Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 311 of 325
Found at i:98425321 original size:30 final size:30
Alignment explanation
Indices: 98425280--98425356 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
98425270 GGTGGAGATT
*
98425280 GTTAACATTAATGG-AAGACAAACAATAATG
1 GTTAGCATTAATGGCAA-ACAAACAATAATG
98425310 GTTAGCATTAATGGCAAACAAACAATAATG
1 GTTAGCATTAATGGCAAACAAACAATAATG
*
98425340 G-CAGCCATTAATGGCAA
1 GTTAG-CATTAATGGCAA
98425357 CCATCAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.22
Consensus pattern (30 bp):
GTTAGCATTAATGGCAAACAAACAATAATG
Found at i:98428059 original size:21 final size:21
Alignment explanation
Indices: 98428033--98428073 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98428023 ATCTGCTCAA
* *
98428033 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
98428054 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
98428074 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:98434725 original size:23 final size:24
Alignment explanation
Indices: 98434675--98434726 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
98434665 TCAAATTGTT
* *
98434675 AAATATAATTACAATTTTTTATTC
1 AAATATAATTACAATATTTTATTA
98434699 AAATATAA-TACAAATATTTT-TTA
1 AAATATAATTAC-AATATTTTATTA
98434722 AAATA
1 AAATA
98434727 ACTTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATATAATTACAATATTTTATTA
Found at i:98435867 original size:18 final size:19
Alignment explanation
Indices: 98435837--98435872 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
98435827 CAACTGAATC
98435837 ATTTCTCATTTTCATTTTT
1 ATTTCTCATTTTCATTTTT
98435856 ATTTCT-ATTTTCATTTT
1 ATTTCTCATTTTCATTTT
98435873 GAGAAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTCTCATTTTCATTTTT
Found at i:98435943 original size:45 final size:45
Alignment explanation
Indices: 98435863--98435962 Score: 105
Period size: 45 Copynumber: 2.2 Consensus size: 45
98435853 TTTATTTCTA
* * *
98435863 TTTTCATTTTGAGAAAACCACATTTATTTTCAAATG-ATTCCATT
1 TTTTCATTTCGAGAAAACCACAATCATTTTCAAATGTATTCCATT
* *
98435907 TTTTCATTTCGAAGAAAACCATAATCA-TTTCTAAATGTCTTCCATT
1 TTTTCATTTCG-AGAAAACCACAATCATTTTC-AAATGTATTCCATT
* *
98435953 TCTCCATTTC
1 TTTTCATTTC
98435963 TATTCCTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 14 0.30
45 17 0.37
46 15 0.33
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (45 bp):
TTTTCATTTCGAGAAAACCACAATCATTTTCAAATGTATTCCATT
Found at i:98437284 original size:33 final size:33
Alignment explanation
Indices: 98437247--98437311 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
98437237 TATAAAGGGC
98437247 TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
1 TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
*
98437280 TTGTTTTTTCTAATTTGAATACCCGGGATTTG
1 TTGTTTTTGCTAATTTGAATACCCGGGATTTG
98437312 TGCTGACTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGTTTTTGCTAATTTGAATACCCGGGATTTGA
Found at i:98438992 original size:30 final size:30
Alignment explanation
Indices: 98438948--98439015 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
98438938 TACTAACTGA
*
98438948 ACTTCAAA-AAAAAAACTT-AATAGCATAGTG
1 ACTT-AAATAAAAAAA-TTCAATAACATAGTG
**
98438978 ACTTAAATAAAAAAATTCAATAATTTAGTG
1 ACTTAAATAAAAAAATTCAATAACATAGTG
98439008 ACTTAAAT
1 ACTTAAAT
98439016 GATAACTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.29
Consensus pattern (30 bp):
ACTTAAATAAAAAAATTCAATAACATAGTG
Found at i:98442616 original size:18 final size:16
Alignment explanation
Indices: 98442580--98442622 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
98442570 AATTAACAAT
*
98442580 TAATTTAATTATAAAA
1 TAATTTAATTACAAAA
98442596 TAATTTATATTACATAAA
1 TAATTTA-ATTACA-AAA
98442614 TAATTTAAT
1 TAATTTAAT
98442623 AAAAACCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATTTAATTACAAAA
Found at i:98447119 original size:13 final size:13
Alignment explanation
Indices: 98447101--98447126 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98447091 AGACATTCAT
98447101 TAAAATTAAGCCC
1 TAAAATTAAGCCC
98447114 TAAAATTAAGCCC
1 TAAAATTAAGCCC
98447127 AAACTTATGA
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:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
TAAAATTAAGCCC
Found at i:98454558 original size:14 final size:14
Alignment explanation
Indices: 98454539--98454578 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
98454529 TTGATTGCCA
98454539 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
98454553 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
98454567 GGAAAATGTTTT
1 GTAAAATGTTTT
98454579 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:98454587 original size:20 final size:20
Alignment explanation
Indices: 98454562--98454601 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
98454552 TGTAAAATGA
*
98454562 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
98454582 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
98454602 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:98454590 original size:34 final size:35
Alignment explanation
Indices: 98454547--98454613 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
98454537 CAGTAAAATG
*
98454547 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
98454581 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
98454614 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:98454617 original size:14 final size:15
Alignment explanation
Indices: 98454541--98454617 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
98454531 GATTGCCAGT
*
98454541 AAAATG-TTTTCTGT
1 AAAATGATTTTCTGG
98454555 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
98454569 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
98454589 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
98454604 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
98454618 TGTTTGATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 26 0.51
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:98457437 original size:18 final size:18
Alignment explanation
Indices: 98457416--98457466 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
98457406 AGGAATGAAG
98457416 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** * *
98457434 GAAGGGAGCTTACTAGAT
1 GAAGGGAGAAGAATGGAT
98457452 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
98457467 CCTGAAAGCT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.41, T:0.14
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:98460570 original size:26 final size:26
Alignment explanation
Indices: 98460534--98460641 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
98460524 CATGAAATTC
98460534 TTATCATGGAACATTTACCTAAACCA
1 TTATCATGGAACATTTACCTAAACCA
*
98460560 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAAACCA
* *
98460586 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGGAACATTTACCTAAACCA
98460612 TTATCATGGAACATTTACCT-AACCTA
1 TTATCATGGAACATTTACCTAAACC-A
98460638 TTAT
1 TTAT
98460642 TAATTTGTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAAACCA
Found at i:98461830 original size:18 final size:18
Alignment explanation
Indices: 98461796--98461831 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
98461786 ATAAAAATAA
* *
98461796 TTAAAAAAATCACAAATT
1 TTAAAAAAATAAAAAATT
98461814 TTAAAAAAATAAAAAATT
1 TTAAAAAAATAAAAAATT
98461832 AAATATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
TTAAAAAAATAAAAAATT
Found at i:98470912 original size:15 final size:15
Alignment explanation
Indices: 98470892--98470923 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
98470882 ATTACACATG
98470892 AAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAGA
*
98470907 AAAAAAAAGAAAAGA
1 AAAAAAAAAAAAAGA
98470922 AA
1 AA
98470924 GAATTGCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAGA
Found at i:98472035 original size:14 final size:15
Alignment explanation
Indices: 98472016--98472072 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
98472006 AATCTTTAAG
98472016 GATATG-CAATCTTA
1 GATATGACAATCTTA
98472030 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
98472047 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
98472066 GATATGA
1 GATATGA
98472073 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:98472057 original size:36 final size:38
Alignment explanation
Indices: 98472016--98472094 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
98472006 AATCTTTAAG
98472016 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
98472052 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
98472092 GAT
1 GAT
98472095 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
40 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:98472063 original size:19 final size:19
Alignment explanation
Indices: 98472016--98472094 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
98472006 AATCTTTAAG
98472016 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
98472035 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
98472052 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
98472071 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
98472092 GAT
1 GAT
98472095 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:98474093 original size:25 final size:25
Alignment explanation
Indices: 98474059--98474124 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
98474049 GTAACAAAAT
**
98474059 TAATAATAAAATAAAAATTATATAA
1 TAATAATAAAATAAAAACAATATAA
*
98474084 TAATAATAAAATAATAACAATATAA
1 TAATAATAAAATAAAAACAATATAA
*
98474109 TAA-AATACTAATAAAA
1 TAATAATA-AAATAAAA
98474125 TAATGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 4 0.11
25 31 0.89
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (25 bp):
TAATAATAAAATAAAAACAATATAA
Found at i:98474095 original size:19 final size:19
Alignment explanation
Indices: 98474054--98474114 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
98474044 AAATAGTAAC
98474054 AAAATTA-ATAATAA-AAT
1 AAAATTATATAATAATAAT
98474071 AAAAATTATATAATAATAAT
1 -AAAATTATATAATAATAAT
* *
98474091 AAAATAATAACAAT-ATAAT
1 AAAATTAT-ATAATAATAAT
98474110 AAAAT
1 AAAAT
98474115 ACTAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 7 0.18
19 24 0.63
20 7 0.18
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATTATATAATAATAAT
Found at i:98474096 original size:11 final size:11
Alignment explanation
Indices: 98474042--98474128 Score: 79
Period size: 11 Copynumber: 7.8 Consensus size: 11
98474032 TAAATAAATC
*
98474042 TAAAATAGTAA
1 TAAAATAATAA
*
98474053 CAAAATTAATAA
1 TAAAA-TAATAA
*
98474065 TAAAATAAAAA
1 TAAAATAATAA
* *
98474076 TTATATAATAA
1 TAAAATAATAA
98474087 TAATAA-AATAA
1 TAA-AATAATAA
98474098 TAACAAT-ATAA
1 TAA-AATAATAA
*
98474109 TAAAATACTAA
1 TAAAATAATAA
98474120 TAAAATAAT
1 TAAAATAAT
98474129 GAAAAAAAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
10 3 0.05
11 47 0.78
12 10 0.17
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:98474127 original size:19 final size:18
Alignment explanation
Indices: 98474061--98474133 Score: 69
Period size: 19 Copynumber: 3.9 Consensus size: 18
98474051 AACAAAATTA
*
98474061 ATAATAAAATAA-AAATT
1 ATAATAAAATAATAAAAT
98474078 AT-ATAATAATAATAAAAT
1 ATAATAA-AATAATAAAAT
* *
98474096 AATAACAATATAATAAAAT
1 -ATAATAAAATAATAAAAT
98474115 ACTAATAAAATAATGAAAA
1 A-TAATAAAATAAT-AAAA
98474134 AAAACTAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
16 4 0.09
17 7 0.16
18 5 0.11
19 22 0.49
20 7 0.16
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (18 bp):
ATAATAAAATAATAAAAT
Found at i:98477134 original size:28 final size:28
Alignment explanation
Indices: 98477094--98477149 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
98477084 GGATATTTTC
98477094 TTCAAGGTATAGCTAAAGATGCATTGAA
1 TTCAAGGTATAGCTAAAGATGCATTGAA
98477122 TTCAAGGTATAGCTAAAGATGCATTGAA
1 TTCAAGGTATAGCTAAAGATGCATTGAA
98477150 CTTGTTCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (28 bp):
TTCAAGGTATAGCTAAAGATGCATTGAA
Found at i:98477333 original size:13 final size:13
Alignment explanation
Indices: 98477315--98477340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98477305 GCACAACATG
98477315 GACATTAAAGGTT
1 GACATTAAAGGTT
98477328 GACATTAAAGGTT
1 GACATTAAAGGTT
98477341 TATGTAAAAG
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:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
GACATTAAAGGTT
Found at i:98477420 original size:26 final size:26
Alignment explanation
Indices: 98477384--98477438 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
98477374 CCTTCTTACA
98477384 TACGATCAATTTTGAGGATTAATTGT
1 TACGATCAATTTTGAGGATTAATTGT
98477410 TACGATCAATTTTGAGGATTAATTGT
1 TACGATCAATTTTGAGGATTAATTGT
98477436 TAC
1 TAC
98477439 ACCTCAAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (26 bp):
TACGATCAATTTTGAGGATTAATTGT
Found at i:98477433 original size:13 final size:13
Alignment explanation
Indices: 98477391--98477433 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
98477381 ACATACGATC
98477391 AATTTTGAGGATT
1 AATTTTGAGGATT
* *
98477404 AATTGTT-ACGATC
1 AATT-TTGAGGATT
98477417 AATTTTGAGGATT
1 AATTTTGAGGATT
98477430 AATT
1 AATT
98477434 GTTACACCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (13 bp):
AATTTTGAGGATT
Found at i:98479014 original size:5 final size:5
Alignment explanation
Indices: 98479000--98479031 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
98478990 AAGTAAATAC
98479000 AAAA- AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
98479032 GTGAAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:98480104 original size:19 final size:19
Alignment explanation
Indices: 98480076--98480113 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
98480066 TTTTCAAGTG
*
98480076 CATAACTAGTATTACACCA
1 CATAACTAGTACTACACCA
*
98480095 CATAATTAGTACTACACCA
1 CATAACTAGTACTACACCA
98480114 TATTAAAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
CATAACTAGTACTACACCA
Found at i:98481853 original size:4 final size:4
Alignment explanation
Indices: 98481846--98481915 Score: 58
Period size: 4 Copynumber: 17.2 Consensus size: 4
98481836 GAATAAATAA
*
98481846 AAAG AAAG AAAG ATAG AAACG AAACAG AAAG -AA- AAAG AAAG AAAG AAA-
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
98481894 AAA- AAAGG AAAG AAATG AAAG A
1 AAAG AAA-G AAAG AAA-G AAAG A
98481916 GAAAGCCACG
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
3 10 0.18
4 32 0.57
5 10 0.18
6 3 0.05
7 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.21, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:98481908 original size:33 final size:34
Alignment explanation
Indices: 98481840--98481920 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
98481830 AATAAAGAAT
* * *
98481840 AAAT-AAAAAGAAAGAAAGATAGAAACGAAACAG
1 AAATGAAAAAGAAAGAAAGAAAAAAAAGAAACAG
*
98481873 AAA-GAAAAAGAAAGAAAGAAAAAAAAAGGAA-AG
1 AAATGAAAAAGAAAGAAAG-AAAAAAAAGAAACAG
*
98481906 AAATGAAAGAGAAAG
1 AAATGAAAAAGAAAG
98481921 CCACGGCCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
33 22 0.55
34 18 0.45
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (34 bp):
AAATGAAAAAGAAAGAAAGAAAAAAAAGAAACAG
Found at i:98482629 original size:24 final size:24
Alignment explanation
Indices: 98482585--98482632 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
98482575 ATTTAAATGG
98482585 ATTGATTTAGTATGTGATGAATTT
1 ATTGATTTAGTATGTGATGAATTT
98482609 ATTGAATTTA-TAT-TGATTGAATTT
1 ATTG-ATTTAGTATGTGA-TGAATTT
98482633 GTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (24 bp):
ATTGATTTAGTATGTGATGAATTT
Found at i:98483035 original size:46 final size:46
Alignment explanation
Indices: 98482984--98483076 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
98482974 GTGAAATATG
98482984 TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
1 TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
98483030 TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
1 TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
98483076 T
1 T
98483077 GGAATGGATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (46 bp):
TTGCAAATATATGGAAAATATCAGTTATATATTCATGAAATGACTA
Found at i:98483070 original size:22 final size:22
Alignment explanation
Indices: 98482999--98483070 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
98482989 AATATATGGA
98482999 AAATATCAGTTATATATTCATG
1 AAATATCAGTTATATATTCATG
*
98483021 AAATGA-CTA-TTGCAAATA-T-ATGG
1 AAAT-ATC-AGTT--ATATATTCAT-G
98483044 AAAATATCAGTTATATATTCATG
1 -AAATATCAGTTATATATTCATG
98483067 AAAT
1 AAAT
98483071 GACTATGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 20
0.63 0.03 0.33
Matches are distributed among these distances:
22 17 0.45
23 8 0.21
24 13 0.34
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (22 bp):
AAATATCAGTTATATATTCATG
Found at i:98494065 original size:19 final size:20
Alignment explanation
Indices: 98494030--98494069 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
98494020 AATTTTGCAT
98494030 AAATAAAAATCCTAATCTAA
1 AAATAAAAATCCTAATCTAA
98494050 AAAT-AAAA-CCTCAATCTAA
1 AAATAAAAATCCT-AATCTAA
98494069 A
1 A
98494070 TCTTGTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 12 0.63
20 4 0.21
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAAAAATCCTAATCTAA
Found at i:98497076 original size:19 final size:20
Alignment explanation
Indices: 98497041--98497080 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
98497031 AATCTTGCAT
98497041 AAATAAAAATCCTAATCTAA
1 AAATAAAAATCCTAATCTAA
98497061 AAAT-AAAA-CCTAAATCTAA
1 AAATAAAAATCCT-AATCTAA
98497080 A
1 A
98497081 TCTTGCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 12 0.63
20 4 0.21
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAAAAATCCTAATCTAA
Found at i:98497478 original size:21 final size:21
Alignment explanation
Indices: 98497440--98497480 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
98497430 TAACGGGAGC
*
98497440 GCTGACGTGGCAAGTTAACTA
1 GCTGACGTGCCAAGTTAACTA
98497461 GCTGACGTGACCAA-TTAACT
1 GCTGACGTG-CCAAGTTAACT
98497481 TCCCACGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (21 bp):
GCTGACGTGCCAAGTTAACTA
Found at i:98498677 original size:11 final size:11
Alignment explanation
Indices: 98498644--98498688 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
98498634 TCTCCTCCTC
98498644 TTCTTTTTCTT
1 TTCTTTTTCTT
* *
98498655 CTCTATTTCTT
1 TTCTTTTTCTT
98498666 TTCTTTTTCTT
1 TTCTTTTTCTT
98498677 TT-TTTTTCTT
1 TTCTTTTTCTT
98498687 TT
1 TT
98498689 TTTCTTCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 10 0.33
11 20 0.67
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:98498684 original size:10 final size:10
Alignment explanation
Indices: 98498660--98498696 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
98498650 TTCTTCTCTA
98498660 TTTCTTTTCTT
1 TTTCTTTT-TT
98498671 TTTCTTTTTT
1 TTTCTTTTTT
98498681 TTTCTTTTTT
1 TTTCTTTTTT
98498691 TCTTCT
1 T-TTCT
98498697 ACTGTCCAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 13 0.52
11 12 0.48
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:98499827 original size:39 final size:39
Alignment explanation
Indices: 98499781--98499869 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
98499771 AACCCGAAAT
* *
98499781 CTAACTGAAGCATATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAAAGG
*
98499820 CTAACTGAAGCACATAAGTGCTAAACGGAAGCTCAAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAAAGG
98499859 CTAACTGAAGC
1 CTAACTGAAGC
98499870 TCATCAGAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (39 bp):
CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCAAAGG
Found at i:98499887 original size:21 final size:19
Alignment explanation
Indices: 98499781--98499888 Score: 78
Period size: 21 Copynumber: 5.5 Consensus size: 19
98499771 AACCCGAAAT
98499781 CTAACTGAAGCAT-ATAAGTG
1 CTAACTGAAGC-TCATAAG-G
* **
98499801 CTAAACGGAAGC-CCGAAGG
1 CT-AACTGAAGCTCATAAGG
*
98499820 CTAACTGAAGCACATAAGTG
1 CTAACTGAAGCTCATAAG-G
*
98499840 CTAAACGGAAGCTCA-AAGG
1 CT-AACTGAAGCTCATAAGG
*
98499859 CTAACTGAAGCTCATCAGAG
1 CTAACTGAAGCTCATAAG-G
98499879 CTGAACTGAA
1 CT-AACTGAA
98499889 ACCCCAAAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
18 19 0.27
19 12 0.17
20 14 0.20
21 25 0.36
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (19 bp):
CTAACTGAAGCTCATAAGG
Found at i:98504700 original size:52 final size:52
Alignment explanation
Indices: 98504544--98504703 Score: 180
Period size: 52 Copynumber: 3.1 Consensus size: 52
98504534 CGGATCACAT
* * *
98504544 ATCATACCGATGCCATATCCCAAATATGGTCTTATACGGAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAACTATGGTCTTATACGGAAGCACA-TATCAC
* * *
98504597 ATCACACCGATGCCATAGCTCAACTATGGTCTTATACGGGAACGC-GA-ATCAC
1 ATCATACCGATGCCATAGCCCAACTATGGTCTTATAC-GGAA-GCACATATCAC
** * * *
98504649 ATTGTACCAATGCCATAGCCCAGCTATGGTCTTATACGGAAGCATATATCAC
1 ATCATACCGATGCCATAGCCCAACTATGGTCTTATACGGAAGCACATATCAC
98504701 ATC
1 ATC
98504704 TTTTCCATCA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
50 2 0.02
51 5 0.06
52 43 0.48
53 33 0.37
54 5 0.06
55 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAACTATGGTCTTATACGGAAGCACATATCAC
Found at i:98516013 original size:22 final size:23
Alignment explanation
Indices: 98515988--98516033 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
98515978 CAACCAAACC
98515988 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
98516010 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
98516033 A
1 A
98516034 CGCCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:98517036 original size:42 final size:42
Alignment explanation
Indices: 98516972--98517098 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
98516962 CTTCGTTTTC
* *
98516972 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCTCAACTATGGTCTTACACATATTCACAT-A
* * *
98517015 T-GATGCCATAGCCCAATTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCTCAACTATGGTCTTACACATATTCACATA
* * *
98517056 TCAATGCCATAGCTTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCTCAACTATGGTCTTACAC-ATATTCACATA
98517097 TC
1 TC
98517099 TCACTGATGC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 10 0.14
42 59 0.83
43 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCTCAACTATGGTCTTACACATATTCACATA
Found at i:98517233 original size:31 final size:31
Alignment explanation
Indices: 98517198--98517315 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
98517188 CTTGTCACTT
*
98517198 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
98517229 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
98517260 GTAGCAGAAGCTACCACTTTTCACTGAACAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
98517291 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
98517316 TGTCATTTGT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:98517396 original size:50 final size:50
Alignment explanation
Indices: 98517291--98517467 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
98517281 CACTGAACAG
* * *
98517291 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
98517342 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
98517392 GTAGCCGAAGCTATTACTTATCACTTTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
98517442 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
98517468 GTTGCCATGG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 94 0.80
51 24 0.20
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:98527045 original size:22 final size:23
Alignment explanation
Indices: 98527020--98527065 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
98527010 CAACCAAACC
98527020 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
98527042 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
98527065 A
1 A
98527066 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:98527071 original size:23 final size:23
Alignment explanation
Indices: 98527027--98527071 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
98527017 ACCAATTCAA
*
98527027 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
98527050 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
98527072 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:98537372 original size:26 final size:25
Alignment explanation
Indices: 98537328--98537383 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
98537318 AAATTTATAT
*
98537328 TAATAATATTAATATTAAATAAATA
1 TAATAATATTAATACTAAATAAATA
* **
98537353 TAATTATATTAATTACTAAATTGATA
1 TAATAATATTAA-TACTAAATAAATA
98537379 TAATA
1 TAATA
98537384 TGTTGAGGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TAATAATATTAATACTAAATAAATA
Found at i:98541309 original size:20 final size:20
Alignment explanation
Indices: 98541284--98541322 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
98541274 AATCCCCACT
98541284 TAATAATAA-AATATTTATAA
1 TAATAATAATAAT-TTTATAA
98541304 TAATAATAATAATTTTATA
1 TAATAATAATAATTTTATA
98541323 TTTTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATAATAATAATTTTATAA
Found at i:98541439 original size:6 final size:6
Alignment explanation
Indices: 98541317--98541427 Score: 213
Period size: 6 Copynumber: 18.3 Consensus size: 6
98541307 TAATAATAAT
98541317 TTTATA TTTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA -TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
98541366 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
98541414 TTTATA TTTATA TT
1 TTTATA TTTATA TT
98541428 ATTAATATTA
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
6 98 0.94
7 6 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:98552136 original size:30 final size:30
Alignment explanation
Indices: 98552100--98552159 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
98552090 GGATATTCGA
98552100 TTATTTTAAGCAAACGCGAAATTGCAACCC
1 TTATTTTAAGCAAACGCGAAATTGCAACCC
98552130 TTATTTTAAGCAAACGCGAAATTGCAACCC
1 TTATTTTAAGCAAACGCGAAATTGCAACCC
98552160 AACACATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (30 bp):
TTATTTTAAGCAAACGCGAAATTGCAACCC
Found at i:98552586 original size:14 final size:14
Alignment explanation
Indices: 98552567--98552596 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98552557 AACACGACAC
98552567 AAAAATAATGGACT
1 AAAAATAATGGACT
*
98552581 AAAAATGATGGACT
1 AAAAATAATGGACT
98552595 AA
1 AA
98552597 CAATCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (14 bp):
AAAAATAATGGACT
Found at i:98553514 original size:19 final size:19
Alignment explanation
Indices: 98553479--98553521 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
98553469 TTAATATAAA
*
98553479 GTTTAAAATAACTAAAATG
1 GTTTAAAATAACTAAAAAG
*
98553498 GTTTGAAATAAAC-AAAAAG
1 GTTTAAAAT-AACTAAAAAG
98553517 GTTTA
1 GTTTA
98553522 TATCACATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (19 bp):
GTTTAAAATAACTAAAAAG
Found at i:98555412 original size:75 final size:73
Alignment explanation
Indices: 98555301--98555472 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
98555291 GGTTTTCCTC
* * * * **
98555301 ATTGAAATACCATACCTACATTTTACAACTCGGTATGGGA-AATGCGATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
98555365 TCAGTATGG
65 TCAGTATGG
* *
98555374 ATTTGATAATACCATACCTACATATCACAACTCAGTATGGATGATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
98555439 CTCAGTATGG
64 CTCAGTATGG
98555449 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
98555473 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
70 20 0.23
73 3 0.03
74 7 0.08
75 57 0.66
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:98555484 original size:35 final size:35
Alignment explanation
Indices: 98555307--98555472 Score: 199
Period size: 35 Copynumber: 4.6 Consensus size: 35
98555297 CCTCATTGAA
* * *
98555307 ATACCATACCTACATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
* * **
98555342 ATGCGATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
*
98555379 ATAATACCATACCTACATATCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
98555417 ATACCATACCTACATTTCACAACTCAGTATGGATG
1 ATACCATACCTACATTTCACAACTCAGTATGGATG
98555452 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
98555473 CTTTGCCATG
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 3 0.03
35 79 0.71
38 2 0.02
40 28 0.25
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:98557577 original size:3 final size:3
Alignment explanation
Indices: 98557569--98557652 Score: 150
Period size: 3 Copynumber: 28.0 Consensus size: 3
98557559 ACAATACATT
*
98557569 TTC TTC TTC TTC TTC TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
98557617 TTC TTC TTC TTC TTC TTC TTC TTC TAC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
98557653 ATGACCAAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:98559829 original size:43 final size:43
Alignment explanation
Indices: 98559752--98559899 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
98559742 TATTGAGATG
* ** * *
98559752 TGATTACATGTAAGACCCTGTGTGAAATAGTGGCATTGTACTA
1 TGATTACATGTAAGACCATGTGTGGGACAGTGGCATCGTACTA
* *
98559795 TGATTACGTGTAAGACCATGTGTGGGACATTGGCATCGT--TAA
1 TGATTACATGTAAGACCATGTGTGGGACAGTGGCATCGTACT-A
* * * * *
98559837 TCGATTTCGTATAAGACCCTGTGTGGGACAGTGGCATCGATAC-G
1 T-GATTACATGTAAGACCATGTGTGGGACAGTGGCATCG-TACTA
*
98559881 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
98559900 ATCAAGGATA
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 78 0.94
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTGTGGGACAGTGGCATCGTACTA
Found at i:98567827 original size:49 final size:49
Alignment explanation
Indices: 98567774--98568005 Score: 268
Period size: 49 Copynumber: 4.7 Consensus size: 49
98567764 CTGTTACGCA
* *
98567774 TAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
* * **
98567823 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTAG-TACACG
* * * ** * *
98567873 TAGTAGCCTGCGCTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTAGTACACG
* *
98567924 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
* *
98567973 TAGTAACCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
98568006 TCATAATAGA
Statistics
Matches: 153, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
49 70 0.46
50 46 0.30
51 36 0.24
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTAGTACACG
Found at i:98567948 original size:101 final size:98
Alignment explanation
Indices: 98567774--98568005 Score: 286
Period size: 100 Copynumber: 2.3 Consensus size: 98
98567764 CTGTTACGCA
* * * *
98567774 TAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAGTAGCCTGCACTTA
1 TAGTAACCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACATAGTAGCCTGCACTTA
* * *
98567839 GTATTACACACGTGACCTAACCAT-CTGATACACG
66 GTACTACACACGCGACC-AACCATCCAG-TACACG
* * * * *
98567873 TAGTAGCCTGCGCTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAACCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGAGTACACATAGTAGCCTGCACT
* **
98567938 TAGTACTACACATGCGACCAATTATCCAGTACACG
64 TAGTACTACACACGCGACCAACCATCCAGTACACG
98567973 TAGTAACCTGCACTTAGTACTACACACGTGACC
1 TAGTAACCTGCACTTAGTACTACACACGTGACC
98568006 TCATAATAGA
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
99 28 0.25
100 42 0.38
101 42 0.38
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAACCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCAGTACACG
Found at i:98569367 original size:13 final size:13
Alignment explanation
Indices: 98569351--98569375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98569341 CGAATGAAAT
98569351 TTTCATGAAATCA
1 TTTCATGAAATCA
98569364 TTTCATGAAATC
1 TTTCATGAAATC
98569376 GTAGACCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTCATGAAATCA
Found at i:98571784 original size:33 final size:34
Alignment explanation
Indices: 98571745--98571810 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
98571735 TGTAATAATG
* *
98571745 ATATATACACAATATGGCA-TTAAGAATATATAT
1 ATATATACACAATATAGCATTTAAAAATATATAT
* *
98571778 ATATATATACAATATAGTATTTAAAAATATATA
1 ATATATACACAATATAGCATTTAAAAATATATA
98571811 CATAAGATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATATACACAATATAGCATTTAAAAATATATAT
Found at i:98572171 original size:26 final size:26
Alignment explanation
Indices: 98572133--98572182 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
98572123 AATAATAAAT
** *
98572133 AAAATATGGTATTAAGAGTATATATA
1 AAAATATAATATTAAAAGTATATATA
98572159 AAAATATAATATTAAAAGTATATA
1 AAAATATAATATTAAAAGTATATA
98572183 CATAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (26 bp):
AAAATATAATATTAAAAGTATATATA
Found at i:98572196 original size:16 final size:15
Alignment explanation
Indices: 98572156--98572206 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
98572146 AAGAGTATAT
98572156 ATAAAA-ATATAATA
1 ATAAAATATATAATA
*
98572170 TTAAAAGTATATACATA
1 ATAAAA-TATATA-ATA
*
98572187 ATAAAATATAGAA-A
1 ATAAAATATATAATA
98572201 ATAAAA
1 ATAAAA
98572207 AATACATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 12 0.39
15 1 0.03
16 10 0.32
17 8 0.26
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (15 bp):
ATAAAATATATAATA
Found at i:98572376 original size:3 final size:3
Alignment explanation
Indices: 98572370--98572412 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
98572360 CATATACTAG
* *
98572370 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA -CA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
98572413 CATAAAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 3 0.09
3 31 0.91
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:98574921 original size:19 final size:18
Alignment explanation
Indices: 98574883--98574921 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
98574873 TCTGACTTAT
*
98574883 AAAAAAAAGAAGAGGAAA
1 AAAAAAAAGAAAAGGAAA
98574901 AAAAACAAAGAAAAGGGAAA
1 AAAAA-AAAGAAAA-GGAAA
98574921 A
1 A
98574922 GGAGAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.77, C:0.03, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAGGAAA
Found at i:98576048 original size:27 final size:26
Alignment explanation
Indices: 98575985--98576114 Score: 143
Period size: 27 Copynumber: 4.8 Consensus size: 26
98575975 CAGCATGGCT
* *
98575985 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
98576011 ACCGGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
98576039 ACCAAAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
98576066 ACCAGATCAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
98576093 ACCAGATCAGATATTTGTGGCA
1 ACCAGAACAGATA-ATGTGGCA
98576115 TAGAACGCTT
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
26 5 0.05
27 73 0.78
28 15 0.16
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:98576077 original size:54 final size:55
Alignment explanation
Indices: 98575985--98576114 Score: 174
Period size: 54 Copynumber: 2.4 Consensus size: 55
98575975 CAGCATGGCT
* * *
98575985 ACCAGAACAGATA-ATGTGACAGAGTCACCGGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
* * *
98576039 ACCAAAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
* *
98576093 ACCAGATCAGATATTTGTGGCA
1 ACCAGAACAGATATATGTGGCA
98576115 TAGAACGCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
54 49 0.74
55 17 0.26
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (55 bp):
ACCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
Found at i:98577759 original size:26 final size:26
Alignment explanation
Indices: 98577723--98577806 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
98577713 CATGAAATTC
98577723 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
98577749 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
98577775 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
98577801 TTATCA
1 TTATCA
98577807 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:98578384 original size:22 final size:22
Alignment explanation
Indices: 98578354--98578400 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
98578344 TCTCCGATTA
*
98578354 TTAGTACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
* *
98578376 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCCGT
98578398 TTA
1 TTA
98578401 ATAATGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:98582555 original size:26 final size:26
Alignment explanation
Indices: 98582506--98582556 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
98582496 ATAATTAAAA
* *
98582506 ATTATATAATATATATAATGTTTATG
1 ATTATATAATATAAAGAATGTTTATG
98582532 ATTATATAATATAGAAGAAT-TTTAT
1 ATTATATAATATA-AAGAATGTTTAT
98582557 AAATATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (26 bp):
ATTATATAATATAAAGAATGTTTATG
Found at i:98582563 original size:26 final size:26
Alignment explanation
Indices: 98582508--98582563 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
98582498 AATTAAAAAT
* * * *
98582508 TATATAATATATATAATGTTTATGAT
1 TATATAATATAAAGAATGTTTATAAA
98582534 TATATAATATAGAAGAAT-TTTATAAA
1 TATATAATATA-AAGAATGTTTATAAA
98582560 TATA
1 TATA
98582564 ATTAATATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (26 bp):
TATATAATATAAAGAATGTTTATAAA
Found at i:98585156 original size:131 final size:130
Alignment explanation
Indices: 98584927--98585434 Score: 500
Period size: 131 Copynumber: 3.9 Consensus size: 130
98584917 GTGAAATTTC
* * * * * * *
98584927 GAAGAGATATTCGATTGTTTAGAACAAACGAGAGATTGCAACCCAGCGCGATAGGGCACGATTCT
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCC
* * * * **
98584992 CGAATTGCCAAACATCGAACATAGCTTTTGTTTTAAAGGGTTTTTAATAAACATGAGTGAAAATC
66 CGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAA-AAACATGAGTGAAAATC
98585057 T
130 T
* * ** ** * *
98585058 AAAGGAATATTCGATCGTTTTGAACAAACGAGAAATTATAACCCAGCACGATAGGGCATGATTCC
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCC
* ** * * * * * *
98585123 CGAATTGTCAAACGCCGAATATTGCCTTCGTTTTAGAGGATTTTTAGAAGACCTGAATG-GAATC
66 CGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTA-AAAACATGAGTGAAAATC
98585187 T
130 T
* * *
98585188 CGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACAC-ATTAGGGTACGATT
1 -GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA-TAGGGCACGATT
* * * *
98585252 CTGCGAATTGCCAAATATCGAACT-TTGCATTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAA
64 C-CCGAATTGCCAAACATCGAA-TATTGCCTTCGTTTTAAAGAATTTTTAAAA-ACATGAGTGAA
* *
98585316 AGTTT
126 AATCT
* * * * *
98585321 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCC
1 GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCC
* * *
98585386 GCGAATTGCCAAATATCGAATCTTGTCTTCGTTTTAAAGAATTTTTAAA
66 -CGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAA
98585435 TGTATAATCA
Statistics
Matches: 308, Mismatches: 59, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
130 6 0.02
131 153 0.50
132 145 0.47
133 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (130 bp):
GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCC
CGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAGAATTTTTAAAAACATGAGTGAAAATCT
Found at i:98585337 original size:132 final size:130
Alignment explanation
Indices: 98584915--98585434 Score: 510
Period size: 132 Copynumber: 4.0 Consensus size: 130
98584905 TAGAAAATAC
* * * * * *
98584915 GAGTGAAATTTCGAAGAGATATTCGATTGTTTAGAACAAACGAGAGATTGCAACCCAGCGCGATA
1 GAGTGAAATTT-GAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * **
98584980 GGGCACGATTCT-CGAATTGCCAAACATCGAACATAGCTTTTGTTTTAAAGGGTTTTTAATAA-A
65 GGGCACGATTCTGCGAATTGCCAAACATCGAATATTGC-TTCGTTTTAAAGAATTTTTAA-AAGA
98585043 CAT
128 CAT
* * * ** ** *
98585046 GAGTGAAAATCTAAAGGAATATTCGATCGTTTTGAACAAACGAGAAATTATAACCCAGCACGATA
1 GAGTG-AAATTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * ** * * *
98585111 GGGCATGATTC-CCGAATTGTCAAACGCCGAATATTGCCTTCGTTTTAGAGGATTTTTAGAAGAC
65 GGGCACGATTCTGCGAATTGCCAAACATCGAATATTG-CTTCGTTTTAAAGAATTTTTAAAAGAC
*
98585175 CT
129 AT
* * * * *
98585177 GAATGGAATCTCGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACAC-ATT
1 GAGTGAAAT-TTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA-T
* *
98585241 AGGGTACGATTCTGCGAATTGCCAAATATCGAACT-TTGCATTCGTTTTAAAGAATTTTTAAAAG
64 AGGGCACGATTCTGCGAATTGCCAAACATCGAA-TATTGC-TTCGTTTTAAAGAATTTTTAAAAG
*
98585305 GCAT
127 ACAT
* * * *
98585309 GAGTGAAAGTTTGAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTA
1 GAGTGAAA-TTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATA
* * * *
98585374 GGGCACTATTCCGCGAATTGCCAAATATCGAATCTTGTCTTCGTTTTAAAGAATTTTTAAA
65 GGGCACGATTCTGCGAATTGCCAAACATCGAATATTG-CTTCGTTTTAAAGAATTTTTAAA
98585435 TGTATAATCA
Statistics
Matches: 320, Mismatches: 56, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
130 6 0.02
131 155 0.48
132 156 0.49
133 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (130 bp):
GAGTGAAATTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAG
GGCACGATTCTGCGAATTGCCAAACATCGAATATTGCTTCGTTTTAAAGAATTTTTAAAAGACAT
Found at i:98590814 original size:72 final size:73
Alignment explanation
Indices: 98590729--98590870 Score: 214
Period size: 73 Copynumber: 2.0 Consensus size: 73
98590719 TTAAAATAAT
* *
98590729 ATATCTTCATAATTCAATTATTTAAATTT-GTTCTTGTTTTATCCCAATACAGTTTTTGCCTTCA
1 ATATCTTCATAATTCAATTATTTAAATTTAGTTCTTGTTTTATCCAAATACACTTTTTGCCTTCA
98590793 AAAATCAC
66 AAAATCAC
** * * *
98590801 ATATCTTGTTAATTTAATTATTTAAATTTATTTTTTGTTTTATCCAAATACACTTTTTGCCTTCA
1 ATATCTTCATAATTCAATTATTTAAATTTAGTTCTTGTTTTATCCAAATACACTTTTTGCCTTCA
98590866 AAAAT
66 AAAAT
98590871 TAAAAGAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 26 0.42
73 36 0.58
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (73 bp):
ATATCTTCATAATTCAATTATTTAAATTTAGTTCTTGTTTTATCCAAATACACTTTTTGCCTTCA
AAAATCAC
Found at i:98597081 original size:32 final size:34
Alignment explanation
Indices: 98597045--98597109 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
98597035 TAATAGTGGT
*
98597045 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
98597077 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
98597110 TGGCCTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:98598978 original size:26 final size:26
Alignment explanation
Indices: 98598942--98599049 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
98598932 TGAAATGCCC
* *
98598942 ATCATGGAACATTTACCTAAACTATT
1 ATCATGGAACATTTACCTAACCCATT
98598968 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
98598994 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
98599020 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
98599046 ATCA
1 ATCA
98599050 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:98600940 original size:12 final size:13
Alignment explanation
Indices: 98600922--98600961 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
98600912 TTTAAAATTC
98600922 AAAAA-TTATAAA
1 AAAAAGTTATAAA
* *
98600934 CAAAATTTATAAA
1 AAAAAGTTATAAA
98600947 AAAAAGTTATAAA
1 AAAAAGTTATAAA
98600960 AA
1 AA
98600962 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAAAGTTATAAA
Found at i:98604010 original size:46 final size:46
Alignment explanation
Indices: 98603912--98604035 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
98603902 TAGATCAATG
* * *
98603912 ATACAAATCTTATACCCCTGTGTTGCAGTGGGATGGATTGAAGATG
1 ATACAAATCTTATATCCCTGAGTTGCAGTGGGATGGATTGAAGATA
* *
98603958 ATACAAATCCTATATCCCTGAGTTGTAGTGGGATGGA-TGAAAGA-A
1 ATACAAATCTTATATCCCTGAGTTGCAGTGGGATGGATTG-AAGATA
* *
98604003 ATCACAAATTTTATCTCCCTGAAGTTGCAGTGG
1 AT-ACAAATCTTATATCCCTG-AGTTGCAGTGG
98604036 AGCATATCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
45 4 0.06
46 52 0.79
47 10 0.15
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (46 bp):
ATACAAATCTTATATCCCTGAGTTGCAGTGGGATGGATTGAAGATA
Found at i:98604072 original size:50 final size:50
Alignment explanation
Indices: 98604007--98604181 Score: 182
Period size: 50 Copynumber: 3.6 Consensus size: 50
98603997 AAAGAAATCA
*
98604007 CAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
* * * * *
98604057 CGAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTGAAG----C--CG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
* * * * * * *
98604101 CAAATTTTATCTCCTTAAAGTCGTAGTGGAGCATATCAAATTTATCATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
*
98604151 CAAATCTTATCTCCTTGAAGTTGCAGTGGAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG
98604182 TAGATTAAAG
Statistics
Matches: 97, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
44 31 0.32
46 1 0.01
48 1 0.01
50 64 0.66
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (50 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGG
Found at i:98604110 original size:94 final size:94
Alignment explanation
Indices: 98604005--98604216 Score: 280
Period size: 94 Copynumber: 2.3 Consensus size: 94
98603995 TGAAAGAAAT
* *
98604005 CACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCATGGCGAATCTTATCTC
1 CACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATCAAAGTTATCATGGCAAATCTTATCTC
* *
98604070 CCTGAAGTTGCGGTGGAGCAGATTGAAGC
66 CCTGAAGTTGCAGTGGAGCAGATTAAAGC
* * * * * *
98604099 CGCAAATTTTATCTCCTTAAAGTCGTAGTGGAGCATATCAAATTTATCATGGCAAATCTTATCTC
1 CACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATCAAAGTTATCATGGCAAATCTTATCTC
* *
98604164 CTTGAAGTTGCAGTGGAGTAGATTAAAGC
66 CCTGAAGTTGCAGTGGAGCAGATTAAAGC
* ** *
98604193 CACGAACCTTATCTCTCTGAAGTT
1 CACAAATTTTATCTCCCTGAAGTT
98604217 ACAATGGACC
Statistics
Matches: 98, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 98 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (94 bp):
CACAAATTTTATCTCCCTGAAGTTGCAGTGGAGCATATCAAAGTTATCATGGCAAATCTTATCTC
CCTGAAGTTGCAGTGGAGCAGATTAAAGC
Found at i:98604494 original size:45 final size:45
Alignment explanation
Indices: 98604433--98604583 Score: 121
Period size: 45 Copynumber: 3.4 Consensus size: 45
98604423 AGCCATTAAC
* * ** *
98604433 CTTATCTCCTTGAAGTTTTAATGGAGCAGGTTGAAGATAGCAAAT
1 CTTATCTCCCTAAAGTTCAAATGGAGCAGATTGAAGATAGCAAAT
* **
98604478 CTTATCTCCCTAAAGTTGC-AGTGGAGCAGATTGAAGCCA-CAAA-
1 CTTATCTCCCTAAAGTT-CAAATGGAGCAGATTGAAGATAGCAAAT
* * * *
98604521 CATTATCTCCCTGAAGTTGCAAAT-GTGTAGACTGAAGATAGCAAAT
1 C-TTATCTCCCTAAAGTT-CAAATGGAGCAGATTGAAGATAGCAAAT
* *
98604567 CTTATTTTCCTAAAGTT
1 CTTATCTCCCTAAAGTT
98604584 GCAGGGAAGA
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.38
45 50 0.60
46 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (45 bp):
CTTATCTCCCTAAAGTTCAAATGGAGCAGATTGAAGATAGCAAAT
Found at i:98604537 original size:89 final size:89
Alignment explanation
Indices: 98604386--98604601 Score: 256
Period size: 89 Copynumber: 2.4 Consensus size: 89
98604376 TATCATGGCG
* * * ** * *
98604386 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATGGAAGCCATTAACCTTATCTCCTTGAAGTT-
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACATTATCTCCCTGAAGTTG
** **
98604450 TTAATGGAGCAGGTTGAAGATAGCA
66 CAAAT-GAGCAGACTGAAGATAGCA
98604475 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACATTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACATTATCTCCCTGAAGTTG
* *
98604540 CAAATGTGTAGACTGAAGATAGCA
66 CAAATGAGCAGACTGAAGATAGCA
* * *
98604564 AATCTTATTTTCCTAAAGTTGCAG-GGAAGAAGATTGAA
1 AATCTTATCTCCCTAAAGTTGCAGTGG-AGCAGATTGAA
98604602 AATACGAGCC
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
88 2 0.02
89 104 0.95
90 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (89 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACATTATCTCCCTGAAGTTG
CAAATGAGCAGACTGAAGATAGCA
Found at i:98604539 original size:44 final size:43
Alignment explanation
Indices: 98604389--98604541 Score: 162
Period size: 44 Copynumber: 3.5 Consensus size: 43
98604379 CATGGCGAAT
* * * *
98604389 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATGGAAGCCATTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAA
* ** * * **
98604433 CTTATCTCCTTGAAGTTTTAATGGAGCAGGTTGAAGATAGCAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CAAA
*
98604477 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAA
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAA
98604521 CATTATCTCCCTGAAGTTGCA
1 C-TTATCTCCCTGAAGTTGCA
98604542 AATGTGTAGA
Statistics
Matches: 86, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
43 1 0.01
44 54 0.63
45 31 0.36
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAA
Found at i:98604585 original size:45 final size:46
Alignment explanation
Indices: 98604452--98604586 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 46
98604442 TTGAAGTTTT
**
98604452 AATGGAGCAGGTTGAAGATAGCAAATCTTATCTCCCTAAAGTTGC-
1 AATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
* * ** *
98604497 AGTGGAGCAGATTGAAGCCA-CAAA-CATTATCTCCCTGAAGTTGCA
1 AATGGAGCAGACTGAAGATAGCAAATC-TTATCTCCCTAAAGTTGCA
* * * *
98604542 AAT-GTGTAGACTGAAGATAGCAAATCTTATTTTCCTAAAGTTGCA
1 AATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
98604587 GGGAAGAAGA
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.44
45 38 0.53
46 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (46 bp):
AATGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
Found at i:98604624 original size:89 final size:89
Alignment explanation
Indices: 98604464--98604630 Score: 210
Period size: 89 Copynumber: 1.9 Consensus size: 89
98604454 TGGAGCAGGT
* ** * *
98604464 TGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACAAACATTATCT
1 TGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAAACACAAACATCATAT
*
98604529 CCCTGAAGTTGCAAATGTGTAGAC
66 CACTGAAGTTGCAAATGTGTAGAC
* * * * * *
98604553 TGAAGATAGCAAATCTTATTTTCCTAAAGTTGCAG-GGAAGAAGATTGAAAATACGAGCCTCATA
1 TGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGG-AGAAGATTGAAAACACAAACATCATA
98604617 TCACTGAAGTTGCA
65 TCACTGAAGTTGCA
98604631 GTGGAGTAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
88 2 0.03
89 63 0.97
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (89 bp):
TGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAAACACAAACATCATAT
CACTGAAGTTGCAAATGTGTAGAC
Found at i:98606318 original size:52 final size:52
Alignment explanation
Indices: 98606262--98606361 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
98606252 GCTTATTTAT
*
98606262 TATTTATATATATATA-TTATTTTAAACAATTTTATATATTATTTATTTTAGG
1 TATTTATACATAT-TAGTTATTTTAAACAATTTTATATATTATTTATTTTAGG
* * * *
98606314 TATTTTTACATATTAGTTCTTTTAAACTATTTTATGTATTATTTATTT
1 TATTTATACATATTAGTTATTTTAAACAATTTTATATATTATTTATTT
98606362 AAAATTGCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.05
52 40 0.95
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (52 bp):
TATTTATACATATTAGTTATTTTAAACAATTTTATATATTATTTATTTTAGG
Found at i:98606346 original size:26 final size:26
Alignment explanation
Indices: 98606278--98606361 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
98606268 TATATATATA
* * *
98606278 TTATTTTAAACAATTTTATATATTAT
1 TTATTTTAAACTATTTTACATATTAG
**
98606304 TTATTTT-AGGTATTTTTACATATTAG
1 TTATTTTAAACTA-TTTTACATATTAG
* ** *
98606330 TTCTTTTAAACTATTTTATGTATTAT
1 TTATTTTAAACTATTTTACATATTAG
98606356 TTATTT
1 TTATTT
98606362 AAAATTGCTT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
25 2 0.05
26 39 0.89
27 3 0.07
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TTATTTTAAACTATTTTACATATTAG
Found at i:98606473 original size:26 final size:26
Alignment explanation
Indices: 98606439--98606508 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 26
98606429 TTATTTTTGC
*
98606439 ATTAGTTATTTTAAACTGTTTTACAT
1 ATTATTTATTTTAAACTGTTTTACAT
* * *
98606465 ATTATTTATTTTAAATATTTTTTATAT
1 ATTATTTATTTTAAA-CTGTTTTACAT
*
98606492 ATTATTTACTTTAAACT
1 ATTATTTATTTTAAACT
98606509 TATATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 15 0.41
27 22 0.59
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
ATTATTTATTTTAAACTGTTTTACAT
Found at i:98606698 original size:42 final size:41
Alignment explanation
Indices: 98606645--98606765 Score: 110
Period size: 42 Copynumber: 3.0 Consensus size: 41
98606635 ATTAAACTTT
*
98606645 TTTTTACACATTTTATATATTATTTATTGTAAATTTATTTTA
1 TTTTTAAACATTTTATATATTATTTATTGTAAA-TTATTTTA
* * *
98606687 TTTTTAAACATTTTATATGTTA-GT-TTG--AATTGTTTTA
1 TTTTTAAACATTTTATATATTATTTATTGTAAATTATTTTA
* * * *
98606724 -TTCTAAACCTTATATATATTATTTATT-TAAAATTATCTTA
1 TTTTTAAACATTTTATATATTATTTATTGT-AAATTATTTTA
98606764 TT
1 TT
98606766 ATTTGTTTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
36 17 0.27
37 8 0.13
38 4 0.06
40 11 0.18
41 2 0.03
42 20 0.32
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (41 bp):
TTTTTAAACATTTTATATATTATTTATTGTAAATTATTTTA
Found at i:98609825 original size:13 final size:15
Alignment explanation
Indices: 98609796--98609835 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
98609786 GATTGGAGGC
* *
98609796 TTTCAATTTTATTAT
1 TTTCAAATTTATTAA
98609811 TATTCAAATTTATTAA
1 T-TTCAAATTTATTAA
98609827 TTTCAAATT
1 TTTCAAATT
98609836 AGATAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTCAAATTTATTAA
Found at i:98617057 original size:9 final size:9
Alignment explanation
Indices: 98617043--98617069 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
98617033 AAAACCCTAA
98617043 ACCCTAGCC
1 ACCCTAGCC
98617052 ACCCTAGCC
1 ACCCTAGCC
98617061 ACCCTAGCC
1 ACCCTAGCC
98617070 TCTGACTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.56, G:0.11, T:0.11
Consensus pattern (9 bp):
ACCCTAGCC
Found at i:98621042 original size:11 final size:11
Alignment explanation
Indices: 98621026--98621053 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
98621016 GTTTCGTATT
98621026 TATTTACCTAA
1 TATTTACCTAA
98621037 TATTTACCTAA
1 TATTTACCTAA
98621048 TATTTA
1 TATTTA
98621054 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTTACCTAA
Found at i:98623422 original size:28 final size:29
Alignment explanation
Indices: 98623363--98623428 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
98623353 TTTTTATTTA
* *
98623363 TTTCACAAATTAACCCCTCAATTTACACT
1 TTTCTCAAATTAACCCCTCAATTGACACT
* * *
98623392 TTTCTCAATTTAATCCCT-AATTGACATT
1 TTTCTCAAATTAACCCCTCAATTGACACT
*
98623420 TTTGTCAAA
1 TTTCTCAAA
98623429 AATCACTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTCAATTGACACT
Found at i:98632915 original size:44 final size:44
Alignment explanation
Indices: 98632767--98633674 Score: 455
Period size: 44 Copynumber: 20.2 Consensus size: 44
98632757 TGGTAGAAAG
* * * * * * *
98632767 TCTTATCTCCTTGAAGTTGCAGTGGAGAATATTGAAGTTATAGA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* * * * * * *
98632811 TCTTATCTCCTTAAAGTTGTAGTGGAGTAGATCT-AAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT-TAAAGCTA-TAAA
* * * *
98632856 TCTTGTCTCTCTGAAGTTGCAGTAGAGCATATTAAAGCTATAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* * * * *
98632900 TCTTATCTTCCTGAAGTTGCGGTAGAGCAAATTGAAGTTATAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* * * *
98632944 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCT-AAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT-TAAAGCTA-TAAA
* * *
98632989 TCTTATCTCTCTGAAGTTACAGTAGAACAGATTAAAGCTATAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* * * * * * * *
98633033 -CATTATCTCTCTGAATTTGTAATAGAGCAGGTTGAAGTTATAGA
1 TC-TTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* * * * *
98633077 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGATAGTAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-TAAA
* * * * *
98633122 TATTATCTCTCTGAAGTTGCAGTAGAACAGAATAAAGCTATAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* * * * * * * * *
98633166 TATTATCTCCCTAAAGTTACAGTGGAGTAAACTGAAGATACT-AA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-TAAA
* * * * *
98633210 TCTTATCTCCCTGAAGTTGTAGTGGAGCATATTGAAGCTACTAAT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-TAAA
* *
98633255 TC-TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAG-TGACAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCT-ATAAA
* * * * * *
98633298 TCCTATAC-CTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATAACTACAAA
1 TCTTAT-CTCCCTGAAGTTGCAGTA-----GAGCAGAT-TA--A-AGCTATAAA
* * * * * * * * *
98633351 CCTTATCTCCTTGCAGTTGTAATAGAGCAGGTTGAAGTTATAGA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* * * * *
98633395 TTTTATCTCCCTGAAGTTACAGTGGAGTAGA-TCAA-CTATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT---AAA
*
98633440 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* * * * * * **
98633484 CCTTACCTTCATGAAGTTGCAGTGGAGCGGATTAAAGCGGTAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
* *
98633528 TCCTATACAT--CTGAAGTTGCAGTAG-GTCAGATTAAATCTACCATAGCAA
1 TCTTAT-C-TCCCTGAAGTTGCAGTAGAG-CAGATTAAAGCT---ATA--AA
* * *
98633577 GTCTTATCTCCCTGAAGTTGCAG-CGAAGCAGACTAAA-ATCATAAA
1 -TCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAGCT-ATAAA
* *
98633622 TCTCATATC-CCTCTGAAGTTGCAGTGGAGTAGATTGAAA-CTA-AAA
1 TCT--TATCTCC-CTGAAGTTGCAGTAGAGCAGATT-AAAGCTATAAA
98633667 GTCTTATC
1 -TCTTATC
98633675 CCTCGAAAAT
Statistics
Matches: 653, Mismatches: 162, Indels: 98
0.72 0.18 0.11
Matches are distributed among these distances:
42 3 0.00
43 10 0.02
44 381 0.58
45 145 0.22
46 30 0.05
47 16 0.02
48 6 0.01
49 10 0.02
50 27 0.04
51 1 0.00
52 2 0.00
53 21 0.03
54 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
Found at i:98632961 original size:133 final size:132
Alignment explanation
Indices: 98632764--98633290 Score: 598
Period size: 133 Copynumber: 4.0 Consensus size: 132
98632754 TCTTGGTAGA
* * * *
98632764 AAGTCTTATCTCCTTGAAGTTGCAGTGGAG-AATATTGAAGTTATAGATCTTATCTCCTTAAAGT
1 AAGTCTTATCTCC-TGAAGTTGCAGTAGAGCAA-ATTGAAGTTATAAATCTTATCTCCCTGAAGT
* * * *
98632828 TGTAGTGGAGTAGATCTAAGATAGCAAATCTTGTCTCTCTGAAGTTGCAGTAGAGCATATTAAAG
64 TGCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAG
98632893 CTAT
129 CTAT
*
98632897 AAGTCTTATCTTCCTGAAGTTGCGGTAGAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGTT
1 AAGTCTTATC-TCCTGAAGTTGCAGTAGAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGTT
*
98632962 GCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTAGAACAGATTAAAGC
65 GCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAGC
98633027 TAT
130 TAT
* * * * ** * *
98633030 AA-ACATTATCTCTCTGAATTTGTAATAGAGCAGGTTGAAGTTATAGACCTTATCTCCCTGAAGT
1 AAGTC-TTATCTC-CTGAAGTTGCAGTAGAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGT
* * * *
98633094 TGCAGTGGAGTAGATCAAAGATAGTAAATATTATCTCTCTGAAGTTGCAGTAGAACAGAATAAAG
64 TGCAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAG
98633159 CTAT
129 CTAT
* * * * * * *
98633163 AAGTATTATCTCCCTAAAGTTACAGTGGAGTAAACTGAAGATACT-AATCTTATCTCCCTGAAGT
1 AAGTCTTATCT-CCTGAAGTTGCAGTAGAGCAAATTGAAGTTA-TAAATCTTATCTCCCTGAAGT
* * * * * * * *
98633227 TGTAGTGGAGCATAT-TGAAGCTA-CTAAT-TCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAA
64 TGCAGTGGAGTAGATCT-AAGATAGCAAATCT-TATCTCTCTGAAGTTGCAGTAGAACAGATTAA
98633289 AG
127 AG
98633291 TGACAAATCC
Statistics
Matches: 335, Mismatches: 50, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
131 1 0.00
132 36 0.11
133 291 0.87
134 7 0.02
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (132 bp):
AAGTCTTATCTCCTGAAGTTGCAGTAGAGCAAATTGAAGTTATAAATCTTATCTCCCTGAAGTTG
CAGTGGAGTAGATCTAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAACAGATTAAAGCT
AT
Found at i:98635224 original size:25 final size:23
Alignment explanation
Indices: 98635167--98635225 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 23
98635157 TACTTATTAT
98635167 TATTATATTATTGTATCCTTATTG
1 TATT-TATTATTGTATCCTTATTG
98635191 TACTATTATTATTGTATTTCCTT-TTGG
1 TA-T-TTATTATTGTA--TCCTTATT-G
98635218 TATTTATT
1 TATTTATT
98635226 TACCTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
24 2 0.07
25 16 0.53
26 4 0.13
27 8 0.27
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.61
Consensus pattern (23 bp):
TATTTATTATTGTATCCTTATTG
Found at i:98635238 original size:11 final size:11
Alignment explanation
Indices: 98635222--98635249 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
98635212 TTTTGGTATT
98635222 TATTTACCTAA
1 TATTTACCTAA
98635233 TATTTACCTAA
1 TATTTACCTAA
98635244 TATTTA
1 TATTTA
98635250 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTTACCTAA
Found at i:98635271 original size:21 final size:22
Alignment explanation
Indices: 98635247--98635296 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
98635237 TACCTAATAT
98635247 TTATTTTATTT-TATCATTTTA
1 TTATTTTATTTATATCATTTTA
* *
98635268 TTA-TTCATTTATATCCTTTTA
1 TTATTTTATTTATATCATTTTA
*
98635289 TAATTTTA
1 TTATTTTA
98635297 AATATTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.26
21 14 0.61
22 3 0.13
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTATTTATATCATTTTA
Found at i:98635319 original size:14 final size:14
Alignment explanation
Indices: 98635300--98635326 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98635290 AATTTTAAAT
98635300 ATTTAGATTTTTAA
1 ATTTAGATTTTTAA
98635314 ATTTAGATTTTTA
1 ATTTAGATTTTTA
98635327 TTATTATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
ATTTAGATTTTTAA
Found at i:98638596 original size:87 final size:87
Alignment explanation
Indices: 98638450--98638624 Score: 341
Period size: 87 Copynumber: 2.0 Consensus size: 87
98638440 TTTTTAAAAA
98638450 CTGATAATATTAAAAGAGAAGAAGATTACCTGCATTTTACCCAGAAGAGCGAAGGTTTTTAGCCT
1 CTGATAATATTAAAAGAGAAGAAGATTACCTGCATTTTACCCAGAAGAGCGAAGGTTTTTAGCCT
98638515 TCTGAGCCACCGTATGTGGCGG
66 TCTGAGCCACCGTATGTGGCGG
*
98638537 CTGATAATATTAAAAGAGAAGAAGATTACCTGTATTTTACCCAGAAGAGCGAAGGTTTTTAGCCT
1 CTGATAATATTAAAAGAGAAGAAGATTACCTGCATTTTACCCAGAAGAGCGAAGGTTTTTAGCCT
98638602 TCTGAGCCACCGTATGTGGCGG
66 TCTGAGCCACCGTATGTGGCGG
98638624 C
1 C
98638625 GCGTGAGAGG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (87 bp):
CTGATAATATTAAAAGAGAAGAAGATTACCTGCATTTTACCCAGAAGAGCGAAGGTTTTTAGCCT
TCTGAGCCACCGTATGTGGCGG
Found at i:98639262 original size:22 final size:21
Alignment explanation
Indices: 98639237--98639335 Score: 71
Period size: 22 Copynumber: 4.7 Consensus size: 21
98639227 ATGTTGTATG
98639237 TATTTTCATTATATATATTATT
1 TATTTT-ATTATATATATTATT
* *
98639259 TATTTTACTATAT-T-TTATC
1 TATTTTATTATATATATTATT
*
98639278 TATTATATTATTATATATGT-TT
1 TATTTTATTA-TATATAT-TATT
* * *
98639300 AATTTTTATTATATATTTTATA
1 TA-TTTTATTATATATATTATT
*
98639322 TATATTATT-TATAT
1 TATTTTATTATATAT
98639336 CTATATTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
19 12 0.20
20 9 0.15
21 14 0.23
22 17 0.28
23 8 0.13
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (21 bp):
TATTTTATTATATATATTATT
Found at i:98639334 original size:9 final size:9
Alignment explanation
Indices: 98639244--98639341 Score: 67
Period size: 9 Copynumber: 10.8 Consensus size: 9
98639234 ATGTATTTTC
98639244 ATTATATAT
1 ATTATATAT
98639253 ATTAT-T-T
1 ATTATATAT
*
98639260 ATTTTACTAT
1 ATTATA-TAT
* *
98639270 ATTTTATCT
1 ATTATATAT
98639279 ATTATAT-T
1 ATTATATAT
98639287 ATTATATAT
1 ATTATATAT
* * *
98639296 GTTTAATTTTT
1 -ATT-ATATAT
98639307 ATTATATAT
1 ATTATATAT
*
98639316 TTTATATAT
1 ATTATATAT
*
98639325 ATTATTTAT
1 ATTATATAT
98639334 ATCTATAT
1 AT-TATAT
98639342 TACATGTTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
7 5 0.07
8 9 0.13
9 36 0.52
10 15 0.22
11 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
ATTATATAT
Found at i:98639407 original size:7 final size:7
Alignment explanation
Indices: 98639248--98639390 Score: 63
Period size: 7 Copynumber: 21.4 Consensus size: 7
98639238 ATTTTCATTA
98639248 TATATAT
1 TATATAT
*
98639255 TATTTAT
1 TATATAT
*
98639262 T-T-TAC
1 TATATAT
*
98639267 TATATTT
1 TATATAT
*
98639274 TATCTAT
1 TATATAT
98639281 TATATTAT
1 TATA-TAT
98639289 TATATAT
1 TATATAT
*
98639296 GTTTA-AT
1 -TATATAT
*
98639303 T-TTTAT
1 TATATAT
98639309 TATATAT
1 TATATAT
98639316 T-T-TA-
1 TATATAT
98639320 TATATAT
1 TATATAT
*
98639327 TATTTAT
1 TATATAT
*
98639334 ATCTATAT
1 -TATATAT
* *
98639342 TACATGT
1 TATATAT
*
98639349 T-T-TAA
1 TATATAT
* *
98639354 TACATGT
1 TATATAT
*
98639361 TAT-TTT
1 TATATAT
98639367 TATATAT
1 TATATAT
98639374 TATATAT
1 TATATAT
98639381 TATATAT
1 TATATAT
98639388 TAT
1 TAT
98639391 TCATATTATT
Statistics
Matches: 98, Mismatches: 25, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
4 1 0.01
5 9 0.09
6 14 0.14
7 59 0.60
8 15 0.15
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (7 bp):
TATATAT
Found at i:98639522 original size:23 final size:22
Alignment explanation
Indices: 98639489--98639573 Score: 62
Period size: 23 Copynumber: 3.6 Consensus size: 22
98639479 TACCTATTAG
98639489 ATTATAATTATTTTATACATTCTT
1 ATTAT-ATTATTTTATACATT-TT
* * *
98639513 CTTATATTATATTATATATTTT
1 ATTATATTATTTTATACATTTT
* * *
98639535 ATTACATATATTTTATTACTATATG
1 ATTATAT-TATTTTA-TAC-ATTTT
98639560 ATTTATATTATTTT
1 A-TTATATTATTTT
98639574 TATTTGTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
22 7 0.15
23 19 0.40
24 6 0.13
25 10 0.21
26 5 0.11
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (22 bp):
ATTATATTATTTTATACATTTT
Found at i:98639543 original size:14 final size:15
Alignment explanation
Indices: 98639525--98639569 Score: 65
Period size: 14 Copynumber: 2.9 Consensus size: 15
98639515 TATATTATAT
98639525 TATATATTTTATTAC
1 TATATATTTTATTAC
98639540 -ATATATTTTATTAC
1 TATATATTTTATTAC
98639554 TATATGATTTATATTA
1 TATAT-ATTT-TATTA
98639570 TTTTTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 14 0.52
15 4 0.15
16 4 0.15
17 5 0.19
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (15 bp):
TATATATTTTATTAC
Found at i:98642210 original size:15 final size:15
Alignment explanation
Indices: 98642164--98642200 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
98642154 AGCGTGTTTA
*
98642164 ATCTGGTATTTCTAT
1 ATCTGTTATTTCTAT
98642179 ATCTGTTATTTCTAT
1 ATCTGTTATTTCTAT
98642194 ATCTGTT
1 ATCTGTT
98642201 TTCTGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.57
Consensus pattern (15 bp):
ATCTGTTATTTCTAT
Found at i:98642811 original size:17 final size:17
Alignment explanation
Indices: 98642769--98642813 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
98642759 GCGACTATTA
*
98642769 TCTAAAAACTAAAGTTTT
1 TCTAAAAA-TAAAGGTTT
98642787 TACT-AAAATAAAGGTTT
1 T-CTAAAAATAAAGGTTT
98642804 TCTAAAAATA
1 TCTAAAAATA
98642814 TGAACTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 15 0.62
18 5 0.21
19 2 0.08
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (17 bp):
TCTAAAAATAAAGGTTT
Found at i:98643299 original size:19 final size:20
Alignment explanation
Indices: 98643275--98643362 Score: 78
Period size: 19 Copynumber: 4.6 Consensus size: 20
98643265 AAATTTAAAT
98643275 AAAAATATAAAAATTAG-AA
1 AAAAATATAAAAATTAGTAA
*
98643294 AAAAATA-AAAAA-TCGTAA
1 AAAAATATAAAAATTAGTAA
*
98643312 AAATATTATAAAAATT-GTAA
1 AAA-AATATAAAAATTAGTAA
*** *
98643332 AATTTTATAAAAA-TCGTAA
1 AAAAATATAAAAATTAGTAA
98643351 AAAAATATAAAA
1 AAAAATATAAAA
98643363 TACATCAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.04
18 11 0.19
19 32 0.56
20 11 0.19
21 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAATATAAAAATTAGTAA
Found at i:98643326 original size:38 final size:38
Alignment explanation
Indices: 98643275--98643362 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
98643265 AAATTTAAAT
98643275 AAAAATATAAAAATTAG-AAAAAAATA-AAAAATCGTAA
1 AAAAATATAAAAATT-GTAAAAAAATATAAAAATCGTAA
* ***
98643312 AAATATTATAAAAATTGTAAAATTTTATAAAAATCGTAA
1 AAA-AATATAAAAATTGTAAAAAAATATAAAAATCGTAA
98643351 AAAAATATAAAA
1 AAAAATATAAAA
98643363 TACATCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
37 4 0.09
38 25 0.58
39 14 0.33
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (38 bp):
AAAAATATAAAAATTGTAAAAAAATATAAAAATCGTAA
Found at i:98643528 original size:21 final size:21
Alignment explanation
Indices: 98643504--98643543 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
98643494 TCAATAAAAG
* *
98643504 TTATAGAAAAATGTTAGAAGT
1 TTATAAAAAAATGATAGAAGT
98643525 TTATAAAAAAATGATAGAA
1 TTATAAAAAAATGATAGAA
98643544 AAAGGGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (21 bp):
TTATAAAAAAATGATAGAAGT
Found at i:98643759 original size:19 final size:19
Alignment explanation
Indices: 98643735--98643799 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
98643725 ACATAATAAT
98643735 TTTTATAATTTTTTACGA-A
1 TTTTATAATTTTTTAC-ATA
*
98643754 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTT-TTTACATA
98643773 TTTTATAATTTTCTTAC-TA
1 TTTTATAATTTT-TTACATA
*
98643792 CTTTATAA
1 TTTTATAA
98643800 AATTTTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 5 0.13
19 26 0.67
20 8 0.21
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTACATA
Found at i:98643854 original size:29 final size:30
Alignment explanation
Indices: 98643801--98643870 Score: 65
Period size: 30 Copynumber: 2.3 Consensus size: 30
98643791 ACTTTATAAA
* * *
98643801 ATTTTATTAAAAAAATTCTATATTTTTCTAT
1 ATTTTATAAAAAAAATTCAATATTTTT-GAT
98643832 ATTTTAT-AAAAAAATTACAAT-TTTTATGAT
1 ATTTTATAAAAAAAATT-CAATATTTT-TGAT
98643862 -TTTTATAAA
1 ATTTTATAAA
98643871 TTTTTCCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
29 6 0.18
30 17 0.50
31 11 0.32
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (30 bp):
ATTTTATAAAAAAAATTCAATATTTTTGAT
Found at i:98650054 original size:56 final size:57
Alignment explanation
Indices: 98649926--98650056 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
98649916 TTCATATAAT
* ** * *
98649926 AATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
1 AATAATTATATTAA-AATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
* * * * *
98649984 AATAATTATGTTAAAATATGGTTAAAATATTTATTTTTTTATTAACTT-TTTTTAAC
1 AATAATTATATTAAAATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
98650040 AATAATCT-TATTAAAAT
1 AATAAT-TATATTAAAAT
98650057 TTAATAACAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
56 20 0.33
57 28 0.46
58 13 0.21
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (57 bp):
AATAATTATATTAAAATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
Found at i:98650707 original size:55 final size:55
Alignment explanation
Indices: 98650623--98650732 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
98650613 ATTTATGCCG
98650623 AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
1 AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
98650678 AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
1 AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
98650733 TCTCAAGCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.36
Consensus pattern (55 bp):
AAGCAATAGCCCTGGTTCTTTTGTAATCTACATCTTTGCCTCTTGTTCCAGGCAC
Found at i:98653559 original size:31 final size:31
Alignment explanation
Indices: 98653524--98653582 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
98653514 AAGCTATTTT
*
98653524 AAATTGAAATTAAGTAGA-AAATTTCAATTAA
1 AAATTCAAATTAAG-AGACAAATTTCAATTAA
* *
98653555 AAATTCAACTTTAGAGACAAATTTCAAT
1 AAATTCAAATTAAGAGACAAATTTCAAT
98653583 CAAACAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (31 bp):
AAATTCAAATTAAGAGACAAATTTCAATTAA
Found at i:98656511 original size:14 final size:15
Alignment explanation
Indices: 98656494--98656522 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98656484 GAGTATGGTA
98656494 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
98656508 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
98656523 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:98656955 original size:16 final size:18
Alignment explanation
Indices: 98656922--98656965 Score: 65
Period size: 16 Copynumber: 2.5 Consensus size: 18
98656912 TCAAACATTC
98656922 AAAATATAAAATAAAATT
1 AAAATATAAAATAAAATT
98656940 AAAAT-TAAAA-AAAATT
1 AAAATATAAAATAAAATT
98656956 AAAAGTATAA
1 AAAA-TATAA
98656966 CTTCTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.42
17 6 0.25
18 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAATATAAAATAAAATT
Found at i:98659256 original size:5 final size:5
Alignment explanation
Indices: 98659248--98659274 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
98659238 TAGTATAATA
98659248 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
98659275 ATAAAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Done.