Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 23 of 205
Found at i:6989549 original size:17 final size:17
Alignment explanation
Indices: 6989527--6989590 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
6989517 AATCTTAGAG
6989527 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
6989544 TTCTAATTATGTCTTAGAG-
1 TTCTAA-T-TGT-ATACAGC
6989563 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
6989580 TTTTAATTGTA
1 TTCTAATTGTA
6989591 GCCTTTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 4 0.11
17 19 0.50
18 2 0.05
19 9 0.24
20 4 0.11
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:6989560 original size:36 final size:36
Alignment explanation
Indices: 6989519--6989587 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
6989509 GATTATTTAA
6989519 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
*
6989555 TCTTAGAGTTCTAATTGTATACAGCTTTTAATT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATT
6989588 GTAGCCTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTATG
Found at i:6989568 original size:19 final size:18
Alignment explanation
Indices: 6989519--6989570 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
6989509 GATTATTTAA
6989519 TCTTAGAGTTCTAA-TTG
1 TCTTAGAGTTCTAATTTG
* *
6989536 T-ATACAGCTTCTAATTATG
1 TCTTAGAG-TTCTAATT-TG
6989555 TCTTAGAGTTCTAATT
1 TCTTAGAGTTCTAATT
6989571 GTATACAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 1 0.04
19 11 0.41
20 4 0.15
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTTG
Found at i:6989782 original size:41 final size:41
Alignment explanation
Indices: 6989737--6989818 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
6989727 CAAGGCTCGT
*
6989737 TCTTACTTCGTTCTTCTACTGTTCTTCGTGAAAATCTTAAG
1 TCTTACGTCGTTCTTCTACTGTTCTTCGTGAAAATCTTAAG
*
6989778 TCTTACGTCGTTCTTCTACTGTTCTTCGTGAAAATTTTAAG
1 TCTTACGTCGTTCTTCTACTGTTCTTCGTGAAAATCTTAAG
6989819 GGAATTCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (41 bp):
TCTTACGTCGTTCTTCTACTGTTCTTCGTGAAAATCTTAAG
Found at i:7006786 original size:13 final size:13
Alignment explanation
Indices: 7006768--7006792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7006758 GCCTTAACAA
7006768 GAGCAGCACTCAT
1 GAGCAGCACTCAT
7006781 GAGCAGCACTCA
1 GAGCAGCACTCA
7006793 AAACAGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (13 bp):
GAGCAGCACTCAT
Found at i:7007631 original size:38 final size:38
Alignment explanation
Indices: 7007580--7007655 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
7007570 AAAAGGGGAA
7007580 GCCGATCGGGAGGGGAAACTGAAGCAGCAACTAAACTG
1 GCCGATCGGGAGGGGAAACTGAAGCAGCAACTAAACTG
* *
7007618 GCCGATCGGGAGGGTAAACTGAAGCAGCACCTAAACTG
1 GCCGATCGGGAGGGGAAACTGAAGCAGCAACTAAACTG
7007656 AGCAGAAGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.33, T:0.12
Consensus pattern (38 bp):
GCCGATCGGGAGGGGAAACTGAAGCAGCAACTAAACTG
Found at i:7007667 original size:38 final size:38
Alignment explanation
Indices: 7007587--7007669 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
7007577 GAAGCCGATC
* *
7007587 GGGAGGGGAAACTGAAGCAGCAACTAAACTGGCCGATC
1 GGGAGGGGAAACTGAAGCAGCAACTAAACTGGCAGATA
* *
7007625 GGGAGGGTAAACTGAAGCAGCACCTAAACTGAGCAGA-A
1 GGGAGGGGAAACTGAAGCAGCAACTAAACTG-GCAGATA
7007663 GGGAGGG
1 GGGAGGG
7007670 ATTAGAAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 36 0.90
39 4 0.10
ACGTcount: A:0.35, C:0.18, G:0.37, T:0.10
Consensus pattern (38 bp):
GGGAGGGGAAACTGAAGCAGCAACTAAACTGGCAGATA
Found at i:7009702 original size:16 final size:18
Alignment explanation
Indices: 7009667--7009706 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
7009657 TATTCATAAC
7009667 AAAAAAAATCTTTGAAAT
1 AAAAAAAATCTTTGAAAT
*
7009685 AAAAAAAAT-TTT-ATAT
1 AAAAAAAATCTTTGAAAT
7009701 AAAAAA
1 AAAAAA
7009707 TTAATTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 3 0.14
18 9 0.43
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAAAAATCTTTGAAAT
Found at i:7012222 original size:106 final size:106
Alignment explanation
Indices: 7012054--7012254 Score: 393
Period size: 106 Copynumber: 1.9 Consensus size: 106
7012044 AAGCTTTAAG
7012054 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
7012119 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
*
7012160 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
7012225 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
7012255 NNNNNNNNNN
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:7014813 original size:1 final size:1
Alignment explanation
Indices: 7014809--7014932 Score: 248
Period size: 1 Copynumber: 124.0 Consensus size: 1
7014799 CCTCTCCCCC
7014809 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7014874 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7014933 AGGCAAAGTA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 123 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7039095 original size:9 final size:9
Alignment explanation
Indices: 7039081--7039214 Score: 50
Period size: 9 Copynumber: 14.7 Consensus size: 9
7039071 AATAATATAC
7039081 TACATAATA
1 TACATAATA
7039090 TACATACATAA
1 TACATA-AT-A
7039101 CTGACATAA-A
1 -T-ACATAATA
7039111 TACATAACT-
1 TACATAA-TA
*
7039120 GACATAAATA
1 TACAT-AATA
*
7039130 GACAGTAATA
1 TACA-TAATA
*
7039140 TGCAT-ATCA
1 TACATAAT-A
7039149 TACATAATA
1 TACATAATA
7039158 TACATACATA
1 TACATA-ATA
* *
7039168 -ACA-GACA
1 TACATAATA
7039175 TACATAA-A
1 TACATAATA
*
7039183 -A-AGCAATA
1 TACA-TAATA
* *
7039191 TGCATAACA
1 TACATAATA
7039200 TACATAATA
1 TACATAATA
7039209 TACATA
1 TACATA
7039215 CATAACAGAC
Statistics
Matches: 94, Mismatches: 13, Indels: 36
0.66 0.09 0.25
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 13 0.14
9 45 0.48
10 21 0.22
11 2 0.02
12 2 0.02
13 5 0.05
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.25
Consensus pattern (9 bp):
TACATAATA
Found at i:7039115 original size:17 final size:17
Alignment explanation
Indices: 7039093--7039129 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7039083 CATAATATAC
7039093 ATACATAACTGACATAA
1 ATACATAACTGACATAA
7039110 ATACATAACTGACATAA
1 ATACATAACTGACATAA
7039127 ATA
1 ATA
7039130 GACAGTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (17 bp):
ATACATAACTGACATAA
Found at i:7039175 original size:51 final size:51
Alignment explanation
Indices: 7039110--7039224 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
7039100 ACTGACATAA
* * * * *
7039110 ATACATAACTGACATAAATAGACAGTAATATGCATATCATACATAATATAC
1 ATACATAACAGACATAAATAAAAAGCAATATGCATAACATACATAATATAC
*
7039161 ATACATAACAGACATACATAAAAAGCAATATGCATAACATACATAATATAC
1 ATACATAACAGACATAAATAAAAAGCAATATGCATAACATACATAATATAC
7039212 ATACATAACAGAC
1 ATACATAACAGAC
7039225 TGACCTTTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.23
Consensus pattern (51 bp):
ATACATAACAGACATAAATAAAAAGCAATATGCATAACATACATAATATAC
Found at i:7039219 original size:13 final size:13
Alignment explanation
Indices: 7038982--7039219 Score: 100
Period size: 13 Copynumber: 18.8 Consensus size: 13
7038972 AAAACACTGC
7038982 ACATACATAATAT
1 ACATACATAATAT
*
7038995 A-A-ACTGTAATAT
1 ACATAC-ATAATAT
*
7039007 ACATACATGATAT
1 ACATACATAATAT
*
7039020 ACATACATATTAT
1 ACATACATAATAT
* *
7039033 A-A-GCAGTAATAA
1 ACATACA-TAATAT
*
7039045 ACATAACATAACAT
1 ACAT-ACATAATAT
7039059 ACATACAT-A-A-
1 ACATACATAATAT
7039069 AC--A-ATAATAT
1 ACATACATAATAT
7039079 AC-TACATAATAT
1 ACATACATAATAT
*
7039091 ACATACATAACT-G
1 ACATACATAA-TAT
*
7039104 ACATAAATACATA-
1 ACATACATA-ATAT
*
7039117 AC-TGACATAAATAG
1 ACAT-ACAT-AATAT
7039131 ACAGTA-AT-ATGCAT
1 ACA-TACATAAT--AT
7039145 ATCATACATAATAT
1 A-CATACATAATAT
* *
7039159 ACATACATAACAG
1 ACATACATAATAT
*
7039172 ACATACATAA-AA
1 ACATACATAATAT
* *
7039184 AGCA-ATATGCATA-
1 A-CATACAT-AATAT
7039197 ACATACATAATAT
1 ACATACATAATAT
7039210 ACATACATAA
1 ACATACATAA
7039220 CAGACTGACC
Statistics
Matches: 172, Mismatches: 22, Indels: 62
0.67 0.09 0.24
Matches are distributed among these distances:
7 2 0.01
8 2 0.01
9 1 0.01
10 4 0.02
11 6 0.03
12 37 0.22
13 85 0.49
14 25 0.15
15 7 0.04
16 3 0.02
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (13 bp):
ACATACATAATAT
Found at i:7040045 original size:39 final size:39
Alignment explanation
Indices: 7039991--7040071 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
7039981 TTTTTTCAAA
7039991 TGAGTCGGGTCAACACGGGGCAAAAGGGTCTTGGGAGTC
1 TGAGTCGGGTCAACACGGGGCAAAAGGGTCTTGGGAGTC
*
7040030 TGAGTCGGGTCAACACGGGTCAAAAGGGTCTTGGGAGTC
1 TGAGTCGGGTCAACACGGGGCAAAAGGGTCTTGGGAGTC
7040069 TGA
1 TGA
7040072 CACGTGGTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (39 bp):
TGAGTCGGGTCAACACGGGGCAAAAGGGTCTTGGGAGTC
Found at i:7040832 original size:20 final size:20
Alignment explanation
Indices: 7040807--7040846 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7040797 AATATTTTCT
*
7040807 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
7040827 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
7040847 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:7040853 original size:14 final size:14
Alignment explanation
Indices: 7040830--7040869 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7040820 ACAGAAAAGT
*
7040830 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
7040844 AAATCATTTTACGG
1 AAAACATTTTACAG
7040858 AAAACATTTTAC
1 AAAACATTTTAC
7040870 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:7043573 original size:24 final size:24
Alignment explanation
Indices: 7043542--7043596 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
7043532 TTTTATTTTG
7043542 TTGAAATTAGTTTTAATTGCACAT
1 TTGAAATTAGTTTTAATTGCACAT
7043566 TTGAAATTAGTTTTAATTGCACAT
1 TTGAAATTAGTTTTAATTGCACAT
*
7043590 TTAAAAT
1 TTGAAAT
7043597 GCTTCAGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (24 bp):
TTGAAATTAGTTTTAATTGCACAT
Found at i:7052014 original size:40 final size:40
Alignment explanation
Indices: 7051965--7052041 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
7051955 GCATTTCGTG
*
7051965 TGGATTCATCCTCCCAATGCATCTCTTTCCACCACTTTTT
1 TGGAATCATCCTCCCAATGCATCTCTTTCCACCACTTTTT
7052005 TGGAATCATCCTCCCAATGCATCTCTTTCCACCACTT
1 TGGAATCATCCTCCCAATGCATCTCTTTCCACCACTT
7052042 CTCCTTTCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.19, C:0.36, G:0.08, T:0.36
Consensus pattern (40 bp):
TGGAATCATCCTCCCAATGCATCTCTTTCCACCACTTTTT
Found at i:7055219 original size:19 final size:20
Alignment explanation
Indices: 7055190--7055234 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
7055180 AAAATAAATA
7055190 CCAAAATCAAAATT-AAAGT
1 CCAAAATCAAAATTAAAAGT
7055209 CCCAAAA-CAAAATTAAAAGT
1 -CCAAAATCAAAATTAAAAGT
7055229 CCAAAA
1 CCAAAA
7055235 GTCCGTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.60, C:0.20, G:0.04, T:0.16
Consensus pattern (20 bp):
CCAAAATCAAAATTAAAAGT
Found at i:7063723 original size:21 final size:21
Alignment explanation
Indices: 7063674--7063717 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7063664 GTTCTCCACG
* *
7063674 ACTGCCATTTCCTGCTCGACC
1 ACTGCCATGTCCTACTCGACC
7063695 ACTGCCATGTCCTACTCGACC
1 ACTGCCATGTCCTACTCGACC
7063716 AC
1 AC
7063718 GACCATAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.43, G:0.14, T:0.25
Consensus pattern (21 bp):
ACTGCCATGTCCTACTCGACC
Found at i:7067502 original size:11 final size:11
Alignment explanation
Indices: 7067486--7067510 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7067476 ATCTTGTGGC
7067486 AAAAAAAAAGG
1 AAAAAAAAAGG
7067497 AAAAAAAAAGG
1 AAAAAAAAAGG
7067508 AAA
1 AAA
7067511 GAGATGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:7068977 original size:21 final size:20
Alignment explanation
Indices: 7068940--7068981 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
7068930 TGTATGAGCT
7068940 TGAATGATTTATGATAGATTA
1 TGAATGATTTATGATAG-TTA
*
7068961 TGAATG-TTTGATTATAGTTA
1 TGAATGATTT-ATGATAGTTA
7068981 T
1 T
7068982 ACAAGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (20 bp):
TGAATGATTTATGATAGTTA
Found at i:7071520 original size:8 final size:8
Alignment explanation
Indices: 7071507--7071582 Score: 59
Period size: 8 Copynumber: 9.2 Consensus size: 8
7071497 AAAACAGAGA
7071507 AAGAAAAG
1 AAGAAAAG
7071515 AAGAAAAG
1 AAGAAAAG
*
7071523 AAGGGAATAG
1 AA--GAAAAG
7071533 AAAGAAAAG
1 -AAGAAAAG
7071542 AAGAAAAG
1 AAGAAAAG
*
7071550 AAGAGAA-
1 AAGAAAAG
*
7071557 TAGATAAA-
1 AAGA-AAAG
7071565 AAG-AAAG
1 AAGAAAAG
7071572 AAAGAAAAG
1 -AAGAAAAG
7071581 AA
1 AA
7071583 ACGTGAAGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
6 3 0.05
7 3 0.05
8 33 0.60
9 9 0.16
10 5 0.09
11 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (8 bp):
AAGAAAAG
Found at i:7071534 original size:27 final size:27
Alignment explanation
Indices: 7071504--7071582 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
7071494 TTCAAAACAG
*
7071504 AGAAAGAAAAGAAGAAAAGAAGGGAAT
1 AGAAAGAAAAGAAGAAAAGAAGAGAAT
7071531 AGAAAGAAAAGAAGAAAAGAAGAGAAT
1 AGAAAGAAAAGAAGAAAAGAAGAGAAT
* *
7071558 AGATA-AAAAGAA-AGAAAGAAAAGAA
1 AGAAAGAAAAGAAGA-AAAGAAGAGAA
7071583 ACGTGAAGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
25 1 0.02
26 17 0.35
27 30 0.62
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (27 bp):
AGAAAGAAAAGAAGAAAAGAAGAGAAT
Found at i:7083979 original size:22 final size:20
Alignment explanation
Indices: 7083929--7083979 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
7083919 ATCAAATAAT
7083929 ATGACAA-ATATTAAAAAAA
1 ATGACAATATATTAAAAAAA
*
7083948 AT-ACATTATATATATAAAAAA
1 ATGACAATATAT-TA-AAAAAA
7083969 ATGACAATATA
1 ATGACAATATA
7083980 CATACAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.12
19 6 0.23
20 2 0.08
21 8 0.31
22 7 0.27
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (20 bp):
ATGACAATATATTAAAAAAA
Found at i:7084517 original size:12 final size:12
Alignment explanation
Indices: 7084502--7084526 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7084492 ATAAGAACAT
7084502 TTATAGAAAATA
1 TTATAGAAAATA
7084514 TTATAGAAAATA
1 TTATAGAAAATA
7084526 T
1 T
7084527 AAAACAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TTATAGAAAATA
Found at i:7087777 original size:30 final size:30
Alignment explanation
Indices: 7087736--7087797 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
7087726 AATCGGAAGT
*
7087736 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGACACTAAGTGTGCGATTTAAACTAGC
7087766 TTTGACACTAAGTGTGCGATTTAAACTAGC
1 TTTGACACTAAGTGTGCGATTTAAACTAGC
7087796 TT
1 TT
7087798 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (30 bp):
TTTGACACTAAGTGTGCGATTTAAACTAGC
Found at i:7090088 original size:21 final size:21
Alignment explanation
Indices: 7090064--7090107 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7090054 TCTGCTCCAG
7090064 ATGTGATAGCTAGAATTTTCT
1 ATGTGATAGCTAGAATTTTCT
7090085 ATGTGATAGCTAGAATTTTCT
1 ATGTGATAGCTAGAATTTTCT
7090106 AT
1 AT
7090108 CTTTTTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (21 bp):
ATGTGATAGCTAGAATTTTCT
Found at i:7096366 original size:21 final size:21
Alignment explanation
Indices: 7096340--7096379 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7096330 CAAAACAATG
*
7096340 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
7096361 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
7096380 TAGAAGGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:7100986 original size:17 final size:17
Alignment explanation
Indices: 7100964--7100996 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7100954 CAATTTTTTT
7100964 AGTTGAAAATAGTGGGG
1 AGTTGAAAATAGTGGGG
*
7100981 AGTTGAAAATGGTGGG
1 AGTTGAAAATAGTGGG
7100997 AGGTGCAAAA
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:0.33, C:0.00, G:0.42, T:0.24
Consensus pattern (17 bp):
AGTTGAAAATAGTGGGG
Found at i:7104361 original size:21 final size:21
Alignment explanation
Indices: 7104315--7104367 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7104305 CTAAAACTTA
* * *
7104315 AAGCGGAGGCAGCAACGAGGG
1 AAGCAGAGGCAGCAACAAAGG
7104336 AAGCAGAGGCAGCAACAAAGG
1 AAGCAGAGGCAGCAACAAAGG
*
7104357 CAGCAGAGGCA
1 AAGCAGAGGCA
7104368 ACAAGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.40, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACAAAGG
Found at i:7104826 original size:43 final size:43
Alignment explanation
Indices: 7104753--7104900 Score: 172
Period size: 43 Copynumber: 3.5 Consensus size: 43
7104743 AAAAAAGGTT
* * * * ** * *
7104753 GCTAAAAATCATGTTCTTTAGTGGCGTTTGTAATAAAAGCGCC
1 GCTAAAGATCATGTTCTATAGCGGCATTTGTAGGAAAAGTGAC
* *
7104796 GCTAAATATCATGTTCTATAGCAGCATTTGTAGGAAAAGTGAC
1 GCTAAAGATCATGTTCTATAGCGGCATTTGTAGGAAAAGTGAC
* **
7104839 -CTAAAGATCATATTCTATAGCGGCATTTGTAGGAAAAGTGTT
1 GCTAAAGATCATGTTCTATAGCGGCATTTGTAGGAAAAGTGAC
7104881 GCTAAAGATCATGTTCTATA
1 GCTAAAGATCATGTTCTATA
7104901 ATGGCGTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 37 0.42
43 52 0.58
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (43 bp):
GCTAAAGATCATGTTCTATAGCGGCATTTGTAGGAAAAGTGAC
Found at i:7104855 original size:42 final size:43
Alignment explanation
Indices: 7104797--7104900 Score: 156
Period size: 42 Copynumber: 2.4 Consensus size: 43
7104787 AAAAGCGCCG
*
7104797 CTAAATATCATGTTCTATAGCAGCATTTGTAGGAAAAGTG-AC
1 CTAAAGATCATGTTCTATAGCAGCATTTGTAGGAAAAGTGTAC
* * **
7104839 CTAAAGATCATATTCTATAGCGGCATTTGTAGGAAAAGTGTTG
1 CTAAAGATCATGTTCTATAGCAGCATTTGTAGGAAAAGTGTAC
7104882 CTAAAGATCATGTTCTATA
1 CTAAAGATCATGTTCTATA
7104901 ATGGCGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
42 37 0.67
43 18 0.33
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (43 bp):
CTAAAGATCATGTTCTATAGCAGCATTTGTAGGAAAAGTGTAC
Found at i:7105529 original size:25 final size:24
Alignment explanation
Indices: 7105501--7105548 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
7105491 TAAAAAAAAT
7105501 TATAATATTTTTATGAATATATAAG
1 TATAATATTTTTAT-AATATATAAG
* *
7105526 TATATTGTTTTTATAATATATAA
1 TATAATATTTTTATAATATATAA
7105549 CGTGAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (24 bp):
TATAATATTTTTATAATATATAAG
Found at i:7107453 original size:27 final size:26
Alignment explanation
Indices: 7107406--7107462 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
7107396 TTAAAAGCTT
** *
7107406 AATTAAAAAAACTTATTTTTTTTTAAA
1 AATTAAAAAAACTTA-ACTTTTTAAAA
7107433 AATTAAAAAAAAC-TAACTTTTTAAAA
1 AATT-AAAAAAACTTAACTTTTTAAAA
7107459 AATT
1 AATT
7107463 TATAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 12 0.46
27 6 0.23
28 8 0.31
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTAAAAAAACTTAACTTTTTAAAA
Found at i:7112508 original size:19 final size:19
Alignment explanation
Indices: 7112465--7112545 Score: 92
Period size: 20 Copynumber: 4.1 Consensus size: 19
7112455 CTTTATATAT
*
7112465 TTTTTAGAATTTATTTTGAAA
1 TTTTTA-AAATTATTTTG-AA
7112486 TTTTTATAAA-TATTTTGAA
1 TTTTTA-AAATTATTTTGAA
* *
7112505 TTTTAAAAATTATTTTAAA
1 TTTTTAAAATTATTTTGAA
7112524 TTTTTGAAAATTATTTTGAA
1 TTTTT-AAAATTATTTTGAA
7112544 TT
1 TT
7112546 ATTTTATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
18 3 0.06
19 19 0.37
20 22 0.42
21 8 0.15
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTTAAAATTATTTTGAA
Found at i:7112509 original size:39 final size:39
Alignment explanation
Indices: 7112466--7112545 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
7112456 TTTATATATT
* *
7112466 TTTTAGAATTTATTTTGAAATTTTT-ATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AAATTTTTGA-AAATTATTTTGAA
7112505 TTTTAAAAATTATTTTAAATTTTTGAAAATTATTTTGAA
1 TTTTAAAAATTATTTTAAATTTTTGAAAATTATTTTGAA
7112544 TT
1 TT
7112546 ATTTTATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 11 0.30
39 26 0.70
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (39 bp):
TTTTAAAAATTATTTTAAATTTTTGAAAATTATTTTGAA
Found at i:7112863 original size:22 final size:22
Alignment explanation
Indices: 7112835--7112878 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7112825 AAAATATGTA
7112835 TGAAGCATAAGAATTTTTTTGT
1 TGAAGCATAAGAATTTTTTTGT
7112857 TGAAGCATAAGAATTTTTTTGT
1 TGAAGCATAAGAATTTTTTTGT
7112879 CACCCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (22 bp):
TGAAGCATAAGAATTTTTTTGT
Found at i:7112886 original size:21 final size:22
Alignment explanation
Indices: 7112840--7112886 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
7112830 ATGTATGAAG
* *
7112840 CATAAGAATTTTTTTGTTGAAG
1 CATAAGAATTTTTTTGTTCAAC
*
7112862 CATAAGAATTTTTTTG-TCACC
1 CATAAGAATTTTTTTGTTCAAC
7112883 CATA
1 CATA
7112887 TAGTGAAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (22 bp):
CATAAGAATTTTTTTGTTCAAC
Found at i:7113028 original size:31 final size:31
Alignment explanation
Indices: 7112990--7113051 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
7112980 CTATGTTTGC
7112990 ATCCATACAACAAAGTTCATTATTGATTTTA
1 ATCCATACAACAAAGTTCATTATTGATTTTA
7113021 ATCCATACAACAAAGTTCATTATTGATTTTA
1 ATCCATACAACAAAGTTCATTATTGATTTTA
7113052 TTCTCTCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (31 bp):
ATCCATACAACAAAGTTCATTATTGATTTTA
Found at i:7117504 original size:21 final size:22
Alignment explanation
Indices: 7117478--7117524 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
7117468 TTGTTGTTGT
*
7117478 TTTTTTTATTGTTTTGCCAT-A
1 TTTTTTCATTGTTTTGCCATCA
*
7117499 TTTTTTCATTGTTTTGCTATCA
1 TTTTTTCATTGTTTTGCCATCA
7117521 TTTT
1 TTTT
7117525 GCTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.68
Consensus pattern (22 bp):
TTTTTTCATTGTTTTGCCATCA
Found at i:7119815 original size:314 final size:314
Alignment explanation
Indices: 7119245--7119847 Score: 820
Period size: 314 Copynumber: 1.9 Consensus size: 314
7119235 CTATGTATTT
7119245 ATAATTTTCAAAGGATTAAATCAAACTTTTATTATTTGAGGGGCTAAAATACAACTTTACCATTA
1 ATAATTTTCAAAGGATTAAATCAAACTTTTATTATTTGAGGGGCTAAAATACAACTTTACCATTA
** *
7119310 CTAATTTAAAATTTTATAACTTATAAAAGGCCTAAATGAATTTTTTTCTATTTTAGGGGTGGCTC
66 CTAATTTAAAATTTTATAACTTATAAAAGGCCTAAATGAATAATTTTCCATTTTAGGGGTGGCTC
* * *** * * * * *
7119375 GGGGCCCTTGGTTGCCCCTCTTGGCTCCGCCACTGCAAATGACATTCACCCTTCAAACTTTGCCT
131 GAGGCCCCTACCTCCCCCTCTTAGCTCCGCCACTACAAATAACATTCACCCTTCAAACATTGCCT
* *
7119440 ACACAGCGACACTCTAGAAATGTTTTATGTAATTTTGTAGGACTTGCTTCTTTATGGTGTTTTTT
196 ACACAACGACACTCTAGAAATGTTTTATGTAATTTTGTAGGACTTACTTCTTTATGGTG-TTTTT
* ** *
7119505 TTTTGTAGTAATGCTTTGAGATTGTTTATTACTTCATTTATGAATTAAAGATTAA
260 TCTTACAGCAATGCTTTGAGATTGTTTATTACTTCATTTATGAATTAAAGATTAA
* * * * ** *
7119560 ATAATTTT-AAAGGATTAAATTAAATTTTTATTATTTTTAGGGGCTAAAGTGTAATTTTACCATT
1 ATAATTTTCAAAGGATTAAATCAAACTTTTATTA-TTTGAGGGGCTAAAATACAACTTTACCATT
**
7119624 TTTAATTTAAAATTTTATAACTTATAAAAGGCCTAAATGTAA-AATTTTCCATTTTAGAGGG-GG
65 ACTAATTTAAAATTTTATAACTTATAAAAGGCCTAAATG-AATAATTTTCCATTTTAG-GGGTGG
**
7119687 -TCGAGGCCCCTACCTCCCCCTCTTAGCTTTGCCACTACAAATAACATTCA-CCTTGCAAACATT
128 CTCGAGGCCCCTACCTCCCCCTCTTAGCTCCGCCACTACAAATAACATTCACCCTT-CAAACATT
* * * *
7119750 GCCTACACAACGACATTCTAGAGATGTTTTATGTAGTTTTGTAGGACTTACTTCTTTGTGGTGTT
192 GCCTACACAACGACACTCTAGAAATGTTTTATGTAATTTTGTAGGACTTACTTCTTTATGGTGTT
7119815 TTTTCTTACAGCAATGCTTTGAGATTGTTTATT
257 TTTTCTTACAGCAATGCTTTGAGATTGTTTATT
7119848 CTATTTTCTA
Statistics
Matches: 250, Mismatches: 34, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
313 35 0.14
314 126 0.50
315 84 0.34
316 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (314 bp):
ATAATTTTCAAAGGATTAAATCAAACTTTTATTATTTGAGGGGCTAAAATACAACTTTACCATTA
CTAATTTAAAATTTTATAACTTATAAAAGGCCTAAATGAATAATTTTCCATTTTAGGGGTGGCTC
GAGGCCCCTACCTCCCCCTCTTAGCTCCGCCACTACAAATAACATTCACCCTTCAAACATTGCCT
ACACAACGACACTCTAGAAATGTTTTATGTAATTTTGTAGGACTTACTTCTTTATGGTGTTTTTT
CTTACAGCAATGCTTTGAGATTGTTTATTACTTCATTTATGAATTAAAGATTAA
Found at i:7127609 original size:26 final size:26
Alignment explanation
Indices: 7127575--7127639 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
7127565 ATAAGAGCCA
* * *
7127575 TAATTAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAAGCTCACAAAGAACCTT
*
7127601 TAATCAGGAAGCTCACGAAGAACCTT
1 TAATCAGGAAGCTCACAAAGAACCTT
7127627 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
7127640 CGGATAGCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
25 5 0.14
26 30 0.86
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAACCTT
Found at i:7131826 original size:11 final size:10
Alignment explanation
Indices: 7131794--7131848 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 10
7131784 CATGAGATTT
7131794 TGATAT-ACA
1 TGATATGACA
*
7131803 TGATTTGACA
1 TGATATGACA
7131813 TGATATGCACA
1 TGATATG-ACA
*
7131824 TGATATG-TA
1 TGATATGACA
7131833 TGATATGGACA
1 TGATAT-GACA
7131844 TGATA
1 TGATA
7131849 AATTCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 12 0.32
10 10 0.26
11 16 0.42
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:7132194 original size:31 final size:31
Alignment explanation
Indices: 7132159--7132242 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
7132149 CGTTTACAGT
*
7132159 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAACAATGA
* ** * *
7132190 AAAGGCTTCGGCCCAATGGCATGAGCAATGT
1 AAAGGCTTCGGCCCAGTGATATGAACAATGA
*
7132221 AAAGGCTTCGGCCCTGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
7132243 CTGAGATTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
30 3 0.07
31 40 0.93
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAACAATGA
Found at i:7139131 original size:11 final size:10
Alignment explanation
Indices: 7139099--7139173 Score: 66
Period size: 11 Copynumber: 7.5 Consensus size: 10
7139089 CATGAGATTT
7139099 TGATAT-ACA
1 TGATATGACA
*
7139108 TGATTTGACA
1 TGATATGACA
7139118 TGATATGCACA
1 TGATATG-ACA
*
7139129 TGATATG-TA
1 TGATATGACA
7139138 TGATATGCACA
1 TGATATG-ACA
*
7139149 TGATATG-TA
1 TGATATGACA
*
7139158 TAATATGTACA
1 TGATATG-ACA
7139169 TGATA
1 TGATA
7139174 AATTCATATA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
9 20 0.38
10 9 0.17
11 23 0.44
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:7139142 original size:20 final size:20
Alignment explanation
Indices: 7139117--7139173 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
7139107 ATGATTTGAC
7139117 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
7139137 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
* *
7139157 ATAATATGTACATGATA
1 ATGATATGCACATGATA
7139174 AATTCATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.35
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:7139255 original size:25 final size:25
Alignment explanation
Indices: 7139221--7139290 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
7139211 GAGGAAGTGC
7139221 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
7139246 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
7139271 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
7139291 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:7139303 original size:24 final size:24
Alignment explanation
Indices: 7139221--7139326 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 24
7139211 GAGGAAGTGC
*
7139221 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
7139246 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTAT-G
*
7139271 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
**
7139294 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
7139321 ATAAAG
1 A-AAAG
7139327 TAGCTATGCT
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
23 5 0.07
24 11 0.16
25 45 0.64
26 1 0.01
27 4 0.06
28 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:7139548 original size:31 final size:31
Alignment explanation
Indices: 7139510--7139593 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
7139500 CGTTTATAGT
* * *
7139510 AAAGGCTTCAGACCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAACAATGA
* *
7139541 AAAGGCTTCGGCCCAGTGACATGAACAATGT
1 AAAGGCTTCGGCCCAGTGATATGAACAATGA
7139572 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
7139594 CTGAGATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAACAATGA
Found at i:7142057 original size:25 final size:26
Alignment explanation
Indices: 7142013--7142169 Score: 123
Period size: 25 Copynumber: 6.3 Consensus size: 26
7142003 GTATAGTCAA
*
7142013 ACGAGCTG--TAAACGGGAAGCTTC-T
1 ACGAGCTGAATAATCGGGAAGC-TCAT
*
7142037 CCGAGCTGAATAAT-GGGAAGCTCAT
1 ACGAGCTGAATAATCGGGAAGCTCAT
*
7142062 ACGAGCTGAAT-ATCTGGAAGCTCAT
1 ACGAGCTGAATAATCGGGAAGCTCAT
* * *
7142087 GCGAGCTGAAT-ATCTGAAAGCTCAT
1 ACGAGCTGAATAATCGGGAAGCTCAT
* * **
7142112 GCAAGCTGAAT-ATCAAGAAGCTCAT
1 ACGAGCTGAATAATCGGGAAGCTCAT
* * *
7142137 GCGAGCTGTATAA-CGGAAAGCTCAT
1 ACGAGCTGAATAATCGGGAAGCTCAT
*
7142162 ATGAGCTG
1 ACGAGCTG
7142170 TGGTGTGTCT
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
24 11 0.10
25 96 0.86
26 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (26 bp):
ACGAGCTGAATAATCGGGAAGCTCAT
Found at i:7142092 original size:50 final size:50
Alignment explanation
Indices: 7142038--7142169 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
7142028 GAAGCTTCTC
* **
7142038 CGAGCTGAATAATGGGAAGCTCATACGAGCTGAATATCTGGAAGCTCATG
1 CGAGCTGAATAATGGAAAGCTCATACGAGCTGAATATCAAGAAGCTCATG
* * *
7142088 CGAGCTGAAT-ATCTGAAAGCTCATGCAAGCTGAATATCAAGAAGCTCATG
1 CGAGCTGAATAAT-GGAAAGCTCATACGAGCTGAATATCAAGAAGCTCATG
* * *
7142138 CGAGCTGTATAACGGAAAGCTCATATGAGCTG
1 CGAGCTGAATAATGGAAAGCTCATACGAGCTG
7142170 TGGTGTGTCT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 65 0.96
51 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (50 bp):
CGAGCTGAATAATGGAAAGCTCATACGAGCTGAATATCAAGAAGCTCATG
Found at i:7142274 original size:25 final size:25
Alignment explanation
Indices: 7142243--7142353 Score: 93
Period size: 25 Copynumber: 4.4 Consensus size: 25
7142233 AGCTGTAAAC
7142243 GGGAAGCTTC-TCCGAGCTGAATAAT
1 GGGAAGC-TCATCCGAGCTGAATAAT
*
7142268 GGGAAGCTCATGCGAGCTGAAT-AT
1 GGGAAGCTCATCCGAGCTGAATAAT
* * *
7142292 CTGAAAGCTCATGCGAGCTGAAT-AT
1 -GGGAAGCTCATCCGAGCTGAATAAT
** * * *
7142317 CAAGAAGCTCATGCGAGCTGTATAAC
1 -GGGAAGCTCATCCGAGCTGAATAAT
7142343 GGGAAGCTCAT
1 GGGAAGCTCAT
7142354 ATGAACTGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
24 4 0.05
25 68 0.93
26 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (25 bp):
GGGAAGCTCATCCGAGCTGAATAAT
Found at i:7142350 original size:50 final size:50
Alignment explanation
Indices: 7142231--7142353 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
7142221 CATATTCAAA
**
7142231 CGAGCTGTA-AACGGGAAGCTTC-TCCGAGCTGAATAATGGGAAGCTCATG
1 CGAGCTGTATAACGGGAAGC-TCATCCGAGCTGAATAATAAGAAGCTCATG
* * * * *
7142280 CGAGCTGAATATCTGAAAGCTCATGCGAGCTGAAT-ATCAAGAAGCTCATG
1 CGAGCTGTATAACGGGAAGCTCATCCGAGCTGAATAAT-AAGAAGCTCATG
7142330 CGAGCTGTATAACGGGAAGCTCAT
1 CGAGCTGTATAACGGGAAGCTCAT
7142354 ATGAACTGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
49 12 0.20
50 48 0.80
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (50 bp):
CGAGCTGTATAACGGGAAGCTCATCCGAGCTGAATAATAAGAAGCTCATG
Found at i:7142378 original size:192 final size:192
Alignment explanation
Indices: 7142063--7142417 Score: 658
Period size: 192 Copynumber: 1.8 Consensus size: 192
7142053 GAAGCTCATA
*
7142063 CGAGCTGAATATCTGGAAGCTCATGCGAGCTGAATATCTGAAAGCTCATGCAAGCTGAATATCAA
1 CGAGCTGAATATCGGGAAGCTCATGCGAGCTGAATATCTGAAAGCTCATGCAAGCTGAATATCAA
*
7142128 GAAGCTCATGCGAGCTGTATAACGGAAAGCTCATATGAGCTGTGGTGTGTCTGCAACACATGCAG
66 GAAGCTCATGCGAGCTGTATAACGGAAAGCTCATATGAACTGTGGTGTGTCTGCAACACATGCAG
7142193 GGCCCGACCAAATCGGTAACCCTAATGACATATTCAAACGAGCTGTAAACGGGAAGCTTCTC
131 GGCCCGACCAAATCGGTAACCCTAATGACATATTCAAACGAGCTGTAAACGGGAAGCTTCTC
*
7142255 CGAGCTGAATAAT-GGGAAGCTCATGCGAGCTGAATATCTGAAAGCTCATGCGAGCTGAATATCA
1 CGAGCTGAAT-ATCGGGAAGCTCATGCGAGCTGAATATCTGAAAGCTCATGCAAGCTGAATATCA
*
7142319 AGAAGCTCATGCGAGCTGTATAACGGGAAGCTCATATGAACTGTGGTGTGTCTGCAACACATGCA
65 AGAAGCTCATGCGAGCTGTATAACGGAAAGCTCATATGAACTGTGGTGTGTCTGCAACACATGCA
7142384 GGGCCCGACCAAATCGGTAACCCTAATGACATAT
130 GGGCCCGACCAAATCGGTAACCCTAATGACATAT
7142418 CATTTATATC
Statistics
Matches: 158, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
192 156 0.99
193 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (192 bp):
CGAGCTGAATATCGGGAAGCTCATGCGAGCTGAATATCTGAAAGCTCATGCAAGCTGAATATCAA
GAAGCTCATGCGAGCTGTATAACGGAAAGCTCATATGAACTGTGGTGTGTCTGCAACACATGCAG
GGCCCGACCAAATCGGTAACCCTAATGACATATTCAAACGAGCTGTAAACGGGAAGCTTCTC
Found at i:7147678 original size:20 final size:19
Alignment explanation
Indices: 7147653--7147700 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
7147643 ATAAAATATT
*
7147653 TGTTAATAAAATATCAAAAC
1 TGTTAATAAAACAT-AAAAC
**
7147673 TGTTAACTAATGCATAAAAC
1 TGTTAA-TAAAACATAAAAC
7147693 TGTTAATA
1 TGTTAATA
7147701 TAGATAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 17 0.71
21 5 0.21
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (19 bp):
TGTTAATAAAACATAAAAC
Found at i:7151602 original size:23 final size:23
Alignment explanation
Indices: 7151576--7151621 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7151566 AGCTGTGTTA
7151576 TAGATTTCCGAGGAAGTTGAGAG
1 TAGATTTCCGAGGAAGTTGAGAG
7151599 TAGATTTCCGAGGAAGTTGAGAG
1 TAGATTTCCGAGGAAGTTGAGAG
7151622 GAGTACTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (23 bp):
TAGATTTCCGAGGAAGTTGAGAG
Found at i:7155577 original size:23 final size:23
Alignment explanation
Indices: 7155547--7155591 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7155537 TAGCACTTGA
7155547 GAATTTAACACTCCGGTGCTCCT
1 GAATTTAACACTCCGGTGCTCCT
**
7155570 GAATTTAACACTTTGGTGCTCC
1 GAATTTAACACTCCGGTGCTCC
7155592 AGATTTAGCA
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:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (23 bp):
GAATTTAACACTCCGGTGCTCCT
Found at i:7155603 original size:22 final size:24
Alignment explanation
Indices: 7155546--7155612 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 24
7155536 ATAGCACTTG
**
7155546 AGAATTTAACAC-TCCGGTGCTCC
1 AGAATTTAACACTTATGGTGCTCC
*
7155569 TGAATTTAACACTT-TGGTGCTCC
1 AGAATTTAACACTTATGGTGCTCC
*
7155592 AG-ATTTAGCACTTAT-GTGCTC
1 AGAATTTAACACTTATGGTGCTC
7155613 TGGTATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 16 0.42
23 21 0.55
24 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (24 bp):
AGAATTTAACACTTATGGTGCTCC
Found at i:7156537 original size:17 final size:17
Alignment explanation
Indices: 7156511--7156545 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7156501 AAATATGTTT
*
7156511 CATGAATTGAATTTTTG
1 CATGAATTGAAATTTTG
*
7156528 CATGACTTGAAATTTTG
1 CATGAATTGAAATTTTG
7156545 C
1 C
7156546 GATTGTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (17 bp):
CATGAATTGAAATTTTG
Found at i:7158633 original size:18 final size:18
Alignment explanation
Indices: 7158610--7158657 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
7158600 TTTAAAATTA
**
7158610 TGGGCCCACACACCTTTG
1 TGGGCCCACACACCCATG
*
7158628 TGGGCCCACACGCCCATG
1 TGGGCCCACACACCCATG
7158646 T-GGCCCACACAC
1 TGGGCCCACACAC
7158658 ATAGGTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.19, C:0.44, G:0.23, T:0.15
Consensus pattern (18 bp):
TGGGCCCACACACCCATG
Found at i:7159389 original size:7 final size:6
Alignment explanation
Indices: 7159373--7159419 Score: 69
Period size: 6 Copynumber: 7.7 Consensus size: 6
7159363 AAATTTTGGG
7159373 AAAAAT AAAAAT AAAAAT AAAAAT AGAAAAT AGAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT A-AAAAT AAAAAT AAAA
7159420 TCTATTTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.13
6 22 0.56
7 12 0.31
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:7162211 original size:8 final size:8
Alignment explanation
Indices: 7162198--7162224 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
7162188 GAAGAACGGC
7162198 AAAAGCCG
1 AAAAGCCG
7162206 AAAAGCCG
1 AAAAGCCG
7162214 AAAAGCCG
1 AAAAGCCG
7162222 AAA
1 AAA
7162225 GAATGGCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.22, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:7162692 original size:27 final size:27
Alignment explanation
Indices: 7162639--7162692 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7162629 TTGACCAAAA
* *
7162639 TACCCCTATAGGGTAAAATGACTATTT
1 TACCCCTAGAGGGTAAAATAACTATTT
*
7162666 TACCCCTCGAGGGT-AAATAACTGATTT
1 TACCCCTAGAGGGTAAAATAACT-ATTT
7162693 GTGCTATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAAATAACTATTT
Found at i:7162811 original size:27 final size:26
Alignment explanation
Indices: 7162752--7162803 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
7162742 GGAAGTGTTT
7162752 TATACTAGTGGCTTCGCCACATATAC
1 TATACTAGTGGCTTCGCCACATATAC
*
7162778 TATTACTAGTGGCTTTGCCACATATA
1 TA-TACTAGTGGCTTCGCCACATATA
7162804 TTGATACTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (26 bp):
TATACTAGTGGCTTCGCCACATATAC
Found at i:7162814 original size:24 final size:27
Alignment explanation
Indices: 7162755--7162814 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
7162745 AGTGTTTTAT
* *
7162755 ACTAGTGGCTTCGCCACATATACTATT
1 ACTACTGGCTTCGCCACATATACTATG
* *
7162782 ACTAGTGGCTTTGCCACATATA-T-TG
1 ACTACTGGCTTCGCCACATATACTATG
7162807 A-TACTGGC
1 ACTACTGGC
7162815 AGCTTTGCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.20
25 2 0.07
26 1 0.03
27 21 0.70
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (27 bp):
ACTACTGGCTTCGCCACATATACTATG
Found at i:7169289 original size:19 final size:19
Alignment explanation
Indices: 7169265--7169306 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
7169255 AGCCCACTTG
7169265 GGCCGAGTAATGGGCCTTA
1 GGCCGAGTAATGGGCCTTA
*
7169284 GGCCGAGTAATGGGCCTTG
1 GGCCGAGTAATGGGCCTTA
7169303 GGCC
1 GGCC
7169307 CATTTACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.40, T:0.19
Consensus pattern (19 bp):
GGCCGAGTAATGGGCCTTA
Found at i:7172022 original size:5 final size:6
Alignment explanation
Indices: 7171988--7172021 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
7171978 GAAATTTAGG
7171988 AAAAAT AAAAAT AAAAAT AGAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAA
7172022 TCTATTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.62
7 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:7175820 original size:18 final size:19
Alignment explanation
Indices: 7175782--7175822 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
7175772 TTGGTTCATG
7175782 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
7175801 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
7175819 TTTC
1 TTTC
7175823 TCAATTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:7177215 original size:18 final size:18
Alignment explanation
Indices: 7177194--7177230 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7177184 AATAATAACT
7177194 ATAATAAAAATCTATTTA
1 ATAATAAAAATCTATTTA
* *
7177212 ATAATAAATATTTATTTA
1 ATAATAAAAATCTATTTA
7177230 A
1 A
7177231 CACTTGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATAAAAATCTATTTA
Found at i:7177312 original size:13 final size:12
Alignment explanation
Indices: 7177280--7177313 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
7177270 CTTTTATATA
7177280 TATATAATAACT
1 TATATAATAACT
7177292 TA-ATAATATACT
1 TATATAATA-ACT
7177304 TATATAATAA
1 TATATAATAA
7177314 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:7177761 original size:24 final size:24
Alignment explanation
Indices: 7177706--7177766 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
7177696 ATATTTAACT
*
7177706 TAATAATAATACCTATTAAATAATAA
1 TAATAATAATA-GT-TTAAATAATAA
7177732 TAATAATAATAGTTTAATATAA-AA
1 TAATAATAATAGTTTAA-ATAATAA
*
7177756 TCATAATAATA
1 TAATAATAATA
7177767 ATAACAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 16 0.50
25 5 0.16
26 11 0.34
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATAATAATAGTTTAAATAATAA
Found at i:7179015 original size:27 final size:27
Alignment explanation
Indices: 7179000--7179055 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
7178990 GCCAAAATTC
7179000 AACAAACAACACAAAAACCAAAGAGCA
1 AACAAACAACACAAAAACCAAAGAGCA
7179027 AACAAACAACACAAAAACCAAAGAGCA
1 AACAAACAACACAAAAACCAAAGAGCA
7179054 AA
1 AA
7179056 GCCCAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.68, C:0.25, G:0.07, T:0.00
Consensus pattern (27 bp):
AACAAACAACACAAAAACCAAAGAGCA
Found at i:7182147 original size:18 final size:17
Alignment explanation
Indices: 7182114--7182147 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7182104 TTTTAGGCCG
*
7182114 TGTGGGCCACATGGGCA
1 TGTGGGCCACACGGGCA
7182131 TGTGGGCCCACACGGGC
1 TGTGGG-CCACACGGGC
7182148 TGGCAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.29, G:0.41, T:0.15
Consensus pattern (17 bp):
TGTGGGCCACACGGGCA
Found at i:7191810 original size:16 final size:17
Alignment explanation
Indices: 7191780--7191812 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7191770 AAAAATATTA
*
7191780 TTTTTCAATTGATTTAT
1 TTTTTCAATTAATTTAT
7191797 TTTTTCAA-TAATTTAT
1 TTTTTCAATTAATTTAT
7191813 CAAACAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTTCAATTAATTTAT
Found at i:7194236 original size:18 final size:17
Alignment explanation
Indices: 7194213--7194280 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
7194203 GCCCATATGG
7194213 CATGCCCGTGTGGGCCCA
1 CATGCCCGTGT-GGCCCA
**
7194231 CATGCCAATGTGG----
1 CATGCCCGTGTGGCCCA
7194244 CATGCCCGTGTGTGCCCA
1 CATGCCCGTGTG-GCCCA
*
7194262 CACGCCCGTGTGGCCCA
1 CATGCCCGTGTGGCCCA
7194279 CA
1 CA
7194281 CGGCCTATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
13 10 0.25
14 1 0.03
17 9 0.22
18 20 0.50
ACGTcount: A:0.15, C:0.38, G:0.29, T:0.18
Consensus pattern (17 bp):
CATGCCCGTGTGGCCCA
Found at i:7194236 original size:31 final size:31
Alignment explanation
Indices: 7194198--7194268 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
7194188 AAAATAGACT
7194198 CACATGCCCATATGGCATGCCCGTGTGGGCC
1 CACATGCCCATATGGCATGCCCGTGTGGGCC
* * *
7194229 CACATGCCAATGTGGCATGCCCGTGTGTGCC
1 CACATGCCCATATGGCATGCCCGTGTGGGCC
*
7194260 CACACGCCC
1 CACATGCCC
7194269 GTGTGGCCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.17, C:0.38, G:0.27, T:0.18
Consensus pattern (31 bp):
CACATGCCCATATGGCATGCCCGTGTGGGCC
Found at i:7194279 original size:17 final size:18
Alignment explanation
Indices: 7194247--7194282 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
7194237 AATGTGGCAT
7194247 GCCCGTGTGTGCCCACAC
1 GCCCGTGTGTGCCCACAC
7194265 GCCCGTGTG-GCCCACAC
1 GCCCGTGTGTGCCCACAC
7194282 G
1 G
7194283 GCCTATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.44, G:0.31, T:0.14
Consensus pattern (18 bp):
GCCCGTGTGTGCCCACAC
Found at i:7194373 original size:17 final size:17
Alignment explanation
Indices: 7194351--7194384 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7194341 CGTGTGGACT
*
7194351 ACCCATGTTGCCCACAC
1 ACCCATGTGGCCCACAC
7194368 ACCCATGTGGCCCACAC
1 ACCCATGTGGCCCACAC
7194385 TGCTCAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.47, G:0.15, T:0.15
Consensus pattern (17 bp):
ACCCATGTGGCCCACAC
Found at i:7204925 original size:13 final size:13
Alignment explanation
Indices: 7204907--7204931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7204897 CATATTTTCC
7204907 CTTTCTTTCTTTT
1 CTTTCTTTCTTTT
7204920 CTTTCTTTCTTT
1 CTTTCTTTCTTT
7204932 CATTCCTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTCTTTCTTTT
Found at i:7205009 original size:5 final size:5
Alignment explanation
Indices: 7204999--7205048 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
7204989 TTTATTTCTT
7204999 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
7205049 ACTTAATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:7206387 original size:21 final size:21
Alignment explanation
Indices: 7206287--7206419 Score: 88
Period size: 21 Copynumber: 6.3 Consensus size: 21
7206277 TCTTACGTGC
* *
7206287 TTCTGTTTAACTCATATGAGT
1 TTCTGTTCAACTCTTATGAGT
* * *
7206308 TTCTGTTCAACCCTAATGGGT
1 TTCTGTTCAACTCTTATGAGT
* * * * *
7206329 TTCCGTTCAGCTCTTTTAAGC
1 TTCTGTTCAACTCTTATGAGT
* * *
7206350 TTCTGTTTAA-TAGTTATGGGT
1 TTCTGTTCAACT-CTTATGAGT
*
7206371 TTCTGTTCAACTCTTATGAGC
1 TTCTGTTCAACTCTTATGAGT
** * *
7206392 TTCCATTCAACCCTTATGGGT
1 TTCTGTTCAACTCTTATGAGT
7206413 TTCTGTT
1 TTCTGTT
7206420 TAGCACTTAT
Statistics
Matches: 78, Mismatches: 32, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
20 1 0.01
21 76 0.97
22 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTCAACTCTTATGAGT
Found at i:7206409 original size:42 final size:42
Alignment explanation
Indices: 7206287--7206419 Score: 140
Period size: 42 Copynumber: 3.2 Consensus size: 42
7206277 TCTTACGTGC
* * * *
7206287 TTCTGTTTAACTCATATGAGTTTCTGTTCAACCCTAATGGGT
1 TTCTGTTCAACTCTTATGAGCTTCTGTTCAACCCTTATGGGT
* * * * * ***
7206329 TTCCGTTCAGCTCTTTTAAGCTTCTGTTTAATAGTTATGGGT
1 TTCTGTTCAACTCTTATGAGCTTCTGTTCAACCCTTATGGGT
**
7206371 TTCTGTTCAACTCTTATGAGCTTCCATTCAACCCTTATGGGT
1 TTCTGTTCAACTCTTATGAGCTTCTGTTCAACCCTTATGGGT
7206413 TTCTGTT
1 TTCTGTT
7206420 TAGCACTTAT
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (42 bp):
TTCTGTTCAACTCTTATGAGCTTCTGTTCAACCCTTATGGGT
Found at i:7206428 original size:21 final size:20
Alignment explanation
Indices: 7206403--7206451 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
7206393 TCCATTCAAC
*
7206403 CCTTATGGGTTTCTGTTTAG
1 CCTTATGGGTTTATGTTTAG
*
7206423 CACTTATGTGTTTATGTTTAG
1 C-CTTATGGGTTTATGTTTAG
7206444 CCTT-TGGG
1 CCTTATGGG
7206452 CTTTTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 4 0.16
21 18 0.72
ACGTcount: A:0.12, C:0.14, G:0.24, T:0.49
Consensus pattern (20 bp):
CCTTATGGGTTTATGTTTAG
Found at i:7212337 original size:18 final size:18
Alignment explanation
Indices: 7212301--7212338 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7212291 GGTCATATGC
*
7212301 ATGTATTTGAGTATTATA
1 ATGTATTTGAGAATTATA
7212319 ATGTATTTG-GAATTGATA
1 ATGTATTTGAGAATT-ATA
7212337 AT
1 AT
7212339 TTGACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (18 bp):
ATGTATTTGAGAATTATA
Found at i:7212871 original size:20 final size:20
Alignment explanation
Indices: 7212846--7212910 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
7212836 TGAATAATTC
7212846 CTCCTGATAGCACATTCGTG
1 CTCCTGATAGCACATTCGTG
* *
7212866 CTCCTGTTAGCAC-TACAGTG
1 CTCCTGATAGCACATTC-GTG
* * *
7212886 CTCCTGATGGCATATTCATG
1 CTCCTGATAGCACATTCGTG
7212906 CTCCT
1 CTCCT
7212911 ATTTGCATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.32
Consensus pattern (20 bp):
CTCCTGATAGCACATTCGTG
Found at i:7218755 original size:20 final size:20
Alignment explanation
Indices: 7218730--7218768 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7218720 TTTATAAGTC
*
7218730 ACACGCCTGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
7218750 ACACGCCCGTGTGGCTTGG
1 ACACGCCCGTGTGGCTTGG
7218769 CCGTGTGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.28, G:0.38, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:7220956 original size:18 final size:18
Alignment explanation
Indices: 7220906--7220980 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 18
7220896 AGTCAATCTT
*
7220906 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
* * * *
7220924 TAATAATAAACTATTCAG
1 TAACAGTCAATTATTCAG
*
7220942 TAACAGTCAATTATTTAG
1 TAACAGTCAATTATTCAG
* * *
7220960 TAGCAGTCAGTTATCCAG
1 TAACAGTCAATTATTCAG
7220978 TAA
1 TAA
7220981 TATTCAGTTA
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:7221207 original size:51 final size:53
Alignment explanation
Indices: 7221113--7221231 Score: 152
Period size: 51 Copynumber: 2.3 Consensus size: 53
7221103 CTGTAACGGT
* * * *
7221113 AACAGTAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAATAAATCTGG
1 AACAGTAACAGTAACAATAGAGGTA-ACAGAGTACCTCATCGGAACAAATCCGG
* * *
7221167 GACAGTAACAGTAACAATA-AGGT-ACAGAGTACCTCTTCGGAACGAATCCGG
1 AACAGTAACAGTAACAATAGAGGTAACAGAGTACCTCATCGGAACAAATCCGG
7221218 AACAGTAACAGTAA
1 AACAGTAACAGTAA
7221232 GGCGACACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 37 0.65
53 3 0.05
54 17 0.30
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAATAGAGGTAACAGAGTACCTCATCGGAACAAATCCGG
Found at i:7222759 original size:15 final size:15
Alignment explanation
Indices: 7222739--7222768 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7222729 CATTTTATTT
*
7222739 ATATTAGGATAATTA
1 ATATTAAGATAATTA
7222754 ATATTAAGATAATTA
1 ATATTAAGATAATTA
7222769 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:7222796 original size:27 final size:26
Alignment explanation
Indices: 7222735--7222797 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
7222725 ACTCCATTTT
7222735 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
7222762 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
7222790 ATTTTATT
1 ATTTTATT
7222798 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:7229199 original size:6 final size:6
Alignment explanation
Indices: 7229188--7229242 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
7229178 AGGCAACCCA
7229188 ATTTTT ATTTTT ATTTTT ATTTTT AGTTATTTT ATCTTATT A-TTTT A-TTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT A--T-TTTT AT-TT-TT ATTTTT ATTTTT
7229239 ATTT
1 ATTT
7229243 AGATATTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
5 8 0.19
6 23 0.53
7 3 0.07
8 4 0.09
9 5 0.12
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:7230182 original size:96 final size:96
Alignment explanation
Indices: 7230018--7230273 Score: 494
Period size: 96 Copynumber: 2.7 Consensus size: 96
7230008 AATTTCTAAA
7230018 AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT
1 AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT
7230083 CGATATGTTCTTAGGAAAAATAAAAATTAGG
66 CGATATGTTCTTAGGAAAAATAAAAATTAGG
7230114 AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT
1 AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT
7230179 CGATATGTTCTTAGGAAAAATAAAAATTAGG
66 CGATATGTTCTTAGGAAAAATAAAAATTAGG
* *
7230210 AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGTTATCATCTCTCTTCGCGTCAAAAGGT
1 AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
7230274 CCAATATTTT
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 158 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (96 bp):
AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT
CGATATGTTCTTAGGAAAAATAAAAATTAGG
Found at i:7231077 original size:104 final size:104
Alignment explanation
Indices: 7230897--7231114 Score: 373
Period size: 104 Copynumber: 2.1 Consensus size: 104
7230887 GAAGTGCTTA
*
7230897 GGTCGTGTGGGGTCAACACGCCCATATGAATGAGACACACACCTGTGTGAAAGGAGGCACACAAC
1 GGTCGTGTGGGGTCAACACGCCCATATGAAAGAGACACACACCTGTGTGAAAGGAGGCACACAAC
*
7230962 CATGTGACTATGACACACGCCCGTGTAACCCAAGAACAT
66 CATGTGACTATGACACACACCCGTGTAACCCAAGAACAT
* *
7231001 GGTCGTGTGGGGTCAACACGCCTATATGAAAGAGACACACACCTGTGTGAAAGGAGGCGCACAAC
1 GGTCGTGTGGGGTCAACACGCCCATATGAAAGAGACACACACCTGTGTGAAAGGAGGCACACAAC
* * *
7231066 CATGTGACTATGACACACACCCGTGTGACCGAAGAGCAT
66 CATGTGACTATGACACACACCCGTGTAACCCAAGAACAT
7231105 GGTCGTGTGG
1 GGTCGTGTGG
7231115 ATAACCCATG
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 107 1.00
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (104 bp):
GGTCGTGTGGGGTCAACACGCCCATATGAAAGAGACACACACCTGTGTGAAAGGAGGCACACAAC
CATGTGACTATGACACACACCCGTGTAACCCAAGAACAT
Found at i:7233073 original size:4 final size:4
Alignment explanation
Indices: 7233064--7233094 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
7233054 CAAAGTAAAT
7233064 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
7233095 GATCAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:7234283 original size:16 final size:18
Alignment explanation
Indices: 7234257--7234289 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7234247 CTCACATCAC
7234257 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
7234274 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
7234290 CCTAATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:7235913 original size:18 final size:18
Alignment explanation
Indices: 7235860--7235948 Score: 67
Period size: 18 Copynumber: 4.9 Consensus size: 18
7235850 TTAAAAAGAC
*
7235860 ATTTAAAATTATAAAATA
1 ATTTAAAAATATAAAATA
*
7235878 TATATAAAAA-AGTAAAAATA
1 -ATTTAAAAATA-T-AAAATA
*
7235898 ATTTAAAAATACAAAA-A
1 ATTTAAAAATATAAAATA
* * *
7235915 GTGTACAAATATAAAAGTA
1 ATTTAAAAATATAAAA-TA
7235934 A-TTAAAAATATAAAA
1 ATTTAAAAATATAAAA
7235949 ATTGTTTTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
17 13 0.24
18 17 0.31
19 17 0.31
20 7 0.13
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
ATTTAAAAATATAAAATA
Found at i:7236019 original size:13 final size:13
Alignment explanation
Indices: 7235994--7236023 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7235984 TAAAAATGAC
*
7235994 AAAAAAAATTATA
1 AAAAAAAAGTATA
7236007 AAAAAAAAGTATA
1 AAAAAAAAGTATA
7236020 AAAA
1 AAAA
7236024 TTATACTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (13 bp):
AAAAAAAAGTATA
Found at i:7244208 original size:6 final size:5
Alignment explanation
Indices: 7244178--7244207 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
7244168 ACACTGCATA
7244178 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
7244208 ACCCAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:7248841 original size:105 final size:105
Alignment explanation
Indices: 7248658--7249077 Score: 822
Period size: 105 Copynumber: 4.0 Consensus size: 105
7248648 GGTCAATAAT
7248658 GAAAATCTATAGTTGGTATCGATATGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTA
1 GAAAATCTATAGTTGGTATCGAT-TGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTA
7248723 TTGTTTTCTTTGCAAAACAAAGGTATTGATAAATATTTTAA
65 TTGTTTTCTTTGCAAAACAAAGGTATTGATAAATATTTTAA
7248764 GAAAATCTATAGTTGGTATCGATTGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTAT
1 GAAAATCTATAGTTGGTATCGATTGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTAT
7248829 TGTTTTCTTTGCAAAACAAAGGTATTGATAAATATTTTAA
66 TGTTTTCTTTGCAAAACAAAGGTATTGATAAATATTTTAA
7248869 GAAAATCTATAGTTGGTATCGATTGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTAT
1 GAAAATCTATAGTTGGTATCGATTGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTAT
7248934 TGTTTTCTTTGCAAAACAAAGGTATTGATAAATATTTTAA
66 TGTTTTCTTTGCAAAACAAAGGTATTGATAAATATTTTAA
7248974 GAAAATCTATAGTTGGTATCGATTGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTAT
1 GAAAATCTATAGTTGGTATCGATTGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTAT
*
7249039 TGTTTTCTTTGCAAAACAAATGTATTGATAAATATTTTA
66 TGTTTTCTTTGCAAAACAAAGGTATTGATAAATATTTTA
7249078 TGGTGTCGAT
Statistics
Matches: 313, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
105 290 0.93
106 23 0.07
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (105 bp):
GAAAATCTATAGTTGGTATCGATTGAATCGATACCTTTTTGAAAATTGATACCAAAATTCATTAT
TGTTTTCTTTGCAAAACAAAGGTATTGATAAATATTTTAA
Found at i:7260442 original size:14 final size:14
Alignment explanation
Indices: 7260423--7260462 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7260413 TTGATTGGCA
7260423 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
7260437 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
7260451 GGAAAATGTTTT
1 GTAAAATGTTTT
7260463 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:7260475 original size:34 final size:35
Alignment explanation
Indices: 7260431--7260497 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
7260421 CAGTAAAATG
* *
7260431 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
7260465 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
7260498 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:7260484 original size:20 final size:20
Alignment explanation
Indices: 7260446--7260485 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7260436 CGTAAAATGA
**
7260446 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
7260466 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
7260486 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:7261870 original size:27 final size:27
Alignment explanation
Indices: 7261840--7261909 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
7261830 AATAATCAAT
*
7261840 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
7261867 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
7261895 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
7261910 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:7263849 original size:57 final size:57
Alignment explanation
Indices: 7263781--7263972 Score: 384
Period size: 57 Copynumber: 3.4 Consensus size: 57
7263771 ATAAACAAAA
7263781 AAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTATAATTTTTTAAATTAT
1 AAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTATAATTTTTTAAATTAT
7263838 AAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTATAATTTTTTAAATTAT
1 AAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTATAATTTTTTAAATTAT
7263895 AAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTATAATTTTTTAAATTAT
1 AAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTATAATTTTTTAAATTAT
7263952 AAATTTGACAATGTTATAAAT
1 AAATTTGACAATGTTATAAAT
7263973 AATGTTTAAC
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 135 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (57 bp):
AAATTTGACAATGTTATAAATTTTTTTTATTTCTATTTTTATAATTTTTTAAATTAT
Found at i:7264748 original size:14 final size:14
Alignment explanation
Indices: 7264729--7264756 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7264719 TCTTTAAAAA
7264729 GAATTAACTTATTT
1 GAATTAACTTATTT
7264743 GAATTAACTTATTT
1 GAATTAACTTATTT
7264757 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:7268746 original size:29 final size:28
Alignment explanation
Indices: 7268701--7268766 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
7268691 GGCGTGGTTT
* *
7268701 TTTAAATAATTAAAAAATTATATAAAATTA
1 TTTAAA-AATTAAAAAAATAT-TAAAAATA
*
7268731 TTTAAAAATTATAAAAATATTAAAAATA
1 TTTAAAAATTAAAAAAATATTAAAAATA
*
7268759 ATTAAAAA
1 TTTAAAAA
7268767 CAACATCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 14 0.44
29 12 0.38
30 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
TTTAAAAATTAAAAAAATATTAAAAATA
Found at i:7268762 original size:21 final size:19
Alignment explanation
Indices: 7268704--7268756 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 19
7268694 GTGGTTTTTT
7268704 AAATAATTAAAAAATTATATA
1 AAAT-ATTAAAAAATTATA-A
*
7268725 AAATTATTTAAAAATTATAA
1 AAA-TATTAAAAAATTATAA
7268745 AAATATTAAAAA
1 AAATATTAAAAA
7268757 TAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.28
20 4 0.14
21 16 0.55
22 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATATTAAAAAATTATAA
Found at i:7268764 original size:19 final size:20
Alignment explanation
Indices: 7268713--7268766 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
7268703 TAAATAATTA
*
7268713 AAAAATTATATAAAATTATTT
1 AAAAATTAT-TAAAAATATTT
7268734 AAAAATTA-TAAAAATA-TT
1 AAAAATTATTAAAAATATTT
*
7268752 AAAAATAATTAAAAA
1 AAAAATTATTAAAAA
7268767 CAACATCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.30
19 13 0.43
21 8 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTATTAAAAATATTT
Found at i:7268766 original size:11 final size:11
Alignment explanation
Indices: 7268704--7268766 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
7268694 GTGGTTTTTT
*
7268704 AAATAATTAAA
1 AAATTATTAAA
*
7268715 AAATTA-TATA
1 AAATTATTAAA
*
7268725 AAATTATTTAA
1 AAATTATTAAA
7268736 AAATTA-T-AA
1 AAATTATTAAA
7268745 AAA-TATT-AA
1 AAATTATTAAA
*
7268754 AAATAATTAAA
1 AAATTATTAAA
7268765 AA
1 AA
7268767 CAACATCAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 2 0.05
9 11 0.26
10 13 0.30
11 17 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:7269125 original size:19 final size:18
Alignment explanation
Indices: 7269098--7269166 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
7269088 ATTTTTCTAT
*
7269098 AAAATATTATTAAAAATAA
1 AAAAAATTATTAAAAAT-A
7269117 AAAAAATTA-TAAAAATA
1 AAAAAATTATTAAAAATA
* *
7269134 AAAGAATTATCAAATAATA
1 AAAAAATTATTAAA-AATA
*
7269153 TAAAAATTATTAAA
1 AAAAAATTATTAAA
7269167 TAGTAGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
17 9 0.21
18 10 0.24
19 23 0.55
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (18 bp):
AAAAAATTATTAAAAATA
Found at i:7269328 original size:21 final size:21
Alignment explanation
Indices: 7269288--7269337 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7269278 AAACATATTT
*
7269288 AAAACAT-TTAAAATTTTATA
1 AAAACATATTAAAATTCTATA
*
7269308 AAAACATATTAAGATTCTATA
1 AAAACATATTAAAATTCTATA
7269329 AAAATCATA
1 AAAA-CATA
7269338 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAACATATTAAAATTCTATA
Found at i:7270054 original size:86 final size:86
Alignment explanation
Indices: 7269959--7270314 Score: 516
Period size: 86 Copynumber: 4.1 Consensus size: 86
7269949 AAGATCAGGG
* *** * *
7269959 TCTTTAGCGGTGCTTTTTTCTCAAACCCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACTAC
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC
7270024 AAACGCCACTAAAGAACCTAA
66 AAACGCCACTAAAGAACCTAA
7270045 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC
*
7270110 AAACGCCACGAAAGAACCTAA
66 AAACGCCACTAAAGAACCTAA
**
7270131 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCAACCAC
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC
*
7270196 AAACGCCATTAAAGAACCTAA
66 AAACGCCACTAAAGAACCTAA
* * * * * **
7270217 TCTTTAGCGGCGCTTTACCCACAAACGCCGCTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCA
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCA
* * *
7270281 CAAACGCCGCTAAAGACCCTTA
65 CAAACGCCACTAAAGAACCTAA
7270303 TCTTTAGCGGCG
1 TCTTTAGCGGCG
7270315 TTTTTTTAAA
Statistics
Matches: 246, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 244 0.99
87 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (86 bp):
TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC
AAACGCCACTAAAGAACCTAA
Found at i:7270320 original size:43 final size:43
Alignment explanation
Indices: 7269959--7270319 Score: 343
Period size: 43 Copynumber: 8.4 Consensus size: 43
7269949 AAGATCAGGG
* ** * *
7269959 TCTTTAGCGGTGCTTTTTTCTCAAACCCCGC-AATAGACCCTGA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAA-AGACCCTGA
* * * * * *
7270002 TCTATAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCCTGA
** *
7270045 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGC-AATAGACCCTGA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAA-AGACCCTGA
* * * * * *
7270088 TCTATAGCGGCGCTTTGACCACAAACGCCACGAAAGAACCTAA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCCTGA
** *
7270131 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGC-AATAGACCCTGA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAA-AGACCCTGA
* ** ** * *
7270174 TCTATAGCGGCGCTTCAACCACAAACGCCATTAAAGAACCTAA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCCTGA
*
7270217 TCTTTAGCGGCGC-TTTACCCACAAACGCCGCTAAAGACCATGA
1 TCTTTAGCGGCGCTTTTA-CCACAAACGCCGCTAAAGACCCTGA
* * *
7270260 TCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCCTGA
*
7270303 TCTTTAGCGGCGTTTTT
1 TCTTTAGCGGCGCTTTT
7270320 TTAAAAAAAC
Statistics
Matches: 255, Mismatches: 56, Indels: 14
0.78 0.17 0.04
Matches are distributed among these distances:
42 6 0.02
43 240 0.94
44 9 0.04
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCCTGA
Found at i:7270639 original size:21 final size:21
Alignment explanation
Indices: 7270613--7270708 Score: 102
Period size: 21 Copynumber: 4.6 Consensus size: 21
7270603 TTTAACGCTA
* *
7270613 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
* * **
7270634 CTCTGCTTCCCTCGTTTTAGC
1 CTCTGCTTCTCTCGCTGCAGC
*
7270655 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCTCTCGCTGCAGC
* * *
7270676 CTGTACTTCTCTCGCTGCTGC
1 CTCTGCTTCTCTCGCTGCAGC
7270697 CTCTGCTTCTCT
1 CTCTGCTTCTCT
7270709 TGTTGCCGCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.04, C:0.40, G:0.17, T:0.40
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCAGC
Found at i:7270790 original size:66 final size:66
Alignment explanation
Indices: 7270696--7270861 Score: 192
Period size: 66 Copynumber: 2.5 Consensus size: 66
7270686 CTCGCTGCTG
* * * * *
7270696 CCTCTGCTTCTCTTGTTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGCTG-TAACTGGAGTTCTTCATATCTTT-GTT
7270759 GAA
64 GAA
* * * *
7270762 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAACTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGCTGTAACTGGAGTTCTTCATATCTTTGTTGA
7270827 A
66 A
* * *
7270828 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAG
7270862 TTGTGTAATT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 1 0.01
66 80 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGCTGTAACTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:7281265 original size:41 final size:41
Alignment explanation
Indices: 7281163--7281400 Score: 316
Period size: 41 Copynumber: 5.8 Consensus size: 41
7281153 TTATTATTAC
* * * *
7281163 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAA
1 TAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * * ** *
7281204 TA-CCGCGCTTCTTTAAAAACGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * *
7281244 TAGCGGCGCTTATTCAAAAACGCCGCTAAAAGACAAAGCAT
1 TAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
7281285 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCAT
* *
7281326 TAGCAGCGCTTACTCAAAAACGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
7281367 TAGCGGCGTTTATTCAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCC
7281401 CCAAAAACCC
Statistics
Matches: 171, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 33 0.19
41 138 0.81
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (41 bp):
TAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:7281381 original size:123 final size:122
Alignment explanation
Indices: 7281163--7281396 Score: 362
Period size: 123 Copynumber: 1.9 Consensus size: 122
7281153 TTATTATTAC
* * *
7281163 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAATACCGCGCTTCTTTAAAAACGCCG
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACAGCGCTTCTTCAAAAACGCCG
* *
7281228 CTAAAGATCTGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAAGACAAAGCAT
66 CTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAAGACAAAGCAT
* *
7281285 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCAGCGCTTAC-TCAAAAACGC
1 TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATA-CAGCGCTT-CTTCAAAAACGC
* *
7281349 CGCTAAAGGCCAGAGCATTAGCGGCGTTTATTCAAAAACGCCGCTAAA
64 CGCTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAA
7281397 GGCCCCAAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
122 40 0.40
123 60 0.59
124 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (122 bp):
TAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCACAGCAATACAGCGCTTCTTCAAAAACGCCG
CTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAAGACAAAGCAT
Found at i:7281545 original size:41 final size:39
Alignment explanation
Indices: 7281456--7281549 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 39
7281446 CGCTTTTCAG
*
7281456 AAAACGCCGCTAATGCTCTACCTTTAGCGGCGTTTTTTT
1 AAAACGCCGCTAATGCTCGACCTTTAGCGGCGTTTTTTT
** *
7281495 AAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTTTGT
1 AAAA-CGCCGCTAATGCTCGACCTTTAGCGGCGTTTTTT-T
*
7281536 CCAAACGCCGCTAA
1 -AAAACGCCGCTAA
7281550 AAGCCTGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.09
40 30 0.64
41 10 0.21
42 3 0.06
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (39 bp):
AAAACGCCGCTAATGCTCGACCTTTAGCGGCGTTTTTTT
Done.