Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 12 of 39
Found at i:1575079 original size:19 final size:19
Alignment explanation
Indices: 1575055--1575147 Score: 150
Period size: 19 Copynumber: 4.9 Consensus size: 19
1575045 TGTATTGATA
*
1575055 CATTGTGTCGATACATGTT
1 CATTGTGTCGATACATGTG
1575074 CATTGTGTCGATACATGTG
1 CATTGTGTCGATACATGTG
* *
1575093 CATTGTATCGATACATGTT
1 CATTGTGTCGATACATGTG
1575112 CATTGTGTCGATACATGTG
1 CATTGTGTCGATACATGTG
*
1575131 CATTGTATCGATACATG
1 CATTGTGTCGATACATG
1575148 AACAAATGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.39
Consensus pattern (19 bp):
CATTGTGTCGATACATGTG
Found at i:1575106 original size:38 final size:38
Alignment explanation
Indices: 1575055--1575147 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
1575045 TGTATTGATA
*
1575055 CATTGTGTCGATACATGTTCATTGTGTCGATACATGTG
1 CATTGTATCGATACATGTTCATTGTGTCGATACATGTG
1575093 CATTGTATCGATACATGTTCATTGTGTCGATACATGTG
1 CATTGTATCGATACATGTTCATTGTGTCGATACATGTG
1575131 CATTGTATCGATACATG
1 CATTGTATCGATACATG
1575148 AACAAATGTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.39
Consensus pattern (38 bp):
CATTGTATCGATACATGTTCATTGTGTCGATACATGTG
Found at i:1575120 original size:57 final size:58
Alignment explanation
Indices: 1575055--1575167 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 58
1575045 TGTATTGATA
* * ** *
1575055 CATTGTGTCGATACATGTTCATTGTGTCGATACATGTGC-ATTGTATCGATACATGTT
1 CATTGTGTCGATACATGTGCATTGTATCGATACATGAACAAATGTATCGATACATGTT
1575112 CATTGTGTCGATACATGTGCATTGTATCGATACATGAACAAATGTATCGATACATG
1 CATTGTGTCGATACATGTGCATTGTATCGATACATGAACAAATGTATCGATACATG
1575168 AAATTGGCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 35 0.70
58 15 0.30
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (58 bp):
CATTGTGTCGATACATGTGCATTGTATCGATACATGAACAAATGTATCGATACATGTT
Found at i:1575234 original size:33 final size:32
Alignment explanation
Indices: 1575197--1575259 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1575187 TACCACTATT
1575197 TGTATCGATATATG-GCATATTGTATCGATACAA
1 TGTATCGATATATGAG-A-ATTGTATCGATACAA
*
1575230 TGTATCGTTATATGAAGAATTGTATCGATA
1 TGTATCGATATATG-AGAATTGTATCGATA
1575260 TATTATCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (32 bp):
TGTATCGATATATGAGAATTGTATCGATACAA
Found at i:1581445 original size:20 final size:18
Alignment explanation
Indices: 1581420--1581506 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 18
1581410 AAAACCTAGA
1581420 TGTATCGATACAATGCTCTT
1 TGTATCGATACAAT--TCTT
1581440 TGTATCGATAC-A----T
1 TGTATCGATACAATTCTT
*
1581453 TGTATCGGTACAATGTTCTT
1 TGTATCGATACAA--TTCTT
*
1581473 TGTATCGATACAATATACAT
1 TGTATCGATACAAT-T-CTT
1581493 TGTATCGATACAAT
1 TGTATCGATACAAT
1581507 ATACAATGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
18 1 0.02
19 2 0.04
20 40 0.73
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTCTT
Found at i:1581465 original size:33 final size:33
Alignment explanation
Indices: 1581420--1581484 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1581410 AAAACCTAGA
1581420 TGTATCGATACAATGCTCTTTGTATCGATACAT
1 TGTATCGATACAATGCTCTTTGTATCGATACAT
* *
1581453 TGTATCGGTACAATGTTCTTTGTATCGATACA
1 TGTATCGATACAATGCTCTTTGTATCGATACA
1581485 ATATACATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAATGCTCTTTGTATCGATACAT
Found at i:1581507 original size:20 final size:20
Alignment explanation
Indices: 1581447--1581511 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
1581437 CTTTGTATCG
*
1581447 ATACATTGTATCGGTACAAT
1 ATACATTGTATCGATACAAT
* * *
1581467 GTTCTTTGTATCGATACAAT
1 ATACATTGTATCGATACAAT
1581487 ATACATTGTATCGATACAAT
1 ATACATTGTATCGATACAAT
1581507 ATACA
1 ATACA
1581512 ATGTTCTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (20 bp):
ATACATTGTATCGATACAAT
Found at i:1581510 original size:27 final size:27
Alignment explanation
Indices: 1581480--1581533 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1581470 CTTTGTATCG
1581480 ATACAATATACATTGTATCGATACAAT
1 ATACAATATACATTGTATCGATACAAT
* * *
1581507 ATACAATGTTCTTTGTATCGATACAAT
1 ATACAATATACATTGTATCGATACAAT
1581534 GTTCTTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (27 bp):
ATACAATATACATTGTATCGATACAAT
Found at i:1581530 original size:20 final size:20
Alignment explanation
Indices: 1581507--1581551 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1581497 TCGATACAAT
*
1581507 ATACAATGTTCTTTGTATCG
1 ATACAATGTTCTTTGTATCC
1581527 ATACAATGTTCTTTGTATCC
1 ATACAATGTTCTTTGTATCC
1581547 ATACA
1 ATACA
1581552 TTATATCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (20 bp):
ATACAATGTTCTTTGTATCC
Found at i:1581530 original size:47 final size:47
Alignment explanation
Indices: 1581461--1581556 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
1581451 ATTGTATCGG
*
1581461 TACAATGTTCTTTGTATCGATACAATATACATTGTATCGATACAATA
1 TACAATGTTCTTTGTATCGATACAATATACATTGTATCCATACAATA
* * * *
1581508 TACAATGTTCTTTGTATCGATACAATGTTCTTTGTATCCATACATTA
1 TACAATGTTCTTTGTATCGATACAATATACATTGTATCCATACAATA
1581555 TA
1 TA
1581557 TCGATACAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (47 bp):
TACAATGTTCTTTGTATCGATACAATATACATTGTATCCATACAATA
Found at i:1581733 original size:31 final size:32
Alignment explanation
Indices: 1581689--1581749 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
1581679 TCAAATTTCT
* *
1581689 TCAAATCATTTTCAAATTTCATCAATTTCACA
1 TCAAAACATTTTCAAATTTCATCAAATTCACA
**
1581721 TCAAAACA-TTTCATTTTTCATCAAATTCA
1 TCAAAACATTTTCAAATTTCATCAAATTCA
1581750 TCTACAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (32 bp):
TCAAAACATTTTCAAATTTCATCAAATTCACA
Found at i:1583112 original size:33 final size:33
Alignment explanation
Indices: 1583061--1583129 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1583051 AGTTGATCAC
* *
1583061 TTCATTTTTGCAGCGCATGGATGAGCACTTTAG
1 TTCACTTTCGCAGCGCATGGATGAGCACTTTAG
*
1583094 TTCACTTTCGCAGCGCATGGATTAGCACTTTAG
1 TTCACTTTCGCAGCGCATGGATGAGCACTTTAG
1583127 TTC
1 TTC
1583130 TCTTAACCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (33 bp):
TTCACTTTCGCAGCGCATGGATGAGCACTTTAG
Found at i:1583924 original size:21 final size:22
Alignment explanation
Indices: 1583900--1583949 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
1583890 TTTCAGTAAG
*
1583900 TGTTTTTGAG-TTATGAA-CAAA
1 TGTTTTTGAGCTT-TAAATCAAA
*
1583921 TGTTTTCGAGCTTTAAATCAAA
1 TGTTTTTGAGCTTTAAATCAAA
1583943 TGTTTTT
1 TGTTTTT
1583950 AAGTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (22 bp):
TGTTTTTGAGCTTTAAATCAAA
Found at i:1584201 original size:20 final size:20
Alignment explanation
Indices: 1584176--1584226 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
1584166 CCACTATTTA
*
1584176 TATCGATACATGGAA-CATTG
1 TATCGATACAT-GAAGAATTG
1584196 TATCGATACATGAAGAATTG
1 TATCGATACATGAAGAATTG
1584216 TATCGATACAT
1 TATCGATACAT
1584227 TGTCCCAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGATACATGAAGAATTG
Found at i:1586609 original size:31 final size:31
Alignment explanation
Indices: 1586558--1586646 Score: 135
Period size: 31 Copynumber: 2.9 Consensus size: 31
1586548 CCTTACAATA
* *
1586558 CTATCTTTTGA-AGGCTAAGATAAAACCTCC
1 CTATCTTTTCACAAGCTAAGATAAAACCTCC
1586588 CTATCTTTTCACAAGCTAAGATAAAACCTCC
1 CTATCTTTTCACAAGCTAAGATAAAACCTCC
* *
1586619 TTATCTTTTCACAAGCTAAGATAGAACC
1 CTATCTTTTCACAAGCTAAGATAAAACC
1586647 ACTTCCTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
30 10 0.19
31 44 0.81
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (31 bp):
CTATCTTTTCACAAGCTAAGATAAAACCTCC
Found at i:1586679 original size:35 final size:31
Alignment explanation
Indices: 1586571--1586676 Score: 142
Period size: 31 Copynumber: 3.3 Consensus size: 31
1586561 TCTTTTGAAG
*
1586571 GCTAAGATAAAACCTCCCTATCTTTTCACAA
1 GCTAAGATAAAACCTCCTTATCTTTTCACAA
1586602 GCTAAGATAAAACCTCCTTATCTTTTCACAA
1 GCTAAGATAAAACCTCCTTATCTTTTCACAA
*
1586633 GCTAAGATAGAACCACTTCCTTATCTTTTTCA-AA
1 GCTAAGATA-AA--ACCTCCTTATC-TTTTCACAA
1586667 GGCTAAGATA
1 -GCTAAGATA
1586677 GAATCTCTCA
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
31 39 0.57
32 2 0.03
34 12 0.18
35 15 0.22
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (31 bp):
GCTAAGATAAAACCTCCTTATCTTTTCACAA
Found at i:1587883 original size:34 final size:34
Alignment explanation
Indices: 1587821--1588034 Score: 147
Period size: 34 Copynumber: 6.2 Consensus size: 34
1587811 TATATTTATG
*
1587821 TTATTTT-TTATGTCATATTATGCTTTAA-TTATTTT
1 TTATTTTATTAT-T-ATATTATAC-TTAATTTATTTT
* * *
1587856 TTGTGTTATTTTTATATTATATCTTAATTTATTTT
1 TTATTTTATTATTATATTATA-CTTAATTTATTTT
* * *
1587891 ATATTTTATATAATT-TATTATA-ATAATTTAATTT
1 TTATTTTAT-T-ATTATATTATACTTAATTTATTTT
* *
1587925 TAATTTTA-TATCATATTATACTTTAA-TTATTTT
1 TTATTTTATTATTATATTATAC-TTAATTTATTTT
* *
1587958 TTATATTATTTTTATATTATATCTTAATTTATTTT
1 TTATTTTATTATTATATTATA-CTTAATTTATTTT
* * *
1587993 ATATTTTATATAATT-TATTATA-ATAATTTAATTT
1 TTATTTTAT-T-ATTATATTATACTTAATTTATTTT
*
1588027 TAATTTTA
1 TTATTTTA
1588035 AATTTATTTA
Statistics
Matches: 140, Mismatches: 26, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
31 2 0.01
32 8 0.06
33 12 0.09
34 60 0.43
35 35 0.25
36 19 0.14
37 4 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (34 bp):
TTATTTTATTATTATATTATACTTAATTTATTTT
Found at i:1587933 original size:102 final size:102
Alignment explanation
Indices: 1587826--1588034 Score: 382
Period size: 102 Copynumber: 2.0 Consensus size: 102
1587816 TTATGTTATT
* * * *
1587826 TTTTATGTCATATTATGCTTTAATTATTTTTTGTGTTATTTTTATATTATATCTTAATTTATTTT
1 TTTTATATCATATTATACTTTAATTATTTTTTATATTATTTTTATATTATATCTTAATTTATTTT
1587891 ATATTTTATATAATTTATTATAATAATTTAATTTTAA
66 ATATTTTATATAATTTATTATAATAATTTAATTTTAA
1587928 TTTTATATCATATTATACTTTAATTATTTTTTATATTATTTTTATATTATATCTTAATTTATTTT
1 TTTTATATCATATTATACTTTAATTATTTTTTATATTATTTTTATATTATATCTTAATTTATTTT
1587993 ATATTTTATATAATTTATTATAATAATTTAATTTTAA
66 ATATTTTATATAATTTATTATAATAATTTAATTTTAA
1588030 TTTTA
1 TTTTA
1588035 AATTTATTTA
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (102 bp):
TTTTATATCATATTATACTTTAATTATTTTTTATATTATTTTTATATTATATCTTAATTTATTTT
ATATTTTATATAATTTATTATAATAATTTAATTTTAA
Found at i:1587960 original size:11 final size:12
Alignment explanation
Indices: 1587946--1587977 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1587936 CATATTATAC
1587946 TTTA-ATTATTT
1 TTTATATTATTT
1587957 TTTATATTA-TT
1 TTTATATTATTT
1587968 TTTATATTAT
1 TTTATATTAT
1587978 ATCTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:1588041 original size:40 final size:40
Alignment explanation
Indices: 1587957--1588041 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
1587947 TTAATTATTT
* * *
1587957 TTTATATTATTTTTATATTATATCTTAATTTATTTTATAT
1 TTTATATAATTTTTATAATATATCTTAATTTATTTTATAA
1587997 TTTATATAATTTATTATAATA-AT-TTAATTTTAATTTTA-AA
1 TTTATATAATTT-TTATAATATATCTTAA-TTT-ATTTTATAA
1588037 TTTAT
1 TTTAT
1588042 TTATTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
39 4 0.10
40 22 0.56
41 13 0.33
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTATATAATTTTTATAATATATCTTAATTTATTTTATAA
Found at i:1588049 original size:21 final size:22
Alignment explanation
Indices: 1588018--1588059 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1588008 TATTATAATA
**
1588018 ATTTAATTTTAATTTTAAATTT
1 ATTTAATTTTAAAATTAAATTT
1588040 ATTT-ATTTTAAAATTAAATT
1 ATTTAATTTTAAAATTAAATT
1588060 ATTACATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTAATTTTAAAATTAAATTT
Found at i:1588097 original size:102 final size:101
Alignment explanation
Indices: 1587863--1588100 Score: 268
Period size: 102 Copynumber: 2.3 Consensus size: 101
1587853 TTTTTGTGTT
* * *
1587863 ATTTTTATATTATATCTTAATTTATTTTATATTTTATATAATTTATTATAATAATTTAATTTTAA
1 ATTTATATATTATA-CTTAATTAATATTATATTTTATATAATTTATTATAATAATTTAATTTTAA
* * * * *
1587928 TTTTATATCATATTATACTTTAATTATTTTTTATATT
65 TTTTAAATCATATTATACTTTAATTAATTATTACATC
* * *
1587965 ATTTTTATATTATATCTTAATTTATTTTATATTTTATATAATTTATTATAATAATTTAATTTTAA
1 ATTTATATATTATA-CTTAATTAATATTATATTTTATATAATTTATTATAATAATTTAATTTTAA
* *
1588030 TTTTAAAT-TTATT-TATTTTAAAATTAAATTATTACATC
65 TTTTAAATCATATTATACTTT--AATT-AATTATTACATC
1588068 ATTTATATATTA-A-TTAATATAAATATTATATTT
1 ATTTATATATTATACTTAAT-T-AATATTATATTT
1588101 AAAATTTTAA
Statistics
Matches: 121, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
100 10 0.08
101 5 0.04
102 87 0.72
103 19 0.16
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (101 bp):
ATTTATATATTATACTTAATTAATATTATATTTTATATAATTTATTATAATAATTTAATTTTAAT
TTTAAATCATATTATACTTTAATTAATTATTACATC
Found at i:1589267 original size:19 final size:18
Alignment explanation
Indices: 1589243--1589282 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
1589233 TATTTTTAAA
1589243 TATTAAATAATTAAATAT-T
1 TATTAAA-AA-TAAATATAT
1589262 TATTAAAAATAAATATAT
1 TATTAAAAATAAATATAT
1589280 TAT
1 TAT
1589283 ATTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAAAAATAAATATAT
Found at i:1589281 original size:26 final size:25
Alignment explanation
Indices: 1589233--1589292 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 25
1589223 TTTATAATTT
*
1589233 TATTTTTAAATATTAAATAATTAAA
1 TATTTTTAAATAATAAATAATTAAA
*
1589258 TATTTATTAAA-AATAAATATATTATAT
1 TATTT-TTAAATAATAAATA-ATTA-AA
1589285 TATTTTTA
1 TATTTTTA
1589293 TTTAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 12 0.40
26 12 0.40
27 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTTTAAATAATAAATAATTAAA
Found at i:1589304 original size:30 final size:28
Alignment explanation
Indices: 1589237--1589330 Score: 86
Period size: 30 Copynumber: 3.3 Consensus size: 28
1589227 TAATTTTATT
*
1589237 TTTAAATATTAAATAATTAA--ATATTTA
1 TTTAAATA-TAAATAATTAATTATTTTTA
*
1589264 -TTAAAAATAAATATATTATATTATTTTTA
1 TTTAAATATAAATA-ATTA-ATTATTTTTA
* *
1589293 TTTAAATATAAATAAATTCAATTAATATTA
1 TTTAAATATAAAT-AATT-AATTATTTTTA
1589323 TTTAAATA
1 TTTAAATA
1589331 AACTCAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
25 6 0.11
26 10 0.18
27 1 0.02
29 6 0.11
30 30 0.55
31 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTAAATATAAATAATTAATTATTTTTA
Found at i:1591815 original size:9 final size:9
Alignment explanation
Indices: 1591801--1591830 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1591791 GTGTTCGCTT
1591801 GAAGAAAAA
1 GAAGAAAAA
*
1591810 GAAGAAGAA
1 GAAGAAAAA
1591819 GAAGAAAAA
1 GAAGAAAAA
1591828 GAA
1 GAA
1591831 AATTAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (9 bp):
GAAGAAAAA
Found at i:1592997 original size:22 final size:23
Alignment explanation
Indices: 1592952--1593005 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
1592942 AGCTATTGTA
*
1592952 TTATCAATTTATTTATCATGTTAT
1 TTAT-AATTTATTAATCATGTTAT
1592976 TTATAATTTATTAAT-ATGTTAT
1 TTATAATTTATTAATCATGTTAT
*
1592998 TAATAATT
1 TTATAATT
1593006 AATATTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 14 0.50
23 10 0.36
24 4 0.14
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
TTATAATTTATTAATCATGTTAT
Found at i:1595269 original size:19 final size:19
Alignment explanation
Indices: 1595243--1595308 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
1595233 TATCAACCGT
1595243 TTTA-TATGTTATTAATCA
1 TTTACTATGTTATTAATCA
**
1595261 TTTACTATGTTATTGGTCA
1 TTTACTATGTTATTAATCA
* *
1595280 TATACTATTATGTTATTAATCT
1 T-T--TACTATGTTATTAATCA
1595302 TTTACTA
1 TTTACTA
1595309 CTTTTATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
18 4 0.11
19 17 0.46
20 1 0.03
21 1 0.03
22 14 0.38
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.55
Consensus pattern (19 bp):
TTTACTATGTTATTAATCA
Found at i:1595307 original size:22 final size:21
Alignment explanation
Indices: 1595245--1595308 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 21
1595235 TCAACCGTTT
1595245 TATATGTTATTAATCATTTAC
1 TATATGTTATTAATCATTTAC
** *
1595266 --TATGTTATTGGTCATATAC
1 TATATGTTATTAATCATTTAC
*
1595285 TATTATGTTATTAATCTTTTAC
1 TA-TATGTTATTAATCATTTAC
1595307 TA
1 TA
1595309 CTTTTATAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 16 0.48
22 17 0.52
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (21 bp):
TATATGTTATTAATCATTTAC
Found at i:1597582 original size:39 final size:38
Alignment explanation
Indices: 1597528--1597602 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
1597518 TAGTTCATTT
*
1597528 AAATTTAAATAAATTAACAAAAGTTACATATTTAAATTC
1 AAATTGAAATAAATTAACAAAA-TTACATATTTAAATTC
* * *
1597567 AAATTGAAATCAATTAATAAAATTATATATTTAAAT
1 AAATTGAAATAAATTAACAAAATTACATATTTAAAT
1597603 AGAAAATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 13 0.41
39 19 0.59
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (38 bp):
AAATTGAAATAAATTAACAAAATTACATATTTAAATTC
Found at i:1597764 original size:88 final size:87
Alignment explanation
Indices: 1597608--1597871 Score: 318
Period size: 87 Copynumber: 3.0 Consensus size: 87
1597598 TAAATAGAAA
* *** *
1597608 ATTTCATTAATTTT-AATGTAGATTAATGTCATAAAAACTCTATTTTAAATATTTAATAATTTAA
1 ATTT-ATTAATTTTAAAT-TAGATTAATATCATGTGAACTCTATTTTAAATATTTATTAATTTAA
1597672 ATTTAAATAAATTAATAAAATTAT
64 ATTTAAATAAATTAATAAAATTAT
*
1597696 ATTTATTAATTTTAAATTAAATTAATATCATGTGAACTCTATCTTTAAATATTTATTAATTTAAA
1 ATTTATTAATTTTAAATTAGATTAATATCATGTGAACTCTAT-TTTAAATATTTATTAATTTAAA
*
1597761 TTTAAATAAATTAAT-AAATTAC
65 TTTAAATAAATTAATAAAATTAT
* ** * * * *
1597783 ATTTCTTAACGTTAAAGTAGATTAATATCACGTGAA-TTTATTTTTAGATATTTATTAATTTAAA
1 ATTTATTAATTTTAAATTAGATTAATATCATGTGAACTCTA-TTTTAAATATTTATTAATTTAAA
* * *
1597847 TTGAAACAAATTAATAAAGTTAT
65 TTTAAATAAATTAATAAAATTAT
1597870 AT
1 AT
1597872 ATTTATATAA
Statistics
Matches: 153, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
86 37 0.24
87 73 0.48
88 43 0.28
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (87 bp):
ATTTATTAATTTTAAATTAGATTAATATCATGTGAACTCTATTTTAAATATTTATTAATTTAAAT
TTAAATAAATTAATAAAATTAT
Found at i:1597979 original size:2 final size:2
Alignment explanation
Indices: 1597972--1598010 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1597962 ATGCTAGAGG
1597972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1598011 ATGTGAGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1600313 original size:22 final size:21
Alignment explanation
Indices: 1600285--1600354 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
1600275 GAATACCTAT
1600285 ATATGACTATAATTAAATATAC
1 ATATGACTATAA-TAAATATAC
1600307 ATATGACTATAATAACATATAC
1 ATATGACTATAATAA-ATATAC
*
1600329 ATATGACT-TGAACTGAATATAC
1 ATATGACTAT-AA-TAAATATAC
1600351 ATAT
1 ATAT
1600355 AGTAAAAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
21 4 0.09
22 38 0.86
23 2 0.05
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATGACTATAATAAATATAC
Found at i:1600758 original size:45 final size:45
Alignment explanation
Indices: 1600709--1600847 Score: 152
Period size: 52 Copynumber: 2.9 Consensus size: 45
1600699 TTTTTGTAAT
* *
1600709 AGTAATTTGAGATTTGATATAAAATATATTTTTTTATTTTTAAAA
1 AGTAATTCGAGATTTAATATAAAATATATTTTTTTATTTTTAAAA
* *
1600754 AGTAATTCGAGGTTTAATATAAAATATTTTTAATTTTTATTATTGTTTAAAT
1 AGTAATTCGAGATTTAATATAAAATA----T-ATTTTT-TTATT-TTTAAAA
* * *
1600806 AGTAAATCAAGATTTAATATAAAATATATTTTTTAATTTTTA
1 AGTAATTCGAGATTTAATATAAAATATATTTTTTTATTTTTA
1600848 TTATTTATTA
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
45 27 0.34
46 4 0.05
47 6 0.08
48 1 0.01
49 1 0.01
50 6 0.08
51 5 0.06
52 29 0.37
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.50
Consensus pattern (45 bp):
AGTAATTCGAGATTTAATATAAAATATATTTTTTTATTTTTAAAA
Found at i:1600822 original size:52 final size:51
Alignment explanation
Indices: 1600736--1601131 Score: 365
Period size: 54 Copynumber: 7.8 Consensus size: 51
1600726 TATAAAATAT
* *
1600736 ATTTTT-TTATTTTTAAA-AAGTAATTCGAGGTTTAATATAAAATATTTTTA
1 ATTTTTATTATTTTTAAATAA-TAATTCAAGATTTAATATAAAATATTTTTA
* *
1600786 ATTTTTATTATTGTTTAAATAGTAAATCAAGATTTAATATAAAATATATTTTTTA
1 ATTTTTATTATT-TTTAAATAATAATTCAAGATTTAATAT-AAA-ATA-TTTTTA
** *
1600841 ATTTTTATTATTTATT-AATAATAATTTGAGATTTAATATATAATATTTTTA
1 ATTTTTATTATTT-TTAAATAATAATTCAAGATTTAATATAAAATATTTTTA
* * * *
1600892 AGTTTTTTTTTTATTTTTAAATATTAATTTAAAATTTAATATAAAATATTTTTAAA
1 A---TTTTTATTATTTTTAAATAATAATTCAAGATTTAATATAAAATATTTTT--A
* * *
1600948 ACTTTTATTATTTTTTAAATATTAATTCGAGATTTAATAT---A-A---TT-
1 ATTTTTATTA-TTTTTAAATAATAATTCAAGATTTAATATAAAATATTTTTA
*
1600992 -TTTTTA-T-TTTTTAAATAATAATTCATGATTTAATATAAAATATTTATTTA
1 ATTTTTATTATTTTTAAATAATAATTCAAGATTTAATATAAAATA-TT-TTTA
* * *
1601042 A-TTTT-TTATTTTTAAATAGTAATTAAAGATTTAATATAAAATATTTTAA
1 ATTTTTATTATTTTTAAATAATAATTCAAGATTTAATATAAAATATTTTTA
* *
1601091 ATATTTTATTATTTTTAAATAATAATTTAAAATTTAATATA
1 AT-TTTTATTATTTTTAAATAATAATTCAAGATTTAATATA
1601132 TATTTTTTTA
Statistics
Matches: 286, Mismatches: 30, Indels: 58
0.76 0.08 0.16
Matches are distributed among these distances:
40 26 0.09
42 1 0.00
43 6 0.02
44 1 0.00
47 2 0.01
49 6 0.02
50 14 0.05
51 49 0.17
52 54 0.19
53 15 0.05
54 90 0.31
55 20 0.07
56 2 0.01
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (51 bp):
ATTTTTATTATTTTTAAATAATAATTCAAGATTTAATATAAAATATTTTTA
Found at i:1601005 original size:40 final size:40
Alignment explanation
Indices: 1600950--1601029 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
1600940 TTTTTAAAAC
*
1600950 TTTTATTATTTTTTAAATATTAATTCGA-GATTTAATATAA
1 TTTTATTATTTTTTAAATAATAATTC-ATGATTTAATATAA
*
1600990 TTTTTTTATTTTTTAAATAATAATTCATGATTTAATATAA
1 TTTTATTATTTTTTAAATAATAATTCATGATTTAATATAA
1601030 AATATTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 36 0.97
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (40 bp):
TTTTATTATTTTTTAAATAATAATTCATGATTTAATATAA
Found at i:1601023 original size:94 final size:90
Alignment explanation
Indices: 1600897--1601080 Score: 244
Period size: 94 Copynumber: 2.0 Consensus size: 90
1600887 TTTTAAGTTT
* *
1600897 TTTTTTTATTTTTAAATATTAATTTAAAATTTAATATAAAATATTT-TTAAAACTTTTATTATTT
1 TTTTTTTATTTTTAAATAATAATTCAAAATTTAATATAAAATATTTATT-AAA-TTTT-TTA-TT
* **
1600961 TTTAAATATTAATTCGAGATTTAATATAA
62 TTTAAATAGTAATTAAAGATTTAATATAA
** *
1600990 TTTTTTTATTTTTTAAATAATAATTCATGATTTAATATAAAATATTTATTTAATTTTTTATTTTT
1 TTTTTTTA-TTTTTAAATAATAATTCAAAATTTAATATAAAATATTTATTAAATTTTTTATTTTT
1601055 AAATAGTAATTAAAGATTTAATATAA
65 AAATAGTAATTAAAGATTTAATATAA
1601081 AATATTTTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
91 28 0.35
92 3 0.04
93 12 0.15
94 36 0.44
95 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (90 bp):
TTTTTTTATTTTTAAATAATAATTCAAAATTTAATATAAAATATTTATTAAATTTTTTATTTTTA
AATAGTAATTAAAGATTTAATATAA
Found at i:1601038 original size:40 final size:40
Alignment explanation
Indices: 1600955--1601040 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
1600945 AAAACTTTTA
* ** *
1600955 TTATTTTTTAAATATTAATTCGAGATTTAATATAATTTTT
1 TTATTTTTTAAATAATAATTCGAGATTTAATATAAAATAT
1600995 TTATTTTTTAAATAATAATTC-ATGATTTAATATAAAATAT
1 TTATTTTTTAAATAATAATTCGA-GATTTAATATAAAATAT
1601035 TTATTT
1 TTATTT
1601041 AATTTTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.56
Consensus pattern (40 bp):
TTATTTTTTAAATAATAATTCGAGATTTAATATAAAATAT
Found at i:1601141 original size:52 final size:51
Alignment explanation
Indices: 1600991--1601148 Score: 153
Period size: 52 Copynumber: 3.1 Consensus size: 51
1600981 TTAATATAAT
* ** *
1600991 TTTTTTATTTTTTAAATAATAATTCATGATTTAATATAAAATATTTATTT--A-A
1 TTTTTTA-TTTTTAAATAATAATTTAAAATTTAATAT---ATATTTTTTTAAATA
* * * *
1601043 TTTTTTATTTTTAAATAGTAA-TTAAAGATTTAATATAAAATATTTTAAATA
1 TTTTTTATTTTTAAATAATAATTTAAA-ATTTAATATATATTTTTTTAAATA
*
1601094 TTTTATTATTTTTAAATAATAATTTAAAATTTAATATATATTTTTTTAAAAA
1 TTTT-TTATTTTTAAATAATAATTTAAAATTTAATATATATTTTTTTAAATA
1601146 TTT
1 TTT
1601149 AATATAACAT
Statistics
Matches: 87, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
48 6 0.07
50 3 0.03
51 27 0.31
52 46 0.53
53 5 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (51 bp):
TTTTTTATTTTTAAATAATAATTTAAAATTTAATATATATTTTTTTAAATA
Found at i:1603942 original size:11 final size:11
Alignment explanation
Indices: 1603928--1603961 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
1603918 TTAGAATAGA
1603928 AATAAATAATT
1 AATAAATAATT
*
1603939 AATAATTAATT
1 AATAAATAATT
1603950 AATAAATAATT
1 AATAAATAATT
1603961 A
1 A
1603962 CTTTGAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAAATAATT
Found at i:1605506 original size:162 final size:164
Alignment explanation
Indices: 1605233--1605560 Score: 552
Period size: 162 Copynumber: 2.0 Consensus size: 164
1605223 TTGCTCAAAT
* * *
1605233 CATGCATAGGAACTAAATGGCATCTAGTTTGGTTATTTTCTAATTATTATGAGTTTAATTTTACT
1 CATGCATAGGAACTAAATGACATCTAGTTTGGTTATTTTCTAACTATTATGAGTCTAATTTTACT
* *
1605298 GAATTTCAATGGAAGATTATTTTGAGTTAAAGTTAAAACCTCTTTCCTGCATATGGCCAAGATAT
66 GAATTTCAATGGAAGACTATTTTGAGTTAAAGTTAAAACCTCTTTCCTGCATATAGCCAAGATAT
1605363 GGACATTTGGAGTGGG-G-TTTTTTTAGGGCATG
131 GGACATTTGGAGTGGGAGTTTTTTTTAGGGCATG
* * **
1605395 CATGCATAGGAAGTAAATGACATCTAGTTTGGTTGTTTTCTAACTATTATGAGTCTAATTTTGTT
1 CATGCATAGGAACTAAATGACATCTAGTTTGGTTATTTTCTAACTATTATGAGTCTAATTTTACT
*
1605460 GAATTTCAATGGAAGACTATTTTGAGTTAAAGTTAAAACTTCTTTCCTGCATATAGCCAAGATAT
66 GAATTTCAATGGAAGACTATTTTGAGTTAAAGTTAAAACCTCTTTCCTGCATATAGCCAAGATAT
1605525 GGACATTTGGAGTGGGAGTTTTTTTTAGGGCATG
131 GGACATTTGGAGTGGGAGTTTTTTTTAGGGCATG
1605559 CA
1 CA
1605561 GTTGAGATTG
Statistics
Matches: 154, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
162 136 0.88
163 1 0.01
164 17 0.11
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (164 bp):
CATGCATAGGAACTAAATGACATCTAGTTTGGTTATTTTCTAACTATTATGAGTCTAATTTTACT
GAATTTCAATGGAAGACTATTTTGAGTTAAAGTTAAAACCTCTTTCCTGCATATAGCCAAGATAT
GGACATTTGGAGTGGGAGTTTTTTTTAGGGCATG
Found at i:1605808 original size:11 final size:11
Alignment explanation
Indices: 1605795--1605837 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
1605785 ACCAAAGAGC
*
1605795 AAAAAGAAAGCA
1 AAAAAAAAAG-A
1605807 AAAAAAAAA-A
1 AAAAAAAAAGA
1605817 AAAAAAAAAGA
1 AAAAAAAAAGA
1605828 AAAAAGAAAA
1 AAAAA-AAAA
1605838 AAAGAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 10 0.36
11 6 0.21
12 12 0.43
ACGTcount: A:0.88, C:0.02, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:1605810 original size:1 final size:1
Alignment explanation
Indices: 1605806--1605840 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
1605796 AAAAGAAAGC
* *
1605806 AAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1605841 GAGAGAAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:1605841 original size:8 final size:8
Alignment explanation
Indices: 1605796--1605842 Score: 55
Period size: 7 Copynumber: 6.1 Consensus size: 8
1605786 CCAAAGAGCA
1605796 AAAAGAAAG
1 AAAA-AAAG
*
1605805 CAAAAAA-
1 AAAAAAAG
1605812 AAAAAAA-
1 AAAAAAAG
1605819 AAAAAAAG
1 AAAAAAAG
1605827 -AAAAAAG
1 AAAAAAAG
1605834 AAAAAAAG
1 AAAAAAAG
1605842 A
1 A
1605843 GAGAAAGGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 20 0.59
8 11 0.32
9 3 0.09
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1605841 original size:15 final size:15
Alignment explanation
Indices: 1605801--1605842 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1605791 GAGCAAAAAG
1605801 AAAGCAAAAAAA-AAA
1 AAAG-AAAAAAAGAAA
1605816 AAA-AAAAAAAGAAA
1 AAAGAAAAAAAGAAA
1605830 AAAGAAAAAAAGA
1 AAAGAAAAAAAGA
1605843 GAGAAAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 12 0.48
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAGAAA
Found at i:1606739 original size:59 final size:59
Alignment explanation
Indices: 1606628--1606740 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
1606618 ACTTTGGGAC
* * *
1606628 TTTGATGTAATTTCATGTATTTTGATGTCATTTAAGTTATCTTTTATGATCTAAAAGAT
1 TTTGATGTAATTTCATGTATTTTAATGTCATTTAAGTCATCTTTTATAATCTAAAAGAT
* *
1606687 TTTGGTGTAATTTCATGTATTTTAATGTCATTTAGGTCAT-TTTTCATAATCTAA
1 TTTGATGTAATTTCATGTATTTTAATGTCATTTAAGTCATCTTTT-ATAATCTAA
1606741 GGACTTTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 4 0.08
59 44 0.92
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.51
Consensus pattern (59 bp):
TTTGATGTAATTTCATGTATTTTAATGTCATTTAAGTCATCTTTTATAATCTAAAAGAT
Found at i:1611089 original size:11 final size:11
Alignment explanation
Indices: 1611073--1611097 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1611063 CTAGAATAAG
1611073 AATAAATAATT
1 AATAAATAATT
1611084 AATAAATAATT
1 AATAAATAATT
1611095 AAT
1 AAT
1611098 TTGGTAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAAATAATT
Found at i:1611620 original size:21 final size:19
Alignment explanation
Indices: 1611578--1611614 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1611568 AATTTAATCC
*
1611578 TTAAAATCCAAATAGAATT
1 TTAAAAACCAAATAGAATT
*
1611597 TTAAAAACCAGATAGAAT
1 TTAAAAACCAAATAGAAT
1611615 ATTTTATCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (19 bp):
TTAAAAACCAAATAGAATT
Found at i:1613164 original size:12 final size:10
Alignment explanation
Indices: 1613149--1613183 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1613139 ATGAAAACCA
* *
1613149 TTTTTTCTCC
1 TTTTTTTTCT
1613159 TTTTTTTTCT
1 TTTTTTTTCT
1613169 TTTTTTTTCT
1 TTTTTTTTCT
1613179 TTTTT
1 TTTTT
1613184 GTCTTTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:1613173 original size:19 final size:19
Alignment explanation
Indices: 1613149--1613189 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1613139 ATGAAAACCA
*
1613149 TTTTTTCTCCTTTTTTTTC
1 TTTTTTCTCCTTTTTTGTC
* *
1613168 TTTTTTTTTCTTTTTTGTC
1 TTTTTTCTCCTTTTTTGTC
1613187 TTT
1 TTT
1613190 AGTTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTCTCCTTTTTTGTC
Found at i:1613609 original size:22 final size:22
Alignment explanation
Indices: 1613584--1613629 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1613574 TCTCTTATCA
*
1613584 TTTTTCTC-CTTTTTTTTCTTTC
1 TTTTTCTCGCTTTTTCTT-TTTC
*
1613606 TTTTTTTCGCTTTTTCTTTTTC
1 TTTTTCTCGCTTTTTCTTTTTC
1613628 TT
1 TT
1613630 CCCTAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTCTCGCTTTTTCTTTTTC
Found at i:1615992 original size:76 final size:75
Alignment explanation
Indices: 1615875--1616100 Score: 202
Period size: 76 Copynumber: 2.9 Consensus size: 75
1615865 CTGAATTTTG
* * **
1615875 TATTAATGCAATATTACCTAAATAATCGTAATAGATGTGTTTCGACATAAAAGTTTATACATAAC
1 TATTAATGCAATATTACCTAAATAATCATAATGGACATGTTTCGACATAAAAGTTT-TACATAAC
1615940 CCTAGACTCGA
65 CCTAGACTCGA
* * * * *
1615951 TATTAATACAATATTACCTAAATAATCATAATGGACATGTTTCAACATGAAAGGTTCCTACATGA
1 TATTAATGCAATATTACCTAAATAATCATAATGGACATGTTTCGACAT-AAAAGTT-TTACATAA
* * *
1616016 GCCTAAAGACTTGG
64 CCCT--AGACTCGA
* * * * * * * *
1616030 T-TTCAAGGTATTATTACTTAAATAATCTTAATGGACATATATCGACATAAAAATTCTTACATAA
1 TATT-AATGCAATATTACCTAAATAATCATAATGGACATGTTTCGACATAAAAGTT-TTACATAA
1616094 CCCTAGA
64 CCCTAGA
1616101 TACTTGTTTT
Statistics
Matches: 119, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
76 45 0.38
77 15 0.13
78 17 0.14
79 42 0.35
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (75 bp):
TATTAATGCAATATTACCTAAATAATCATAATGGACATGTTTCGACATAAAAGTTTTACATAACC
CTAGACTCGA
Found at i:1616053 original size:79 final size:78
Alignment explanation
Indices: 1615962--1616345 Score: 231
Period size: 79 Copynumber: 5.0 Consensus size: 78
1615952 ATTAATACAA
* *
1615962 TATTACCTAAATAATCATAATGGACATGTTTCAACATGAAAGGTTCCTACATGAGCCTAAAGACT
1 TATTA-CTAAATAATCATAATGGACATGTATCAACAT-AAAGGTTCCTACATGACCCTAAAGACT
1616027 TGGTTTC-AAGGTAT
64 TGGTTTCTAAGGTAT
* * * ** * * * *
1616041 TATTACTTAAATAATCTTAATGGACATATATCGACATAAAAATTCTTACATAACCCTAGATACTT
1 TATTAC-TAAATAATCATAATGGACATGTATCAACATAAAGGTTCCTACATGACCCTAAAGACTT
*
1616106 GTTTTCTAAGGTAT
65 GGTTTCTAAGGTAT
* * * * * * * *
1616120 TATTAACTAAATGACCCTAATAGACATGTATCAACATAAAAGGTTCCCACATGGCCCTAGACACT
1 TATT-ACTAAATAATCATAATGGACATGTATCAACAT-AAAGGTTCCTACATGACCCTAAAGACT
* *
1616185 CAT-GTTT-TACGATAT
64 --TGGTTTCTAAGGTAT
* * * ** * * *
1616200 TATTACCTAAATGAGCCTAATGGACATGTATTGACAGGAAA-GTACCAACATGACCCTACAA-AC
1 TATTA-CTAAATAATCATAATGGACATGTATCAACA-TAAAGGTTCCTACATGACCCTA-AAGAC
1616263 -TGGTTT-TAAGG---
63 TTGGTTTCTAAGGTAT
* * * * * * * *
1616274 ---TACT-ATTAACCCTAATGGATATGTATCGACATAAAAGTTCCCACATGACTCTAAAGACTTG
1 TATTACTAAATAATCATAATGGACATGTATCAACATAAAGGTTCCTACATGACCCTAAAGACTTG
1616335 GTTT-TAAGGTA
66 GTTTCTAAGGTA
1616346 CTTGTTAAAA
Statistics
Matches: 242, Mismatches: 48, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
68 5 0.02
69 38 0.16
70 13 0.05
71 2 0.01
76 1 0.00
77 7 0.03
78 27 0.11
79 83 0.34
80 62 0.26
81 3 0.01
82 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (78 bp):
TATTACTAAATAATCATAATGGACATGTATCAACATAAAGGTTCCTACATGACCCTAAAGACTTG
GTTTCTAAGGTAT
Found at i:1617249 original size:10 final size:11
Alignment explanation
Indices: 1617227--1617301 Score: 73
Period size: 11 Copynumber: 6.6 Consensus size: 11
1617217 AGAAGAATTC
1617227 CTTTTTTCTCT
1 CTTTTTTCTCT
1617238 CTTTTTTC-CT
1 CTTTTTTCTCT
1617248 CTTTTTTCTCT
1 CTTTTTTCTCT
*
1617259 ATTTTTT-TCCT
1 CTTTTTTCT-CT
*
1617270 CTTTTTCTTTCT
1 CTTTTT-TCTCT
1617282 CATTTTCTTCTCT
1 C-TTTT-TTCTCT
*
1617295 ATTTTTT
1 CTTTTTT
1617302 ATTGCTAAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
10 11 0.20
11 25 0.46
12 8 0.15
13 9 0.17
14 1 0.02
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTTTTTCTCT
Found at i:1617253 original size:21 final size:22
Alignment explanation
Indices: 1617227--1617275 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1617217 AGAAGAATTC
1617227 CTTTTTTCTCT-CTTTTTTCCT
1 CTTTTTTCTCTACTTTTTTCCT
*
1617248 CTTTTTTCTCTATTTTTTTCCT
1 CTTTTTTCTCTACTTTTTTCCT
1617270 CTTTTT
1 CTTTTT
1617276 CTTTCTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (22 bp):
CTTTTTTCTCTACTTTTTTCCT
Found at i:1617271 original size:13 final size:12
Alignment explanation
Indices: 1617228--1617301 Score: 68
Period size: 12 Copynumber: 6.4 Consensus size: 12
1617218 GAAGAATTCC
*
1617228 TTTTTTCTCT-C
1 TTTTTTCTCTAT
*
1617239 TTTTTTC-CT-C
1 TTTTTTCTCTAT
1617249 TTTTTTCTCTAT
1 TTTTTTCTCTAT
1617261 TTTTTTCCTCT-T
1 TTTTTT-CTCTAT
1617273 TTTCTTTCTC-AT
1 TTT-TTTCTCTAT
*
1617285 TTTCTTCTCTAT
1 TTTTTTCTCTAT
1617297 TTTTT
1 TTTTT
1617302 ATTGCTAAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
10 10 0.19
11 14 0.26
12 23 0.43
13 7 0.13
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTTCTCTAT
Found at i:1617288 original size:21 final size:20
Alignment explanation
Indices: 1617224--1617277 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
1617214 CTTAGAAGAA
1617224 TTCCT-TTTTTCTCTCTTTT
1 TTCCTCTTTTTCTCTCTTTT
*
1617243 TTCCTCTTTTTTCTCTATTTTT
1 TTCCTC-TTTTTCTCT-CTTTT
1617265 TTCCTCTTTTTCT
1 TTCCTCTTTTTCT
1617278 TTCTCATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 5 0.16
21 16 0.52
22 10 0.32
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCCTCTTTTTCTCTCTTTT
Found at i:1620552 original size:59 final size:59
Alignment explanation
Indices: 1620460--1620580 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
1620450 ACCGAAAAAC
1620460 AAGTTTTGATTTTGTGTTCATAGGTAAAAGAGCATTACTTCAAGGCAACAACAACGATG
1 AAGTTTTGATTTTGTGTTCATAGGTAAAAGAGCATTACTTCAAGGCAACAACAACGATG
1620519 AAGTTTTGATTTTGTGTTCATAGGTAAAAGAGCATTACTTCAAGGCAACAACAACGATG
1 AAGTTTTGATTTTGTGTTCATAGGTAAAAGAGCATTACTTCAAGGCAACAACAACGATG
1620578 AAG
1 AAG
1620581 GTTATTTGGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (59 bp):
AAGTTTTGATTTTGTGTTCATAGGTAAAAGAGCATTACTTCAAGGCAACAACAACGATG
Found at i:1621612 original size:13 final size:13
Alignment explanation
Indices: 1621594--1621618 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1621584 TTTTCCAGAT
1621594 TGTATCGATACAA
1 TGTATCGATACAA
1621607 TGTATCGATACA
1 TGTATCGATACA
1621619 TTGCTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1623283 original size:21 final size:21
Alignment explanation
Indices: 1623245--1623285 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1623235 TAAAGTAAAA
1623245 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1623266 ATAC-TATTGATATTAATACA
1 ATACGTATTG-TATCAATACA
1623286 CAAGGTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1623350 original size:20 final size:19
Alignment explanation
Indices: 1623325--1623395 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1623315 ACCCTGAAAA
1623325 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1623345 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
1623364 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1623385 GTATCGATACA
1 GTATCGATACA
1623396 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1623448 original size:53 final size:53
Alignment explanation
Indices: 1623365--1623501 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1623355 AGATTGCATA
1623365 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1623419 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1623472 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1623502 TTGGTAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:1623545 original size:10 final size:10
Alignment explanation
Indices: 1623526--1623556 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1623516 AATCTCATTT
1623526 TCACTGTTCA
1 TCACTGTTCA
*
1623536 TCACTATTCA
1 TCACTGTTCA
1623546 TCACTGTTCA
1 TCACTGTTCA
1623556 T
1 T
1623557 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1623578 original size:21 final size:22
Alignment explanation
Indices: 1623544--1623599 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1623534 CATCACTATT
1623544 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1623566 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1623587 CATCACTGTTCAT
1 CATCACTGTTCAT
1623600 AGGTCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1623691 original size:13 final size:13
Alignment explanation
Indices: 1623673--1623698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1623663 ACATATTTGT
1623673 GTGTATCGATACA
1 GTGTATCGATACA
1623686 GTGTATCGATACA
1 GTGTATCGATACA
1623699 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1624240 original size:34 final size:35
Alignment explanation
Indices: 1624177--1624243 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1624167 CTAAGTGATT
1624177 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1624213 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1624244 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1625694 original size:21 final size:21
Alignment explanation
Indices: 1625670--1625721 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
1625660 GACATGCTAT
1625670 AAATGCATGAAACATAGTAAA
1 AAATGCATGAAACATAGTAAA
1625691 AAATGCATGAAACATAGTAAA
1 AAATGCATGAAACATAGTAAA
1625712 AAATGCATGA
1 AAATGCATGA
1625722 TTAAGGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (21 bp):
AAATGCATGAAACATAGTAAA
Found at i:1626674 original size:22 final size:20
Alignment explanation
Indices: 1626622--1626696 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
1626612 AAAAAACGGG
1626622 ATGTATCGATACAATGATAA
1 ATGTATCGATACAATGATAA
*
1626642 ATGTATTGATACAATG-TGAA
1 ATGTATCGATACAATGAT-AA
* * *
1626662 GCATGTATCGATACATTTATTA
1 --ATGTATCGATACAATGATAA
*
1626684 ATGTATTGATACA
1 ATGTATCGATACA
1626697 TTTCCTTAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.02
20 29 0.64
22 14 0.31
23 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATGATAA
Found at i:1626739 original size:13 final size:13
Alignment explanation
Indices: 1626723--1626748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1626713 TAGGGTAGTT
1626723 TTGTATCGATACA
1 TTGTATCGATACA
1626736 TTGTATCGATACA
1 TTGTATCGATACA
1626749 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1627622 original size:52 final size:52
Alignment explanation
Indices: 1627480--1627726 Score: 180
Period size: 52 Copynumber: 4.8 Consensus size: 52
1627470 AGTGATAAAG
* * * * * * *
1627480 GTGCCAATATGTTGATTCAGGGCCAATGATATTGGGCTTAAAGATGAGAAAA
1 GTGCCAATAGGCTGATTCAAGGCCAACGATATTGGACTTGAAGATGACAAAA
* * * * * * *
1627532 ATGCGAAT-GTGCTAATTCACA-GCCAGCGACATTAGACTTGAAGATGACAAAT
1 GTGCCAATAG-GCTGATTCA-AGGCCAACGATATTGGACTTGAAGATGACAAAA
* * *
1627584 GTGCCAATAGGTTGATTTAAGGCCAACGATATTGGACTT-AAGA-AAGCAAAA
1 GTGCCAATAGGCTGATTCAAGGCCAACGATATTGGACTTGAAGATGA-CAAAA
* * * * * ** *
1627635 GAGCCAAT-GTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGGTAAAG
1 GTGCCAATAG-GCTGATTCAAGGCCAACGATATTGGACTTGAAGATGACAAAA
* *
1627687 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTG
1 GTGCCAATAGGCTGATTCAAGGCCAACGATATTGGACTTG
1627727 TGCCAATGTG
Statistics
Matches: 145, Mismatches: 41, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
50 2 0.01
51 40 0.28
52 102 0.70
53 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.25
Consensus pattern (52 bp):
GTGCCAATAGGCTGATTCAAGGCCAACGATATTGGACTTGAAGATGACAAAA
Found at i:1627691 original size:103 final size:104
Alignment explanation
Indices: 1627468--1627721 Score: 311
Period size: 103 Copynumber: 2.5 Consensus size: 104
1627458 GAAGATGAGA
* * * *
1627468 AAAG-TGATAAAGGTGCCAATATGTTGATTCAGGGCCAATGATATTGGGCTTAAAGATGAGAAAA
1 AAAGATGATAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGATAAGAAAA
*
1627532 ATGCGAATGTGCTAATTCACAGCCAGCGACATTAGACTT
66 ATGCCAATGTGCTAATTCACAGCCAGCGACATTAGACTT
* * * * *
1627571 GAAGATGACAAATGTGCCAATAGGTTGATTTAAGGCCAACGATATTGGACTT-AAGA-AAGCAAA
1 AAAGATGATAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGATAAG-AAA
* * *
1627634 AGA-GCCAATGTGCTGATTCA-AGGCTAGCGACATTGGACTT
65 A-ATGCCAATGTGCTAATTCACA-GCCAGCGACATTAGACTT
* *
1627674 AAAGATGGTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGG
1 AAAGATGATAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGG
1627722 GCTTGTGCCA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
102 3 0.02
103 83 0.65
104 41 0.32
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (104 bp):
AAAGATGATAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGATAAGAAAA
ATGCCAATGTGCTAATTCACAGCCAGCGACATTAGACTT
Found at i:1627760 original size:39 final size:39
Alignment explanation
Indices: 1627687--1627761 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
1627677 GATGGTAAAG
*
1627687 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTT
* * **
1627726 GTGCCAATGTGTTGATTCAAGGCCAGTGACATTGGG
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGG
1627762 TTTAAAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTT
Found at i:1627803 original size:49 final size:49
Alignment explanation
Indices: 1627726--1628088 Score: 325
Period size: 49 Copynumber: 7.8 Consensus size: 49
1627716 TATTGGGCTT
* *
1627726 GTGCCAATGTGTTGATTCAAGGCCAGTGACATTGGGTTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAAAGATGAAG
* * *
1627775 GTGCTAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAAAGATGAAG
* * * * * * *
1627824 GTGCCAATATGCTGATTCATGACTAGCGATATTAGGCTT---G-T--A-
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAAAGATGAAG
* * * *
1627866 ---CCAATGTACTGATTAAAAGCCAGTGACATTGGTCTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAAAGATGAAG
* * **
1627912 GTGCCAATGTGCTGATTCAAAGCTAGTGACATTGTACTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAAAGATGAAG
* * * * *
1627961 GTGCCAATATACTGATTCAAGGCCAGCGATATTAGGC-T-----T----
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAAAGATGAAG
*
1628000 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAAAGATGAAG
* * *
1628049 GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGACTTA
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTA
1628089 GAAAGAGATG
Statistics
Matches: 247, Mismatches: 47, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
39 56 0.23
40 1 0.00
42 1 0.00
43 3 0.01
45 3 0.01
46 1 0.00
48 1 0.00
49 181 0.73
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (49 bp):
GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAAAGATGAAG
Found at i:1627870 original size:137 final size:137
Alignment explanation
Indices: 1627637--1628088 Score: 699
Period size: 137 Copynumber: 3.3 Consensus size: 137
1627627 AAGCAAAAGA
1627637 GCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGGTAAAGGTGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGA
* * *
1627702 TTCAAGGCCAACGATATTGGGCTTGTGCCAATGTGTTGATTCAAGGCCAGTGACATTGGGT-TTA
63 TTCAAGGCCAGCGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATT-GGTCTTA
1627766 AAGATGAAGGT
127 AAGATGAAGGT
* *
1627777 GCTAATGTGCTGATTCAAGGCTAGTGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
* * * * * * *
1627842 ATGACTAGCGATATTAGGCTTGTACCAATGTACTGATTAAAAGCCAGTGACATTGGTCTTAAAGA
66 AAGGCCAGCGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA
1627907 TGAAGGT
131 TGAAGGT
* * * *
1627914 GCCAATGTGCTGATTCAAAGCTAGTGACATTGTACTTAAAGATGAAGGTGCCAATATACTGATTC
1 GCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1627979 AAGGCCAGCGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA
66 AAGGCCAGCGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA
1628044 TGAAGGT
131 TGAAGGT
* *
1628051 GCCAATGTACTGATTCAAGGCCAGCGACATTGGACTTA
1 GCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTA
1628089 GAAAGAGATG
Statistics
Matches: 283, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
136 3 0.01
137 238 0.84
139 1 0.00
140 41 0.14
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (137 bp):
GCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA
TGAAGGT
Found at i:1628004 original size:88 final size:88
Alignment explanation
Indices: 1627912--1628077 Score: 289
Period size: 88 Copynumber: 1.9 Consensus size: 88
1627902 AAAGATGAAG
*
1627912 GTGCCAATGTGCTGATTCAAAGCTAGTGACATT-GTACTTAAAGATGAAGGTGCCAATATACTGA
1 GTGCCAATGTGCTGATTCAAAGCCAGTGACATTGGT-CTTAAAGATGAAGGTGCCAATATACTGA
1627976 TTCAAGGCCAGCGATATTAGGCTT
65 TTCAAGGCCAGCGATATTAGGCTT
* *
1628000 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAGGTGCCAATGTACTGAT
1 GTGCCAATGTGCTGATTCAAAGCCAGTGACATTGGTCTTAAAGATGAAGGTGCCAATATACTGAT
1628065 TCAAGGCCAGCGA
66 TCAAGGCCAGCGA
1628078 CATTGGACTT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
88 72 0.97
89 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAAGCCAGTGACATTGGTCTTAAAGATGAAGGTGCCAATATACTGAT
TCAAGGCCAGCGATATTAGGCTT
Found at i:1628172 original size:27 final size:27
Alignment explanation
Indices: 1628141--1628196 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
1628131 AGGTATCACA
*
1628141 GAGTTGTGGACTT-GAAAGGGTGCCACG
1 GAGTTGTGAACTTAGAAA-GGTGCCACG
*
1628168 GAGTTGTGAACTTAGAAAGGTGCTACG
1 GAGTTGTGAACTTAGAAAGGTGCCACG
1628195 GA
1 GA
1628197 CTTATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.27, C:0.12, G:0.38, T:0.23
Consensus pattern (27 bp):
GAGTTGTGAACTTAGAAAGGTGCCACG
Found at i:1628293 original size:27 final size:27
Alignment explanation
Indices: 1628263--1628361 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
1628253 AATGCCAATG
* * *
1628263 AGTTGTGAACTTGAAAGGGTGCCACGA
1 AGTTATGAACTTAAAAGGGTACCACGA
*
1628290 AGTTATGGACTTAAAAGGGTACCACGA
1 AGTTATGAACTTAAAAGGGTACCACGA
** * *
1628317 AGTTACAAACTTAAAAAGGTACCATGGA
1 AGTTATGAACTTAAAAGGGTACCA-CGA
*
1628345 A-TTATGGACTTAAAAGG
1 AGTTATGAACTTAAAAGG
1628362 AAAAATGGTG
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 55 0.95
28 3 0.05
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (27 bp):
AGTTATGAACTTAAAAGGGTACCACGA
Found at i:1628384 original size:34 final size:33
Alignment explanation
Indices: 1628349--1628587 Score: 208
Period size: 34 Copynumber: 7.2 Consensus size: 33
1628339 CATGGAATTA
* *
1628349 TGGACTTAAAAGGAAAAATGGTGCCACTAAGTTA
1 TGGACTTAAAAGGAAAAA-GGTGCCACTGAGTTG
* *
1628383 TGGA-TTTAAAGGAAAAAGGATGCCACGGAGTTG
1 TGGACTTAAAAGGAAAAAGG-TGCCACTGAGTTG
*
1628416 TGGGCTTTGAAAA-GAAAAAGGTGCCA-TGGAGTTG
1 TGGAC-TT-AAAAGGAAAAAGGTGCCACT-GAGTTG
* *
1628450 TGGACTTAAAAGGAACAAAGGTGCGA-TGGAGTTA
1 TGGACTTAAAAGGAA-AAAGGTGCCACT-GAGTTG
** *
1628484 TGGGTTTTGAAAA-GAAAAAGGTGCCACAGAGTTG
1 T-GGACTT-AAAAGGAAAAAGGTGCCACTGAGTTG
1628518 TGGACTTAAAAGGAAAAAGGGTGCCACT-AGTTG
1 TGGACTTAAAAGGAAAAA-GGTGCCACTGAGTTG
* * *
1628551 TGGACTT-AGA-G-AAGAGATGCCACTGAGTTG
1 TGGACTTAAAAGGAAAAAGGTGCCACTGAGTTG
1628581 TGGACTT
1 TGGACTT
1628588 TAGGAAGGAA
Statistics
Matches: 171, Mismatches: 21, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
29 8 0.05
30 15 0.09
31 1 0.01
32 12 0.07
33 52 0.30
34 59 0.35
35 17 0.10
36 7 0.04
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.23
Consensus pattern (33 bp):
TGGACTTAAAAGGAAAAAGGTGCCACTGAGTTG
Found at i:1628463 original size:68 final size:66
Alignment explanation
Indices: 1628356--1628553 Score: 229
Period size: 68 Copynumber: 2.9 Consensus size: 66
1628346 TTATGGACTT
* * *
1628356 AAAAGGAAAAATGGTGCCACTAAGTTATGGA-TTTAAAGGAAAAAGGATGCCACGGAGTTGTGGG
1 AAAA-GAAAAA-GGTGCCA-TGAGTTGTGGACTTAAAAGGAAAAAGG-TGCCACGGAGTTGTGGG
1628420 CTTTG
62 CTTTG
* * * *
1628425 AAAAGAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAACAAAGGTGCGATGGAGTTATGGGTT
1 AAAAGAAAAAGGTGCCAT-GAGTTGTGGACTTAAAAGGAA-AAAGGTGCCACGGAGTTGTGGGCT
1628490 TTG
64 TTG
* *
1628493 AAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCAC-TAGTTGTGG
1 AAAAGAAAAAGGTGCCA-TGAGTTGTGGACTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGG
1628554 ACTTAGAGAA
Statistics
Matches: 112, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
66 1 0.01
67 25 0.22
68 77 0.69
69 9 0.08
ACGTcount: A:0.37, C:0.10, G:0.32, T:0.22
Consensus pattern (66 bp):
AAAAGAAAAAGGTGCCATGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT
G
Found at i:1628534 original size:101 final size:101
Alignment explanation
Indices: 1628329--1628558 Score: 267
Period size: 101 Copynumber: 2.3 Consensus size: 101
1628319 TTACAAACTT
* * * *
1628329 AAAAAGGTACCATGGAATTATGGACTTAAAAGGAAAAATGGTGCCACTAAGTTATGGATTTAAAG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAATGGTGCCACTAAGTTATGGATTTAAAA
* *
1628394 GAAAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAG
66 GAAAAAGGATGCCACAGAGTTGTGGACTTTGAAAAG
* * *
1628430 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAACAAA-GGTGCGA-TGGAGTTATGGGTTTTG
1 AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA-AAATGGTGCCACT-AAGTTAT-GGATTT-
1628493 AAAAGAAAAAGG-TGCCACAGAGTTGTGGAC-TT-AAAAGG
62 AAAAGAAAAAGGATGCCACAGAGTTGTGGACTTTGAAAA-G
1628531 AAAAAGGGTGCCACT--AGTTGTGGACTTA
1 AAAAA-GGTGCCA-TGGAGTTGTGGACTTA
1628559 GAGAAGAGAT
Statistics
Matches: 113, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
100 5 0.04
101 65 0.58
102 31 0.27
103 12 0.11
ACGTcount: A:0.37, C:0.10, G:0.30, T:0.23
Consensus pattern (101 bp):
AAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAATGGTGCCACTAAGTTATGGATTTAAAA
GAAAAAGGATGCCACAGAGTTGTGGACTTTGAAAAG
Found at i:1628582 original size:30 final size:30
Alignment explanation
Indices: 1628499--1628639 Score: 113
Period size: 30 Copynumber: 4.4 Consensus size: 30
1628489 TTTGAAAAGA
* * *
1628499 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGATGCCACTGAGTTGTGGACTT-AGA-G
*
1628531 AAAAAGGGTGCCACT-AGTTGTGGACTTAGAG
1 -AAAA-GATGCCACTGAGTTGTGGACTTAGAG
*
1628562 AAGAGATGCCACTGAGTTGTGGACTTTAGGAAGG
1 AAAAGATGCCACTGAGTTGTGGAC-TTA-G-A-G
* * **
1628596 AAAATAATGCCGCTGAGCCGTGGACTTAGAG
1 AAAA-GATGCCACTGAGTTGTGGACTTAGAG
1628627 AAAAGATGCCACT
1 AAAAGATGCCACT
1628640 ACGTCATAGA
Statistics
Matches: 90, Mismatches: 11, Indels: 17
0.76 0.09 0.14
Matches are distributed among these distances:
29 8 0.09
30 20 0.22
31 9 0.10
32 4 0.04
33 18 0.20
34 15 0.17
35 16 0.18
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTTGTGGACTTAGAG
Found at i:1628694 original size:33 final size:32
Alignment explanation
Indices: 1628495--1628723 Score: 148
Period size: 33 Copynumber: 7.1 Consensus size: 32
1628485 GGGTTTTGAA
* * **
1628495 AAGAAAAAGG-TGCCACAGAGTTGTGGACTTAA
1 AAGAAAAAGGATGCCAC-TAGTCGTGGACTTGG
* * *
1628527 AAGGAAAAAGGGTGCCACTAGTTGTGGACTTAG
1 AA-GAAAAAGGATGCCACTAGTCGTGGACTTGG
* *
1628560 -AG-AAGA-GATGCCACTGAGTTGTGGACTTTAGG
1 AAGAAAAAGGATGCCACT-AGTCGTGGAC-TT-GG
* ** * * *
1628592 AAGGAAAATAATGCCGCTGAGCCGTGGACTTAG
1 AAGAAAAAGGATGCCACT-AGTCGTGGACTTGG
* *
1628625 -AG-AAAA-GATGCCACTACGTCATAGACTTTGG
1 AAGAAAAAGGATGCCACTA-GTCGTGGAC-TTGG
*
1628656 GAGAAAAAGGATGCCACTACGTCGTGGACTTGG
1 AAGAAAAAGGATGCCACTA-GTCGTGGACTTGG
*
1628689 AAGAAAAAGGATGCCACTGAGTCATGGACTTGG
1 AAGAAAAAGGATGCCACT-AGTCGTGGACTTGG
1628722 AA
1 AA
1628724 AGGGTGCCAC
Statistics
Matches: 162, Mismatches: 21, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
29 9 0.06
30 26 0.16
31 10 0.06
32 8 0.05
33 63 0.39
34 30 0.19
35 16 0.10
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.20
Consensus pattern (32 bp):
AAGAAAAAGGATGCCACTAGTCGTGGACTTGG
Found at i:1629744 original size:10 final size:10
Alignment explanation
Indices: 1629717--1629746 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1629707 CTCATCAAGA
1629717 TTTTTTTTGT
1 TTTTTTTTGT
*
1629727 TTTGTTTTGT
1 TTTTTTTTGT
1629737 TTTTTTTTGT
1 TTTTTTTTGT
1629747 GTTAGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:1630267 original size:22 final size:21
Alignment explanation
Indices: 1630242--1630301 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 21
1630232 AATTTTGAAT
*
1630242 TTCAATAATTTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
*
1630264 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
1630285 -T-AAGT-AATGTATCGATA
1 TTCAA-TAAATGTATCGATA
1630302 TAGTATATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 12 0.35
22 7 0.21
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:1630295 original size:19 final size:21
Alignment explanation
Indices: 1630252--1630301 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 21
1630242 TTCAATAATT
*
1630252 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
1630273 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
1630292 TGTATCGATA
1 TGTATCGATA
1630302 TAGTATATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:1630374 original size:13 final size:13
Alignment explanation
Indices: 1630356--1630381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1630346 ATTTGTAGAA
1630356 TGTATCGATACAT
1 TGTATCGATACAT
1630369 TGTATCGATACAT
1 TGTATCGATACAT
1630382 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1633244 original size:51 final size:48
Alignment explanation
Indices: 1633189--1633478 Score: 240
Period size: 51 Copynumber: 5.7 Consensus size: 48
1633179 TAAGTTTCTC
* *
1633189 AATTTTTCATAATATGGGGTACTCCAACCCCAGTTTTATTTCTAAAACACT
1 AATTTTTCACAAT-TGGGATACTCCAACCCC-GTTTTATTT-TAAAACACT
* * * *
1633240 AATTTTTCACAATCAGGGATACTCTAACTCCGATTTTATTTTTAAAACCCT
1 AATTTTTCACAAT-TGGGATACTCCAACCCCG-TTTTA-TTTTAAAACACT
* ** *
1633291 AATTTTCCACAACCGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACT
1 AATTTTTCACAA-TTGGGATACTCCAACC-CCGTTTTATTTT-AAAACACT
* * *
1633342 AATTTTCCACAATTGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACC
1 AATTTTTCACAATT-GGGATACTCCAACCC-CGTTTTATTTT-AAAACACT
* * * * *
1633393 AA-TTTTCTATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAACACC
1 AATTTTTC-ACAATTG-GGATACTCCAACCCCG-TTTTATTT--TAAAACACT
*
1633445 AATTTTTCACAATTGAGGACACTCCAACCCCGTT
1 AATTTTTCACAATTG-GGATACTCCAACCCCGTT
1633479 AATCATCGGG
Statistics
Matches: 199, Mismatches: 27, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
50 12 0.06
51 147 0.74
52 35 0.18
53 5 0.03
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (48 bp):
AATTTTTCACAATTGGGATACTCCAACCCCGTTTTATTTTAAAACACT
Found at i:1633353 original size:102 final size:103
Alignment explanation
Indices: 1633204--1633474 Score: 295
Period size: 102 Copynumber: 2.7 Consensus size: 103
1633194 TTCATAATAT
* * * *
1633204 GGGG-TACTCCAACCCCAGTTTTA-TTTCTAAAACACTAATTTTTCACAATCAGGGATACTCTAA
1 GGGGATACTCCAACCTCGGTTTTATTTTCAAAAACACTAATTTTTCACAATCAGGGATACTCCAA
*
1633267 CTCC-GATTTTATTTTTAAAAC-CCTAATTTTCCACAACC
66 C-CCTGATTTTATTTTCAAAACACC-AATTTTCCACAACC
* **
1633305 GGGGATACTCCAACCTCGGTTTTATTTTC-AAAACACTAATTTTCCACAATTGGGGATACTCCAA
1 GGGGATACTCCAACCTCGGTTTTATTTTCAAAAACACTAATTTTTCACAATCAGGGATACTCCAA
* * * *
1633369 CCCTGGTTTTATTTTCAAAACACCAATTTTCTATAATC
66 CCCTGATTTTATTTTCAAAACACCAATTTTCCACAACC
* * * * * *
1633407 GAGGATACTCCAA-CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAAT-TGAGGACACTCC
1 GGGGATACTCCAACCT-CGGTTTTATTTTCAAAAACACTAATTTTTCACAATCAG-GGATACTCC
1633470 AACCC
64 AACCC
1633475 CGTTAATCAT
Statistics
Matches: 145, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
101 8 0.06
102 99 0.68
103 38 0.26
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (103 bp):
GGGGATACTCCAACCTCGGTTTTATTTTCAAAAACACTAATTTTTCACAATCAGGGATACTCCAA
CCCTGATTTTATTTTCAAAACACCAATTTTCCACAACC
Found at i:1633601 original size:28 final size:28
Alignment explanation
Indices: 1633559--1633637 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
1633549 TCTCACAATC
*
1633559 GGGGATACTCCAACCCCGTTATTTTCGT
1 GGGGATACTCCAACCCCGTTATTTTCGA
*
1633587 GGGGATACTCTAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
1633615 GGGGATACTCCAACCCCGTTATT
1 GGGGATACTCCAACCCCGTTATT
1633638 ATCTCCAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:1633616 original size:101 final size:100
Alignment explanation
Indices: 1633446--1633631 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 100
1633436 AAAAACACCA
* *
1633446 ATTTTTCACAATTGAGGACACTCCAACCCCGTTAATCATCGGGGATACTTCAACACCATTATTTA
1 ATTTCTCACAATCGAGGACACTCCAACCCCGTTAATCATCGGGGATACTTCAACACCATTATTTA
1633511 CGAGGGGATACTCCAACCCCTGCTCTAAAATATTG
66 CGAGGGGATACTCCAACCCCTGCTCTAAAATATTG
* * ** * *
1633546 ATTTCTCACAATCGGGGATACTCCAACCCCGTT-ATTTTCGTGGGGATAC-TCTAACCCCGTTAT
1 ATTTCTCACAATCGAGGACACTCCAACCCCGTTAATCATC--GGGGATACTTC-AACACCATTAT
*
1633609 TTTCGAGGGGATACTCCAACCCC
63 TTACGAGGGGATACTCCAACCCC
1633632 GTTATTATCT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
99 4 0.05
100 31 0.42
101 39 0.53
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (100 bp):
ATTTCTCACAATCGAGGACACTCCAACCCCGTTAATCATCGGGGATACTTCAACACCATTATTTA
CGAGGGGATACTCCAACCCCTGCTCTAAAATATTG
Found at i:1641466 original size:33 final size:33
Alignment explanation
Indices: 1641410--1641476 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1641400 TTCAACGATT
*
1641410 TGTATCGATACATAAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1641443 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1641476 T
1 T
1641477 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1641535 original size:13 final size:13
Alignment explanation
Indices: 1641517--1641541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1641507 ATTACTCAAA
1641517 TGTATCGATACAT
1 TGTATCGATACAT
1641530 TGTATCGATACA
1 TGTATCGATACA
1641542 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1655484 original size:6 final size:6
Alignment explanation
Indices: 1655468--1655529 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
1655458 GGCGTCCTCC
*
1655468 ACAAAA A-AAAA AC-AAA ACAAAA A-AGAAA AAAAAA ACAAACA A-AAAA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACA-AAA ACAAAA ACAAA-A ACAAAA
* *
1655514 ACAACA ACAACA ACAA
1 ACAAAA ACAAAA ACAA
1655530 CAAAAAGGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
5 13 0.27
6 32 0.67
7 3 0.06
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:1655484 original size:11 final size:11
Alignment explanation
Indices: 1655468--1655517 Score: 73
Period size: 12 Copynumber: 4.4 Consensus size: 11
1655458 GGCGTCCTCC
1655468 ACAAAAAAAAA
1 ACAAAAAAAAA
1655479 ACAAAACAAAAA
1 ACAAAA-AAAAA
*
1655491 AGAAAAAAAAA
1 ACAAAAAAAAA
1655502 ACAAACAAAAAA
1 ACAAA-AAAAAA
1655514 ACAA
1 ACAA
1655518 CAACAACAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
11 15 0.43
12 20 0.57
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:1655491 original size:12 final size:12
Alignment explanation
Indices: 1655468--1655534 Score: 68
Period size: 12 Copynumber: 5.5 Consensus size: 12
1655458 GGCGTCCTCC
1655468 ACAAAA-AAAAA
1 ACAAAACAAAAA
1655479 ACAAAACAAAAA
1 ACAAAACAAAAA
*
1655491 AGAAAA-AAAAA
1 ACAAAACAAAAA
1655502 AC-AAACAAAAAA
1 ACAAAAC-AAAAA
1655514 ACAACAACAACAACA
1 ACAA-AACAA-AA-A
1655529 ACAAAA
1 ACAAAA
1655535 AGGGTCCGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
10 3 0.06
11 12 0.26
12 17 0.36
13 3 0.06
14 7 0.15
15 5 0.11
ACGTcount: A:0.82, C:0.16, G:0.01, T:0.00
Consensus pattern (12 bp):
ACAAAACAAAAA
Found at i:1655491 original size:18 final size:18
Alignment explanation
Indices: 1655470--1655526 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 18
1655460 CGTCCTCCAC
1655470 AAAAAAAAAACAAAACAA
1 AAAAAAAAAACAAAACAA
1655488 AAAAGAAAAAA-AAAACAA
1 AAAA-AAAAAACAAAACAA
1655506 ACAAAAAAACAACAACAACAA
1 A-AAAAAAA-AACAA-AACAA
1655527 CAACAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 16 0.47
19 11 0.32
20 2 0.06
21 5 0.15
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAACAAAACAA
Found at i:1655500 original size:23 final size:22
Alignment explanation
Indices: 1655470--1655535 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
1655460 CGTCCTCCAC
1655470 AAAAAAAAAACAAAACAAAAAA
1 AAAAAAAAAACAAAACAAAAAA
1655492 GAAAAAAAAAAC-AAACAAAAAA
1 -AAAAAAAAAACAAAACAAAAAA
* * *
1655514 ACAACAACAACAACAACAAAAA
1 AAAAAAAAAACAA-AACAAAAA
1655536 GGGTCCGGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 8 0.21
22 11 0.29
23 19 0.50
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAACAAAACAAAAAA
Found at i:1657003 original size:30 final size:29
Alignment explanation
Indices: 1656969--1657221 Score: 167
Period size: 28 Copynumber: 8.6 Consensus size: 29
1656959 ATTCCTCACC
1656969 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTTCAAAAGCCCACAAGTCAGTGGCATC-T
* *
1656999 TTTC-AAAGCCCACAAATCAGTGGCACCCT
1 TTTCAAAAGCCCACAAGTCAGTGGCA-TCT
** *
1657028 TTTCCGAAGCCCACAAGTCGGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
* * *
1657057 TTTCCAAAGTCCACAACTCCA-TGGCACTCTT
1 TTTCAAAAGCCCACAAGT-CAGTGGCA-TC-T
** ** * * *
1657088 TTTCTTTTGTAAGTTCACAAGTTAGTGGTACCCT
1 TTTC----AAAAGCCCACAAGTCAGTGGCA-TCT
* *
1657122 TTTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
1657151 TTT-AAAAGCCCACAAGTCAGTGGCAATC-
1 TTTCAAAAGCCCACAAGTCAGTGGC-ATCT
* * *
1657179 TCT-AAAAGCCCACAAGTTAGTGGCAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCATCT
* *
1657206 CTTCAAAAGCACACAA
1 TTTCAAAAGCCCACAA
1657222 ATTAATGTAA
Statistics
Matches: 179, Mismatches: 32, Indels: 26
0.76 0.14 0.11
Matches are distributed among these distances:
27 3 0.02
28 54 0.30
29 53 0.30
30 42 0.23
31 5 0.03
34 6 0.03
35 16 0.09
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (29 bp):
TTTCAAAAGCCCACAAGTCAGTGGCATCT
Found at i:1657009 original size:29 final size:29
Alignment explanation
Indices: 1656969--1657203 Score: 154
Period size: 30 Copynumber: 7.9 Consensus size: 29
1656959 ATTCCTCACC
1656969 TTTCAAAAGCCCACAAGTCAGTGGCATCTT
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTT
* *
1656999 TTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCTT
* * *
1657029 TTCCGAAGCCCACAAGTCGGTGGCATCTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTT
* * *
1657058 TTCCAAAGTCCACAACTCCA-TGGCACTCTT
1 TTTCAAAGCCCACAAGT-CAGTGGCA-TCTT
* ** * * * *
1657088 TTTCTTTTGTAAGTTCACAAGTTAGTGGTACCCT
1 TTTC-----AAAGCCCACAAGTCAGTGGCATCTT
* *
1657122 TTTCAAAAGCCCACAAGTCAGTGGCAAC-C
1 TTTC-AAAGCCCACAAGTCAGTGGCATCTT
*
1657151 TTTAAAAGCCCACAAGTCAGTGGCAATC--
1 TTTCAAAGCCCACAAGTCAGTGGC-ATCTT
* * *
1657179 TCTAAAAGCCCACAAGTTAGTGGCA
1 TTTCAAAGCCCACAAGTCAGTGGCA
1657204 ACCTTCAAAA
Statistics
Matches: 164, Mismatches: 31, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
27 1 0.01
28 42 0.26
29 47 0.29
30 53 0.32
34 7 0.04
35 14 0.09
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTT
Found at i:1657042 original size:59 final size:59
Alignment explanation
Indices: 1656969--1657175 Score: 177
Period size: 59 Copynumber: 3.4 Consensus size: 59
1656959 ATTCCTCACC
*
1656969 TTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACCCT
1 TTTCAGAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACCCT
* * * * * *
1657028 TTTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCA-TGGCACTCTT
1 TTTCAGAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAAT-CAGTGGCAC-CCT
* ** * * * * * *
1657088 TTTCTTTTGTAAGTTCACAAGTTAGTGGTACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-
1 TTTC---AG-AAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAATCAGTGGCACCCT
*
1657151 TTT-AAAAGCCCACAAGTCAGTGGCA
1 TTTCAGAAGCCCACAAGTCAGTGGCA
1657176 ATCTCTAAAA
Statistics
Matches: 114, Mismatches: 26, Indels: 17
0.73 0.17 0.11
Matches are distributed among these distances:
58 16 0.14
59 47 0.41
60 8 0.07
63 4 0.04
64 23 0.20
65 16 0.14
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (59 bp):
TTTCAGAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACCCT
Found at i:1657166 original size:28 final size:28
Alignment explanation
Indices: 1657103--1657249 Score: 159
Period size: 28 Copynumber: 5.1 Consensus size: 28
1657093 TTTGTAAGTT
* *
1657103 CACAAGTTAGTGGTACCCTTTTCAAAAGCC
1 CACAAGTTAGTGGCAACC-TTT-AAAAGCC
*
1657133 CACAAGTCAGTGGCAACCTTTAAAAGCC
1 CACAAGTTAGTGGCAACCTTTAAAAGCC
* * *
1657161 CACAAGTCAGTGGCAATCTCTAAAAGCC
1 CACAAGTTAGTGGCAACCTTTAAAAGCC
* *
1657189 CACAAGTTAGTGGCAACCTTCAAAAGCA
1 CACAAGTTAGTGGCAACCTTTAAAAGCC
* * **
1657217 CACAAATTAATGTAAACCTTTTAAAAGCC
1 CACAAGTTAGTGGCAACC-TTTAAAAGCC
1657246 CACA
1 CACA
1657250 CAAGTTGGTG
Statistics
Matches: 100, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 70 0.70
29 15 0.15
30 15 0.15
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (28 bp):
CACAAGTTAGTGGCAACCTTTAAAAGCC
Found at i:1657342 original size:52 final size:51
Alignment explanation
Indices: 1657271--1657512 Score: 250
Period size: 52 Copynumber: 4.8 Consensus size: 51
1657261 CGTCTTCTTC
* * * *
1657271 TAAGTCCAATATTGTTGGCCCTGAATCAGCATATTGGCGCCTTTGGT-ACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-GTCACC-T
* * * *
1657323 TAAATCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T--CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCACCT
**
1657367 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA-CCT
* * * *
1657418 TAAGTCCTATATCGCTGGCCTTGGATCAGCATATTGGCATCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA-CCT
*
1657470 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1657513 CATCTTTAAC
Statistics
Matches: 158, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
43 34 0.22
46 2 0.01
47 2 0.01
50 2 0.01
52 118 0.75
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (51 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCACCT
Found at i:1657435 original size:95 final size:99
Alignment explanation
Indices: 1657272--1657512 Score: 260
Period size: 95 Copynumber: 2.4 Consensus size: 99
1657262 GTCTTCTTCT
* * * *
1657272 AAGTCCAATATTGTTGGCCCTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAATCCAATGTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAATCCAATATAG
1657337 CTGGCCTTGAATCAGCACATTGGCA-C-C-TC-C
66 CTGGCCTTGAATCAGCACATTGGCATCTCATCTC
* * *
1657367 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTT-GTCATCC-TTAAGTCCTATAT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-A-CCTTTAAATCCAATAT
* * * *
1657430 CGCTGGCCTTGGATCAGCATATTGGCATCTTTGTCATCTTT
64 AGCTGGCCTTGAATCAGCACATTGGCATC----TCATC-TC
* *
1657471 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
1657513 CATCTTTAAC
Statistics
Matches: 121, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
94 2 0.02
95 74 0.61
96 3 0.02
101 1 0.01
102 2 0.02
104 39 0.32
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (99 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAATCCAATATAG
CTGGCCTTGAATCAGCACATTGGCATCTCATCTC
Found at i:1658365 original size:13 final size:13
Alignment explanation
Indices: 1658347--1658371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1658337 CATAAAGTGT
1658347 TGTATCGATACAA
1 TGTATCGATACAA
1658360 TGTATCGATACA
1 TGTATCGATACA
1658372 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1658369 original size:33 final size:33
Alignment explanation
Indices: 1658327--1658393 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1658317 TTCAACGATT
1658327 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1658360 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1658393 T
1 T
1658394 TTAAGCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1664638 original size:13 final size:13
Alignment explanation
Indices: 1664620--1664644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1664610 CATAAAGTGT
1664620 TGTATCGATACAA
1 TGTATCGATACAA
1664633 TGTATCGATACA
1 TGTATCGATACA
1664645 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1664642 original size:33 final size:33
Alignment explanation
Indices: 1664600--1664666 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1664590 TTCAACGATT
1664600 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1664633 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1664666 T
1 T
1664667 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1673960 original size:6 final size:6
Alignment explanation
Indices: 1673945--1673995 Score: 58
Period size: 5 Copynumber: 9.3 Consensus size: 6
1673935 CTTCTCTTCT
*
1673945 AAAA-A AAAACA AAAACA AAAGCA AAAA-A AAAA-A AAAAC- AAAAC-
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA
1673988 AAAACA AA
1 AAAACA AA
1673996 GAAAAAAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
5 24 0.59
6 17 0.41
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:1673970 original size:22 final size:21
Alignment explanation
Indices: 1673945--1674003 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
1673935 CTTCTCTTCT
*
1673945 AAAAAAAAACAAAAACAAAAGC
1 AAAAAAAAAAAAAAACAAAA-C
1673967 AAAAAAAAAAAAAAACAAAAC
1 AAAAAAAAAAAAAAACAAAAC
*
1673988 AAAACAAAGAAAAAAA
1 AAAA-AAAAAAAAAAA
1674004 GAGAAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 5 0.15
22 29 0.85
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAAACAAAAC
Found at i:1673973 original size:9 final size:9
Alignment explanation
Indices: 1673946--1674001 Score: 53
Period size: 10 Copynumber: 5.9 Consensus size: 9
1673936 TTCTCTTCTA
1673946 AAAAAAAAC
1 AAAAAAAAC
1673955 AAAAACAAA-
1 AAAAA-AAAC
1673964 AGCAAAAAAA-
1 A--AAAAAAAC
1673974 AAAAAAAAC
1 AAAAAAAAC
1673983 AAAACAAAAC
1 AAAA-AAAAC
1673993 AAAGAAAAA
1 AAA-AAAAA
1674002 AAGAGAAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.17
9 10 0.24
10 19 0.46
11 5 0.12
ACGTcount: A:0.86, C:0.11, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1673975 original size:27 final size:26
Alignment explanation
Indices: 1673945--1674003 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
1673935 CTTCTCTTCT
1673945 AAAAAAAAACAAAAACAAAAGCAAAAAA
1 AAAAAAAAAC-AAAACAAAA-CAAAAAA
*
1673973 AAAAAAAAACAAAACAAAACAAAGAA
1 AAAAAAAAACAAAACAAAACAAAAAA
1673999 AAAAA
1 AAAAA
1674004 GAGAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 11 0.37
27 9 0.30
28 10 0.33
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.00
Consensus pattern (26 bp):
AAAAAAAAACAAAACAAAACAAAAAA
Found at i:1675099 original size:61 final size:59
Alignment explanation
Indices: 1674972--1675515 Score: 641
Period size: 55 Copynumber: 9.5 Consensus size: 59
1674962 TTCCTTCCGC
* * *
1674972 TTTT-CAGTCCTTAAAGAGCAGGACG----TCTCTTAAAGCCCACACGAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1675026 TTTTCTAATCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCC-TTTC-TTTTAAAGCCCACACAAGTTGGTGGCA
* *
1675087 TTTTCCAGTCCTCAAAGAGCAGGACG----TCTCTTAAAGCCCACACAAGTTAGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
1675142 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
1675197 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1675252 TTTTCTAGTCCTCAAAGAGCAGGACG-C---CGTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1675307 TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAG-TGAGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGC-CTTTCTTTT-AAAGCCCACACAAGTTG-GTGGCA
*
1675368 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1675428 TTTTCTAGTCTTCAAAGAGTAGGACGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCA
*
1675489 -CTTCCTAGTCCTCAAAGAGCAGGACGC
1 TTTTCC-AGTCCTCAAAGAGCAGGACGC
1675516 TCTCTCCTTT
Statistics
Matches: 425, Mismatches: 36, Indels: 51
0.83 0.07 0.10
Matches are distributed among these distances:
51 1 0.00
54 8 0.02
55 203 0.48
56 5 0.01
59 4 0.01
60 57 0.13
61 147 0.35
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (59 bp):
TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1675626 original size:60 final size:61
Alignment explanation
Indices: 1675554--1675789 Score: 300
Period size: 61 Copynumber: 3.9 Consensus size: 61
1675544 GAGCAGGATG
** *
1675554 CCTTTT-AAAGCTCACACAAGCCGGTGGCAC-TTTCAGTCCTTAAAGAGCAGGACGCCTTCT
1 CCTTTTCAAAGCTCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTT-T
* *
1675614 CCTTTT-AAAGCTCACACAAGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGATG-CTTT
1 CCTTTTCAAAGCTCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * * * *
1675673 CTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGACACCTTT
1 CCTTTT-CAAAGCTCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * *
1675735 TCTTTTCAAAGCTCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGAC
1 CCTTTTCAAAGCTCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAC
1675790 ACACTTCCTT
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
59 6 0.04
60 31 0.21
61 106 0.70
62 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (61 bp):
CCTTTTCAAAGCTCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTT
Found at i:1675661 original size:154 final size:158
Alignment explanation
Indices: 1675375--1675666 Score: 416
Period size: 154 Copynumber: 1.9 Consensus size: 158
1675365 GCATTTTCCA
** *
1675375 GTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCTT
1 GTCCTCAAAGAGCAGGACGCC--TTCTTTCAAAGCCCACACAAGCCGGTGGCACTTTCTAGTCTT
* *
1675440 CAAAGAGTAGGACGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
64 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
1675505 GAGCAGGACGCTCTCTCCTTTCACCTTTTT
129 GAGCAGGACGCTCTCTCCTTTCACCTTTTT
* *
1675535 GTCCTCAAAGAGCAGGATGCC-T-TTT-AAAGCTCACACAAGCCGGTGGCACTTTC-AGTCCTT-
1 GTCCTCAAAGAGCAGGACGCCTTCTTTCAAAGCCCACACAAGCCGGTGGCACTTTCTAGT-CTTC
* * *
1675595 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACTT-TTCAGTCTTCAAA
65 AAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAA
1675659 GAGCAGGA
129 GAGCAGGA
1675667 TGCTTTCTTT
Statistics
Matches: 120, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
153 1 0.01
154 68 0.57
155 27 0.22
156 3 0.03
157 1 0.01
160 20 0.17
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (158 bp):
GTCCTCAAAGAGCAGGACGCCTTCTTTCAAAGCCCACACAAGCCGGTGGCACTTTCTAGTCTTCA
AAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGA
GCAGGACGCTCTCTCCTTTCACCTTTTT
Found at i:1675686 original size:276 final size:276
Alignment explanation
Indices: 1675259--1675789 Score: 716
Period size: 276 Copynumber: 1.9 Consensus size: 276
1675249 GCATTTTCTA
** *
1675259 GTCCTCAAAGAGCAGGACGCCGTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCGTTTAAAGCCCACACAAGCCGGTGGCACTTTCCAGTCCTCAAAG
* * *
1675324 AGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTGAGTGGCATTTTCCAGTCCTCAAAGAGCA
66 AGCAGGACGCTTCTCCTTTTCAAAGCCCACACAAGTGAGTGGCATTTTCCAGTCCTCAAAGAGCA
** * * * *
1675389 GGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAAGAGTAGGACG
131 GGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACA
1675454 CCTTGTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTC-CTAGTCCTCAAAGAGCAGGACGCT
196 CCTT-TCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCTC-AGTCCTCAAAGAGCAGGACGCT
1675517 CTCTCCTTTCACCTTTTT
259 CTCTCCTTTCACCTTTTT
* * * *
1675535 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCTCACACAAGCCGGTGGCACTTT-CAGTCCTTAAAG
1 GTCCTCAAAGAGCAGGACGCCGTTTAAAGCCCACACAAGCCGGTGGCACTTTCCAGTCCTCAAAG
* *
1675599 AGCAGGACGCCTTCTCCTTTT-AAAGCTCACACAAGTTG-GTGGCACTTTT-CAGTCTTCAAAGA
66 AGCAGGACG-CTTCTCCTTTTCAAAGCCCACACAAG-TGAGTGGCA-TTTTCCAGTCCTCAAAGA
* * *
1675661 GCAGGATG-CTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCA
128 GCAGGACGCCTTT-TCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCA
* * * * *
1675725 GGACACCTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGAC
191 GGACACCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGAC
1675790 ACACTTCCTT
Statistics
Matches: 222, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
274 4 0.02
275 67 0.30
276 150 0.68
277 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (276 bp):
GTCCTCAAAGAGCAGGACGCCGTTTAAAGCCCACACAAGCCGGTGGCACTTTCCAGTCCTCAAAG
AGCAGGACGCTTCTCCTTTTCAAAGCCCACACAAGTGAGTGGCATTTTCCAGTCCTCAAAGAGCA
GGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACA
CCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGACGCTCT
CTCCTTTCACCTTTTT
Found at i:1675691 original size:215 final size:217
Alignment explanation
Indices: 1675314--1675728 Score: 585
Period size: 215 Copynumber: 1.9 Consensus size: 217
1675304 GCATTTTCCA
* *
1675314 GTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTGAGTGGCATTTTCCAGTCC
1 GTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGCGAGTGGCACTTTCCAGTCC
*
1675379 TCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAA
62 TCAAAGAGCAGGACGCCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAA
*
1675444 GAGTAGGACGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAG
127 GAGCAGGACGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAG
1675508 CAGGACGCTCTCTCCTTTCACCTTTTT
191 CAGGACGCTCTCTCCTTTCACCTTTTT
* *
1675535 GTCCTCAAAGAGCAGGATGC-CTTTT-AAAGCTCACACAAGCCG-GTGGCACTTT-CAGTCCTTA
1 GTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAG-CGAGTGGCACTTTCCAGTCCTCA
* *
1675596 AAGAGCAGGACGCCTTCTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTTTC-AGTCTTCAAAG
65 AAGAGCAGGACGCCTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCTTCAAAG
* * *
1675660 AGCAGGATG-CTT-TCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGG
128 AGCAGGACGCCTTGTCCTTTT--AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAG
1675723 CAGGAC
191 CAGGAC
1675729 ACCTTTTCTT
Statistics
Matches: 177, Mismatches: 11, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
213 6 0.03
214 27 0.15
215 108 0.61
216 16 0.09
221 20 0.11
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (217 bp):
GTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGCGAGTGGCACTTTCCAGTCCTCAA
AGAGCAGGACGCCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCTTCAAAGAGC
AGGACGCCTTGTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
CGCTCTCTCCTTTCACCTTTTT
Found at i:1675893 original size:42 final size:42
Alignment explanation
Indices: 1675772--1675905 Score: 126
Period size: 42 Copynumber: 3.1 Consensus size: 42
1675762 GCACTTTTCA
* * ** *
1675772 GTCCTCAAAGAGTAGGACACACTTCCTTCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCC--CTTTT-TCTTTT
*
1675817 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTCTTTT
* * * * *
1675859 GTCCTCAGAGAGCAGGATGTA-TTTCGTTTCCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-ATTTCCCTTTTTCTTTT
1675901 GTCCT
1 GTCCT
1675906 TGAAAAACGG
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.04
42 43 0.57
43 5 0.07
45 25 0.33
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.42
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTCTTTT
Found at i:1676692 original size:19 final size:21
Alignment explanation
Indices: 1676649--1676700 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1676639 TTCAATAATT
*
1676649 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
1676670 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
1676689 TGTATCGATACA
1 TGTATCGATACA
1676701 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:1679198 original size:51 final size:51
Alignment explanation
Indices: 1679142--1679381 Score: 320
Period size: 51 Copynumber: 4.6 Consensus size: 51
1679132 TTAAGTTTCT
* *
1679142 CAATTTTTCATAATCGGGGATACCCCAACCCCGATTTTA-TTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * * *
1679193 TAATTTTCCACAATCGGGGATACTCCAACTCTGATTTTATTTTCGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
*
1679244 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* ** * *
1679295 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
1679348 CAATTTTTCACAATCGGGGGATACTCCAACCCCG
1 CAATTTTTCACAATC-GGGGATACTCCAACCCCG
1679382 TTAATCATCG
Statistics
Matches: 162, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
51 92 0.57
52 38 0.23
53 32 0.20
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:1679391 original size:28 final size:27
Alignment explanation
Indices: 1679360--1679435 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
1679350 ATTTTTCACA
1679360 ATCGGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGGATACTCCAACCCCGTT-ATC
*
1679388 ATC-GGGGATACTCCAACCCCGTTATT
1 ATCGGGGGATACTCCAACCCCGTTATC
*
1679414 TTCGAGGGGATACTCCAACCCC
1 ATCG-GGGGATACTCCAACCCC
1679436 CGGGTTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 4 0.09
27 20 0.45
28 20 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (27 bp):
ATCGGGGGATACTCCAACCCCGTTATC
Done.