Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 192 of 433
Found at i:60392972 original size:80 final size:80
Alignment explanation
Indices: 60392794--60392973 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 80
60392784 TTCGAATGAT
* *
60392794 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
60392859 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
60392874 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
60392935 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
60392955 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
60392974 CATTTGAATG
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
79 2 0.02
80 75 0.89
81 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:60400940 original size:40 final size:40
Alignment explanation
Indices: 60400861--60401018 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
60400851 TTCGAATGAT
* * * *
60400861 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
60400901 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
60400941 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
60400981 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
60401019 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:60401039 original size:80 final size:80
Alignment explanation
Indices: 60400861--60401048 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
60400851 TTCGAATGAT
* *
60400861 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
60400926 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
60400941 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
60401002 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
60401022 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
60401049 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:60405975 original size:39 final size:40
Alignment explanation
Indices: 60405876--60406050 Score: 259
Period size: 40 Copynumber: 4.4 Consensus size: 40
60405866 AAACCAAGTA
* * *
60405876 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
60405915 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
60405955 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
60405994 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
60406034 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
60406051 CGTTATCATC
Statistics
Matches: 125, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 51 0.41
40 74 0.59
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60406007 original size:79 final size:80
Alignment explanation
Indices: 60405876--60406050 Score: 259
Period size: 79 Copynumber: 2.2 Consensus size: 80
60405866 AAACCAAGTA
* * *
60405876 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATA
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
**
60405939 GTAGTTCGCACAAATG
65 GTAACTCGCACAAATG
60405955 CCTTC-GGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
60406018 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
60406034 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
60406051 CGTTATCATC
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
78 7 0.08
79 67 0.77
80 13 0.15
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATG
Found at i:60407911 original size:31 final size:31
Alignment explanation
Indices: 60407841--60407912 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
60407831 TTGGAGGATT
*
60407841 ACACGCCCATGTGGGTGGGCCGTGTAGTTCC
1 ACACGCCCGTGTGGGTGGGCCGTGTAGTTCC
*
60407872 ACACGCCCGTGTGGGTGGGCCGTGTGGTTCC
1 ACACGCCCGTGTGGGTGGGCCGTGTAGTTCC
*
60407903 ACATGCCCGT
1 ACACGCCCGT
60407913 ATCCTCAGCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.11, C:0.31, G:0.36, T:0.22
Consensus pattern (31 bp):
ACACGCCCGTGTGGGTGGGCCGTGTAGTTCC
Found at i:60409060 original size:42 final size:42
Alignment explanation
Indices: 60409014--60409166 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 42
60409004 AATCATACCA
* *
60409014 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
* * * * *
60409056 ATGCCAATAACCCAGCA-ATGGTCTTACACGA-TTTTCATATAG
1 ATGCC-ATATCCCAG-ATATGGTCTTACATGAGATCTCATATCG
* * * *
60409098 ATGCCATGTCCCAGACATGGTCTTACATGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
*
60409140 ATGTCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
60409167 CTTAAACTCA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
40 1 0.01
41 20 0.22
42 49 0.54
43 19 0.21
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
Found at i:60409178 original size:84 final size:84
Alignment explanation
Indices: 60409014--60409178 Score: 190
Period size: 84 Copynumber: 2.0 Consensus size: 84
60409004 AATCATACCA
* * ** *
60409014 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCGATGCCAATAACCCAGCAATGGTC
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATAACGATGCCAATAACCCAGCAATGGTC
***
60409079 TTACACGATTTTCATATAG
66 TTACACGAAACTCATATAG
* * *
60409098 ATGCCATGTCCCAGACATGGTCTTACATGAAATCTCATAACGATGTC-ATATCCCAG-ATATGGT
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATAACGATGCCAATAACCCAGCA-ATGGT
*
60409161 CTTACACTTAAACTCATA
65 CTTACAC-GAAACTCATA
60409179 ACCCTAATGT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
82 1 0.01
83 20 0.30
84 46 0.69
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATAACGATGCCAATAACCCAGCAATGGTC
TTACACGAAACTCATATAG
Found at i:60411578 original size:2 final size:2
Alignment explanation
Indices: 60411571--60411603 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60411561 GTATAAAAAC
60411571 AT AT AT 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 A
60411604 CACACTAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60412741 original size:2 final size:2
Alignment explanation
Indices: 60412734--60412817 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
60412724 TTTATGGTTT
60412734 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
60412776 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
60412818 AATACATAGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:60418422 original size:38 final size:41
Alignment explanation
Indices: 60418371--60418454 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 41
60418361 AATAACTCTT
** *
60418371 AATTTAAAGAAAATAAATGTAATTATCTAAAAAAGA-TTTC
1 AATTTAAAGAAAATAAACATAATTATCTAAAAAAAAGTTTC
60418411 AATTT-AA-AAAATAAACATAATTATCTAAAAAAAAGTTTC
1 AATTTAAAGAAAATAAACATAATTATCTAAAAAAAAGTTTC
60418450 AATTT
1 AATTT
60418455 TTTAAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 24 0.60
39 11 0.28
40 5 0.12
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (41 bp):
AATTTAAAGAAAATAAACATAATTATCTAAAAAAAAGTTTC
Found at i:60433470 original size:25 final size:25
Alignment explanation
Indices: 60433418--60433471 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
60433408 ATGCTCATAT
* *
60433418 GAGCTGTGAATCAGTATGCTCACTC
1 GAGCTGTGAATCAGTATACTCACAC
*
60433443 GAGCTGT-AGATCAGTATACTCTCAC
1 GAGCTGTGA-ATCAGTATACTCACAC
60433468 GAGC
1 GAGC
60433472 AATAAATCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
GAGCTGTGAATCAGTATACTCACAC
Found at i:60435413 original size:39 final size:39
Alignment explanation
Indices: 60435359--60435519 Score: 259
Period size: 39 Copynumber: 4.1 Consensus size: 39
60435349 TGTGTATGAA
*
60435359 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
60435398 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
60435437 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
60435476 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
60435516 TGTG
1 TGTG
60435520 TAGGTTACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.87
40 15 0.13
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:60443598 original size:39 final size:39
Alignment explanation
Indices: 60443468--60443628 Score: 254
Period size: 38 Copynumber: 4.2 Consensus size: 39
60443458 TGTGTATGAA
*
60443468 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
60443507 TGTGCGA-TTGTGATATCCGGGCTAAGCCCGAAGGCAA-
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
60443544 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
60443583 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
60443623 TGTGCG
1 TGTGCG
60443629 GGTTACCATA
Statistics
Matches: 113, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
37 7 0.06
38 58 0.51
39 31 0.27
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:60443644 original size:40 final size:40
Alignment explanation
Indices: 60443485--60443658 Score: 169
Period size: 38 Copynumber: 4.5 Consensus size: 40
60443475 ATTGTGATAT
*** *
60443485 CCGGGCTAAG-CCCGAAGGCAATTGTGCGA-TTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* ** *
60443523 CCGGGCTAAG-CCCGAAGGCAA-TGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
60443561 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
60443600 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
60443640 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60443659 TGTTTTGAAC
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
37 7 0.06
38 49 0.41
39 24 0.20
40 40 0.33
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:60452417 original size:40 final size:39
Alignment explanation
Indices: 60452373--60452498 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
60452363 GGGACTCAAC
*
60452373 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
60452413 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
60452453 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
60452493 CCGGAT
1 CCGGAT
60452499 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:60452457 original size:80 final size:80
Alignment explanation
Indices: 60452312--60452498 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
60452302 GCTACACATT
* * *
60452312 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
60452376 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
60452392 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
60452455 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
60452473 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
60452499 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:60460488 original size:40 final size:39
Alignment explanation
Indices: 60460444--60460569 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
60460434 GGGACTCAAC
*
60460444 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
60460484 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
60460524 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
60460564 CCGGAT
1 CCGGAT
60460570 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:60460528 original size:80 final size:80
Alignment explanation
Indices: 60460383--60460569 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
60460373 GCTACACATT
* * *
60460383 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
60460447 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
60460463 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
60460526 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
60460544 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
60460570 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:60464487 original size:40 final size:40
Alignment explanation
Indices: 60464425--60464682 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
60464415 AAGCCAAGTA
* * * * *
60464425 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
60464464 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
60464504 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60464544 CCTTCGGGACTTATCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
60464584 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
60464624 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
60464664 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
60464683 TTATCATCCA
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.06
40 188 0.94
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60472533 original size:40 final size:40
Alignment explanation
Indices: 60472509--60472730 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
60472499 TACTCACTCG
* *
60472509 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
60472549 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
60472589 AATGCCTTCGGGACTTATCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
60472629 AATGCCTT-GGGACTTAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
60472668 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
60472708 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
60472731 TTATCATCCA
Statistics
Matches: 171, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 38 0.22
40 133 0.78
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:60472680 original size:79 final size:80
Alignment explanation
Indices: 60472509--60472730 Score: 358
Period size: 79 Copynumber: 2.8 Consensus size: 80
60472499 TACTCACTCG
* *
60472509 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
60472574 ATAGTAACTCGCACA
66 ATAGTAACTCGCACA
*
60472589 AATGCCTTCGGGACTTATCCCGGATATAGTAACTCGCACAAATGCCTT-GGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
60472653 ATAGTAACTCGCACC
66 ATAGTAACTCGCACA
* * *
60472668 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
60472731 TTATCATCCA
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 72 0.55
80 59 0.45
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTCGCACA
Found at i:60472685 original size:119 final size:120
Alignment explanation
Indices: 60472509--60472730 Score: 376
Period size: 119 Copynumber: 1.9 Consensus size: 120
60472499 TACTCACTCG
60472509 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGA-
* *
60472574 A-TAGTAACTCGCACAAATGCCTTCGGGACTTATCCCGGATATAGTAACTCGCACA
65 ACTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
60472629 AATGCCTT-GGGACTTAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAA
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAA
* *
60472693 CTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
66 CTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
60472731 TTATCATCCA
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
118 1 0.01
119 87 0.91
120 8 0.08
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAA
CTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:60478103 original size:40 final size:40
Alignment explanation
Indices: 60478048--60478263 Score: 314
Period size: 40 Copynumber: 5.4 Consensus size: 40
60478038 GATGATAACG
* *
60478048 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
60478088 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
60478128 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
60478168 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
60478208 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
60478248 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
60478264 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:60482518 original size:40 final size:40
Alignment explanation
Indices: 60482474--60482703 Score: 327
Period size: 40 Copynumber: 5.8 Consensus size: 40
60482464 GGATATAACT
* * *
60482474 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
60482514 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
60482554 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
60482594 ATTCGCACAATTGCCTTCGGGACTTAGCCCGGTTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
60482634 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
60482674 ACTAGTGCAGATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
60482704 TGTTATCATC
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 171 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:60490574 original size:40 final size:40
Alignment explanation
Indices: 60490527--60490671 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
60490517 CTCGCCCAAG
** * *
60490527 GCCTTCGGGTTTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
60490567 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
60490607 GCCTTC-GGATCTTAGTCCGGATGTAGTCACTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
60490648 GCCTTTGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
60490672 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:60493924 original size:40 final size:40
Alignment explanation
Indices: 60493880--60493971 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
60493870 GGATATAACT
*
60493880 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATT-GAGTA
* * *
60493920 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTGAGTA
60493960 ACTCGCACAAAT
1 ACTCGCACAAAT
60493972 TGTAACACCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGATTGAGTA
Found at i:60495388 original size:40 final size:40
Alignment explanation
Indices: 60495343--60495472 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
60495333 CGGAATACAA
60495343 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
60495383 CCGGATAGAACGACTCGCACGAATGCCTTCAGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
60495423 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
60495463 CCGGATATAA
1 CCGGATATAA
60495473 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:60498031 original size:28 final size:28
Alignment explanation
Indices: 60497962--60498062 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
60497952 GACAAGATTG
* * * *
60497962 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
60497992 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60498020 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
60498049 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
60498063 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60505981 original size:28 final size:28
Alignment explanation
Indices: 60505912--60506012 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
60505902 GACAAGATTG
* * * *
60505912 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
60505942 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60505970 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
60505999 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
60506013 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60512069 original size:30 final size:30
Alignment explanation
Indices: 60512033--60512093 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
60512023 AAAGTGTGAT
60512033 TTGAGTTTCATAGACCCAAATAAGGGACTA
1 TTGAGTTTCATAGACCCAAATAAGGGACTA
*
60512063 TTGAGTTTCGTAGACCCAAATAAGGGACTA
1 TTGAGTTTCATAGACCCAAATAAGGGACTA
60512093 T
1 T
60512094 GTACATGTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (30 bp):
TTGAGTTTCATAGACCCAAATAAGGGACTA
Found at i:60520120 original size:8 final size:8
Alignment explanation
Indices: 60520107--60520137 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
60520097 ATTTTTATCA
*
60520107 TTAATTAT
1 TTAATTAC
60520115 TTAATTAC
1 TTAATTAC
60520123 TTAATTAC
1 TTAATTAC
60520131 TTAATTA
1 TTAATTA
60520138 ACCTTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (8 bp):
TTAATTAC
Found at i:60520896 original size:27 final size:28
Alignment explanation
Indices: 60520866--60520931 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
60520856 CGTTCCTTTT
*
60520866 GAGTTTGCCATGAA-TACCATTCATTTA
1 GAGTTCGCCATGAAGTACCATTCATTTA
* *
60520893 GAGTTCACCAT-AAGTACCATTCCTTTA
1 GAGTTCGCCATGAAGTACCATTCATTTA
60520920 GAGTTCGCCATG
1 GAGTTCGCCATG
60520932 GTGGTGTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (28 bp):
GAGTTCGCCATGAAGTACCATTCATTTA
Found at i:60521862 original size:166 final size:166
Alignment explanation
Indices: 60521578--60521910 Score: 630
Period size: 166 Copynumber: 2.0 Consensus size: 166
60521568 CCAGACTTCC
60521578 ACCTCGATATTAGCAGCAAGCACTTGACATGGAGTAATTACTGGTGAGGACCCAGATCTACAACT
1 ACCTCGATATTAGCAGCAAGCACTTGACATGGAGTAATTACTGGTGAGGACCCAGATCTACAACT
60521643 CCAGCTTGAAAGGGAAAGAAATATAACAAGTTCTTTAAGATTCAGCAATAATACTTCTTGAAGAA
66 CCAGCTTGAAAGGGAAAGAAATATAACAAGTTCTTTAAGATTCAGCAATAATACTTCTTGAAGAA
60521708 GGAAAACTCCCTCTTTTTAGACCCGAATATCAATAT
131 GGAAAACTCCCTCTTTTTAGACCCGAATATCAATAT
* *
60521744 ACCTTGATATTAGCAGCAAGCACTTGACATGGAGTAATTACTGGTGAGGACCCAGATCTATAACT
1 ACCTCGATATTAGCAGCAAGCACTTGACATGGAGTAATTACTGGTGAGGACCCAGATCTACAACT
* *
60521809 CCAGCTTGAAGGGGAAAGAAATATAACAAGTTCTTTAAGATTCAGCGATAATACTTCTTGAAGAA
66 CCAGCTTGAAAGGGAAAGAAATATAACAAGTTCTTTAAGATTCAGCAATAATACTTCTTGAAGAA
60521874 GGAAAACTCCCTCTTTTTAGACCCGAATATCAATAT
131 GGAAAACTCCCTCTTTTTAGACCCGAATATCAATAT
60521910 A
1 A
60521911 TGTAACCTAC
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 163 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (166 bp):
ACCTCGATATTAGCAGCAAGCACTTGACATGGAGTAATTACTGGTGAGGACCCAGATCTACAACT
CCAGCTTGAAAGGGAAAGAAATATAACAAGTTCTTTAAGATTCAGCAATAATACTTCTTGAAGAA
GGAAAACTCCCTCTTTTTAGACCCGAATATCAATAT
Found at i:60522728 original size:13 final size:13
Alignment explanation
Indices: 60522710--60522735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60522700 GTATACACAA
60522710 CATACTCATACAC
1 CATACTCATACAC
60522723 CATACTCATACAC
1 CATACTCATACAC
60522736 AATAATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (13 bp):
CATACTCATACAC
Found at i:60525379 original size:48 final size:46
Alignment explanation
Indices: 60525277--60525447 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
60525267 TCGTGTGTGA
* * * *
60525277 GCTAGTATAAGACATGTCTGGGACATGCATCGGCCA-C-ATTATG-AG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATCGA-GACGAAG
* *
60525322 AGCTAGTGTAAGACCATGTCCGGGACATGGCATCAGCATTGAGAC-AAGG
1 -GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACGAA-G
* * *
60525371 GCTAGTGTAAGACATGTTTGGGACATGCAACAGCCTCGAGACGTAAG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACG-AAG
*
60525418 GC-AGTGTAAGACATGTCTAGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
60525448 GACTATGAGA
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
46 49 0.48
47 30 0.29
48 22 0.21
49 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGAAG
Found at i:60525504 original size:47 final size:48
Alignment explanation
Indices: 60525422--60525542 Score: 160
Period size: 47 Copynumber: 2.6 Consensus size: 48
60525412 CGTAAGGCAG
*
60525422 TGTAAGA-CATGTCTAGGACAT-GCATCGACTATGAGATGAT-AGTCAA
1 TGTAAGACCATGTCTAGGACATGGCATCGACTATGAGAT-ATGAGCCAA
**
60525468 TGTAAGACCATGTCTAGGACATGGCATCGACT-TGAGATATGAGCCTG
1 TGTAAGACCATGTCTAGGACATGGCATCGACTATGAGATATGAGCCAA
* *
60525515 TATAAGACCATGTCTAGGAAATGGCATC
1 TGTAAGACCATGTCTAGGACATGGCATC
60525543 AGCACCTTAC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
46 9 0.13
47 49 0.73
48 9 0.13
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACTATGAGATATGAGCCAA
Found at i:60530208 original size:50 final size:50
Alignment explanation
Indices: 60530044--60530283 Score: 239
Period size: 50 Copynumber: 4.8 Consensus size: 50
60530034 TGAGAACACA
* * * ***
60530044 TGTGTAGTACTATGTGCAGGCTACCATGTGTTTAAGATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG--TTAGGTCACG
* * * * *** *
60530096 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGACAACTTCGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTTAGGTCACG
* * *
60530147 TGTGTAATACTAAGTGCAGGCTATTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACG
* * * *
60530197 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACG
* *
60530246 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
60530284 AGCTTCGGTT
Statistics
Matches: 154, Mismatches: 33, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 40 0.26
50 46 0.30
51 39 0.25
52 29 0.19
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACG
Found at i:60530230 original size:101 final size:102
Alignment explanation
Indices: 60530044--60530269 Score: 260
Period size: 101 Copynumber: 2.2 Consensus size: 102
60530034 TGAGAACACA
* * * *
60530044 TGTGTAGTACTATGTGCAGGCTACCATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAATACTAAGTGCAGGCTACCACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACTAA
*
60530109 GTGCAAGCTACTATGCGTACCCGACAACTTCGGTCACG
65 GTGCAAGCTACTACGCGTACCCGACAACTTCGGTCACG
** *
60530147 TGTGTAATACTAAGTGCAGGCTATTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTAAG
1 TGTGTAATACTAAGTGCAGGCTACCACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAG
* * * * *** * *
60530211 TGTAGGCTACTACGTGTACCAGA-TTGTT-GGTCGCA
66 TGCAAGCTACTACGCGTACCCGACAACTTCGGTCACG
*
60530246 TGTGTAGTACTAAGTGCAGGCTAC
1 TGTGTAATACTAAGTGCAGGCTAC
60530270 TATGCGTACC
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 27 0.26
100 2 0.02
101 42 0.40
103 33 0.32
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TGTGTAATACTAAGTGCAGGCTACCACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAG
TGCAAGCTACTACGCGTACCCGACAACTTCGGTCACG
Found at i:60530503 original size:16 final size:15
Alignment explanation
Indices: 60530482--60530512 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
60530472 GGAATGGAGT
60530482 AAGTGAAATTATGTAA
1 AAGTGAAATT-TGTAA
60530498 AAGTGAAATTTGTAA
1 AAGTGAAATTTGTAA
60530513 TAAAACAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (15 bp):
AAGTGAAATTTGTAA
Found at i:60531027 original size:34 final size:34
Alignment explanation
Indices: 60530983--60531051 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
60530973 GTGAGTCTAG
*
60530983 TTTCTGGAAAAATTATCAGATCTTAATTTGGAGT
1 TTTCTAGAAAAATTATCAGATCTTAATTTGGAGT
60531017 TTTCTAGAAAAATTATCAGATCTTAATTTGGAGT
1 TTTCTAGAAAAATTATCAGATCTTAATTTGGAGT
60531051 T
1 T
60531052 CCGTATCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (34 bp):
TTTCTAGAAAAATTATCAGATCTTAATTTGGAGT
Found at i:60537917 original size:18 final size:18
Alignment explanation
Indices: 60537877--60537918 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
60537867 AAAAGTGAGC
*
60537877 AAGAAAAAGAAAAGAAAT
1 AAGAAAAAGAAAAGAAAG
*
60537895 TAGAAAAA-AAAAGAAAGG
1 AAGAAAAAGAAAAGAAA-G
60537913 AAGAAA
1 AAGAAA
60537919 TGAGGTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (18 bp):
AAGAAAAAGAAAAGAAAG
Found at i:60539272 original size:30 final size:30
Alignment explanation
Indices: 60539226--60539285 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
60539216 TTCCCGAACC
* *
60539226 TAGGGGTAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
60539256 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
60539286 CATATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:60539792 original size:27 final size:27
Alignment explanation
Indices: 60539728--60539792 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
60539718 TTGAGTTGAG
60539728 TCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGTTCGTGAGATGTAACTAGGCA
*
60539755 TCCAAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGTTCGTGAGATGTAACTAGGCA
*
60539782 TCCGAGCTCGT
1 TCCGAGTTCGT
60539793 TGAGTTGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (27 bp):
TCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:60545471 original size:39 final size:39
Alignment explanation
Indices: 60545393--60545558 Score: 244
Period size: 39 Copynumber: 4.3 Consensus size: 39
60545383 TAATTTATTT
*
60545393 TGAGTCTTTAATTATGTCATAA-TTGAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
* *
60545431 TGAGTTTTTAATTATGTCACAATTTGAACATCATTGATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
*
60545470 TGAGTTTTTAATTATGTCATAATCTGAACATCATTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
* * * *
60545509 AGAGTTTTTAATTATGTCATAGTTTGGACATCTTTAATA
1 TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
*
60545548 TGTGTTTTTAA
1 TGAGTTTTTAA
60545559 GTGTGTTTAA
Statistics
Matches: 114, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 20 0.18
39 94 0.82
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (39 bp):
TGAGTTTTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:60547886 original size:12 final size:12
Alignment explanation
Indices: 60547871--60547922 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 12
60547861 TAAAAGCTCG
* *
60547871 TTTATTGGCTTA
1 TTTATTGACTCA
60547883 TTTATTGACTCA
1 TTTATTGACTCA
*
60547895 TTTA-TGACTCG
1 TTTATTGACTCA
*
60547906 TTTA-TGACTCG
1 TTTATTGACTCA
60547917 TTTATT
1 TTTATT
60547923 TATTAATGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
11 21 0.58
12 15 0.42
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.54
Consensus pattern (12 bp):
TTTATTGACTCA
Found at i:60555007 original size:16 final size:16
Alignment explanation
Indices: 60554988--60555018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60554978 CTTCTTCACT
60554988 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
60555004 TACTTACTTACTTAA
1 TACTCACTTACTTAA
60555019 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:60555024 original size:20 final size:20
Alignment explanation
Indices: 60554985--60555024 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60554975 AAACTTCTTC
* *
60554985 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
60555005 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
60555025 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:60555411 original size:55 final size:53
Alignment explanation
Indices: 60555210--60555411 Score: 173
Period size: 55 Copynumber: 3.8 Consensus size: 53
60555200 ACACGGGTAC
* * *
60555210 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * * * *
60555259 CTCACCAATGCCATGCCTTGGCACGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCATTTCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * * *
60555314 CTTATCAATGT-CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTA-CCATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAGAAA
60555367 CCTTACCAGTTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCA-TTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
60555412 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
48 2 0.02
49 32 0.28
53 8 0.07
54 8 0.07
55 60 0.53
56 4 0.04
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTACCATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:60562656 original size:16 final size:16
Alignment explanation
Indices: 60562637--60562667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60562627 CTTCTTCACT
60562637 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
60562653 TACTTACTTACTTAA
1 TACTCACTTACTTAA
60562668 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:60562673 original size:20 final size:20
Alignment explanation
Indices: 60562634--60562673 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
60562624 AAACTTCTTC
* *
60562634 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
60562654 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
60562674 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:60562784 original size:23 final size:24
Alignment explanation
Indices: 60562746--60562790 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
60562736 TTTGCTCTTC
*
60562746 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
60562770 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
60562791 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:60563049 original size:55 final size:53
Alignment explanation
Indices: 60562906--60563113 Score: 197
Period size: 55 Copynumber: 3.8 Consensus size: 53
60562896 ATCCTTTTGA
* * * *
60562906 AACTCACCATTACCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
*
60562959 AACTCACCAATGCCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGA-CATGGTCTTACATGGGATCC-TTGCCTTAT-G
* * ***
60563013 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * * *
60563066 AAACCTTACCAGTTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTCACCA-ATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
60563114 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 3 0.02
53 45 0.35
54 7 0.05
55 71 0.55
56 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:60570293 original size:12 final size:12
Alignment explanation
Indices: 60570265--60570297 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
60570255 GACTTAGTTA
60570265 TTTATG-TTTTC
1 TTTATGTTTTTC
60570276 -TTATGTTTTTC
1 TTTATGTTTTTC
60570287 TTTATGTTTTT
1 TTTATGTTTTT
60570298 ATTTGCGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 5 0.25
12 10 0.50
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTATGTTTTTC
Found at i:60586195 original size:19 final size:18
Alignment explanation
Indices: 60586167--60586218 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
60586157 ATCCGACAAA
60586167 GCCT-AATAAATGATAAT
1 GCCTGAATAAATGATAAT
*
60586184 GCTTGAAATAAATGATAAT
1 GCCTG-AATAAATGATAAT
60586203 GCCTG-ATAAATGATAA
1 GCCTGAATAAATGATAA
60586219 ATGATAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.45
19 17 0.55
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (18 bp):
GCCTGAATAAATGATAAT
Found at i:60586216 original size:7 final size:7
Alignment explanation
Indices: 60586206--60586233 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
60586196 TGATAATGCC
60586206 TGATAAA
1 TGATAAA
60586213 TGATAAA
1 TGATAAA
60586220 TGATAAA
1 TGATAAA
60586227 TGATAAA
1 TGATAAA
60586234 AATGTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TGATAAA
Found at i:60587046 original size:25 final size:23
Alignment explanation
Indices: 60587008--60587059 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
60586998 TCTGCTTGAA
60587008 ATATATGAAAATGATGATACATGAT
1 ATATATGAAAATGA-GAT-CATGAT
*
60587033 ATATAT-AAATATGAGATGATGAT
1 ATATATGAAA-ATGAGATCATGAT
60587056 ATAT
1 ATAT
60587060 GTACATGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 6 0.24
25 10 0.40
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (23 bp):
ATATATGAAAATGAGATCATGAT
Found at i:60588341 original size:23 final size:21
Alignment explanation
Indices: 60588286--60588340 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
60588276 GTCCTATGGT
60588286 CACACGGGTGTGTCCCTTGAC
1 CACACGGGTGTGTCCCTTGAC
60588307 CACACGGGTGTGTCCCTTGAC
1 CACACGGGTGTGTCCCTTGAC
* *
60588328 CACATGGGCGTGT
1 CACACGGGTGTGT
60588341 GTGCCCTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.24
Consensus pattern (21 bp):
CACACGGGTGTGTCCCTTGAC
Found at i:60589569 original size:24 final size:24
Alignment explanation
Indices: 60589537--60589584 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60589527 CGTTAGACAT
60589537 AGTGAAATCAATTCCTTAAGAAGG
1 AGTGAAATCAATTCCTTAAGAAGG
60589561 AGTGAAATCAATTCCTTAAGAAGG
1 AGTGAAATCAATTCCTTAAGAAGG
60589585 GGGATCCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (24 bp):
AGTGAAATCAATTCCTTAAGAAGG
Found at i:60591258 original size:21 final size:21
Alignment explanation
Indices: 60591232--60591328 Score: 74
Period size: 22 Copynumber: 4.6 Consensus size: 21
60591222 AATCTTTTTA
60591232 TTTTTATTTAAATATTTAATT
1 TTTTTATTTAAATATTTAATT
** * *
60591253 TTTTTATTTTTTATTTTTTATT
1 TTTTTA-TTTAAATATTTAATT
*
60591275 TTTTATTTTTAAAT-TTTAA-T
1 TTTT-TATTTAAATATTTAATT
** *
60591295 TTTAAATTTAAATATTAATATT
1 TTTTTATTTAAATATTTA-ATT
60591317 TTTTTA-TTAAAT
1 TTTTTATTTAAAT
60591329 TTGTTAGTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
19 7 0.12
20 7 0.12
21 17 0.30
22 25 0.44
23 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTATTTAAATATTTAATT
Found at i:60591264 original size:7 final size:7
Alignment explanation
Indices: 60591252--60591284 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
60591242 AATATTTAAT
60591252 TTTTTTA
1 TTTTTTA
60591259 TTTTTTA
1 TTTTTTA
60591266 TTTTTTA
1 TTTTTTA
60591273 TTTTTTA
1 TTTTTTA
60591280 TTTTT
1 TTTTT
60591285 AAATTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:60591291 original size:13 final size:13
Alignment explanation
Indices: 60591261--60591330 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
60591251 TTTTTTTATT
**
60591261 TTTTATTTTTTATT
1 TTTTA-TTTTTAAA
60591275 TTTTATTTTTAAA
1 TTTTATTTTTAAA
*
60591288 TTTTAATTTTAAA
1 TTTTATTTTTAAA
* * *
60591301 TTTAAATATTAATA
1 TTTTATTTTTAA-A
60591315 TTTT-TTTATTAAA
1 TTTTATTT-TTAAA
60591328 TTT
1 TTT
60591331 GTTAGTATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
13 33 0.72
14 13 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTTTTAAA
Found at i:60591297 original size:19 final size:19
Alignment explanation
Indices: 60591275--60591330 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
60591265 ATTTTTTATT
60591275 TTTTATTTTTAAATTTTAA
1 TTTTATTTTTAAATTTTAA
** *
60591294 TTTTAAATTTAAATATTAA
1 TTTTATTTTTAAATTTTAA
*
60591313 TATTTTTTTATTAAATTT
1 T-TTTATTT-TTAAATTT
60591331 GTTAGTATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 17 0.61
20 4 0.14
21 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATTTTTAAATTTTAA
Found at i:60610157 original size:47 final size:47
Alignment explanation
Indices: 60610106--60610510 Score: 631
Period size: 47 Copynumber: 8.5 Consensus size: 47
60610096 TATCACAGTT
60610106 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
60610153 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--AC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
60610198 ATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACAC-T-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
60610249 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
60610296 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--AC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
60610341 ATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACAC-T-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
*
60610392 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
**
60610439 ACGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
60610488 ATACACTTTCACATTCATCACAT
1 ATACACTTTCACATTCATCACAT
60610511 AAAATCCTAA
Statistics
Matches: 332, Mismatches: 10, Indels: 30
0.89 0.03 0.08
Matches are distributed among these distances:
45 14 0.04
46 3 0.01
47 204 0.61
49 94 0.28
50 3 0.01
51 14 0.04
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:60610364 original size:143 final size:143
Alignment explanation
Indices: 60610106--60610510 Score: 715
Period size: 143 Copynumber: 2.8 Consensus size: 143
60610096 TATCACAGTT
60610106 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
60610171 CACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
66 CACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
60610236 TTATCACATATAC
131 TTATCACATATAC
60610249 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
60610314 CACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
66 CACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
60610379 TTATCACATATAC
131 TTATCACATATAC
* **
60610392 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACACACGCA-TGTTCACATTCA
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACT-TTCACATTCA
* *
60610456 TCACATTGGCCATTCGGCCTTATCACATATACATACACT-TTCACATTCATCACAT
65 TCACATTGGCCATTCGGCCTTATCACACATAC--GCA-TGTTCACATTCATCACAT
60610511 AAAATCCTAA
Statistics
Matches: 253, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
142 1 0.00
143 233 0.92
145 18 0.07
146 1 0.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (143 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC
TTATCACATATAC
Found at i:60610542 original size:96 final size:96
Alignment explanation
Indices: 60610106--60610510 Score: 646
Period size: 96 Copynumber: 4.2 Consensus size: 96
60610096 TATCACAGTT
*
60610106 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACAC-T-TTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACGCATGTTCACATTC
*
60610169 ATCACATTGGCCATTCGGCCTTATCACACATAC
64 ATCACATTGGCCATTCGGCCTTATCACATATAC
* * *
60610202 --GCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACT-TTCACAT
1 ATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC--GCA-TGTTCACAT
60610263 TCATCACATTGGCCATTCGGCCTTATCAC--ATAC
62 TCATCACATTGGCCATTCGGCCTTATCACATATAC
60610296 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
60610361 CACATTGGCCATTCGGCCTTATCACATATAC
66 CACATTGGCCATTCGGCCTTATCACATATAC
*
60610392 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACACACGCATGTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
60610457 CACATTGGCCATTCGGCCTTATCACATATAC
66 CACATTGGCCATTCGGCCTTATCACATATAC
60610488 ATACACTTTCACATTCATCACAT
1 ATACACTTTCACATTCATCACAT
60610511 AAAATCCTAA
Statistics
Matches: 292, Mismatches: 6, Indels: 22
0.91 0.02 0.07
Matches are distributed among these distances:
92 5 0.02
93 2 0.01
94 82 0.28
96 202 0.69
97 1 0.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (96 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATATAC
Found at i:60628127 original size:20 final size:20
Alignment explanation
Indices: 60628102--60628147 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
60628092 AATAGTGGAG
* *
60628102 GGGTTCGAATGTAAATTCAA
1 GGGTTCAAATGCAAATTCAA
60628122 GGGTTCAAATGCAAATTCAA
1 GGGTTCAAATGCAAATTCAA
60628142 GGGTTC
1 GGGTTC
60628148 TTCAAGGGCT
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:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
GGGTTCAAATGCAAATTCAA
Found at i:60631140 original size:14 final size:14
Alignment explanation
Indices: 60631123--60631156 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
60631113 ACCACGGTAA
60631123 ATAAAACATAAATC
1 ATAAAACATAAATC
**
60631137 ATAAATTATAAATC
1 ATAAAACATAAATC
60631151 ATAAAA
1 ATAAAA
60631157 ATCCAAAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAAACATAAATC
Found at i:60631347 original size:6 final size:6
Alignment explanation
Indices: 60631336--60631360 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60631326 TAAGCACCTT
60631336 TCAGTA TCAGTA TCAGTA TCAGTA T
1 TCAGTA TCAGTA TCAGTA TCAGTA T
60631361 GCACAAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (6 bp):
TCAGTA
Found at i:60632410 original size:22 final size:20
Alignment explanation
Indices: 60632371--60632410 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
60632361 GCTGGAAATT
*
60632371 TCCTTGAAGTTTCTTGAACA
1 TCCTTGAAGTTCCTTGAACA
60632391 TCCTTGCAAGCTTCCTTGAA
1 TCCTTG-AAG-TTCCTTGAA
60632411 GTTTCCTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
TCCTTGAAGTTCCTTGAACA
Found at i:60633161 original size:24 final size:25
Alignment explanation
Indices: 60633134--60633188 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
60633124 GCAACAGCTA
*
60633134 ATTAATT-TGTTCTAA-ATTAGACAC
1 ATTAATTATGTCCTAAGA-TAGACAC
60633158 ATTAAATTATGTCCTAAGATAGACAC
1 ATT-AATTATGTCCTAAGATAGACAC
60633184 ATTAA
1 ATTAA
60633189 ACACATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 3 0.11
25 6 0.22
26 17 0.63
27 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (25 bp):
ATTAATTATGTCCTAAGATAGACAC
Found at i:60636699 original size:40 final size:40
Alignment explanation
Indices: 60636654--60636820 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
60636644 CGGAATATAA
60636654 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
60636694 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
60636734 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
60636774 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
60636813 CCGGATAT
1 CCGGATAT
60636821 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:60644681 original size:40 final size:40
Alignment explanation
Indices: 60644636--60644802 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
60644626 CGGAATATAA
60644636 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
60644676 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
60644716 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
60644756 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
60644795 CCGGATAT
1 CCGGATAT
60644803 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:60647978 original size:46 final size:46
Alignment explanation
Indices: 60647899--60647986 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
60647889 CATTGGGTGG
* * *
60647899 TATGCGAGCCAGTATAACAAATGTTTGGCACATGCATCGGCCGTGT
1 TATGAGAGCCAGTATAACAAATGTCTGGAACATGCATCGGCCGTGT
* * *
60647945 TATGAGAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCC
1 TATGAGAGCCAGTATAACAAATGTCTGGAACATGCATCGGCC
60647987 TCAGGATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (46 bp):
TATGAGAGCCAGTATAACAAATGTCTGGAACATGCATCGGCCGTGT
Found at i:60648124 original size:49 final size:49
Alignment explanation
Indices: 60648049--60648218 Score: 150
Period size: 49 Copynumber: 3.5 Consensus size: 49
60648039 TGTGTGTCAG
** * *
60648049 TGTAAGAATTGTCTAGGACATTGCATCAACAC-CGATAGATGAGAGCCAA
1 TGTAAGACCTGTCTAGGACATGGCATCAAC-CTCGATAGATGAAAGCCAA
** * *
60648098 TGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTCAA
1 TGTAAGACCTGTCTAGGACATGGCATCAACCTCGATAGATGAAAGCCAA
* * * ** **
60648147 TGTAAGACCTATCTAGGACACGGCATCAACTTTAAT-G-TGCCAGCCAA
1 TGTAAGACCTGTCTAGGACATGGCATCAACCTCGATAGATGAAAGCCAA
60648194 TGTAAGACCATGTCT-GTGACATGGC
1 TGTAAGACC-TGTCTAG-GACATGGC
60648219 GTTGGCGACC
Statistics
Matches: 97, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
47 17 0.18
48 12 0.12
49 68 0.70
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTCTAGGACATGGCATCAACCTCGATAGATGAAAGCCAA
Found at i:60648228 original size:26 final size:26
Alignment explanation
Indices: 60648199--60648250 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
60648189 GCCAATGTAA
60648199 GACCATGTCTGTGACATGGCGTTGGC
1 GACCATGTCTGTGACATGGCGTTGGC
60648225 GACCATGTCTGTGACATGGCGTTGGC
1 GACCATGTCTGTGACATGGCGTTGGC
60648251 ATCTTATCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (26 bp):
GACCATGTCTGTGACATGGCGTTGGC
Found at i:60651558 original size:24 final size:24
Alignment explanation
Indices: 60651526--60651581 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
60651516 TAATCAATCG
*
60651526 AATTTTCTAAAAAGTATTTTCCCA
1 AATTTTCTAAAAAGTATTTTCCAA
60651550 AATTTTCTAAAAAGTATTTTCCAA
1 AATTTTCTAAAAAGTATTTTCCAA
60651574 AATTTTCT
1 AATTTTCT
60651582 TTCTGTGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.45
Consensus pattern (24 bp):
AATTTTCTAAAAAGTATTTTCCAA
Found at i:60655582 original size:39 final size:40
Alignment explanation
Indices: 60655404--60655586 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
60655394 CCGCACCAAG
* * * * * * * *
60655404 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
60655444 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
60655484 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
60655524 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
60655563 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
60655587 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:60663587 original size:40 final size:40
Alignment explanation
Indices: 60663513--60663658 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
60663503 CCGCACCAAG
* * * * * *
60663513 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
60663553 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
60663593 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
60663633 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
60663659 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:60663673 original size:40 final size:40
Alignment explanation
Indices: 60663545--60663696 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
60663535 ATCACGATTT
* * * * *
60663545 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
60663585 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
60663625 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
60663665 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
60663697 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:60669591 original size:20 final size:21
Alignment explanation
Indices: 60669566--60669604 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60669556 CACTTAACAT
*
60669566 AGGGGC-ACACGCCCGTGTAG
1 AGGGGCAACACGCCAGTGTAG
60669586 AGGGGCAACACGCCAGTGT
1 AGGGGCAACACGCCAGTGT
60669605 GACCATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGGCAACACGCCAGTGTAG
Found at i:60671854 original size:37 final size:37
Alignment explanation
Indices: 60671804--60671894 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
60671794 TTATTACGAA
60671804 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
60671841 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
60671878 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
60671895 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:60671989 original size:48 final size:48
Alignment explanation
Indices: 60671934--60672133 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
60671924 TGTTACAACA
*
60671934 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
60671982 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
60672030 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
60672078 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
60672126 TTCACATT
1 TTCACATT
60672134 CATCACATCG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:60672226 original size:96 final size:96
Alignment explanation
Indices: 60672125--60672509 Score: 648
Period size: 96 Copynumber: 4.0 Consensus size: 96
60672115 CACACATATG
* *
60672125 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
60672190 GGCCATTAGGCCTTATCACATATATATACAC
66 GGCCATTAGGCCTTATCACATATATATACAC
* *
60672221 CTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
*
60672286 GGCCATTAGGCCTTATCACATGTATATACAC
66 GGCCATTAGGCCTTATCACATATATATACAC
*
60672317 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
60672382 TCGGCCATTAGGCCTTATCAC--ATATATACTC
64 TTGGCCATTAGGCCTTATCACATATATATACAC
60672413 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACA
60672478 TTGGCCATTAGGCCTTATCACATATATATACA
64 TTGGCCATTAGGCCTTATCACATATATATACA
60672510 TCTCCTACAT
Statistics
Matches: 271, Mismatches: 12, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
94 1 0.00
96 218 0.80
98 52 0.19
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATTAGGCCTTATCACATATATATACAC
Found at i:60672234 original size:49 final size:49
Alignment explanation
Indices: 60672125--60672509 Score: 647
Period size: 49 Copynumber: 8.0 Consensus size: 49
60672115 CACACATATG
* *
60672125 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
60672172 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
60672221 CTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
60672268 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
60672317 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
60672366 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
60672413 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
60672462 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACA
60672510 TCTCCTACAT
Statistics
Matches: 316, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 125 0.40
49 191 0.60
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:60672346 original size:145 final size:145
Alignment explanation
Indices: 60672125--60672509 Score: 729
Period size: 145 Copynumber: 2.7 Consensus size: 145
60672115 CACACATATG
* *
60672125 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA--TATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
60672188 TTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTT
66 TTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
60672253 ATCACATATATACTC
131 ATCACATATATACTC
60672268 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
60672333 TTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
66 TTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
60672398 ATCACATATATACTC
131 ATCACATATATACTC
60672413 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
60672478 TTGGCCATTAGGCCTTATCACATATATATACA
66 TTGGCCATTAGGCCTTATCACATATATATACA
60672510 TCTCCTACAT
Statistics
Matches: 237, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
143 37 0.16
145 200 0.84
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (145 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACTC
Found at i:60681392 original size:46 final size:45
Alignment explanation
Indices: 60681299--60681384 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
60681289 TACATTTCAC
* *
60681299 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* *
60681345 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
60681385 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:60684293 original size:14 final size:14
Alignment explanation
Indices: 60684249--60684296 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
60684239 ATTATATAGT
*
60684249 TATACACATATACA
1 TATACACATATATA
* *
60684263 TGTCCACCATA-ATA
1 TATACA-CATATATA
60684277 TATACACATATATA
1 TATACACATATATA
60684291 TATACA
1 TATACA
60684297 TACATATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (14 bp):
TATACACATATATA
Found at i:60688084 original size:26 final size:25
Alignment explanation
Indices: 60688055--60688132 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
60688045 ATAAAACCTA
60688055 AAAATGAAATAATATTAAAGGAAAAT
1 AAAAT-AAATAATATTAAAGGAAAAT
* *
60688081 AAAATAAA-AAGTACTTAAAAGAAGAT
1 AAAATAAATAA-TA-TTAAAGGAAAAT
60688107 -AAATAAAT-ATA--AAAGTGAAAAT
1 AAAATAAATAATATTAAAG-GAAAAT
60688129 AAAA
1 AAAA
60688133 ATAATAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
21 3 0.07
22 5 0.12
23 3 0.07
24 4 0.09
25 13 0.30
26 15 0.35
ACGTcount: A:0.68, C:0.01, G:0.10, T:0.21
Consensus pattern (25 bp):
AAAATAAATAATATTAAAGGAAAAT
Found at i:60689362 original size:4 final size:4
Alignment explanation
Indices: 60689353--60689378 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
60689343 TGGCAAGACG
60689353 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
60689379 GAAACTTACT
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:60694853 original size:49 final size:49
Alignment explanation
Indices: 60694717--60695219 Score: 843
Period size: 49 Copynumber: 10.3 Consensus size: 49
60694707 CCCTTCGGAA
* * * *
60694717 CTTATCACAT-T-TATACACATTAACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
60694764 CCTATCAC--ATATATACACTTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60694811 CTTATCACATATATATGCACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60694860 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60694909 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60694958 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60695007 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60695056 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60695105 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60695154 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60695203 CTTATCACATATATATA
1 CTTATCACATATATATA
60695220 TATCTCATAC
Statistics
Matches: 432, Mismatches: 20, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 47 0.11
49 384 0.89
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60698556 original size:40 final size:40
Alignment explanation
Indices: 60698499--60698742 Score: 357
Period size: 40 Copynumber: 6.0 Consensus size: 40
60698489 CGAATACACG
* * * *
60698499 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
60698539 ACACTAGCACGAATGCTCTTCGGAACTTAGCTCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
60698579 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
60698619 TCACTAGCATGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACT---A-GCATGAATGCTCTTCGGGACTTAGCCCGGATACA
60698662 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
60698702 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
60698741 TC
1 TC
60698743 GTCGAGACCT
Statistics
Matches: 186, Mismatches: 13, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
39 19 0.10
40 128 0.69
43 24 0.13
44 15 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:60698667 original size:123 final size:123
Alignment explanation
Indices: 60698505--60698742 Score: 388
Period size: 123 Copynumber: 1.9 Consensus size: 123
60698495 CACGTCACCA
* *
60698505 GCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGAACTTAGC
1 GCATGAATGCTCTTCGGGACCTAGCCCGGATACAACACTAGCACGAATGCTCTTCGGAACTTAGC
* *
60698570 TCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCAT
66 CCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGAT-CATCACTAGCAT
* * * *
60698629 GCATGAATGCTCTTC-GGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGC
1 GCATGAATGCTCTTCGGGACCTAGCCCGGATACAACACTAGCACGAATGCTCTTCGGAACTTAGC
60698693 CCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATCATC
66 CCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATCATC
60698743 GTCGAGACCT
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
122 4 0.04
123 88 0.83
124 14 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (123 bp):
GCATGAATGCTCTTCGGGACCTAGCCCGGATACAACACTAGCACGAATGCTCTTCGGAACTTAGC
CCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATCATCACTAGCAT
Found at i:60698678 original size:83 final size:82
Alignment explanation
Indices: 60698499--60698742 Score: 349
Period size: 83 Copynumber: 3.0 Consensus size: 82
60698489 CGAATACACG
* * * * *
60698499 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACTAGCA-C--GAATGCTCTTCG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCAGCATGAATGCTCTTCG
*
60698561 GAACTTAGCTCGGATACA
66 G-ACTTAGCCCGGATACA
60698579 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGCATGAATGCTCTTC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA-GCATGAATGCTCTTC
60698644 GGACTTAGCCCGGATACA
65 GGACTTAGCCCGGATACA
60698662 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACT---AGCATGAATGCTCTTCG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCAGCATGAATGCTCTTC-
*
60698724 GGACTTAGCCCAGAT-CA
65 GGACTTAGCCCGGATACA
60698741 TC
1 TC
60698743 GTCGAGACCT
Statistics
Matches: 152, Mismatches: 7, Indels: 11
0.89 0.04 0.06
Matches are distributed among these distances:
79 19 0.12
80 59 0.39
82 1 0.01
83 60 0.39
84 13 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (82 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCAGCATGAATGCTCTTCG
GACTTAGCCCGGATACA
Found at i:60701221 original size:49 final size:49
Alignment explanation
Indices: 60701085--60701587 Score: 852
Period size: 49 Copynumber: 10.3 Consensus size: 49
60701075 CCCTTCGGAA
* * *
60701085 CTTATCACAT-T-TATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
60701132 CCTATCAC--ATATATACACTTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60701179 CTTATCACATATATATGCACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60701228 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60701277 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60701326 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60701375 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60701424 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60701473 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60701522 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60701571 CGTATCACATATATATA
1 CTTATCACATATATATA
60701588 TCTCATACAT
Statistics
Matches: 432, Mismatches: 20, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 48 0.11
49 383 0.89
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60709084 original size:12 final size:12
Alignment explanation
Indices: 60709064--60709100 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
60709054 AAATTAAACT
*
60709064 TATTAAATCAAA
1 TATTCAATCAAA
60709076 TATTCAATCAAA
1 TATTCAATCAAA
*
60709088 TATTCAGTCAAA
1 TATTCAATCAAA
60709100 T
1 T
60709101 TCATCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (12 bp):
TATTCAATCAAA
Found at i:60713221 original size:3 final size:3
Alignment explanation
Indices: 60713213--60713242 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
60713203 AAGATATTTA
60713213 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60713243 ATTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:60713247 original size:3 final size:3
Alignment explanation
Indices: 60713241--60713271 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
60713231 CTTCTTCTTC
60713241 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
60713272 ATTTTATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:60716645 original size:50 final size:50
Alignment explanation
Indices: 60716591--60716745 Score: 237
Period size: 50 Copynumber: 3.2 Consensus size: 50
60716581 TACATGAATT
*
60716591 ATTCCTGTCTCCAATGCCATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
*
60716641 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTA
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
* *
60716691 ATTCCTGTCTCCAAAGCC----ATATATCTGATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
*
60716737 ATTTCTGTC
1 ATTCCTGTC
60716746 CTGTCCTGTC
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
46 33 0.33
50 66 0.67
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (50 bp):
ATTCCTGTCTCCAAAGCCATATATATATCTAATATGGGCTTACATGGCTC
Found at i:60721077 original size:52 final size:52
Alignment explanation
Indices: 60720981--60721158 Score: 324
Period size: 52 Copynumber: 3.5 Consensus size: 52
60720971 TACATGAATT
*
60720981 ATTCCTGTCTCCAATGCC--ATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATATCTAATATGGGCTTACATGGCTC
60721031 ATTCCTGTCTCCAAAGCCATATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATATCTAATATGGGCTTACATGGCTC
*
60721083 ATTCCTATCTCCAAAGCCATATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATATCTAATATGGGCTTACATGGCTC
60721135 ATTCCTGTCTCCAAAGCCATATAT
1 ATTCCTGTCTCCAAAGCCATATAT
60721159 CTGATATGGA
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 17 0.14
52 106 0.86
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (52 bp):
ATTCCTGTCTCCAAAGCCATATATATATATCTAATATGGGCTTACATGGCTC
Found at i:60721176 original size:46 final size:47
Alignment explanation
Indices: 60720981--60721189 Score: 240
Period size: 52 Copynumber: 4.2 Consensus size: 47
60720971 TACATGAATT
*
60720981 ATTCCTGTCTCCAATGCCATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCC--A-ATATATCTAATATGGGCTTACATGGCTC
60721031 ATTCCTGTCTCCAAAGCCATATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCC----A-ATATATCTAATATGGGCTTACATGGCTC
*
60721083 ATTCCTATCTCCAAAGCCATATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCC----A-ATATATCTAATATGGGCTTACATGGCTC
* * *
60721135 ATTCCTGTCTCCAAAGCC-ATATATCTGATATGGACTGACATGGCTC
1 ATTCCTGTCTCCAAAGCCAATATATCTAATATGGGCTTACATGGCTC
*
60721181 ATTTCTGTC
1 ATTCCTGTC
60721190 CTGTCCTGTC
Statistics
Matches: 150, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
46 33 0.22
50 17 0.11
52 100 0.67
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (47 bp):
ATTCCTGTCTCCAAAGCCAATATATCTAATATGGGCTTACATGGCTC
Found at i:60738541 original size:9 final size:10
Alignment explanation
Indices: 60738515--60738540 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
60738505 TGCAAATTTG
60738515 TCAAAAATAA
1 TCAAAAATAA
60738525 TCAAAAATAA
1 TCAAAAATAA
60738535 TCAAAA
1 TCAAAA
60738541 TTTGACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (10 bp):
TCAAAAATAA
Found at i:60738570 original size:22 final size:22
Alignment explanation
Indices: 60738527--60738570 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
60738517 AAAAATAATC
**
60738527 AAAAATAATCAAAATTTGACAT
1 AAAAATAATCAAAATTCAACAT
* *
60738549 AAAATTAATTAAAATTCAACAT
1 AAAAATAATCAAAATTCAACAT
60738571 GTTAATAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAATAATCAAAATTCAACAT
Found at i:60740042 original size:68 final size:70
Alignment explanation
Indices: 60739970--60740167 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
60739960 ACACCCTGTA
* * * *
60739970 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
60740032 ATAAAT
65 ATAAAT
*
60740038 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
60740103 ATAAAT
65 ATAAAT
*
60740109 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
60740168 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:60740081 original size:41 final size:41
Alignment explanation
Indices: 60740036--60740153 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
60740026 TGAAAGATAA
60740036 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
60740077 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
60740107 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
60740148 ATGTAG
1 ATGTAG
60740154 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:60740093 original size:71 final size:71
Alignment explanation
Indices: 60740004--60740167 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
60739994 GAGATGTATC
60740004 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
60740069 AGGACA
66 AGGACA
60740075 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
60740140 AGGACA
66 AGGACA
60740146 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
60740168 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:60745822 original size:93 final size:93
Alignment explanation
Indices: 60745710--60745881 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60745700 GCCCATAAGT
* *
60745710 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60745775 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
60745803 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60745868 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
60745882 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60745877 original size:46 final size:46
Alignment explanation
Indices: 60745702--60745877 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
60745692 TGTAACCCGC
* * *
60745702 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
60745748 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
60745798 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
60745841 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60745878 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:60749448 original size:68 final size:70
Alignment explanation
Indices: 60749376--60749573 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
60749366 ACACCCTGTA
* * * *
60749376 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
60749438 ATAAAT
65 ATAAAT
*
60749444 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
60749509 ATAAAT
65 ATAAAT
*
60749515 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
60749574 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:60749487 original size:41 final size:41
Alignment explanation
Indices: 60749442--60749559 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
60749432 TGAAAGATAA
60749442 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
60749483 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
60749513 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
60749554 ATGTAG
1 ATGTAG
60749560 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:60749499 original size:71 final size:71
Alignment explanation
Indices: 60749410--60749573 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
60749400 GAGATGTATC
60749410 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
60749475 AGGACA
66 AGGACA
60749481 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
60749546 AGGACA
66 AGGACA
60749552 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
60749574 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:60751880 original size:30 final size:30
Alignment explanation
Indices: 60751846--60751902 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
60751836 ATGAATTGGA
60751846 AGCTTTGGCACTAAGTGTGCGATTTAACCT
1 AGCTTTGGCACTAAGTGTGCGATTTAACCT
60751876 AGCTTTGGCACTAAGTGTGCGATTTAA
1 AGCTTTGGCACTAAGTGTGCGATTTAA
60751903 GGTCTCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACCT
Found at i:60753401 original size:47 final size:47
Alignment explanation
Indices: 60753330--60753884 Score: 867
Period size: 47 Copynumber: 11.6 Consensus size: 47
60753320 CCCTTTGGGA
* * * *
60753330 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
60753377 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
60753424 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
60753473 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
60753520 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
60753567 CTTATCACATATATACACTTTCACATTTATCACGTTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
60753614 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
60753663 CTTATCACATATATACACTTTCACATTCATCATATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
60753710 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
60753757 CTTATCACACATATATACACTTTCACATTTATCACGTTGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
60753806 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
60753855 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
60753885 TCAAATATAC
Statistics
Matches: 474, Mismatches: 26, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
47 297 0.63
49 177 0.37
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:60753492 original size:96 final size:96
Alignment explanation
Indices: 60753330--60753884 Score: 906
Period size: 96 Copynumber: 5.8 Consensus size: 96
60753320 CCCTTTGGGA
* * * *
60753330 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
60753393 ACTTTCACATTCATCACGTTGGCCATTAGGC
66 ACTTTCACATTCATCACGTTGGCCATTAGGC
60753424 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
60753489 ACTTTCACATTCATCACATCGGCCATTCGGC
66 ACTTTCACATTCATCACGTTGGCCATTAGGC
* *
60753520 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
60753583 ACTTTCACATTTATCACGTTGGCCATTAGGC
66 ACTTTCACATTCATCACGTTGGCCATTAGGC
60753614 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
** *
60753679 ACTTTCACATTCATCATATTGGCCATTCGGC
66 ACTTTCACATTCATCACGTTGGCCATTAGGC
* *
60753710 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CACATATAT
*
60753773 ACACTTTCACATTTATCACGTTGGCCATTAGGC
64 ACACTTTCACATTCATCACGTTGGCCATTAGGC
60753806 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
60753871 ACTTTCACATTCAT
66 ACTTTCACATTCAT
60753885 TCAAATATAC
Statistics
Matches: 425, Mismatches: 28, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
94 140 0.33
95 1 0.00
96 242 0.57
98 42 0.10
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACGTTGGCCATTAGGC
Found at i:60753628 original size:143 final size:143
Alignment explanation
Indices: 60753330--60753884 Score: 884
Period size: 143 Copynumber: 3.9 Consensus size: 143
60753320 CCCTTTGGGA
* * * *
60753330 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
60753393 ACTTTCACATTCATCACGTTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
60753458 CATTGGCCATTCGGC
129 CATTGGCCATTAGGC
*
60753473 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
60753536 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTTATCACG
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
60753601 TTGGCCATTAGGC
131 TTGGCCATTAGGC
60753614 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
60753679 ACTTTCACATTCATCATATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
60753744 TCGGCCATTAGGC
131 TTGGCCATTAGGC
* * * *
60753757 CTTATCACACATATATACACTTTCACATTTATCACGTTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
*
60753822 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
60753885 TCAAATATAC
Statistics
Matches: 384, Mismatches: 22, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
141 44 0.11
142 1 0.00
143 271 0.71
145 68 0.18
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TTGGCCATTAGGC
Found at i:60761935 original size:30 final size:29
Alignment explanation
Indices: 60761901--60761968 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
60761891 ATGAATCGGA
60761901 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
60761931 AGCTTTGGCACTAAGTGTGTGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
60761960 AGCTTTGGC
1 AGCTTTGGC
60761969 TACTTGAGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:60764450 original size:49 final size:49
Alignment explanation
Indices: 60764371--60764465 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
60764361 TAGGACTATC
* * ** *
60764371 TTATTCTATCATCTCAAGTTGCCTGGCAACAGTGAATTTTAGTATTCAT
1 TTATTCTATCATCCCAAATTGCCTACCAACAATGAATTTTAGTATTCAT
* **
60764420 TTATTCTATCATCCCAAATTTCCTACCAACAATGGTTTTTAGTATT
1 TTATTCTATCATCCCAAATTGCCTACCAACAATGAATTTTAGTATT
60764466 TTCCCACATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (49 bp):
TTATTCTATCATCCCAAATTGCCTACCAACAATGAATTTTAGTATTCAT
Found at i:60765733 original size:16 final size:16
Alignment explanation
Indices: 60765712--60765744 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
60765702 CAGGGTCTGT
60765712 TTCTTATTCTCCATCA
1 TTCTTATTCTCCATCA
60765728 TTCTTATTCTCCATCA
1 TTCTTATTCTCCATCA
60765744 T
1 T
60765745 CTAGTACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.00, T:0.52
Consensus pattern (16 bp):
TTCTTATTCTCCATCA
Found at i:60790007 original size:39 final size:40
Alignment explanation
Indices: 60789841--60790024 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
60789831 GCTACTTGCT
* * *
60789841 CAAATGCCTTCGGGACATAGCCCAG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
60789881 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
60789921 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * *
60789961 CAAATGCCTTCGGGACTT-GCCCGGAACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60790000 CAGATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
60790025 TTATCATCCA
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 33 0.25
40 96 0.73
41 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60791227 original size:30 final size:30
Alignment explanation
Indices: 60791191--60791255 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
60791181 AAAGGATGGA
60791191 CACTTTTTTTTTCTTTGTTTTCATCATATT
1 CACTTTTTTTTTCTTTGTTTTCATCATATT
60791221 CAC-TTTTTTTTCTTTGTTTTCATCATATT
1 CACTTTTTTTTTCTTTGTTTTCATCATATT
*
60791250 CCCTTT
1 CACTTT
60791256 CATTATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 28 0.85
30 5 0.15
ACGTcount: A:0.12, C:0.20, G:0.03, T:0.65
Consensus pattern (30 bp):
CACTTTTTTTTTCTTTGTTTTCATCATATT
Done.