Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 25 of 378
Found at i:6217956 original size:21 final size:21
Alignment explanation
Indices: 6217824--6217962 Score: 58
Period size: 21 Copynumber: 6.7 Consensus size: 21
6217814 ATATATACTA
* * *
6217824 TTATTTTATTTATTTTTATTC
1 TTATTATATTTATTATTATAC
* *
6217845 CTAGTATATTTATTATTAATA-
1 TTATTATATTTATTATT-ATAC
* *
6217866 TTAGTATATGTATTTTATTATAC
1 TTATTATAT-T-TATTATTATAC
* *
6217889 GTATATATATATT-TT-TTATAA
1 TTAT-TATAT-TTATTATTATAC
* * *
6217910 ATAGTATTATTT-TCA-TATA-
1 TTATTA-TATTTATTATTATAC
*
6217929 TTCTTATATTTATTATTATAC
1 TTATTATATTTATTATTATAC
6217950 TTATTAT-TTTATT
1 TTATTATATTTATT
6217963 CTAAATTACT
Statistics
Matches: 89, Mismatches: 19, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
18 5 0.06
19 5 0.06
20 19 0.21
21 37 0.42
22 8 0.09
23 9 0.10
24 6 0.07
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
TTATTATATTTATTATTATAC
Found at i:6217983 original size:21 final size:20
Alignment explanation
Indices: 6217957--6218003 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
6217947 TACTTATTAT
*
6217957 TTTATTCTAAATTACTATGTA
1 TTTATTCTAAAATA-TATGTA
*
6217978 TTTATTTTAAAATATATGTA
1 TTTATTCTAAAATATATGTA
*
6217998 TATATT
1 TTTATT
6218004 TGTGTAAACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTATTCTAAAATATATGTA
Found at i:6217997 original size:20 final size:21
Alignment explanation
Indices: 6217957--6218004 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6217947 TACTTATTAT
* *
6217957 TTTATTCTAAATTACTATGTA
1 TTTATTTTAAAATACTATGTA
6217978 TTTATTTTAAAATA-TATGTA
1 TTTATTTTAAAATACTATGTA
*
6217998 TATATTT
1 TTTATTT
6218005 GTGTAAACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTATTTTAAAATACTATGTA
Found at i:6222010 original size:32 final size:32
Alignment explanation
Indices: 6221974--6222070 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
6221964 TGTATGCATT
6221974 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
* *
6222006 TTAGCATTTTAATAGCTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
6222038 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
6222070 T
1 T
6222071 GATAAGCATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:6226051 original size:23 final size:22
Alignment explanation
Indices: 6226025--6226067 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
6226015 ATTTTTCATA
6226025 TTAATATATATATATAT-ATGTTT
1 TTAATAT-TATAT-TATCATGTTT
6226048 TTAATATTATATTATCATGT
1 TTAATATTATATTATCATGT
6226068 ATATGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 9 0.47
23 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
TTAATATTATATTATCATGTTT
Found at i:6226070 original size:28 final size:28
Alignment explanation
Indices: 6225989--6226084 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 28
6225979 GTAAGTGTTC
* *
6225989 TAATACTATATCATATATACATATGCATTTT
1 TAATATTATAT-ATATATATATATG--TTTT
*
6226020 TCATATTAATATATATATATATATGTTTT
1 TAATATT-ATATATATATATATATGTTTT
*
6226049 TAATATTATAT-TATCATGTATATG-TTT
1 TAATATTATATATAT-ATATATATGTTTT
6226076 TAATATTAT
1 TAATATTAT
6226085 TAGCTATCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
27 15 0.26
28 12 0.21
29 10 0.17
31 17 0.29
32 4 0.07
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (28 bp):
TAATATTATATATATATATATATGTTTT
Found at i:6226269 original size:21 final size:21
Alignment explanation
Indices: 6226227--6226269 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6226217 CTACTATAAA
* *
6226227 TATATATATATCATATAGGTT
1 TATATACATATCATACAGGTT
*
6226248 TATATACATATCATACATGTT
1 TATATACATATCATACAGGTT
6226269 T
1 T
6226270 CTTATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (21 bp):
TATATACATATCATACAGGTT
Found at i:6226930 original size:19 final size:18
Alignment explanation
Indices: 6226906--6226949 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
6226896 TTTTATATAT
6226906 TATGTATGTATA-TATTAC
1 TATGTAT-TATAGTATTAC
*
6226924 ATATGTATTTTAGTATTAC
1 -TATGTATTATAGTATTAC
6226943 TATGTAT
1 TATGTAT
6226950 ACACTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (18 bp):
TATGTATTATAGTATTAC
Found at i:6229205 original size:23 final size:23
Alignment explanation
Indices: 6229178--6229222 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
6229168 CTCATTTTCA
6229178 ATTTTTTT-TTC-TTTTTCTTTT
1 ATTTTTTTCTTCTTTTTTCTTTT
6229199 ATTTTTTTCTTCTTTTTTCTTTT
1 ATTTTTTTCTTCTTTTTTCTTTT
6229222 A
1 A
6229223 AATTTGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 8 0.36
22 3 0.14
23 11 0.50
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (23 bp):
ATTTTTTTCTTCTTTTTTCTTTT
Found at i:6232885 original size:26 final size:26
Alignment explanation
Indices: 6232856--6232963 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
6232846 TGGTACAAAT
6232856 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
*
6232882 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
6232908 TGATAATGGGTTATGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
6232934 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
6232960 TGAT
1 TGAT
6232964 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 2 0.03
26 73 0.97
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:6234483 original size:22 final size:21
Alignment explanation
Indices: 6234456--6234496 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
6234446 CATGTTTGAC
*
6234456 TGTTGTTATTTACTGCATGCCA
1 TGTTGTTATTAACTG-ATGCCA
6234478 TGTTGTTATTAACTGATGC
1 TGTTGTTATTAACTGATGC
6234497 ATGGGACTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (21 bp):
TGTTGTTATTAACTGATGCCA
Found at i:6238605 original size:6 final size:6
Alignment explanation
Indices: 6238594--6238642 Score: 71
Period size: 6 Copynumber: 8.0 Consensus size: 6
6238584 ATGTCCTTGG
* *
6238594 TATTTT TATTTT TATTTT TATTTT TATTTAT TACTAT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTT-T TATTTT TATTTT TATTTT
6238643 GATGCCACTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:6238633 original size:19 final size:18
Alignment explanation
Indices: 6238594--6238642 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
6238584 ATGTCCTTGG
* *
6238594 TATTTTTATTTTTATTTT
1 TATTTTTATTTTTACTAT
6238612 TATTTTTATTTATTACTAT
1 TATTTTTATTT-TTACTAT
6238631 TATTTTTATTTT
1 TATTTTTATTTT
6238643 GATGCCACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
TATTTTTATTTTTACTAT
Found at i:6238910 original size:3 final size:3
Alignment explanation
Indices: 6238902--6238951 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
6238892 GTATTTCTAC
*
6238902 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6238950 AT
1 AT
6238952 ATATAGTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6239421 original size:22 final size:22
Alignment explanation
Indices: 6239396--6239437 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6239386 TTTTTTATAC
6239396 ATATTAT-TACTATTTTCAATAA
1 ATATTATATA-TATTTTCAATAA
*
6239418 ATATTGTATATATTTTCAAT
1 ATATTATATATATTTTCAAT
6239438 CTAGTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTATATATATTTTCAATAA
Found at i:6245912 original size:10 final size:10
Alignment explanation
Indices: 6245897--6245948 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
6245887 AACTTAGGTT
6245897 AATTATAAAA
1 AATTATAAAA
6245907 AATTATAAAA
1 AATTATAAAA
6245917 AA-TATAAAA
1 AATTATAAAA
*
6245926 AATTCTTTAAAA
1 AA-T-TATAAAA
*
6245938 AATTCTAAAA
1 AATTATAAAA
6245948 A
1 A
6245949 TTTCTCTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 9 0.24
10 19 0.51
11 1 0.03
12 8 0.22
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (10 bp):
AATTATAAAA
Found at i:6245953 original size:22 final size:21
Alignment explanation
Indices: 6245900--6245940 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
6245890 TTAGGTTAAT
*
6245900 TATAAAAAA-T-TATAAAAAA
1 TATAAAAAATTCTTTAAAAAA
6245919 TATAAAAAATTCTTTAAAAAA
1 TATAAAAAATTCTTTAAAAAA
6245940 T
1 T
6245941 TCTAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TATAAAAAATTCTTTAAAAAA
Found at i:6248863 original size:19 final size:19
Alignment explanation
Indices: 6248835--6248884 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
6248825 GTACCCGATT
*
6248835 ACTACTCAGCAGGCCTAAA
1 ACTACCCAGCAGGCCTAAA
6248854 ACTACCCAGCAGGCCTAAA
1 ACTACCCAGCAGGCCTAAA
6248873 ACTACCCAGCAG
1 ACTACCCAGCAG
6248885 ACCCATTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.36, C:0.36, G:0.16, T:0.12
Consensus pattern (19 bp):
ACTACCCAGCAGGCCTAAA
Found at i:6250945 original size:23 final size:23
Alignment explanation
Indices: 6250919--6250985 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
6250909 ATTAATTACT
* *
6250919 TATTTTATACTTATATTTA-TATA
1 TATTATATAATTAT-TTTACTATA
6250942 TATTATATAATTATTTTACTATA
1 TATTATATAATTATTTTACTATA
* *
6250965 -AATATA-AATTCTTTTAC-ATA
1 TATTATATAATTATTTTACTATA
6250985 T
1 T
6250986 TAAGTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 3 0.08
21 10 0.26
22 9 0.24
23 16 0.42
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATATAATTATTTTACTATA
Found at i:6250964 original size:21 final size:21
Alignment explanation
Indices: 6250914--6250987 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
6250904 TCATCATTAA
* *
6250914 TTACT-TATTTTATACTTATAT
1 TTACTATATTATATAATTAT-T
*
6250935 TTATATATATTATATAATTATT
1 TTA-CTATATTATATAATTATT
* *
6250957 TTACTATA-AATATAAATTCTT
1 TTACTATATTATAT-AATTATT
6250978 TTAC-ATATTA
1 TTACTATATTA
6250988 AGTATTTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 7 0.17
21 18 0.43
22 5 0.12
23 12 0.29
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TTACTATATTATATAATTATT
Found at i:6252631 original size:15 final size:16
Alignment explanation
Indices: 6252611--6252649 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
6252601 CATTAAAAAA
*
6252611 ATATATATACATA-AT
1 ATATATATAAATACAT
6252626 ATATATA-AAATACAT
1 ATATATATAAATACAT
6252641 ATATATATA
1 ATATATATA
6252650 TATATGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 16 0.76
16 1 0.05
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATATAAATACAT
Found at i:6253244 original size:27 final size:27
Alignment explanation
Indices: 6253214--6253275 Score: 108
Period size: 26 Copynumber: 2.3 Consensus size: 27
6253204 GGTTTCTTGG
6253214 TTTTTTTTGGGGGTTAGG-TTTTTCTT
1 TTTTTTTTGGGGGTTAGGTTTTTTCTT
6253240 TTTTTTTTGGGGGTTAGGTTTTTTCTT
1 TTTTTTTTGGGGGTTAGGTTTTTTCTT
6253267 TTTTCTTTT
1 TTTT-TTTT
6253276 TTTGGTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 18 0.53
27 12 0.35
28 4 0.12
ACGTcount: A:0.03, C:0.05, G:0.23, T:0.69
Consensus pattern (27 bp):
TTTTTTTTGGGGGTTAGGTTTTTTCTT
Found at i:6254052 original size:88 final size:83
Alignment explanation
Indices: 6253949--6255540 Score: 381
Period size: 88 Copynumber: 19.0 Consensus size: 83
6253939 AACAGACATT
** * *
6253949 AAAAACAGAAATTGAAAATAGCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
6254014 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * ** *
6254037 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CATGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
6254101 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * ** *** *
6254120 AAATTAAAAGA-CTT--AACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCATGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
6254181 ATGAGTTGAATTTTTTTGAAAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * ** *
6254204 AAAAACAGAAATTGAAAATAGCTCAGCACATGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
6254269 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * ** *
6254292 AAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCAAAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
6254357 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** ** * *
6254375 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
6254435 GTTGATTTTTT-------TG
64 GTTGATTTTTTGAAAAACTG
* ** * *** *
6254448 AAAGACAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
6254513 TTGATTTTTTG-AAAAC--
65 TTGATTTTTTGAAAAACTG
* * * * ** ** *
6254529 --AGA-A-A--TTGAAAATACCTC-AACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATACGAG
1 AAAAACAGATTTTGAAAATACCTCGCATGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAG
* *
6254586 TTGA-ATTTTGAAAACAGAAATTG
65 TTGATTTTTTG---A-A-AAACTG
** ** * * ** *
6254609 AAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCAACTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
6254674 TTGA-TTTTTGAAAAA-T-
65 TTGATTTTTTGAAAAACTG
* ** **** ** * *
6254690 ATAAATTGAAGTAAAAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATA
1 AAAAACAG-A-T-TTTGAAAATACCTC-GCATGTGAGC-CAAGGCTCAACTCACCTCTCGCAATA
*
6254754 TGAGTTGATTTTTTTGAAAGACAGAAATTG
61 TGAGTTGA-TTTTTT----GA-A-AAACTG
* ** * * **
6254784 AAAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
6254849 TTGATTTTTT-------TG
65 TTGATTTTTTGAAAAACTG
* ** * **
6254861 AAAGACAGAAATTG-AAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* *
6254925 TCGATTTTTTTTTGAAAGGCAGAAATTG
65 TTGA---TTTTTTG--A---A-AAACTG
* ** * * * ** * *
6254953 AAAAACGGAAATTGGAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCGTCGCTCGCAATACGA
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
6255017 GTTGACTTTTTTG----AC--
64 GTTGA-TTTTTTGAAAAACTG
** * * * * *
6255032 ---AACAGAAATTGAAATTACCTC-AACGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
*
6255092 TTGATTTTTTTTGAAAGGCAGAAATTG
65 TTGA--TTTTTTG--A---A-AAACTG
* ** * * * * *
6255119 AAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCACTCGCAATACGA
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
6255183 GTTGATTTTTT-------TG
64 GTTGATTTTTTGAAAAACTG
* ** * * *
6255196 -ACAACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
* *
6255257 GTTAATTTTTTTTTGAAAGACAGAAATTG
64 GTTGA---TTTTTT----GA-A-AAACTG
* ** * * * * *
6255286 AAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTTGCAATACGA
1 AAAAACAGATTTTGAAAATACCTC-GCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
* * *
6255350 GTTGATTCTTTCAAAAACATAATA
64 GTTGATTTTTTGAAAAAC----TG
** * *
6255374 ATGAAAACAGAAATTGAAAATACCTCG-GTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 A--AAAACAGATTTTGAAAATACCTCGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATG
* * * *
6255437 AGCTGATTCTTTCAAAAACATAAT
63 AGTTGATTTTTTGAAAAAC-T--G
** *
6255461 AATGAAGACAGAAATTGAAAATACCTCGGC--GTGA-CCTGAGGCTCAACTCACCTCTCGCAATA
1 AA--AA-ACAGATTTTGAAAATACCTC-GCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
*
6255523 TGAGTTGA-ATTTTGAAAA
61 TGAGTTGATTTTTTGAAAA
6255541 CAGAAATTGA
Statistics
Matches: 1173, Mismatches: 184, Indels: 295
0.71 0.11 0.18
Matches are distributed among these distances:
72 7 0.01
73 31 0.03
74 70 0.06
75 21 0.02
76 91 0.08
77 76 0.06
78 10 0.01
79 54 0.05
80 9 0.01
81 9 0.01
82 18 0.02
83 46 0.04
84 98 0.08
85 19 0.02
86 21 0.02
87 34 0.03
88 265 0.23
89 4 0.00
90 69 0.06
91 81 0.07
92 55 0.05
93 80 0.07
94 5 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:6254153 original size:30 final size:30
Alignment explanation
Indices: 6254117--6254178 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
6254107 TTTTGAAAAA
*
6254117 CAGAAATT-AAAAGACTTAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
6254147 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
6254177 CA
1 CA
6254179 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:6254298 original size:14 final size:14
Alignment explanation
Indices: 6254275--6254309 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6254265 TGAGTTGATT
6254275 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
6254288 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
6254302 TTTGAAAA
1 TTTGAAAA
6254310 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:6254416 original size:167 final size:165
Alignment explanation
Indices: 6254160--6255582 Score: 1279
Period size: 167 Copynumber: 8.5 Consensus size: 165
6254150 AAATTAAAAA
* *
6254160 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAAACAGAAATTGAAAATAG
1 GCTCAACTCACATCTCGCAATATGAGTTG-ATTTTTTTG------AAAACAGAAATTGAAAATAC
* * * *
6254225 CTCAGCACATG-AGC-CAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAG
59 CTCAG--CGTGTATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAG
* * ** * * *
6254286 AATTTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAG
121 AAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
** * * *
6254331 GCTCAACTCACATCTCAAAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCA
1 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCTCA
*
6254396 GTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGAC-------
63 GCGTGT-ATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAGAAATT
* * ** *
6254454 -----A--GAAATTGAAAATAGCTCAGCGCATGAGCC-AAG
126 GAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAG
* * *
6254487 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
* * ** * *
6254551 TGTCT-TGAGGCTCAACTCATTTCTCGCAATACGAGTTGA-ATTTTGAAA-ACAGAAATTGAAAA
66 TGTATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAA
* *
6254613 ATGGAAATTGAAAATACCTCGGCGTGTGATCTGAG
131 ACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* *
6254648 GCTCAACTCA-ACTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTGAAGTAAAAAAAA
1 GCTCAACTCACA-TCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATT---G------AAA
*
6254710 ATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGA
55 ATACCTCAGCGTGT-ATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGA
* *
6254775 CAGAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAG
118 CAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* *
6254823 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG-AAATAGCTCAGC
1 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
* * * * *
6254887 GCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTGAAAGGCAGAAAT
65 GTGT-ATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAGACAGAAAT
* *
6254951 TGAAAAACGGAAATTGGAAATACCTCAGCGTGTGACCTGAG
125 TGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* * * * * * *
6254992 GCTCAACTCGTC-GCTCGCAATACGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCTCAAC
1 GCTCAACTC-ACATCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
* * *
6255056 GTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
65 GTGTATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAGACAGAAATTGA
6255120 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
128 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* * * *
6255158 GCTCAACTCGCCA-CTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTC-ACATCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
* * *
6255222 GTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTTGAAAGACAGAAATTG
65 GTGTATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAGACAGAAATTG
6255286 AAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
127 AAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* * * *
6255325 GCTCAACTCGCCTCTTGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAATTG
1 GCTCAACTCACATCTCGCAATATGAGTTGA-T-TTT--------T--T--TGAAAACAGAAATTG
* * * * *
6255390 AAAATACCTC-G-GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTCTTTCAAA
52 AAAATACCTCAGCGTGT-ATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
* * * * *
6255453 AACATAATAATG-AAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAG
116 GACAGAA-ATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
* * *
6255501 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
* *
6255564 TGTCT-TGAGGCTCAACTCA
66 TGTATCTGAAGCTCAACTCA
6255583 TTTTGAACAG
Statistics
Matches: 1071, Mismatches: 109, Indels: 155
0.80 0.08 0.12
Matches are distributed among these distances:
147 2 0.00
148 8 0.01
150 30 0.03
151 1 0.00
152 15 0.01
154 11 0.01
155 7 0.01
156 45 0.04
157 2 0.00
158 1 0.00
159 1 0.00
160 45 0.04
161 62 0.06
162 5 0.00
164 2 0.00
165 14 0.01
166 162 0.15
167 203 0.19
168 14 0.01
169 116 0.11
170 27 0.03
171 26 0.02
172 31 0.03
174 9 0.01
175 75 0.07
176 40 0.04
177 14 0.01
178 37 0.03
179 8 0.01
180 1 0.00
181 57 0.05
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (165 bp):
GCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTGAAAA
ACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
Found at i:6254417 original size:79 final size:79
Alignment explanation
Indices: 6254288--6255290 Score: 601
Period size: 76 Copynumber: 12.3 Consensus size: 79
6254278 GAAAACAGAA
** * * * * * **
6254288 TTTGAAAAACAGATTTTG--AAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATCTCAAA
1 TTTGAAAAACAGAAATTGAAAAAATACCTCAG-CGTGTGATCTGAAGCTCAACTCACCTCTCGCA
*
6254350 ATGTGAGTTGATTTT
65 ATATGAGTTGATTTT
* * *
6254365 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTGAAAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
6254430 TATGAGTTGATTTT
66 TATGAGTTGATTTT
* * ** * *
6254444 TTTGAAAGACAGAAATTG--AAAATAGCTCAGCGCATGAGC-CAAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTGAAAAAATACCTCAGCGTGTGATCTGAA-GCTCAACTCACCTCTCGCA
*
6254506 ATATAAGTTGA-TTT
65 ATATGAGTTGATTTT
* * * **
6254520 TTTG-AAAACAGAAATTG--AAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAA
1 TTTGAAAAACAGAAATTGAAAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
* *
6254580 TACGAGTTGA--AT
66 TATGAGTTGATTTT
* *
6254592 TTTG-AAAACAGAAATTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACT
1 TTTGAAAAACAGAAA-T------T-G-AA---AAAATACCTCAGCGTGTGATCTGAAGCTCAACT
*
6254656 CAACTCTCGCAATATGAGTTGA--TT
54 CACCTCTCGCAATATGAGTTGATTTT
* * *
6254680 TTTGAAAAATATAAATTGAAGTAAAAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCT
1 TTTGAAAAACAGAAATT---G----AAAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCT
6254745 CTCGCAATATGAGTTGATTTT
59 CTCGCAATATGAGTTGATTTT
* *
6254766 TTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACT
1 TTTGAAAAACAGAAATT--------G-AA---AAAATACCTCAGCGTGTGATCTGAAGCTCAACT
6254831 CACCTCTCGCAATATGAGTTGATTTT
54 CACCTCTCGCAATATGAGTTGATTTT
* * * * *
6254857 TTTGAAAGACAGAAATTG---AAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTGAAAAAATACCTCAGCGTGTGATCTGAA-GCTCAACTCACCTCTCGCA
*
6254918 ATATGAGTCGATTTTTT
65 ATATGAGTTGA--TTTT
** * *
6254935 TTTGAAAGGCAGAAATTGAAAAACGGAAATTGGAAATACCTCAGCGTGTGACCTGAGGCTCAACT
1 TTTGAAAAACAGAAATT--------GAAA----AAATACCTCAGCGTGTGATCTGAAGCTCAACT
** * * *
6255000 CGTCGCTCGCAATACGAGTTGACTTT
54 CACCTCTCGCAATATGAGTTGATTTT
* * * * *
6255026 TTTG-ACAACAGAAATTG--AAATTACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTGAAAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
6255086 TATGAGTTGATTTTT
66 TATGAGTTGA-TTTT
** * * *
6255101 TTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACT
1 TTTGAAAAACAGAAATT--------G-AA---AAAATACCTCAGCGTGTGATCTGAAGCTCAACT
* * *
6255166 CGCCACTCGCAATACGAGTTGATTTT
54 CACCTCTCGCAATATGAGTTGATTTT
* * * *
6255192 TTTG-ACAACAGAAATTG--AAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTGAAAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
*
6255252 TATGAGTTAATTTTTT
66 TATGAGTTGA--TTTT
*
6255268 TTTGAAAGACAGAAATTGAAAAA
1 TTTGAAAAACAGAAATTGAAAAA
6255291 CGGAAATTGA
Statistics
Matches: 740, Mismatches: 107, Indels: 156
0.74 0.11 0.16
Matches are distributed among these distances:
72 15 0.02
73 27 0.04
74 65 0.09
75 33 0.04
76 101 0.14
77 70 0.09
78 20 0.03
79 67 0.09
80 3 0.00
82 3 0.00
83 1 0.00
84 53 0.07
86 32 0.04
87 4 0.01
88 40 0.05
89 8 0.01
90 32 0.04
91 90 0.12
92 33 0.04
93 42 0.06
94 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (79 bp):
TTTGAAAAACAGAAATTGAAAAAATACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTT
Found at i:6254497 original size:77 final size:74
Alignment explanation
Indices: 6254329--6254612 Score: 288
Period size: 77 Copynumber: 3.8 Consensus size: 74
6254319 ATGTGACCCG
* ** * * *
6254329 AGGCTCAACTCACATCTCAAAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATACCT
* *
6254394 CAGTGTGTGATCTGA
62 CA--GCGTGATCTCA
*
6254409 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
6254473 GCGCATGAGC-CA
64 GCG--TGATCTCA
* *
6254485 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGC
**
6254550 GTG-TCTTG
66 GTGATCTCA
** * *
6254558 AGGCTCAACTCATTTCTCGCAATACGAGTTGA-ATTTTGAAAACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAA
6254613 ATGGAAATTG
Statistics
Matches: 178, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
72 23 0.13
73 30 0.17
75 24 0.13
76 12 0.07
77 43 0.24
78 3 0.02
79 42 0.24
80 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (74 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGC
GTGATCTCA
Found at i:6254588 original size:73 final size:74
Alignment explanation
Indices: 6254328--6254612 Score: 290
Period size: 79 Copynumber: 3.8 Consensus size: 74
6254318 CATGTGACCC
* ** * * *
6254328 GAGGCTCAACTCACATCTCAAAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACC
* *
6254393 TCAGTGTGTGATCT
63 TCAGCGTGT-CT-T
* *
6254407 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTC
* *
6254472 AGCGCATGAGC-C
65 AGCG--TG-TCTT
* *
6254484 AAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
*
6254548 ACGTGTCTT
66 GCGTGTCTT
** * *
6254557 GAGGCTCAACTCATTTCTCGCAATACGAGTTGA--ATTTTGAAAACAGAAATTGAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAA
6254613 ATGGAAATTG
Statistics
Matches: 176, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
72 23 0.13
73 30 0.17
75 22 0.12
76 10 0.06
77 42 0.24
78 3 0.02
79 46 0.26
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (74 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCTT
Found at i:6254724 original size:84 final size:85
Alignment explanation
Indices: 6254521--6255552 Score: 718
Period size: 88 Copynumber: 12.1 Consensus size: 85
6254511 AGTTGATTTT
* * ** *
6254521 TTGAAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAATACG
1 TTGAAAA-AGAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
*
6254584 AGTTGAATTTTG-AAAACAGAAA
63 AGTTGATTTTTGAAAAACAGAAA
* *
6254606 TTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCAACTCTCGCAATAT
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
* *
6254671 GAGTTGATTTTTGAAAAATATAAA
62 GAGTTGATTTTTGAAAAACAGAAA
* * *
6254695 TTGAAGTAA-AAA-AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAG
1 TTGAA-AAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6254758 TTGATTTTTTTGAAAGACAGAAA
65 TTGA--TTTTTGAAAAACAGAAA
6254781 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
6254846 GAGTTGATTTTTTTGAAAGACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
* * * **
6254872 TT------G-----AAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* **
6254926 CGATTTTTTTTTGAAAGGCAGAAA
66 TGA----TTTTTGAAAAACAGAAA
* * ** * *
6254950 TTGAAAAACGGAAATTGGAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGTCGCTCGCAATAC
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
6255015 GAGTTGACTTTTTTG-ACAACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
* *
6255040 TT------GAAAT----TACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
**
6255093 TGATTTTTTTTGAAAGGCAGAAA
66 TGA---TTTTTGAAAAACAGAAA
* * * * *
6255116 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
6255181 GAGTTGATTTTTTTG-ACAACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
*
6255206 TT------GAAAT----TACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
6255259 TAATTTTTTTTTGAAAGACAGAAA
66 TGA----TTTTTGAAAAACAGAAA
* * * * *
6255283 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTTGCAATAC
1 TTGAAAAA--GAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
* *
6255348 GAGTTGATTCTTTCAAAAACATAATA
62 GAGTTGATT-TTTGAAAAACAGAA-A
* *
6255374 ATGAAAACAGAAATTGAAAATACCTC-G-GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAA-AGAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
6255437 AGCTGATTCTTTCAAAAACATAATA
63 AGTTGATT-TTTGAAAAACAGAA-A
* * * *
6255462 ATGAAGACAGAAATTGAAAATACCTC-G-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAA-AAAGAAA-T-AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
*
6255525 AGTTGAATTTTG-AAAACAGAAA
63 AGTTGATTTTTGAAAAACAGAAA
6255547 TTGAAA
1 TTGAAA
6255553 TTACCTCAGC
Statistics
Matches: 790, Mismatches: 85, Indels: 145
0.77 0.08 0.14
Matches are distributed among these distances:
74 64 0.08
75 7 0.01
76 89 0.11
77 10 0.01
78 20 0.03
81 2 0.00
82 8 0.01
83 1 0.00
84 57 0.07
85 19 0.02
86 51 0.06
87 7 0.01
88 161 0.20
89 17 0.02
90 59 0.07
91 108 0.14
92 34 0.04
93 76 0.10
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (85 bp):
TTGAAAAAGAAATAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAACAGAAA
Found at i:6254786 original size:14 final size:14
Alignment explanation
Indices: 6254767--6254801 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6254757 GTTGATTTTT
*
6254767 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
6254781 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
6254795 TTGAAAA
1 TTGAAAA
6254802 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:6254828 original size:91 final size:89
Alignment explanation
Indices: 6254524--6254877 Score: 456
Period size: 91 Copynumber: 4.0 Consensus size: 89
6254514 TGATTTTTTG
* * * ** *
6254524 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
6254587 TGAATTTTGAAA-ACAGAAATTGA
66 TGATTTTTGAAAGACAGAAATTGA
* * *
6254610 AAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCAACTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
6254675 TGATTTTTGAAAAATATAAATTGA
66 TGATTTTTGAAAGACAGAAATTGA
* * *
6254699 AGTAA---AAA---AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAG
1 A-AAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
6254758 TTGATTTTTTTGAAAGACAGAAATTGA
65 TTGA--TTTTTGAAAGACAGAAATTGA
6254785 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
6254850 TGATTTTTTTGAAAGACAGAAATTGA
66 TGA--TTTTTGAAAGACAGAAATTGA
6254876 AA
1 AA
6254878 TAGCTCAGCG
Statistics
Matches: 234, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
84 51 0.22
85 2 0.01
86 45 0.19
87 4 0.02
88 42 0.18
89 10 0.04
90 2 0.01
91 78 0.33
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (89 bp):
AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAGACAGAAATTGA
Found at i:6255083 original size:74 final size:75
Alignment explanation
Indices: 6254960--6255288 Score: 204
Period size: 74 Copynumber: 4.1 Consensus size: 75
6254950 TTGAAAAACG
* **
6254960 GAAATTGGAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGTCGCTCGCAATACGAGTTGA-CT
1 GAAATT-GAAATACCTCAACGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATCT
6255024 TTTTTGACAA-CA
64 TTTTTGA-AAGCA
* * *
6255036 GAAATTGAAATTACCTCAACGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAA-TACCTCAACGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATCTT
6255100 TTTTGAAAGGCA
65 TTTTGAAA-GCA
* ** ** * * *
6255112 GAAATTGAAA-AACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGC
1 GAAATTGAAATACCTCAACGTG----TACCT----GAG-G--CTCA-ACTC-AC-CG---CTCGC
6255176 AATACGAGTTGAT-TTTTTTGACAA-CA
49 AATACGAGTTGATCTTTTTTGA-AAGCA
* * * * *
6255202 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
1 GAAATTGAAA-TACCTCAACGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA-TCT
6255266 TTTTTGAAAGACA
64 TTTTTGAAAG-CA
6255279 GAAATTGAAA
1 GAAATTGAAA
6255289 AACGGAAATT
Statistics
Matches: 196, Mismatches: 28, Indels: 57
0.70 0.10 0.20
Matches are distributed among these distances:
74 55 0.28
75 15 0.08
76 38 0.19
77 13 0.07
78 3 0.02
79 6 0.03
80 3 0.02
82 1 0.01
83 4 0.02
84 1 0.01
86 3 0.02
87 6 0.03
88 3 0.02
89 1 0.01
90 12 0.06
91 8 0.04
92 24 0.12
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (75 bp):
GAAATTGAAATACCTCAACGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATCTTT
TTTGAAAGCA
Found at i:6255206 original size:90 final size:89
Alignment explanation
Indices: 6255036--6255211 Score: 248
Period size: 92 Copynumber: 2.0 Consensus size: 89
6255026 TTTGACAACA
* * *
6255036 GAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
6255101 TTTGAAAGGCAGAAATTGAAAAACG
66 TTTGAAA-GCAGAAATTGAAAAACG
** *
6255126 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGA-TT
1 GAAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
6255190 TTTTTGACAA-CAGAAATTGAAA
64 TTTTTGA-AAGCAGAAATTGAAA
6255212 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
90 33 0.43
91 9 0.12
92 35 0.45
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (89 bp):
GAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
TTTGAAAGCAGAAATTGAAAAACG
Found at i:6255288 original size:14 final size:14
Alignment explanation
Indices: 6255269--6255303 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6255259 TAATTTTTTT
*
6255269 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
6255283 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
6255297 TTGAAAA
1 TTGAAAA
6255304 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:6255431 original size:181 final size:176
Alignment explanation
Indices: 6255198--6255530 Score: 461
Period size: 181 Copynumber: 1.9 Consensus size: 176
6255188 TTTTTTTGAC
* * *
6255198 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAA-
* * * * *
6255263 TTTTTTTTGAAAGACAGAA-ATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGC
65 --TTCTTTCAAAAACAGAATAATG-AAAACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGC
* *
6255327 TCAACTCGCCTCTTGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
125 TCAACTCACCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
* * *
6255379 AACAGAAATTGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
* *
6255444 TCTTTCAAAAACATAATAATGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
66 TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
*
6255509 CACCTCTCGCAATATGAGTTGA
131 CACCTCTCGCAATACGAGTTGA
6255531 ATTTTGAAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
176 37 0.27
178 37 0.27
179 3 0.02
181 58 0.43
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (176 bp):
AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAAT
TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
CACCTCTCGCAATACGAGTTGATTCTTTCAAAAACATAATAATGAA
Found at i:6255596 original size:49 final size:49
Alignment explanation
Indices: 6255539--6255634 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
6255529 GAATTTTGAA
*
6255539 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
6255588 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
6255635 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:6255668 original size:72 final size:72
Alignment explanation
Indices: 6255588--6255728 Score: 255
Period size: 72 Copynumber: 2.0 Consensus size: 72
6255578 ACTCATTTTG
6255588 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6255653 TTTTGAA
66 TTTTGAA
* * *
6255660 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTTAACTCATTTTTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6255725 TTTT
66 TTTT
6255729 TTTTTTTGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:6255688 original size:121 final size:121
Alignment explanation
Indices: 6255468--6255707 Score: 390
Period size: 121 Copynumber: 2.0 Consensus size: 121
6255458 AATAATGAAG
**
6255468 ACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 ACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
*
6255533 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTGA
66 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTGA
* * * **
6255589 ACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 ACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
* *
6255654 TTTGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTTAACTCATTTT
66 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTT
6255708 TCGCAATATG
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
121 109 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (121 bp):
ACAGAAATTGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTGA
Found at i:6255797 original size:82 final size:78
Alignment explanation
Indices: 6255588--6255809 Score: 188
Period size: 72 Copynumber: 2.9 Consensus size: 78
6255578 ACTCATTTTG
* ** * * ** *
6255588 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAATATGACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
6255652 -----ATTTTGAA
66 TTTTTTTTTTGAA
* * * * * ** * *
6255660 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTTAACTCATTTTTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAATATGACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTG-A
6255725 TTTTTTTTTTTGAA
65 TTTTTTTTTTTGAA
6255739 AGACAGAAATTGAAAATACCTCAGCATATGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAAATACCTCA--ATATG-ACTCGAGGCTCAACTCACCTCTCGCAATATGAGC
6255803 TGATTTT
62 TGATTTT
6255810 GAAAAAGTAG
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
72 60 0.48
73 1 0.01
79 8 0.06
80 20 0.16
81 5 0.04
82 31 0.25
83 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (78 bp):
AACAGAAATTGAAAATACCTCAATATGACTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTTTTTTTTGAA
Found at i:6255878 original size:54 final size:54
Alignment explanation
Indices: 6255778--6255883 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
6255768 GAACCGAGGC
*
6255778 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
6255832 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
6255884 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:6255930 original size:140 final size:140
Alignment explanation
Indices: 6255734--6256081 Score: 626
Period size: 140 Copynumber: 2.5 Consensus size: 140
6255724 ATTTTTTTTT
*
6255734 TTGAAAGACAGAAATTGAAAATACCTCAGCATATGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
6255798 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
6255863 TTGAACAACGTAAA
127 TTGAACAACGTAAA
*
6255877 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAATTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
6255942 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
6256007 ACAACGTAAA
131 ACAACGTAAA
*
6256017 TTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
6256082 TTGAAATTAA
Statistics
Matches: 200, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
139 3 0.01
140 168 0.84
142 23 0.12
143 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:6256148 original size:72 final size:71
Alignment explanation
Indices: 6256014--6256179 Score: 226
Period size: 72 Copynumber: 2.3 Consensus size: 71
6256004 TGAACAACGT
* * ** * *
6256014 AAATTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
6256079 GAGTTG
66 GAGTTG
*
6256085 AAATTAAAACACAAAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCAATA
6256150 TGAGTTG
65 TGAGTTG
**
6256157 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
6256180 GGCTTAACTC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:6256274 original size:122 final size:124
Alignment explanation
Indices: 6256054--6256300 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 124
6256044 GTGTGACCTG
* *
6256054 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAACG
6256119 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
6256179 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAACG
* * *
6256241 TGCCCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
6256300 A
1 A
6256301 ATACCTCAAC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 16 0.14
122 62 0.55
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAACG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:6256322 original size:71 final size:70
Alignment explanation
Indices: 6256179--6256353 Score: 228
Period size: 71 Copynumber: 2.5 Consensus size: 70
6256169 AAAAATTAAA
* * * * *
6256179 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
6256243 CCCCG
66 CCCCG
* *
6256248 AGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
6256313 GTCTTG
65 GCCCCG
6256319 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
6256354 CCCTTGAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 25 0.27
70 6 0.07
71 61 0.66
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:6264583 original size:12 final size:12
Alignment explanation
Indices: 6264563--6264598 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
6264553 TGGGATATGC
*
6264563 AATGTATGAATG
1 AATGCATGAATG
6264575 AATGCATGAATG
1 AATGCATGAATG
6264587 AATGCATGAATG
1 AATGCATGAATG
6264599 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:6266641 original size:2 final size:2
Alignment explanation
Indices: 6266636--6266682 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
6266626 GCATTAAAAA
* * *
6266636 AT AT AT AC AT A- AT AT AT AT A- AA AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6266676 AT AT AT A
1 AT AT AT A
6266683 CGAATTAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:6266655 original size:39 final size:35
Alignment explanation
Indices: 6266558--6266665 Score: 83
Period size: 39 Copynumber: 2.9 Consensus size: 35
6266548 TATGGTATTT
* * *
6266558 AAAATATATATAT-ATATGTATATATAATAATATTTA
1 AAAATATATACATAATATATAT--ATAATAATATTAA
* * *
6266594 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATATAA-TAAT---ATTAA
*
6266633 AAAATATATACATAATATATATAAAATACATAT
1 AAAATATATACATAATATATATATAATA-ATAT
6266666 ATATATATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
35 4 0.07
36 17 0.30
37 5 0.09
38 2 0.04
39 28 0.50
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (35 bp):
AAAATATATACATAATATATATATAATAATATTAA
Found at i:6267018 original size:11 final size:11
Alignment explanation
Indices: 6266985--6267027 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
6266975 AAATCATTTT
6266985 GAAGAGAGAAA
1 GAAGAGAGAAA
* * *
6266996 GAAAAAAAAAA
1 GAAGAGAGAAA
*
6267007 GAAGGGAGAAA
1 GAAGAGAGAAA
6267018 GAAGAGAGAA
1 GAAGAGAGAA
6267028 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:6267530 original size:24 final size:24
Alignment explanation
Indices: 6267510--6267574 Score: 112
Period size: 25 Copynumber: 2.7 Consensus size: 24
6267500 TTTTTTTGGG
6267510 GGGTTAGGTTTTTTTTTTTTTTTT
1 GGGTTAGGTTTTTTTTTTTTTTTT
6267534 GGGTTAGGTTTTTTCTTTTTTTTTT
1 GGGTTAGGTTTTTT-TTTTTTTTTT
*
6267559 TGGTTAGGTTTTTTTT
1 GGGTTAGGTTTTTTTT
6267575 GGGAGGGCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
24 16 0.41
25 23 0.59
ACGTcount: A:0.05, C:0.02, G:0.22, T:0.72
Consensus pattern (24 bp):
GGGTTAGGTTTTTTTTTTTTTTTT
Found at i:6277378 original size:40 final size:40
Alignment explanation
Indices: 6277334--6277422 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 40
6277324 ATACATTAGC
6277334 GGCGTTTGAAACAAAACGCCGCTAAAAACTGAGCAATAGT
1 GGCGTTTGAAACAAAACGCCGCTAAAAACTGAGCAATAGT
* ** *
6277374 GGCGTTTTTTTATCCAAAACGCCGCTAAAAACTGAGTAATAGT
1 GGCG---TTTGAAACAAAACGCCGCTAAAAACTGAGCAATAGT
6277417 GGCGTT
1 GGCGTT
6277423 GTAACGCCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
40 6 0.14
43 36 0.86
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (40 bp):
GGCGTTTGAAACAAAACGCCGCTAAAAACTGAGCAATAGT
Found at i:6277792 original size:26 final size:26
Alignment explanation
Indices: 6277755--6277834 Score: 142
Period size: 26 Copynumber: 3.1 Consensus size: 26
6277745 TGATACAAAT
* *
6277755 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6277781 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6277807 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6277833 TG
1 TG
6277835 GTAAGAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6280551 original size:40 final size:40
Alignment explanation
Indices: 6280492--6280599 Score: 135
Period size: 40 Copynumber: 2.6 Consensus size: 40
6280482 GGGTGCTACA
*
6280492 GGCGTTTTCATCCAAAACGCCGCAAAAAACTGAGAAATAGT
1 GGCGTTTT-ATTCAAAACGCCGCAAAAAACTGAGAAATAGT
* *
6280533 GGCGTTTTATTCAAAACGCAGCAAAAAACTGAGATATAGT
1 GGCGTTTTATTCAAAACGCCGCAAAAAACTGAGAAATAGT
** * *
6280573 GGCGCTTTCGTTCCAAACGCCACAAAA
1 GGCG-TTTTATTCAAAACGCCGCAAAA
6280600 GGTTGAGCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 33 0.57
41 25 0.43
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (40 bp):
GGCGTTTTATTCAAAACGCCGCAAAAAACTGAGAAATAGT
Found at i:6280560 original size:41 final size:41
Alignment explanation
Indices: 6280492--6280581 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 41
6280482 GGGTGCTACA
*
6280492 GGCGTTTTCATCCAAAACGCCGCAAAAAACTGAGAAATAGT
1 GGCGTTTTCATCCAAAACGCAGCAAAAAACTGAGAAATAGT
* *
6280533 GGCGTTTT-ATTCAAAACGCAGCAAAAAACTGAGATATAGT
1 GGCGTTTTCATCCAAAACGCAGCAAAAAACTGAGAAATAGT
*
6280573 GGCGCTTTC
1 GGCGTTTTC
6280582 GTTCCAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 36 0.82
41 8 0.18
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (41 bp):
GGCGTTTTCATCCAAAACGCAGCAAAAAACTGAGAAATAGT
Found at i:6281189 original size:29 final size:29
Alignment explanation
Indices: 6281153--6281208 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
6281143 AAAATATGAA
6281153 GCCTAACCCCTAAATCATAACCCATGACC
1 GCCTAACCCCTAAATCATAACCCATGACC
6281182 GCCTAACCCCTAAATCATAACCCATGA
1 GCCTAACCCCTAAATCATAACCCATGA
6281209 TCTAAACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.39, G:0.07, T:0.18
Consensus pattern (29 bp):
GCCTAACCCCTAAATCATAACCCATGACC
Found at i:6281348 original size:15 final size:15
Alignment explanation
Indices: 6281328--6281357 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6281318 CTATAAACAT
6281328 TTTAAACCCTAAAAA
1 TTTAAACCCTAAAAA
*
6281343 TTTAAACTCTAAAAA
1 TTTAAACCCTAAAAA
6281358 CTAAATCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (15 bp):
TTTAAACCCTAAAAA
Found at i:6287377 original size:23 final size:23
Alignment explanation
Indices: 6287351--6287425 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
6287341 TAATTTTTGA
* *
6287351 ATTTTGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAGTGATAAT
6287374 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
6287397 ATTTAGAATTATTTAGCGATAAT
1 ATTTAGAATTATTTAGTGATAAT
6287420 ATTTAG
1 ATTTAG
6287426 GAAAAATCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:6287402 original size:13 final size:12
Alignment explanation
Indices: 6287368--6287427 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 12
6287358 ATTATTTAAT
6287368 GATAATATTTA-
1 GATAATATTTAG
*
6287379 GA-ATTATTTAG
1 GATAATATTTAG
6287390 TGATAATATTTA-
1 -GATAATATTTAG
*
6287402 GA-ATTATTTAG
1 GATAATATTTAG
6287413 CGATAATATTTAG
1 -GATAATATTTAG
6287426 GA
1 GA
6287428 AAAATCTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
10 14 0.36
11 4 0.10
12 6 0.15
13 15 0.38
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.43
Consensus pattern (12 bp):
GATAATATTTAG
Found at i:6288861 original size:17 final size:17
Alignment explanation
Indices: 6288839--6288893 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
6288829 GGTTTTTTTT
6288839 AAATATTTTATTTATAA
1 AAATATTTTATTTATAA
*
6288856 AAATATTGTT-TTAATAA
1 AAATATT-TTATTTATAA
*
6288873 ATAA-ATTTTATGTTAGAA
1 A-AATATTTTAT-TTATAA
6288891 AAA
1 AAA
6288894 AGAGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 2 0.06
17 20 0.65
18 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
AAATATTTTATTTATAA
Found at i:6288953 original size:20 final size:20
Alignment explanation
Indices: 6288928--6288965 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6288918 TATAATTGTG
6288928 TTATGTATTTTTATAAAACT
1 TTATGTATTTTTATAAAACT
*
6288948 TTATGTGTTTTTATAAAA
1 TTATGTATTTTTATAAAA
6288966 AAAATGAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (20 bp):
TTATGTATTTTTATAAAACT
Found at i:6289965 original size:23 final size:25
Alignment explanation
Indices: 6289933--6290001 Score: 79
Period size: 23 Copynumber: 2.8 Consensus size: 25
6289923 ATTTTTACAG
6289933 AAAATGATAATTATGTAATTTTTT-
1 AAAATGATAATTATGTAATTTTTTA
* ** * *
6289957 AAACT-ATAAAAATATATTTTTTTA
1 AAAATGATAATTATGTAATTTTTTA
6289981 AAAATGATAATTATGTAATTT
1 AAAATGATAATTATGTAATTT
6290002 CATCCTAGCA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
23 14 0.42
24 8 0.24
25 11 0.33
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (25 bp):
AAAATGATAATTATGTAATTTTTTA
Found at i:6291786 original size:21 final size:21
Alignment explanation
Indices: 6291760--6291971 Score: 66
Period size: 21 Copynumber: 9.8 Consensus size: 21
6291750 TTTTAATCAT
6291760 TTATTATTACTATTACTTTTA
1 TTATTATTACTATTACTTTTA
* * *
6291781 TTATTATTACTGTTTCTATTA
1 TTATTATTACTATTACTTTTA
*
6291802 TTGCTT-TT-CTATTACTATTTA
1 TT-ATTATTACTATTACT-TTTA
*
6291823 TGTTATTGTTGGCACTATT-C-TTTA
1 --TTATTATT---ACTATTACTTTTA
* *
6291847 TT-TTATTATTATTATTATTTA
1 TTATTATTACTATTACT-TTTA
*
6291868 TTATT-TTA-TCATTCCTTTCTA
1 TTATTATTACT-ATTACTTT-TA
* * * *
6291889 TTATTGTTATTATTAGTATACTA
1 TTATTATTACTATTACT-T-TTA
*
6291912 TTATTATT-CTTATTAACGTATTA
1 TTATTATTAC-TATT-AC-TTTTA
* *
6291935 TTATTATTATTTTCTAC-TTTA
1 TTATTATTACTAT-TACTTTTA
*
6291956 TTATTA-TATTATTACT
1 TTATTATTACTATTACT
6291972 ATTGTTATCA
Statistics
Matches: 141, Mismatches: 25, Indels: 51
0.65 0.12 0.24
Matches are distributed among these distances:
18 5 0.04
19 3 0.02
20 14 0.10
21 58 0.41
22 15 0.11
23 33 0.23
24 6 0.04
25 1 0.01
26 1 0.01
27 5 0.04
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.61
Consensus pattern (21 bp):
TTATTATTACTATTACTTTTA
Found at i:6291800 original size:15 final size:14
Alignment explanation
Indices: 6291770--6291815 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
6291760 TTATTATTAC
*
6291770 TATTACTTTTATTAT
1 TATTACTTTT-CTAT
6291785 TATTACTGTTTCTAT
1 TATTACT-TTTCTAT
*
6291800 TATTGCTTTTCTAT
1 TATTACTTTTCTAT
6291814 TA
1 TA
6291816 CTATTTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 9 0.32
15 16 0.57
16 3 0.11
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63
Consensus pattern (14 bp):
TATTACTTTTCTAT
Found at i:6291812 original size:14 final size:15
Alignment explanation
Indices: 6291782--6291815 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6291772 TTACTTTTAT
6291782 TATTATTACTGTTTC
1 TATTATTACTGTTTC
*
6291797 TATTATTGCT-TTTC
1 TATTATTACTGTTTC
6291811 TATTA
1 TATTA
6291816 CTATTTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (15 bp):
TATTATTACTGTTTC
Found at i:6291857 original size:3 final size:3
Alignment explanation
Indices: 6291844--6291979 Score: 77
Period size: 3 Copynumber: 45.3 Consensus size: 3
6291834 GCACTATTCT
* *
6291844 TTA TT- TTA TTA TTA TTA TTA TTTA TTA TT- TTA TCA TTCC TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA T-TA
* * * * *
6291889 TTA TTG TTA TTA TTA GTA -TA CTA TTA TTA TTC TTA TTAA CGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA
* * * *
6291935 TTA TTA TTA TTT TCTA CT- TTA TTA TTA -TA TTA TTA CTA TTG TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6291979 T
1 T
6291980 CATCATCTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
2 10 0.10
3 82 0.80
4 9 0.09
5 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6291944 original size:20 final size:20
Alignment explanation
Indices: 6291850--6291979 Score: 81
Period size: 20 Copynumber: 6.5 Consensus size: 20
6291840 TTCTTTATTT
*
6291850 TATTATTATTATTATT-TAT
1 TATTATTATTATTATTATAC
* * * *
6291869 TATT-TTATCATTCCTTTCTAT
1 TATTATTATTATT--ATTATAC
* *
6291890 TATTGTTATTATTAGTATAC
1 TATTATTATTATTATTATAC
*
6291910 TATTATTATTCTTATTA-AC
1 TATTATTATTATTATTATAC
*
6291929 GTATTATTATTATTATT-TTC
1 -TATTATTATTATTATTATAC
6291949 TACTTTATTATTA-TATTATTAC
1 TA--TTATTATTATTATTA-TAC
*
6291971 TATTGTTAT
1 TATTATTAT
6291980 CATCATCTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
18 7 0.08
19 8 0.09
20 45 0.52
21 16 0.18
22 11 0.13
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTATTATAC
Found at i:6292078 original size:3 final size:3
Alignment explanation
Indices: 6292072--6292106 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6292062 GCTATTACAT
6292072 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6292107 CTCTTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6301603 original size:11 final size:12
Alignment explanation
Indices: 6301587--6301616 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6301577 ACTTTTATTT
6301587 AGAAAAAA-AAA
1 AGAAAAAACAAA
6301598 AGAAAAAACAAA
1 AGAAAAAACAAA
6301610 AGAAAAA
1 AGAAAAA
6301617 GAGAAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (12 bp):
AGAAAAAACAAA
Found at i:6301615 original size:18 final size:19
Alignment explanation
Indices: 6301589--6301624 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6301579 TTTTATTTAG
6301589 AAAAAAAAAAGA-AAAAAC
1 AAAAAAAAAAGAGAAAAAC
*
6301607 AAAAGAAAAAGAGAAAAA
1 AAAAAAAAAAGAGAAAAA
6301625 ACATATGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAGAAAAAC
Found at i:6301621 original size:20 final size:18
Alignment explanation
Indices: 6301589--6301627 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
6301579 TTTTATTTAG
6301589 AAAAAAAAAAGAAAAAAC
1 AAAAAAAAAAGAAAAAAC
6301607 AAAAGAAAAAGAGAAAAAAC
1 AAAA-AAAAA-AGAAAAAAC
6301627 A
1 A
6301628 TATGGAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGAAAAAAC
Found at i:6302713 original size:76 final size:76
Alignment explanation
Indices: 6302587--6303116 Score: 837
Period size: 76 Copynumber: 6.9 Consensus size: 76
6302577 GCTAAAGCAT
*
6302587 AGCAGATCTGACCTTCATTGAAGCAGATCCAATATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6302652 AGATCGAAAAC
66 AGATCGAAAAC
*
6302663 AGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
*
6302728 AGATCGAAGAC
66 AGATCGAAAAC
* *
6302739 AGCAGATCTGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
*
6302804 AGATCGAAGAC
66 AGATCGAAAAC
*
6302815 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGTGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6302880 AGATC-AAATAC
66 AGATCGAAA-AC
* *
6302891 ATAGCAGATCTGACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGA
1 --AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGA
* *
6302956 GCAAATCGAAGAC
64 GCAGATCGAAAAC
* *
6302969 AACAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
*
6303034 AGATCGAAGACAT
66 AGATCGAA-A-AC
* * * **
6303047 AGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGACAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
6303112 AGATC
66 AGATC
6303117 TGACCTTAAT
Statistics
Matches: 419, Mismatches: 29, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
75 2 0.00
76 283 0.68
78 132 0.32
79 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (76 bp):
AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
AGATCGAAAAC
Found at i:6302978 original size:154 final size:153
Alignment explanation
Indices: 6302587--6303116 Score: 864
Period size: 154 Copynumber: 3.5 Consensus size: 153
6302577 GCTAAAGCAT
*
6302587 AGCAGATCTGACCTTCATTGAAGCAGATCCAATATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
6302652 AGATCGAAAACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATT
66 AGATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
6302717 AGACGGGGAGCAGATCGAAGAC-
131 AGACGGGGAGCAGATCGAAGACA
* *
6302739 AGCAGATCTGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAAGC
1 AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
*
6302804 AGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
66 AGATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
* * *
6302869 AGACGGTGAGCAGATCAAATACA
131 AGACGGGGAGCAGATCGAAGACA
* *
6302892 TAGCAGATCTGACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAG
1 -AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAG
* *
6302957 CAAATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTAT
65 CAGATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
6303022 TAGACGGGGAGCAGATCGAAGACA
130 TAGACGGGGAGCAGATCGAAGACA
* * * **
6303046 TAGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGACAG
1 -AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAG
6303111 CAGATC
65 CAGATC
6303117 TGACCTTAAT
Statistics
Matches: 350, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
152 144 0.41
154 206 0.59
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (153 bp):
AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
AGATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
AGACGGGGAGCAGATCGAAGACA
Found at i:6303144 original size:62 final size:62
Alignment explanation
Indices: 6303047--6303178 Score: 219
Period size: 62 Copynumber: 2.1 Consensus size: 62
6303037 TCGAAGACAT
* *
6303047 AGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
1 AGCAGATCTAACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
* * *
6303109 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAG
1 AGCAGATCTAACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
6303171 AGCAGATC
1 AGCAGATC
6303179 GAAGACAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (62 bp):
AGCAGATCTAACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
Found at i:6303193 original size:216 final size:215
Alignment explanation
Indices: 6302893--6303554 Score: 968
Period size: 216 Copynumber: 3.0 Consensus size: 215
6302883 TCAAATACAT
* *
6302893 AGCAGATCTGACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
6302958 AAATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATT
66 AGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
* *
6303023 AGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTG
131 AGACGGGGAGCAGATCGAAGACATA-CAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTG
*
6303088 GCATCTCTATATTAGACGGAC
195 GCATCTCTGTATTAGACGGAC
*
6303109 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
1 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
* **
6303174 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATT
66 AGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
*
6303239 AGACGGGGAGCAGATCGAAGACATAACATATCTGACCTTCATTGAA-CAGATCCAAGATGATTTG
131 AGACGGGGAGCAGATCGAAGACAT-ACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTG
6303303 GCATCTCTGTATTAGACGGGAAGC
195 GCATCTCTGTATTAGAC-GG-A-C
* * * * * *
6303327 AGATTGAAGACATCTGACCTTCATTGAAACAAATCTAAGATGATTTAGCATCTCTGTATTAGACG
1 --A--GCAG--ATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACG
* * * *
6303392 GGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTC
60 GGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
* *
6303457 TGTATTAGACGGGGAGCAAATCGAAGACA-ACAGATCTGACCTTCATTGAAGCAGATCTAAGATG
125 TGTATTAGACGGGGAGCAGATCGAAGACATACAGATCTGACCTTCATTGAAGCAGATCCAAGATG
**
6303521 ATTTGGCATCTCTGTATTAGACGGGG
190 ATTTGGCATCTCTGTATTAGACGGAC
6303547 AGCAGATC
1 AGCAGATC
6303555 GAAGACATAG
Statistics
Matches: 402, Mismatches: 33, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
214 3 0.01
215 34 0.08
216 167 0.42
217 2 0.00
218 2 0.00
220 1 0.00
222 25 0.06
223 34 0.08
224 134 0.33
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (215 bp):
AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGC
AGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT
AGACGGGGAGCAGATCGAAGACATACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGG
CATCTCTGTATTAGACGGAC
Found at i:6303232 original size:76 final size:76
Alignment explanation
Indices: 6303106--6303632 Score: 751
Period size: 76 Copynumber: 7.0 Consensus size: 76
6303096 ATATTAGACG
* *
6303106 GACAGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAG
1 GACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
6303171 AGCAGATCGAA
66 AGCAGATCGAA
* **
6303182 GACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATTAGACGGGG
1 GACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
6303247 AGCAGATCGAA
66 AGCAGATCGAA
* *
6303258 GACATAACATATCTGACCTTCATTGAA-CAGATCCAAGATGATTTGGCATCTCTGTATTAGACGG
1 GAC--AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGG
* *
6303322 GAAGCAGATTGAA
64 GGAGCAGATCGAA
* * * *
6303335 G--A-C--ATCTGACCTTCATTGAAACAAATCTAAGATGATTTAGCATCTCTGTATTAGACGGGG
1 GACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
6303395 AGCAGATCGAA
66 AGCAGATCGAA
* * * *
6303406 AACAGTAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGG
1 GACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
*
6303471 AGCAAATCGAA
66 AGCAGATCGAA
* *
6303482 GACAACAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGG
1 GACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
6303547 AGCAGATCGAA
66 AGCAGATCGAA
* * *
6303558 GACATAGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGG
1 GAC--AGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGG
**
6303623 ACAGCAGATC
64 GGAGCAGATC
6303633 TGACCTTAAT
Statistics
Matches: 402, Mismatches: 39, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
70 17 0.04
71 45 0.11
72 1 0.00
73 2 0.00
76 207 0.51
77 47 0.12
78 83 0.21
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (76 bp):
GACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
AGCAGATCGAA
Found at i:6303493 original size:300 final size:297
Alignment explanation
Indices: 6302589--6304074 Score: 1904
Period size: 300 Copynumber: 5.0 Consensus size: 297
6302579 TAAAGCATAG
* *
6302589 CAGATCTGACCTTCATTGAAGCAGATCCAATATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* *
6302654 ATCGAA-A-ACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATT
66 ATCGAAGACATAACA-ATCTGACCTTCATTG-AACAGATCCAAGATGATTTGGCATCTCTGTATT
*
6302717 AGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTAAAGCAGATCCAAGATGATTTGGC
129 AGAC-GGGAGCAGAT-GAAG--A-C--ATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGC
*
6302782 ATCTCTGTATTAGACGGGAAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAA
187 ATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAA
* * *
6302847 GATGATTTGGCATCTCTGTATTAGACGGTGAGCAGATCAAATACATA
252 GATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACA-A
* **
6302894 GCAGATCTGACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCA
1 -CAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCA
* *
6302959 AATCGAAGAC--AACAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTAT
65 GATCGAAGACATAACA-ATCTGACCTTCATTGAA-CAGATCCAAGATGATTTGGCATCTCTGTAT
* *
6303022 TAGACGGGGAGCAGATCGAAGACATAGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTT
128 TAGAC-GGGAGCAGAT-GAAG----A-C--ATCTGACCTTCATTGAAGCAGATCCAAGATGATTT
* *
6303087 GGCATCTCTATATT-----------AGA-CG--GACAGCAGATCTGACCTTAATTGAAGCAGATC
184 GGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATC
* *
6303138 CAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACAG
249 CAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAA
**
6303187 CAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATTAGACGGGGAGCAG
1 CAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
6303252 ATCGAAGACATAACATATCTGACCTTCATTGAACAGATCCAAGATGATTTGGCATCTCTGTATTA
66 ATCGAAGACATAACA-ATCTGACCTTCATTGAACAGATCCAAGATGATTTGGCATCTCTGTATTA
* * * *
6303317 GACGGGAAGCAGATTGAAGACATCTGACCTTCATTGAAACAAATCTAAGATGATTTAGCATCTCT
130 GACGGG-AGCAGA-TGAAGACATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCT
* * * *
6303382 GTATTAGACGGGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGCAGATCCAAGATAAT
193 GTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGAT
*
6303447 TTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAA
258 TTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAA
* *
6303487 CAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* * * *
6303552 ATCGAAGACATAGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATT
66 ATCGAAGACATAACA-ATCTGACCTTCATTGAA-CAGATCCAAGATGATTTGGCATCTCTGTATT
* *
6303617 AGAC-GGA-C--A-GCAG--ATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
129 AGACGGGAGCAGATGAAGACATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTG
* *
6303675 TATTAGACGGAGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATT
194 TATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATT
**
6303740 TGGCATCTCTAAATTAGACGGGGAGCAGATCGAAGACATAA
259 TGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAC--AA
* *
6303781 CATATCTGACCTTCATTG-AACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAAGCAG
1 CAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
* * *
6303845 ATCGAAG-----AC-ATCTGACCTTCATTGAAACAAATCTAAGATGATTTAGCATCTCTGTATTA
66 ATCGAAGACATAACAATCTGACCTTCATTG-AACAGATCCAAGATGATTTGGCATCTCTGTATTA
* *
6303904 GACGGGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCA
130 GAC-GGGAGCAGAT-GAAGACA-T----CTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCA
* * *
6303969 TCTCTGTATTAGACGGGGAGCAAATCGAAGACAGCAGATCTGACCTTCATTGAAGTAGCTCCAAG
188 TCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAG
* * *
6304034 ATGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAGA
253 ATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGA
6304075 TAGCAGATTT
Statistics
Matches: 1052, Mismatches: 87, Indels: 89
0.86 0.07 0.07
Matches are distributed among these distances:
286 86 0.08
287 2 0.00
288 5 0.00
289 2 0.00
291 1 0.00
292 204 0.19
293 96 0.09
294 120 0.11
295 1 0.00
296 4 0.00
297 6 0.01
298 3 0.00
299 18 0.02
300 279 0.27
301 34 0.03
305 2 0.00
306 136 0.13
307 1 0.00
308 52 0.05
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (297 bp):
CAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
ATCGAAGACATAACAATCTGACCTTCATTGAACAGATCCAAGATGATTTGGCATCTCTGTATTAG
ACGGGAGCAGATGAAGACATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
TTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTG
GCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAA
Found at i:6303565 original size:516 final size:515
Alignment explanation
Indices: 6302587--6304308 Score: 2732
Period size: 516 Copynumber: 3.4 Consensus size: 515
6302577 GCTAAAGCAT
* * *
6302587 AGCAGATCTGACCTTCATTGAAGCAGATCCAATATGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
* **
6302652 AGATCGAAAACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATT
66 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATT
* *
6302717 AGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTAAAGCAGATCCAAGATGATTTGGC
131 AGACGGGGAGCAGATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGC
* * *
6302782 ATCTCTGTATTAGACGGGAAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAA
196 ATCTCTGTATTAGACGGGAAGCAGATCGAAG--A-C--ATCTGACCTTCATTGAAACAAATCTAA
* * * * *
6302847 GATGATTTGGCATCTCTGTATTAGACGGTGAGCAGATC-AAATACATAGCAGATCTGACCTTTAT
256 GATGATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAA-AC--AGTAGACCTGACCTTCAT
* *
6302911 TGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAACAGAT
318 TGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAACAGAT
6302976 CTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGA
383 CTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGA
6303041 AGACATAGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACG
448 AGACATAGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACG
6303106 GAC
513 GAC
6303109 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
1 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
6303174 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATT
66 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATT
*
6303239 AGACGGGGAGCAGATCGAAGACATAACATATCTGACCTTCATTGAA-CAGATCCAAGATGATTTG
131 AGACGGGGAGCAGATCGAAGAC--AACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTG
*
6303303 GCATCTCTGTATTAGACGGGAAGCAGATTGAAGACATCTGACCTTCATTGAAACAAATCTAAGAT
194 GCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATCTGACCTTCATTGAAACAAATCTAAGAT
6303368 GATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGC
259 GATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGC
6303433 AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAACAGATCTGACC
324 AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAACAGATCTGACC
6303498 TTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT
389 TTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT
6303563 AGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
454 AGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
6303625 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
1 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
6303690 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATT
66 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATT
*
6303755 AGACGGGGAGCAGATCGAAGACATAACATATCTGACCTTCATTGAA-CAGATCCAAGATGATTTG
131 AGACGGGGAGCAGATCGAAGAC--AACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTG
6303819 GCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATCTGACCTTCATTGAAACAAATCTAAGAT
194 GCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATCTGACCTTCATTGAAACAAATCTAAGAT
6303884 GATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGC
259 GATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGC
*
6303949 AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAGCAGATCTGACC
324 AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAACAGATCTGACC
* * * * * *
6304014 TTCATTGAAGTAGCTCCAAGATGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAG--AT
389 TTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAT
* ** * * ** ** **
6304076 AGCAGATTTGGCATCTC-TGT-ATTAGA--C--GGGGA----GCAGAT-TA-A--AGAC-G-C
454 AGCAGATCTAACCT-TCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
* * * *
6304123 AGCAGATCTTACCTTCATTGAAGCAGATCCAAGATGATTTGGCATTTCTGTATTAGACGGGGAGC
1 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
**
6304188 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATT
66 AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATT
* * * *
6304253 AGACGGAGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCAAAGA
131 AGACGGGGAGCAGATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCCAAGA
6304309 CATAACAGAT
Statistics
Matches: 1145, Mismatches: 50, Indels: 35
0.93 0.04 0.03
Matches are distributed among these distances:
496 20 0.02
497 10 0.01
498 145 0.13
499 1 0.00
500 4 0.00
502 1 0.00
503 2 0.00
504 4 0.00
508 3 0.00
510 1 0.00
512 4 0.00
513 14 0.01
514 2 0.00
515 16 0.01
516 636 0.56
518 62 0.05
519 3 0.00
520 1 0.00
521 1 0.00
522 146 0.13
523 50 0.04
524 19 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (515 bp):
AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGC
AGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATT
AGACGGGGAGCAGATCGAAGACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGC
ATCTCTGTATTAGACGGGAAGCAGATCGAAGACATCTGACCTTCATTGAAACAAATCTAAGATGA
TTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGCAG
ATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAACAGATCTGACCTT
CATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAG
CAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
Found at i:6303628 original size:440 final size:435
Alignment explanation
Indices: 6302589--6304308 Score: 1932
Period size: 440 Copynumber: 3.9 Consensus size: 435
6302579 TAAAGCATAG
* * * *
6302589 CAGATCTGACCTTCATTGAAGCAGATCCAATATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAA
* * * *
6302654 ATCGAAAACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAG
66 ATCGAAGACAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATT--
6302719 ACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATT-AAAGCAGATCCAAGATGATTTGGCA
129 ----------GA-C--AGACAGCAGATCTGACCTT-ATTGAAA-CAGATCCAAGATGATTTGGCA
*
6302783 TCTCTGTATTAGACGGGAAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAGCAGATCCAAG
179 TCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAA-CAGATCCAAG
* * * *
6302848 ATGATTTGGCATCTCTGTATTAGACGGTGAGCAGATCAAATACATAGCAGATCTGACCTTTATTG
243 ATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-GA-AGA-A-CA-ATCTGACCTTCATTG
** * **
6302913 AAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAACAGATCT
303 AAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGTAGA-CT
* * * * *
6302978 GACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
367 GACCTTCATTGAAGCAGATCAAAGATAATTTAGCATCTCTGTATTAGACGGGGAGCAAATCGAAA
6303043 ACATA
432 ACA-A
* * * * *
6303048 GCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATT--------AG--
1 -CAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCA
* * *
6303103 -A-CG--GACAGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTA
65 AATCGAAGACAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATT-
6303164 GACGGAGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCA
129 -----------GA-C--AGACAGCAGATCTGACCTT-ATTGAAACAGATCCAAGATGATTTGGCA
** * *
6303229 TCTCTAAATTAGACGGGGAGCAGATCGAAGACATAACATATCTGACCTTCATTGAACAGATCCAA
179 TCTCTGTATTAGACGGGGAGCAGATCGAAGAC--AGCAGATCTGACCTTCATTGAACAGATCCAA
* *
6303294 GATGATTTGGCATCTCTGTATTAGACGGGAAGCAGATTGAAG-AC-ATCTGACCTTCATTGAAAC
242 GATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAACAATCTGACCTTCATTGAAAC
* * * *
6303357 AAATCTAAGATGATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGTAGACCTGACC
307 AGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGTAGA-CTGACC
* * *
6303422 TTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAA
371 TTCATTGAAGCAGATCAAAGATAATTTAGCATCTCTGTATTAGACGGGGAGCAAATCGAAAACAA
* * * *
6303487 CAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG
1 CAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAA
*
6303552 ATCGAAGACATAGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATT
66 ATCGAAGAC--AGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATT
* *
6303617 AGACGGACAGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA
129 -GACAGACAGCAGATCTGACCTT-ATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGA
*
6303682 CGGAGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATC
192 CGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTG-AACAGATCCAAGATGATTTGGCATC
**
6303747 TCTAAATTAGACGGGGAGCAGATCGAAGACATAACATATCTGACCTTCATTG-AACAGATCCAAG
256 TCTGTATTAGACGGGGAGCAGATCGAAG----AACA-ATCTGACCTTCATTGAAACAGATCCAAG
* *
6303811 ATGATTTGGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACA-T---CTGACCTTCATTGAAA
316 ATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGTAGACTGACCTTCATTGAAG
* * * * *
6303872 CAAATCTAAGATGATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAG
381 CAGATCAAAGATAATTTAGCATCTCTGTATTAGACGGGGAGCAAATCGAAAACAA
*
6303927 TAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAA
1 CAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAA
* * * * *
6303992 ATCGAAGACAGCAGATCTGACCTTCATTGAAGTAGCTCCAAGATGATTTGGCATCTCTGTATTGT
66 ATCGAAGACAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTGA
* *
6304057 CAGAGAGCAGATC-GA----A--G--ATAG---C---A-GATTTGGCATCTCTGTATTAGACGGG
131 CAGACAGCAGATCTGACCTTATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
** * *
6304106 GAGCAGATTAAAGACGCAGCAGATCTTACCTTCATTGAAGCAGATCCAAGATGATTTGGCATTTC
196 GAGCAGATCGAAGA--CAGCAGATCTGACCTTCATTGAA-CAGATCCAAGATGATTTGGCATCTC
6304171 TGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGA
258 TGTATTAGACGGGGAGCAGATCGAAGA-A-CA-ATCTGACCTTCATTGAAACAGATCCAAGATGA
* * *
6304236 TTTGGCATCTCTGTATTAGACGGAGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGCAG
320 TTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGTAGA-CTGACCTTCATTGAAGCAG
6304301 ATCAAAGA
384 ATCAAAGA
6304309 CATAACAGAT
Statistics
Matches: 1127, Mismatches: 95, Indels: 110
0.85 0.07 0.08
Matches are distributed among these distances:
418 1 0.00
419 1 0.00
420 54 0.05
421 56 0.05
422 68 0.06
424 1 0.00
426 24 0.02
427 2 0.00
429 1 0.00
431 1 0.00
436 2 0.00
437 12 0.01
438 115 0.10
439 50 0.04
440 340 0.30
442 2 0.00
443 4 0.00
444 3 0.00
445 52 0.05
446 162 0.14
447 47 0.04
448 22 0.02
449 2 0.00
450 2 0.00
452 5 0.00
454 50 0.04
460 48 0.04
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (435 bp):
CAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAA
ATCGAAGACAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTGA
CAGACAGCAGATCTGACCTTATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
GAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAACAGATCCAAGATGATTTGGCATCTCTGT
ATTAGACGGGGAGCAGATCGAAGAACAATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGC
ATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGTAGACTGACCTTCATTGAAGCAGATCAAAG
ATAATTTAGCATCTCTGTATTAGACGGGGAGCAAATCGAAAACAA
Found at i:6303660 original size:62 final size:62
Alignment explanation
Indices: 6303563--6303694 Score: 219
Period size: 62 Copynumber: 2.1 Consensus size: 62
6303553 TCGAAGACAT
* *
6303563 AGCAGATCTAACCTTCATTTAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
1 AGCAGATCTAACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
* * *
6303625 AGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAG
1 AGCAGATCTAACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
6303687 AGCAGATC
1 AGCAGATC
6303695 GAAGACAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (62 bp):
AGCAGATCTAACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGAC
Found at i:6303748 original size:76 final size:76
Alignment explanation
Indices: 6303622--6304082 Score: 639
Period size: 76 Copynumber: 6.1 Consensus size: 76
6303612 ATATTAGACG
* * *
6303622 GACAGCAGATCTGACCTTAATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAG
1 GACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
6303687 AGCAGATCGAA
66 AGCAGATCGAA
**
6303698 GACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTAAATTAGACGGGG
1 GACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
6303763 AGCAGATCGAA
66 AGCAGATCGAA
* *
6303774 GACATAACATATCTGACCTTCATTG-AACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGG
1 GAC--AGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGG
*
6303838 GAAGCAGATCGAA
64 GGAGCAGATCGAA
* * *
6303851 G--A-C--ATCTGACCTTCATTGAAACAAATCTAAGATGATTTAGCATCTCTGTATTAGACGGGG
1 GACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
6303911 AGCAGATCGAA
66 AGCAGATCGAA
* * * * *
6303922 AACAGTAGACCTGACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGG
1 GACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
*
6303987 AGCAAATCGAA
66 AGCAGATCGAA
** * * * *
6303998 GACAGCAGATCTGACCTTCATTGAAGTAGCTCCAAGATGATTTGGCATCTCTGTATT-GTCAGAG
1 GACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
6304062 AGCAGATCGAA
66 AGCAGATCGAA
*
6304073 GATAGCAGAT
1 GACAGCAGAT
6304083 TTGGCATCTC
Statistics
Matches: 343, Mismatches: 34, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
70 15 0.04
71 48 0.14
72 1 0.00
73 2 0.01
75 23 0.07
76 186 0.54
77 50 0.15
78 18 0.05
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (76 bp):
GACAGCAGATCTGACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
AGCAGATCGAA
Found at i:6304161 original size:122 final size:121
Alignment explanation
Indices: 6303961--6304205 Score: 366
Period size: 122 Copynumber: 2.0 Consensus size: 121
6303951 ATCCAAGATA
* *
6303961 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAGCAGATCTGACCTTCATTGAAGTA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGACAGCAGATCTGACCTTCATTGAAGCA
* * *
6304026 GCTCCAAGATGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAGATAGCAG
66 GATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGACAGCAG
* * *
6304081 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAAGACGCAGCAGATCTTACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGA--CAGCAGATCTGACCTTCATTGAAG
* * *
6304146 CAGATCCAAGATGATTTGGCATTTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAG
64 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGACAGCAG
6304204 AT
1 AT
6304206 CTGACCTTCA
Statistics
Matches: 111, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
120 36 0.32
122 51 0.46
123 24 0.22
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (121 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGACAGCAGATCTGACCTTCATTGAAGCA
GATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGACAGCAG
Found at i:6304232 original size:198 final size:197
Alignment explanation
Indices: 6303884--6304281 Score: 620
Period size: 198 Copynumber: 2.0 Consensus size: 197
6303874 AATCTAAGAT
*
6303884 GATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGTAGACCTGACCTTCATTGAAGC
1 GATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGCAGACCTGACCTTCATTGAAGC
6303949 AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAGCAGATCTGACC
66 AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAGCAGATCTGACC
** * * *
6304014 TTCATTGAAGTAGCTCCAAGATGATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAGATAG
131 TTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGACAG
6304078 CA
196 CA
* * * *
6304080 GATTTGGCATCTCTGTATTAGACGGGGAGCAGAT-TAAAGACGCAGCAGATCTTACCTTCATTGA
1 GATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAA-A--CAGCAGACCTGACCTTCATTGA
* * *
6304144 AGCAGATCCAAGATGATTTGGCATTTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTG
63 AGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAGCAGATCTG
* *
6304209 ACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGCAGATTGAAGA
128 ACCTTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGA
6304274 CAGCA
193 CAGCA
6304279 GAT
1 GAT
6304282 CTGACCTTCA
Statistics
Matches: 183, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
195 3 0.02
196 34 0.19
198 122 0.67
199 24 0.13
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (197 bp):
GATTTAGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACAGCAGACCTGACCTTCATTGAAGC
AGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACAGCAGATCTGACC
TTCATTGAAACAGATCCAAGATGATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGACAG
CA
Found at i:6304237 original size:76 final size:76
Alignment explanation
Indices: 6304080--6304308 Score: 377
Period size: 76 Copynumber: 3.0 Consensus size: 76
6304070 GAAGATAGCA
* *
6304080 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTAAAGACGCAGCAGATCTTACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA--CAGCAGATCTGACCTTCATTGAA
6304145 GCAGATCCAAGAT
64 GCAGATCCAAGAT
* * *
6304158 GATTTGGCATTTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATTGAAAC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGC
6304223 AGATCCAAGAT
66 AGATCCAAGAT
*
6304234 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGC
*
6304299 AGATCAAAGA
66 AGATCCAAGA
6304309 CATAACAGAT
Statistics
Matches: 141, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
76 104 0.74
78 37 0.26
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (76 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACAGCAGATCTGACCTTCATTGAAGC
AGATCCAAGAT
Found at i:6313478 original size:17 final size:17
Alignment explanation
Indices: 6313456--6313488 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6313446 CAAACCCTAA
*
6313456 TTTTTCTTTTTTCTTTT
1 TTTTTCTTCTTTCTTTT
6313473 TTTTTCTTCTTTCTTT
1 TTTTTCTTCTTTCTTT
6313489 CTTTCTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTCTTCTTTCTTTT
Found at i:6313711 original size:3 final size:3
Alignment explanation
Indices: 6313690--6313739 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
6313680 TTTTCTGAAT
6313690 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6313734 TAA TAA
1 TAA TAA
6313740 GTAAATATCT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6320959 original size:33 final size:33
Alignment explanation
Indices: 6320917--6321040 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
6320907 TTTCTTCTTG
*
6320917 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
6320950 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
6320983 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* *
6321016 ACATTCTAGCTCCTATCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
6321041 TGAAACAGAG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.31, C:0.42, G:0.09, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:6323548 original size:89 final size:89
Alignment explanation
Indices: 6323383--6323560 Score: 259
Period size: 88 Copynumber: 2.0 Consensus size: 89
6323373 GCATATGTCT
*
6323383 GGTTACATGTAAAATATTACAGTTAATTATTATCGGATGTAACCTTATTAGCAGATTGAATATAC
1 GGTTACATGTAAAATATTAAAGTTAATTATTATCGGATGTAACCTTATTAGCAGATTGAATATAC
6323448 TATGACATTGTA-TTTCATTTCTC
66 TATGACATTGTATTTTCATTTCTC
* * * * *
6323471 GGTTACATGTAAACTATTAAAGTTAATTCTTATTGGATGTTGACCTTATTAGCGGATTGAATATA
1 GGTTACATGTAAAATATTAAAGTTAATTATTATCGGATG-TAACCTTATTAGCAGATTGAATATA
* * *
6323536 GTGTGACATTGTATTTTCCTTTCTC
65 CTATGACATTGTATTTTCATTTCTC
6323561 AAGGAAAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 35 0.44
89 34 0.43
90 10 0.13
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (89 bp):
GGTTACATGTAAAATATTAAAGTTAATTATTATCGGATGTAACCTTATTAGCAGATTGAATATAC
TATGACATTGTATTTTCATTTCTC
Found at i:6335215 original size:28 final size:28
Alignment explanation
Indices: 6335159--6335231 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
6335149 CAAATACATT
*
6335159 TAAAACAA-ATATTAAAACAAGAAATAAA
1 TAAAA-AATATATTAAAACAAGAAACAAA
* *
6335187 TAAAAAATATATTAAAACAATACACAAA
1 TAAAAAATATATTAAAACAAGAAACAAA
* *
6335215 TTAAAAATATAATAAAA
1 TAAAAAATATATTAAAA
6335232 ATTGATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.22
Consensus pattern (28 bp):
TAAAAAATATATTAAAACAAGAAACAAA
Found at i:6335273 original size:23 final size:23
Alignment explanation
Indices: 6335247--6335291 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6335237 TTATATTAAA
*
6335247 ATTAAAAATAGAATATAAATATG
1 ATTAAAAATAAAATATAAATATG
*
6335270 ATTAAAAATAAAATATATATAT
1 ATTAAAAATAAAATATAAATAT
6335292 ATTTAGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
ATTAAAAATAAAATATAAATATG
Found at i:6340557 original size:21 final size:23
Alignment explanation
Indices: 6340523--6340571 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
6340513 AAAAAAAATT
6340523 AGAATTTTGAAAAAATTA-AAAA
1 AGAATTTTGAAAAAATTATAAAA
*
6340545 AGAATTTT-TAAAAATTATAAAA
1 AGAATTTTGAAAAAATTATAAAA
6340567 A-AATT
1 AGAATT
6340572 ACTAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (23 bp):
AGAATTTTGAAAAAATTATAAAA
Found at i:6340567 original size:9 final size:9
Alignment explanation
Indices: 6340553--6340604 Score: 54
Period size: 8 Copynumber: 5.7 Consensus size: 9
6340543 AAAGAATTTT
6340553 TAAAAATTA
1 TAAAAATTA
6340562 TAAAAAAATTA
1 T--AAAAATTA
*
6340573 CTAAAAA-CA
1 -TAAAAATTA
6340582 TAAAAATTA
1 TAAAAATTA
6340591 T-AAAATTA
1 TAAAAATTA
6340599 TAAAAA
1 TAAAAA
6340605 ATGCACGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
8 14 0.39
9 8 0.22
10 5 0.14
11 8 0.22
12 1 0.03
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAATTA
Found at i:6340577 original size:21 final size:20
Alignment explanation
Indices: 6340533--6340605 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
6340523 AGAATTTTGA
*
6340533 AAAAATTA-AAAAAGAATTTTT
1 AAAAATTATAAAAA-AA-TTAT
6340554 AAAAATTATAAAAAAATTACT
1 AAAAATTATAAAAAAATTA-T
*
6340575 AAAAA-CAT--AAAAATTAT
1 AAAAATTATAAAAAAATTAT
6340592 -AAAATTATAAAAAA
1 AAAAATTATAAAAAA
6340606 TGCACGTGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 4 0.09
17 3 0.07
18 8 0.18
19 4 0.09
20 4 0.09
21 16 0.36
22 5 0.11
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.27
Consensus pattern (20 bp):
AAAAATTATAAAAAAATTAT
Found at i:6340662 original size:17 final size:17
Alignment explanation
Indices: 6340630--6340663 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6340620 TTATAATTTT
*
6340630 TTTTAAAAAGTATAAAA
1 TTTTAAAAAATATAAAA
*
6340647 TTTTAAAAAATGTAAAA
1 TTTTAAAAAATATAAAA
6340664 AATTATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAATATAAAA
Found at i:6342263 original size:14 final size:15
Alignment explanation
Indices: 6342239--6342267 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6342229 GTTACTGTTA
6342239 TGGTAGTTTGCCTTG
1 TGGTAGTTTGCCTTG
6342254 TGGT-GTTTGCCTTG
1 TGGTAGTTTGCCTTG
6342268 AAGCTTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.14, G:0.34, T:0.48
Consensus pattern (15 bp):
TGGTAGTTTGCCTTG
Found at i:6344389 original size:2 final size:2
Alignment explanation
Indices: 6344382--6344416 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6344372 TTTGCTTATT
6344382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6344417 TTGAATTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6345745 original size:31 final size:32
Alignment explanation
Indices: 6345710--6345769 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
6345700 AATTTTCTTT
*
6345710 AAAATATAATAATT-TTTAAAAAATTAATTCC
1 AAAATATAATAATTATTCAAAAAATTAATTCC
* *
6345741 AAAATTTAATAATTATTCAACAAATTAAT
1 AAAATATAATAATTATTCAAAAAATTAAT
6345770 ATCTATGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAATATAATAATTATTCAAAAAATTAATTCC
Found at i:6349826 original size:3 final size:3
Alignment explanation
Indices: 6349820--6349849 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6349810 TTCTTTTCCT
*
6349820 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6349850 ATTCTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6351482 original size:18 final size:17
Alignment explanation
Indices: 6351461--6351499 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6351451 GTAATACATG
6351461 ATATATTAATTATTATAT
1 ATATATTAATTATTAT-T
**
6351479 ATATATTGTTTATTATT
1 ATATATTAATTATTATT
6351496 ATAT
1 ATAT
6351500 TATGTAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATATATTAATTATTATT
Found at i:6351512 original size:21 final size:21
Alignment explanation
Indices: 6351469--6351529 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
6351459 TGATATATTA
*
6351469 ATTATTATATATATATTGTTT
1 ATTATTATATATATAATGTTT
*
6351490 ATTATTATATTATGTAATGTTAT
1 ATTATTATA-TATATAATGTT-T
*
6351513 ATCA-TATCATATATAAT
1 ATTATTAT-ATATATAAT
6351530 ATTGTAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 9 0.27
22 19 0.58
23 5 0.15
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (21 bp):
ATTATTATATATATAATGTTT
Found at i:6354129 original size:25 final size:25
Alignment explanation
Indices: 6354095--6354147 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
6354085 CACCCAGCAC
6354095 CATTCTTACCTCATGTATATATCAT
1 CATTCTTACCTCATGTATATATCAT
6354120 CATTCTTACCTCATGTATATATCAT
1 CATTCTTACCTCATGTATATATCAT
6354145 CAT
1 CAT
6354148 GCAGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.04, T:0.43
Consensus pattern (25 bp):
CATTCTTACCTCATGTATATATCAT
Found at i:6355962 original size:24 final size:24
Alignment explanation
Indices: 6355930--6355982 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
6355920 GGGTGGGTTG
6355930 CTTATGTCACAAACTTAGGCTGTA
1 CTTATGTCACAAACTTAGGCTGTA
6355954 CTTATGTCACAAACTTAGGCTGTA
1 CTTATGTCACAAACTTAGGCTGTA
*
6355978 TTTAT
1 CTTAT
6355983 TATTTTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (24 bp):
CTTATGTCACAAACTTAGGCTGTA
Found at i:6357338 original size:24 final size:24
Alignment explanation
Indices: 6357261--6357341 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
6357251 ACCCTAATTT
* *
6357261 TAATTTAGATTACTTTATGGTTGT
1 TAATTTAGATTAATTTATGGTTGA
*
6357285 TAA-TTA-ATTAGACTTTA--GTTAAA
1 TAATTTAGATTA-A-TTTATGGTT-GA
*
6357308 CATATTTAGATTAATTTATGGTTGA
1 TA-ATTTAGATTAATTTATGGTTGA
6357333 TAATTTAGA
1 TAATTTAGA
6357342 CTTTATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
22 7 0.16
23 4 0.09
24 19 0.44
25 6 0.14
26 7 0.16
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.48
Consensus pattern (24 bp):
TAATTTAGATTAATTTATGGTTGA
Found at i:6360023 original size:21 final size:21
Alignment explanation
Indices: 6359997--6360039 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6359987 GCAACATTAA
6359997 CTTAATCTAATAACATTAGCC
1 CTTAATCTAATAACATTAGCC
*
6360018 CTTAATTTAATAACATTAGCC
1 CTTAATCTAATAACATTAGCC
6360039 C
1 C
6360040 CAACTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (21 bp):
CTTAATCTAATAACATTAGCC
Found at i:6362009 original size:18 final size:17
Alignment explanation
Indices: 6361986--6362029 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
6361976 TTATGCGAGC
6361986 AAAAAGAAAAAAAAAAGA
1 AAAAAGAAAAAAAAAA-A
6362004 AAAAAGAAAAAAAAAAA
1 AAAAAGAAAAAAAAAAA
6362021 AGAAAAGAA
1 A-AAAAGAA
6362030 GAAGCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAA
Found at i:6362017 original size:20 final size:21
Alignment explanation
Indices: 6361992--6362032 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
6361982 GAGCAAAAAG
6361992 AAAAAAAAAAGAAAA-AAGAA
1 AAAAAAAAAAGAAAAGAAGAA
6362012 AAAAAAAAAAGAAAAGAAGAA
1 AAAAAAAAAAGAAAAGAAGAA
6362033 GCAAAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAGAAGAA
Found at i:6364192 original size:19 final size:19
Alignment explanation
Indices: 6364170--6364215 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
6364160 AATAAAGGGA
6364170 AAGAAAGAAG-AAGAGAAGG
1 AAGAAAGAAGAAAGAGAA-G
*
6364189 AAGAAA-ATGAAAGAGAAG
1 AAGAAAGAAGAAAGAGAAG
6364207 AA-AAAGAAG
1 AAGAAAGAAG
6364216 GTATAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 3 0.13
18 7 0.30
19 13 0.57
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (19 bp):
AAGAAAGAAGAAAGAGAAG
Found at i:6365062 original size:46 final size:47
Alignment explanation
Indices: 6365002--6365229 Score: 331
Period size: 46 Copynumber: 5.0 Consensus size: 47
6364992 TTTGACATGA
* * * * * *
6365002 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *
6365048 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
6365094 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
6365140 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
6365186 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
6365230 AGCACACTCC
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.02
46 162 0.96
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:6367381 original size:11 final size:11
Alignment explanation
Indices: 6367365--6367416 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
6367355 TATACTAAAT
6367365 AAATAATAATA
1 AAATAATAATA
*
6367376 AAATAAT-ATT
1 AAATAATAATA
* *
6367386 AAATATCTCATA
1 AAATA-ATAATA
*
6367398 AAATATTAATA
1 AAATAATAATA
6367409 AAATAATA
1 AAATAATA
6367417 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:6368157 original size:18 final size:17
Alignment explanation
Indices: 6368116--6368157 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
6368106 TAAATTTCGG
6368116 TTATTA-ATTTTAATAT
1 TTATTAGATTTTAATAT
6368132 TTGA-TAGATTTTAAATAT
1 TT-ATTAGATTTT-AATAT
6368150 TTATTAGA
1 TTATTAGA
6368158 ATAACTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TTATTAGATTTTAATAT
Found at i:6368459 original size:13 final size:13
Alignment explanation
Indices: 6368441--6368469 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6368431 ATATATATTA
6368441 TTTTTTATTTTAT
1 TTTTTTATTTTAT
6368454 TTTTTTATTTTAT
1 TTTTTTATTTTAT
6368467 TTT
1 TTT
6368470 AGTACATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:6368741 original size:145 final size:145
Alignment explanation
Indices: 6368291--6369482 Score: 1233
Period size: 145 Copynumber: 8.2 Consensus size: 145
6368281 ATAAGTAAAA
* ** * * * *
6368291 TATTTTCGTATATTA-TTTTTATATTATTTTACCAAAAAATATTTCAAATGTATTATGTAAGTAT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-T
** * * *
6368355 TTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTA
65 TTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC----TTATTTATTTTCGTA
* *
6368420 TCTT-CTTTTTAATATATAT
126 TCTTATTTTTTAAAATATAT
* *
6368439 TATTTT-TTATTTTATTTTTTTATTTTATTTTAGTACATAATGTTTCAAATGTATTATTTAAG-T
1 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTT
* * *
6368502 GTTTTATA-TTTTTTAATAAATAACCCTGATTTCAGCACTTTATTCGTA-TT-TTTTCGTATCTT
65 TTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCTTATTTATTTTCGTATCTT
6368564 -TTTTTTAAAATATAT
130 ATTTTTTAAAATATAT
** *
6368579 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATAAATTATTTGAGTC
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
* * *
6368644 TTTTTTATATTTTTTTAATAAATAATCCTGATTTTAGCACTTTATTCTTATTT-TTTTCCTATAT
64 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCTTATTTATTTTCGTATCT
6368708 TA-TTTTTAAAATATAT
129 TATTTTTTAAAATATAT
* * * * *
6368724 TATTTTCATATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTGT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAA--GT
** * * *
6368789 TTTTTTATATTAATTGAATAAATAACCCTGATTTT-GACACTTTCTTCGTATTTTTTATTTTCGT
64 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTC---TTATTTATTTTCGT
6368853 ATCTTATTTTTTAAAATATAT
125 ATCTTATTTTTTAAAATATAT
*
6368874 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-
* * * *
6368939 TTTTTTATA-TTTTTCAATAAATAACCTTGATTTTAGCACTTTATTCGTATTT-TTTTCGTATAT
64 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCTTATTTATTTTCGTATCT
6369002 TATTTTTTAAAATATAT
129 TATTTTTTAAAATATAT
* * * * * *
6369019 TATTTTCATATTTTATTTTTTATATTA-TTTAGCAAAAAATATTTCAAATGTATTACTTAAGTGT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-T
** * *
6369083 TTCTTTATATTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCTTAATTTTTTTATTTTT
65 TT-TTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCTT-A----TTTATTTTC
*
6369147 GTATCTTATTTTTTAAAATATCT
123 GTATCTTATTTTTTAAAATATAT
*
6369170 TATTTTCGTA-TTTATTTCTTTATATTA-TTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTT-TTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTT
*
6369233 TTTTTATATTTTTTTTAAT-AATAACCCTGATTTTAGCACTTTATTCATATTTTTATTTTCGTAT
65 TTTTTATA-TTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC-T-TATTTATTTTCGTAT
*
6369297 ATTATTTTTTAAAATATAT
127 CTTATTTTTTAAAATATAT
* * * **
6369316 TATTTTC-----TTA-----T-T-TTATTTTAGCATAAAACCTTTCAAATGTATTATTTAAG-TT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTTT
** * * * * * * *
6369368 TTTTATATTAATTTACTAAATAACCCTGAATTTGGCACCTTGTTCGTATTTTTTTATTTTCGGAT
66 TTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTC----TTATTTATTTTCGTAT
* *
6369433 TTTATTTTTTAAAATATAC
127 CTTATTTTTTAAAATATAT
*
6369452 TATTTTCATATTTTA-TTTTTATATTATTTTA
1 TATTTTCGTATTTTATTTTTTATATTATTTTA
6369483 ACAAAAAACT
Statistics
Matches: 887, Mismatches: 107, Indels: 101
0.81 0.10 0.09
Matches are distributed among these distances:
133 7 0.01
134 34 0.04
135 30 0.03
136 39 0.04
137 1 0.00
140 34 0.04
141 52 0.06
142 4 0.00
143 42 0.05
144 89 0.10
145 159 0.18
146 76 0.09
147 22 0.02
148 11 0.01
149 112 0.13
150 63 0.07
151 112 0.13
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (145 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTTT
TTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCTTATTTATTTTCGTATCTTA
TTTTTTAAAATATAT
Found at i:6369082 original size:294 final size:296
Alignment explanation
Indices: 6368291--6369482 Score: 1508
Period size: 294 Copynumber: 4.1 Consensus size: 296
6368281 ATAAGTAAAA
* ** * * * * *
6368291 TATTTTCGTATATTATTT-TTATATTATTTTACCAAAAAATATTTCAAATGTATTATGTAAGTAT
1 TATTTTCGTATTTTATTTCTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
* * *
6368355 TTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCGTA
66 TTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA---TTTTATTTTCGTA
* * * * * * * *
6368420 TCTT-CTTTTTAATATATATTATTTT-TTATTTTATTTTTTTATTTTATTTTAGTACATAATGTT
127 TATTATTTTTTAAAATATATTATTTTCATATTTTA-TTTTTTATATTATTTTAGCAAAAAATGTT
* * *
6368483 TCAAATGTATTATTTAAGTG--TTTTATATT-TTTTAATAAATAACCCTGA-TTTCAGCACTTTA
191 TCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTGA-CACTTTC
6368544 TTCGTA-----TT-TTTTCGTATCTT-TTTTTTAAAATATAT
255 TTCGTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
** * *
6368579 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATAAATTATTTGAGTC
1 TATTTTCGTATTTTATTTC-TTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* * *
6368644 TTTTTTATATTTTTTTAATAAATAATCCTGATTTTAGCACTTTATTCTTA-TTT-TTTTCCTATA
65 TTTTTTATA-TTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTATTTTCGTATA
6368707 TTA-TTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCA
129 TTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCA
* *
6368771 AATGTATTATGTAAGTGTTTTTTTATATTAATTGAATAAATAACCCTGATTTTGACACTTTCTTC
194 AATGTATTATTTAAGTG-TTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTC
6368836 GTA-TTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
258 GTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
6368874 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTT-ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* *
6368939 TTTTTTATATTTTTCAATAAATAACCTTGATTTTAGCACTTTATTCGTA-TTT-TTTTCGTATAT
65 TTTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTATTTTCGTATAT
*
6369002 TATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTA-TTTAGCAAAAAATATTTCAA
130 TATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAA
* *
6369066 ATGTATTACTTAAGTGTTTCTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCT
195 ATGTATTATTTAAGTGTTT-TTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCG
* *
6369131 TAATTTTTTTATTTTTGTATCTTATTTTTTAAAATATCT
259 T-ATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
6369170 TATTTTCGTA-TTTATTTCTTTATATTA-TTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTC-TTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* *
6369233 TTTTTATATTTTTTTTAAT-AATAACCCTGATTTTAGCACTTTATTCATATTTTTATTTTCGTAT
65 TTTTT-TATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTATTTTCGTAT
* **
6369297 ATTATTTTTTAAAATATATTATTTTC-----TTA-----T-T-TTATTTTAGCATAAAACCTTTC
128 ATTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTC
* * * * *
6369350 AAATGTATTATTTAA--GTTTTTTATATTAATTTACTAAATAACCCTGAATTTGGCACCTTGTTC
193 AAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTC
* * *
6369413 GTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATAC
258 GTATTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
*
6369452 TATTTTCATATTTTATTT-TTATATTATTTTA
1 TATTTTCGTATTTTATTTCTTATATTATTTTA
6369483 ACAAAAAACT
Statistics
Matches: 810, Mismatches: 65, Indels: 64
0.86 0.07 0.07
Matches are distributed among these distances:
281 8 0.01
282 45 0.06
283 47 0.06
284 4 0.00
285 76 0.09
286 40 0.05
287 1 0.00
288 26 0.03
289 29 0.04
290 81 0.10
291 2 0.00
292 3 0.00
293 5 0.01
294 211 0.26
295 149 0.18
296 48 0.06
297 35 0.04
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (296 bp):
TATTTTCGTATTTTATTTCTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGT
TTTTTATATTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTATTTTCGTATATT
ATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAA
TGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTGACACTTTCTTCGTA
TTTTTTTATTTTCGTATCTTATTTTTTAAAATATAT
Found at i:6369390 original size:134 final size:136
Alignment explanation
Indices: 6369211--6369470 Score: 373
Period size: 136 Copynumber: 1.9 Consensus size: 136
6369201 GTACATAATG
** * *
6369211 TTTCAAATGTATTATTTAAGTGTTTTTATATTTTTTTTAATAATAACCCTGATTTTAGCACTTTA
1 TTTCAAATGTATTATTTAAGTGTTTTTATATTTAATTTAATAATAACCCTGAATTTAGCACCTTA
* * *
6369276 TTC-ATATTTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCTTATTTTATTTTAGCAT
66 TTCGATATTTTTATTTTCGGATATTATTTTTTAAAATATACTATTTTCATATTTTATTTTAGCAT
6369340 AAAACC
131 AAAACC
* *
6369346 TTTCAAATGTATTATTTAAGT-TTTTTATA-TTAATTTACTAAATAACCCTGAATTTGGCACCTT
1 TTTCAAATGTATTATTTAAGTGTTTTTATATTTAATTTAAT-AATAACCCTGAATTTAGCACCTT
* * *
6369409 GTTCGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTT
65 ATTCG-ATATTTTTATTTTCGGATATTATTTTTTAAAATATACTATTTTCATATTTTATTTT
6369471 TATATTATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
133 7 0.06
134 31 0.28
135 21 0.19
136 51 0.46
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.56
Consensus pattern (136 bp):
TTTCAAATGTATTATTTAAGTGTTTTTATATTTAATTTAATAATAACCCTGAATTTAGCACCTTA
TTCGATATTTTTATTTTCGGATATTATTTTTTAAAATATACTATTTTCATATTTTATTTTAGCAT
AAAACC
Found at i:6369885 original size:13 final size:14
Alignment explanation
Indices: 6369861--6369890 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6369851 CTTCTTCTCC
6369861 TTCTTTTTTCTT-T
1 TTCTTTTTTCTTCT
6369874 TTCTTTTTTCTTCT
1 TTCTTTTTTCTTCT
6369888 TTC
1 TTC
6369891 AACTGCGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTCTTTTTTCTTCT
Found at i:6369934 original size:3 final size:3
Alignment explanation
Indices: 6369917--6369981 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
6369907 TCCTCCTCCC
* *
6369917 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTTT CTT CTT CTC CTT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT
6369963 -TT CTT -TT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT
6369982 TGTTCCCGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 6 0.11
3 41 0.77
4 6 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:6370172 original size:18 final size:19
Alignment explanation
Indices: 6370149--6370196 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
6370139 CCATTTTTTA
6370149 TTTTTTTTATTTTCAGT-T
1 TTTTTTTTATTTTCAGTGT
6370167 TTTTTTTCT-TTTTCAGTGT
1 TTTTTTT-TATTTTCAGTGT
6370186 TTTTTTTTATT
1 TTTTTTTTATT
6370197 GTTGCGAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.08, C:0.06, G:0.06, T:0.79
Consensus pattern (19 bp):
TTTTTTTTATTTTCAGTGT
Found at i:6370448 original size:28 final size:28
Alignment explanation
Indices: 6370381--6370435 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
6370371 ATAATAATTT
6370381 TAAA-AAATAAATTAGATAAGTATTTAAG
1 TAAATAAAT-AATTAGATAAGTATTTAAG
6370409 TAAATAAATAATTAGATTAA-TATTTAA
1 TAAATAAATAATTAGA-TAAGTATTTAA
6370436 TTATATATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (28 bp):
TAAATAAATAATTAGATAAGTATTTAAG
Found at i:6371253 original size:20 final size:20
Alignment explanation
Indices: 6371217--6371255 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6371207 GAGAATTTAA
*
6371217 AAAATATAAAAATTTTAAAG
1 AAAATATAAAAAATTTAAAG
6371237 AAAAT-TAAAATAATTTAAA
1 AAAATATAAAA-AATTTAAA
6371256 TGTTCTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATATAAAAAATTTAAAG
Found at i:6373540 original size:21 final size:21
Alignment explanation
Indices: 6373516--6373563 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
6373506 ATGATAGCTT
*
6373516 TTAAAATAA-TTATCTTTTAAA
1 TTAAAATAATTTATCTATT-AA
6373537 TT-AAATAATTTATCTATTAA
1 TTAAAATAATTTATCTATTAA
6373557 TTAAAAT
1 TTAAAAT
6373564 TTAATATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAAATAATTTATCTATTAA
Found at i:6373544 original size:20 final size:20
Alignment explanation
Indices: 6373519--6373561 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6373509 ATAGCTTTTA
*
6373519 AAATAA-TTATCTTTTAAATT
1 AAATAATTTATCTATT-AATT
6373539 AAATAATTTATCTATTAATT
1 AAATAATTTATCTATTAATT
6373559 AAA
1 AAA
6373562 ATTTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAATTTATCTATTAATT
Done.