Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 172 of 186
Found at i:57129243 original size:13 final size:13
Alignment explanation
Indices: 57129225--57129249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57129215 GTAAAAAATG
57129225 ATAATAATAGTAT
1 ATAATAATAGTAT
57129238 ATAATAATAGTA
1 ATAATAATAGTA
57129250 ATAGTAGTGA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATAATAATAGTAT
Found at i:57143769 original size:47 final size:48
Alignment explanation
Indices: 57143692--57143823 Score: 149
Period size: 47 Copynumber: 2.8 Consensus size: 48
57143682 CTCAATCGAT
* * *
57143692 AAGTACCTATACCATGGCCCATAGCGAAATCAAGGTAACTAATCCCAG
1 AAGTACCCATACCATGGCCCGTAGCCAAATCAAGGTAACTAATCCCAG
* * * * ** * *
57143740 -AGTACCGATGCCATGGCCTGTAGCCAAATCAAGATAACTCCTCTCTG
1 AAGTACCCATACCATGGCCCGTAGCCAAATCAAGGTAACTAATCCCAG
*
57143787 AAATACCCATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCCATACCATGGCCCGTAGCCAAATCAAGGTA
57143824 TCACTTGCAC
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
47 37 0.54
48 31 0.46
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (48 bp):
AAGTACCCATACCATGGCCCGTAGCCAAATCAAGGTAACTAATCCCAG
Found at i:57147093 original size:18 final size:18
Alignment explanation
Indices: 57147070--57147106 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
57147060 TAATAACCCG
*
57147070 ACCTCAAATCAATTTTCA
1 ACCTCAAATAAATTTTCA
57147088 ACCTCAAATAAATTTTCA
1 ACCTCAAATAAATTTTCA
57147106 A
1 A
57147107 AAATACTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (18 bp):
ACCTCAAATAAATTTTCA
Found at i:57147848 original size:21 final size:21
Alignment explanation
Indices: 57147822--57147861 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
57147812 TAAGGGGTTC
57147822 GATACTCTAATCACAAATTTA
1 GATACTCTAATCACAAATTTA
57147843 GATACTCTAATCACAAATT
1 GATACTCTAATCACAAATT
57147862 CAGTAGACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (21 bp):
GATACTCTAATCACAAATTTA
Found at i:57151084 original size:23 final size:23
Alignment explanation
Indices: 57151054--57151136 Score: 139
Period size: 23 Copynumber: 3.6 Consensus size: 23
57151044 GGTTAAGCCT
57151054 CACACGCCCGTGTGAAGACAATG
1 CACACGCCCGTGTGAAGACAATG
*
57151077 CACACGCCCGTGTGCAGACAATG
1 CACACGCCCGTGTGAAGACAATG
*
57151100 CACATGCCCGTGTGAAGACAATG
1 CACACGCCCGTGTGAAGACAATG
*
57151123 CACACACCCGTGTG
1 CACACGCCCGTGTG
57151137 CTTTGGGACA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.28, C:0.33, G:0.25, T:0.14
Consensus pattern (23 bp):
CACACGCCCGTGTGAAGACAATG
Found at i:57153701 original size:40 final size:39
Alignment explanation
Indices: 57153617--57153801 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
57153607 TTGAATGATG
* * * *
57153617 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
57153657 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
57153697 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57153736 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
57153777 -CCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
57153802 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57153753 original size:79 final size:81
Alignment explanation
Indices: 57153617--57153801 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
57153607 TTGAATGATG
* *
57153617 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
57153681 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
57153696 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
57153758 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
57153776 ACCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57153802 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:57153832 original size:79 final size:79
Alignment explanation
Indices: 57153669--57153832 Score: 181
Period size: 79 Copynumber: 2.1 Consensus size: 79
57153659 CGGACTAAGA
* * * **
57153669 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
*
57153734 AATCCGGGTTAAGT
66 AATCCGGGTTAAAT
* * *
57153748 CCCGAAGGCAATTGTGCGAGTTACT-ATAACCGAGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCAATTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
57153811 CTATAT-CTGGTTAAAT
63 CTAAATCCGGGTTAAAT
57153827 TCCGAA
1 TCCGAA
57153833 TGTACGTGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.64
80 23 0.33
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGGTTAAAT
Found at i:57155351 original size:114 final size:114
Alignment explanation
Indices: 57155151--57155369 Score: 429
Period size: 114 Copynumber: 1.9 Consensus size: 114
57155141 GGGTGTTACA
*
57155151 CCAACCTTCTTACAATCTCTACGAGTCCTCGAGCTCTGTAAGATAGGGAAAAGAGAGGGGTAAGC
1 CCAACCGTCTTACAATCTCTACGAGTCCTCGAGCTCTGTAAGATAGGGAAAAGAGAGGGGTAAGC
57155216 ATTTACATGCTTAGTAAGCCCAAATAAGTGGAAAGTAAACCATAATACT
66 ATTTACATGCTTAGTAAGCCCAAATAAGTGGAAAGTAAACCATAATACT
57155265 CCAACCGTCTTACAATCTCTACGAGTCCTCGAGCTCTGTAAGATAGGGAAAAGAGAGGGGTAAGC
1 CCAACCGTCTTACAATCTCTACGAGTCCTCGAGCTCTGTAAGATAGGGAAAAGAGAGGGGTAAGC
57155330 ATTTACATGCTTAGTAAGCCCAAATAAGTGGAAAGTAAAC
66 ATTTACATGCTTAGTAAGCCCAAATAAGTGGAAAGTAAAC
57155370 TTACCGATTA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (114 bp):
CCAACCGTCTTACAATCTCTACGAGTCCTCGAGCTCTGTAAGATAGGGAAAAGAGAGGGGTAAGC
ATTTACATGCTTAGTAAGCCCAAATAAGTGGAAAGTAAACCATAATACT
Found at i:57166462 original size:4 final size:4
Alignment explanation
Indices: 57166453--57166480 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
57166443 TTAAACTAAG
57166453 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
57166481 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:57179934 original size:20 final size:21
Alignment explanation
Indices: 57179909--57179947 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
57179899 ATCCAAATTA
57179909 TCCATCCACTA-CACACCAGC
1 TCCATCCACTATCACACCAGC
*
57179929 TCCATCCCCTATCACACCA
1 TCCATCCACTATCACACCA
57179948 TGTAGGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.28, C:0.51, G:0.03, T:0.18
Consensus pattern (21 bp):
TCCATCCACTATCACACCAGC
Found at i:57180557 original size:28 final size:28
Alignment explanation
Indices: 57180517--57180631 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
57180507 TACCTGTATT
* *
57180517 TGGCACATTAAGCCCAATCATATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
*
57180545 TGGCCCATTAAGCCCAAATCACCTGT-ATA
1 TGGCCCATTAAGCCC-AATCACAT-TCATA
* * *
57180574 TGGCCCATTATGCCAAAATCACATTTATA
1 TGGCCCATTAAGCC-CAATCACATTCATA
* *
57180603 TGGCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
57180631 T
1 T
57180632 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 27 0.37
29 45 0.62
30 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAATCACATTCATA
Found at i:57180571 original size:57 final size:58
Alignment explanation
Indices: 57180508--57180618 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
57180498 AAATTCACAT
* * *
57180508 ACCTGTATTTGGCACATTAAGCC-CAATCATATTCATATGGCCCATTAAGCCCAAATC
1 ACCTGTATATGGCACATTAAGCCAAAATCACATTCATATGGCCCATTAAGCCCAAATC
* * * *
57180565 ACCTGTATATGGCCCATTATGCCAAAATCACATTTATATGGCCCATTAGGCCCA
1 ACCTGTATATGGCACATTAAGCCAAAATCACATTCATATGGCCCATTAAGCCCA
57180619 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 20 0.43
58 26 0.57
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (58 bp):
ACCTGTATATGGCACATTAAGCCAAAATCACATTCATATGGCCCATTAAGCCCAAATC
Found at i:57189325 original size:31 final size:31
Alignment explanation
Indices: 57189277--57189360 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
57189267 TTAGTCTTGA
57189277 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
57189307 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
57189338 CATATCATTGGGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
57189361 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:57189439 original size:42 final size:42
Alignment explanation
Indices: 57189384--57189473 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
57189374 TGGCCCTTAG
* * * ** *
57189384 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATATGAATATCACATGAAATACCAATGAATGTATGCAA
*
57189426 TCCCATATGAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATATGAATATCACATGAAATACCAATGAATGTATGCAA
57189468 GCCCAT
1 GCCCAT
57189474 TTGGGGAGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATATGAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:57189692 original size:26 final size:26
Alignment explanation
Indices: 57189621--57189743 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
57189611 CTCTTTTAAT
* *
57189621 AACTGGGG-AAAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
57189646 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
57189671 AACTGGGGCATAAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
57189697 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
57189723 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
57189744 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
25 31 0.35
26 58 0.65
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:57189732 original size:52 final size:51
Alignment explanation
Indices: 57189608--57189743 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
57189598 CTGGAGGCCT
*
57189608 AGCCTCTTTT-AAT-AACTGGGG-AAAAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
*
57189657 AGCCCTTTTCAATAAACTGGGGCATAAGCCTTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
*
57189709 AGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
57189744 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 8 0.10
51 25 0.32
52 34 0.43
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:57190604 original size:27 final size:27
Alignment explanation
Indices: 57190549--57190634 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
57190539 TGTTCGTCAT
* * *
57190549 TTTACCATACAGGGG-TTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGATCTC
57190575 TTTACCCTACAGGGGCTTTACGATCTC
1 TTTACCCTACAGGGGCTTTACGATCTC
* * *
57190602 TTTACTCTACAGGGGCTTTACAATCTT
1 TTTACCCTACAGGGGCTTTACGATCTC
57190629 TTTACC
1 TTTACC
57190635 GATTAGTGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 14 0.27
27 38 0.73
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGATCTC
Found at i:57190718 original size:27 final size:27
Alignment explanation
Indices: 57190688--57190739 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
57190678 GTAAATCTAC
57190688 AAACCAA-GGATATTT-CAGTAATTTTGT
1 AAACCAATGG-TATTTCCA-TAATTTTGT
57190715 AAACCAATGGTATTTCCATAATTTT
1 AAACCAATGGTATTTCCATAATTTT
57190740 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (27 bp):
AAACCAATGGTATTTCCATAATTTTGT
Found at i:57190871 original size:81 final size:81
Alignment explanation
Indices: 57190776--57191010 Score: 312
Period size: 81 Copynumber: 2.9 Consensus size: 81
57190766 TTTGTAAATC
*
57190776 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CTAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
* *
57190840 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* *
57190857 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
57190922 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
** * * *** *
57190938 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
57191002 AGTAATTTT
66 AGCAATTTT
57191011 GTAAATCGAG
Statistics
Matches: 138, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 63 0.46
81 72 0.52
82 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:57191023 original size:27 final size:27
Alignment explanation
Indices: 57190750--57191146 Score: 241
Period size: 27 Copynumber: 14.7 Consensus size: 27
57190740 TAGAAAGTCA
* *
57190750 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTATAAATCG
* *
57190776 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * * *
57190804 AGGGTATTTCGGTAATTTCACAAA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
57190830 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* *
57190857 AGGGGTATTTTGGTAATTTTAAAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * * *
57190885 AGGGTATTTCGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * * *
57190912 AGGGTATTTTAGCAATTTTACAGA-CT
1 AGGGTATTTTGGTAATTTTATAAATCG
*
57190938 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
* *
57190965 AGGGTATTTTGGTAATTTTGTAAACCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
57190992 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
****** * * *
57191019 AGGGTAAAACAATAATTCTGTAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
*****
57191046 AGGGTAAAACAGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
****
57191073 AGGGTAAAACGGTAA-TTTAGTAAATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
**** *
57191100 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*
57191127 AGGGTACTTTGGTAATTTTA
1 AGGGTATTTTGGTAATTTTA
57191147 CAATTTGGGG
Statistics
Matches: 310, Mismatches: 50, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
26 30 0.10
27 274 0.88
28 6 0.02
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:57200384 original size:38 final size:38
Alignment explanation
Indices: 57200333--57200409 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
57200323 TAATACTTGT
57200333 ATCTTTTGTAACATACTAAACTTAGATGTTTGTGATCA
1 ATCTTTTGTAACATACTAAACTTAGATGTTTGTGATCA
*
57200371 ATCTTTTGTAACATACTGAACTTAGATGTTTGTGATCA
1 ATCTTTTGTAACATACTAAACTTAGATGTTTGTGATCA
57200409 A
1 A
57200410 AAGTGATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (38 bp):
ATCTTTTGTAACATACTAAACTTAGATGTTTGTGATCA
Found at i:57202845 original size:21 final size:21
Alignment explanation
Indices: 57202819--57202861 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
57202809 TTAAAAACCA
* *
57202819 AGATTTTCAACTAAGTGAACT
1 AGATTTTAAACTAAGTAAACT
57202840 AGATTTTAAACTAAGTAAACT
1 AGATTTTAAACTAAGTAAACT
57202861 A
1 A
57202862 AAGAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
AGATTTTAAACTAAGTAAACT
Found at i:57211951 original size:38 final size:38
Alignment explanation
Indices: 57211888--57211960 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
57211878 TTTATAATCC
* **
57211888 AAGCTCGACTTACCTCTCCAGTGAATGGTCATGGTTTT
1 AAGCTCAACTTACCTCTCCAGTGAATAATCATGGTTTT
57211926 AAGCTCAACTTACCTCTCC-GTTGAATAATCATGGT
1 AAGCTCAACTTACCTCTCCAG-TGAATAATCATGGT
57211961 GGTTCAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
AAGCTCAACTTACCTCTCCAGTGAATAATCATGGTTTT
Found at i:57220215 original size:46 final size:46
Alignment explanation
Indices: 57220162--57220421 Score: 228
Period size: 46 Copynumber: 5.6 Consensus size: 46
57220152 ATCCGGACTT
*
57220162 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTTCGAGCTC
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAGCTC
* * * * * *
57220208 GTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAGCTT
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAA--A--CGTCCGAGCTC
*
57220255 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTTCGAGCTC
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAGCTC
* * * * * *
57220301 GTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAGCTT
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAA--A--CGTCCGAGCTC
* *
57220348 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTC
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAGCTC
* *
57220394 GTTGATTTGAGTCCGAGTT-AGCTTATGG
1 GTTGAGTTGAGTCCAAGTTCA-CTTATGG
57220422 GCGGGTTACA
Statistics
Matches: 168, Mismatches: 31, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
43 12 0.07
45 7 0.04
46 78 0.46
47 54 0.32
48 6 0.04
50 11 0.07
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (46 bp):
GTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAGCTC
Found at i:57220261 original size:93 final size:93
Alignment explanation
Indices: 57220149--57220412 Score: 476
Period size: 93 Copynumber: 2.8 Consensus size: 93
57220139 CGGATATTTG
57220149 GGCATCCG-GACTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTTCGAGCTCGTTGA
1 GGCATCCGAG-CTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTTCGAGCTCGTTGA
57220213 GTTGAGTCCGAGTTCGTGAGATGTAACTA
65 GTTGAGTCCGAGTTCGTGAGATGTAACTA
57220242 GGCATCCGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTTCGAGCTCGTTGAG
1 GGCATCCGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTTCGAGCTCGTTGAG
57220307 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* ** *
57220335 GGCATCCGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAT
1 GGCATCCGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTTCGAGCTCGTTGAG
57220400 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
57220413 AGCTTATGGG
Statistics
Matches: 166, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
93 165 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTTCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:57220267 original size:47 final size:47
Alignment explanation
Indices: 57220201--57220367 Score: 198
Period size: 47 Copynumber: 3.6 Consensus size: 47
57220191 TGCAAACGTT
*
57220201 CGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAGCTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCATC
* * * * * *
57220248 CGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAA--A--CGTT
1 CGAGCTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCATC
*
57220294 CGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAGCTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCATC
*
57220341 CGAGCTTGTTGAGTTGAGTCCAAGTTC
1 CGAGCTCGTTGAGTTGAGTCCAAGTTC
57220368 ACTTATGGAT
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 27 0.28
47 52 0.54
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (47 bp):
CGAGCTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGCATC
Found at i:57223589 original size:27 final size:27
Alignment explanation
Indices: 57223559--57223613 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
57223549 TAGACTAAAA
57223559 AACTTGCACAAAATATGTTAAAAAGGT
1 AACTTGCACAAAATATGTTAAAAAGGT
57223586 AACTTGCACAAAATATGTTAAAAAGGT
1 AACTTGCACAAAATATGTTAAAAAGGT
57223613 A
1 A
57223614 GTATTTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (27 bp):
AACTTGCACAAAATATGTTAAAAAGGT
Found at i:57228448 original size:21 final size:21
Alignment explanation
Indices: 57228418--57228458 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57228408 CAATCAGCAC
* *
57228418 AGTCATATGTATCCACAACAA
1 AGTCAAATGTAGCCACAACAA
57228439 AGTCAAATGTAGCCACAACA
1 AGTCAAATGTAGCCACAACA
57228459 CTCTTCAATA
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:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (21 bp):
AGTCAAATGTAGCCACAACAA
Found at i:57230485 original size:14 final size:14
Alignment explanation
Indices: 57230468--57230506 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
57230458 CTTTGGTACT
57230468 TTTGCTTTTCGCCA
1 TTTGCTTTTCGCCA
* *
57230482 TTTGCTTTTAGCCG
1 TTTGCTTTTCGCCA
*
57230496 TATGCTTTTCG
1 TTTGCTTTTCG
57230507 GTCTTTGCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.08, C:0.23, G:0.18, T:0.51
Consensus pattern (14 bp):
TTTGCTTTTCGCCA
Found at i:57233966 original size:18 final size:18
Alignment explanation
Indices: 57233942--57233984 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
57233932 TTGTTGGTTA
57233942 AGAGGAACCTGCTA-TTG
1 AGAGGAACCTGCTATTTG
**
57233959 AGGAGGAAGTTGCTATTTG
1 A-GAGGAACCTGCTATTTG
57233978 AGAGGAA
1 AGAGGAA
57233985 GAAGTCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.33, C:0.09, G:0.35, T:0.23
Consensus pattern (18 bp):
AGAGGAACCTGCTATTTG
Found at i:57233985 original size:18 final size:18
Alignment explanation
Indices: 57233951--57233985 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
57233941 AAGAGGAACC
57233951 TGCTATTGAGGAGGAAGT
1 TGCTATTGAGGAGGAAGT
57233969 TGCTATTTGA-GAGGAAG
1 TGCTA-TTGAGGAGGAAG
57233986 AAGTCCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.29, C:0.06, G:0.37, T:0.29
Consensus pattern (18 bp):
TGCTATTGAGGAGGAAGT
Found at i:57236947 original size:29 final size:29
Alignment explanation
Indices: 57236898--57236960 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
57236888 AAGGCTCATT
*
57236898 TAACAGAATTAGCCACTAAGGATCTT-CTTA
1 TAACAGAAGTAGCCACTAAGG--CTTCCTTA
57236928 TAACA-AAGTAGCCA-TAAAGGCTTCCTTA
1 TAACAGAAGTAGCCACT-AAGGCTTCCTTA
57236956 TAACA
1 TAACA
57236961 TATTCCGCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 3 0.10
28 10 0.33
29 12 0.40
30 5 0.17
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.27
Consensus pattern (29 bp):
TAACAGAAGTAGCCACTAAGGCTTCCTTA
Found at i:57237024 original size:61 final size:61
Alignment explanation
Indices: 57236954--57237243 Score: 372
Period size: 59 Copynumber: 4.8 Consensus size: 61
57236944 AAGGCTTCCT
* * * *
57236954 TATAACATATTCCGCCACTGAGGCTCACATATATCAGAGAACAGCCTCAAAGGCTTCCACA
1 TATAACATATTCCGCCACTAAGGCTCACATATATCAGAGAACAACCACAAAAGCTTCCACA
* * *
57237015 TATAACATATACCACCACTAAGGCTCATATAT-TCA-AGAACAACCACAAAAGCTTCCACA
1 TATAACATATTCCGCCACTAAGGCTCACATATATCAGAGAACAACCACAAAAGCTTCCACA
** * * * *
57237074 TATAACATATTATGCCACTAAAGCTCACATATATCAGAGAACAGCCTCAAAGGCTTCCACA
1 TATAACATATTCCGCCACTAAGGCTCACATATATCAGAGAACAACCACAAAAGCTTCCACA
* * *
57237135 TATAACATATACCACCACTAAGGCTCATATAT-TCA-AGAACAACCACAAAAGCTTCCACA
1 TATAACATATTCCGCCACTAAGGCTCACATATATCAGAGAACAACCACAAAAGCTTCCACA
** * *
57237194 TATAACATATTATGCCACTAAAGCTCACATATATCAGAGAACAAACACAA
1 TATAACATATTCCGCCACTAAGGCTCACATATATCAGAGAACAACCACAA
57237244 TGGCTTCCCC
Statistics
Matches: 193, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
59 94 0.49
60 12 0.06
61 87 0.45
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (61 bp):
TATAACATATTCCGCCACTAAGGCTCACATATATCAGAGAACAACCACAAAAGCTTCCACA
Found at i:57237251 original size:120 final size:120
Alignment explanation
Indices: 57236954--57237236 Score: 530
Period size: 120 Copynumber: 2.4 Consensus size: 120
57236944 AAGGCTTCCT
** * *
57236954 TATAACATATTCCGCCACTGAGGCTCACATATATCAGAGAACAGCCTCAAAGGCTTCCACATATA
1 TATAACATATTATGCCACTAAAGCTCACATATATCAGAGAACAGCCTCAAAGGCTTCCACATATA
57237019 ACATATACCACCACTAAGGCTCATATATTCAAGAACAACCACAAAAGCTTCCACA
66 ACATATACCACCACTAAGGCTCATATATTCAAGAACAACCACAAAAGCTTCCACA
57237074 TATAACATATTATGCCACTAAAGCTCACATATATCAGAGAACAGCCTCAAAGGCTTCCACATATA
1 TATAACATATTATGCCACTAAAGCTCACATATATCAGAGAACAGCCTCAAAGGCTTCCACATATA
57237139 ACATATACCACCACTAAGGCTCATATATTCAAGAACAACCACAAAAGCTTCCACA
66 ACATATACCACCACTAAGGCTCATATATTCAAGAACAACCACAAAAGCTTCCACA
57237194 TATAACATATTATGCCACTAAAGCTCACATATATCAGAGAACA
1 TATAACATATTATGCCACTAAAGCTCACATATATCAGAGAACA
57237237 AACACAATGG
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 159 1.00
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (120 bp):
TATAACATATTATGCCACTAAAGCTCACATATATCAGAGAACAGCCTCAAAGGCTTCCACATATA
ACATATACCACCACTAAGGCTCATATATTCAAGAACAACCACAAAAGCTTCCACA
Found at i:57237481 original size:54 final size:52
Alignment explanation
Indices: 57237412--57237609 Score: 159
Period size: 54 Copynumber: 3.7 Consensus size: 52
57237402 CATGACACCA
* * *
57237412 TAGTCCCA-GCTAGGTCTTACACTATATGGTCTTCATATGCCCATATGATGTCG
1 TAGTCCTAGGCTAGGTCTTACACTATATGGTCTTC-TTTCCCCATATGAT-TCG
* * * * * *
57237465 TAGTCCTAGGCTAGGTCTTACATTATATTGCCTTCTTTTCCCATTATAATTCCA
1 TAGTCCTAGGCTAGGTCTTACACTATATGGTCTTCTTTCCCCA-TATGATT-CG
* * * **
57237519 TAGTCC-CGGACTAGGTCTTACACTATATTGTCTTCTTTTCCCCACATGACACG
1 TAGTCCTAGG-CTAGGTCTTACACTATATGGTCTTC-TTTCCCCATATGATTCG
**
57237572 ATAGT-CTCAAACTAGGTCTTACACTATATGGTCTTCTT
1 -TAGTCCT-AGGCTAGGTCTTACACTATATGGTCTTCTT
57237610 GACATGGCCA
Statistics
Matches: 116, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
53 20 0.17
54 89 0.77
55 7 0.06
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (52 bp):
TAGTCCTAGGCTAGGTCTTACACTATATGGTCTTCTTTCCCCATATGATTCG
Found at i:57237587 original size:108 final size:107
Alignment explanation
Indices: 57237409--57237609 Score: 244
Period size: 108 Copynumber: 1.9 Consensus size: 107
57237399 CTACATGACA
* * ** *
57237409 CCATAGTCCCAGCTAGGTCTTACACTATATGGTCTTCATATGCCCATATGATGTCGTAGTCCTAG
1 CCATAGTCCCAGCTAGGTCTTACACTATATGGTCTTCATATCCCCACATGATCACGTAGTCCTAA
* * *
57237474 GCTAGGTCTTACATTATATTGCCTTCTTTTCCCATTATAATT
66 ACTAGGTCTTACACTATATGGCCTTCTTTTCCCATTATAATT
* * * *
57237516 CCATAGTCCCGGACTAGGTCTTACACTATATTGTCTTCTTTTCCCCACATGA-CACGATAGT-CT
1 CCATAGTCCCAG-CTAGGTCTTACACTATATGGTCTTCATATCCCCACATGATCACG-TAGTCCT
*
57237579 CAAACTAGGTCTTACACTATATGGTCTTCTT
64 -AAACTAGGTCTTACACTATATGGCCTTCTT
57237610 GACATGGCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
107 15 0.19
108 63 0.81
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (107 bp):
CCATAGTCCCAGCTAGGTCTTACACTATATGGTCTTCATATCCCCACATGATCACGTAGTCCTAA
ACTAGGTCTTACACTATATGGCCTTCTTTTCCCATTATAATT
Found at i:57239798 original size:29 final size:29
Alignment explanation
Indices: 57239753--57239810 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
57239743 TTAGAGTGCA
* *
57239753 CCACAAAGGCTTTCTTTTTCGTAG-ATTT
1 CCACAAAGGCTTCCTTTTTCCTAGCATTT
57239781 CCACTAAAGGCTTCCTTTTTCCTAGCATTT
1 CCAC-AAAGGCTTCCTTTTTCCTAGCATTT
57239811 TTATGATAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 4 0.15
29 18 0.69
30 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (29 bp):
CCACAAAGGCTTCCTTTTTCCTAGCATTT
Found at i:57246362 original size:12 final size:12
Alignment explanation
Indices: 57246345--57246372 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57246335 TCAGGCTCAG
57246345 GGGGTCGAACGA
1 GGGGTCGAACGA
57246357 GGGGTCGAACGA
1 GGGGTCGAACGA
57246369 GGGG
1 GGGG
57246373 CTGAGCGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.57, T:0.07
Consensus pattern (12 bp):
GGGGTCGAACGA
Found at i:57256521 original size:33 final size:35
Alignment explanation
Indices: 57256483--57256563 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
57256473 GCCTAAGCCC
* *
57256483 ATTCAGATAACAGTGATACTAGGCCAGAG-CCCTT
1 ATTCAGATAACAGTGAAACTAGGCCACAGCCCCTT
* * * *
57256517 -TTCAGATTACA-TTAAACTGGGCCTCAGCCCCTT
1 ATTCAGATAACAGTGAAACTAGGCCACAGCCCCTT
57256550 ATTCAGATAACAGT
1 ATTCAGATAACAGT
57256564 ACGGCCCATA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
32 11 0.30
33 15 0.41
34 10 0.27
35 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (35 bp):
ATTCAGATAACAGTGAAACTAGGCCACAGCCCCTT
Found at i:57256903 original size:26 final size:26
Alignment explanation
Indices: 57256874--57256926 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
57256864 TCAAACATGC
*
57256874 ATTTAGGTCAATTTA-CTCTTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
57256900 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
57256926 A
1 A
57256927 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:57258213 original size:24 final size:24
Alignment explanation
Indices: 57258179--57258253 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
57258169 CCAACTCCTG
*
57258179 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
*
57258203 CTCCTTTATCAGCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
* *
57258227 CTCCCTTATCATCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
57258251 CTC
1 CTC
57258254 TTGACAGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.20, C:0.37, G:0.04, T:0.39
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:57258471 original size:15 final size:15
Alignment explanation
Indices: 57258451--57258481 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57258441 AATACCTTAA
57258451 AGCCCAGCTAACCAG
1 AGCCCAGCTAACCAG
57258466 AGCCCAGCTAACCAG
1 AGCCCAGCTAACCAG
57258481 A
1 A
57258482 ACCGCTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.39, G:0.19, T:0.06
Consensus pattern (15 bp):
AGCCCAGCTAACCAG
Found at i:57264781 original size:26 final size:26
Alignment explanation
Indices: 57264752--57264804 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
57264742 TCAAACATGC
57264752 ATTTAGGTCAATTTA-CTCCTAGCGGT
1 ATTTAGGT-AATTTATCTCCTAGCGGT
* * *
57264778 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGCGGT
57264804 A
1 A
57264805 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGCGGT
Found at i:57265785 original size:24 final size:24
Alignment explanation
Indices: 57265751--57265827 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
57265741 CCAACTCCTG
*
57265751 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
*
57265775 CTCCTTTATCAGCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
*
57265799 CTCCCTTATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
57265823 CTCCT
1 CTCCT
57265828 AGCAGTCTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:57266828 original size:21 final size:21
Alignment explanation
Indices: 57266787--57266829 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
57266777 GCAAGCATTC
*
57266787 ACATAACAATTAAACACAAAT
1 ACATAACAAATAAACACAAAT
*
57266808 ACATAACCAAATATACA-AAAT
1 ACATAA-CAAATAAACACAAAT
57266829 A
1 A
57266830 AGCCAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (21 bp):
ACATAACAAATAAACACAAAT
Found at i:57273841 original size:28 final size:28
Alignment explanation
Indices: 57273803--57273910 Score: 137
Period size: 28 Copynumber: 3.9 Consensus size: 28
57273793 ATGCAGTTGA
57273803 ATACTCAATATCTCACACACTAAGTTTC
1 ATACTCAATATCTCACACACTAAGTTTC
* * *
57273831 ATACTCGATATCTCGCACACTAAG-TGC
1 ATACTCAATATCTCACACACTAAGTTTC
* * *
57273858 AACACTCAATATCTCGCACACTAAGTGTC
1 -ATACTCAATATCTCACACACTAAGTTTC
*
57273887 ATACTCGATATCTCACACACTAAG
1 ATACTCAATATCTCACACACTAAG
57273911 CGTCGTACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 2 0.03
28 65 0.96
29 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.27
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTTTC
Found at i:57273870 original size:56 final size:56
Alignment explanation
Indices: 57273805--57273910 Score: 185
Period size: 56 Copynumber: 1.9 Consensus size: 56
57273795 GCAGTTGAAT
* *
57273805 ACTCAATATCTCACACACTAAGTTTCATACTCGATATCTCGCACACTAAGTGCAAC
1 ACTCAATATCTCACACACTAAGTGTCATACTCGATATCTCACACACTAAGTGCAAC
*
57273861 ACTCAATATCTCGCACACTAAGTGTCATACTCGATATCTCACACACTAAG
1 ACTCAATATCTCACACACTAAGTGTCATACTCGATATCTCACACACTAAG
57273911 CGTCGTACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.26
Consensus pattern (56 bp):
ACTCAATATCTCACACACTAAGTGTCATACTCGATATCTCACACACTAAGTGCAAC
Found at i:57274030 original size:40 final size:40
Alignment explanation
Indices: 57273919--57274012 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
57273909 AGCGTCGTAC
* * *
57273919 ATAGCTGAAGCTATCTCAAAGC-ATACACTAAGTGCCATCT
1 ATAGCCGAAGCTATCTCAAATCGA-ACACTAAGTGCCATAT
57273959 ATAGCCGAAGCTATCTCAAATCGAACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCTCAAATCGAACACTAAGTGCCATAT
57273999 ATAGCCGAAGCTAT
1 ATAGCCGAAGCTAT
57274013 GTCGATTCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 49 0.98
41 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAAATCGAACACTAAGTGCCATAT
Found at i:57280995 original size:28 final size:28
Alignment explanation
Indices: 57280951--57281006 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
57280941 TGCAGATGAG
*
57280951 TACTCAATATCTTGCACACTAAGTGCCA
1 TACTCAATATCTCGCACACTAAGTGCCA
*
57280979 TACTCAATATCTCGCACATTAAGTGCCA
1 TACTCAATATCTCGCACACTAAGTGCCA
57281007 AATGTAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (28 bp):
TACTCAATATCTCGCACACTAAGTGCCA
Found at i:57282723 original size:46 final size:44
Alignment explanation
Indices: 57282548--57282722 Score: 122
Period size: 46 Copynumber: 3.8 Consensus size: 44
57282538 TGGGTTATTG
* *
57282548 TGAGCTAGTGTAATACCATGTCTGGGACATGGCATC-AGCATT-AAGA
1 TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAG--TTCAAGA
* ** *
57282594 TGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGA
1 T--GAGCCAGTGTAAGACATGTCTGGGACATGCATCGAGTTCAAGA
* * * * * *
57282640 TGTAAGACAATGTAAGAAATTTTTAGGACATGCATCG-GTTACAAGA
1 TG--AGCCAGTGTAAGACATGTCTGGGACATGCATCGAGTT-CAAGA
57282686 TGAGCCAGTGTAAGACCATGTCTGGGACATGTCATCG
1 TGAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCG
57282723 GCATCATACC
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 47 0.47
47 15 0.15
48 13 0.13
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (44 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGAGTTCAAGA
Found at i:57298526 original size:20 final size:21
Alignment explanation
Indices: 57298499--57298565 Score: 91
Period size: 20 Copynumber: 3.1 Consensus size: 21
57298489 GTTAAGAGTA
57298499 ATCTATGGGATTTGTATATAT
1 ATCTATGGGATTTGTATATAT
*
57298520 A-CTATGGGATTTGTATAAGAGT
1 ATCTATGGGATTTGTAT-ATA-T
57298542 AATCTATGGGATTTGTATATAT
1 -ATCTATGGGATTTGTATATAT
57298564 AT
1 AT
57298566 TGTTTCCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 15 0.38
21 5 0.12
22 2 0.05
23 3 0.08
24 15 0.38
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.43
Consensus pattern (21 bp):
ATCTATGGGATTTGTATATAT
Found at i:57298553 original size:24 final size:24
Alignment explanation
Indices: 57298487--57298560 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 24
57298477 AGATGATTAA
57298487 TTGT-TAAGAGTAATCTATGGGAT
1 TTGTATAAGAGTAATCTATGGGAT
*
57298510 TTGTAT-ATA-T-A-CTATGGGAT
1 TTGTATAAGAGTAATCTATGGGAT
57298530 TTGTATAAGAGTAATCTATGGGAT
1 TTGTATAAGAGTAATCTATGGGAT
57298554 TTGTATA
1 TTGTATA
57298561 TATATTGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
20 15 0.34
21 3 0.07
22 2 0.05
23 7 0.16
24 17 0.39
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.42
Consensus pattern (24 bp):
TTGTATAAGAGTAATCTATGGGAT
Found at i:57301076 original size:40 final size:40
Alignment explanation
Indices: 57300971--57301116 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
57300961 GCTACTCGTT
*
57300971 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
57301011 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
57301051 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
57301092 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57301117 CATCATTCGA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:57302310 original size:56 final size:56
Alignment explanation
Indices: 57302243--57302362 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
57302233 TATTAGTTTA
*
57302243 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATCAACACAACATGTTTCATGACATGTT
*
57302299 TTGCCCATGCTTCTTATTTTATTTTTCCATCAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATCAACACAACATGTTTCATGACATGTT
57302355 TTGCCCAT
1 TTGCCCAT
57302363 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATCAACACAACATGTTTCATGACATGTT
Found at i:57308204 original size:40 final size:40
Alignment explanation
Indices: 57308167--57308259 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
57308157 GCTACTCGTT
* *
57308167 CAAATGCCTTCGGGACATAGCCCG-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGAATT-TAGTAACTCGCA
*
57308207 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGAATTTAGTAACTCGCA
57308247 CAAATGCCTTCGG
1 CAAATGCCTTCGG
57308260 ATCTTAGTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGAATTTAGTAACTCGCA
Found at i:57309506 original size:56 final size:56
Alignment explanation
Indices: 57309439--57309558 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
57309429 TATTAGTTTA
*
57309439 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATCAACACAACATGTTTCATGACATGTT
*
57309495 TTGCCCATGCTTCTTATTTTATTTTTCCATCAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATCAACACAACATGTTTCATGACATGTT
57309551 TTGCCCAT
1 TTGCCCAT
57309559 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATCAACACAACATGTTTCATGACATGTT
Found at i:57329978 original size:50 final size:50
Alignment explanation
Indices: 57329859--57330152 Score: 288
Period size: 50 Copynumber: 5.9 Consensus size: 50
57329849 CATTGTGAAA
* * *** * *
57329859 CACATCTGTAGTACTATA-TGCAAGCTACTATGTGTTTAAGATGGTTTTATGT
1 CACATGTGTAGTACTA-AGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
*
57329911 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * * * *
57329961 CGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGACAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTTAGGT
** *
57330012 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * *
57330062 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
** **
57330111 TGCATGTGTAGTACTAAGTGC-GGCTACTATACGTACCAGATA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
57330153 ACTTCGGTTA
Statistics
Matches: 200, Mismatches: 40, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
48 16 0.08
49 21 0.10
50 87 0.44
51 41 0.20
52 35 0.17
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:57330044 original size:26 final size:26
Alignment explanation
Indices: 57330015--57330097 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
57330005 CTTTGATCAC
*
57330015 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGTAGGCTACT
* * *
57330041 ATGTGTATTA-GATG-GTTAGG-TCAC-
1 ATGTGTAGTACTAAGTG-TAGGCT-ACT
57330065 ATGTGTAGTACTAAGTGTAGGCTACT
1 ATGTGTAGTACTAAGTGTAGGCTACT
*
57330091 ACGTGTA
1 ATGTGTA
57330098 CTAGATTGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
24 11 0.26
25 15 0.35
26 17 0.40
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGTAGGCTACT
Found at i:57330201 original size:151 final size:151
Alignment explanation
Indices: 57329909--57330193 Score: 358
Period size: 149 Copynumber: 1.9 Consensus size: 151
57329899 ATGGTTTTAT
* *
57329909 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTA
* * * * * * * * *
57329974 CTAAGTGCAGGCTATTATGCGTACCCGACAACTTTGATCACATGTGTAGTACTAAGTGCAGGCTA
66 CTAAGTGCAGGCTACTATACGTACCAGACAACTTCGATCACAAGGGTAGTAATAAGTGCAAGCAA
* *
57330039 CTATGTGTATTAGATGGTTAG
131 CCATGTCTATTAGATGGTTAG
* * * *
57330060 GTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATTGTT-GGTTGCATGTGTAGTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTA
* * * * *
57330124 CTAAGTGC-GGCTACTATACGTACCAGATAACTTCGGTTACAAGGGTGGTAATATGTGCAAGCAA
66 CTAAGTGCAGGCTACTATACGTACCAGACAACTTCGATCACAAGGGTAGTAATAAGTGCAAGCAA
57330188 CCATGT
131 CCATGT
57330194 ATCTATTATT
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
149 47 0.42
150 23 0.20
151 43 0.38
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (151 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATACGTACCAGACAACTTCGATCACAAGGGTAGTAATAAGTGCAAGCAA
CCATGTCTATTAGATGGTTAG
Found at i:57330372 original size:16 final size:15
Alignment explanation
Indices: 57330351--57330380 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57330341 GAATGGAGTA
57330351 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
57330367 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
57330381 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:57334115 original size:39 final size:39
Alignment explanation
Indices: 57334071--57334195 Score: 160
Period size: 39 Copynumber: 3.2 Consensus size: 39
57334061 TTTGAGATTG
* *
57334071 AAAATATTCAGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * *
57334110 AAAATATCCGGACATGAGATCCACAGGCTATATGTTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
57334149 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
57334188 AAAATATC
1 AAAATATC
57334196 TGGGTTAAAG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:57337123 original size:15 final size:15
Alignment explanation
Indices: 57337103--57337141 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
57337093 TATGATATTG
*
57337103 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
57337118 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
57337133 TATCTTGGA
1 TATCTTGGA
57337142 CTTTTTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:57339851 original size:50 final size:50
Alignment explanation
Indices: 57339732--57340225 Score: 517
Period size: 50 Copynumber: 9.9 Consensus size: 50
57339722 ATTGTGAGAA
* * *** *
57339732 CACATGTGTAGTACTATGTGCAGGCCACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
** * * *
57339784 CATGTGTATAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
** * * ** * * * * *
57339834 TGCATGAGTAGTACTAAGTGCGGGCTACTATGCATACCCAAAAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAGTTAGGT
* * * ** *
57339885 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * *
57339935 CACATGTGTAGTACTAAGTACAGGCTACTATGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * ** *
57339984 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * *
57340034 CACATGTGTAGTACTAAGTACAGGCTACTATGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * ** *
57340083 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * *
57340133 CACATGTGTAGTACTAAGTACAGGCTACTATGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
57340182 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
57340226 CTTCAGTTAC
Statistics
Matches: 359, Mismatches: 80, Indels: 9
0.80 0.18 0.02
Matches are distributed among these distances:
49 128 0.36
50 160 0.45
51 37 0.10
52 34 0.09
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:57340021 original size:99 final size:99
Alignment explanation
Indices: 57339792--57340211 Score: 669
Period size: 99 Copynumber: 4.2 Consensus size: 99
57339782 GTCATGTGTA
* * * ** * * *
57339792 TAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGTTGCATGAGTAGTACTAAGTGCGG
1 TAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGTCACATGTGTAGTACTAAGTACAG
** ** *** * *
57339857 GCTACTATGCATACCCAAAAACTTCGATCACGTGTG
66 GCTACTATGTGTA-CCGGATTGTT-GGTCACATGTG
57339893 TAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGTCACATGTGTAGTACTAAGTACAG
1 TAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGTCACATGTGTAGTACTAAGTACAG
57339958 GCTACTATGTGTACCGGATTGTTGGTCACATGTG
66 GCTACTATGTGTACCGGATTGTTGGTCACATGTG
57339992 TAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGTCACATGTGTAGTACTAAGTACAG
1 TAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGTCACATGTGTAGTACTAAGTACAG
57340057 GCTACTATGTGTACCGGATTGTTGGTCACATGTG
66 GCTACTATGTGTACCGGATTGTTGGTCACATGTG
57340091 TAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGTCACATGTGTAGTACTAAGTACAG
1 TAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGTCACATGTGTAGTACTAAGTACAG
57340156 GCTACTATGTGTACCGGATTGTTGGTCACATGTG
66 GCTACTATGTGTACCGGATTGTTGGTCACATGTG
57340190 TAGTACTAAGTGCAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
57340212 TGTGTACCAG
Statistics
Matches: 302, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
99 229 0.76
100 5 0.02
101 68 0.23
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (99 bp):
TAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTTAGGTCACATGTGTAGTACTAAGTACAG
GCTACTATGTGTACCGGATTGTTGGTCACATGTG
Found at i:57340445 original size:16 final size:15
Alignment explanation
Indices: 57340424--57340453 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57340414 GAATGGAGTA
57340424 AGTGAAATTCTGTAAG
1 AGTGAAATTC-GTAAG
57340440 AGTGAAATTCGTAA
1 AGTGAAATTCGTAA
57340454 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (15 bp):
AGTGAAATTCGTAAG
Found at i:57349807 original size:30 final size:30
Alignment explanation
Indices: 57349771--57349830 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57349761 TTCTCGAGCC
57349771 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
57349801 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
57349831 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:57350553 original size:50 final size:50
Alignment explanation
Indices: 57350477--57350622 Score: 188
Period size: 50 Copynumber: 2.9 Consensus size: 50
57350467 AGCTATTGTG
* **
57350477 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
57350527 AGGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
57350577 -GGTCGCATGTAG-AGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGT-GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
57350623 GCTTCGGCTA
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
49 38 0.45
50 46 0.55
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:57357821 original size:20 final size:21
Alignment explanation
Indices: 57357796--57357835 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
57357786 CCCTTGAAAC
*
57357796 AGGGC-ACACGCCTGTGTGGA
1 AGGGCAACACGCCTATGTGGA
*
57357816 AGGGCAACATGCCTATGTGG
1 AGGGCAACACGCCTATGTGG
57357836 CCATTATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.17
Consensus pattern (21 bp):
AGGGCAACACGCCTATGTGGA
Found at i:57359216 original size:94 final size:94
Alignment explanation
Indices: 57358988--57359259 Score: 300
Period size: 94 Copynumber: 2.8 Consensus size: 94
57358978 GGGTATAATG
* * *
57358988 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATTGAGGCCGACGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--ACATTGAGGCCGATG-CATGTCCCA
* ** *
57359053 GACATGGTCTTACACTAGCTCTCACATACCCGTG
63 GACAT-GTCTTACACTAGATCTCACATA-CAATA
* *
57359087 CCGATGCCATGTCCCAGACATGGTCTTACAATGGCT-TACATCTCGAGGCCGATGCATGTCCCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATACAT-T-GAGGCCGATGCATGTCCCAG
*
57359151 ACATGTCTTATACTAGATCTCATC-T-CAATA
64 ACATGTCTTACACTAGATCTCA-CATACAATA
* * *
57359181 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATACAT--TGAGGCCGATGCATGTCCCAG
*
57359245 ACATGTTTTACACTA
64 ACATGTCTTACACTA
57359260 TAACACAAAC
Statistics
Matches: 151, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
94 70 0.46
95 2 0.01
96 20 0.13
97 15 0.10
98 10 0.07
99 34 0.23
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATACATTGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGATCTCACATACAATA
Found at i:57359239 original size:47 final size:48
Alignment explanation
Indices: 57358987--57359258 Score: 240
Period size: 47 Copynumber: 5.7 Consensus size: 48
57358977 AGGGTATAAT
* * * *
57358987 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-TGTG
* * **
57359036 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATACCCGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATA-ATGTG
* * *
57359086 GCCGATGCCATGTCCCAGACATGGTCTTACAATGGCT-TACAT-CTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
* * * * *
57359134 GCCGATG-CATGTCCCAAACAT-GTCTTATACTAGATCTCATCTCAATAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AATGTG
57359182 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
*
57359228 GCCGATG-CATGTCCCAGACAT-GTTTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
57359259 ATAACACAAA
Statistics
Matches: 181, Mismatches: 27, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
45 4 0.02
46 28 0.15
47 42 0.23
48 32 0.18
49 36 0.20
50 35 0.19
51 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:57381896 original size:34 final size:33
Alignment explanation
Indices: 57381853--57381919 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 33
57381843 AGAGGACGTA
*
57381853 TTGGTATGTGTAGACAAATTTATCTTTCCTGCT
1 TTGGTATGTGTAGACAAATTTATCTCTCCTGCT
57381886 NTTGGTATGTGTAGACAAATTTATCTCTCCTGCT
1 -TTGGTATGTGTAGACAAATTTATCTCTCCTGCT
57381920 GACTTTGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.43
Consensus pattern (33 bp):
TTGGTATGTGTAGACAAATTTATCTCTCCTGCT
Found at i:57385644 original size:22 final size:19
Alignment explanation
Indices: 57385611--57385657 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
57385601 AAAGATGATA
57385611 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
57385634 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
57385653 ATTAT
1 ATTAT
57385658 CAACTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:57385653 original size:16 final size:15
Alignment explanation
Indices: 57385613--57385654 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
57385603 AGATGATAAT
57385613 TATTAATATATAATTA
1 TATTAAT-TATAATTA
57385629 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
57385645 TATTAATTAT
1 TATTAATTAT
57385655 TATCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:57386378 original size:25 final size:27
Alignment explanation
Indices: 57386319--57386379 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
57386309 AATTTTTCTC
*
57386319 TTAA-ATTTTAAATTTTATTTAATCAT
1 TTAATATTTTAAATTTTATTGAATCAT
* *
57386345 TTAAT-TTTTCAA-TTTATTGAATTA-
1 TTAATATTTTAAATTTTATTGAATCAT
57386369 TTAATATTTTA
1 TTAATATTTTA
57386380 TATTAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.17
25 14 0.48
26 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTAATATTTTAAATTTTATTGAATCAT
Found at i:57387919 original size:49 final size:50
Alignment explanation
Indices: 57387856--57387981 Score: 143
Period size: 49 Copynumber: 2.6 Consensus size: 50
57387846 AAGGATATAC
* *
57387856 AAGCTAGTGTAAGACCTACT-TGGGACATGGCATCGACAC-CGATAGATGA
1 AAGCCAGTGTAAGACCTACTCTGGGACATGGCATCAAC-CTCGATAGATGA
* ** *
57387905 CAGCCAGTGTAAGA-CTTGTCTGGGACATGGCATCAACCTCGATATATGA
1 AAGCCAGTGTAAGACCTACTCTGGGACATGGCATCAACCTCGATAGATGA
* *
57387954 AAGTCAGTGTAAGACCTA-TCTGGCACAT
1 AAGCCAGTGTAAGACCTACTCTGGGACAT
57387982 AAGATCGACT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 4 0.06
49 58 0.91
50 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (50 bp):
AAGCCAGTGTAAGACCTACTCTGGGACATGGCATCAACCTCGATAGATGA
Found at i:57404812 original size:68 final size:67
Alignment explanation
Indices: 57404740--57404897 Score: 167
Period size: 68 Copynumber: 2.3 Consensus size: 67
57404730 CATCATGTGT
** * * * *
57404740 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGAT-ACGGGATGTATC-CCA
1 ACAAGAGAGCTACGAGATA-TAAAT-GTAGCTAAGTCACATGTGTGATCAAGGGAAGGA-CACCA
57404803 TGTAG
63 TGTAG
* *
57404808 ACAAGAGAGCTACGGGAGATATAAATGTAGCTAAGTCGCATGTGTGATCCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGATATAAATGTAGCTAAGTCACATGTGTGAT--CAAGGGAAGGACACC
57404873 ATGTAG
62 ATGTAG
57404879 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
57404898 AATTGGCTAG
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
68 33 0.43
69 9 0.12
70 7 0.09
71 27 0.36
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATAAATGTAGCTAAGTCACATGTGTGATCAAGGGAAGGACACCATGT
AG
Found at i:57410347 original size:58 final size:58
Alignment explanation
Indices: 57410257--57410485 Score: 449
Period size: 58 Copynumber: 3.9 Consensus size: 58
57410247 CTTAGATGCC
*
57410257 GTGTTTTAGAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGCGCT
1 GTGTTTTAAAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGCGCT
57410315 GTGTTTTAAAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGCGCT
1 GTGTTTTAAAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGCGCT
57410373 GTGTTTTAAAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGCGCT
1 GTGTTTTAAAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGCGCT
57410431 GTGTTTTAAAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGC
1 GTGTTTTAAAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGC
57410486 CTACAATAAC
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 170 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (58 bp):
GTGTTTTAAAATTTGAAGGCAGTTGGGAGAAGTATCTATCTTTGGTTGAATTTGCGCT
Found at i:57415851 original size:16 final size:16
Alignment explanation
Indices: 57415832--57415862 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57415822 CTTCTTCACT
57415832 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57415848 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57415863 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:57415868 original size:20 final size:20
Alignment explanation
Indices: 57415829--57415868 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57415819 AAACTTCTTC
* *
57415829 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57415849 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57415869 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:57416182 original size:53 final size:54
Alignment explanation
Indices: 57416093--57416305 Score: 225
Period size: 55 Copynumber: 3.9 Consensus size: 54
57416083 TATGTCGTAT
* * * *
57416093 CCTTTTGAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCATTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTG
* * * *
57416147 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTAGATGGGA-CATTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCA-TTG
* * * ** * *
57416200 CGTTATAGTAACTTATCAATGCCATTTCTTGACATGGTCTTACATGGCATCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTG
*
57416255 CCTTA-GAAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATC
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATC
57416306 CTTAAACCCT
Statistics
Matches: 129, Mismatches: 24, Indels: 11
0.79 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 44 0.34
54 14 0.11
55 68 0.53
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTG
Found at i:57416245 original size:108 final size:110
Alignment explanation
Indices: 57416101--57416301 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
57416091 ATCCTTTTGA
* *
57416101 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCATTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGCATCATTGCCTTA-GAAACCTCACCAA
*
57416164 -TGCCATGCCTTGGCATGGTCTTAGATGGGACATTTGCGTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCGTTATAGT
* * * * *
57416209 AACTTATCAATGCCATTTCTTGACATGGTCTTACATGGCATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGCATCATTGCCTTAGAAACCTCACCAAT
57416274 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
57416302 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGCATCATTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCGTTATAGT
Found at i:57416307 original size:55 final size:54
Alignment explanation
Indices: 57416054--57416308 Score: 215
Period size: 55 Copynumber: 4.8 Consensus size: 54
57416044 ACACGGGTAC
* * ** *
57416054 CTTACC-ATTGCCATGACTTGTCATGGTCTTATGTCGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
57416103 CTTACC-ATTGCCATGTCTCGACATGGTCTTACATGGTATCATTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * * * *
57416156 CTCACCAA-TGCCATGCCTTGGCATGGTCTTAGATGGGA-CATTTGCGTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGC-CT-TAGAAA
* ** *
57416211 CTTATCAA-TGCCATTTCTTGACATGGTCTTACATGGCATCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
57416264 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
57416309 AAACCCTAAT
Statistics
Matches: 163, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 36 0.22
52 3 0.02
53 41 0.25
54 12 0.07
55 70 0.43
56 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:57423559 original size:16 final size:16
Alignment explanation
Indices: 57423535--57423565 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57423525 TTTCTTCATT
57423535 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57423551 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57423566 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:57423962 original size:55 final size:53
Alignment explanation
Indices: 57423825--57424011 Score: 175
Period size: 55 Copynumber: 3.5 Consensus size: 53
57423815 GCCATATCTC
*
57423825 GACATGGTCTTACATGGTATCCTGGCCTTATGAACTCACCAATGCCATGCATT
1 GACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATT
* * * *
57423878 GGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTC-TT
1 GACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACTCACCAATGCCATG-CATT
* * * *
57423933 TACATGGTCTTACATGGTATCCTTACCTTA-GAAACCTTACCAATTTCCATGCCA-T
1 GACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-TGCCATG-CATT
* *
57423988 GGCATGGTCTTACATCGTATCCTT
1 GACATGGTCTTACATGGTATCCTT
57424012 AAAGCCTAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
52 2 0.02
53 28 0.25
54 8 0.07
55 69 0.63
56 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
GACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCATT
Found at i:57426954 original size:11 final size:11
Alignment explanation
Indices: 57426940--57426978 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
57426930 GTGGTGGTAC
*
57426940 AGTGGTGTTGT
1 AGTGGTGATGT
57426951 AGTGGTGATGT
1 AGTGGTGATGT
* *
57426962 AGTGGTGCTAT
1 AGTGGTGATGT
57426973 AGTGGT
1 AGTGGT
57426979 TGTATGGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.38
Consensus pattern (11 bp):
AGTGGTGATGT
Found at i:57432320 original size:23 final size:23
Alignment explanation
Indices: 57432280--57432323 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
57432270 ATTATGTGTA
57432280 ATGTGATATATGCCTAAATGAGT
1 ATGTGATATATGCCTAAATGAGT
*
57432303 ATGTGAT-TATTGCGTAAATGA
1 ATGTGATATA-TGCCTAAATGA
57432324 ACCAATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (23 bp):
ATGTGATATATGCCTAAATGAGT
Found at i:57434370 original size:19 final size:19
Alignment explanation
Indices: 57434346--57434392 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
57434336 TGGGCACAGG
57434346 GACACGCCCATGTGCCCTA
1 GACACGCCCATGTGCCCTA
57434365 GACACGCCCATGTGCCCTA
1 GACACGCCCATGTGCCCTA
57434384 GACACGCCC
1 GACACGCCC
57434393 GTGTCCGCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (19 bp):
GACACGCCCATGTGCCCTA
Found at i:57447923 original size:43 final size:42
Alignment explanation
Indices: 57447876--57447976 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
57447866 TCCTAGACGT
* *
57447876 GGTCTTACATGTAATCAAATATCGATGC-CACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATA-CAATGCTCA-TGTCCCAGACAG
* * *
57447919 GGTCTTACACGAAATCAAATACAATGCTGATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACAATGCTCATGTCCCAGACAG
57447961 GGTCTTACACGTAATC
1 GGTCTTACACGTAATC
57447977 GATGCCAACG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.61
43 20 0.39
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACAATGCTCATGTCCCAGACAG
Found at i:57447966 original size:42 final size:43
Alignment explanation
Indices: 57447855--57447976 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 43
57447845 AAGGCTTGTA
* * *
57447855 CAATGCCAAC-GTCCTAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCAAATAT
* * *
57447898 CGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATA-
1 CAATGCCACTGTCCCAGACATGGTCTTACACGTAATCAAATAT
*
57447940 CAATGCTGA-TGTCCCAGACATGGTCTTACACGTAATC
1 CAATGC-CACTGTCCCAGACATGGTCTTACACGTAATC
57447977 GATGCCAACG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
CAATGCCACTGTCCCAGACATGGTCTTACACGTAATCAAATAT
Found at i:57453599 original size:40 final size:40
Alignment explanation
Indices: 57453552--57453721 Score: 295
Period size: 40 Copynumber: 4.2 Consensus size: 40
57453542 ACTACTTGCT
** *
57453552 CAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
* *
57453592 CAAATGCCTTCGGCACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
57453632 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
57453672 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
57453712 CAAATGCCTT
1 CAAATGCCTT
57453722 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
Found at i:57473415 original size:40 final size:40
Alignment explanation
Indices: 57473367--57473546 Score: 292
Period size: 40 Copynumber: 4.5 Consensus size: 40
57473357 TTGCTTAAAA
*
57473367 GCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
57473407 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
*
57473447 GCCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
* *
57473487 GCCTTC-GGAGCTTAGCCCGGA-ATTAGTCACTAGCACAAAT
1 GCCTTCGGGA-CTTAGCCCGGATA-TAGTAACTCGCACAAAT
57473527 GCCTTCGGGACTTAGCCCGG
1 GCCTTCGGGACTTAGCCCGG
57473547 TTATCATCCG
Statistics
Matches: 132, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
39 4 0.03
40 125 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
Found at i:57478246 original size:27 final size:27
Alignment explanation
Indices: 57478215--57478392 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57478205 TAAATTGTAC
57478215 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57478242 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57478268 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57478296 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57478324 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57478351 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57478378 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57478393 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57478329 original size:82 final size:81
Alignment explanation
Indices: 57478216--57478371 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57478206 AAATTGTACA
* *
57478216 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57478280 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57478297 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57478362 TGCGAGTTGA
65 TGCGAATTGA
57478372 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57478383 original size:82 final size:81
Alignment explanation
Indices: 57478212--57478392 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57478202 GATTAAATTG
* *
57478212 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57478277 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57478293 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57478357 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57478375 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57478393 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57486309 original size:27 final size:27
Alignment explanation
Indices: 57486278--57486455 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57486268 TAAATTGTAC
57486278 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57486305 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57486331 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57486359 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57486387 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57486414 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57486441 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57486456 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57486392 original size:82 final size:81
Alignment explanation
Indices: 57486279--57486434 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57486269 AAATTGTACA
* *
57486279 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57486343 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57486360 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57486425 TGCGAGTTGA
65 TGCGAATTGA
57486435 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57486446 original size:82 final size:81
Alignment explanation
Indices: 57486275--57486455 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57486265 GATTAAATTG
* *
57486275 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57486340 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57486356 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57486420 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57486438 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57486456 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57491123 original size:22 final size:21
Alignment explanation
Indices: 57491073--57491124 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
57491063 TTAGGAACGC
57491073 TTAATTTTTATTACTTTAGCCAT
1 TTAATTTTTATTACTTTA--CAT
57491096 TT-ATTTTTATTACAATTTA-AT
1 TTAATTTTTATTAC--TTTACAT
57491117 TTAATTTT
1 TTAATTTT
57491125 AATTTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 2 0.08
24 4 0.15
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (21 bp):
TTAATTTTTATTACTTTACAT
Found at i:57495032 original size:16 final size:16
Alignment explanation
Indices: 57495008--57495038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57494998 TTTCTTCACT
57495008 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
57495024 TACTTACTTACTTAA
1 TACTCACTTACTTAA
57495039 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:57495044 original size:20 final size:20
Alignment explanation
Indices: 57495005--57495044 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57494995 AAATTTCTTC
* *
57495005 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
57495025 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
57495045 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:57495344 original size:53 final size:55
Alignment explanation
Indices: 57495276--57495482 Score: 190
Period size: 55 Copynumber: 3.8 Consensus size: 55
57495266 ATCCGTTTGA
* * *
57495276 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTGGCCTTA-TG-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTGGCCTTACAGT
* * * * * *
57495329 AACTCACCAGTGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTACAGT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TGGCCTTACAGT
* ** *
57495384 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTT--AGA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTGGCCTTACAGT
* * * * *
57495437 AACCTTACCAATTTCCATGCCATGGCATGGTCTTACATCGTATCCT
1 AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCT
57495483 TAAAGCCTAA
Statistics
Matches: 126, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 45 0.36
54 8 0.06
55 69 0.55
56 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (55 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTGGCCTTACAGT
Found at i:57495420 original size:108 final size:110
Alignment explanation
Indices: 57495276--57495474 Score: 287
Period size: 108 Copynumber: 1.8 Consensus size: 110
57495266 ATCCGTTTGA
* *
57495276 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTGGCCTTATG-AA-CTCACC-A
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTGACCTTA-GAAACCTCACCAA
*
57495338 GTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACAGT
65 GTGCCATGCCATGGCATGGTCTTACATGGGACCTTTGCCTTACAGT
* * * * *
57495384 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTGACCTTAGAAACCTCACCAAG
*
57495449 TTCCATGCCATGGCATGGTCTTACAT
66 TGCCATGCCATGGCATGGTCTTACAT
57495475 CGTATCCTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.61
109 5 0.06
110 25 0.32
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTGACCTTAGAAACCTCACCAAG
TGCCATGCCATGGCATGGTCTTACATGGGACCTTTGCCTTACAGT
Found at i:57498388 original size:17 final size:16
Alignment explanation
Indices: 57498348--57498388 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
57498338 AGTGATTATC
*
57498348 AAAAGAAGAAGGAATA
1 AAAAGAAGAAGAAATA
57498364 AAAGAGAAGAAGAAATA
1 AAA-AGAAGAAGAAATA
57498381 ACAAAGAA
1 A-AAAGAA
57498389 ATCAGTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.77
18 2 0.09
ACGTcount: A:0.71, C:0.02, G:0.22, T:0.05
Consensus pattern (16 bp):
AAAAGAAGAAGAAATA
Found at i:57519191 original size:38 final size:38
Alignment explanation
Indices: 57519140--57519214 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
57519130 TAACACCCCG
* *
57519140 TACCCGAGACCGTTACCGGAGTCGGACACGAGGGGTTC
1 TACCCAAGACCGTTACCGGAGTCAGACACGAGGGGTTC
*
57519178 TACCCAAGACCGTTGCCGGAGTCAGACACGAGGGGTT
1 TACCCAAGACCGTTACCGGAGTCAGACACGAGGGGTT
57519215 AACAGACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.16
Consensus pattern (38 bp):
TACCCAAGACCGTTACCGGAGTCAGACACGAGGGGTTC
Found at i:57523347 original size:23 final size:23
Alignment explanation
Indices: 57523312--57523355 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
57523302 ATTATGTGTA
57523312 ATGTGATATATGCCTAAATGAGT
1 ATGTGATATATGCCTAAATGAGT
*
57523335 ATGTGAT-TAATGCGTAAATGA
1 ATGTGATAT-ATGCCTAAATGA
57523356 ACCAATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (23 bp):
ATGTGATATATGCCTAAATGAGT
Found at i:57534239 original size:15 final size:15
Alignment explanation
Indices: 57534219--57534255 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
57534209 CAAGTTCAAA
57534219 ACCAAATCATTTCAT
1 ACCAAATCATTTCAT
57534234 ACCAAATCATTTCAT
1 ACCAAATCATTTCAT
57534249 ACCAAAT
1 ACCAAAT
57534256 TTGCAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (15 bp):
ACCAAATCATTTCAT
Found at i:57535021 original size:43 final size:42
Alignment explanation
Indices: 57534974--57535074 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
57534964 TCCTAGACGT
*
57534974 GGTCTTACATGTAATCAAATATCGATG-CCACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATA-CAATGACCA-TATCCCAGACAG
* * * * * *
57535017 GGTCTTACACGAAATTAAATACAATGACGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACAATGACCATATCCCAGACAG
57535059 GGTCTTACATGTAATC
1 GGTCTTACATGTAATC
57535075 GATGCCAACG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACAATGACCATATCCCAGACAG
Found at i:57540806 original size:30 final size:30
Alignment explanation
Indices: 57540771--57540828 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
57540761 TAAGCACTTC
57540771 CACACGAGTA-ATCCACACGCCCGTGTGTGA
1 CACACGAGTAGA-CCACACGCCCGTGTGTGA
* * *
57540801 CACACGGGTAGACTACACGCCTGTGTGT
1 CACACGAGTAGACCACACGCCCGTGTGT
57540829 CATGGCCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGAGTAGACCACACGCCCGTGTGTGA
Found at i:57548483 original size:35 final size:36
Alignment explanation
Indices: 57548439--57548510 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
57548429 TCTTTCTTTA
57548439 CCTATTTCCCCC-TTTTCACCATTTAAAACTTTTCC
1 CCTATTTCCCCCTTTTTCACCATTTAAAACTTTTCC
**
57548474 CCTATTTCCCCCTTTTTCACCATTTAAGCCTTTTCC
1 CCTATTTCCCCCTTTTTCACCATTTAAAACTTTTCC
57548510 C
1 C
57548511 TTCACCCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 12 0.35
36 22 0.65
ACGTcount: A:0.17, C:0.39, G:0.01, T:0.43
Consensus pattern (36 bp):
CCTATTTCCCCCTTTTTCACCATTTAAAACTTTTCC
Found at i:57548673 original size:23 final size:22
Alignment explanation
Indices: 57548634--57548682 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
57548624 ACGTCCAACT
57548634 ACCA-CGCACCCACCGCC-ACGC
1 ACCACCGCACCCACCGCCGAC-C
*
57548655 ACCACCGCACCCCATCGCCGACC
1 ACCACCGCA-CCCACCGCCGACC
57548678 ACCAC
1 ACCAC
57548683 TCTCAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 14 0.58
24 2 0.08
ACGTcount: A:0.24, C:0.61, G:0.12, T:0.02
Consensus pattern (22 bp):
ACCACCGCACCCACCGCCGACC
Found at i:57548819 original size:70 final size:70
Alignment explanation
Indices: 57548706--57548846 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
57548696 TCTTGCATCC
57548706 TTAGCTCTGTTTTACTATTTTAATATTAATTTTCTTAATTCATTAGTAATTATTTATTTCATGTT
1 TTAGCTCTGTTTTACTATTTTAATATTAATTTTCTTAATTCATTAGTAATTATTTATTTCATGTT
57548771 CTATA
66 CTATA
57548776 TTAGCTCTGTTTTACTATTTTAATATTAATTTTCTTAATTCATTAGTAATTATTTATTTCATGTT
1 TTAGCTCTGTTTTACTATTTTAATATTAATTTTCTTAATTCATTAGTAATTATTTATTTCATGTT
57548841 CTATA
66 CTATA
57548846 T
1 T
57548847 GACTGTATTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.57
Consensus pattern (70 bp):
TTAGCTCTGTTTTACTATTTTAATATTAATTTTCTTAATTCATTAGTAATTATTTATTTCATGTT
CTATA
Found at i:57548884 original size:70 final size:69
Alignment explanation
Indices: 57548708--57548880 Score: 206
Period size: 70 Copynumber: 2.5 Consensus size: 69
57548698 TTGCATCCTT
* * *
57548708 AGCTCTGTTTTACTATTTTAATATTAATTTTCTTAATTCATTAGTAATTATTTATTTCATGTTCT
1 AGCTCTATTTTA-TATTTTAATACTAATTTGCTTAATTCATTAGTAATTATTTATTTCATGTTCT
*
57548773 ATATT
65 ATATG
* * *
57548778 AGCTCTGTTTTACTATTTTAATATTAATTTTCTTAATTCATTAGTAATTATTTATTTCATGTTCT
1 AGCTCTATTTTA-TATTTTAATACTAATTTGCTTAATTCATTAGTAATTATTTATTTCATGTTCT
57548843 ATATG
65 ATATG
* * *
57548848 A-CTGTATTTT-TATTATTACTACTACTCTTGCTT
1 AGCTCTATTTTATATT-TTAATACTAAT-TTGCTT
57548881 TAATATTTTT
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
67 4 0.04
68 8 0.09
69 12 0.13
70 70 0.74
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (69 bp):
AGCTCTATTTTATATTTTAATACTAATTTGCTTAATTCATTAGTAATTATTTATTTCATGTTCTA
TATG
Found at i:57554068 original size:43 final size:43
Alignment explanation
Indices: 57554020--57554178 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
57554010 GGCTCATACA
*
57554020 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
*
57554063 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
*** * * * *
57554105 ATGATGATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATC-AAATATCG
* *
57554149 ATGCCAACGTCCTAGATGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
57554179 AAAACACATA
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 27 0.29
43 39 0.42
44 27 0.29
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:57555808 original size:26 final size:26
Alignment explanation
Indices: 57555753--57555825 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
57555743 TTTCCAACCC
*
57555753 CAATTTTA-CCCTAGT-AAATTTTGA
1 CAATTTTACCCCTTGTAAAATTTTGA
57555777 CAATTTTACCCC-TGATAAAATTTTGA
1 CAATTTTACCCCTTG-TAAAATTTTGA
*
57555803 CGATTTTACCCCTTGTAAAATTT
1 CAATTTTACCCCTTGTAAAATTT
57555826 CAAGAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.21
25 4 0.09
26 28 0.65
27 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (26 bp):
CAATTTTACCCCTTGTAAAATTTTGA
Found at i:57557368 original size:40 final size:40
Alignment explanation
Indices: 57557186--57557408 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
57557176 TCCTCGTTCA
* * * * *
57557186 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
57557225 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
57557265 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
57557305 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
57557345 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
57557385 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57557409 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:57557417 original size:41 final size:41
Alignment explanation
Indices: 57557340--57557417 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57557330 TTAGTATCTC
* * *
57557340 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57557381 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57557418 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57560503 original size:21 final size:22
Alignment explanation
Indices: 57560477--57560522 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
57560467 ATCATATAGT
57560477 AATTCAAACAAAT-AACATTTC
1 AATTCAAACAAATCAACATTTC
***
57560498 AATTCACTTAAATCAACATTTC
1 AATTCAAACAAATCAACATTTC
57560520 AAT
1 AAT
57560523 GTCATTCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTCAAACAAATCAACATTTC
Found at i:57562762 original size:15 final size:15
Alignment explanation
Indices: 57562737--57562781 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
57562727 TAAGTAAATG
*
57562737 TTATTAAATTATACTA
1 TTATTATATTATA-TA
57562753 -TATTATATTATATA
1 TTATTATATTATATA
*
57562767 TTATTATATAATATA
1 TTATTATATTATATA
57562782 ATTAAAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 2 0.08
15 24 0.92
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATTATATTATATA
Found at i:57564204 original size:22 final size:22
Alignment explanation
Indices: 57564118--57564206 Score: 81
Period size: 22 Copynumber: 3.9 Consensus size: 22
57564108 TTTGATTATA
* *
57564118 AGCACGTTAGTGCCCTCTGATTATT
1 AGCACTTTAGTGCTCTCTG--TA-T
* ** *
57564143 AGCACATTAGTGCTCTCCATTT
1 AGCACTTTAGTGCTCTCTGTAT
57564165 AGCACATTT-GTGCTCTCTGTAT
1 AGCAC-TTTAGTGCTCTCTGTAT
57564187 AGCACTTTAGTGCTCTCTGT
1 AGCACTTTAGTGCTCTCTGT
57564207 TCATTAGTGC
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.06
22 32 0.60
23 3 0.06
25 15 0.28
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (22 bp):
AGCACTTTAGTGCTCTCTGTAT
Done.