignment explanation
Indices: 58611733--58611768 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
58611723 AGCCAGTACC
58611733 TGTATTGATA
1 TGTATTGATA
58611743 TGTATTGATA
1 TGTATTGATA
58611753 TGTATTGATA
1 TGTATTGATA
58611763 TGTATT
1 TGTATT
58611769 AACCCATACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (10 bp):
TGTATTGATA
Found at i:58622122 original size:29 final size:26
Alignment explanation
Indices: 58622068--58622120 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
58622058 ATATTTTATG
58622068 TACTTGTTTTCTTCTTCCTCCTTTTT
1 TACTTGTTTTCTTCTTCCTCCTTTTT
58622094 TACTTGTTTTCTTCTTCCTCCTTTTT
1 TACTTGTTTTCTTCTTCCTCCTTTTT
58622120 T
1 T
58622121 TTATGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.04, C:0.26, G:0.04, T:0.66
Consensus pattern (26 bp):
TACTTGTTTTCTTCTTCCTCCTTTTT
Found at i:58633316 original size:19 final size:19
Alignment explanation
Indices: 58633289--58633326 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
58633279 TGAAAATAAA
58633289 AATAAATATATGAAAATTC
1 AATAAATATATGAAAATTC
*
58633308 AATATATATATGAAAATTC
1 AATAAATATATGAAAATTC
58633327 TAGAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
AATAAATATATGAAAATTC
Found at i:58633447 original size:10 final size:10
Alignment explanation
Indices: 58633424--58633479 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
58633414 ATAATATTAT
*
58633424 TAAAAATGTA
1 TAAAAATTTA
58633434 -AAAAATTTA
1 TAAAAATTTA
*
58633443 TAAAAACTTA
1 TAAAAATTTA
*
58633453 TAAAAAATATTT
1 T-AAAAAT-TTA
*
58633465 TAAAAATTTT
1 TAAAAATTTA
58633475 TAAAA
1 TAAAA
58633480 TATATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.21
10 17 0.44
11 11 0.28
12 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:58633502 original size:24 final size:23
Alignment explanation
Indices: 58633439--58633511 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
58633429 ATGTAAAAAA
58633439 TTTATAAAAACTTATAAAAAATAT
1 TTTAT-AAAACTTATAAAAAATAT
* * *
58633463 TTTA-AAAATTTTTAAAATATATTT
1 TTTATAAAACTTATAAAA-A-ATAT
58633487 TTTATAAAA-TTATAAAAAAGTAT
1 TTTATAAAACTTATAAAAAA-TAT
58633510 TT
1 TT
58633512 AAATTTCAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
22 12 0.30
23 6 0.15
24 18 0.45
25 4 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (23 bp):
TTTATAAAACTTATAAAAAATAT
Found at i:58633674 original size:7 final size:7
Alignment explanation
Indices: 58633662--58633688 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
58633652 TTTAAATTTG
58633662 TTATATA
1 TTATATA
58633669 TTATATA
1 TTATATA
58633676 TTATATA
1 TTATATA
58633683 TTATAT
1 TTATAT
58633689 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTATATA
Found at i:58633705 original size:6 final size:7
Alignment explanation
Indices: 58633686--58633710 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58633676 TTATATATTA
58633686 TATTTTT
1 TATTTTT
58633693 TATTTTT
1 TATTTTT
58633700 TATTTTT
1 TATTTTT
58633707 TATT
1 TATT
58633711 GGCAAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:58636238 original size:12 final size:12
Alignment explanation
Indices: 58636223--58636251 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
58636213 TTTATTTTAT
58636223 TTTTTTTTCGGA
1 TTTTTTTTCGGA
58636235 TTTTTTTTCGGA
1 TTTTTTTTCGGA
58636247 TTTTT
1 TTTTT
58636252 CCTGGTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.72
Consensus pattern (12 bp):
TTTTTTTTCGGA
Found at i:58643276 original size:26 final size:26
Alignment explanation
Indices: 58643240--58643292 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
58643230 AAGAAATTCC
58643240 TTCTCAACTCTATCCGTACCAACCCA
1 TTCTCAACTCTATCCGTACCAACCCA
58643266 TTCTCAACTCTATCCGTACCAACCCA
1 TTCTCAACTCTATCCGTACCAACCCA
58643292 T
1 T
58643293 GCAAATTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.42, G:0.04, T:0.28
Consensus pattern (26 bp):
TTCTCAACTCTATCCGTACCAACCCA
Found at i:58646987 original size:3 final size:3
Alignment explanation
Indices: 58646979--58647006 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
58646969 TAGTTACCAC
58646979 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
58647007 GCAAACAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:58653651 original size:111 final size:110
Alignment explanation
Indices: 58653412--58653656 Score: 307
Period size: 110 Copynumber: 2.2 Consensus size: 110
58653402 CCATCAAAGT
* * * * *
58653412 CATGCAAACAGAATATAACCGAGTCATTCCGTCCGTCGATCTAGCCATTAATCTAACCCTAAACT
1 CATGGAAACAGAACATAACCAAGTCATTCCGTCCGTCAACCTAGCCATTAATCTAACCCTAAACT
* * *
58653477 TTGAAATTTCTGGCGAAATTAAATAAGGCTCAAAAGTGTTAGAAG
66 TTCAAATTTCTGGCGAAATTAAAGAAGGCTCAAAAGTGTAAGAAG
* ** *
58653522 CATGGAAACAGAACATAACCAAGTCCTTCCGTTCCGTCAACCTAGCGGTTAATTTAACCCTAAAC
1 CATGGAAACAGAACATAACCAAGTCATTCCG-TCCGTCAACCTAGCCATTAATCTAACCCTAAAC
* *
58653587 -TTCAAATTT-TCGAGTGAAA-TCAAGAAGGCTCAAAAGTGTAAGAAG
65 TTTCAAATTTCT-G-GCGAAATTAAAGAAGGCTCAAAAGTGTAAGAAG
58653632 CATGGAAACAAGAACATAACCAAGT
1 CATGGAAAC-AGAACATAACCAAGT
58653657 AAAACCAGAT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
109 1 0.01
110 68 0.58
111 48 0.41
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (110 bp):
CATGGAAACAGAACATAACCAAGTCATTCCGTCCGTCAACCTAGCCATTAATCTAACCCTAAACT
TTCAAATTTCTGGCGAAATTAAAGAAGGCTCAAAAGTGTAAGAAG
Found at i:58655475 original size:3 final size:3
Alignment explanation
Indices: 58655467--58655495 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
58655457 GAAAATGTTG
58655467 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
58655496 ATTCTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:58656891 original size:18 final size:20
Alignment explanation
Indices: 58656868--58656907 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
58656858 TCATATGTAC
58656868 TTTAT-GTTATTTT-TAATT
1 TTTATGGTTATTTTATAATT
*
58656886 TTTATGGTTTTTTTATAATT
1 TTTATGGTTATTTTATAATT
58656906 TT
1 TT
58656908 AAAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTATGGTTATTTTATAATT
Found at i:58658057 original size:31 final size:31
Alignment explanation
Indices: 58658016--58658098 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
58658006 ATAACCAAAC
*
58658016 TTTTCAAAGTGATCAAATAAGAGCCAAACAT
1 TTTTGAAAGTGATCAAATAAGAGCCAAACAT
* * *
58658047 TTTTGAAAGTGCTCAAATAAGAGTCAAACCT
1 TTTTGAAAGTGATCAAATAAGAGCCAAACAT
58658078 TTTTGAAAGT-ACTCAAATAAG
1 TTTTGAAAGTGA-TCAAATAAG
58658099 GGCTTCTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (31 bp):
TTTTGAAAGTGATCAAATAAGAGCCAAACAT
Found at i:58668296 original size:14 final size:12
Alignment explanation
Indices: 58668277--58668309 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
58668267 TTCATGAATT
*
58668277 TCTCTCTCTGTA
1 TCTCTCTCTCTA
58668289 TCTCTCTCTCTA
1 TCTCTCTCTCTA
58668301 TCTCTCTCT
1 TCTCTCTCT
58668310 TTGTGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.39, G:0.03, T:0.52
Consensus pattern (12 bp):
TCTCTCTCTCTA
Found at i:58672081 original size:28 final size:28
Alignment explanation
Indices: 58672049--58672104 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
58672039 GTCCTTGCTA
58672049 AACGATAACTGTTAAAGTCATTAAGTTT
1 AACGATAACTGTTAAAGTCATTAAGTTT
* *
58672077 AACGATAATTGTTAAATTCATTAAGTTT
1 AACGATAACTGTTAAAGTCATTAAGTTT
58672105 TGCTATTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (28 bp):
AACGATAACTGTTAAAGTCATTAAGTTT
Found at i:58672750 original size:30 final size:30
Alignment explanation
Indices: 58672710--58672769 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
58672700 GTTATAATAG
*
58672710 GAACTCGTATTAACAAGCTGGATATTATCT
1 GAACTAGTATTAACAAGCTGGATATTATCT
58672740 GAACTAGTATTAACAAGCTGGATATTATCT
1 GAACTAGTATTAACAAGCTGGATATTATCT
58672770 TTCTTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (30 bp):
GAACTAGTATTAACAAGCTGGATATTATCT
Found at i:58672765 original size:15 final size:15
Alignment explanation
Indices: 58672717--58672766 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
58672707 TAGGAACTCG
58672717 TATTAACAAGCTGGA
1 TATTAACAAGCTGGA
* *
58672732 TATTATCTGAA-CTAG-
1 TATTAAC--AAGCTGGA
58672747 TATTAACAAGCTGGA
1 TATTAACAAGCTGGA
58672762 TATTA
1 TATTA
58672767 TCTTTCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
13 2 0.07
14 3 0.11
15 17 0.63
16 3 0.11
17 2 0.07
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (15 bp):
TATTAACAAGCTGGA
Found at i:58680341 original size:2 final size:2
Alignment explanation
Indices: 58680301--58680326 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58680291 AAAGAGACAC
58680301 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
58680327 GGAAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:58686677 original size:30 final size:30
Alignment explanation
Indices: 58686641--58686720 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 30
58686631 TAGGTCTAAG
* *
58686641 TTAAAGGTTAAGGGCTTCTTCGGGTACAAA
1 TTAAAGGTTAAGGGCTTATTCGGATACAAA
* * * *
58686671 TTAAAGGTCAAGAGCTTATTTGGATATAAA
1 TTAAAGGTTAAGGGCTTATTCGGATACAAA
* *
58686701 TTAAAGTTTAAGGCCTTATT
1 TTAAAGGTTAAGGGCTTATT
58686721 TGAGTGTAGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (30 bp):
TTAAAGGTTAAGGGCTTATTCGGATACAAA
Found at i:58690665 original size:21 final size:20
Alignment explanation
Indices: 58690631--58690669 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
58690621 GTCCCTGAAT
*
58690631 ATTTTATATTATCACATTTCA
1 ATTTTATATCATCA-ATTTCA
*
58690652 ATTTTGTATCATCAATTT
1 ATTTTATATCATCAATTT
58690670 GTTAGGTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTTATATCATCAATTTCA
Found at i:58692700 original size:16 final size:16
Alignment explanation
Indices: 58692678--58692745 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
58692668 TTTGGTTCGC
*
58692678 TGTATTGGATTAGACG
1 TGTATTGGATTAGAGG
* *
58692694 CGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
58692710 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
58692726 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
58692742 TGTA
1 TGTA
58692746 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.26, C:0.03, G:0.34, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:58693002 original size:18 final size:17
Alignment explanation
Indices: 58692981--58693015 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58692971 TTATTATTAA
*
58692981 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
58692999 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
58693016 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:58693069 original size:157 final size:156
Alignment explanation
Indices: 58692875--58693183 Score: 564
Period size: 157 Copynumber: 2.0 Consensus size: 156
58692865 CCCTTAACAT
* *
58692875 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTCTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
58692940 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
58693005 TTTAATAAAATTCTTAATAATTAGCAG
131 -TTAATAAAATTCTTAATAATTAGCAG
*
58693032 AAATTTGTTTTGGTAAATTATTATTGTTATTCTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTCTTATTTAAATTTTAATAAGATTATTAATATCAA
58693097 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
58693162 TTAATAAAATTCTTAATAATTA
131 TTAATAAAATTCTTAATAATTA
58693184 ATATTCTTAT
Statistics
Matches: 147, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 22 0.15
157 125 0.85
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (156 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTCTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTAATAAAATTCTTAATAATTAGCAG
Found at i:58693155 original size:16 final size:16
Alignment explanation
Indices: 58693118--58693159 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
58693108 TTAATCATAT
*
58693118 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
58693134 TT-AAATATATTATAA
1 TTAAAATATATTATAA
58693149 TTAAAATATAT
1 TTAAAATATAT
58693160 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:58693162 original size:13 final size:15
Alignment explanation
Indices: 58693127--58693165 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
58693117 TTTAAACATA
*
58693127 ATTATTATTAAATAT
1 ATTATAATTAAATAT
58693142 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
58693156 A-TATAATTAA
1 ATTATAATTAA
58693166 TAAAATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:58693285 original size:14 final size:15
Alignment explanation
Indices: 58693236--58693287 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
58693226 ATAAAATATA
58693236 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
58693251 TATTAAATATATTAT
1 AATTAAATATATTAT
58693266 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
58693279 AATTTAATA
1 AATTAAATA
58693288 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:58693333 original size:120 final size:120
Alignment explanation
Indices: 58693121--58693634 Score: 935
Period size: 120 Copynumber: 4.3 Consensus size: 120
58693111 ATCATATTTA
58693121 AACATAATTATTATTAAATATATTATAATTAAAATATATAA-TTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
58693185 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
58693240 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
58693305 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
58693360 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
58693425 TATTCTTATATGAATTTACTCTAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
58693480 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
58693545 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAAA-TT
* * *
58693600 AAAATAATTAATATTAAATATATTTTAATTAAAAT
1 AACATAATTATTATTAAATATATTATAATTAAAAT
58693635 TTATTGTTTA
Statistics
Matches: 385, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
119 48 0.12
120 337 0.88
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:58693405 original size:14 final size:15
Alignment explanation
Indices: 58693356--58693527 Score: 60
Period size: 15 Copynumber: 11.6 Consensus size: 15
58693346 GTAAAATATA
58693356 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
58693371 TATTAAATATATTAT
1 AATTAAATATATTAT
*
58693386 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
58693404 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
58693419 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* * * *
58693434 -A-TGAATTTACTCT
1 AATTAAATATATTAT
* *
58693447 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
58693463 ACTGTAAA-ATA-TA-
1 AAT-TAAATATATTAT
58693476 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
58693491 TATTAAATATATTAT
1 AATTAAATATATTAT
58693506 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
58693519 AATTTAATA
1 AATTAAATA
58693528 AAATTCTTAA
Statistics
Matches: 115, Mismatches: 24, Indels: 37
0.65 0.14 0.21
Matches are distributed among these distances:
12 3 0.03
13 17 0.15
14 23 0.20
15 38 0.33
16 24 0.21
17 5 0.04
18 5 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:58695947 original size:17 final size:17
Alignment explanation
Indices: 58695914--58695948 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58695904 CAGGGGTTTT
*
58695914 TGGCATAACAGATCAAA
1 TGGCATAACAGAACAAA
*
58695931 TGGCATAACATAACAAA
1 TGGCATAACAGAACAAA
58695948 T
1 T
58695949 CATTATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (17 bp):
TGGCATAACAGAACAAA
Found at i:58698708 original size:6 final size:6
Alignment explanation
Indices: 58698697--58698723 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
58698687 ATATAACGAA
58698697 AAGCTT AAGCTT AAGCTT AAGCTT AAG
1 AAGCTT AAGCTT AAGCTT AAGCTT AAG
58698724 AAAGTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (6 bp):
AAGCTT
Found at i:58700263 original size:18 final size:20
Alignment explanation
Indices: 58700237--58700273 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
58700227 ACAAATTTAA
58700237 TTTTAAG-TTAA-ATTGGAT
1 TTTTAAGTTTAAGATTGGAT
*
58700255 TTTTGAGTTTAAGATTGGA
1 TTTTAAGTTTAAGATTGGA
58700274 CTAATTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 6 0.38
19 4 0.25
20 6 0.38
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
TTTTAAGTTTAAGATTGGAT
Found at i:58705902 original size:28 final size:28
Alignment explanation
Indices: 58705836--58706398 Score: 503
Period size: 29 Copynumber: 20.9 Consensus size: 28
58705826 TTAGGTTAGG
* * *
58705836 GTTAGGGTTAGGG-TTTTCATGTAAAATAG
1 GTTA-GGTTAGGGTTTTTAAT-TAAATTAA
58705865 GTTAGGGTTAGGGTTTTTAATTAAATTAA
1 GTTA-GGTTAGGGTTTTTAATTAAATTAA
*
58705894 GTTAGGTTAGGG--TTT--GT-AATTAA
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
* * *
58705917 GTTAGGTTAGGGATTTTAATTAAAATAT
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
* * *
58705945 GTTAGGGTTAGGG-TTTTCATGTAAAATAG
1 GTTA-GGTTAGGGTTTTTAAT-TAAATTAA
58705974 GTTAGGGTTAGGGTTTTTAATTAAATTAA
1 GTTA-GGTTAGGGTTTTTAATTAAATTAA
58706003 GTTAGGTTAGGG--TTT--TT-AATTAA
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
* * *
58706026 GTTAGGTTAGGGATTTTAATTAAAATAT
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
* * *
58706054 GTTAGGGTTAGGG-TTTTCATGTAAAATAG
1 GTTA-GGTTAGGGTTTTTAAT-TAAATTAA
*
58706083 GTTAGGGTTATGGTTTTTAATTAAATTAA
1 GTTA-GGTTAGGGTTTTTAATTAAATTAA
58706112 GTTAGGTTAGGG--TTT--TT-AATTAA
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
* * *
58706135 GTTAGGTTAGGGATTTTAATTAAAATAT
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
* * *
58706163 GTTAGGGTTAGGG-TTTTCATGTAAAATAG
1 GTTA-GGTTAGGGTTTTTAAT-TAAATTAA
58706192 GTTAGGGTTAGGGTTTTTAATTAAATTAA
1 GTTA-GGTTAGGGTTTTTAATTAAATTAA
*
58706221 ATTAGGTTAGGGTTTTTAATTAAATTAA
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
*
58706249 ATTAGGTTAGGG---TT--TT-AATTAA
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
*
58706271 GTTAAGTTAGGGTTTTTAATTAAATTAA
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
58706299 GTTAGGTTAGGGTTTTTAATT--A--AA
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
58706323 -TTAGGTTAGGGTTTTTAA-T----TAA
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
* *
58706345 GTTAAGTTAGGGTTTTTAATTAAATTAG
1 GTTAGGTTAGGGTTTTTAATTAAATTAA
*
58706373 GTTAGGGTTAGGGTTTTTAATCAAAT
1 GTTA-GGTTAGGGTTTTTAATTAAAT
58706399 AATGTCAAAA
Statistics
Matches: 459, Mismatches: 36, Indels: 78
0.80 0.06 0.14
Matches are distributed among these distances:
22 19 0.04
23 91 0.20
24 8 0.02
25 13 0.03
26 10 0.02
27 7 0.02
28 133 0.29
29 154 0.34
30 24 0.05
ACGTcount: A:0.31, C:0.01, G:0.25, T:0.44
Consensus pattern (28 bp):
GTTAGGTTAGGGTTTTTAATTAAATTAA
Found at i:58705914 original size:23 final size:23
Alignment explanation
Indices: 58705888--58706381 Score: 279
Period size: 23 Copynumber: 18.9 Consensus size: 23
58705878 TTTTTAATTA
*
58705888 AATTAAGTTAGGTTAGGGTTTGT
1 AATTAAGTTAGGTTAGGGTTTTT
*
58705911 AATTAAGTTAGGTTAGGGATTTT
1 AATTAAGTTAGGTTAGGGTTTTT
58705934 AATTAAAATATGTTAGGGTTAGGGTTTTCATGT
1 AATT---A-A-GTTA-GGTTAGGG-TTT--T-T
* *
58705967 AAAATAGGTTAGGGTTAGGGTTTTTAATT
1 -AATTAAGTTA-GGTTAGGG-TT-T--TT
58705996 AAATTAAGTTAGGTTAGGGTTTTT
1 -AATTAAGTTAGGTTAGGGTTTTT
*
58706020 AATTAAGTTAGGTTAGGGATTTT
1 AATTAAGTTAGGTTAGGGTTTTT
58706043 AATTAAAATATGTTAGGGTTAGGGTTTTCATGT
1 AATT---A-A-GTTA-GGTTAGGG-TTT--T-T
* * *
58706076 AAAATAGGTTAGGGTTATGGTTTTT
1 -AATTAAGTTA-GGTTAGGGTTTTT
58706101 AATTAAATTAAGTTAGGTTAGGGTTTTT
1 -A----ATTAAGTTAGGTTAGGGTTTTT
*
58706129 AATTAAGTTAGGTTAGGGATTTT
1 AATTAAGTTAGGTTAGGGTTTTT
58706152 AATTAAAATATGTTAGGGTTAGGGTTTTCATGT
1 AATT---A-A-GTTA-GGTTAGGG-TTT--T-T
* *
58706185 AAAATAGGTTAGGGTTAGGGTTTTTAATT
1 -AATTAAGTTA-GGTTAGGG-TT-T--TT
*
58706214 AAATTAAATTAGGTTAGGGTTTTTAATT
1 -AATTAAGTTAGGTTAGGG--TTT--TT
*
58706242 AAATTAAATTAGGTTAGGG-TTTT
1 -AATTAAGTTAGGTTAGGGTTTTT
*
58706265 AATTAAGTTAAGTTAGGGTTTTTAATT
1 AATTAAGTTAGGTTAGGG--TTT--TT
58706292 AAATTAAGTTAGGTTAGGGTTTTT
1 -AATTAAGTTAGGTTAGGGTTTTT
*
58706316 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTT
*
58706339 AATTAAGTTAAGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTTTT
*
58706362 AATTAAATTAGGTTAGGGTT
1 AATTAAGTTAGGTTAGGGTT
58706382 AGGGTTTTTA
Statistics
Matches: 393, Mismatches: 32, Indels: 92
0.76 0.06 0.18
Matches are distributed among these distances:
22 16 0.04
23 139 0.35
24 4 0.01
25 7 0.02
26 8 0.02
27 8 0.02
28 84 0.21
29 97 0.25
30 12 0.03
31 3 0.01
32 3 0.01
33 3 0.01
34 9 0.02
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (23 bp):
AATTAAGTTAGGTTAGGGTTTTT
Found at i:58705963 original size:109 final size:109
Alignment explanation
Indices: 58705836--58706389 Score: 848
Period size: 109 Copynumber: 5.2 Consensus size: 109
58705826 TTAGGTTAGG
58705836 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
1 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
*
58705901 TAGGGTTTGTAATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
66 TAGGGTTTTTAATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
58705945 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
1 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
58706010 TAGGGTTTTTAATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
66 TAGGGTTTTTAATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
*
58706054 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTATGGTTTTTAATTAAATTAAGTTAGGT
1 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
58706119 TAGGGTTTTTAATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
66 TAGGGTTTTTAATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
*
58706163 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAATTAGGT
1 GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
*
58706228 TAGGGTTTTTAATTAAATTAAATTAGGTTAGGG-TTTTAATT---A-A-
66 TAGGG--TTT--TT-AATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
* * * *
58706271 GTTA-AGTTAGGGTTTTTAAT-TAAATTAAGTTA-GGTTAGGGTTTTTAATT--A--AA-TTAGG
1 GTTAGGGTTAGGG-TTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGG
* * * *
58706328 TTAGGGTTTTTAATTAAGTTAAGTTAGGGTTTTTAATTAAATTAG
65 TTAGGGTTTTTAATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
58706373 GTTAGGGTTAGGGTTTT
1 GTTAGGGTTAGGGTTTT
58706390 TAATCAAATA
Statistics
Matches: 419, Mismatches: 13, Indels: 33
0.90 0.03 0.07
Matches are distributed among these distances:
96 16 0.04
97 10 0.02
99 3 0.01
101 12 0.03
102 10 0.02
103 7 0.02
104 1 0.00
106 17 0.04
107 17 0.04
108 10 0.02
109 285 0.68
110 1 0.00
111 3 0.01
113 10 0.02
114 17 0.04
ACGTcount: A:0.30, C:0.01, G:0.25, T:0.44
Consensus pattern (109 bp):
GTTAGGGTTAGGGTTTTCATGTAAAATAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGT
TAGGGTTTTTAATTAAGTTAGGTTAGGGATTTTAATTAAAATAT
Found at i:58706231 original size:34 final size:33
Alignment explanation
Indices: 58706186--58706262 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 33
58706176 TTTTCATGTA
58706186 AAATAGGTTAGGGTTAGGGTTTTTAATTAAATT
1 AAATAGGTTAGGGTTAGGGTTTTTAATTAAATT
58706219 -AA-A--TTA-GGTTAGGGTTTTTAATTAAATT
1 AAATAGGTTAGGGTTAGGGTTTTTAATTAAATT
58706247 AAATTAGGTTAGGGTT
1 AAA-TAGGTTAGGGTT
58706263 TTAATTAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
28 22 0.58
29 5 0.13
31 2 0.05
32 2 0.05
33 3 0.08
34 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (33 bp):
AAATAGGTTAGGGTTAGGGTTTTTAATTAAATT
Found at i:58706592 original size:21 final size:21
Alignment explanation
Indices: 58706568--58706616 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
58706558 CTTCCTCTAG
*
58706568 CTTCCGGCGGCGGTTGTTCTT
1 CTTCCGGCGGCGATTGTTCTT
* * * *
58706589 CTTCGGGTGGTGATTGTTGTT
1 CTTCCGGCGGCGATTGTTCTT
58706610 CTTCCGG
1 CTTCCGG
58706617 TTCGGCATCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.22, G:0.35, T:0.41
Consensus pattern (21 bp):
CTTCCGGCGGCGATTGTTCTT
Found at i:58706902 original size:16 final size:16
Alignment explanation
Indices: 58706881--58706912 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
58706871 AAGGATACAT
58706881 GTACGGGTTAGGGTAC
1 GTACGGGTTAGGGTAC
58706897 GTACGGGTTAGGGTAC
1 GTACGGGTTAGGGTAC
58706913 ATATAAGGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.44, T:0.25
Consensus pattern (16 bp):
GTACGGGTTAGGGTAC
Found at i:58708569 original size:14 final size:15
Alignment explanation
Indices: 58708552--58708585 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
58708542 AATAAATATC
58708552 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
58708566 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
58708581 TAAAA
1 TAAAA
58708586 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:58708714 original size:28 final size:29
Alignment explanation
Indices: 58708683--58708740 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
58708673 TTGAAAATAT
58708683 TAAAAAA-TTTAAAATTATT-TTAAAAAAA
1 TAAAAAATTTTAAAATT-TTCTTAAAAAAA
58708711 TAAAAAATTTTAAAATTTTCTTAAAAAAA
1 TAAAAAATTTTAAAATTTTCTTAAAAAAA
58708740 T
1 T
58708741 GAAATTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAAAATTTTAAAATTTTCTTAAAAAAA
Found at i:58708720 original size:18 final size:19
Alignment explanation
Indices: 58708676--58708725 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
58708666 GCAATTGTTG
* *
58708676 AAAATATTAAAAAATTTAA
1 AAAATTTTAAAAAATATAA
*
58708695 AATTATTTTAAAAAA-ATAA
1 AA-AATTTTAAAAAATATAA
58708714 AAAATTTTAAAA
1 AAAATTTTAAAA
58708726 TTTTCTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 9 0.35
19 7 0.27
20 10 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTTTAAAAAATATAA
Found at i:58708831 original size:22 final size:21
Alignment explanation
Indices: 58708803--58708872 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 21
58708793 AATTGAGAGT
58708803 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTT-GAAGGAAA
*
58708825 TTGAGAGAATTTTTGAAGGGAA
1 TTGAGAGAA-TTTTGAAGGAAA
*
58708847 TTGAGAGAATCTTTGAAGGACA
1 TTGAGAGAAT-TTTGAAGGAAA
58708869 TTGA
1 TTGA
58708873 TGTTGAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 1 0.02
22 38 0.88
23 4 0.09
ACGTcount: A:0.37, C:0.03, G:0.30, T:0.30
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAGGAAA
Found at i:58709657 original size:86 final size:86
Alignment explanation
Indices: 58709552--58709714 Score: 254
Period size: 86 Copynumber: 1.9 Consensus size: 86
58709542 TTTAATGTTG
* * * *
58709552 ATCTTAATTCATTGTGATGTATGCATCCACAATCCCAATTTAAATCTTGAGTTTGGTAAGTTTTT
1 ATCTTAACTAATTGTGATGTATGCATCCACAATCCCAATTTAAATCTCGAGTTTGGTAAGCTTTT
58709617 ATGTCAGCTTTAAGTAGAATT
66 ATGTCAGCTTTAAGTAGAATT
* ***
58709638 ATCTTAACTAATTGTGATGTATGCATCCGCAATTTTAATTTAAATCTCGAGTTTGGTAAGCTTTT
1 ATCTTAACTAATTGTGATGTATGCATCCACAATCCCAATTTAAATCTCGAGTTTGGTAAGCTTTT
58709703 ATGTCAGCTTTA
66 ATGTCAGCTTTA
58709715 GGTGGAACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (86 bp):
ATCTTAACTAATTGTGATGTATGCATCCACAATCCCAATTTAAATCTCGAGTTTGGTAAGCTTTT
ATGTCAGCTTTAAGTAGAATT
Found at i:58710551 original size:12 final size:13
Alignment explanation
Indices: 58710534--58710562 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
58710524 AGTTTGTTTG
58710534 AAATAAAT-AAAT
1 AAATAAATAAAAT
58710546 AAATAAATAAAAT
1 AAATAAATAAAAT
58710559 AAAT
1 AAAT
58710563 CCATGTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:58711642 original size:11 final size:11
Alignment explanation
Indices: 58711626--58711651 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58711616 AAAAATTAAA
58711626 AAAAGTATTTT
1 AAAAGTATTTT
58711637 AAAAGTATTTT
1 AAAAGTATTTT
58711648 AAAA
1 AAAA
58711652 TTAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:58711697 original size:39 final size:40
Alignment explanation
Indices: 58711598--58711744 Score: 185
Period size: 40 Copynumber: 3.6 Consensus size: 40
58711588 ACCAAAAATT
58711598 TATTTTAAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAG
1 TATTTT-AAAATT--AA-AAAAATTAAAAAAAGTATTTTAAAAG
58711642 TATTTTAAAATT-AAAAAATT-AAAAAAGTATTTTAAAA-
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAG
* ** *
58711679 AAAATTAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAG
58711720 TATTTTAAAATTAAAAAAA-TAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAA
58711745 TATTTATTAT
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
37 7 0.08
38 19 0.21
39 20 0.22
40 26 0.29
41 7 0.08
43 6 0.07
44 6 0.07
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAG
Found at i:58711718 original size:11 final size:11
Alignment explanation
Indices: 58711704--58711729 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58711694 AAAATTTAAA
58711704 AAAAGTATTTT
1 AAAAGTATTTT
58711715 AAAAGTATTTT
1 AAAAGTATTTT
58711726 AAAA
1 AAAA
58711730 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:58713186 original size:21 final size:21
Alignment explanation
Indices: 58713162--58713233 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
58713152 AGTCAAGCTT
58713162 AATATTATTATATTAATAAAA
1 AATATTATTATATTAATAAAA
* * * * *
58713183 AATATTTTTAAAAATATTTAAA
1 AATATTATT-ATATTAATAAAA
* ** *
58713205 AATAATAAAATATTAATATAA
1 AATATTATTATATTAATAAAA
58713226 AATATTAT
1 AATATTAT
58713234 AATTTTTAAT
Statistics
Matches: 34, Mismatches: 16, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATTATTATATTAATAAAA
Found at i:58716414 original size:13 final size:13
Alignment explanation
Indices: 58716370--58716402 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58716360 TCATGGTTTG
*
58716370 AAGAAGAAGAAAA
1 AAGAAAAAGAAAA
58716383 AAGAAAAAG-AAA
1 AAGAAAAAGAAAA
58716395 AAGAAAAA
1 AAGAAAAA
58716403 AGAGAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGAAAA
Found at i:58718083 original size:6 final size:6
Alignment explanation
Indices: 58718072--58718148 Score: 154
Period size: 6 Copynumber: 12.8 Consensus size: 6
58718062 TTTATGAACA
58718072 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
58718120 ATATGT ATATGT ATATGT ATATGT ATATG
1 ATATGT ATATGT ATATGT ATATGT ATATG
58718149 ATTACAGGAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:58721155 original size:27 final size:29
Alignment explanation
Indices: 58721125--58721194 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 29
58721115 ACTTTTCTTA
*
58721125 CAAAACTTTTACTCC-T-CACTTTCCCTT
1 CAAAACTTTTACTCCTTCCACTTTCCCTC
58721152 CAAAACTTTTACTCCTTCCCACTTTCCCTC
1 CAAAACTTTTACTCCTT-CCACTTTCCCTC
58721182 CAAAACTTTTACT
1 CAAAACTTTTACT
58721195 TTTTTTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 15 0.38
28 1 0.03
30 23 0.59
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (29 bp):
CAAAACTTTTACTCCTTCCACTTTCCCTC
Found at i:58723874 original size:8 final size:7
Alignment explanation
Indices: 58723854--58723888 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
58723844 GGTATTCTAC
58723854 TTTTTCT
1 TTTTTCT
58723861 TTTTTCT
1 TTTTTCT
58723868 TTGTTTCTT
1 TT-TTTC-T
58723877 TTTTTCT
1 TTTTTCT
58723884 TTTTT
1 TTTTT
58723889 AGAATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.58
8 8 0.31
9 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:58723876 original size:15 final size:16
Alignment explanation
Indices: 58723856--58723885 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58723846 TATTCTACTT
58723856 TTTC-TTTTTTCTTTG
1 TTTCTTTTTTTCTTTG
58723871 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
58723886 TTTAGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTG
Found at i:58726642 original size:59 final size:57
Alignment explanation
Indices: 58726576--58726764 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
58726566 ATTTTATTAA
58726576 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
58726635 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
58726696 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
58726755 ATCATATATT
1 ATCATATATT
58726765 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:58726673 original size:66 final size:64
Alignment explanation
Indices: 58726603--58726801 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
58726593 AAATATATTT
*
58726603 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
58726668 G
64 G
* * * * **
58726669 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
58726723 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
58726788 G
64 G
*
58726789 AATATTGATTATT
1 AATATTAATTATT
58726802 AAGAATCTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:58726695 original size:120 final size:120
Alignment explanation
Indices: 58726565--58726862 Score: 474
Period size: 120 Copynumber: 2.5 Consensus size: 120
58726555 AATTATTTTA
* * *
58726565 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
58726629 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
58726685 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
58726750 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
58726805 AATCTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
58726863 ATGATTAAAT
Statistics
Matches: 164, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
120 156 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:58726725 original size:15 final size:15
Alignment explanation
Indices: 58726690--58726741 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
58726680 TTAAGAATTT
*
58726690 TATTAAATTAT-ATA
1 TATTTAATTATAATA
58726704 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
58726718 TATTTAATAATAAT-
1 TATTTAATTATAATA
58726732 TATGTTAATT
1 TAT-TTAATT
58726742 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:58727097 original size:16 final size:16
Alignment explanation
Indices: 58727076--58727129 Score: 108
Period size: 16 Copynumber: 3.4 Consensus size: 16
58727066 GATTTGCTAT
58727076 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58727092 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58727108 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58727124 TACACC
1 TACACC
58727130 GAACCAAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.37, C:0.39, G:0.00, T:0.24
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58738369 original size:18 final size:17
Alignment explanation
Indices: 58738342--58738376 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58738332 CCTATATTCA
58738342 ATATACTTTTCATTCCT
1 ATATACTTTTCATTCCT
*
58738359 ATATCACTTTTCTTTCCT
1 ATAT-ACTTTTCATTCCT
58738377 TTTTTTGGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATACTTTTCATTCCT
Found at i:58748311 original size:4 final size:4
Alignment explanation
Indices: 58748302--58748340 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
58748292 TTCTAGAACA
58748302 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
58748341 TCCGGCAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:58748671 original size:20 final size:20
Alignment explanation
Indices: 58748646--58748715 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
58748636 GCATGTATGA
* *
58748646 ATGTATGTGTGACAACATAT
1 ATGTATGTATGACAACATCT
*
58748666 ATGTATGTATGA-AACTCTCT
1 ATGTATGTATGACAAC-ATCT
*
58748686 ATGTATGTATGACACCATCT
1 ATGTATGTATGACAACATCT
*
58748706 ATGCATGTAT
1 ATGTATGTAT
58748716 TGAATTCCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.07
20 37 0.88
21 2 0.05
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGTATGTATGACAACATCT
Found at i:58748856 original size:24 final size:24
Alignment explanation
Indices: 58748821--58748875 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
58748811 TACTCAGAGC
* *
58748821 ATGTATGTATGACACC-ATCTATAT
1 ATGTATGAATGACACCGAT-TACAT
58748845 ATGTATGAATGACACCGATTACAT
1 ATGTATGAATGACACCGATTACAT
58748869 ATGTATG
1 ATGTATG
58748876 TATCGAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (24 bp):
ATGTATGAATGACACCGATTACAT
Found at i:58755796 original size:46 final size:46
Alignment explanation
Indices: 58755693--58756452 Score: 1231
Period size: 46 Copynumber: 16.6 Consensus size: 46
58755683 TACTTATGAT
* *
58755693 CACTTATCAC-TTCTC-CCTGATCAGATAAGTGTAGCT-A-GACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATG-CTAC
* **
58755736 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* * **
58755782 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAGGTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* * *
58755828 TACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* * *
58755874 CATTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
58755920 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* *
58755966 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* * *
58756012 CATTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAATGCCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
58756058 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* *
58756104 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* *
58756150 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
58756196 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
58756242 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
58756288 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
58756334 CACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
58756380 CACTTATCACTTTGTCACTTGATCAAATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
58756426 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
58756453 AGTACTCAAT
Statistics
Matches: 675, Mismatches: 38, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
43 9 0.01
44 4 0.01
45 20 0.03
46 642 0.95
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
Found at i:58759478 original size:19 final size:17
Alignment explanation
Indices: 58759445--58759477 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
58759435 ATATATTTTA
58759445 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
58759462 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
58759478 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:58760688 original size:21 final size:22
Alignment explanation
Indices: 58760659--58760699 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
58760649 CCAAACCCCC
58760659 AAACATTTTTACTT-TTCTTACA
1 AAACA-TTTTACTTATTCTTACA
58760681 AAAC-TTTTACTTATTCTTA
1 AAACATTTTACTTATTCTTA
58760700 TTTTTCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (22 bp):
AAACATTTTACTTATTCTTACA
Found at i:58761305 original size:18 final size:18
Alignment explanation
Indices: 58761235--58761305 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
58761225 CAATTTCACA
* *
58761235 TTTTATCTTTAAAATA-A
1 TTTTATATTTAAAATATT
*
58761252 TTTT-TATTAAAAATTATAT
1 TTTTATATTTAAAA-TAT-T
*
58761271 TTTTATATTTAATATATT
1 TTTTATATTTAAAATATT
58761289 TTTTA-ATTTCAAAATAT
1 TTTTATATTT-AAAATAT
58761306 ATAATGATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
16 7 0.16
17 10 0.23
18 12 0.28
19 7 0.16
20 7 0.16
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTATATTTAAAATATT
Found at i:58775907 original size:23 final size:22
Alignment explanation
Indices: 58775859--58775908 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
58775849 TTTAGATTAG
*
58775859 TTTAATATTATTTAATTAAATA
1 TTTAATATTATTTAATCAAATA
*
58775881 TTTAA-ATTAGTTTAAATCAAATT
1 TTTAATATTA-TTT-AATCAAATA
58775904 TTTAA
1 TTTAA
58775909 CCAATTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 8 0.33
23 12 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTAATATTATTTAATCAAATA
Found at i:58780401 original size:4 final size:4
Alignment explanation
Indices: 58780394--58780464 Score: 142
Period size: 4 Copynumber: 17.8 Consensus size: 4
58780384 AAGATATATA
58780394 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
58780442 TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TAT
58780465 ATTGTTTTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:58786703 original size:20 final size:20
Alignment explanation
Indices: 58786680--58786717 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58786670 CTGGTTTTCT
*
58786680 AATTTTTTAATGTATTTTTA
1 AATTTTTTAATGAATTTTTA
*
58786700 AATTTTTTTATGAATTTT
1 AATTTTTTAATGAATTTT
58786718 CCCTTTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
AATTTTTTAATGAATTTTTA
Found at i:58788836 original size:16 final size:15
Alignment explanation
Indices: 58788810--58788864 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
58788800 ATTAAGATTT
*
58788810 TAAATTTAAAAAATA
1 TAAAATTAAAAAATA
58788825 TAGAAATT-AAAAATGA
1 TA-AAATTAAAAAAT-A
*
58788841 TAAATTTAAAAAATA
1 TAAAATTAAAAAATA
58788856 T-AAATTAAA
1 TAAAATTAAA
58788865 TACATAACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 7 0.21
15 14 0.41
16 13 0.38
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (15 bp):
TAAAATTAAAAAATA
Found at i:58796671 original size:31 final size:29
Alignment explanation
Indices: 58796602--58796675 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
58796592 ACAACGTGAT
**
58796602 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGCCA
*
58796631 AACATAAGTGACTAAAATGTAACATGAGCCA
1 AACATAAGTGACTAAAACGTAACAT--GCCA
*
58796662 AACAAAAGTGACTA
1 AACATAAGTGACTA
58796676 TTTTAGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGCCA
Found at i:58797405 original size:13 final size:14
Alignment explanation
Indices: 58797371--58797404 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
58797361 AATATAATGT
58797371 AAAAACAAT-TTTTC
1 AAAAA-AATATTTTC
58797385 AAAAAAATATTTTC
1 AAAAAAATATTTTC
58797399 AAAAAA
1 AAAAAA
58797405 TCTACCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAAATATTTTC
Found at i:58804249 original size:2 final size:2
Alignment explanation
Indices: 58804242--58804268 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58804232 ACGGATGCAA
58804242 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
58804269 TAAACAGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:58826669 original size:12 final size:12
Alignment explanation
Indices: 58826652--58826685 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58826642 TAGTATTTAT
58826652 ATTAAATTATAA
1 ATTAAATTATAA
*
58826664 ATTAAAATATAA
1 ATTAAATTATAA
*
58826676 AATAAATTAT
1 ATTAAATTAT
58826686 CTATATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTAAATTATAA
Found at i:58829205 original size:6 final size:6
Alignment explanation
Indices: 58829194--58829218 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
58829184 CTACATTTAC
58829194 TTTAAT TTTAAT TTTAAT TTTAAT T
1 TTTAAT TTTAAT TTTAAT TTTAAT T
58829219 CATTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:58839892 original size:14 final size:14
Alignment explanation
Indices: 58839868--58839904 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
58839858 TGAACCATAG
58839868 TCCTGAAATCTCAAA
1 TCCT-AAATCTCAAA
*
58839883 TCTTAAATCTCAAA
1 TCCTAAATCTCAAA
58839897 TCCTAAAT
1 TCCTAAAT
58839905 TTCGAACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (14 bp):
TCCTAAATCTCAAA
Found at i:58841841 original size:18 final size:19
Alignment explanation
Indices: 58841804--58841840 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
58841794 CTGATTTCGT
58841804 TAAAGAAAATTTAAAAAAA
1 TAAAGAAAATTTAAAAAAA
*
58841823 TAAATAAAATTTAAAAAA
1 TAAAGAAAATTTAAAAAA
58841841 TTTTAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
TAAAGAAAATTTAAAAAAA
Found at i:58842000 original size:16 final size:16
Alignment explanation
Indices: 58841979--58842031 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
58841969 ACTTGAATAA
58841979 TTAAAATGAAAACGCC
1 TTAAAATGAAAACGCC
58841995 TTAAAAGTTGAATAA----
1 TTAAAA--TGAA-AACGCC
58842010 TTAAAATGAAAACGCC
1 TTAAAATGAAAACGCC
58842026 TTAAAA
1 TTAAAA
58842032 GTAGAGTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
12 2 0.07
13 4 0.13
15 6 0.20
16 12 0.40
18 4 0.13
19 2 0.07
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (16 bp):
TTAAAATGAAAACGCC
Found at i:58842006 original size:31 final size:31
Alignment explanation
Indices: 58841971--58842033 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
58841961 GATTTAGCAC
58841971 TTGAATAATTAAAATGAAAACGCCTTAAAAG
1 TTGAATAATTAAAATGAAAACGCCTTAAAAG
58842002 TTGAATAATTAAAATGAAAACGCCTTAAAAG
1 TTGAATAATTAAAATGAAAACGCCTTAAAAG
58842033 T
1 T
58842034 AGAGTGACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.27
Consensus pattern (31 bp):
TTGAATAATTAAAATGAAAACGCCTTAAAAG
Found at i:58849594 original size:11 final size:11
Alignment explanation
Indices: 58849580--58849609 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
58849570 AATAAATATA
*
58849580 TTATAATATTT
1 TTATAACATTT
58849591 TTATAACATTT
1 TTATAACATTT
58849602 TTATAACA
1 TTATAACA
58849610 CAAATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (11 bp):
TTATAACATTT
Found at i:58853138 original size:7 final size:7
Alignment explanation
Indices: 58853126--58853151 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
58853116 AATTTAATTT
58853126 TTTTCAC
1 TTTTCAC
58853133 TTTTCAC
1 TTTTCAC
58853140 TTTTCAC
1 TTTTCAC
58853147 TTTTC
1 TTTTC
58853152 GAATTTTGAA
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:0.12, C:0.27, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTCAC
Found at i:58856495 original size:77 final size:77
Alignment explanation
Indices: 58856368--58856527 Score: 302
Period size: 77 Copynumber: 2.1 Consensus size: 77
58856358 TCCCCCAATT
58856368 TTTTACAACTTAGTTTCACACCCCATGAAATAACTTTACATGTCACATATCTGCGAACCAAAATC
1 TTTTACAACTTAGTTTCACACCCCATGAAATAACTTTACATGTCACATATCTGCGAACCAAAATC
58856433 TAAACAATTTTC
66 TAAACAATTTTC
* *
58856445 TTTTACAACTTAGTTTCACGCCCCATGAAATAGCTTTACATGTCACATATCTGCGAACCAAAATC
1 TTTTACAACTTAGTTTCACACCCCATGAAATAACTTTACATGTCACATATCTGCGAACCAAAATC
58856510 TAAACAATTTTC
66 TAAACAATTTTC
58856522 TTTTAC
1 TTTTAC
58856528 GATCTTCGAC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 81 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (77 bp):
TTTTACAACTTAGTTTCACACCCCATGAAATAACTTTACATGTCACATATCTGCGAACCAAAATC
TAAACAATTTTC
Found at i:58857303 original size:6 final size:6
Alignment explanation
Indices: 58857292--58857320 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
58857282 CTCAACAACT
58857292 ACAGCA ACAGCA ACAGCA ACAGCA ACAGC
1 ACAGCA ACAGCA ACAGCA ACAGCA ACAGC
58857321 CGGTTTGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.34, G:0.17, T:0.00
Consensus pattern (6 bp):
ACAGCA
Found at i:58857305 original size:18 final size:18
Alignment explanation
Indices: 58857284--58857320 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
58857274 GCCGCAAACT
*
58857284 CAACAACTACAGCAACAG
1 CAACAACAACAGCAACAG
*
58857302 CAACAGCAACAGCAACAG
1 CAACAACAACAGCAACAG
58857320 C
1 C
58857321 CGGTTTGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.35, G:0.14, T:0.03
Consensus pattern (18 bp):
CAACAACAACAGCAACAG
Found at i:58860735 original size:11 final size:11
Alignment explanation
Indices: 58860719--58860744 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58860709 AAATGATGAC
58860719 TGTATTAAGTG
1 TGTATTAAGTG
58860730 TGTATTAAGTG
1 TGTATTAAGTG
58860741 TGTA
1 TGTA
58860745 AGTGTGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (11 bp):
TGTATTAAGTG
Found at i:58861475 original size:16 final size:16
Alignment explanation
Indices: 58861442--58861475 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58861432 TAATTCTCTC
**
58861442 TACAAGCTGCTTTTTT
1 TACAAGCTGCTTGGTT
58861458 TACAAGCTGCTTGGTT
1 TACAAGCTGCTTGGTT
58861474 TA
1 TA
58861476 ATGTTGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (16 bp):
TACAAGCTGCTTGGTT
Found at i:58873675 original size:25 final size:26
Alignment explanation
Indices: 58873628--58873677 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
58873618 AGGTCAAGAG
58873628 TCAAATTTAACAAAAAAGGAATAAAGT
1 TCAAATTTAACAAAAAA-GAATAAAGT
58873655 TCAAA-TTAACAAAAATA-AATAAA
1 TCAAATTTAACAAAAA-AGAATAAA
58873678 TAAATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.27
26 10 0.45
27 6 0.27
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (26 bp):
TCAAATTTAACAAAAAAGAATAAAGT
Found at i:58881926 original size:13 final size:14
Alignment explanation
Indices: 58881899--58881927 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58881889 ATTTCTTAAG
58881899 TTTTTTTTTCTCTT
1 TTTTTTTTTCTCTT
58881913 TTTTTTTTTC-CTT
1 TTTTTTTTTCTCTT
58881926 TT
1 TT
58881928 CGTTCAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTCTCTT
Found at i:58889698 original size:21 final size:21
Alignment explanation
Indices: 58889656--58889698 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
58889646 TATTTACATA
**
58889656 TTTTATAAATATTTAAATAAT
1 TTTTATAAATAAATAAATAAT
58889677 TTTTATCAAATAAATAAA-AAT
1 TTTTAT-AAATAAATAAATAAT
58889698 T
1 T
58889699 CAATGCTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTATAAATAAATAAATAAT
Found at i:58896078 original size:33 final size:33
Alignment explanation
Indices: 58896022--58896145 Score: 121
Period size: 33 Copynumber: 3.8 Consensus size: 33
58896012 GCTAGTGCTG
* *
58896022 TAAGCAGGAC-AGTTAGTACGGATGATGCTCCTT
1 TAAGCAGGACAAG-TAGCAGGGATGATGCTCCTT
*
58896055 TAAGCAGGACAAGTAGCAGGGATG-TG-T-CTA
1 TAAGCAGGACAAGTAGCAGGGATGATGCTCCTT
* * * * *
58896085 TAAGCCGGCCAACTAGTAGGGATGATGCCCCTT
1 TAAGCAGGACAAGTAGCAGGGATGATGCTCCTT
* *
58896118 CAAGCAGGCCAAGTAGCAGGGATGATGC
1 TAAGCAGGACAAGTAGCAGGGATGATGC
58896146 CCCTATAATC
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
30 22 0.30
31 3 0.04
32 2 0.03
33 45 0.61
34 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (33 bp):
TAAGCAGGACAAGTAGCAGGGATGATGCTCCTT
Found at i:58896146 original size:33 final size:32
Alignment explanation
Indices: 58896041--58896158 Score: 116
Period size: 33 Copynumber: 3.7 Consensus size: 32
58896031 CAGTTAGTAC
* *
58896041 GGATGATGCTCCTTTAAGCAGGACAAGTAGCAG
1 GGATGATGC-CCCTTAAGCAGGCCAAGTAGCAG
* * * *
58896074 GGATG-TG--TCTATAAGCCGGCCAACTAGTAG
1 GGATGATGCCCCT-TAAGCAGGCCAAGTAGCAG
58896104 GGATGATGCCCCTTCAAGCAGGCCAAGTAGCAG
1 GGATGATGCCCCTT-AAGCAGGCCAAGTAGCAG
*
58896137 GGATGATGCCCCTATAATCAGG
1 GGATGATGCCCCT-TAAGCAGG
58896159 TTGGGTGTTG
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
29 1 0.01
30 20 0.29
31 2 0.03
32 3 0.04
33 41 0.60
34 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (32 bp):
GGATGATGCCCCTTAAGCAGGCCAAGTAGCAG
Found at i:58898919 original size:11 final size:11
Alignment explanation
Indices: 58898903--58898939 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
58898893 TAAAAAATAA
58898903 AAAAATATTTT
1 AAAAATATTTT
58898914 AAAAATATTTT
1 AAAAATATTTT
58898925 --AAA-ATTTT
1 AAAAATATTTT
58898933 AAAAATA
1 AAAAATA
58898940 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 5 0.22
9 3 0.13
10 3 0.13
11 12 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:58898919 original size:19 final size:18
Alignment explanation
Indices: 58898895--58898944 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
58898885 TTTAAAAATA
58898895 AAAAATAAAAAAATATTTT
1 AAAAATAAAAAAA-ATTTT
***
58898914 AAAAATATTTTAAAATTTT
1 AAAAATA-AAAAAAATTTT
58898933 AAAAATAAAAAA
1 AAAAATAAAAAA
58898945 TAAAAATATT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
18 2 0.08
19 19 0.79
20 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATAAAAAAAATTTT
Found at i:58899847 original size:8 final size:8
Alignment explanation
Indices: 58899829--58899858 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
58899819 TACATTTAAA
58899829 TTTTAACTT
1 TTTTAA-TT
58899838 TTTTAATT
1 TTTTAATT
58899846 TTTTAATT
1 TTTTAATT
58899854 TTTTA
1 TTTTA
58899859 TTCTTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTAATT
Found at i:58902849 original size:39 final size:40
Alignment explanation
Indices: 58902788--58902917 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 40
58902778 TCCTCGTTCA
* * * *
58902788 AATGGCTTCGGGACA-TAGCCCGG-TTATAGTAACTCATAC-
1 AATGCCTTCGGGA-ATTAACCCGGATTATA-AAACTCACACG
* *
58902827 AATGCCTTCGGGAATTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGAATTAACCCGGATTATAAAACTCACACG
* * *
58902867 AATGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACG
1 AATGCCTTCGGGAATTAACCCGG-ATTATAAAACTCACACG
58902907 AATGCCTTCGG
1 AATGCCTTCGG
58902918 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 26 0.33
40 48 0.62
41 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGAATTAACCCGGATTATAAAACTCACACG
Found at i:58902878 original size:40 final size:40
Alignment explanation
Indices: 58902827--58902917 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
58902817 TAACTCATAC
*
58902827 AATGCCTTCGGGAATTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGAATTAACCCGGA-ATTAATAACTCGCACG
*
58902867 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACG
1 AATGCCTTCGGGAATTAACCCGGAATTAATAACTCGCACG
58902907 AATGCCTTCGG
1 AATGCCTTCGG
58902918 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 4 0.08
40 44 0.92
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGAATTAACCCGGAATTAATAACTCGCACG
Found at i:58904066 original size:56 final size:57
Alignment explanation
Indices: 58904022--58904141 Score: 190
Period size: 56 Copynumber: 2.1 Consensus size: 57
58904012 CCTTTCTTTA
58904022 TTACCCATACTCCTTATTTTATTCTTCCATTAACAAAACATG-TTTCATGACATGTT
1 TTACCCATACTCCTTATTTTATTCTTCCATTAACAAAACATGTTTTCATGACATGTT
* * *
58904078 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACAAAACATG-TTTCATGACATGTT
1 TTACCCATACTCCTTATTTTATTCTTCCATTAACAAAACATGTTTTCATGACATGTT
*
58904134 TTGCCCAT
1 TTACCCAT
58904142 CATTACTTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.43
Consensus pattern (57 bp):
TTACCCATACTCCTTATTTTATTCTTCCATTAACAAAACATGTTTTCATGACATGTT
Found at i:58906412 original size:24 final size:24
Alignment explanation
Indices: 58906371--58906424 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
58906361 GTGGAATTCA
* *
58906371 ATACATATGTAATCGGTGTCATGC
1 ATACATATATAATCGGTGTCATAC
58906395 ATACATATATAGAT-GGTGTCATAC
1 ATACATATATA-ATCGGTGTCATAC
58906419 ATACAT
1 ATACAT
58906425 GCTCTGAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (24 bp):
ATACATATATAATCGGTGTCATAC
Done.