Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003942.1 Hibiscus syriacus cultivar Beakdansim tig00008518_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 365498
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:4872 original size:20 final size:21
Alignment explanation
Indices: 4818--4880 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
4808 GATTCCCCTG
4818 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
4842 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
4862 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
4881 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:8735 original size:22 final size:21
Alignment explanation
Indices: 8693--8732 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8683 AGTTTTGTTT
*
8693 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
8714 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
8733 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:10692 original size:21 final size:21
Alignment explanation
Indices: 10638--10695 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
10628 GTTTGAACAA
*
10638 GGGGGAATCGGTACCCCCTAT
1 GGGGGAATCGGTTCCCCCTAT
10659 GGGGGAATCGGTTCCCCCTAT
1 GGGGGAATCGGTTCCCCCTAT
10680 GGGGGAATCGGTTCCC
1 GGGGGAATCGGTTCCC
10696 TCCGAGCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCCTAT
Found at i:11270 original size:31 final size:31
Alignment explanation
Indices: 11234--11292 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11224 AACTTAAAAG
* * *
11234 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTAAAATTTAAATAATTTT
11265 AGTTTTACAATACTAAAATTTAAATAAT
1 AGTTTTACAATACTAAAATTTAAATAAT
11293 CGATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTAAAATTTAAATAATTTT
Found at i:11343 original size:22 final size:22
Alignment explanation
Indices: 11317--11359 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11307 TAATAAATTA
11317 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
11339 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
11360 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:11368 original size:22 final size:22
Alignment explanation
Indices: 11319--11367 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11309 ATAAATTATT
**
11319 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
11341 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
11364 TAAA
1 TAAA
11368 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:11448 original size:22 final size:23
Alignment explanation
Indices: 11373--11447 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
11363 ATAAATTATT
11373 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
11395 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
11421 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
11444 TAAA
1 TAAA
11448 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:11477 original size:22 final size:22
Alignment explanation
Indices: 11451--11493 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11441 TAATAAATTA
*
11451 TTTAAAATAGATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
11473 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
11494 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:11489 original size:54 final size:54
Alignment explanation
Indices: 11402--11849 Score: 685
Period size: 54 Copynumber: 8.2 Consensus size: 54
11392 CAACTACAAT
11402 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
11456 AATAGATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
11510 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
* * *
11568 AATAAATCAATCCATATTTTGAAATAAATCAATCTATACTAATAAATTATTAAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
11622 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
11676 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
11730 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
11784 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
11838 AATAAATCAATC
1 AATAAATCAATC
11850 TATACAACTA
Statistics
Matches: 365, Mismatches: 11, Indels: 36
0.89 0.03 0.09
Matches are distributed among these distances:
48 23 0.06
49 3 0.01
50 2 0.01
52 2 0.01
54 288 0.79
55 1 0.00
57 1 0.00
58 12 0.03
60 3 0.01
62 2 0.01
63 3 0.01
64 25 0.07
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:11502 original size:22 final size:22
Alignment explanation
Indices: 11453--11501 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11443 ATAAATTATT
* **
11453 TAAAATAGATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
11475 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
11498 TAAA
1 TAAA
11502 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:11520 original size:166 final size:166
Alignment explanation
Indices: 11339--11854 Score: 820
Period size: 166 Copynumber: 3.1 Consensus size: 166
11329 CAATCCATAT
11339 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
11404 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAGATCAATCC
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
11469 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
11505 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
* * *
11570 TAAATCAATCCATATTTTGAAATAAATCAATCTATACTAATAAATTATTAAAAATAAATCAATCC
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
*
11635 ATATTTTAAAATAAATCAATCTATACTAATAAATTA
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
11671 TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A
11725 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
63 --T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
*
11790 TCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA
124 TCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
11833 TTTAAAATAAATCAATCTATAC
1 TTTAAAATAAATCAATCCATAC
11855 AACTACAATA
Statistics
Matches: 327, Mismatches: 12, Indels: 22
0.91 0.03 0.06
Matches are distributed among these distances:
156 25 0.08
157 3 0.01
158 2 0.01
160 3 0.01
162 115 0.35
165 1 0.00
166 178 0.54
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (166 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
ATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:11611 original size:18 final size:18
Alignment explanation
Indices: 11590--11668 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
11580 CATATTTTGA
11590 AATAAATCAATCTATACT
1 AATAAATCAATCTATACT
* *
11608 AATAAAT-TAT-TA-A-A
1 AATAAATCAATCTATACT
**
11622 AATAAATCAATCCATATTTT
1 AATAAATCAAT-C-TATACT
11642 AAAATAAATCAATCTATACT
1 --AATAAATCAATCTATACT
11662 AATAAAT
1 AATAAAT
11669 TATTTAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
14 7 0.15
15 3 0.07
16 2 0.04
17 2 0.04
18 16 0.35
20 4 0.09
21 1 0.02
22 11 0.24
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAAATCAATCTATACT
Found at i:11668 original size:22 final size:22
Alignment explanation
Indices: 11620--11667 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11610 TAAATTATTA
**
11620 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATAAT
*
11642 AAAATAAATCAATCTATACTAAT
1 AAAATAAATCAATCCATA-TAAT
11665 AAA
1 AAA
11668 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAATCAATCCATATAAT
Found at i:11697 original size:22 final size:22
Alignment explanation
Indices: 11671--11713 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11661 TAATAAATTA
11671 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
11693 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
11714 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:11722 original size:22 final size:22
Alignment explanation
Indices: 11673--11721 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11663 ATAAATTATT
**
11673 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
11695 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
11718 TAAA
1 TAAA
11722 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:11751 original size:22 final size:22
Alignment explanation
Indices: 11725--11767 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11715 TAATAAATTA
11725 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
11747 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
11768 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:11776 original size:22 final size:22
Alignment explanation
Indices: 11727--11775 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11717 ATAAATTATT
**
11727 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
11749 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
11772 TAAA
1 TAAA
11776 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:11805 original size:22 final size:22
Alignment explanation
Indices: 11779--11821 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11769 TAATAAATTA
11779 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
11801 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
11822 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:11830 original size:22 final size:22
Alignment explanation
Indices: 11781--11829 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11771 ATAAATTATT
**
11781 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
11803 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
11826 TAAA
1 TAAA
11830 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:11910 original size:22 final size:22
Alignment explanation
Indices: 11838--11910 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
11828 AATTATTTAA
* *
11838 AATAAATCAATCTATACA-ACT
1 AATAAATAAATCAATACATACT
*
11859 ACA-ATAATAAATCAATCCATA-T
1 A-ATA-AATAAATCAATACATACT
**
11881 TTTAAAATAAATCAATACATACT
1 AAT-AAATAAATCAATACATACT
11904 AATAAAT
1 AATAAAT
11911 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
21 2 0.05
22 32 0.84
23 4 0.11
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATAAATCAATACATACT
Found at i:11939 original size:22 final size:22
Alignment explanation
Indices: 11913--11955 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11903 TAATAAATTA
*
11913 TTTAAAATAAATAAATTCATAT
1 TTTAAAATAAATAAATCCATAT
*
11935 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATAAATCCATA
11956 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:11946 original size:54 final size:54
Alignment explanation
Indices: 11864--12164 Score: 391
Period size: 54 Copynumber: 5.5 Consensus size: 54
11854 CAACTACAAT
*
11864 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
11918 AATAAATAAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
11972 AATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATAC-AGCTACA--A--T--
1 AATAAATC-A---AT-CC-AT--A-T-TTTAAAATAAATCAATCCATACTA-ATAAATTATTTAA
*
12030 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
12084 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
12138 AATAAATCAATCCATATTTTATAATAA
1 AATAAATCAATCCATATTTTAAAATAA
12165 TTTATTTTAA
Statistics
Matches: 217, Mismatches: 12, Indels: 36
0.82 0.05 0.14
Matches are distributed among these distances:
48 25 0.12
49 2 0.01
50 2 0.01
52 3 0.01
53 1 0.00
54 139 0.64
55 1 0.00
57 1 0.00
58 10 0.05
59 1 0.00
60 3 0.01
62 2 0.01
63 2 0.01
64 25 0.12
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:11977 original size:14 final size:14
Alignment explanation
Indices: 11958--12010 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
11948 AATCCATACT
11958 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
11972 AATAAATCAATTCATACC
1 AATAAAT-TATT--TA-A
11990 AATAAATTATTTAA
1 AATAAATTATTTAA
12004 AATAAAT
1 AATAAAT
12011 CAATCCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:11978 original size:166 final size:166
Alignment explanation
Indices: 11801--12153 Score: 634
Period size: 166 Copynumber: 2.1 Consensus size: 166
11791 CAATCCATAT
* *
11801 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAA
1 TTTAAAATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
11866 TAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATAAATTC
66 TAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATAAATCC
11931 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
11967 TTTAAAATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATACAGCTACAATAA
1 TTTAAAATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
* * *
12032 TAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCC
66 TAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATAAATCC
12097 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
12133 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATTCATA
12154 TTTTATAATA
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 179 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (166 bp):
TTTAAAATAAATCAATTCATACCAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATAAATCC
ATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:12076 original size:22 final size:22
Alignment explanation
Indices: 12003--12076 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
11993 AAATTATTTA
12003 AAATAAATCAATCCATACAGCTACA-
1 AAATAAATCAATCCAT--A-CTA-AT
* **
12028 ATAATAAATCAATCTATA-TTTT
1 A-AATAAATCAATCCATACTAAT
12050 AAAATAAATCAATCCATACTAAT
1 -AAATAAATCAATCCATACTAAT
12073 AAAT
1 AAAT
12077 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
22 20 0.51
23 3 0.08
24 1 0.03
25 1 0.03
26 14 0.36
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.30
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:12105 original size:22 final size:22
Alignment explanation
Indices: 12079--12121 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
12069 TAATAAATTA
12079 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
12101 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
12122 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:12130 original size:22 final size:22
Alignment explanation
Indices: 12081--12129 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
12071 ATAAATTATT
**
12081 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
12103 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
12126 TAAA
1 TAAA
12130 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:12170 original size:36 final size:33
Alignment explanation
Indices: 12098--12240 Score: 113
Period size: 30 Copynumber: 4.5 Consensus size: 33
12088 AATCAATCCA
*
12098 TATTTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
*
12131 TA-TTTAAAATAAATCAATCCATATTTTATAATAATT
1 TATTTTAAAATAAATCAATCCATA----ATAATAAAT
* * * *
12167 TATTTTAAAATAAAT-TAT--TTTATAATAAAC
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
* * *
12197 TATTTTAAAATAAAT-TAT--TTTATAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
12227 TATTTT-AAATAAAT
1 TATTTTAAAATAAAT
12241 AAACTTATTA
Statistics
Matches: 97, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
29 8 0.08
30 42 0.43
32 21 0.22
33 2 0.02
34 1 0.01
36 11 0.11
37 12 0.12
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.45
Consensus pattern (33 bp):
TATTTTAAAATAAATCAATCCATAATAATAAAT
Found at i:12172 original size:15 final size:15
Alignment explanation
Indices: 12152--12240 Score: 135
Period size: 15 Copynumber: 6.0 Consensus size: 15
12142 AATCAATCCA
*
12152 TATTTTATAATAATT
1 TATTTTATAATAAAT
*
12167 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
*
12182 TATTTTATAATAAAC
1 TATTTTATAATAAAT
*
12197 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
12212 TATTTTATAATAAAT
1 TATTTTATAATAAAT
12227 TATTTTA-AATAAAT
1 TATTTTATAATAAAT
12241 AAACTTATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
14 7 0.10
15 60 0.90
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:12186 original size:30 final size:30
Alignment explanation
Indices: 12152--12240 Score: 153
Period size: 30 Copynumber: 3.0 Consensus size: 30
12142 AATCAATCCA
*
12152 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
12182 TATTTTATAATAAACTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
12212 TATTTTATAATAAATTATTTT-AAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
12241 AAACTTATTA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 8 0.14
30 48 0.86
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:14204 original size:39 final size:41
Alignment explanation
Indices: 14146--14231 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 41
14136 TCTAAAAATT
14146 TTATTTATAATATTATGAAAGT-AT-TTATTTTTAAAATCATC
1 TTATTTATAATATTATGAAA-TAATATTA-TTTTAAAATCATC
* *
14187 TTATTTAT-TTATT-TGAAATAATATTATTTTAAAATTATC
1 TTATTTATAATATTATGAAATAATATTATTTTAAAATCATC
14226 -TATTTA
1 TTATTTA
14232 ATTTTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
38 7 0.17
39 19 0.46
40 7 0.17
41 8 0.20
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (41 bp):
TTATTTATAATATTATGAAATAATATTATTTTAAAATCATC
Found at i:14863 original size:31 final size:29
Alignment explanation
Indices: 14812--14871 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
14802 CGTCAATGAT
14812 TTAAAAAAAAATAAAGTTTAAATACTAAAA
1 TTAAAAAAAAATAAAGTTTAAATA-TAAAA
* *
14842 TTAAACAAAAATGATAA-TTTAAGTATAAAA
1 TTAAAAAAAAAT-A-AAGTTTAAATATAAAA
14872 CTATAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 16 0.62
31 8 0.31
32 2 0.08
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.28
Consensus pattern (29 bp):
TTAAAAAAAAATAAAGTTTAAATATAAAA
Found at i:24207 original size:2 final size:2
Alignment explanation
Indices: 24200--24229 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24190 TTAGAATTCA
24200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24230 GATAGTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24391 original size:31 final size:31
Alignment explanation
Indices: 24356--24427 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
24346 TGTGAACACA
*
24356 TCACAAATTTGTGACAAATCCAGC-TATTTCG
1 TCACAAATTTGTGACAAATCCA-CATATTCCG
**
24387 TCACAAATTTGTGATGAATCCACATATTCCG
1 TCACAAATTTGTGACAAATCCACATATTCCG
*
24418 TCACAGATTT
1 TCACAAATTT
24428 TGAACCATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (31 bp):
TCACAAATTTGTGACAAATCCACATATTCCG
Found at i:27830 original size:22 final size:21
Alignment explanation
Indices: 27792--27833 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
27782 TGATCAAATA
27792 ATATTATTTTAGTATTTTTAT
1 ATATTATTTTAGTATTTTTAT
27813 ATATATATTTT-GTGATTTTTA
1 ATAT-TATTTTAGT-ATTTTTA
27834 GGTAGAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
ATATTATTTTAGTATTTTTAT
Found at i:32468 original size:35 final size:36
Alignment explanation
Indices: 32411--32478 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
32401 CCGAGTTAAA
* *
32411 CGGGGACGGTGAAAAACTGTTTATGCTAAACGGGGT
1 CGGGGACGGTAAAAAACCGTTTATGCTAAACGGGGT
*
32447 CGGGGACGG-AAAAAACCGTTTATGTTAAACGG
1 CGGGGACGGTAAAAAACCGTTTATGCTAAACGG
32479 TGACGGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 20 0.69
36 9 0.31
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.21
Consensus pattern (36 bp):
CGGGGACGGTAAAAAACCGTTTATGCTAAACGGGGT
Found at i:36673 original size:43 final size:43
Alignment explanation
Indices: 36534--36701 Score: 146
Period size: 43 Copynumber: 3.9 Consensus size: 43
36524 AATGTTGCAG
* * * ** * *
36534 GTCATGTTATATAGCGGCATTTTTCTCCCAAACGCCGCAAAAG
1 GTCATGTTATATAGCGACGTTTTTATCCCAAACATCACAAAAA
*
36577 GTCATGTCATATAGCGACGTTTTCTA--CCAAACA-CA-ACAAAA
1 GTCATGTTATATAGCGACGTTTT-TATCCCAAACATCACA-AAAA
* * *
36618 GATCAAGCTATATAGCTACGTTTTTATCCCAAACATCACAAAAA
1 G-TCATGTTATATAGCGACGTTTTTATCCCAAACATCACAAAAA
* * * *
36662 GTCATGTTATATAGTGACGTTTTAATCACAAACGTCACAA
1 GTCATGTTATATAGCGACGTTTTTATCCCAAACATCACAA
36702 TTGATTATAT
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
40 1 0.01
41 7 0.07
42 24 0.24
43 59 0.59
44 8 0.08
45 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.28
Consensus pattern (43 bp):
GTCATGTTATATAGCGACGTTTTTATCCCAAACATCACAAAAA
Found at i:42059 original size:14 final size:14
Alignment explanation
Indices: 42040--42075 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
42030 TAAGACTCCA
* *
42040 AAGAAAGAAAGAAG
1 AAGAAAAAAAGAAC
42054 AAGAAAAAAAGAAC
1 AAGAAAAAAAGAAC
42068 AAGAAAAA
1 AAGAAAAA
42076 GAATGAGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAC
Found at i:42663 original size:572 final size:564
Alignment explanation
Indices: 41290--42426 Score: 1491
Period size: 571 Copynumber: 2.0 Consensus size: 564
41280 TTTCATCATC
* * * *
41290 AATGATATTAAAGGTTTTGAAAAAGTTTATCCCAATGAAGAAATAATGAGAAATATTTTCTCTTC
1 AATGATATTAAAGGTTATCAAAAAG-TGATCCCAATG-AG-AATAATCAGAAATATTTTCTCTT-
** *** * * ** ****
41355 CTTGTAAATTTCTTGGGAAGGAAAGGCTATCGTCATCGAAGAAGGCAAGGATTTGGAGTTGCTCA
62 CTTAAAAACAACTT--GAAGGAAAGGCTATCATCATCGAAGAAGGCAAGCATTTAAAGTTAAAAA
** * * * ** * * * * *
41420 CTCTTAATGAGCTTATCGGTTCTCTACTCACCCATGAGATAAGACTCCAAAGAAAGAAAGAAGAA
125 AGCATAATGAGCTCATAGGTTCAATACGCATCCA-GAAATAAGACTCAAAAGAAAGAAAGAAAAA
* * * *
41485 GAAAAACAGAACAAGAAAAAGAATGAGGTAGGAATACCTTCAAGTGCACTAATGAGAGTAATAAA
189 CAAAAAAAGAACAAGAAAAAGAAAGAGGTATGAATACCTTCAAGTGCACTAATGAGAGTAATAAA
41550 AACTCAAGTGAAGAGGTTAATGAAGATGAAGAGATGACCAAGCTCTTCAAAAGATTCACAAGATT
254 AACTCAAGTGAAGAGGTTAATGAAGATGAAGAGATGACCAAGCTCTTCAAAAGATTCACAAGATT
*
41615 CATGTCTTACAAAGGAAAAAAGTGAATCATGAATCAAATAAGAAAAAGGGTCACTCGATGTCCTT
319 CATGTCTTACAAAGAAAAAAAGTGAATCATGAATCAAATAAGAAAAAGGGTCACTCGATGTCCTT
41680 TGAATACCAAAGAATGTGACATATCAAGTATGATTGTCTTCTACTAAAGAAAAAGAGATCAAGCA
384 TGAATACCAAAGAATGTGACATATCAAGTATGATTGTCTTCTACTAAAGAAAAAGAGATCAAGCA
*
41745 AAAACAAGACATTTGTGACTGCTTGGAGTGATAAAGATAACTCTAATGATGAAGATGAAGTGTTA
449 AAAACAAGACATTTGTGACTGCTTGGAGTGATAAAGATAACTCTAATGATGAAGATGAAATGTTA
* * **
41810 ACCTATGTCACATGAACATCGAAGATGTAACACCCTAACCCAATCCTCATC
514 ACCTATGTCACATAAACATCGAAGATGTAACACCCTAACCCAATCCCCAAA
* * * *
41861 AATGATATTAAAGGTTTTGAAAAAGTTTATCCCAATGAAGAAATAATGAGAAATATTTTCTCTTC
1 AATGATATTAAAGGTTATCAAAAAG-TGATCCCAATG-AG-AATAATCAGAAATATTTTCTCTT-
** *** * * ** ****
41926 CTTGTAAATTTCTTGGGAAGGAAAGGCTATCGTCATCGAAGAAGGCAAGGATTTGGAGTTGCTCA
62 CTTAAAAACAACTT--GAAGGAAAGGCTATCATCATCGAAGAAGGCAAGCATTTAAAGTTAAAAA
** * * * ** * * * *
41991 CTCTTAATGAGCTTATCGGTTCTCTACTCATCCATGAGATAAGACTCCAAAGAAAGAAAGAAGAA
125 AGCATAATGAGCTCATAGGTTCAATACGCATCCA-GAAATAAGACTCAAAAGAAAGAAAGAAAAA
* *
42056 GAAAAAAAGAACAAGAAAAAGAATGAGGTATGAATACCTTCAAGTGCACTAATGAGAGTAATAAA
189 CAAAAAAAGAACAAGAAAAAGAAAGAGGTATGAATACCTTCAAGTGCACTAATGAGAGTAATAAA
42121 AACTCAAGTGAAGAGGTTAATGAAGATGAAGAGATGACCAAGCTCTTCAAAAGATTCACAAGATT
254 AACTCAAGTGAAGAGGTTAATGAAGATGAAGAGATGACCAAGCTCTTCAAAAGATTCACAAGATT
*
42186 CATGTCTTACAAATGAAAAAAAGTGAATCATGAATCAAATAAGAAAAAGGGTCACTCGGTGTCCT
319 CATGTCTTACAAA-GAAAAAAAGTGAATCATGAATCAAATAAGAAAAAGGGTCACTCGATGTCCT
42251 TTGAATACCAAAGAATGTGACATATCAAGTATGATTGTCTTCTACTAAAGAAAAAGAGATCAAGC
383 TTGAATACCAAAGAATGTGACATATCAAGTATGATTGTCTTCTACTAAAGAAAAAGAGATCAAGC
* *
42316 AAAAACAAGACATTTGTGACTGCTTGGAGTGATAAAGATAACTTTAATGATGAATATGAAATGTT
448 AAAAACAAGACATTTGTGACTGCTTGGAGTGATAAAGATAACTCTAATGATGAAGATGAAATGTT
42381 AACCTATGTCACATAAACATCGAAGATGTAACACCCTAACCCAATC
513 AACCTATGTCACATAAACATCGAAGATGTAACACCCTAACCCAATC
42427 TGACCCTAAA
Statistics
Matches: 556, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
571 335 0.60
572 221 0.40
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (564 bp):
AATGATATTAAAGGTTATCAAAAAGTGATCCCAATGAGAATAATCAGAAATATTTTCTCTTCTTA
AAAACAACTTGAAGGAAAGGCTATCATCATCGAAGAAGGCAAGCATTTAAAGTTAAAAAAGCATA
ATGAGCTCATAGGTTCAATACGCATCCAGAAATAAGACTCAAAAGAAAGAAAGAAAAACAAAAAA
AGAACAAGAAAAAGAAAGAGGTATGAATACCTTCAAGTGCACTAATGAGAGTAATAAAAACTCAA
GTGAAGAGGTTAATGAAGATGAAGAGATGACCAAGCTCTTCAAAAGATTCACAAGATTCATGTCT
TACAAAGAAAAAAAGTGAATCATGAATCAAATAAGAAAAAGGGTCACTCGATGTCCTTTGAATAC
CAAAGAATGTGACATATCAAGTATGATTGTCTTCTACTAAAGAAAAAGAGATCAAGCAAAAACAA
GACATTTGTGACTGCTTGGAGTGATAAAGATAACTCTAATGATGAAGATGAAATGTTAACCTATG
TCACATAAACATCGAAGATGTAACACCCTAACCCAATCCCCAAA
Found at i:43497 original size:22 final size:22
Alignment explanation
Indices: 43451--43525 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
43441 AACTGGATAG
* *
43451 TATCGATAC-TCTTAGCTA-GA
1 TATCGATACTTCTAAACTAGGA
* *
43471 GTATCGATATTTCTGAACTAGGA
1 -TATCGATACTTCTAAACTAGGA
*
43494 TATCGATACTTCTAAACTAGGG
1 TATCGATACTTCTAAACTAGGA
*
43516 TACCGATACT
1 TATCGATACT
43526 ACCCTGAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
21 8 0.18
22 35 0.78
23 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (22 bp):
TATCGATACTTCTAAACTAGGA
Found at i:45552 original size:54 final size:55
Alignment explanation
Indices: 45432--45576 Score: 265
Period size: 54 Copynumber: 2.7 Consensus size: 55
45422 ATTGTATGAG
*
45432 TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCCATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCAATT
*
45487 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTC-AAACATCGAATGCAATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCAATT
45541 TGTGTATCGGTACACTGAGGAGTGTATCGATACACT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACACT
45577 GAGGAGTGTA
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 51 0.59
55 36 0.41
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGCAATT
Found at i:45567 original size:20 final size:20
Alignment explanation
Indices: 45542--45593 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
45532 AATGCAATTT
*
45542 GTGTATCGGTACACTGAGGA
1 GTGTATCGATACACTGAGGA
45562 GTGTATCGATACACTGAGGA
1 GTGTATCGATACACTGAGGA
45582 GTGTATCGATAC
1 GTGTATCGATAC
45594 CCCTTGTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (20 bp):
GTGTATCGATACACTGAGGA
Found at i:52638 original size:54 final size:55
Alignment explanation
Indices: 52518--52661 Score: 247
Period size: 54 Copynumber: 2.6 Consensus size: 55
52508 ATTGTATGAG
*
52518 TGTGTATCGGTACACTGAGGAGTGTATCGATACACTAAAAACATCGAATGTCATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTAAAAACATCGAATGTCATT
*
52573 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCT-TAAACATCGAATG-CAATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTAAAAACATCGAATGTC-ATT
52627 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACCC
52662 CCTGTTATGA
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
53 1 0.01
54 50 0.58
55 35 0.41
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACCCTAAAAACATCGAATGTCATT
Found at i:53211 original size:25 final size:25
Alignment explanation
Indices: 53177--53236 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
53167 CCCCGTCCCT
53177 GAACCCGACCCAAAATATTATACCC
1 GAACCCGACCCAAAATATTATACCC
* * *
53202 GAACCCGACCCGAAATGTTGTACCC
1 GAACCCGACCCAAAATATTATACCC
53227 GAACCCGACC
1 GAACCCGACC
53237 TGATCCCGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.33, C:0.38, G:0.15, T:0.13
Consensus pattern (25 bp):
GAACCCGACCCAAAATATTATACCC
Found at i:53589 original size:2 final size:2
Alignment explanation
Indices: 53580--53611 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
53570 AAAATATAAA
53580 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53612 ATCGGGGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54019 original size:21 final size:22
Alignment explanation
Indices: 53949--54034 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
53939 CCGGGATAAA
* **
53949 TATGTGGCACTTCGGTGCACCC
1 TATGTGGCACTTTGGTGCAAAC
53971 TATGTGGCACTTTGGTGCAAAC
1 TATGTGGCACTTTGGTGCAAAC
53993 TATGTGGTCA-TTTGG-GACAAA-
1 TATGTGG-CACTTTGGTG-CAAAC
*
54014 TATGTGGCACTTCGGTGCAAA
1 TATGTGGCACTTTGGTGCAAA
54035 TTACGAGTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.04
21 16 0.29
22 36 0.64
23 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (22 bp):
TATGTGGCACTTTGGTGCAAAC
Found at i:54915 original size:20 final size:19
Alignment explanation
Indices: 54874--54917 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
54864 AATGATTTTC
* * *
54874 TTTTGAAAGAAAAATTAGA
1 TTTTGAAAAAAAAATGAAA
54893 TTTTGAAAAACAAAATGAAA
1 TTTTGAAAAA-AAAATGAAA
54913 TTTTG
1 TTTTG
54918 GAGAATGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
TTTTGAAAAAAAAATGAAA
Found at i:56839 original size:20 final size:18
Alignment explanation
Indices: 56803--56843 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
56793 CACGAAAAGG
*
56803 AAAAAAATAGACTAAATA
1 AAAAAAATAGACAAAATA
56821 AAAAAAATAGAAACAAAATA
1 AAAAAAATAG--ACAAAATA
56841 AAA
1 AAA
56844 CATAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAAAATAGACAAAATA
Found at i:56986 original size:15 final size:15
Alignment explanation
Indices: 56937--56997 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
56927 AGGCAAGAAG
56937 AAAATAACAAATAAAA
1 AAAATAA-AAATAAAA
* ***
56953 AAAATAAAGATAGTC
1 AAAATAAAAATAAAA
56968 AAAATAAAAA-AAATA
1 AAAATAAAAATAAA-A
56983 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
56998 TAATAGTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
14 1 0.03
15 24 0.69
16 10 0.29
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAATAAAAATAAAA
Found at i:57011 original size:17 final size:17
Alignment explanation
Indices: 56968--57000 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
56958 AAAGATAGTC
56968 AAAAT-AAAA-AAAATA
1 AAAATAAAAATAAAATA
56983 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
57000 A
1 A
57001 TAGTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 4 0.25
17 7 0.44
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:58937 original size:110 final size:106
Alignment explanation
Indices: 58736--58939 Score: 248
Period size: 110 Copynumber: 1.9 Consensus size: 106
58726 TGTATTGCTC
* *
58736 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGACTCTGGAACTGGAAAATTATTTGTTGACA
* * *
58801 ACCAGCCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCT
66 ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
* ** *
58842 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTTTGAATGAAACT-GAAAAGTTATTTGT
1 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGACTCTG---G-AACTGGAAAA-TTATTTGT
** *
58906 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAA
61 TGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAA
58940 ATTGACTCTG
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
106 36 0.44
109 5 0.06
110 40 0.49
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (106 bp):
CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGACTCTGGAACTGGAAAATTATTTGTTGACA
ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
Found at i:58998 original size:68 final size:67
Alignment explanation
Indices: 58854--59006 Score: 243
Period size: 68 Copynumber: 2.3 Consensus size: 67
58844 AGTCCAATAT
* * * * *
58854 CCTTCGTTGTGAAGTTGAAATTGACTTTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCG
1 CCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTATTTGTTGACAGTCAGCCA
58919 CC
66 CC
*
58921 CCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAGAAGTTGTTTGTTGACAGTCAGCC
1 CCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAA-AAGTTATTTGTTGACAGTCAGCC
58986 ACC
65 ACC
58989 CCTTCGCTGTGAAGTTGA
1 CCTTCGCTGTGAAGTTGA
59007 GCTTGTGCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 38 0.48
68 41 0.52
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (67 bp):
CCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTATTTGTTGACAGTCAGCCA
CC
Found at i:60222 original size:10 final size:10
Alignment explanation
Indices: 60199--60232 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
60189 GTTCTTTCTC
*
60199 TTTTTCTTTTA
1 TTTTT-TTTAA
60210 TTTTTTTTAA
1 TTTTTTTTAA
60220 TTTTTTTTAA
1 TTTTTTTTAA
60230 TTT
1 TTT
60233 AGGGCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:70424 original size:19 final size:17
Alignment explanation
Indices: 70390--70428 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
70380 CACGAAAAGG
*
70390 AAAAAATAGACTAAATA
1 AAAAAATAGACAAAATA
70407 AAAAAATAGAAACAAAATA
1 AAAAAATAG--ACAAAATA
70426 AAA
1 AAA
70429 CATAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAAATAGACAAAATA
Found at i:77361 original size:20 final size:20
Alignment explanation
Indices: 77315--77361 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
77305 AAAAAATAGA
*
77315 AATTTAGATATTAAAACTGAT
1 AATTTAGATACTAAAAC-GAT
*
77336 AGTTTAGATACTAAACAC-AT
1 AATTTAGATACTAAA-ACGAT
77356 AATTTA
1 AATTTA
77362 TCTATAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 13 0.59
22 2 0.09
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (20 bp):
AATTTAGATACTAAAACGAT
Found at i:78097 original size:30 final size:26
Alignment explanation
Indices: 78062--78116 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
78052 GCAAATACAA
78062 AAAAAAAATAAAGTTAGAGGATTAAATTGC
1 AAAAAAAAT-AA--TAG-GGATTAAATTGC
*
78092 AAAAAATATAATAGGGATTAAATTG
1 AAAAAAAATAATAGGGATTAAATTG
78117 AAATAATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 11 0.46
27 3 0.12
29 2 0.08
30 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.25
Consensus pattern (26 bp):
AAAAAAAATAATAGGGATTAAATTGC
Found at i:79175 original size:27 final size:25
Alignment explanation
Indices: 79113--79176 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 25
79103 TTAAAATTTA
*
79113 ATAAATAAATAAATAATAATAATAAT
1 ATAAATAAA-AAATAATAATAATAAC
*
79139 ATAACCT--AAAATAATAATAAATAAC
1 ATAA-ATAAAAAATAATAAT-AATAAC
79164 ATAAATAATAAAA
1 ATAAATAA-AAAA
79177 ACTATATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
24 11 0.37
25 10 0.33
26 4 0.13
27 5 0.17
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.27
Consensus pattern (25 bp):
ATAAATAAAAAATAATAATAATAAC
Found at i:79254 original size:41 final size:41
Alignment explanation
Indices: 79208--79292 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 41
79198 TCCCGAAAAC
*
79208 TATATA-ATATTTCAAAATCC-GTTTTAAAAACTCTATATATA
1 TATATAGATATTTCAAAA-CCTGTTTTAAAAACTATATAT-TA
* * *
79249 TATATAGTTTTTTTAAAACCTGTTTTAAAAACTATATATTA
1 TATATAGATATTTCAAAACCTGTTTTAAAAACTATATATTA
79290 TAT
1 TAT
79293 GTTTTCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 13 0.34
42 25 0.66
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (41 bp):
TATATAGATATTTCAAAACCTGTTTTAAAAACTATATATTA
Found at i:79363 original size:15 final size:15
Alignment explanation
Indices: 79343--79374 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
79333 ATATATACTA
79343 AATAGACCCCAAACG
1 AATAGACCCCAAACG
79358 AATAGACCCCAAACG
1 AATAGACCCCAAACG
79373 AA
1 AA
79375 AATGGGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.31, G:0.12, T:0.06
Consensus pattern (15 bp):
AATAGACCCCAAACG
Found at i:79456 original size:12 final size:12
Alignment explanation
Indices: 79418--79467 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
79408 CAAATGTTGT
79418 TATATTATATAA
1 TATATTATATAA
79430 TATA-TAT-T--
1 TATATTATATAA
79438 TATATTATA-AA
1 TATATTATATAA
79449 TCATATTATATAA
1 T-ATATTATATAA
79462 TATATT
1 TATATT
79468 CATCTATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
8 4 0.12
9 3 0.09
10 1 0.03
11 4 0.12
12 17 0.53
13 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTATATAA
Found at i:81010 original size:6 final size:6
Alignment explanation
Indices: 80999--81033 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
80989 CGAATCGGGT
80999 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
81034 TCAATTTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:83950 original size:15 final size:15
Alignment explanation
Indices: 83932--83966 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
83922 GCAACAAAGT
83932 CAACACCTACAACGC
1 CAACACCTACAACGC
83947 CAACACCTACAACGC
1 CAACACCTACAACGC
83962 CAACA
1 CAACA
83967 AATATGTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.46, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCTACAACGC
Found at i:85236 original size:192 final size:192
Alignment explanation
Indices: 84909--85317 Score: 710
Period size: 192 Copynumber: 2.1 Consensus size: 192
84899 TGTAAAGCTG
* * *
84909 AGCTATTCCACTAAGGTAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATAGATTA
1 AGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTCGCTTTATAAATAGATTA
* *
84974 CATTCAAACCATGATATTGCTCGGACACTTGGTAATTCGGTGTTTGCTCCACTGTTTTTGTCAGG
66 CATTCAAACAATGATATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGTTTTTGTCAGG
*
85039 CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTAATAAAAGTGATTATAATATTA
131 CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTAATAAAAGAGATTATAATATTA
*
85101 AGCTATTCCAATAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTCGCTTTATAAATAGATTA
1 AGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTCGCTTTATAAATAGATTA
*
85166 CATTCAAATAATGATATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGTTTTTGTCAGG
66 CATTCAAACAATGATATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGTTTTTGTCAGG
*
85231 CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTGATAAAAGAGATTATAATATTA
131 CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTAATAAAAGAGATTATAATATTA
* * *
85293 AGCTATCCCTCTAAAGCAATTGGTT
1 AGCTATTCCACTAAGGCAATTGGTT
85318 GAAAGCCCCG
Statistics
Matches: 204, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
192 204 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (192 bp):
AGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTCGCTTTATAAATAGATTA
CATTCAAACAATGATATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGTTTTTGTCAGG
CTGAAGACTTTGTGATGAGATGAACCCTTCAGTTAAACCTAATAAAAGAGATTATAATATTA
Found at i:86830 original size:65 final size:65
Alignment explanation
Indices: 86703--87148 Score: 269
Period size: 65 Copynumber: 6.5 Consensus size: 65
86693 TCTTGAGATA
* * * * *
86703 GTTTCCCTTGAAATAAAATTTTGTCTCCCTAGAGACAATTTCTCTTGAAACATAAA-CATTGAAA
1 GTTTCTCTTGAAA-CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAATCTTTGAAA
86767 AC
64 AC
* * * * *
86769 ATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACAAAATCTTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAAAAC
* ** * **
86834 GTTT-TACATT-AAACAAATTTTGTCTCCCTTGGGACAACTTCTTTTGAAACTAAGTTTTGTCTC
1 GTTTCT-C-TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AA------AATC
*
86897 TCTTG-AGAC
57 T-TTGAAAAC
* * * *
86906 TGTTTCTTTTGAAACAAATTTTGTCTTTGTCTTTCTTGAGACAGTTTCTCTTGAGATAAATTTTG
1 -GTTTCTCTTGAAACAAATTTTGTC----TC--CCTTGAGACAGTTTCTCTTGAAACAAA-----
* *
86971 TCTCTCTTGAGATA-
54 -ATCT-TTGA-AAAC
* *
86985 GTTTCTCTTGAAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAAT-ATTGAAA
1 GTTTCTCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAATCTTTGAAA
87049 AC
64 AC
* * * * * *
87051 GTTTCCCTTGAAACAATTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAAAAC
*
87116 GTTT-TACATT-AAACAAATTTCGTCTCCCTTGAG
1 GTTTCT-C-TTGAAACAAATTTTGTCTCCCTTGAG
87149 GCATCTTCTT
Statistics
Matches: 295, Mismatches: 51, Indels: 69
0.71 0.12 0.17
Matches are distributed among these distances:
64 8 0.03
65 144 0.49
66 34 0.12
68 1 0.00
72 7 0.02
73 42 0.14
74 3 0.01
75 2 0.01
77 2 0.01
78 23 0.08
79 27 0.09
80 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (65 bp):
GTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAAAAC
Found at i:86953 original size:42 final size:41
Alignment explanation
Indices: 86889--87010 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 41
86879 GAAACTAAGT
* *
86889 TTTGTCTCTCTTGAGACTGTTTCTTTTGAAACAAATTTTGTC
1 TTTGTCT-TCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
* *
86931 TTTGTCTTTCTTGAGACAGTTTCTCTTGAGATAAATTTTGTC
1 TTTGTC-TTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
*
86973 ----TC-TCTTGAGATAGTTTCTCTTGAAACAAAATTTTGTC
1 TTTGTCTTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTC
87010 T
1 T
87011 CCCTAGAGAC
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
36 21 0.30
37 10 0.14
38 2 0.03
42 36 0.51
43 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (41 bp):
TTTGTCTTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
Found at i:86979 original size:36 final size:37
Alignment explanation
Indices: 86844--87041 Score: 195
Period size: 37 Copynumber: 5.2 Consensus size: 37
86834 GTTTTACATT
* * ** *
86844 AAAC-AAATTTTGTCTCCCTTGGGACAACTTCTTTTG
1 AAACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
86880 AAACTAAGTTTTGTCTCTCTTGAGACTGTTTCTTTTG
1 AAACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
86917 AAAC-AAATTTTGTCTTTGTCTTTCTTGAGACAGTTTCTCTTG
1 AAACTAAATTTTGTC----TC--TCTTGAGACAGTTTCTCTTG
* *
86959 AGA-TAAATTTTGTCTCTCTTGAGATAGTTTCTCTTG
1 AAACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
86995 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTG
1 AAACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
87032 AAACATAAAT
1 AAAC-TAAAT
87042 ATTGAAAACG
Statistics
Matches: 135, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
36 34 0.25
37 63 0.47
38 6 0.04
40 2 0.01
42 30 0.22
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (37 bp):
AAACTAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:87202 original size:282 final size:282
Alignment explanation
Indices: 86683--87213 Score: 875
Period size: 282 Copynumber: 1.9 Consensus size: 282
86673 GAAAAAAAAG
*
86683 ATTTTATCGCTCTTGAGATAGTTTCCCTTGAAATAAAATTTTGTCTCCCTAGAGACAATTTCTCT
1 ATTTTATCGCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAATTTCTCT
*
86748 TGAAACATAAACATTGAAAACATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCACT
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCACT
*
86813 TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTTGTCTCCCTTGGGACAACTTCTTT
131 TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGGGACAACTTCTTT
* * * ** *
86878 TGAAACTAAGTTTTGTCTCTCTTGAGACTGTTTCTTTTGAAACAAATTTTGTCTTTGTCTTTCTT
196 TGAAACTAAATTATGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTGTCTTTGTCTTTCTT
86943 GAGACAGTTTCTCTTGAGATAA
261 GAGACAGTTTCTCTTGAGATAA
* * * *
86965 ATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCT
1 ATTTTATCGCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAATTTCTCT
* * * *
87030 TGAAACATAAATATTGAAAACGTTTCCCTTGAAACAATTTTTGTCTCTCTTGAGACAGTTTCCCT
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCACT
*
87095 TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGAGG-CATCTTCTT
131 TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTG-GGACAACTTCTT
*
87159 TTGGAACTAAATTATGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTGTCT
195 TTGAAACTAAATTATGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTGTCT
87214 CTCTTGAAAC
Statistics
Matches: 229, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
282 227 0.99
283 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (282 bp):
ATTTTATCGCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAATTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCACT
TGAAACAAAATCTTTGAATATGTTTTACATTAAACAAATTTCGTCTCCCTTGGGACAACTTCTTT
TGAAACTAAATTATGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTGTCTTTGTCTTTCTT
GAGACAGTTTCTCTTGAGATAA
Found at i:87331 original size:35 final size:35
Alignment explanation
Indices: 87208--87334 Score: 184
Period size: 35 Copynumber: 3.6 Consensus size: 35
87198 GAAACAAAAT
* *
87208 TTGTCTCTCTTGAAACAC-AAAAAAACTTTTGAAA
1 TTGTTTCTCTTGAAACACAAAAAAAACCTTTGAAA
* *
87242 TTTTTTCTCTTGAAACATAAAAAAAAAACCTTTGAAA
1 TTGTTTCTCTTGAAAC--ACAAAAAAAACCTTTGAAA
87279 TTGTTTCTCTTGAAACACAAAAAAAACCTTTGAAA
1 TTGTTTCTCTTGAAACACAAAAAAAACCTTTGAAA
*
87314 ATGTTTCTCTTGAAACACAAA
1 TTGTTTCTCTTGAAACACAAA
87335 GACCTTCGAG
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
34 14 0.17
35 38 0.46
36 1 0.01
37 30 0.36
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.33
Consensus pattern (35 bp):
TTGTTTCTCTTGAAACACAAAAAAAACCTTTGAAA
Found at i:90781 original size:2 final size:2
Alignment explanation
Indices: 90776--90805 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
90766 TTATTTTTTA
90776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90806 TTACTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90861 original size:18 final size:17
Alignment explanation
Indices: 90832--90905 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 17
90822 ATTCTTTATA
*
90832 ATTTCTTTTATTTCTGTT
1 ATTT-TTTTATTTCTATT
* *
90850 TTTTTATTTATTACTATT
1 ATTTT-TTTATTTCTATT
*
90868 ATTTTTTTATTT-TAAT
1 ATTTTTTTATTTCTATT
* * *
90884 A-CTTATTATTACTATT
1 ATTTTTTTATTTCTATT
90900 ATTTTT
1 ATTTTT
90906 ATACCTTGTT
Statistics
Matches: 41, Mismatches: 12, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
15 7 0.17
16 8 0.20
17 9 0.22
18 17 0.41
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.70
Consensus pattern (17 bp):
ATTTTTTTATTTCTATT
Found at i:90874 original size:23 final size:23
Alignment explanation
Indices: 90848--90893 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
90838 TTTATTTCTG
*
90848 TTTTTTTA-TTTATTAC-TATTA
1 TTTTTTTATTTTAATACTTATTA
90869 TTTTTTTATTTTAATACTTATTA
1 TTTTTTTATTTTAATACTTATTA
90892 TT
1 TT
90894 ACTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTTTATTTTAATACTTATTA
Found at i:91144 original size:20 final size:19
Alignment explanation
Indices: 91106--91145 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
91096 TATATATTTG
* *
91106 TTTTTATTTTTTTTCATTA
1 TTTTTATTTTGTTTAATTA
91125 TTTTTATTGTTGTTTAATTA
1 TTTTTATT-TTGTTTAATTA
91145 T
1 T
91146 GATTAGATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTGTTTAATTA
Found at i:96872 original size:32 final size:32
Alignment explanation
Indices: 96831--96936 Score: 182
Period size: 32 Copynumber: 3.4 Consensus size: 32
96821 AAGAGTCGAT
96831 GATTACCTATGT-CTTTCGGGACATATGGACAG
1 GATTACCTATGTCCTTT-GGGACATATGGACAG
96863 GATTACCTATGTCCTTTGGGACATATGGACAG
1 GATTACCTATGTCCTTTGGGACATATGGACAG
96895 GATTACCTATGTCCTTTGGGACATATGGACA-
1 GATTACCTATGTCCTTTGGGACATATGGACAG
96926 G-TTACCTATGT
1 GATTACCTATGT
96937 TCTTCGGAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
30 10 0.14
31 1 0.01
32 58 0.79
33 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (32 bp):
GATTACCTATGTCCTTTGGGACATATGGACAG
Found at i:97251 original size:22 final size:24
Alignment explanation
Indices: 97209--97256 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
97199 ATATAATTAC
97209 ATATGTGTATTTGTTATATGAGATG
1 ATATGTG-ATTTGTTATATGAGATG
*
97234 ATATGTG-TTTG-TATATGATATG
1 ATATGTGATTTGTTATATGAGATG
97256 A
1 A
97257 CATTGGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
25 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (24 bp):
ATATGTGATTTGTTATATGAGATG
Found at i:99094 original size:73 final size:73
Alignment explanation
Indices: 99017--99164 Score: 228
Period size: 73 Copynumber: 2.0 Consensus size: 73
99007 AGATAATTCC
*
99017 TAAAATAATATGT-TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAAT
1 TAAAATAATAT-TCTAAATCCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATACCTAAAAC
99080 AAAGATAAAA
64 AAAGATAAAA
* * *
99090 TAAAATAATATTCTAAATCCTAATTGAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAA
1 TAAAATAATATTCTAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAACAA
99155 AGATAAAA
66 AGATAAAA
99163 TA
1 TA
99165 TAATGTTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
72 6 0.09
73 63 0.91
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (73 bp):
TAAAATAATATTCTAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAACAA
AGATAAAA
Found at i:104491 original size:17 final size:17
Alignment explanation
Indices: 104469--104501 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
104459 AGAACTTTGA
104469 AAAATATGTAAACAAAT
1 AAAATATGTAAACAAAT
104486 AAAATATGTAAACAAA
1 AAAATATGTAAACAAA
104502 AATGAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAATATGTAAACAAAT
Found at i:104535 original size:17 final size:17
Alignment explanation
Indices: 104513--104557 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
104503 ATGAAAAGTC
**
104513 TTTAATTAAAAATAACT
1 TTTAATTAAAAATAAAA
104530 TTTAATT-AAAATAAAA
1 TTTAATTAAAAATAAAA
104546 TTTAATTAAAAA
1 TTTAATTAAAAA
104558 ATTTCATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAATTAAAAATAAAA
Found at i:104752 original size:31 final size:34
Alignment explanation
Indices: 104696--104763 Score: 97
Period size: 31 Copynumber: 2.1 Consensus size: 34
104686 GTAGTTTATA
104696 AAATTTGAAATTTAAAAAAATATGTTAATTTTTG
1 AAATTTGAAATTTAAAAAAATATGTTAATTTTTG
* *
104730 AAATTTG-TATTT-AAAAAA-ATGTTATTTTTTG
1 AAATTTGAAATTTAAAAAAATATGTTAATTTTTG
104761 AAA
1 AAA
104764 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 15 0.47
32 6 0.19
33 4 0.12
34 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (34 bp):
AAATTTGAAATTTAAAAAAATATGTTAATTTTTG
Found at i:105740 original size:22 final size:23
Alignment explanation
Indices: 105723--105768 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
105713 AATACAAGTT
105723 AAAAAAA-ACATAGTTACAATAC
1 AAAAAAATACATAGTTACAATAC
* *
105745 AAAAAAATACCTAGTTACAGTAC
1 AAAAAAATACATAGTTACAATAC
105768 A
1 A
105769 TAATATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.20
Consensus pattern (23 bp):
AAAAAAATACATAGTTACAATAC
Found at i:106807 original size:19 final size:19
Alignment explanation
Indices: 106783--106855 Score: 146
Period size: 19 Copynumber: 3.8 Consensus size: 19
106773 AATGCAGTTT
106783 ATGCATCGATGCACTCTCC
1 ATGCATCGATGCACTCTCC
106802 ATGCATCGATGCACTCTCC
1 ATGCATCGATGCACTCTCC
106821 ATGCATCGATGCACTCTCC
1 ATGCATCGATGCACTCTCC
106840 ATGCATCGATGCACTC
1 ATGCATCGATGCACTC
106856 AGGTTTTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 54 1.00
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.26
Consensus pattern (19 bp):
ATGCATCGATGCACTCTCC
Found at i:106961 original size:64 final size:65
Alignment explanation
Indices: 106821--106965 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 65
106811 TGCACTCTCC
* * * * * *
106821 ATGCATCGATGCACTCTCCATGCATCGATGCACTCAGGTTTTAATGAAAACATCGATTGCATTTT
1 ATGCATCGATGCACACACCATGCATCAATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTT
* * *
106886 ATGCATCGATGCACACACTATGCATCAATGCACAT-AGG-CTTATTCAAAACATCGAATGTATTT
1 ATGCATCGATGCACACACCATGCATCAATGCAC-TCAGGTCTTAATCAAAACATCGAATGCATTT
106949 T
65 T
106950 ATGCATCGATGCACAC
1 ATGCATCGATGCACAC
106966 TTAGTGCACC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 37 0.53
65 32 0.46
66 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (65 bp):
ATGCATCGATGCACACACCATGCATCAATGCACTCAGGTCTTAATCAAAACATCGAATGCATTTT
Found at i:115069 original size:23 final size:23
Alignment explanation
Indices: 114992--115073 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
114982 ACACTGAACA
*
114992 GTGCATCGATG-AATCCCTTTGAAT
1 GTGCATCGATGCACT-CC-TTGAAT
* * *
115016 GTGCATCGA--CACACCATGAAG
1 GTGCATCGATGCACTCCTTGAAT
* *
115037 GTGAACCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
115060 GTGCATCGATGCAC
1 GTGCATCGATGCAC
115074 AAGGACATGC
Statistics
Matches: 44, Mismatches: 11, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
21 11 0.25
22 2 0.05
23 22 0.50
24 9 0.20
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:117835 original size:64 final size:65
Alignment explanation
Indices: 117678--117839 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
117668 GAATAAATTG
* * * * * * * *
117678 AACATCGAATGTAGTTTATGCATCGATGCACTCTCCATGCATCGATGCACTTAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCAATGCACATAGGTATTAATCAA
* * *
117743 AACATCGATTGCATTTTATGCATCGATGCACACACTATGCATCAATGCACATAGG-ATTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCAATGCACATAGGTATTAATCAA
117807 AACATCGAATGCATTTTATGCATCGATGCACAC
1 AACATCGAATGCATTTTATGCATCGATGCACAC
117840 TTAGTGCACC
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 38 0.45
65 47 0.55
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCAATGCACATAGGTATTAATCAA
Found at i:117855 original size:64 final size:64
Alignment explanation
Indices: 117678--117856 Score: 216
Period size: 64 Copynumber: 2.8 Consensus size: 64
117668 GAATAAATTG
* * * * * * *
117678 AACATCGAATGTAGTTTATGCATCGATGCACTCTCCATGCATCGATGCACTTAGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACT-TATGCATCGATGCACATAGGTATTAATCAA
* * * *
117743 AACATCGATTGCATTTTATGCATCGATGCACACACTATGCATCAATGCACATAGG-ATTATTCAA
1 AACATCGAATGCATTTTATGCATCGATGCACAC-TTATGCATCGATGCACATAGGTATTAATCAA
*
117807 AACATCGAATGCATTTTATGCATCGATGCACACTTAGTGCACCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCACACTTA-TGCATCGATGCAC
117857 TAAGTGTTCC
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
63 2 0.02
64 49 0.51
65 46 0.47
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACACTTATGCATCGATGCACATAGGTATTAATCAA
Found at i:120625 original size:32 final size:30
Alignment explanation
Indices: 120584--120669 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 30
120574 TAGAAGAAAT
*
120584 GAGTTTGTTGTGTAAGAGATTGAAGATGAA
1 GAGTGTGTTGTGTAAGAGATTGAAGATGAA
120614 CGGAGTGTGTTGTGTAAGAGA-T-AA-A--AA
1 --GAGTGTGTTGTGTAAGAGATTGAAGATGAA
* *
120641 GAGTGTGTTATGTACGAGATTGAAGATGA
1 GAGTGTGTTGTGTAAGAGATTGAAGATGA
120670 TGTACACTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
25 17 0.37
26 1 0.02
27 4 0.09
28 1 0.02
29 1 0.02
30 3 0.07
31 1 0.02
32 18 0.39
ACGTcount: A:0.34, C:0.02, G:0.34, T:0.30
Consensus pattern (30 bp):
GAGTGTGTTGTGTAAGAGATTGAAGATGAA
Found at i:122960 original size:26 final size:26
Alignment explanation
Indices: 122931--122980 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
122921 ATAATAATCC
122931 TAATGT-ATAAATACTAATTAATTACA
1 TAATGTAATAAATACTAA-TAATTACA
* *
122957 TAATGTAATAATTATTAATAATTA
1 TAATGTAATAAATACTAATAATTA
122981 ATACATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (26 bp):
TAATGTAATAAATACTAATAATTACA
Found at i:124227 original size:10 final size:10
Alignment explanation
Indices: 124211--124259 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
124201 TCCATTTGTA
124211 ATAATAATAT
1 ATAATAATAT
*
124221 TTAATAATAT
1 ATAATAATAT
*
124231 ATATTAATATAT
1 ATAAT-A-ATAT
124243 ATAATAATAT
1 ATAATAATAT
124253 ATAATAA
1 ATAATAA
124260 CATAACACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 23 0.70
11 2 0.06
12 8 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATAATAT
Found at i:124242 original size:12 final size:12
Alignment explanation
Indices: 124212--124255 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
124202 CCATTTGTAA
124212 TAATA-ATAT-T
1 TAATATATATAT
124222 TAATAATATATAT
1 TAAT-ATATATAT
*
124235 TAATATATATAA
1 TAATATATATAT
124247 TAATATATA
1 TAATATATA
124256 ATAACATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 4 0.13
11 1 0.03
12 20 0.67
13 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATATATATAT
Found at i:124247 original size:22 final size:23
Alignment explanation
Indices: 124212--124255 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
124202 CCATTTGTAA
*
124212 TAATAATATTTAATAATATATAT
1 TAATAATATATAATAATATATAT
124235 TAAT-ATATATAATAATATATA
1 TAATAATATATAATAATATATA
124256 ATAACATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATATATAATAATATATAT
Found at i:124610 original size:41 final size:41
Alignment explanation
Indices: 124564--124705 Score: 135
Period size: 41 Copynumber: 3.3 Consensus size: 41
124554 CATTCGTTCT
*
124564 ACTACTATTCCGTGGAGGGCGAATTTTGGTTGGATTACTTC
1 ACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGATTACTTC
* * * * * *
124605 ACTACTCTTCCGTGAAGGTTGC-ATACTTT-GCTGAAAAATCCATTCC
1 ACTACTCTTCCGTGGAGG--GCGA-ATTTTGGTTG--GATTAC-TT-C
*
124651 ACTACTCTTCCGTGGAGAGCGAATTTTGGTTGGATTACTTC
1 ACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGATTACTTC
124692 ACTACTCTTCCGTG
1 ACTACTCTTCCGTG
124706 AAGATCATAT
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
41 31 0.40
42 6 0.08
43 9 0.12
44 9 0.12
45 6 0.08
46 17 0.22
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (41 bp):
ACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGATTACTTC
Found at i:124635 original size:87 final size:87
Alignment explanation
Indices: 124520--124708 Score: 281
Period size: 87 Copynumber: 2.2 Consensus size: 87
124510 AATACTTTAT
* * * * * * * *
124520 TACTCTTTCATGAAGGTTTCATATTTTGCT-AAAACATTCGTTCTACTACTATTCCGTGGAGGGC
1 TACTCTTCCGTGAAGGTTGCATACTTTGCTGAAAA-ATCCATTCCACTACTATTCCGTGGAGAGC
124584 GAATTTTGGTTGGATTACTTCAC
65 GAATTTTGGTTGGATTACTTCAC
*
124607 TACTCTTCCGTGAAGGTTGCATACTTTGCTGAAAAATCCATTCCACTACTCTTCCGTGGAGAGCG
1 TACTCTTCCGTGAAGGTTGCATACTTTGCTGAAAAATCCATTCCACTACTATTCCGTGGAGAGCG
124672 AATTTTGGTTGGATTACTTCAC
66 AATTTTGGTTGGATTACTTCAC
124694 TACTCTTCCGTGAAG
1 TACTCTTCCGTGAAG
124709 ATCATATTCA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 88 0.96
88 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (87 bp):
TACTCTTCCGTGAAGGTTGCATACTTTGCTGAAAAATCCATTCCACTACTATTCCGTGGAGAGCG
AATTTTGGTTGGATTACTTCAC
Found at i:125475 original size:22 final size:22
Alignment explanation
Indices: 125450--125492 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
125440 ACTTTCATCT
125450 TTGAAAAGAGAATCTATTATCC
1 TTGAAAAGAGAATCTATTATCC
125472 TTGAAAAGAGAATCTATTATC
1 TTGAAAAGAGAATCTATTATC
125493 TTTGTAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
TTGAAAAGAGAATCTATTATCC
Found at i:127049 original size:12 final size:12
Alignment explanation
Indices: 127018--127066 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
127008 CCTCCATTTG
*
127018 TAATAATAATATT
1 TAATAAT-ATATA
127031 TAATAATATATA
1 TAATAATATATA
*
127043 TATTAATATATA
1 TAATAATATATA
127055 TAATAATATATA
1 TAATAATATATA
127067 ATAACATAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 26 0.79
13 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATATATA
Found at i:127067 original size:10 final size:10
Alignment explanation
Indices: 127020--127070 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
127010 TCCATTTGTA
127020 ATAATAATAT
1 ATAATAATAT
*
127030 TTAATAATAT
1 ATAATAATAT
127040 ATATATTAATATAT
1 ATA-A-T-A-ATAT
127054 ATAATAATAT
1 ATAATAATAT
127064 ATAATAA
1 ATAATAA
127071 CATAACACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 22 0.63
11 2 0.06
12 2 0.06
13 2 0.06
14 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATAATAT
Found at i:127420 original size:41 final size:41
Alignment explanation
Indices: 127374--127516 Score: 128
Period size: 41 Copynumber: 3.4 Consensus size: 41
127364 AAATTCGTTC
*
127374 CACTACACTTCCGTGGAGGGCGAATTTTGGTTGGAATACTT
1 CACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGAATACTT
* * * * *
127415 CACTACTCTTCCGTGAAGGTTGC-ATACTTT-GCTGAAAAATCCATT
1 CACTACTCTTCCGTGGAGG--GCGA-ATTTTGGTTG--GAATAC-TT
* * *
127460 CCACTACTCTTCCGTGGAGAGCGAGTTTTGGTTGGATTACTT
1 -CACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGAATACTT
127502 CACTACTCTTCCGTG
1 CACTACTCTTCCGTG
127517 AAGATCATAT
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
41 32 0.41
42 6 0.08
43 9 0.11
44 9 0.11
45 6 0.08
46 17 0.22
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (41 bp):
CACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGAATACTT
Found at i:127435 original size:87 final size:87
Alignment explanation
Indices: 127331--127519 Score: 279
Period size: 87 Copynumber: 2.2 Consensus size: 87
127321 AATACTATAT
* * * * * * *
127331 TACTCTTTCATGAAGGTTTCATATTTTGCTAAAAAATTCGTTCCACTACACTTCCGTGGAGGGCG
1 TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAAAATCCATTCCACTACACTTCCGTGGAGAGCG
127396 AATTTTGGTTGGAATACTTCAC
66 AATTTTGGTTGGAATACTTCAC
* *
127418 TACTCTTCCGTGAAGGTTGCATACTTTGCTGAAAAATCCATTCCACTACTCTTCCGTGGAGAGCG
1 TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAAAATCCATTCCACTACACTTCCGTGGAGAGCG
* *
127483 AGTTTTGGTTGGATTACTTCAC
66 AATTTTGGTTGGAATACTTCAC
127505 TACTCTTCCGTGAAG
1 TACTCTTCCGTGAAG
127520 ATCATATTCA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (87 bp):
TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAAAATCCATTCCACTACACTTCCGTGGAGAGCG
AATTTTGGTTGGAATACTTCAC
Found at i:127630 original size:20 final size:20
Alignment explanation
Indices: 127605--127651 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
127595 TGAAAAACTG
127605 ACAAATGACCCAAAGGCTTT
1 ACAAATGACCCAAAGGCTTT
* *
127625 ACAAATGACCCGAAGGTTTT
1 ACAAATGACCCAAAGGCTTT
*
127645 AAAAATG
1 ACAAATG
127652 TGAGAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (20 bp):
ACAAATGACCCAAAGGCTTT
Found at i:128286 original size:22 final size:22
Alignment explanation
Indices: 128261--128303 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
128251 ACTTTCATCT
128261 TTGAAAAGAGAATATATTATCC
1 TTGAAAAGAGAATATATTATCC
*
128283 TTGAAAAGAGAATCTATTATC
1 TTGAAAAGAGAATATATTATC
128304 TTTGTAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (22 bp):
TTGAAAAGAGAATATATTATCC
Found at i:128584 original size:26 final size:26
Alignment explanation
Indices: 128555--128604 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
128545 ATAATAATCC
128555 TAATGT-ATAAATACTAATTAATTACA
1 TAATGTAATAAATACTAA-TAATTACA
* *
128581 TAATGTAATAATTATTAATAATTA
1 TAATGTAATAAATACTAATAATTA
128605 ATACATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (26 bp):
TAATGTAATAAATACTAATAATTACA
Found at i:129853 original size:12 final size:12
Alignment explanation
Indices: 129822--129870 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
129812 CCTCCATTTG
*
129822 TAATAATAATATT
1 TAATAAT-ATATA
129835 TAATAATATATA
1 TAATAATATATA
*
129847 TATTAATATATA
1 TAATAATATATA
129859 TAATAATATATA
1 TAATAATATATA
129871 ATAACATAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 26 0.79
13 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATATATA
Found at i:129871 original size:10 final size:10
Alignment explanation
Indices: 129824--129874 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
129814 TCCATTTGTA
129824 ATAATAATAT
1 ATAATAATAT
*
129834 TTAATAATAT
1 ATAATAATAT
129844 ATATATTAATATAT
1 ATA-A-T-A-ATAT
129858 ATAATAATAT
1 ATAATAATAT
129868 ATAATAA
1 ATAATAA
129875 CATAACACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 22 0.63
11 2 0.06
12 2 0.06
13 2 0.06
14 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATAATAT
Found at i:130224 original size:41 final size:41
Alignment explanation
Indices: 130178--130320 Score: 146
Period size: 41 Copynumber: 3.4 Consensus size: 41
130168 AAATTCGTTC
130178 CACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGATTACTT
1 CACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGATTACTT
* * * * * *
130219 CACTACTCTTCCGTGAAGGTTGC-ATACTTT-GCTGAAAAATCCATT
1 CACTACTCTTCCGTGGAGG--GCGA-ATTTTGGTTG--GATTAC-TT
*
130264 CCACTACTCTTCCGTGGAGAGCGAATTTTGGTTGGATTACTT
1 -CACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGATTACTT
130306 CACTACTCTTCCGTG
1 CACTACTCTTCCGTG
130321 AAGATCATAT
Statistics
Matches: 80, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
41 33 0.41
42 6 0.08
43 9 0.11
44 9 0.11
45 6 0.08
46 17 0.21
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (41 bp):
CACTACTCTTCCGTGGAGGGCGAATTTTGGTTGGATTACTT
Found at i:130237 original size:87 final size:87
Alignment explanation
Indices: 130135--130323 Score: 306
Period size: 87 Copynumber: 2.2 Consensus size: 87
130125 AATACTTTAT
* * * * * * *
130135 TACTCTTTCATGAAGGTTTCATATTTTGCTAAAAAATTCGTTCCACTACTCTTCCGTGGAGGGCG
1 TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAAAATCCATTCCACTACTCTTCCGTGGAGAGCG
130200 AATTTTGGTTGGATTACTTCAC
66 AATTTTGGTTGGATTACTTCAC
*
130222 TACTCTTCCGTGAAGGTTGCATACTTTGCTGAAAAATCCATTCCACTACTCTTCCGTGGAGAGCG
1 TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAAAATCCATTCCACTACTCTTCCGTGGAGAGCG
130287 AATTTTGGTTGGATTACTTCAC
66 AATTTTGGTTGGATTACTTCAC
130309 TACTCTTCCGTGAAG
1 TACTCTTCCGTGAAG
130324 ATCATATTCA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 94 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (87 bp):
TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAAAATCCATTCCACTACTCTTCCGTGGAGAGCG
AATTTTGGTTGGATTACTTCAC
Found at i:131086 original size:22 final size:22
Alignment explanation
Indices: 131061--131102 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
131051 ACTTTCATCT
*
131061 TTGAAAAGAGAATTTATTATTC
1 TTGAAAAGAGAATCTATTATTC
131083 TTGAAAAGAGAATCTATTAT
1 TTGAAAAGAGAATCTATTAT
131103 CTTTGTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (22 bp):
TTGAAAAGAGAATCTATTATTC
Found at i:132750 original size:12 final size:12
Alignment explanation
Indices: 132719--132767 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
132709 CCTCCATTTG
*
132719 TAATAATAATATT
1 TAATAAT-ATATA
132732 TAATAATATATA
1 TAATAATATATA
*
132744 TATTAATATATA
1 TAATAATATATA
132756 TAATAATATATA
1 TAATAATATATA
132768 ATAACATAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 26 0.79
13 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATATATA
Found at i:132768 original size:10 final size:10
Alignment explanation
Indices: 132721--132771 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
132711 TCCATTTGTA
132721 ATAATAATAT
1 ATAATAATAT
*
132731 TTAATAATAT
1 ATAATAATAT
132741 ATATATTAATATAT
1 ATA-A-T-A-ATAT
132755 ATAATAATAT
1 ATAATAATAT
132765 ATAATAA
1 ATAATAA
132772 CATAACACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 22 0.63
11 2 0.06
12 2 0.06
13 2 0.06
14 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATAATAT
Found at i:133121 original size:41 final size:41
Alignment explanation
Indices: 133075--133217 Score: 135
Period size: 41 Copynumber: 3.4 Consensus size: 41
133065 AGAATCGTTC
133075 CACTACTCTTCCGTGGAGGGTCAATTTTGGTTGGATTACTT
1 CACTACTCTTCCGTGGAGGGTCAATTTTGGTTGGATTACTT
* * * * * * *
133116 CACTACTCTTCCGTGAAGGTTGCATACTTT-GCTGAAAAATCCATT
1 CACTACTCTTCCGTGGAGGGT-CA-ATTTTGGTTG--GATTAC-TT
* **
133161 CCACTACTCTTCCGTGGAGAGAGAATTTTGGTTGGATTACTT
1 -CACTACTCTTCCGTGGAGGGTCAATTTTGGTTGGATTACTT
133203 CACTACTCTTCCGTG
1 CACTACTCTTCCGTG
133218 AAGATCATAT
Statistics
Matches: 78, Mismatches: 17, Indels: 14
0.72 0.16 0.13
Matches are distributed among these distances:
41 34 0.44
42 7 0.09
43 7 0.09
44 7 0.09
45 6 0.08
46 17 0.22
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (41 bp):
CACTACTCTTCCGTGGAGGGTCAATTTTGGTTGGATTACTT
Found at i:133134 original size:87 final size:87
Alignment explanation
Indices: 133032--133220 Score: 281
Period size: 87 Copynumber: 2.2 Consensus size: 87
133022 AATACTTTAT
* * * * * * *
133032 TACTCTTTCATGAAGGTTTCATATTTTGCTAAAAGAAT-CGTTCCACTACTCTTCCGTGGAGGGT
1 TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAA-AATCCATTCCACTACTCTTCCGTGGAGAGA
133096 CAATTTTGGTTGGATTACTTCAC
65 CAATTTTGGTTGGATTACTTCAC
* *
133119 TACTCTTCCGTGAAGGTTGCATACTTTGCTGAAAAATCCATTCCACTACTCTTCCGTGGAGAGAG
1 TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAAAATCCATTCCACTACTCTTCCGTGGAGAGAC
133184 AATTTTGGTTGGATTACTTCAC
66 AATTTTGGTTGGATTACTTCAC
133206 TACTCTTCCGTGAAG
1 TACTCTTCCGTGAAG
133221 ATCATATTCA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 3 0.03
87 89 0.97
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (87 bp):
TACTCTTCCGTGAAGGTTGCATACTTTGCTAAAAAATCCATTCCACTACTCTTCCGTGGAGAGAC
AATTTTGGTTGGATTACTTCAC
Found at i:133855 original size:22 final size:22
Alignment explanation
Indices: 133830--133872 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
133820 ACTTTCATCT
133830 TTGAAAAGAGAATCTATTATCC
1 TTGAAAAGAGAATCTATTATCC
133852 TTGAAAAGAGAATCTATTATC
1 TTGAAAAGAGAATCTATTATC
133873 TTTGTAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
TTGAAAAGAGAATCTATTATCC
Found at i:135423 original size:12 final size:12
Alignment explanation
Indices: 135392--135440 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
135382 CCTCCATTTG
*
135392 TAATAATAATATT
1 TAATAAT-ATATA
135405 TAATAATATATA
1 TAATAATATATA
*
135417 TATTAATATATA
1 TAATAATATATA
135429 TAATAATATATA
1 TAATAATATATA
135441 ATAACATAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 26 0.79
13 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATATATA
Found at i:135441 original size:10 final size:10
Alignment explanation
Indices: 135394--135444 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
135384 TCCATTTGTA
135394 ATAATAATAT
1 ATAATAATAT
*
135404 TTAATAATAT
1 ATAATAATAT
135414 ATATATTAATATAT
1 ATA-A-T-A-ATAT
135428 ATAATAATAT
1 ATAATAATAT
135438 ATAATAA
1 ATAATAA
135445 CATAACACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 22 0.63
11 2 0.06
12 2 0.06
13 2 0.06
14 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATAATAT
Found at i:135793 original size:40 final size:39
Alignment explanation
Indices: 135748--135886 Score: 113
Period size: 40 Copynumber: 3.4 Consensus size: 39
135738 AAAATCGTTC
135748 CACTACTCTTCCGTAGAGGGCGAATTTTGGTTGGATTACT
1 CACTACTCTTCCGT-GAGGGCGAATTTTGGTTGGATTACT
* ** **
135788 CACTACTCTTCCGTGAAGGTTGC-ATACTTCTGAAATCCATT-C-
1 CACTACTCTTCCGTG-AGG--GCGA-A-TTTTG-GTTGGATTACT
* *
135830 CACTACTCTTCCGTGGAGAGAGAATTTTGGTTGGATTACTT
1 CACTACTCTTCCGT-GAGGGCGAATTTTGGTTGGATTAC-T
135871 CACTACTCTTCCGTGA
1 CACTACTCTTCCGTGA
135887 AAGTTGGATT
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
38 4 0.05
39 6 0.08
40 21 0.28
41 16 0.21
42 19 0.25
43 6 0.08
44 4 0.05
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (39 bp):
CACTACTCTTCCGTGAGGGCGAATTTTGGTTGGATTACT
Found at i:135895 original size:30 final size:32
Alignment explanation
Indices: 135859--135917 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
135849 GAGAATTTTG
135859 GTTGGA-TTACTT-CACTACTCTTCCGTGAAA
1 GTTGGATTTACTTCCACTACTCTTCCGTGAAA
**
135889 GTTGGATTTGTTTCCACTACTCTTCCGTG
1 GTTGGATTTACTTCCACTACTCTTCCGTG
135918 GAGTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 4 0.16
32 15 0.60
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.41
Consensus pattern (32 bp):
GTTGGATTTACTTCCACTACTCTTCCGTGAAA
Found at i:136642 original size:22 final size:22
Alignment explanation
Indices: 136617--136659 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
136607 ACTTTCATCT
136617 TTGAAAAGAGAATCTATTATCC
1 TTGAAAAGAGAATCTATTATCC
136639 TTGAAAAGAGAATCTATTATC
1 TTGAAAAGAGAATCTATTATC
136660 TTTGTAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
TTGAAAAGAGAATCTATTATCC
Found at i:137330 original size:42 final size:42
Alignment explanation
Indices: 137271--137386 Score: 180
Period size: 42 Copynumber: 2.8 Consensus size: 42
137261 CTGTTGGATC
*
137271 ATTTTTGT-CTAAAATGGGCCTTCAGCATGCCCCACATAGATT
1 ATTTTT-TACTAACATGGGCCTTCAGCATGCCCCACATAGATT
137313 ATTTTTTACTAACATGGGCCTTCAGCATGCCCCACATAGATT
1 ATTTTTTACTAACATGGGCCTTCAGCATGCCCCACATAGATT
* * *
137355 ATTTTTTACTGACATGGGACTTCATCATGCCC
1 ATTTTTTACTAACATGGGCCTTCAGCATGCCC
137387 TAACCTTTGC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.01
42 68 0.99
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (42 bp):
ATTTTTTACTAACATGGGCCTTCAGCATGCCCCACATAGATT
Found at i:142016 original size:20 final size:21
Alignment explanation
Indices: 141991--142042 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
141981 TTTTCCCAAT
*
141991 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
142011 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
142032 TCGCAATGCGA
1 TCGCAATGCGA
142043 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:142055 original size:41 final size:40
Alignment explanation
Indices: 142010--142105 Score: 104
Period size: 41 Copynumber: 2.4 Consensus size: 40
142000 GAATAAGTAA
** * *
142010 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATT-ACAAAATCGCAACGAGATACTGACT
* *
142051 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACT
1 ATCGCAACGCGA-ATTACAAAATCGCAACGAGATACTGACT
*
142092 TTCGCAACGC-AATT
1 ATCGCAACGCGAATT
142106 CTGACTTTCG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
39 2 0.04
40 1 0.02
41 40 0.89
42 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (40 bp):
ATCGCAACGCGAATTACAAAATCGCAACGAGATACTGACT
Found at i:142056 original size:20 final size:20
Alignment explanation
Indices: 142031--142124 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
142021 AATTGGGAAA
*
142031 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
142051 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
142072 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
142092 TTCGCAACGCAATTCTGACT
1 ATCGCAACGCGATACTGACT
*
142112 TTCGCAACGCGAT
1 ATCGCAACGCGAT
142125 TTACATAGCG
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 43 0.72
21 13 0.22
22 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:142795 original size:24 final size:19
Alignment explanation
Indices: 142699--142834 Score: 209
Period size: 19 Copynumber: 7.1 Consensus size: 19
142689 GAAACCAAAA
*
142699 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
142718 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
142737 TCGCGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATT
142756 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
142775 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
142794 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
142813 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
142833 TC
1 TC
142835 AACCAAAAGA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
19 90 0.84
20 17 0.16
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:144368 original size:63 final size:63
Alignment explanation
Indices: 144269--144399 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
144259 GTTACGTGAT
144269 GAGGTCAATGCCTTGCGTAAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTAAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
*
144332 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTAAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
144395 GAGGT
1 GAGGT
144400 GTCTACTTTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTAAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Done.