Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 58 of 141
Found at i:17353600 original size:21 final size:22
Alignment explanation
Indices: 17353566--17353606 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
17353556 TCAAATTGTG
17353566 CATTAAAACCTATTAATTTTTA
1 CATTAAAACCTATTAATTTTTA
*
17353588 CATTAAAA-TTATTAATTTT
1 CATTAAAACCTATTAATTTT
17353607 ACTTGACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (22 bp):
CATTAAAACCTATTAATTTTTA
Found at i:17368679 original size:15 final size:15
Alignment explanation
Indices: 17368659--17368689 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17368649 CCAACCTTCA
17368659 AATTTTACCTCAATT
1 AATTTTACCTCAATT
17368674 AATTTTACCTCAATT
1 AATTTTACCTCAATT
17368689 A
1 A
17368690 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:17370888 original size:11 final size:11
Alignment explanation
Indices: 17370872--17370898 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17370862 TAGAAATTAG
17370872 TTTGTGAAACT
1 TTTGTGAAACT
17370883 TTTGTGAAACT
1 TTTGTGAAACT
17370894 TTTGT
1 TTTGT
17370899 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:17372431 original size:93 final size:92
Alignment explanation
Indices: 17372299--17372493 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
17372289 TTGATTTTAG
* *
17372299 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
17372363 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
17372391 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
17372456 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
17372484 CAAATTCATA
1 TAAATTCATA
17372494 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:17372551 original size:17 final size:17
Alignment explanation
Indices: 17372526--17372559 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17372516 ATAATTTTAA
*
17372526 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
17372543 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
17372560 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:17372561 original size:15 final size:16
Alignment explanation
Indices: 17372526--17372564 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
17372516 ATAATTTTAA
*
17372526 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
17372543 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
17372558 ATTTAAT
1 ATTTAAT
17372565 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:17372568 original size:17 final size:18
Alignment explanation
Indices: 17372530--17372569 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
17372520 TTTTAAATTT
*
17372530 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
17372548 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
17372564 TATTAA
1 TATTAA
17372570 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:17372684 original size:15 final size:15
Alignment explanation
Indices: 17372649--17372783 Score: 61
Period size: 15 Copynumber: 8.9 Consensus size: 15
17372639 TTAAGAATTT
*
17372649 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17372663 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17372677 TATTTAATAATAAT-
1 TATTTAATTATAATA
17372691 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
17372705 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
* *
17372720 TATTATGATTTGAGTAAATTCT
1 TATT-T-AATT-A-T-AA-T-A
*
17372742 TATTAAATTAT-ATA
1 TATTTAATTATAATA
17372756 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
17372770 TATTTAATAATAAT
1 TATTTAATTATAAT
17372784 TATGTTTAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 33
0.66 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 16 0.18
15 32 0.35
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:17372691 original size:120 final size:119
Alignment explanation
Indices: 17372525--17372740 Score: 339
Period size: 120 Copynumber: 1.8 Consensus size: 119
17372515 AATAATTTTA
* *
17372525 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATATTAATTAT-TTGAAATTT-TCTTT
1 AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTT--AATTTATATTT
*
17372588 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
*
17372644 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATAATAATTATGTTAATTTATATTT
17372708 TACAGTATCATATATTATGATTTGAGTAAATTC
64 TACAGTATCATATATTATGATTTGAGTAAATTC
17372741 TTATTAAATT
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 23 0.26
120 61 0.69
121 5 0.06
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTAATTAAATCATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
Found at i:17372899 original size:154 final size:157
Alignment explanation
Indices: 17372736--17373039 Score: 551
Period size: 154 Copynumber: 1.9 Consensus size: 157
17372726 GATTTGAGTA
*
17372736 AATTCTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATT
1 AATTCTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATT
17372801 AAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTAC
66 AAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTAC
17372864 CAAAACAAATTTATGCTAATTATTAAG
131 CAAAACAAATTTATGCTAATTATTAAG
17372891 AATT-TTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATT
1 AATTCTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATT
*
17372955 AAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTA
66 AAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTA
*
17373020 CCAAAACAAATTTCTGCTAA
130 CCAAAACAAATTTATGCTAA
17373040 GGGTATTCTA
Statistics
Matches: 143, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
154 77 0.54
155 6 0.04
157 60 0.42
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (157 bp):
AATTCTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATT
AAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTAC
CAAAACAAATTTATGCTAATTATTAAG
Found at i:17372920 original size:18 final size:17
Alignment explanation
Indices: 17372892--17372926 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17372882 ATTATTAAGA
*
17372892 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
17372909 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
17372927 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:17373180 original size:16 final size:16
Alignment explanation
Indices: 17373159--17373197 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17373149 TTGATTTGCT
*
17373159 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
17373175 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
17373191 ATTACAC
1 ATTACAC
17373198 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:17373198 original size:16 final size:16
Alignment explanation
Indices: 17373172--17373228 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
17373162 ACACAGCTTT
* *
17373172 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
17373188 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
17373204 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
17373220 TCCAATACA
1 TCCAATACA
17373229 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:17373610 original size:14 final size:15
Alignment explanation
Indices: 17373583--17373611 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17373573 AACTGTCGTC
17373583 TATTTACATTTATCT
1 TATTTACATTTATCT
17373598 TATTTAC-TTTATCT
1 TATTTACATTTATCT
17373612 AGCTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTACATTTATCT
Found at i:17374113 original size:22 final size:22
Alignment explanation
Indices: 17374079--17374120 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17374069 TTATAGTTGG
17374079 GGTTGTGGATTTGGGGGTTTGT
1 GGTTGTGGATTTGGGGGTTTGT
*
17374101 GGTTCGTGG-TTTGTGGGTTT
1 GGTT-GTGGATTTGGGGGTTT
17374121 TTATTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.02, C:0.02, G:0.48, T:0.48
Consensus pattern (22 bp):
GGTTGTGGATTTGGGGGTTTGT
Found at i:17374232 original size:28 final size:27
Alignment explanation
Indices: 17374176--17374238 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
17374166 TTAATGTCAG
* *
17374176 GGTTAGGGTTTAGGGTTTGTTGTTCAA
1 GGTTAGGGTTAAGGGTTTGTGGTTCAA
*
17374203 GGTTGAGGGTTAAGGG-TTGATGGTTTAA
1 GGTT-AGGGTTAAGGGTTTG-TGGTTCAA
*
17374231 GGGTAGGG
1 GGTTAGGG
17374239 GTATGATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.37
Consensus pattern (27 bp):
GGTTAGGGTTAAGGGTTTGTGGTTCAA
Found at i:17379467 original size:27 final size:27
Alignment explanation
Indices: 17379437--17379492 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
17379427 CTTCAACAAC
17379437 ATATAAGCATTTCAAAACAAAACTCAT
1 ATATAAGCATTTCAAAACAAAACTCAT
17379464 ATATAAGCATTTCAAAACAAAACTCAT
1 ATATAAGCATTTCAAAACAAAACTCAT
17379491 AT
1 AT
17379493 CATCATTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.18, G:0.04, T:0.27
Consensus pattern (27 bp):
ATATAAGCATTTCAAAACAAAACTCAT
Found at i:17383326 original size:19 final size:19
Alignment explanation
Indices: 17383276--17383331 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
17383266 AACTAATGTA
*
17383276 AATTATGTTTATATTTTAATT
1 AATTATGTTTA-A-TTAAATT
* *
17383297 -ATTAAGGTTAATTAAATT
1 AATTATGTTTAATTAAATT
17383315 AATTATGTTTAATTAAA
1 AATTATGTTTAATTAAA
17383332 GGTTAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.21
19 15 0.52
20 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
AATTATGTTTAATTAAATT
Found at i:17388060 original size:15 final size:14
Alignment explanation
Indices: 17388039--17388074 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
17388029 ATAATATTTA
*
17388039 ATAATTATCTTAAT
1 ATAATTATCCTAAT
17388053 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
17388068 ATAATTA
1 ATAATTA
17388075 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:17388796 original size:93 final size:94
Alignment explanation
Indices: 17388682--17388866 Score: 284
Period size: 93 Copynumber: 2.0 Consensus size: 94
17388672 TCAATCTGAA
* *
17388682 AAATTATTTGATGGACCCTTCCCACCACATCATCC-ATGGTCTCTTTCCAATTATTTAATGACAT
1 AAATTATTTGATGGACCCTTCCCACCACATCA-CCTATGGTCCCTTTCAAATTATTTAATGACAT
*
17388746 TTCAGCAAAATTTTCCAT-TTACTTACAAG
65 ATCAGCAAAATTTTCCATGTTACTTACAAG
* * *
17388775 AAATTATTTTATGTATCCTTCCCACCACATCACCTATGGTCCCTTTCAAATTATTTAATGACATA
1 AAATTATTTGATGGACCCTTCCCACCACATCACCTATGGTCCCTTTCAAATTATTTAATGACATA
*
17388840 TCAGCAAAATTTTCCATGTTATTTACA
66 TCAGCAAAATTTTCCATGTTACTTACA
17388867 CATAATTTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 2 0.02
93 73 0.88
94 8 0.10
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (94 bp):
AAATTATTTGATGGACCCTTCCCACCACATCACCTATGGTCCCTTTCAAATTATTTAATGACATA
TCAGCAAAATTTTCCATGTTACTTACAAG
Found at i:17389271 original size:7 final size:7
Alignment explanation
Indices: 17389259--17389308 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
17389249 GATTTAGGGC
17389259 TCAAGGT
1 TCAAGGT
17389266 TCAAGGGT
1 TCAA-GGT
*
17389274 T-GAGGT
1 TCAAGGT
17389280 TCAAGGT
1 TCAAGGT
**
17389287 TCTTGGT
1 TCAAGGT
17389294 TCAAGGT
1 TCAAGGT
17389301 TCAAGGT
1 TCAAGGT
17389308 T
1 T
17389309 TGAGATTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 4 0.11
7 27 0.77
8 4 0.11
ACGTcount: A:0.22, C:0.12, G:0.32, T:0.34
Consensus pattern (7 bp):
TCAAGGT
Found at i:17389277 original size:35 final size:35
Alignment explanation
Indices: 17389238--17389312 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
17389228 GGTGTGAGGT
17389238 TTGAGGTTCAAGATT-TAGGGCTCAAGGTTCAAGGG
1 TTGAGGTTCAAGATTCT-GGGCTCAAGGTTCAAGGG
* * * *
17389273 TTGAGGTTCAAGGTTCTTGGTTCAAGGTTCAAGGT
1 TTGAGGTTCAAGATTCTGGGCTCAAGGTTCAAGGG
17389308 TTGAG
1 TTGAG
17389313 ATTTAGAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.33
Consensus pattern (35 bp):
TTGAGGTTCAAGATTCTGGGCTCAAGGTTCAAGGG
Found at i:17390017 original size:35 final size:35
Alignment explanation
Indices: 17389978--17390046 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
17389968 TTGAGGTTCA
*
17389978 AGATTCAAGGCTCAAGGTTTGAGGGTTGGGGTTTT
1 AGATTCAAGGCTCAAGGTTTGAGGGTTGGAGTTTT
* * *
17390013 AGATTCTAGGTTCAAGGTTTGAGGTTTGGAGTTT
1 AGATTCAAGGCTCAAGGTTTGAGGGTTGGAGTTT
17390047 GGGGTTTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.20, C:0.07, G:0.35, T:0.38
Consensus pattern (35 bp):
AGATTCAAGGCTCAAGGTTTGAGGGTTGGAGTTTT
Found at i:17393415 original size:15 final size:15
Alignment explanation
Indices: 17393395--17393445 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
17393385 TGAAATGAGA
17393395 TTAAATTTTGAAAAC
1 TTAAATTTTGAAAAC
*
17393410 TTAAATAATTT-AAAAA
1 TTAAAT--TTTGAAAAC
*
17393426 TTAAATTTGGAAAAC
1 TTAAATTTTGAAAAC
17393441 TTAAA
1 TTAAA
17393446 AATTTGGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.07
15 15 0.50
16 10 0.33
17 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (15 bp):
TTAAATTTTGAAAAC
Found at i:17393450 original size:17 final size:17
Alignment explanation
Indices: 17393397--17393456 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
17393387 AAATGAGATT
*
17393397 AAATTTTGAAAACTTAA
1 AAATTTGGAAAACTTAA
*
17393414 ATAATTT--AAAAATT--
1 A-AATTTGGAAAACTTAA
17393428 AAATTTGGAAAACTTAA
1 AAATTTGGAAAACTTAA
17393445 AAATTTGGAAAA
1 AAATTTGGAAAA
17393457 ACTTTGGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 5 0.14
14 1 0.03
15 6 0.17
16 6 0.17
17 13 0.36
18 5 0.14
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.33
Consensus pattern (17 bp):
AAATTTGGAAAACTTAA
Found at i:17397425 original size:6 final size:6
Alignment explanation
Indices: 17397414--17397448 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
17397404 CTAGAAATAA
17397414 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
17397449 GGTTTATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:17401815 original size:109 final size:109
Alignment explanation
Indices: 17401623--17402157 Score: 840
Period size: 109 Copynumber: 4.9 Consensus size: 109
17401613 TTGTTTTTTC
*
17401623 AATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
1 AATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
17401688 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
*
17401732 CATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
1 AATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
*
17401797 TTCTCATTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
* * *
17401841 CATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAGAACGTGCCCTAATGTGCTGGGTTTTGATTT
1 AATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
* * *
17401906 TTCTCGTTCGAACAAATAACCAAATATCCTTTTAAAATTTTCAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
* * * *
17401950 AATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAGCGTGCCCTAATGTGTTGGGTTTTGGTTT
1 AATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
* * *
17402015 TTCTCGCTCGACCAAATAGCTAAATATCCTTTCAAAAATTTCAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
* * * **
17402059 AATAAGGCAATGTTTTGCGTTTGGAAACTCGAGAAAACTTGCTCTAATACGCTGGGTTTCGA--T
1 AATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
* * *
17402122 TTCTCGTTGGACCAAATAGCCGAATATCCTCTTAAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
17402158 TCTTAATCCA
Statistics
Matches: 391, Mismatches: 35, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
107 31 0.08
109 360 0.92
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (109 bp):
AATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
Found at i:17405850 original size:12 final size:11
Alignment explanation
Indices: 17405833--17405877 Score: 53
Period size: 10 Copynumber: 4.4 Consensus size: 11
17405823 AAAAACAAAG
17405833 AGAGAAGGAAAA
1 AGAGAA-GAAAA
17405845 AGAGAA-AAAA
1 AGAGAAGAAAA
17405855 A-AGAAGAAAA
1 AGAGAAGAAAA
17405865 AGA-AA-AAAA
1 AGAGAAGAAAA
17405874 AGAG
1 AGAG
17405878 GCCAAGGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 11 0.37
10 12 0.40
11 1 0.03
12 6 0.20
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AGAGAAGAAAA
Found at i:17405859 original size:9 final size:9
Alignment explanation
Indices: 17405841--17405876 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
17405831 AGAGAGAAGG
*
17405841 AAAAAGAGA
1 AAAAAAAGA
17405850 AAAAAAAGA
1 AAAAAAAGA
*
17405859 AGAAAAAGA
1 AAAAAAAGA
17405868 AAAAAAAGA
1 AAAAAAAGA
17405877 GGCCAAGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:17405863 original size:20 final size:20
Alignment explanation
Indices: 17405835--17405874 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17405825 AAACAAAGAG
17405835 AGAAGGAAAAAGAGAAAAAAA
1 AGAAGGAAAAAGA-AAAAAAA
17405856 AGAA-GAAAAAGAAAAAAAA
1 AGAAGGAAAAAGAAAAAAAA
17405875 GAGGCCAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AGAAGGAAAAAGAAAAAAAA
Found at i:17407192 original size:44 final size:44
Alignment explanation
Indices: 17407143--17407464 Score: 152
Period size: 44 Copynumber: 7.3 Consensus size: 44
17407133 TCTTTGATTT
* * *
17407143 GTAGTGGAGTAGATTGAAGATTTTAGATTCTGTCTCCCTAAGCA
1 GTAGTGGAGCAGATTGAAGATTGTAGATTCTATCTCCCTAAGCA
* *
17407187 GTAGTGGAGCAGATCGAAGATGGT-GAATAT-TATCTTCCC-AAG-A
1 GTAGTGGAGCAGATTGAAGATTGTAG-AT-TCTATC-TCCCTAAGCA
* * *
17407230 -TAGTGGAGAAGCAGATTTAAGCCA-T-TAG-TCCTATCTCCCTGAGCA
1 GTAGT-G-G-AGCAGATTGAAG--ATTGTAGATTCTATCTCCCTAAGCA
* * * * *
17407275 GCAGTGGAGGAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCA
1 GTAGTGGAGCAGATTGAAGATTGTAGATTCTATCTCCCTAAGCA
* * * *
17407319 GTAGTGGAGCAGATCGAAGATGGT-GAATCTTACCTTCCC-AAG-A
1 GTAGTGGAGCAGATTGAAGATTGTAGATTC-TATC-TCCCTAAGCA
* **** *
17407362 -TAGTGGAGAAGCAGATTTAA-ACCACCA-ATCCTATCTCCCTAAGCA
1 GTAGT-G-G-AGCAGATTGAAGA-TTGTAGATTCTATCTCCCTAAGCA
* * * *
17407407 GTAGTGGAGTAGGTTGAAGATTGCAGA-TCTTGTCTCCCTAAGCA
1 GTAGTGGAGCAGATTGAAGATTGTAGATTC-TATCTCCCTAAGCA
*
17407451 ATAGTGGAGCAGAT
1 GTAGTGGAGCAGAT
17407465 CAAAGACGGT
Statistics
Matches: 202, Mismatches: 47, Indels: 58
0.66 0.15 0.19
Matches are distributed among these distances:
41 1 0.00
42 9 0.04
43 39 0.19
44 109 0.54
45 35 0.17
46 8 0.04
47 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
GTAGTGGAGCAGATTGAAGATTGTAGATTCTATCTCCCTAAGCA
Found at i:17407356 original size:132 final size:132
Alignment explanation
Indices: 17407143--17407620 Score: 667
Period size: 132 Copynumber: 3.6 Consensus size: 132
17407133 TCTTTGATTT
* ** *
17407143 GTAGTGGAGTAGATTGAAGATTTTAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 GTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* * ** *
17407208 GGTGAATATTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTGAG
66 GGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCACCAGTCCTATCTCCCTAAG
17407273 CA
131 CA
* * *
17407275 GCAGTGGAGGAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 GTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
* *
17407340 GGTGAATCTTACCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCACCAATCCTATCTCCCTAAG
66 GGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCACCAGTCCTATCTCCCTAAG
17407405 CA
131 CA
* *
17407407 GTAGTGGAGTAGGTTGAAGATTGCAGA-TCTTGTCTCCCTAAGCAATAGTGGAGCAGATCAAAGA
1 GTAGTGGAGTAGGTTGAAGATTGCAGATTC-TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
*
17407471 CGGTGAATCTTATCTTCCCAATG-TAGTAGG-GAAGCAGATTTAAACCACCAGTTCTATCTCCCT
65 CGGTGAATCTTATCTTCCCAA-GATAGT-GGAGAAGCAGATTTAAACCACCAGTCCTATCTCCCT
17407534 AAGCA
128 AAGCA
* ** * * * * *
17407539 ATAGCAGAGTAGGTCGAAGGTTGTAAATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
1 GTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
*
17407604 AGTGAATCTTA-CTTCCC
66 GGTGAATCTTATCTTCCC
17407621 TGGTGGTGCA
Statistics
Matches: 311, Mismatches: 31, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
131 8 0.03
132 299 0.96
133 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
GTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
GGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCACCAGTCCTATCTCCCTAAG
CA
Found at i:17407779 original size:99 final size:99
Alignment explanation
Indices: 17407608--17407901 Score: 383
Period size: 100 Copynumber: 3.0 Consensus size: 99
17407598 GAAGACAGTG
* * * * *
17407608 AATCTTACTTCCCTGGTGGTGCAGTGGAATAGATTGAAGCTACAATGGCGAATCTGGCTT-CCTC
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCT-
17407672 GACATTGCAATTAAAAGATTGAGGCCACAACAGCA
65 GACATTGCAATTAAAAGATTGAGGCCACAACAGCA
* * *
17407707 AATCTTATTTCCCTGGCGGTGCAGTGGAGCAGATCGAAGCTACAACGGTGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTG
* **
17407772 ACATTGCAATTAAAAAGATTTAGGCCACAATGGCA
66 ACATTGCAATT-AAAAGATTGAGGCCACAACAGCA
* * * ** *
17407807 AATCTTACTTCTCAGGCGGTGTAGTGGAACAGATTGAAGCTACAACAATGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTG
* * *
17407872 ACATTGTAATTAAAATATTGAGGCTACAAC
66 ACATTGCAATTAAAAGATTGAGGCCACAAC
17407902 GGTGAATCTC
Statistics
Matches: 168, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
99 79 0.47
100 89 0.53
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (99 bp):
AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTG
ACATTGCAATTAAAAGATTGAGGCCACAACAGCA
Found at i:17407898 original size:149 final size:150
Alignment explanation
Indices: 17407745--17408070 Score: 456
Period size: 149 Copynumber: 2.2 Consensus size: 150
17407735 GCAGATCGAA
* * * *
17407745 GCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTTAGGCCACAATGGCAAAT
1 GCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACGACAAAT
* * *
17407810 CTTACTTCTCAGGCGGTGTAGTGGAACAGATTGAAGCTACAACAATGAATCTTGCTTCCCCGACA
66 CTTACTTCCCAGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTCGCTTCCCCGACA
* *
17407875 TTGTAATT-AAAATATTGAG
131 TTGCAATTAAAAAGATTGAG
* * * **
17407894 GCTACAACGGTGAATCTCGCTTCCCCGATATTGCAATTAAAAAGATTGAAGCCACAACGATGAAT
1 GCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACGACAAAT
* * **
17407959 CTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
66 CTTACTTCCCAGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTCGCTTCCCCGACA
17408024 TTGCAATTAAAAAGATTGAG
131 TTGCAATTAAAAAGATTGAG
* * *
17408044 GCCACAACGGCGAATCTTACTTCCCTG
1 GCTACAACGGTGAATCTTGCTTCCCTG
17408071 GCGGTGTAGT
Statistics
Matches: 153, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
149 121 0.79
150 32 0.21
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (150 bp):
GCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACGACAAAT
CTTACTTCCCAGGCGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTCGCTTCCCCGACA
TTGCAATTAAAAAGATTGAG
Found at i:17407967 original size:99 final size:99
Alignment explanation
Indices: 17407837--17408240 Score: 533
Period size: 100 Copynumber: 4.1 Consensus size: 99
17407827 GTAGTGGAAC
* * * * ** * * * * *
17407837 AGATTGAAGCTACAACAATGAATCTTGCTTCCCCGACATTGTAAT-TAAAATATTGAGGCTACAA
1 AGATTGAAGCCACAACGACGAATCTTACTTCCCCGACGGTGTAGTGGAATAGATTGAAGCTACAA
* *
17407901 CGGTGAATCTCGCTTCCCCGATATTGCAATTAAAA
66 CGGCGAATCTCGCTTCCCCGACATTGCAATT-AAA
* * *
17407936 AGATTGAAGCCACAACGATGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACAA
1 AGATTGAAGCCACAACGACGAATCTTACTTCCCCGACGGTGTAGTGGAATAGATTGAAGCTACAA
17408001 CGGCGAATCTCGCTTCCCCGACATTGCAATTAAAA
66 CGGCGAATCTCGCTTCCCCGACATTGCAATT-AAA
* * * *
17408036 AGATTGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACAA
1 AGATTGAAGCCACAACGACGAATCTTACTTCCCCGACGGTGTAGTGGAATAGATTGAAGCTACAA
17408101 CGGCGAATCTCGCTTCCCCGACATTGCAATTAAA
66 CGGCGAATCTCGCTTCCCCGACATTGCAATTAAA
* * * * *
17408135 AGATTGAGGCCACAACGGCGAATCTTACTT-CTCAAGCGGTGCAGTGGAATAGATTGAAGCTACA
1 AGATTGAAGCCACAACGACGAATCTTACTTCCCCGA-CGGTGTAGTGGAATAGATTGAAGCTACA
*
17408199 ACGGCGAATCTCGCTTCCTCGACATTGCAATTAAA
65 ACGGCGAATCTCGCTTCCCCGACATTGCAATTAAA
17408234 AGATTGA
1 AGATTGA
17408241 GGGCACGAAT
Statistics
Matches: 280, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
98 1 0.00
99 138 0.49
100 141 0.50
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (99 bp):
AGATTGAAGCCACAACGACGAATCTTACTTCCCCGACGGTGTAGTGGAATAGATTGAAGCTACAA
CGGCGAATCTCGCTTCCCCGACATTGCAATTAAA
Found at i:17408048 original size:249 final size:247
Alignment explanation
Indices: 17407638--17408159 Score: 749
Period size: 249 Copynumber: 2.1 Consensus size: 247
17407628 GCAGTGGAAT
* * * * *
17407638 AGATTGAAGCTACAATGGCGAATCTGGCTTCCTCGACATTGCAATTAAAAGATTGAGGCCACAAC
1 AGATTGAGGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAAC
* * * *
17407703 AGCAAATCTTATTTCCCTGGCGGTGCAGTGGAGCAGATCGAAGCTACAACGGTGAATCTTGCTTC
66 AG-AAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATCGAAGCTACAACGGCGAATCTCGCTTC
* * * *
17407768 CCTGACATTGCAATTAAAAAGATTTAGGCCACAATGGCAAATCTTACTTCTCAGGCGGTGTAGTG
130 CCCGACATTGCAATTAAAAAGATTGAGGCCACAACGGCAAATCTTACTTCCCAGGCGGTGTAGTG
* * *
17407833 GAACAGATTGAAGCTACAACAATGAATCTTGCTTCCCCGACATTGTAATTAAA
195 GAACAGATTGAAGCTACAACAACGAATCTCGCTTCCCCGACATTGCAATTAAA
* * *
17407886 ATATTGAGGCTACAACGGTGAATCTCGCTTCCCCGATATTGCAATTAAAAAGATTGAAGCCACAA
1 AGATTGAGGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATT-AAAAGATTGAAGCCACAA
* * *
17407951 C-GATGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACAACGGCGAATCTCGCT
65 CAGA--AATCTTACTTCCCTGGCGGTGCAGTGGAACAGATCGAAGCTACAACGGCGAATCTCGCT
* *
17408015 TCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAG
128 TCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACGGCAAATCTTACTTCCCAGGCGGTGTAG
* **
17408080 TGGAATAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAA
193 TGGAACAGATTGAAGCTACAACAACGAATCTCGCTTCCCCGACATTGCAATTAAA
*
17408135 AGATTGAGGCCACAACGGCGAATCT
1 AGATTGAGGCTACAACGGCGAATCT
17408160 TACTTCTCAA
Statistics
Matches: 241, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
247 1 0.00
248 40 0.17
249 200 0.83
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (247 bp):
AGATTGAGGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAAC
AGAAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATCGAAGCTACAACGGCGAATCTCGCTTCC
CCGACATTGCAATTAAAAAGATTGAGGCCACAACGGCAAATCTTACTTCCCAGGCGGTGTAGTGG
AACAGATTGAAGCTACAACAACGAATCTCGCTTCCCCGACATTGCAATTAAA
Found at i:17408241 original size:99 final size:100
Alignment explanation
Indices: 17407888--17408242 Score: 597
Period size: 100 Copynumber: 3.6 Consensus size: 100
17407878 TAATTAAAAT
* * * *
17407888 ATTGAGGCTACAACGGTGAATCTCGCTTCCCCGATATTGCAATTAAAAAGATTGAAGCCACAACG
1 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACG
**
17407953 ATGAATCTTACTTCCCTGGCGGTGTAGTGGAATAG
66 GCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAG
17407988 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACG
1 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACG
17408053 GCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAG
66 GCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAG
17408088 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATT-AAAAGATTGAGGCCACAACG
1 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACG
* ** *
17408152 GCGAATCTTACTTCTCAAGCGGTGCAGTGGAATAG
66 GCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAG
*
17408187 ATTGAAGCTACAACGGCGAATCTCGCTTCCTCGACATTGCAATT-AAAAGATTGAGG
1 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAAGATTGAGG
17408243 GCACGAATAG
Statistics
Matches: 244, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
99 106 0.43
100 138 0.57
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (100 bp):
ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACG
GCGAATCTTACTTCCCTGGCGGTGTAGTGGAATAG
Found at i:17408290 original size:66 final size:67
Alignment explanation
Indices: 17408181--17408307 Score: 186
Period size: 66 Copynumber: 1.9 Consensus size: 67
17408171 CGGTGCAGTG
* *
17408181 GAATAGATTGAAGCTACAACGGCGAATCTCGCTTCCTCGACATTGCAATTAAA-AGATTGAGGGC
1 GAATAGATTGAAGCTACAACGACGAATCTCGCTTCCTCAACATTGCAATTAAATAGATTGAGGGC
17408245 AC
66 AC
* **
17408247 GAATAGATTGAAGCTACAATGACGAATCTTTCTTACC-CAACATTGCAATTAAATAGATTGA
1 GAATAGATTGAAGCTACAACGACGAATCTCGCTT-CCTCAACATTGCAATTAAATAGATTGA
17408308 AGTTACAACA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
66 45 0.83
67 9 0.17
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (67 bp):
GAATAGATTGAAGCTACAACGACGAATCTCGCTTCCTCAACATTGCAATTAAATAGATTGAGGGC
AC
Found at i:17410035 original size:109 final size:109
Alignment explanation
Indices: 17409737--17410161 Score: 658
Period size: 109 Copynumber: 3.9 Consensus size: 109
17409727 TGTTTTTTTC
*
17409737 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGTCCTAATGTGCTGGGTTTCGATTT
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
*
17409802 TTCTCGTTCGACCAAATAGCAAAATATCCTTTTAAAAATTTCAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
* *
17409846 CATAAGGCAATG-TTCGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
*
17409910 TTCTCGTTCGACCAAATAACCAAATATCCTTTTAAAAATTTCAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
* *
17409954 AATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCGATTT
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
* * * *
17410019 TTCTCGCTCGACCAAATAGCTAAATATCCTTTCAAAGATTTCAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
* * * * *
17410063 AATAAGGCAATGTTTTGCGTTTGGAAACTCGAGAAAACTTGCTCTAATGCGCTGGGTTTCGA--T
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
* * *
17410126 TTCTCGTTGGACCAAATAGCCGAATATCCTCTTAAA
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
17410162 TCTTAATCCA
Statistics
Matches: 290, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
107 31 0.11
108 103 0.36
109 156 0.54
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (109 bp):
AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT
TTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
Found at i:17410931 original size:46 final size:46
Alignment explanation
Indices: 17410878--17410970 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
17410868 ATTGTTTAAC
*
17410878 GATAAAGTGATGAATTTAGTTAATTTAATTTTTAAGTGATAGAAAT
1 GATAAAGTGATGAATTTAATTAATTTAATTTTTAAGTGATAGAAAT
17410924 GATAAAGTGATGAATTTAATTAATTTAATTTTTAAGTGATAGAAAT
1 GATAAAGTGATGAATTTAATTAATTTAATTTTTAAGTGATAGAAAT
17410970 G
1 G
17410971 GTTGTTATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.41
Consensus pattern (46 bp):
GATAAAGTGATGAATTTAATTAATTTAATTTTTAAGTGATAGAAAT
Found at i:17411184 original size:30 final size:30
Alignment explanation
Indices: 17411150--17411222 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
17411140 GCGTGATTAA
*
17411150 ACAAAAGATTCTTATTGTCCGGAAAAAAAC
1 ACAAAAGATTCTTATTGTCCCGAAAAAAAC
*
17411180 ACAAAAGATTCTTGTTGTCCCGAAAAAAAC
1 ACAAAAGATTCTTATTGTCCCGAAAAAAAC
*
17411210 ACAAAAGGTTCTT
1 ACAAAAGATTCTT
17411223 CGTCTGTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (30 bp):
ACAAAAGATTCTTATTGTCCCGAAAAAAAC
Found at i:17414616 original size:5 final size:5
Alignment explanation
Indices: 17414606--17414637 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
17414596 AGATAACAAA
17414606 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT AT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT AT
17414638 TGATGCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:17415163 original size:21 final size:20
Alignment explanation
Indices: 17415139--17415213 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 20
17415129 TTTTTTATGA
17415139 TTTTATATAAATTTTAATACT
1 TTTTATA-AAATTTTAATACT
** *
17415160 TTTTAT--TGTTTTATTA-T
1 TTTTATAAAATTTTAATACT
*
17415177 TTTTATAGAATTTTAATACAT
1 TTTTATAAAATTTTAATAC-T
17415198 TTTTATAAAATTTTAA
1 TTTTATAAAATTTTAA
17415214 ATATGTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.16
18 7 0.16
19 7 0.16
21 22 0.51
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTTATAAAATTTTAATACT
Found at i:17415189 original size:37 final size:38
Alignment explanation
Indices: 17415131--17415203 Score: 114
Period size: 37 Copynumber: 1.9 Consensus size: 38
17415121 CAATTCAGTT
17415131 TTTTATGATTTTATATAAATTTTAATAC-TTTTTATTG
1 TTTTATGATTTTATATAAATTTTAATACATTTTTATTG
*
17415168 TTTTATTATTTT-TATAGAATTTTAATACATTTTTAT
1 TTTTATGATTTTATATA-AATTTTAATACATTTTTAT
17415204 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 4 0.12
37 22 0.67
38 7 0.21
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (38 bp):
TTTTATGATTTTATATAAATTTTAATACATTTTTATTG
Found at i:17415222 original size:21 final size:21
Alignment explanation
Indices: 17415139--17415245 Score: 70
Period size: 21 Copynumber: 5.4 Consensus size: 21
17415129 TTTTTTATGA
17415139 TTTTATATAAATTTTAATAC-T
1 TTTTATA-AAATTTTAATACAT
** *
17415160 TTTTAT--TGTTTT-AT-TAT
1 TTTTATAAAATTTTAATACAT
*
17415177 TTTTATAGAATTTTAATACAT
1 TTTTATAAAATTTTAATACAT
*
17415198 TTTTATAAAATTTTAA-ATAT
1 TTTTATAAAATTTTAATACAT
*
17415218 GTTTTAT-TAATTTT-ATA-AT
1 -TTTTATAAAATTTTAATACAT
17415237 TTTCTATAA
1 TTT-TATAA
17415246 TTTATTAGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
17 9 0.13
18 7 0.10
19 10 0.15
20 12 0.18
21 29 0.43
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTATAAAATTTTAATACAT
Found at i:17415299 original size:9 final size:9
Alignment explanation
Indices: 17415130--17415373 Score: 97
Period size: 10 Copynumber: 25.6 Consensus size: 9
17415120 TCAATTCAGT
*
17415130 TTTTTATGA
1 TTTTTATAA
17415139 TTTTATATAAA
1 TTTT-TAT-AA
* *
17415150 TTTTAATAC
1 TTTTTATAA
17415159 TTTTTAT--
1 TTTTTATAA
*
17415166 TGTTTTATTA
1 T-TTTTATAA
17415176 TTTTTATAGAA
1 TTTTTAT--AA
*
17415187 TTTTAATACA
1 TTTTTATA-A
17415197 TTTTTATAAA
1 TTTTTAT-AA
* *
17415207 ATTTTAAATA
1 TTTTTATA-A
17415217 TGTTTTATTAA
1 T-TTTTA-TAA
17415228 -TTTTATAA
1 TTTTTATAA
17415236 TTTTCTATAA
1 TTTT-TATAA
*
17415246 TTTATTA-GA
1 TTT-TTATAA
17415255 TTTATTAT-A
1 TTT-TTATAA
*
17415264 TTTTTGATAG
1 TTTTT-ATAA
*
17415274 TATTTATTAA
1 TTTTTA-TAA
17415284 TTTTTTATAA
1 -TTTTTATAA
*
17415294 TTTTTAAAA
1 TTTTTATAA
**
17415303 GTTTAAATCAA
1 -TTTTTAT-AA
*
17415314 TTTTCATATA
1 TTTTTATA-A
17415324 TTTTT-TAA
1 TTTTTATAA
*
17415332 TATTTA-AA
1 TTTTTATAA
*
17415340 TTTTTAAAA
1 TTTTTATAA
*
17415349 TTTTTTTATA
1 TTTTTATA-A
17415359 TTTTTATAAA
1 TTTTTAT-AA
17415369 TTTTT
1 TTTTT
17415374 TTCTGATTTT
Statistics
Matches: 180, Mismatches: 28, Indels: 53
0.69 0.11 0.20
Matches are distributed among these distances:
7 1 0.01
8 23 0.13
9 61 0.34
10 66 0.37
11 28 0.16
12 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:17415361 original size:19 final size:19
Alignment explanation
Indices: 17415334--17415402 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
17415324 TTTTTTAATA
*
17415334 TTTAAATTTTTAAAATTTT
1 TTTATATTTTTAAAATTTT
17415353 TTTATATTTTTATAAATTTT
1 TTTATATTTTTA-AAATTTT
* * *
17415373 TTTCTGATTTTTATAAGTTT
1 TTTAT-ATTTTTAAAATTTT
*
17415393 TTAATATTTT
1 TTTATATTTT
17415403 AATGGAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.38
20 19 0.45
21 7 0.17
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTATATTTTTAAAATTTT
Found at i:17415373 original size:21 final size:21
Alignment explanation
Indices: 17415334--17415394 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
17415324 TTTTTTAATA
17415334 TTTAAATTTTTA-AAA-TTTT
1 TTTAAATTTTTATAAATTTTT
*
17415353 TTTATATTTTTATAAATTTTT
1 TTTAAATTTTTATAAATTTTT
* *
17415374 TTCT-GATTTTTATAAGTTTTT
1 TT-TAAATTTTTATAAATTTTT
17415395 AATATTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 11 0.31
20 3 0.08
21 21 0.58
22 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTAAATTTTTATAAATTTTT
Found at i:17421266 original size:7 final size:7
Alignment explanation
Indices: 17421254--17421278 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17421244 ATTAGATGTC
17421254 TATTCAT
1 TATTCAT
17421261 TATTCAT
1 TATTCAT
17421268 TATTCAT
1 TATTCAT
17421275 TATT
1 TATT
17421279 TCGAATTTCT
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:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTCAT
Found at i:17424163 original size:12 final size:12
Alignment explanation
Indices: 17424148--17424172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17424138 TCTTTCCATC
17424148 TTTCTTCTTTAT
1 TTTCTTCTTTAT
17424160 TTTCTTCTTTAT
1 TTTCTTCTTTAT
17424172 T
1 T
17424173 AATTCTAATA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTCTTTAT
Found at i:17426380 original size:20 final size:20
Alignment explanation
Indices: 17426357--17426419 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
17426347 CACTTATGTG
17426357 CCCCTATTTGTACTTCAGTA
1 CCCCTATTTGTACTTCAGTA
* * *
17426377 CCCCTAAATTGCACTT-ATGTG
1 CCCCT-ATTTGTACTTCA-GTA
17426398 CCCCTATTTGTACTTCAGTA
1 CCCCTATTTGTACTTCAGTA
17426418 CC
1 CC
17426420 TCTGAATTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.37
Consensus pattern (20 bp):
CCCCTATTTGTACTTCAGTA
Found at i:17426388 original size:41 final size:41
Alignment explanation
Indices: 17426337--17426429 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
17426327 CTTAATTATA
17426337 CCCTGAATTGCACTTATGTGCCCCTATTTGTACTTCAGTAC
1 CCCTGAATTGCACTTATGTGCCCCTATTTGTACTTCAGTAC
*
17426378 CCCTAAATTGCACTTATGTGCCCCTATTTGTACTTCAGTAC
1 CCCTGAATTGCACTTATGTGCCCCTATTTGTACTTCAGTAC
*
17426419 CTCTGAATTGC
1 CCCTGAATTGC
17426430 TCATACGTGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (41 bp):
CCCTGAATTGCACTTATGTGCCCCTATTTGTACTTCAGTAC
Found at i:17426401 original size:21 final size:21
Alignment explanation
Indices: 17426337--17426403 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
17426327 CTTAATTATA
*
17426337 CCCTGAATTGCACTTATGTGC
1 CCCTAAATTGCACTTATGTGC
* * *
17426358 CCCT-ATTTGTACTTCA-GTAC
1 CCCTAAATTGCACTT-ATGTGC
17426378 CCCTAAATTGCACTTATGTGC
1 CCCTAAATTGCACTTATGTGC
17426399 CCCTA
1 CCCTA
17426404 TTTGTACTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.43
21 21 0.57
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.34
Consensus pattern (21 bp):
CCCTAAATTGCACTTATGTGC
Found at i:17427184 original size:13 final size:13
Alignment explanation
Indices: 17427166--17427200 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
17427156 TGTGTGACAT
17427166 ACGACCATGCGAC
1 ACGACCATGCGAC
17427179 ACGACCATGCGAC
1 ACGACCATGCGAC
17427192 ACGACCATG
1 ACGACCATG
17427201 TGTCCCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.37, G:0.23, T:0.09
Consensus pattern (13 bp):
ACGACCATGCGAC
Found at i:17428410 original size:33 final size:32
Alignment explanation
Indices: 17428306--17428418 Score: 156
Period size: 32 Copynumber: 3.5 Consensus size: 32
17428296 TAGAGGAATA
* *
17428306 TTGTTATCATTTAATAAAATTAAAGTTGATAT
1 TTGTTATCATTTCACAAAATTAAAGTTGATAT
*
17428338 TTGTTATCATTTTACAAAATTAAAGTTG-TAAT
1 TTGTTATCATTTCACAAAATTAAAGTTGAT-AT
* *
17428370 TTGTTATCATTTCACAAAATGAAAAGCTGATAT
1 TTGTTATCATTTCACAAAAT-TAAAGTTGATAT
17428403 TTGTTATCATTTCACA
1 TTGTTATCATTTCACA
17428419 GAACCACACG
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.01
32 47 0.64
33 24 0.33
34 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATTAAAGTTGATAT
Found at i:17433716 original size:109 final size:111
Alignment explanation
Indices: 17433586--17434015 Score: 533
Period size: 109 Copynumber: 4.0 Consensus size: 111
17433576 ACGAAAATTT
* * * *
17433586 TTTTTTGGTGTTGGCCTGTCAATGGCCGGTACCCAATACAATTTTTAAATTTTTTTCTTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAATTTTAAAATTTTTTTCTTTTTTTT
17433651 TCGTGTCAGAATCAGATATCAGTATACG-AAAAAATAAAAAAAAAA
66 TCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAA
* * * * * *
17433696 ATTTT-GGTGTTGGCCTGTCAATGGCTGGCACTCAGTACAA-TTT--AATTTTTTTC-TCTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAATTTTAAAATTTTTTTCTTTTTTTT
*
17433756 T-G-GCTCAGAATCAGATATCAGTATATGAAAAAAAT-AAAAAAAAA
66 TCGTG-TCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAA
* * ** ***
17433800 TTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACAAATTAAAAAAAAATTTTCTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATAC-AATTTTAAAATTTTTTTCTTTTTTT
* *
17433865 TTCGTGTCAGAATCAAATATCAGTATACGAAAAAAATAAAAAAAAAT
65 TTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAA
* * *
17433912 TTTTTGGGTGCAGGCCTGTCATTGGCCGGCACCCAAT---ATATTAAAATTTTTTTTCTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAATTTTAAAA-TTTTTTTCTTTTTTT
*
17433974 TTCGTGTCAGAATCAGATATTAGTATACGAAAAAAATAAAAA
65 TTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAA
17434016 TCAATGTACG
Statistics
Matches: 277, Mismatches: 31, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
103 1 0.00
104 36 0.13
105 45 0.16
106 12 0.04
107 1 0.00
108 9 0.03
109 90 0.32
110 11 0.04
111 30 0.11
112 42 0.15
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (111 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAATTTTAAAATTTTTTTCTTTTTTTT
TCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAA
Found at i:17434151 original size:100 final size:97
Alignment explanation
Indices: 17434027--17434236 Score: 321
Period size: 100 Copynumber: 2.1 Consensus size: 97
17434017 CAATGTACGA
*
17434027 AAATTTTTCTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAATTTTTTTTTAAAAT
1 AAATTTTT-TTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC-AAATTTTTTTTT-AAAT
*
17434092 TGTACTAGGTGCCGGCCATTGACAGGCCAACACCC
63 TGTACTAGGTGCCGGCAATTGACAGGCCAACACCC
17434127 TAAATTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAATTTTTTTTTAAATTG
1 -AAATTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAATTTTTTTTTAAATTG
* * * **
17434192 TACTGGGTGCTGGCAATTGTCAGGCCAGGACCC
65 TACTAGGTGCCGGCAATTGACAGGCCAACACCC
17434225 AAATTTTTTTTT
1 AAATTTTTTTTT
17434237 CGTTTTTCTT
Statistics
Matches: 102, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
97 12 0.12
98 33 0.32
99 12 0.12
100 37 0.36
101 8 0.08
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (97 bp):
AAATTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAATTTTTTTTTAAATTGT
ACTAGGTGCCGGCAATTGACAGGCCAACACCC
Found at i:17434233 original size:98 final size:101
Alignment explanation
Indices: 17434027--17434236 Score: 320
Period size: 98 Copynumber: 2.1 Consensus size: 101
17434017 CAATGTACGA
* *
17434027 AAATTTTTCTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAATTTTTTTTTAAAAT
1 AAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACGAAATTTTTTTTTAAAAT
*
17434092 TGTACTAGGTGCCGGCCATTGACAGGCCAACACCCT
66 TGTACTAGGTGCCGGCAATTGACAGGCCAACACCCT
17434128 AAA-TTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC-AAATTTTTTTTT-AAAT
1 AAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACGAAATTTTTTTTTAAAAT
* * * **
17434190 TGTACTGGGTGCTGGCAATTGTCAGGCCAGGACCC-
66 TGTACTAGGTGCCGGCAATTGACAGGCCAACACCCT
17434225 AAATTTTTTTTT
1 AAATTTTTTTTT
17434237 CGTTTTTCTT
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
97 3 0.03
98 41 0.41
99 12 0.12
100 41 0.41
101 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (101 bp):
AAATTTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACGAAATTTTTTTTTAAAAT
TGTACTAGGTGCCGGCAATTGACAGGCCAACACCCT
Found at i:17434260 original size:18 final size:17
Alignment explanation
Indices: 17434228--17434262 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17434218 AGGACCCAAA
*
17434228 TTTTTTTTTCGTTTTTC
1 TTTTTTTTTCCTTTTTC
17434245 TTTTTTTTTCCCTTTTTC
1 TTTTTTTTT-CCTTTTTC
17434263 GTATATCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTCCTTTTTC
Found at i:17435671 original size:18 final size:17
Alignment explanation
Indices: 17435648--17435695 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
17435638 GTAGAAAAAA
17435648 ATATATTTTTATTAATTT
1 ATATATTTTTATT-ATTT
17435666 ATATATTTTTATGTATTT
1 ATATATTTTTAT-TATTT
*
17435684 -TTTATTTTTATT
1 ATATATTTTTATT
17435696 TATGTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 1 0.04
17 10 0.36
18 16 0.57
19 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
ATATATTTTTATTATTT
Found at i:17435703 original size:18 final size:17
Alignment explanation
Indices: 17435651--17435703 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
17435641 GAAAAAAATA
* *
17435651 TATTTTTATTAATTTATA
1 TATTTTTATTTATTT-TT
*
17435669 TATTTTTATGTATTTTT
1 TATTTTTATTTATTTTT
*
17435686 TATTTTTATTTATGTTT
1 TATTTTTATTTATTTTT
17435703 T
1 T
17435704 CCACATGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (17 bp):
TATTTTTATTTATTTTT
Found at i:17452517 original size:33 final size:32
Alignment explanation
Indices: 17452475--17452552 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 32
17452465 TCCTATGCTA
* *
17452475 AATTCAATTCAACAT-TGTAGTATACATACATAC
1 AATTCAATTCAACATATGTA-TA-AAATAAATAC
17452508 AATTCAATTCAAC-TATGTATAAAATAAATAC
1 AATTCAATTCAACATATGTATAAAATAAATAC
*
17452539 -ATTCAATTTAACAT
1 AATTCAATTCAACAT
17452553 CATTTATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 11 0.28
31 9 0.22
32 3 0.08
33 17 0.43
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (32 bp):
AATTCAATTCAACATATGTATAAAATAAATAC
Found at i:17455514 original size:30 final size:30
Alignment explanation
Indices: 17455458--17455535 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
17455448 TAGAATATAT
*
17455458 AATTTTGAAAATTTAAGTTTTCTTTTTTCAA
1 AATTTT-AAAATTTAAATTTTCTTTTTTCAA
*
17455489 AATTTTAAAATCTAAATATTT-TTTTTTCAA
1 AATTTTAAAATTTAAAT-TTTCTTTTTTCAA
*
17455519 AAATTTAAAATTTAAAT
1 AATTTTAAAATTTAAAT
17455536 GCTTTTCTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 33 0.79
31 9 0.21
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (30 bp):
AATTTTAAAATTTAAATTTTCTTTTTTCAA
Found at i:17455515 original size:31 final size:29
Alignment explanation
Indices: 17455458--17455553 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
17455448 TAGAATATAT
*
17455458 AATTTTGAAAATTTAAGTTTTCTTTTTTCAA
1 AATTTT-AAAATTTAA-ATTTCTTTTTTCAA
* *
17455489 AATTTTAAAATCTAAATATTTTTTTTTCAA
1 AATTTTAAAATTTAAAT-TTCTTTTTTCAA
* * *
17455519 AAATTTAAAATTTAAA-TGCTTTTCTCAA
1 AATTTTAAAATTTAAATTTCTTTTTTCAA
*
17455547 ATTTTTA
1 AATTTTA
17455554 TAAAATTTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
28 14 0.26
29 1 0.02
30 33 0.61
31 6 0.11
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (29 bp):
AATTTTAAAATTTAAATTTCTTTTTTCAA
Found at i:17456217 original size:42 final size:42
Alignment explanation
Indices: 17456171--17456297 Score: 245
Period size: 42 Copynumber: 3.0 Consensus size: 42
17456161 ATTATATTCA
17456171 ATAATTCAAATAAAAAATTATTTTATGTAAATTACTATAATT
1 ATAATTCAAATAAAAAATTATTTTATGTAAATTACTATAATT
*
17456213 ATAATTCAAATACAAAATTATTTTATGTAAATTACTATAATT
1 ATAATTCAAATAAAAAATTATTTTATGTAAATTACTATAATT
17456255 ATAATTCAAATAAAAAATTATTTTATGTAAATTACTATAATT
1 ATAATTCAAATAAAAAATTATTTTATGTAAATTACTATAATT
17456297 A
1 A
17456298 AAAATAAAAC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (42 bp):
ATAATTCAAATAAAAAATTATTTTATGTAAATTACTATAATT
Found at i:17456874 original size:17 final size:17
Alignment explanation
Indices: 17456854--17456890 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
17456844 GGTTAAGATT
17456854 TTTTTTAAGAATTAAGG
1 TTTTTTAAGAATTAAGG
*
17456871 TTTTTTAAGAATTAGGG
1 TTTTTTAAGAATTAAGG
17456888 TTT
1 TTT
17456891 AAGGTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (17 bp):
TTTTTTAAGAATTAAGG
Found at i:17461904 original size:21 final size:21
Alignment explanation
Indices: 17461875--17461917 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
17461865 TGCTAGACAG
*
17461875 AATATGCCACAAAGGCAATAT
1 AATACGCCACAAAGGCAATAT
*
17461896 AATACGCCACAAGGGCAATAT
1 AATACGCCACAAAGGCAATAT
17461917 A
1 A
17461918 TATAGTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.16
Consensus pattern (21 bp):
AATACGCCACAAAGGCAATAT
Found at i:17468646 original size:26 final size:23
Alignment explanation
Indices: 17468613--17468664 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 23
17468603 GAAATAAGTC
*
17468613 AAAGAAAATAAAAATTAAACAACTA
1 AAAGAAAATAAAAAAT-AA-AACTA
17468638 AAAGCAAAATAAAAAATAAAACTA
1 AAAG-AAAATAAAAAATAAAACTA
17468662 AAA
1 AAA
17468665 ATAAAATCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 6 0.24
26 11 0.44
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.13
Consensus pattern (23 bp):
AAAGAAAATAAAAAATAAAACTA
Found at i:17470165 original size:8 final size:8
Alignment explanation
Indices: 17470152--17470176 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17470142 TAAAAGTACT
17470152 AAATAATA
1 AAATAATA
17470160 AAATAATA
1 AAATAATA
17470168 AAATAATA
1 AAATAATA
17470176 A
1 A
17470177 GTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:17470167 original size:3 final size:3
Alignment explanation
Indices: 17470153--17470219 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
17470143 AAAAGTACTA
* * *
17470153 AAT AAT AA- AAT AAT AA- AAT AAT AAGT AAA AAT AAT ACT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
* *
17470197 AAT AAT ACT AATT AAA AAT AAT A
1 AAT AAT AAT AA-T AAT AAT AAT A
17470220 CGAGTAAACA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
2 4 0.08
3 40 0.80
4 6 0.12
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:17470330 original size:14 final size:14
Alignment explanation
Indices: 17470303--17470375 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
17470293 ATTAAAACAG
17470303 TAAACAAATAATAA
1 TAAACAAATAATAA
* *
17470317 TAAACTAATGATAA
1 TAAACAAATAATAA
* ** *
17470331 GAAAACTGACAATAA
1 -TAAACAAATAATAA
*
17470346 TAAGAAAAATAA-AA
1 TAA-ACAAATAATAA
17470360 T-AACAAATAATAA
1 TAAACAAATAATAA
17470373 TAA
1 TAA
17470376 GTAACAAGAA
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
14 18 0.42
15 14 0.33
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (14 bp):
TAAACAAATAATAA
Found at i:17470380 original size:17 final size:15
Alignment explanation
Indices: 17470341--17470382 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
17470331 GAAAACTGAC
*
17470341 AATAATAAGAAAAAT
1 AATAATAACAAAAAT
17470356 AA-AATAACAAATAAT
1 AATAATAACAAA-AAT
17470371 AATAAGTAACAA
1 AATAA-TAACAA
17470383 GAAAAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 8 0.35
15 7 0.30
16 2 0.09
17 6 0.26
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (15 bp):
AATAATAACAAAAAT
Found at i:17470824 original size:6 final size:6
Alignment explanation
Indices: 17470811--17470843 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
17470801 TAGGAATTAT
*
17470811 GGAAA- GGAAAA GGAAAG GGAAAG GGAAAG GGAA
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAA
17470844 GGTGGTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:17470833 original size:17 final size:17
Alignment explanation
Indices: 17470811--17470845 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17470801 TAGGAATTAT
17470811 GGAAAGGAAAAGGAAAG
1 GGAAAGGAAAAGGAAAG
* *
17470828 GGAAAGGGAAAGGGAAG
1 GGAAAGGAAAAGGAAAG
17470845 G
1 G
17470846 TGGTTAGTGA
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (17 bp):
GGAAAGGAAAAGGAAAG
Found at i:17473251 original size:18 final size:18
Alignment explanation
Indices: 17473220--17473255 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
17473210 ATAAAGTTCT
17473220 TAAATATATAAAGGTATA
1 TAAATATATAAAGGTATA
17473238 TAAATCATAT-AAGGTATA
1 TAAAT-ATATAAAGGTATA
17473256 AAGTGTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.33
Consensus pattern (18 bp):
TAAATATATAAAGGTATA
Found at i:17478958 original size:14 final size:14
Alignment explanation
Indices: 17478881--17478910 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17478871 TTTTTATGAC
17478881 ATATATTCTTAACA
1 ATATATTCTTAACA
17478895 ATATATTCTTAACA
1 ATATATTCTTAACA
17478909 AT
1 AT
17478911 GTTCTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATTCTTAACA
Found at i:17479899 original size:23 final size:23
Alignment explanation
Indices: 17479871--17479917 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
17479861 GAGAATGCAC
17479871 TAATACTTGGAGAAAACAAAAAA
1 TAATACTTGGAGAAAACAAAAAA
17479894 TAATACTTGGAGAAAACAAAAAA
1 TAATACTTGGAGAAAACAAAAAA
17479917 T
1 T
17479918 TCTAGTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.19
Consensus pattern (23 bp):
TAATACTTGGAGAAAACAAAAAA
Found at i:17485911 original size:24 final size:26
Alignment explanation
Indices: 17485866--17485913 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
17485856 CACATATTTT
*
17485866 GTATAACTACTTTATTACTATTTTCA
1 GTATAACTACTGTATTACTATTTTCA
*
17485892 GTATAACTA-TGTA-TAGTATTTT
1 GTATAACTACTGTATTACTATTTT
17485914 TCTCTGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 3 0.15
26 9 0.45
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.50
Consensus pattern (26 bp):
GTATAACTACTGTATTACTATTTTCA
Found at i:17489992 original size:34 final size:34
Alignment explanation
Indices: 17489951--17490049 Score: 137
Period size: 34 Copynumber: 2.9 Consensus size: 34
17489941 CTAAGCTGAT
* *
17489951 CTATTATAAGCATATTACTTGTTACTGTATTGAA
1 CTATTATAAGCATATTAATTGATACTGTATTGAA
* *
17489985 CTGTTATAAGCATATTAATTGATATTGTATTGAA
1 CTATTATAAGCATATTAATTGATACTGTATTGAA
*
17490019 CTATTATAAGCATATTTATT-ACTACTGTATT
1 CTATTATAAGCATATTAATTGA-TACTGTATT
17490050 CTTCTATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 1 0.02
34 56 0.98
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.45
Consensus pattern (34 bp):
CTATTATAAGCATATTAATTGATACTGTATTGAA
Found at i:17495388 original size:17 final size:18
Alignment explanation
Indices: 17495356--17495390 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17495346 CCATGTGGTT
17495356 CACCCGTGTGGGCCCACA
1 CACCCGTGTGGGCCCACA
17495374 CACCCGTGT-GGCCCACA
1 CACCCGTGTGGGCCCACA
17495391 TGGCCCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.46, G:0.26, T:0.11
Consensus pattern (18 bp):
CACCCGTGTGGGCCCACA
Found at i:17499598 original size:11 final size:12
Alignment explanation
Indices: 17499582--17499611 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
17499572 ACTAGAATTG
17499582 AAAATATTTAAA
1 AAAATATTTAAA
17499594 AAATATATTTAAA
1 AAA-ATATTTAAA
17499607 AAAAT
1 AAAAT
17499612 TTGTAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATATTTAAA
Found at i:17499811 original size:29 final size:28
Alignment explanation
Indices: 17499761--17499816 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
17499751 TTTATCAGCA
** *
17499761 TTAACTAAGGATTAATTTTATTGAAACT
1 TTAACTAAGGATTAATAGTATTAAAACT
*
17499789 TTAATTAAGGAATTAATAGTATTAAAAC
1 TTAACTAAGG-ATTAATAGTATTAAAAC
17499817 ATAAAAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (28 bp):
TTAACTAAGGATTAATAGTATTAAAACT
Found at i:17503886 original size:24 final size:22
Alignment explanation
Indices: 17503859--17503905 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
17503849 ATCAACATTT
17503859 AATTAAAATTTTAAAAATTCAAAA
1 AATT-AAATTTTAAAAATT-AAAA
**
17503883 AATTATTTTTTAAAAATTAAAA
1 AATTAAATTTTAAAAATTAAAA
17503905 A
1 A
17503906 TCAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTAAATTTTAAAAATTAAAA
Found at i:17503942 original size:27 final size:27
Alignment explanation
Indices: 17503869--17503941 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 27
17503859 AATTAAAATT
17503869 TTAAAAATTCAA-AAAATTATTTTTTAAAAA
1 TTAAAAA-TCAATAAAATTA---TTTAAAAA
17503899 TTAAAAATCAATAAAATTATTTAAAAA
1 TTAAAAATCAATAAAATTATTTAAAAA
17503926 GTATAAAAATC-ATAAA
1 -T-TAAAAATCAATAAA
17503942 TAAATTAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
27 8 0.20
28 6 0.15
29 12 0.30
30 14 0.35
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (27 bp):
TTAAAAATCAATAAAATTATTTAAAAA
Found at i:17503949 original size:27 final size:27
Alignment explanation
Indices: 17503892--17503949 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
17503882 AAATTATTTT
* *
17503892 TTAAAAATTAAAAATCAATAAAATTAT
1 TTAAAAATTAAAAATCAATAAAATAAA
17503919 TTAAAAAGTATAAAAATC-AT-AAATAAA
1 TTAAAAA-T-TAAAAATCAATAAAATAAA
17503946 TTAA
1 TTAA
17503950 TTAAATACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 16 0.59
28 3 0.11
29 8 0.30
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
TTAAAAATTAAAAATCAATAAAATAAA
Found at i:17512114 original size:37 final size:37
Alignment explanation
Indices: 17512064--17512139 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
17512054 GAAATGCTTC
17512064 TCGGCGCGTTGTTTTGGGATAACAAGTCTGTTCAGTT
1 TCGGCGCGTTGTTTTGGGATAACAAGTCTGTTCAGTT
* *
17512101 TCGGCGTGTTGTTTTGGGATAACAAGTCTGTTCATTT
1 TCGGCGCGTTGTTTTGGGATAACAAGTCTGTTCAGTT
17512138 TC
1 TC
17512140 CCTACATCGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.41
Consensus pattern (37 bp):
TCGGCGCGTTGTTTTGGGATAACAAGTCTGTTCAGTT
Found at i:17512410 original size:18 final size:18
Alignment explanation
Indices: 17512387--17512422 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17512377 GTTTTATGCT
17512387 GAGAAGAAGAAGATGAAG
1 GAGAAGAAGAAGATGAAG
*
17512405 GAGAAGAAGATGATGAAG
1 GAGAAGAAGAAGATGAAG
17512423 AGTATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.39, T:0.08
Consensus pattern (18 bp):
GAGAAGAAGAAGATGAAG
Found at i:17514493 original size:162 final size:163
Alignment explanation
Indices: 17514315--17514628 Score: 567
Period size: 162 Copynumber: 1.9 Consensus size: 163
17514305 AGGTACCAAC
* *
17514315 TTGACAACTGAGTCCATTTTAGTCCCAAACTTGAAACCTATAAAAGTTTGATGATGTGGCATTAT
1 TTGACAACTGAGTCCATTTTAGTCCCAAACTTGAAAACTATAAAAGTTTGATGATGTGGCACTAT
* *
17514380 GAGATTGTGCAACATCATCACTTGAAAATTTAAAAATA-TATATGAATTTTTAGGTGATGATGTG
66 GAGATTGTGCAACATCATCACTTGAAAATTTAAAAAAATTATATGAATTTTCAGGTGATGATGTG
17514444 ATACAATTTCAAAGTTTCACATGGCACTTAAAT
131 ATACAATTTCAAAGTTTCACATGGCACTTAAAT
17514477 TTGACAACTGAGTCCATTTTAGTCCCAAACTTGAAAACTATAAAAGTTTGATGATGTGGCACTAT
1 TTGACAACTGAGTCCATTTTAGTCCCAAACTTGAAAACTATAAAAGTTTGATGATGTGGCACTAT
*
17514542 GAGATTGTGCTACATCATCACTTGAAAATTTAAAAAAATTATATGAATTTTCAGGTGATGATGTG
66 GAGATTGTGCAACATCATCACTTGAAAATTTAAAAAAATTATATGAATTTTCAGGTGATGATGTG
*
17514607 GTACAATTTCAAAGTTTCACAT
131 ATACAATTTCAAAGTTTCACAT
17514629 ACAATATTTT
Statistics
Matches: 145, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
162 99 0.68
163 46 0.32
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (163 bp):
TTGACAACTGAGTCCATTTTAGTCCCAAACTTGAAAACTATAAAAGTTTGATGATGTGGCACTAT
GAGATTGTGCAACATCATCACTTGAAAATTTAAAAAAATTATATGAATTTTCAGGTGATGATGTG
ATACAATTTCAAAGTTTCACATGGCACTTAAAT
Found at i:17518162 original size:45 final size:46
Alignment explanation
Indices: 17518096--17518191 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 46
17518086 CAATTTGACC
* *
17518096 TACTAAATAATTACCTAAATTACATAGTATATATT-TTAAATTATTTA
1 TACTAAAT-ATTAACTAAATTACATAGTATATATTATT-AATTATCTA
* *
17518143 TACTAAAT-TTAACTAAATTAGATAGTATTTATTATTAATTATCTA
1 TACTAAATATTAACTAAATTACATAGTATATATTATTAATTATCTA
17518188 TACT
1 TACT
17518192 TGATCAAGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 34 0.77
46 2 0.05
47 8 0.18
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (46 bp):
TACTAAATATTAACTAAATTACATAGTATATATTATTAATTATCTA
Found at i:17523596 original size:13 final size:13
Alignment explanation
Indices: 17523578--17523610 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
17523568 TTGACCACAC
17523578 GCCCGTGTGTCTA
1 GCCCGTGTGTCTA
17523591 GCCCGTGTGTCTA
1 GCCCGTGTGTCTA
17523604 GCCCGTG
1 GCCCGTG
17523611 GTCGAAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.33, G:0.33, T:0.27
Consensus pattern (13 bp):
GCCCGTGTGTCTA
Found at i:17524891 original size:16 final size:15
Alignment explanation
Indices: 17524866--17524909 Score: 70
Period size: 16 Copynumber: 2.9 Consensus size: 15
17524856 TGCTGTAAAT
17524866 TGGATTTCTTTATCA
1 TGGATTTCTTTATCA
*
17524881 TGGATTTTCTTTATCT
1 TGGA-TTTCTTTATCA
17524897 TGGATTTCTTTAT
1 TGGATTTCTTTAT
17524910 TCTGGGCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.16, C:0.11, G:0.14, T:0.59
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:17526339 original size:13 final size:13
Alignment explanation
Indices: 17526323--17526347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17526313 ATGAAATTAA
17526323 ATAATAATATAAT
1 ATAATAATATAAT
17526336 ATAATAATATAA
1 ATAATAATATAA
17526348 AAAACTTAAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:17526428 original size:3 final size:3
Alignment explanation
Indices: 17526420--17526458 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
17526410 TGATATAAAA
* *
17526420 AAT AAT AAT AA- ACT AAT AAT AAT AAT AGT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17526459 TTAAACCAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.03
3 30 0.97
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17528058 original size:44 final size:44
Alignment explanation
Indices: 17527953--17528658 Score: 451
Period size: 44 Copynumber: 15.8 Consensus size: 44
17527943 CTTGTTATGG
* * * ** * * *
17527953 TCTGCTCTACTGCAACTTCAGAGAGATAAGACCCGCTATCTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTGTTATCTTTAA
* * * * *
17527998 TCTGCTCCACTGCAACTTCAGGGAGATAAGAGTGGTGTCTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTGTTATCTTTAA
* * * ** *
17528042 TCCGCTCCACTACAACTTCAAGGAGAT-AGAATTATTGGCTGTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAG-ATTGTTATCTTTAA
** * ** *
17528086 TCTGCTCCACTGTAACTTCAGGGAGATAAGA-T-TT-GCCATGA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTGTTATCTTTAA
* * *
17528127 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA--T-TG--TTAT--CTTTAA
* * * * * *
17528178 TCTGTTCCACTACAACTGCAGAGAAATAAGATTCGCTATCTTTAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT-GTTATCTTTAA
* ** *
17528223 TCTGCTCCACTACAACTTCAGGGAGATAAGA-T-TT-GCCATGA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTGTTATCTTTAA
* * *
17528264 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA--T-TG--TTAT--CTTTAA
* * * * * *
17528315 TCTGTTCCACTACAACTGCAGAGAAATAAGATTCGCTATCTTTAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT-GTTATCTTTAA
*
17528360 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTCA-CTTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTGTTATCTTTAA
* * * * ***
17528404 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTGTTATCTTTAA
* * * *** * *
17528448 TTTGCTCCACTACAACTTCAAGGAGATAAAATTCACCATCTTCAT
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT-GTTATCTTTAA
* * * * *
17528493 TCTGCCCCACTACAACTTTAGGGGGATAAGACTTGTTTTCTTTAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTGTTATCTTTAA
** * *
17528538 TCTGCTCCACTGTAACTTCAGGGAGAAAAGACTTG-TAACTTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTGTTATCTTTAA
* * * *
17528582 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGT-TTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTGTT-ATCTTTAA
17528626 TCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT
17528659 CACCATCTTC
Statistics
Matches: 516, Mismatches: 115, Indels: 61
0.75 0.17 0.09
Matches are distributed among these distances:
41 62 0.12
42 3 0.01
43 9 0.02
44 200 0.39
45 164 0.32
46 4 0.01
47 6 0.01
48 6 0.01
49 4 0.01
51 58 0.11
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGATTGTTATCTTTAA
Found at i:17528144 original size:41 final size:41
Alignment explanation
Indices: 17527911--17528295 Score: 173
Period size: 41 Copynumber: 8.8 Consensus size: 41
17527901 GCTATATTCA
* * * **
17527911 ATCTGC-CCTACTGCAACTTCAGGGGGATAGGACTTGTTATG
1 ATCTGCTCC-ACTGCAACTTCAGGGAGATAAGATTTGCCATG
* * * *** * *
17527952 GTCTGCTCTACTGCAACTTCAGAGAGATAAGACCCGCTATCTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC---CATG
* * * *
17527996 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAGTGGTGTCTTCA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGCCAT-G
* * * *
17528041 ATCCGCTCCACTACAACTTCAAGGAGAT-AGAATTATTGGC-TG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG-A-T-TTGCCATG
*
17528083 TAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATG
1 --ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATG
* * **
17528126 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TG--CCAT-G
* * * * * * * *
17528172 CTTTAATCTGTTCCACTACAACTGCAGAGAAATAAGATTCGCTATCTTT
1 -----ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC---CATG
*
17528221 AGTCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATG
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATG
* *
17528263 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
17528296 CTGTGATTTA
Statistics
Matches: 260, Mismatches: 57, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
41 86 0.33
42 9 0.03
43 8 0.03
44 59 0.23
45 65 0.25
46 1 0.00
47 1 0.00
49 1 0.00
50 2 0.01
51 28 0.11
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATG
Found at i:17528253 original size:137 final size:137
Alignment explanation
Indices: 17528086--17528431 Score: 593
Period size: 137 Copynumber: 2.5 Consensus size: 137
17528076 TTGGCTGTAA
**
17528086 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGA
17528151 GATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTACAACTGCAGAGAAATAAGATTCGCTA
66 GATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTACAACTGCAGAGAAATAAGATTCGCTA
17528216 TCTTTAG
131 TCTTTAG
17528223 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGA
17528288 GATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTACAACTGCAGAGAAATAAGATTCGCTA
66 GATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTACAACTGCAGAGAAATAAGATTCGCTA
17528353 TCTTTAG
131 TCTTTAG
* * * * *
17528360 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTCACTTTAATCCGCTCCACTGCAACTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-C-C-ATGATCTGCTCTACTGCAACTTCAG
*
17528425 GGAGATA
63 AGAGATA
17528432 GGATTATCGG
Statistics
Matches: 198, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
137 169 0.85
138 1 0.01
139 1 0.01
140 27 0.14
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (137 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGA
GATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTACAACTGCAGAGAAATAAGATTCGCTA
TCTTTAG
Found at i:17529016 original size:24 final size:24
Alignment explanation
Indices: 17528984--17529045 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
17528974 TCAGATTGCC
17528984 TCCACTGTAATTTTCAAGGTTCAA
1 TCCACTGTAATTTTCAAGGTTCAA
*
17529008 TCCACTGTAATCTTCAAGGTTCAA
1 TCCACTGTAATTTTCAAGGTTCAA
*
17529032 TCCACTGTACTTTT
1 TCCACTGTAATTTT
17529046 GAGACATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (24 bp):
TCCACTGTAATTTTCAAGGTTCAA
Found at i:17530879 original size:6 final size:6
Alignment explanation
Indices: 17530868--17530914 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
17530858 TTGGCCTCTC
* *
17530868 CTTTTT CTTTTT C-TTTT CTTTTT CCTTCT CTTTTT CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
17530914 C
1 C
17530915 ATCATTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:17530886 original size:11 final size:11
Alignment explanation
Indices: 17530870--17530914 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
17530860 GGCCTCTCCT
17530870 TTTTCTTTTTC
1 TTTTCTTTTTC
17530881 TTTTCTTTTTCC
1 TTTTCTTTTT-C
*
17530893 TTCTCTTTTTC
1 TTTTCTTTTTC
*
17530904 TTTTTTTTTTC
1 TTTTCTTTTTC
17530915 ATCATTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:17530941 original size:29 final size:29
Alignment explanation
Indices: 17530908--17530966 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
17530898 TTTTTCTTTT
17530908 TTTTTTCATCATTTTCATTTTTTTGAAATA
1 TTTTTTCAT-ATTTTCATTTTTTTGAAATA
* * *
17530938 TTTTTTTATTTTTTTATTTTTTTGAAATA
1 TTTTTTCATATTTTCATTTTTTTGAAATA
17530967 CTCTTTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (29 bp):
TTTTTTCATATTTTCATTTTTTTGAAATA
Found at i:17530951 original size:7 final size:8
Alignment explanation
Indices: 17530936--17530960 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17530926 TTTTTTGAAA
17530936 TATTTTTT
1 TATTTTTT
17530944 TATTTTTT
1 TATTTTTT
17530952 TATTTTTT
1 TATTTTTT
17530960 T
1 T
17530961 GAAATACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:17531795 original size:4 final size:4
Alignment explanation
Indices: 17531786--17531811 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
17531776 TAGTATGATT
17531786 ATGA ATGA ATGA ATGA ATGA ATGA AT
1 ATGA ATGA ATGA ATGA ATGA ATGA AT
17531812 TGGAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATGA
Found at i:17535219 original size:13 final size:13
Alignment explanation
Indices: 17535203--17535227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17535193 ATGAAATTAA
17535203 ATAATAATATAAG
1 ATAATAATATAAG
17535216 ATAATAATATAA
1 ATAATAATATAA
17535228 AAAAACTTAA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATAATAATATAAG
Found at i:17536434 original size:47 final size:46
Alignment explanation
Indices: 17536365--17536458 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 46
17536355 CACCACTAGA
* * *
17536365 GTTAGAATCGGATGTAAAGATCAAAGGGTTTTTGTTAGGTTGTAACG
1 GTTAGAATCAGATGCAAAGATCAAAGGG-TTTTGTTAGGTTATAACG
17536412 GTTAGAATCAGATGCAAAGATCAAAGGGTTTTGTTAGGTTATAACG
1 GTTAGAATCAGATGCAAAGATCAAAGGGTTTTGTTAGGTTATAACG
17536458 G
1 G
17536459 GGCTTGGGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 18 0.41
47 26 0.59
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (46 bp):
GTTAGAATCAGATGCAAAGATCAAAGGGTTTTGTTAGGTTATAACG
Found at i:17537110 original size:6 final size:6
Alignment explanation
Indices: 17537099--17537131 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
17537089 AAAGCAAAAT
17537099 TTTTAA TTTTAA TTTT-A TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
17537132 TTTTCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTAA
Found at i:17537120 original size:11 final size:12
Alignment explanation
Indices: 17537099--17537131 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
17537089 AAAGCAAAAT
17537099 TTTTAATTTTAA
1 TTTTAATTTTAA
17537111 TTTT-ATTTTAA
1 TTTTAATTTTAA
17537122 TTTTAATTTT
1 TTTTAATTTT
17537132 TTTTCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:17537121 original size:17 final size:16
Alignment explanation
Indices: 17537098--17537135 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
17537088 CAAAGCAAAA
17537098 TTTTTAATTTTAATTT
1 TTTTTAATTTTAATTT
17537114 TATTTTAATTTTAATTT
1 T-TTTTAATTTTAATTT
17537131 TTTTT
1 TTTTT
17537136 CAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTAATTTTAATTT
Found at i:17548148 original size:32 final size:32
Alignment explanation
Indices: 17548107--17548173 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
17548097 TTGGGATAGA
17548107 ATCTCATTCTCTATGAGGTACCCTATGAACTC
1 ATCTCATTCTCTATGAGGTACCCTATGAACTC
17548139 ATCTCATTCTCTATGAGGTACCCTATGAACTC
1 ATCTCATTCTCTATGAGGTACCCTATGAACTC
17548171 ATC
1 ATC
17548174 AGATAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (32 bp):
ATCTCATTCTCTATGAGGTACCCTATGAACTC
Found at i:17548901 original size:114 final size:114
Alignment explanation
Indices: 17548692--17548936 Score: 409
Period size: 114 Copynumber: 2.1 Consensus size: 114
17548682 TACAGAAAAA
* *
17548692 ATTGCAATTCTATTATTTAATATTTCAGTCTCAAACAATGTGTACATCTTTGATTTGATAAAGTA
1 ATTGCAATTCCATTATTCAATATTTCAGTCTCAAACAATGTGTACATCTTTGATTTGATAAAGTA
*
17548757 GATATTATTTAACATCCATCTATTACAGAAAATATTACAATTTCTAAAT
66 GATATTATTTAACATCCATCCATTACAGAAAATATTACAATTTCTAAAT
* * * *
17548806 ATTGCAATTCCATTATTCGATATTTTAGTCTCAATCAATGTGTAGATCTTTGATTTGATAAAGTA
1 ATTGCAATTCCATTATTCAATATTTCAGTCTCAAACAATGTGTACATCTTTGATTTGATAAAGTA
* *
17548871 GATATTATTTGACATCCATCCATTATAGAAAATATTACAATTTCTAAAT
66 GATATTATTTAACATCCATCCATTACAGAAAATATTACAATTTCTAAAT
17548920 ATTGCAATTCCATTATT
1 ATTGCAATTCCATTATT
17548937 AAAACTTAAG
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 122 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (114 bp):
ATTGCAATTCCATTATTCAATATTTCAGTCTCAAACAATGTGTACATCTTTGATTTGATAAAGTA
GATATTATTTAACATCCATCCATTACAGAAAATATTACAATTTCTAAAT
Found at i:17551491 original size:20 final size:20
Alignment explanation
Indices: 17551466--17551505 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17551456 CGTAAAATGA
*
17551466 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
17551486 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
17551506 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:17551495 original size:34 final size:35
Alignment explanation
Indices: 17551451--17551517 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
17551441 CAGTAAAATA
*
17551451 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
17551485 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
17551518 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:17551521 original size:14 final size:15
Alignment explanation
Indices: 17551445--17551521 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
17551435 GATTGCCAGT
* *
17551445 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
17551459 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
17551473 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
17551493 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
17551508 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
17551522 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:17557701 original size:16 final size:16
Alignment explanation
Indices: 17557682--17557713 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17557672 GCAAGGACAT
*
17557682 ATCGATGCATATTTTA
1 ATCGATGCACATTTTA
17557698 ATCGATGCACATTTTA
1 ATCGATGCACATTTTA
17557714 TAAAGTTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (16 bp):
ATCGATGCACATTTTA
Found at i:17557842 original size:51 final size:52
Alignment explanation
Indices: 17557776--17557876 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 52
17557766 GTCCATCCAA
* * *
17557776 AACACTATTTGTGGACAAGCCACCACTGATTTGCAAATAAACTGCCACTGAT
1 AACACTATATGTGGACAAGCCACAACTGAATTGCAAATAAACTGCCACTGAT
* *
17557828 AACACTA-ATGTGGACAAGCCACAACTGAATTGCAGATATACTGCCACTG
1 AACACTATATGTGGACAAGCCACAACTGAATTGCAAATAAACTGCCACTG
17557877 CTTCCACCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 37 0.84
52 7 0.16
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (52 bp):
AACACTATATGTGGACAAGCCACAACTGAATTGCAAATAAACTGCCACTGAT
Found at i:17564876 original size:16 final size:16
Alignment explanation
Indices: 17564839--17564869 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17564829 TGAGAGCTAA
*
17564839 GAGAGTTGAGAGAATT
1 GAGAGATGAGAGAATT
17564855 GAGAGATGAGAGAAT
1 GAGAGATGAGAGAAT
17564870 GATGAGAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (16 bp):
GAGAGATGAGAGAATT
Found at i:17575615 original size:9 final size:9
Alignment explanation
Indices: 17575601--17575625 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17575591 TCGGCCATAC
17575601 ATCAAGCAA
1 ATCAAGCAA
17575610 ATCAAGCAA
1 ATCAAGCAA
17575619 ATCAAGC
1 ATCAAGC
17575626 TGATTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.24, G:0.12, T:0.12
Consensus pattern (9 bp):
ATCAAGCAA
Found at i:17577554 original size:15 final size:15
Alignment explanation
Indices: 17577534--17577564 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17577524 GTCATGTAAG
17577534 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17577549 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17577564 T
1 T
17577565 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:17578525 original size:15 final size:15
Alignment explanation
Indices: 17578501--17578530 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17578491 TGGAGATCGA
*
17578501 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
17578516 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
17578531 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:17580130 original size:15 final size:15
Alignment explanation
Indices: 17580110--17580140 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17580100 GTCATGTAAG
17580110 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17580125 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17580140 T
1 T
17580141 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:17580330 original size:17 final size:17
Alignment explanation
Indices: 17580297--17580335 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17580287 TAAGCTTTTG
17580297 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
17580314 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
17580331 ATTTT
1 ATTTT
17580336 CCACAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Done.