Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01016364.1 Corchorus capsularis cultivar CVL-1 contig16385, whole genome shotgun sequence
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: 96697
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Found at i:17033 original size:6 final size:6
Alignment explanation
Indices: 17016--17050 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
17006 GATAGATTTC
*
17016 AGAAAA AAAAAA AG-AAA AGAAAA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
17051 GCCTAGAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:17038 original size:17 final size:17
Alignment explanation
Indices: 17016--17051 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
17006 GATAGATTTC
17016 AGAAAAAAAAAAAGAAA
1 AGAAAAAAAAAAAGAAA
*
17033 AGAAAAAGAAAAAGAAA
1 AGAAAAAAAAAAAGAAA
17050 AG
1 AG
17052 CCTAGAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAAAGAAA
Found at i:19391 original size:17 final size:17
Alignment explanation
Indices: 19346--19393 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
19336 CATATCACAT
*
19346 GACTAGTAATGGTTTAG
1 GACTAGTAATGTTTTAG
* *
19363 GACTAGTCATGTTTTAT
1 GACTAGTAATGTTTTAG
*
19380 TACTAGTAATGTTT
1 GACTAGTAATGTTT
19394 CCTAAATCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (17 bp):
GACTAGTAATGTTTTAG
Found at i:19673 original size:15 final size:15
Alignment explanation
Indices: 19655--19683 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19645 TAACTCTAAA
19655 TGGGAGAGTGATTCT
1 TGGGAGAGTGATTCT
19670 TGGGAGAGTGATTC
1 TGGGAGAGTGATTC
19684 CAGGGTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.41, T:0.31
Consensus pattern (15 bp):
TGGGAGAGTGATTCT
Found at i:25383 original size:1 final size:1
Alignment explanation
Indices: 25377--25401 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
25367 ATTGTGAAAC
25377 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
25402 ATCATATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:31740 original size:2 final size:2
Alignment explanation
Indices: 31720--31757 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
31710 AAATAGTTTT
*
31720 TA TA -A TA TT TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31758 ACCATAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33572 original size:16 final size:15
Alignment explanation
Indices: 33521--33591 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 15
33511 ATGCAGTTTT
*
33521 TTCGGGTTATTCGGG
1 TTCGGGTCATTCGGG
33536 TTACGGGTCA-TCTGGG
1 TT-CGGGTCATTC-GGG
33552 TTCGGGTCATTCGGG
1 TTCGGGTCATTCGGG
*
33567 TCTCGGATCATTCGGG
1 T-TCGGGTCATTCGGG
33583 TCTCGGGTC
1 T-TCGGGTC
33592 TACCGGGTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
15 15 0.31
16 34 0.69
ACGTcount: A:0.08, C:0.21, G:0.37, T:0.34
Consensus pattern (15 bp):
TTCGGGTCATTCGGG
Found at i:34040 original size:21 final size:21
Alignment explanation
Indices: 34015--34062 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
34005 TAGCTAATTT
34015 ATAATAGGTAAAATCATAACA
1 ATAATAGGTAAAATCATAACA
* *
34036 ATAATTGGTAAAATTATAACA
1 ATAATAGGTAAAATCATAACA
34057 ATAATA
1 ATAATA
34063 TAAATTATAT
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:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (21 bp):
ATAATAGGTAAAATCATAACA
Found at i:34191 original size:16 final size:16
Alignment explanation
Indices: 34170--34264 Score: 104
Period size: 16 Copynumber: 5.9 Consensus size: 16
34160 GGTTAATGTC
*
34170 TCGGGTTATTCGGGTT
1 TCGGGTCATTCGGGTT
34186 TCGGGTCATTCGGGTT
1 TCGGGTCATTCGGGTT
*
34202 TCGGGTCA-TCTAGGTT
1 TCGGGTCATTC-GGGTT
* *
34218 ACGGGTCATTCGGGTC
1 TCGGGTCATTCGGGTT
34234 TCGGGTCA-TCTGGGTT
1 TCGGGTCATTC-GGGTT
* *
34250 GCGGGTCAGTCGGGT
1 TCGGGTCATTCGGGT
34265 CACGGGTTCG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
15 4 0.06
16 59 0.88
17 4 0.06
ACGTcount: A:0.08, C:0.19, G:0.39, T:0.34
Consensus pattern (16 bp):
TCGGGTCATTCGGGTT
Found at i:34223 original size:32 final size:32
Alignment explanation
Indices: 34182--34271 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
34172 GGGTTATTCG
* *
34182 GGTTTCGGGTCATTCGGGTTTCGGGTCATCTA
1 GGTTACGGGTCATTCGGGTCTCGGGTCATCTA
*
34214 GGTTACGGGTCATTCGGGTCTCGGGTCATCTG
1 GGTTACGGGTCATTCGGGTCTCGGGTCATCTA
* * *
34246 GGTTGCGGGTCAGTCGGGTCACGGGT
1 GGTTACGGGTCATTCGGGTCTCGGGT
34272 TCGTCGGGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.09, C:0.20, G:0.40, T:0.31
Consensus pattern (32 bp):
GGTTACGGGTCATTCGGGTCTCGGGTCATCTA
Found at i:34263 original size:9 final size:8
Alignment explanation
Indices: 34186--34288 Score: 58
Period size: 7 Copynumber: 12.9 Consensus size: 8
34176 TATTCGGGTT
34186 TCGGGTCA
1 TCGGGTCA
*
34194 TTCGGGT-T
1 -TCGGGTCA
34202 TCGGGTCA
1 TCGGGTCA
* *
34210 TCTAGGTTA
1 TC-GGGTCA
34219 -CGGGTCA
1 TCGGGTCA
34226 TTCGGGTC-
1 -TCGGGTCA
34234 TCGGGTCA
1 TCGGGTCA
34242 TCTGGGT--
1 TC-GGGTCA
34249 TGCGGGTCA
1 T-CGGGTCA
34258 GTCGGGTCA
1 -TCGGGTCA
*
34267 -CGGGTTCG
1 TCGGG-TCA
34275 TCGGGTC-
1 TCGGGTCA
34282 TCGGGTC
1 TCGGGTC
34289 GGGTGGGTTC
Statistics
Matches: 75, Mismatches: 7, Indels: 26
0.69 0.06 0.24
Matches are distributed among these distances:
7 33 0.44
8 10 0.13
9 31 0.41
10 1 0.01
ACGTcount: A:0.08, C:0.22, G:0.40, T:0.30
Consensus pattern (8 bp):
TCGGGTCA
Found at i:34270 original size:16 final size:15
Alignment explanation
Indices: 34167--34288 Score: 95
Period size: 16 Copynumber: 7.7 Consensus size: 15
34157 TCGGGTTAAT
*
34167 GTCTCGGGTTATTCGG
1 GTCTCGGGTCA-TCGG
*
34183 GTTTCGGGTCATTCGG
1 GTCTCGGGTCA-TCGG
* *
34199 GTTTCGGGTCATCTAG
1 GTCTCGGGTCATC-GG
34215 GT-TACGGGTCATTCGG
1 GTCT-CGGGTCA-TCGG
34231 GTCTCGGGTCATCTGG
1 GTCTCGGGTCATC-GG
34247 GT-TGCGGGTCAGTCGG
1 GTCT-CGGGTCA-TCGG
* *
34263 GTCACGGGTTCGTCGG
1 GTCTCGGG-TCATCGG
34279 GTCTCGGGTC
1 GTCTCGGGTC
34289 GGGTGGGTTC
Statistics
Matches: 90, Mismatches: 7, Indels: 19
0.78 0.06 0.16
Matches are distributed among these distances:
15 8 0.09
16 75 0.83
17 7 0.08
ACGTcount: A:0.07, C:0.21, G:0.39, T:0.32
Consensus pattern (15 bp):
GTCTCGGGTCATCGG
Found at i:34270 original size:48 final size:48
Alignment explanation
Indices: 34171--34288 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 48
34161 GTTAATGTCT
* * * *
34171 CGGGTTATTCGGGTTTCGGGTCATTCGGGTTTCGGGTCATCTAGGTTA
1 CGGGTCATTCGGGTCTCGGGTCATTCGGGTTGCGGGTCATCTAGGTCA
*
34219 CGGGTCATTCGGGTCTCGGGTCA-TCTGGGTTGCGGGTCAGTC-GGGTCA
1 CGGGTCATTCGGGTCTCGGGTCATTC-GGGTTGCGGGTCA-TCTAGGTCA
*
34267 CGGGTTC-GTCGGGTCTCGGGTC
1 CGGG-TCATTCGGGTCTCGGGTC
34289 GGGTGGGTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.03
48 55 0.90
49 4 0.07
ACGTcount: A:0.08, C:0.21, G:0.40, T:0.31
Consensus pattern (48 bp):
CGGGTCATTCGGGTCTCGGGTCATTCGGGTTGCGGGTCATCTAGGTCA
Found at i:34819 original size:24 final size:21
Alignment explanation
Indices: 34792--34846 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
34782 CAGAGCAGTA
34792 AGAATAGAACTAGTGCCAGCAAGC
1 AGAATAGAACTA-T--CAGCAAGC
*
34816 AGAATCGAA-T-TCAGCAAGC
1 AGAATAGAACTATCAGCAAGC
34835 AGAATAGAACTA
1 AGAATAGAACTA
34847 CTCAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 16 0.59
20 1 0.04
21 1 0.04
23 1 0.04
24 8 0.30
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (21 bp):
AGAATAGAACTATCAGCAAGC
Found at i:40769 original size:15 final size:15
Alignment explanation
Indices: 40749--40778 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40739 ATCGGGCCGC
*
40749 CACGATACACGATAT
1 CACGATACACAATAT
40764 CACGATACACAATAT
1 CACGATACACAATAT
40779 TTCAACCGTA
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:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (15 bp):
CACGATACACAATAT
Found at i:42234 original size:93 final size:94
Alignment explanation
Indices: 42075--42255 Score: 346
Period size: 93 Copynumber: 1.9 Consensus size: 94
42065 TTTCTCCTAA
42075 TTTGTCTAACCCTAGTTTTGAAAAGAAAGTATATATATTATAAGACTAACTATGCTAATTACTTA
1 TTTGTCTAACCCTAGTTTTGAAAAGAAAGTATATATATTATAAGACTAACTATGCTAATTACTTA
*
42140 GTGGATTTTTAATCTAT-ACTTAGTGGAT
66 GTGGATTTTTAACCTATAACTTAGTGGAT
42168 TTTGTCTAACCCTAGTTTTGAAAAGAAAGTATATATATTATAAGACTAACTATGCTAATTACTTA
1 TTTGTCTAACCCTAGTTTTGAAAAGAAAGTATATATATTATAAGACTAACTATGCTAATTACTTA
42233 GTGGATTTTTAACCTATAACTTA
66 GTGGATTTTTAACCTATAACTTA
42256 AGATATATTT
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 81 0.94
94 5 0.06
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (94 bp):
TTTGTCTAACCCTAGTTTTGAAAAGAAAGTATATATATTATAAGACTAACTATGCTAATTACTTA
GTGGATTTTTAACCTATAACTTAGTGGAT
Found at i:46507 original size:14 final size:14
Alignment explanation
Indices: 46488--46515 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46478 TTTTACACTT
46488 CTTTTAATAAGCAA
1 CTTTTAATAAGCAA
46502 CTTTTAATAAGCAA
1 CTTTTAATAAGCAA
46516 AGGCAAAGGG
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:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
CTTTTAATAAGCAA
Found at i:50274 original size:17 final size:17
Alignment explanation
Indices: 50234--50274 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50224 AAAGTGTAAA
*
50234 TCAGTAATTAAATTTGG
1 TCAGTAATTAAATTTAG
*
50251 TTAGTAATTAAATTTAG
1 TCAGTAATTAAATTTAG
*
50268 TCGGTAA
1 TCAGTAA
50275 AAAAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (17 bp):
TCAGTAATTAAATTTAG
Found at i:50389 original size:18 final size:19
Alignment explanation
Indices: 50368--50403 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50358 AAAGAAGAGG
50368 AAAGTA-AATGGTAATCAA
1 AAAGTATAATGGTAATCAA
*
50386 AAAGTATGATGGTAATCA
1 AAAGTATAATGGTAATCA
50404 GTAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (19 bp):
AAAGTATAATGGTAATCAA
Found at i:50509 original size:35 final size:36
Alignment explanation
Indices: 50470--50647 Score: 190
Period size: 35 Copynumber: 5.0 Consensus size: 36
50460 AATAAGTAAT
50470 TAAAAAGAGT-AAAAAATGGTATTTAGTAATTAAGA
1 TAAAAAGAGTAAAAAAATGGTATTTAGTAATTAAGA
* * *
50505 TAAAAAGAGTAGAAAAAGATGGTAGTCAGTAATTAAAGT
1 TAAAAAGAGTA-AAAAA-ATGGTATTTAGTAATT-AAGA
50544 TAAAAAGAGTAAAAAAAATGGTATTTAGTAA-TAA-A
1 TAAAAAGAGT-AAAAAAATGGTATTTAGTAATTAAGA
* * *
50579 -AAAAAG-GTAGAAAAAATGGTAGTAAGTAATTAAAGT
1 TAAAAAGAGTA-AAAAAATGGTATTTAGTAATT-AAGA
*
50615 TAAAAAGAGT--AAAAATGGTATTTAGTCATTAAG
1 TAAAAAGAGTAAAAAAATGGTATTTAGTAATTAAG
50648 GTCAAACAGT
Statistics
Matches: 120, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
32 1 0.01
33 19 0.16
34 10 0.08
35 29 0.24
36 2 0.02
37 12 0.10
38 28 0.23
39 18 0.15
40 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.19, T:0.26
Consensus pattern (36 bp):
TAAAAAGAGTAAAAAAATGGTATTTAGTAATTAAGA
Found at i:50609 original size:71 final size:74
Alignment explanation
Indices: 50469--50647 Score: 280
Period size: 71 Copynumber: 2.5 Consensus size: 74
50459 TAATAAGTAA
*
50469 TTAAAAAGAGTAAAAAATGGTATTTAGTAATTAAGATAAAAAGAGTAGAAAAAGATGGTAGTCAG
1 TTAAAAAGAGTAAAAAATGGTATTTAGTAATTAAGATAAAAAGAGTAGAAAAAGATGGTAGTAAG
50534 TAATTAAAG
66 TAATTAAAG
50543 TTAAAAAGAGTAAAAAAAATGGTATTTAGTAA-TAA-A-AAAAAG-GTAGAAAAA-ATGGTAGTA
1 TTAAAAAGAGT--AAAAAATGGTATTTAGTAATTAAGATAAAAAGAGTAGAAAAAGATGGTAGTA
50603 AGTAATTAAAG
64 AGTAATTAAAG
*
50614 TTAAAAAGAGT-AAAAATGGTATTTAGTCATTAAG
1 TTAAAAAGAGTAAAAAATGGTATTTAGTAATTAAG
50648 GTCAAACAGT
Statistics
Matches: 99, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
68 17 0.17
69 3 0.03
71 30 0.30
72 9 0.09
73 6 0.06
74 12 0.12
75 3 0.03
76 19 0.19
ACGTcount: A:0.54, C:0.01, G:0.19, T:0.26
Consensus pattern (74 bp):
TTAAAAAGAGTAAAAAATGGTATTTAGTAATTAAGATAAAAAGAGTAGAAAAAGATGGTAGTAAG
TAATTAAAG
Found at i:50673 original size:14 final size:14
Alignment explanation
Indices: 50666--50742 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
50656 GTAAAAGGTT
50666 ATCAGTAAGAAGTA
1 ATCAGTAAGAAGTA
50680 ATCAGTAAG-AGTTAA
1 ATCAGTAAGAAG-T-A
**
50695 AT-AGTAATCAG-A
1 ATCAGTAAGAAGTA
**
50707 AAGAGTAA-ATAGTA
1 ATCAGTAAGA-AGTA
50721 ATCAGTAAGAAGTA
1 ATCAGTAAGAAGTA
50735 ATCAGTAA
1 ATCAGTAA
50743 AAGGTAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.04
13 9 0.18
14 34 0.67
15 6 0.12
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.23
Consensus pattern (14 bp):
ATCAGTAAGAAGTA
Found at i:50741 original size:21 final size:20
Alignment explanation
Indices: 50676--50838 Score: 136
Period size: 20 Copynumber: 8.6 Consensus size: 20
50666 ATCAGTAAGA
50676 AGTAATCAGTAAGAGTTAAAT
1 AGTAATCAGTAAGAG-TAAAT
*
50697 AGTAATCAGAAAGAGTAAAT
1 AGTAATCAGTAAGAGTAAAT
50717 AGTAATCAGT-A-AG---A-
1 AGTAATCAGTAAGAGTAAAT
* *
50731 AGTAATCAGTAAAAGGTAAAA
1 AGTAATCAGTAAGA-GTAAAT
*
50752 AGGTAATTAGTAAGAG----T
1 A-GTAATCAGTAAGAGTAAAT
*
50769 -GAAAT-AGTAAGAGTAAA-
1 AGTAATCAGTAAGAGTAAAT
*
50786 AGATAATCAGTAAGAGCAAAT
1 AG-TAATCAGTAAGAGTAAAT
*
50807 AGTAATCAGTAAGAGTAAAG
1 AGTAATCAGTAAGAGTAAAT
50827 AGTAATCAGTAA
1 AGTAATCAGTAA
50839 AGACAAAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 33
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.16
15 6 0.05
16 1 0.01
17 1 0.01
18 3 0.03
19 4 0.03
20 54 0.47
21 18 0.16
22 11 0.09
ACGTcount: A:0.52, C:0.05, G:0.21, T:0.22
Consensus pattern (20 bp):
AGTAATCAGTAAGAGTAAAT
Found at i:50749 original size:14 final size:13
Alignment explanation
Indices: 50654--50745 Score: 62
Period size: 14 Copynumber: 6.7 Consensus size: 13
50644 TAAGGTCAAA
*
50654 CAGTAAAAGGTTAT
1 CAGTAAAA-GTAAT
50668 CAGTAAGAAGTAAT
1 CAGTAA-AAGTAAT
*
50682 CAGTAAGAGTTAAAT
1 CAGTAAAAG-T-AAT
* *
50697 -AGTAATCAG-AAA
1 CAGTAA-AAGTAAT
*
50709 GAGTAAATAGTAAT
1 CAGTAAA-AGTAAT
50723 CAGTAAGAAGTAAT
1 CAGTAA-AAGTAAT
50737 CAGTAAAAG
1 CAGTAAAAG
50746 GTAAAAAGGT
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
12 2 0.03
13 12 0.19
14 41 0.65
15 8 0.13
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.23
Consensus pattern (13 bp):
CAGTAAAAGTAAT
Found at i:50764 original size:36 final size:34
Alignment explanation
Indices: 50697--50838 Score: 103
Period size: 34 Copynumber: 3.9 Consensus size: 34
50687 AGAGTTAAAT
*
50697 AGTAATCAGAAAGAGTAAATAGTAATCAGTAAGA
1 AGTAATCAGAAAGAGTAAAAAGTAATCAGTAAGA
*
50731 AGTAATCAGTAAA-AGGTAAAAAGGTAATTAGTAAG-
1 AGTAATCAG-AAAGA-GTAAAAA-GTAATCAGTAAGA
*
50766 AGTGAAAT-AGTAAGAGT-AAAAGATAATCAGTAAGAGCAAA
1 AGT--AATCAGAAAGAGTAAAAAG-TAATCAGT-A-AG---A
* *
50806 TAGTAATCAGTAAGAGTAAAGAGTAATCAGTAA
1 -AGTAATCAGAAAGAGTAAAAAGTAATCAGTAA
50839 AGACAAAAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 28
0.73 0.04 0.23
Matches are distributed among these distances:
33 1 0.01
34 21 0.24
35 17 0.20
36 16 0.18
37 3 0.03
38 1 0.01
39 4 0.05
40 17 0.20
41 7 0.08
ACGTcount: A:0.52, C:0.05, G:0.22, T:0.21
Consensus pattern (34 bp):
AGTAATCAGAAAGAGTAAAAAGTAATCAGTAAGA
Found at i:50950 original size:34 final size:35
Alignment explanation
Indices: 50865--50950 Score: 81
Period size: 34 Copynumber: 2.5 Consensus size: 35
50855 AGAAAGAGTT
50865 ATAGTAAAAGTAAAAAGGTAAAATGGTAAAAAGTAAC
1 ATAGT-AAAGTAAAAA-GTAAAATGGTAAAAAGTAAC
* * *
50902 A-A-TAATTAGT-AAAAGTATAATGGTAGAGAGTAA-
1 ATAGTAA--AGTAAAAAGTAAAATGGTAAAAAGTAAC
50935 ATAGTAAAGTAAAAAG
1 ATAGTAAAGTAAAAAG
50951 ACAATCAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
33 4 0.10
34 24 0.59
35 8 0.20
36 4 0.10
37 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.20, T:0.22
Consensus pattern (35 bp):
ATAGTAAAGTAAAAAGTAAAATGGTAAAAAGTAAC
Found at i:55278 original size:9 final size:9
Alignment explanation
Indices: 55263--55305 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
55253 GTGAGGCTTA
55263 AAAAAAAGTC
1 AAAAAAA-TC
*
55273 AAAAAAATA
1 AAAAAAATC
55282 AAAAAAATC
1 AAAAAAATC
**
55291 AATCAAATC
1 AAAAAAATC
55300 AAAAAA
1 AAAAAA
55306 GAAGGATACA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.12
Consensus pattern (9 bp):
AAAAAAATC
Found at i:56973 original size:68 final size:68
Alignment explanation
Indices: 56821--57337 Score: 594
Period size: 68 Copynumber: 7.6 Consensus size: 68
56811 AATGTTTCGA
* * * * * *
56821 CTTTTCCATAAGTCAAACTCGTTTCCATACGAGTCAGTTCAAGCTTTGGTTCCACCCAAACATTC
1 CTTTTCCATAAGCCAATCTCGTTTCCATACGAGTCAGTT-AAGCCTTGGTTCCATCCAAGCA-GC
56886 AGGGG
64 AGGGG
* * * *
56891 TTTTTCCACAAGCCAATCTTGTTTCCATACGAGTCAGTTTAGCCTTGGTTCCATCCAAGCAGCAG
1 CTTTTCCATAAGCCAATCTCGTTTCCATACGAGTCAGTTAAGCCTTGGTTCCATCCAAGCAGCAG
56956 GGG
66 GGG
* * * *
56959 CTTTTCCATAAGCCAATCTCGTTTCCATAGGAGGT-AGATTAAACTTTGGTTCCATCCAAGCATT
1 CTTTTCCATAAGCCAATCTCGTTTCCATACGA-GTCAG-TTAAGCCTTGGTTCCATCCAAGCA-G
57023 CAGGGG
63 CAGGGG
* * *
57029 CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAGCCTTGGTTCCATCCAAGCAGCAG
1 CTTTTCCATAAGCCAATCTCGTTTCCATACGAGTCAGTTAAGCCTTGGTTCCATCCAAGCAGCAG
*
57094 GGT
66 GGG
* * * * *
57097 CTTTTCCATAAGCCAATCTCGTTTCCATACAAGTCAATTTAGCCTTGGTTCCATCTAAGAAGCAG
1 CTTTTCCATAAGCCAATCTCGTTTCCATACGAGTCAGTTAAGCCTTGGTTCCATCCAAGCAGCAG
*
57162 GAG
66 GGG
* * * * *
57165 CTTTTCCACAAGCCAATCTCGTTTCCATACGAGTCAGTTAAGCCTTGGCTCCATCCCAGCAACAA
1 CTTTTCCATAAGCCAATCTCGTTTCCATACGAGTCAGTTAAGCCTTGGTTCCATCCAAGCAGCAG
57230 GGG
66 GGG
* * * * *
57233 CTTTTCCATAAGCCAAACTCGTTTACATACGAGTCAGTTCAAACTTTGGTTCCAT-AAAGCA--A
1 CTTTTCCATAAGCCAATCTCGTTTCCATACGAGTCAGTT-AAGCCTTGGTTCCATCCAAGCAGCA
57295 GGGG
65 GGGG
* * *
57299 CTTTTCCGTAAGCCAAGT-TCATTTCCATATGAAGTCAGT
1 CTTTTCCATAAGCCAA-TCTCGTTTCCATACG-AGTCAGT
57338 CTTCCAAGAC
Statistics
Matches: 381, Mismatches: 59, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
66 29 0.08
67 7 0.02
68 198 0.52
69 76 0.20
70 71 0.19
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (68 bp):
CTTTTCCATAAGCCAATCTCGTTTCCATACGAGTCAGTTAAGCCTTGGTTCCATCCAAGCAGCAG
GGG
Found at i:57069 original size:138 final size:138
Alignment explanation
Indices: 56821--57337 Score: 656
Period size: 138 Copynumber: 3.8 Consensus size: 138
56811 AATGTTTCGA
* * * *
56821 CTTTTCCATAAGTCAAACTCGTTTCCATACGAGTCAGTTCAAGCTTTGGTTCCACCCAAACATTC
1 CTTTTCCATAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACTTTGGTTCCATCCAAGCATTC
* *
56886 AGGGGTTTTTCCACAAGCCAATCTTGTTTCCATACGAGTCAGTTTAGCCTTGGTTCCATCCAAGC
66 AGGGGCTTTTCCACAAGCCAATCTCGTTTCCATACGAGTCAGTTTAGCCTTGGTTCCATCCAAGC
56951 AGCAGGGG
131 AGCAGGGG
* *
56959 CTTTTCCATAAGCCAATCTCGTTTCCATAGGAGGT-AGATT-AAACTTTGGTTCCATCCAAGCAT
1 CTTTTCCATAAGCCAAACTCGTTTCCATACGA-GTCAG-TTCAAACTTTGGTTCCATCCAAGCAT
*
57022 TCAGGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAGCCTTGGTTCCATCCAA
64 TCAGGGGCTTTTCCACAAGCCAATCTCGTTTCCATACGAGTCAGTTTAGCCTTGGTTCCATCCAA
*
57087 GCAGCAGGGT
129 GCAGCAGGGG
* * * * * * * **
57097 CTTTTCCATAAGCCAATCTCGTTTCCATACAAGTCAATT-TAGCCTTGGTTCCATCTAAG-AAGC
1 CTTTTCCATAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACTTTGGTTCCATCCAAGCATTC
* * * *
57160 AGGAGCTTTTCCACAAGCCAATCTCGTTTCCATACGAGTCAGTTAAGCCTTGGCTCCATCCCAGC
66 AGGGGCTTTTCCACAAGCCAATCTCGTTTCCATACGAGTCAGTTTAGCCTTGGTTCCATCCAAGC
* *
57225 AACAAGGG
131 AGCAGGGG
* *
57233 CTTTTCCATAAGCCAAACTCGTTTACATACGAGTCAGTTCAAACTTTGGTTCCAT-AAAGCA---
1 CTTTTCCATAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACTTTGGTTCCATCCAAGCATTC
** * *
57294 AGGGGCTTTTCCGTAAGCCAAGT-TCATTTCCATATGAAGTCAGT
66 AGGGGCTTTTCCACAAGCCAA-TCTCGTTTCCATACG-AGTCAGT
57338 CTTCCAAGAC
Statistics
Matches: 332, Mismatches: 40, Indels: 17
0.85 0.10 0.04
Matches are distributed among these distances:
134 29 0.09
135 8 0.02
136 105 0.32
137 33 0.10
138 153 0.46
139 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (138 bp):
CTTTTCCATAAGCCAAACTCGTTTCCATACGAGTCAGTTCAAACTTTGGTTCCATCCAAGCATTC
AGGGGCTTTTCCACAAGCCAATCTCGTTTCCATACGAGTCAGTTTAGCCTTGGTTCCATCCAAGC
AGCAGGGG
Found at i:61344 original size:16 final size:16
Alignment explanation
Indices: 61325--61355 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61315 ATGACAGTAG
*
61325 AAGAGCATGAGCATCA
1 AAGAGCAAGAGCATCA
61341 AAGAGCAAGAGCATC
1 AAGAGCAAGAGCATC
61356 CGTTAAGGCA
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:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (16 bp):
AAGAGCAAGAGCATCA
Found at i:63029 original size:24 final size:23
Alignment explanation
Indices: 63002--63046 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
62992 AATTTCTCAC
*
63002 TTTGGGCCTTATCTCTTTTATGCA
1 TTTGGG-CTTATCCCTTTTATGCA
* *
63026 TTTGTGCTTGTCCCTTTTATG
1 TTTGGGCTTATCCCTTTTATG
63047 GTCCATTGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.09, C:0.20, G:0.18, T:0.53
Consensus pattern (23 bp):
TTTGGGCTTATCCCTTTTATGCA
Found at i:63752 original size:40 final size:39
Alignment explanation
Indices: 63708--63970 Score: 112
Period size: 33 Copynumber: 7.2 Consensus size: 39
63698 TGAAGTAAAC
63708 AGTAAATCAGTAATTAAGAATCAAAGTAAAAGGATTAATT
1 AGTAAATCAGTAATTAAGAATCAAAG-AAAAGGATTAATT
* * *
63748 AGTAAAT---TGA-T---AATCAAAAGAGAAAGTA-AAATT
1 AGTAAATCAGTAATTAAGAATC-AAAGA-AAAGGATTAATT
*
63781 AGT-AATCAGTAATTAAGAATCAAAGTAAAAGGGTTAATT
1 AGTAAATCAGTAATTAAGAATCAAAG-AAAAGGATTAATT
* * *
63820 AGTAAAT---TGA-T---AATCAAGAGAGAAAGTA-AAATT
1 AGTAAATCAGTAATTAAGAATCAA-AGA-AAAGGATTAATT
** *
63853 AGT-AATCAGTAATTAAGAAAGAAAGTAAAAAGATTAATT
1 AGTAAATCAGTAATTAAGAATCAAAG-AAAAGGATTAATT
* * *
63892 AGTAAAT---TGA-T---AATCAAGAGAGAAAGTA-AAATT
1 AGTAAATCAGTAATTAAGAATCAA-AGA-AAAGGATTAATT
* *
63925 AGT-AAGCAGTAATTAAGAAACAAAGGAAAAGGATTAATT
1 AGTAAATCAGTAATTAAGAATCAAA-GAAAAGGATTAATT
63964 AGTAAAT
1 AGTAAAT
63971 TGATAGTAAG
Statistics
Matches: 158, Mismatches: 29, Indels: 72
0.61 0.11 0.28
Matches are distributed among these distances:
32 8 0.05
33 38 0.24
34 21 0.13
35 6 0.04
36 6 0.04
37 6 0.04
38 20 0.13
39 38 0.24
40 15 0.09
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (39 bp):
AGTAAATCAGTAATTAAGAATCAAAGAAAAGGATTAATT
Found at i:63794 original size:72 final size:72
Alignment explanation
Indices: 63712--64008 Score: 463
Period size: 72 Copynumber: 4.1 Consensus size: 72
63702 GTAAACAGTA
* *
63712 AATCAGTAATTAAGAATCAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAAAGAGAAAGTAA
1 AATCAGTAATTAAGAAACAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAGAGAGAAAGTAA
63777 AATTAGT
66 AATTAGT
* *
63784 AATCAGTAATTAAGAATCAAAGTAAAAGGGTTAATTAGTAAATTGATAATCAAGAGAGAAAGTAA
1 AATCAGTAATTAAGAAACAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAGAGAGAAAGTAA
63849 AATTAGT
66 AATTAGT
* *
63856 AATCAGTAATTAAGAAAGAAAGTAAAAAGATTAATTAGTAAATTGATAATCAAGAGAGAAAGTAA
1 AATCAGTAATTAAGAAACAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAGAGAGAAAGTAA
63921 AATTAGT
66 AATTAGT
* * *
63928 AAGCAGTAATTAAGAAACAAAGGAAAAGGATTAATTAGTAAATTGATAGT-AAG-GAGTAAAAGT
1 AATCAGTAATTAAGAAACAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAGAGAG--AAAGT
**
63991 AAAAGAAGT
64 AAAATTAGT
64000 AATCAGTAA
1 AATCAGTAA
64009 AAGCCAAAGA
Statistics
Matches: 209, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
70 3 0.01
71 3 0.01
72 203 0.97
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.25
Consensus pattern (72 bp):
AATCAGTAATTAAGAAACAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAGAGAGAAAGTAA
AATTAGT
Found at i:63880 original size:32 final size:32
Alignment explanation
Indices: 63768--63954 Score: 99
Period size: 32 Copynumber: 5.3 Consensus size: 32
63758 TAATCAAAAG
63768 AGAAAGTAAAATTAGTAATCAGTAATTAAGAA
1 AGAAAGTAAAATTAGTAATCAGTAATTAAGAA
** * * *
63800 TCAAAGTAAAAGGGTTAATTAGTAAAT-TGATAATCAAGAG
1 AGAAAGT--AA-----AATTAGT-AATCAG-TAATTAAGAA
63840 AGAAAGTAAAATTAGTAATCAGTAATTAAGAA
1 AGAAAGTAAAATTAGTAATCAGTAATTAAGAA
* * *
63872 AGAAAGTAAAAAGATTAATTAGTAAAT-TGATAATCAAGAG
1 AGAAAGT----A-A--AATTAGT-AATCAG-TAATTAAGAA
*
63912 AGAAAGTAAAATTAGTAAGCAGTAATTAAGAA
1 AGAAAGTAAAATTAGTAATCAGTAATTAAGAA
* *
63944 ACAAAGGAAAA
1 AGAAAGTAAAA
63955 GGATTAATTA
Statistics
Matches: 116, Mismatches: 19, Indels: 40
0.66 0.11 0.23
Matches are distributed among these distances:
32 42 0.36
33 16 0.14
34 2 0.02
35 1 0.01
36 2 0.02
37 1 0.01
38 2 0.02
39 16 0.14
40 34 0.29
ACGTcount: A:0.55, C:0.04, G:0.18, T:0.24
Consensus pattern (32 bp):
AGAAAGTAAAATTAGTAATCAGTAATTAAGAA
Found at i:64206 original size:60 final size:60
Alignment explanation
Indices: 64135--64325 Score: 174
Period size: 60 Copynumber: 3.4 Consensus size: 60
64125 ATAGCAAAAG
*
64135 TAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAA
1 TAAAAGAAGTAATAAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAA
* * * *
64195 TAAAAGGAGTAA-AAGTAAAAGA-AGTAATC------AGTAA-AAGTAAAAG-AGTAA--AA
1 TAAAAGAAGTAATAAG-AAAA-ATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAA
* * *
64245 GTAAAAGAAGTAATTAGAAAAATGGCAATCAAGAGAAGTAATCAGTAGAGGAAGTAATCAA
1 -TAAAAGAAGTAATAAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAA
* *
64306 TAAAAGGAGTAA-AAGTAAAA
1 TAAAAGAAGTAATAAGAAAAA
64326 GAAGTAATCA
Statistics
Matches: 101, Mismatches: 15, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
50 3 0.03
51 20 0.20
52 7 0.07
53 7 0.07
54 5 0.05
57 5 0.05
58 6 0.06
59 13 0.13
60 32 0.32
61 3 0.03
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (60 bp):
TAAAAGAAGTAATAAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAA
Found at i:64215 original size:15 final size:16
Alignment explanation
Indices: 64084--64674 Score: 172
Period size: 16 Copynumber: 37.4 Consensus size: 16
64074 GGAAGATCAA
*
64084 TAAAAGGAGTAA-AAG
1 TAAAAGAAGTAATAAG
64099 TAAAAGAAGTAATCAA-
1 TAAAAGAAGTAAT-AAG
* *
64115 TAAAAGCCAAATAGCAAAAG
1 TAAAAG--AAGTA--ATAAG
*
64135 TAAAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
*
64151 -AAAA-ATGGTAATCAAG
1 TAAAAGA-AGTAAT-AAG
*
64167 ----AGAAGTAATCAG
1 TAAAAGAAGTAATAAG
*
64179 TAGAAGAAGTAATCAA-
1 TAAAAGAAGTAAT-AAG
*
64195 TAAAAGGAGTAA-AAG
1 TAAAAGAAGTAATAAG
*
64210 TAAAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
64226 TAAAAGTAAAAGAGTAA-AAG
1 TAAAAG----A-AGTAATAAG
*
64246 TAAAAGAAGTAATTAG
1 TAAAAGAAGTAATAAG
* *
64262 -AAAA-ATGGCAATCAAG
1 TAAAAGA-AGTAAT-AAG
*
64278 ----AGAAGTAATCAG
1 TAAAAGAAGTAATAAG
* *
64290 TAGAGGAAGTAATCAA-
1 TAAAAGAAGTAAT-AAG
*
64306 TAAAAGGAGTAA-AAG
1 TAAAAGAAGTAATAAG
*
64321 TAAAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
*
64337 TAAAAGCCAAAG-AGCAAAAG
1 TAAAAG---AAGTA--ATAAG
*
64357 TAAAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
*
64373 -AAAA-ATGGTAATCAAG
1 TAAAAGA-AGTAAT-AAG
*
64389 ----AGAAGTAATCAG
1 TAAAAGAAGTAATAAG
* *
64401 TAGAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
*
64417 TAAAAGGAGTAA-AAG
1 TAAAAGAAGTAATAAG
*
64432 TAAAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
64448 TAAAAGTAAAAGAGTAA-AAG
1 TAAAAG----A-AGTAATAAG
*
64468 TAAAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
**
64484 ---AAGAA-TGGTAA-
1 TAAAAGAAGTAATAAG
* *
64495 TCAAGAGAAGTAATCAG
1 T-AAAAGAAGTAATAAG
* * *
64512 TAGAGGAAGTAATCAG
1 TAAAAGAAGTAATAAG
*
64528 TAAAAGGAGTAA-AAG
1 TAAAAGAAGTAATAAG
*
64543 TAAAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
*
64559 TAAAAGCCAAG-AGCAAAAG
1 TAAAAG--AAGTA--ATAAG
64578 TAAAAGAAGTAATCAA-
1 TAAAAGAAGTAAT-AAG
64594 TAAAATG--GTAATCAAG
1 TAAAA-GAAGTAAT-AAG
*
64610 ----AGAAGTAATCAG
1 TAAAAGAAGTAATAAG
* *
64622 TAGAAGAAGTAATCAG
1 TAAAAGAAGTAATAAG
64638 TAAAA-AGAGTAA-AAG
1 TAAAAGA-AGTAATAAG
* *
64653 TAAAAAAAGTAATCAG
1 TAAAAGAAGTAATAAG
64669 TAAAAG
1 TAAAAG
64675 CCAAAGAGCA
Statistics
Matches: 430, Mismatches: 69, Indels: 153
0.66 0.11 0.23
Matches are distributed among these distances:
11 1 0.00
12 12 0.03
13 27 0.06
14 10 0.02
15 120 0.28
16 173 0.40
17 15 0.03
18 14 0.03
19 14 0.03
20 34 0.08
21 10 0.02
ACGTcount: A:0.57, C:0.06, G:0.21, T:0.16
Consensus pattern (16 bp):
TAAAAGAAGTAATAAG
Found at i:64220 original size:31 final size:32
Alignment explanation
Indices: 64177--64258 Score: 103
Period size: 31 Copynumber: 2.5 Consensus size: 32
64167 AGAAGTAATC
*
64177 AGTAGAAGAAGTAATCAATAAAAG-GAGTAAA
1 AGTAAAAGAAGTAATCAATAAAAGAGAGTAAA
*
64208 AGTAAAAGAAGTAATCAGTAAAAGTAAAAGAGTAAA
1 AGTAAAAGAAGTAATCAATAAAAG----AGAGTAAA
64244 AGTAAAAGAAGTAAT
1 AGTAAAAGAAGTAAT
64259 TAGAAAAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 22 0.50
36 22 0.50
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.17
Consensus pattern (32 bp):
AGTAAAAGAAGTAATCAATAAAAGAGAGTAAA
Found at i:64227 original size:22 final size:20
Alignment explanation
Indices: 64202--64251 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
64192 CAATAAAAGG
*
64202 AGTAAAAGTAAAAGAAGTAATC
1 AGTAAAAGTAAAAG-AGTAA-A
64224 AGTAAAAGTAAAAGAGTAAA
1 AGTAAAAGTAAAAGAGTAAA
64244 AGTAAAAG
1 AGTAAAAG
64252 AAGTAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 5 0.19
22 14 0.52
ACGTcount: A:0.62, C:0.02, G:0.20, T:0.16
Consensus pattern (20 bp):
AGTAAAAGTAAAAGAGTAAA
Found at i:64398 original size:13 final size:15
Alignment explanation
Indices: 64360--64447 Score: 60
Period size: 15 Copynumber: 5.9 Consensus size: 15
64350 GCAAAAGTAA
64360 AAGAAGTAATCAGA-
1 AAGAAGTAATCAGAG
64374 AA-AATGGTAATCA-AG
1 AAGAA--GTAATCAGAG
64389 -AGAAGTAATCAGTAG
1 AAGAAGTAATCAG-AG
*
64404 AAGAAGTAATCAGTAA
1 AAGAAGTAATCAG-AG
* * *
64420 AAGGAGTAA-AAGTAA
1 AAGAAGTAATCAG-AG
64435 AAGAAGTAATCAG
1 AAGAAGTAATCAG
64448 TAAAAGTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
13 9 0.15
14 4 0.07
15 24 0.39
16 24 0.39
ACGTcount: A:0.55, C:0.06, G:0.23, T:0.17
Consensus pattern (15 bp):
AAGAAGTAATCAGAG
Found at i:64449 original size:22 final size:20
Alignment explanation
Indices: 64424--64473 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
64414 CAGTAAAAGG
*
64424 AGTAAAAGTAAAAGAAGTAATC
1 AGTAAAAGTAAAAG-AGTAA-A
64446 AGTAAAAGTAAAAGAGTAAA
1 AGTAAAAGTAAAAGAGTAAA
64466 AGTAAAAG
1 AGTAAAAG
64474 AAGTAATCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 5 0.19
22 14 0.52
ACGTcount: A:0.62, C:0.02, G:0.20, T:0.16
Consensus pattern (20 bp):
AGTAAAAGTAAAAGAGTAAA
Found at i:64716 original size:332 final size:332
Alignment explanation
Indices: 63981--64790 Score: 1338
Period size: 332 Copynumber: 2.4 Consensus size: 332
63971 TGATAGTAAG
* *
63981 GAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATTAGGAAA
1 GAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAA
* *
64046 ATGGTAATCAAGAGAAGTAATCAGTAGAGGAAG-ATCAATAAAAGGAGTAAAAGTAAAAGAAGTA
66 ATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTA
* ** *
64110 ATCAATAAAAGCCAAATAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAA
131 ATCAGTAAAAGTAAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAA
64175 TCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGTAAAAGAG
196 TCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGTAAAAGAG
* * *
64240 TAAAAGTAAAAGAAGTAATTAGAAAAATGGCAATCAAGAGAAGTAATCAGTAGAGGAAGTAATCA
261 CAAAAGTAAAAGAAGTAATCAGAAAAATGGCAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCA
*
64305 ATAAAAG
326 ATAAAAA
64312 GAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAA
1 GAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAA
64377 ATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGT
66 ATGGTAATCAAGAGAAGTAATCAGTAGAAGAAG-AATCAGTAAAAGGAGTAAAAGTAAAAGAAGT
* *
64442 AATCAGTAAAAGTAAAAGAGTAAAAGTAAAAGAAGTAATCAGAAGAATGGTAATCAAGAGAAGTA
130 AATCAGTAAAAGTAAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTA
* * **
64507 ATCAGTAGAGGAAGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAG-CCAAGA
195 ATCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGTAAAAGA
*
64571 GCAAAAGTAAAAGAAGTAATCA-ATAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAAT
260 GCAAAAGTAAAAGAAGTAATCAGA-AAAATGGCAATCAAGAGAAGTAATCAGTAGAAGAAGTAAT
*
64635 CAGTAAAAA
324 CAATAAAAA
* *
64644 GAGTAAAAGTAAAAAAAGTAATCAGTAAAAGCCAAAGAGCAAAAATAAAAGAAGTAATCAGAAAA
1 GAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAA
* * *
64709 ATGGTAATCAAGAGGAGTGATCAGTAGAAGAAGAGATCAGTAAAAGGAGTAACAGTAAAAAGAAG
66 ATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGA-ATCAGTAAAAGGAGTAAAAGT-AAAAGAAG
64774 TAATCAGTAAAAGTAAA
129 TAATCAGTAAAAGTAAA
64791 GAAAAGAAAA
Statistics
Matches: 449, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
331 97 0.22
332 183 0.41
333 169 0.38
ACGTcount: A:0.56, C:0.06, G:0.21, T:0.16
Consensus pattern (332 bp):
GAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAA
ATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTA
ATCAGTAAAAGTAAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAA
TCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGTAAAAGAG
CAAAAGTAAAAGAAGTAATCAGAAAAATGGCAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCA
ATAAAAA
Found at i:64766 original size:15 final size:16
Alignment explanation
Indices: 64728--64786 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
64718 AAGAGGAGTG
*
64728 ATCAGTAGAAGAAG-A
1 ATCAGTAAAAGAAGTA
*
64743 GATCAGTAAAAGGAGTA
1 -ATCAGTAAAAGAAGTA
64760 A-CAGTAAAAAGAAGTA
1 ATCAGT-AAAAGAAGTA
64776 ATCAGTAAAAG
1 ATCAGTAAAAG
64787 TAAAGAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 4 0.11
16 28 0.76
17 5 0.14
ACGTcount: A:0.54, C:0.07, G:0.24, T:0.15
Consensus pattern (16 bp):
ATCAGTAAAAGAAGTA
Found at i:64792 original size:111 final size:111
Alignment explanation
Indices: 63978--64786 Score: 1331
Period size: 111 Copynumber: 7.3 Consensus size: 111
63968 AATTGATAGT
* *
63978 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATTAGG
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
* *
64043 AAAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAG--ATCAATAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
* *
64087 AAGGAGTAAAAGTAAAAGAAGTAATCAATAAAAGCCAAATAGCAAAAGTAAAAGAAGTAATCAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
*
64152 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAATAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
** * *
64198 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGTAAAAGAGTAAAAGTAAAAGAAGTAATTAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
* * *
64263 AAAATGGCAATCAAGAGAAGTAATCAGTAGAGGAAGTAATCAATAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
64309 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
64374 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
** *
64420 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGTAAAAGAGTAAAAGTAAAAGAAGTAATCAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
* *
64485 AGAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAGTAATCAGTAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
64531 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCC-AAGAGCAAAAGTAAAAGAAGTAATCA-A
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
64594 TAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
66 -AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
* * *
64641 AAAGAGTAAAAGTAAAAAAAGTAATCAGTAAAAGCCAAAGAGCAAAAATAAAAGAAGTAATCAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
* *
64706 AAAATGGTAATCAAGAGGAGTGATCAGTAGAAGAAG-AGATCAGTAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTA-ATCAGTAA
*
64752 AAGGAGTAACAGTAAAAAGAAGTAATCAGTAAAAG
1 AAGGAGTAAAAGT-AAAAGAAGTAATCAGTAAAAG
64787 TAAAGAAAAG
Statistics
Matches: 655, Mismatches: 38, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
109 97 0.15
110 104 0.16
111 433 0.66
112 21 0.03
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.16
Consensus pattern (111 bp):
AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
Found at i:64965 original size:36 final size:36
Alignment explanation
Indices: 64889--65065 Score: 194
Period size: 36 Copynumber: 5.2 Consensus size: 36
64879 AGTAATAATC
* *
64889 AGTAAAGAGTAATCAG--CAAAGAAAAATGGTAAAGA
1 AGTAAAGAGTAATCAGTAAAAAGTAAAATGGTAAA-A
** *
64924 A-TAAAGAGTAATCAGTAAAGCGTAAAATGGCAAAA
1 AGTAAAGAGTAATCAGTAAAAAGTAAAATGGTAAAA
*
64959 AGTAAAGAGTAATCAGTAAATAGTAAAAT-GT----
1 AGTAAAGAGTAATCAGTAAAAAGTAAAATGGTAAAA
*
64990 --TAAAGAGTAATCAGTAAAAAGTAAAATGGTAAAG
1 AGTAAAGAGTAATCAGTAAAAAGTAAAATGGTAAAA
* *
65024 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAAAG
1 AGTAAAGAGTAATCAGTAAAAAGTAAAATGGTAAAA
65060 AGTAAA
1 AGTAAA
65066 AAAAATGGTA
Statistics
Matches: 122, Mismatches: 10, Indels: 19
0.81 0.07 0.13
Matches are distributed among these distances:
29 26 0.21
30 2 0.02
34 14 0.11
35 4 0.03
36 76 0.62
ACGTcount: A:0.56, C:0.05, G:0.20, T:0.19
Consensus pattern (36 bp):
AGTAAAGAGTAATCAGTAAAAAGTAAAATGGTAAAA
Found at i:64977 original size:29 final size:30
Alignment explanation
Indices: 64945--65028 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 30
64935 TCAGTAAAGC
*
64945 GTAAAATGGCAAAAAG-TAAAGAGTAATCA
1 GTAAAATAGCAAAAAGTTAAAGAGTAATCA
* *
64974 GT-AAATAGTAAAATGTTAAAGAGTAATCA
1 GTAAAATAGCAAAAAGTTAAAGAGTAATCA
* * *
65003 GTAAAA-AGTAAAATGGTAAAGAGTAA
1 GTAAAATAGCAAAAAGTTAAAGAGTAA
65029 AGAGTAATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.20
29 36 0.73
30 3 0.06
ACGTcount: A:0.55, C:0.04, G:0.20, T:0.21
Consensus pattern (30 bp):
GTAAAATAGCAAAAAGTTAAAGAGTAATCA
Found at i:64983 original size:7 final size:7
Alignment explanation
Indices: 64917--65035 Score: 55
Period size: 7 Copynumber: 16.6 Consensus size: 7
64907 AAGAAAAATG
64917 GTAAAGA
1 GTAAAGA
*
64924 ATAAAGA
1 GTAAAGA
**
64931 GTAATCA
1 GTAAAGA
*
64938 GTAAAGC
1 GTAAAGA
64945 GTAAA-A
1 GTAAAGA
* *
64951 TGGCAAAAA
1 --GTAAAGA
64960 GTAAAGA
1 GTAAAGA
**
64967 GTAATCA
1 GTAAAGA
*
64974 GTAAATA
1 GTAAAGA
64981 GTAAA-A
1 GTAAAGA
64987 TGTTAAAGA
1 -G-TAAAGA
**
64996 GTAATCA
1 GTAAAGA
*
65003 GTAAAAA
1 GTAAAGA
65010 GTAAA-A
1 GTAAAGA
65016 TGGTAAAGA
1 --GTAAAGA
65025 GTAAAGA
1 GTAAAGA
65032 GTAA
1 GTAA
65036 TCAATAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
6 2 0.02
7 65 0.77
8 14 0.17
9 3 0.04
ACGTcount: A:0.55, C:0.04, G:0.21, T:0.20
Consensus pattern (7 bp):
GTAAAGA
Found at i:65005 original size:65 final size:65
Alignment explanation
Indices: 64925--65064 Score: 217
Period size: 65 Copynumber: 2.2 Consensus size: 65
64915 TGGTAAAGAA
** * * *
64925 TAAAGAGTAATCAGTAAAGCGTAAAATGGCAAAAAGTAAAGAGTAATCAGTAAATAGTAAAATGT
1 TAAAGAGTAATCAGTAAAAAGTAAAATGGCAAAAAGTAAAGAGTAATCAATAAAAAGTAAAATGG
* *
64990 TAAAGAGTAATCAGTAAAAAGTAAAATGGTAAAGAGTAAAGAGTAATCAATAAAAAGTAAAATGG
1 TAAAGAGTAATCAGTAAAAAGTAAAATGGCAAAAAGTAAAGAGTAATCAATAAAAAGTAAAATGG
65055 TAAAGAGTAA
1 TAAAGAGTAA
65065 AAAAAATGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.55, C:0.04, G:0.20, T:0.21
Consensus pattern (65 bp):
TAAAGAGTAATCAGTAAAAAGTAAAATGGCAAAAAGTAAAGAGTAATCAATAAAAAGTAAAATGG
Found at i:65034 original size:29 final size:29
Alignment explanation
Indices: 64960--65064 Score: 120
Period size: 29 Copynumber: 3.4 Consensus size: 29
64950 ATGGCAAAAA
*
64960 GTAAAGAGTAATCAGTAAATAGTAAAATG
1 GTAAAGAGTAATCAGTAAAAAGTAAAATG
*
64989 TTAAAGAGTAATCAGTAAAAAGTAAAATGGTAAAG
1 GTAAAGAGTAATCAGTAAAAAGTAAAA---T---G
*
65024 AGTAAAGAGTAATCAATAAAAAGTAAAATG
1 -GTAAAGAGTAATCAGTAAAAAGTAAAATG
65054 GTAAAGAGTAA
1 GTAAAGAGTAA
65065 AAAAAATGGT
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
29 36 0.55
30 1 0.02
32 1 0.02
33 1 0.02
35 1 0.02
36 25 0.38
ACGTcount: A:0.55, C:0.03, G:0.20, T:0.22
Consensus pattern (29 bp):
GTAAAGAGTAATCAGTAAAAAGTAAAATG
Found at i:65050 original size:7 final size:7
Alignment explanation
Indices: 64955--65067 Score: 57
Period size: 7 Copynumber: 15.7 Consensus size: 7
64945 GTAAAATGGC
64955 AAAAAGT
1 AAAAAGT
*
64962 AAAGAGT
1 AAAAAGT
**
64969 AATCAGT
1 AAAAAGT
*
64976 AAATAGT
1 AAAAAGT
*
64983 AAAATGTT
1 AAAAAG-T
*
64991 AAAGAGT
1 AAAAAGT
**
64998 AATCAGT
1 AAAAAGT
65005 AAAAAGT
1 AAAAAGT
*
65012 AAAATGGT
1 AAAA-AGT
*
65020 AAAGAGT
1 AAAAAGT
*
65027 AAAGAGT
1 AAAAAGT
*
65034 AATCAA-T
1 AA-AAAGT
65041 AAAAAGT
1 AAAAAGT
*
65048 AAAATGGT
1 AAAA-AGT
*
65056 AAAGAGT
1 AAAAAGT
65063 AAAAA
1 AAAAA
65068 AAATGGTAAT
Statistics
Matches: 78, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
6 2 0.03
7 60 0.77
8 16 0.21
ACGTcount: A:0.58, C:0.03, G:0.19, T:0.20
Consensus pattern (7 bp):
AAAAAGT
Found at i:65072 original size:19 final size:20
Alignment explanation
Indices: 65048--65090 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
65038 AATAAAAAGT
*
65048 AAAATGGTAAAGAGTA-AAA
1 AAAATGGTAAACAGTAGAAA
*
65067 AAAATGGTAATCAGTAGAAA
1 AAAATGGTAAACAGTAGAAA
65087 AAAA
1 AAAA
65091 ATAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATGGTAAACAGTAGAAA
Found at i:67791 original size:27 final size:27
Alignment explanation
Indices: 67740--67797 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
67730 CAAGAGACAT
* * *
67740 TTTTCAAAAATCGTTTTCAAGAAAAGG
1 TTTTCAAAAATAGCTTTCAAGAAAAAG
67767 TTTTCAAAAATGAGCTTTCAA-AAAAAG
1 TTTTCAAAAAT-AGCTTTCAAGAAAAAG
67794 TTTT
1 TTTT
67798 TGAGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (27 bp):
TTTTCAAAAATAGCTTTCAAGAAAAAG
Found at i:68461 original size:13 final size:14
Alignment explanation
Indices: 68439--68467 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
68429 CAATTCAAAC
68439 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
68453 AAAAG-AAAAAAGA
1 AAAAGAAAAAAAGA
68466 AA
1 AA
68468 GAAAAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:70376 original size:45 final size:46
Alignment explanation
Indices: 70276--70413 Score: 120
Period size: 45 Copynumber: 3.0 Consensus size: 46
70266 AAGCTTTTAG
** * *
70276 TGAAATCAGGAAACAC-CCGGGTAGCAATTCCTGACAGCCTTCGGGCG
1 TGAAATCA-GAAAC-CTCCGGGTAATAATTCCTGACAGCCTCCGGGCA
* * *
70323 TGATATCAGAAACCTTCGGGTAATAATT-CTGGCAGCCTCCGGGCA
1 TGAAATCAGAAACCTCCGGGTAATAATTCCTGACAGCCTCCGGGCA
* *** **
70368 TGAAATCAGAAGCCTCCGGGCCGTAATT-CTGATTGCCTCCGGGCA
1 TGAAATCAGAAACCTCCGGGTAATAATTCCTGACAGCCTCCGGGCA
70413 T
1 T
70414 ACTTCAAATC
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
45 52 0.70
46 15 0.20
47 7 0.09
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (46 bp):
TGAAATCAGAAACCTCCGGGTAATAATTCCTGACAGCCTCCGGGCA
Found at i:70498 original size:43 final size:43
Alignment explanation
Indices: 70425--70523 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
70415 CTTCAAATCA
* * * *
70425 TCAAGTTTTCAGCAGTTATCAAAGTTAACTTTAGAACTGGTCTC
1 TCAA-TTTTTAGCAGTTATCAAAGTCAACTTCAGAACAGGTCTC
70469 TCAATTTTTAGCAGTTATCCAAA-TCAACTTCAGAACAGGTCTC
1 TCAATTTTTAGCAGTTAT-CAAAGTCAACTTCAGAACAGGTCTC
70512 TCAATTTTTAGC
1 TCAATTTTTAGC
70524 TATTAGCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 42 0.84
44 8 0.16
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (43 bp):
TCAATTTTTAGCAGTTATCAAAGTCAACTTCAGAACAGGTCTC
Found at i:71638 original size:16 final size:16
Alignment explanation
Indices: 71619--71649 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71609 ATGACAGCAG
*
71619 AAGAGCATGAGCATCA
1 AAGAGCAAGAGCATCA
71635 AAGAGCAAGAGCATC
1 AAGAGCAAGAGCATC
71650 CGTTAAGACA
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:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (16 bp):
AAGAGCAAGAGCATCA
Found at i:73690 original size:24 final size:23
Alignment explanation
Indices: 73663--73707 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
73653 AATTTCTCAC
*
73663 TTTGGGCCTTATCTCTTTTATGCA
1 TTTGGG-CTTATCCCTTTTATGCA
* *
73687 TTTGTGCTTGTCCCTTTTATG
1 TTTGGGCTTATCCCTTTTATG
73708 GCCCATTGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.09, C:0.20, G:0.18, T:0.53
Consensus pattern (23 bp):
TTTGGGCTTATCCCTTTTATGCA
Found at i:74414 original size:40 final size:40
Alignment explanation
Indices: 74370--74488 Score: 114
Period size: 33 Copynumber: 3.2 Consensus size: 40
74360 TGAAGTAAAC
74370 AGTAAATCAGTAATTAAGAATCAAAGTAAAAGGATTAATT
1 AGTAAATCAGTAATTAAGAATCAAAGTAAAAGGATTAATT
* * *
74410 AGTAAAT---TGA-T---AATCAAAAG-AGAAAGTA-AAATT
1 AGTAAATCAGTAATTAAGAATC-AAAGTA-AAAGGATTAATT
*
74443 AGT-AATCAGTAATTAAGAATCAAAGTAAAAGGGTTAATT
1 AGTAAATCAGTAATTAAGAATCAAAGTAAAAGGATTAATT
74482 AGTAAAT
1 AGTAAAT
74489 TGATAATCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
32 3 0.05
33 12 0.20
34 9 0.15
35 2 0.03
36 2 0.03
37 2 0.03
38 8 0.13
39 12 0.20
40 10 0.17
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.27
Consensus pattern (40 bp):
AGTAAATCAGTAATTAAGAATCAAAGTAAAAGGATTAATT
Found at i:74456 original size:72 final size:72
Alignment explanation
Indices: 74374--74544 Score: 306
Period size: 72 Copynumber: 2.4 Consensus size: 72
74364 GTAAACAGTA
74374 AATCAGTAATTAAGAATCAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAAAGAGAAAGTAA
1 AATCAGTAATTAAGAATCAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAAAGAGAAAGTAA
74439 AATTAGT
66 AATTAGT
* *
74446 AATCAGTAATTAAGAATCAAAGTAAAAGGGTTAATTAGTAAATTGATAATCAAGAGAGAAAGTAA
1 AATCAGTAATTAAGAATCAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAAAGAGAAAGTAA
74511 AATTAGT
66 AATTAGT
**
74518 AATCAGTAATTAAGAAAGAAAGTAAAA
1 AATCAGTAATTAAGAATCAAAGTAAAA
74545 TGATAATCAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 95 1.00
ACGTcount: A:0.54, C:0.04, G:0.16, T:0.25
Consensus pattern (72 bp):
AATCAGTAATTAAGAATCAAAGTAAAAGGATTAATTAGTAAATTGATAATCAAAAGAGAAAGTAA
AATTAGT
Found at i:74472 original size:32 final size:31
Alignment explanation
Indices: 74430--74589 Score: 111
Period size: 32 Copynumber: 5.0 Consensus size: 31
74420 TAATCAAAAG
74430 AGAAAGTAAAATTAGTAATCAGTAATTAAGA
1 AGAAAGTAAAATTAGTAATCAGTAATTAAGA
* * *
74461 ATCAAAGTAAAAGGGTTAATTAGTAAAT-TGATAATCAAGA
1 A-GAAAGT--AA-----AATTAGT-AATCAG-TAATTAAGA
74501 GAGAAAGTAAAATTAGTAATCAGTAATTAAGAA
1 -AGAAAGTAAAATTAGTAATCAGTAATTAAG-A
* *
74534 AGAAAGTAAAATGA-TAATC---AA--GAG-
1 AGAAAGTAAAATTAGTAATCAGTAATTAAGA
74558 AGAAAGTAAAATTAGTAATCAGTAATTAAGA
1 AGAAAGTAAAATTAGTAATCAGTAATTAAGA
74589 A
1 A
74590 ACGAAGTAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 40
0.66 0.07 0.27
Matches are distributed among these distances:
24 13 0.13
25 5 0.05
26 2 0.02
28 4 0.04
30 2 0.02
31 7 0.07
32 28 0.28
33 9 0.09
34 2 0.02
38 2 0.02
39 8 0.08
40 16 0.16
41 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.24
Consensus pattern (31 bp):
AGAAAGTAAAATTAGTAATCAGTAATTAAGA
Found at i:74526 original size:56 final size:55
Alignment explanation
Indices: 74482--74600 Score: 195
Period size: 56 Copynumber: 2.1 Consensus size: 55
74472 AGGGTTAATT
*
74482 AGTAAATTGATAATCAAGAGAGAAAGTAAAATTAGTAATCAGTAATTAAGAAAGAA
1 AGTAAAATGATAATCAAGAGAGAAAGTAAAATTAGTAATCAGTAA-TAAGAAAGAA
74538 AGTAAAATGATAATCAAGAGAGAAAGTAAAATTAGTAATCAGTAATTAAGAAACG-A
1 AGTAAAATGATAATCAAGAGAGAAAGTAAAATTAGTAATCAGTAA-TAAGAAA-GAA
74594 AGTAAAA
1 AGTAAAA
74601 GGATTAATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 60 0.98
57 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (55 bp):
AGTAAAATGATAATCAAGAGAGAAAGTAAAATTAGTAATCAGTAATAAGAAAGAA
Found at i:74549 original size:128 final size:127
Alignment explanation
Indices: 74410--74654 Score: 384
Period size: 128 Copynumber: 1.9 Consensus size: 127
74400 AGGATTAATT
* *
74410 AGTAAATTGATAATCAAAAGAGAAAGTAAAATTAGTAATCAGTAATTAAGAATCAAAGTAAAAGG
1 AGTAAAATGATAATCAAAAGAGAAAGTAAAATTAGTAATCAGTAATTAAGAAACAAAGTAAAAGG
* **
74475 GTTAATTAGTAAATTGATAATCAA-GAGAGAAAGTAAAATTAGTAATCAGTAATTAAGAAAGAA
66 ATTAATTAGTAAATTGATAAT-AAGGAGA-AAAGTAAAAGAAGTAATCAGTAATTAAGAAAGAA
* *
74538 AGTAAAATGATAATCAAGAGAGAAAGTAAAATTAGTAATCAGTAATTAAGAAACGAAGTAAAAGG
1 AGTAAAATGATAATCAAAAGAGAAAGTAAAATTAGTAATCAGTAATTAAGAAACAAAGTAAAAGG
*
74603 ATTAATTAGTAAATTGATAGTAAGGAGTAAAAGTAAAAGAAGTAATCAGTAA
66 ATTAATTAGTAAATTGATAATAAGGAG-AAAAGTAAAAGAAGTAATCAGTAA
74655 AAGCCAAAGA
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
127 2 0.02
128 104 0.97
129 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.24
Consensus pattern (127 bp):
AGTAAAATGATAATCAAAAGAGAAAGTAAAATTAGTAATCAGTAATTAAGAAACAAAGTAAAAGG
ATTAATTAGTAAATTGATAATAAGGAGAAAAGTAAAAGAAGTAATCAGTAATTAAGAAAGAA
Found at i:74556 original size:24 final size:25
Alignment explanation
Indices: 74522--74578 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
74512 ATTAGTAATC
*
74522 AGTAATTAAGAAAGAAAGTAAAATG
1 AGTAATCAAGAAAGAAAGTAAAATG
* *
74547 A-TAATCAAGAGAGAAAGTAAAATT
1 AGTAATCAAGAAAGAAAGTAAAATG
74571 AGTAATCA
1 AGTAATCA
74579 GTAATTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.21
Consensus pattern (25 bp):
AGTAATCAAGAAAGAAAGTAAAATG
Found at i:74752 original size:15 final size:16
Alignment explanation
Indices: 74704--75398 Score: 194
Period size: 16 Copynumber: 44.1 Consensus size: 16
74694 GGTAATCAAG
*
74704 AGAAGTAATTAGTAAA
1 AGAAGTAATAAGTAAA
*
74720 GGAAGTAATCAA-TAAA
1 AGAAGTAAT-AAGTAAA
*
74736 AGGAGTAA-AAGTAAA
1 AGAAGTAATAAGTAAA
*
74751 AGAAGTAATCAGTAAA
1 AGAAGTAATAAGTAAA
* *
74767 AGCCAAAG-AGCAAAAGTAGA
1 AG---AAGTA--ATAAGTAAA
*
74787 AGAAGTAATCAG-AAA
1 AGAAGTAATAAGTAAA
*
74802 A-ATGGTAATCAAG----
1 AGA-AGTAAT-AAGTAAA
* *
74815 AGAAGTAATCAGTAGA
1 AGAAGTAATAAGTAAA
74831 AGAAGTAATCAA-TAAA
1 AGAAGTAAT-AAGTAAA
*
74847 AGGAGTAA-AAGTAAA
1 AGAAGTAATAAGTAAA
*
74862 AGAAGTAATTAGTAAA
1 AGAAGTAATAAGTAAA
74878 AGTAAAAGAGTAA-AAGTAAA
1 AG----A-AGTAATAAGTAAA
*
74898 AGAAGTAATTAG-AAA
1 AGAAGTAATAAGTAAA
*
74913 A-ATGGTAATCAAG----
1 AGA-AGTAAT-AAGTAAA
* *
74926 AGAAGTAATCAGTAGA
1 AGAAGTAATAAGTAAA
*
74942 GGAAGTAATCAA-TAAA
1 AGAAGTAAT-AAGTAAA
*
74958 AGGAGTAA-AAGTAAA
1 AGAAGTAATAAGTAAA
*
74973 AGAAGTAATCAGTAAA
1 AGAAGTAATAAGTAAA
*
74989 AGCCAAAG-AGCAAAAGTAAA
1 AG---AAGTA--ATAAGTAAA
*
75009 AGAAGTAATCAG-AAA
1 AGAAGTAATAAGTAAA
*
75024 A-ATGGTAATCAAG----
1 AGA-AGTAAT-AAGTAAA
* **
75037 AGAAGTAATCAGTGGA
1 AGAAGTAATAAGTAAA
*
75053 AGAAGTAATCAGTAAA
1 AGAAGTAATAAGTAAA
*
75069 AGGAGTAA-AAGTAAA
1 AGAAGTAATAAGTAAA
*
75084 AGAAGTAATCAG---A
1 AGAAGTAATAAGTAAA
** *
75097 AGAA-TGGTAA-TCAAG
1 AGAAGTAATAAGT-AAA
* *
75112 AGAAGTAATCAGTAGA
1 AGAAGTAATAAGTAAA
* *
75128 GGAAGTAATCAGTAAA
1 AGAAGTAATAAGTAAA
*
75144 AGGAGTAA-AAGTAAA
1 AGAAGTAATAAGTAAA
*
75159 AGAAGTAATCAGTAAA
1 AGAAGTAATAAGTAAA
*
75175 AGCCAAAG-AGCAAAAGTAAA
1 AG---AAGTA--ATAAGTAAA
*
75195 AGAAGTAATTAG-AAA
1 AGAAGTAATAAGTAAA
*
75210 A-ATGGTAATCAA-T---
1 AGA-AGTAAT-AAGTAAA
* *
75223 AGAAGTAATCAGTAGA
1 AGAAGTAATAAGTAAA
*
75239 AGAAGTAATCAGTAAA
1 AGAAGTAATAAGTAAA
*
75255 AGGAGTAA-AAGTAAA
1 AGAAGTAATAAGTAAA
*
75270 AGAAGTAATTAGTAAA
1 AGAAGTAATAAGTAAA
*
75286 AGCCAAAG-AGCAAAAGTAAA
1 AG---AAGTA--ATAAGTAAA
*
75306 AGAAGTAATCAG-AAA
1 AGAAGTAATAAGTAAA
*
75321 A-ATGGTAATCAAG----
1 AGA-AGTAAT-AAGTAAA
* *
75334 AGAAGTAATCAGTAGA
1 AGAAGTAATAAGTAAA
* *
75350 AGAAGTGATTAGTAAA
1 AGAAGTAATAAGTAAA
* *
75366 AGGAGTAA-CAGTAAA
1 AGAAGTAATAAGTAAA
*
75381 AGAAGTAATCAGTAAA
1 AGAAGTAATAAGTAAA
75397 AG
1 AG
75399 TAAAGAAAAG
Statistics
Matches: 502, Mismatches: 92, Indels: 170
0.66 0.12 0.22
Matches are distributed among these distances:
12 12 0.02
13 36 0.07
14 16 0.03
15 138 0.27
16 215 0.43
17 16 0.03
18 8 0.02
19 12 0.02
20 44 0.09
21 5 0.01
ACGTcount: A:0.55, C:0.06, G:0.22, T:0.17
Consensus pattern (16 bp):
AGAAGTAATAAGTAAA
Found at i:74754 original size:111 final size:110
Alignment explanation
Indices: 74624--75095 Score: 809
Period size: 111 Copynumber: 4.3 Consensus size: 110
74614 AATTGATAGT
*
74624 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATTAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
*
74689 AAAATGGTAATCAAGAGAAGTAATTAGTAAAGGAAGTAATCAATAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTAAA-GAAGTAATCAATAA
*
74735 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAGAAGAAGTAATCAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
74800 AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAATAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTA-AAGAAGTAATCAATAA
* ** * *
74846 AAGGAGTAAAAGTAAAAGAAGTAATTAGTAAAAGTAAAAGAGTAAAAGTAAAAGAAGTAATTAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
*
74911 AAAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAGTAATCAATAA
66 AAAATGGTAATCAAGAGAAGTAATCAGTA-AAGAAGTAATCAATAA
74957 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
1 AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
* *
75022 AAAATGGTAATCAAGAGAAGTAATCAGTGGAAGAAGTAATCAGTAA
66 AAAATGGTAATCAAGAGAAGTAATCAGT-AAAGAAGTAATCAATAA
75068 AAGGAGTAAAAGTAAAAGAAGTAATCAG
1 AAGGAGTAAAAGTAAAAGAAGTAATCAG
75096 AAGAATGGTA
Statistics
Matches: 341, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
111 339 0.99
112 2 0.01
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.17
Consensus pattern (110 bp):
AAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGA
AAAATGGTAATCAAGAGAAGTAATCAGTAAAGAAGTAATCAATAA
Found at i:74824 original size:13 final size:14
Alignment explanation
Indices: 74784--74842 Score: 59
Period size: 13 Copynumber: 4.1 Consensus size: 14
74774 GAGCAAAAGT
74784 AGAAGAAGTAATC-
1 AGAAGAAGTAATCA
*
74797 AGAAAAATGGTAATCA
1 AGAAGAA--GTAATCA
74813 AG-AGAAGTAATCA
1 AGAAGAAGTAATCA
74826 GTAGAAGAAGTAATCA
1 --AGAAGAAGTAATCA
74842 A
1 A
74843 TAAAAGGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
13 13 0.34
14 1 0.03
15 11 0.29
16 13 0.34
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (14 bp):
AGAAGAAGTAATCA
Found at i:74868 original size:31 final size:32
Alignment explanation
Indices: 74825--74906 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 32
74815 AGAAGTAATC
*
74825 AGTAGAAGAAGTAATCAATAAAAG-GAGTAAA
1 AGTAAAAGAAGTAATCAATAAAAGAGAGTAAA
* *
74856 AGTAAAAGAAGTAATTAGTAAAAGTAAAAGAGTAAA
1 AGTAAAAGAAGTAATCAATAAAAG----AGAGTAAA
74892 AGTAAAAGAAGTAAT
1 AGTAAAAGAAGTAAT
74907 TAGAAAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 21 0.49
36 22 0.51
ACGTcount: A:0.60, C:0.01, G:0.21, T:0.18
Consensus pattern (32 bp):
AGTAAAAGAAGTAATCAATAAAAGAGAGTAAA
Found at i:74875 original size:22 final size:20
Alignment explanation
Indices: 74850--74899 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
74840 CAATAAAAGG
*
74850 AGTAAAAGTAAAAGAAGTAATT
1 AGTAAAAGTAAAAG-AGTAA-A
74872 AGTAAAAGTAAAAGAGTAAA
1 AGTAAAAGTAAAAGAGTAAA
74892 AGTAAAAG
1 AGTAAAAG
74900 AAGTAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
21 5 0.19
22 14 0.52
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.18
Consensus pattern (20 bp):
AGTAAAAGTAAAAGAGTAAA
Found at i:74891 original size:14 final size:15
Alignment explanation
Indices: 74872--74905 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
74862 AGAAGTAATT
74872 AGTAAAAGTAAAAG-
1 AGTAAAAGTAAAAGA
74886 AGTAAAAGTAAAAGA
1 AGTAAAAGTAAAAGA
74901 AGTAA
1 AGTAA
74906 TTAGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (15 bp):
AGTAAAAGTAAAAGA
Found at i:74970 original size:186 final size:182
Alignment explanation
Indices: 74825--75278 Score: 634
Period size: 186 Copynumber: 2.5 Consensus size: 182
74815 AGAAGTAATC
* **
74825 AGTAGAAGAAGTAATCA-ATAAAAGGAGTAA-AAGTAAAAG-A-AGT-AATTAGTAA-AAGTAAA
1 AGTAAAAGAAGTAATCAGA-AAAAGG-GTAACAAG-AAAAGAACAGTGAAGAAGTAATAAGTAAA
*
74884 A-GAGTAAAAGTAAAAGAAGTAATTAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAGT
63 AGGAGTAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAGT
74948 AATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAA
128 AATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAA
* * *
75003 AGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTGGAAGAAGTAATCAGTAA
1 AGTAAAAGAAGTAATCAGAAAAAGGGTAA-CAAGAAAAG-AA-CAGT-GAAGAAGTAATAAGTAA
*
75068 AAGGAGTAAAAGTAAAAGAAGTAATCAGAAGAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAG
62 AAGGAGTAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAG
*
75133 TAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAA
127 TAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAA
* * * * *
75189 AGTAAAAGAAGTAATTAGAAAAATGGTAATCAATAGAAGTAATCAGTAGAAGAAGTAATCAGTAA
1 AGTAAAAGAAGTAATCAGAAAAAGGGTAA-CAAGAAAAG-AA-CAGT-GAAGAAGTAATAAGTAA
75254 AAGGAGTAAAAGTAAAAGAAGTAAT
62 AAGGAGTAAAAGTAAAAGAAGTAAT
75279 TAGTAAAAGC
Statistics
Matches: 253, Mismatches: 12, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
177 4 0.02
178 25 0.10
179 4 0.02
180 1 0.00
182 3 0.01
184 7 0.03
185 7 0.03
186 202 0.80
ACGTcount: A:0.56, C:0.05, G:0.22, T:0.17
Consensus pattern (182 bp):
AGTAAAAGAAGTAATCAGAAAAAGGGTAACAAGAAAAGAACAGTGAAGAAGTAATAAGTAAAAGG
AGTAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAGTAAT
CAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAA
Found at i:74981 original size:31 final size:32
Alignment explanation
Indices: 74943--75019 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 32
74933 ATCAGTAGAG
*
74943 GAAGTAATCAATAAAAG-GAGTAAAAGTAAAA
1 GAAGTAATCAATAAAAGAGAGCAAAAGTAAAA
*
74974 GAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAA
1 GAAGTAATCAATAAAAG----AGAGCAAAAGTAAAA
75010 GAAGTAATCA
1 GAAGTAATCA
75020 GAAAAATGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 16 0.41
36 23 0.59
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.14
Consensus pattern (32 bp):
GAAGTAATCAATAAAAGAGAGCAAAAGTAAAA
Found at i:75093 original size:75 final size:75
Alignment explanation
Indices: 75000--75397 Score: 394
Period size: 75 Copynumber: 5.3 Consensus size: 75
74990 GCCAAAGAGC
* *
75000 AAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTGGAAGAAGTAATCAG
1 AAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATTAG
75065 TAAAAGGAGT
66 TAAAAGGAGT
* * *
75075 AAAAGTAAAAGAAGTAATCAGAAGAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAGTAATCAG
1 AAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATTAG
75140 TAAAAGGAGT
66 TAAAAGGAGT
* * * * *
75150 AAAAGTAAAAGAAGTAATCAGTAAAA--G---CCAA-AG-AGCAA-AAGTAAAAGAAGTAATTAG
1 AAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATTAG
* *
75207 AAAAATG-GT
66 TAAAAGGAGT
* * * * *
75216 --AA-TCAATAGAAGTAATCAGTAGAAGAA--GTAATCAGTAAAAGGAGTAA-AAGTAAAAGAAG
1 AAAAGT-AAAAGAAGTAATCAG-A-AA-AATGGTAATC---AAGAGAAGTAATCAGTAGAAGAAG
*
75275 TAATTAGTAAAAGCCAAAGAGC
59 TAATTAGTAAAAG-----GAGT
*
75297 AAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTGATTAG
1 AAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATTAG
75362 TAAAAGGAGT
66 TAAAAGGAGT
* *
75372 AACAGTAAAAGAAGTAATCAGTAAAA
1 AAAAGTAAAAGAAGTAATCAGAAAAA
75398 GTAAAGAAAA
Statistics
Matches: 270, Mismatches: 29, Indels: 48
0.78 0.08 0.14
Matches are distributed among these distances:
63 1 0.00
64 16 0.06
66 4 0.01
67 23 0.09
68 4 0.01
69 2 0.01
70 4 0.01
73 3 0.01
74 2 0.01
75 150 0.56
79 9 0.03
80 25 0.09
81 3 0.01
82 7 0.03
83 16 0.06
84 1 0.00
ACGTcount: A:0.55, C:0.06, G:0.22, T:0.17
Consensus pattern (75 bp):
AAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATTAG
TAAAAGGAGT
Found at i:75190 original size:111 final size:111
Alignment explanation
Indices: 75052--75398 Score: 578
Period size: 111 Copynumber: 3.2 Consensus size: 111
75042 TAATCAGTGG
* *
75052 AAGAAGTAATCAGTAAAAG-----GAGTAAAAGTAAAAGAAGTAATCAGAAGAATGGTAATCAAG
1 AAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAG
*
75112 AGAAGTAATCAGTAGAGGAAGTAATCAGTAAAAGGAGTAAAAGTAA
66 AGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAA
* *
75158 AAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATTAGAAAAATGGTAATCAAT
1 AAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAG
75223 AGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAA
66 AGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAA
*
75269 AAGAAGTAATTAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAG
1 AAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAG
* * *
75334 AGAAGTAATCAGTAGAAGAAGTGATTAGTAAAAGGAGTAACAGTAA
66 AGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAA
75380 AAGAAGTAATCAGTAAAAG
1 AAGAAGTAATCAGTAAAAG
75399 TAAAGAAAAG
Statistics
Matches: 224, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
106 19 0.08
111 205 0.92
ACGTcount: A:0.55, C:0.06, G:0.22, T:0.17
Consensus pattern (111 bp):
AAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAG
AGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAA
Found at i:75192 original size:222 final size:224
Alignment explanation
Indices: 74733--75398 Score: 693
Period size: 222 Copynumber: 3.0 Consensus size: 224
74723 AGTAATCAAT
* *
74733 AAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAGAAGAAGTAATCA
1 AAAAGGAGCAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCA
*
74798 GAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAA
66 GAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAAA
* * * * *
74863 GAAGTAATTAGTAAAA--GT-A--AA-AG-AGTAA-AAGTAAAAGAAGTAATTAGAAAAATG-GT
131 GAAGTAATCAG-AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATTAGTAAAAGGAGT
*
74919 --AA-TCAAGAGAAGTAATCAGTAGAGGAAGTAATCAA
195 AAAAGT-AAAAGAAGTAATCAGTA-A--AAG--A-C-A
*
74954 TAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATC
1 -AAAAGGAGCAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATC
*
75019 AGAAAAATGGTAATCAAGAGAAGTAATCAGTGGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAA
65 AGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAA
* *
75084 AGAAGTAATCAGAAGAATGGTAATCAAGAGAAGTAATCAGTAGAGGAAGTAATCAGTAAAAGGAG
130 AGAAGTAATCAGAA-AATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATTAGTAAAAGGAG
75149 TAAAAGTAAAAGAAGTAATCAGTAAAAG-C-
194 TAAAAGTAAAAGAAGTAATCAGTAAAAGACA
* * * * *
75178 CAAA-GAGCAAAAGTAAAAGAAGTAATTAG--AAA---AATG-G--TAA-TCAATAGAAGTAATC
1 AAAAGGAGCAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGT-AAAAGAAGTAATC
* * * * *
75233 AGTAGAAGAA--GTAATCAGTAAAAGGAGTAA-AAGTAAAAGAAGTAATTAGTAAAAGCCAAAGA
65 AG-A-AA-AATGGTAATC---AAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAG-----GA
* *
75295 GCAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTGATT
119 GTAAAAGTAAAAGAAGTAATCAG-AAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATT
*
75360 AGTAAAAGGAGTAACAGTAAAAGAAGTAATCAGTAAAAG
183 AGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAG
75399 TAAAGAAAAG
Statistics
Matches: 390, Mismatches: 28, Indels: 52
0.83 0.06 0.11
Matches are distributed among these distances:
213 1 0.00
214 16 0.04
215 7 0.02
216 3 0.01
217 26 0.07
218 9 0.02
220 3 0.01
221 2 0.01
222 260 0.67
223 5 0.01
224 2 0.01
225 1 0.00
226 1 0.00
227 2 0.01
228 2 0.01
229 5 0.01
230 23 0.06
231 2 0.01
232 1 0.00
233 18 0.05
234 1 0.00
ACGTcount: A:0.55, C:0.06, G:0.22, T:0.17
Consensus pattern (224 bp):
AAAAGGAGCAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAAGAAGTAATCA
GAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAAA
GAAGTAATCAGAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATTAGTAAAAGGAGTA
AAAGTAAAAGAAGTAATCAGTAAAAGACA
Found at i:75312 original size:297 final size:297
Alignment explanation
Indices: 74745--75397 Score: 1090
Period size: 297 Copynumber: 2.2 Consensus size: 297
74735 AAGGAGTAAA
* * *
74745 AGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAGAAGAAGTAATCAGAAAAATGGTAA
1 AGTAGAAGAAGTAATCAGTAAAAG-----GAGTAAAAGTAAAAGAAGTAATCAGAAAAATGGTAA
*
74810 TCAAGAGAAGTAATCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATTAGT
61 TCAAGAGAAGTAATCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGT
* *
74875 AAAAGTAAAAGAGTAAAAGTAAAAGAAGTAATTAGAAAAATGGTAATCAAGAGAAGTAATCAGTA
126 AAAAGCAAAAGAGCAAAAGTAAAAGAAGTAATTAGAAAAATGGTAATCAAGAGAAGTAATCAGTA
*
74940 GAGGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAG
191 GAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAG
75005 TAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATC
256 TAAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATC
* *
75047 AGTGGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGAAGAATGGTAATCAAG
1 AGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAG
* *
75112 AGAAGTAATCAGTAGAGGAAGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAG
66 AGAAGTAATCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAG
* *
75177 CCAAAGAGCAAAAGTAAAAGAAGTAATTAGAAAAATGGTAATCAATAGAAGTAATCAGTAGAAGA
131 CAAAAGAGCAAAAGTAAAAGAAGTAATTAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGA
* *
75242 AGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATTAGTAAAAGCCAAAGAGCAAAAGTAAAA
196 AGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAA
75307 GAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATC
261 GAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATC
* * * *
75344 AGTAGAAGAAGTGATTAGTAAAAGGAGTAACAGTAAAAGAAGTAATCAGTAAAA
1 AGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGAAAAA
75398 GTAAAGAAAA
Statistics
Matches: 330, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
297 308 0.93
302 22 0.07
ACGTcount: A:0.55, C:0.06, G:0.22, T:0.17
Consensus pattern (297 bp):
AGTAGAAGAAGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGAAAAATGGTAATCAAG
AGAAGTAATCAGTAGAAGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAG
CAAAAGAGCAAAAGTAAAAGAAGTAATTAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGA
AGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTAAAA
GAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATC
Found at i:75381 original size:186 final size:180
Alignment explanation
Indices: 74878--75397 Score: 561
Period size: 186 Copynumber: 2.8 Consensus size: 180
74868 AATTAGTAAA
* * *
74878 AGTAAAA-GAGTAAAAGTAAAAGAAGTAATTAGAA-AAATGGTAATCAAGAGAAGTAATCAGTAG
1 AGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGAAGAAA-GGAAATCAAAAGAAGTAATCAGTAG
* *
74941 AGGAAGTAATCAATAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGT
65 AGAAAGTAATC-A-AAAAGAAGTAAAAGTAAAAGAAGTAATCAGTAAAAG----AGAGCAAAAGT
*
75006 AAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTGGAAGAAGTAATC
124 AAAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATC
* * *
75063 AGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGAAGAATGGTAATCAAGAGAAGTAATCAGTAGA
1 AGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGAAGAAAGGAAATCAAAAGAAGTAATCAGTAGA
* *
75128 GGAAGTAATCAGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGTAAAAGCCAAAGAGCAAAAGTA
66 GAAAGTAATCA--AAAAGAAGTAAAAGTAAAAGAAGTAATCAGTAAAAG----AGAGCAAAAGTA
* *
75193 AAAGAAGTAATTAGAAAAATGGTAATCAATAGAAGTAATCAGTAGAAGAAGTAATC
125 AAAGAAGTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATC
*
75249 AGTAAAAGGAGTAAAAGTAAAAGAAGTAATTAGTAAAAGCCAAAGAGCAAAAGT-AAAAGAAGTA
1 AGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAG---AAG--AAAG-G--AAA-TCAAAAGAAGTA
* * * * * *
75313 ATCAG-A-A-AAATGGTAATC-AAGAGAAGTAATCAGTAGAAGAAGTGATTAGTAAAAG-GAGTA
57 ATCAGTAGAGAAA--GTAATCAAAAAGAAGTAA-AAGTAAAAGAAGTAATCAGTAAAAGAGAGCA
* *
75373 ACAGTAAAAGAAGTAATCAGTAAAA
119 AAAGTAAAAGAAGTAATCAGAAAAA
75398 GTAAAGAAAA
Statistics
Matches: 300, Mismatches: 20, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
185 8 0.03
186 226 0.75
187 2 0.01
189 3 0.01
190 9 0.03
191 26 0.09
192 2 0.01
193 7 0.02
194 16 0.05
195 1 0.00
ACGTcount: A:0.55, C:0.06, G:0.22, T:0.17
Consensus pattern (180 bp):
AGTAAAAGGAGTAAAAGTAAAAGAAGTAATCAGAAGAAAGGAAATCAAAAGAAGTAATCAGTAGA
GAAAGTAATCAAAAAGAAGTAAAAGTAAAAGAAGTAATCAGTAAAAGAGAGCAAAAGTAAAAGAA
GTAATCAGAAAAATGGTAATCAAGAGAAGTAATCAGTAGAAGAAGTAATC
Found at i:75536 original size:34 final size:34
Alignment explanation
Indices: 75495--75577 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
75485 AGTACTAATC
* *
75495 AGTAAAGAGTAATCAGCAAAGAAAAATGGTAAAGA
1 AGTAAAGAGTAATCAGCAAAGAAAAATAGCAAA-A
* **
75530 A-TAAAGAGTAATCAGTAAAGAGTAATAGCAAAA
1 AGTAAAGAGTAATCAGCAAAGAAAAATAGCAAAA
75563 AGTAAAGAGTAATCA
1 AGTAAAGAGTAATCA
75578 ATAAATAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 2 0.05
34 39 0.93
35 1 0.02
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (34 bp):
AGTAAAGAGTAATCAGCAAAGAAAAATAGCAAAA
Found at i:75553 original size:7 final size:7
Alignment explanation
Indices: 75523--75689 Score: 72
Period size: 7 Copynumber: 23.6 Consensus size: 7
75513 AAGAAAAATG
75523 GTAAAGA
1 GTAAAGA
*
75530 ATAAAGA
1 GTAAAGA
**
75537 GTAATCA
1 GTAAAGA
75544 GTAAAGA
1 GTAAAGA
*
75551 GT-AATA
1 GTAAAGA
* *
75557 GCAAAAA
1 GTAAAGA
75564 GTAAAGA
1 GTAAAGA
**
75571 GTAATCA
1 GTAAAGA
* *
75578 ATAAATA
1 GTAAAGA
75585 GTAAATTG-
1 GTAAA--GA
*
75593 GTTAAGA
1 GTAAAGA
75600 GTAAAGA
1 GTAAAGA
*
75607 GTAAAGT
1 GTAAAGA
**
75614 GTAATCA
1 GTAAAGA
75621 GTAAAGA
1 GTAAAGA
*
75628 GTTATATG-
1 G-TA-AAGA
75636 GTAAAGA
1 GTAAAGA
75643 GTAAAGA
1 GTAAAGA
**
75650 GTAATCA
1 GTAAAGA
* *
75657 ATAAAAA
1 GTAAAGA
75664 GTAAA-A
1 GTAAAGA
*
75670 TGGTAATGA
1 --GTAAAGA
75679 GTAAAGA
1 GTAAAGA
75686 GTAA
1 GTAA
75690 TCAATAAAAA
Statistics
Matches: 114, Mismatches: 36, Indels: 20
0.67 0.21 0.12
Matches are distributed among these distances:
6 8 0.07
7 92 0.81
8 11 0.10
9 3 0.03
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.23
Consensus pattern (7 bp):
GTAAAGA
Found at i:75610 original size:36 final size:36
Alignment explanation
Indices: 75495--75718 Score: 213
Period size: 36 Copynumber: 6.1 Consensus size: 36
75485 AGTACTAATC
** *
75495 AGTAAAGAGTAATC-A-GCAAAGAAAAATGGTAAAG
1 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAAAG
* * * * * *
75529 AATAAAGAGTAATCAGTAAAGAGT--AATAGCAAAA
1 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAAAG
* * *
75563 AGTAAAGAGTAATCAATAAATAGTAAATTGGTTAAG
1 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAAAG
* * *
75599 AGTAAAGAGTAAAGTGTAATCAGTAAAGAGTTATATGGTAAAG
1 AGTAAAGAGT-AA-T-CAAT-A--AAA-AGTAAAATGGTAAAG
*
75642 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAATG
1 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAAAG
75678 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAAAG
1 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAAAG
75714 AGTAA
1 AGTAA
75719 GAAAAATGGT
Statistics
Matches: 151, Mismatches: 28, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
34 41 0.27
36 70 0.46
37 5 0.03
38 1 0.01
39 4 0.03
40 4 0.03
41 1 0.01
42 4 0.03
43 21 0.14
ACGTcount: A:0.54, C:0.04, G:0.21, T:0.21
Consensus pattern (36 bp):
AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAAAG
Found at i:75611 original size:43 final size:41
Alignment explanation
Indices: 75563--75689 Score: 129
Period size: 43 Copynumber: 3.1 Consensus size: 41
75553 AATAGCAAAA
75563 AGTAAAGAGTAATCAATAAATAGTAAATTGGTTAAGAGTAAAG
1 AGTAAAGAGTAATCAATAAA-AGTAAATTGG-TAAGAGTAAAG
* * * * *
75606 AGTAAAGTGTAATCAGT-AAAG--AGTT-ATATG-GTAAAG
1 AGTAAAGAGTAATCAATAAAAGTAAATTGGTAAGAGTAAAG
*
75642 AGTAAAGAGTAATCAATAAAAAGTAAAATGGTAATGAGTAAAG
1 AGTAAAGAGTAATCAAT-AAAAGTAAATTGGTAA-GAGTAAAG
75685 AGTAA
1 AGTAA
75690 TCAATAAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
36 21 0.32
37 3 0.05
38 4 0.06
39 3 0.05
40 2 0.03
41 4 0.06
42 3 0.05
43 26 0.39
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.24
Consensus pattern (41 bp):
AGTAAAGAGTAATCAATAAAAGTAAATTGGTAAGAGTAAAG
Found at i:75743 original size:19 final size:19
Alignment explanation
Indices: 75702--75742 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
75692 AATAAAAAGT
*
75702 AAAATGGTAAAGAGTAAGA
1 AAAATGGTAAACAGTAAGA
*
75721 AAAATGGTAATCAGT-AGA
1 AAAATGGTAAACAGTAAGA
75739 AAAA
1 AAAA
75743 AAAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.59, C:0.02, G:0.22, T:0.17
Consensus pattern (19 bp):
AAAATGGTAAACAGTAAGA
Found at i:76916 original size:62 final size:62
Alignment explanation
Indices: 76769--76922 Score: 168
Period size: 62 Copynumber: 2.5 Consensus size: 62
76759 TGACTGGACT
* * * ** **
76769 GACCCTTTATCCAAAAGGGTATTCTGGGAAATTGAAACTATATGCGAGGATGTGGCAAAATC
1 GACCCTTTGTCCAAAAGGGTATTTTGGGAAATAGAAACTATACACGAGGATGTAACAAAATC
** *
76831 GACCCTTTGTCCAAAAGATTATTTTGGGAAATAGAAACTATACACTAGGATGTAACAAAA-C
1 GACCCTTTGTCCAAAAGGGTATTTTGGGAAATAGAAACTATACACGAGGATGTAACAAAATC
* *
76892 TGGCCCTTTG-CCTGAAAGGGTATTTTGGGAA
1 -GACCCTTTGTCC-AAAAGGGTATTTTGGGAA
76923 TACTAAACTT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
61 3 0.04
62 73 0.96
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (62 bp):
GACCCTTTGTCCAAAAGGGTATTTTGGGAAATAGAAACTATACACGAGGATGTAACAAAATC
Found at i:77129 original size:49 final size:49
Alignment explanation
Indices: 77072--77201 Score: 165
Period size: 49 Copynumber: 2.7 Consensus size: 49
77062 CTTTGTCTGA
* *
77072 AAGGGCGTTTTGGGAAAAAGCAGGTAAAAACAAG-TGTCTTCCATCTGGG
1 AAGGGCGTTTTGGGAAAAAGCAAGTAAAAA-AAGTTGCCTTCCATCTGGG
** *
77121 AAGGGCGTTTTAGGG-AAAAGCAAGTAAAAATTGTTGCCTTCCGTCTGGG
1 AAGGGCGTTTT-GGGAAAAAGCAAGTAAAAAAAGTTGCCTTCCATCTGGG
* *
77170 AAGGGCATTTTGGGAAATAGCAAGTAAAAAAA
1 AAGGGCGTTTTGGGAAAAAGCAAGTAAAAAAA
77202 AACTGAAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.06
49 62 0.90
50 3 0.04
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.23
Consensus pattern (49 bp):
AAGGGCGTTTTGGGAAAAAGCAAGTAAAAAAAGTTGCCTTCCATCTGGG
Found at i:78411 original size:12 final size:10
Alignment explanation
Indices: 78380--78405 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
78370 GGCGGCTCCG
78380 CTAAAACCTT
1 CTAAAACCTT
78390 CTAAAACCTT
1 CTAAAACCTT
78400 CTAAAA
1 CTAAAA
78406 AACCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (10 bp):
CTAAAACCTT
Found at i:82493 original size:38 final size:38
Alignment explanation
Indices: 82435--82595 Score: 203
Period size: 38 Copynumber: 4.4 Consensus size: 38
82425 AATAAGTAAT
* *
82435 TAAAAAGAGT--AAAAAATGGTATTTAGTAATT-AAGA
1 TAAAAAGAGTAGAAAAAATGGTAGTCAGTAATTAAAGA
*
82470 TAAAAAGAGTAGAAAAAAATGGTAGTCAGTAATTAAAGT
1 TAAAAAGAGTAG-AAAAAATGGTAGTCAGTAATTAAAGA
* *
82509 TAAAAAGAGTAGAAAAAATGGTATTTAGTAATT-AA-A
1 TAAAAAGAGTAGAAAAAATGGTAGTCAGTAATTAAAGA
*
82545 -AAAAAG-GTAGAAAAAATGGTAGTCAGTAATTAAAGT
1 TAAAAAGAGTAGAAAAAATGGTAGTCAGTAATTAAAGA
82581 TAAAAAGAGTA-AAAA
1 TAAAAAGAGTAGAAAA
82596 TAGTATCTAG
Statistics
Matches: 109, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
34 23 0.21
35 18 0.17
37 12 0.11
38 41 0.38
39 15 0.14
ACGTcount: A:0.56, C:0.01, G:0.19, T:0.24
Consensus pattern (38 bp):
TAAAAAGAGTAGAAAAAATGGTAGTCAGTAATTAAAGA
Found at i:82572 original size:72 final size:75
Alignment explanation
Indices: 82434--82595 Score: 280
Period size: 72 Copynumber: 2.2 Consensus size: 75
82424 TAATAAGTAA
82434 TTAAAAAGAGT-AAAAAATGGTATTTAGTAATTAAGATAAAAAGAGTAGAAAAAAATGGTAGTCA
1 TTAAAAAGAGTAAAAAAATGGTATTTAGTAATTAAGATAAAAAGAGTAGAAAAAAATGGTAGTCA
82498 GTAATTAAAG
66 GTAATTAAAG
82508 TTAAAAAGAGTAGAAAAAATGGTATTTAGTAATTAA-A-AAAAAG-GTAG-AAAAAATGGTAGTC
1 TTAAAAAGAGTA-AAAAAATGGTATTTAGTAATTAAGATAAAAAGAGTAGAAAAAAATGGTAGTC
82569 AGTAATTAAAG
65 AGTAATTAAAG
82580 TTAAAAAGAGTAAAAA
1 TTAAAAAGAGTAAAAA
82596 TAGTATCTAG
Statistics
Matches: 86, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
71 4 0.05
72 37 0.43
73 4 0.05
74 17 0.20
75 1 0.01
76 23 0.27
ACGTcount: A:0.56, C:0.01, G:0.19, T:0.25
Consensus pattern (75 bp):
TTAAAAAGAGTAAAAAAATGGTATTTAGTAATTAAGATAAAAAGAGTAGAAAAAAATGGTAGTCA
GTAATTAAAG
Found at i:82688 original size:21 final size:21
Alignment explanation
Indices: 82664--82723 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
82654 ATCAGTAAGA
82664 AGTAATCAGTAAGAGTAAAAT
1 AGTAATCAGTAAGAGTAAAAT
*
82685 AGTAATCAGAAAGAGT-AAAT
1 AGTAATCAGTAAGAGTAAAAT
82705 AGTAATCAGTAAGAAGTAA
1 AGTAATCAGTAAG-AGTAA
82724 TCAGTAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 16 0.46
21 18 0.51
22 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.20, T:0.22
Consensus pattern (21 bp):
AGTAATCAGTAAGAGTAAAAT
Found at i:82710 original size:77 final size:77
Alignment explanation
Indices: 82621--82766 Score: 181
Period size: 77 Copynumber: 1.9 Consensus size: 77
82611 AAGGTCAAAC
* *
82621 AGTAAAAGGTAATCAGTAAAAAGCAAAAAGGTAATCA-GTAAGAA-GTAATCAGTAAGAGTAAAA
1 AGTAAAAGGTAATCAGTAAAAAGCAAAAA-GTAA-AAGGTAAAAAGGTAATCAGTAAGAGTAAAA
82684 TAGTAATCAGAAAG
64 TAGTAATCAGAAAG
* * ** *
82698 AGTAAATA-GTAATCAGTAAGAAGTAATCAGTAAAAGGTAAAAAGGTAATCAGTAAGAGTGAAAT
1 AGTAAA-AGGTAATCAGTAAAAAGCAAAAAGTAAAAGGTAAAAAGGTAATCAGTAAGAGTAAAAT
82762 AGTAA
65 AGTAA
82767 GAGTAAAAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
75 1 0.02
76 10 0.17
77 47 0.80
78 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.20
Consensus pattern (77 bp):
AGTAAAAGGTAATCAGTAAAAAGCAAAAAGTAAAAGGTAAAAAGGTAATCAGTAAGAGTAAAATA
GTAATCAGAAAG
Found at i:82729 original size:21 final size:20
Alignment explanation
Indices: 82664--82826 Score: 127
Period size: 20 Copynumber: 8.6 Consensus size: 20
82654 ATCAGTAAGA
82664 AGTAATCAGTAAGAGTAAAAT
1 AGTAATCAGTAAGAGT-AAAT
*
82685 AGTAATCAGAAAGAGTAAAT
1 AGTAATCAGTAAGAGTAAAT
82705 AGTAATCAGT-A-AG---A-
1 AGTAATCAGTAAGAGTAAAT
* *
82719 AGTAATCAGTAAAAGGTAAAA
1 AGTAATCAGTAAGA-GTAAAT
82740 AGGTAATCAGTAAGAG----T
1 A-GTAATCAGTAAGAGTAAAT
*
82757 -GAAAT-AGTAAGAGTAAA-
1 AGTAATCAGTAAGAGTAAAT
*
82774 AGATAATCAGTAAGAGCAAAT
1 AG-TAATCAGTAAGAGTAAAT
**
82795 AGTAATCAGTAAGAGTAACG
1 AGTAATCAGTAAGAGTAAAT
*
82815 AGTAGTCAGTAA
1 AGTAATCAGTAA
82827 AGACAAAAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 33
0.72 0.07 0.21
Matches are distributed among these distances:
14 18 0.16
15 6 0.05
16 1 0.01
17 1 0.01
18 3 0.03
19 4 0.03
20 51 0.44
21 19 0.17
22 12 0.10
ACGTcount: A:0.51, C:0.06, G:0.22, T:0.21
Consensus pattern (20 bp):
AGTAATCAGTAAGAGTAAAT
Found at i:82729 original size:91 final size:89
Alignment explanation
Indices: 82620--82812 Score: 275
Period size: 91 Copynumber: 2.1 Consensus size: 89
82610 TAAGGTCAAA
82620 CAGTAA-AAGGTAATCAGTAAAAAGCAAAAAGGTAATCAGTAAGAAGT-AATCAGTAAGAGTAAA
1 CAGTAAGAA-GTAATCAGTAAAAAGCAAAAAGGTAATCAGTAAG-AGTAAAT-AGTAAGAGTAAA
* *
82683 ATAGTAATCAGAAAGAGTAAATAGTAAT
63 AGA-TAATCAGAAAGAGCAAATAGTAAT
* *
82711 CAGTAAGAAGTAATCAGTAAAAGGTAAAAAGGTAATCAGTAAGAGTGAAATAGTAAGAGTAAAAG
1 CAGTAAGAAGTAATCAGTAAAAAGCAAAAAGGTAATCAGTAAGAGT-AAATAGTAAGAGTAAAAG
*
82776 ATAATCAGTAAGAGCAAATAGTAAT
65 ATAATCAGAAAGAGCAAATAGTAAT
82801 CAGTAAG-AGTAA
1 CAGTAAGAAGTAA
82813 CGAGTAGTCA
Statistics
Matches: 94, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
89 5 0.05
90 32 0.34
91 52 0.55
92 5 0.05
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.20
Consensus pattern (89 bp):
CAGTAAGAAGTAATCAGTAAAAAGCAAAAAGGTAATCAGTAAGAGTAAATAGTAAGAGTAAAAGA
TAATCAGAAAGAGCAAATAGTAAT
Found at i:82737 original size:14 final size:14
Alignment explanation
Indices: 82651--82730 Score: 69
Period size: 14 Copynumber: 5.8 Consensus size: 14
82641 AAGCAAAAAG
82651 GTAATCAGTAAGAA
1 GTAATCAGTAAGAA
82665 GTAATCAGTAAG-A
1 GTAATCAGTAAGAA
**
82678 GTAAAAT-AGTAATCA
1 GT--AATCAGTAAGAA
**
82693 G-AAAGAGTAA-ATA
1 GTAATCAGTAAGA-A
82706 GTAATCAGTAAGAA
1 GTAATCAGTAAGAA
82720 GTAATCAGTAA
1 GTAATCAGTAA
82731 AAGGTAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
12 2 0.04
13 10 0.19
14 36 0.67
15 6 0.11
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.23
Consensus pattern (14 bp):
GTAATCAGTAAGAA
Found at i:85046 original size:16 final size:16
Alignment explanation
Indices: 85010--85042 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
85000 AAACAAGTGC
85010 TATCAATTATTTAATT
1 TATCAATTATTTAATT
*
85026 TATCAATT-TTTTATT
1 TATCAATTATTTAATT
85041 TA
1 TA
85043 ATCACAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TATCAATTATTTAATT
Found at i:85609 original size:20 final size:21
Alignment explanation
Indices: 85556--85615 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
85546 TTTGAACTAT
85556 CTTTGCAGAGCATTATTGAAG
1 CTTTGCAGAGCATTATTGAAG
***
85577 C-TTGTC-TTCCATTATTGAA-
1 CTTTG-CAGAGCATTATTGAAG
85596 CTTTGCAGAGCATTATTGAA
1 CTTTGCAGAGCATTATTGAA
85616 AGATTCCCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (21 bp):
CTTTGCAGAGCATTATTGAAG
Found at i:85610 original size:40 final size:41
Alignment explanation
Indices: 85556--85665 Score: 123
Period size: 50 Copynumber: 2.5 Consensus size: 41
85546 TTTGAACTAT
85556 CTTTGCAGAGCATTATTGAAG-CTTGTCTTCCATTATTGAA
1 CTTTGCAGAGCATTATTGAAGCCTTGTCTTCCATTATTGAA
85596 CTTTGCAGAGCATTATTGAAAGATTCCCTCCCTTGTCTTCCATTATTGAA
1 CTTTGCAGAGCATTATTG-AAG--------CCTTGTCTTCCATTATTGAA
*
85646 TTTTGCAGAGCATTATTGAA
1 CTTTGCAGAGCATTATTGAA
85666 AGATTCCCTT
Statistics
Matches: 59, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
40 18 0.31
41 3 0.05
49 2 0.03
50 36 0.61
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (41 bp):
CTTTGCAGAGCATTATTGAAGCCTTGTCTTCCATTATTGAA
Found at i:85652 original size:50 final size:50
Alignment explanation
Indices: 85577--85674 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
85567 ATTATTGAAG
85577 CTTGTCTTCCATTATTGAACTTTGCAGAGCATTATTGAAAGATTCCCTCC
1 CTTGTCTTCCATTATTGAACTTTGCAGAGCATTATTGAAAGATTCCCTCC
*
85627 CTTGTCTTCCATTATTGAATTTTGCAGAGCATTATTGAAAGATTCCCT
1 CTTGTCTTCCATTATTGAACTTTGCAGAGCATTATTGAAAGATTCCCT
85675 TCAACTTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (50 bp):
CTTGTCTTCCATTATTGAACTTTGCAGAGCATTATTGAAAGATTCCCTCC
Found at i:91650 original size:12 final size:12
Alignment explanation
Indices: 91630--91663 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
91620 AAGATGTGGA
91630 CTATGTGGATGC
1 CTATGTGGATGC
* *
91642 TTGTGTGGATGC
1 CTATGTGGATGC
91654 CTATGTGGAT
1 CTATGTGGAT
91664 AGGCTATTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (12 bp):
CTATGTGGATGC
Found at i:91955 original size:2 final size:2
Alignment explanation
Indices: 91907--91936 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
91897 AATTAGAAGC
91907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91937 CACACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93734 original size:2 final size:2
Alignment explanation
Indices: 93727--93760 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
93717 TGATCCTCTA
*
93727 AT AT AT AT AT AT AT AT AT GT AT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93761 ATTTTTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:93994 original size:55 final size:55
Alignment explanation
Indices: 93910--94015 Score: 212
Period size: 55 Copynumber: 1.9 Consensus size: 55
93900 ATTGCACGGG
93910 ACACAAACTAGTTTGATCTAAAATCTAAGACTGAATGAACTAAACAGTGTTCTGT
1 ACACAAACTAGTTTGATCTAAAATCTAAGACTGAATGAACTAAACAGTGTTCTGT
93965 ACACAAACTAGTTTGATCTAAAATCTAAGACTGAATGAACTAAACAGTGTT
1 ACACAAACTAGTTTGATCTAAAATCTAAGACTGAATGAACTAAACAGTGTT
94016 GTGGTTGGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (55 bp):
ACACAAACTAGTTTGATCTAAAATCTAAGACTGAATGAACTAAACAGTGTTCTGT
Found at i:94781 original size:53 final size:53
Alignment explanation
Indices: 94722--94829 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
94712 GGCTCGTTTA
94722 TTTTCCAAATAAACGAACATAAACGAGCTTTAACCGAGATTGTTCACGAGCCG
1 TTTTCCAAATAAACGAACATAAACGAGCTTTAACCGAGATTGTTCACGAGCCG
94775 TTTTCCAAATAAACGAACATAAACGAGCTTTAACCGAGATTGTTCACGAGCCG
1 TTTTCCAAATAAACGAACATAAACGAGCTTTAACCGAGATTGTTCACGAGCCG
94828 TT
1 TT
94830 CATCGAACAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (53 bp):
TTTTCCAAATAAACGAACATAAACGAGCTTTAACCGAGATTGTTCACGAGCCG
Found at i:94961 original size:12 final size:12
Alignment explanation
Indices: 94944--94974 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
94934 GAATGAAGTA
94944 AGCTTCAACTTC
1 AGCTTCAACTTC
94956 AGCTTCAACTTC
1 AGCTTCAACTTC
*
94968 AACTTCA
1 AGCTTCA
94975 CGAGATCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (12 bp):
AGCTTCAACTTC
Done.