Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 19 of 30
Found at i:6711947 original size:122 final size:122
Alignment explanation
Indices: 6711786--6712130 Score: 370
Period size: 121 Copynumber: 2.8 Consensus size: 122
6711776 ACAACCTTTG
* *
6711786 TAACCATGGCGTGTGACATGTTTTTGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGG
1 TAACCATGGCGTGTAACATGTTTTTGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGA
* * * *
6711851 CGTGTAATAACCTAACCATAGTGTGTAACATGTTTTTATGCATGACT-TGTAATAACC
66 AGTGTAACAACCTAACCATAGTGTGTAACATGTTTTTATACATGA-TGTGTAACAACC
* * * * * * * *
6711908 TAACTATGACGTGTAACATATTTGTGTACATGTTGTGTAACAACA-AAATTTTTTTTCAATATGA
1 TAACCATGGCGTGTAACATGTTTTTGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGA
* * * * * *
6711972 AATGTAACAATCTAATCATAGTGTGTAACATGTTTTTGTATATGATGTGTGACAACC
66 AGTGTAACAACCTAACCATAGTGTGTAACATGTTTTTATACATGATGTGTAACAACC
* * * *** * *
6712029 TAACCATGGCATGTAATATGTTTTTGCACATGGCATGTAACAACAGTATTTTTGTTTCTACATGA
1 TAACCATGGCGTGTAACATGTTTTTGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGA
* *** *
6712094 TGTGTAACAACCTAACCATTCCGTATAACATGTTTTT
66 AGTGTAACAACCTAACCATAGTGTGTAACATGTTTTT
6712131 GTATATAGCG
Statistics
Matches: 178, Mismatches: 43, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
120 1 0.01
121 95 0.53
122 82 0.46
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (122 bp):
TAACCATGGCGTGTAACATGTTTTTGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGA
AGTGTAACAACCTAACCATAGTGTGTAACATGTTTTTATACATGATGTGTAACAACC
Found at i:6712055 original size:645 final size:643
Alignment explanation
Indices: 6710821--6712104 Score: 2387
Period size: 645 Copynumber: 2.0 Consensus size: 643
6710811 ACTTAGACAC
6710821 CAATAAACTCAAATATTTGAAATTTAAAAACCAATTTTTTCAAAGAATTTTTTTTTATTTTTAGT
1 CAATAAACTCAAATATTTGAAATTTAAAAACCAATTTTTTCAAAGAATTTTTTTTTATTTTTAGT
*
6710886 CGAAATAGATATTTTAGATAAGAAAATTTGTATTTTGATTTATGGAAACATGTTAGAAACACTTT
66 CGAAATAGATATTTTAGATAAGAAAATTTGTATTTTGATTTATGAAAACATGTTAGAAACACTTT
6710951 AATCGGTGCCAAATTGTCAAAAAAAAATTAAGAGAGTTGAGAGGATTTGAAGTTTTGGTTCATAA
131 AATCGGTGCCAAATTGTCAAAAAAAAATTAAGAGAGTTGAGAGGATTTGAAGTTTTGGTTCATAA
6711016 GTAACAACAACATTTTATTCATTAAAGTGTAACAAAATTTTTAAATATGACATGTAACAACAATA
196 GTAACAACAACATTTTATTCATTAAAGTGTAACAAAATTTTTAAATATGACATGTAACAACAATA
6711081 TTTTTTCAATATAGTGTGTAACATTAATATTTTTTTAACATGGTGTGTAACAACCTTTGTAACCA
261 TTTTTTCAATATAGTGTGTAACATTAATATTTTTTTAACATGGTGTGTAACAACCTTTGTAACCA
6711146 TGGCGTGTGACATGTTTTTGTACATGATGGTGTAAAAACAGTATTTTTTTTCAACATGGCCGTGT
326 TGGCGTGTGACATGTTTTTGTACATGATGGTGTAAAAACAGTATTTTTTTTCAACATGGCCGTGT
* *
6711211 AATAACCTAACCATAGTGTGTAACATGTTTTTATATATGACTTGTAATAACTTAACTATGACGTG
391 AATAACCTAACCATAGTGTGTAACATGTTTTTATACATGACTTGTAATAACCTAACTATGACGTG
6711276 TAACATATTGGTGTACATGTTGTGTAACAACAAAATTTTTTTTCAATATGAAATGTAACAATCTA
456 TAACATATTGGTGTACATGTTGTGTAACAACAAAATTTTTTTTCAATATGAAATGTAACAATCTA
6711341 ATCATAGTGTGTAACATGTTTTTGTATATGATGTGTGACAACCTAACCATGGCATGTAATATGTT
521 ATCATAGTGTGTAACATGTTTTTGTATATGATGTGTGACAACCTAACCATGGCATGTAATATGTT
6711406 TTTGCACATGGCATGTAACAACAGTA-TTTT-TTTCAACATGACGCGTAACAACTTTT
586 TTTGCACATGGCATGTAACAACAGTATTTTTGTTTCAACATGACGCGTAACAACTTTT
6711462 NCAATAAACTCAAATATTTGAAATTTAAAAACCAATTTTTTCAAAGAATTTTTTTTTATTTTTAG
1 -CAATAAACTCAAATATTTGAAATTTAAAAACCAATTTTTTCAAAGAATTTTTTTTTATTTTTAG
*
6711527 TCGAAATAGATATTTTAGATAAGAAAATTTGTATTTTGATTTATGAAAATATGTTAGAAACACTT
65 TCGAAATAGATATTTTAGATAAGAAAATTTGTATTTTGATTTATGAAAACATGTTAGAAACACTT
6711592 TAATCGGTGCCAAATTGTCAAAAAAAAATTAAGAGAGTTGAGAGGATTTGAAGTTTTGGTTCATA
130 TAATCGGTGCCAAATTGTCAAAAAAAAATTAAGAGAGTTGAGAGGATTTGAAGTTTTGGTTCATA
*
6711657 AGTAACAACAACATTTTATTCATTAAAGTGTAACAAAATTTGTTTGAATATGACATGTAACAACA
195 AGTAACAACAACATTTTATTCATTAAAGTGTAACAAAA-TT-TTTAAATATGACATGTAACAACA
6711722 ATATTTTTTCAATATAGTGTGTAACATTAATATTTTTTTTCAACATGGTGTGTAACAACCTTTGT
258 ATATTTTTTCAATATAGTGTGTAACATTAATA-TTTTTTT-AACATGGTGTGTAACAACCTTTGT
*
6711787 AACCATGGCGTGTGACATGTTTTTGTACATGAT-GTGTAACAACAGTATTTTTTTTTCAACATGG
321 AACCATGGCGTGTGACATGTTTTTGTACATGATGGTGTAAAAACAGTA-TTTTTTTTCAACATGG
*
6711851 -CGTGTAATAACCTAACCATAGTGTGTAACATGTTTTTATGCATGACTTGTAATAACCTAACTAT
385 CCGTGTAATAACCTAACCATAGTGTGTAACATGTTTTTATACATGACTTGTAATAACCTAACTAT
*
6711915 GACGTGTAACATATTTGTGTACATGTTGTGTAACAACAAAATTTTTTTTCAATATGAAATGTAAC
450 GACGTGTAACATATTGGTGTACATGTTGTGTAACAACAAAATTTTTTTTCAATATGAAATGTAAC
6711980 AATCTAATCATAGTGTGTAACATGTTTTTGTATATGATGTGTGACAACCTAACCATGGCATGTAA
515 AATCTAATCATAGTGTGTAACATGTTTTTGTATATGATGTGTGACAACCTAACCATGGCATGTAA
* * *
6712045 TATGTTTTTGCACATGGCATGTAACAACAGTATTTTTGTTTCTACATGATGTGTAACAAC
580 TATGTTTTTGCACATGGCATGTAACAACAGTATTTTTGTTTCAACATGACGCGTAACAAC
6712105 CTAACCATTC
Statistics
Matches: 624, Mismatches: 11, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
642 230 0.37
643 2 0.00
644 54 0.09
645 242 0.39
646 77 0.12
647 19 0.03
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (643 bp):
CAATAAACTCAAATATTTGAAATTTAAAAACCAATTTTTTCAAAGAATTTTTTTTTATTTTTAGT
CGAAATAGATATTTTAGATAAGAAAATTTGTATTTTGATTTATGAAAACATGTTAGAAACACTTT
AATCGGTGCCAAATTGTCAAAAAAAAATTAAGAGAGTTGAGAGGATTTGAAGTTTTGGTTCATAA
GTAACAACAACATTTTATTCATTAAAGTGTAACAAAATTTTTAAATATGACATGTAACAACAATA
TTTTTTCAATATAGTGTGTAACATTAATATTTTTTTAACATGGTGTGTAACAACCTTTGTAACCA
TGGCGTGTGACATGTTTTTGTACATGATGGTGTAAAAACAGTATTTTTTTTCAACATGGCCGTGT
AATAACCTAACCATAGTGTGTAACATGTTTTTATACATGACTTGTAATAACCTAACTATGACGTG
TAACATATTGGTGTACATGTTGTGTAACAACAAAATTTTTTTTCAATATGAAATGTAACAATCTA
ATCATAGTGTGTAACATGTTTTTGTATATGATGTGTGACAACCTAACCATGGCATGTAATATGTT
TTTGCACATGGCATGTAACAACAGTATTTTTGTTTCAACATGACGCGTAACAACTTTT
Found at i:6712865 original size:66 final size:66
Alignment explanation
Indices: 6712782--6712913 Score: 219
Period size: 66 Copynumber: 2.0 Consensus size: 66
6712772 TGGTTACACA
* * *
6712782 TCCTTTCTTCGAACAAATTATGTAATATTTCATGATTTGTGGAGCTAACGATGTGATAGTTGTTA
1 TCCTTTCTTCCAACAAATTATGTAATATTTCATGATTTGTAGAGCTAACGATGTGATAGCTGTTA
6712847 G
66 G
**
6712848 TCCTTTCTTCCAACAAATTATGTAATATTTCATGATTTGTAGAGCTAATTATGTGATAGCTGTTA
1 TCCTTTCTTCCAACAAATTATGTAATATTTCATGATTTGTAGAGCTAACGATGTGATAGCTGTTA
6712913 G
66 G
6712914 GAGAATTAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (66 bp):
TCCTTTCTTCCAACAAATTATGTAATATTTCATGATTTGTAGAGCTAACGATGTGATAGCTGTTA
G
Found at i:6726594 original size:122 final size:122
Alignment explanation
Indices: 6726459--6726786 Score: 390
Period size: 122 Copynumber: 2.7 Consensus size: 122
6726449 GACATGTTTT
*
6726459 TGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGGCGTGTAACAACCTAACCATAGTGT
1 TGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGGCGTGTAACAACCTAACCATACTGT
* * * * *
6726524 GTAACATGTTTTTATATATGACT-TGTAATAACTTAACTATGACGTGTAACATATTGG
66 GTAACATGTTTTTGTATATGA-TGTGTAACAACCTAACCATGACATGTAACATATTGG
* * * * ** *
6726581 TGTACATGTTGTGTAACAACA-AATTTTTTTTTTCAATATGGCATGTAACAATTTAATCATACTG
1 TGTACATGATGTGTAACAACAGTA-TTTTTTTTTCAACATGGCGTGTAACAACCTAACCATACTG
* * * * * **
6726645 TGTAACATGTTTTTGTATATGATGTGTGACAGCCTAACCATGGCATGTAATATGTTTT
65 TGTAACATGTTTTTGTATATGATGTGTAACAACCTAACCATGACATGTAACATATTGG
* ** * *
6726703 TGTACATGGTGTGTAACAACAGTATTTTTTTTTCAACATGATGTGTAACAACCTAACCATTCCGT
1 TGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGGCGTGTAACAACCTAACCATACTGT
*
6726768 ATAACATGTTTTTGTATAT
66 GTAACATGTTTTTGTATAT
6726787 AGCGTGTAAC
Statistics
Matches: 171, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
121 2 0.01
122 168 0.98
123 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (122 bp):
TGTACATGATGTGTAACAACAGTATTTTTTTTTCAACATGGCGTGTAACAACCTAACCATACTGT
GTAACATGTTTTTGTATATGATGTGTAACAACCTAACCATGACATGTAACATATTGG
Found at i:6727393 original size:66 final size:67
Alignment explanation
Indices: 6727309--6727433 Score: 225
Period size: 66 Copynumber: 1.9 Consensus size: 67
6727299 TGATTTCAAC
6727309 TCCAATCAAATTATGTAATATTTCATGATTTGTAGAGCTAACGATGTGATAGTTGTTAGTCCTTT
1 TCCAATCAAATTATGTAATATTTCATGATTTGTAGAGCTAACGATGTGATAGTTGTTAGTCCTTT
6727374 CT
66 CT
**
6727376 TCCAA-CAAATTATGTAATATTTCATGATTTGTAGAGCTAATTATGTGATAGTTGTTAG
1 TCCAATCAAATTATGTAATATTTCATGATTTGTAGAGCTAACGATGTGATAGTTGTTAG
6727434 GAGAATTAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 51 0.91
67 5 0.09
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (67 bp):
TCCAATCAAATTATGTAATATTTCATGATTTGTAGAGCTAACGATGTGATAGTTGTTAGTCCTTT
CT
Found at i:6733408 original size:19 final size:19
Alignment explanation
Indices: 6733384--6733421 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6733374 CCATTTGACT
6733384 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6733403 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
6733422 GTTAAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:6740983 original size:27 final size:28
Alignment explanation
Indices: 6740953--6741005 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6740943 AGTGTCAGGT
* *
6740953 GGTGA-AAAATTACAATTTTGCCCCTGG
1 GGTGACAAAATGACAATTTTACCCCTGG
*
6740980 GGTGACAAAATGACTATTTTACCCCT
1 GGTGACAAAATGACAATTTTACCCCT
6741006 ATGCTCGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (28 bp):
GGTGACAAAATGACAATTTTACCCCTGG
Found at i:6743453 original size:35 final size:35
Alignment explanation
Indices: 6743414--6743496 Score: 148
Period size: 35 Copynumber: 2.4 Consensus size: 35
6743404 CCACATTGCG
6743414 CACATCAACATCATCGTGTGCACTCCCTACTCACA
1 CACATCAACATCATCGTGTGCACTCCCTACTCACA
* *
6743449 CACATCAACATCATCGTGTGCACTCTCTACTCGCA
1 CACATCAACATCATCGTGTGCACTCCCTACTCACA
6743484 CACATCAACATCA
1 CACATCAACATCA
6743497 CTATCCACAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.30, C:0.39, G:0.08, T:0.23
Consensus pattern (35 bp):
CACATCAACATCATCGTGTGCACTCCCTACTCACA
Found at i:6744624 original size:19 final size:20
Alignment explanation
Indices: 6744597--6744642 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6744587 AAGAGACAAG
*
6744597 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
6744616 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
6744635 ATAATATT
1 ATAATATT
6744643 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:6748741 original size:19 final size:19
Alignment explanation
Indices: 6748698--6748749 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
6748688 AGAATTTTGA
** *
6748698 AATAAAATAATATTTTATT
1 AATAAAATAATATTAAAAT
6748717 AATAAAATAATATTAAAAT
1 AATAAAATAATATTAAAAT
* *
6748736 ATTAAAATATTATT
1 AATAAAATAATATT
6748750 TGTTGTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAAAATAATATTAAAAT
Found at i:6749158 original size:31 final size:31
Alignment explanation
Indices: 6749087--6749164 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
6749077 GAACAGTTAA
*** *
6749087 AGGGTCAAATTGTAATTTATGAAATGTTTGG
1 AGGGTCAAATTGTAAAGGATGAAAAGTTTGG
**
6749118 -GGAACCAAATTGTAAAGGATGAAAAGTTTGG
1 AGG-GTCAAATTGTAAAGGATGAAAAGTTTGG
*
6749149 AGGGTCAAATGGTAAA
1 AGGGTCAAATTGTAAA
6749165 TAAGGAGAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
30 2 0.06
31 32 0.89
32 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.28
Consensus pattern (31 bp):
AGGGTCAAATTGTAAAGGATGAAAAGTTTGG
Found at i:6750630 original size:14 final size:14
Alignment explanation
Indices: 6750600--6750629 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6750590 TTTCGACGGA
6750600 TTTCCAACGAAAAT
1 TTTCCAACGAAAAT
6750614 TTTCCAACG-AAAT
1 TTTCCAACGAAAAT
6750627 TTT
1 TTT
6750630 TTCGTTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (14 bp):
TTTCCAACGAAAAT
Found at i:6751921 original size:43 final size:43
Alignment explanation
Indices: 6751871--6752067 Score: 265
Period size: 43 Copynumber: 4.6 Consensus size: 43
6751861 TATTGACTCG
*
6751871 GCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGATGACCCA
* *
6751914 GTTATGTGCGAGTAGGAAGTGCGCATAACCCGGTGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA
* * * *
6751957 GCCATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACTCG
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGATGACCCA
* *
6752000 GTTATGTGCGAGTAGAGAGTGCGC-TAACCCGGTGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA
*
6752042 GCCATGTGCGAGTAGGGAGTGCGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
6752068 GAGTTGGTGA
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 35 0.27
43 95 0.72
44 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.37, T:0.19
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA
Found at i:6752021 original size:86 final size:85
Alignment explanation
Indices: 6751874--6752067 Score: 345
Period size: 86 Copynumber: 2.3 Consensus size: 85
6751864 TGACTCGGCT
6751874 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCAGTTATGTGCGAGTAGGAAGTGCGCA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCAGTTATGTGCGAGTAGGAAGTGCGC-
6751939 TAACCCGGTGATGACCCAGCC
65 TAACCCGGTGATGACCCAGCC
* *
6751960 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACTCGGTTATGTGCGAGTA-GAGAGTGCGC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCAGTTATGTGCGAGTAGGA-AGTGCGC
6752024 TAACCCGGTGATGACCCAGCC
65 TAACCCGGTGATGACCCAGCC
6752045 ATGTGCGAGTAGGGAGTGCGCAT
1 ATGTGCGAGTAGGGAGTGCGCAT
6752068 GAGTTGGTGA
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
85 46 0.44
86 59 0.56
ACGTcount: A:0.24, C:0.21, G:0.37, T:0.19
Consensus pattern (85 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGAGGATGACCCAGTTATGTGCGAGTAGGAAGTGCGCT
AACCCGGTGATGACCCAGCC
Found at i:6752369 original size:22 final size:22
Alignment explanation
Indices: 6752338--6752394 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
6752328 GGCCGAAAAC
*
6752338 TCGCTGCAGCGAGGATGCATTT
1 TCGCTACAGCGAGGATGCATTT
6752360 TCGCTACAGCGAGGATGCATTT
1 TCGCTACAGCGAGGATGCATTT
6752382 TCGCTACAGCGAG
1 TCGCTACAGCGAG
6752395 AATGAAACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.25
Consensus pattern (22 bp):
TCGCTACAGCGAGGATGCATTT
Found at i:6752545 original size:60 final size:61
Alignment explanation
Indices: 6752415--6752559 Score: 175
Period size: 60 Copynumber: 2.4 Consensus size: 61
6752405 TAGCTTCTCA
* * * * * * * * * *
6752415 CTGCAGCGAAATGCATTCTCACTATAGCGAGAAACTTTCTATTTTCTGGGTTGCAATTTTG
1 CTGCAGCGAGATTCAATCTCGCTGTAGTGAGAAACATTCTATTTTCTGGGTAGAAATTTCG
* *
6752476 CTGGAGCGAGATTGAATCTCGCTGTAGTGAGAAACATTCTA-TTTCTGGGTAGAAATTTCG
1 CTGCAGCGAGATTCAATCTCGCTGTAGTGAGAAACATTCTATTTTCTGGGTAGAAATTTCG
6752536 CTGCAGCGAGATTCAATCTCGCTG
1 CTGCAGCGAGATTCAATCTCGCTG
6752560 CAACTAAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
60 38 0.54
61 32 0.46
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (61 bp):
CTGCAGCGAGATTCAATCTCGCTGTAGTGAGAAACATTCTATTTTCTGGGTAGAAATTTCG
Found at i:6765977 original size:20 final size:20
Alignment explanation
Indices: 6765952--6765997 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
6765942 CTTCTAAACC
6765952 TCAAATCATACACCAATAAG
1 TCAAATCATACACCAATAAG
* *
6765972 TCAAATTATACTCCAATAAG
1 TCAAATCATACACCAATAAG
6765992 TCAAAT
1 TCAAAT
6765998 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (20 bp):
TCAAATCATACACCAATAAG
Found at i:6774499 original size:67 final size:66
Alignment explanation
Indices: 6774406--6774583 Score: 239
Period size: 67 Copynumber: 2.7 Consensus size: 66
6774396 AGCTTTACAA
* * *** * *
6774406 TGGTTTTTCAAGGCTCAGCCAAAACCTTTTACACTAGTTTTTCACGGGCTAAACTAAAACCCAAA
1 TGGTTTTTCAAGGCTCAACCACAACCTACAACAATAGTTTTTCACGGGCTAAACCAAAACCCAAA
6774471 G
66 G
* * *
6774472 TGGTTTTTCTAAGGCTCAACCACAACCTACAATAATGGTTTTTCACGGGCTCAACCAAAACCCAA
1 TGGTTTTTC-AAGGCTCAACCACAACCTACAACAATAGTTTTTCACGGGCTAAACCAAAACCCAA
6774537 AG
65 AG
*
6774539 TGGTTTTTCAAAGGCTCAACCACAACCTACAACAATGGTTTTTCA
1 TGGTTTTTC-AAGGCTCAACCACAACCTACAACAATAGTTTTTCA
6774584 TGGAATCAAC
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
66 9 0.09
67 90 0.91
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (66 bp):
TGGTTTTTCAAGGCTCAACCACAACCTACAACAATAGTTTTTCACGGGCTAAACCAAAACCCAAA
G
Found at i:6774523 original size:35 final size:32
Alignment explanation
Indices: 6774442--6774583 Score: 133
Period size: 32 Copynumber: 4.2 Consensus size: 32
6774432 TTTTACACTA
* * * *
6774442 GTTTTTCACGGGCTAAACTAAAACCCAAAGTG
1 GTTTTTCACAGGCTCAACCAAAACCCAAAATG
*
6774474 GTTTTTCTA-AGGCTCAACCACAACCTACAATAATG
1 GTTTTTC-ACAGGCTCAACCAAAACC--CAA-AATG
* *
6774509 GTTTTTCACGGGCTCAACCAAAACCCAAAGTG
1 GTTTTTCACAGGCTCAACCAAAACCCAAAATG
* *
6774541 GTTTTTCAAAGGCTCAACCACAACCTACAACAATG
1 GTTTTTCACAGGCTCAACCAAAACC--CAA-AATG
6774576 GTTTTTCA
1 GTTTTTCA
6774584 TGGAATCAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
32 44 0.49
33 4 0.04
34 7 0.08
35 35 0.39
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (32 bp):
GTTTTTCACAGGCTCAACCAAAACCCAAAATG
Found at i:6774602 original size:35 final size:34
Alignment explanation
Indices: 6774402--6774583 Score: 142
Period size: 35 Copynumber: 5.4 Consensus size: 34
6774392 ACCAAGCTTT
* * ***
6774402 ACAATGGTTTTTCAAGGCTCAGCCAAAACCTTTT
1 ACAATGGTTTTTCAAGGCTCAACCACAACCTACA
* * * * * *
6774436 ACACTAGTTTTTCACGGGCTAAACTAAAACC--CA
1 ACAATGGTTTTTCA-AGGCTCAACCACAACCTACA
*
6774469 A-AGTGGTTTTTCTAAGGCTCAACCACAACCTACA
1 ACAATGGTTTTTC-AAGGCTCAACCACAACCTACA
* * *
6774503 ATAATGGTTTTTCACGGGCTCAACCAAAACC--CA
1 ACAATGGTTTTTCA-AGGCTCAACCACAACCTACA
*
6774536 A-AGTGGTTTTTCAAAGGCTCAACCACAACCTACA
1 ACAATGGTTTTTC-AAGGCTCAACCACAACCTACA
6774570 ACAATGGTTTTTCA
1 ACAATGGTTTTTCA
6774584 TGGAATCAAC
Statistics
Matches: 117, Mismatches: 21, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
32 45 0.38
33 6 0.05
34 20 0.17
35 46 0.39
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (34 bp):
ACAATGGTTTTTCAAGGCTCAACCACAACCTACA
Found at i:6781555 original size:16 final size:16
Alignment explanation
Indices: 6781534--6781565 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6781524 GGTATGGAGA
6781534 GAGAATGAAGTTAGAT
1 GAGAATGAAGTTAGAT
6781550 GAGAATGAAGTTAGAT
1 GAGAATGAAGTTAGAT
6781566 TGATTTGATT
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:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (16 bp):
GAGAATGAAGTTAGAT
Found at i:6784540 original size:20 final size:20
Alignment explanation
Indices: 6784512--6784554 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6784502 AATGATAACC
6784512 AAATAAAAAGTAA-TAACATA
1 AAATAAAAA-TAACTAACATA
* *
6784532 AAATTAAAATAACTAACTTA
1 AAATAAAAATAACTAACATA
6784552 AAA
1 AAA
6784555 GTAACCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (20 bp):
AAATAAAAATAACTAACATA
Found at i:6785986 original size:13 final size:13
Alignment explanation
Indices: 6785968--6785992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6785958 TTCCAGAAAA
6785968 TTTATAAAATCAT
1 TTTATAAAATCAT
6785981 TTTATAAAATCA
1 TTTATAAAATCA
6785993 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:6790611 original size:13 final size:13
Alignment explanation
Indices: 6790593--6790617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6790583 AGGGAAATTG
6790593 TGATTTTATAAAA
1 TGATTTTATAAAA
6790606 TGATTTTATAAA
1 TGATTTTATAAA
6790618 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:6792049 original size:15 final size:15
Alignment explanation
Indices: 6792007--6792052 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
6791997 AGATCAGAGA
* *
6792007 TTTTGGTTTTAAAGT
1 TTTTGATTTTAAGGT
*
6792022 TTTAGATTTTAAGGT
1 TTTTGATTTTAAGGT
6792037 TTTTGATTTTAAGGT
1 TTTTGATTTTAAGGT
6792052 T
1 T
6792053 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (15 bp):
TTTTGATTTTAAGGT
Found at i:6800129 original size:13 final size:13
Alignment explanation
Indices: 6800111--6800135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6800101 AGAGAAATTG
6800111 TGATTTTATAAAA
1 TGATTTTATAAAA
6800124 TGATTTTATAAA
1 TGATTTTATAAA
6800136 TTTTTTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:6801809 original size:53 final size:51
Alignment explanation
Indices: 6801746--6801918 Score: 183
Period size: 50 Copynumber: 3.4 Consensus size: 51
6801736 CCTCTTATAA
* *
6801746 AGGCTTTACAACTTTAAAGATCAATTTGAAAAAAAAAAACAACTCCTCATCTG
1 AGGCTCTACAACTTTAAAGATCAATTTG--AAAAATAAACAACTCCTCATCTG
* * * **
6801799 AGGCTCTACAACTTTAAA-ATCATTTTGAAATATAAATAACTCCTCATCCA
1 AGGCTCTACAACTTTAAAGATCAATTTGAAAAATAAACAACTCCTCATCTG
* * * *
6801849 AGGCTCCACCACTTTAAAG-TTAATTCGAAAAATAAACAACTCCTCAT-TCG
1 AGGCTCTACAACTTTAAAGATCAATTTGAAAAATAAACAACTCCTCATCT-G
6801899 AGGCT-TCACAACTTTAAAGA
1 AGGCTCT-ACAACTTTAAAGA
6801919 AAAGTAATGA
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
50 73 0.74
52 8 0.08
53 17 0.17
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (51 bp):
AGGCTCTACAACTTTAAAGATCAATTTGAAAAATAAACAACTCCTCATCTG
Found at i:6802115 original size:22 final size:22
Alignment explanation
Indices: 6802058--6802120 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
6802048 TAATTACCCC
* *
6802058 GAGGTTTTAAAAAAATATACCTA
1 GAGGTTTT-AGAAAATGTACCTA
*
6802081 GAGGTTTT-GGAAATGTACCTA
1 GAGGTTTTAGAAAATGTACCTA
6802102 GAGGGTTTTAGAAAATGTA
1 GA-GGTTTTAGAAAATGTA
6802121 TACGGAGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 12 0.35
22 6 0.18
23 16 0.47
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (22 bp):
GAGGTTTTAGAAAATGTACCTA
Found at i:6802308 original size:125 final size:125
Alignment explanation
Indices: 6802125--6802386 Score: 339
Period size: 125 Copynumber: 2.1 Consensus size: 125
6802115 AATGTATACG
* **
6802125 GAGGTTTTAAAAGAAAAGGTTGCTCTCCATCTCAAAATGAGGCTATGTAACGTCAAAGAAATCTT
1 GAGGTTTTGAAAGAAAAGGTTGCTCTCCATCTCAAAATGAGGCTACATAACGTCAAAGAAATCTT
* * *
6802190 GAAACTAATTA-CTAGGAGGTTTTGGAGAATATACCCAAAGGTTTCATAAGAATGTACTCA
66 GAAACTAATTACCCA-GAGGTTTTGGAGAATATACCCAAAGGTTTCATAAGAAGGTACCCA
* * * * * *
6802250 GAGGTTTTGTAAGAATAGGTTGCTCGT-CGTCTCTAAATGAGGCTACATAACTTTAAAGAAATCT
1 GAGGTTTTGAAAGAAAAGGTTGCTC-TCCATCTCAAAATGAGGCTACATAACGTCAAAGAAATCT
* * ** *
6802314 TGAAACTAATTACCCATAGGTTTTGGAGAATATACTCGGAGGTTTCATAAGAAGGTACCCG
65 TGAAACTAATTACCCAGAGGTTTTGGAGAATATACCCAAAGGTTTCATAAGAAGGTACCCA
6802375 GAGGTTTTGAAA
1 GAGGTTTTGAAA
6802387 ATGTACCTGT
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
125 114 0.97
126 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (125 bp):
GAGGTTTTGAAAGAAAAGGTTGCTCTCCATCTCAAAATGAGGCTACATAACGTCAAAGAAATCTT
GAAACTAATTACCCAGAGGTTTTGGAGAATATACCCAAAGGTTTCATAAGAAGGTACCCA
Found at i:6802412 original size:22 final size:22
Alignment explanation
Indices: 6802376--6802429 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6802366 AGGTACCCGG
* *
6802376 AGGTTTT-GAAAATGTAC-CTGT
1 AGGTTTTAAAAAATGTACTC-GA
6802397 AGGTTTTAAAAAATGTACTCGA
1 AGGTTTTAAAAAATGTACTCGA
6802419 AGGTTTTAAAA
1 AGGTTTTAAAA
6802430 GAAAAGATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.24
22 21 0.72
23 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.35
Consensus pattern (22 bp):
AGGTTTTAAAAAATGTACTCGA
Found at i:6803910 original size:15 final size:15
Alignment explanation
Indices: 6803890--6803935 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6803880 TTCTTAAAAC
6803890 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
6803905 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
6803920 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
6803935 A
1 A
6803936 TATCTTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:6804062 original size:19 final size:19
Alignment explanation
Indices: 6804040--6804099 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
6804030 GGCACTCATT
6804040 ACCCCGAATGCCTATCGAA
1 ACCCCGAATGCCTATCGAA
* *
6804059 ACCCCGCAA-GGC-ACTC-ATT
1 ACCCCG-AATGCCTA-TCGA-A
6804078 ACCCCGAATGCCTATCGAA
1 ACCCCGAATGCCTATCGAA
6804097 ACC
1 ACC
6804100 TCGCAAGGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
18 4 0.13
19 23 0.74
20 4 0.13
ACGTcount: A:0.30, C:0.40, G:0.15, T:0.15
Consensus pattern (19 bp):
ACCCCGAATGCCTATCGAA
Found at i:6804080 original size:38 final size:38
Alignment explanation
Indices: 6804029--6804108 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
6804019 ACGTCCCGAT
6804029 AGGCACTCATTACCCCGAATGCCTATCGAAACCCCGCA
1 AGGCACTCATTACCCCGAATGCCTATCGAAACCCCGCA
*
6804067 AGGCACTCATTACCCCGAATGCCTATCGAAACCTCGCA
1 AGGCACTCATTACCCCGAATGCCTATCGAAACCCCGCA
6804105 AGGC
1 AGGC
6804109 TTAGCATCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.29, C:0.38, G:0.17, T:0.16
Consensus pattern (38 bp):
AGGCACTCATTACCCCGAATGCCTATCGAAACCCCGCA
Found at i:6826044 original size:2 final size:2
Alignment explanation
Indices: 6826033--6826068 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6826023 ACACTTTACT
6826033 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6826069 TCCAAATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6826638 original size:25 final size:25
Alignment explanation
Indices: 6826533--6826629 Score: 124
Period size: 25 Copynumber: 3.8 Consensus size: 25
6826523 TTTCTAATTT
* * *
6826533 TTTTCCTATTTAGGCTAAGCCCATTTA
1 TTTT-CTA-TTAGGCCATGCCCACTTA
6826560 TTTTCTATTAGGCCATGCCCACTTA
1 TTTTCTATTAGGCCATGCCCACTTA
*
6826585 TTTTCTATTTGGCCATGCCCACTTA
1 TTTTCTATTAGGCCATGCCCACTTA
*
6826610 TTTTCTATTGGGCCAT-CCCA
1 TTTTCTATTAGGCCATGCCCA
6826630 TTCTTTTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.06
25 54 0.83
26 3 0.05
27 4 0.06
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (25 bp):
TTTTCTATTAGGCCATGCCCACTTA
Found at i:6826651 original size:16 final size:16
Alignment explanation
Indices: 6826630--6826667 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6826620 GGCCATCCCA
6826630 TTCTTTT-TTTTTTCTT
1 TTCTTTTCTTTTTT-TT
6826646 TTCTTTTCTTTTTTTT
1 TTCTTTTCTTTTTTTT
6826662 TTCTTT
1 TTCTTT
6826668 CTTCCACGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTCTTTTCTTTTTTTT
Found at i:6827214 original size:20 final size:21
Alignment explanation
Indices: 6827172--6827219 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
6827162 TTCTACACTC
*
6827172 TTCTCTTTTGTTTTCTTTACT
1 TTCTTTTTTGTTTTCTTTACT
*
6827193 TT-TTTTTTGTCTTTC-TTCCT
1 TTCTTTTTTGT-TTTCTTTACT
6827213 TTCTTTT
1 TTCTTTT
6827220 GTATGGCCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (21 bp):
TTCTTTTTTGTTTTCTTTACT
Found at i:6834521 original size:15 final size:16
Alignment explanation
Indices: 6834496--6834525 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6834486 TGGATTTCTT
6834496 AAAACAACTTTAAAAC
1 AAAACAACTTTAAAAC
6834512 AAAA-AACTTTAAAA
1 AAAACAACTTTAAAA
6834526 TCCAAAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAACAACTTTAAAAC
Found at i:6835765 original size:13 final size:13
Alignment explanation
Indices: 6835747--6835771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6835737 TTTCAGAAAA
6835747 TTTATAAAATCAT
1 TTTATAAAATCAT
6835760 TTTATAAAATCA
1 TTTATAAAATCA
6835772 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:6842292 original size:5 final size:5
Alignment explanation
Indices: 6842285--6842314 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
6842275 CTATTCAATC
*
6842285 TAACC TAACT TAACT TAACT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT
6842315 GGACTTGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (5 bp):
TAACT
Found at i:6842371 original size:11 final size:11
Alignment explanation
Indices: 6842344--6842382 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6842334 CACTGTAAAT
*
6842344 TTTAAAACAGC
1 TTTAAAACAAC
*
6842355 TCTAAAACAAC
1 TTTAAAACAAC
*
6842366 TTTAAACCAAC
1 TTTAAAACAAC
6842377 TTTAAA
1 TTTAAA
6842383 CCCAAAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:6856615 original size:20 final size:20
Alignment explanation
Indices: 6856573--6856638 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
6856563 CTCCTATAAA
* * * *
6856573 AACATAAAACAAATATAAAT
1 AACATAAAACTAACATTATT
6856593 AACATAAAACTAACATTATT
1 AACATAAAACTAACATTATT
* *
6856613 AACTTAAAA-TAAACATT-TA
1 AACATAAAACT-AACATTATT
6856632 AACATAA
1 AACATAA
6856639 TTAAACGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 8 0.21
20 30 0.79
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (20 bp):
AACATAAAACTAACATTATT
Found at i:6858586 original size:14 final size:14
Alignment explanation
Indices: 6858567--6858593 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6858557 TACTGCGTTG
6858567 ATATATATGTATAT
1 ATATATATGTATAT
6858581 ATATATATGTATA
1 ATATATATGTATA
6858594 CGAATAATGT
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:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:6858974 original size:42 final size:42
Alignment explanation
Indices: 6858878--6859030 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
6858868 ACACTGCTGT
* *
6858878 TGACCCTG-CTATGTGTGAGGGGGAGTGCACAT-AG-TCGATGC
1 TGACCC-GACTATGTGCGAGGGGGAGTGCGCATAAGCT-GATGC
6858919 TGACCCGACTATGTGCGAGGGGGAGTGCGCATAAGCTGATGC
1 TGACCCGACTATGTGCGAGGGGGAGTGCGCATAAGCTGATGC
* * ** * *
6858961 TGACCCGATTATGTGCTAGTAGAAGTGCGCATAAGCCGATGC
1 TGACCCGACTATGTGCGAGGGGGAGTGCGCATAAGCTGATGC
* * *
6859003 TGACCC-AGCCATGTGCAAGTGGGAGTGC
1 TGACCCGA-CTATGTGCGAGGGGGAGTGC
6859031 ATATGAGCTG
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
40 1 0.01
41 29 0.31
42 64 0.67
43 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.22
Consensus pattern (42 bp):
TGACCCGACTATGTGCGAGGGGGAGTGCGCATAAGCTGATGC
Found at i:6859080 original size:4 final size:4
Alignment explanation
Indices: 6859071--6859118 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
6859061 ATGGTGATGG
* * *
6859071 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATGT ATAC ATAT ATAG ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
6859119 GTGTGTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (4 bp):
ATAT
Found at i:6859080 original size:6 final size:6
Alignment explanation
Indices: 6859071--6859118 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
6859061 ATGGTGATGG
* * *
6859071 ATATAT ATATAT ATATAT ATATAT ATATAT GTATAC ATATAT AGATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
6859119 GTGTGTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:6863494 original size:20 final size:20
Alignment explanation
Indices: 6863469--6863514 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
6863459 CTTCTAAACC
6863469 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
6863489 TCAAATTATACTCCAATGAG
1 TCAAATCATACTCCAATAAG
6863509 TCAAAT
1 TCAAAT
6863515 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:6869099 original size:38 final size:40
Alignment explanation
Indices: 6869057--6869157 Score: 152
Period size: 38 Copynumber: 2.6 Consensus size: 40
6869047 ATAGTGCCCG
6869057 TGTGCACGATGTGGGGGGATGTACACGATGGCA-CTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCACCTGATA
* * * *
6869095 TGTGCACGATGTGTGGGGATGCACACGATGGTACCTGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCACCTGATA
6869135 TGTGCACGATGTGGGGGGATGTA
1 TGTGCACGATGTGGGGGGATGTA
6869158 TATGAGCCGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 30 0.55
39 4 0.07
40 21 0.38
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.25
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCACCTGATA
Found at i:6870851 original size:2 final size:2
Alignment explanation
Indices: 6870846--6870882 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
6870836 TCACACAGAC
**
6870846 AT AT AT AT CC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6870883 CTGAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6871928 original size:77 final size:77
Alignment explanation
Indices: 6871836--6871988 Score: 220
Period size: 77 Copynumber: 2.0 Consensus size: 77
6871826 AATTACAATG
*
6871836 CTATCCTTAATTTTAGAAATTTC-TTTTAAAGTAGGAAACAATTTCATA-TTCTTTAAGAATCAC
1 CTATCCTTAATTTTAGAAA-TTCAATTTAAAGTAGGAAACAATTTCATACTT-TTTAAGAATCAC
6871899 CCAAAATAAAAATT
64 CCAAAATAAAAATT
* * * *
6871913 CTATTCTTAATTTTAGGAATTCAATTTAAAGTAGGAAACAATTTCCTACTTTTTATGAATCACCC
1 CTATCCTTAATTTTAGAAATTCAATTTAAAGTAGGAAACAATTTCATACTTTTTAAGAATCACCC
*
6871978 AAAATTAAAAT
66 AAAATAAAAAT
6871989 AGATAGCATT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
76 3 0.04
77 63 0.93
78 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (77 bp):
CTATCCTTAATTTTAGAAATTCAATTTAAAGTAGGAAACAATTTCATACTTTTTAAGAATCACCC
AAAATAAAAATT
Found at i:6879452 original size:19 final size:19
Alignment explanation
Indices: 6879428--6879465 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6879418 CCATTTGACT
*
6879428 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
6879447 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
6879466 GGTTTGGCAG
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:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:6882471 original size:21 final size:21
Alignment explanation
Indices: 6882429--6882471 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6882419 TCCACATTCA
*
6882429 GTTTTATTTCATTGAATCGTG
1 GTTTTATTCCATTGAATCGTG
*
6882450 GTTTTA-TCCATTTAATCTGTG
1 GTTTTATTCCATTGAATC-GTG
6882471 G
1 G
6882472 GGGCTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.51
Consensus pattern (21 bp):
GTTTTATTCCATTGAATCGTG
Found at i:6883528 original size:14 final size:14
Alignment explanation
Indices: 6883509--6883540 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6883499 AATTCACTAT
*
6883509 TTTTCTCATTATTA
1 TTTTCTAATTATTA
6883523 TTTTCTAATTATTA
1 TTTTCTAATTATTA
6883537 TTTT
1 TTTT
6883541 ATATTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTAATTATTA
Found at i:6885246 original size:13 final size:13
Alignment explanation
Indices: 6885228--6885252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6885218 CTCTCCCTTT
6885228 TTTTTATTTTATG
1 TTTTTATTTTATG
6885241 TTTTTATTTTAT
1 TTTTTATTTTAT
6885253 TTTATTTTTA
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:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTATG
Found at i:6885252 original size:18 final size:18
Alignment explanation
Indices: 6885225--6885269 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
6885215 CCCCTCTCCC
6885225 TTTT-TTTTATTTTATGT
1 TTTTATTTTATTTTATGT
*
6885242 TTTTATTTTATTTTATTT
1 TTTTATTTTATTTTATGT
6885260 TTATTATTTT
1 TT-TTATTTT
6885270 TTTGGTGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.16
18 14 0.56
19 7 0.28
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTATTTTATTTTATGT
Found at i:6885581 original size:38 final size:39
Alignment explanation
Indices: 6885489--6885938 Score: 484
Period size: 38 Copynumber: 11.8 Consensus size: 39
6885479 TTTAAGAATA
* * *
6885489 AACTCCTCAAAATTGAGGCAATGAAAC-TTTAAGAGTA--
1 AACTCCTCAAAACTGAGGCAACGAAACTTTTAA-AATATG
*
6885526 AACTCCTCAAAATTGAGGCAACGAAA-TTTTAAAATATG
1 AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
*
6885564 AACTCCTCAAAGCTGAGGCAACGAAACTTCTTTAATAATA--
1 AACTCCTCAAAACTGAGGCAACGAAAC-T-TTTAA-AATATG
* ** *
6885604 AACTCCT-AAAAGTTGAGGCAACGGGACTTGTAAAAT-TG
1 AACTCCTCAAAA-CTGAGGCAACGAAACTTTTAAAATATG
* **
6885642 ACCTCCTCAAAGTTGAGGCAACGAAACTTTTAAAA-ATG
1 AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
*
6885680 AACTCATCAAAACTGAGGCAACGAAAC-TTTAAAA-ATG
1 AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
* *
6885717 AAACTCCTCAAAACTGAGGCAACAAAACTTTAAAAATATG
1 -AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
* * * *
6885757 -GCTCCTCAAAATTGAGGCAACGTAAC-TTTAAAAAATG
1 AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
*
6885794 AACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAA-ATG
1 AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
*
6885832 AACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAT-T-
1 AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
* **
6885869 AACTCCTTAAAGTTGAGGCAACGAAACTTTTAAAA-ATG
1 AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
* *
6885907 AACTCCTCAAAACTGAGGTAACAAAACCTTTT
1 AACTCCTCAAAACTGAGGCAACGAAA-CTTTT
6885939 CTTCTTTTTT
Statistics
Matches: 354, Mismatches: 38, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
36 3 0.01
37 86 0.24
38 208 0.59
39 25 0.07
40 23 0.06
41 5 0.01
42 4 0.01
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (39 bp):
AACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATATG
Found at i:6885724 original size:76 final size:75
Alignment explanation
Indices: 6885477--6885933 Score: 533
Period size: 76 Copynumber: 6.0 Consensus size: 75
6885467 AGGTAATGAT
* * ** * * * * *
6885477 ACTTTAAGAATAAACTCCTCAAAATTGAGGCAATGAAAC-TTTAAGAGTAAACTCCTCAAAATTG
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTG
6885541 AGGCAACGAA
66 AGGCAACGAA
* * *
6885551 ATTTTAAAATATGAACTCCTCAAAGCTGAGGCAACGAAACTTCTTTAATAATAAACTCCT-AAAA
1 ACTTTAAAA-ATGAACTCCTCAAAGCTGAGGCAACGAAAC-T-TTTAAAAATGAACTCCTCAAAA
* **
6885615 GTTGAGGCAACGGG
63 -CTGAGGCAACGAA
* * * *
6885629 ACTTGTAAAATTGACCTCCTCAAAGTTGAGGCAACGAAACTTTTAAAAATGAACTCATCAAAACT
1 ACTT-TAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACT
6885694 GAGGCAACGAA
65 GAGGCAACGAA
* * * * *
6885705 ACTTTAAAAATGAAACTCCTCAAAACTGAGGCAACAAAACTTTAAAAATATG-GCTCCTCAAAAT
1 ACTTTAAAAATG-AACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAA-ATGAACTCCTCAAAAC
*
6885769 TGAGGCAACGTA
64 TGAGGCAACGAA
*
6885781 ACTTTAAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCT
1 ACTTT-AAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACT
6885846 GAGGCAACGAA
65 GAGGCAACGAA
* * * *
6885857 ACTTTTAAAATTAACTCCTTAAAGTTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTG
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTG
* *
6885922 AGGTAACAAA
66 AGGCAACGAA
6885932 AC
1 AC
6885934 CTTTTCTTCT
Statistics
Matches: 328, Mismatches: 44, Indels: 21
0.83 0.11 0.05
Matches are distributed among these distances:
74 7 0.02
75 101 0.31
76 140 0.43
77 19 0.06
78 56 0.17
79 5 0.02
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (75 bp):
ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTG
AGGCAACGAA
Found at i:6885938 original size:114 final size:113
Alignment explanation
Indices: 6885479--6885938 Score: 568
Period size: 114 Copynumber: 4.0 Consensus size: 113
6885469 GTAATGATAC
* * * * *
6885479 TTTAAGAATAAACTCCTCAAAATTGAGGCAATGAAAC-TTTAAGAGTAAACTCCTCAAAATTGAG
1 TTTAAAAATAAACTCCTCAAAACTGAGGCAACGAAACTTTTAA-AATTAACTCCTCAAAATTGAG
*
6885543 GCAACGAAA-TTTTAAAATATGAACTCCTCAAAGCTGAGGCAACGAAACTT
65 GCAACGAAACTTTTAAAA-ATGAACTCCTCAAAACTGAGGCAACGAAAC-T
* * ** * * *
6885593 CTTTAATAATAAACTCCT-AAAAGTTGAGGCAACGGGACTTGTAAAATTGACCTCCTCAAAGTTG
1 -TTTAAAAATAAACTCCTCAAAA-CTGAGGCAACGAAACTTTTAAAATT-AACTCCTCAAAATTG
*
6885657 AGGCAACGAAACTTTTAAAAATGAACTCATCAAAACTGAGGCAACGAAAC-
63 AGGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACT
* * **
6885707 TTTAAAAATGAAACTCCTCAAAACTGAGGCAACAAAACTTTAAAAATATGGCTCCTCAAAATTGA
1 TTTAAAAAT-AAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAAT-TAACTCCTCAAAATTGA
* * *
6885772 GGCAACGTAACTTTAAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACT
64 GGCAACGAAACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACT
* * * *
6885822 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAATTAACTCCTTAAAGTTGAGG
1 TTTAAAAATAAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATTAACTCCTCAAAATTGAGG
* *
6885887 CAACGAAACTTTTAAAAATGAACTCCTCAAAACTGAGGTAACAAAACCT
66 CAACGAAACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAA-CT
6885936 TTT
1 TTT
6885939 CTTCTTTTTT
Statistics
Matches: 298, Mismatches: 38, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
113 64 0.21
114 126 0.42
115 44 0.15
116 56 0.19
117 8 0.03
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (113 bp):
TTTAAAAATAAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATTAACTCCTCAAAATTGAGG
CAACGAAACTTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAAACT
Found at i:6886348 original size:82 final size:81
Alignment explanation
Indices: 6886249--6886414 Score: 296
Period size: 82 Copynumber: 2.0 Consensus size: 81
6886239 GCTATTTCCA
* * *
6886249 TTTCTTTCTCTCTTTTCTTAGTTTTTTCTCTTTCTTTTTTATATTACCAGACCCCATTTCATTCC
1 TTTCTTTTTTTCTTTTCTTAGTTTTTCCTCTTTCTTTTTTATATTACCAGACCCCATTTCATTCC
6886314 TCGTCAATTATGATCC
66 TCGTCAATTATGATCC
6886330 TTNTCTTTTTTTCTTTTCTTAGTTTTTCCTCTTTCTTTTTTATATTACCAGACCCCATTTCATTC
1 TT-TCTTTTTTTCTTTTCTTAGTTTTTCCTCTTTCTTTTTTATATTACCAGACCCCATTTCATTC
6886395 CTCGTCAATTATGATCC
65 CTCGTCAATTATGATCC
6886412 TTT
1 TTT
6886415 TTCAAAATAC
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
81 3 0.04
82 78 0.96
ACGTcount: A:0.14, C:0.25, G:0.05, T:0.55
Consensus pattern (81 bp):
TTTCTTTTTTTCTTTTCTTAGTTTTTCCTCTTTCTTTTTTATATTACCAGACCCCATTTCATTCC
TCGTCAATTATGATCC
Found at i:6907034 original size:21 final size:21
Alignment explanation
Indices: 6906992--6907034 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6906982 CTTGTACCGG
*
6906992 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
6907013 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
6907034 T
1 T
6907035 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:6911679 original size:17 final size:18
Alignment explanation
Indices: 6911646--6911680 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6911636 TTAGGCTTTA
6911646 ATTTTTTAAGTTCACTAT
1 ATTTTTTAAGTTCACTAT
*
6911664 ATTTTTTTAGTT-ACTAT
1 ATTTTTTAAGTTCACTAT
6911681 TCTCTTATTT
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:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (18 bp):
ATTTTTTAAGTTCACTAT
Found at i:6912252 original size:24 final size:24
Alignment explanation
Indices: 6912182--6912264 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
6912172 TTTCTCATTA
* *
6912182 TTATTTTCTAATTATTA-TGTTATA
1 TTATTTT-TTATTATTATTGTTATT
* *
6912206 TTCTTTATTATTA-TACCTT-TTATT
1 TTATTTTTTATTATTA--TTGTTATT
6912230 TTATTTTTTATTATTATTGTTATT
1 TTATTTTTTATTATTATTGTTATT
6912254 ATT-TTTTTTAT
1 -TTATTTTTTAT
6912265 ATTTTTTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
22 2 0.04
23 7 0.15
24 33 0.70
25 5 0.11
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATTTTTTATTATTATTGTTATT
Found at i:6912255 original size:27 final size:28
Alignment explanation
Indices: 6912193--6912267 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 28
6912183 TATTTTCTAA
*
6912193 TTATTATGTTATATTCTTTATTATTATACC
1 TTATTAT-TT-TATTTTTTATTATTATACC
**
6912223 TT-TTATTTTATTTTTTATTATTAT-TG
1 TTATTATTTTATTTTTTATTATTATACC
*
6912249 TTATTATTTT-TTTTATATT
1 TTATTATTTTATTTTTTATT
6912268 TTTTATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.25
27 22 0.55
28 2 0.05
29 4 0.10
30 2 0.05
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.71
Consensus pattern (28 bp):
TTATTATTTTATTTTTTATTATTATACC
Found at i:6912264 original size:9 final size:9
Alignment explanation
Indices: 6912223--6912279 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 9
6912213 TTATTATACC
6912223 TTTTATTTTA
1 TTTT-TTTTA
6912233 TTTTTTATTA
1 TTTTTT-TTA
6912243 TTATTGTTATTA
1 TT-TT-TT-TTA
6912255 TTTTTTTTA
1 TTTTTTTTA
6912264 TATTTTTTATA
1 T-TTTTTT-TA
6912275 TTTTT
1 TTTTT
6912280 CCTATATTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.14
10 21 0.50
11 7 0.17
12 8 0.19
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:6912264 original size:12 final size:12
Alignment explanation
Indices: 6912223--6912276 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
6912213 TTATTATACC
6912223 TTTTATT-TTATT
1 TTTTATTATT-TT
*
6912235 TTTTATTATTAT
1 TTTTATTATTTT
*
6912247 TGTTATTATTTT
1 TTTTATTATTTT
6912259 TTTTA-TATTTT
1 TTTTATTATTTT
*
6912270 TTATATT
1 TTTTATT
6912277 TTTCCTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 10 0.29
12 23 0.66
13 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTATTATTTT
Found at i:6912278 original size:8 final size:9
Alignment explanation
Indices: 6912228--6912290 Score: 54
Period size: 9 Copynumber: 6.3 Consensus size: 9
6912218 ATACCTTTTA
*
6912228 TTTTATTTT
1 TTTTATATT
6912237 TTATTATTATT
1 TT-TTA-TATT
*
6912248 GTTATTATTTT
1 -TT-TTATATT
6912259 TTTTATATT
1 TTTTATATT
6912268 TTTTATATT
1 TTTTATATT
6912277 TTTCCTATATT
1 TTT--TATATT
6912288 TTT
1 TTT
6912291 CTTGATATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
9 20 0.43
10 5 0.11
11 15 0.33
12 6 0.13
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTATATT
Found at i:6912290 original size:12 final size:11
Alignment explanation
Indices: 6912262--6912302 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
6912252 TTATTTTTTT
6912262 TATATTTTT--
1 TATATTTTTCC
6912271 TATATTTTTCC
1 TATATTTTTCC
*
6912282 TATATTTTTCT
1 TATATTTTTCC
6912293 TGATATTTTT
1 T-ATATTTTT
6912303 TTTTATCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 9 0.32
11 11 0.39
12 8 0.29
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (11 bp):
TATATTTTTCC
Found at i:6913901 original size:17 final size:16
Alignment explanation
Indices: 6913875--6913920 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
6913865 CCTCTCTCCC
6913875 TTTT-TTTTATTTTAT
1 TTTTATTTTATTTTAT
6913890 GTTTTATTTTATTTTTAT
1 -TTTTATTTTA-TTTTAT
6913908 TTTTATTATTATT
1 TTTTATT-TTATT
6913921 ATTTTTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
17 14 0.52
18 9 0.33
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:6913905 original size:6 final size:6
Alignment explanation
Indices: 6913878--6913920 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
6913868 CTCTCCCTTT
*
6913878 TTTTTA -TTTTA TGTTTTA -TTTTA TTTTTA TTTTTA TTATTA TT
1 TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
6913921 ATTTTTTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 10 0.30
6 18 0.55
7 5 0.15
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:6913919 original size:23 final size:23
Alignment explanation
Indices: 6913876--6913928 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
6913866 CTCTCTCCCT
*
6913876 TTTTTTTATTTTATGTTTTATT-
1 TTTTTTTATTTTATGTATTATTA
6913898 TTATTTTTATTTTTAT-TATTATTA
1 TT-TTTTTA-TTTTATGTATTATTA
6913922 TTTTTTT
1 TTTTTTT
6913929 GGTGTGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 17 0.63
24 8 0.30
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTTTATTTTATGTATTATTA
Found at i:6913927 original size:17 final size:17
Alignment explanation
Indices: 6913875--6913928 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
6913865 CCTCTCTCCC
6913875 TTTTTT-TTATT-TTA-
1 TTTTTTATTATTATTAT
* *
6913889 TGTTTTATT-TTATTTT
1 TTTTTTATTATTATTAT
6913905 TATTTTTATTATTATTAT
1 T-TTTTTATTATTATTAT
6913923 TTTTTT
1 TTTTTT
6913929 GGTGTGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 1 0.03
17 12 0.39
18 7 0.23
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTATTATTATTAT
Found at i:6914817 original size:13 final size:14
Alignment explanation
Indices: 6914767--6914821 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
6914757 TTTTTATGTG
*
6914767 TTATTTTATCTTTG
1 TTATTTTATCTTTA
6914781 TTA-TTTATCTTTA
1 TTATTTTATCTTTA
*
6914794 TTTTCTTTAT-TTTA
1 TTAT-TTTATCTTTA
6914808 TTATTTTAT-TTTA
1 TTATTTTATCTTTA
6914821 T
1 T
6914822 AGTCAAAGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 21 0.58
14 10 0.28
15 5 0.14
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (14 bp):
TTATTTTATCTTTA
Found at i:6940756 original size:25 final size:25
Alignment explanation
Indices: 6940717--6940782 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
6940707 GTATATTAAA
* *
6940717 AAAATT-TAAAATTTTTGT-AGGGC
1 AAAATTATAAAATTTTTGTAAAGAC
6940740 AAAATTATAAAATTTTTGTAAAGAC
1 AAAATTATAAAATTTTTGTAAAGAC
6940765 AAAATTATAAAAGTTTTT
1 AAAATTATAAAA-TTTTT
6940783 AAAAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 6 0.16
24 12 0.32
25 15 0.39
26 5 0.13
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (25 bp):
AAAATTATAAAATTTTTGTAAAGAC
Found at i:6940793 original size:25 final size:25
Alignment explanation
Indices: 6940739--6940793 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
6940729 TTTTGTAGGG
* *
6940739 CAAAATTATAAAATTTTTGTAAAGA
1 CAAAATTATAAAATTTTTGAAAAAA
6940764 CAAAATTATAAAAGTTTTT-AAAAAA
1 CAAAATTATAAAA-TTTTTGAAAAAA
*
6940789 TAAAA
1 CAAAA
6940794 ACAAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (25 bp):
CAAAATTATAAAATTTTTGAAAAAA
Found at i:6940794 original size:26 final size:25
Alignment explanation
Indices: 6940740--6940815 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 25
6940730 TTTGTAGGGC
* * *
6940740 AAAATTATAAAATTTTTGTAAAGAC
1 AAAATTATAAAATTTTTGAAAAAAA
*
6940765 AAAATTATAAAAGTTTTTAAAAAATAAAA
1 AAAATTATAAAA-TTTTT--GAAA-AAAA
6940794 ACAAATTATAAAATTTTT-AAAA
1 A-AAATTATAAAATTTTTGAAAA
6940816 TCGTTGGAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
25 13 0.31
26 8 0.19
28 2 0.05
29 8 0.19
30 11 0.26
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (25 bp):
AAAATTATAAAATTTTTGAAAAAAA
Found at i:6940926 original size:23 final size:23
Alignment explanation
Indices: 6940900--6940947 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
6940890 CATACTCAAC
6940900 CAGGAGCCCACAATCACGTCATT
1 CAGGAGCCCACAATCACGTCATT
6940923 CAGGAGCCCACAATCACGTCATT
1 CAGGAGCCCACAATCACGTCATT
6940946 CA
1 CA
6940948 CACAATGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.35, G:0.17, T:0.17
Consensus pattern (23 bp):
CAGGAGCCCACAATCACGTCATT
Found at i:6943807 original size:21 final size:21
Alignment explanation
Indices: 6943783--6943822 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6943773 AATTGTTGTT
*
6943783 AAAAAAATAATAATAATAACG
1 AAAAAAAAAATAATAATAACG
6943804 AAAAAAAAAATAATAATAA
1 AAAAAAAAAATAATAATAA
6943823 ATATGTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (21 bp):
AAAAAAAAAATAATAATAACG
Found at i:6945692 original size:13 final size:13
Alignment explanation
Indices: 6945674--6945698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6945664 ATTTTCAAAA
6945674 ATTTTATAAAATT
1 ATTTTATAAAATT
6945687 ATTTTATAAAAT
1 ATTTTATAAAAT
6945699 CTCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:6947813 original size:3 final size:3
Alignment explanation
Indices: 6947805--6947845 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6947795 TGCTTAGTCT
6947805 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6947846 TGGTTTCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6968093 original size:29 final size:28
Alignment explanation
Indices: 6968044--6968147 Score: 97
Period size: 29 Copynumber: 3.7 Consensus size: 28
6968034 TGCACATTTT
*
6968044 GAACTTTATTAGGTGCGTTAGTACCTTTA
1 GAACTTTGTTAGGTGC-TTAGTACCTTTA
* * * *
6968073 AAACTTTGTTAGGTGTCTTAGCACCTATG
1 GAACTTTGTTAGGTG-CTTAGTACCTTTA
* *
6968102 GAACTTTGTAAGGTGC---GTACCTTTT
1 GAACTTTGTTAGGTGCTTAGTACCTTTA
6968127 GAACTTTGTTAGGTGCCTTAG
1 GAACTTTGTTAGGTG-CTTAG
6968148 CACTGTTTGA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
25 20 0.34
26 1 0.02
28 1 0.02
29 36 0.61
30 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.39
Consensus pattern (28 bp):
GAACTTTGTTAGGTGCTTAGTACCTTTA
Found at i:6969973 original size:11 final size:12
Alignment explanation
Indices: 6969951--6969976 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6969941 AAACAAACAT
6969951 AAAAAGGAAAAA
1 AAAAAGGAAAAA
6969963 AAAAAGGAAAAA
1 AAAAAGGAAAAA
6969975 AA
1 AA
6969977 GGGAAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAGGAAAAA
Found at i:6971291 original size:2 final size:2
Alignment explanation
Indices: 6971284--6971316 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6971274 TTTACTGTTG
6971284 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6971317 GTAAAGTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6973965 original size:24 final size:25
Alignment explanation
Indices: 6973937--6973987 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
6973927 AATCTTAGGC
6973937 TTATT-TGA-TTTGATATTTTTTTAG
1 TTATTATGATTTTGAT-TTTTTTTAG
*
6973961 TTATTATTATTTTGATTTTTTTTAG
1 TTATTATGATTTTGATTTTTTTTAG
6973986 TT
1 TT
6973988 TAAATTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 13 0.54
26 6 0.25
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (25 bp):
TTATTATGATTTTGATTTTTTTTAG
Found at i:6983339 original size:44 final size:44
Alignment explanation
Indices: 6983291--6983379 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
6983281 AGGGTACATG
** *
6983291 AAACAAAATTTTCGGAACTTAGGACAATATTTGAAGCATTTATC
1 AAACAAAATTTTCAAAACATAGGACAATATTTGAAGCATTTATC
*
6983335 AAACAAACTTTTCAAAACATAGGACAATATTTGAAGCATTTATC
1 AAACAAAATTTTCAAAACATAGGACAATATTTGAAGCATTTATC
6983379 A
1 A
6983380 TCTTTGAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (44 bp):
AAACAAAATTTTCAAAACATAGGACAATATTTGAAGCATTTATC
Found at i:6991919 original size:15 final size:15
Alignment explanation
Indices: 6991899--6991930 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6991889 GGTGGCAAGT
6991899 TTAGATTTGATAGTG
1 TTAGATTTGATAGTG
6991914 TTAGATTTGATAGTG
1 TTAGATTTGATAGTG
6991929 TT
1 TT
6991931 CAGTGCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (15 bp):
TTAGATTTGATAGTG
Found at i:6992782 original size:27 final size:27
Alignment explanation
Indices: 6992714--6992782 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
6992704 TAGAGAGTTG
6992714 TTCAAGGTGTTGG-AA-AGTAAGTGGA
1 TTCAAGGTGTTGGAAAGAGTAAGTGGA
* * *
6992739 TT-TATGTCGGTT-TAAAGAGTAAGTGGA
1 TTCAAGGT--GTTGGAAAGAGTAAGTGGA
6992766 TTCAAGGTGTTGGAAAG
1 TTCAAGGTGTTGGAAAG
6992783 TAAGGTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
24 3 0.09
25 2 0.06
26 8 0.25
27 16 0.50
28 3 0.09
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.32
Consensus pattern (27 bp):
TTCAAGGTGTTGGAAAGAGTAAGTGGA
Found at i:7002552 original size:25 final size:24
Alignment explanation
Indices: 7002499--7002574 Score: 102
Period size: 23 Copynumber: 3.2 Consensus size: 24
7002489 AATTTAATTG
*
7002499 AATTTTTTT-GATGTTATGTTTTT
1 AATTTTTTTAGATATTATGTTTTT
7002522 AA-TTTTTTAGATATTATGTTTTT
1 AATTTTTTTAGATATTATGTTTTT
* *
7002545 AATTTTTTTATATATTGATGTTATT
1 AATTTTTTTAGATATT-ATGTTTTT
7002570 AATTT
1 AATTT
7002575 GATTGTGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
22 6 0.13
23 17 0.36
24 12 0.26
25 12 0.26
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (24 bp):
AATTTTTTTAGATATTATGTTTTT
Found at i:7003460 original size:27 final size:29
Alignment explanation
Indices: 7003429--7003509 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 29
7003419 ATATCTTACC
7003429 CACTAAAAGTGGATAAATAATTTT-T-CT
1 CACTAAAAGTGGATAAATAATTTTCTACT
*
7003456 CACTAGAAA-TGGATGAA-AATTTCTCTAACT
1 CACTA-AAAGTGGATAAATAATTT-TCT-ACT
* * *
7003486 CACCAAAAGTTGATAAATAGTTTT
1 CACTAAAAGTGGATAAATAATTTT
7003510 AACCCACCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
26 5 0.12
27 13 0.31
28 4 0.10
29 3 0.07
30 13 0.31
31 4 0.10
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (29 bp):
CACTAAAAGTGGATAAATAATTTTCTACT
Found at i:7003557 original size:28 final size:28
Alignment explanation
Indices: 7003502--7003558 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
7003492 AAGTTGATAA
*
7003502 ATAGTTTTAACCCACCAAGGGATGGATG
1 ATAGTTTTAACCCACCAAGGGATAGATG
* *
7003530 ATAGTTTTAACCTACTAA-GGAGTAGATG
1 ATAGTTTTAACCCACCAAGGGA-TAGATG
7003558 A
1 A
7003559 ATACTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (28 bp):
ATAGTTTTAACCCACCAAGGGATAGATG
Found at i:7008312 original size:6 final size:6
Alignment explanation
Indices: 7008294--7008367 Score: 55
Period size: 6 Copynumber: 12.8 Consensus size: 6
7008284 TCTCTTACAA
* * * * * * *
7008294 CAACAG CAGCAG CAACAG CAGCAG CAACAT CAGCAG CATCAT CAACAT
1 CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG CAACAG
*
7008342 C-A-A- CAACAG CAACAT CAACAG CAACA
1 CAACAG CAACAG CAACAG CAACAG CAACA
7008368 ATTTCTTCTC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 2 0.04
6 48 0.91
ACGTcount: A:0.46, C:0.34, G:0.14, T:0.07
Consensus pattern (6 bp):
CAACAG
Found at i:7008336 original size:12 final size:12
Alignment explanation
Indices: 7008294--7008367 Score: 73
Period size: 12 Copynumber: 6.4 Consensus size: 12
7008284 TCTCTTACAA
*
7008294 CAACAGCAGCAG
1 CAACATCAGCAG
*
7008306 CAACAGCAGCAG
1 CAACATCAGCAG
7008318 CAACATCAGCAG
1 CAACATCAGCAG
* * *
7008330 CATCATCAACAT
1 CAACATCAGCAG
7008342 CAACA--A-CAG
1 CAACATCAGCAG
*
7008351 CAACATCAACAG
1 CAACATCAGCAG
7008363 CAACA
1 CAACA
7008368 ATTTCTTCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
9 7 0.13
10 1 0.02
11 1 0.02
12 44 0.83
ACGTcount: A:0.46, C:0.34, G:0.14, T:0.07
Consensus pattern (12 bp):
CAACATCAGCAG
Found at i:7008357 original size:21 final size:21
Alignment explanation
Indices: 7008303--7008368 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
7008293 ACAACAGCAG
* *
7008303 CAGCAACAGCAGCAGCAACATCA
1 CAGCAACATCAACAGCAACA--A
* *
7008326 GCAGCATCATCAACATCAACAA
1 -CAGCAACATCAACAGCAACAA
7008348 CAGCAACATCAACAGCAACAA
1 CAGCAACATCAACAGCAACAA
7008369 TTTCTTCTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 19 0.53
22 1 0.03
24 16 0.44
ACGTcount: A:0.47, C:0.33, G:0.12, T:0.08
Consensus pattern (21 bp):
CAGCAACATCAACAGCAACAA
Found at i:7008423 original size:18 final size:18
Alignment explanation
Indices: 7008402--7008436 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7008392 AAAACAAGCC
*
7008402 CAACAACAGCAGCAGCAG
1 CAACAACAGCAACAGCAG
7008420 CAACAACAGCAACAGCA
1 CAACAACAGCAACAGCA
7008437 ACAAGCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.34, G:0.17, T:0.00
Consensus pattern (18 bp):
CAACAACAGCAACAGCAG
Found at i:7008429 original size:15 final size:15
Alignment explanation
Indices: 7008405--7008440 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7008395 ACAAGCCCAA
* *
7008405 CAACAGCAGCAGCAG
1 CAACAACAGCAACAG
7008420 CAACAACAGCAACAG
1 CAACAACAGCAACAG
7008435 CAACAA
1 CAACAA
7008441 GCAATTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.33, G:0.17, T:0.00
Consensus pattern (15 bp):
CAACAACAGCAACAG
Found at i:7008590 original size:6 final size:6
Alignment explanation
Indices: 7008579--7008658 Score: 70
Period size: 6 Copynumber: 12.3 Consensus size: 6
7008569 TAATTTACAA
* *
7008579 CAACAG CAACAG CAGCAGCAG CCACAA CAACAG CAACAG CCACAGCAG
1 CAACAG CAACAG CA--A-CAG CAACAG CAACAG CAACAG -CA-A-CAG
* *
7008627 CAACAA CAGCAG CAACAG CAACAG CAACAG CA
1 CAACAG CAACAG CAACAG CAACAG CAACAG CA
7008659 GAAGCAGATC
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
6 45 0.75
7 4 0.07
8 4 0.07
9 7 0.12
ACGTcount: A:0.46, C:0.36, G:0.17, T:0.00
Consensus pattern (6 bp):
CAACAG
Found at i:7008613 original size:27 final size:26
Alignment explanation
Indices: 7008575--7008655 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
7008565 CTCCTAATTT
*
7008575 ACAACAACAGCAACAGCAGCAGCAGCC
1 ACAACAACAGCAACAGCA-CAGCAGCA
7008602 ACAACAACAGCAACAGCCACAGCAGCA
1 ACAACAACAGCAACAG-CACAGCAGCA
*
7008629 ACAACAGCAGCAACAGCA-A-CAGCA
1 ACAACAACAGCAACAGCACAGCAGCA
7008653 ACA
1 ACA
7008656 GCAGAAGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
24 8 0.16
25 1 0.02
26 2 0.04
27 38 0.75
28 2 0.04
ACGTcount: A:0.48, C:0.36, G:0.16, T:0.00
Consensus pattern (26 bp):
ACAACAACAGCAACAGCACAGCAGCA
Found at i:7019383 original size:5 final size:5
Alignment explanation
Indices: 7019373--7019402 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
7019363 ATACAAGCAT
7019373 TTGAA TTGAA TTGAA TTGAA TTGAA -TGAA T
1 TTGAA TTGAA TTGAA TTGAA TTGAA TTGAA T
7019403 CATCAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TTGAA
Found at i:7034124 original size:19 final size:19
Alignment explanation
Indices: 7034097--7034143 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
7034087 AACCAAAGAG
*
7034097 ATAAGATAAAATTTT-TAGA
1 ATAAAATAAAATTTTAT-GA
* *
7034116 ATAAAATAATATTTTATTA
1 ATAAAATAAAATTTTATGA
7034135 ATAAAATAA
1 ATAAAATAA
7034144 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAAAATAAAATTTTATGA
Found at i:7045041 original size:19 final size:19
Alignment explanation
Indices: 7045017--7045054 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7045007 TTGCCAAACC
* *
7045017 CTCAAATTATACTCCAATA
1 CTCAAATCATAATCCAATA
7045036 CTCAAATCATAATCCAATA
1 CTCAAATCATAATCCAATA
7045055 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATAATCCAATA
Found at i:7047321 original size:10 final size:10
Alignment explanation
Indices: 7047293--7047331 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
7047283 CCTCACCAAA
7047293 CATCAAATAT
1 CATCAAATAT
*
7047303 CACCAAAATAT
1 CATC-AAATAT
*
7047314 CATGAAATAT
1 CATCAAATAT
7047324 CATCAAAT
1 CATCAAAT
7047332 TCAGCCACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.26
Consensus pattern (10 bp):
CATCAAATAT
Found at i:7054328 original size:13 final size:13
Alignment explanation
Indices: 7054310--7054334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7054300 TTTCAGAAAA
7054310 TTTATAAAATCAT
1 TTTATAAAATCAT
7054323 TTTATAAAATCA
1 TTTATAAAATCA
7054335 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:7055600 original size:19 final size:19
Alignment explanation
Indices: 7055576--7055612 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
7055566 CTTCTAAACT
7055576 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
7055595 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
7055613 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:7060084 original size:19 final size:19
Alignment explanation
Indices: 7060060--7060097 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7060050 CTGCCAAACC
*
7060060 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
*
7060079 CTCAAATCATGCTCCAATA
1 CTCAAATCATACTCCAATA
7060098 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:7065868 original size:2 final size:2
Alignment explanation
Indices: 7065861--7065907 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
7065851 NNNNACTTAG
7065861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7065903 AT AT A
1 AT AT A
7065908 AAATCAAATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7069578 original size:19 final size:19
Alignment explanation
Indices: 7069550--7069627 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
7069540 TACATTTCAT
*
7069550 CAACCTTATAAAATAATTA
1 CAACCATATAAAATAATTA
7069569 CAACCATATAAAATAATTCA
1 CAACCATATAAAATAATT-A
* * *
7069589 TAACC-T-TAAAACTCATTT
1 CAACCATATAAAA-TAATTA
7069607 CAACCATATAAAATAATTA
1 CAACCATATAAAATAATTA
7069626 CA
1 CA
7069628 TTTCATCAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
18 9 0.19
19 29 0.60
20 10 0.21
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.29
Consensus pattern (19 bp):
CAACCATATAAAATAATTA
Found at i:7069613 original size:38 final size:40
Alignment explanation
Indices: 7069545--7069624 Score: 119
Period size: 38 Copynumber: 2.0 Consensus size: 40
7069535 ATAATTACAT
7069545 TTCATCAACCTTATAAAATAATTACAACCATATAAAATAA
1 TTCATCAACCTTATAAAATAATTACAACCATATAAAATAA
* * *
7069585 TTCAT-AACCTTA-AAACTCATTTCAACCATATAAAATAA
1 TTCATCAACCTTATAAAATAATTACAACCATATAAAATAA
7069623 TT
1 TT
7069625 ACATTTCATC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 25 0.68
39 7 0.19
40 5 0.14
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (40 bp):
TTCATCAACCTTATAAAATAATTACAACCATATAAAATAA
Found at i:7070831 original size:20 final size:20
Alignment explanation
Indices: 7070806--7070851 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7070796 ATTTGTCCCC
7070806 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
7070826 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
7070846 ATTTGA
1 ATTTGA
7070852 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:7078053 original size:24 final size:23
Alignment explanation
Indices: 7077997--7078142 Score: 229
Period size: 24 Copynumber: 6.2 Consensus size: 23
7077987 GTGCTGCCAA
7077997 TTTGTGCAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
*
7078020 TTTGTACAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
7078043 TTTGCTGCAGAAAAATTGGAGCTG
1 TTTG-TGCAGAAAAATTGGAGCTG
*
7078067 TTTGTGCAGAAAAAATTGGAGTTG
1 TTTGTGCAG-AAAAATTGGAGCTG
* *
7078091 TTTGCTGCAGAAAAATTAGAGCTA
1 TTTG-TGCAGAAAAATTGGAGCTG
7078115 TTTGTGCAGAAAAATTGGAGCTG
1 TTTGTGCAGAAAAATTGGAGCTG
7078138 TTTGT
1 TTTGT
7078143 TGCCAATTTG
Statistics
Matches: 112, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 53 0.47
24 54 0.48
25 5 0.04
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (23 bp):
TTTGTGCAGAAAAATTGGAGCTG
Found at i:7078070 original size:47 final size:47
Alignment explanation
Indices: 7077997--7078141 Score: 238
Period size: 47 Copynumber: 3.1 Consensus size: 47
7077987 GTGCTGCCAA
*
7077997 TTTG-TGCAGAAAAATTGGAGCTGTTTGTACAGAAAAATTGGAGCTG
1 TTTGCTGCAGAAAAATTGGAGCTGTTTGTGCAGAAAAATTGGAGCTG
*
7078043 TTTGCTGCAGAAAAATTGGAGCTGTTTGTGCAGAAAAAATTGGAGTTG
1 TTTGCTGCAGAAAAATTGGAGCTGTTTGTGCAG-AAAAATTGGAGCTG
* *
7078091 TTTGCTGCAGAAAAATTAGAGCTATTTGTGCAGAAAAATTGGAGCTG
1 TTTGCTGCAGAAAAATTGGAGCTGTTTGTGCAGAAAAATTGGAGCTG
7078138 TTTG
1 TTTG
7078142 TTGCCAATTT
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
46 4 0.04
47 44 0.48
48 44 0.48
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (47 bp):
TTTGCTGCAGAAAAATTGGAGCTGTTTGTGCAGAAAAATTGGAGCTG
Found at i:7083481 original size:28 final size:28
Alignment explanation
Indices: 7083448--7083538 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 28
7083438 CATTCCCAAT
*
7083448 GGTTAAAAATATCCATCCACTCTTGGTG
1 GGTTAAAAATATACATCCACTCTTGGTG
* *
7083476 GGTTAAAAGTATATATCCACT-TGTGGTG
1 GGTTAAAAATATACATCCACTCT-TGGTG
* * * **
7083504 GATT-AAAATATTCATCCACTCCTATTG
1 GGTTAAAAATATACATCCACTCTTGGTG
7083531 GGTTAAAA
1 GGTTAAAA
7083539 TATTCATTTA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
27 20 0.41
28 29 0.59
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (28 bp):
GGTTAAAAATATACATCCACTCTTGGTG
Found at i:7083542 original size:27 final size:27
Alignment explanation
Indices: 7083430--7083545 Score: 92
Period size: 27 Copynumber: 4.3 Consensus size: 27
7083420 ATCTCTTCAC
* * *
7083430 TATTCATCCATTCCCAAT-GGTTAAAAA
1 TATTCATCCACTCCTAGTGGGTT-AAAA
* * *
7083457 TATCCATCCACTCTTGGTGGGTTAAAA
1 TATTCATCCACTCCTAGTGGGTTAAAA
** * *
7083484 GTATAT-ATCCACTTGTGGTGGATTAAAA
1 -TAT-TCATCCACTCCTAGTGGGTTAAAA
*
7083512 TATTCATCCACTCCTATTGGGTTAAAA
1 TATTCATCCACTCCTAGTGGGTTAAAA
7083539 TATTCAT
1 TATTCAT
7083546 TTACTTATGG
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.01
27 43 0.61
28 26 0.37
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (27 bp):
TATTCATCCACTCCTAGTGGGTTAAAA
Found at i:7083579 original size:28 final size:27
Alignment explanation
Indices: 7083448--7083579 Score: 110
Period size: 27 Copynumber: 4.8 Consensus size: 27
7083438 CATTCCCAAT
*
7083448 GGTTAAAAATATCCATCCACTCT-TGGTG
1 GGTT-AAAATATTCATCCACT-TATGGTG
*
7083476 GGTTAAAAGTATAT-ATCCACTTGTGGTG
1 GGTTAAAA-TAT-TCATCCACTTATGGTG
*
7083504 GATTAAAATATTCATCCACTCCTAT--TG
1 GGTTAAAATATTCATCCACT--TATGGTG
** *
7083531 GGTTAAAATATTCATTTACTTATGGTA
1 GGTTAAAATATTCATCCACTTATGGTG
*
7083558 GGTTAAACGTATTCATCCACTT
1 GGTTAAA-ATATTCATCCACTT
7083580 CTGAGAATAG
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
25 3 0.04
26 1 0.01
27 42 0.49
28 37 0.44
29 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (27 bp):
GGTTAAAATATTCATCCACTTATGGTG
Found at i:7087427 original size:28 final size:27
Alignment explanation
Indices: 7087388--7087441 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
7087378 GTGTCCTGGT
***
7087388 GGTGGAAAATTATTGTTTTGCCCCTAG
1 GGTGGAAAATTACCATTTTGCCCCTAG
7087415 GGTGGCAAAATTACCATTTTGCCCCTA
1 GGTGG-AAAATTACCATTTTGCCCCTA
7087442 TGCTCCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACCATTTTGCCCCTAG
Found at i:7088467 original size:43 final size:42
Alignment explanation
Indices: 7088420--7088542 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 42
7088410 GATAGGATAA
7088420 ATTTAAATTTAATTTGTTTAAATTTAAATTATCTATCCATTGT
1 ATTTAAATTTAATTTGTTTAAATTTAAATTATCTATCCATT-T
* * **
7088463 ATTTAAATTTAATTTCTTTAAATTTAAATAAGGAT-TATTTATTT
1 ATTTAAATTTAATTTGTTTAAATTTAAAT---TATCTATCCATTT
*
7088507 -TTTAAATTTAATTTGTTT-AATTTAAAATATCCTATC
1 ATTTAAATTTAATTTGTTTAAATTTAAATTAT-CTATC
7088543 TCTATATCCC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
39 2 0.03
41 3 0.04
42 8 0.12
43 45 0.67
44 1 0.01
45 6 0.09
46 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (42 bp):
ATTTAAATTTAATTTGTTTAAATTTAAATTATCTATCCATTT
Found at i:7090545 original size:20 final size:19
Alignment explanation
Indices: 7090520--7090570 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
7090510 TTTCAAATAT
*
7090520 ATATATTGTTTTACATTAAA
1 ATATATTATTTTA-ATTAAA
*
7090540 ATATATTATTTTAATTAAT
1 ATATATTATTTTAATTAAA
*
7090559 AT-TTTTATTTTA
1 ATATATTATTTTA
7090571 TTTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 9 0.32
19 7 0.25
20 12 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
ATATATTATTTTAATTAAA
Found at i:7091940 original size:67 final size:66
Alignment explanation
Indices: 7091845--7092014 Score: 252
Period size: 67 Copynumber: 2.5 Consensus size: 66
7091835 TAGCCAAAAC
*
7091845 CTTTCACAATGGTTTTT-ACCAGGATCAACTAAAACCCAAAGTGGTTTTTCAAAGGCTTAACCAC
1 CTTTCACAATGGTTTTTCA-CAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTTAACCAC
7091909 AA
65 AA
* * *
7091911 CTTTTCACAATGGTTTTTCACAAGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCAC
1 C-TTTCACAATGGTTTTTCACAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTTAACCAC
7091976 AA
65 AA
* *
7091978 CCTACAACAATGGTTTTTCACAGGATCAACCAAAACC
1 CTTTC-ACAATGGTTTTTCACAGGATCAACCAAAACC
7092015 TAACGACTAA
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
66 3 0.03
67 89 0.96
68 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (66 bp):
CTTTCACAATGGTTTTTCACAGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTTAACCACA
A
Found at i:7092016 original size:35 final size:34
Alignment explanation
Indices: 7091850--7092015 Score: 146
Period size: 35 Copynumber: 4.9 Consensus size: 34
7091840 AAAACCTTTC
* *
7091850 ACAATGGTTTTT-ACCAGGATCAACTAAAACC-CA
1 ACAATGGTTTTTCA-CAGGCTCAACCAAAACCTCA
* * * * *
7091883 A-AGTGGTTTTTCAAAGGCTTAACCACAACTTTTC-
1 ACAATGGTTTTTCACAGGCTCAACCAAAAC--CTCA
*
7091917 ACAATGGTTTTTCACAAGCTCAACCAAAACC-CA
1 ACAATGGTTTTTCACAGGCTCAACCAAAACCTCA
* * *
7091950 A-AGTGGTTTTTCAAAGGCTCAACCACAACCTACA
1 ACAATGGTTTTTCACAGGCTCAACCAAAACCT-CA
*
7091984 ACAATGGTTTTTCACAGGATCAACCAAAACCT
1 ACAATGGTTTTTCACAGGCTCAACCAAAACCT
7092016 AACGACTAAC
Statistics
Matches: 103, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
32 46 0.45
33 3 0.03
34 4 0.04
35 50 0.49
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (34 bp):
ACAATGGTTTTTCACAGGCTCAACCAAAACCTCA
Found at i:7092906 original size:17 final size:17
Alignment explanation
Indices: 7092884--7092918 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7092874 GGAGGTTTTC
*
7092884 CTCCCCCTAAGTGTGTG
1 CTCCCCCTAACTGTGTG
*
7092901 CTCCCCCTTACTGTGTG
1 CTCCCCCTAACTGTGTG
7092918 C
1 C
7092919 ATAGTTTTAT
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:0.09, C:0.40, G:0.20, T:0.31
Consensus pattern (17 bp):
CTCCCCCTAACTGTGTG
Found at i:7093580 original size:17 final size:17
Alignment explanation
Indices: 7093536--7093581 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
7093526 TTTAATTTAT
* *
7093536 TTTCCTTTTCCCTTAGC
1 TTTCCATTTCTCTTAGC
* *
7093553 TTTCTACTTCTCTTAGC
1 TTTCCATTTCTCTTAGC
7093570 TTTCCATTTCTC
1 TTTCCATTTCTC
7093582 CCCCTTTTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.09, C:0.33, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTCCATTTCTCTTAGC
Found at i:7096235 original size:178 final size:175
Alignment explanation
Indices: 7095933--7096631 Score: 689
Period size: 171 Copynumber: 4.0 Consensus size: 175
7095923 NNNNNNNNNG
* * *
7095933 AGTAATAAGGCTTTCGAAGGCAT-AGTGACTATAAATGCACTTTTCTTCTCAATGGATGGCTTTT
1 AGTAATAAGGCTTTCGAAGGCATGAATGACTATAAATGGACTTTTCTTCTCAATGGATGGCTTTC
* * ** * *
7095997 GCTTTATGTTTC----CCGAAACAAACATTTAATTATAATCT-TTCTTAACCGAAAATGTAAAAA
66 GCTTCACGTTTCGTTTCCGAGGCAAACATTCAATTATAATCTGTT-TTAACCAAAAATGTAAAAA
* * *
7096057 AATTCAACCTAAAATCAATTATCAGATTATAAAACCATTTGAAGCA
130 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
* * * * *
7096103 CGTAATAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTCCCAATCGATAGCTTTC
1 AGTAATAAGGCTTTCGAAGGCATGAATGACTATAAATGGACTTTTCTTCTCAATGGATGGCTTTC
* * *
7096168 GCTTCACGTTTCTTGTTTCTTGAGGCAAATATTCAATTATAATCTGTTTTAACCCAAAATGTAAA
66 GCTTCACGTTTC--GTTTC-CGAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAATGTAAA
* * * * *
7096233 AAAATTCAACTTAAAATTAATTATGAGATTAAAAAACTATTTAAATCG
128 AAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
* * * *
7096281 AGTAGTAA-GCATGTCGAAGGCATGAATGACTATAAATGAACTTTT-TCTCTCAATGGATGACTT
1 AGTAATAAGGC-TTTCGAAGGCATGAATGACTATAAATGGACTTTTCT-TCTCAATGGATGGCTT
* * * * * * *
7096344 TCGCTTAACATTTC----CCGAGGTAAA-AATCTAACTATCATCTGTTTTAACCAAAAAGGTAAA
64 TCGCTTCACGTTTCGTTTCCGAGGCAAACATTC-AATTATAATCTGTTTTAACCAAAAATGT-AA
* * * *
7096404 AAAAAATCAACTTAAAATAAATTATGAGATTATAAAGCCATTTAAAGTGA
127 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAG-CA
* * * * * *
7096454 AG-AATAACGTTTTCGAAGGTATGAATGACTATAAATGGACTTTTCTTGTCAATTGCTGGCTTTC
1 AGTAATAAGGCTTTCGAAGGCATGAATGACTATAAATGGACTTTTCTTCTCAATGGATGGCTTTC
* * * * *
7096518 AC-TCACG---CCTTT-CAAGGCAAACATTCAATTATAATCTATTTTAACCAAAAAATGTAAGAA
66 GCTTCACGTTTCGTTTCCGAGGCAAACATTCAATTATAATCTGTTTTAACC-AAAAATGTAAAAA
* * *
7096578 AATTCAACTTAAAATCAATAATGAGATTAGAAAACTATTTAAAGCA
130 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
7096624 AGTAATAA
1 AGTAATAA
7096632 TGTCATGACC
Statistics
Matches: 431, Mismatches: 75, Indels: 45
0.78 0.14 0.08
Matches are distributed among these distances:
168 1 0.00
170 28 0.06
171 151 0.35
172 104 0.24
173 4 0.01
177 4 0.01
178 137 0.32
179 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (175 bp):
AGTAATAAGGCTTTCGAAGGCATGAATGACTATAAATGGACTTTTCTTCTCAATGGATGGCTTTC
GCTTCACGTTTCGTTTCCGAGGCAAACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAA
ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCA
Done.