Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 145 of 210
Found at i:44122612 original size:42 final size:42
Alignment explanation
Indices: 44122553--44122677 Score: 250
Period size: 42 Copynumber: 3.0 Consensus size: 42
44122543 AAATTCAAAG
44122553 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
44122595 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
44122637 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
44122678 CACACATATT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:44125884 original size:16 final size:18
Alignment explanation
Indices: 44125848--44125884 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
44125838 AAATAAATTT
*
44125848 AGAACTAAAAAAAATTCA
1 AGAACTAAAAAAAATTAA
44125866 AGAA-TAAAAAAAA-TAA
1 AGAACTAAAAAAAATTAA
44125882 AGA
1 AGA
44125885 TTCAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 9 0.50
18 4 0.22
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (18 bp):
AGAACTAAAAAAAATTAA
Found at i:44125888 original size:23 final size:23
Alignment explanation
Indices: 44125854--44125907 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
44125844 ATTTAGAACT
44125854 AAAA-AAA-ATTC-AAGAATAAAA
1 AAAATAAAGATTCAAAGAAT-AAA
44125875 AAAATAAAGATTCAAAGAATAAA
1 AAAATAAAGATTCAAAGAATAAA
*
44125898 CAAATAAAGA
1 AAAATAAAGA
44125908 AAATTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 4 0.14
22 3 0.10
23 16 0.55
24 6 0.21
ACGTcount: A:0.72, C:0.06, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAATAAAGATTCAAAGAATAAA
Found at i:44133969 original size:17 final size:15
Alignment explanation
Indices: 44133916--44133983 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 15
44133906 TAAGTTTAAG
44133916 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
* *
44133931 AGCAACAAAAACAAAATTA
1 A--AA-ATAAA-AAAATAA
44133950 AAAATAAAGATAAATAA
1 AAAATAAA-A-AAATAA
44133967 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
44133982 AA
1 AA
44133984 TAAAACAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
15 9 0.21
16 6 0.14
17 17 0.40
18 4 0.09
19 7 0.16
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:44134155 original size:16 final size:15
Alignment explanation
Indices: 44134073--44134168 Score: 70
Period size: 15 Copynumber: 6.3 Consensus size: 15
44134063 AAAAAAATAC
44134073 TAAAAAT-AATAGAAA
1 TAAAAATAAATA-AAA
**
44134088 TAGCAA-AAATAAAA
1 TAAAAATAAATAAAA
* * *
44134102 TAAAATCTAAGTATAA
1 TAAAA-ATAAATAAAA
* * *
44134118 GAAAAATTAGTAAAA
1 TAAAAATAAATAAAA
*
44134133 TAAAAATAAATAATA
1 TAAAAATAAATAAAA
44134148 TAACAAATAAATAAAA
1 TAA-AAATAAATAAAA
44134164 TAAAA
1 TAAAA
44134169 TGGGTGGCTT
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
14 6 0.10
15 31 0.51
16 24 0.39
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (15 bp):
TAAAAATAAATAAAA
Found at i:44137254 original size:11 final size:11
Alignment explanation
Indices: 44137240--44137264 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44137230 AAAAATTAGA
44137240 AAACTAAAATT
1 AAACTAAAATT
44137251 AAACTAAAATT
1 AAACTAAAATT
44137262 AAA
1 AAA
44137265 AATATAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACTAAAATT
Found at i:44141626 original size:33 final size:34
Alignment explanation
Indices: 44141570--44141633 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
44141560 ACAATAAAAT
*
44141570 ATTTATTATATTTATCTGTG-TTTTTTAATAAAC
1 ATTTATTATATTTATCGGTGTTTTTTTAATAAAC
44141603 ATTTATTATATTTAT-GGTAGTTTTTTTAATA
1 ATTTATTATATTTATCGGT-GTTTTTTTAATA
44141634 TAAAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 2 0.07
33 16 0.57
34 10 0.36
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (34 bp):
ATTTATTATATTTATCGGTGTTTTTTTAATAAAC
Found at i:44143034 original size:4 final size:4
Alignment explanation
Indices: 44143025--44143051 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
44143015 GAGATCCTAT
44143025 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
44143052 GTAAATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:44147371 original size:3 final size:3
Alignment explanation
Indices: 44147363--44147393 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
44147353 TCAATACCTT
44147363 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
44147394 TCCTTTTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:44151038 original size:69 final size:69
Alignment explanation
Indices: 44150907--44151041 Score: 182
Period size: 69 Copynumber: 2.0 Consensus size: 69
44150897 GAATAAATGC
* * * * *
44150907 GAAAAGGAAATTTATTGTGTAGCCTTCGATAGGGCATATATATTGCTAATCGGACAGGTAGATCA
1 GAAAAGGAAATTTATTGTGTAGCATTCGATAGGGCAGATATATTGCTAACCAGACAGATAGATCA
44150972 CTGT
66 CTGT
* * *
44150976 GAAATGGAGATTTATTGTGTAGCATTCGGTAGGGCAGATATATTGCTAACCAGACTA-ATAGATC
1 GAAAAGGAAATTTATTGTGTAGCATTCGATAGGGCAGATATATTGCTAACCAGAC-AGATAGATC
44151040 AC
65 AC
44151042 AAAATAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 56 0.98
70 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (69 bp):
GAAAAGGAAATTTATTGTGTAGCATTCGATAGGGCAGATATATTGCTAACCAGACAGATAGATCA
CTGT
Found at i:44151268 original size:25 final size:25
Alignment explanation
Indices: 44151179--44151270 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 25
44151169 CACGAACTTC
* * *
44151179 CTGAAAAGTCTTTTTGGTAAACTCT
1 CTGAAAAGCCTTTGTGGCAAACTCT
* * * * *
44151204 CCGTAAAGTCTTTGCGGCGAACTCT
1 CTGAAAAGCCTTTGTGGCAAACTCT
* *
44151229 CTGTAAAGCCCTTGTGGCAAACTCT
1 CTGAAAAGCCTTTGTGGCAAACTCT
* *
44151254 TTGAAAATCCTTTGTGG
1 CTGAAAAGCCTTTGTGG
44151271 TGTATTATTC
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (25 bp):
CTGAAAAGCCTTTGTGGCAAACTCT
Found at i:44156464 original size:27 final size:27
Alignment explanation
Indices: 44156433--44156484 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
44156423 CAATGAAATC
* *
44156433 GGGGAATCAGCACTTAGCAACCCCTCA
1 GGGGAATCAACACATAGCAACCCCTCA
44156460 GGGGAATCAACACATAGCAACCCCT
1 GGGGAATCAACACATAGCAACCCCT
44156485 TTTCACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.13
Consensus pattern (27 bp):
GGGGAATCAACACATAGCAACCCCTCA
Found at i:44156483 original size:105 final size:103
Alignment explanation
Indices: 44156191--44156561 Score: 575
Period size: 103 Copynumber: 3.6 Consensus size: 103
44156181 TAGCCGTTAT
** *
44156191 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
44156256 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
44156294 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
44156359 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
*
44156398 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCAGGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
44156463 GAATCAACACATAGCAA-CCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTT--CATTTCAAAGATA
* * * * **
44156503 TGGTGGATCA-CACACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
44156562 TTTATATACA
Statistics
Matches: 251, Mismatches: 12, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
103 86 0.34
104 78 0.31
105 86 0.34
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:44167787 original size:19 final size:19
Alignment explanation
Indices: 44167749--44167787 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44167739 AAATAGTGAG
*
44167749 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
44167768 AATTATATTTTCT-AGAATA
1 AATT-TATTTTCTAAGAATA
44167787 A
1 A
44167788 CAATTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:44182817 original size:20 final size:21
Alignment explanation
Indices: 44182782--44182825 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44182772 AGAACGCTCA
*
44182782 AACTTTTTTGGAAAAATCATT
1 AACTTTTCTGGAAAAATCATT
44182803 AACTTTTCTGGAAAAATCATT
1 AACTTTTCTGGAAAAATCATT
44182824 AA
1 AA
44182826 TAAAAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (21 bp):
AACTTTTCTGGAAAAATCATT
Found at i:44187170 original size:26 final size:26
Alignment explanation
Indices: 44187138--44187205 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
44187128 CTTAAACTAA
*
44187138 ACTTTTTAAAAGTATTTCTTAAAAGT
1 ACTTTTTAAAAGCATTTCTTAAAAGT
* * * *
44187164 ACTTTTTTACAGCATTTTTTAAAAGC
1 ACTTTTTAAAAGCATTTCTTAAAAGT
* *
44187190 AATTTTCAAAAGCATT
1 ACTTTTTAAAAGCATT
44187206 GTTAAACTAG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (26 bp):
ACTTTTTAAAAGCATTTCTTAAAAGT
Found at i:44187190 original size:13 final size:13
Alignment explanation
Indices: 44187140--44187205 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
44187130 TAAACTAAAC
*
44187140 TTTTTAAAAGTAT
1 TTTTTAAAAGCAT
* *
44187153 TTCTTAAAAGTACT
1 TTTTTAAAAGCA-T
*
44187167 TTTTT-ACAGCAT
1 TTTTTAAAAGCAT
*
44187179 TTTTTAAAAGCAA
1 TTTTTAAAAGCAT
*
44187192 TTTTCAAAAGCAT
1 TTTTTAAAAGCAT
44187205 T
1 T
44187206 GTTAAACTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 6 0.14
13 32 0.74
14 5 0.12
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (13 bp):
TTTTTAAAAGCAT
Found at i:44191857 original size:9 final size:9
Alignment explanation
Indices: 44191843--44191906 Score: 92
Period size: 9 Copynumber: 7.1 Consensus size: 9
44191833 GGTTAAAAAG
44191843 TAACCGAAT
1 TAACCGAAT
44191852 TAACCGAAT
1 TAACCGAAT
*
44191861 TACCCGAAT
1 TAACCGAAT
*
44191870 TAACCGGAT
1 TAACCGAAT
*
44191879 TACCCGAAT
1 TAACCGAAT
44191888 TAACCGAAT
1 TAACCGAAT
*
44191897 TAAACGAAT
1 TAACCGAAT
44191906 T
1 T
44191907 GAATCACTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (9 bp):
TAACCGAAT
Found at i:44191998 original size:20 final size:20
Alignment explanation
Indices: 44191930--44191987 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
44191920 ATTAAATTAT
*
44191930 TTTTAGAATTTTAGACTTTA-
1 TTTTAGAATTTTAG-TTTTAG
* *
44191950 TTTT-TATTTTTAGTTTTAG
1 TTTTAGAATTTTAGTTTTAG
*
44191969 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
44191988 TTTATTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 4 0.13
19 11 0.37
20 15 0.50
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.66
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAG
Found at i:44200153 original size:16 final size:16
Alignment explanation
Indices: 44200132--44200167 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
44200122 GATTTGCTAT
44200132 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
44200148 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
44200164 TACA
1 TACA
44200168 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:44201078 original size:19 final size:18
Alignment explanation
Indices: 44201062--44201119 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 18
44201052 ACTAAAAATT
44201062 TATTTTAAAAATAAAAAA
1 TATTTTAAAAATAAAAAA
44201080 TATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAATA----AAAAA
*
44201102 TATTTTAAAATTAAAAAA
1 TATTTTAAAAATAAAAAA
44201120 ATATATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 18 0.51
22 17 0.49
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATTTTAAAAATAAAAAA
Found at i:44201091 original size:11 final size:11
Alignment explanation
Indices: 44201075--44201111 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
44201065 TTTAAAAATA
44201075 AAAAATATTTT
1 AAAAATATTTT
44201086 AAAAATATTTT
1 AAAAATATTTT
44201097 AAAAATATTTT
1 AAAAATATTTT
44201108 AAAA
1 AAAA
44201112 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:44204615 original size:2 final size:2
Alignment explanation
Indices: 44204608--44204633 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44204598 GAAAAAGAAA
44204608 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
44204634 TACTGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44215531 original size:21 final size:21
Alignment explanation
Indices: 44215506--44215546 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44215496 GTGTGAAATG
* *
44215506 AGGCATACGATCGTGTGGCTA
1 AGGCACACGACCGTGTGGCTA
*
44215527 AGGCACACGCCCGTGTGGCT
1 AGGCACACGACCGTGTGGCT
44215547 TAGGGACATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.20
Consensus pattern (21 bp):
AGGCACACGACCGTGTGGCTA
Found at i:44215661 original size:21 final size:21
Alignment explanation
Indices: 44215645--44215711 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
44215635 CTCACATGCT
**
44215645 CGTGTGTCCAAAACACACGTT
1 CGTGTGTCCAAAACACACGCC
*
44215666 TGTGTGTCCAAAACACAC-CC
1 CGTGTGTCCAAAACACACGCC
44215686 CGTGTGTCCAAAACACACGCC
1 CGTGTGTCCAAAACACACGCC
44215707 CGTGT
1 CGTGT
44215712 TGGATCCCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (21 bp):
CGTGTGTCCAAAACACACGCC
Found at i:44217072 original size:27 final size:25
Alignment explanation
Indices: 44217003--44217072 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 25
44216993 CCGTTTAAAA
44217003 AAATTATTTTGAAAATATTTTAAATT
1 AAATTATTTTGAAAAT-TTTTAAATT
44217029 -AA-TATGTTT-AAAA-TTTTAAATT
1 AAATTAT-TTTGAAAATTTTTAAATT
44217051 AAATTATTTTGAAGAATGTTTT
1 AAATTATTTTGAA-AAT-TTTT
44217073 GTACATTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
22 9 0.24
23 5 0.14
24 12 0.32
25 7 0.19
27 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (25 bp):
AAATTATTTTGAAAATTTTTAAATT
Found at i:44226378 original size:25 final size:23
Alignment explanation
Indices: 44226350--44226426 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 23
44226340 ATTCTAAAAA
44226350 TAAAACTATTTTAATATTTTAATAT
1 TAAAA-TATTTTAATA-TTTAATAT
* * *
44226375 TAAATGTAATTTAATATTT-ATCT
1 TAAA-ATATTTTAATATTTAATAT
*
44226398 TAATAATATTTTATTAATTTAATAT
1 TAA-AATATTTTAAT-ATTTAATAT
44226423 TAAA
1 TAAA
44226427 GTGATTATCT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
23 13 0.32
24 9 0.22
25 19 0.46
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (23 bp):
TAAAATATTTTAATATTTAATAT
Found at i:44226452 original size:51 final size:48
Alignment explanation
Indices: 44226356--44226452 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
44226346 AAAATAAAAC
* *
44226356 TATTTTAATATTTTAATATTAAATGTAATTTAATATTTATCTTAATAA
1 TATTTTAATAATTTAATATTAAATGTAATTTAATATTAATCTTAATAA
* *
44226404 TATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTCAAT-TTAAT
1 TATTTTAATAATTTAATATTAAA-TG-TAAT-TTAATATT-AATCTTAAT
44226453 TTAACATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 21 0.51
49 2 0.05
50 3 0.07
51 13 0.32
52 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (48 bp):
TATTTTAATAATTTAATATTAAATGTAATTTAATATTAATCTTAATAA
Found at i:44231996 original size:21 final size:21
Alignment explanation
Indices: 44231972--44232011 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44231962 CAGCTTATTA
44231972 GCATGATTAAAT-TGTCTTAAT
1 GCATG-TTAAATATGTCTTAAT
*
44231993 GCATGTTTAATATGTCTTA
1 GCATGTTAAATATGTCTTA
44232012 GGGATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATGTTAAATATGTCTTAAT
Found at i:44237597 original size:20 final size:20
Alignment explanation
Indices: 44237572--44237611 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44237562 CGAAAAATGA
*
44237572 TTTCTGGAAAATTATTTACT
1 TTTCTGGAAAATGATTTACT
44237592 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
44237612 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:44237627 original size:14 final size:15
Alignment explanation
Indices: 44237591--44237627 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
44237581 AATTATTTAC
44237591 TTTTCTGGAAAATGA
1 TTTTCTGGAAAATGA
*
44237606 TTTACTGGAAAAT-A
1 TTTTCTGGAAAATGA
44237620 TTTTCTGG
1 TTTTCTGG
44237628 TGTTTGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (15 bp):
TTTTCTGGAAAATGA
Found at i:44239977 original size:25 final size:26
Alignment explanation
Indices: 44239949--44240003 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
44239939 CGTGAAAGTT
44239949 CAGAGGAGAGCTTGGAAAATGTC-TA
1 CAGAGGAGAGCTTGGAAAATGTCTTA
44239974 CAGAGGAGAGCTTGGAAAATGTCTTA
1 CAGAGGAGAGCTTGGAAAATGTCTTA
44240000 CAGA
1 CAGA
44240004 AATTGAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 23 0.79
26 6 0.21
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (26 bp):
CAGAGGAGAGCTTGGAAAATGTCTTA
Found at i:44245025 original size:2 final size:2
Alignment explanation
Indices: 44245018--44245095 Score: 147
Period size: 2 Copynumber: 38.5 Consensus size: 2
44245008 GGGTGTGCTC
44245018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44245060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
44245096 CGAGTCAATG
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 73 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44249465 original size:27 final size:27
Alignment explanation
Indices: 44249423--44249476 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
44249413 ATTTGTGAGA
44249423 AAGGAACCACAAGCTCTAGTGGTCAGT
1 AAGGAACCACAAGCTCTAGTGGTCAGT
*
44249450 AAGGAACCACAGGCTCTAGTGGTCAGT
1 AAGGAACCACAAGCTCTAGTGGTCAGT
44249477 TTTGATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (27 bp):
AAGGAACCACAAGCTCTAGTGGTCAGT
Found at i:44253586 original size:22 final size:22
Alignment explanation
Indices: 44253546--44253614 Score: 61
Period size: 25 Copynumber: 3.0 Consensus size: 22
44253536 ATTTCTGTTA
*
44253546 TATTAAATTTTAT-TAATAATAT
1 TATTAAATTATATGT-ATAATAT
*
44253568 TATTAAATTATATGTATAAAAATAA
1 TATTAAATTATATGTAT---AATAT
*
44253593 TATTAAATTATAAG-ATAATAT
1 TATTAAATTATATGTATAATAT
44253614 T
1 T
44253615 TTTATTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.13
22 14 0.36
23 1 0.03
24 2 0.05
25 17 0.44
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (22 bp):
TATTAAATTATATGTATAATAT
Found at i:44257612 original size:12 final size:12
Alignment explanation
Indices: 44257586--44257631 Score: 60
Period size: 11 Copynumber: 4.0 Consensus size: 12
44257576 CTCAAATACG
44257586 TATAAATAT-TA
1 TATAAATATATA
*
44257597 TATAAACATATA
1 TATAAATATATA
*
44257609 TATACATATATA
1 TATAAATATATA
44257621 TAT-AATATATA
1 TATAAATATATA
44257632 AAAATGTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 15 0.50
12 15 0.50
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATAAATATATA
Found at i:44259974 original size:124 final size:124
Alignment explanation
Indices: 44259754--44260223 Score: 743
Period size: 121 Copynumber: 3.8 Consensus size: 124
44259744 TTATTTCGAG
* *
44259754 TTGACGTTTCTG-GTCAAATAGTATAAAATTGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGT
* * ***
44259818 GAAATCGCGCCCTCGTGGTTTCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
65 GAAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
44259878 TTGACGTTTCTGAGGAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
*
44259943 AAATTACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAG--A-AATTTTTT
66 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
44259999 TTGACTTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
44260064 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAAT-ATTTTTT
66 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * *
44260122 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAAGATGCTATTTGGGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
** * *
44260187 AAATCGTGCCCTCGTGGATGCGATTTTGCTACAGTAG
66 AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAG
44260224 TAAGTTTGGG
Statistics
Matches: 322, Mismatches: 20, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
121 117 0.36
122 1 0.00
123 102 0.32
124 101 0.31
125 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGATATTTGAGAAGAAATTGTG
AAATCACGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:44263354 original size:10 final size:10
Alignment explanation
Indices: 44263339--44263363 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44263329 CAAATCTAAC
44263339 ATTATGTAAA
1 ATTATGTAAA
44263349 ATTATGTAAA
1 ATTATGTAAA
44263359 ATTAT
1 ATTAT
44263364 TAAGTTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:44263406 original size:55 final size:55
Alignment explanation
Indices: 44263347--44263648 Score: 303
Period size: 55 Copynumber: 5.3 Consensus size: 55
44263337 ACATTATGTA
44263347 AAATTATGTAAAATTATTAAGTTCC-AAAATTTTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAG-TCCAAAAATTTTGTTAATGGTTAGTAAAATTATC
* * *
44263402 AAATTATGTAAAATTATGTAAAATTATTAAGCCAAAAAAATTTTAATTAA--ATTAGGTAAAA-T
1 AAATTATGTAAAATTAT-T---A--AGT---CC--AAAAATTTT-GTTAATGGTTA-GTAAAATT
44263464 ATC
53 ATC
* * *
44263467 AAATTATGTAAAATTATTAAG-CCAAAAAAATTTTAATTAA--ATTAGGTAGAATTATC
1 AAATTATGTAAAATTATTAAGTCC--AAAAATTTT-GTTAATGGTTA-GTAAAATTATC
* *
44263523 AAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTTTGTTAATGGTTAGTAAAATTATC
* *
44263578 AAATTATGTAAAATTATTAAGTCCAAGAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTTTGTTAATGGTTAGTAAAATTATC
44263633 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
44263649 GGTTAGGGTT
Statistics
Matches: 217, Mismatches: 12, Indels: 36
0.82 0.05 0.14
Matches are distributed among these distances:
54 4 0.02
55 133 0.61
56 28 0.13
57 2 0.01
59 2 0.01
60 1 0.00
61 2 0.01
63 2 0.01
64 1 0.00
65 24 0.11
66 14 0.06
67 4 0.02
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTTTGTTAATGGTTAGTAAAATTATC
Found at i:44263417 original size:10 final size:10
Alignment explanation
Indices: 44263402--44263428 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
44263392 TAAAATTATC
44263402 AAATTATGTA
1 AAATTATGTA
44263412 AAATTATGTA
1 AAATTATGTA
44263422 AAATTAT
1 AAATTAT
44263429 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:44263528 original size:18 final size:18
Alignment explanation
Indices: 44263505--44263539 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44263495 AATTTTAATT
*
44263505 AAATTAGGTAGAATTATC
1 AAATTAGGTAAAATTATC
44263523 AAATTAGGTAAAATTAT
1 AAATTAGGTAAAATTAT
44263540 TAAGTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.34
Consensus pattern (18 bp):
AAATTAGGTAAAATTATC
Found at i:44263679 original size:18 final size:18
Alignment explanation
Indices: 44263656--44263697 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
44263646 TTAGGTTAGG
44263656 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
44263674 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
44263692 ATTAGG
1 GTTAGG
44263698 TTAGGGTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:44263712 original size:47 final size:47
Alignment explanation
Indices: 44263643--44263837 Score: 180
Period size: 47 Copynumber: 4.2 Consensus size: 47
44263633 AAATTATGTA
44263643 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATT
*
44263690 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTA-GG-------TT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATT
*
44263729 --A--GGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGG--TTT--TT-AATTA----A--GTTAGGGTTTTTAATT
*
44263783 AAATTAGGTTAGGGCTAGGGTTTTTAATTAAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATT
44263830 AAATTAGG
1 AAATTAGG
44263838 GTTTTTATTA
Statistics
Matches: 120, Mismatches: 5, Indels: 46
0.70 0.03 0.27
Matches are distributed among these distances:
35 14 0.12
37 4 0.03
39 4 0.03
40 5 0.04
44 1 0.01
46 5 0.04
47 60 0.50
49 1 0.01
53 5 0.04
54 4 0.03
56 4 0.03
58 13 0.11
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (47 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATT
Found at i:44263740 original size:35 final size:29
Alignment explanation
Indices: 44263674--44263819 Score: 220
Period size: 29 Copynumber: 4.8 Consensus size: 29
44263664 TTTTAATTAA
44263674 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
44263703 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGG
44263738 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
44263767 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
* *
44263796 GCTAGGGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
44263820 GTTTTTAATT
Statistics
Matches: 109, Mismatches: 2, Indels: 12
0.89 0.02 0.10
Matches are distributed among these distances:
29 74 0.68
30 5 0.05
32 2 0.02
34 5 0.05
35 23 0.21
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:44263748 original size:64 final size:64
Alignment explanation
Indices: 44263674--44263804 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
44263664 TTTTAATTAA
*
44263674 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCTAGG
44263738 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCTAGG
44263802 GTT
1 GTT
44263805 TTTAATTAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.44
Consensus pattern (64 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCTAGG
Found at i:44263847 original size:17 final size:18
Alignment explanation
Indices: 44263798--44263844 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
44263788 AGGTTAGGGC
*
44263798 TAGGGTTTTTAATTAAGT
1 TAGGGTTTTTAATTAAAT
44263816 TAGGGTTTTTAATTAAAT
1 TAGGGTTTTTAATTAAAT
44263834 TAGGGTTTTTA
1 TAGGGTTTTTA
44263845 TTACATCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (18 bp):
TAGGGTTTTTAATTAAAT
Found at i:44263892 original size:25 final size:25
Alignment explanation
Indices: 44263840--44263969 Score: 92
Period size: 25 Copynumber: 5.3 Consensus size: 25
44263830 AAATTAGGGT
* * *
44263840 TTTTATTACATCAAATTGAACTTCTA
1 TTTTATTATATTAAA-TAAACTTCTA
44263866 TTTTATTATATTAAATAAACTTCTA
1 TTTTATTATATTAAATAAACTTCTA
* * *
44263891 TTTTATTACATTAGAT-AA--T-AA
1 TTTTATTATATTAAATAAACTTCTA
* * ** *
44263912 ATTTA-AATACGACAATCAA-TGTCTA
1 TTTTATTATATTA-AATAAACT-TCTA
44263937 TTTTATTATATTAAATAAACTTCTA
1 TTTTATTATATTAAATAAACTTCTA
44263962 TTTTATTA
1 TTTTATTA
44263970 ATCAGATAAT
Statistics
Matches: 79, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
20 3 0.04
21 7 0.09
22 3 0.04
24 3 0.04
25 45 0.57
26 18 0.23
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (25 bp):
TTTTATTATATTAAATAAACTTCTA
Found at i:44263941 original size:71 final size:70
Alignment explanation
Indices: 44263862--44264007 Score: 265
Period size: 71 Copynumber: 2.1 Consensus size: 70
44263852 AAATTGAACT
*
44263862 TCTATTTTATTATATTAAATAAACTTCTATTTTATTACATTAGATAATAAATTTAAATACGACAA
1 TCTATTTTATTATATTAAATAAACTTCTATTTTATTA-ATCAGATAATAAATTTAAATACGACAA
44263927 TCAATG
65 TCAATG
*
44263933 TCTATTTTATTATATTAAATAAACTTCTATTTTATTAATCAGATAATAAATTTAAATACGGCAAT
1 TCTATTTTATTATATTAAATAAACTTCTATTTTATTAATCAGATAATAAATTTAAATACGACAAT
44263998 CAATG
66 CAATG
44264003 TCTAT
1 TCTAT
44264008 GCCCGGGGGA
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 36 0.49
71 37 0.51
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (70 bp):
TCTATTTTATTATATTAAATAAACTTCTATTTTATTAATCAGATAATAAATTTAAATACGACAAT
CAATG
Found at i:44264409 original size:18 final size:18
Alignment explanation
Indices: 44264382--44264416 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44264372 CGGAAAAGGA
* *
44264382 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
44264400 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
44264417 AAACACACCT
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:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:44266216 original size:23 final size:21
Alignment explanation
Indices: 44266180--44266227 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 21
44266170 GATGAAAATA
44266180 TAAAAAAATTTAAAATTATTT
1 TAAAAAAATTTAAAATTATTT
44266201 TAAAAAAATATATAAAATTATTT
1 TAAAAAAAT-T-TAAAATTATTT
44266224 TAAA
1 TAAA
44266228 TTATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 15 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAAATTTAAAATTATTT
Found at i:44266217 original size:33 final size:33
Alignment explanation
Indices: 44266177--44266239 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
44266167 ATTGATGAAA
44266177 ATATAAAAAAATTTAAAATTATTTTAAAAAAAT
1 ATATAAAAAAATTTAAAATTATTTTAAAAAAAT
** *
44266210 ATATAAAATTATTTTAAATTATTTTAAAAA
1 ATATAAAAAAATTTAAAATTATTTTAAAAA
44266240 TAAAATTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
ATATAAAAAAATTTAAAATTATTTTAAAAAAAT
Found at i:44266299 original size:22 final size:22
Alignment explanation
Indices: 44266274--44266324 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
44266264 AAATATGGAT
44266274 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
44266296 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
44266318 TTGAGAG
1 TTGAGAG
44266325 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:44266687 original size:12 final size:13
Alignment explanation
Indices: 44266658--44266688 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44266648 CAAATTTTTC
44266658 AAAAACACTTCTT
1 AAAAACACTTCTT
*
44266671 AAAAACACTTTTT
1 AAAAACACTTCTT
44266684 AAAAA
1 AAAAA
44266689 TAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAACACTTCTT
Found at i:44267182 original size:19 final size:19
Alignment explanation
Indices: 44267158--44267194 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
44267148 TAAATTCAAG
44267158 TTAATTACATCTTTTTTTT
1 TTAATTACATCTTTTTTTT
44267177 TTAATTACATCTTTTTTT
1 TTAATTACATCTTTTTTT
44267195 CAAAATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TTAATTACATCTTTTTTTT
Found at i:44280700 original size:20 final size:20
Alignment explanation
Indices: 44280675--44280728 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
44280665 GTTTTGATTA
* *
44280675 AGCCTTTGTAGTATTTTGTT
1 AGCCTTTGTAGCATTCTGTT
* *
44280695 AGCCTTTATGGCATTCTGTT
1 AGCCTTTGTAGCATTCTGTT
*
44280715 AGCCTTTGTGGCAT
1 AGCCTTTGTAGCAT
44280729 ATTTTGTATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (20 bp):
AGCCTTTGTAGCATTCTGTT
Found at i:44285211 original size:218 final size:218
Alignment explanation
Indices: 44284812--44285565 Score: 1143
Period size: 218 Copynumber: 3.5 Consensus size: 218
44284802 AGTGTAAAGA
* *
44284812 AGCAGATTTAAGCCACA-AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAGTAGAT
1 AGCAGATTGAAGCCA-ATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGAT
* * *
44284876 CTTATCTCTCTGGAGTTGCAGTAGAGTTGATCGCATCAGGTCTTATCTCCCTGAGGTTGTAGCAG
65 CTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGTAGCAG
* * * * **
44284941 AGTAGACTGGGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGACAGATCGAAGATGGCAAAT
130 AGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAAT
*
44285006 CTTATCTCCCTAAGGTTGCAGTAG
195 CTTATCTCCCTAAGGTTGCAGTGG
*
44285030 AGTAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* *
44285095 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCTCTGAGGTTGTTGCAGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGTAGCAGA
*
44285160 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGAGGGGCAGATCGAAGATGATAAATC
131 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
* *
44285225 TTATCTCCTTGAGGTTGCAGTGG
196 TTATCTCCCTAAGGTTGCAGTGG
* * * * * *
44285248 AGCAAATTGAAGTCGATAATCCTATCTCTCTGAGGTTGTAGTGGAGAGGATTAAAGTAATAGATC
1 AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
* * * *
44285313 TTATCTATCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGGGGTTGCAGCCGA
66 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGTAGCAGA
* *
44285378 GCAGACTGAGTAAACATGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
131 GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
44285443 TTATCTCCCTAAGGTTGCAGTGG
196 TTATCTCCCTAAGGTTGCAGTGG
** *
44285466 AGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTGTAGCGGATG-GGATTAAAGTAATAGAT
1 AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGA-GCGGATTAAAGTAATAGAT
* * **
44285530 CCTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCAT
65 CTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAT
44285566 CAAGTCTTGC
Statistics
Matches: 487, Mismatches: 47, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
217 1 0.00
218 485 1.00
219 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (218 bp):
AGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATC
TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATTAGGTCTTATCTCCCTGAGGTTGTAGCAGA
GCAGACTGAGTAAGCAGGTCTTATCCCCCTGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
TTATCTCCCTAAGGTTGCAGTGG
Found at i:44285266 original size:45 final size:44
Alignment explanation
Indices: 44285178--44285293 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 44
44285168 AGTAAGCAGG
* * * * *
44285178 TCTTATCCCCCTGAGGTTGCAGAGGGGCAGATCGAAGATGATAAA
1 TCTTATCTCCTTGAGGTTGCAGTGGAGCAAATCGAAGATGAT-AA
*
44285223 TCTTATCTCCTTGAGGTTGCAGTGGAGCAAATTGAAG-TCGATAA
1 TCTTATCTCCTTGAGGTTGCAGTGGAGCAAATCGAAGAT-GATAA
* *
44285267 TCCTATCT-CTCTGAGGTTGTAGTGGAG
1 TCTTATCTCCT-TGAGGTTGCAGTGGAG
44285294 AGGATTAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 2 0.03
44 25 0.41
45 34 0.56
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCTTGAGGTTGCAGTGGAGCAAATCGAAGATGATAA
Found at i:44285318 original size:44 final size:44
Alignment explanation
Indices: 44285004--44285551 Score: 204
Period size: 44 Copynumber: 12.5 Consensus size: 44
44284994 AAGATGGCAA
* * * *
44285004 ATCTTATCTCCCTAAGGTTGCAGTAGAGTA-GATTGAAGCCAATA-
1 ATCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAG-TAATAG
* * * * * *
44285048 ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * * * *
44285092 ATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-T--TAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * * * *
44285133 GTCTTATCTCTCTGAGGTTG--TTGCAGAGCAGACTG-AGTAAGCAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAG--GATTGAAGTAA-TAG
* * * * * * * *
44285177 GTCTTATCCCCCTGAGGTTGCAGAGGGGCA-GATCGAAGATGATAA
1 ATCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAG-TAATAG
* *
44285222 ATCTTATCTC-CTTGAGGTTGCAGTGGAGCA-AATTGAAGTCGATA-
1 ATCTTATCTCTC-TGAGGTTGCAGTGGAG-AGGATTGAAGT-AATAG
* * *
44285266 ATCCTATCTCTCTGAGGTTGTAGTGGAGAGGATTAAAGTAATAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * * * * *
44285310 ATCTTATCTATCTGAAGTTGCAGTAGAGTGGATCGCA-T--TAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
* * * ** * *
44285351 GTCTTATCTCCCTGGGGTTGCAGCCGAGCA-GACTG-AGTAA-AC
1 ATCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAGTAATAG
* * * * * *
44285393 ATGTCTTATCCCCCTGAGGTTGCAGTGGGGCA-GATCGAAGATGATAA
1 A--TCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAG-TAATAG
* * *
44285440 ATCTTATCTCCCTAAGGTTGCAGTGGAGCA-GATTGAAGCTGATA-
1 ATCTTATCTCTCTGAGGTTGCAGTGGAG-AGGATTGAAG-TAATAG
* * * * * *
44285484 ATCCTATCTCCCTGAAGTTGTAGCGGATG-GGATTAAAGTAATAG
1 ATCTTATCTCTCTGAGGTTGCAGTGGA-GAGGATTGAAGTAATAG
* * *
44285528 ATCCTATCTCTTTGAAGTTGCAGT
1 ATCTTATCTCTCTGAGGTTGCAGT
44285552 AGAGCAGATC
Statistics
Matches: 381, Mismatches: 93, Indels: 60
0.71 0.17 0.11
Matches are distributed among these distances:
39 4 0.01
40 2 0.01
41 53 0.14
42 1 0.00
43 14 0.04
44 219 0.57
45 79 0.21
46 6 0.02
47 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCTCTGAGGTTGCAGTGGAGAGGATTGAAGTAATAG
Found at i:44286783 original size:30 final size:30
Alignment explanation
Indices: 44286749--44286817 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
44286739 TCGGTCCCTT
44286749 GATCCGCGCGGTGACTCGACCCGAAGGGAG
1 GATCCGCGCGGTGACTCGACCCGAAGGGAG
44286779 GATCCGCGCGGTGACTCGACCCGAAGGGAG
1 GATCCGCGCGGTGACTCGACCCGAAGGGAG
44286809 GATCCGCGC
1 GATCCGCGC
44286818 TTTTTTAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.19, C:0.32, G:0.39, T:0.10
Consensus pattern (30 bp):
GATCCGCGCGGTGACTCGACCCGAAGGGAG
Found at i:44292385 original size:2 final size:2
Alignment explanation
Indices: 44292341--44292374 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
44292331 TGTTTTGCAT
44292341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44292375 AATGGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44296859 original size:14 final size:14
Alignment explanation
Indices: 44296842--44296890 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
44296832 TTTCATTTTT
44296842 ATATATTTTTTAAA
1 ATATATTTTTTAAA
*
44296856 ATATAATTTTTAAA
1 ATATATTTTTTAAA
*
44296870 ATTTTATGTTGTTTAAA
1 A-TATAT-TT-TTTAAA
44296887 ATAT
1 ATAT
44296891 GAATTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 14 0.50
15 3 0.11
16 4 0.14
17 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (14 bp):
ATATATTTTTTAAA
Found at i:44304352 original size:21 final size:22
Alignment explanation
Indices: 44304311--44304353 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
44304301 TTCTTGAAAG
*
44304311 TGCCTATTGGGATCATGGACTT
1 TGCCTATTGGGATCATCGACTT
44304333 TGCC-ATTGGGATTC-TCGACTT
1 TGCCTATTGGGA-TCATCGACTT
44304354 CCTTGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (22 bp):
TGCCTATTGGGATCATCGACTT
Found at i:44311808 original size:41 final size:41
Alignment explanation
Indices: 44311763--44311927 Score: 276
Period size: 41 Copynumber: 4.0 Consensus size: 41
44311753 AGACTATCTA
* *
44311763 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACG
1 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
* *
44311804 CCTAGTAGGATTAATGCTGGTGTACCATATCAGGCTTTACG
1 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
*
44311845 CCTAGTAGGCTTAATGCTGGTGTACCATATCAGGCTTTACG
1 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
*
44311886 CCTAGTAGGCTTAATGCCGGTGTACCATATTAGGCTTTACG
1 CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
44311927 C
1 C
44311928 TTAGCAGACT
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 117 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (41 bp):
CCTAGTAGGCTTAATGCCGGTGTACCATATCAGGCTTTACG
Found at i:44311887 original size:82 final size:82
Alignment explanation
Indices: 44311763--44311956 Score: 289
Period size: 82 Copynumber: 2.4 Consensus size: 82
44311753 AGACTATCTA
*
44311763 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCCTAGTAGGATTAATGCTGGTGTA
1 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCCTAGTAGGATTAATGCCGGTGTA
44311828 CCATATCAGGCTTTACG
66 CCATATCAGGCTTTACG
* ** *
44311845 CCTAGTAGGCTTAATGCTGGTGTACCATATCAGGCTTTACGCCTAGTAGGCTTAATGCCGGTGTA
1 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCCTAGTAGGATTAATGCCGGTGTA
*
44311910 CCATATTAGGCTTTACG
66 CCATATCAGGCTTTACG
* * ** *
44311927 CTTAGCAGACTTCGTGCCAGTGTATCATAT
1 CCTAGCAGGCTTAATGCCAGTGTACCATAT
44311957 TAAGATTTGT
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 98 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (82 bp):
CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACGCCTAGTAGGATTAATGCCGGTGTA
CCATATCAGGCTTTACG
Found at i:44311958 original size:41 final size:41
Alignment explanation
Indices: 44311763--44311956 Score: 246
Period size: 41 Copynumber: 4.7 Consensus size: 41
44311753 AGACTATCTA
* * *
44311763 CCTAGCAGGCTTAATGCCAGTGTACCATATCAGGCTTTACG
1 CCTAGTAGACTTAATGCCGGTGTACCATATCAGGCTTTACG
*
44311804 CCTAGTAGGA-TTAATGCTGGTGTACCATATCAGGCTTTACG
1 CCTAGTA-GACTTAATGCCGGTGTACCATATCAGGCTTTACG
* *
44311845 CCTAGTAGGCTTAATGCTGGTGTACCATATCAGGCTTTACG
1 CCTAGTAGACTTAATGCCGGTGTACCATATCAGGCTTTACG
* *
44311886 CCTAGTAGGCTTAATGCCGGTGTACCATATTAGGCTTTACG
1 CCTAGTAGACTTAATGCCGGTGTACCATATCAGGCTTTACG
* * ** * *
44311927 CTTAGCAGACTTCGTGCCAGTGTATCATAT
1 CCTAGTAGACTTAATGCCGGTGTACCATAT
44311957 TAAGATTTGT
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 135 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
CCTAGTAGACTTAATGCCGGTGTACCATATCAGGCTTTACG
Found at i:44315361 original size:45 final size:45
Alignment explanation
Indices: 44315250--44315362 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
44315240 TTTTTTTGGT
* * *
44315250 GTCTTTTAGCTATGGTATTAATCGTTTGAATCGTGATGCCATAAC
1 GTCTTTCAGCTATGGTATTACTCATTTGAATCGTGATGCCATAAC
* * * *
44315295 GTCTTTCAGCTATGGTATTACTCATTTGATTTGTGGTGCCATAGC
1 GTCTTTCAGCTATGGTATTACTCATTTGAATCGTGATGCCATAAC
* *
44315340 GTCTTTCAACTATGGTCTTACTC
1 GTCTTTCAGCTATGGTATTACTC
44315363 TTTTTTTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
GTCTTTCAGCTATGGTATTACTCATTTGAATCGTGATGCCATAAC
Found at i:44322400 original size:18 final size:18
Alignment explanation
Indices: 44322366--44322403 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
44322356 TTTAATAAAG
*
44322366 TATTTAATATTATAATTT
1 TATTTAATAATATAATTT
44322384 TATTATAATAATA-AATTT
1 TATT-TAATAATATAATTT
44322402 TA
1 TA
44322404 AATAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAATAATATAATTT
Found at i:44324893 original size:21 final size:21
Alignment explanation
Indices: 44324869--44324912 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44324859 AAATACTTGA
44324869 AGCAAACTCTAGACATAGAGC
1 AGCAAACTCTAGACATAGAGC
*
44324890 AGCAAACTTTAGACATAGAGC
1 AGCAAACTCTAGACATAGAGC
44324911 AG
1 AG
44324913 TGTTTCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (21 bp):
AGCAAACTCTAGACATAGAGC
Found at i:44331265 original size:43 final size:43
Alignment explanation
Indices: 44331040--44331265 Score: 215
Period size: 43 Copynumber: 5.3 Consensus size: 43
44331030 GCGCCACTAA
** * *
44331040 CTTTAGCGGCGTTTTTTACTAAAAACGCCGCTAAAGACCCTGAT
1 CTTTAGCGGCG-TTTTTGGTATAAGCGCCGCTAAAGACCCTGAT
* * * * * * ****
44331084 CTTTAGCGGCGCTTCT-ATCACAAACGCCGCTGAAGAATAAGA-
1 CTTTAGCGGCGTTTTTGGT-ATAAGCGCCGCTAAAGACCCTGAT
* * *
44331126 CTTTTAGCGGCG-CTTTAGTAGAAGCGCCGCTAAAGACCCTGAT
1 C-TTTAGCGGCGTTTTTGGTATAAGCGCCGCTAAAGACCCTGAT
* *
44331169 CTTTAGCGGCCTTTTTGGGATAAGCGCCGCTAAAGACCCTGAT
1 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTAAAGACCCTGAT
*
44331212 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGACCCTGAT
1 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTAAAGACCCTGAT
*
44331255 CTATAGCGGCG
1 CTTTAGCGGCG
44331266 CATAGACAAC
Statistics
Matches: 149, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
42 29 0.19
43 109 0.73
44 11 0.07
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTAAAGACCCTGAT
Found at i:44331300 original size:86 final size:85
Alignment explanation
Indices: 44331040--44331394 Score: 265
Period size: 86 Copynumber: 4.1 Consensus size: 85
44331030 GCGCCACTAA
* * **
44331040 CTTTAGCGGCGTTTTTTACTAAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTATCAC
1 CTTTAGCGGCG-TTTTTAGTAAAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTAGA-CAC
* *
44331105 AAACGCCGCTGAAGAA-T-AAGA
64 AAACGCCGCTAAAGAACTGAA-T
* * * **
44331126 CTTTTAGCGGCG-CTTTAGTAGAAGCGCCGCTAAAGACCCTGATCTTTAGCGGC-CTTTTTGGGA
1 C-TTTAGCGGCGTTTTTAGTAAAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGC--TTAGACA
* * *
44331189 TAAGCGCCGCTAAAGACCCTG-AT
63 CAAACGCCGCTAAAGA-ACTGAAT
* * * * *
44331212 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGACCCTGATCTATAGCGGCGCATAGACAACA
1 CTTTAGCGGCGTTTTTAGTAAAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTAGAC-ACA
*
44331277 AACGCCACTAAAGAACTGAAT
65 AACGCCGCTAAAGAACTGAAT
* * * * * * * ***
44331298 CTTTAGTGGCGCTTTCACTACAAA-CGCCGCTAAAGACCATGAGCTTTAGTGGCGCCTTTTCCAC
1 CTTTAGCGGCGTTTTTAGTA-AAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCG-CTTAGACAC
* *
44331362 AAACGCCGCAAAAGACCCT-AAT
64 AAACGCCGCTAAAGA-ACTGAAT
*
44331384 CTTTAGTGGCG
1 CTTTAGCGGCG
44331395 CTTTGACCAA
Statistics
Matches: 212, Mismatches: 44, Indels: 26
0.75 0.16 0.09
Matches are distributed among these distances:
84 1 0.00
85 66 0.31
86 125 0.59
87 20 0.09
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (85 bp):
CTTTAGCGGCGTTTTTAGTAAAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTAGACACAA
ACGCCGCTAAAGAACTGAAT
Found at i:44331323 original size:43 final size:42
Alignment explanation
Indices: 44331274--44331418 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
44331264 CGCATAGACA
*
44331274 ACAAACGCCACTAAAGAACTGAATCTTTAGTGGCGCTTTCAC
1 ACAAACGCCACTAAAGACCTGAATCTTTAGTGGCGCTTTCAC
* *
44331316 TACAAACGCCGCTAAAGACCATG-AGCTTTAGTGGCGCCTTTTC-C
1 -ACAAACGCCACTAAAGACC-TGAATCTTTAGTGGCG-C-TTTCAC
* * *
44331360 ACAAACGCCGCAAAAGACCCT-AATCTTTAGTGGCGCTTTGACC
1 ACAAACGCCACTAAAGA-CCTGAATCTTTAGTGGCGCTTTCA-C
*
44331403 AAAAACGCCACTAAAG
1 ACAAACGCCACTAAAG
44331419 GCCAAGCACC
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 72 0.84
44 6 0.07
45 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (42 bp):
ACAAACGCCACTAAAGACCTGAATCTTTAGTGGCGCTTTCAC
Found at i:44331438 original size:44 final size:42
Alignment explanation
Indices: 44331298--44331438 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 42
44331288 AGAACTGAAT
* * *
44331298 CTTTAGTGGCGCTTTCACTACAAACGCCGCTAAAGACCATGAG
1 CTTTAGTGGCGCTTT-ACCACAAACGCCGCTAAAGACCAAGAC
* * * *
44331341 CTTTAGTGGCGCCTTTTCCACAAACGCCGCAAAAGACCCTA-AT
1 CTTTAGTGGCG-CTTTACCACAAACGCCGCTAAAGA-CCAAGAC
* * *
44331384 CTTTAGTGGCGCTTTGACCAAAAACGCCACTAAAGGCCAAGCAC
1 CTTTAGTGGCGCTTT-ACCACAAACGCCGCTAAAGACCAAG-AC
44331428 CTTTAGTGGCG
1 CTTTAGTGGCG
44331439 TTTTTTTTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 7 0.09
43 55 0.69
44 18 0.22
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (42 bp):
CTTTAGTGGCGCTTTACCACAAACGCCGCTAAAGACCAAGAC
Found at i:44331800 original size:21 final size:21
Alignment explanation
Indices: 44331770--44331849 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
44331760 TTTGACGCTA
*
44331770 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTGTAGC
* * *
44331791 CTCTATTTCCCTCACTTTAGC
1 CTCTACTTCCCTCGCTGTAGC
* *
44331812 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGTAGC
* *
44331833 CTGTACTTCTCTCGCTG
1 CTCTACTTCCCTCGCTG
44331850 CCGCCTCTGC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.07, C:0.41, G:0.15, T:0.36
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGTAGC
Found at i:44331850 original size:21 final size:21
Alignment explanation
Indices: 44331770--44331865 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
44331760 TTTGACGCTA
* * *
44331770 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCTCTCGCTGCAGC
* * * **
44331791 CTCTATTTCCCTCACTTTAGC
1 CTCTACTTCTCTCGCTGCAGC
* *
44331812 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCTCTCGCTGCAGC
* *
44331833 CTGTACTTCTCTCGCTGCCGC
1 CTCTACTTCTCTCGCTGCAGC
*
44331854 CTCTGCTTCTCT
1 CTCTACTTCTCT
44331866 TATCGCCGCA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.06, C:0.43, G:0.15, T:0.36
Consensus pattern (21 bp):
CTCTACTTCTCTCGCTGCAGC
Found at i:44331856 original size:42 final size:42
Alignment explanation
Indices: 44331770--44331862 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
44331760 TTTGACGCTA
* * **
44331770 CTCTGCTTCCCTCGCTGTAGCCTCTATTTCCCTCACTTTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCACTGCAGC
* * * *
44331812 CTCTGCTTCCCTCGCTGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCACTGCAGC
44331854 CTCTGCTTC
1 CTCTGCTTC
44331863 TCTTATCGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.06, C:0.43, G:0.15, T:0.35
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCACTGCAGC
Found at i:44331964 original size:66 final size:66
Alignment explanation
Indices: 44331894--44332022 Score: 197
Period size: 66 Copynumber: 2.0 Consensus size: 66
44331884 AAGCTGTTGT
* *
44331894 TGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTTTCGCTGCTGCATCTGCTTTAAGTTGTA
1 TGGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGTA
44331958 AC
65 AC
* * *
44331960 TGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGTTGCCTCTGCTTTAAGTTGT
1 TGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGT
44332023 GTAATTTGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (66 bp):
TGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGTAA
C
Found at i:44337538 original size:9 final size:9
Alignment explanation
Indices: 44337526--44337592 Score: 66
Period size: 9 Copynumber: 7.7 Consensus size: 9
44337516 AAAATTATGC
44337526 TATGTAAGT
1 TATGTAAGT
44337535 TATGTAAGT
1 TATGTAAGT
* **
44337544 CACATAAGT
1 TATGTAAGT
44337553 TATGTAAG-
1 TATGTAAGT
* * *
44337561 -AAGTTATT
1 TATGTAAGT
44337569 TATGTAAGT
1 TATGTAAGT
44337578 TATGTAAGT
1 TATGTAAGT
44337587 TATGTA
1 TATGTA
44337593 TCGAAGTTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
7 4 0.09
9 40 0.91
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (9 bp):
TATGTAAGT
Found at i:44337574 original size:34 final size:35
Alignment explanation
Indices: 44337534--44337601 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
44337524 GCTATGTAAG
44337534 TTATGTAAGTCACATAAGTTATGTA-AGAAGTTAT
1 TTATGTAAGTCACATAAGTTATGTATAGAAGTTAT
* ** *
44337568 TTATGTAAGTTATGTAAGTTATGTATCGAAGTTA
1 TTATGTAAGTCACATAAGTTATGTATAGAAGTTA
44337602 ATTAACTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.41
Consensus pattern (35 bp):
TTATGTAAGTCACATAAGTTATGTATAGAAGTTAT
Found at i:44337589 original size:22 final size:22
Alignment explanation
Indices: 44337561--44337653 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 22
44337551 GTTATGTAAG
44337561 AAGTTATTTATGTAAGTTATGT
1 AAGTTATTTATGTAAGTTATGT
*
44337583 AAGTTATGTATCG-AAGTTAAT-T
1 AAGTTATTTAT-GTAAGTT-ATGT
* * * * *
44337605 AACTAACTTATGTAATTTAAGT
1 AAGTTATTTATGTAAGTTATGT
* *
44337627 ATA-ATATTAATGTAAGTTATGT
1 A-AGTTATTTATGTAAGTTATGT
44337649 AAGTT
1 AAGTT
44337654 GTAAGCTATG
Statistics
Matches: 51, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
21 3 0.06
22 44 0.86
23 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (22 bp):
AAGTTATTTATGTAAGTTATGT
Found at i:44337616 original size:35 final size:35
Alignment explanation
Indices: 44337548--44337629 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 35
44337538 GTAAGTCACA
* ** *
44337548 TAAGTTATGTA-AGAAGTTATTTATGTAAGTTATG
1 TAAGTTATGTATAGAAGTTAATTAACTAACTTATG
*
44337582 TAAGTTATGTATCGAAGTTAATTAACTAACTTATG
1 TAAGTTATGTATAGAAGTTAATTAACTAACTTATG
* *
44337617 TAATTTAAGTATA
1 TAAGTTATGTATA
44337630 ATATTAATGT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 11 0.28
35 28 0.72
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.43
Consensus pattern (35 bp):
TAAGTTATGTATAGAAGTTAATTAACTAACTTATG
Found at i:44337658 original size:16 final size:16
Alignment explanation
Indices: 44337637--44337667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44337627 ATAATATTAA
*
44337637 TGTAAGTTATGTAAGT
1 TGTAAGCTATGTAAGT
44337653 TGTAAGCTATGTAAG
1 TGTAAGCTATGTAAG
44337668 ATATTAATGT
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:0.32, C:0.03, G:0.26, T:0.39
Consensus pattern (16 bp):
TGTAAGCTATGTAAGT
Found at i:44337725 original size:82 final size:82
Alignment explanation
Indices: 44337571--44337735 Score: 280
Period size: 82 Copynumber: 2.0 Consensus size: 82
44337561 AAGTTATTTA
* *
44337571 TGTAAGTTATGTAAGTTATGTATCGAAGTTAATTAACTAACTTATGTAATTTAAGTATAATATTA
1 TGTAAGCTATGTAAGATATGTATCGAAGTTAATTAACTAACTTATGTAATTTAAGTATAATATTA
44337636 ATGTAAGTTATGTAAGT
66 ATGTAAGTTATGTAAGT
44337653 TGTAAGCTATGTAAGATAT-TAAT-GTAAGTTAATTAACTAACTTATGTAATTTAAGTATAATAT
1 TGTAAGCTATGTAAGATATGT-ATCG-AAGTTAATTAACTAACTTATGTAATTTAAGTATAATAT
44337716 TAATGTAAGTTATGTAAGT
64 TAATGTAAGTTATGTAAGT
44337735 T
1 T
44337736 ATGTATAATA
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
81 2 0.03
82 77 0.97
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (82 bp):
TGTAAGCTATGTAAGATATGTATCGAAGTTAATTAACTAACTTATGTAATTTAAGTATAATATTA
ATGTAAGTTATGTAAGT
Found at i:44337763 original size:34 final size:34
Alignment explanation
Indices: 44337681--44337784 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
44337671 TTAATGTAAG
44337681 TTAATTAACTAACTTATGTAATTTAAGTATAATA
1 TTAATTAACTAACTTATGTAATTTAAGTATAATA
* * * *
44337715 TTAA-T--GTAAGTTATGTAAGTTATGTATAATA
1 TTAATTAACTAACTTATGTAATTTAAGTATAATA
44337746 TTAATTAACTAACTTATGTAATTTAAGTATAATA
1 TTAATTAACTAACTTATGTAATTTAAGTATAATA
44337780 TTAAT
1 TTAAT
44337785 GTAAGTTATG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 26 0.44
32 1 0.02
33 1 0.02
34 31 0.53
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (34 bp):
TTAATTAACTAACTTATGTAATTTAAGTATAATA
Found at i:44337821 original size:25 final size:22
Alignment explanation
Indices: 44337614--44337810 Score: 86
Period size: 22 Copynumber: 9.3 Consensus size: 22
44337604 TAACTAACTT
* *
44337614 ATGTAATTTAAGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
*
44337636 ATGTAAGTTATG--T-A-AGT-
1 ATGTAAGTTATGTATAATATTA
*
44337653 -TGTAAGCTATGTA-AGATATTA
1 ATGTAAGTTATGTATA-ATATTA
*
44337674 ATGTAAGTTAAT-TAACTAA-CTT-
1 ATGTAAGTT-ATGT-A-TAATATTA
* *
44337696 ATGTAATTTAAGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
*
44337718 ATGTAAGTTATG--TAA-GTT-
1 ATGTAAGTTATGTATAATATTA
*
44337736 ATGTATA-ATAT-TAATTAACTAACTT-
1 ATGTA-AGTTATGT-A-TAA-T-A-TTA
* *
44337761 ATGTAATTTAAGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
44337783 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
44337805 ATGTAA
1 ATGTAA
44337811 TTAGTTATGT
Statistics
Matches: 130, Mismatches: 19, Indels: 52
0.65 0.09 0.26
Matches are distributed among these distances:
16 10 0.08
18 10 0.08
19 5 0.04
20 9 0.07
21 9 0.07
22 64 0.49
23 6 0.05
24 5 0.04
25 11 0.08
26 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.43
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:44337828 original size:65 final size:65
Alignment explanation
Indices: 44337653--44337836 Score: 239
Period size: 65 Copynumber: 2.8 Consensus size: 65
44337643 TTATGTAAGT
*
44337653 TGTAAGCTATGTAAGATATTAATGTAAGTTAATTAACTAACTTATGTAATTTAAGTATAATATTA
1 TGTAAGTTATGTAAGATATTAATGTAA-TTAATTAACTAACTTATGTAATTTAAGTATAATATTA
44337718 A
65 A
* *
44337719 TGTAAGTTATGTAAGTTATGT-AT-AATATTAATTAACTAACTTATGTAATTTAAGTATAATATT
1 TGTAAGTTATGTAAGATAT-TAATGTA-ATTAATTAACTAACTTATGTAATTTAAGTATAATATT
44337782 AA
64 AA
* ** * *
44337784 TGTAAGTTATGTATA-ATATTAATGTAATTAGTTATGTAATTTATGTATTTTAA
1 TGTAAGTTATGTA-AGATATTAATGTAATTAATTAACTAACTTATGTAATTTAA
44337837 TTAACTAACT
Statistics
Matches: 103, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
64 1 0.01
65 79 0.77
66 22 0.21
67 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (65 bp):
TGTAAGTTATGTAAGATATTAATGTAATTAATTAACTAACTTATGTAATTTAAGTATAATATTAA
Found at i:44337837 original size:87 final size:86
Alignment explanation
Indices: 44337696--44337862 Score: 257
Period size: 87 Copynumber: 1.9 Consensus size: 86
44337686 TAACTAACTT
*
44337696 ATGTAATTTAAGTATAATATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTT
1 ATGTAAGTTAAGTATAATATTAATGTAAGTTATGTAAGTTATGTAT-ATATTAATTAACTAACTT
44337761 ATGTAATTTAAGTATAATATTA
65 ATGTAATTTAAGTATAATATTA
* *
44337783 ATGTAAGTTATGTATAATATTAATGTAATTAGTTATGTAATTTATGTAT-T-TTAATTAACTAAC
1 ATGTAAGTTAAGTATAATATTAATGT-A--AGTTATGTAAGTTATGTATATATTAATTAACTAAC
44337846 TTATGTAATTTAAGTAT
63 TTATGTAATTTAAGTAT
44337863 TATTTTAAGC
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
87 54 0.73
88 2 0.03
90 18 0.24
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (86 bp):
ATGTAAGTTAAGTATAATATTAATGTAAGTTATGTAAGTTATGTATATATTAATTAACTAACTTA
TGTAATTTAAGTATAATATTA
Found at i:44337850 original size:56 final size:56
Alignment explanation
Indices: 44337734--44337852 Score: 143
Period size: 56 Copynumber: 2.1 Consensus size: 56
44337724 GTTATGTAAG
* *
44337734 TTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAAG
1 TTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATCTAAC
* * * **
44337790 TTATGTATAATATTAATGTAA-TTAGTTATGTAATTTATGTATTTTAATTAA-CTAAC
1 TTATGTATAATATTAAT-TAACTAACTTATGTAATTTAAGTATAAT-ATTAATCTAAC
44337846 TTATGTA
1 TTATGTA
44337853 ATTTAAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 46 0.85
57 8 0.15
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (56 bp):
TTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATCTAAC
Found at i:44337888 original size:87 final size:86
Alignment explanation
Indices: 44337708--44337892 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 86
44337698 GTAATTTAAG
44337708 TATAATATTAATGTAAGTTATGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAG
1 TATAATATTAATGTAAGTTATGTAAGTTATGTAT-ATATTAATTAACTAACTTATGTAATTTAAG
* *
44337773 TATAATATTAATGTAAGTTATG
65 TATAATATTAATGCAAGTTATA
*
44337795 TATAATATTAATGTAATTAGTTATGTAATTTATGTAT-T-TTAATTAACTAACTTATGTAATTTA
1 TATAATATTAATGT-A--AGTTATGTAAGTTATGTATATATTAATTAACTAACTTATGTAATTTA
* * *
44337858 AGTATTATTTTAA-GCAATTTA-A
63 AGTATAATATTAATGCAAGTTATA
44337880 TAATTAATATTAA
1 T-A-TAATATTAA
44337893 CAGCATGTGT
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
85 1 0.01
86 7 0.08
87 59 0.68
88 2 0.02
90 18 0.21
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (86 bp):
TATAATATTAATGTAAGTTATGTAAGTTATGTATATATTAATTAACTAACTTATGTAATTTAAGT
ATAATATTAATGCAAGTTATA
Found at i:44338019 original size:19 final size:17
Alignment explanation
Indices: 44337983--44338022 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
44337973 CTAACTTATG
*
44337983 TAATTTAAGTATTATTT
1 TAATGTAAGTATTATTT
44338000 TAATGTAAGTTATGTATTT
1 TAATGTAAG-TAT-TATTT
44338019 TAAT
1 TAAT
44338023 TAATGTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (17 bp):
TAATGTAAGTATTATTT
Found at i:44338095 original size:31 final size:32
Alignment explanation
Indices: 44338040--44338124 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 32
44338030 CTTAGTTATA
* * *
44338040 TATGTAAGTTATGTATAGTATTAATGTAA-TTAGT
1 TATGTAATTTATGTAT--TATTAAT-TAACTAACT
44338074 TATGTAATTTATGTATT-TTAATTAACTAACT
1 TATGTAATTTATGTATTATTAATTAACTAACT
*
44338105 TATGTAATTTAAGTATTATT
1 TATGTAATTTATGTATTATT
44338125 TCAAGCAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 3 0.07
31 24 0.53
32 3 0.07
34 15 0.33
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (32 bp):
TATGTAATTTATGTATTATTAATTAACTAACT
Found at i:44338814 original size:21 final size:21
Alignment explanation
Indices: 44338790--44338834 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44338780 TGAAGTAACG
44338790 AATGATACAGAAGCAGAGACA
1 AATGATACAGAAGCAGAGACA
* * *
44338811 AATGATGCGGAGGCAGAGACA
1 AATGATACAGAAGCAGAGACA
44338832 AAT
1 AAT
44338835 TTCATGATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.13, G:0.29, T:0.11
Consensus pattern (21 bp):
AATGATACAGAAGCAGAGACA
Found at i:44340444 original size:19 final size:20
Alignment explanation
Indices: 44340406--44340449 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
44340396 ACATCATTAG
*
44340406 TTTTTTTATTTCCTTTTTATA
1 TTTTTTTATTT-CTTCTTATA
44340427 TTTTTTTATTT-TTCTTATA
1 TTTTTTTATTTCTTCTTATA
44340446 TTTT
1 TTTT
44340450 GGTCCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTATTTCTTCTTATA
Found at i:44340792 original size:17 final size:19
Alignment explanation
Indices: 44340758--44340797 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
44340748 ATAAAACTAA
44340758 TTAATCTGAGCTTAAA-CC
1 TTAATCTGAGCTTAAACCC
*
44340776 TTAATCTGATC-TAAACCC
1 TTAATCTGAGCTTAAACCC
44340794 TTAA
1 TTAA
44340798 ATCACTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (19 bp):
TTAATCTGAGCTTAAACCC
Found at i:44340980 original size:7 final size:7
Alignment explanation
Indices: 44340968--44341008 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
44340958 ACTAATTAAT
44340968 CTAAACC
1 CTAAACC
44340975 CTAAACC
1 CTAAACC
44340982 CT-AACC
1 CTAAACC
44340988 CTAAACTC
1 CTAAAC-C
*
44340996 CTAACCC
1 CTAAACC
44341003 CTAAAC
1 CTAAAC
44341009 ATTATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 18 0.60
8 6 0.20
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:44340985 original size:14 final size:15
Alignment explanation
Indices: 44340968--44341008 Score: 59
Period size: 13 Copynumber: 2.9 Consensus size: 15
44340958 ACTAATTAAT
44340968 CTAAACCCTAAAC-C
1 CTAAACCCTAAACTC
44340982 CT-AACCCTAAACTC
1 CTAAACCCTAAACTC
*
44340996 CTAACCCCTAAAC
1 CTAAACCCTAAAC
44341009 ATTATTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 10 0.42
14 5 0.21
15 9 0.38
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (15 bp):
CTAAACCCTAAACTC
Found at i:44341129 original size:7 final size:7
Alignment explanation
Indices: 44341119--44341151 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
44341109 AGGTTAAATT
*
44341119 TAACCTC
1 TAACCCC
44341126 TAACCCC
1 TAACCCC
44341133 TAACCCC
1 TAACCCC
44341140 TAACCCC
1 TAACCCC
44341147 TAACC
1 TAACC
44341152 AATAAACCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:44341831 original size:114 final size:112
Alignment explanation
Indices: 44341592--44341835 Score: 346
Period size: 114 Copynumber: 2.2 Consensus size: 112
44341582 NNNNNNNNTT
* * *
44341592 TTAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCAGTGCAGAAACGCCGCTAAAGACCCCA
1 TTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCAGTACAGAAACGCCACTAAAGACCCCA
* * *
44341657 AAAACTTAGTAAACGGTACCGTTGGGTTTAGGCTTTTTGCGGCGCTG
66 AAAACTCAGAAAACGGTACCGTTGGGCTTAGGCTTTTTGCGGCGCTG
* ** *
44341704 TTAAAAAACCGCCGCTACAGACCTGAGAATTAGCGGCGCTTTATAGAAACGCCACTAAAGACCCC
1 TTAAAAAA-CGCCGCTAAAGACCTGAGAATTAGCGGCGCAGTACAGAAACGCCACTAAAGA-CCC
*
44341769 CAAAAACTCAGAAAACGGTACCGTTTGGCTTAGGCTTTTTGCGGCGCT-
64 CAAAAACTCAGAAAACGGTACCGTTGGGCTTAGGCTTTTTGCGGCGCTG
44341817 TTCAAATAAACGCCGCTAA
1 TT-AAA-AAACGCCGCTAA
44341836 TGCTTATTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
112 8 0.07
113 47 0.41
114 58 0.50
115 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (112 bp):
TTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCAGTACAGAAACGCCACTAAAGACCCCA
AAAACTCAGAAAACGGTACCGTTGGGCTTAGGCTTTTTGCGGCGCTG
Found at i:44351630 original size:43 final size:44
Alignment explanation
Indices: 44351543--44352770 Score: 1322
Period size: 43 Copynumber: 28.2 Consensus size: 44
44351533 TTTAATTGAC
44351543 AAACCCTAAACCCTTAACTTAAAAACTATAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTT---AA--A-AACCCTAAACCCTTAACTTAA
* * * *
44351592 AAATCCT-AGCCCTTAACTTTAAAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * * * * *
44351635 AAACTCTAAACCTTTAACTTAAAAACCC-CAATCATTGACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * **
44351678 AAACCCTAAACTCGTAACTT-AAAACCCTAAACCCTTGACTTTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
** *
44351721 AAACCCTAAACCCTTAACTTTTAAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
44351764 AAACCTTAAACCCCTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * *
44351808 AAACACT-AACCATTAACTTAAAACCCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
*
44351850 AAACCCTAAA-CCTTAACTT-AAAACACTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * *
44351892 AAACCAT-AACCCTTGAGTTTAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
44351935 AAACCCT-AACCCTTAACATAAAAACCCT-AACCCTTAACTGAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
44351977 AAACCTTAACACTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTTA
1 AAACCCT---A--AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* ** * * * * *
44352025 AAACCCTAAACTCTTAACTTTGAAAGCCTAAACCCGTGAGTTAG
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
** * * *
44352069 AAACTTTAAACGCTTAACTTAAAAACCCT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* ** * *
44352112 AAACCTTAAATTCTTAACTTAAAAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
44352156 AAACCCT-AACTCTTAACTTTAAAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
44352198 AAACCCTAAACTCTTAACTTAAAAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * *
44352242 AAA-CCTTAACCCTTGACTTTAAAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * *
44352285 AAACCATAAACCCTTAACCTAAAAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * * *
44352329 AAACCATAAACCCTTAACCTAAAAACCCT-AACCTTTGACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
44352372 AAACCCTAATCCCTTAACTTAAAAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
*
44352416 AAATCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * *
44352459 AAAGCCCT-AACCCTTAACTTTAAAATCCTAAA-CCTTAACTTTA
1 AAA-CCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * *
44352502 AAACCCTAAACTCTTAAATTAAAAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * *
44352546 AAACCCT-AACCTTTAACTTAAAAACCCT-AACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
44352588 AAACCTTAAACCCTTAACCTAAAAA-CCTCAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AAACCCTTAACTTAA
* * * * *
44352632 AAA-CCTTAACCCTTAACTTTAAAACCCT-AACCTTTGACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
44352674 AAACCCTAATCCCTTAACTTAAAAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
*
44352718 AAATCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
44352761 AAAGCCCTAA
1 AAA-CCCTAA
44352771 CNNNNNNNNN
Statistics
Matches: 988, Mismatches: 159, Indels: 69
0.81 0.13 0.06
Matches are distributed among these distances:
41 8 0.01
42 132 0.13
43 517 0.52
44 274 0.28
45 2 0.00
48 49 0.05
49 6 0.01
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (44 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
Found at i:44351687 original size:65 final size:65
Alignment explanation
Indices: 44351543--44352763 Score: 1215
Period size: 65 Copynumber: 18.7 Consensus size: 65
44351533 TTTAATTGAC
* * *
44351543 AAACCCTAAACCCTTAACTTAAAAACTATAACCCT-AACCCTTAACTTAAAAATCCTAGCCCTTA
1 AAACCCTAAACCCTTAACTT---AA--A-AACCCTAAACCCTTAACTTAAAAACCCAAACCCTTA
*
44351607 ACTTTA
60 ACTTAA
* * * * * * * *
44351613 AAACCCTAAACCTTTAACTTAAAAACTCTAAACCTTTAACTTAAAAACCCCAATCATTGACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
* * * ** *
44351678 AAACCCTAAACTCGTAACTT-AAAACCCTAAACCCTTGACTTTTAAACCCTAAACCCTTAACTTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
*
44351742 T
65 A
* * *
44351743 AAACCCT-AACCCTTAACTTTAAAACCTTAAACCCCTAACTTAAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
44351807 A
65 A
* * * *
44351808 AAACACT-AACCATTAACTTAAAACCCCT-AACCCTTAACTTTAAAACCCTAAA-CCTTAACTT-
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
44351869 A
65 A
* * * * *
44351870 AAACACTAAACCCTTAACTTAAAAACCAT-AACCCTTGAGTTTAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
44351934 A
65 A
* *
44351935 AAACCCT-AACCCTTAACATAAAAACCCT-AACCCTTAACTGAAAAACCTTAACACTAACCCTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC----CA--AACCCTTA
44351998 ACTTAA
60 ACTTAA
* * * * * * * *
44352004 AAACCCT-AACCCTTAACTTTAAAACCCTAAACTCTTAACTTTGAAAGCCTAAACCCGTGAGTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAC-TTAAAAACCCAAACCCTTAACTTA
*
44352068 G
65 A
** * * * * **
44352069 AAACTTTAAACGCTTAACTTAAAAACCCT-AACCCTTGACTTTAAAACCTTAAATTCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC-CAAACCCTTAACTTA
44352133 A
65 A
* * * *
44352134 AAACCATAAACCCTTAACCTAAAAACCCT-AACTCTTAACTTTAAAACCCTAAACCCTTAACTT-
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
44352197 A
65 A
* * ** * *
44352198 AAACCCTAAACTCTTAACTTAAAAACCTTAAACCCTTAACTTAAAAACCTTAACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
* * * * *
44352263 AAACCCTAAACTCTTAACTTAAAAACCATAAACCCTTAACCTAAAAACCATAAACCCTTAACCTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC-CAAACCCTTAACTTA
44352328 A
65 A
* * * * * *
44352329 AAACCATAAACCCTTAACCTAAAAACCCT-AACCTTTGACTTTAAAACCCTAATCCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTTA
44352393 A
65 A
* * *
44352394 AAACCATAAACCCTTAACTTAAAAATCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
* * * * *
44352459 AAAGCCCT-AACCCTTAACTTTAAAATCCTAAA-CCTTAACTTTAAAACCCTAAACTCTTAAATT
1 AAA-CCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-AAACCCTTAACTT
44352522 AA
64 AA
* * * * *
44352524 AAACCTTAAACCCTTAACTTAAAAACCCT-AACCTTTAACTTAAAAACCCTAACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
* * ** *
44352588 AAACCTTAAACCCTTAACCTAAAAA-CCTCAAACCCTTAACTTAAAAACCTTAACCCTTAACTTT
1 AAACCCTAAACCCTTAACTTAAAAACCCT-AAACCCTTAACTTAAAAACCCAAACCCTTAACTTA
44352652 A
65 A
* * * * *
44352653 AAACCCT-AACCTTTGACTTTAAAACCCTAATCCCTTAACTTAAAAACCATAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC-CAAACCCTTAACTTA
44352717 A
65 A
*
44352718 AAATCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAA
44352764 GCCCTAACNN
Statistics
Matches: 972, Mismatches: 148, Indels: 67
0.82 0.12 0.06
Matches are distributed among these distances:
62 8 0.01
63 52 0.05
64 237 0.24
65 502 0.52
66 94 0.10
67 4 0.00
68 1 0.00
69 40 0.04
70 28 0.03
71 6 0.01
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (65 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCAAACCCTTAACTTAA
Found at i:44351968 original size:27 final size:25
Alignment explanation
Indices: 44351936--44352016 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
44351926 TTAACTTAAA
*
44351936 AACCCTAACCCTTAAC-ATAAA---
1 AACCCTAACCCTTAACTAAAAACCT
44351957 AACCCTAACCCTTAACTGAAAAACCTT
1 AACCCTAACCCTTAACT-AAAAACC-T
*
44351984 AACACTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTTAAC-TAAAAA-CCT
44352011 AACCCT
1 AACCCT
44352017 TAACTTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
21 16 0.33
23 4 0.08
27 26 0.53
28 3 0.06
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (25 bp):
AACCCTAACCCTTAACTAAAAACCT
Found at i:44352025 original size:27 final size:27
Alignment explanation
Indices: 44351961--44352013 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
44351951 CATAAAAACC
*
44351961 CTAACCCTTAACTGAAAAACCTTAACA
1 CTAACCCTTAACTGAAAAACCCTAACA
*
44351988 CTAACCCTTAACTTAAAAACCCTAAC
1 CTAACCCTTAACTGAAAAACCCTAAC
44352014 CCTTAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (27 bp):
CTAACCCTTAACTGAAAAACCCTAACA
Found at i:44352771 original size:22 final size:22
Alignment explanation
Indices: 44351543--44352770 Score: 1322
Period size: 22 Copynumber: 56.4 Consensus size: 22
44351533 TTTAATTGAC
44351543 AAACCCTAAACCCTTAACTTAAAAA
1 AAACCCTAAACCCTTAACTT---AA
44351568 CTATAACCCT-AACCCTTAACTTAA
1 --A-AACCCTAAACCCTTAACTTAA
* * *
44351592 AAATCCT-AGCCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
44351613 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44351635 AAACTCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * * * *
44351657 AAACCC-CAATCATTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
44351678 AAACCCTAAACTCGTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
* **
44351699 AAACCCTAAACCCTTGACTTTT
1 AAACCCTAAACCCTTAACTTAA
**
44351721 AAACCCTAAACCCTTAACTTTT
1 AAACCCTAAACCCTTAACTTAA
*
44351743 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
44351764 AAACCTTAAACCCCTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
44351786 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44351808 AAACACT-AACCATTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44351829 AACCCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
44351850 AAACCCTAAA-CCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
44351870 AAACACTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * * *
44351892 AAACCAT-AACCCTTGAGTTTA
1 AAACCCTAAACCCTTAACTTAA
44351913 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44351935 AAACCCT-AACCCTTAACATAA
1 AAACCCTAAACCCTTAACTTAA
*
44351956 AAACCCT-AACCCTTAACTGAA
1 AAACCCTAAACCCTTAACTTAA
*
44351977 AAACCTTAACACTAACCCTTAACTTAA
1 AAACCCT---A--AACCCTTAACTTAA
*
44352004 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* **
44352025 AAACCCTAAACTCTTAACTTTG
1 AAACCCTAAACCCTTAACTTAA
* * * * *
44352047 AAAGCCTAAACCCGTGAGTTAG
1 AAACCCTAAACCCTTAACTTAA
** *
44352069 AAACTTTAAACGCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44352091 AAACCCT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
* **
44352112 AAACCTTAAATTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44352134 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44352156 AAACCCT-AACTCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
44352177 AAACCCTAAACCCTTAACTT-A
1 AAACCCTAAACCCTTAACTTAA
*
44352198 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44352220 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
44352242 AAA-CCTTAACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
44352263 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44352285 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44352307 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44352329 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
44352351 AAACCCT-AACCTTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
44352372 AAACCCTAATCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44352394 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44352416 AAATCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
44352438 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44352459 AAAGCCCT-AACCCTTAACTTTA
1 AAA-CCCTAAACCCTTAACTTAA
* *
44352481 AAATCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
44352502 AAACCCTAAACTCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
44352524 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44352546 AAACCCT-AACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
44352567 AAACCCT-AACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAA
* *
44352588 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
44352610 AAA-CCTCAAACCCTTAACTTAA
1 AAACCCT-AAACCCTTAACTTAA
* *
44352632 AAA-CCTTAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* * *
44352653 AAACCCT-AACCTTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
*
44352674 AAACCCTAATCCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44352696 AAACCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
44352718 AAATCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
44352740 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
44352761 AAAGCCCTAA
1 AAA-CCCTAA
44352771 CNNNNNNNNN
Statistics
Matches: 1020, Mismatches: 151, Indels: 64
0.83 0.12 0.05
Matches are distributed among these distances:
20 10 0.01
21 425 0.42
22 544 0.53
23 1 0.00
24 2 0.00
27 32 0.03
28 6 0.01
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:44352910 original size:21 final size:21
Alignment explanation
Indices: 44352874--44353049 Score: 226
Period size: 21 Copynumber: 8.2 Consensus size: 21
44352864 NNNNNNNNAA
*
44352874 TTAAAAACCTTAAACCCTTAAC
1 TTAAAAACCCT-AACCCTTAAC
*
44352896 TTAAAAACCCTAACCTTTAAC
1 TTAAAAACCCTAACCCTTAAC
*
44352917 TTAAAAACCCTAACCCTTAAA
1 TTAAAAACCCTAACCCTTAAC
* *
44352938 TTTAAAACCTTAAACCCTTAAC
1 TTAAAAACCCT-AACCCTTAAC
* *
44352960 CTAAAAACCTCAAACCCTTAAC
1 TTAAAAACC-CTAACCCTTAAC
*
44352982 TTAAAAACCTTAACCCTTAAC
1 TTAAAAACCCTAACCCTTAAC
*
44353003 TTTAAAACCCTAACCCTTAAC
1 TTAAAAACCCTAACCCTTAAC
* *
44353024 TTAAAAATCCTAACACTTAAC
1 TTAAAAACCCTAACCCTTAAC
44353045 TTAAA
1 TTAAA
44353050 TATAATTTGA
Statistics
Matches: 133, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
21 89 0.67
22 44 0.33
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAAAAACCCTAACCCTTAAC
Found at i:44353184 original size:37 final size:38
Alignment explanation
Indices: 44353143--44353310 Score: 105
Period size: 37 Copynumber: 4.4 Consensus size: 38
44353133 TTTTGACTGG
44353143 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * ** *
44353180 TACTAACCATTAATACAATT-AT-CGA-TTAATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * ** * * * * * **
44353215 TACATTCACATAATGTTAGATTTGAAAAAATGTT-TTGACTGG
1 TAC--TAACA-ATTAATACATTTGATATAAT-TTGAT-AATTT
44353257 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
44353294 TACTAACAATTAATACA
1 TACTAACAATTAATACA
44353311 ATTATCAATT
Statistics
Matches: 91, Mismatches: 29, Indels: 21
0.65 0.21 0.15
Matches are distributed among these distances:
35 12 0.13
36 1 0.01
37 38 0.42
38 22 0.24
39 5 0.05
40 5 0.05
41 1 0.01
42 7 0.08
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (38 bp):
TACTAACAATTAATACATTTGATATAATTTGATAATTT
Found at i:44353249 original size:114 final size:114
Alignment explanation
Indices: 44353049--44353327 Score: 522
Period size: 114 Copynumber: 2.4 Consensus size: 114
44353039 CTTAACTTAA
44353049 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
44353114 TGCTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGCTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
*
44353163 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCGATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
* *
44353228 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGCTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
*
44353277 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATT
44353328 GAAAAAAATA
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 160 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (114 bp):
ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
TGCTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
Found at i:44356683 original size:125 final size:126
Alignment explanation
Indices: 44356246--44356689 Score: 615
Period size: 126 Copynumber: 3.5 Consensus size: 126
44356236 CCCAAACATG
* * * *
44356246 CTACTGTAGCAAAAGCGTATCCACGAGGGCGCGATTTCACAATTTCTTTTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
44356311 TTGAAGCATTTTTTAAACTATTTTCTTAAAAACGTCAACTCGAAATTATTTCTTTCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * *
44356372 CTACTATAGTAAAAGCGCGTCCACGAGAGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
44356437 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* *
44356498 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
* * **
44356562 CTTGAAGCATTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTT-TTCCATAAC
65 CTTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * * *
44356623 CTACTGTAGCAAAAGCACATACACGTGGGCGCGACTTCAGAAATCCTTCTGATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
44356687 CTT
65 CTT
44356690 TGATTTTATC
Statistics
Matches: 286, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
125 65 0.23
126 219 0.77
127 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:44365401 original size:136 final size:136
Alignment explanation
Indices: 44365157--44365405 Score: 498
Period size: 136 Copynumber: 1.8 Consensus size: 136
44365147 ATTGTCCACA
44365157 ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
1 ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
44365222 GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACATTTCTATCTAGCAGCTTG
66 GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACATTTCTATCTAGCAGCTTG
44365287 ACTGTG
131 ACTGTG
44365293 ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
1 ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
44365358 GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACAT
66 GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACAT
44365406 ATATCTATTC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 113 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (136 bp):
ATTATCTACTGGTGTGATTTGGTTGGACAAGTTCTGGGGAAGTCTATTTGGTATTTAGCAGAATT
GGGTAGGAAGTTTTTGAAAAATCTGTAATTATAGTGGCTTGACCACATTTCTATCTAGCAGCTTG
ACTGTG
Found at i:44370031 original size:22 final size:22
Alignment explanation
Indices: 44370006--44370064 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
44369996 CGCATCAATA
*
44370006 TATGAGAGCCCTTTATGGGACG
1 TATGAGAGCCCTTTATGAGACG
44370028 TATGAGAG-CCTTATATGAGACG
1 TATGAGAGCCCTT-TATGAGACG
*
44370050 TATGAAAGCCCTTTA
1 TATGAGAGCCCTTTA
44370065 AGAGTGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 4 0.12
22 25 0.76
23 4 0.12
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (22 bp):
TATGAGAGCCCTTTATGAGACG
Found at i:44376748 original size:18 final size:19
Alignment explanation
Indices: 44376725--44376764 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
44376715 ATGAATCAAT
*
44376725 TTTTTTAGTTTTTTTA-TG
1 TTTTTTAGTTTCTTTACTG
44376743 TTTTTTAGTTTCTTTACTG
1 TTTTTTAGTTTCTTTACTG
44376762 TTT
1 TTT
44376765 GATTCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.75
Consensus pattern (19 bp):
TTTTTTAGTTTCTTTACTG
Found at i:44377067 original size:135 final size:131
Alignment explanation
Indices: 44376807--44377067 Score: 335
Period size: 135 Copynumber: 2.0 Consensus size: 131
44376797 TTAAACTACG
* *
44376807 GTCTTCGCTTTTGTGCTCTTTCAGTTCAATTAAAATGGGTTTGTTTGTTTTTACTTTTTTTTGTA
1 GTCTTCGCTTTTGTGCTCTTTCAGTTAAATTAAAATGGGTTTGTCTGTTTTTACTTTTTTTTGTA
* * * ** * * *
44376872 CTATTTGATTCTTTATTGATTGCCCCTTTTGTTGATTTTGTTGTTCTTGGCTCTTTGCAAATTAC
66 CTATTTGATTCTTTATTGATTGCCACTTTTATTAATTTTACTGTTCTTAGCTATTGGCAAATTAC
44376937 A
131 A
* * *
44376938 GTCTTTGCTTTTGTGCTCTTTCAGTTAAAATTTAATTGGGTTTGTCTGTTTTTACTTTTTTTCTT
1 GTCTTCGCTTTTGTGCTCTTTCAGTT-AAATTAAAATGGGTTTGTCTGTTTTTAC---TTTT-TT
* *
44377003 TTGTACTGTTTGATTC-TTATTGATTGCTACTTTTATTAATTTTACTGTTCTTAGCTATTGGCAA
61 TTGTACTATTTGATTCTTTATTGATTGCCACTTTTATTAATTTTACTGTTCTTAGCTATTGGCAA
44377067 A
126 A
44377068 CTGCGCAACA
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
131 25 0.23
132 24 0.22
135 44 0.40
136 17 0.15
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.56
Consensus pattern (131 bp):
GTCTTCGCTTTTGTGCTCTTTCAGTTAAATTAAAATGGGTTTGTCTGTTTTTACTTTTTTTTGTA
CTATTTGATTCTTTATTGATTGCCACTTTTATTAATTTTACTGTTCTTAGCTATTGGCAAATTAC
A
Found at i:44378655 original size:65 final size:65
Alignment explanation
Indices: 44378550--44378680 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
44378540 GATGGAGTAG
* *
44378550 AGGAAAGCATTCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTGTTGTA
1 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTCTTGTA
*
44378615 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAATAAGGAAAGGTATTCTTCATCTTTCTTGTA
1 AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTCTTGTA
44378680 A
1 A
44378681 TTATTCATCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (65 bp):
AGGAAAGCATCCACTATTGTAGTTTTCCTCAATAAGAAGGAAAGGTATTCTTCATCTTTCTTGTA
Found at i:44381707 original size:2 final size:2
Alignment explanation
Indices: 44381700--44381745 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
44381690 TTAAGAAAAT
*
44381700 CA CA CA CA CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
44381742 CA CA
1 CA CA
44381746 TATATATCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:44382568 original size:5 final size:5
Alignment explanation
Indices: 44382558--44382596 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
44382548 AAACATGCCA
44382558 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
44382597 AAAAGGCTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:44382700 original size:20 final size:20
Alignment explanation
Indices: 44382675--44382714 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44382665 AAGATAATCT
*
44382675 AGCCTTTATTGGAATTTTAG
1 AGCCTTTAGTGGAATTTTAG
44382695 AGCCTTTAGTGGAATTTTAG
1 AGCCTTTAGTGGAATTTTAG
44382715 GGGCAGTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (20 bp):
AGCCTTTAGTGGAATTTTAG
Found at i:44382871 original size:30 final size:30
Alignment explanation
Indices: 44382835--44382899 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
44382825 CAAGAACTCT
*
44382835 TCTTTATCCCATACAATTAGTACTCTTACA
1 TCTTTATCCCATACAATTAGAACTCTTACA
*
44382865 TCTTTATCCCATACAATTAGAACTCTTGCA
1 TCTTTATCCCATACAATTAGAACTCTTACA
44382895 TCTTT
1 TCTTT
44382900 CCTTTTCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.42
Consensus pattern (30 bp):
TCTTTATCCCATACAATTAGAACTCTTACA
Found at i:44385297 original size:13 final size:15
Alignment explanation
Indices: 44385277--44385309 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
44385267 AAATCCTCCC
*
44385277 ATTTTTTAGTTTT-T
1 ATTTTTAAGTTTTAT
44385291 ATTTTTAAGTTTTAT
1 ATTTTTAAGTTTTAT
44385306 ATTT
1 ATTT
44385310 CTTCCTGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (15 bp):
ATTTTTAAGTTTTAT
Found at i:44391905 original size:26 final size:26
Alignment explanation
Indices: 44391876--44391926 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
44391866 ACAAAGAGAA
*
44391876 GGGATTGCATGAAACTGTGATTCCAG
1 GGGATTGCATGAAACTCTGATTCCAG
*
44391902 GGGATTGTATGAAACTCTGATTCCA
1 GGGATTGCATGAAACTCTGATTCCA
44391927 TTTCATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
GGGATTGCATGAAACTCTGATTCCAG
Found at i:44392782 original size:60 final size:61
Alignment explanation
Indices: 44392621--44392794 Score: 201
Period size: 60 Copynumber: 2.9 Consensus size: 61
44392611 TTTTTTTAAC
* * * * * *
44392621 TTTTAGAAATAGAATTAAATTGATGAATTTTATAAATGTTTAGGGCTAAATTTATTGAACT
1 TTTTAGAATTAGAATTAAATTGATAAAATTTATAAATATTGAGGGCTAAATTTATCGAACT
* *
44392682 TTTTAGAATTAGAATTAAA-TGAAAAAATTTGA-AAATATTGAGGGTTAAATTTATCGAA-T
1 TTTTAGAATTAGAATTAAATTGATAAAATTT-ATAAATATTGAGGGCTAAATTTATCGAACT
* * * *
44392741 TTTTAGATTTAGAATTAAATTGATAAAATGTATAAACATTGAAGAGCTAAATTT
1 TTTTAGAATTAGAATTAAATTGATAAAATTTATAAATATTG-AGGGCTAAATTT
44392795 GTAATAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
59 20 0.21
60 46 0.48
61 29 0.31
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (61 bp):
TTTTAGAATTAGAATTAAATTGATAAAATTTATAAATATTGAGGGCTAAATTTATCGAACT
Found at i:44393581 original size:22 final size:22
Alignment explanation
Indices: 44393556--44393602 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
44393546 AATGGTGAGA
44393556 TTAGCGATAGAAAATGGTTGGT
1 TTAGCGATAGAAAATGGTTGGT
44393578 TTAGCGATAGAAAATGGTTGGT
1 TTAGCGATAGAAAATGGTTGGT
44393600 TTA
1 TTA
44393603 TTCCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (22 bp):
TTAGCGATAGAAAATGGTTGGT
Found at i:44395083 original size:39 final size:39
Alignment explanation
Indices: 44395029--44395107 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
44395019 AGCTACAAAA
44395029 TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
1 TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
44395068 TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
1 TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
44395107 T
1 T
44395108 CAAATAACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (39 bp):
TTCCAAATTAAGATCCGCTTGATGTTTTCGAAACTAGAC
Done.