Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 94 of 161
Found at i:29799760 original size:17 final size:17
Alignment explanation
Indices: 29799740--29799774 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29799730 ACAAATTCAA
29799740 AAATGCAAAAATAAAAT
1 AAATGCAAAAATAAAAT
* *
29799757 AAATGGATAAATAAAAT
1 AAATGCAAAAATAAAAT
29799774 A
1 A
29799775 TTTTTTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (17 bp):
AAATGCAAAAATAAAAT
Found at i:29800620 original size:13 final size:13
Alignment explanation
Indices: 29800602--29800644 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
29800592 TAGGATTTTC
29800602 CTAAATATTATCA
1 CTAAATATTATCA
*
29800615 CTAAATA--AT-T
1 CTAAATATTATCA
29800625 CTAAATATTATCA
1 CTAAATATTATCA
29800638 CTAAATA
1 CTAAATA
29800645 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:29800632 original size:23 final size:23
Alignment explanation
Indices: 29800602--29800653 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
29800592 TAGGATTTTC
29800602 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
29800625 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
29800648 CAAAAT
1 CTAAAT
29800654 TTAGAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:29802457 original size:23 final size:25
Alignment explanation
Indices: 29802404--29802458 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
29802394 ATCTTTAGAA
*
29802404 AAAATAATAACACGTAGAAATAATT
1 AAAATAATAACACATAGAAATAATT
* *
29802429 AGAAATAA-AACACATGGAAA-ATTT
1 A-AAATAATAACACATAGAAATAATT
29802453 AAAATA
1 AAAATA
29802459 CTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 11 0.42
26 6 0.23
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (25 bp):
AAAATAATAACACATAGAAATAATT
Found at i:29802707 original size:14 final size:15
Alignment explanation
Indices: 29802678--29802715 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
29802668 GTTTAAGGAG
*
29802678 TATGGATTTAGTGAT
1 TATGGATTTAGGGAT
29802693 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
29802707 TATGG-TTTA
1 TATGGATTTA
29802716 TGGGTTGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:29802717 original size:21 final size:21
Alignment explanation
Indices: 29802692--29802746 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
29802682 GATTTAGTGA
*
29802692 TTATGGATTAGGGA-TTATGGT
1 TTATGG-TTAGGGATTTAAGGT
29802713 TTATGGGTT-GGGATTTAAGGT
1 TTAT-GGTTAGGGATTTAAGGT
29802734 TTAGTGGTTAGGG
1 TTA-TGGTTAGGG
29802747 GTTAGGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 4 0.14
21 19 0.66
22 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
TTATGGTTAGGGATTTAAGGT
Found at i:29802757 original size:22 final size:21
Alignment explanation
Indices: 29802731--29802782 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
29802721 TGGGATTTAA
* *
29802731 GGTTTAGTGGTTAGGGGTTAGG
1 GGTTTAG-GGTTAAGAGTTAGG
29802753 GGTTTAAGGGTTAAGAGTTAGG
1 GGTTT-AGGGTTAAGAGTTAGG
*
29802775 GATTTAGG
1 GGTTTAGG
29802783 ATTTAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 21 0.81
23 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (21 bp):
GGTTTAGGGTTAAGAGTTAGG
Found at i:29802863 original size:25 final size:25
Alignment explanation
Indices: 29802831--29802878 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
29802821 AGATTAATTA
*
29802831 TTTTTTAATTTATATTTTAAATATG
1 TTTTTTAATTTATATATTAAATATG
29802856 TTTTTTAATTTATATATTAAATA
1 TTTTTTAATTTATATATTAAATA
29802879 ATTTCATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTTAATTTATATATTAAATATG
Found at i:29803060 original size:14 final size:15
Alignment explanation
Indices: 29803035--29803071 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
29803025 GGGATTATAT
29803035 ATGGATTTAGGGATC
1 ATGGATTTAGGGATC
*
29803050 ATGGA-TTAGGGATT
1 ATGGATTTAGGGATC
29803064 ATGG-TTTA
1 ATGGATTTA
29803072 AGGGTTAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.27, C:0.03, G:0.32, T:0.38
Consensus pattern (15 bp):
ATGGATTTAGGGATC
Found at i:29803080 original size:21 final size:21
Alignment explanation
Indices: 29803066--29803140 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
29803056 TAGGGATTAT
*
29803066 GGTTTAAGGGTTAGGATTTAA
1 GGTTTAAGGGTTAGGAGTTAA
*
29803087 GGTTT-AGAGGTTAGGAGTTAG
1 GGTTTAAG-GGTTAGGAGTTAA
* *
29803108 GGGTTAAGGGTTAAGAGTTAGA
1 GGTTTAAGGGTTAGGAGTTA-A
*
29803130 GATTT-AGGGTT
1 GGTTTAAGGGTT
29803141 TCAAGGGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 2 0.05
21 37 0.84
22 5 0.11
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.35
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGAGTTAA
Found at i:29803120 original size:14 final size:14
Alignment explanation
Indices: 29803069--29803165 Score: 56
Period size: 14 Copynumber: 6.9 Consensus size: 14
29803059 GGATTATGGT
**
29803069 TTAAGGGTTAGGAT
1 TTAAGGGTTAGGGG
* *
29803083 TTAAGGTTTAGAGG
1 TTAAGGGTTAGGGG
29803097 TT-AGGAGTTAGGGG
1 TTAAGG-GTTAGGGG
* *
29803111 TTAAGGGTTAAGAG
1 TTAAGGGTTAGGGG
** *
29803125 TTAGAGATTTAGGGT
1 TTA-AGGGTTAGGGG
29803140 TTCAAGGGTT--GGG
1 TT-AAGGGTTAGGGG
*
29803153 TTAAGGTTTAGGG
1 TTAAGGGTTAGGG
29803166 TTTAGATTAA
Statistics
Matches: 60, Mismatches: 17, Indels: 12
0.67 0.19 0.13
Matches are distributed among these distances:
12 6 0.10
13 7 0.12
14 31 0.52
15 15 0.25
16 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.39, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:29803274 original size:25 final size:24
Alignment explanation
Indices: 29803238--29803287 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
29803228 ATAATAATAA
*
29803238 ATTTAATGTATTGC-ATACATAAAT
1 ATTTAATGTATT-CAATACAAAAAT
*
29803262 ATTTATATTTATTCAATACAAAAAT
1 ATTTA-ATGTATTCAATACAAAAAT
29803287 A
1 A
29803288 GATTGATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (24 bp):
ATTTAATGTATTCAATACAAAAAT
Found at i:29804055 original size:19 final size:19
Alignment explanation
Indices: 29804033--29804080 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
29804023 TCTCATTCTC
*
29804033 CCCCAAACCCCTAAAATTT
1 CCCCAAACCCCTAAAAGTT
* * **
29804052 CCCCTAATCCCTAATCGTT
1 CCCCAAACCCCTAAAAGTT
29804071 CCCCAAACCC
1 CCCCAAACCC
29804081 AACCACCTGC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.48, G:0.02, T:0.21
Consensus pattern (19 bp):
CCCCAAACCCCTAAAAGTT
Found at i:29807886 original size:43 final size:43
Alignment explanation
Indices: 29807838--29808019 Score: 226
Period size: 43 Copynumber: 4.3 Consensus size: 43
29807828 ATGGCACTTT
*
29807838 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
* * * *
29807881 TAGCGGCGTTTGGGCA-AAAAGCGCCGCTAAATGT-TTGGAGCTA
1 TAGCGGCGTTTGTG-ATAAAAGCGCCGCTAAAGGTCAT-GATCTA
* * *
29807924 TAGCGGCGTTTGTG-TAAAAGCGCCACTAAAGGTCCTGATTTA
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
** *
29807966 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTA
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
29808009 TAGCGGCGTTT
1 TAGCGGCGTTT
29808020 AATTCTAAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
42 35 0.29
43 83 0.70
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
Found at i:29807986 original size:85 final size:86
Alignment explanation
Indices: 29807838--29808019 Score: 253
Period size: 85 Copynumber: 2.1 Consensus size: 86
29807828 ATGGCACTTT
*
29807838 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGGGCAAAAAGC
1 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTTGGGCAAAAAGC
* * *
29807903 GCCGCTAAATGT-TTGGAGCTA
66 GCCGCTAAAGGTCAT-GACCTA
* * * *
29807924 TAGCGGCGTTTGTG-TAAAAGCGCCACTAAAGGTCCTGATTTATAGCGGCGTTTGTGG-GAAAAG
1 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTTG-GGCAAAAAG
29807987 CGCCGCTAAAGGTCATGACCTA
65 CGCCGCTAAAGGTCATGACCTA
29808009 TAGCGGCGTTT
1 TAGCGGCGTTT
29808020 AATTCTAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
85 69 0.80
86 17 0.20
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (86 bp):
TAGCGGCGTTTGTGATAAAAGCGCCACTAAAAGTCATGATCTATAGCGGCGTTTGGGCAAAAAGC
GCCGCTAAAGGTCATGACCTA
Found at i:29809260 original size:144 final size:144
Alignment explanation
Indices: 29809000--29809401 Score: 700
Period size: 144 Copynumber: 2.8 Consensus size: 144
29808990 GAGAGACTTG
* *
29809000 TATAGGTTTATGTACAAAAAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
1 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
*
29809065 AGTGCATTTGATTGTAAAACCTTTTTGTTGTGGTTTTACAAGCTAAGTTTTCAGGGGAGAAGAGT
66 AGTGCATTTGATTGTAAAACCTTTTTGTTATGGTTTTACAAGCTAAGTTTTCAGGGGAGAAGAGT
29809130 TTTTCGATACTTAT
131 TTTTCGATACTTAT
29809144 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
1 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
* *
29809209 AGTGCATATGATTGTAAAACCTTTTTGTTATGGTTTTACAAGTTAAGTTTTCAGGGGAGAAGAGT
66 AGTGCATTTGATTGTAAAACCTTTTTGTTATGGTTTTACAAGCTAAGTTTTCAGGGGAGAAGAGT
29809274 TTTTCGATACTTAT
131 TTTTCGATACTTAT
*
29809288 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGAGGAACAATATTTGTGTG
1 TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
* *
29809353 AGTGCATTTGATTGTAAAACCTCTGTATGGTA--GTTTTACAAGCTAAGTT
66 AGTGCATTTGATTGTAAAACCT-T-TTTGTTATGGTTTTACAAGCTAAGTT
29809402 CTTAAGGGAG
Statistics
Matches: 246, Mismatches: 10, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
144 240 0.98
145 1 0.00
146 5 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (144 bp):
TATAGGTTTATGTACCAAGAATTGAGAGCACTTAATCTGTTCAAGTGATGAACAATATTTGTGTG
AGTGCATTTGATTGTAAAACCTTTTTGTTATGGTTTTACAAGCTAAGTTTTCAGGGGAGAAGAGT
TTTTCGATACTTAT
Found at i:29810990 original size:51 final size:50
Alignment explanation
Indices: 29810904--29811245 Score: 361
Period size: 51 Copynumber: 6.7 Consensus size: 50
29810894 TATCGATGAA
*
29810904 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGT
* * * * * * * *
29810955 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATT-GT
* * *
29811006 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGT
* * * *
29811057 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATT-GT
* * *
29811108 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTG-T
* *
29811159 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTG-T
*
29811209 CACGTGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
29811246 TGAATGATAA
Statistics
Matches: 245, Mismatches: 37, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
50 49 0.20
51 194 0.79
52 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGT
Found at i:29811080 original size:102 final size:101
Alignment explanation
Indices: 29810904--29811242 Score: 450
Period size: 102 Copynumber: 3.3 Consensus size: 101
29810894 TATCGATGAA
* * * *
29810904 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
29810969 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
29811006 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
29811071 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * *
29811108 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGATCACGTGTGTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA--TGGTCACATGTGTAGT
* * * * *
29811171 ACTATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
*
29811209 CACGTGTGTAGTACTATGTGGAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
29811243 TATTGAATGA
Statistics
Matches: 213, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.00
101 41 0.19
102 170 0.80
103 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:29811163 original size:153 final size:152
Alignment explanation
Indices: 29810899--29811245 Score: 430
Period size: 153 Copynumber: 2.3 Consensus size: 152
29810889 TAAGGTATCG
* * *
29810899 ATGAACACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
* * * * * *
29810964 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAG
66 AGTACTAAGTGAAGGCTACAACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAG
* **
29811029 GCTACTACGTGAATCGATAAATG
131 GCTACTACGTGAACCG-TAAAAC
* * * * *
29811052 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGTCACGTGT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATT-GTCACATGT
* * *
29811115 GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTG
64 CTAGTACTAAGTGAAGGCTACAACGTGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATGTG
29811179 AAGGCTACTACGTGAACCGTAAAAC
128 AAGGCTACTACGTGAACCGTAAAAC
* * *
29811204 TTGATCACGTGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTAT
29811246 TGAATGATAA
Statistics
Matches: 165, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
152 45 0.27
153 116 0.70
154 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (152 bp):
ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCT
AGTACTAAGTGAAGGCTACAACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAG
GCTACTACGTGAACCGTAAAAC
Found at i:29815777 original size:50 final size:51
Alignment explanation
Indices: 29815660--29815795 Score: 247
Period size: 50 Copynumber: 2.7 Consensus size: 51
29815650 NNNNNNNNNN
29815660 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGA
29815711 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGT-AAAACTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGA
* *
29815761 TCACATGTGTAGTACTATGTGGAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
29815796 TATTGAATGA
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
50 42 0.51
51 41 0.49
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGA
Found at i:29818621 original size:27 final size:27
Alignment explanation
Indices: 29818587--29818674 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
29818577 CGACATCATA
* * *
29818587 GATAGTCTGACGAGACATTAAATATGG
1 GATAGTCTGACGGGACATTAAACACGG
*
29818614 GATAGTCTGATGGGACATTAAACACGG
1 GATAGTCTGACGGGACATTAAACACGG
* *
29818641 GATAGTCTAATGGGACATTAAACACGG
1 GATAGTCTGACGGGACATTAAACACGG
29818668 GATAGTC
1 GATAGTC
29818675 CATTACGACA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (27 bp):
GATAGTCTGACGGGACATTAAACACGG
Found at i:29818684 original size:27 final size:27
Alignment explanation
Indices: 29818600--29818689 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
29818590 AGTCTGACGA
* * ** **
29818600 GACATTAAATATGGGATAGTCTGATGG
1 GACATTAAACACGGGATAGTCCAATAC
* **
29818627 GACATTAAACACGGGATAGTCTAATGG
1 GACATTAAACACGGGATAGTCCAATAC
*
29818654 GACATTAAACACGGGATAGTCCATTAC
1 GACATTAAACACGGGATAGTCCAATAC
29818681 GACATTAAA
1 GACATTAAA
29818690 TATGGGGATC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (27 bp):
GACATTAAACACGGGATAGTCCAATAC
Found at i:29822545 original size:11 final size:11
Alignment explanation
Indices: 29822526--29822563 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
29822516 ATTTTAGTAA
29822526 AATATATGTTAT
1 AATA-ATGTTAT
29822538 AATAATGTTAT
1 AATAATGTTAT
*
29822549 AATAATGTTAA
1 AATAATGTTAT
29822560 AATA
1 AATA
29822564 TATTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (11 bp):
AATAATGTTAT
Found at i:29825931 original size:41 final size:41
Alignment explanation
Indices: 29825885--29826041 Score: 217
Period size: 41 Copynumber: 3.8 Consensus size: 41
29825875 GCGTTTCCAA
* * ** * **
29825885 GAAAGCGCTGCTAATGTTTAGGGTTTTAGCGACGTTTTTTA
1 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTTGG
* *
29825926 AAAAGCGCCGCTACTGCTT-GAGCCTTTAGCGGCGTTTTTGG
1 GAAAGCGCCGCTAATGCTTAG-GCCTTTAGCGGCGTTTTTGG
29825967 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTTGG
1 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTTGG
29826008 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCG
1 GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCG
29826042 CTTCTATAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 101 0.98
42 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
GAAAGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTTGG
Found at i:29828671 original size:17 final size:18
Alignment explanation
Indices: 29828649--29828682 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29828639 ATGAGTAAAG
29828649 AAAAAC-TTTTTTATTTA
1 AAAAACTTTTTTTATTTA
29828666 AAAAACTTTTTTTATTT
1 AAAAACTTTTTTTATTT
29828683 TATAGGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
AAAAACTTTTTTTATTTA
Found at i:29830126 original size:43 final size:42
Alignment explanation
Indices: 29830054--29830362 Score: 325
Period size: 43 Copynumber: 7.2 Consensus size: 42
29830044 AAGTCATGTT
* * * *
29830054 TTTAGTGGCATTTGTGAAAAAGCGCCGCTAAAGGTCACGAGT-
1 TTTAGCGGCGTTTGTGGAGAAGCGCCGCTAAAGGTCACGA-TC
* * * * *
29830096 TTTAGTGGTGTTTGTGGTAGAAGCGTCGCTAAAGGCCAAGATC
1 TTTAGCGGCGTTTGTGG-AGAAGCGCCGCTAAAGGTCACGATC
* * *
29830139 TTTAGCGGCGTTTGTTGGAGAAGCACCGCTAAAGGTCATGAGC
1 TTTAGCGGCGTTTG-TGGAGAAGCGCCGCTAAAGGTCACGATC
** * * *
29830182 TTTAGCAACGTTTGTGGGGGAGGCGCCACTAAAGGTCACGATC
1 TTTAGCGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCACGATC
* *
29830225 TTTAGCGGCAATTGTGTGG-GAAGTGCCGCTAAAGGTCACGATC
1 TTTAGCGGC-GTT-TGTGGAGAAGCGCCGCTAAAGGTCACGATC
* * *
29830268 TTTAGCGGCGTTTGTGGGAGAAGTGCCGCTTAAGGTCGCGATC
1 TTTAGCGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCACGATC
*
29830311 TTTAGCGGCGTTTGTGGGTGAAGCGCCGCTAAAGGTCACGATC
1 TTTAGCGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCACGATC
29830354 TTTAGCGGC
1 TTTAGCGGC
29830363 ATTTTTCCAA
Statistics
Matches: 224, Mismatches: 35, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.01
42 20 0.09
43 191 0.85
44 7 0.03
45 3 0.01
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAGAAGCGCCGCTAAAGGTCACGATC
Found at i:29830314 original size:129 final size:129
Alignment explanation
Indices: 29830122--29830363 Score: 358
Period size: 129 Copynumber: 1.9 Consensus size: 129
29830112 GTAGAAGCGT
* *
29830122 CGCTAAAGGCCAAGATCTTTAGCGGCGTTTGTTGGAGAAGCACCGCTAAAGGTCATGAGCTTTAG
1 CGCTAAAGGCCAAGATCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCACGAGCTTTAG
*
29830187 CAACGTTTGTGGGGGAGGCGCCACTAAAGGTCACGATCTTTAGCGGCAATTGTGTGGGAAGTGC
66 CAACGTTTGTGGGGGAAGCGCCACTAAAGGTCACGATCTTTAGCGGCAATTGTGTGGGAAGTGC
* * ** * * *
29830251 CGCTAAAGGTCACGATCTTTAGCGGCGTTTGTGGGAGAAGTGCCGCTTAAGGTCGCGATCTTTAG
1 CGCTAAAGGCCAAGATCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCACGAGCTTTAG
** * *
29830316 CGGCGTTTGTGGGTGAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCA
66 CAACGTTTGTGGGGGAAGCGCCACTAAAGGTCACGATCTTTAGCGGCA
29830364 TTTTTCCAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
129 99 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (129 bp):
CGCTAAAGGCCAAGATCTTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCACGAGCTTTAG
CAACGTTTGTGGGGGAAGCGCCACTAAAGGTCACGATCTTTAGCGGCAATTGTGTGGGAAGTGC
Found at i:29832101 original size:17 final size:16
Alignment explanation
Indices: 29832081--29832112 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
29832071 TTTTTTAATT
29832081 AAAAATATTTTAAAATA
1 AAAAATA-TTTAAAATA
29832098 AAAAATATTTAAAAT
1 AAAAATATTTAAAAT
29832113 TATATAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATTTAAAATA
Found at i:29835032 original size:25 final size:25
Alignment explanation
Indices: 29834998--29835076 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
29834988 TAGGATTACT
*
29834998 GATTTATAGCTCGTAAGAGCATACC
1 GATTTATAGCTCATAAGAGCATACC
*
29835023 GATTTATAGCTCATGAGAGCATACC
1 GATTTATAGCTCATAAGAGCATACC
*
29835048 GATCTT-TAGCT-AAAATGAGCATACC
1 GAT-TTATAGCTCATAA-GAGCATACC
29835073 GATT
1 GATT
29835077 CACAGCTTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 3 0.06
25 43 0.90
26 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (25 bp):
GATTTATAGCTCATAAGAGCATACC
Found at i:29836226 original size:27 final size:27
Alignment explanation
Indices: 29836196--29836445 Score: 315
Period size: 27 Copynumber: 9.3 Consensus size: 27
29836186 TATAAAGATC
* * *
29836196 ATTTTACCCTTAGGGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
29836223 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
29836250 ATTTTACCCTGT-GAGGCTACTTT-GGTA
1 ATTTTACCCT-TCGAGGGTA-TTTCGGTA
*
29836277 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
29836304 ATTTAACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
29836331 ATTTTACCCTTCGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
29836358 AATTCACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
29836385 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
29836412 ATTTTACCCTTTGAGGTTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
29836439 ATTTTAC
1 ATTTTAC
29836446 TCATGAATCG
Statistics
Matches: 193, Mismatches: 26, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.02
27 185 0.96
28 4 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:29843286 original size:27 final size:27
Alignment explanation
Indices: 29843143--29843284 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
29843133 TATAAAGATC
* *
29843143 ATTTTACCCTTCGAGGGTATTT-TAGTA
1 ATTTTACCCTTTGAGGGTATTTCGA-TA
*
29843170 ATTTTACCCTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTCGATA
*
29843197 ATTTTACCCTTTGAGGGTATTTTGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* * *
29843224 TTTTTACCCTTCGAGGGTATTTGGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
* *
29843251 ATTTTACTCTTTGAGGGTATGTCGATA
1 ATTTTACCCTTTGAGGGTATTTCGATA
29843278 ATTTTAC
1 ATTTTAC
29843285 TCATGAATAG
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTTTGAGGGTATTTCGATA
Found at i:29847155 original size:18 final size:18
Alignment explanation
Indices: 29847132--29847167 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29847122 TAAGTTCGTA
29847132 AATATTTTTATTTAATAT
1 AATATTTTTATTTAATAT
29847150 AATATTTTTATTTAATAT
1 AATATTTTTATTTAATAT
29847168 TTACGACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATATTTTTATTTAATAT
Found at i:29848484 original size:25 final size:25
Alignment explanation
Indices: 29848456--29848517 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
29848446 GATATTTGGT
29848456 TCACAAGAGCTTCCCGATATACGGC
1 TCACAAGAGCTTCCCGATATACGGC
* * * * * *
29848481 TCACATGGGCTTCCTGTTCTATGGC
1 TCACAAGAGCTTCCCGATATACGGC
*
29848506 TCAAAAGAGCTT
1 TCACAAGAGCTT
29848518 TCTGTTTACA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (25 bp):
TCACAAGAGCTTCCCGATATACGGC
Found at i:29854703 original size:25 final size:25
Alignment explanation
Indices: 29854675--29854731 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
29854665 TCATTAGGGT
29854675 TACCGATTAATAGCTCATGAGAGCA
1 TACCGATTAATAGCTCATGAGAGCA
* * *
29854700 TACCAATTTATAGCTCGTGAGAGCA
1 TACCGATTAATAGCTCATGAGAGCA
29854725 TACCGAT
1 TACCGAT
29854732 CTTCTAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (25 bp):
TACCGATTAATAGCTCATGAGAGCA
Found at i:29859956 original size:79 final size:82
Alignment explanation
Indices: 29859845--29860029 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
29859835 GCTACTCGTT
* *
29859845 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
29859908 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
29859925 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
29859988 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
29860005 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29860030 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:29860029 original size:40 final size:40
Alignment explanation
Indices: 29859826--29860029 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
29859816 CGGAATTTAA
** *
29859826 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29859866 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
29859906 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
29859945 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
29859985 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
29860025 CCGGA
1 CCGGA
29860030 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29873465 original size:101 final size:101
Alignment explanation
Indices: 29873328--29873512 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 101
29873318 AAAGTGCTGG
* * **
29873328 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGAAT-G-ATGGTTTGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGTAGGCTACTAAGTGTATCAG-ATGGAATGG-TCACATGTGTAGT
*
29873391 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
64 ACTATATGCAGGCTACTATGCGTACCGAATAGCTTCGA
*
29873429 TCACGTGTGTAGTACTATGTGCT-GGCTACTAAGTGTATCAGATGGAAATGGTCACATGTGTAGT
1 TCACATGTGTAGTACTATGTG-TAGGCTACTAAGTGTATCAGATGG-AATGGTCACATGTGTAGT
29873493 ACTATATGCAGGCTACTATG
64 ACTATATGCAGGCTACTATG
29873513 TGAACCGGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
100 2 0.03
101 37 0.50
102 31 0.42
103 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGTAGGCTACTAAGTGTATCAGATGGAATGGTCACATGTGTAGTAC
TATATGCAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:29873489 original size:51 final size:49
Alignment explanation
Indices: 29873325--29873510 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 49
29873315 GTGAAAGTGC
* * *
29873325 TGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGAATGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTATCAGAATGA
** * * * *
29873374 TGGTTTGCATGTGTAGTACTATGTGCAGGCTACTATGCGTA-CCGAATAGCT
1 TGG-TCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTATCAGAAT-G-A
* * *
29873425 TCGATCACGTGTGTAGTACTATGTGCTGGCTACTAAGTGTATCAG-ATGGAAA
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTATCAGAAT-G--A
*
29873477 TGGTCACATGTGTAGTACTATATGCAGGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
29873511 TGTGAACCGG
Statistics
Matches: 109, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 8 0.07
50 33 0.30
51 64 0.59
52 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGTATCAGAATGA
Found at i:29879574 original size:50 final size:50
Alignment explanation
Indices: 29879462--29879637 Score: 146
Period size: 50 Copynumber: 3.5 Consensus size: 50
29879452 TGAGAGGTCT
* * * **
29879462 CATGTAAGACCATGTCTGGGACAT-G-ACGGTTGAACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGG--GCACCGATATGAGAACTCC
*** *
29879512 CCCATAAAACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
* * * **
29879562 CATGTAAGACCATATCTGGGATATGGCATTGGCA---ATACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAG-AAC-TCC
*
29879611 CATGTAAGACCATGTCTGAGACATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
29879638 TTTGGCATGT
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
47 5 0.05
48 3 0.03
49 27 0.27
50 62 0.61
51 1 0.01
52 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
Found at i:29879637 original size:49 final size:48
Alignment explanation
Indices: 29879520--29879644 Score: 144
Period size: 49 Copynumber: 2.5 Consensus size: 48
29879510 CCCCCATAAA
* **
29879520 ACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAG
1 ACCATGTCTGGGACATGGCATTGGCA-C-ATACAAGAACTCCCATGTAAG
* *
29879570 ACCATATCTGGGATATGGCATTGGCA-ATACAAGAAACATCCCATGTAAG
1 ACCATGTCTGGGACATGGCATTGGCACATACAAG-AAC-TCCCATGTAAG
* *
29879619 ACCATGTCTGAGACATGGCTTTGGCA
1 ACCATGTCTGGGACATGGCATTGGCA
29879645 TGTTATTATC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 5 0.08
48 3 0.05
49 33 0.52
50 23 0.36
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (48 bp):
ACCATGTCTGGGACATGGCATTGGCACATACAAGAACTCCCATGTAAG
Found at i:29897576 original size:44 final size:44
Alignment explanation
Indices: 29897518--29897891 Score: 225
Period size: 44 Copynumber: 8.5 Consensus size: 44
29897508 GAAGATGGCG
* *
29897518 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * * * **
29897561 TAATCTTAACTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
** * * * ** *
29897606 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCA-CA
* * * * **
29897651 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * *
29897695 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAA-CCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * * * * ** *
29897738 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAA-TAATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT-AAAGCCACA
* *** * * ***
29897782 AACCTTATC-CTCCTGAAGTTGCAGTGGGGTAGGTTGAAGATGCA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * * * *
29897826 AGTCTTATCTCCCTGACGTTGCAGTGGAGCAGAGTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
* * * *
29897870 AATATCACCCCCCTGAAGTTGC
1 AATCTTATCTCCCTGAAGTTGC
29897892 GGCAGAGTAG
Statistics
Matches: 260, Mismatches: 64, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
43 35 0.13
44 185 0.71
45 40 0.15
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCACA
Found at i:29897584 original size:89 final size:87
Alignment explanation
Indices: 29897475--29897858 Score: 335
Period size: 89 Copynumber: 4.3 Consensus size: 87
29897465 GAAAGCAAGT
* * * * * *
29897475 CTTATCCCCCTTGAAGTTGCAGTGGGGCAGAATGAAGATGGCGAATCTTATTTCCCTGAAGTTGT
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGAT-AC-AATCTTATCTCCCTGAAGTTGC
* *
29897540 AGTGGAACAGATTAAAGCCA-ATAAT
63 AGTGGAGCAGATTAAAGCCACA-AAC
* * *
29897565 CTTAACTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC-AATCTTATCTCCCTGAAGTTGCAG
* * * * ** *
29897630 TGGAGTAGACTGAGGATAGAAAAC
65 TGGAGCAGATTAAAGCCA-CAAAC
*
29897654 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAA-TCTTATCTCCCTGAAGTTGCAG
*
29897719 TGGAGCATATTAAA-CCACAAAC
65 TGGAGCAGATTAAAGCCACAAAC
* * * * *
29897741 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAATAAACCTTATC-CTCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A-CAATCTTATCTC-CCTGAAGTTGC
* * * * *** **
29897804 AGTGGGGTAGGTTGAAGATGCAAGT
63 AGTGGAGCAGATTAAAGCCACAAAC
*
29897829 CTTATCTCCCTGACGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
29897859 GTAAAACCAC
Statistics
Matches: 239, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
86 3 0.01
87 66 0.28
88 68 0.28
89 93 0.39
90 9 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (87 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAATCTTATCTCCCTGAAGTTGCAGT
GGAGCAGATTAAAGCCACAAAC
Found at i:29897724 original size:133 final size:131
Alignment explanation
Indices: 29897474--29897891 Score: 412
Period size: 133 Copynumber: 3.2 Consensus size: 131
29897464 AGAAAGCAAG
* * * ** * *
29897474 TCTTATCCCCCTTGAAGTTGCAGTGGGGCAGAATGAAGATGGCGAATCTTATTTCCCTGAAGTTG
1 TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGAATG-AGATAGAAAACCTTATCTCCCTGAAGTTG
* * * * * * * **
29897539 TAGTGGAACAGATTAAAGCCA-ATAA-TCTTAACTCCCTGAAGTTGCAGTGGAGCGGATTGAAGT
64 CAGTGGAGCAGGTTGAAG--ATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAC
*
29897602 TACAAA
126 CACAAA
* *
29897608 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGGATAGAAAACCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGA-GATAGAAAACCTTATCTCCCTGAAGTTGC
*
29897673 AGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAACCACA
65 AGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCACA
29897738 AA
130 AA
* * * ** *
29897740 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATA-ATAAACCTTATC-CTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAGATAGA-AAACCTTATCTC-CCTGAAGTTG
* * * * *
29897803 CAGTGGGGTAGGTTGAAGATGCAAGTCTTATCTCCCTGACGTTGCAGTGGAGCAGAGTAAAACCA
64 CAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAACCA
29897868 CAAA
128 CAAA
* * * *
29897872 TATCACCCCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGC
29897892 GGCAGAGTAG
Statistics
Matches: 239, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
130 2 0.01
131 75 0.31
132 65 0.27
133 87 0.36
134 10 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (131 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAATGAGATAGAAAACCTTATCTCCCTGAAGTTGCA
GTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCACAA
A
Found at i:29897816 original size:131 final size:132
Alignment explanation
Indices: 29897521--29897871 Score: 397
Period size: 131 Copynumber: 2.7 Consensus size: 132
29897511 GATGGCGAAT
* * * * * * *
29897521 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCA-ATAA-TCTTAACTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG--ATACAAGTCTTATCTCCCTGAAGTTGC
* *** * * * *
29897584 AGTGGAGCGGATTGAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGGATAG
64 AGTGGAGCAGATT-AAACCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGAATAG
29897649 AAAAC
128 AAAAC
29897654 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
* * **
29897719 TGGAGCATATTAAACCACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGA-AATA-ATA
66 TGGAGCAGATTAAACCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGAATAGA-A
29897782 AAC
130 AAC
* * * *
29897785 CTTATC-CTCCTGAAGTTGCAGTGGGGTAGGTTGAAGATGCAAGTCTTATCTCCCTGACGTTGCA
1 CTTATCTC-CCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCA
*
29897849 GTGGAGCAGAGTAAAACCACAAA
65 GTGGAGCAGA-TTAAACCACAAA
29897872 TATCACCCCC
Statistics
Matches: 188, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
130 2 0.01
131 75 0.40
132 50 0.27
133 61 0.32
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (132 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAACCACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGAATAGAAA
AC
Found at i:29902254 original size:28 final size:26
Alignment explanation
Indices: 29902203--29902255 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
29902193 ATGTTCGTTA
*
29902203 TTTATTTTTTATTTTTGCAATTAATG
1 TTTATTTTTTATTTTTGAAATTAATG
*
29902229 TTTATTTTATTATTTTTTTAAATTAAT
1 TTTATTTT-TTA-TTTTTGAAATTAAT
29902256 ATTGCTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 3 0.13
28 12 0.52
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTATTTTTTATTTTTGAAATTAATG
Found at i:29902424 original size:20 final size:20
Alignment explanation
Indices: 29902376--29902424 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
29902366 AGTTGGAATT
*
29902376 ATATAAAAAATATTTTATTA
1 ATATATAAAATATTTTATTA
* *
29902396 ACATTTAAAATA-TTTATTTA
1 ATATATAAAATATTTTA-TTA
29902416 ATATATAAA
1 ATATATAAA
29902425 TTTATATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATAAAATATTTTATTA
Found at i:29905119 original size:21 final size:21
Alignment explanation
Indices: 29905090--29905146 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
29905080 TCGATAATTT
* *
29905090 CAATAAAGTATCGGTACCAAA
1 CAATCAAGTATCGATACCAAA
*
29905111 CAATCAAGTATCAATACCAAA
1 CAATCAAGTATCGATACCAAA
*
29905132 CAATCAAATATCGAT
1 CAATCAAGTATCGAT
29905147 GTTAAACCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (21 bp):
CAATCAAGTATCGATACCAAA
Found at i:29906086 original size:21 final size:21
Alignment explanation
Indices: 29906060--29906119 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
29906050 AAGAATCGAG
29906060 GATTTATTATAAATTTTTAAT
1 GATTTATTATAAATTTTTAAT
* *
29906081 GATTTATTATATATTTTAAAT
1 GATTTATTATAAATTTTTAAT
*
29906102 -ATTT-TTTTACAATTTTTA
1 GATTTATTATA-AATTTTTA
29906120 GTAATTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
21 19 0.58
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (21 bp):
GATTTATTATAAATTTTTAAT
Found at i:29906165 original size:19 final size:19
Alignment explanation
Indices: 29906137--29906176 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29906127 TGAGAACATA
*
29906137 TTTATAATTTTCTAATAAT
1 TTTATAATTTTCAAATAAT
* *
29906156 TTTATGATTTTGAAATAAT
1 TTTATAATTTTCAAATAAT
29906175 TT
1 TT
29906177 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTCAAATAAT
Found at i:29908492 original size:18 final size:20
Alignment explanation
Indices: 29908469--29908511 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
29908459 TATTATTTTA
29908469 AAATTATA-TAA-TTAGAAG
1 AAATTATATTAATTTAGAAG
29908487 AAATTATATTAATTTAGAAG
1 AAATTATATTAATTTAGAAG
29908507 AAATT
1 AAATT
29908512 TATGTGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 3 0.13
20 12 0.52
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (20 bp):
AAATTATATTAATTTAGAAG
Found at i:29909067 original size:16 final size:15
Alignment explanation
Indices: 29909048--29909101 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
29909038 TCGTCAGCCT
29909048 CTCCCTCCGTCGACCG
1 CTCCCTCCGTCGA-CG
*
29909064 CTCCCTCTGTCGACG
1 CTCCCTCCGTCGACG
* *
29909079 TTTCCTTCCGTCGAACG
1 -CTCCCTCCGTCG-ACG
29909096 CTCCCT
1 CTCCCT
29909102 TCATTGCTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 2 0.07
16 25 0.83
17 3 0.10
ACGTcount: A:0.07, C:0.48, G:0.17, T:0.28
Consensus pattern (15 bp):
CTCCCTCCGTCGACG
Found at i:29912046 original size:14 final size:14
Alignment explanation
Indices: 29912027--29912056 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29912017 AAAAATAAAA
29912027 AAAATTTAAATTTT
1 AAAATTTAAATTTT
*
29912041 AAAATTTACATTTT
1 AAAATTTAAATTTT
29912055 AA
1 AA
29912057 CCTCTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATTTAAATTTT
Found at i:29912078 original size:30 final size:30
Alignment explanation
Indices: 29912042--29912192 Score: 141
Period size: 30 Copynumber: 5.1 Consensus size: 30
29912032 TTAAATTTTA
*
29912042 AAATTTACATTTTAACCTCTTAATTTTTCT
1 AAATTTACATTTTGACCTCTTAATTTTTCT
*
29912072 AAATTTATATTTTGACC-CTTTAA-TTTTCT
1 AAATTTACATTTTGACCTC-TTAATTTTTCT
* * *
29912101 TAATATTACATTTTGACCTCTAAACTTTTCT
1 AAAT-TTACATTTTGACCTCTTAATTTTTCT
* *
29912132 AAAATTACATTTTGAAC-CTTAACTTTTT-T
1 AAATTTACATTTTGACCTCTTAA-TTTTTCT
* * * *
29912161 AAAATTATATTTTGACCT-TAAATTTTCCT
1 AAATTTACATTTTGACCTCTTAATTTTTCT
29912190 AAA
1 AAA
29912193 ATAACTCTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
28 4 0.04
29 37 0.37
30 50 0.50
31 9 0.09
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (30 bp):
AAATTTACATTTTGACCTCTTAATTTTTCT
Found at i:29912130 original size:60 final size:58
Alignment explanation
Indices: 29912037--29912210 Score: 185
Period size: 60 Copynumber: 2.9 Consensus size: 58
29912027 AAAATTTAAA
* * * * *
29912037 TTTTAAAATTTACATTTTAACCTCTTAATTTTTCTAAATTTATATTTTGACCCTTTAA-TT
1 TTTTAAAA-TTACATTTTGACCTC-TAAATTTTCTAAAATTACATTTTGAACC-TTAACTT
*
29912097 TTCTTAATATTACATTTTGACCTCTAAACTTTTCTAAAATTACATTTTGAACCTTAACTT
1 TT-TTAAAATTACATTTTGACCTCTAAA-TTTTCTAAAATTACATTTTGAACCTTAACTT
* *
29912157 TTTTAAAATTATATTTTGACCT-TAAATTTTCCTAAAATAAC-TCTTTG-ACCTTAA
1 TTTTAAAATTACATTTTGACCTCTAAATTTT-CTAAAATTACAT-TTTGAACCTTAA
29912211 AAGTTTTACA
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
57 12 0.12
58 17 0.17
59 25 0.25
60 41 0.41
61 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (58 bp):
TTTTAAAATTACATTTTGACCTCTAAATTTTCTAAAATTACATTTTGAACCTTAACTT
Found at i:29912192 original size:29 final size:28
Alignment explanation
Indices: 29912032--29912211 Score: 159
Period size: 29 Copynumber: 6.2 Consensus size: 28
29912022 TAAAAAAAAT
*
29912032 TTAAA-TTT-TAAAATTTACATTTTAACCTC
1 TTAAATTTTCTAAAA-TTACATTTTGA-C-C
* * *
29912061 TTAATTTTTCTAAATTTATATTTTGACCC
1 TTAAATTTTCTAAAATTACATTTTGA-CC
* *
29912090 TTTAATTTTCTTAATATTACATTTTGACC
1 TTAAATTTTC-TAAAATTACATTTTGACC
29912119 TCTAAACTTTTCTAAAATTACATTTTGAACC
1 T-TAAA-TTTTCTAAAATTACATTTTG-ACC
* * *
29912150 TTAACTTTTTTAAAATTATATTTTGACC
1 TTAAATTTTCTAAAATTACATTTTGACC
*
29912178 TTAAATTTTCCTAAAATAAC-TCTTTGACC
1 TTAAATTTT-CTAAAATTACAT-TTTGACC
29912207 TTAAA
1 TTAAA
29912212 AGTTTTACAC
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
28 12 0.10
29 53 0.42
30 47 0.38
31 13 0.10
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (28 bp):
TTAAATTTTCTAAAATTACATTTTGACC
Found at i:29912732 original size:17 final size:18
Alignment explanation
Indices: 29912710--29912766 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
29912700 TAGGGCTGGG
29912710 AGAAAGAA-AGAAAAAAA
1 AGAAAGAAGAGAAAAAAA
*
29912727 AGAAAGAAGGGAAAAAAGA
1 AGAAAGAAGAGAAAAAA-A
* *
29912746 A-AAA-AATAGAAAAAAT
1 AGAAAGAAGAGAAAAAAA
29912762 AGAAA
1 AGAAA
29912767 ATATAACGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.03
17 20 0.61
18 10 0.30
19 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (18 bp):
AGAAAGAAGAGAAAAAAA
Found at i:29912766 original size:26 final size:25
Alignment explanation
Indices: 29912709--29912767 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
29912699 CTAGGGCTGG
*
29912709 GAGAAAGAAAGAAAAAAAAGAAAGAA
1 GAGAAA-AAAGAAAAAAAAGAAAAAA
*
29912735 GGGAAAAAAGAAAAAAATAGAAAAAA
1 GAGAAAAAAGAAAAAAA-AGAAAAAA
*
29912761 TAGAAAA
1 GAGAAAA
29912768 TATAACGGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (25 bp):
GAGAAAAAAGAAAAAAAAGAAAAAA
Found at i:29918398 original size:30 final size:30
Alignment explanation
Indices: 29918362--29918518 Score: 165
Period size: 30 Copynumber: 5.2 Consensus size: 30
29918352 ACGATGAGGT
*
29918362 ATTTTAGGAAAGTTTTA-GGGTTAAAATATA
1 ATTTTAGGAAA-ATTTAGGGGTTAAAATATA
29918392 ATTTTAGGAAAATTTAGGGGTTAAAATATA
1 ATTTTAGGAAAATTTAGGGGTTAAAATATA
* * *
29918422 ATTTTA-AAAAACTTAAGAGGTTAAAATATA
1 ATTTTAGGAAAA-TTTAGGGGTTAAAATATA
* *
29918452 AATTTAGGAAAATTTAGGGGTCAAAATATA
1 ATTTTAGGAAAATTTAGGGGTTAAAATATA
* * * * * *
29918482 AATTTAGAAAAATTGAGAGGTCAAAATGTAA
1 ATTTTAGGAAAATTTAGGGGTTAAAATAT-A
29918513 ATTTTA
1 ATTTTA
29918519 AATTTTAAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.07
30 91 0.83
31 10 0.09
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.34
Consensus pattern (30 bp):
ATTTTAGGAAAATTTAGGGGTTAAAATATA
Found at i:29918447 original size:60 final size:60
Alignment explanation
Indices: 29918380--29918518 Score: 199
Period size: 60 Copynumber: 2.3 Consensus size: 60
29918370 AAAGTTTTAG
* *
29918380 GGTTAAAATATAATTTTAGGAAAATTTAGGGGTTAAAATATAATTTTA-AAAAACTTAAGA
1 GGTTAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATATAAATTTAGAAAAA-TTAAGA
* *
29918440 GGTTAAAATATAAATTTAGGAAAATTTAGGGGTCAAAATATAAATTTAGAAAAATTGAGA
1 GGTTAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATATAAATTTAGAAAAATTAAGA
* *
29918500 GGTCAAAATGTAAATTTTA
1 GGTTAAAATAT-AATTTTA
29918519 AATTTTAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
60 59 0.84
61 11 0.16
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (60 bp):
GGTTAAAATATAATTTTAGGAAAATTTAGGGGTCAAAATATAAATTTAGAAAAATTAAGA
Found at i:29927431 original size:41 final size:41
Alignment explanation
Indices: 29927405--29927524 Score: 213
Period size: 41 Copynumber: 2.9 Consensus size: 41
29927395 ATAAGGTTCA
29927405 ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGATTTG
1 ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGATTTG
* *
29927446 ATATGATCTACTCTACTGCGACTTCAGAGAAATAAGATTTG
1 ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGATTTG
*
29927487 ATATGATCTGCTCTACTGCGACTTTAGAGAGATAAGAT
1 ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGAT
29927525 CTGTTATGGT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (41 bp):
ATATGATCTGCTCTACTGCGACTTCAGAGAGATAAGATTTG
Found at i:29927675 original size:138 final size:138
Alignment explanation
Indices: 29927492--29927800 Score: 433
Period size: 138 Copynumber: 2.2 Consensus size: 138
29927482 ATTTGATATG
* * * *
29927492 ATCTGCTCTACTGCGACTTTAGAGAGATAAGATCTGTTATGGTAGATTTAATCCGACCTACTGCA
1 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATGGTAGATTTAATCCGACCGACTGCA
* *
29927557 ACTTCAAAGGTATAGGATTCATCA-TTTTAATCCGCTCGACTGTAACTTCAGGGAGATAGGATTA
66 ACTTCAAAGGTATAGGATTCAT-AGTTTTAATCCGCTCCACTGTAACTTCAGGGAAATAGGATTA
29927621 GTAGCTTCA
130 GTAGCTTCA
* * *
29927630 GTCTGCTCCACTGCAATTTTAGGGAGATAAGA-CTTGTTATGGTAGATTTGATCCGACCGACTGC
1 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATC-TGTTATGGTAGATTTAATCCGACCGACTGC
* * * *
29927694 AACTTCAGAGGTATAGTATTTATAGTTTTAATCCGCTCCACTGTAATTTCAGGGAAATAGGATTA
65 AACTTCAAAGGTATAGGATTCATAGTTTTAATCCGCTCCACTGTAACTTCAGGGAAATAGGATTA
* *
29927759 GTGGTTTCA
130 GTAGCTTCA
* *
29927768 ATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
29927801 TCACCATGAT
Statistics
Matches: 149, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
137 2 0.01
138 147 0.99
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (138 bp):
ATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGTTATGGTAGATTTAATCCGACCGACTGCA
ACTTCAAAGGTATAGGATTCATAGTTTTAATCCGCTCCACTGTAACTTCAGGGAAATAGGATTAG
TAGCTTCA
Found at i:29927778 original size:44 final size:44
Alignment explanation
Indices: 29927718--29927801 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
29927708 AGTATTTATA
* * *
29927718 GTTTTAATCCGCTCCACTGTAATTTCAGGGAAATAGGATTAGTG
1 GTTTCAATCCGCTCCACTGTAACTTCAGGGAAATAAGATTAGTG
* *
29927762 GTTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT
1 GTTTCAATCCGCTCCACTGTAACTTCAGGGAAATAAGATT
29927802 CACCATGATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (44 bp):
GTTTCAATCCGCTCCACTGTAACTTCAGGGAAATAAGATTAGTG
Found at i:29927836 original size:138 final size:138
Alignment explanation
Indices: 29927534--29927852 Score: 349
Period size: 138 Copynumber: 2.3 Consensus size: 138
29927524 TCTGTTATGG
* * * * *
29927534 TAGATTTAATCCGACCTACTGCAACTTCAAAGGTATAGGATTCATCATTTTAATCCGCTCGACTG
1 TAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGATTTATCATTTTAATCCGCTCCACTG
* * * *
29927599 TAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAATTTTAGGGAGATAAGACT
66 TAACTTCAGGGAAATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
*** *
29927664 TGTTATGG
131 TACCATGA
* * * *
29927672 TAGATTTGATCCGACCGACTGCAACTTCAGAGGTATAGTATTTAT-AGTTTTAATCCGCTCCACT
1 TAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGATTTATCA-TTTTAATCCGCTCCACT
* * * *
29927736 GTAATTTCAGGGAAATAGGATTAGTGGTTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA-
65 GTAACTTCAGGGAAATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
29927800 TTCACCATGA
130 TT-ACCATGA
* * * *
29927810 T-GACTTTAATCTC-TCCCACTATAACTTTAGGGGTATAGGATTT
1 TAGA-TTTAATC-CGACCCACTACAACTTCAGAGGTATAGGATTT
29927853 GTGGTTTCAC
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
137 5 0.03
138 145 0.96
139 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (138 bp):
TAGATTTAATCCGACCCACTACAACTTCAGAGGTATAGGATTTATCATTTTAATCCGCTCCACTG
TAACTTCAGGGAAATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT
TACCATGA
Found at i:29952389 original size:59 final size:59
Alignment explanation
Indices: 29952297--29952474 Score: 356
Period size: 59 Copynumber: 3.0 Consensus size: 59
29952287 TTAAACTATC
29952297 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
1 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
29952356 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
1 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
29952415 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
1 TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
29952474 T
1 T
29952475 AATCTAATGG
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 119 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (59 bp):
TTATTAATTTAATAAATGAAATATTAAAAATATAATATAAAAATCTATTTAGCATCATT
Found at i:29952665 original size:15 final size:14
Alignment explanation
Indices: 29952645--29952682 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
29952635 TTTGTTGAAA
29952645 TTTCACTTCTAGTCC
1 TTTCACTTCTAG-CC
29952660 TTTCACTTCTAGCC
1 TTTCACTTCTAGCC
29952674 TTTCCACTT
1 TTT-CACTT
29952683 TTTCTTCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.13, C:0.34, G:0.05, T:0.47
Consensus pattern (14 bp):
TTTCACTTCTAGCC
Found at i:29957709 original size:128 final size:128
Alignment explanation
Indices: 29956281--29957697 Score: 2179
Period size: 128 Copynumber: 11.1 Consensus size: 128
29956271 CGCAACGTCG
* * * * * * *
29956281 GGGAGATAGGATTTGTGGCTTCAATCTACTTCCCTACTCCTAAAGATAAGATTCGTCGTCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* * * *
29956346 TATGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTCCAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * * * ** *
29956409 GGGAGATAGAACTTGTGGCATAAATCTGTTTCCCTACTCTTGAAGATAAGATTTTCCGTTTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
** * *
29956474 TCTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTAACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * *
29956537 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTAATCTTAAAGATAAGATTCGCCATCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
*
29956602 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTAACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * *
29956665 GGGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACTTTTGAAGATAAGATTCGCCATCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* * *
29956730 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTACTGACAA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* ** *
29956793 GGGGGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTACCGTCTTTGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* * * *
29956858 TCTGCTCCACTACTACTTAGGGAGACAAGATCTATAATTTCCAACATATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
*
29956921 GGGAGATAGGACTTGTGGCTTAAATCTACTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
*
29956986 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* *
29957049 GGGAGATAGGACTTGTGGCTTAAATTTGCTTCCTTACTCTTGAAGATAAGATTCGTCGTCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* *
29957114 TCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * * * *
29957177 GGGAGATAGGACTTATGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGTCATCTTTGG
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
*
29957242 TCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * * * *
29957305 GGGAGATAGGACTTATGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGTCATCTTTGG
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
*
29957370 TCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
* * * * *
29957433 GGGAGATAGGACTTATGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGTCATCTTTGG
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
*
29957498 TCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
*
29957561 GGGAGATAGGACTTATGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
1 GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
* * * **
29957626 TTTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATCTT-CAATCTATTCCACTGCCAACCA
66 TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAAT-TTCCAACCTATTCCACTGCTGACCA
*
29957689 GTGAGATAG
1 GGGAGATAG
29957698 AATTACGGGC
Statistics
Matches: 1206, Mismatches: 82, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
128 1204 1.00
129 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (128 bp):
GGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGA
TCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCA
Found at i:29959191 original size:7 final size:7
Alignment explanation
Indices: 29959181--29959219 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
29959171 CCTTTTCCAT
29959181 TTTTTCA
1 TTTTTCA
29959188 TTTTTCA
1 TTTTTCA
29959195 -TTTTCA
1 TTTTTCA
29959201 -TTTTCA
1 TTTTTCA
29959207 TTTTTCA
1 TTTTTCA
29959214 CTTTTT
1 -TTTTT
29959220 TTTGTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.40
7 13 0.43
8 5 0.17
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:29960157 original size:6 final size:6
Alignment explanation
Indices: 29960133--29960210 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
29960123 CATTTTCATT
* * ** * * *
29960133 TTTTGA CTTTGA CTTTGA TTTTGA TTTTTTCT TTTTGC TTTTGC TTTTGC
1 TTTTGA TTTTGA TTTTGA TTTTGA --TTTTGA TTTTGA TTTTGA TTTTGA
* *
29960183 TTTTGC TTTTGC TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
29960211 TCTTCCCCCC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
6 59 0.94
8 4 0.06
ACGTcount: A:0.08, C:0.10, G:0.14, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:29960174 original size:12 final size:12
Alignment explanation
Indices: 29960165--29960210 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
29960155 GATTTTTTCT
29960165 TTTTGCTTTTGC
1 TTTTGCTTTTGC
29960177 TTTTGCTTTTGC
1 TTTTGCTTTTGC
*
29960189 TTTTGCTTTTGA
1 TTTTGCTTTTGC
*
29960201 TTTTGATTTT
1 TTTTGCTTTT
29960211 TCTTCCCCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.04, C:0.11, G:0.15, T:0.70
Consensus pattern (12 bp):
TTTTGCTTTTGC
Found at i:29960180 original size:18 final size:18
Alignment explanation
Indices: 29960165--29960210 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
29960155 GATTTTTTCT
29960165 TTTTGCTTTTGCTTTTGC
1 TTTTGCTTTTGCTTTTGC
*
29960183 TTTTGCTTTTGCTTTTGA
1 TTTTGCTTTTGCTTTTGC
*
29960201 TTTTGATTTT
1 TTTTGCTTTT
29960211 TCTTCCCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.04, C:0.11, G:0.15, T:0.70
Consensus pattern (18 bp):
TTTTGCTTTTGCTTTTGC
Found at i:29966869 original size:12 final size:12
Alignment explanation
Indices: 29966852--29966877 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29966842 CAAAACAGGC
29966852 TTTTAGCGGCGT
1 TTTTAGCGGCGT
29966864 TTTTAGCGGCGT
1 TTTTAGCGGCGT
29966876 TT
1 TT
29966878 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:29967199 original size:42 final size:41
Alignment explanation
Indices: 29967108--29967199 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
29967098 GCTTTCTAAA
*
29967108 AAACGCCACTAACGCTCAGGGATTTAGCGGCGTTTTTTAGG
1 AAACGCCGCTAACGCTCAGGGATTTAGCGGCGTTTTTTAGG
* *
29967149 AAACGCCGCTAATGCTCAGGG-TATTAGCGGCGTTTTTTGGG
1 AAACGCCGCTAACGCTCAGGGAT-TTAGCGGCGTTTTTTAGG
29967190 AAAGCGCCGC
1 AAA-CGCCGC
29967200 AAAAAAAACT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 1 0.02
41 39 0.85
42 6 0.13
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (41 bp):
AAACGCCGCTAACGCTCAGGGATTTAGCGGCGTTTTTTAGG
Found at i:29967499 original size:116 final size:114
Alignment explanation
Indices: 29967126--29967858 Score: 1104
Period size: 116 Copynumber: 6.4 Consensus size: 114
29967116 CTAACGCTCA
*
29967126 GGGATTTAGCGGCGTTTTTTAGGAAA-CGCCGCTAATGCTCAGGG-TATTAGCGGCGTTTTTTGG
1 GGGATTTAGCGGCG-TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT-TTAGCGGC-TTTTTTGG
* *
29967189 GAAAGCGCCGCAAAAAAAACTAAGCCCAACGGCACCGTTTTCTGAGCTTTCG
63 GAAAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* * * *
29967241 TGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGGGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
** *
29967306 AGCGCCGC-AAAAAAACTAAGCCCAACGACGCTATTTTCTGAACTTTCG
66 AGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
*
29967354 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGAGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
* *
29967419 AGCGCCGCAAAAAAAAAACTAAGCCCAACGGCGGCGTTTTCTGAGCTTTCG
66 AGCGCCGC--AAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
*
29967470 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGAGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
* *
29967535 AGCGCCGCAAAAAAAAAACTAAGCCCAACGGCGGCGTTTTCTGAGCTTTCG
66 AGCGCCGC--AAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* *
29967586 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACATTTTTGGGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
*
29967651 AGCGTCGC-AAAAAAA--AA-CCCAACGACGCCGTTTTCTGAGCTTTCG
66 AGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* *
29967696 GGGATTTAGCGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
*
29967761 AGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
66 AGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
* * * *
29967810 GGGATTTAGCGGCGTTTCTACA-AAAGCACCGCTAATACTCAGGGATTTA
1 GGGATTTAGCGGCGTTTTTA-AGAAAGCGCCGCTAATGCTCAGGGCTTTA
29967859 AAATAATTTA
Statistics
Matches: 572, Mismatches: 36, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
110 95 0.17
111 8 0.01
113 112 0.20
114 98 0.17
115 38 0.07
116 221 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (114 bp):
GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCTTTTTTGGGAA
AGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCG
Found at i:29968151 original size:16 final size:17
Alignment explanation
Indices: 29968121--29968161 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
29968111 ATGCTTTAGA
*
29968121 GGTTAGGGAGATTTATG
1 GGTTAGGGAGATTTAAG
29968138 GGTTAGGG-GATTTAAG
1 GGTTAGGGAGATTTAAG
29968154 GGTTAGGG
1 GGTTAGGG
29968162 TTTAGGGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (17 bp):
GGTTAGGGAGATTTAAG
Found at i:29974509 original size:43 final size:42
Alignment explanation
Indices: 29974439--29974684 Score: 287
Period size: 43 Copynumber: 5.8 Consensus size: 42
29974429 TTTCATAAAC
* * *
29974439 GCCGCTAAAGAACGTATT-TTTAGCGGCGTTTGTGATAAAAGT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAT-AAAGT
* *
29974481 GCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGTGTAAAGT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTG-ATAAAGT
* * * *
29974524 GCCGCTAAAGGTCATGTTCTTTAGCGACGTTTATGGGTAAAGT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAGT
* * * *
29974567 ACTGCTAAAGATCATGTTCTTTAGTGGCATTTGTGAGTAAAGT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGA-TAAAGT
* *
29974610 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAAGC
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAGT
* *
29974653 GCTGTTAAAGATCATGTTCTTTAGCGGCGTTT
1 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
29974685 AACGCCGCAA
Statistics
Matches: 176, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
42 15 0.09
43 158 0.90
44 3 0.02
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (42 bp):
GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAGT
Found at i:29974566 original size:86 final size:86
Alignment explanation
Indices: 29974476--29974684 Score: 319
Period size: 86 Copynumber: 2.4 Consensus size: 86
29974466 GTTTGTGATA
* * * *
29974476 AAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGTGTAAAGTGCCGCTAAAGGTCATGT
1 AAAGTGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAGTAAAGTGCCGCTAAAGATCATGT
29974541 TCTTTAGCGACGTTTATGGGT
66 TCTTTAGCGACGTTTATGGGT
* * *
29974562 AAAGTACTGCTAAAGATCATGTTCTTTAGTGGCATTTGTGAGTAAAGTGCCGCTAAAGATCATGT
1 AAAGTGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAGTAAAGTGCCGCTAAAGATCATGT
* *
29974627 TCTTTAGCGGCGTTTGTGGGT
66 TCTTTAGCGACGTTTATGGGT
* *
29974648 AAAGCGCTGTTAAAGATCATGTTCTTTAGCGGCGTTT
1 AAAGTGCTGCTAAAGATCATGTTCTTTAGCGGCGTTT
29974685 AACGCCGCAA
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 109 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.34
Consensus pattern (86 bp):
AAAGTGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGAGTAAAGTGCCGCTAAAGATCATGT
TCTTTAGCGACGTTTATGGGT
Found at i:29981483 original size:9 final size:9
Alignment explanation
Indices: 29981469--29981515 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
29981459 CGAAAAAATT
29981469 GAGTTATTC
1 GAGTTATTC
*
29981478 GAGTTAATC
1 GAGTTATTC
29981487 GAGTTATTC
1 GAGTTATTC
*
29981496 GAGTTAATC
1 GAGTTATTC
*
29981505 AAGTTATTC
1 GAGTTATTC
29981514 GA
1 GA
29981516 ATTAACTCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (9 bp):
GAGTTATTC
Found at i:29981490 original size:18 final size:18
Alignment explanation
Indices: 29981469--29981525 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
29981459 CGAAAAAATT
29981469 GAGTTATTCGAGTTAATC
1 GAGTTATTCGAGTTAATC
29981487 GAGTTATTCGAGTTAATC
1 GAGTTATTCGAGTTAATC
* *
29981505 AAGTTATTCGAATTAACTC
1 GAGTTATTCGAGTTAA-TC
29981524 GA
1 GA
29981526 ATTTTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
18 32 0.91
19 3 0.09
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (18 bp):
GAGTTATTCGAGTTAATC
Found at i:29981975 original size:16 final size:16
Alignment explanation
Indices: 29981942--29981971 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29981932 CCTATTTACT
29981942 TTCCCTCAAACTTTTA
1 TTCCCTCAAACTTTTA
29981958 TTCCCT-AAACTTTT
1 TTCCCTCAAACTTTT
29981972 TATTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (16 bp):
TTCCCTCAAACTTTTA
Found at i:29982441 original size:5 final size:5
Alignment explanation
Indices: 29982431--29982458 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
29982421 GAACAAATAT
29982431 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
29982459 TCCATCTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (5 bp):
ATTCG
Found at i:29982556 original size:5 final size:5
Alignment explanation
Indices: 29982546--29982572 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
29982536 CTCGAAAATT
29982546 TTCGA TTCGA TTCGA TTCGA TTCGA TT
1 TTCGA TTCGA TTCGA TTCGA TTCGA TT
29982573 GATCGAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (5 bp):
TTCGA
Found at i:29985201 original size:6 final size:6
Alignment explanation
Indices: 29985184--29985219 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
29985174 TAGTTTTTTC
*
29985184 ACAAAA AAAAAA ACAAAA ACAAAA ACAAAA ACAAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA
29985220 CAAGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:29985201 original size:12 final size:12
Alignment explanation
Indices: 29985184--29985229 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
29985174 TAGTTTTTTC
29985184 ACAAAAAAAAAA
1 ACAAAAAAAAAA
*
29985196 ACAAAAACAAAA
1 ACAAAAAAAAAA
*
29985208 AC-AAAAACAAA
1 ACAAAAAAAAAA
29985219 ACAAGAAAAAA
1 ACAA-AAAAAA
29985230 TTTTTTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAAAA
Found at i:29985207 original size:18 final size:17
Alignment explanation
Indices: 29985184--29985229 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
29985174 TAGTTTTTTC
29985184 ACAAAAAAAAAAACAAAA
1 ACAAAAAAAAAAAC-AAA
*
29985202 ACAAAAACAAAAACAAA
1 ACAAAAAAAAAAACAAA
29985219 ACAAGAAAAAA
1 ACAA-AAAAAA
29985230 TTTTTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (17 bp):
ACAAAAAAAAAAACAAA
Found at i:29986399 original size:21 final size:21
Alignment explanation
Indices: 29986353--29986408 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
29986343 CAACGTTTGT
* *
29986353 ATGTCTCAAGACATTAGCTTC
1 ATGTCTCAAGACATAAGCGTC
*
29986374 GTGTCTCAAGACATAAG-GTC
1 ATGTCTCAAGACATAAGCGTC
29986394 AATGTCTCAAGACAT
1 -ATGTCTCAAGACAT
29986409 GACCTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTCTCAAGACATAAGCGTC
Found at i:29987844 original size:65 final size:65
Alignment explanation
Indices: 29987740--29987876 Score: 256
Period size: 65 Copynumber: 2.1 Consensus size: 65
29987730 TCTTTATTTC
* *
29987740 ACCACCTTTGAAGCCATATTTCTTCATTCCTTTTCCACTCCACCACCACACATGGCAACTGCACA
1 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGCACA
29987805 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGCACA
1 ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGCACA
29987870 ACCACCT
1 ACCACCT
29987877 CACCTCTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.27, C:0.39, G:0.07, T:0.26
Consensus pattern (65 bp):
ACCACCTTTGAAGCCATATTTATTCATTCCTTTTCCACTCCACCACCACACATGGCAACCGCACA
Found at i:29988483 original size:21 final size:21
Alignment explanation
Indices: 29988458--29988497 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
29988448 CATTCTTGAT
*
29988458 AATAATTAATAATATTGATTA
1 AATAATAAATAATATTGATTA
29988479 AATAATAAATAATATTGAT
1 AATAATAAATAATATTGAT
29988498 ATTTTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AATAATAAATAATATTGATTA
Found at i:30002203 original size:21 final size:21
Alignment explanation
Indices: 30002178--30002220 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
30002168 TTGTTGCTCA
30002178 TTAAAAATATA-AAATCAAATT
1 TTAAAAA-ATACAAATCAAATT
30002199 TTAAAAAATACAAATCAAATT
1 TTAAAAAATACAAATCAAATT
30002220 T
1 T
30002221 CCAATCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
TTAAAAAATACAAATCAAATT
Found at i:30004522 original size:89 final size:89
Alignment explanation
Indices: 30004415--30004611 Score: 236
Period size: 90 Copynumber: 2.2 Consensus size: 89
30004405 TTTAACTGTA
* * * *
30004415 AACACTAGTGGTTTATCCA-AAAATTACTGGCAGC-ATTTATCTGCAAACCAGTTGTGTACTCAC
1 AACACTAGTGGTTTATCCATAAAATTACTGACAACTA-GTATCTGCAAACCAGTTGTCTACTCAC
* * *
30004478 AACTACTGGCAGCGTATTAACTTGC
65 AACTACTGACAGCGTAGTAACATGC
** * *
30004503 AAGCACTAGTGGTTTATCCATAAGTTTACTGACAACTAGTATCTGCAAACCTGTTGTCTATTCAC
1 AA-CACTAGTGGTTTATCCATAAAATTACTGACAACTAGTATCTGCAAACCAGTTGTCTACTCAC
*
30004568 AAGTACTGACAGCGTAGTAACATGC
65 AACTACTGACAGCGTAGTAACATGC
* *
30004593 AACACTGGTGGTTCATCCA
1 AACACTAGTGGTTTATCCA
30004612 CAAACTGGAG
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
88 2 0.02
89 32 0.35
90 57 0.62
91 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (89 bp):
AACACTAGTGGTTTATCCATAAAATTACTGACAACTAGTATCTGCAAACCAGTTGTCTACTCACA
ACTACTGACAGCGTAGTAACATGC
Found at i:30006092 original size:21 final size:21
Alignment explanation
Indices: 30006066--30006113 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
30006056 TTCTTCTTCT
30006066 TTCTTTGAAAGTACTTTTTGA
1 TTCTTTGAAAGTACTTTTTGA
*** *
30006087 TTCTTTTTTAGTAGTTTTTGA
1 TTCTTTGAAAGTACTTTTTGA
30006108 TTCTTT
1 TTCTTT
30006114 TTCTTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.08, G:0.12, T:0.62
Consensus pattern (21 bp):
TTCTTTGAAAGTACTTTTTGA
Found at i:30006114 original size:21 final size:21
Alignment explanation
Indices: 30006075--30006115 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30006065 TTTCTTTGAA
30006075 AGTACTTTTTGATTCTTTTTT
1 AGTACTTTTTGATTCTTTTTT
*
30006096 AGTAGTTTTTGATTCTTTTT
1 AGTACTTTTTGATTCTTTTT
30006116 CTTAAATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.66
Consensus pattern (21 bp):
AGTACTTTTTGATTCTTTTTT
Found at i:30010861 original size:20 final size:20
Alignment explanation
Indices: 30010836--30010873 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30010826 ATATCAGTAC
30010836 CAATCAAACAACTATTCAGT
1 CAATCAAACAACTATTCAGT
* *
30010856 CAATCAAGCAACTTTTCA
1 CAATCAAACAACTATTCA
30010874 AACATGCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
CAATCAAACAACTATTCAGT
Found at i:30014524 original size:21 final size:21
Alignment explanation
Indices: 30014498--30014539 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30014488 GTGAATTTTG
30014498 CTTGTATGTTATACTAACTTA
1 CTTGTATGTTATACTAACTTA
30014519 CTTGTATGTTATACTAACTTA
1 CTTGTATGTTATACTAACTTA
30014540 TGGTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (21 bp):
CTTGTATGTTATACTAACTTA
Found at i:30026609 original size:85 final size:86
Alignment explanation
Indices: 30026504--30027448 Score: 343
Period size: 85 Copynumber: 11.0 Consensus size: 86
30026494 AGATCGCATC
* *
30026504 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAA-TCTTATCTCCTTGAAGTTGC
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCCTAAAGTTGC
* * *
30026568 AGTGGAGAAGACACAAGTAAT
66 AATGGAGAAGACAAAAGAAAT
* * * *
30026589 TAGTCCTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAA-CAAGTCTTATCTCCCTAAAGTTGC
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCCTAAAGTTGC
*
30026653 AATGGAGCAGACAAAAGAAAT
66 AATGGAGAAGACAAAAGAAAT
* * **
30026674 CAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTATAAAGTT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA-AG-TCTTATCTCCCTAAAGTT
* * *
30026739 GTAATAGAGAAGATC----G-CAT
64 GCAATGGAGAAGA-CAAAAGAAAT
* * * ** * *
30026758 CCAGACCTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAATCAGTCCTATCTCCCTGAAG
1 -CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA-CCA--AGTCTTATCTCCCTAAAG
* ** * **
30026822 TTGCAGTGGAGTGGATTAAAACCAAT
62 TTGCAATGGAGAAGA-CAAAAGAAAT
* * * ** * * * * *
30026848 C--T--TATCTCCCTAAAGTTGCAGCGGAGC-AAACAAAA-GAAATCAATTATATATCTCTGAAG
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTC---T-TATCTCCCTAAAG
* * ** *
30026907 TTGCAGTAGAGTGGGTTA-AAACCACAAAT
62 TTGCAATGGAG-AAG--ACAAA--AGAAAT
* * * *** * * * *
30026936 C--T-C-ATCTCTCTGAAGTTGTAGTAGAGCGGA-TCGCATCTAGTCTCATCTCCCTGAAGTTGC
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCCTAAAGTTGC
* * *
30026996 AGTGTAGTAGACAAAAGAAAT
66 AATGGAGAAGACAAAAGAAAT
* * * ** ** * * *
30027017 CAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAAAAAAAGAAATCAA-TCCTATCTCCCTGAAGT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGC--GGATTA-AAACCAAGTCTTATCTCCCTAAAGT
* * * **
30027081 TGCAGT-GAAACAGATTAAAA-CCA-
63 TGCAATGGAGA-AGA-CAAAAGAAAT
* * * * *
30027104 CGGATCTTATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAA-TCTTATATCCCTTAAAGTT
1 CAG-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCC-TAAAGTT
* *
30027168 GTAATGGAGCAGACAAAAGAAAT
64 GCAATGGAGAAGACAAAAGAAAT
* * * * * * * *
30027191 CAATCATATCTCCTTGAAGTTGCTGTGGAGCGGGTTAAAACCACAGATCTCATCTCTCTGAAGTT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA-AG-TCTTATCTCCCTAAAGTT
* * ** *
30027256 GC-A-GTAG-AG-CGGATCG-CAT
64 GCAATGGAGAAGAC-AAAAGAAAT
** ** * *
30027275 CTAGT-CTCATCTCCCTGAAGTTGCAGTGGAGCAAACAAAAGAAATCAA-TCTTATCTCCCTGAA
1 C-AGTCCT-ATCTCCCTGAAGTTGCAGTGGAGC--GGATTA-AAACCAAGTCTTATCTCCCTAAA
* ** *
30027338 GTTGTAGGGGAGCAGACAAAAGAAAT
61 GTTGCAATGGAGAAGACAAAAGAAAT
* * * * * * *
30027364 CAATCCTATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACGGATGTTATCCCCCTGAAGTT
1 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA-AG-TCTTATCTCCCTAAAGTT
* * *
30027429 GCAGTGGAGCAGACTAAAGA
64 GCAATGGAGAAGACAAAAGA
30027449 TAGCAAATTT
Statistics
Matches: 638, Mismatches: 162, Indels: 117
0.70 0.18 0.13
Matches are distributed among these distances:
81 9 0.01
82 1 0.00
83 5 0.01
84 16 0.03
85 319 0.50
86 65 0.10
87 15 0.02
88 178 0.28
89 28 0.04
90 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (86 bp):
CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAAGTCTTATCTCCCTAAAGTTGC
AATGGAGAAGACAAAAGAAAT
Found at i:30026611 original size:44 final size:43
Alignment explanation
Indices: 30026505--30026885 Score: 183
Period size: 44 Copynumber: 9.0 Consensus size: 43
30026495 GATCGCATCC
* * ** **
30026505 AGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-ACCA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAATA
* * * * * *
30026547 A-TCTTATCTCCTTGAAGTTGCAGTGGAGAAGACACAAGTAATT
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAG-AATA
* ** *
30026590 AGTCCTATCTCCTTAAAGTTGCAGTGGAGCAGA-TTAA-AACA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAATA
* *
30026631 AGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACAAAAGAAATCA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAG-AAT-A
* * * * ** *
30026676 A-TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCA-C
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGA-CAAAAGAATA
* ** * * ** * *
30026718 AGATCTTATCTCTATAAAGTTGTAAT--AG-AGA-AGATCGCATCC
1 AG-TCCTATCTCCCTAAAGTTGCAGTGGAGCAGACA-AAAGAAT-A
* * *
30026760 AGACCTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATC
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAG-AATA
* ** ** **
30026804 AGTCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA-ACCA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAATA
* * *
30026846 A-TCTTATCTCCCTAAAGTTGCAGCGGAGCAAACAAAAGAA
1 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAA
30026886 ATCAATTATA
Statistics
Matches: 251, Mismatches: 69, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 107 0.43
42 12 0.05
43 6 0.02
44 113 0.45
45 9 0.04
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (43 bp):
AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACAAAAGAATA
Found at i:30026736 original size:129 final size:129
Alignment explanation
Indices: 30026461--30027448 Score: 598
Period size: 129 Copynumber: 7.7 Consensus size: 129
30026451 AATGGATTCT
* * * ** * * *
30026461 ACAGATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCGCATCCAGTCCTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTG
* ** * * * * ** * * **
30026526 CAGTGGAGC-G-GATTA-AAACCAATCTTATCTCCTTGAAGTTGCAGTGGAGAAGA-CACAAGT
66 CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACC
* * * * *
30026586 A-ATTAGTCCTATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAACAAGTCTTATCTCCCTAAAGT
1 ACA-GA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGT
*
30026650 TGCAATGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAC
64 TGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAC
30026715 C
129 C
** * * * * ** * * * *
30026716 ACAGATCTTATCTCTATAAAGTTGTAATAGAGAAGATCGCATCCAGACCTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTG
* * *
30026781 CAGTGGAGCAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA-C
66 CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACC
* * * * * *
30026844 -CA-ATCTTATCTCCCTAAAGTTGCAGCGGAGCA-AACAAAAGAAATCAATTATATATCTCTGAA
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTC---T-TATCTCCCTGAA
* ** ** ** * *
30026906 GTTGCAGTAGAGTGGGTTAAAA-CCA-CAAAT-CTCATCTCTCTGAAGTTGTAGTAGAGCGGA-T
62 GTTGCAGTGGAG-CAGACAAAAGAAATC-AATCCT-ATCTCCCTGAAGTTGCAGTAGAGCGGATT
*** *
30026967 CGCATC
124 AAAACC
* * * * *
30026973 -TAG-TCTCATCTCCCTGAAGTTGCAGTGTAGTAGA-CAAAAGAAATCAA-TCTTATCTCCCTGA
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATC---A-AAA-CAAGTCTTATCTCCCTGA
* * * * *
30027034 AGTTGTAGTGGAGCAAAAAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGT-GAAACAGATTA
61 AGTTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAG-AGCGGATTA
30027098 AAACC
125 AAACC
* * * * * *
30027103 ACGGATCTTATCCCCCTGAAGTTGCAGTGGAGCGGA-CTAAAACCAA-TCTTATATCCCTTAAAG
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATC-AAAA-CAAGTCTTATCTCCC-TGAAG
* * * * * * *
30027166 TTGTAATGGAGCAGACAAAAGAAATCAATCATATCTCCTTGAAGTTGCTGTGGAGCGGGTTAAAA
63 TTGCAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
30027231 CC
128 CC
* * * * * ** * * *
30027233 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTG
1 ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTG
* * * ** * * **
30027298 CAGTGGAGCAAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAGA-CAAAAGAA
66 CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAA-CC
* * * * * * * * *
30027362 ATCA-ATCCTATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACGGATGTTATCCCCCTGAA
1 A-CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAA-CA-AG-TCTTATCTCCCTGAA
*
30027426 GTTGCAGTGGAGCAGACTAAAGA
62 GTTGCAGTGGAGCAGACAAAAGA
30027449 TAGCAAATTT
Statistics
Matches: 657, Mismatches: 168, Indels: 69
0.73 0.19 0.08
Matches are distributed among these distances:
124 1 0.00
125 7 0.01
126 79 0.12
127 3 0.00
128 17 0.03
129 354 0.54
130 123 0.19
131 5 0.01
132 61 0.09
133 5 0.01
134 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (129 bp):
ACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACC
Found at i:30026928 original size:214 final size:213
Alignment explanation
Indices: 30026551--30027048 Score: 674
Period size: 214 Copynumber: 2.3 Consensus size: 213
30026541 AAACCAATCT
* * * * * *
30026551 TATCTCCTTGAAGTTGCAGTGGAGAAGACACAAGTAATTAGTCCTATCTCCTTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGAAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
* * *
30026616 GAGCAGATTAAAACAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACAAAAGAAATCAATCCT
66 GAGCAGATTAAAACAAGTCTTATCTCCCTAAAGTTGCAACGGAGCAAACAAAAGAAATCAATCAT
* * *
30026681 ATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTATAAAGTTGTAATAG
131 ATATCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAAATCTCATCTCTATAAAGTTGTAATAG
30026746 AGAAGATCGCATCCAGACC
196 AGAAGATCGCATCCAG-CC
*
30026765 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGAAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
** * *
30026830 GAGTGGATTAAAACCAA-TCTTATCTCCCTAAAGTTGCAGCGGAGCAAACAAAAGAAATCAATTA
66 GAGCAGATTAAAA-CAAGTCTTATCTCCCTAAAGTTGCAACGGAGCAAACAAAAGAAATCAATCA
* * * * * *
30026894 TATATCTCTGAAGTTGCAGTAGAGTGGGTTAAAACCACAAATCTCATCTCTCTGAAGTTGTAGTA
130 TATATCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAAATCTCATCTCTATAAAGTTGTAATA
** * *
30026959 GAGCGGATCGCATCTAGTC
195 GAGAAGATCGCATCCAGCC
* * * * *
30026978 TCATCTCCCTGAAGTTGCAGTGTAGTAGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGT
1 T-ATCTCCCTGAAGTTGCAGTGGAGAAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGT
30027043 GGAGCA
65 GGAGCA
30027049 AAAAAAAGAA
Statistics
Matches: 248, Mismatches: 34, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
213 2 0.01
214 243 0.98
215 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (213 bp):
TATCTCCCTGAAGTTGCAGTGGAGAAGACAAAAGAAATCAGTCCTATCTCCCTGAAGTTGCAGTG
GAGCAGATTAAAACAAGTCTTATCTCCCTAAAGTTGCAACGGAGCAAACAAAAGAAATCAATCAT
ATATCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAAATCTCATCTCTATAAAGTTGTAATAG
AGAAGATCGCATCCAGCC
Found at i:30027032 original size:44 final size:44
Alignment explanation
Indices: 30026980--30027448 Score: 318
Period size: 44 Copynumber: 10.8 Consensus size: 44
30026970 ATCTAGTCTC
* *
30026980 ATCTCCCTGAAGTTGCAGTGTAGTAGACAAAAGAAATCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * *
30027024 ATCTCCCTGAAGTTGTAGTGGAGCAAAAAAAAGAAATCAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * ** *
30027068 ATCTCCCTGAAGTTGCAGTGAAACAGATTAAAA-CCA-CGGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAATC-AATCTT
* * * *
30027112 ATCCCCCTGAAGTTGCAGTGGAGCGGAC--TA-AAACCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * * *
30027153 ATATCCCTTAAAGTTGTAATGGAGCAGACAAAAGAAATCAATCAT
1 ATCTCCC-TGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * ** ** *
30027198 ATCTCCTTGAAGTTGCTGTGGAGCGGGTTAAAA-CCA-CAGATCTC
1 ATCTCCCTGAAGTTGCAGTGGAGC-AGACAAAAGAAATCA-ATCTT
* * * * * *
30027242 ATCTCTCTGAAGTTGCAGTAGAGCGGATC----G-CATCTAGTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAATC-AATCTT
*
30027283 ATCTCCCTGAAGTTGCAGTGGAGCAAACAAAAGAAATCAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * *
30027327 ATCTCCCTGAAGTTGTAGGGGAGCAGACAAAAGAAATCAATCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
* * * * ** * *
30027371 ATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAA-CCA-CGGATGTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAATC-AATCTT
* *
30027415 ATCCCCCTGAAGTTGCAGTGGAGCAGACTAAAGA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGA
30027449 TAGCAAATTT
Statistics
Matches: 322, Mismatches: 82, Indels: 42
0.72 0.18 0.09
Matches are distributed among these distances:
40 3 0.01
41 40 0.12
42 19 0.06
43 9 0.03
44 221 0.69
45 30 0.09
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCTT
Found at i:30027101 original size:173 final size:170
Alignment explanation
Indices: 30026810--30027138 Score: 399
Period size: 173 Copynumber: 1.9 Consensus size: 170
30026800 AATCAGTCCT
* **
30026810 ATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCAATCTTATCTCCCTAAAGTTGCAGCGGAGC
1 ATCTCCCTGAAGTTGCAGTGGAGTGCAAAAAAACCAATCTTATCTCCCTAAAGTTGCAGCGGAGC
* * * *** *
30026875 AAACAAAAGAAATCAATTATATATCTCTGAAGTTGCAGTAGAGTGGGTTAAAACCACAAATCTCA
66 AAAAAAAAGAAATCAATCATATATCCCTGAAGTTGCAGTAGAACAGATTAAAACCACAAATCTCA
* * *
30026940 TCTCTCTGAAGTTGTAGTAGAGCGGATCGCATCTAGTCTC
131 TCCCCCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTC
* * * * *
30026980 ATCTCCCTGAAGTTGCAGTGTAGTAGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGT-G-CAAAA-AAACCAATCTTATCTCCCTAAAGTTGCAGCGG
* * **
30027045 AGCAAAAAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAGT-GAAACAGATTAAAACCACGGAT
63 AGCAAAAAAAAGAAATCAATCATATATCCCTGAAGTTGCAGTAG-AACAGATTAAAACCACAAAT
* *
30027109 CTTATCCCCCTGAAGTTGCAGTGGAGCGGA
127 CTCATCCCCCTGAAGTTGCAGTAGAGCGGA
30027139 CTAAAACCAA
Statistics
Matches: 131, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
170 23 0.18
171 1 0.01
172 3 0.02
173 104 0.79
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (170 bp):
ATCTCCCTGAAGTTGCAGTGGAGTGCAAAAAAACCAATCTTATCTCCCTAAAGTTGCAGCGGAGC
AAAAAAAAGAAATCAATCATATATCCCTGAAGTTGCAGTAGAACAGATTAAAACCACAAATCTCA
TCCCCCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTC
Found at i:30027247 original size:303 final size:302
Alignment explanation
Indices: 30026809--30027446 Score: 1017
Period size: 303 Copynumber: 2.1 Consensus size: 302
30026799 AAATCAGTCC
* * * * *
30026809 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCAATCTTATCTCCCTAAAGTTGCAGCGGAG
1 TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCCTAAAGTTGCAACGGAG
* *
30026874 CAAACAAAAGAAATCAATTATATATCTCTGAAGTTGCAGTAGAGTGGGTTAAAACCACAAATCTC
66 CAAACAAAAGAAATCAATCATATATCTCTGAAGTTGCAGTAGAGCGGGTTAAAACCACAAATCTC
* * *
30026939 ATCTCTCTGAAGTTGTAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGTAGT
131 ATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGC
* *
30027004 AGACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAAAAAAAGAAATCAATCCTA
196 AAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAAAAAAAAGAAATCAATCCTA
30027069 TCTCCCTGAAGTTGCAGTGAAACAGATTAAAACCACGGATCT
261 TCTCCCTGAAGTTGCAGTGAAACAGATTAAAACCACGGATCT
* *
30027111 TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCCTTAAAGTTGTAATGGA
1 TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCC-TAAAGTTGCAACGGA
* * * * *
30027176 GCAGACAAAAGAAATCAATCATATCTC-CTTGAAGTTGCTGTGGAGCGGGTTAAAACCACAGATC
65 GCAAACAAAAGAAATCAATCATATATCTC-TGAAGTTGCAGTAGAGCGGGTTAAAACCACAAATC
30027240 TCATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGA
129 TCATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGA
* *
30027305 GCAAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAGACAAAAGAAATCAATCC
194 GCAAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAAAAAAAAGAAATCAATCC
* * * *
30027370 TATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACGGATGT
259 TATCTCCCTGAAGTTGCAGTGAAACAGATTAAAACCACGGATCT
*
30027414 TATCCCCCTGAAGTTGCAGTGGAGCAGACTAAA
1 TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAA
30027447 GATAGCAAAT
Statistics
Matches: 308, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
302 46 0.15
303 262 0.85
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (302 bp):
TATCCCCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCCTAAAGTTGCAACGGAG
CAAACAAAAGAAATCAATCATATATCTCTGAAGTTGCAGTAGAGCGGGTTAAAACCACAAATCTC
ATCTCTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGC
AAACAAAAGAAATCAATCTTATCTCCCTGAAGTTGTAGGGGAGCAAAAAAAAGAAATCAATCCTA
TCTCCCTGAAGTTGCAGTGAAACAGATTAAAACCACGGATCT
Found at i:30027377 original size:173 final size:171
Alignment explanation
Indices: 30027116--30027438 Score: 450
Period size: 173 Copynumber: 1.9 Consensus size: 171
30027106 GATCTTATCC
** * *
30027116 CCCTGAAGTTGCAGTGGAGCGGACTAAAACCAATCTTATATCCCTTAAAGTTGTAATGGAGCAGA
1 CCCTGAAGTTGCAGTGGAGCAAACAAAAACCAATCTTATATCCCTTAAAGTTGTAAGGGAGCAGA
* * * *
30027181 CAAAAGAAATCAATCATATCTCCTTGAAGTTGCTGTGGAGCGGGTTAAAACCACAGATCTCATCT
66 CAAAAGAAATCAATCATATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTCATCC
*
30027246 CTCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCT
131 CCCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCT
* * * *
30027287 CCCTGAAGTTGCAGTGGAGCAAACAAAAGAAATCAATCTTATCTCCC-TGAAGTTGTAGGGGAGC
1 CCCTGAAGTTGCAGTGGAGCAAAC--AA-AAACCAATCTTATATCCCTTAAAGTTGTAAGGGAGC
* * * *
30027351 AGACAAAAGAAATCAATCCTATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACGGATGTTA
63 AGACAAAAGAAATCAATCATATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTCA
*
30027416 TCCCCCTGAAGTTGCAGTGGAGC
128 TCCCCCTGAAGTTGCAGTAGAGC
30027439 AGACTAAAGA
Statistics
Matches: 131, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
171 22 0.17
173 93 0.71
174 16 0.12
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (171 bp):
CCCTGAAGTTGCAGTGGAGCAAACAAAAACCAATCTTATATCCCTTAAAGTTGTAAGGGAGCAGA
CAAAAGAAATCAATCATATCTCCTTGAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTCATCC
CCCTGAAGTTGCAGTAGAGCGGATCGCATCTAGTCTCATCT
Found at i:30031914 original size:41 final size:41
Alignment explanation
Indices: 30031834--30031951 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
30031824 TTTCTACCTT
30031834 TCAGATCTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-AAAAAAGCGCCGCTAATGC
30031876 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* ** *
30031917 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
30031952 AAAAACATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 50 0.69
42 22 0.31
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
Found at i:30032360 original size:14 final size:15
Alignment explanation
Indices: 30032332--30032362 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
30032322 AAGGTTTATA
30032332 GATTATGGAATTAGG
1 GATTATGGAATTAGG
30032347 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
30032361 GA
1 GA
30032363 CTCTGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:30032401 original size:14 final size:14
Alignment explanation
Indices: 30032384--30032435 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
30032374 GGGTTGTGAT
* *
30032384 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
30032398 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
* *
30032412 TTAAGTGTTAGAGG
1 TTAAGGGTTAGGGG
*
30032426 TTAAGAGTTA
1 TTAAGGGTTA
30032436 AGGATTTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:30032405 original size:7 final size:7
Alignment explanation
Indices: 30032384--30032448 Score: 51
Period size: 7 Copynumber: 9.3 Consensus size: 7
30032374 GGGTTGTGAT
*
30032384 TTAAGGT
1 TTAAGGG
*
30032391 TTATGGG
1 TTAAGGG
30032398 TTAAGGG
1 TTAAGGG
*
30032405 TTAGGGG
1 TTAAGGG
*
30032412 TTAAGTG
1 TTAAGGG
30032419 TT-AGAGG
1 TTAAG-GG
*
30032426 TTAAGAG
1 TTAAGGG
*
30032433 TTAAGGA
1 TTAAGGG
*
30032440 TTTAGGG
1 TTAAGGG
30032447 TT
1 TT
30032449 TATAGATTTA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
6 2 0.05
7 40 0.91
8 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (7 bp):
TTAAGGG
Found at i:30032915 original size:76 final size:75
Alignment explanation
Indices: 30032829--30032994 Score: 296
Period size: 76 Copynumber: 2.2 Consensus size: 75
30032819 TAAAAAATTN
* *
30032829 AAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAATATTTAGTG
1 AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAATATTTAGCG
30032894 GCGTTTTTAT
66 GCGTTTTTAT
*
30032904 AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCAAAATATTTAGC
1 -AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAATATTTAGC
30032969 GGCGTTTTTAT
65 GGCGTTTTTAT
30032980 AAAAACGCCACAAAA
1 AAAAACGCCACAAAA
30032995 GGTAAGCAGT
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 15 0.17
76 72 0.83
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (75 bp):
AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAATATTTAGCG
GCGTTTTTAT
Found at i:30033012 original size:115 final size:116
Alignment explanation
Indices: 30032893--30033110 Score: 384
Period size: 115 Copynumber: 1.9 Consensus size: 116
30032883 AATATTTAGT
* *
30032893 GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCA
1 GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACA
* *
30032958 AAATATTTAGCGGCGTTTTTAT-AAAAACGCCACAAAAGGTAAGCAGTAGC
66 AAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAAGGTAAGCAGTAGC
*
30033008 GGCGTTTTTATAAAAAACGCTACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACA
1 GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACA
30033073 AAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAA
66 AAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAA
30033111 AATAATTTTA
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
115 82 0.85
116 15 0.15
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (116 bp):
GGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACA
AAACATTTAGCGGCATTTTTATAAAAAACGCCACAAAAGGTAAGCAGTAGC
Found at i:30033092 original size:76 final size:76
Alignment explanation
Indices: 30033004--30033273 Score: 441
Period size: 76 Copynumber: 3.5 Consensus size: 76
30032994 AGGTAAGCAG
* *
30033004 TAGCGGCGTTTTTATAAAAAACGCTACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAACCATTTTATAT
30033069 AACAAAACATT
66 AACAAAACATT
* *
30033080 TAGCGGCATTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAATCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAACCATTTTATAT
* *
30033145 AGCAAAATATT
66 AACAAAACATT
* * *
30033156 TAGCTGCGTTTTTATAAAAAACGCCACATAAAATAATTTTACTTTAAAAAATAACTATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAACCATTTTATAT
30033221 AACAAAACATT
66 AACAAAACATT
*
30033232 TAGCAGCGTTTTTATAAAAAACGCCACAAAAAAATAATTTTA
1 TAGCGGCGTTTTTATAAAAAACGCCAC-AAAAAATAATTTTA
30033274 TAAAAAAAAT
Statistics
Matches: 178, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
76 165 0.93
77 13 0.07
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (76 bp):
TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAACCATTTTATAT
AACAAAACATT
Found at i:30033167 original size:191 final size:192
Alignment explanation
Indices: 30032829--30033183 Score: 631
Period size: 191 Copynumber: 1.9 Consensus size: 192
30032819 TAAAAAATTN
* * * *
30032829 AAAAATGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAATATTTAGTG
1 AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAAACATTTAGCG
* *
30032894 GCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCAA
66 GCATTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAATCATTTTATATAGCAA
30032959 AATATTTAGCGGCGTTTTTAT-AAAAACGCCACAAAAGGTAAGCAGTAGCGGCGTTTTTATA
131 AATATTTAGCGGCGTTTTTATAAAAAACGCCACAAAAGGTAAGCAGTAGCGGCGTTTTTATA
*
30033020 AAAAACGCTACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAAACATTTAGCG
1 AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAAACATTTAGCG
30033085 GCATTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAATCATTTTATATAGCAA
66 GCATTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAATCATTTTATATAGCAA
*
30033150 AATATTTAGCTGCGTTTTTATAAAAAACGCCACA
131 AATATTTAGCGGCGTTTTTATAAAAAACGCCACA
30033184 TAAAATAATT
Statistics
Matches: 155, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
191 143 0.92
192 12 0.08
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (192 bp):
AAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATATAACAAAACATTTAGCG
GCATTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAATCATTTTATATAGCAA
AATATTTAGCGGCGTTTTTATAAAAAACGCCACAAAAGGTAAGCAGTAGCGGCGTTTTTATA
Found at i:30033340 original size:22 final size:19
Alignment explanation
Indices: 30033307--30033354 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
30033297 TAAAATCCCC
30033307 TTCCCCCAAAATCCCCAACT
1 TTCCCCCAAAATCCCCAA-T
*
30033327 TTCCCTCCTAAAATCCCTAAT
1 TTCCC-CC-AAAATCCCCAAT
30033348 TTCCCCC
1 TTCCCCC
30033355 CTTGAAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.25, C:0.48, G:0.00, T:0.27
Consensus pattern (19 bp):
TTCCCCCAAAATCCCCAAT
Found at i:30034566 original size:24 final size:24
Alignment explanation
Indices: 30034524--30034583 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
30034514 AGAGACTACT
30034524 GTTATCTA-TTCTAAGTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
* *
30034547 TTTATCTATTTCTAATTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
*
30034571 GTTATCGATTTCT
1 GTTATCTATTTCT
30034584 GCCTTCAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (24 bp):
GTTATCTATTTCTAAGTTGTTTAA
Found at i:30037842 original size:43 final size:42
Alignment explanation
Indices: 30037628--30037874 Score: 314
Period size: 43 Copynumber: 5.8 Consensus size: 42
30037618 GAATTGTACT
* ** * *
30037628 TTTAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCATGGTC
30037671 TTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCATGGTC
* *
30037714 TTCAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCATGGTC
* *
30037757 TTTAGCGGCATTTGTGAGAAAAGCGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGC-GCTAAAGGTCATGGTC
* * * *
30037800 TTTAGCGGCGTTTTTGGGAAAAGCACTGCTAAAAGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGC-GCTAAAGGTCATGGTC
* *
30037843 TTTAGTGGCATTTGTGGGAAAAGCGCGCTAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCGCTAAA
30037875 ATTAGCGACG
Statistics
Matches: 180, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
42 7 0.04
43 173 0.96
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCGCTAAAGGTCATGGTC
Found at i:30037843 original size:129 final size:128
Alignment explanation
Indices: 30037628--30037874 Score: 352
Period size: 129 Copynumber: 1.9 Consensus size: 128
30037618 GAATTGTACT
* * *
30037628 TTTAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCAGCATTTGTGAGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAA
* * *
30037693 GCGACGCTAAAGGTCATGGTCTTCAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
66 GCGACGCTAAAAGTCATGGTCTTCAGCGGCATTTGTGGGAAAAGCG-CGCTAAAGGTCATGGTC
* * * *
30037757 TTTAGCGGCATTTGTGAGAAAAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTGGGAAAA
1 TTTAGCAGCATTTGTGAGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAA
* * *
30037822 GC-ACTGCTAAAAGTCTTGGTCTTTAGTGGCATTTGTGGGAAAAGCGCGCTAAA
66 GCGAC-GCTAAAAGTCATGGTCTTCAGCGGCATTTGTGGGAAAAGCGCGCTAAA
30037875 ATTAGCGACG
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
128 9 0.09
129 95 0.91
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (128 bp):
TTTAGCAGCATTTGTGAGAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGAAAA
GCGACGCTAAAAGTCATGGTCTTCAGCGGCATTTGTGGGAAAAGCGCGCTAAAGGTCATGGTC
Found at i:30045637 original size:17 final size:16
Alignment explanation
Indices: 30045599--30045648 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
30045589 GACAATGTGT
* *
30045599 GAGCTATGTCTAAATG
1 GAGCTATGTTTATATG
30045615 GTAGCTATGTTTATATG
1 G-AGCTATGTTTATATG
*
30045632 CGAGCTGTGTTTATATG
1 -GAGCTATGTTTATATG
30045649 TTAATTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 1 0.03
17 27 0.93
18 1 0.03
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (16 bp):
GAGCTATGTTTATATG
Found at i:30045674 original size:17 final size:17
Alignment explanation
Indices: 30045622--30045675 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
30045612 ATGGTAGCTA
**
30045622 TGTTTATATGCGAGCTG
1 TGTTTATATGCGAAATG
** *
30045639 TGTTTATATGTTAATTG
1 TGTTTATATGCGAAATG
30045656 TGTTTATATGCGAAATG
1 TGTTTATATGCGAAATG
30045673 TGT
1 TGT
30045676 GTGAATTATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.48
Consensus pattern (17 bp):
TGTTTATATGCGAAATG
Found at i:30046836 original size:33 final size:33
Alignment explanation
Indices: 30046789--30046854 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
30046779 ATTTACCTAT
*
30046789 ATCAGCTCATTGATCTTCATTCTTTGACTTGAC
1 ATCAGCTCATTGATCTTCATTATTTGACTTGAC
*
30046822 ATCATCTCATTGATCTTCATTATTTGACTTGAC
1 ATCAGCTCATTGATCTTCATTATTTGACTTGAC
30046855 TTTTATGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (33 bp):
ATCAGCTCATTGATCTTCATTATTTGACTTGAC
Found at i:30047180 original size:27 final size:27
Alignment explanation
Indices: 30047161--30047259 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
30047151 TTAGTGTTCT
*
30047161 CCATACGTACTATTCCTTTAGAGTTTG
1 CCATATGTACTATTCCTTTAGAGTTTG
* * *
30047188 CCATGTGTATTATT-CTTTCAGTGTTTG
1 CCATATGTACTATTCCTTT-AGAGTTTG
* * *
30047215 TCATA-GTACTATTCATTTAGAGTTCG
1 CCATATGTACTATTCCTTTAGAGTTTG
*
30047241 CCATATTTACTATTCCTTT
1 CCATATGTACTATTCCTTT
30047260 TCTGTTTACC
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 21 0.38
27 35 0.62
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (27 bp):
CCATATGTACTATTCCTTTAGAGTTTG
Found at i:30047334 original size:26 final size:26
Alignment explanation
Indices: 30047305--30047391 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
30047295 CCACAAATGT
*
30047305 CATTCTTCGAGGCTTGTCATACTTAC
1 CATTCTTCAAGGCTTGTCATACTTAC
* * *
30047331 CATTCTTCAAAGCTAGTCATGAC-TAT
1 CATTCTTCAAGGCTTGTCAT-ACTTAC
* * *
30047357 CATTCTTCTAGGGTTTCTCATACTTAC
1 CATTCTTC-AAGGCTTGTCATACTTAC
30047384 CATTCTTC
1 CATTCTTC
30047392 TCTGTCAGGG
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
26 29 0.60
27 19 0.40
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.40
Consensus pattern (26 bp):
CATTCTTCAAGGCTTGTCATACTTAC
Found at i:30052613 original size:33 final size:33
Alignment explanation
Indices: 30052576--30052642 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
30052566 TTTTGTCGAG
30052576 GTAAGTTCGTATAAGGATTTAAATTCATTAATT
1 GTAAGTTCGTATAAGGATTTAAATTCATTAATT
*
30052609 GTAAGTTTGTATAAGGATTTAAATTCATTAATT
1 GTAAGTTCGTATAAGGATTTAAATTCATTAATT
30052642 G
1 G
30052643 ATGTTTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.43
Consensus pattern (33 bp):
GTAAGTTCGTATAAGGATTTAAATTCATTAATT
Found at i:30054161 original size:53 final size:53
Alignment explanation
Indices: 30054060--30054161 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
30054050 ATTTTGGTGC
* * * *
30054060 CCACATAGTCATAGAGAGTCACATGATCTGGCGACATGGCTGTTTGACCTGAA
1 CCACATAGTCACAGAGAGTCACATGACCTGGCAACATGGCTGTGTGACCTGAA
* * *
30054113 CCACATGGTCACAGAGAGTTACATGGCCTGGCAACATGG-TCGTGTGACC
1 CCACATAGTCACAGAGAGTCACATGACCTGGCAACATGGCT-GTGTGACC
30054162 CTATTTTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.02
53 40 0.98
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (53 bp):
CCACATAGTCACAGAGAGTCACATGACCTGGCAACATGGCTGTGTGACCTGAA
Done.