Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 124 of 213
Found at i:35875084 original size:113 final size:117
Alignment explanation
Indices: 35874863--35875089 Score: 389
Period size: 113 Copynumber: 2.0 Consensus size: 117
35874853 CATTTAATTA
35874863 AGTGGCTGTTCAAGTTCTTTTGAGTTACAATTAAAGGGGCTGTTATAAAGGGAGCTTAAAATCAT
1 AGTGGCTGTTCAAGTTCTTTTGAGTTACAATTAAAGGGGCTGTTATAAAGGGAGCTTAAAATCAT
35874928 TAAAGGAGTTTTTAAAGAGCATTTATGCCCTTTAAAATTCAGCAGCAACTCT
66 TAAAGGAGTTTTTAAAGAGCATTTATGCCCTTTAAAATTCAGCAGCAACTCT
35874980 AGTGGCTGTTCAAGTTCTTTT-AGTTACAATTAAA-GGGCTGTTATAAAGGGA-C-TAAAATCAT
1 AGTGGCTGTTCAAGTTCTTTTGAGTTACAATTAAAGGGGCTGTTATAAAGGGAGCTTAAAATCAT
35875041 TAAAGGAGTTTTTAAAG-G-ATTTTATG-CCTTTAAAATTC-GCAGCAACTCT
66 TAAAGGAGTTTTTAAAGAGCA-TTTATGCCCTTTAAAATTCAGCAGCAACTCT
35875090 TCCACTTCCA
Statistics
Matches: 109, Mismatches: 0, Indels: 9
0.92 0.00 0.08
Matches are distributed among these distances:
110 11 0.10
111 13 0.12
112 7 0.06
113 26 0.24
114 1 0.01
115 17 0.16
116 13 0.12
117 21 0.19
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (117 bp):
AGTGGCTGTTCAAGTTCTTTTGAGTTACAATTAAAGGGGCTGTTATAAAGGGAGCTTAAAATCAT
TAAAGGAGTTTTTAAAGAGCATTTATGCCCTTTAAAATTCAGCAGCAACTCT
Found at i:35875600 original size:43 final size:45
Alignment explanation
Indices: 35875532--35875621 Score: 141
Period size: 44 Copynumber: 2.0 Consensus size: 45
35875522 ATAGTGTGGC
*
35875532 GTTCATCATATACCAAGGTTCTATCA-TCATTGAT-GTGGGTTGAG
1 GTTCATCATATACCAAGGTTCTATCATTC-TTGATAGTGGGTCGAG
35875576 GTTCATCATATA-CAAGGTTCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCTATCATTCTTGATAGTGGGTCGAG
35875620 GT
1 GT
35875622 CTTTTCTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 18 0.42
44 25 0.58
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (45 bp):
GTTCATCATATACCAAGGTTCTATCATTCTTGATAGTGGGTCGAG
Found at i:35881734 original size:17 final size:17
Alignment explanation
Indices: 35881709--35881762 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
35881699 TCTCTTTTCA
*
35881709 TTCTCTTTTTTTGAATT
1 TTCTTTTTTTTTGAATT
* *
35881726 TTCTTTTTTTTTCATTT
1 TTCTTTTTTTTTGAATT
* *
35881743 TTCTTTTCTTTTGTATT
1 TTCTTTTTTTTTGAATT
35881760 TTC
1 TTC
35881763 GCTCTTTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.07, C:0.13, G:0.04, T:0.76
Consensus pattern (17 bp):
TTCTTTTTTTTTGAATT
Found at i:35905316 original size:40 final size:39
Alignment explanation
Indices: 35905252--35905462 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
35905242 TCTTCGGAAT
* * *
35905252 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
35905291 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
35905331 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
35905371 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
35905411 TT-GCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
35905450 TTAGCCCGGATAT
1 TTAGCCCGGATAT
35905463 CATTCAAATG
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
39 38 0.26
40 103 0.71
41 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:35905458 original size:79 final size:80
Alignment explanation
Indices: 35905252--35905462 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 80
35905242 TCTTCGGAAT
* * * * * *
35905252 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
35905316 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
35905331 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
35905396 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
35905411 TT-GCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
35905463 CATTCAAATG
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 51 0.43
80 69 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:35908598 original size:27 final size:26
Alignment explanation
Indices: 35908559--35908779 Score: 140
Period size: 27 Copynumber: 8.3 Consensus size: 26
35908549 ATTTGTAGGC
* *
35908559 AAATGATCGAAATACCCTCAGAGGGTA
1 AAATGACCAAAATACCC-CAGAGGGTA
35908586 AAATGACCAAAATACCCCTAGAGGGTA
1 AAATGACCAAAATACCCC-AGAGGGTA
* ** *
35908613 AAATGGCTGAAATACCCCTAAAGGGTA
1 AAATGACCAAAATACCCC-AGAGGGTA
* ***
35908640 AAATAATTGAAATACCCTC-GAAGGGTA
1 AAATGACCAAAATACCC-CAG-AGGGTA
* * * * *
35908667 AAATGATCGAAATACCCCTGAAAGATA
1 AAATGACCAAAATACCCCAG-AGGGTA
* * **
35908694 AAATGACTAAAATACCCCTGAAAAGTA
1 AAATGACCAAAATACCCCAG-AGGGTA
* *
35908721 AAATGA-CAGAAATACCACAAAGGGTA
1 AAATGACCA-AAATACCCCAGAGGGTA
* * *
35908747 AAATGACTAAAATACCCTATAGGGTA
1 AAATGACCAAAATACCCCAGAGGGTA
35908773 AAATGAC
1 AAATGAC
35908780 TGTTATACTC
Statistics
Matches: 159, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
26 34 0.21
27 124 0.78
28 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (26 bp):
AAATGACCAAAATACCCCAGAGGGTA
Found at i:35908626 original size:54 final size:53
Alignment explanation
Indices: 35908567--35908777 Score: 198
Period size: 54 Copynumber: 3.9 Consensus size: 53
35908557 GCAAATGATC
* *
35908567 GAAATACCCTCAGAGGGTAAAATGACCAAAATACCCCTAG-AGGGTAAAATGGCT
1 GAAATACCC-CAAAGGGTAAAATGACTAAAATA-CCCTAGAAGGGTAAAATGGCT
* * * * *
35908621 GAAATACCCCTAAAGGGTAAAATAATTGAAATACCCTCGAAGGGTAAAAT-GAT
1 GAAATACCCC-AAAGGGTAAAATGACTAAAATACCCTAGAAGGGTAAAATGGCT
* ** * *
35908674 CGAAATACCCCTGAAA-GATAAAATGACTAAAATACCCCT-GAAAAGTAAAATGACA
1 -GAAATACCCC--AAAGGGTAAAATGACTAAAATA-CCCTAGAAGGGTAAAATGGCT
* *
35908729 GAAATACCACAAAGGGTAAAATGACTAAAATACCCTA-TAGGGTAAAATG
1 GAAATACCCCAAAGGGTAAAATGACTAAAATACCCTAGAAGGGTAAAATG
35908778 ACTGTTATAC
Statistics
Matches: 127, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
52 16 0.13
53 25 0.20
54 79 0.62
55 7 0.06
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (53 bp):
GAAATACCCCAAAGGGTAAAATGACTAAAATACCCTAGAAGGGTAAAATGGCT
Found at i:35908707 original size:81 final size:80
Alignment explanation
Indices: 35908567--35908780 Score: 220
Period size: 81 Copynumber: 2.7 Consensus size: 80
35908557 GCAAATGATC
* * * *
35908567 GAAATACCCTCAGAGGGTAAAATGACCAAAATACCCCTAGAGGGTAAAATGGCTGAAATACCCCT
1 GAAATACCCTCA-AGGGTAAAATGACCAAAATACCCCTAGAAGATAAAATGACTAAAATACCCCT
* **
35908632 -AAAGGGTAAAATAATT
65 GAAA-AGTAAAATAACA
* *
35908648 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCT-GAAAGATAAAATGACTAAAATACCCC
1 GAAATACCCTC-AAGGGTAAAATGACCAAAATACCCCTAG-AAGATAAAATGACTAAAATACCCC
*
35908712 TGAAAAGTAAAATGACA
64 TGAAAAGTAAAATAACA
* * * * *
35908729 GAAATACCAC-AAAGGGTAAAATGACTAAAATA-CCCTATAGGGTAAAATGACT
1 GAAATACC-CTCAAGGGTAAAATGACCAAAATACCCCTAGAAGATAAAATGACT
35908781 GTTATACTCC
Statistics
Matches: 111, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
79 16 0.14
80 19 0.17
81 71 0.64
82 5 0.05
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (80 bp):
GAAATACCCTCAAGGGTAAAATGACCAAAATACCCCTAGAAGATAAAATGACTAAAATACCCCTG
AAAAGTAAAATAACA
Found at i:35922654 original size:40 final size:40
Alignment explanation
Indices: 35922610--35922797 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
35922600 GCAAACACAT
* ** *
35922610 TTGCCTTCGGGTCTTAACCCGGACGTATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35922650 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35922690 TTGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
35922730 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
35922770 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
35922798 TCCAATGCTC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:35931920 original size:36 final size:36
Alignment explanation
Indices: 35931838--35931920 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
35931828 AATGAAAACA
* ** * *
35931838 TTTCTCGCTTTTTCTCGCTCACTTTCTTCTTTTTCT
1 TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
* *
35931874 TTTGTCTCTTTTTCTAACTCATTTTCTT-TTTATAT
1 TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
35931909 TTTCTCTTCTTT
1 TTTCTC-TCTTT
35931921 CTCATAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
35 10 0.26
36 28 0.74
ACGTcount: A:0.07, C:0.24, G:0.04, T:0.65
Consensus pattern (36 bp):
TTTCTCTCTTTTTCTAACTCACTTTCTTCTTTATAT
Found at i:35931931 original size:33 final size:33
Alignment explanation
Indices: 35931864--35931931 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
35931854 GCTCACTTTC
* *
35931864 TTCTTTTTCTTTTGTCTCTTTTTCTAACTCATT
1 TTCTTTTTATTTTGTCTCTTTTTCTAACTAATT
*
35931897 TTCTTTTTATATTT-TCTCTTCTTTCTCA-TAATT
1 TTCTTTTTAT-TTTGTCTCTT-TTTCTAACTAATT
35931930 TT
1 TT
35931932 GTTCAATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.12, C:0.19, G:0.01, T:0.68
Consensus pattern (33 bp):
TTCTTTTTATTTTGTCTCTTTTTCTAACTAATT
Found at i:35933055 original size:11 final size:11
Alignment explanation
Indices: 35933032--35933088 Score: 91
Period size: 10 Copynumber: 5.3 Consensus size: 11
35933022 TCAAATTTTA
35933032 TTTTTTGAA-T
1 TTTTTTGAATT
35933042 TTTTTTGAATT
1 TTTTTTGAATT
35933053 TTTTTTGAA-T
1 TTTTTTGAATT
35933063 TTTTTTGAATTT
1 TTTTTTGAA-TT
35933075 TTTTTTGAATT
1 TTTTTTGAATT
35933086 TTT
1 TTT
35933089 ATACGAACCT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
10 19 0.43
11 15 0.34
12 10 0.23
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTTTGAATT
Found at i:35933058 original size:21 final size:22
Alignment explanation
Indices: 35933032--35933088 Score: 107
Period size: 21 Copynumber: 2.6 Consensus size: 22
35933022 TCAAATTTTA
35933032 TTTTTTGAATTTTTTTGAA-TT
1 TTTTTTGAATTTTTTTGAATTT
35933053 TTTTTTGAATTTTTTTGAATTT
1 TTTTTTGAATTTTTTTGAATTT
35933075 TTTTTTGAATTTTT
1 TTTTTTGAATTTTT
35933089 ATACGAACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (22 bp):
TTTTTTGAATTTTTTTGAATTT
Found at i:35937127 original size:23 final size:22
Alignment explanation
Indices: 35937076--35937127 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
35937066 CCTCGTCTTT
*
35937076 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
35937098 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
35937121 TTCTTTT
1 TTCTTTT
35937128 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:35941106 original size:41 final size:40
Alignment explanation
Indices: 35940985--35941111 Score: 218
Period size: 40 Copynumber: 3.1 Consensus size: 40
35940975 GTTTAATAAA
35940985 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
* *
35941025 AATAAAGTCCAACAACTCAACTATTAACTAAGATGTGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
*
35941065 AATAAATTCCAACAACTTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAAC-TCAATTATTAACTAAGATGAGTTT
35941106 AATAAA
1 AATAAA
35941112 ATTAAAGTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 53 0.65
41 28 0.35
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.31
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
Found at i:35946951 original size:22 final size:22
Alignment explanation
Indices: 35946924--35946976 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
35946914 CAATTAAAGA
35946924 CATTAAGGATCCTTAAAGTCTT
1 CATTAAGGATCCTTAAAGTCTT
35946946 CATTAAGGATCCTTAAAGTCTT
1 CATTAAGGATCCTTAAAGTCTT
35946968 CATTAAGGA
1 CATTAAGGA
35946977 GAATTGAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (22 bp):
CATTAAGGATCCTTAAAGTCTT
Found at i:35947767 original size:11 final size:11
Alignment explanation
Indices: 35947751--35947785 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
35947741 GTAGGTTCGT
*
35947751 AAAAAAATTTG
1 AAAAAAATTTC
*
35947762 AAAAAAAATTC
1 AAAAAAATTTC
35947773 AAAAAAATTTC
1 AAAAAAATTTC
35947784 AA
1 AA
35947786 TATAAAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAAAAATTTC
Found at i:35950419 original size:12 final size:12
Alignment explanation
Indices: 35950402--35950439 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
35950392 GTAGGTTCGT
35950402 AAAAAAATTCAA
1 AAAAAAATTCAA
35950414 AAAAAAATTCAA
1 AAAAAAATTCAA
35950426 AAAAAAATTCAA
1 AAAAAAATTCAA
35950438 AA
1 AA
35950440 TAAAGATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:35955316 original size:27 final size:27
Alignment explanation
Indices: 35955286--35955463 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35955276 ATATTGAGTC
* * * *
35955286 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35955313 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35955340 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35955368 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35955395 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35955422 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35955449 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35955464 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35955425 original size:82 final size:81
Alignment explanation
Indices: 35955307--35955462 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35955297 TGCTATATAA
* *
35955307 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35955372 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35955389 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35955453 CACTTAGTGC
65 CACTTAGTGC
35955463 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35963215 original size:29 final size:29
Alignment explanation
Indices: 35963173--35963230 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
35963163 ATTTAAACTG
35963173 AACCTATCAAATATTAAGTCTAGCCTATC
1 AACCTATCAAATATTAAGTCTAGCCTATC
*
35963202 AACCTATCAAATATTATGTCTAGCCTATC
1 AACCTATCAAATATTAAGTCTAGCCTATC
35963231 TTTTGAATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (29 bp):
AACCTATCAAATATTAAGTCTAGCCTATC
Found at i:35966462 original size:18 final size:18
Alignment explanation
Indices: 35966441--35966479 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35966431 AAAGGAAGAT
35966441 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
35966459 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
35966477 AGA
1 AGA
35966480 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:35968283 original size:33 final size:34
Alignment explanation
Indices: 35968246--35968317 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
35968236 GAGTTAGTTT
*
35968246 ATTAAATTTAGTTCATCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
35968279 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
35968313 ATTAA
1 ATTAA
35968318 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:35975147 original size:15 final size:13
Alignment explanation
Indices: 35975116--35975140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35975106 TTTTAGCTAA
35975116 TTAGAATTTAAAT
1 TTAGAATTTAAAT
35975129 TTAGAATTTAAA
1 TTAGAATTTAAA
35975141 AATTTAGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAATTTAAAT
Found at i:35982246 original size:16 final size:16
Alignment explanation
Indices: 35982225--35982256 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35982215 GACATTTCTG
35982225 GCACTACAAAATTGTA
1 GCACTACAAAATTGTA
35982241 GCACTACAAAATTGTA
1 GCACTACAAAATTGTA
35982257 ATTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (16 bp):
GCACTACAAAATTGTA
Found at i:35984405 original size:15 final size:14
Alignment explanation
Indices: 35984351--35984401 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
35984341 TCCATTGAGC
35984351 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
35984365 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
35984379 GATTG-AAAAGAAAAA
1 GA--GAAAAAGAAAAA
35984394 GAGAAAAA
1 GAGAAAAA
35984402 AGAATGATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 1 0.03
14 19 0.59
15 11 0.34
16 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:35995143 original size:49 final size:52
Alignment explanation
Indices: 35995038--35995155 Score: 152
Period size: 50 Copynumber: 2.3 Consensus size: 52
35995028 ATGAAGAAAC
* * * * * **
35995038 GAGTTACTTAATGAATGACTTAATTTAATGATGCAGACTTAAACTAACATGG
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
35995090 GAGTTACAT-ATGCATGTCATAATTT-ATGATGCAAACTT-AACTAACATAA
1 GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
35995139 GAGTTACATAATGCATG
1 GAGTTACATAATGCATG
35995156 ACTTTATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 18 0.31
50 19 0.33
51 13 0.22
52 8 0.14
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (52 bp):
GAGTTACATAATGCATGTCATAATTTAATGATGCAAACTTAAACTAACATAA
Found at i:35999242 original size:13 final size:13
Alignment explanation
Indices: 35999211--35999251 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
35999201 GGATATCAAG
*
35999211 TTGT-AAAAAATA
1 TTGTGAAAAAAAA
35999223 TTCGTGAAAAAAAA
1 TT-GTGAAAAAAAA
35999237 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
35999250 TT
1 TT
35999252 AGTTAGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 2 0.08
13 15 0.58
14 9 0.35
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:36001210 original size:79 final size:80
Alignment explanation
Indices: 36001111--36001278 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
36001101 CTCGTTCAAG
* * * * *
36001111 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
**
36001174 TTAA-AACTCGCATGAA
64 TTAATAACTCGCACAAA
* * *
36001190 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
36001255 AATAACTCGCACAAA
66 AATAACTCGCACAAA
36001270 TGCCTTCGG
1 TGCCTTCGG
36001279 ATCTTAGTCC
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 33 0.43
80 43 0.57
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:36001291 original size:40 final size:40
Alignment explanation
Indices: 36001148--36001278 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
36001138 TAACTCATAC
* **
36001148 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCATG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
36001188 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
36001228 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
36001268 AATGCCTTCGG
1 AATGCCTTCGG
36001279 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 3 0.04
40 78 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:36009070 original size:39 final size:40
Alignment explanation
Indices: 36009027--36009194 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
36009017 CTCGTTCAAG
* * * *
36009027 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
36009066 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
36009106 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
36009146 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
36009186 TGCCTTCGG
1 TGCCTTCGG
36009195 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:36009178 original size:80 final size:80
Alignment explanation
Indices: 36009062--36009247 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
36009052 AGTAACTCAT
* * *
36009062 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
36009126 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
36009141 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
36009205 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
36009222 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
36009248 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:36009207 original size:40 final size:40
Alignment explanation
Indices: 36009064--36009247 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
36009054 TAACTCATAC
* *
36009064 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
36009104 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
36009144 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
36009184 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
36009225 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
36009248 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:36015821 original size:45 final size:45
Alignment explanation
Indices: 36015753--36015842 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
36015743 AACAGATACT
* * *
36015753 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGATTCAGCACATAACAACCACCTTACTAATAAATGATGTC
36015798 CGGTGGAATT-AGCACATAACAACCACCTTACTAATAAATGATGTC
1 CGGTGG-ATTCAGCACATAACAACCACCTTACTAATAAATGATGTC
36015843 TAGTTCACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 38 0.93
46 3 0.07
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGATTCAGCACATAACAACCACCTTACTAATAAATGATGTC
Found at i:36016992 original size:23 final size:23
Alignment explanation
Indices: 36016961--36017013 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
36016951 ACCTACTTTC
* *
36016961 TTACTGTAGTAACTTTCGGGGTA
1 TTACAGTAGTAACTTTCGGGATA
*
36016984 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAACTTTCGGGATA
36017007 TTACAGT
1 TTACAGT
36017014 GTTGGTGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (23 bp):
TTACAGTAGTAACTTTCGGGATA
Found at i:36021477 original size:27 final size:28
Alignment explanation
Indices: 36021429--36021496 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
36021419 AAATAAAAAA
*
36021429 TTACCAAAATGT-TATAATTTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTTAT
36021456 TTACCAAAATATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTTAT
36021483 TTACCAAAATATAT
1 TTACCAAAATATAT
36021497 CAAAAAACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.50
Consensus pattern (28 bp):
TTACCAAAATATATATAATTTTTTTTAT
Found at i:36021516 original size:25 final size:26
Alignment explanation
Indices: 36021498--36021545 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
36021488 AAAATATATC
*
36021498 AAAAAACA-AAAAACA-AAAAAAATA
1 AAAAAAAATAAAAACAGAAAAAAATA
36021522 AAAAAAAATAAAAACAGAAAAAAA
1 AAAAAAAATAAAAACAGAAAAAAA
36021546 CCTGGACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 7 0.33
26 7 0.33
ACGTcount: A:0.88, C:0.06, G:0.02, T:0.04
Consensus pattern (26 bp):
AAAAAAAATAAAAACAGAAAAAAATA
Found at i:36021544 original size:16 final size:15
Alignment explanation
Indices: 36021498--36021545 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
36021488 AAAATATATC
36021498 AAAAAACAAAAAACAA
1 AAAAAACAAAAAA-AA
*
36021514 AAAAAATAAAAAAAA
1 AAAAAACAAAAAAAA
36021529 ATAAAAACAGAAAAAAA
1 A-AAAAACA-AAAAAAA
36021546 CCTGGACTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 3 0.11
16 18 0.64
17 7 0.25
ACGTcount: A:0.88, C:0.06, G:0.02, T:0.04
Consensus pattern (15 bp):
AAAAAACAAAAAAAA
Found at i:36022675 original size:15 final size:15
Alignment explanation
Indices: 36022655--36022683 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36022645 GATATGGTTA
36022655 GTGGTTGCGAAGAAT
1 GTGGTTGCGAAGAAT
36022670 GTGGTTGCGAAGAA
1 GTGGTTGCGAAGAA
36022684 GAAGGTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.41, T:0.24
Consensus pattern (15 bp):
GTGGTTGCGAAGAAT
Found at i:36022686 original size:18 final size:18
Alignment explanation
Indices: 36022663--36022697 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36022653 TAGTGGTTGC
* *
36022663 GAAGAATGTGGTTGCGAA
1 GAAGAAGGTGGTGGCGAA
36022681 GAAGAAGGTGGTGGCGA
1 GAAGAAGGTGGTGGCGA
36022698 TCATTGGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.46, T:0.17
Consensus pattern (18 bp):
GAAGAAGGTGGTGGCGAA
Found at i:36027449 original size:28 final size:27
Alignment explanation
Indices: 36027396--36027449 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
36027386 ATTTCGTGTG
* *
36027396 TTTTTTTCTGTTTTTTTTTATTTTTTA
1 TTTTTTTCTGTTTTTTTATATATTTTA
36027423 TTTTTTTACT-TTTTTTTGATATATTTT
1 TTTTTTT-CTGTTTTTTT-ATATATTTT
36027450 GGTAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.81
Consensus pattern (27 bp):
TTTTTTTCTGTTTTTTTATATATTTTA
Found at i:36027477 original size:27 final size:29
Alignment explanation
Indices: 36027441--36027509 Score: 108
Period size: 27 Copynumber: 2.5 Consensus size: 29
36027431 CTTTTTTTTG
36027441 ATATATTTTGGTAAATAA-AAAAA-TTAT
1 ATATATTTTGGTAAATAAGAAAAAGTTAT
*
36027468 ATATTTTTTGGTAAATAAGAAAAAGTTAT
1 ATATATTTTGGTAAATAAGAAAAAGTTAT
36027497 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
36027510 TTTTTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 17 0.45
28 16 0.42
29 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAGAAAAAGTTAT
Found at i:36027569 original size:19 final size:18
Alignment explanation
Indices: 36027545--36027586 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
36027535 TATAAAACCT
36027545 ATAATAAAACATTACAAAA
1 ATAATAAAACATTA-AAAA
36027564 ATAATAAAACATTAAAAA
1 ATAATAAAACATTAAAAA
36027582 A-AATA
1 ATAATA
36027587 CCAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAATAAAACATTAAAAA
Found at i:36027592 original size:20 final size:20
Alignment explanation
Indices: 36027545--36027597 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
36027535 TATAAAACCT
* *
36027545 ATAATAAAACATT-ACAAAA
1 ATAACAAAACATTAAAAAAA
*
36027564 ATAATAAAACATTAAAAAAA
1 ATAACAAAACATTAAAAAAA
* *
36027584 ATACCAAAATATTA
1 ATAACAAAACATTA
36027598 TATATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (20 bp):
ATAACAAAACATTAAAAAAA
Found at i:36028305 original size:10 final size:10
Alignment explanation
Indices: 36028290--36028443 Score: 53
Period size: 10 Copynumber: 15.7 Consensus size: 10
36028280 CTTCCTTCCC
36028290 TCTTC-TTCT
1 TCTTCTTTCT
36028299 TCTTTCTTT-T
1 TC-TTCTTTCT
*
36028309 T-TTTTTCTCT
1 TCTTCTT-TCT
*
36028319 TCTCCTTTCCT
1 TCTTCTTT-CT
36028330 T-TTCTTTCAT
1 TCTTCTTTC-T
*
36028340 TATT-TTTC-
1 TCTTCTTTCT
*
36028348 T-TTCTTTCC
1 TCTTCTTTCT
**
36028357 TCCCCTTTCCT
1 TCTTCTTT-CT
36028368 T-TTCTTTC-
1 TCTTCTTTCT
36028376 -CTTCTTT-T
1 TCTTCTTTCT
*
36028384 TCTTTCTTTCC
1 TC-TTCTTTCT
*
36028395 TCTCCTTTCCT
1 TCTTCTTT-CT
*
36028406 T-TTCCTTCT
1 TCTTCTTTCT
*
36028415 TTTTCTTTCT
1 TCTTCTTTCT
36028425 TCCTTTCTTTCT
1 T-C-TTCTTTCT
36028437 TCTTCTT
1 TCTTCTT
36028444 CCCCTCTCCT
Statistics
Matches: 108, Mismatches: 16, Indels: 41
0.65 0.10 0.25
Matches are distributed among these distances:
7 2 0.02
8 15 0.14
9 10 0.09
10 55 0.51
11 17 0.16
12 9 0.08
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (10 bp):
TCTTCTTTCT
Found at i:36028329 original size:5 final size:5
Alignment explanation
Indices: 36028321--36028412 Score: 50
Period size: 5 Copynumber: 19.0 Consensus size: 5
36028311 TTTTCTCTTC
* * * * *
36028321 TCCTT TCCTT TTCTT TCATT AT--TT TTCTT T-CTT TCCTC CCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
* * * *
36028369 TTCTT TCC-T TCTTT TTCTT T-CTT TCCTC TCCTT TCCTTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCC-TT TCCTT
36028413 CTTTTTCTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
3 1 0.02
4 13 0.20
5 46 0.70
6 6 0.09
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (5 bp):
TCCTT
Found at i:36028371 original size:38 final size:36
Alignment explanation
Indices: 36028271--36028425 Score: 155
Period size: 38 Copynumber: 4.3 Consensus size: 36
36028261 CCTTATTTTC
* *
36028271 TTTTT-TTTCCTTCCTTCCCTCTT-CTTCTTCTTTCTT
1 TTTTTCTTTCTTTCCTCCCCT-TTCCTT-TTCTTTCTT
36028307 TTTTT-TTTCTCTT-CT--CCTTTCCTTTTCTTTCATT
1 TTTTTCTTTCT-TTCCTCCCCTTTCCTTTTCTTTC-TT
36028341 ATTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCCTT
1 -TTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTT-CTT
* *
36028379 CTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTC--
1 -TTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCTT
36028414 TTTTTCTTTCTT
1 TTTTTCTTTCTT
36028426 CCTTTCTTTC
Statistics
Matches: 106, Mismatches: 4, Indels: 20
0.82 0.03 0.15
Matches are distributed among these distances:
33 9 0.08
34 20 0.19
35 7 0.07
36 18 0.17
37 3 0.03
38 48 0.45
39 1 0.01
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (36 bp):
TTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCTT
Found at i:36028384 original size:14 final size:14
Alignment explanation
Indices: 36028367--36028440 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
36028357 TCCCCTTTCC
36028367 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
36028381 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
36028396 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
36028415 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
36028427 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
36028440 T
1 T
36028441 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:36028392 original size:28 final size:28
Alignment explanation
Indices: 36028361--36028440 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
36028351 CTTTCCTCCC
36028361 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
36028389 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
36028423 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
36028441 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:36028410 original size:34 final size:34
Alignment explanation
Indices: 36028268--36028425 Score: 128
Period size: 34 Copynumber: 4.4 Consensus size: 34
36028258 TTACCTTATT
* *
36028268 TTCTTTTT-TTTCCTTCCT-TCCCTCTT-CTTCTTCT
1 TTCTTTTTCTTTCTTTCCTCT-CCT-TTCCTT-TTCC
*
36028302 TTCTTTTT-TTT-TTCTCTTCTCCTTTCCTTTTCTTTC
1 TTCTTTTTCTTTCTT-TCCTCTCCTTTCCTTTTC---C
* *
36028338 ATTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCC
1 -TTCTTTTTCTTTCTTTCCTCTCCTTTCC---T-TTTCC
36028377 TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCC
1 TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCC
36028411 TTCTTTTTCTTTCTT
1 TTCTTTTTCTTTCTT
36028426 CCTTTCTTTC
Statistics
Matches: 103, Mismatches: 8, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
33 6 0.06
34 40 0.39
35 2 0.02
37 7 0.07
38 40 0.39
39 3 0.03
41 1 0.01
42 4 0.04
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (34 bp):
TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCC
Found at i:36028436 original size:22 final size:23
Alignment explanation
Indices: 36028401--36028443 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
36028391 TTCCTCTCCT
*
36028401 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
36028424 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
36028444 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:36028441 original size:28 final size:30
Alignment explanation
Indices: 36028363--36028444 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
36028353 TTCCTCCCCT
*
36028363 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
36028395 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
36028424 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
36028445 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:36028454 original size:42 final size:40
Alignment explanation
Indices: 36028266--36028457 Score: 111
Period size: 38 Copynumber: 4.9 Consensus size: 40
36028256 AATTACCTTA
* *
36028266 TTTTCTTTTTTTTCCT-TCCTT-CCCTCTTCTTCTTCTTTCT
1 TTTTC-TTTCTTTCCTCTCCTTCCCCTCTCCTTCTT-TTTCT
* * *
36028306 TTTT-TTT-TTCTCTTCTCCTT-TCCT-T--TTCTTTCATTAT
1 TTTTCTTTCTT-TCCTCTCCTTCCCCTCTCCTTCTTT--TTCT
* *
36028343 TTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTCT
1 TTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT--TTCT
* * *
36028381 TTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCT
1 TTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTCT
* *
36028421 TTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
36028458 CCCCCCACCA
Statistics
Matches: 125, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
35 1 0.01
36 5 0.04
37 9 0.07
38 53 0.42
39 12 0.10
40 11 0.09
41 2 0.02
42 32 0.26
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (40 bp):
TTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTCT
Found at i:36028586 original size:8 final size:8
Alignment explanation
Indices: 36028573--36028612 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
36028563 CAGTCCAGGT
36028573 TTTTTTTG
1 TTTTTTTG
36028581 TTTTTTAT-
1 TTTTTT-TG
*
36028589 TTTTTTTA
1 TTTTTTTG
36028597 TTTTTTTG
1 TTTTTTTG
36028605 TTTTTTTG
1 TTTTTTTG
36028613 ATATATTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:36028594 original size:17 final size:17
Alignment explanation
Indices: 36028572--36028611 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
36028562 TCAGTCCAGG
*
36028572 TTTTTTTT-GTTTTTTA
1 TTTTTTTTATTTTTTTA
*
36028588 TTTTTTTTATTTTTTTG
1 TTTTTTTTATTTTTTTA
36028605 TTTTTTT
1 TTTTTTT
36028612 GATATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.90
Consensus pattern (17 bp):
TTTTTTTTATTTTTTTA
Found at i:36029697 original size:35 final size:35
Alignment explanation
Indices: 36029651--36029721 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
36029641 GGGAGAGATG
36029651 GGTCATTCGTACAAAAGGAATTTCCCTCAAATTTT
1 GGTCATTCGTACAAAAGGAATTTCCCTCAAATTTT
36029686 GGTCATTCGTACAAAAGGAATTTCCCTCAAATTTT
1 GGTCATTCGTACAAAAGGAATTTCCCTCAAATTTT
36029721 G
1 G
36029722 TTTACAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (35 bp):
GGTCATTCGTACAAAAGGAATTTCCCTCAAATTTT
Found at i:36030594 original size:36 final size:35
Alignment explanation
Indices: 36030547--36030623 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
36030537 GACACCCTGC
* * *
36030547 GACACTGTGTAAACGTTAATATAGGTCTTTTGAGGT
1 GACACCGTGTAAACGAT-AGATAGGTCTTTTGAGGT
*
36030583 GACACCGTGTAAAGGATAGATAGGTCTTTTGAGGT
1 GACACCGTGTAAACGATAGATAGGTCTTTTGAGGT
36030618 GACACC
1 GACACC
36030624 TCGGAAGGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 23 0.62
36 14 0.38
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (35 bp):
GACACCGTGTAAACGATAGATAGGTCTTTTGAGGT
Found at i:36035521 original size:25 final size:21
Alignment explanation
Indices: 36035465--36035521 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 21
36035455 GTAACGAAAG
36035465 AATGAGAGAAAAGAAAATTGA
1 AATGAGAGAAAAGAAAATTGA
* *
36035486 AA-GAAAAAAAAGACAAGAGTTGA
1 AATGAGAGAAAAGA-AA-A-TTGA
36035509 TAATGAGAGAAAA
1 -AATGAGAGAAAA
36035522 TGAGCGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.33
21 4 0.15
22 1 0.04
23 4 0.15
24 2 0.07
25 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.23, T:0.12
Consensus pattern (21 bp):
AATGAGAGAAAAGAAAATTGA
Found at i:36035558 original size:19 final size:18
Alignment explanation
Indices: 36035519--36035576 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 18
36035509 TAATGAGAGA
*
36035519 AAATGAGCGAAAAATAAAAG
1 AAATGAGAG-AAAA-AAAAG
36035539 AAATTGAGAGAAAAAAAAG
1 AAA-TGAGAGAAAAAAAAG
36035558 AAATGAGAGAAAAAGAAAG
1 AAATGAGAGAAAAA-AAAG
36035577 CTTGAAGGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 11 0.31
19 12 0.34
20 7 0.20
21 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.22, T:0.09
Consensus pattern (18 bp):
AAATGAGAGAAAAAAAAG
Found at i:36046867 original size:4 final size:4
Alignment explanation
Indices: 36046858--36046885 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36046848 TATTTTTATT
36046858 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
36046886 CTTAGTTTAA
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:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:36048617 original size:51 final size:51
Alignment explanation
Indices: 36048537--36048770 Score: 267
Period size: 51 Copynumber: 4.6 Consensus size: 51
36048527 AGTTGCTAGA
*
36048537 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTATCGGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCGGATGAAAATGG
* * * *
36048588 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCGGAATG-ATA-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCGG-ATGAAAATGG
* * * * *** *
36048638 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAAT-AGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCGGATGAAAAT-GG
* * **
36048689 TCATGTGTGTAGTACTATATGCAGGCTACTACGTATATCGGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCGGATGAAAATGG
*
36048740 TCACTTGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
36048771 TGTGAACCGG
Statistics
Matches: 147, Mismatches: 31, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
49 2 0.01
50 36 0.24
51 104 0.71
52 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTATCGGATGAAAATGG
Found at i:36048718 original size:101 final size:102
Alignment explanation
Indices: 36048537--36048772 Score: 289
Period size: 101 Copynumber: 2.3 Consensus size: 102
36048527 AGTTGCTAGA
* ** * *
36048537 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTATCGGATGAAAATGGTCACGTGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATGAAAATGATCACGTGTGTAGTA
* * *
36048602 CTATGTGCAGACTACTACGTGTACCGGAATG-ATA-GG
66 CTATATGCAGACTACTACGTATACCGG-ATGAAAATGG
* *** *
36048638 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAAT-AGCTTCGATCATGTGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATGAAAAT-GATCACGTGTGTAGT
* *
36048702 ACTATATGCAGGCTACTACGTATATCGGATGAAAATGG
65 ACTATATGCAGACTACTACGTATACCGGATGAAAATGG
*
36048740 TCACTTGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
36048773 TGAACCGGGT
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
100 5 0.04
101 77 0.67
102 33 0.29
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAATGAAAATGATCACGTGTGTAGTA
CTATATGCAGACTACTACGTATACCGGATGAAAATGG
Found at i:36056366 original size:26 final size:27
Alignment explanation
Indices: 36056337--36056387 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
36056327 TTCCTTTCCT
*
36056337 TAGATCGCGAC-AAGGATTCCATTTCA
1 TAGATCGCCACAAAGGATTCCATTTCA
* *
36056363 TAGATTGCCACAAAGGCTTCCATTT
1 TAGATCGCCACAAAGGATTCCATTT
36056388 TCTTGGCGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (27 bp):
TAGATCGCCACAAAGGATTCCATTTCA
Found at i:36059733 original size:22 final size:22
Alignment explanation
Indices: 36059654--36059739 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 22
36059644 TGTTGAACGA
* * *
36059654 TAGGCACCAAAGTGTAAATCTG
1 TAGGCATCGAAGTGTAAATCAG
*
36059676 TAGGCACCGAAGTGTAGAA-CAG
1 TAGGCATCGAAGTGTA-AATCAG
* *
36059698 TAGGCATAGAAGTGCAAATCAG
1 TAGGCATCGAAGTGTAAATCAG
* *
36059720 TAGGCATCGTAGTGAAAATC
1 TAGGCATCGAAGTGTAAATC
36059740 CTATACAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.04
22 50 0.93
23 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (22 bp):
TAGGCATCGAAGTGTAAATCAG
Found at i:36064917 original size:21 final size:21
Alignment explanation
Indices: 36064888--36064927 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36064878 TGAGTAAATT
36064888 AAATAATATTATAA-AATTATA
1 AAATAATATT-TAATAATTATA
*
36064909 AAATTATATTTAATAATTA
1 AAATAATATTTAATAATTA
36064928 ATTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATATTTAATAATTATA
Found at i:36076693 original size:15 final size:16
Alignment explanation
Indices: 36076665--36076694 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36076655 TTGCATTCTT
36076665 AGGATAATTTGCATTA
1 AGGATAATTTGCATTA
36076681 AGGATAA-TTGCATT
1 AGGATAATTTGCATT
36076695 TATTTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (16 bp):
AGGATAATTTGCATTA
Found at i:36082509 original size:20 final size:21
Alignment explanation
Indices: 36082484--36082533 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
36082474 ACGCAATGTG
36082484 TGTGTTGCA-ACAC-ATAGCCT
1 TGTGTTG-AGACACAATAGCCT
*
36082504 TGTGTTGAGCCACAATAGCCT
1 TGTGTTGAGACACAATAGCCT
36082525 TGTGTTGAG
1 TGTGTTGAG
36082534 CCATAAGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 10 0.37
21 16 0.59
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (21 bp):
TGTGTTGAGACACAATAGCCT
Found at i:36082545 original size:19 final size:21
Alignment explanation
Indices: 36082497--36082536 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
36082487 GTTGCAACAC
36082497 ATAGCCTTGTGTTGAGCCACA
1 ATAGCCTTGTGTTGAGCCACA
36082518 ATAGCCTTGTGTTGAGCCA
1 ATAGCCTTGTGTTGAGCCA
36082537 TAAGCCTTGA
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:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (21 bp):
ATAGCCTTGTGTTGAGCCACA
Found at i:36085424 original size:21 final size:21
Alignment explanation
Indices: 36085393--36085446 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
36085383 TGAAAGAGGC
36085393 ACACAC-T-CGTGTACAAGAA
1 ACACACGTCCGTGTACAAGAA
**
36085412 ACACACGTCCGTGTGGAAGAA
1 ACACACGTCCGTGTACAAGAA
* *
36085433 GCACACGACCGTGT
1 ACACACGTCCGTGT
36085447 GGAGGAGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 6 0.21
20 1 0.03
21 22 0.76
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (21 bp):
ACACACGTCCGTGTACAAGAA
Found at i:36085447 original size:21 final size:21
Alignment explanation
Indices: 36085407--36085468 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
36085397 ACTCGTGTAC
*
36085407 AAGAAACACACGTCCGTGTGG
1 AAGAAACACACGACCGTGTGG
*
36085428 AAGAAGCACACGACCGTGTGG
1 AAGAAACACACGACCGTGTGG
* *
36085449 AGGAGACACAC-ACCCGTGTG
1 AAGAAACACACGA-CCGTGTG
36085469 TTTGAGTTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.32, C:0.26, G:0.31, T:0.11
Consensus pattern (21 bp):
AAGAAACACACGACCGTGTGG
Found at i:36090788 original size:27 final size:27
Alignment explanation
Indices: 36090758--36090909 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
36090748 ATATTAAGTC
* *
36090758 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
36090785 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
36090813 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
36090840 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
36090867 CGCACACTTAGTGTTACATATTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
36090895 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36090910 GTACAATTTA
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
27 68 0.61
28 44 0.39
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:36090826 original size:55 final size:54
Alignment explanation
Indices: 36090758--36090909 Score: 214
Period size: 55 Copynumber: 2.8 Consensus size: 54
36090748 ATATTAAGTC
* *
36090758 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
36090813 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
* *
36090867 CGCACACTTAGTGTTACATATTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
36090910 GTACAATTTA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 23 0.27
55 63 0.73
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:36090895 original size:82 final size:82
Alignment explanation
Indices: 36090758--36090909 Score: 241
Period size: 82 Copynumber: 1.9 Consensus size: 82
36090748 ATATTAAGTC
* *
36090758 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
36090823 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * * *
36090840 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGTTACATATTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
36090905 GTGCT
66 GTGCT
36090910 GTACAATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:36112260 original size:79 final size:81
Alignment explanation
Indices: 36112124--36112308 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
36112114 TTGAATGATG
* *
36112124 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
36112188 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
36112203 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
36112265 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
36112283 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36112309 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:36112322 original size:40 final size:40
Alignment explanation
Indices: 36112125--36112308 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
36112115 TGAATGATGT
* * * *
36112125 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
36112165 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
36112205 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
36112243 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
36112284 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
36112309 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:36112330 original size:79 final size:79
Alignment explanation
Indices: 36112177--36112341 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
36112167 GGACTAAGAT
* * **
36112177 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
36112242 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
36112256 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
36112319 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
36112335 CCGAAGG
1 CCGAAGG
36112342 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:36118651 original size:15 final size:14
Alignment explanation
Indices: 36118627--36118656 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
36118617 CATCTTCCAC
36118627 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
36118641 AAAAGAAAAAAGAAA
1 AAAA-AAAAAAGAAA
36118656 A
1 A
36118657 CCTAGCCGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:36119507 original size:25 final size:26
Alignment explanation
Indices: 36119479--36119544 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
36119469 GCGAACACAC
36119479 CACAGCTCGTATGAGCT-TACCCATT
1 CACAGCTCGTATGAGCTATACCCATT
*
36119504 CACAGCTCGTCA-GAG-TATACCGATT
1 CACAGCTCGT-ATGAGCTATACCCATT
**
36119529 CGTAGCTCGTATGAGC
1 CACAGCTCGTATGAGC
36119545 ATCATGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 2 0.06
25 31 0.91
26 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (26 bp):
CACAGCTCGTATGAGCTATACCCATT
Found at i:36124219 original size:38 final size:38
Alignment explanation
Indices: 36124173--36124251 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
36124163 AACAATACTT
* *
36124173 AAAACTACTCAAAATCATTCCCCAACTCATAAATAAAA
1 AAAACTACTCAAAATCACTCCCCAACTCAAAAATAAAA
* *
36124211 AAAACTACTCAAAGTCCCTCCCCAACTCAAAAATAAAA
1 AAAACTACTCAAAATCACTCCCCAACTCAAAAATAAAA
36124249 AAA
1 AAA
36124252 TAATACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.53, C:0.28, G:0.01, T:0.18
Consensus pattern (38 bp):
AAAACTACTCAAAATCACTCCCCAACTCAAAAATAAAA
Found at i:36124348 original size:19 final size:19
Alignment explanation
Indices: 36124324--36124362 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
36124314 TGTACTTGTT
36124324 ACACTTAAAAAACAAAGAA
1 ACACTTAAAAAACAAAGAA
36124343 ACACTTAAAAAACAAAGAA
1 ACACTTAAAAAACAAAGAA
36124362 A
1 A
36124363 AATACAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.05, T:0.10
Consensus pattern (19 bp):
ACACTTAAAAAACAAAGAA
Found at i:36129295 original size:23 final size:23
Alignment explanation
Indices: 36129263--36129307 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
36129253 TATAATGTAT
*
36129263 TATTTGAATTGA-AATGGTATAA
1 TATTTGAATTGACAATAGTATAA
36129285 TATTATGAATTGACAATAGTATA
1 TATT-TGAATTGACAATAGTATA
36129308 TGAAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (23 bp):
TATTTGAATTGACAATAGTATAA
Found at i:36130749 original size:114 final size:114
Alignment explanation
Indices: 36130501--36131374 Score: 1069
Period size: 114 Copynumber: 7.7 Consensus size: 114
36130491 TATTTGTAAG
* * * * * *** * * * *
36130501 CGCCGCAAAAAATGTTAGCCAAAACGCATCGTTTGTTCCCGAGGTATATTAGACTTGGTGGCGTT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
*
36130566 TATGG-AAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAA
66 TATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
*
36130614 CGCCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
* * * *
36130679 TGTGGAAAAACGCCGCTATAGCACAGTATTAGCGGCG-TTT-TATAGAAAA
66 TATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTA-AG-AAA
* * * * *
36130728 CGCCGCAAAATATCTTAACCAAAACGCATCATTTGGTCTTAAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
* * * * *
36130793 TACGAAAAAATGCCGCTAAAGGAGAGTATTAAAGGCGCTTTGTAAGAAA
66 TATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
* * *
36130842 CGCCACAAAATATCTTAACCAAAATGCAGCGTTTAGTCTTAATGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
* * * * *
36130907 TGTGGAAAAACGCCGCTATAGCACAGTATTAGCGCCG-TTT-TATAGAAAA
66 TATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTA-AG-AAA
* * * * *
36130956 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
36131021 TATGGAAAAACGCCGCTAAATG-AGAGTATTAGAGGCGCTTTGTAAGAAA
66 TATGGAAAAACGCCGCTAAA-GCAGAGTATTAGAGGCGCTTTGTAAGAAA
* *
36131070 CGCCGCAAAATATCTTAACCAAAACGTAGCGTTTGGTATTAATGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
* * * * * * *
36131135 TGTGGAAAAACGCCGCTATAGCATAGTATTGGCGGCGTTTTGTATGAAA
66 TATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
* * * * * * * * *
36131184 TGCCACAAGATATCTTAACCAAAACGCATCGTTTGGTCTTGATGAATATAAAAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
* * *
36131249 TA-CGAAAAAGGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAT
66 TATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
*
36131297 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
* *
36131362 CATGTAAAAACGC
66 TATGGAAAAACGC
36131375 ATGTAGGTTT
Statistics
Matches: 638, Mismatches: 111, Indels: 23
0.83 0.14 0.03
Matches are distributed among these distances:
112 4 0.01
113 162 0.25
114 457 0.72
115 11 0.02
116 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (114 bp):
CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
TATGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
Found at i:36130854 original size:228 final size:227
Alignment explanation
Indices: 36130501--36131361 Score: 1346
Period size: 228 Copynumber: 3.8 Consensus size: 227
36130491 TATTTGTAAG
* * * * ** * * * *
36130501 CGCCGCAAAAAATGTTAGCCAAAACGCATCGTTTGTTCCCGAGGTATATTAGACTTGGTGGCGTT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* * *
36130566 TATGGAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGTAAAATATCTTA
66 TACGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTA
36130631 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCT
131 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCT
36130696 ATAGCACAGTATTAGCGGCGTTTTATAGAAAA
196 ATAGCACAGTATTAGCGGCGTTTTATAGAAAA
* *
36130728 CGCCGCAAAATATCTTAACCAAAACGCATCATTTGGTCTTAAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* * *
36130793 TACGAAAAAATGCCGCTAAAGGAGAGTATTAAAGGCGCTTTGTAAGAAACGCCACAAAATATCTT
66 TACG-AAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTT
* *
36130858 AACCAAAATGCAGCGTTTAGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGC
130 AACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGC
*
36130923 TATAGCACAGTATTAGCGCCGTTTTATAGAAAA
195 TATAGCACAGTATTAGCGGCGTTTTATAGAAAA
36130956 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* *
36131021 TATGGAAAAACGCCGCTAAATGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTT
66 TA-CGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTT
* *
36131086 AACCAAAACGTAGCGTTTGGTATTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGC
130 AACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGC
* * *
36131151 TATAGCATAGTATTGGCGGCGTTTTGTATG-AAA
195 TATAGCACAGTATTAGCGGCGTTTTATA-GAAAA
* * * * * *
36131184 TGCCACAAGATATCTTAACCAAAACGCATCGTTTGGTCTTGATGAATATAAAAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* * *
36131249 TACGAAAAAGGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAATCGCCGCAAAATATCTTA
66 TACGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTA
*
36131314 ACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCT
131 ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCT
36131362 CATGTAAAAA
Statistics
Matches: 581, Mismatches: 50, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
227 159 0.27
228 420 0.72
229 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (227 bp):
CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
TACGAAAAACGCCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAACGCCGCAAAATATCTTA
ACCAAAACGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGCTTGTGGAAAAACGCCGCT
ATAGCACAGTATTAGCGGCGTTTTATAGAAAA
Found at i:36131656 original size:22 final size:22
Alignment explanation
Indices: 36131629--36131691 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
36131619 TTTTGTGATT
36131629 GGAGTTTTGAGTTTAGGGTTTG
1 GGAGTTTTGAGTTTAGGGTTTG
*
36131651 GGAGTTTT-AGGTTTAAGGTTTG
1 GGAGTTTTGA-GTTTAGGGTTTG
* *
36131673 GG-G-TTTGGGTTTGGGGTTT
1 GGAGTTTTGAGTTTAGGGTTT
36131692 AGGTCACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 12 0.34
21 2 0.06
22 21 0.60
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.46
Consensus pattern (22 bp):
GGAGTTTTGAGTTTAGGGTTTG
Found at i:36131685 original size:13 final size:13
Alignment explanation
Indices: 36131667--36131691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36131657 TTAGGTTTAA
36131667 GGTTTGGGGTTTG
1 GGTTTGGGGTTTG
36131680 GGTTTGGGGTTT
1 GGTTTGGGGTTT
36131692 AGGTCACTTT
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:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (13 bp):
GGTTTGGGGTTTG
Found at i:36132242 original size:12 final size:12
Alignment explanation
Indices: 36132225--36132251 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36132215 AATTTTTTTA
36132225 AATAATATTAAT
1 AATAATATTAAT
36132237 AATAATATTAAT
1 AATAATATTAAT
36132249 AAT
1 AAT
36132252 GTCATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:36135535 original size:21 final size:21
Alignment explanation
Indices: 36135509--36135558 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
36135499 CTACAACTTA
*
36135509 AAGCAGAGG-TGGCAGCGAGGG
1 AAGCAGAGGCT-GCAGCGAGAG
36135530 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
*
36135551 AAGTAGAG
1 AAGCAGAG
36135559 CAGAGCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.34, C:0.14, G:0.46, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:36138704 original size:77 final size:77
Alignment explanation
Indices: 36138611--36138788 Score: 277
Period size: 77 Copynumber: 2.3 Consensus size: 77
36138601 TACATATAAA
** * *
36138611 GGGGTTGCTGTGTGCTGATTCCCCGA-TTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACTT-ATTGGTGGTTGCTAAGTGCCGAGTCCACCGTATTT
36138675 TTAAATGTGAAAG
65 TTAAATGTGAAAG
* * *
36138688 GGGGTTGCTAAGTGCTGATTCCCCTACTTATTGGTGGTTGCTATGTGCCGAGTCTACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACTTATTGGTGGTTGCTAAGTGCCGAGTCCACCGTATTTT
36138753 TAAATGTGAAAG
66 TAAATGTGAAAG
36138765 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
36138789 CGAGGGGTTG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
77 91 0.98
78 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (77 bp):
GGGGTTGCTAAGTGCTGATTCCCCGACTTATTGGTGGTTGCTAAGTGCCGAGTCCACCGTATTTT
TAAATGTGAAAG
Found at i:36138836 original size:33 final size:28
Alignment explanation
Indices: 36138765--36138846 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 28
36138755 AATGTGAAAG
*
36138765 GGGGTTGCTAAGTGCTGATT-CCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCCCCA
36138792 GGGGTTGCTAAGTGCTGATTCCCCTACCCA
1 GGGGTTGCTAAGTGCTGATTCCCC--CCCA
36138822 CTGGTGGTTGCTAAGTGCTGATTCC
1 --GG-GGTTGCTAAGTGCTGATTCC
36138847 ACCATATCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 20 0.42
28 3 0.06
30 3 0.06
32 2 0.04
33 20 0.42
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (28 bp):
GGGGTTGCTAAGTGCTGATTCCCCCCCA
Found at i:36138894 original size:105 final size:104
Alignment explanation
Indices: 36138688--36138943 Score: 343
Period size: 105 Copynumber: 2.5 Consensus size: 104
36138678 AATGTGAAAG
* * * * *
36138688 GGGGTTGCTAAGTGCTGATTCCCCTACTTATTGGTGGTTGCTATGTGCCGAGTCTACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCTACTCACTGGTGGTTGCTAAGTGCCGAGTCCACCATATTTT
* ** *
36138753 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCGA
66 GAAATGAAAAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
* * *
36138792 GGGGTTGCTAAGTGCTGATTCCCCTACCCACTGGTGGTTGCTAAGTGCTGATTCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCTACTCACTGGTGGTTGCTAAGTGCCGAGTCCACCATAT-TT
36138857 TGAAATGAAAAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
65 TGAAATGAAAAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
** * * *
36138897 GGGGTTGCTGTGTGCTGATTCCCCAATTCAGTGGTGG-TGCTAAGTGC
1 GGGGTTGCTAAGTGCTGATTCCCCTACTCACTGGTGGTTGCTAAGTGC
36138944 AGGATCCACC
Statistics
Matches: 133, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
104 64 0.48
105 69 0.52
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (104 bp):
GGGGTTGCTAAGTGCTGATTCCCCTACTCACTGGTGGTTGCTAAGTGCCGAGTCCACCATATTTT
GAAATGAAAAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:36140473 original size:48 final size:48
Alignment explanation
Indices: 36140385--36140555 Score: 180
Period size: 48 Copynumber: 3.5 Consensus size: 48
36140375 GGTCGCATAT
* * *
36140385 GTGGCACGGACAGTGTGTCGGGCCACCAATATTCTTTTAAGATACAAGG
1 GTGGCACGGACTGTGTG-CAGGCCACCAATATTCTGTTAAGATACAAGG
36140434 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
* * * * * * * ** * *
36140482 GTGGCACGGGCTATGTACAGGCCATCGAGAGTCTGTTATTACACAAAG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
* * *
36140530 GTGGTACGGACTGTATGTAGGCCACC
1 GTGGCACGGACTGTGTGCAGGCCACC
36140556 GAAAAATCTG
Statistics
Matches: 101, Mismatches: 21, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 85 0.84
49 16 0.16
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (48 bp):
GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
Found at i:36154313 original size:10 final size:10
Alignment explanation
Indices: 36154298--36154348 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
36154288 AAATGCCAAA
36154298 TTTTATAATT
1 TTTTATAATT
36154308 TTTTATAA-T
1 TTTTATAATT
* *
36154317 TTTAATTA-T
1 TTTTATAATT
36154326 TTTTATAATT
1 TTTTATAATT
* *
36154336 TTTAATAGTT
1 TTTTATAATT
36154346 TTT
1 TTT
36154349 GTTCTGTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 14 0.41
10 20 0.59
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:36154319 original size:9 final size:9
Alignment explanation
Indices: 36154298--36154339 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
36154288 AAATGCCAAA
36154298 TTTTATAATT
1 TTTTATAA-T
36154308 TTTTATAAT
1 TTTTATAAT
* *
36154317 TTTAATTAT
1 TTTTATAAT
36154326 TTTTATAAT
1 TTTTATAAT
36154335 TTTTA
1 TTTTA
36154340 ATAGTTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:36154319 original size:18 final size:19
Alignment explanation
Indices: 36154296--36154348 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
36154286 AAAAATGCCA
36154296 AATTTTATAAT-TTTTTAT
1 AATTTTATAATATTTTTAT
*
36154314 AATTTTA-ATTATTTTTAT
1 AATTTTATAATATTTTTAT
36154332 AATTTT-TAATAGTTTTT
1 AATTTTATAATA-TTTTT
36154349 GTTCTGTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.07
18 23 0.77
19 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
AATTTTATAATATTTTTAT
Found at i:36157501 original size:84 final size:84
Alignment explanation
Indices: 36157353--36157520 Score: 237
Period size: 84 Copynumber: 2.0 Consensus size: 84
36157343 TCCTTTCTTC
* *
36157353 TTTTTGCACTCAATTGAGCACTTGAACTTTCAAACTACATCAAAAAGACCCTCAAACTTCTTCAA
1 TTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAAATTCTTCAA
*
36157418 AAAAATAATTAAGCCCTTG
66 AAAAACAATTAAGCCCTTG
* * * * * * *
36157437 TTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATGCATCATAAAGACCCTTAAAATTTTTCAA
1 TTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAAATTCTTCAA
*
36157502 AAAAGCAATTAAGCCCTTG
66 AAAAACAATTAAGCCCTTG
36157521 CTCTTATTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (84 bp):
TTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAAATTCTTCAA
AAAAACAATTAAGCCCTTG
Found at i:36157644 original size:35 final size:34
Alignment explanation
Indices: 36157605--36157689 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 34
36157595 TAAAAATATA
**
36157605 AAAAAT-AAAAATGAATAAAAATTGGAATTTTTTAT
1 AAAAATCAAAAA--AATAAAAATTGGAAAATTTTAT
* *
36157640 AAAAATCGTAAAAAATAAAAATTGTAAAATTTTAT
1 AAAAATC-AAAAAAATAAAAATTGGAAAATTTTAT
36157675 AAAAATCATAAAAAA
1 AAAAATCA-AAAAAA
36157690 AATTAACAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
35 38 0.90
37 4 0.10
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (34 bp):
AAAAATCAAAAAAATAAAAATTGGAAAATTTTAT
Found at i:36157659 original size:16 final size:16
Alignment explanation
Indices: 36157638--36157668 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36157628 GGAATTTTTT
36157638 ATAAAAATCGTAAAAA
1 ATAAAAATCGTAAAAA
*
36157654 ATAAAAATTGTAAAA
1 ATAAAAATCGTAAAA
36157669 TTTTATAAAA
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:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAAAAATCGTAAAAA
Found at i:36157678 original size:19 final size:19
Alignment explanation
Indices: 36157619--36157680 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
36157609 ATAAAAATGA
* **
36157619 ATAAAAATTGGAATTTTTT
1 ATAAAAATTGTAAAATTTT
* *
36157638 ATAAAAATCGTAAAA---A
1 ATAAAAATTGTAAAATTTT
36157654 ATAAAAATTGTAAAATTTT
1 ATAAAAATTGTAAAATTTT
36157673 ATAAAAAT
1 ATAAAAAT
36157681 CATAAAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 14 0.42
19 19 0.58
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (19 bp):
ATAAAAATTGTAAAATTTT
Found at i:36157920 original size:48 final size:49
Alignment explanation
Indices: 36157853--36157966 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 49
36157843 TTTTACGAAA
* *
36157853 TTTATATTTCTTTACATTTTGTATAA-TTTTCTTAC-AACTTTATAAAAT
1 TTTATAATTCTTTATATTTT-TATAATTTTTCTTACGAACTTTATAAAAT
* * **
36157901 TTTATAATTCTATATA-TTTTATAATTTTTTTTACGATTTTTATAAAAT
1 TTTATAATTCTTTATATTTTTATAATTTTTCTTACGAACTTTATAAAAT
* *
36157949 TTTACAATTTTTTATATT
1 TTTATAATTCTTTATATT
36157967 AAATTTTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
46 5 0.09
47 11 0.20
48 37 0.69
49 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (49 bp):
TTTATAATTCTTTATATTTTTATAATTTTTCTTACGAACTTTATAAAAT
Found at i:36157951 original size:20 final size:22
Alignment explanation
Indices: 36157928--36157975 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
36157918 TTTATAATTT
*
36157928 TTTTTACGA-TTTTTATA-AAA
1 TTTTTACAATTTTTTATATAAA
36157948 -TTTTACAATTTTTTATATTAAA
1 TTTTTACAATTTTTTATA-TAAA
36157970 TTTTTA
1 TTTTTA
36157976 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 7 0.30
20 8 0.35
22 3 0.13
23 5 0.22
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTACAATTTTTTATATAAA
Found at i:36158310 original size:10 final size:10
Alignment explanation
Indices: 36158278--36158331 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
36158268 AGCAACTGAC
36158278 AAAAATTATTT
1 AAAAATTA-TT
36158289 AAAAA-T-TT
1 AAAAATTATT
36158297 -AAAATTATT
1 AAAAATTATT
*
36158306 AAAAAGGTA-T
1 AAAAA-TTATT
36158316 AAAAATTATT
1 AAAAATTATT
36158326 AAAAAT
1 AAAAAT
36158332 ACTTTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
7 4 0.11
8 3 0.08
9 4 0.11
10 18 0.50
11 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (10 bp):
AAAAATTATT
Found at i:36158572 original size:36 final size:36
Alignment explanation
Indices: 36158525--36158597 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
36158515 AAAGTTAGAG
36158525 GGTCAAATAAGTTATTATGCCTAAAATTAAATGCAA
1 GGTCAAATAAGTTATTATGCCTAAAATTAAATGCAA
36158561 GGTCAAATAAGTTATTATGCCTAAAATTAAATGCAA
1 GGTCAAATAAGTTATTATGCCTAAAATTAAATGCAA
36158597 G
1 G
36158598 AATTTTTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (36 bp):
GGTCAAATAAGTTATTATGCCTAAAATTAAATGCAA
Found at i:36159813 original size:17 final size:17
Alignment explanation
Indices: 36159791--36159855 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 17
36159781 CTTAGAGTTC
36159791 TAATTGTATACAGCTTT
1 TAATTGTATACAGCTTT
* *
36159808 TAATTGTGTA-ATCTTAAAGT
1 TAATTGTATACAGCTT----T
36159828 TCTAATTGTATACAGCTTT
1 T--AATTGTATACAGCTTT
36159847 TAATTGTAT
1 TAATTGTAT
36159856 CCATTGATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
16 4 0.11
17 17 0.46
19 2 0.05
20 2 0.05
22 8 0.22
23 4 0.11
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (17 bp):
TAATTGTATACAGCTTT
Found at i:36159829 original size:39 final size:39
Alignment explanation
Indices: 36159775--36159853 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
36159765 GATATGATTA
*
36159775 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
1 TGTAATCTTAAAGTTCTAATTGTATACAGCTTTTAATTG
36159814 TGTAATCTTAAAGTTCTAATTGTATACAGCTTTTAATTG
1 TGTAATCTTAAAGTTCTAATTGTATACAGCTTTTAATTG
36159853 T
1 T
36159854 ATCCATTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (39 bp):
TGTAATCTTAAAGTTCTAATTGTATACAGCTTTTAATTG
Found at i:36161226 original size:39 final size:39
Alignment explanation
Indices: 36161172--36161250 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
36161162 GATATGGTTA
*
36161172 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGCATACAGCTTTTAATTG
36161211 TGTAATCTTAGAGTTCTAATTGCATACAGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGCATACAGCTTTTAATTG
36161250 T
1 T
36161251 ATCCATTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (39 bp):
TGTAATCTTAGAGTTCTAATTGCATACAGCTTTTAATTG
Found at i:36161571 original size:48 final size:49
Alignment explanation
Indices: 36161476--36161572 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
36161466 TGAGGGAATT
* * ** *
36161476 CTGTTGAATCCTTTATCGTTGTGAGATTAGGCTGGCTTAGGTATTTTTA
1 CTGTTGAATCCTTTATCATTGCGAGATTAGGCTAACTTAGGCATTTTTA
*
36161525 CTGTTGAATCCTTTATCATTGCGAG-TTAGGCTAACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCATTGCGAGATTAGGCTAACTTAGGCATTTTTA
36161573 AGCAAAGAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 19 0.45
49 23 0.55
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (49 bp):
CTGTTGAATCCTTTATCATTGCGAGATTAGGCTAACTTAGGCATTTTTA
Found at i:36166436 original size:51 final size:50
Alignment explanation
Indices: 36166319--36166556 Score: 230
Period size: 51 Copynumber: 4.7 Consensus size: 50
36166309 AAAGTGATGG
* * *** *
36166319 TCACATGTGTAGTACTATGTGTAGGCTA-TACGTGTACCGGA-ATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GTTTGA
* * * * * *
36166368 TCGCATGTGTAGTACTATGTTCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTTGA
* ** *
36166419 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATTGGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT--TGA
* * * *
36166470 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGAACCGAAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGA
*
36166520 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
36166557 TCGAATGATA
Statistics
Matches: 153, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
49 27 0.18
50 48 0.31
51 76 0.50
52 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGA
Found at i:36166531 original size:101 final size:101
Alignment explanation
Indices: 36166319--36166564 Score: 300
Period size: 101 Copynumber: 2.5 Consensus size: 101
36166309 AAAGTGATGG
* * * *
36166319 TCACATGTGTAGTACTATGTGTAGGCTA-TACGTGTACCGGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
* * * * *
36166383 TATGTTCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGA
* * * * * *
36166419 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATTGGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGA-ATGAAAGGTCACATGTGTAGTA
* * *
36166484 CTATGTGCAGGCTATTACGTGAACCGAAAAG-TTTGA
65 CTATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGA
36166520 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGA
36166565 TAATAGTTAA
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
99 3 0.02
100 27 0.22
101 51 0.41
102 42 0.34
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGA
Found at i:36176181 original size:91 final size:91
Alignment explanation
Indices: 36176049--36176256 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
36176039 TTGATTTTAG
* * *
36176049 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAATAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
36176114 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
36176141 TAAATTCATATAATAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAATAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
36176206 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * *
36176232 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAATAAAATTTATTA
36176257 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 84 0.82
92 18 0.18
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAATAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:36176305 original size:16 final size:17
Alignment explanation
Indices: 36176286--36176317 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
36176276 TTATTAAATC
36176286 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
36176302 ATATATTTAATATTAA
1 ATATATTTAATATTAA
36176318 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:36176381 original size:66 final size:63
Alignment explanation
Indices: 36176310--36176522 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
36176300 AAATATATTT
36176310 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
36176374 AG
62 AG
* * * * * * *
36176376 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
36176436 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
36176496 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
36176523 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:36176396 original size:120 final size:120
Alignment explanation
Indices: 36176272--36176564 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
36176262 AATTATTTTA
* * *
36176272 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
36176335 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
36176392 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
36176457 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
36176512 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
36176565 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:36176424 original size:18 final size:17
Alignment explanation
Indices: 36176393--36176427 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36176383 ATTATTAAGA
36176393 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
36176410 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
36176428 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:36176541 original size:18 final size:17
Alignment explanation
Indices: 36176513--36176547 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36176503 ATTATTAAGA
*
36176513 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36176530 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36176548 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36176661 original size:147 final size:149
Alignment explanation
Indices: 36176501--36176775 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
36176491 ATAAGAATAT
* *
36176501 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
36176566 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
36176629 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
36176648 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
36176713 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
36176776 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAAATATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:36176695 original size:16 final size:17
Alignment explanation
Indices: 36176660--36176694 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
36176650 ATTATTAAGA
36176660 ATTTTATTAAAATATAT
1 ATTTTATTAAAATATAT
36176677 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36176695 TAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36176952 original size:16 final size:16
Alignment explanation
Indices: 36176931--36176982 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
36176921 GATTTGCTAT
36176931 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36176947 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36176963 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
36176979 TACA
1 TACA
36176983 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.37, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:36177533 original size:44 final size:42
Alignment explanation
Indices: 36177431--36177557 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 42
36177421 ATTTCGTACA
* *
36177431 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATTACATAACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAT-ACG
36177474 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAGTCACCAGT-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAA-TCA-CA-TACG
36177518 ATGCCAACGTCCCAGACGTGGTCTTACACGATAA-CACATA
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATA
36177558 ACGTAATCCT
Statistics
Matches: 73, Mismatches: 2, Indels: 19
0.78 0.02 0.20
Matches are distributed among these distances:
41 1 0.01
42 4 0.05
43 30 0.41
44 30 0.41
45 7 0.10
46 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATACG
Found at i:36179208 original size:25 final size:25
Alignment explanation
Indices: 36179167--36179232 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
36179157 ATGCTTATTT
*
36179167 GAGCTA-AAGATCTGTATGCTCTCAC
1 GAGCTATAA-ATCGGTATGCTCTCAC
* * *
36179192 GAGTTATAAATTGGTATGCTCTTAC
1 GAGCTATAAATCGGTATGCTCTCAC
36179217 GAGCTATAAATCGGTA
1 GAGCTATAAATCGGTA
36179233 ACCCTAATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTATAAATCGGTATGCTCTCAC
Found at i:36183369 original size:2 final size:2
Alignment explanation
Indices: 36183362--36183392 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
36183352 ATTGTGAACA
*
36183362 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36183393 GGTTAAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Done.