Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 83 of 141
Found at i:23814441 original size:21 final size:21
Alignment explanation
Indices: 23814417--23814459 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23814407 ATAGTTACCT
23814417 ATCCATAACCCCTAACCCCTA
1 ATCCATAACCCCTAACCCCTA
* *
23814438 ATCCTTAACCTCTAACCCCTA
1 ATCCATAACCCCTAACCCCTA
23814459 A
1 A
23814460 CCCCTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (21 bp):
ATCCATAACCCCTAACCCCTA
Found at i:23814698 original size:20 final size:20
Alignment explanation
Indices: 23814653--23814714 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
23814643 AATTTATCTA
*
23814653 AACCCTAAACC-CTAA-CCCA
1 AACCCT-AACCTCTAACCCCT
23814672 AATCCCTAACCTCTAACCCCT
1 AA-CCCTAACCTCTAACCCCT
23814693 AACCCTAA-CTACTAACCCCT
1 AACCCTAACCT-CTAACCCCT
23814713 AA
1 AA
23814715 ACCTTATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 8 0.21
20 25 0.66
21 5 0.13
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (20 bp):
AACCCTAACCTCTAACCCCT
Found at i:23814700 original size:13 final size:13
Alignment explanation
Indices: 23814653--23814701 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
23814643 AATTTATCTA
*
23814653 AACCCTAAACCCT
1 AACCCTAACCCCT
* *
23814666 AACCCAAATCCCT
1 AACCCTAACCCCT
23814679 AACCTCTAACCCCT
1 AACC-CTAACCCCT
23814693 AACCCTAAC
1 AACCCTAAC
23814702 TACTAACCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 20 0.65
14 11 0.35
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTAACCCCT
Found at i:23814708 original size:103 final size:103
Alignment explanation
Indices: 23814575--23814797 Score: 446
Period size: 103 Copynumber: 2.2 Consensus size: 103
23814565 TCACAACTCT
23814575 TAACCTCTAACCCCTAACCCTAACTACTAACCCCTAAACCTTATTTAATATATAAATTTAAAAAC
1 TAACCTCTAACCCCTAACCCTAACTACTAACCCCTAAACCTTATTTAATATATAAATTTAAAAAC
23814640 ACTAATTTATCTAAACCCTAAACCCTAACCCAAATCCC
66 ACTAATTTATCTAAACCCTAAACCCTAACCCAAATCCC
23814678 TAACCTCTAACCCCTAACCCTAACTACTAACCCCTAAACCTTATTTAATATATAAATTTAAAAAC
1 TAACCTCTAACCCCTAACCCTAACTACTAACCCCTAAACCTTATTTAATATATAAATTTAAAAAC
23814743 ACTAATTTATCTAAACCCTAAACCCTAACCCAAATCCC
66 ACTAATTTATCTAAACCCTAAACCCTAACCCAAATCCC
23814781 TAACCTCTAACCCCTAA
1 TAACCTCTAACCCCTAA
23814798 ATCTTATTTA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 120 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (103 bp):
TAACCTCTAACCCCTAACCCTAACTACTAACCCCTAAACCTTATTTAATATATAAATTTAAAAAC
ACTAATTTATCTAAACCCTAAACCCTAACCCAAATCCC
Found at i:23814714 original size:7 final size:7
Alignment explanation
Indices: 23814650--23814714 Score: 53
Period size: 7 Copynumber: 9.6 Consensus size: 7
23814640 ACTAATTTAT
*
23814650 CTAAACC
1 CTAACCC
*
23814657 CTAAACC
1 CTAACCC
23814664 CTAA-CC
1 CTAACCC
* *
23814670 CAAATCC
1 CTAACCC
*
23814677 CTAACCT
1 CTAACCC
23814684 CTAACCC
1 CTAACCC
23814691 CTAA-CC
1 CTAACCC
**
23814697 CTAACTA
1 CTAACCC
23814704 CTAACCC
1 CTAACCC
23814711 CTAA
1 CTAA
23814715 ACCTTATTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 11 0.23
7 36 0.77
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAACCC
Found at i:23814762 original size:83 final size:80
Alignment explanation
Indices: 23814675--23814844 Score: 204
Period size: 83 Copynumber: 2.1 Consensus size: 80
23814665 TAACCCAAAT
*
23814675 CCCTAACCTCTAACCCCTAA-CCCTAA-CTACTAACCCCTAAACCTTATTTAATATATAAATTTA
1 CCCTAACC-CTAA-CCCAAATCCCTAACCT-CTAACCCCTAAACCTTATTT-A-ATATAAA-TTA
23814738 AAA-ACACTAATTTA-TCTAAA
60 AAACACACTAA-TTAGTCTAAA
*
23814758 CCCTAAACCCTAACCCAAATCCCTAACCTCTAACCCCTAAATCTTATTTAATATAAATTAAAACA
1 CCCT-AACCCTAACCCAAATCCCTAACCTCTAACCCCTAAACCTTATTTAATATAAATTAAAACA
* *
23814823 TACTGATTAGTCTAAA
65 CACTAATTAGTCTAAA
23814839 CCCTAA
1 CCCTAA
23814845 AGCCTAACTT
Statistics
Matches: 78, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
80 11 0.14
81 22 0.28
82 6 0.08
83 33 0.42
84 6 0.08
ACGTcount: A:0.41, C:0.29, G:0.01, T:0.29
Consensus pattern (80 bp):
CCCTAACCCTAACCCAAATCCCTAACCTCTAACCCCTAAACCTTATTTAATATAAATTAAAACAC
ACTAATTAGTCTAAA
Found at i:23814781 original size:13 final size:13
Alignment explanation
Indices: 23814756--23814797 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
23814746 AATTTATCTA
23814756 AACCCTAAACCCT
1 AACCCTAAACCCT
23814769 AACCC-AAATCCCT
1 AACCCTAAA-CCCT
*
23814782 AACCTCTAACCCCT
1 AACC-CTAAACCCT
23814796 AA
1 AA
23814798 ATCTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 3 0.12
13 13 0.52
14 7 0.28
15 2 0.08
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:23815423 original size:41 final size:41
Alignment explanation
Indices: 23815361--23815637 Score: 356
Period size: 41 Copynumber: 6.8 Consensus size: 41
23815351 ATAAAATATT
23815361 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
* *
23815402 TTAGTGGCGCTTTTCCAAAAACGCCGCTAAAGATCTTAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
* * *
23815443 TTAGTGGGGCTTTTCCAAAAACGCCGCTAAAGCTCTGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
* * *
23815484 TTAGCGACGCTTCTCCAAAAACGCCGCTAAAGCTCTGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
* * * * **
23815525 TTAGCAGCGATTTTTCAACAACGCCGCTAAATCTCTGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
* * * * *
23815566 TTAGTGGCGCTTCTCCAAAAACGCCGCTAAAGACCAGGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
* **
23815607 TTAGCAGCGCTTTTTAAAAAACGCCGCTAAA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAA
23815638 ATCCCTAAAG
Statistics
Matches: 204, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 204 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
Found at i:23818525 original size:26 final size:28
Alignment explanation
Indices: 23818491--23818559 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
23818481 CTTGACCCAA
23818491 ATAT-ATTATATTATAAA-AACAATTAT
1 ATATAATTATATTATAAATAACAATTAT
* *
23818517 AT-TAATTATATATGTTAAATAATAATTAT
1 ATATAATTATAT-T-ATAAATAACAATTAT
*
23818546 ATATATTTATATTA
1 ATATAATTATATTA
23818560 AATCACTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
25 1 0.03
26 9 0.26
27 1 0.03
28 4 0.12
29 11 0.32
30 8 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATAATTATATTATAAATAACAATTAT
Found at i:23821257 original size:43 final size:42
Alignment explanation
Indices: 23821138--23821263 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 42
23821128 CGTACAATGC
* * *
23821138 CAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATG
1 CAACGTCCCAGACGTGGTCTTACACGAAAACACATATCGATG
* * * *
23821180 CCACTGTCCTAGACAG-GGTCTTACAC-ATACACACAAATCGATGG
1 CAAC-GTCCCAGAC-GTGGTCTTACACGA-AAACACATATCGAT-G
*
23821224 CAACGTCCCAGACGTAGTCTTACACGAAAACACATATCGA
1 CAACGTCCCAGACGTGGTCTTACACGAAAACACATATCGA
23821264 AAATCCTATC
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
42 4 0.06
43 56 0.85
44 6 0.09
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTTACACGAAAACACATATCGATG
Found at i:23825573 original size:42 final size:42
Alignment explanation
Indices: 23825430--23825564 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 42
23825420 AACACATGCA
* * * * *
23825430 CATGTCCTTGCCCATGTGGCTCACATGGCCTGGGCACACATC
1 CATGTCCTTACCCGTGTGACTCACACGGCCTGGGCACACACC
* * *
23825472 TATGTCCTTACCCGTGAGGA-TCACACGGCTTGGGCACACACC
1 CATGTCCTTACCCGTG-TGACTCACACGGCCTGGGCACACACC
**
23825514 CATGTCCTTACCCGTGTGACTCACACGGCCTGGGCACATGCC
1 CATGTCCTTACCCGTGTGACTCACACGGCCTGGGCACACACC
23825556 CATGTCCTT
1 CATGTCCTT
23825565 GGCTGTGTGG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.03
42 75 0.96
43 1 0.01
ACGTcount: A:0.18, C:0.36, G:0.23, T:0.24
Consensus pattern (42 bp):
CATGTCCTTACCCGTGTGACTCACACGGCCTGGGCACACACC
Found at i:23826873 original size:32 final size:32
Alignment explanation
Indices: 23826832--23826897 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
23826822 GGACTAATTG
23826832 CCCATTTTTTAAGTAGATGAGCAAAATGCAAT
1 CCCATTTTTTAAGTAGATGAGCAAAATGCAAT
23826864 CCCATTTTTTAAGTAGATGAGCAAAATGCAAT
1 CCCATTTTTTAAGTAGATGAGCAAAATGCAAT
23826896 CC
1 CC
23826898 AACTCCTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (32 bp):
CCCATTTTTTAAGTAGATGAGCAAAATGCAAT
Found at i:23827398 original size:33 final size:33
Alignment explanation
Indices: 23827344--23827423 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 33
23827334 AATATAAAAT
23827344 TTTAA-ATA-TTATTATATTTAATACAATAAAACA
1 TTTAATATATTTATT-T-TTTAATACAATAAAACA
* * * *
23827377 TTTATTTTATTTATTTTTTAATATAATAAAATA
1 TTTAATATATTTATTTTTTAATACAATAAAACA
23827410 TTTAATATATTTAT
1 TTTAATATATTTAT
23827424 GGTAGTGGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 31 0.79
34 3 0.08
35 5 0.13
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (33 bp):
TTTAATATATTTATTTTTTAATACAATAAAACA
Found at i:23830205 original size:18 final size:19
Alignment explanation
Indices: 23830182--23830225 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
23830172 TAAAATTTAT
23830182 TAAAAATT-AGAAAAAAT-A
1 TAAAAATTGA-AAAAAATCA
23830200 TAAAAATTGTAAAAAAATCA
1 TAAAAATTG-AAAAAAATCA
23830220 TAAAAA
1 TAAAAA
23830226 AATTGTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (19 bp):
TAAAAATTGAAAAAAATCA
Found at i:23830215 original size:11 final size:11
Alignment explanation
Indices: 23830201--23830234 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
23830191 GAAAAAATAT
23830201 AAAAATTGTAA
1 AAAAATTGTAA
**
23830212 AAAAATCATAA
1 AAAAATTGTAA
23830223 AAAAATTGTAA
1 AAAAATTGTAA
23830234 A
1 A
23830235 TTTTGTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (11 bp):
AAAAATTGTAA
Found at i:23830235 original size:29 final size:29
Alignment explanation
Indices: 23830192--23830263 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
23830182 TAAAAATTAG
*
23830192 AAAAAATATAAAAATTGTAAAAAAATCATA
1 AAAAAAT-TATAAATTGTAAAAAAATCATA
* * ** *
23830222 AAAAAATTGTAAATTTTGTAAAAATCATT
1 AAAAAATTATAAATTGTAAAAAAATCATA
23830251 AAAAAATTATAAA
1 AAAAAATTATAAA
23830264 ATGCATCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 28 0.80
30 7 0.20
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (29 bp):
AAAAAATTATAAATTGTAAAAAAATCATA
Found at i:23830264 original size:9 final size:9
Alignment explanation
Indices: 23830125--23830214 Score: 67
Period size: 9 Copynumber: 9.9 Consensus size: 9
23830115 GACCATTAAC
23830125 TATAAAAAT
1 TATAAAAAT
*
23830134 CAATAAAAAT
1 -TATAAAAAT
23830144 TATAAAAAT
1 TATAAAAAT
*
23830153 TAT-GAAAT
1 TATAAAAAT
*
23830161 TTTAATAAA-
1 TATAA-AAAT
* *
23830170 AATAAAATT
1 TATAAAAAT
23830179 TATTAAAAAT
1 TA-TAAAAAT
* *
23830189 TAGAAAAAA
1 TATAAAAAT
23830198 TATAAAAAT
1 TATAAAAAT
*
23830207 TGTAAAAA
1 TATAAAAA
23830215 AATCATAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 9
0.72 0.18 0.11
Matches are distributed among these distances:
8 8 0.13
9 34 0.56
10 19 0.31
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (9 bp):
TATAAAAAT
Found at i:23830471 original size:20 final size:20
Alignment explanation
Indices: 23830446--23830501 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
23830436 GTATGATAAC
23830446 TTTTATAATTTTTTTACAAA
1 TTTTATAATTTTTTTACAAA
* ***
23830466 TTTTAT-ATTTCTTTACCTT
1 TTTTATAATTTTTTTACAAA
*
23830485 TTTTATAATTTTATTAC
1 TTTTATAATTTTTTTAC
23830502 GACTTCATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAA
Found at i:23830552 original size:18 final size:19
Alignment explanation
Indices: 23830513--23830558 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
23830503 ACTTCATAAT
*
23830513 TTTTTATAATTTTTCTATA
1 TTTTTATAATTTTTCTAGA
23830532 -TTTTATAATTTTT-TACGA
1 TTTTTATAATTTTTCTA-GA
23830550 TTTTTATAA
1 TTTTTATAA
23830559 ATTTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 8 0.33
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTTTCTAGA
Found at i:23830562 original size:28 final size:28
Alignment explanation
Indices: 23830508--23830562 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
23830498 TTACGACTTC
* * *
23830508 ATAATTTTTTATAATTTTTCTATATTTT
1 ATAATTTTTTACAATTTTTATAAATTTT
*
23830536 ATAATTTTTTACGATTTTTATAAATTT
1 ATAATTTTTTACAATTTTTATAAATTT
23830563 ATTTCTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (28 bp):
ATAATTTTTTACAATTTTTATAAATTTT
Found at i:23835790 original size:41 final size:41
Alignment explanation
Indices: 23835757--23835863 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
23835747 CACTGGCACA
23835757 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
*
23835798 AAGTCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
* * * *
23835839 AAGTCTGCTAGGCATTAAGCCTGAA
1 AAGCCTGCTAGACATAAAGTCTGAA
23835864 AATATCAGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (41 bp):
AAGCCTGCTAGACATAAAGTCTGAAGTAATTCACCGACATC
Found at i:23836043 original size:76 final size:76
Alignment explanation
Indices: 23835952--23836105 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 76
23835942 GAATTGAATT
23835952 ATATTCAATTCTTCATAGCAAACAAACATTCGAACCACATATGTATAATTTACAACATTAAAATT
1 ATATTCAATTCTTCATAGCAAACAAACATTCGAACCACATATGTATAATTTACAACATTAAAATT
*
23836017 TAGCTCAAAGA
66 CAGCTCAAAGA
23836028 ATATTCAATTCTTCATAGCAAACAAACATTCGAACCACATATGTATAATTTACAACATTAAAATT
1 ATATTCAATTCTTCATAGCAAACAAACATTCGAACCACATATGTATAATTTACAACATTAAAATT
23836093 CAGCTCAAAGA
66 CAGCTCAAAGA
23836104 AT
1 AT
23836106 TTGTAACCTA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (76 bp):
ATATTCAATTCTTCATAGCAAACAAACATTCGAACCACATATGTATAATTTACAACATTAAAATT
CAGCTCAAAGA
Found at i:23836173 original size:64 final size:63
Alignment explanation
Indices: 23836055--23836235 Score: 253
Period size: 64 Copynumber: 2.9 Consensus size: 63
23836045 GCAAACAAAC
*
23836055 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
23836116 T
63 T
23836117 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* * *
23836181 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAACTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
23836236 AAATATATAT
Statistics
Matches: 109, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
62 17 0.16
63 6 0.06
64 76 0.70
65 10 0.09
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:23837345 original size:31 final size:28
Alignment explanation
Indices: 23837302--23837361 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
23837292 CTTAAGTTTT
23837302 TTTATTAGTATAATAACTTTATAATATATTA
1 TTTATTAGTAT-A-AACTTTATAAT-TATTA
* *
23837333 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTAGTATAAACTTTATAATTATTA
23837361 T
1 T
23837362 AAAAACTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 6 0.22
29 10 0.37
30 1 0.04
31 10 0.37
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (28 bp):
TTTATTAGTATAAACTTTATAATTATTA
Found at i:23839010 original size:38 final size:34
Alignment explanation
Indices: 23838963--23839035 Score: 101
Period size: 34 Copynumber: 2.0 Consensus size: 34
23838953 TTTTGAAACC
23838963 ATTAACTCTTTATTCTTTTTGGCTACATGAACCAATTA
1 ATTAACTC-TT-TT-TTTTT-GCTACATGAACCAATTA
*
23839001 ATTAACTCTTTTTTTTTGTTACATGAACCAATTA
1 ATTAACTCTTTTTTTTTGCTACATGAACCAATTA
23839035 A
1 A
23839036 CTTTGATCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
34 17 0.50
35 5 0.15
36 2 0.06
37 2 0.06
38 8 0.24
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (34 bp):
ATTAACTCTTTTTTTTTGCTACATGAACCAATTA
Found at i:23841964 original size:27 final size:27
Alignment explanation
Indices: 23841934--23841998 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
23841924 AAATATTCTC
*
23841934 TAAATTAATAAAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTAACGA
*
23841961 TAAATTAATAAAATATTTATTTAACGA
1 TAAATTAATAAAATATTAATTTAACGA
*
23841988 TAAACTAATAA
1 TAAATTAATAA
23841999 CCTCGATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTAACGA
Found at i:23845957 original size:45 final size:45
Alignment explanation
Indices: 23845881--23845966 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
23845871 GCTATACCTA
* *
23845881 AAATAAGTAAGACCATAGTTGAAAAATGCTATGACATCATGATGG
1 AAATAAGTAAGACCATAGATGAAAAACGCTATGACATCATGATGG
* * **
23845926 AAATGAGTAAGACCATGGATGAATGACGCTATGACATCATG
1 AAATAAGTAAGACCATAGATGAAAAACGCTATGACATCATG
23845967 GTAAAAAGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (45 bp):
AAATAAGTAAGACCATAGATGAAAAACGCTATGACATCATGATGG
Found at i:23849066 original size:81 final size:81
Alignment explanation
Indices: 23848931--23849080 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
23848921 TGTCTTGGTG
* *
23848931 GAGGTTGCTCGTTGTATTACTATGATCTGCTACTAATCTCGACGAAGAATGAAGTATACCATGCC
1 GAGGTTGCTCATTGTATTACTATGATCTGCTACTAATCTCAACGAAGAATGAAGTATACCATGCC
23848996 TTGCAAATGCTTAGTA
66 TTGCAAATGCTTAGTA
* * * * *
23849012 GAGGTTGGTCATTGTATTACTATGATTTGCTAC-AGGTCTCAACGATGGATGAAGTATACCATGC
1 GAGGTTGCTCATTGTATTACTATGATCTGCTACTA-ATCTCAACGAAGAATGAAGTATACCATGC
23849076 CTTGC
65 CTTGC
23849081 GAGTGCTCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.02
81 60 0.98
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (81 bp):
GAGGTTGCTCATTGTATTACTATGATCTGCTACTAATCTCAACGAAGAATGAAGTATACCATGCC
TTGCAAATGCTTAGTA
Found at i:23850868 original size:15 final size:15
Alignment explanation
Indices: 23850848--23850878 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23850838 GTCATGTAAG
23850848 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
23850863 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
23850878 T
1 T
23850879 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:23851068 original size:17 final size:17
Alignment explanation
Indices: 23851035--23851073 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
23851025 TAAGCTTTTG
23851035 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
23851052 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
23851069 ATTTT
1 ATTTT
23851074 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:23851839 original size:15 final size:15
Alignment explanation
Indices: 23851815--23851844 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23851805 TGGAGATCGA
*
23851815 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
23851830 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
23851845 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:23855226 original size:15 final size:15
Alignment explanation
Indices: 23855206--23855236 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23855196 GTCATGTAAG
23855206 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
23855221 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
23855236 T
1 T
23855237 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:23855426 original size:17 final size:17
Alignment explanation
Indices: 23855393--23855431 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
23855383 TAAGCTTTTG
23855393 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
23855410 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
23855427 ATTTT
1 ATTTT
23855432 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:23856197 original size:15 final size:15
Alignment explanation
Indices: 23856173--23856202 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23856163 TGGAGATCGA
*
23856173 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
23856188 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
23856203 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:23859769 original size:17 final size:17
Alignment explanation
Indices: 23859736--23859774 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
23859726 TAAGCTTTTG
23859736 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
23859753 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
23859770 ATTTT
1 ATTTT
23859775 CCACAGCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:23882274 original size:18 final size:17
Alignment explanation
Indices: 23882246--23882280 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23882236 ATTATTAAGA
*
23882246 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23882263 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23882281 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23882471 original size:39 final size:40
Alignment explanation
Indices: 23882428--23882532 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
23882418 TTTCATTATG
23882428 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
23882467 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
23882512 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
23882533 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:23882526 original size:45 final size:44
Alignment explanation
Indices: 23882426--23882535 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
23882416 TTTTTCATTA
23882426 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
23882465 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
23882510 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
23882536 CCTCTAATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:23882535 original size:16 final size:16
Alignment explanation
Indices: 23882514--23882583 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
23882504 TTGATTTGCT
*
23882514 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
23882530 ATTACACCTCTAATCT
1 ATTACACCTCTAATCC
23882546 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
23882562 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
23882578 AATACA
1 ATTACA
23882584 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:23891033 original size:25 final size:24
Alignment explanation
Indices: 23890997--23891049 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
23890987 ACATACTGTA
*
23890997 GCTCTTTATGAGCATCTTGATATAG
1 GCTCTTTATGAGCATCCTGATAT-G
* *
23891022 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATGAGCATCCTGATATG
23891046 GCTC
1 GCTC
23891050 GCTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCTGATATG
Found at i:23896233 original size:21 final size:21
Alignment explanation
Indices: 23896204--23896368 Score: 106
Period size: 21 Copynumber: 8.0 Consensus size: 21
23896194 CGAACACGCC
*
23896204 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* *
23896225 AATAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
*
23896246 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
* * ** * *
23896267 ATC--CA-C-CCAAATCATGC-C
1 AACAGAAGCTCGTAA-GA-GCTA
**
23896285 AACAGAAGCTTATAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
** *
23896306 AACAGAAGCTCAAAAGAGTTAA
1 AACAGAAGCTCGTAAGAGCT-A
* *
23896328 AAAAGAAGCTCGTAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTA
*
23896349 CACAGAAGCTCGTAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
23896369 GATCCTCCCG
Statistics
Matches: 109, Mismatches: 27, Indels: 16
0.72 0.18 0.11
Matches are distributed among these distances:
17 3 0.03
18 4 0.04
19 3 0.03
20 3 0.03
21 77 0.71
22 19 0.17
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:23896302 original size:81 final size:81
Alignment explanation
Indices: 23896166--23896347 Score: 231
Period size: 81 Copynumber: 2.2 Consensus size: 81
23896156 GTACATCGTC
* * ** * *
23896166 AACAGAAGCTCATAAGAGCTGGTCCTTCCGAACACGCCAACAGAAGCTCATAAGAGCTAAATAGA
1 AACAGAAGCTCGTAAGAGCTGATCCACCCAAACACGCCAACAGAAGCTCATAAGAGCTAAACAGA
** *
23896231 AGCTCGTAAGAGCT-G
66 AGCTCAAAAGAGCTAA
* *
23896246 AACAGAAGCTCGTAAGAGCTGATCCACCCAAATCATGCCAACAGAAGCTTATAAGAGCTAAACAG
1 AACAGAAGCTCGTAAGAGCTGATCCACCCAAA-CACGCCAACAGAAGCTCATAAGAGCTAAACAG
*
23896311 AAGCTCAAAAGAGTTAA
65 AAGCTCAAAAGAGCTAA
*
23896328 AAAAGAAGCTCGTAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
23896348 TCACAGAAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 27 0.31
81 41 0.47
82 19 0.22
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (81 bp):
AACAGAAGCTCGTAAGAGCTGATCCACCCAAACACGCCAACAGAAGCTCATAAGAGCTAAACAGA
AGCTCAAAAGAGCTAA
Found at i:23896347 original size:103 final size:103
Alignment explanation
Indices: 23896204--23896395 Score: 296
Period size: 103 Copynumber: 1.9 Consensus size: 103
23896194 CGAACACGCC
* *
23896204 AACAGAAGCTCATAAGAGCTAAATAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTGAT
1 AACAGAAGCTCAAAAGAGCTAAAAAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTGAT
*
23896269 CCACCCAAATCATGCCA-ACAGAAGCTTATAAGAGCTA
66 CCACCCAAATCACGCCACACAGAAGCTTATAAGAGCTA
* **
23896306 AACAGAAGCTCAAAAGAGTTAAAAAAGAAGCTCGTAAGAGCTTCACAGAAGCTCGTAAGAGCTGA
1 AACAGAAGCTCAAAAGAGCT-AAAAAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTGA
* *
23896371 TCCTCCCGAATCACGCCACACAGAA
65 TCCACCCAAATCACGCCACACAGAA
23896396 AGTAAAACGC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 18 0.22
103 56 0.70
104 6 0.08
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (103 bp):
AACAGAAGCTCAAAAGAGCTAAAAAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTGAT
CCACCCAAATCACGCCACACAGAAGCTTATAAGAGCTA
Found at i:23897809 original size:21 final size:21
Alignment explanation
Indices: 23897780--23897944 Score: 106
Period size: 21 Copynumber: 8.0 Consensus size: 21
23897770 CGAACACGCC
*
23897780 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* *
23897801 AATAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
*
23897822 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
* * ** * *
23897843 ATC--CA-C-CCAAATCATGC-C
1 AACAGAAGCTCGTAA-GA-GCTA
**
23897861 AACAGAAGCTTATAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
** *
23897882 AACAGAAGCTCAAAAGAGTTAA
1 AACAGAAGCTCGTAAGAGCT-A
* *
23897904 AAAAGAAGCTCGTAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTA
*
23897925 CACAGAAGCTCGTAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
23897945 GATCCTCCCG
Statistics
Matches: 109, Mismatches: 27, Indels: 16
0.72 0.18 0.11
Matches are distributed among these distances:
17 3 0.03
18 4 0.04
19 3 0.03
20 3 0.03
21 77 0.71
22 19 0.17
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:23897878 original size:81 final size:81
Alignment explanation
Indices: 23897742--23897923 Score: 231
Period size: 81 Copynumber: 2.2 Consensus size: 81
23897732 GTACATCGTC
* * ** * *
23897742 AACAGAAGCTCATAAGAGCTGGTCCTTCCGAACACGCCAACAGAAGCTCATAAGAGCTAAATAGA
1 AACAGAAGCTCGTAAGAGCTGATCCACCCAAACACGCCAACAGAAGCTCATAAGAGCTAAACAGA
** *
23897807 AGCTCGTAAGAGCT-G
66 AGCTCAAAAGAGCTAA
* *
23897822 AACAGAAGCTCGTAAGAGCTGATCCACCCAAATCATGCCAACAGAAGCTTATAAGAGCTAAACAG
1 AACAGAAGCTCGTAAGAGCTGATCCACCCAAA-CACGCCAACAGAAGCTCATAAGAGCTAAACAG
*
23897887 AAGCTCAAAAGAGTTAA
65 AAGCTCAAAAGAGCTAA
*
23897904 AAAAGAAGCTCGTAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
23897924 TCACAGAAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 27 0.31
81 41 0.47
82 19 0.22
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (81 bp):
AACAGAAGCTCGTAAGAGCTGATCCACCCAAACACGCCAACAGAAGCTCATAAGAGCTAAACAGA
AGCTCAAAAGAGCTAA
Found at i:23897923 original size:103 final size:103
Alignment explanation
Indices: 23897780--23897971 Score: 296
Period size: 103 Copynumber: 1.9 Consensus size: 103
23897770 CGAACACGCC
* *
23897780 AACAGAAGCTCATAAGAGCTAAATAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTGAT
1 AACAGAAGCTCAAAAGAGCTAAAAAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTGAT
*
23897845 CCACCCAAATCATGCCA-ACAGAAGCTTATAAGAGCTA
66 CCACCCAAATCACGCCACACAGAAGCTTATAAGAGCTA
* **
23897882 AACAGAAGCTCAAAAGAGTTAAAAAAGAAGCTCGTAAGAGCTTCACAGAAGCTCGTAAGAGCTGA
1 AACAGAAGCTCAAAAGAGCT-AAAAAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTGA
* *
23897947 TCCTCCCGAATCACGCCACACAGAA
65 TCCACCCAAATCACGCCACACAGAA
23897972 AGTAAAACGC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 18 0.22
103 56 0.70
104 6 0.08
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (103 bp):
AACAGAAGCTCAAAAGAGCTAAAAAGAAGCTCGTAAGAGCTGAACAGAAGCTCGTAAGAGCTGAT
CCACCCAAATCACGCCACACAGAAGCTTATAAGAGCTA
Found at i:23900754 original size:14 final size:14
Alignment explanation
Indices: 23900735--23900761 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23900725 TTTTCAAAAT
23900735 TCCAATGTCTAATG
1 TCCAATGTCTAATG
23900749 TCCAATGTCTAAT
1 TCCAATGTCTAAT
23900762 ATTTTGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (14 bp):
TCCAATGTCTAATG
Found at i:23908480 original size:27 final size:27
Alignment explanation
Indices: 23908442--23908524 Score: 157
Period size: 27 Copynumber: 3.1 Consensus size: 27
23908432 TCTATTTGCT
23908442 AAGTTCAAAATAAATAATTACTTTACA
1 AAGTTCAAAATAAATAATTACTTTACA
*
23908469 AAGTTCAAAATAAATAATTACTTCACA
1 AAGTTCAAAATAAATAATTACTTTACA
23908496 AAGTTCAAAATAAATAATTACTTTACA
1 AAGTTCAAAATAAATAATTACTTTACA
23908523 AA
1 AA
23908525 ATAAATTAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (27 bp):
AAGTTCAAAATAAATAATTACTTTACA
Found at i:23909674 original size:30 final size:30
Alignment explanation
Indices: 23909640--23909707 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
23909630 AGTTGAACAA
* *
23909640 TTATAGCAATTTGTGTATTTTCTTGAATTG
1 TTATAGCAATTTGTGTATTTTATTGAATGG
* * *
23909670 TTATAGTAATTTTTGTGTTTTATTGAATGG
1 TTATAGCAATTTGTGTATTTTATTGAATGG
*
23909700 TTGTAGCA
1 TTATAGCA
23909708 GCTAACCGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.53
Consensus pattern (30 bp):
TTATAGCAATTTGTGTATTTTATTGAATGG
Found at i:23911873 original size:21 final size:21
Alignment explanation
Indices: 23911847--23911889 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
23911837 GATATGCATA
23911847 GTGAAATGAATACTCATTTCT
1 GTGAAATGAATACTCATTTCT
23911868 GTGAAATGAATACTCATTTCT
1 GTGAAATGAATACTCATTTCT
23911889 G
1 G
23911890 AGAGTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (21 bp):
GTGAAATGAATACTCATTTCT
Found at i:23917336 original size:257 final size:257
Alignment explanation
Indices: 23916880--23917394 Score: 1030
Period size: 257 Copynumber: 2.0 Consensus size: 257
23916870 CTAAAAGCCC
23916880 GAAATTTGGTTGTCAACACTTGGTGTCCGATGTGTCAAACTGAAGAGGAATCGGCGGATCACCTT
1 GAAATTTGGTTGTCAACACTTGGTGTCCGATGTGTCAAACTGAAGAGGAATCGGCGGATCACCTT
23916945 TTTAGACGTTGCTTATTCACGCAGCAAGTCTTGCGGGGTTTGGGAATGGCAGTCCCAACATGCAA
66 TTTAGACGTTGCTTATTCACGCAGCAAGTCTTGCGGGGTTTGGGAATGGCAGTCCCAACATGCAA
23917010 CAGAGAGAACAGTTGGAAGAAGTGGTTAGCAACAGAATTTGAAAACCAGAGCCTAGATGCATGTA
131 CAGAGAGAACAGTTGGAAGAAGTGGTTAGCAACAGAATTTGAAAACCAGAGCCTAGATGCATGTA
23917075 AAATTAGAGCTATTACATTTTGGGCAATCTAGCATAATCGTAAGAAGCTTTATCATGATGGA
196 AAATTAGAGCTATTACATTTTGGGCAATCTAGCATAATCGTAAGAAGCTTTATCATGATGGA
23917137 GAAATTTGGTTGTCAACACTTGGTGTCCGATGTGTCAAACTGAAGAGGAATCGGCGGATCACCTT
1 GAAATTTGGTTGTCAACACTTGGTGTCCGATGTGTCAAACTGAAGAGGAATCGGCGGATCACCTT
23917202 TTTAGACGTTGCTTATTCACGCAGCAAGTCTTGCGGGGTTTGGGAATGGCAGTCCCAACATGCAA
66 TTTAGACGTTGCTTATTCACGCAGCAAGTCTTGCGGGGTTTGGGAATGGCAGTCCCAACATGCAA
23917267 CAGAGAGAACAGTTGGAAGAAGTGGTTAGCAACAGAATTTGAAAACCAGAGCCTAGATGCATGTA
131 CAGAGAGAACAGTTGGAAGAAGTGGTTAGCAACAGAATTTGAAAACCAGAGCCTAGATGCATGTA
23917332 AAATTAGAGCTATTACATTTTGGGCAATCTAGCATAATCGTAAGAAGCTTTATCATGATGGA
196 AAATTAGAGCTATTACATTTTGGGCAATCTAGCATAATCGTAAGAAGCTTTATCATGATGGA
23917394 G
1 G
23917395 TACGAGAGTC
Statistics
Matches: 258, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
257 258 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (257 bp):
GAAATTTGGTTGTCAACACTTGGTGTCCGATGTGTCAAACTGAAGAGGAATCGGCGGATCACCTT
TTTAGACGTTGCTTATTCACGCAGCAAGTCTTGCGGGGTTTGGGAATGGCAGTCCCAACATGCAA
CAGAGAGAACAGTTGGAAGAAGTGGTTAGCAACAGAATTTGAAAACCAGAGCCTAGATGCATGTA
AAATTAGAGCTATTACATTTTGGGCAATCTAGCATAATCGTAAGAAGCTTTATCATGATGGA
Found at i:23918917 original size:85 final size:86
Alignment explanation
Indices: 23918816--23918990 Score: 262
Period size: 86 Copynumber: 2.0 Consensus size: 86
23918806 AAAACCCTTG
* * *
23918816 AAAACCTCAAACATACCATTTCAGTATTTAATTAG-TTTTTTTATACTAATTAAGTAAGAAGCAT
1 AAAACCTCAAACATACCATTTCAATATTTAATTAGTTTTTTTTATACTAATTAAGTAACAAACAT
*
23918880 ACAAATAAATAATAATTCAAA
66 ACAAATAAATAATAATACAAA
* * * *
23918901 AAAATCTCAAATATACCATTTCAATATTTATTTAGTTTTTTTTATACTAATTAAGTTACAAACAT
1 AAAACCTCAAACATACCATTTCAATATTTAATTAGTTTTTTTTATACTAATTAAGTAACAAACAT
*
23918966 ACAAATAAATAATACTACAAA
66 ACAAATAAATAATAATACAAA
23918987 AAAA
1 AAAA
23918991 ATTAAAACCC
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 31 0.39
86 49 0.61
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (86 bp):
AAAACCTCAAACATACCATTTCAATATTTAATTAGTTTTTTTTATACTAATTAAGTAACAAACAT
ACAAATAAATAATAATACAAA
Found at i:23925185 original size:6 final size:6
Alignment explanation
Indices: 23925176--23925200 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23925166 TTAAAAAAAA
23925176 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
23925201 CGAATTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:23926159 original size:22 final size:22
Alignment explanation
Indices: 23926134--23926181 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
23926124 ACACAATCTG
23926134 AAATATGAAGTTTTTGAGTACC
1 AAATATGAAGTTTTTGAGTACC
*
23926156 AAATATGAAGTTTTTGAGTACT
1 AAATATGAAGTTTTTGAGTACC
23926178 AAAT
1 AAAT
23926182 GCCATACTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (22 bp):
AAATATGAAGTTTTTGAGTACC
Found at i:23935566 original size:17 final size:18
Alignment explanation
Indices: 23935532--23935567 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23935522 TGAATTTTTA
23935532 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
23935550 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
23935567 T
1 T
23935568 GACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:23936264 original size:30 final size:28
Alignment explanation
Indices: 23936209--23936270 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
23936199 ATTATTTAAT
23936209 TAATAAATATCTTTTACTTAATAATAAA
1 TAATAAATATCTTTTACTTAATAATAAA
*
23936237 TAATAAATATCTATTTACTTAAATAATAAG
1 TAATAAATATCT-TTTACTT-AATAATAAA
23936267 TAAT
1 TAAT
23936271 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
30 12 0.39
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATAAATATCTTTTACTTAATAATAAA
Found at i:23946193 original size:12 final size:11
Alignment explanation
Indices: 23946156--23946207 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
23946146 ATTTGAATAA
23946156 TTTTAT-ATTAT
1 TTTTATAATT-T
23946167 TTTCTATAACTTT
1 TTT-TATAA-TTT
*
23946180 TTTTATAATAT
1 TTTTATAATTT
23946191 TTTTAT-ATTT
1 TTTTATAATTT
23946201 TTTTATA
1 TTTTATA
23946208 CTTGCTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 9 0.26
11 11 0.31
12 8 0.23
13 5 0.14
14 2 0.06
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:23949220 original size:13 final size:13
Alignment explanation
Indices: 23949202--23949226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23949192 ATATGATTCA
23949202 AACTAAACATTTC
1 AACTAAACATTTC
23949215 AACTAAACATTT
1 AACTAAACATTT
23949227 TTTGGTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AACTAAACATTTC
Found at i:23952592 original size:20 final size:19
Alignment explanation
Indices: 23952539--23952596 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
23952529 AGAATCATAC
23952539 ATAATAAAATTAATAAGTAA
1 ATAA-AAAATTAATAAGTAA
* *
23952559 ATACAATATATAATAAGTCAA
1 ATAAAAAAT-TAATAAGT-AA
*
23952580 CTAAAAAATTAATAAGT
1 ATAAAAAATTAATAAGT
23952597 TAAAAAATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 4 0.13
20 19 0.61
21 8 0.26
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAAAAAATTAATAAGTAA
Found at i:23954100 original size:2 final size:2
Alignment explanation
Indices: 23954090--23954122 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
23954080 TCATATATCC
23954090 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23954123 TACAACCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23957045 original size:22 final size:23
Alignment explanation
Indices: 23957020--23957068 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
23957010 ATCAGCTTCT
23957020 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
23957042 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
23957064 TTAAT
1 TTAAT
23957069 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:23959417 original size:3 final size:3
Alignment explanation
Indices: 23959367--23959400 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
23959357 TTAATTGTTT
*
23959367 TTA TTT TTA TTA GTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
23959401 GTCTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23959504 original size:21 final size:21
Alignment explanation
Indices: 23959451--23959505 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
23959441 ATAGATCCTT
*
23959451 TTATTTTATTATAAGATATTA
1 TTATTTTATTTTAAGATATTA
*
23959472 TT-TTATGT-TTTTTAGATATTA
1 TTATT-T-TATTTTAAGATATTA
23959493 TTATTTTATTTTA
1 TTATTTTATTTTA
23959506 TTATACATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TTATTTTATTTTAAGATATTA
Found at i:23964648 original size:8 final size:9
Alignment explanation
Indices: 23964635--23964669 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
23964625 ATCTAATTTC
23964635 AAAAAAGAA
1 AAAAAAGAA
23964644 AAAAAAGAA
1 AAAAAAGAA
23964653 AAAAGAAGAA
1 AAAA-AAGAA
23964663 GAAAAAA
1 -AAAAAA
23964670 ATCAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.54
10 7 0.29
11 4 0.17
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:23964676 original size:6 final size:6
Alignment explanation
Indices: 23964667--23964729 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
23964657 GAAGAAGAAA
* * **
23964667 AAAATC AAAATC AAAATC AAAGTC AAAAGC AAAAAG AAAATC --AATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* *
23964713 AAAGTC AAAATA AAAAT
1 AAAATC AAAATC AAAAT
23964730 ATGAAAAGCG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
4 4 0.09
6 41 0.91
ACGTcount: A:0.67, C:0.13, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATC
Found at i:23967807 original size:6 final size:6
Alignment explanation
Indices: 23967793--23967835 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
23967783 TGGTTTTCTC
*
23967793 AATGGA AATGAA AATGAA AATGAA AATGAA AATGAGA AATGAA
1 AATGAA AATGAA AATGAA AATGAA AATGAA AATGA-A AATGAA
23967836 TTCATTTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (6 bp):
AATGAA
Found at i:23972846 original size:12 final size:12
Alignment explanation
Indices: 23972829--23972866 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
23972819 TGAGTCACAC
23972829 GGGCTTGTGTTA
1 GGGCTTGTGTTA
23972841 GGGCTTGTGTTA
1 GGGCTTGTGTTA
*
23972853 GGGCATGTGTTA
1 GGGCTTGTGTTA
23972865 GG
1 GG
23972867 CCGTGTACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.11, C:0.08, G:0.45, T:0.37
Consensus pattern (12 bp):
GGGCTTGTGTTA
Found at i:23978444 original size:3 final size:3
Alignment explanation
Indices: 23978436--23978469 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23978426 AGTGAAGACT
23978436 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
23978470 TGCAACAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23980171 original size:507 final size:507
Alignment explanation
Indices: 23979218--23980232 Score: 2030
Period size: 507 Copynumber: 2.0 Consensus size: 507
23979208 TTCGTTGCAG
23979218 AACTGTTGAACAATCTCTTCATCATGTTTCTGAATCCGCCACCCTAGTCTCTCAGCCAAACTCAG
1 AACTGTTGAACAATCTCTTCATCATGTTTCTGAATCCGCCACCCTAGTCTCTCAGCCAAACTCAG
23979283 CATCTTCTCCTTTTGTTCCTGCGTAAACTTTGTTCTAAACCTTTTCCTTGAGCTTCCTTGATTCG
66 CATCTTCTCCTTTTGTTCCTGCGTAAACTTTGTTCTAAACCTTTTCCTTGAGCTTCCTTGATTCG
23979348 AAGCATCCTCTTGATCTTCTCTGCTGTGTCCTCCTCCTCCTGAGGTTGATGGTAAAGCTAATGGC
131 AAGCATCCTCTTGATCTTCTCTGCTGTGTCCTCCTCCTCCTGAGGTTGATGGTAAAGCTAATGGC
23979413 CTTTGTTGTCCGGCAACGTGGAGGTACCCTGTTGGTGCTCTGAAGTAAGGCGCAAATTGCGGTGG
196 CTTTGTTGTCCGGCAACGTGGAGGTACCCTGTTGGTGCTCTGAAGTAAGGCGCAAATTGCGGTGG
23979478 CTGGTGGTGGTGGTGGTGATGGAAGTAGAGGTCCGTGGTGTGGATGGAGTTTGGGGAGCCAAGCT
261 CTGGTGGTGGTGGTGGTGATGGAAGTAGAGGTCCGTGGTGTGGATGGAGTTTGGGGAGCCAAGCT
23979543 CAGATTCCTTGCGGTGGAAGTTACGGTGGCAGTTACAAGCCGCGCATTTGAGAGCGTCGAGGGTG
326 CAGATTCCTTGCGGTGGAAGTTACGGTGGCAGTTACAAGCCGCGCATTTGAGAGCGTCGAGGGTG
23979608 CCTTCAGTTCCAGCCGGCATGAACTCACCGCAACCGTCGAGAGCGTGACCGCCGATCCCCACCGC
391 CCTTCAGTTCCAGCCGGCATGAACTCACCGCAACCGTCGAGAGCGTGACCGCCGATCCCCACCGC
23979673 ATGGTTCTTCAAACACTCCCTATACCTAGGCTTCCTCTGCTGCTGCTGACCC
456 ATGGTTCTTCAAACACTCCCTATACCTAGGCTTCCTCTGCTGCTGCTGACCC
23979725 AACTGTTGAACAATCTCTTCATCATGTTTCTGAATCCGCCACCCTAGTCTCTCAGCCAAACTCAG
1 AACTGTTGAACAATCTCTTCATCATGTTTCTGAATCCGCCACCCTAGTCTCTCAGCCAAACTCAG
23979790 CATCTTCTCCTTTTGTTCCTGCGTAAACTTTGTTCTAAACCTTTTCCTTGAGCTTCCTTGATTCG
66 CATCTTCTCCTTTTGTTCCTGCGTAAACTTTGTTCTAAACCTTTTCCTTGAGCTTCCTTGATTCG
23979855 AAGCATCCTCTTGATCTTCTCTGCTGTGTCCTCCTCCTCCTGAGGTTGATGGTAAAGCTAATGGC
131 AAGCATCCTCTTGATCTTCTCTGCTGTGTCCTCCTCCTCCTGAGGTTGATGGTAAAGCTAATGGC
23979920 CTTTGTTGTCCGGCAACGTGGAGGTACCCTGTTGGTGCTCTGAAGTAAGGCGCAAATTGCGGTGG
196 CTTTGTTGTCCGGCAACGTGGAGGTACCCTGTTGGTGCTCTGAAGTAAGGCGCAAATTGCGGTGG
23979985 CTGGTGGTGGTGGTGGTGATGGAAGTAGAGGTCCGTGGTGTGGATGGAGTTTGGGGAGCCAAGCT
261 CTGGTGGTGGTGGTGGTGATGGAAGTAGAGGTCCGTGGTGTGGATGGAGTTTGGGGAGCCAAGCT
23980050 CAGATTCCTTGCGGTGGAAGTTACGGTGGCAGTTACAAGCCGCGCATTTGAGAGCGTCGAGGGTG
326 CAGATTCCTTGCGGTGGAAGTTACGGTGGCAGTTACAAGCCGCGCATTTGAGAGCGTCGAGGGTG
23980115 CCTTCAGTTCCAGCCGGCATGAACTCACCGCAACCGTCGAGAGCGTGACCGCCGATCCCCACCGC
391 CCTTCAGTTCCAGCCGGCATGAACTCACCGCAACCGTCGAGAGCGTGACCGCCGATCCCCACCGC
23980180 ATGGTTCTTCAAACACTCCCTATACCTAGGCTTCCTCTGCTGCTGCTGACCC
456 ATGGTTCTTCAAACACTCCCTATACCTAGGCTTCCTCTGCTGCTGCTGACCC
23980232 A
1 A
23980233 TTGGAGTTAC
Statistics
Matches: 508, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
507 508 1.00
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (507 bp):
AACTGTTGAACAATCTCTTCATCATGTTTCTGAATCCGCCACCCTAGTCTCTCAGCCAAACTCAG
CATCTTCTCCTTTTGTTCCTGCGTAAACTTTGTTCTAAACCTTTTCCTTGAGCTTCCTTGATTCG
AAGCATCCTCTTGATCTTCTCTGCTGTGTCCTCCTCCTCCTGAGGTTGATGGTAAAGCTAATGGC
CTTTGTTGTCCGGCAACGTGGAGGTACCCTGTTGGTGCTCTGAAGTAAGGCGCAAATTGCGGTGG
CTGGTGGTGGTGGTGGTGATGGAAGTAGAGGTCCGTGGTGTGGATGGAGTTTGGGGAGCCAAGCT
CAGATTCCTTGCGGTGGAAGTTACGGTGGCAGTTACAAGCCGCGCATTTGAGAGCGTCGAGGGTG
CCTTCAGTTCCAGCCGGCATGAACTCACCGCAACCGTCGAGAGCGTGACCGCCGATCCCCACCGC
ATGGTTCTTCAAACACTCCCTATACCTAGGCTTCCTCTGCTGCTGCTGACCC
Found at i:23980535 original size:2 final size:2
Alignment explanation
Indices: 23980528--23980572 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
23980518 GCTGTTTCTT
23980528 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23980570 TG T
1 TG T
23980573 TTTGGTTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:23986469 original size:15 final size:16
Alignment explanation
Indices: 23986438--23986471 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23986428 TTTTTATAAT
*
23986438 ATTTTTTAAAACTTTA
1 ATTTTTTAAAACATTA
23986454 ATTTTTTAAAA-ATTA
1 ATTTTTTAAAACATTA
23986469 ATT
1 ATT
23986472 GCTAACGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTTAAAACATTA
Found at i:23987721 original size:120 final size:120
Alignment explanation
Indices: 23987597--23987835 Score: 442
Period size: 120 Copynumber: 2.0 Consensus size: 120
23987587 AGCCATCATG
**
23987597 GTATTTTTGAACTTTTTTGAAAAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATCTGGGTC
1 GTATTTTTGAACTTTTCCGAAAAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATCTGGGTC
*
23987662 TAATAGACGCTCTCTATATTTTCTCTTTTTCTTTTTTCGATGAAAGAAAAAAGAA
66 TAATAGACGCTCTCTATATATTCTCTTTTTCTTTTTTCGATGAAAGAAAAAAGAA
23987717 GTATTTTTGAACTTTTCCGAAAAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATCTGGGTC
1 GTATTTTTGAACTTTTCCGAAAAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATCTGGGTC
*
23987782 TAATAGACGCTCTCTATATATTCTCTTTTTCTTTTTTCGATTAAAGAAAAAAGA
66 TAATAGACGCTCTCTATATATTCTCTTTTTCTTTTTTCGATGAAAGAAAAAAGA
23987836 GAATTCCATT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (120 bp):
GTATTTTTGAACTTTTCCGAAAAAAAAAAGAAGGGTGGTAATTGGATTATTTAGTGATCTGGGTC
TAATAGACGCTCTCTATATATTCTCTTTTTCTTTTTTCGATGAAAGAAAAAAGAA
Found at i:23989120 original size:80 final size:80
Alignment explanation
Indices: 23988987--23989140 Score: 308
Period size: 80 Copynumber: 1.9 Consensus size: 80
23988977 GGACTTCATT
23988987 GTTTAAGAAGTAACCATAGAAACGATGGAACCCACTATTTATTTATCCATTTCTATTTACTCCTT
1 GTTTAAGAAGTAACCATAGAAACGATGGAACCCACTATTTATTTATCCATTTCTATTTACTCCTT
23989052 TATTTTATTCTCACC
66 TATTTTATTCTCACC
23989067 GTTTAAGAAGTAACCATAGAAACGATGGAACCCACTATTTATTTATCCATTTCTATTTACTCCTT
1 GTTTAAGAAGTAACCATAGAAACGATGGAACCCACTATTTATTTATCCATTTCTATTTACTCCTT
23989132 TATTTTATT
66 TATTTTATT
23989141 TAACATGCTT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (80 bp):
GTTTAAGAAGTAACCATAGAAACGATGGAACCCACTATTTATTTATCCATTTCTATTTACTCCTT
TATTTTATTCTCACC
Found at i:23994801 original size:14 final size:14
Alignment explanation
Indices: 23994778--23994847 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 14
23994768 TGTACCAATC
23994778 AAAATTATAAATTA
1 AAAATTATAAATTA
* *
23994792 AAAATAATAATTTA
1 AAAATTATAAATTA
* *
23994806 AGAATTATCAATTA
1 AAAATTATAAATTA
* *
23994820 AAATTTAT-TATTA
1 AAAATTATAAATTA
*
23994833 AATATT-T-AATTA
1 AAAATTATAAATTA
23994845 AAA
1 AAA
23994848 TATTTGTTAA
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
12 7 0.16
13 8 0.19
14 28 0.65
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (14 bp):
AAAATTATAAATTA
Found at i:24001022 original size:43 final size:43
Alignment explanation
Indices: 24000961--24001047 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
24000951 AAGTGTCCAC
*
24000961 ACACCAATGATTAGGTCATCAGCTTTGTCTAAAGATGAGGGCG
1 ACACCAATGATTAGGTCATCAGCTTTGTCTAAAGATGAAGGCG
24001004 ACACCAATGATTAGGTCATCAGCTTTGTCTAAAGATGAAGGCG
1 ACACCAATGATTAGGTCATCAGCTTTGTCTAAAGATGAAGGCG
24001047 A
1 A
24001048 TCGTCTTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (43 bp):
ACACCAATGATTAGGTCATCAGCTTTGTCTAAAGATGAAGGCG
Found at i:24017501 original size:50 final size:50
Alignment explanation
Indices: 24017390--24017686 Score: 301
Period size: 50 Copynumber: 5.8 Consensus size: 50
24017380 ATTTGGGTAA
* *
24017390 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
24017446 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
24017496 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
24017546 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
24017596 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * *
24017645 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24017687 TGTTATATTC
Statistics
Matches: 208, Mismatches: 32, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
49 36 0.17
50 129 0.62
53 3 0.01
55 1 0.00
56 39 0.19
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:24017630 original size:150 final size:153
Alignment explanation
Indices: 24017401--24017686 Score: 348
Period size: 149 Copynumber: 1.9 Consensus size: 153
24017391 GAGATCCCAT
* * **
24017401 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACT--GATTATGAGAACTCCCATGTAAGACCA
* * * * * * ** *
24017466 TGTTTGGGACATGGCGTTGGCACCG-AGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
64 TATCTGGGACATGGCATTGGCA--GTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAG
24017530 CGTTGGCACCAAGATGAGAGGTCCCCC
127 CGTTGGCACCAAGATGAGAGGTCCCCC
*
24017557 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CT-A-TATGAGAACTCTCATGTAAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGATTATGAGAACTCCCATGTAAGACCATA
* * *
24017618 TCTGGGATATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTT
66 TCTGGGACATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCGTT
24017683 GGCA
131 GGCA
24017687 TGTTATATTC
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
148 1 0.01
149 39 0.35
150 39 0.35
151 1 0.01
154 1 0.01
155 1 0.01
156 30 0.27
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (153 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGGCATTGGCAGTACAAGAAACATCCCATGTAAGACCATGTCTGGGACATAGCGTT
GGCACCAAGATGAGAGGTCCCCC
Found at i:24025893 original size:77 final size:77
Alignment explanation
Indices: 24025801--24026026 Score: 208
Period size: 77 Copynumber: 3.0 Consensus size: 77
24025791 TTAACATTTA
24025801 TTTAAGACATACTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACTAACATGATTTTAATC
1 TTTAAGACATACTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACTAACATGATTTTAATC
24025866 AAGGATAAATTG
66 AAGGATAAATTG
* * * ** * * * *
24025878 TTTAAGACATACTTAGT-GGA--TAA--AAC-TAAATTA-AGC-TT-AATTAGA-A--A-CTAAA
1 TTTAAGACATACTTAGTGGGAGTTAATGATCAT-GATCATCCCTTTCCACTA-ACATGATTTTAA
* *
24025930 TCAATGGTTAACATTTA
64 TCAA-GGATAA-A-TTG
*
24025947 TTTAAGACATACTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACCAACATGATTTTAATC
1 TTTAAGACATACTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACTAACATGATTTTAATC
24026012 AAGGATAAATTG
66 AAGGATAAATTG
24026024 TTT
1 TTT
24026027 TTGAGTCTTG
Statistics
Matches: 108, Mismatches: 23, Indels: 36
0.65 0.14 0.22
Matches are distributed among these distances:
66 7 0.06
67 6 0.06
68 1 0.01
69 23 0.21
70 6 0.06
71 2 0.02
72 8 0.07
74 8 0.07
75 2 0.02
76 6 0.06
77 25 0.23
78 1 0.01
79 6 0.06
80 7 0.06
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (77 bp):
TTTAAGACATACTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACTAACATGATTTTAATC
AAGGATAAATTG
Found at i:24026011 original size:146 final size:146
Alignment explanation
Indices: 24025747--24026026 Score: 551
Period size: 146 Copynumber: 1.9 Consensus size: 146
24025737 ATATACACAT
24025747 GTGGATAAAACTAAATTAAGCTTAATTAGAAACTAAATCAATGGTTAACATTTATTTAAGACATA
1 GTGGATAAAACTAAATTAAGCTTAATTAGAAACTAAATCAATGGTTAACATTTATTTAAGACATA
*
24025812 CTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACTAACATGATTTTAATCAAGGATAAATT
66 CTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACCAACATGATTTTAATCAAGGATAAATT
24025877 GTTTAAGACATACTTA
131 GTTTAAGACATACTTA
24025893 GTGGATAAAACTAAATTAAGCTTAATTAGAAACTAAATCAATGGTTAACATTTATTTAAGACATA
1 GTGGATAAAACTAAATTAAGCTTAATTAGAAACTAAATCAATGGTTAACATTTATTTAAGACATA
24025958 CTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACCAACATGATTTTAATCAAGGATAAATT
66 CTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACCAACATGATTTTAATCAAGGATAAATT
24026023 GTTT
131 GTTT
24026027 TTGAGTCTTG
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 133 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (146 bp):
GTGGATAAAACTAAATTAAGCTTAATTAGAAACTAAATCAATGGTTAACATTTATTTAAGACATA
CTTAGTGGGAGTTAATGATCATGATCATCCCTTTCCACCAACATGATTTTAATCAAGGATAAATT
GTTTAAGACATACTTA
Found at i:24032597 original size:17 final size:17
Alignment explanation
Indices: 24032575--24032607 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24032565 TCTCAGATTT
24032575 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
24032592 TGATACCCATATCTTT
1 TGATACCCATATCTTT
24032608 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:24032858 original size:163 final size:163
Alignment explanation
Indices: 24032588--24032913 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
24032578 TACCCATATC
24032588 TTTCTGATACCCATATCTTTGACTTTCTATAAATATGGATGATTTCCAATAGTTTCGAATCACAA
1 TTTCTGATACCCATATCTTTGACTTTCTATAAATATGGATGATTTCCAATAGTTTCGAATCACAA
24032653 AATACCGAGATGGTCTGTTAATAGTGTGAAACGATCTCCGACGCCCTTACGATCCCCGAATTGGC
66 AATACCGAGATGGTCTGTTAATAGTGTGAAACGATCTCCGACGCCCTTACGATCCCCGAATTGGC
24032718 TTGGCGATACTATAAAAAAGAAGAAAAATAGAA
131 TTGGCGATACTATAAAAAAGAAGAAAAATAGAA
24032751 TTTCTGATACCCATATCTTTGACTTTCTATAAATATGGATGATTTCCAATAGTTTCGAATCACAA
1 TTTCTGATACCCATATCTTTGACTTTCTATAAATATGGATGATTTCCAATAGTTTCGAATCACAA
24032816 AATACCGAGATGGTCTGTTAATAGTGTGAAACGATCTCCGACGCCCTTACGATCCCCGAATTGGC
66 AATACCGAGATGGTCTGTTAATAGTGTGAAACGATCTCCGACGCCCTTACGATCCCCGAATTGGC
24032881 TTGGCGATACTATAAAAAAGAAGAAAAATAGAA
131 TTGGCGATACTATAAAAAAGAAGAAAAATAGAA
24032914 GGGTAAGCAT
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (163 bp):
TTTCTGATACCCATATCTTTGACTTTCTATAAATATGGATGATTTCCAATAGTTTCGAATCACAA
AATACCGAGATGGTCTGTTAATAGTGTGAAACGATCTCCGACGCCCTTACGATCCCCGAATTGGC
TTGGCGATACTATAAAAAAGAAGAAAAATAGAA
Found at i:24033036 original size:20 final size:20
Alignment explanation
Indices: 24033011--24033049 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
24033001 TACTTTCTTC
24033011 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
24033031 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
24033050 AAACAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:24036039 original size:26 final size:26
Alignment explanation
Indices: 24036010--24036062 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24036000 TAATGCTTAG
24036010 TAAATTCCTATAACATGAAATTTAAC
1 TAAATTCCTATAACATGAAATTTAAC
24036036 TAAATTCCTATAACATGAAATTTAAC
1 TAAATTCCTATAACATGAAATTTAAC
24036062 T
1 T
24036063 TACCATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (26 bp):
TAAATTCCTATAACATGAAATTTAAC
Found at i:24036590 original size:25 final size:25
Alignment explanation
Indices: 24036467--24036656 Score: 122
Period size: 25 Copynumber: 7.7 Consensus size: 25
24036457 GCCATGAAAT
* *
24036467 GGGAAGCTCATGTGAGCC-ATGTAAC
1 GGGAAGCTCATGAGAGCCAAT-TATC
* * * * *
24036492 GGAAAGCTCATAAAAGCC-ATAATT
1 GGGAAGCTCATGAGAGCCAATTATC
* *
24036516 AGGAAGCTCATGCGAGCCAA-TATC
1 GGGAAGCTCATGAGAGCCAATTATC
*
24036540 GGGAAGCTTCA-GAGAGTC-ATTAATC
1 GGGAAGC-TCATGAGAGCCAATT-ATC
*
24036565 GGGAAGCTCATGAGAACCAATTATC
1 GGGAAGCTCATGAGAGCCAATTATC
* * * * *
24036590 GAGAAGCTCGTGAAAGCCAAATAGC
1 GGGAAGCTCATGAGAGCCAATTATC
* *
24036615 AGGAAGCTCAAGAGAGCC-ATATATC
1 GGGAAGCTCATGAGAGCCAAT-TATC
* *
24036640 GGGATGCTCATAAGAGC
1 GGGAAGCTCATGAGAGC
24036657 TAAATAACGG
Statistics
Matches: 122, Mismatches: 36, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
23 1 0.01
24 32 0.26
25 86 0.70
26 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCATGAGAGCCAATTATC
Found at i:24042051 original size:24 final size:24
Alignment explanation
Indices: 24042019--24042069 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
24042009 TACTTGGGAA
24042019 ATTTGCCGTCAATTCATCCTTTAC
1 ATTTGCCGTCAATTCATCCTTTAC
*
24042043 ATTTTCCGTCAATTCATCCTTTAC
1 ATTTGCCGTCAATTCATCCTTTAC
24042067 ATT
1 ATT
24042070 CATAGTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.27, G:0.06, T:0.45
Consensus pattern (24 bp):
ATTTGCCGTCAATTCATCCTTTAC
Found at i:24042131 original size:33 final size:33
Alignment explanation
Indices: 24042075--24042232 Score: 113
Period size: 33 Copynumber: 4.7 Consensus size: 33
24042065 ACATTCATAG
* **
24042075 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAACTATGGTCTTATCATCAGAA
* * *
24042108 TGTCATAGCCCAACTATGGTCTTAT-ATATAAATA
1 TGCCATAGCCCAACTATGGTCTTATCAT-CAGA-A
* * * * * * *
24042142 TTGCCATGGTCCAACCATGATCTTA-CGTTCATAG
1 -TGCCATAGCCCAACTATGGTCTTATC-ATCAGAA
* **
24042176 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAACTATGGTCTTATCATCAGAA
*
24042209 TGCCATAGCCCAGCTATGGTCTTA
1 TGCCATAGCCCAACTATGGTCTTA
24042233 CATATAAACA
Statistics
Matches: 92, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
32 2 0.02
33 66 0.72
34 2 0.02
35 21 0.23
36 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (33 bp):
TGCCATAGCCCAACTATGGTCTTATCATCAGAA
Found at i:24042250 original size:101 final size:101
Alignment explanation
Indices: 24042063--24042302 Score: 381
Period size: 101 Copynumber: 2.4 Consensus size: 101
24042053 AATTCATCCT
*
24042063 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCAACTATGGT
1 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
* * * * *
24042128 CTTATATATAAATATTGCCATGGTCCAACCATGATC
66 CTTACATATAAACACTACCATGGCCCAACCATGATC
* *
24042164 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
*
24042229 CTTACATATAAACACTACCATGGCCCAACCATGGTC
66 CTTACATATAAACACTACCATGGCCCAACCATGATC
* *
24042265 TTACATTCATAGTGCCATAAACCAGTTATGGTCATATC
1 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATC
24042303 TGTTAATTCA
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 127 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
CTTACATATAAACACTACCATGGCCCAACCATGATC
Found at i:24045948 original size:42 final size:42
Alignment explanation
Indices: 24045842--24046003 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 42
24045832 TGTGATATCG
* * * *
24045842 TGTAAGACCATGTCCGGGACGTTGGCATCG-ATTTGAGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATAT--GA-TTACA
* * *
24045886 TGTAAGACCATGTCTAGGACATTGGCGTTGTATATGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATATGATTACA
* * * * * *
24045928 TGTAAGACCCTATCTGGGACAGTGACATCGTTATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATATGATTACA
* *
24045971 TGAAAGACCATGTCTGGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT
24046004 GAACTTTTGA
Statistics
Matches: 93, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 30 0.32
43 35 0.38
44 25 0.27
45 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATATGATTACA
Found at i:24049785 original size:68 final size:68
Alignment explanation
Indices: 24049694--24049939 Score: 359
Period size: 68 Copynumber: 3.6 Consensus size: 68
24049684 TAACCCAGTT
* * * ** **
24049694 ATGGTCTTATCG-TCAGAATGCCATAGCCTAGCTATGGTCTTACATATAAACATTTCCATGAACC
1 ATGGTCTTA-CGTTCATAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGGCATGGTCC
24049758 AACC
65 AACC
* *
24049762 ATGGTCTTACGTTCATAATGCCATAGCCCATCTATGGTCTTACATATAAACACTGGCATGGTCCT
1 ATGGTCTTACGTTCATAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGGCATGGTCCA
24049827 ACC
66 ACC
*
24049830 ATGGTCTTACGTTCATAATGCCATAGCCCATCTATGGTCTTACATATAAACACTGGCATGGTCCA
1 ATGGTCTTACGTTCATAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGGCATGGTCCA
24049895 ACC
66 ACC
* * *
24049898 ATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTA
1 ATGGTCTTACGTTCATAATGCCATAGCCCAGCTATGGTCTTA
24049940 TCCGTCAATT
Statistics
Matches: 163, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
67 2 0.01
68 161 0.99
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (68 bp):
ATGGTCTTACGTTCATAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGGCATGGTCCA
ACC
Found at i:24049804 original size:33 final size:33
Alignment explanation
Indices: 24049762--24049939 Score: 121
Period size: 33 Copynumber: 5.3 Consensus size: 33
24049752 TGAACCAACC
24049762 ATGGTCTTACGTTCATAATGCCATAGCCCATCT
1 ATGGTCTTACGTTCATAATGCCATAGCCCATCT
* * * * * *
24049795 ATGGTCTTACATAT-AAACACTGGCATGGTCC-TACC
1 ATGGTCTTACGT-TCATA-A-TGCCATAGCCCAT-CT
24049830 ATGGTCTTACGTTCATAATGCCATAGCCCATCT
1 ATGGTCTTACGTTCATAATGCCATAGCCCATCT
* * * * * * *
24049863 ATGGTCTTACATAT-AAACACTGGCATGGTCCAACC
1 ATGGTCTTACGT-TCATA-A-TGCCATAGCCCATCT
* *
24049898 ATGGTCTTACGTTCATAGTGCCATAACCCAGT-T
1 ATGGTCTTACGTTCATAATGCCATAGCCCA-TCT
24049931 ATGGTCTTA
1 ATGGTCTTA
24049940 TCCGTCAATT
Statistics
Matches: 106, Mismatches: 28, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
33 52 0.49
34 9 0.08
35 45 0.42
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGGTCTTACGTTCATAATGCCATAGCCCATCT
Found at i:24054446 original size:26 final size:26
Alignment explanation
Indices: 24054410--24054461 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24054400 CTATGACTAA
24054410 GACGGCAACATAAAAAACAAAATAAC
1 GACGGCAACATAAAAAACAAAATAAC
24054436 GACGGCAACATAAAAAACAAAATAAC
1 GACGGCAACATAAAAAACAAAATAAC
24054462 CACAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.19, G:0.12, T:0.08
Consensus pattern (26 bp):
GACGGCAACATAAAAAACAAAATAAC
Found at i:24055620 original size:15 final size:14
Alignment explanation
Indices: 24055570--24055625 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
24055560 TCTCAATTTC
24055570 CTCTCTTCTCTTTT
1 CTCTCTTCTCTTTT
24055584 CTCTCATCTCTCTTTT
1 CTCTC-T-TCTCTTTT
*
24055600 -TGTCTTCTCTATTT
1 CTCTCTTCTCT-TTT
*
24055614 GTCTCTT-TCTTT
1 CTCTCTTCTCTTT
24055626 CCTTTTCTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 7 0.19
14 12 0.33
15 9 0.25
16 8 0.22
ACGTcount: A:0.04, C:0.30, G:0.04, T:0.62
Consensus pattern (14 bp):
CTCTCTTCTCTTTT
Found at i:24061421 original size:13 final size:13
Alignment explanation
Indices: 24061403--24061438 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
24061393 AAAATTTAGG
24061403 AAATATAAAACAA
1 AAATATAAAACAA
24061416 AAATATAAAACAA
1 AAATATAAAACAA
*
24061429 AAATGTAAAA
1 AAATATAAAA
24061439 TCGAGCTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (13 bp):
AAATATAAAACAA
Found at i:24061618 original size:23 final size:23
Alignment explanation
Indices: 24061592--24061640 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
24061582 TACAGACATC
* * *
24061592 GATGCATAGCAGATACAGATTTA
1 GATGCATAACAAATACAGATTCA
*
24061615 GATGCATAATAAATACAGATTCA
1 GATGCATAACAAATACAGATTCA
24061638 GAT
1 GAT
24061641 CCTACCTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (23 bp):
GATGCATAACAAATACAGATTCA
Found at i:24065639 original size:13 final size:13
Alignment explanation
Indices: 24065621--24065656 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
24065611 AAATTTAAGG
24065621 AAATATAAAACAA
1 AAATATAAAACAA
24065634 AAATATAAAACAA
1 AAATATAAAACAA
*
24065647 AAATGTAAAA
1 AAATATAAAA
24065657 TCGAGCTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (13 bp):
AAATATAAAACAA
Found at i:24067362 original size:17 final size:17
Alignment explanation
Indices: 24067342--24067378 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
24067332 AAGTGAATTG
24067342 AATAATTAAACATTTAA
1 AATAATTAAACATTTAA
*
24067359 AATAGTTAAACATTTAA
1 AATAATTAAACATTTAA
24067376 AAT
1 AAT
24067379 TAAGCGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (17 bp):
AATAATTAAACATTTAA
Found at i:24067427 original size:12 final size:11
Alignment explanation
Indices: 24067404--24067433 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
24067394 ATAATTAAAG
24067404 AATATTATTTT
1 AATATTATTTT
24067415 AATATTGATTTT
1 AATATT-ATTTT
24067427 AATATTA
1 AATATTA
24067434 ATTAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
AATATTATTTT
Found at i:24068723 original size:29 final size:29
Alignment explanation
Indices: 24068679--24068744 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
24068669 TTCTGCCGAC
* *
24068679 GCCACACGGCCGTGTGCTAGGCCATGTGG
1 GCCACACGACCATGTGCTAGGCCATGTGG
24068708 GCCACACGACCATGTGCTAGGCCATGTGG
1 GCCACACGACCATGTGCTAGGCCATGTGG
24068737 GCCACACG
1 GCCACACG
24068745 GGCAAAGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.15
Consensus pattern (29 bp):
GCCACACGACCATGTGCTAGGCCATGTGG
Found at i:24077411 original size:35 final size:35
Alignment explanation
Indices: 24077365--24077434 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
24077355 TACTAAGTTC
*
24077365 CCAAGGGATAAGGCTGAAGGCTGAGAATGGTGTTG
1 CCAAGGGATAAGGCTAAAGGCTGAGAATGGTGTTG
*
24077400 CCAAGGGATAAGGCTAAATGCTGAGAATGGTGTTG
1 CCAAGGGATAAGGCTAAAGGCTGAGAATGGTGTTG
24077435 ATGATAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.30, C:0.11, G:0.37, T:0.21
Consensus pattern (35 bp):
CCAAGGGATAAGGCTAAAGGCTGAGAATGGTGTTG
Found at i:24080662 original size:56 final size:55
Alignment explanation
Indices: 24080561--24080701 Score: 144
Period size: 56 Copynumber: 2.6 Consensus size: 55
24080551 AAGAGTTGTT
* * *
24080561 AAATGACCAAATTACCCTC-GAAAGGTAAAATGACCAAAATACCCCTGA-AAGGTA
1 AAATGACCAAATTACCCCCTGTAAGGGAAAATGACCAAAATACCCCT-ATAAGGTA
* ** *
24080615 AAATGACCAAATTACCCCCTGTAGGGGATAAATGACCGTAATACCCCTATAGGGTA
1 AAATGACCAAATTACCCCCTGTAAGGGA-AAATGACCAAAATACCCCTATAAGGTA
* * * *
24080671 AAATAACTAAAATA-CCCCTGTAAGGTAAAAT
1 AAATGACCAAATTACCCCCTGTAAGGGAAAAT
24080702 AAGCGTAATG
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
54 22 0.31
55 17 0.24
56 33 0.46
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (55 bp):
AAATGACCAAATTACCCCCTGTAAGGGAAAATGACCAAAATACCCCTATAAGGTA
Found at i:24080703 original size:27 final size:27
Alignment explanation
Indices: 24080561--24080701 Score: 140
Period size: 27 Copynumber: 5.1 Consensus size: 27
24080551 AAGAGTTGTT
* *
24080561 AAATGACCAAATTA-CCCTCGAAAGGTA
1 AAATGACCAAAATACCCCT-GTAAGGTA
*
24080588 AAATGACCAAAATACCCCTGAAAGGTA
1 AAATGACCAAAATACCCCTGTAAGGTA
* * *
24080615 AAATGACCAAATTACCCCCTGTAGGGGA
1 AAATGACCAAAATA-CCCCTGTAAGGTA
** * *
24080643 TAAATGACCGTAATACCCCTATAGGGTA
1 -AAATGACCAAAATACCCCTGTAAGGTA
* *
24080671 AAATAACTAAAATACCCCTGTAAGGTA
1 AAATGACCAAAATACCCCTGTAAGGTA
24080698 AAAT
1 AAAT
24080702 AAGCGTAATG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 59 0.62
28 25 0.26
29 11 0.12
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACCAAAATACCCCTGTAAGGTA
Found at i:24080779 original size:24 final size:24
Alignment explanation
Indices: 24080749--24080812 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
24080739 CCTGCGAGGT
*
24080749 TAAATGATTGATTTATCCGTGATG
1 TAAATGACTGATTTATCCGTGATG
* *
24080773 TAAATGACTGATTTATCTGTGATT
1 TAAATGACTGATTTATCCGTGATG
*
24080797 TGAATGACTGATTTAT
1 TAAATGACTGATTTAT
24080813 ATTTGCTAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.44
Consensus pattern (24 bp):
TAAATGACTGATTTATCCGTGATG
Found at i:24081098 original size:16 final size:17
Alignment explanation
Indices: 24081066--24081098 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24081056 TTTCAAGAAG
24081066 GGTTTTCGATGAAAACAT
1 GGTTTTCGA-GAAAACAT
24081084 GGTTTTCGA-AAAACA
1 GGTTTTCGAGAAAACA
24081099 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (17 bp):
GGTTTTCGAGAAAACAT
Found at i:24084300 original size:72 final size:68
Alignment explanation
Indices: 24084181--24084330 Score: 192
Period size: 72 Copynumber: 2.1 Consensus size: 68
24084171 CCTTTTCATA
* * * * *
24084181 TCTCTGCAACCCCTGCTGCTACTTTTTTTTCGACAACTGCTTTGCTATTCAATTGCTACCTCTTC
1 TCTCTGCAACCCCTGCTGCAACTTTTTTTTCCACAACTACTTCGCTATTCAATTGATACCTCTTC
24084246 ACG
66 ACG
* *
24084249 TCTCTGCAACCCCTTGCTGCAATTATCTTTTTTCCAGCAACTACTTCGCTATTCAATTGATGCCT
1 TCTCTGCAACCCC-TGCTGCAACT-T-TTTTTTCCA-CAACTACTTCGCTATTCAATTGATACCT
*
24084314 TTTCACG
62 CTTCACG
24084321 TCTCTGCAAC
1 TCTCTGCAAC
24084331 TGCTCATTGC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
68 13 0.19
69 8 0.11
70 1 0.01
71 8 0.11
72 40 0.57
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (68 bp):
TCTCTGCAACCCCTGCTGCAACTTTTTTTTCCACAACTACTTCGCTATTCAATTGATACCTCTTC
ACG
Found at i:24084352 original size:72 final size:68
Alignment explanation
Indices: 24084181--24084353 Score: 186
Period size: 72 Copynumber: 2.4 Consensus size: 68
24084171 CCTTTTCATA
* * * * *
24084181 TCTCTGCAACCC-CTGCTGCTACTTTTTTTTCGACAACTGCTTTGCTATTCAATTGCTACCTCTT
1 TCTCTGCAACCCATTGCTGCTA-TTTTTTTTCCACAACTACTTCGCTATTCAATTGATACCTCTT
24084245 CACG
65 CACG
* * *
24084249 TCTCTGCAACCCCTTGCTGCAATTATCTTTTTTCCAGCAACTACTTCGCTATTCAATTGATGCCT
1 TCTCTGCAACCCATTGCTGC---TATTTTTTTTCCA-CAACTACTTCGCTATTCAATTGATACCT
*
24084314 TTTCACG
62 CTTCACG
24084321 TCTCTGCAACTGCTCATTGCTGCTATTTTTTTT
1 TCTCTGCAAC--C-CATTGCTGCTATTTTTTTT
24084354 TTTTTTGACA
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
68 12 0.14
69 6 0.07
71 9 0.10
72 51 0.59
74 1 0.01
75 8 0.09
ACGTcount: A:0.17, C:0.30, G:0.12, T:0.42
Consensus pattern (68 bp):
TCTCTGCAACCCATTGCTGCTATTTTTTTTCCACAACTACTTCGCTATTCAATTGATACCTCTTC
ACG
Found at i:24086623 original size:21 final size:20
Alignment explanation
Indices: 24086599--24086639 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
24086589 CCATCTTCCA
*
24086599 GATAGTATAACCCTCCTCTTT
1 GATAGTACAACCCTCC-CTTT
*
24086620 GATAGTGCAACCCTCCCTTT
1 GATAGTACAACCCTCCCTTT
24086640 TCTCTACCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (20 bp):
GATAGTACAACCCTCCCTTT
Found at i:24087440 original size:56 final size:56
Alignment explanation
Indices: 24087368--24087481 Score: 158
Period size: 56 Copynumber: 2.0 Consensus size: 56
24087358 TAAAGAATCT
* *
24087368 TTATAATCAAAGATTGACTCAATCTTAAAAAAAGAAAGAAACAAGATCTCATCAAA
1 TTATAATCAAAGATTGACTCAATCCTAAAAAAAGAAAGAAACAAAATCTCATCAAA
* * * *
24087424 TTATAATC-AAGAATTGACTCAATCCTAAAGAAAGAAATAAATAAAATCTGATCAAA
1 TTATAATCAAAG-ATTGACTCAATCCTAAAAAAAGAAAGAAACAAAATCTCATCAAA
24087480 TT
1 TT
24087482 TGTCTCAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
55 3 0.06
56 48 0.94
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.25
Consensus pattern (56 bp):
TTATAATCAAAGATTGACTCAATCCTAAAAAAAGAAAGAAACAAAATCTCATCAAA
Found at i:24094290 original size:18 final size:18
Alignment explanation
Indices: 24094267--24094301 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24094257 AATCAATTAA
24094267 AAAATAATTTAGAAAAAT
1 AAAATAATTTAGAAAAAT
* *
24094285 AAAATATTTTTGAAAAA
1 AAAATAATTTAGAAAAA
24094302 CTAATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAAATAATTTAGAAAAAT
Found at i:24094821 original size:19 final size:19
Alignment explanation
Indices: 24094797--24094843 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
24094787 GAAGAATTTC
*
24094797 AATCAAAGGATTTAAAATG
1 AATCAAAGGATTTAAAACG
24094816 AATCAAAGGATTTAAAACG
1 AATCAAAGGATTTAAAACG
24094835 AATCAAAGG
1 AATCAAAGG
24094844 TAATTATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
AATCAAAGGATTTAAAACG
Found at i:24099988 original size:28 final size:28
Alignment explanation
Indices: 24099939--24099992 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
24099929 AACTGAATAT
*
24099939 TTTTATTGTGCTCGGTCAGCCTGCTCGG
1 TTTTATTGTGCTCAGTCAGCCTGCTCGG
* *
24099967 TTTTATTGTGCTTAGTCGGCCTGCTC
1 TTTTATTGTGCTCAGTCAGCCTGCTC
24099993 AGTAGTAGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.07, C:0.24, G:0.26, T:0.43
Consensus pattern (28 bp):
TTTTATTGTGCTCAGTCAGCCTGCTCGG
Found at i:24101673 original size:20 final size:20
Alignment explanation
Indices: 24101648--24101687 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24101638 CCTGATCACG
24101648 CCAATGCCATTGGCGGCACC
1 CCAATGCCATTGGCGGCACC
*
24101668 CCAATGCCATTGGTGGCACC
1 CCAATGCCATTGGCGGCACC
24101688 AATGGTGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (20 bp):
CCAATGCCATTGGCGGCACC
Found at i:24101698 original size:27 final size:26
Alignment explanation
Indices: 24101647--24101724 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 26
24101637 GCCTGATCAC
24101647 GCCAATGCCATTGGCGGCACC-----
1 GCCAATGCCATTGGCGGCACCAATGT
*
24101668 -CCAATGCCATTGGTGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAAT-GT
*
24101694 GCCAATGTCATTGGCGGCACCAATGT
1 GCCAATGCCATTGGCGGCACCAATGT
24101720 GCCAA
1 GCCAA
24101725 AGGACTAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
20 19 0.40
26 7 0.15
27 21 0.45
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (26 bp):
GCCAATGCCATTGGCGGCACCAATGT
Found at i:24102259 original size:18 final size:19
Alignment explanation
Indices: 24102208--24102268 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
24102198 CTGATATTTC
*
24102208 TATTAATTTAAAATA-TAGT
1 TATTAAATTAAAATAGTA-T
* *
24102227 TATTAAATGAGAATAGT-T
1 TATTAAATTAAAATAGTAT
*
24102245 TATTAAATTAAAATAGAAT
1 TATTAAATTAAAATAGTAT
24102264 TATTA
1 TATTA
24102269 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 15 0.44
19 18 0.53
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (19 bp):
TATTAAATTAAAATAGTAT
Found at i:24102804 original size:27 final size:26
Alignment explanation
Indices: 24102768--24102825 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
24102758 TTTTAGTCCT
* *
24102768 TTGGCACATTGGTGCCGCCAATGGCA
1 TTGGCACATTGGTGCCACCAATGACA
24102794 TTGGCACCATTGGTGCCACCAATGACA
1 TTGGCA-CATTGGTGCCACCAATGACA
24102821 TTGGC
1 TTGGC
24102826 GTGATCAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.24
Consensus pattern (26 bp):
TTGGCACATTGGTGCCACCAATGACA
Found at i:24102895 original size:28 final size:28
Alignment explanation
Indices: 24102854--24102909 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
24102844 TTTTTTTGTG
*
24102854 TTTTTTTAGTATATTTTGGTAAATAAAA
1 TTTTTTTAGTATATTTTAGTAAATAAAA
24102882 TTTTTTTA-TAATATTTTAGTAAATAAAA
1 TTTTTTTAGT-ATATTTTAGTAAATAAAA
24102910 AAAAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (28 bp):
TTTTTTTAGTATATTTTAGTAAATAAAA
Found at i:24104625 original size:19 final size:18
Alignment explanation
Indices: 24104598--24104636 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
24104588 TTTTAGAGGA
**
24104598 AGTGTTAAATTAAGGTCT
1 AGTGTTAAAAAAAGGTCT
24104616 AGTGTCTAAAAAAAGGTCT
1 AGTGT-TAAAAAAAGGTCT
24104635 AG
1 AG
24104637 GATTTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (18 bp):
AGTGTTAAAAAAAGGTCT
Found at i:24106832 original size:14 final size:14
Alignment explanation
Indices: 24106813--24106841 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24106803 AGAGGTGAAA
24106813 CACTCTAAACTCAG
1 CACTCTAAACTCAG
24106827 CACTCTAAACTCAG
1 CACTCTAAACTCAG
24106841 C
1 C
24106842 CTAGACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.38, G:0.07, T:0.21
Consensus pattern (14 bp):
CACTCTAAACTCAG
Found at i:24110379 original size:41 final size:41
Alignment explanation
Indices: 24110322--24110403 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
24110312 ATAAGATTAA
24110322 AGAGTACATTAAAGTTTAACCACTAAATTGAAAGGCTCATT
1 AGAGTACATTAAAGTTTAACCACTAAATTGAAAGGCTCATT
24110363 AGAGTACATTAAAGTTTAACCACTAAATTGAAAGGCTCATT
1 AGAGTACATTAAAGTTTAACCACTAAATTGAAAGGCTCATT
24110404 CTATTACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (41 bp):
AGAGTACATTAAAGTTTAACCACTAAATTGAAAGGCTCATT
Found at i:24114422 original size:34 final size:34
Alignment explanation
Indices: 24114383--24114448 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
24114373 TTTAAGGTTG
* *
24114383 TAAACTAATCAATGTTTGATTGAAATAAATAATC
1 TAAACTAATCAATGTTTAACTGAAATAAATAATC
*
24114417 TAAACTAATCAGTGTTTAACTGAAATAAATAA
1 TAAACTAATCAATGTTTAACTGAAATAAATAA
24114449 ACAGAGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (34 bp):
TAAACTAATCAATGTTTAACTGAAATAAATAATC
Found at i:24117054 original size:17 final size:17
Alignment explanation
Indices: 24117034--24117070 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
24117024 AAGTGAATTG
24117034 AATAATTAAACATTTAA
1 AATAATTAAACATTTAA
*
24117051 AATAGTTAAACATTTAA
1 AATAATTAAACATTTAA
24117068 AAT
1 AAT
24117071 TAAGCGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (17 bp):
AATAATTAAACATTTAA
Done.