Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 93 of 185
Found at i:29528061 original size:25 final size:25
Alignment explanation
Indices: 29528026--29528093 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
29528016 AACATAAGTG
*
29528026 AGTAAATTATGTCAGTTATGTATTA
1 AGTAAATTATGTAAGTTATGTATTA
* *
29528051 TGTAAGTTATGTAAGTTATGTATTA
1 AGTAAATTATGTAAGTTATGTATTA
29528076 AGTAAATTATGTAAGTTA
1 AGTAAATTATGTAAGTTA
29528094 GAAATGTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (25 bp):
AGTAAATTATGTAAGTTATGTATTA
Found at i:29528098 original size:16 final size:18
Alignment explanation
Indices: 29528027--29528093 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 18
29528017 ACATAAGTGA
*
29528027 GTAAATTATGTCAGTTAT
1 GTAAATTATGTAAGTTAT
29528045 GT--ATTATGTAAGTTAT
1 GTAAATTATGTAAGTTAT
* *
29528061 GTAAGTTATGT-A-TTAA
1 GTAAATTATGTAAGTTAT
29528077 GTAAATTATGTAAGTTA
1 GTAAATTATGTAAGTTA
29528094 GAAATGTAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 28 0.68
17 2 0.05
18 11 0.27
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (18 bp):
GTAAATTATGTAAGTTAT
Found at i:29530537 original size:34 final size:34
Alignment explanation
Indices: 29530496--29530560 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
29530486 TGTTGCAGAC
29530496 ACACCACAGCTCGAAAGAGTGTC-CTGTTATTTAG
1 ACACCACAGCTCGAAAGAGTGTCTC-GTTATTTAG
29530530 ACACCACAGCTCGAAAGAGTGTCTCGTTATT
1 ACACCACAGCTCGAAAGAGTGTCTCGTTATT
29530561 AGATCTCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (34 bp):
ACACCACAGCTCGAAAGAGTGTCTCGTTATTTAG
Found at i:29539494 original size:11 final size:12
Alignment explanation
Indices: 29539470--29539495 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29539460 AACTAGATAT
29539470 AAAATCCTTAAA
1 AAAATCCTTAAA
29539482 AAAATCCTTAAA
1 AAAATCCTTAAA
29539494 AA
1 AA
29539496 GTCCATTACA
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:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATCCTTAAA
Found at i:29541017 original size:26 final size:27
Alignment explanation
Indices: 29540959--29541019 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
29540949 TTTACTCTAG
29540959 TAAAATTTTGACGATTTTACCACTCGA
1 TAAAATTTTGACGATTTTACCACTCGA
*
29540986 TAAAATTTTGACGATTTTATC-CTCGA
1 TAAAATTTTGACGATTTTACCACTCGA
29541012 TAAAATTT
1 TAAAATTT
29541020 CAAGAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (27 bp):
TAAAATTTTGACGATTTTACCACTCGA
Found at i:29543914 original size:15 final size:15
Alignment explanation
Indices: 29543891--29543925 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
29543881 TTACGCATAA
29543891 TATTACTGTATCTGT
1 TATTACTGTATCTGT
*
29543906 TATTTCTGTATCTGT
1 TATTACTGTATCTGT
*
29543921 GATTA
1 TATTA
29543926 GGGTGGGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (15 bp):
TATTACTGTATCTGT
Found at i:29570327 original size:21 final size:21
Alignment explanation
Indices: 29570294--29570345 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
29570284 TTTAATGTTT
*
29570294 TATATTGAGATTTTTTTTA-TTC
1 TATATT-A-ATTTGTTTTATTTC
29570316 TATGATTAATTTGTTTTATTTC
1 TAT-ATTAATTTGTTTTATTTC
29570338 TATATTAA
1 TATATTAA
29570346 AGATGTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 14 0.52
22 10 0.37
23 3 0.11
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.62
Consensus pattern (21 bp):
TATATTAATTTGTTTTATTTC
Found at i:29576999 original size:25 final size:25
Alignment explanation
Indices: 29576969--29577026 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
29576959 AATAAACATA
29576969 AGAGAGTGTGAGCTTAAACAAGCTT
1 AGAGAGTGTGAGCTTAAACAAGCTT
29576994 AGAGAGTGTGAGCTTAAACAAGCTT
1 AGAGAGTGTGAGCTTAAACAAGCTT
*
29577019 AGTGAGTG
1 AGAGAGTG
29577027 CTTAAGATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (25 bp):
AGAGAGTGTGAGCTTAAACAAGCTT
Found at i:29579508 original size:6 final size:6
Alignment explanation
Indices: 29579497--29579526 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
29579487 GGTTTTCTCC
29579497 AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
29579527 GAGAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:29579585 original size:13 final size:13
Alignment explanation
Indices: 29579567--29579591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29579557 GTTTTCTCCT
29579567 AAATGAAAATGAA
1 AAATGAAAATGAA
29579580 AAATGAAAATGA
1 AAATGAAAATGA
29579592 CCTAAAAAAT
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:29590420 original size:36 final size:36
Alignment explanation
Indices: 29590373--29590445 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
29590363 AACAATTTAG
29590373 CCTCTTGATTAAATGTTAACTCTGCAGAGATGACTA
1 CCTCTTGATTAAATGTTAACTCTGCAGAGATGACTA
29590409 CCTCTTGATTAAATGTTAACTCTGCAGAGATGACTA
1 CCTCTTGATTAAATGTTAACTCTGCAGAGATGACTA
29590445 C
1 C
29590446 TGGAAAAGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (36 bp):
CCTCTTGATTAAATGTTAACTCTGCAGAGATGACTA
Found at i:29603917 original size:14 final size:14
Alignment explanation
Indices: 29603898--29603924 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29603888 TAAGCACACT
29603898 CATTTTAGTATAGG
1 CATTTTAGTATAGG
29603912 CATTTTAGTATAG
1 CATTTTAGTATAG
29603925 CCAAATTTGT
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:0.07, G:0.19, T:0.44
Consensus pattern (14 bp):
CATTTTAGTATAGG
Found at i:29610584 original size:41 final size:40
Alignment explanation
Indices: 29610522--29610602 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 40
29610512 AGACGGACTG
29610522 CTAAGAAGAAAAGAGCATAAATTGCCCATTAAGGGAAAGNA
1 CTAAGAAGAAAAGAGCATAAATTGCCCATTAAGGGAAAG-A
*
29610563 CTAAGAAGAAAAGAGCCTAAATTGCCCATTAAGGGAAAGA
1 CTAAGAAGAAAAGAGCATAAATTGCCCATTAAGGGAAAGA
29610603 GGCCCAACCA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.15
Consensus pattern (40 bp):
CTAAGAAGAAAAGAGCATAAATTGCCCATTAAGGGAAAGA
Found at i:29614413 original size:10 final size:10
Alignment explanation
Indices: 29614398--29614459 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
29614388 TTTGAACTAT
*
29614398 TACCAATTCG
1 TACCAATTCA
*
29614408 TACCAAATACCA
1 TACC-AAT-TCA
*
29614420 TACCATTTCA
1 TACCAATTCA
29614430 TACCAATTCCA
1 TACCAATT-CA
* *
29614441 TACCATTTCG
1 TACCAATTCA
29614451 TACCAATTC
1 TACCAATTC
29614460 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:29614443 original size:21 final size:21
Alignment explanation
Indices: 29614398--29614460 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
29614388 TTTGAACTAT
* *
29614398 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
29614420 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
29614441 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
29614461 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:29619751 original size:7 final size:7
Alignment explanation
Indices: 29619739--29619763 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29619729 TGTATATAAT
29619739 AATTATA
1 AATTATA
29619746 AATTATA
1 AATTATA
29619753 AATTATA
1 AATTATA
29619760 AATT
1 AATT
29619764 TACTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTATA
Found at i:29621030 original size:17 final size:17
Alignment explanation
Indices: 29621001--29621059 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
29620991 TCAAACATTT
*
29621001 GTTCATATAAAATAACA
1 GTTCATACAAAATAACA
* *
29621018 GTTCATACCAAATGACA
1 GTTCATACAAAATAACA
** * *
29621035 ACTCATGCAAAATAATA
1 GTTCATACAAAATAACA
29621052 GTTCATAC
1 GTTCATAC
29621060 TCCATCATAA
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (17 bp):
GTTCATACAAAATAACA
Found at i:29621700 original size:18 final size:18
Alignment explanation
Indices: 29621677--29621715 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29621667 TCACAATCCG
29621677 CAGTTTGGT-AAATTAATA
1 CAGTTT-GTCAAATTAATA
*
29621695 CAGTTTGTCATATTAATA
1 CAGTTTGTCAAATTAATA
29621713 CAG
1 CAG
29621716 ATCACCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (18 bp):
CAGTTTGTCAAATTAATA
Found at i:29622060 original size:29 final size:31
Alignment explanation
Indices: 29622006--29622120 Score: 101
Period size: 34 Copynumber: 3.5 Consensus size: 31
29621996 TAAACATATA
* *
29622006 CATATATATTACATATAACACGAAAC-T-CACG
1 CATATATATTATATATAACA--AAACATACACC
29622037 CATATATATTATATATAACAAAACCATACACC
1 CATATATATTATATATAACAAAA-CATACACC
*
29622069 CATATTTATATTATATATAACAAAACCATGA-ACA
1 CATA--TATATTATATATAACAAAA-CAT-ACACC
29622103 CATATTAATATTATATAT
1 CATA-T-ATATTATATAT
29622121 GCACCTACCA
Statistics
Matches: 74, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
29 3 0.04
30 1 0.01
31 20 0.27
32 7 0.09
33 2 0.03
34 40 0.54
35 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (31 bp):
CATATATATTATATATAACAAAACATACACC
Found at i:29622084 original size:34 final size:34
Alignment explanation
Indices: 29622041--29622120 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
29622031 CTCACGCATA
*
29622041 TATATTATATATAACAAAACCAT-ACACCCATATT
1 TATATTATATATAACAAAACCATGA-ACACATATT
29622075 TATATTATATATAACAAAACCATGAACACATATT
1 TATATTATATATAACAAAACCATGAACACATATT
*
29622109 AATATTATATAT
1 TATATTATATAT
29622121 GCACCTACCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 42 0.98
35 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (34 bp):
TATATTATATATAACAAAACCATGAACACATATT
Found at i:29629883 original size:30 final size:30
Alignment explanation
Indices: 29629842--29629901 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
29629832 TAACAAGCAT
*
29629842 ATGCCTCTAAAATAATAACAAATTTAACAA
1 ATGCCTCTAAAATAATAACAAAATTAACAA
*
29629872 ATGCCTTTAAAATAATAACAAAATTAACAA
1 ATGCCTCTAAAATAATAACAAAATTAACAA
29629902 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (30 bp):
ATGCCTCTAAAATAATAACAAAATTAACAA
Found at i:29639105 original size:50 final size:50
Alignment explanation
Indices: 29638980--29639221 Score: 279
Period size: 50 Copynumber: 4.9 Consensus size: 50
29638970 TGATAATAAT
* * ** * * * *
29638980 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * ** * *
29639029 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * **
29639079 GTGCCCATGCCATGTTCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* *
29639129 GTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
29639179 ATGCCAATGCCATGTCCCGGACATGGTCTTACATGGGACCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29639222 TTACCCAAAT
Statistics
Matches: 164, Mismatches: 28, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
49 39 0.24
50 125 0.76
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:29645468 original size:14 final size:13
Alignment explanation
Indices: 29645445--29645474 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
29645435 ATATTATTTA
29645445 AACTAATTAAATT
1 AACTAATTAAATT
29645458 AACTAACTTAAATT
1 AACTAA-TTAAATT
29645472 AAC
1 AAC
29645475 CTACTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
AACTAATTAAATT
Found at i:29652230 original size:40 final size:39
Alignment explanation
Indices: 29652166--29652297 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 39
29652156 CTATGTTTAA
* *
29652166 CACTTAGTGTGCA-ATTCGAGATAGCTTCGGCTATTTACGG
1 CACTTAGTGTG-AGACT-GAGATAGCTTCGGCTATATACGG
* * * *
29652206 CACTTAGTGTGTGATTGGGAATAGCTTCGGCTATATATGG
1 CACTTAGTGTGAGACTGAG-ATAGCTTCGGCTATATACGG
* * * *
29652246 CAATTAGTGTGCGAGACTGAGATAGCTTCAGCTATGTAGGG
1 CACTTAGTGT--GAGACTGAGATAGCTTCGGCTATATACGG
29652287 CACTTAGTGTG
1 CACTTAGTGTG
29652298 CGGGATTATA
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
39 3 0.04
40 41 0.54
41 26 0.34
42 6 0.08
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (39 bp):
CACTTAGTGTGAGACTGAGATAGCTTCGGCTATATACGG
Found at i:29652280 original size:41 final size:41
Alignment explanation
Indices: 29652166--29652321 Score: 133
Period size: 41 Copynumber: 3.9 Consensus size: 41
29652156 CTATGTTTAA
* *
29652166 CACTTAGTGTGC-A-ATTCGAGATAGCTTCGGCTATTTACGG
1 CACTTAGTGTGCGAGACT-GAGATAGCTTCGGCTATATACGG
* * * *
29652206 CACTTAGTGT--GTGATTGGGAATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGAGACTGAG-ATAGCTTCGGCTATATACGG
* * * *
29652246 CAATTAGTGTGCGAGACTGAGATAGCTTCAGCTATGTAGGG
1 CACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATATACGG
* * *
29652287 CACTTAGTGTGCGGGA-TTATAATAGCTTCGGCTAT
1 CACTTAGTGTGCGAGACTGA-GATAGCTTCGGCTAT
29652322 GCGATGGCAT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 42 0.45
41 44 0.47
42 6 0.06
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (41 bp):
CACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATATACGG
Found at i:29652322 original size:41 final size:40
Alignment explanation
Indices: 29652186--29652342 Score: 138
Period size: 41 Copynumber: 3.9 Consensus size: 40
29652176 GCAATTCGAG
* * * *
29652186 ATAGCTTCGGCTATTTACGGCACTTAGTGT--GTGATTGGGA
1 ATAGCTTCGGCTATGTATGGCACTTAGTGTGCGAGATT--AA
* * * *
29652226 ATAGCTTCGGCTATATATGGCAATTAGTGTGCGAGACTGAG
1 ATAGCTTCGGCTATGTATGGCACTTAGTGTGCGAGA-TTAA
* * *
29652267 ATAGCTTCAGCTATGTAGGGCACTTAGTGTGCGGGATTATA
1 ATAGCTTCGGCTATGTATGGCACTTAGTGTGCGAGATTA-A
* *
29652308 ATAGCTTCGGCTATGCGATGGCATTTAGTGTGCGA
1 ATAGCTTCGGCTATG-TATGGCACTTAGTGTGCGA
29652343 AACATTGAGT
Statistics
Matches: 93, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 29 0.31
41 45 0.48
42 18 0.19
43 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (40 bp):
ATAGCTTCGGCTATGTATGGCACTTAGTGTGCGAGATTAA
Found at i:29657649 original size:40 final size:39
Alignment explanation
Indices: 29657594--29657728 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 39
29657584 ACTATGTTTA
* *
29657594 GCACTTAGTGTGCGATTCGAGATAGCTTCGGATATTAATG
1 GCACTTAGTGTGCGATT-GAGATAGCTTTGGCTATTAATG
* *
29657634 GCACTTAGTGTGCGATTGGGAATAGCTTTAGCTA-TATATG
1 GCACTTAGTGTGCGATTGAG-ATAGCTTTGGCTATTA-ATG
* *
29657674 GCACTTAGTGTGTAAGACTGAGATAGCTTTGGCTATGTAA-G
1 GCACTTAGTGTG--CGATTGAGATAGCTTTGGCTAT-TAATG
29657715 GCACTTAGTGTGCG
1 GCACTTAGTGTGCG
29657729 GGATTATAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
39 5 0.06
40 42 0.52
41 25 0.31
42 6 0.08
43 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (39 bp):
GCACTTAGTGTGCGATTGAGATAGCTTTGGCTATTAATG
Found at i:29657741 original size:41 final size:39
Alignment explanation
Indices: 29657594--29657751 Score: 131
Period size: 41 Copynumber: 3.9 Consensus size: 39
29657584 ACTATGTTTA
* *
29657594 GCACTTAGTGTGCGATTCGAGATAGCTTCGGATAT-TAATG
1 GCACTTAGTGTGCGATTAGA-ATAGCTTCGGCTATGTAA-G
* ** * *
29657634 GCACTTAGTGTGCGATTGGGAATAGCTTTAGCTATATATG
1 GCACTTAGTGTGCGATT-AGAATAGCTTCGGCTATGTAAG
* * *
29657674 GCACTTAGTGTGTAAGACT-GAGATAGCTTTGGCTATGTAAG
1 GCACTTAGTGTG--CGATTAGA-ATAGCTTCGGCTATGTAAG
*
29657715 GCACTTAGTGTGCGGGATTATAATAGCTTCGGCTATG
1 GCACTTAGTGTGC--GATTAGAATAGCTTCGGCTATG
29657752 CGATGACATT
Statistics
Matches: 96, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
40 43 0.45
41 49 0.51
42 4 0.04
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (39 bp):
GCACTTAGTGTGCGATTAGAATAGCTTCGGCTATGTAAG
Found at i:29659654 original size:33 final size:33
Alignment explanation
Indices: 29659612--29659679 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
29659602 AAAGTAAGAA
29659612 AAGATTTTTGATAAATCAATTAAAGAATAATTC
1 AAGATTTTTGATAAATCAATTAAAGAATAATTC
29659645 AAGATTTTTGATAAATCAATTAAAGAATAATTC
1 AAGATTTTTGATAAATCAATTAAAGAATAATTC
29659678 AA
1 AA
29659680 TGTTTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (33 bp):
AAGATTTTTGATAAATCAATTAAAGAATAATTC
Found at i:29663272 original size:19 final size:17
Alignment explanation
Indices: 29663232--29663264 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
29663222 AACATATATA
29663232 AAAAATAATAATTACAT
1 AAAAATAATAATTACAT
29663249 AAAAA-AATAATTACAT
1 AAAAATAATAATTACAT
29663265 CCTAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATAATAATTACAT
Found at i:29664962 original size:45 final size:45
Alignment explanation
Indices: 29664772--29665536 Score: 406
Period size: 44 Copynumber: 17.7 Consensus size: 45
29664762 ACTATCTTAG
* * * * *
29664772 TCTGCTCCACTGCAATCTTCAGGGAAATAAGACTAG--A--TGCGA
1 TCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTTGCCATCTTCAA
* * * **
29664814 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGAT-TTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* * * ** *
29664857 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTACCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* *
29664901 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* * ** *
29664946 TCTGC-CTCACTGCAACTTCAGGGAGATAGGA-TTACCGGCTTTAA
1 TCTGCTC-CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* *
29664990 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* * *
29665035 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAA
* * *
29665079 TCCGCTCCACTGCAACTTCAGGGAGATAAGA--TGCGATCTGC--
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* * * **** *
29665120 TCT-CT--A---CAATTTCAGAGAGATAAGATCTAAGGT-TTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* * * * ** *
29665158 TCCGC-CCACTGCAACTTCAGCGAGATAGGA-TTACCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* *
29665201 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* * * * * *
29665246 TCTGCTTCACTGCAATTTCA-GGAGGATAAAACTTG-CTTACTT-AG
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAA
* * * * *
29665290 TCCGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* * * *** *
29665331 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGAGGT-TTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
** * * * ** *
29665374 TCCAC-CCACTGCAACTTCAGCGAGATAGGA-TTGTCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* *
29665417 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
* * * * *
29665462 TCTG-TCTCGCTGTAACTTCA-GGAGAATAAGACTTGCTTAT-TT-AG
1 TCTGCTC-CACTGCAACTTCAGGGAG-ATAAGATTTGC-CATCTTCAA
* *
29665506 TCTGCTCCAGTGCAACTTCAAGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
29665537 CTCGATCTGT
Statistics
Matches: 553, Mismatches: 125, Indels: 88
0.72 0.16 0.11
Matches are distributed among these distances:
35 17 0.03
36 1 0.00
37 3 0.01
38 3 0.01
39 1 0.00
40 42 0.08
41 14 0.03
42 17 0.03
43 69 0.12
44 226 0.41
45 159 0.29
46 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAA
Found at i:29664971 original size:89 final size:88
Alignment explanation
Indices: 29664813--29665536 Score: 474
Period size: 89 Copynumber: 8.4 Consensus size: 88
29664803 ACTAGATGCG
* * * ** *
29664813 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGAT-TTCAATCCGCTCCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCT-CACTGCAACTTC
*
29664876 AGGGAGATAGGATTACCGGCTTTA
65 AGGGAGATAAGATTACCGGCTTTA
* *
29664900 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCATTCTGCCTCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTG-CTCACTGCAACTTC
*
29664965 AGGGAGATAGGATTACCGGCTTTA
65 AGGGAGATAAGATTACCGGCTTTA
* *
29664989 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCATTCTGCCTCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTG-CTCACTGCAACTTC
* ***
29665054 A-GGAGGATAAGACTTGCTTAC-TTA
65 AGGGA-GATAAGA-TTACCGGCTTTA
* * * * *
29665078 GTCCGCTCCACTGCAACTTCAGGGAGATAAGA--TGCGATCTGC--TCT-CT-A---CAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCTCACTGCAACTTCA
* * *
29665134 GAGAGATAAGATCTA-AGGTTTTA
66 GGGAGATAAGAT-TACCGGCTTTA
* * * * ** * *
29665157 ATCCGC-CCACTGCAACTTCAGCGAGATAGGA-TTACCGGCTTTAATCTGCTCCACTGCAACTTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCT-CACTGCAACTTC
* ** *
29665220 AGGGAGATAAGATTTGCCATCTTCA
65 AGGGAGATAAGA-TTACCGGCTTTA
* * * * * * * *
29665245 GTCTGCTTCACTGCAATTTCA-GGAGGATAAAACTTG-CTTACTT-AGTCCGCTCCACTGCAACT
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTCAATCTGCT-CACTGCAACT
* * ***
29665307 TCAGGGAGATAAGACTA---GATGCG
63 TCAGGGAGATAAGATTACCGGCTTTA
* * * *** * ** *
29665330 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGAGGT-TTTAATCCACCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCTCACTGCAACTTCA
* * **
29665393 GCGAGATAGGATTGTCGGCTTTA
66 GGGAGATAAGATTACCGGCTTTA
* * * *
29665416 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTGTCTCGCTGTAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTG-CTCACTGCAACTTC
* ***
29665481 A-GGAGAATAAGACTT-GCTTATTTA
65 AGGGAG-ATAAGA-TTACCGGCTTTA
* * *
29665505 GTCTGCTCCAGTGCAACTTCAAGGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
29665537 CTCGATCTGT
Statistics
Matches: 498, Mismatches: 105, Indels: 66
0.74 0.16 0.10
Matches are distributed among these distances:
78 24 0.05
79 27 0.05
80 2 0.00
81 3 0.01
82 3 0.01
83 27 0.05
84 25 0.05
85 14 0.03
86 9 0.02
87 57 0.11
88 48 0.10
89 246 0.49
90 13 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (88 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAATCTGCTCACTGCAACTTCA
GGGAGATAAGATTACCGGCTTTA
Found at i:29665462 original size:216 final size:216
Alignment explanation
Indices: 29664953--29665538 Score: 941
Period size: 216 Copynumber: 2.7 Consensus size: 216
29664943 CATTCTGCCT
*
29664953 CACTGCAACTTCAGGGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATA
1 CACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATA
* *
29665018 AGATTTGCCATCTTCATTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCCG
66 AGATTTGCCATCTTCAGTCTGCTTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCCG
*
29665083 CTCCACTGCAACTTCAGGGAGAT---A--AGATGCGATCTGCTCTCTACAATTTCAGAGAGATAA
131 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAA
*
29665143 GATCTAAGGTTTTAATCCGCC
196 GATCTAAGGTTTTAATCCACC
29665164 CACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATA
1 CACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATA
* *
29665229 AGATTTGCCATCTTCAGTCTGCTTCACTGCAATTTCAGGAGGATAAAACTTGCTTACTTAGTCCG
66 AGATTTGCCATCTTCAGTCTGCTTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCCG
*
29665294 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAA
131 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAA
*
29665359 GATCTGAGGTTTTAATCCACC
196 GATCTAAGGTTTTAATCCACC
** *
29665380 CACTGCAACTTCAGCGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATA
* * * * * *
29665445 AGATTTGCCACCTTCAGTCTG-TCTCGCTGTAACTTCAGGAGAATAAGACTTGCTTATTTAGTCT
66 AGATTTGCCATCTTCAGTCTGCT-TCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCC
* *
29665509 GCTCCAGTGCAACTTCAAGGAGATAAGACT
130 GCTCCACTGCAACTTCAGGGAGATAAGACT
29665539 CGATCTGTTA
Statistics
Matches: 347, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
211 148 0.43
214 1 0.00
215 1 0.00
216 197 0.57
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (216 bp):
CACTGCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATA
AGATTTGCCATCTTCAGTCTGCTTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCCG
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAA
GATCTAAGGTTTTAATCCACC
Found at i:29674012 original size:22 final size:22
Alignment explanation
Indices: 29673987--29674030 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
29673977 ATCTGGACCA
29673987 CAGCTTCCTCGATAAGATGAAC
1 CAGCTTCCTCGATAAGATGAAC
29674009 CAGCTTCCTCGATAAGATGAAC
1 CAGCTTCCTCGATAAGATGAAC
29674031 TCCGCTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (22 bp):
CAGCTTCCTCGATAAGATGAAC
Found at i:29677819 original size:15 final size:16
Alignment explanation
Indices: 29677794--29677824 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
29677784 ACATATATAA
29677794 AAAATAATAATTACAT
1 AAAATAATAATTACAT
29677810 AAAA-AATAATTACAT
1 AAAATAATAATTACAT
29677825 CCTAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAATAATTACAT
Found at i:29690178 original size:26 final size:26
Alignment explanation
Indices: 29690149--29690203 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
29690139 TATTTATTTA
29690149 TGGTGTTAACCCACTTGTGTTTAAGT
1 TGGTGTTAACCCACTTGTGTTTAAGT
* *
29690175 TGGTGTTAATCCACTTGTGTTTGAGT
1 TGGTGTTAACCCACTTGTGTTTAAGT
29690201 TGG
1 TGG
29690204 ATTACGCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.16, C:0.13, G:0.27, T:0.44
Consensus pattern (26 bp):
TGGTGTTAACCCACTTGTGTTTAAGT
Found at i:29702677 original size:30 final size:31
Alignment explanation
Indices: 29702638--29702709 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
29702628 TGGAATATGC
* *
29702638 ATAAA-AAATAAAC-ATGAAAGTATCAAAA-A
1 ATAAATAAATAAACAAAG-AAGGATCAAAATA
*
29702667 ATAAATAAAT-AACAAAGAAGGATTAAAATA
1 ATAAATAAATAAACAAAGAAGGATCAAAATA
29702697 ATAAATAAATAAA
1 ATAAATAAATAAA
29702710 TGAATAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 17 0.47
30 17 0.47
31 2 0.06
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.19
Consensus pattern (31 bp):
ATAAATAAATAAACAAAGAAGGATCAAAATA
Found at i:29702736 original size:27 final size:26
Alignment explanation
Indices: 29702693--29702761 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 26
29702683 GAAGGATTAA
29702693 AATAATAAATAAATAAATGAATAAAT
1 AATAATAAATAAATAAATGAATAAAT
*
29702719 AATATATAAATAAGTAAATGAATAAAT
1 AATA-ATAAATAAATAAATGAATAAAT
29702746 GAATGAATAAAATAAA
1 -AAT-AAT-AAATAAA
29702762 AGGAATAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.11
27 21 0.57
28 5 0.14
29 7 0.19
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (26 bp):
AATAATAAATAAATAAATGAATAAAT
Found at i:29702781 original size:4 final size:4
Alignment explanation
Indices: 29702692--29702761 Score: 63
Period size: 4 Copynumber: 17.8 Consensus size: 4
29702682 AGAAGGATTA
* * *
29702692 AAAT -AAT AAAT AAAT AAAT GAAT AAAT -AAT ATAT AAAT AAGT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
29702738 GAAT AAAT GAAT GAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT -AAAT AAA
29702762 AGGAATAATC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
3 6 0.11
4 44 0.83
5 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:29702893 original size:12 final size:12
Alignment explanation
Indices: 29702876--29702919 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
29702866 TTTTTAATTT
29702876 TTTGGGCTTGTA
1 TTTGGGCTTGTA
*
29702888 TTTGGGTTTGTAA
1 TTTGGGCTTGT-A
29702901 GTTTGGGCTTGGTA
1 -TTTGGGCTT-GTA
29702915 TTTGG
1 TTTGG
29702920 ACTTTGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 9 0.33
15 2 0.07
ACGTcount: A:0.09, C:0.05, G:0.36, T:0.50
Consensus pattern (12 bp):
TTTGGGCTTGTA
Found at i:29703461 original size:20 final size:18
Alignment explanation
Indices: 29703411--29703462 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
29703401 TTTCAAGATA
29703411 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
29703428 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
29703448 AATATTAAATTAATA
1 AATATTAAATTAATA
29703463 AAATACTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:29703790 original size:20 final size:19
Alignment explanation
Indices: 29703749--29703791 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
29703739 TTCAACCAGT
*
29703749 TTTTGGGTCTTGGTCTCGA
1 TTTTGGGTCTTGGTCTCAA
29703768 TTTTGGGTTCTTGAGTC-CAA
1 TTTTGGG-TCTTG-GTCTCAA
29703788 TTTT
1 TTTT
29703792 CGATCTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 11 0.52
21 3 0.14
ACGTcount: A:0.09, C:0.14, G:0.26, T:0.51
Consensus pattern (19 bp):
TTTTGGGTCTTGGTCTCAA
Found at i:29704921 original size:15 final size:15
Alignment explanation
Indices: 29704901--29704930 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29704891 CTGTGCATGC
*
29704901 AAAACATGAAAGACA
1 AAAACATAAAAGACA
29704916 AAAACATAAAAGACA
1 AAAACATAAAAGACA
29704931 TAATAGTAAA
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:0.70, C:0.13, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAACATAAAAGACA
Found at i:29712187 original size:90 final size:92
Alignment explanation
Indices: 29712064--29712242 Score: 245
Period size: 90 Copynumber: 2.0 Consensus size: 92
29712054 TTAATAAAAC
* * * *** *
29712064 CCCTGACTTAGTTGGTGTGTCACAGGTTAACCAGGTACTAATTTGGTTAGGAAATTATGGAAATG
1 CCCTGACTAAGTTGGTGTGTCACAGGTTAACCAGGTACCAACTCAATTAGGAAATTATAGAAATG
* **
29712129 TCGTTTTGTATTTAAAATGAGTCAAAT
66 TCCTTCCGTATTTAAAATGAGTCAAAT
*
29712156 CCCTGACTAAGTT-G-GTGTCACGGGTTAACCAGGTACCAACTCAATTAGGAAATTATAGAAATG
1 CCCTGACTAAGTTGGTGTGTCACAGGTTAACCAGGTACCAACTCAATTAGGAAATTATAGAAATG
29712219 TCCTTCCGTATTTAAAATGAGTCA
66 TCCTTCCGTATTTAAAATGAGTCA
29712243 CGCGATTTGA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
90 63 0.83
91 1 0.01
92 12 0.16
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (92 bp):
CCCTGACTAAGTTGGTGTGTCACAGGTTAACCAGGTACCAACTCAATTAGGAAATTATAGAAATG
TCCTTCCGTATTTAAAATGAGTCAAAT
Found at i:29712799 original size:670 final size:656
Alignment explanation
Indices: 29711530--29713068 Score: 1695
Period size: 670 Copynumber: 2.3 Consensus size: 656
29711520 ACCATCTTGG
* * **
29711530 TTAGGAAATTATGAAAATGTCCTTCCATATTTAAAATGAGTCATATCATTTGAGGGCATTTTAGG
1 TTAGGAAATTATG-AAATGTCCTTCCGTATTTAAAATGAGTCA-AACATTTGAGGATATTTTA-G
*
29711595 TTTTTTATTTTAACAAAAA-TCAAGAAAAATATGCATATAAAGAGATTTAAACTCGTGCTAATTG
63 TTTTTTATTTTAACAAAAACT-AAGAAAAATATGCATATGAAGAGATTTAAACTCGTGC-AATTG
* * * * * *
29711659 GATAAATAAAATTTTAATTTACCACTCAACTAAAAGCATTATTTTGATGTTTTTTATACATTTTT
126 GATTAGTAAAAATTAAATTTACCATTCAACTAAAA-CATTATTTTGAT-ATTTTTATACATTTTT
* * *
29711724 TAATATGCACAATTTATTATGTCTACCAGTTGTATATATCTATGCTATTTATTAAGTTGGTGTCA
189 TAATATGCACAATTTATTATCTCCACCAGTTG-ATATATCTATACTATTTATTAAGTTGGTGTCA
* ** **
29711789 CCCCCAACCGTGTTACCAACTTGGTTAAAAAATATGAAAAGGCCCTTCCATAATTAAAATAAGTT
253 CCCCCAACCGTGTCACCAACTCAGTTAAAAAATAAAAAAAGGCCCTTCCATAATTAAAATAAGTT
*
29711854 ATAATATTTGTGAATATATTAATATTTTCATTTTAATAAAAACCAATTAAAATATGCAAATGGTT
318 ATAATATTTGTGAATATATTAATATCTTCATTTTAAT-------AATTAAAATATGCAAATGGTT
* *
29711919 GGATTTAAAATCAAGTCAACTGGACTAGTAAAATCTTAAATTTACCACTCAATCAAAACTTCATT
376 GGATTTAAAACCAAGTCAACTGGACTAGTAAAATCTTAAATTTACCAATCAATCAAAACTTCATT
* * * ** *
29711984 TTGATGTATTTATACAATTTTATTTTAATATGCACAAGTTATTATTTCTATTAGCTGGATATCTA
441 TTGATATATTTATACAATTTTATTTTAACATGCACAAATTATTATCCCCATTAGCTGGATATCTA
* * * * *
29712049 TATTATTAATAAAACCCCTGACTTAGTTGGTGTGTCACAGGTTAACCAGGTACTAATTTGGTTAG
506 TACTATTAATAAAACCCCTGACTTAATTGGTGTGCCACAGGTTAACCAGGTACCAATTGGGTTAG
* * * *
29712114 GAAATTATGGAAATGTCGTTTT-GTATTTAAAATGAGTCAAATCCCTGACTAAGTTGGTGTCACG
571 AAAATTATAGAAATGTC-TTTTCATATTTAAAATGAGTCAAATCCCTGAATAAGTTGGTGTCACG
29712178 GGTTAACC-AGGTACCAACTCAA
635 GGTTAACCGA-GTACCAACTCAA
**
29712200 TTAGGAAATTATAGAAATGTCCTTCCGTATTTAAAATGAGTCACGCGATTTGAGGATATTTTAGT
1 TTAGGAAATTAT-GAAATGTCCTTCCGTATTTAAAATGAGTCAAAC-ATTTGAGGATATTTTAGT
* * *
29712265 CTTTTCATTTTAACAAAAACTAAGAAAAATATGCATATGAAGGGATTTAAACTTGTGTCAATTGG
64 -TTTTTATTTTAACAAAAACTAAGAAAAATATGCATATGAAGAGATTTAAACTCGTG-CAATTGG
* * * *
29712330 ATTAGTAAAACCTTAAATTTACCGTTCAGCCAAAACATTATTTTGAT-TTTTTAATACATTTTTT
127 ATTAGTAAAA-ATTAAATTTACCATTCAACTAAAACATTATTTTGATATTTTT-ATACATTTTTT
*
29712394 AATATGCACAATTTATTATCTCCACTAGTTG-TATATCTATACTATTTATTAAGTGTTTTATTGA
190 AATATGCACAATTTATTATCTCCACCAGTTGATATATCTATACTATTTATTAA--G-----TTG-
** * * * ***
29712458 TTTGATGTCACCTTCAACTG-GATCACCAACTCAGTTAAAAAATTAAAAAAATGTCCTTTTGTAA
247 ---G-TGTCACCCCCAACCGTG-TCACCAACTCAGTTAAAAAA-TAAAAAAAGGCCCTTCCATAA
** * *
29712522 TTTTAATAAGTTATAATATTTGTGAATGT-TTGAATATCTTCATTTTAAT-ATTAAAATATGCAT
306 TTAAAATAAGTTATAATATTTGTGAATATATT-AATATCTTCATTTTAATAATTAAAATATGCAA
* * * * *
29712585 ATGGTTGTATTTAAACCCGAG-CGAATTGGACTAGTAAAATCTTAAATTTACCAATTAA-CTAAA
370 ATGGTTGGATTTAAAACCAAGTC-AACTGGACTAGTAAAATCTTAAATTTACCAATCAATC-AAA
* * *
29712648 GCTTCATTTTGATATATTTATAC-ATATTTATTTTAACATGCATAAATTATTATCCCCATTAGTT
433 ACTTCATTTTGATATATTTATACAAT-TTTATTTTAACATGCACAAATTATTATCCCCATTAGCT
* * * * **
29712712 GTATATTTATACTATTAATAAAACCTCTGA-TTAAATT-G-GTGCCACAGTTTAACTGGGTACCA
497 GGATATCTATACTATTAATAAAACCCCTGACTT-AATTGGTGTGCCACAGGTTAACCAGGTACCA
* **
29712774 ATTGGGTTAGAAAATTATAGAAATGTCTTTTCATTTTTAAAATGAGTCAAATCTTTGAATAAGTT
561 ATTGGGTTAGAAAATTATAGAAATGTCTTTTCATATTTAAAATGAGTCAAATCCCTGAATAAGTT
***
29712839 GGTGTCACGGGTTAACCGAGTACCAACTTGG
626 GGTGTCACGGGTTAACCGAGTACCAACTCAA
* * * **
29712870 TTAGGGAATTATGGAAATGTCCTTCTGTATTTAAAGTGAGTCATATTATTTGA-GAGTATTTTAG
1 TTAGGAAATTAT-GAAATGTCCTTCCGTATTTAAAATGAGTCA-AACATTTGAGGA-TATTTTAG
* * * *
29712934 TATTTTTATTTTAACAAAAACCAAGAAAAATATGTATATGATGAGATTTAAACACGTGCCAATTG
63 T-TTTTTATTTTAACAAAAACTAAGAAAAATATGCATATGAAGAGATTTAAACTCGTG-CAATTG
* * * * * *
29712999 AATTAGTAAAATATTAAATTTACCATTAAACTAAATCATCATTTTAATATTTTTATATATTTTTT
126 GATTAGTAAAA-ATTAAATTTACCATTCAACTAAAACATTATTTTGATATTTTTATACATTTTTT
29713064 AATAT
190 AATAT
29713069 TATAGTGCAT
Statistics
Matches: 735, Mismatches: 103, Indels: 62
0.82 0.11 0.07
Matches are distributed among these distances:
667 20 0.03
668 5 0.01
669 49 0.07
670 389 0.53
671 34 0.05
672 146 0.20
674 3 0.00
678 2 0.00
679 31 0.04
680 56 0.08
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (656 bp):
TTAGGAAATTATGAAATGTCCTTCCGTATTTAAAATGAGTCAAACATTTGAGGATATTTTAGTTT
TTTATTTTAACAAAAACTAAGAAAAATATGCATATGAAGAGATTTAAACTCGTGCAATTGGATTA
GTAAAAATTAAATTTACCATTCAACTAAAACATTATTTTGATATTTTTATACATTTTTTAATATG
CACAATTTATTATCTCCACCAGTTGATATATCTATACTATTTATTAAGTTGGTGTCACCCCCAAC
CGTGTCACCAACTCAGTTAAAAAATAAAAAAAGGCCCTTCCATAATTAAAATAAGTTATAATATT
TGTGAATATATTAATATCTTCATTTTAATAATTAAAATATGCAAATGGTTGGATTTAAAACCAAG
TCAACTGGACTAGTAAAATCTTAAATTTACCAATCAATCAAAACTTCATTTTGATATATTTATAC
AATTTTATTTTAACATGCACAAATTATTATCCCCATTAGCTGGATATCTATACTATTAATAAAAC
CCCTGACTTAATTGGTGTGCCACAGGTTAACCAGGTACCAATTGGGTTAGAAAATTATAGAAATG
TCTTTTCATATTTAAAATGAGTCAAATCCCTGAATAAGTTGGTGTCACGGGTTAACCGAGTACCA
ACTCAA
Found at i:29719711 original size:63 final size:63
Alignment explanation
Indices: 29719633--29719772 Score: 253
Period size: 63 Copynumber: 2.2 Consensus size: 63
29719623 TTTGTGCATC
* *
29719633 TTCTCTTGAGTTTTCACTGAGTCCTTTTTCCCAAAGTTTTTTATTTTATCTTACAATGCAGTT
1 TTCTCTTGAGTTTTCACTGAGTCCTATTTCCCAAAGTTTTTTATTTTATCTTACAACGCAGTT
*
29719696 TTCTCTTGAGTTTTCACTGAGTCCTATTTCCCGAAGTTTTTTATTTTATCTTACAACGCAGTT
1 TTCTCTTGAGTTTTCACTGAGTCCTATTTCCCAAAGTTTTTTATTTTATCTTACAACGCAGTT
29719759 TTCTCTTGAGTTTT
1 TTCTCTTGAGTTTT
29719773 TATCTTTACT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 74 1.00
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.51
Consensus pattern (63 bp):
TTCTCTTGAGTTTTCACTGAGTCCTATTTCCCAAAGTTTTTTATTTTATCTTACAACGCAGTT
Found at i:29731916 original size:232 final size:233
Alignment explanation
Indices: 29731501--29731974 Score: 862
Period size: 232 Copynumber: 2.0 Consensus size: 233
29731491 GACCATTAGA
*
29731501 AGGCATTTTAGACCGATATTGGATGCTATGTAGCAACACGGGAGGCCCGATGTCACAACATAGAG
1 AGGCGTTTTAGACCGATATTGGATGCTATGTAGCAACACGGGAGGCCCGATGTCACAACATAGAG
*
29731566 AACATAGTGGAGAAAGTACGAAACTGCCTTCGATGTCACAACATAGACTGAGGGTGTCACGAGAT
66 AACATAATGGAGAAAGTACGAAACTGCCTTCGATGTCACAACATAGACTGAGGGTGTCACGAGAT
*
29731631 ACCCTTGAAGATGTCTTAAGGAGGAGTACACTGTCACCTCTGTCGCAACACAGGTCTTGTTGTGT
131 ACCCTTGAAGATGTCTCAAGGAGGAGTACACTGTCACCTCTGTCGCAACACAGGTCTTGTTGTGT
29731696 CGCGACATTGACTGGGACAGAAATTAAACACGAAGCTG
196 CGCGACATTGACTGGGACAGAAATTAAACACGAAGCTG
*
29731734 AGGCGTTTTAGACTGATATTGGATGCTATGTAGCAACACGGGAGGCCCGATGTCACAACATAGAG
1 AGGCGTTTTAGACCGATATTGGATGCTATGTAGCAACACGGGAGGCCCGATGTCACAACATAGAG
*
29731799 -ACATAATGGAGAAAGTACGAAACTGCCTTCGATGTCACAACATAGACTGAGGGTGTCATGAGAT
66 AACATAATGGAGAAAGTACGAAACTGCCTTCGATGTCACAACATAGACTGAGGGTGTCACGAGAT
**
29731863 ACCGC-TGAAGATGTCTCAAGGAGGAGTACACTGTCACCTCTGTCGTGACACAGGTCTTGTTGTG
131 ACC-CTTGAAGATGTCTCAAGGAGGAGTACACTGTCACCTCTGTCGCAACACAGGTCTTGTTGTG
29731927 TCGCGACATTGACTGGGACAGAAATTAAACACGAAGCTG
195 TCGCGACATTGACTGGGACAGAAATTAAACACGAAGCTG
29731966 AGGCGTTTT
1 AGGCGTTTT
29731975 GGTTCGCACA
Statistics
Matches: 233, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
232 169 0.73
233 64 0.27
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (233 bp):
AGGCGTTTTAGACCGATATTGGATGCTATGTAGCAACACGGGAGGCCCGATGTCACAACATAGAG
AACATAATGGAGAAAGTACGAAACTGCCTTCGATGTCACAACATAGACTGAGGGTGTCACGAGAT
ACCCTTGAAGATGTCTCAAGGAGGAGTACACTGTCACCTCTGTCGCAACACAGGTCTTGTTGTGT
CGCGACATTGACTGGGACAGAAATTAAACACGAAGCTG
Found at i:29736258 original size:18 final size:20
Alignment explanation
Indices: 29736221--29736259 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
29736211 GTAGGACCTG
29736221 TATACTGTATAATCTGTTAC
1 TATACTGTATAATCTGTTAC
*
29736241 TATACTG-ATTAT-TGTTAC
1 TATACTGTATAATCTGTTAC
29736259 T
1 T
29736260 GTAATGGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (20 bp):
TATACTGTATAATCTGTTAC
Found at i:29755247 original size:22 final size:22
Alignment explanation
Indices: 29755219--29755262 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
29755209 TCGGTTGTTC
*
29755219 CCCTTTTCATTAATTGATAACG
1 CCCTTTTAATTAATTGATAACG
29755241 CCCTTTTAATTAATTGATAACG
1 CCCTTTTAATTAATTGATAACG
29755263 ACATGGGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (22 bp):
CCCTTTTAATTAATTGATAACG
Found at i:29758272 original size:45 final size:45
Alignment explanation
Indices: 29758208--29758294 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
29758198 AAGAGTCTAG
*
29758208 AAAAGCTGAAGGCCGTACATAAGAAACAATACCTGTGCAAGGGAA
1 AAAAGCTGAAGGCCATACATAAGAAACAATACCTGTGCAAGGGAA
* ** *
29758253 AAAAGCTGAAGGTCATACATGGGAAACGATACCTGTGCAAGG
1 AAAAGCTGAAGGCCATACATAAGAAACAATACCTGTGCAAGG
29758295 AAACAAGTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (45 bp):
AAAAGCTGAAGGCCATACATAAGAAACAATACCTGTGCAAGGGAA
Found at i:29760322 original size:17 final size:17
Alignment explanation
Indices: 29760297--29760330 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29760287 TAATATATAA
29760297 AATAATTTAAAGTAAAT
1 AATAATTTAAAGTAAAT
*
29760314 AATACTTTAAAGTAAAT
1 AATAATTTAAAGTAAAT
29760331 GATTTATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
AATAATTTAAAGTAAAT
Found at i:29760440 original size:25 final size:25
Alignment explanation
Indices: 29760355--29760431 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
29760345 ATTCAAAATA
* * *
29760355 AATAATAAAAAGTTTCAAATAAACAAA
1 AATAA-AAAAA-TTTAAAATAAATAAC
* *
29760382 ATATAAAAAAACTAAAAATAAATAAC
1 A-ATAAAAAAATTTAAAATAAATAAC
29760408 AATAAAAAAATTTAAAATAAATAA
1 AATAAAAAAATTTAAAATAAATAA
29760432 TCTAAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 21 0.50
26 11 0.26
27 6 0.14
28 4 0.10
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.22
Consensus pattern (25 bp):
AATAAAAAAATTTAAAATAAATAAC
Found at i:29760448 original size:25 final size:24
Alignment explanation
Indices: 29760384--29760449 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
29760374 TAAACAAAAT
29760384 ATAAAAAAACTA-AAAATAAATAAC
1 ATAAAAAAA-TATAAAATAAATAAC
*
29760408 AATAAAAAAATTTAAAATAAATAATC
1 -ATAAAAAAATATAAAATAAATAA-C
29760434 -TAAAAAATATATAAAA
1 ATAAAAAA-ATATAAAA
29760450 CAGTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 8 0.22
25 27 0.75
26 1 0.03
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (24 bp):
ATAAAAAAATATAAAATAAATAAC
Found at i:29760477 original size:17 final size:19
Alignment explanation
Indices: 29760438--29760484 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
29760428 ATAATCTAAA
*
29760438 AAATATATAAAACAGTTTT
1 AAATATATAAAACAGTTTG
*
29760457 AAATATATATAA-A-TTTG
1 AAATATATAAAACAGTTTG
29760474 AAATATATAAA
1 AAATATATAAA
29760485 TAATAGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 13 0.52
18 1 0.04
19 11 0.44
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AAATATATAAAACAGTTTG
Found at i:29760572 original size:25 final size:26
Alignment explanation
Indices: 29760519--29760580 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
29760509 GAATTTTTTT
* *
29760519 TTAAAATAAATAATATGTAAAACAGC
1 TTAAAATAAATAATATGTAAAAAAAC
*
29760545 TTAAAACAAATAATAT-TAAAAAAAC
1 TTAAAATAAATAATATGTAAAAAAAC
29760570 TTAAAATAAAT
1 TTAAAATAAAT
29760581 GATGATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 17 0.53
26 15 0.47
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.27
Consensus pattern (26 bp):
TTAAAATAAATAATATGTAAAAAAAC
Found at i:29762098 original size:44 final size:44
Alignment explanation
Indices: 29762024--29762415 Score: 181
Period size: 44 Copynumber: 8.8 Consensus size: 44
29762014 AATTTGGTGT
* * * *
29762024 TTCGATCCACTCCAATGTAATTTCAGGGAGA-AGAGACTTGTAGA
1 TTCGATCTACTCCACTGCAACTTCAGGGAGATA-AGACTTGTAGA
* *
29762068 TTCGATCTACTCCACTGCAACTTCAAGGAGATAAGAATTGGTA-A
1 TTCGATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAGA
* * * * ** *
29762112 TTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTATA
1 -TTCGATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAGA
** * * *
29762157 TTTTTATCCTACTCCACTGCAACTTTAGGGAGATAAGGA-TTGTGGC
1 -TTCGAT-CTACTCCACTGCAACTTCAGGGAGATAA-GACTTGTAGA
* * * *
29762203 TTCGATCTGCTCCAACAT--AATTTCAGGGAGA-AGAGATTTGTAGC
1 TTCGATCTACTCC-AC-TGCAACTTCAGGGAGATA-AGACTTGTAGA
* ** * * * * *
29762247 TTTGATCTACTCCACTAAAACTTCAAGGAGATAAGGCTGGTGGC
1 TTCGATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAGA
* * * * *
29762291 TTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGA-TTCGCT-GTC
1 TTCGATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAG-A
* * ** * * * *
29762336 TTC-AGTTTGCTCTGCTGCAACTTCAGGGAGATAAGGCTGGTGGC
1 TTCGA-TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAGA
* * * *
29762380 TTCAATCTACTCCACTACAACTTTAGGAAGATAAGA
1 TTCGATCTACTCCACTGCAACTTCAGGGAGATAAGA
29762416 TCAGTCATAA
Statistics
Matches: 270, Mismatches: 58, Indels: 40
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 148 0.55
45 81 0.30
46 33 0.12
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
TTCGATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAGA
Found at i:29762127 original size:45 final size:46
Alignment explanation
Indices: 29762074--29762198 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
29762064 TAGATTCGAT
* *
29762074 CTACTCCACTGCAACTTCAAGGAGATAAGAATTGGTA-A-TTTCAAC
1 CTACTCCACTGCAACTTTAGGGAGATAAG-ATTGGTATATTTTCAAC
* * * * *
29762119 CTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTATATTTTTATC
1 CTACTCCACTGCAACTTTAGGGAGATAAGATTGGTATATTTTCAAC
29762165 CTACTCCACTGCAACTTTAGGGAGATAAGGATTG
1 CTACTCCACTGCAACTTTAGGGAGATAA-GATTG
29762199 TGGCTTCGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 5 0.07
45 27 0.40
46 32 0.48
47 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (46 bp):
CTACTCCACTGCAACTTTAGGGAGATAAGATTGGTATATTTTCAAC
Found at i:29762278 original size:88 final size:87
Alignment explanation
Indices: 29762041--29762304 Score: 273
Period size: 88 Copynumber: 3.0 Consensus size: 87
29762031 CACTCCAATG
* * *
29762041 TAATTTCAGGGAGAAGAGACTTGTAGATTCGATCTACTCCACTGCAACTTCAAGGAGATAAGAAT
1 TAATTTCAGGGAGAAGAGATTTGTAGATTTGATCTACTCCACTGCAACTTCAAGGAGATAAGGAT
*** *
29762106 TGGTAATTTCAACCTGCTCC-AC
66 T-GTGGCTTCAATCTGCTCCAAC
* * * * *
29762128 TGCAACTTT-AGGGAGATA-AGGTTTGTATATTTTTATCCTACTCCACTGCAACTTTAGGGAGAT
1 T--AA-TTTCAGGGAGA-AGAGATTTGTAGA-TTTGAT-CTACTCCACTGCAACTTCAAGGAGAT
*
29762191 AAGGATTGTGGCTTCGATCTGCTCCAAC
60 AAGGATTGTGGCTTCAATCTGCTCCAAC
* ** *
29762219 ATAATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCACTAAAACTTCAAGGAGATAAGGC
1 -TAATTTCAGGGAGAAGAGATTTGTAGATTTGATCTACTCCACTGCAACTTCAAGGAGATAAGGA
*
29762284 TGGTGGCTTCAATCTGCTCCA
65 TTGTGGCTTCAATCTGCTCCA
29762305 CTGCAACTTC
Statistics
Matches: 143, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
87 1 0.01
88 45 0.31
89 26 0.18
90 38 0.27
91 32 0.22
92 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (87 bp):
TAATTTCAGGGAGAAGAGATTTGTAGATTTGATCTACTCCACTGCAACTTCAAGGAGATAAGGAT
TGTGGCTTCAATCTGCTCCAAC
Found at i:29764045 original size:44 final size:43
Alignment explanation
Indices: 29763987--29764683 Score: 182
Period size: 44 Copynumber: 14.9 Consensus size: 43
29763977 GATTCACTGT
* * * * *
29763987 CTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGGCTGGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGT-G
* * *
29764031 CTTCAATCTCCTCCACTGCAACTTCAGGAAGATAAGATCCGCTG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA-CTGGTG
* * *
29764075 TCTTTAGTCTGTTCCACTGCAACTTCAGGGAA-ATAAGACTGGTGG
1 -CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACTGGT-G
* * *
29764120 CTTCAATCTGCTCCACAGAAACTTCAGGAAGATAAGATCAGTCATAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG---A--C-----TGGT-G
* * ** * *
29764174 CTTTAATCTGTTCCACTGCAACGCCAGGGAA-ATAAGATTCGTTG
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACT-GGTG
* * *
29764218 TCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCCGTCATAGTTTGTAG
1 -CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA----GAC-T-G---GT-G
* * ** * *
29764272 CTTTAATCTGTTCCACTGCAACGCCAGGGAA-ATAAGATTCGTTG
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACT-GGTG
* * * * *
29764316 TCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGGCTAGTGG
1 -CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGT-G
* * * * **
29764361 TTTTAATCTACTCCACTGCAACTTTAGGAAGATAAGATCCGCACTAATTTTTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGAT-A-A---G-AC----TGGT-G
* * * * * * ** * *
29764415 TTTTAACCTGTTTCACTACAACACCAGGGAA-ATAAGATTCGTTG
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACT-GGTG
* * * * * *
29764459 TCTTCAGTCTACTCCGCTGAAACTTCAGGGAGATAAGGCTGGTGG
1 -CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGT-G
*
29764504 CTT-AATCAGCTCCACTGCAACTTCAGGAAGATAAGACTCGCCATAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACT-G---------GT-G
* * * *
29764557 CTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACT-GGT-G
* * * * *
29764602 CTTCAGTCTGCTCCGCTGCAACTTTAGGGAA-ACAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACTGGT-G
*
29764646 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGAC
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAC
29764684 CCGCCATAAT
Statistics
Matches: 470, Mismatches: 123, Indels: 120
0.66 0.17 0.17
Matches are distributed among these distances:
43 36 0.08
44 140 0.30
45 139 0.30
46 9 0.02
47 1 0.00
48 3 0.01
49 5 0.01
50 3 0.01
51 1 0.00
52 1 0.00
53 33 0.07
54 91 0.19
55 8 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTG
Found at i:29764111 original size:89 final size:89
Alignment explanation
Indices: 29763969--29764352 Score: 295
Period size: 98 Copynumber: 4.1 Consensus size: 89
29763959 GCAACGCTAG
* * * ** * * *
29763969 GGAA-ATAAGATTCACTGTCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGGCTGGTAGCT
1 GGAAGATAAGATCCGCTGTCTTTAGTCTGTTCCACTGCAACTTCAGGGAAATAAGACTGGTAGCT
*
29764033 TCAATCTCCTCCACTGCAACTTCA
66 TCAATCTGCTCCACTGCAACTTCA
*
29764057 GGAAGATAAGATCCGCTGTCTTTAGTCTGTTCCACTGCAACTTCAGGGAAATAAGACTGGTGGCT
1 GGAAGATAAGATCCGCTGTCTTTAGTCTGTTCCACTGCAACTTCAGGGAAATAAGACTGGTAGCT
* *
29764122 TCAATCTGCTCCACAGAAACTTCA
66 TCAATCTGCTCCACTGCAACTTCA
* * **
29764146 GGAAGATAAGATCAGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGA
1 GGAAGATAAGATCCG-C------TGT--CTTTAGTCTGTTCCACTGCAACTTCAGGGAAATAAGA
* * * *
29764211 TTCGTTGTCTTCAATCTGCTCCGCTGCAACTTCA
57 CTGGTAG-CTTCAATCTGCTCCACTGCAACTTCA
* * * **
29764245 GGGAGATAAG-GCCGTCATAGTTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGA
1 GGAAGATAAGATCCG-C------TGT--CTTTAGTCTGTTCCACTGCAACTTCAGGGAAATAAGA
* * * * *
29764309 TTCGTTGTCTTCAGTCTGCTCTACTGCAACTTCA
57 CTGGTAG-CTTCAATCTGCTCCACTGCAACTTCA
*
29764343 GGGAGATAAG
1 GGAAGATAAG
29764353 GCTAGTGGTT
Statistics
Matches: 256, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
88 4 0.02
89 86 0.34
90 1 0.00
96 3 0.01
98 130 0.51
99 32 0.12
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (89 bp):
GGAAGATAAGATCCGCTGTCTTTAGTCTGTTCCACTGCAACTTCAGGGAAATAAGACTGGTAGCT
TCAATCTGCTCCACTGCAACTTCA
Found at i:29764262 original size:98 final size:98
Alignment explanation
Indices: 29764076--29764354 Score: 407
Period size: 98 Copynumber: 2.8 Consensus size: 98
29764066 GATCCGCTGT
* ** * * * * *
29764076 CTTTAGTCTGTTCCACTGCAACTTCAGGGAAATAAGACT-GGTGGCTTCAATCTGCTCCACAGAA
1 CTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAATCTGCTCCACTGCA
* *
29764140 ACTTCAGGAAGATAAGATCAGTCATAATTTGTAG
66 ACTTCAGGGAGATAAG-GCAGTCATAATTTGTAG
*
29764174 CTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAATCTGCTCCGCTGCA
1 CTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAATCTGCTCCACTGCA
* *
29764239 ACTTCAGGGAGATAAGGCCGTCATAGTTTGTAG
66 ACTTCAGGGAGATAAGGCAGTCATAATTTGTAG
* *
29764272 CTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCTACTGCA
1 CTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAATCTGCTCCACTGCA
29764337 ACTTCAGGGAGATAAGGC
66 ACTTCAGGGAGATAAGGC
29764355 TAGTGGTTTT
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
98 129 0.79
99 35 0.21
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (98 bp):
CTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAATCTGCTCCACTGCA
ACTTCAGGGAGATAAGGCAGTCATAATTTGTAG
Found at i:29764623 original size:241 final size:231
Alignment explanation
Indices: 29763967--29764629 Score: 685
Period size: 241 Copynumber: 2.8 Consensus size: 231
29763957 TTGCAACGCT
** * *
29763967 AGGGAAATAAGATTCACTGTCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGGCTGGTAGC
1 AGGGAAATAAGATTCGTTGTCTTCAGTCTACTCCGCTGAAACTTCAGGGAGATAAGGCTGGTAGC
* *
29764032 TTCAATCTCCTCCACTGCAACTTCAGGAAGATAAGATC-CGC-TGTCTTTAGTCTGTTCCACTGC
66 TT-AATCTGCTCCACTGCAACTTCAGGAAGATAAGATCGC-CTTGTCTTTAGTCTGCTCCACTGC
* * * *
29764095 AACTTCAGGGAA-ATAAGACTGGTGGCTTCAATCTGCTCCACAGAAACTTCAGGAAGATAAGATC
129 AACTTCA-GGAAGATAAGACT-GTGTCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATC
* * *
29764159 AGTCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCC
192 AGTCATAATTTGTAGCTTTAACCTGTTCCACTACAACACC
* * *
29764199 AGGGAAATAAGATTCGTTGTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCCGTCATA
1 AGGGAAATAAGATTCGTTGTCTTCAGTCTACTCCGCTGAAACTTCAGGGAGATAA-G--G-C-T-
* ** *
29764264 GTTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAA-ATAAGATTCG--TTGTCTTCAGTCT
60 G---GTAGC-TTAATCTGCTCCACTGCAACTTCA-GGAAGATAAGA-TCGCCTTGTCTTTAGTCT
* * * * *
29764326 GCTCTACTGCAACTTCAGGGAGATAAGGCTAGTGGT-TTTAATCTACTCCACTGCAACTTTAGGA
119 GCTCCACTGCAACTTCAGGAAGATAAGACT-GT-GTCTTCAATCTGCTCCACTGCAACTTTAGGA
* * * *
29764390 AGATAAGATCCG-CACTAATTTTTAGTTTTAACCTGTTTCACTACAACACC
182 AGATAAGATCAGTCA-TAATTTGTAGCTTTAACCTGTTCCACTACAACACC
*
29764440 AGGGAAATAAGATTCGTTGTCTTCAGTCTACTCCGCTGAAACTTCAGGGAGATAAGGCTGGTGGC
1 AGGGAAATAAGATTCGTTGTCTTCAGTCTACTCCGCTGAAACTTCAGGGAGATAAGGCTGGTAGC
* *
29764505 TTAATCAGCTCCACTGCAACTTCAGGAAGATAAGACTCGCCATAATTTGTAGCTTTAATCTGCTC
66 TTAATCTGCTCCACTGCAACTTCAGGAAGATAAGA-TCGCC-----TTGT--CTTTAGTCTGCTC
* * * *
29764570 CACTGCAACTTCAGGAAGATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTTAGG
123 CACTGCAACTTCAGGAAGATAAGACT-G-TGTCTTCAATCTGCTCCACTGCAACTTTAGG
29764630 GAAACAAGGC
Statistics
Matches: 352, Mismatches: 50, Indels: 49
0.78 0.11 0.11
Matches are distributed among these distances:
230 4 0.01
231 29 0.08
232 53 0.15
233 1 0.00
235 2 0.01
236 2 0.01
237 2 0.01
238 6 0.02
240 41 0.12
241 203 0.58
242 9 0.03
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (231 bp):
AGGGAAATAAGATTCGTTGTCTTCAGTCTACTCCGCTGAAACTTCAGGGAGATAAGGCTGGTAGC
TTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCGCCTTGTCTTTAGTCTGCTCCACTGCAA
CTTCAGGAAGATAAGACTGTGTCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCAGTC
ATAATTTGTAGCTTTAACCTGTTCCACTACAACACC
Found at i:29764822 original size:44 final size:45
Alignment explanation
Indices: 29764714--29764825 Score: 111
Period size: 44 Copynumber: 2.5 Consensus size: 45
29764704 AATTTTTTTT
* * * *
29764714 ACTGCAACTTTAGGAAGATAAGATTCGCTGTCTTCAGTCGGCTCC
1 ACTGCAACTTTAGGAAGATAAGACTCGCTGGCTTCAATCGACTCC
* * * * * *
29764759 GCTGTAACTTCA-GAGAGATAAGGCT-GGTGGCTTCAATCTACTCC
1 ACTGCAACTTTAGGA-AGATAAGACTCGCTGGCTTCAATCGACTCC
29764803 ACTGCAACTTTAGGAAGATAAGA
1 ACTGCAACTTTAGGAAGATAAGA
29764826 TCCGCCATAA
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
44 32 0.63
45 19 0.37
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (45 bp):
ACTGCAACTTTAGGAAGATAAGACTCGCTGGCTTCAATCGACTCC
Found at i:29765122 original size:143 final size:143
Alignment explanation
Indices: 29764219--29765113 Score: 1199
Period size: 143 Copynumber: 6.3 Consensus size: 143
29764209 GATTCGTTGT
* * * * * *
29764219 CTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAG-GCCGTCATAGTTTGTAGCTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGT
* **
29764283 TCCACTGCAACGCCAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCTACTGCAACTTCAGGGAG
66 TCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAG
*
29764348 ATAAGGCTAGTGG
131 ATAAGGCTGGTGG
* * * * * *
29764361 TTTTAATCTACTCCACTGCAACTTTAGGAAGATAAGATCCG-CACTAATTTTTAGTTTTAACCTG
1 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCGCCA-TAATTTGTAGCTTTAATCTG
* * * * * *
29764425 TTTCACTACAACACCAGGGAAATAAGATTCGTTGTCTTCAGTCTACTCCGCTGAAACTTCAGGGA
65 TTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGA
29764490 GATAAGGCTGGTGG
130 GATAAGGCTGGTGG
* *
29764504 CTT-AATCAGCTCCACTGCAACTTCAGGAAGATAAGA-CTCGCCATAATTTGTAGCTTTAATCTG
1 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATC-CGCCATAATTTGTAGCTTTAATCTG
* ** * *
29764567 CTCCACTGCAACTTCA-GGAAGATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAACTTTAGGG
65 TTCCACTGCAACGCCAGGGAA-ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGG
* *
29764631 AAACAAGGCTGGTGG
129 AGATAAGGCTGGTGG
* * * *
29764646 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGACCCGCCATAATTTGTAACTTTAATTTTT
1 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGT
** *** * * *
29764711 TTTACTGCAACTTTA-GGAAGATAAGATTCGCTGTCTTCAGTCGGCTCCGCTGTAACTTCAGAGA
66 TCCACTGCAACGCCAGGGAA-ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGA
29764775 GATAAGGCTGGTGG
130 GATAAGGCTGGTGG
* *
29764789 CTTCAATCTACTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTTT
1 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGT
* * * * *
29764854 TCCACTGCAATGTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGTTGCAACTTCAGGGGG
66 TCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAG
29764919 ATAAGGCTGGTGG
131 ATAAGGCTGGTGG
* *
29764932 CTTCAATCTGCTCCACTACAACTTTAGGAAGATAAGATCCGTCATAATTTGTAGCTTTAATCTGT
1 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGT
* * *
29764997 TCCACTGCAACGCCAGGGAAATAATATTTGCTGTCTTCAGTCTGCTTCGCTGCAACTTCAGGGAG
66 TCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAG
*
29765062 ATAAGGCTGATGG
131 ATAAGGCTGGTGG
*
29765075 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
1 CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATC
29765114 TATCATAATG
Statistics
Matches: 661, Mismatches: 84, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
141 5 0.01
142 146 0.22
143 505 0.76
144 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (143 bp):
CTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGT
TCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAG
ATAAGGCTGGTGG
Found at i:29766010 original size:11 final size:11
Alignment explanation
Indices: 29765994--29766032 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
29765984 CCTTGGCCTC
29765994 TCTTTTTTCTT
1 TCTTTTTTCTT
29766005 TCTTTTTT-TT
1 TCTTTTTTCTT
29766015 TC-TTTTTCTT
1 TCTTTTTTCTT
29766025 T-TTTTTTC
1 TCTTTTTTC
29766033 AATGAAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.19
10 13 0.50
11 8 0.31
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TCTTTTTTCTT
Found at i:29773867 original size:12 final size:11
Alignment explanation
Indices: 29773834--29773859 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29773824 TCTCAACAAA
29773834 AATTACAAAAT
1 AATTACAAAAT
29773845 AATTACAAAAT
1 AATTACAAAAT
29773856 AATT
1 AATT
29773860 TTCAAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTACAAAAT
Found at i:29773884 original size:18 final size:19
Alignment explanation
Indices: 29773845--29773899 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
29773835 ATTACAAAAT
*
29773845 AATTACAAAATAATTT-TCAA
1 AATT-CAAAAT-ATTTATAAA
29773865 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
29773884 AATTCCAAA-ATTTATA
1 AATTCAAAATATTTATA
29773900 TTTTAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 11 0.34
19 17 0.53
20 4 0.12
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:29774081 original size:16 final size:16
Alignment explanation
Indices: 29774062--29774092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29774052 TTGAAGTTTT
29774062 TTTCAAATATATGTGG
1 TTTCAAATATATGTGG
*
29774078 TTTCAAATTTATGTG
1 TTTCAAATATATGTG
29774093 CTCTAATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATGTGG
Found at i:29777779 original size:41 final size:41
Alignment explanation
Indices: 29777724--29777994 Score: 224
Period size: 42 Copynumber: 6.4 Consensus size: 41
29777714 GCGTTTACAG
*
29777724 AAAAAAACGCCGCTAAAGATCATGTTCTTTAACGGCGTTTA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
* *
29777765 AAAAAAGACG-CGCTAAAGACCATGTTCTTTAGCGGCGTTTTT
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTTA
*** * * ** *
29777807 TGTAAAACGCCGCTAAAGAACATGGTCTTTAGCAACGCTTAAA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TT-TA
*
29777850 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGATG-GTTTC
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCG--GCGTTTA
*
29777893 AAAAAATCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTT-A
** ** * *
29777936 TCACGAACGCCGCGAAA-AGTAATGTTCTTTAGCGGCGCTTTTA
1 AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCG--TTTA
* *
29777979 TAAAAAACGCCACTAA
1 AAAAAAACGCCGCTAA
29777995 TTTTGGGATT
Statistics
Matches: 181, Mismatches: 37, Indels: 22
0.75 0.15 0.09
Matches are distributed among these distances:
40 1 0.01
41 35 0.19
42 65 0.36
43 49 0.27
44 30 0.17
45 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
Found at i:29777820 original size:83 final size:85
Alignment explanation
Indices: 29777725--29777932 Score: 260
Period size: 86 Copynumber: 2.5 Consensus size: 85
29777715 CGTTTACAGA
* *
29777725 AAAAAACGCCGCTAAAGATCATGTTCTTTAACGGCG-TT-TAAAAAAAGACG-CGCTAAAGACCA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAAAGACGCCGCTAAAGACCA
* * *
29777787 TGTTCTTTAGCGGCGTTTTTT
66 TGTTCTTTAGCGACG-GTTTC
** * * ** *
29777808 GTAAAACGCCGCTAAAGAACATGGTCTTTAGCAACGCTTAAAAAAAAAGACGCCGCTAAAGATCA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAAAGACGCCGCTAAAGACCA
*
29777873 TGTTCTTTAGCGATGGTTTC
66 TGTTCTTTAGCGACGGTTTC
29777893 AAAAAATCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAA-CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
29777933 TCATCACGAA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
83 29 0.28
84 2 0.02
85 18 0.18
86 53 0.52
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (85 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAAAGACGCCGCTAAAGACCA
TGTTCTTTAGCGACGGTTTC
Found at i:29778401 original size:21 final size:21
Alignment explanation
Indices: 29778377--29778424 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
29778367 GTTTCTCTCA
29778377 CTGCTTCTCTCGCTACAGCCT
1 CTGCTTCTCTCGCTACAGCCT
* * *
29778398 CTGCTTCTCTCGTTGCCGCCT
1 CTGCTTCTCTCGCTACAGCCT
29778419 CTGCTT
1 CTGCTT
29778425 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.42, G:0.17, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTACAGCCT
Found at i:29780607 original size:114 final size:112
Alignment explanation
Indices: 29780446--29781059 Score: 668
Period size: 114 Copynumber: 5.4 Consensus size: 112
29780436 AACGACGCCA
* * * *
29780446 TTGGGCTTAGGTTTTTTGCGACGC-TTCAACAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCG
1 TTGGGCTTAGTTTTTTTGCGGCGCTTTC-TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
* * * ** *
29780510 CATT-CTTAAAACGCCGCTAAAGTCCACGAATTG-TCAGAAAATAGTGTAG
65 C-TTACTTAAAACGCCACTAAA-TCCCCGAA-AGCTCAGAAAACGGCGTAG
* *
29780559 CTGGGCTTAGTTTTTGTTGCGGCGCTTTCTCAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCG
1 TTGGGCTTAGTTTTT-TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
* * * * *
29780624 CTTGCGTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCATCG
65 CTTAC-TTAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTAG
* * * *
29780673 TTGGGCTTTGGTTTTTTTGTGGCGCTTTCTCAAAAACGCTGCTAAAGCCC-GAGCATTTGCGGCG
1 TTGGGC-TTAGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCG
29780737 CTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCA-
65 CTTACTT-AAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGT-AG
* * * *
29780786 TTGGGCTTAGGTATTTTTT-CGGCGCTTTCCCGAAAATGCCCCTAAAGCCCTGAGCATTAGCGGC
1 TTGGGCTTA-GT-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* * *
29780850 GTTTACTAAAAAAGGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCA-
64 GCTTACT-TAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGT-AG
* * * *
29780900 TTGGGCTTAGGTATTTTTT-CGGCGCTTTCCCGAAAATGCCCCTAAAGCCCTGAGCATTAGCGGC
1 TTGGGCTTA-GT-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* * * *
29780964 GTTTACTAAAAAAGGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
64 GCTTACT-TAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTAG
* * *
29781014 TTGGGCTTTGGTTTTTTTGTGGCGCTTTCTCGAAAACGCCGCTAAA
1 TTGGGC-TTAGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
29781060 TCACCGAAAG
Statistics
Matches: 442, Mismatches: 44, Indels: 29
0.86 0.09 0.06
Matches are distributed among these distances:
112 3 0.01
113 109 0.25
114 303 0.69
115 27 0.06
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (112 bp):
TTGGGCTTAGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
TTACTTAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTAG
Found at i:29780811 original size:227 final size:228
Alignment explanation
Indices: 29780444--29781059 Score: 750
Period size: 227 Copynumber: 2.7 Consensus size: 228
29780434 AAAACGACGC
* * * *
29780444 CATTGGGCTTAGGT-TTTTTGCGACGC-TTCAACAAAAACGCCGCTAAAGCCCTAAGCATTAGCG
1 CATTGGGCTTAGGTATTTTTTCGGCGCTTTC-CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
* * * ** * *
29780507 GCGCATT-CTT-AAAACGCCGCTAAAGTCCACGAATTG-TCAGAAAATAGTGT-AGCTGGGCTTA
65 GCGC-TTACTTAAAAACGCCACTAAA-TCCCCGAA-AGCTCAGAAAACGGCGTCA-TTGGGCTTA
* *
29780568 -GTTTTTGTTGCGGCGCTTTCTCAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTGCGT-
126 GGTTTTT-TTGCGGCGCTTTCTCGAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTAC-TA
29780631 AAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCAT
189 AAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCAT
* * * * * *
29780671 CGTTGGGCTTTGGT-TTTTTTGTGGCGCTTTCTCAAAAACGCTGCTAAAGCCC-GAGCATTTGCG
1 CATTGGGCTTAGGTATTTTTT-CGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
29780734 GCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTA
65 GCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGT-
* * * *
29780799 TTTTTT-CGGCGCTTTCCCGAAAATGCCCCTAAAGCCCTGAGCATTAGCGGCGTTTACTAAAAAA
129 TTTTTTGCGGCGCTTTCTCGAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTACTAAAAAA
* * *
29780863 GGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGT
194 CGCCACTAAATCCCCGAAAGCTCAAAAAACGGCAT
* * *
29780898 CATTGGGCTTAGGTATTTTTTCGGCGCTTTCCCGAAAATGCCCCTAAAGCCCTGAGCATTAGCGG
1 CATTGGGCTTAGGTATTTTTTCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
* * * * *
29780963 CGTTTACTAAAAAAGGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTTGGTTT
66 CGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTTT
* *
29781028 TTTTGTGGCGCTTTCTCGAAAACGCCGCTAAA
131 TTTTGCGGCGCTTTCTCGAAAACGCCACTAAA
29781060 TCACCGAAAG
Statistics
Matches: 334, Mismatches: 43, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
226 4 0.01
227 184 0.55
228 139 0.42
229 7 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (228 bp):
CATTGGGCTTAGGTATTTTTTCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
CGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTTT
TTTTGCGGCGCTTTCTCGAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTACTAAAAAACG
CCACTAAATCCCCGAAAGCTCAAAAAACGGCAT
Found at i:29782065 original size:23 final size:23
Alignment explanation
Indices: 29782034--29782082 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
29782024 GTTTAACTGA
* *
29782034 TTTTCAATATTTTCTTCTTTT-CC
1 TTTTCAATAATAT-TTCTTTTACC
*
29782057 TTTTTAATAATATTTCTTTTACC
1 TTTTCAATAATATTTCTTTTACC
29782080 TTT
1 TTT
29782083 AAAAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTCAATAATATTTCTTTTACC
Found at i:29783069 original size:23 final size:23
Alignment explanation
Indices: 29783043--29783091 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
29783033 ATAGTACTAA
*
29783043 AAAAGAATTTAAGGAAATTTTTT
1 AAAACAATTTAAGGAAATTTTTT
29783066 AAAACAATTTAAGGAAATTTTTT
1 AAAACAATTTAAGGAAATTTTTT
29783089 AAA
1 AAA
29783092 TTTGAATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (23 bp):
AAAACAATTTAAGGAAATTTTTT
Found at i:29783519 original size:24 final size:22
Alignment explanation
Indices: 29783471--29783519 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
29783461 TATACTAATT
* *
29783471 ATTTTAATAAATATATATTACA
1 ATTTTAATAAAAATATAATACA
*
29783493 ATTTTAATAAAAAATTATAATATA
1 ATTTTAAT-AAAAA-TATAATACA
29783517 ATT
1 ATT
29783520 AAAACTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 4 0.18
24 10 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTTAATAAAAATATAATACA
Found at i:29785285 original size:26 final size:26
Alignment explanation
Indices: 29785256--29785311 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 26
29785246 ATAATTTAAT
*
29785256 AAATAAAAATAAAATTCTAAAA-CTAA
1 AAATAAAAAT-AAAGTCTAAAAGCTAA
29785282 AAATAAAAATAAAGTCTAAAAGTCTAA
1 AAATAAAAATAAAGTCTAAAAG-CTAA
29785309 AAA
1 AAA
29785312 AAATTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 10 0.37
26 10 0.37
27 7 0.26
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (26 bp):
AAATAAAAATAAAGTCTAAAAGCTAA
Found at i:29785348 original size:9 final size:9
Alignment explanation
Indices: 29785334--29785391 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
29785324 GTAGTGATTC
29785334 AATTCGGAT
1 AATTCGGAT
*
29785343 AATTCGGGT
1 AATTCGGAT
29785352 AATTCGGAT
1 AATTCGGAT
29785361 AATTCGGAT
1 AATTCGGAT
* *
29785370 AATTCAGTT
1 AATTCGGAT
*
29785379 AATTCGGTT
1 AATTCGGAT
29785388 AATT
1 AATT
29785392 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (9 bp):
AATTCGGAT
Found at i:29785365 original size:27 final size:27
Alignment explanation
Indices: 29785334--29785391 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
29785324 GTAGTGATTC
*
29785334 AATTCGGATAATTCGGGTAATTCGGAT
1 AATTCGGATAATTCAGGTAATTCGGAT
* *
29785361 AATTCGGATAATTCAGTTAATTCGGTT
1 AATTCGGATAATTCAGGTAATTCGGAT
29785388 AATT
1 AATT
29785392 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AATTCGGATAATTCAGGTAATTCGGAT
Found at i:29786460 original size:15 final size:18
Alignment explanation
Indices: 29786433--29786470 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
29786423 TTAGTTAAAA
29786433 TTAAAAATAATTT-TT-T
1 TTAAAAATAATTTATTAT
29786449 TTAAAAAT-ATTTATTAT
1 TTAAAAATAATTTATTAT
29786466 TTAAA
1 TTAAA
29786471 CATTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAAAATAATTTATTAT
Found at i:29791991 original size:22 final size:22
Alignment explanation
Indices: 29791940--29792005 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
29791930 GGTATTTGGG
* *
29791940 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
29791961 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
29791983 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
29792006 TCAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:29796935 original size:11 final size:13
Alignment explanation
Indices: 29796889--29796939 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
29796879 GAATTAATTT
29796889 TTAATAAAAAATA
1 TTAATAAAAAATA
** *
29796902 TTTTTAGAAAATA
1 TTAATAAAAAATA
29796915 TTAATAAAAAATA
1 TTAATAAAAAATA
29796928 -TAATAAAAAATA
1 TTAATAAAAAATA
29796940 GATTTAGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 12 0.38
13 20 0.62
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
TTAATAAAAAATA
Found at i:29806148 original size:16 final size:16
Alignment explanation
Indices: 29806123--29806156 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
29806113 AAGAATATCA
29806123 TAAACAGAGGATTGAT
1 TAAACAGAGGATTGAT
*
29806139 TAAACGGAGGATTGAT
1 TAAACAGAGGATTGAT
29806155 TA
1 TA
29806157 TACTTACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
TAAACAGAGGATTGAT
Found at i:29806279 original size:7 final size:7
Alignment explanation
Indices: 29806269--29806314 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
29806259 AAAATTAGAA
*
29806269 TTAGGAT
1 TTAGGAC
*
29806276 TTAGGAA
1 TTAGGAC
*
29806283 TTAGGAA
1 TTAGGAC
29806290 TTAGGAC
1 TTAGGAC
29806297 TTAGGAC
1 TTAGGAC
29806304 TTAGGAC
1 TTAGGAC
29806311 TTAG
1 TTAG
29806315 TATTTAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (7 bp):
TTAGGAC
Found at i:29806285 original size:14 final size:14
Alignment explanation
Indices: 29806266--29806321 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
29806256 TAAAAAATTA
29806266 GAATTAGGATTTAG
1 GAATTAGGATTTAG
*
29806280 GAATTAGGAATTAG
1 GAATTAGGATTTAG
* *
29806294 GACTTAGGACTTAG
1 GAATTAGGATTTAG
* *
29806308 GACTTAGTATTTAG
1 GAATTAGGATTTAG
29806322 AATGATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (14 bp):
GAATTAGGATTTAG
Found at i:29806292 original size:21 final size:21
Alignment explanation
Indices: 29806261--29806321 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
29806251 TAAAATAAAA
29806261 AATTA-GAATTAGGATTTAGG
1 AATTAGGAATTAGGATTTAGG
*
29806281 AATTAGGAATTAGGACTTAGG
1 AATTAGGAATTAGGATTTAGG
* * *
29806302 ACTTAGGACTTAGTATTTAG
1 AATTAGGAATTAGGATTTAG
29806322 AATGATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (21 bp):
AATTAGGAATTAGGATTTAGG
Found at i:29812977 original size:50 final size:50
Alignment explanation
Indices: 29812901--29813040 Score: 138
Period size: 50 Copynumber: 2.8 Consensus size: 50
29812891 AGGTTATAAG
* * *
29812901 AGGTCCCACATAAGACCGTGTCTAGGACATGGCGTTGGCACCGAGATGAA
1 AGGTCCCACATAAGACCATGTCTAGGACATGGCATAGGCACCGAGATGAA
* * * *
29812951 AGGTCCCCCGTAAGACCATGTTTAGGACATGGCATAGGCACCGATATGAGA
1 AGGTCCCACATAAGACCATGTCTAGGACATGGCATAGGCACCGAGATGA-A
* ** * * * *
29813002 A-CTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGGTCCCACATAAGACCATGTCTAGGACATGGCATAGGCA
29813041 GTACAGGAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
50 72 0.97
51 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.21
Consensus pattern (50 bp):
AGGTCCCACATAAGACCATGTCTAGGACATGGCATAGGCACCGAGATGAA
Found at i:29813076 original size:49 final size:49
Alignment explanation
Indices: 29812960--29813080 Score: 138
Period size: 49 Copynumber: 2.4 Consensus size: 49
29812950 AAGGTCCCCC
* * *
29812960 GTAAGACCATGTTTAGGACATGGCATAGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTTTGGGACATGGCATAGGCA-CGACAGGAGAACTCCCAT
* * * *
29813010 GTAAGACCATATCTGGGATATGGCATTGGCA-GTACAGGA-AACATCCCAT
1 GTAAGACCATGTTTGGGACATGGCATAGGCACG-ACAGGAGAAC-TCCCAT
29813059 GTAAGACCATGTTTGGGACATG
1 GTAAGACCATGTTTGGGACATG
29813081 ACTTTGGCAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
48 4 0.07
49 29 0.49
50 26 0.44
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTTTGGGACATGGCATAGGCACGACAGGAGAACTCCCAT
Found at i:29814742 original size:472 final size:472
Alignment explanation
Indices: 29813380--29815677 Score: 3592
Period size: 472 Copynumber: 4.9 Consensus size: 472
29813370 CATTGTACGA
* * * * * *
29813380 GAGAATTTAACGAATTAACTGTACTATTTGGCTAACCTAGAAATTTTAGAAATTTTATGATAAGA
1 GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
** * * **
29813445 AGATATATGAGTCTAGTTTTAGGAAAAATTTACATATCTAAATTTAGAGTTTCGT-AACTTAAGT
66 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCGAGTTT-TTAAACTCGAGT
29813509 TATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATT
130 TATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATT
* *
29813574 TTGATTTATTTAAGTATTCA-AAAATTTTTTAATGTTCCTGGTTTGGACCTGAACCATTTTTGTT
195 TTGATTTATTTAAGTATTCAGAAAA-TTTTTAATGTTCCCGGTTTGGACCTAAACCATTTTTGTT
* * *
29813638 GCATGTTTTAGGGTCTTGAGGTCCCTTTTTAGGGACATATTGATTGAACGTGAGTGAATTAATTT
259 GCATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTT
*
29813703 TAAAAGA-AAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGTTCGACTCC
324 TAAAA-ACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCC
* *
29813767 -AGCAACAGTCTCGGGTAAGGGGTGTTATTTATGATAGTTGATTTCTAGTGAATAGAGGTCAGAA
388 GA-CAACGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAA
* * *
29813831 CAGTCGGACAGTGAAATAGGG
452 CCGTCAGACAGTGAAACAGGG
* * * *
29813852 GAGAGTTTAACAAATTAAATTTACTATTTTGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
1 GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
* * *
29813917 AGATATGTGAGTCTAGTTTTAGGAAAAATTTACTGATCTAAATTTTGAGTTTTTAAACTCGAGTT
66 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCGAGTTTTTAAACTCGAGTT
*
29813982 ATAATTAAATTAGTGACTGTCACG-AAGTAGATAGTTTTATTATGAATAGTGAAATAAATTATTT
131 ATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
* *
29814046 TGATTTATTTAAGTATTTAGAAAAGTTTTAATGTTCCAC-GTTTGGACCTAAACCATTTTTGTTG
196 TGATTTATTTAAGTATTCAGAAAATTTTTAATGTTCC-CGGTTTGGACCTAAACCATTTTTGTTG
* *
29814110 TATGTTTTAGGGTCTC-AGGGCCCTTTTTAGAGACATATTGATTGAACGTGAGCGAATTAATTTT
260 CATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTT
* *
29814174 AAAAACAAATTTTTATGCTCCGAACTAGTAAGTTAAGTCAGCTAACGCATCATGCTCGACTCCGA
325 AAAAACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCCGA
*
29814239 CAATGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAACCG
390 CAACGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAACCG
* *
29814304 TCAGATAGTGAAACAAGG
455 TCAGACAGTGAAACAGGG
* * * * * *
29814322 GAGACTTTAACGAATTAACTGAAGTATTTGCCGAACCCAAAAATTCTGGAAATTTTATGATAATA
1 GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
* * *
29814387 AGATATATGAATCTAGTTTTAGGAAAAAATTACGGATCTAAATTTCGAGTTTTTAAACTTGAGTT
66 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCGAGTTTTTAAACTCGAGTT
*
29814452 ATAATTAAATTAGTAACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
131 ATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
** * * * *
29814517 TGATTTATTTACCTAATCAGAAAATTTTTAATGTTCCTGGTTTGGACTTTAACCATTTTTGTTGC
196 TGATTTATTTAAGTATTCAGAAAATTTTTAATGTTCCCGGTTTGGACCTAAACCATTTTTGTTGC
29814582 ATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTTA
261 ATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTTA
*
29814647 AAAACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGCTAACGCATCATGCTCGACTCCGAC
326 AAAACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCCGAC
* *
29814712 AATGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAACCAT
391 AACGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAACCGT
*
29814777 CAGACAGTGAAACATGG
456 CAGACAGTGAAACAGGG
29814794 GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
1 GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
29814859 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCGAGTTTTTAAACTCGAGTT
66 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCGAGTTTTTAAACTCGAGTT
* * *
29814924 ATAATTAAATTAGTGACTGTAACACAAGTGGATAGTTTTATTATGAATTGTGAAATAAATTATTT
131 ATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
*
29814989 TGATTTATTTAAGTATTCAGAAAATTTTTAATGTTCCCGGTTTGGACCTGAACCATTTTTGTTGC
196 TGATTTATTTAAGTATTCAGAAAATTTTTAATGTTCCCGGTTTGGACCTAAACCATTTTTGTTGC
* * * *
29815054 ATGTTTTAGGGTCTTGAGGGTCCTTTTTAGGGACATATTGATTGAACATGAGAGAATTAATTTTA
261 ATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTTA
* * *
29815119 AAAGCAAATTTTTATGCTCCGAACTAGTAAGTTAAGTCAGGTAACGCATCACGCTCGACTCCGAC
326 AAAACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCCGAC
* *
29815184 AACGGTCTCGAGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTTAGAACCGT
391 AACGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAACCGT
*
29815249 CGGACAGTGAAACAGGG
456 CAGACAGTGAAACAGGG
29815266 GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
1 GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
* * *
29815331 AGATATATGAGTCTAGTTTTAGGAAAAATTTATGGATTTAAATTTCAAGTTTTTAAACTCGAGTT
66 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCGAGTTTTTAAACTCGAGTT
* * * *
29815396 ATAATTAAATTAGTGACTGTCATGCAAGTGAATTGTTTTATTGTGAATAGTGAAATAAATTATTT
131 ATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
* * * **
29815461 TGATTTATTTAAGTATTC-GAAAAATTTTTAATGTTCCCGATTTAGACCTAAACTATTTCCGTTG
196 TGATTTATTTAAGTATTCAG-AAAATTTTTAATGTTCCCGGTTTGGACCTAAACCATTTTTGTTG
* * *
29815525 CATGTTTTAGTGTCTCGAGGGCCCTTTTTAAGGAC--ATTGATTGAACATGAGCGAATTAATTTT
260 CATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTT
* * * * **
29815588 AAAAGCAAATTTTTATGAT-TCGAACTAGTAAGTTAAGTCAGGTAACTCCTTGTGCTCGACTCCG
325 AAAAACAAATTTTTATGCTCT-GAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCCG
*
29815652 GCAACGGTCTCGGGTAAGGGGTGTTA
389 ACAACGGTCTCGGGTAAGGGGTGTTA
29815678 CATCCCAGAA
Statistics
Matches: 1684, Mismatches: 132, Indels: 22
0.92 0.07 0.01
Matches are distributed among these distances:
469 1 0.00
470 422 0.25
471 219 0.13
472 1042 0.62
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (472 bp):
GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCGAGTTTTTAAACTCGAGTT
ATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
TGATTTATTTAAGTATTCAGAAAATTTTTAATGTTCCCGGTTTGGACCTAAACCATTTTTGTTGC
ATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTTA
AAAACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCCGAC
AACGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAACCGT
CAGACAGTGAAACAGGG
Found at i:29815494 original size:944 final size:941
Alignment explanation
Indices: 29813380--29815677 Score: 3635
Period size: 942 Copynumber: 2.4 Consensus size: 941
29813370 CATTGTACGA
* * * * *
29813380 GAGAATTTAACGAATTAACTGTACTATTTGGCTAACCTAGAAATTTTAGAAATTTTATGATAAGA
1 GAGACTTTAACGAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
** * *
29813445 AGATATATGAGTCTAGTTTTAGGAAAAATTTACATATCTAAATTT-AGAGTTTCGT-AACTTAAG
66 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCA-AGTTT-TTAAACTTGAG
29813508 TTATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTAT
129 TTATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTAT
*
29813573 TTTGATTTATTTAAGTATTCAAAAATTTTTTAATGTTCCTGGTTTGGACCTGAACCATTTTTGTT
194 TTTGATTTATTTAAGTATTCAAAAA-TTTTTAATGTTCCTGGTTTGGACCTAAACCATTTTTGTT
* * *
29813638 GCATGTTTTAGGGTCTTGAGGTCCCTTTTTAGGGACATATTGATTGAACGTGAGTGAATTAATTT
258 GCATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTT
*
29813703 TAAAAGA-AAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGTTCGACTCC
323 TAAAA-ACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCC
* *
29813767 -AGCAACAGTCTCGGGTAAGGGGTGTTATTTATGATAGTTGATTTCTAGTGAATAGAGGTCAGAA
387 GA-CAACGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAA
* * * * *
29813831 CAGTCGGACAGTGAAATAGGGGAGAGTTTAACAAATTAAATTTACTATTTTGCTAACCCAAAAAT
451 CAGTCAGACAGTGAAACAGGGGAGACTTTAACAAATTAAATGTACTATTTGGCTAACCCAAAAAT
* *
29813896 TCTGGAAATTTTATGATAAGAAGATATGTGAGTCTAGTTTTAGGAAAAATTTACTGATCTAAATT
516 TCTGGAAATTTTATGATAAGAAGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATT
*
29813961 TTGAGTTTTTAAACTCGAGTTATAATTAAATTAGTGACTGTCACGAAGTAGATAGTTTTATTATG
581 TCGAGTTTTTAAACTCGAGTTATAATTAAATTAGTGACTGTCACGAAGTAGATAGTTTTATTATG
*
29814026 AATAGTGAAATAAATTATTTTGATTTATTTAAGTATTTAGAAAAGTTTTAATGTTCCACGTTTGG
646 AATAGTGAAATAAATTATTTTGATTTATTTAAGTATTCAGAAAAGTTTTAATGTTCCACGTTTGG
*
29814091 ACCTAAACCATTTTTGTTGTATGTTTTAGGGTCTCAGGGCCCTTTTTAGAGACATATTGATTGAA
711 ACCTAAACCATTTTTGTTGCATGTTTTAGGGTCTCAGGGCCCTTTTTAGAGACATATTGATTGAA
* *
29814156 CGTGAGCGAATTAATTTTAAAAACAAATTTTTATGCTCCGAACTAGTAAGTTAAGTCAGCTAACG
776 CATGAGAGAATTAATTTTAAAAACAAATTTTTATGCTCCGAACTAGTAAGTTAAGTCAGCTAACG
* * *
29814221 CATCATGCTCGACTCCGACAATGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGT
841 CATCACGCTCGACTCCGACAACGGTCTCGAGTAAGGGGTGTTATTTATGATAATTGATTTCTAGT
*
29814286 GAATAGAGGTCAGAACCGTCAGATAGTGAAACAAGG
906 GAATAGAGGTCAGAACCGTCAGACAGTGAAACAAGG
* * * * *
29814322 GAGACTTTAACGAATTAACTGAAGTATTTGCCGAACCCAAAAATTCTGGAAATTTTATGATAATA
1 GAGACTTTAACGAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
* * *
29814387 AGATATATGAATCTAGTTTTAGGAAAAAATTACGGATCTAAATTTCGAGTTTTTAAACTTGAGTT
66 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCAAGTTTTTAAACTTGAGTT
*
29814452 ATAATTAAATTAGTAACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
131 ATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
** * * *
29814517 TGATTTATTTACCTAATCAGAAAATTTTTAATGTTCCTGGTTTGGACTTTAACCATTTTTGTTGC
196 TGATTTATTTAAGTATTCA-AAAATTTTTAATGTTCCTGGTTTGGACCTAAACCATTTTTGTTGC
29814582 ATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTTA
260 ATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTTA
*
29814647 AAAACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGCTAACGCATCATGCTCGACTCCGAC
325 AAAACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCCGAC
*
29814712 AATGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAACCA-
390 AACGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAA-CAG
* *
29814776 TCAGACAGTGAAACATGGGAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCT
454 TCAGACAGTGAAACAGGGGAGACTTTAACAAATTAAATGTACTATTTGGCTAACCCAAAAATTCT
29814841 GGAAATTTTATGATAAGAAGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCG
519 GGAAATTTTATGATAAGAAGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCG
*
29814906 AGTTTTTAAACTCGAGTTATAATTAAATTAGTGACTGTAACAC-AAGTGGATAGTTTTATTATGA
584 AGTTTTTAAACTCGAGTTATAATTAAATTAGTGACTGT--CACGAAGTAGATAGTTTTATTATGA
* *
29814970 ATTGTGAAATAAATTATTTTGATTTATTTAAGTATTCAGAAAATTTTTAATGTTCC-CGGTTTGG
647 ATAGTGAAATAAATTATTTTGATTTATTTAAGTATTCAGAAAAGTTTTAATGTTCCAC-GTTTGG
* * * *
29815034 ACCTGAACCATTTTTGTTGCATGTTTTAGGGTCTTGAGGGTCCTTTTTAGGGACATATTGATTGA
711 ACCTAAACCATTTTTGTTGCATGTTTTAGGGTC-TCAGGGCCCTTTTTAGAGACATATTGATTGA
* *
29815099 ACATGAGAGAATTAATTTTAAAAGCAAATTTTTATGCTCCGAACTAGTAAGTTAAGTCAGGTAAC
775 ACATGAGAGAATTAATTTTAAAAACAAATTTTTATGCTCCGAACTAGTAAGTTAAGTCAGCTAAC
29815164 GCATCACGCTCGACTCCGACAACGGTCTCGAGTAAGGGGTGTTATTTATGATAATTGATTTCTAG
840 GCATCACGCTCGACTCCGACAACGGTCTCGAGTAAGGGGTGTTATTTATGATAATTGATTTCTAG
* * *
29815229 TGAATAGAGGTTAGAACCGTCGGACAGTGAAACAGGG
905 TGAATAGAGGTCAGAACCGTCAGACAGTGAAACAAGG
*
29815266 GAGACTTTAACAAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
1 GAGACTTTAACGAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
* * *
29815331 AGATATATGAGTCTAGTTTTAGGAAAAATTTATGGATTTAAATTTCAAGTTTTTAAACTCGAGTT
66 AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCAAGTTTTTAAACTTGAGTT
* * * *
29815396 ATAATTAAATTAGTGACTGTCATGCAAGTGAATTGTTTTATTGTGAATAGTGAAATAAATTATTT
131 ATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
* * * * **
29815461 TGATTTATTTAAGTATTCGAAAAATTTTTAATGTTCCCGATTTAGACCTAAACTATTTCCGTTGC
196 TGATTTATTTAAGTATTC-AAAAATTTTTAATGTTCCTGGTTTGGACCTAAACCATTTTTGTTGC
* * *
29815526 ATGTTTTAGTGTCTCGAGGGCCCTTTTTAAGGAC--ATTGATTGAACATGAGCGAATTAATTTTA
260 ATGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTTA
* * * * ** *
29815589 AAAGCAAATTTTTATGAT-TCGAACTAGTAAGTTAAGTCAGGTAACTCCTTGTGCTCGACTCCGG
325 AAAACAAATTTTTATGCTCT-GAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCCGA
29815653 CAACGGTCTCGGGTAAGGGGTGTTA
389 CAACGGTCTCGGGTAAGGGGTGTTA
29815678 CATCCCAGAA
Statistics
Matches: 1243, Mismatches: 101, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
941 3 0.00
942 673 0.54
943 117 0.09
944 449 0.36
945 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (941 bp):
GAGACTTTAACGAATTAACTGTACTATTTGGCTAACCCAAAAATTCTGGAAATTTTATGATAAGA
AGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCAAGTTTTTAAACTTGAGTT
ATAATTAAATTAGTGACTGTCACGCAAGTGGATAGTTTTATTATGAATAGTGAAATAAATTATTT
TGATTTATTTAAGTATTCAAAAATTTTTAATGTTCCTGGTTTGGACCTAAACCATTTTTGTTGCA
TGTTTTAGGGTCTCGAGGGCCCTTTTTAGGGACATATTGATTGAACGTGAGCGAATTAATTTTAA
AAACAAATTTTTATGCTCTGAACTAGTAAGTTAAGTCAGGTAACGCATCATGCTCGACTCCGACA
ACGGTCTCGGGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATAGAGGTCAGAACAGTC
AGACAGTGAAACAGGGGAGACTTTAACAAATTAAATGTACTATTTGGCTAACCCAAAAATTCTGG
AAATTTTATGATAAGAAGATATATGAGTCTAGTTTTAGGAAAAATTTACGGATCTAAATTTCGAG
TTTTTAAACTCGAGTTATAATTAAATTAGTGACTGTCACGAAGTAGATAGTTTTATTATGAATAG
TGAAATAAATTATTTTGATTTATTTAAGTATTCAGAAAAGTTTTAATGTTCCACGTTTGGACCTA
AACCATTTTTGTTGCATGTTTTAGGGTCTCAGGGCCCTTTTTAGAGACATATTGATTGAACATGA
GAGAATTAATTTTAAAAACAAATTTTTATGCTCCGAACTAGTAAGTTAAGTCAGCTAACGCATCA
CGCTCGACTCCGACAACGGTCTCGAGTAAGGGGTGTTATTTATGATAATTGATTTCTAGTGAATA
GAGGTCAGAACCGTCAGACAGTGAAACAAGG
Found at i:29819919 original size:13 final size:13
Alignment explanation
Indices: 29819864--29819920 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
29819854 TAATACTCTA
*
29819864 TTTTCAAGATATG
1 TTTTAAAGATATG
* *
29819877 TTTCT-AGGTTATG
1 TTT-TAAAGATATG
* *
29819890 TTTTTAAGTTATG
1 TTTTAAAGATATG
29819903 TTTTAAAGATATG
1 TTTTAAAGATATG
29819916 TTTTA
1 TTTTA
29819921 CGCATGCTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 1 0.03
13 35 0.95
14 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (13 bp):
TTTTAAAGATATG
Found at i:29821220 original size:25 final size:23
Alignment explanation
Indices: 29821158--29821221 Score: 56
Period size: 25 Copynumber: 2.6 Consensus size: 23
29821148 CGAACCCATG
*
29821158 TTTTTATGCGAACTCATATTTTA
1 TTTTTATGCGAACTCATATTGTA
* * *
29821181 TGTTGTAGTGTGAACTCATGTTGTA
1 T-TTTTA-TGCGAACTCATATTGTA
29821206 CTTTTCTATGCGAACT
1 -TTTT-TATGCGAACT
29821222 ATAATAATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.03
24 4 0.13
25 23 0.74
26 3 0.10
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (23 bp):
TTTTTATGCGAACTCATATTGTA
Found at i:29826713 original size:91 final size:91
Alignment explanation
Indices: 29826558--29826741 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 91
29826548 AACTAACATA
29826558 TGTACATAACCAAAAGGGTTCCAATACATGGATAAAGCCTAGTGATGTGATCCAAAAGTAGACGT
1 TGTACATAACCAAAAGGGTTCCAATACATGGATAAAGCCTAGTGATGTGATCCAAAAGTAGACGT
29826623 GATGTTTTGTCACAACTTCAAAAACT
66 GATGTTTTGTCACAACTTCAAAAACT
29826649 TGTACATAACCAAAAGGGTTCCAATACATGGATAAAGCCTAGTGATGTGATCCAAAAGTAGACGT
1 TGTACATAACCAAAAGGGTTCCAATACATGGATAAAGCCTAGTGATGTGATCCAAAAGTAGACGT
*
29826714 GATGTTTTGTCACAACTTCACAAACT
66 GATGTTTTGTCACAACTTCAAAAACT
29826740 TG
1 TG
29826742 GATTTCATAC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (91 bp):
TGTACATAACCAAAAGGGTTCCAATACATGGATAAAGCCTAGTGATGTGATCCAAAAGTAGACGT
GATGTTTTGTCACAACTTCAAAAACT
Found at i:29827715 original size:43 final size:43
Alignment explanation
Indices: 29827658--29827754 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
29827648 TATCCGAGAT
* *
29827658 ATGGTATTATATGTTAACGCA-TATCAATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTTAACGCACT-TCAATGCCAATGTCCCAAAC
** * * *
29827701 ATGGTCTTACATGTTTTCTCACTTCGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTTAACGCACTTCAATGCCAATGTCCCAAAC
29827744 ATGGTCTTACA
1 ATGGTCTTACA
29827755 CGAAATCACA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (43 bp):
ATGGTCTTACATGTTAACGCACTTCAATGCCAATGTCCCAAAC
Found at i:29828007 original size:92 final size:92
Alignment explanation
Indices: 29827879--29828299 Score: 533
Period size: 92 Copynumber: 4.6 Consensus size: 92
29827869 ATCCAATGCT
* * * * *
29827879 CAAATCAATTCGACAGTATATATCCATATACGAATCAAATTCGGCAATGTATATCTATATACAAA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATAAACAAA
* *
29827944 TC-AATTC-AGCAATGAATATCCATATA
66 TCAAATTCGA-CAATGTATATCTATATA
* * * * * *
29827970 CAATTCAAATTTGACAATGTATAACCATATACAAATCAAATTCGACAATATATATCTATAAACAA
1 CAAATC-AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATAAACAA
*
29828035 ATCAAATTCGACAATGTATATTTATATA
65 ATCAAATTCGACAATGTATATCTATATA
* * * *
29828063 TAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAAA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATAAACAAA
*
29828128 TCAAATTCGGCAATGTATATCTATATA
66 TCAAATTCGACAATGTATATCTATATA
* * * *
29828155 CAAATCAATTCGGCAATGTATATCTATAAACAATTCAAATTCGACAATGTATATCTATAAACAAA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATAAACAAA
* * *
29828220 TCAATTTCGTCAATGTATATCTATAAA
66 TCAAATTCGACAATGTATATCTATATA
* **
29828247 GAAATCAAATTCGGCAATGTATATCTTTATACAAATC-AATTCGGCAATGTATA
1 CAAATC-AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATA
29828300 AAACATATAC
Statistics
Matches: 286, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
91 5 0.02
92 230 0.80
93 50 0.17
94 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (92 bp):
CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATAAACAAA
TCAAATTCGACAATGTATATCTATATA
Found at i:29828022 original size:123 final size:121
Alignment explanation
Indices: 29827879--29828299 Score: 540
Period size: 123 Copynumber: 3.4 Consensus size: 121
29827869 ATCCAATGCT
* * *
29827879 CAAATC-AATTCGACAGTATATATCCATATACGAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCGACAATATATATCTATATACAAATC-AATTCGGCAATGTATATCTATATACAA
* *
29827943 ATCAATTCAGCAATGAATATCCATATACAATTCAAATTTGACAATGTATAACCATATA
65 ATCAATTC-GCAATGTATATCCATATACAAATCAAATTTGACAATGTATAACCATATA
* * * *
29828001 CAAATCAAATTCGACAATATATATCTATAAACAAATCAAATTCGACAATGTATATTTATATATAA
1 CAAATCAAATTCGACAATATATATCTATATACAAATC-AATTCGGCAATGTATATCTATATACAA
* *
29828066 ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
65 ATCAATTC-GCAATGTATATCCATATACAAATCAAATTTGACAATGTATAACCATATA
* * * *
29828124 CAAATCAAATTCGGCAATGTATATCTATATACAAATCAATTCGGCAATGTATATCTATAAACAAT
1 CAAATCAAATTCGACAATATATATCTATATACAAATCAATTCGGCAATGTATATCTATATACAAA
* * * * * *
29828189 TCAAATTCGACAATGTATATCTATAAACAAATC-AATTTCGTCAATGTATATCTATAAA
66 TC-AATTCG-CAATGTATATCCATATACAAATCAAATTT-GACAATGTATAACCATATA
* * * *
29828247 GAAATCAAATTCGGCAATGTATATCTTTATACAAATCAATTCGGCAATGTATA
1 CAAATCAAATTCGACAATATATATCTATATACAAATCAATTCGGCAATGTATA
29828300 AAACATATAC
Statistics
Matches: 266, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
122 36 0.14
123 230 0.86
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (121 bp):
CAAATCAAATTCGACAATATATATCTATATACAAATCAATTCGGCAATGTATATCTATATACAAA
TCAATTCGCAATGTATATCCATATACAAATCAAATTTGACAATGTATAACCATATA
Found at i:29828310 original size:31 final size:31
Alignment explanation
Indices: 29827879--29828299 Score: 528
Period size: 31 Copynumber: 13.7 Consensus size: 31
29827869 ATCCAATGCT
* * * *
29827879 CAAATC-AATTCGACAGTATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
29827909 CGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
29827940 CAAATC-AATTCAGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * * * *
29827970 CAATTCAAATTTGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
29828001 CAAATCAAATTCGACAATATATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
29828032 CAAATCAAATTCGACAATGTATATTTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
29828063 TAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
29828093 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
29828124 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
*
29828155 CAAATC-AATTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
29828185 CAATTCAAATTCGACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* * *
29828216 CAAATCAATTTCGTCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCTATATA
* *
29828247 GAAATCAAATTCGGCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCTATATA
29828278 CAAATC-AATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
29828300 AAACATATAC
Statistics
Matches: 343, Mismatches: 44, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
30 101 0.29
31 242 0.71
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCTATATA
Found at i:29835046 original size:26 final size:26
Alignment explanation
Indices: 29835010--29835078 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
29835000 CCCGTTATAT
* *
29835010 GGCTCTTTGTGATCTTCTTGATTAAA
1 GGCTCTTTGTGAGCTTCTCGATTAAA
29835036 GGCTCTTTGTGAGCTTCTCGATTAAA
1 GGCTCTTTGTGAGCTTCTCGATTAAA
29835062 GGCTCTTTGTGAGCTTC
1 GGCTCTTTGTGAGCTTC
29835079 CCAATATTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCTCGATTAAA
Found at i:29837528 original size:11 final size:11
Alignment explanation
Indices: 29837512--29837538 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29837502 CAAAAATTTA
29837512 ATCTTTGTAGG
1 ATCTTTGTAGG
29837523 ATCTTTGTAGG
1 ATCTTTGTAGG
29837534 ATCTT
1 ATCTT
29837539 AGCCTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (11 bp):
ATCTTTGTAGG
Found at i:29837602 original size:17 final size:17
Alignment explanation
Indices: 29837580--29837613 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29837570 AAAGACTTAA
29837580 TTAGTTTCTTCTTTCCC
1 TTAGTTTCTTCTTTCCC
* *
29837597 TTAGTTTTTTGTTTCCC
1 TTAGTTTCTTCTTTCCC
29837614 CTGAGGGGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.24, G:0.09, T:0.62
Consensus pattern (17 bp):
TTAGTTTCTTCTTTCCC
Found at i:29839297 original size:10 final size:10
Alignment explanation
Indices: 29839282--29839309 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
29839272 TAATATAAAT
29839282 ATTATAAACA
1 ATTATAAACA
29839292 ATTATAAACA
1 ATTATAAACA
29839302 ATTATAAA
1 ATTATAAA
29839310 TTAGATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (10 bp):
ATTATAAACA
Found at i:29847553 original size:15 final size:15
Alignment explanation
Indices: 29847535--29847573 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
29847525 CGGTATCATT
29847535 TTGTTCGTGATAATA
1 TTGTTCGTGATAATA
* *
29847550 TTGTTCGTGGTGATA
1 TTGTTCGTGATAATA
29847565 TTGTT-GTGA
1 TTGTTCGTGA
29847574 GCAAAATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.18, C:0.05, G:0.28, T:0.49
Consensus pattern (15 bp):
TTGTTCGTGATAATA
Found at i:29847952 original size:24 final size:23
Alignment explanation
Indices: 29847925--29847974 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
29847915 TATTTAATAT
* *
29847925 TATTAGAATAAGGATTTTCAATCC
1 TATTAGAATAAGG-TTTACAAGCC
29847949 TATTAGAATAAGGTTTACAAGCC
1 TATTAGAATAAGGTTTACAAGCC
29847972 TAT
1 TAT
29847975 AAATAGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (23 bp):
TATTAGAATAAGGTTTACAAGCC
Found at i:29853083 original size:40 final size:41
Alignment explanation
Indices: 29853013--29853096 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 41
29853003 AATTATGGAA
* * * *
29853013 TACTGAATATTGTTTTTGAGTATTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTTATGAGTACTGAATTGAACTGTGAAAT
* *
29853054 TACTGAATATT-TTTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTTATGAGTACTGAATTGAACTGTGAAAT
29853094 TAC
1 TAC
29853097 GGAAGTAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 26 0.70
41 11 0.30
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (41 bp):
TACTGAATATTGTTTATGAGTACTGAATTGAACTGTGAAAT
Found at i:29853373 original size:45 final size:45
Alignment explanation
Indices: 29853303--29853400 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
29853293 TGCCGACTAT
* *
29853303 TGTTACTGTTACCGATTCAATACTTTGTGTGTCGAATACTGTTAAC
1 TGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTT-AC
* *
29853349 -GTTACTGTTACATATTCAACACTTTGTGTGTTGAATACTGTTAC
1 TGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTAC
29853393 TGTTACTG
1 TGTTACTG
29853401 CTACCGTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
44 2 0.04
45 45 0.96
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (45 bp):
TGTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTAC
Found at i:29856118 original size:22 final size:22
Alignment explanation
Indices: 29856092--29856168 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 22
29856082 CTAAATTAAG
29856092 AATAAAGAATATAATGTATATT
1 AATAAAGAATATAATGTATATT
* * *
29856114 AATAATGTCATATAAAGTTAATAACAATT
1 AATAAAG-AATATAATG-T-AT----ATT
29856143 AATAAAGAATATAATGTATATT
1 AATAAAGAATATAATGTATATT
29856165 AATA
1 AATA
29856169 TATTAATTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 13 0.31
23 7 0.17
24 1 0.02
25 2 0.05
26 2 0.05
27 1 0.02
28 7 0.17
29 9 0.21
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (22 bp):
AATAAAGAATATAATGTATATT
Found at i:29859450 original size:50 final size:50
Alignment explanation
Indices: 29859324--29859565 Score: 193
Period size: 50 Copynumber: 4.7 Consensus size: 50
29859314 GATAATAACA
* * ** * * *
29859324 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGTATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
29859373 TGCCAATGCCATATCACAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
29859423 TGCCCATGCCATGTCCCAAACATGGTCTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATATCGG
* * * **
29859473 TGCCAACGCCATGTCCCAGACATGATCTTACATGAGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
29859529 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
29859566 TTTCATTCCC
Statistics
Matches: 152, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 77 0.51
51 1 0.01
53 2 0.01
56 34 0.22
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:29859986 original size:21 final size:20
Alignment explanation
Indices: 29859955--29859996 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
29859945 GCATATTTAC
29859955 ACTCTTGCCCCAAAGCTCGA
1 ACTCTTGCCCCAAAGCTCGA
*
29859975 ANCTCTTTCCCCAAAGCTCGA
1 A-CTCTTGCCCCAAAGCTCGA
29859996 A
1 A
29859997 AATTAAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.21
Consensus pattern (20 bp):
ACTCTTGCCCCAAAGCTCGA
Found at i:29864579 original size:13 final size:13
Alignment explanation
Indices: 29864561--29864606 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
29864551 TTTCTCGTTA
29864561 CCTTCATCTCTTC
1 CCTTCATCTCTTC
*
29864574 CCTTCATGTCTTC
1 CCTTCATCTCTTC
29864587 CCTTCATCTCTTC
1 CCTTCATCTCTTC
29864600 CCTTCAT
1 CCTTCAT
29864607 GTCTGACCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.09, C:0.43, G:0.02, T:0.46
Consensus pattern (13 bp):
CCTTCATCTCTTC
Found at i:29864597 original size:26 final size:26
Alignment explanation
Indices: 29864561--29864610 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
29864551 TTTCTCGTTA
29864561 CCTTCATCTCTTCCCTTCATGTCTTC
1 CCTTCATCTCTTCCCTTCATGTCTTC
29864587 CCTTCATCTCTTCCCTTCATGTCT
1 CCTTCATCTCTTCCCTTCATGTCT
29864611 GACCGGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.08, C:0.42, G:0.04, T:0.46
Consensus pattern (26 bp):
CCTTCATCTCTTCCCTTCATGTCTTC
Found at i:29870945 original size:14 final size:14
Alignment explanation
Indices: 29870926--29870953 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29870916 GAAATGAGAT
29870926 TTTTGTTTGTCTTC
1 TTTTGTTTGTCTTC
29870940 TTTTGTTTGTCTTC
1 TTTTGTTTGTCTTC
29870954 AACAATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.71
Consensus pattern (14 bp):
TTTTGTTTGTCTTC
Found at i:29872069 original size:27 final size:27
Alignment explanation
Indices: 29872038--29872270 Score: 295
Period size: 27 Copynumber: 8.6 Consensus size: 27
29872028 TAAATTGTAC
29872038 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
29872065 TGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29872092 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
29872120 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
29872147 TGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29872174 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
29872202 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
29872229 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29872256 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29872271 GACTCAATAT
Statistics
Matches: 178, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 132 0.74
28 46 0.26
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:29872125 original size:55 final size:54
Alignment explanation
Indices: 29872038--29872270 Score: 295
Period size: 55 Copynumber: 4.3 Consensus size: 54
29872028 TAAATTGTAC
* * * *
29872038 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
*
29872092 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
* * * **
29872147 TGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-TTTGACTATGT
* * * * * *
29872202 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
*
29872256 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29872271 GACTCAATAT
Statistics
Matches: 155, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
54 60 0.39
55 95 0.61
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
Found at i:29872270 original size:82 final size:82
Alignment explanation
Indices: 29872038--29872242 Score: 383
Period size: 82 Copynumber: 2.5 Consensus size: 82
29872028 TAAATTGTAC
29872038 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
29872103 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
29872120 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
29872185 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
* * *
29872202 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGC
1 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGC
29872243 AAGTTGATTA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 120 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:29874981 original size:25 final size:25
Alignment explanation
Indices: 29874946--29875004 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
29874936 AGCTATAAAC
*
29874946 AGTAAGCTCATACGAGTTGAATATT
1 AGTAAGCTCATACGAGCTGAATATT
* *
29874971 AGTAAGGTCATGCGAGCTGAATATT
1 AGTAAGCTCATACGAGCTGAATATT
* *
29874996 GGCAAGCTC
1 AGTAAGCTC
29875005 TCTCGAGTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (25 bp):
AGTAAGCTCATACGAGCTGAATATT
Found at i:29882384 original size:50 final size:50
Alignment explanation
Indices: 29882330--29882429 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
29882320 GTCTATCCAG
29882330 TGACATCTATGTCTGTATCTTTTGGGAGTCATCCACTTCAATCTTCAAGA
1 TGACATCTATGTCTGTATCTTTTGGGAGTCATCCACTTCAATCTTCAAGA
29882380 TGACATCTATGTCTGTATCTTTTGGGAGTCATCCACTTCAATCTTCAAGA
1 TGACATCTATGTCTGTATCTTTTGGGAGTCATCCACTTCAATCTTCAAGA
29882430 CAAGACATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (50 bp):
TGACATCTATGTCTGTATCTTTTGGGAGTCATCCACTTCAATCTTCAAGA
Found at i:29884285 original size:27 final size:27
Alignment explanation
Indices: 29884254--29884431 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29884244 TAAATTGTAC
29884254 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
29884281 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29884307 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
29884335 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
29884363 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
29884390 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
29884417 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29884432 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:29884368 original size:82 final size:81
Alignment explanation
Indices: 29884255--29884410 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29884245 AAATTGTACA
* *
29884255 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
29884319 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
29884336 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
29884401 TGCGAGTTGA
65 TGCGAATTGA
29884411 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:29884422 original size:82 final size:81
Alignment explanation
Indices: 29884251--29884431 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
29884241 GATTAAATTG
* *
29884251 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29884316 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29884332 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
29884396 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29884414 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
29884432 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29892386 original size:55 final size:54
Alignment explanation
Indices: 29892291--29892440 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
29892281 CTACTTTGTT
* ** * *
29892291 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
29892345 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
29892400 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
29892441 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Done.