Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 189 of 208
Found at i:59047036 original size:24 final size:23
Alignment explanation
Indices: 59047004--59047056 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
59046994 GGAGTTACCC
59047004 GTTATTGGCTCGCATGAGCTTCCT
1 GTTA-TGGCTCGCATGAGCTTCCT
**
59047028 GATTATGGCTCTTATGAGCTTCCT
1 G-TTATGGCTCGCATGAGCTTCCT
59047052 GTTAT
1 GTTAT
59047057 ACAGCCCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 19 0.73
25 3 0.12
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (23 bp):
GTTATGGCTCGCATGAGCTTCCT
Found at i:59051963 original size:36 final size:37
Alignment explanation
Indices: 59051892--59051963 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 37
59051882 GTATAATATG
* *
59051892 GAAAAAAAAATGGTAGAAATATTATATAATATAAAAT
1 GAAAAAAAAATGGTAGAAATAATATATAAGATAAAAT
* *
59051929 GAAAAAAAAAT-GT-GATATGAATATATAAGGTAAAA
1 GAAAAAAAAATGGTAGAAAT-AATATATAAGATAAAA
59051964 AGTACTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
35 4 0.13
36 15 0.50
37 11 0.37
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (37 bp):
GAAAAAAAAATGGTAGAAATAATATATAAGATAAAAT
Found at i:59052298 original size:13 final size:13
Alignment explanation
Indices: 59052280--59052304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59052270 AAAAAAACGT
59052280 AAAAGTTATAAAC
1 AAAAGTTATAAAC
59052293 AAAAGTTATAAA
1 AAAAGTTATAAA
59052305 AATTTTAAAA
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:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAAGTTATAAAC
Found at i:59058275 original size:27 final size:28
Alignment explanation
Indices: 59058237--59058305 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
59058227 ATAAAAATTA
59058237 ACCAAAATATTATAATTTTTT-TTATTT
1 ACCAAAATATTATAATTTTTTATTATTT
*
59058264 ACCAAAATATTACT-TTTTTTTATTATTT
1 ACCAAAATATTA-TAATTTTTTATTATTT
*
59058292 ACGAAAATA-TATAA
1 ACCAAAATATTATAA
59058306 AAAAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 1 0.03
27 20 0.56
28 15 0.42
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (28 bp):
ACCAAAATATTATAATTTTTTATTATTT
Found at i:59058467 original size:19 final size:19
Alignment explanation
Indices: 59058440--59058509 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
59058430 TCAACTCATT
*
59058440 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
**
59058459 TTTTAATTTAATAA-AATA
1 TTTTAATTTAATAACTCTA
* *
59058477 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
59058496 TTTTAATTTAATAA
1 TTTTAATTTAATAA
59058510 ACTATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:59058488 original size:37 final size:37
Alignment explanation
Indices: 59058445--59058515 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
59058435 TCATTTTTTT
59058445 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
*
59058482 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
59058516 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
Found at i:59058771 original size:18 final size:19
Alignment explanation
Indices: 59058734--59058772 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
59058724 TCAACTCATT
* *
59058734 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
59058753 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
59058771 TT
1 TT
59058773 CTCGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:59058823 original size:37 final size:37
Alignment explanation
Indices: 59058778--59058873 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
59058768 CTATTCTCGT
*
59058778 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTGA
59058815 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTGA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTGA
59058852 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
59058874 CTTAATTAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTGA
Found at i:59058864 original size:18 final size:17
Alignment explanation
Indices: 59058778--59058865 Score: 86
Period size: 18 Copynumber: 4.8 Consensus size: 17
59058768 CTATTCTCGT
59058778 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAAT--AGTTA
* *
59058797 TTAAATGAGAATAGTTTA
1 TTAAATTAAAATAG-TTA
59058815 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAAT--AGTTA
* *
59058834 TTAAATGAGAATAGTTGA
1 TTAAATTAAAATAGTT-A
59058852 TTAAATTAAAATAG
1 TTAAATTAAAATAG
59058866 AGTTATTACT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
17 6 0.11
18 26 0.46
19 23 0.40
20 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (17 bp):
TTAAATTAAAATAGTTA
Found at i:59058878 original size:18 final size:19
Alignment explanation
Indices: 59058778--59058873 Score: 117
Period size: 19 Copynumber: 5.2 Consensus size: 19
59058768 CTATTCTCGT
59058778 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
59058797 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
59058815 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* *
59058834 TTAAATGAGAAT--AGTTGA
1 TTAAATTAAAATAGAGTT-A
59058852 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
59058871 TTA
1 TTA
59058874 CTTAATTAGA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
17 4 0.06
18 26 0.41
19 29 0.46
20 4 0.06
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:59059095 original size:20 final size:19
Alignment explanation
Indices: 59059056--59059096 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
59059046 TTAATAAACT
* *
59059056 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
59059075 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
59059095 TT
1 TT
59059097 GAAGGGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:59059226 original size:27 final size:27
Alignment explanation
Indices: 59059158--59059228 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
59059148 ATTTTAGTCA
* **
59059158 TTTGGCACCATTGGAGCCGGCAATCAC
1 TTTGGCACCATTGGTGCCACCAATCAC
*
59059185 TTTGGCACCATTGGTGCCACCAATCTC
1 TTTGGCACCATTGGTGCCACCAATCAC
*
59059212 TTTGGCACCTTTGGTGC
1 TTTGGCACCATTGGTGC
59059229 AGCCAATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.30
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCACCAATCAC
Found at i:59059350 original size:24 final size:25
Alignment explanation
Indices: 59059318--59059367 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
59059308 TTTCGTAAAT
59059318 AATAAAAAAAG-TAATATTTTGGTA
1 AATAAAAAAAGTTAATATTTTGGTA
59059342 AATAAAAAAAGTTATAATATTTTGGT
1 AATAAAAAAAG-T-TAATATTTTGGT
59059368 TAATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.48
27 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (25 bp):
AATAAAAAAAGTTAATATTTTGGTA
Found at i:59059930 original size:22 final size:23
Alignment explanation
Indices: 59059886--59059940 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
59059876 ATGATATTTT
*
59059886 AAAATATATTCTTAATAATTATTA
1 AAAATATAAT-TTAATAATTATTA
59059910 TAAAA-ATAATTTAA-AATTATTA
1 -AAAATATAATTTAATAATTATTA
59059932 AAAATATAA
1 AAAATATAA
59059941 AATGTAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.14
22 12 0.43
23 4 0.14
24 4 0.14
25 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATATAATTTAATAATTATTA
Found at i:59059981 original size:19 final size:20
Alignment explanation
Indices: 59059959--59059998 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
59059949 ATAATTTTTT
*
59059959 AATATTTATATTAA-ATAAA
1 AATAATTATATTAATATAAA
59059978 AATAATTATATTAATATAAA
1 AATAATTATATTAATATAAA
59059998 A
1 A
59059999 TGAAATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAATTATATTAATATAAA
Found at i:59061058 original size:18 final size:19
Alignment explanation
Indices: 59061031--59061072 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
59061021 AATTTTAATT
*
59061031 TTTTTATATATTATTTAG-A
1 TTTTTATATAAT-TTTAGAA
59061050 TTTTT-TATAATTTTAGAA
1 TTTTTATATAATTTTAGAA
59061068 TTTTT
1 TTTTT
59061073 GTAAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTATATAATTTTAGAA
Found at i:59061087 original size:19 final size:18
Alignment explanation
Indices: 59061015--59061113 Score: 60
Period size: 19 Copynumber: 5.3 Consensus size: 18
59061005 TTTAGAAAAA
59061015 TTTTAAA-ATTTT-AATTT
1 TTTTAAATATTTTGAA-TT
* *
59061032 TTTTATATATTATTTAGATT
1 TTTTAAATATT-TTGA-ATT
*
59061052 TTTTATAAT-TTTAGAATT
1 TTTTA-AATATTTTGAATT
59061070 TTTGTAAATATTTTGAATT
1 TTT-TAAATATTTTGAATT
***
59061089 TAAAAAATTATTTTGAATT
1 TTTTAAA-TATTTTGAATT
59061108 ATTTTA
1 -TTTTA
59061114 TATTTTTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 15
0.70 0.12 0.17
Matches are distributed among these distances:
17 6 0.10
18 15 0.24
19 26 0.42
20 12 0.19
21 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTAAATATTTTGAATT
Found at i:59062472 original size:15 final size:15
Alignment explanation
Indices: 59062428--59062466 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
59062418 AACTAAACCC
*
59062428 CAAA-AACCCAAAAA
1 CAAAGAACCCGAAAA
59062442 CAAAGAACCCGAAAA
1 CAAAGAACCCGAAAA
59062457 CAAAGAACCC
1 CAAAGAACCC
59062467 TCAAACGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.62, C:0.31, G:0.08, T:0.00
Consensus pattern (15 bp):
CAAAGAACCCGAAAA
Found at i:59063192 original size:36 final size:35
Alignment explanation
Indices: 59063135--59063230 Score: 122
Period size: 38 Copynumber: 2.6 Consensus size: 35
59063125 TTTTTCTTTT
*
59063135 TTTTGAAAACACGAAATTTTTTTAAAAATAC-AAGAA
1 TTTTG-AAACACGAAATTTTTTTAAAAACACGAA-AA
59063171 TTTTAGAAACACGAAACTTTTTTTTAAAAACACGAAAA
1 TTTT-GAAACACGAAA--TTTTTTTAAAAACACGAAAA
*
59063209 TTTTGAAACACGAGATTTTTTT
1 TTTTGAAACACGAAATTTTTTT
59063231 TTGAATACAC
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
35 7 0.13
36 14 0.26
37 11 0.20
38 20 0.37
39 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.36
Consensus pattern (35 bp):
TTTTGAAACACGAAATTTTTTTAAAAACACGAAAA
Found at i:59063217 original size:37 final size:37
Alignment explanation
Indices: 59063135--59063231 Score: 128
Period size: 36 Copynumber: 2.6 Consensus size: 37
59063125 TTTTTCTTTT
*
59063135 TTTTGAAAACACGAAA-TTTTTTTAAAAATAC-AAGAA
1 TTTTG-AAACACGAAATTTTTTTTAAAAACACGAAGAA
59063171 TTTTAGAAACACGAAACTTTTTTTTAAAAACACGAA-AA
1 TTTT-GAAACACGAAA-TTTTTTTTAAAAACACGAAGAA
*
59063209 TTTTGAAACACGAGATTTTTTTT
1 TTTTGAAACACGAAATTTTTTTT
59063232 TGAATACACG
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
36 22 0.40
37 11 0.20
38 20 0.36
39 2 0.04
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.37
Consensus pattern (37 bp):
TTTTGAAACACGAAATTTTTTTTAAAAACACGAAGAA
Found at i:59063241 original size:37 final size:37
Alignment explanation
Indices: 59063135--59063243 Score: 123
Period size: 37 Copynumber: 2.9 Consensus size: 37
59063125 TTTTTCTTTT
** *
59063135 TTTTGAAAACACGAAATTTTTTTAAAAATACA--AGAA
1 TTTTG-AAACACGAAATTTTTTTTTAAATACACGAAAA
* *
59063171 TTTTAGAAACACGAAACTTTTTTTTAAAAACACGAAAA
1 TTTT-GAAACACGAAATTTTTTTTTAAATACACGAAAA
* *
59063209 TTTTGAAACACGAGATTTTTTTTTGAATACACGAA
1 TTTTGAAACACGAAATTTTTTTTTAAATACACGAA
59063244 TTTTCTTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
36 26 0.43
37 28 0.46
38 7 0.11
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (37 bp):
TTTTGAAACACGAAATTTTTTTTTAAATACACGAAAA
Found at i:59063358 original size:18 final size:18
Alignment explanation
Indices: 59063335--59063693 Score: 208
Period size: 18 Copynumber: 20.1 Consensus size: 18
59063325 GAGGATTTAA
59063335 GAAAATTTTTGAAAACAC
1 GAAAATTTTTGAAAACAC
*
59063353 GAAAATTTTT---TA-A-
1 GAAAATTTTTGAAAACAC
59063366 GAAAATTTTTGAAAACAC
1 GAAAATTTTTGAAAACAC
**
59063384 GAAAATTTTTTAAGAAAACGG
1 GAAAA-TTTTT--GAAAACAC
**
59063405 GAATTTTTTTTGAAAACAC
1 GAA-AATTTTTGAAAACAC
* *
59063424 GGAAATTTATG-AAACAC
1 GAAAATTTTTGAAAACAC
** *
59063441 GGAATTTTTTTGAAAATAC
1 -GAAAATTTTTGAAAACAC
*
59063460 -AGAAATTTATG-AAACAC
1 GA-AAATTTTTGAAAACAC
** *
59063477 GGAATTTTTTTGAAAACAA
1 -GAAAATTTTTGAAAACAC
* *
59063496 GAAAATTTTCG-AAATAC
1 GAAAATTTTTGAAAACAC
* *
59063513 GAAAACTTTTGAAAACAAA
1 GAAAATTTTTGAAAAC-AC
* *
59063532 GCAAATTTTTTTGAAAACAT
1 G-AAA-ATTTTTGAAAACAC
**
59063552 GAGGATTTTTG-AAACAC
1 GAAAATTTTTGAAAACAC
*** * *
59063569 AGATTTTTTTTGAAAATAT
1 -GAAAATTTTTGAAAACAC
* *
59063588 GAAAATTTCTGAAAATAC
1 GAAAATTTTTGAAAACAC
59063606 -AGAAATTTTT-AAAACAC
1 GA-AAATTTTTGAAAACAC
**
59063623 GGGAATTTTTG-AAACAC
1 GAAAATTTTTGAAAACAC
59063640 TG-AAATTTTTGAAAACAC
1 -GAAAATTTTTGAAAACAC
*
59063658 GAGAATTTTTGAAAACAC
1 GAAAATTTTTGAAAACAC
59063676 GAAAATTTTTG-AAACAC
1 GAAAATTTTTGAAAACAC
59063693 G
1 G
59063694 GGAATTTTTT
Statistics
Matches: 256, Mismatches: 58, Indels: 55
0.69 0.16 0.15
Matches are distributed among these distances:
13 10 0.04
14 1 0.00
15 1 0.00
16 1 0.00
17 67 0.26
18 116 0.45
19 31 0.12
20 5 0.02
21 24 0.09
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (18 bp):
GAAAATTTTTGAAAACAC
Found at i:59063368 original size:31 final size:31
Alignment explanation
Indices: 59063330--59063401 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
59063320 AACACGAGGA
59063330 TTTAAGAAAATTTTTGAAAACACGAAAATTT
1 TTTAAGAAAATTTTTGAAAACACGAAAATTT
59063361 TTTAAGAAAATTTTTGAAAACACGAAAATTT
1 TTTAAGAAAATTTTTGAAAACACGAAAATTT
59063392 TTTAAGAAAA
1 TTTAAGAAAA
59063402 CGGGAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.35
Consensus pattern (31 bp):
TTTAAGAAAATTTTTGAAAACACGAAAATTT
Found at i:59063425 original size:21 final size:21
Alignment explanation
Indices: 59063371--59063504 Score: 80
Period size: 19 Copynumber: 7.0 Consensus size: 21
59063361 TTTAAGAAAA
*
59063371 TTTTTGAAAACACGAAAATTT
1 TTTTTGAAAACACGGAAATTT
** *
59063392 TTTAAG-AAA-ACGGGAATTT
1 TTTTTGAAAACACGGAAATTT
59063411 TTTTTGAAAACACGGAAA---
1 TTTTTGAAAACACGGAAATTT
*
59063429 TTTATG-AAACACGG-AA-TT
1 TTTTTGAAAACACGGAAATTT
* *
59063447 TTTTTGAAAATACAGAAA---
1 TTTTTGAAAACACGGAAATTT
*
59063465 TTTATG-AAACACGG-AA-TT
1 TTTTTGAAAACACGGAAATTT
* *
59063483 TTTTTGAAAACAAGAAAATTT
1 TTTTTGAAAACACGGAAATTT
59063504 T
1 T
59063505 CGAAATACGA
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
16 4 0.05
17 14 0.16
18 20 0.24
19 24 0.28
20 10 0.12
21 13 0.15
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (21 bp):
TTTTTGAAAACACGGAAATTT
Found at i:59063440 original size:17 final size:17
Alignment explanation
Indices: 59063418--59063480 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
59063408 TTTTTTTTGA
59063418 AAACACGGAAATTTATG
1 AAACACGGAAATTTATG
* *
59063435 AAACACGGAATTTTTTTG
1 AAACACGGAA-ATTTATG
* *
59063453 AAAATACAGAAATTTATG
1 -AAACACGGAAATTTATG
59063471 AAACACGGAA
1 AAACACGGAA
59063481 TTTTTTTGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 18 0.50
18 10 0.28
19 8 0.22
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (17 bp):
AAACACGGAAATTTATG
Found at i:59063703 original size:18 final size:17
Alignment explanation
Indices: 59063609--59063702 Score: 116
Period size: 17 Copynumber: 5.4 Consensus size: 17
59063599 AAAATACAGA
*
59063609 AATTTTTAAAACACGGG
1 AATTTTTGAAACACGGG
* *
59063626 AATTTTTGAAACACTGA
1 AATTTTTGAAACACGGG
*
59063643 AATTTTTGAAAACACGAG
1 AATTTTTG-AAACACGGG
**
59063661 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGGG
59063679 AATTTTTGAAACACGGG
1 AATTTTTGAAACACGGG
59063696 AATTTTT
1 AATTTTT
59063703 TTACACAAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
17 36 0.54
18 31 0.46
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (17 bp):
AATTTTTGAAACACGGG
Found at i:59063878 original size:19 final size:18
Alignment explanation
Indices: 59063856--59063923 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
59063846 AAACACGAGA
59063856 AAAATTTTTTGAAGACATG
1 AAAATTTTTTGAA-ACATG
* *
59063875 AAAA-ATTTTGAAAGAT-
1 AAAATTTTTTGAAACATG
59063891 AGAAATTTTTTGAAATCATG
1 A-AAATTTTTTGAAA-CATG
* *
59063911 AGATTTTTTTGAA
1 AAAATTTTTTGAA
59063924 TATTTTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.03
17 6 0.15
18 15 0.38
19 16 0.41
20 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (18 bp):
AAAATTTTTTGAAACATG
Found at i:59063879 original size:21 final size:20
Alignment explanation
Indices: 59063839--59063883 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
59063829 ACACGACTAT
59063839 TTTTTTGAAACACGAGAAAAA
1 TTTTTTGAAACACG-GAAAAA
*
59063860 TTTTTTGAAGACA-TGAAAAA
1 TTTTTTGAA-ACACGGAAAAA
59063880 TTTT
1 TTTT
59063884 GAAAGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 9 0.41
22 3 0.14
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (20 bp):
TTTTTTGAAACACGGAAAAA
Found at i:59064086 original size:7 final size:7
Alignment explanation
Indices: 59064074--59064103 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
59064064 AAATTGAATT
59064074 AAATTAA
1 AAATTAA
59064081 AAATTAA
1 AAATTAA
59064088 AAATTAA
1 AAATTAA
59064095 AAATATAA
1 AAAT-TAA
59064103 A
1 A
59064104 TACAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATTAA
Found at i:59064266 original size:17 final size:16
Alignment explanation
Indices: 59064224--59064268 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
59064214 ACAAATTGAA
*
59064224 CCTTTTTTTCGTTTTT
1 CCTTTTTTTCTTTTTT
59064240 CCTTTTTTTCTTTTTT
1 CCTTTTTTTCTTTTTT
59064256 CTCTTTTTTTCTT
1 C-CTTTTTTTCTT
59064269 CCCTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (16 bp):
CCTTTTTTTCTTTTTT
Found at i:59064287 original size:8 final size:8
Alignment explanation
Indices: 59064225--59064268 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
59064215 CAAATTGAAC
59064225 CTTTTTTT
1 CTTTTTTT
* *
59064233 CGTTTTTC
1 CTTTTTTT
59064241 CTTTTTTT
1 CTTTTTTT
59064249 CTTTTTTCT
1 CTTTTTT-T
59064258 CTTTTTTT
1 CTTTTTTT
59064266 CTT
1 CTT
59064269 CCCTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 23 0.74
9 8 0.26
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (8 bp):
CTTTTTTT
Found at i:59064288 original size:11 final size:11
Alignment explanation
Indices: 59064242--59064292 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
59064232 TCGTTTTTCC
59064242 TTTTTT-TCTT
1 TTTTTTCTCTT
*
59064252 TTTTCTCT-TT
1 TTTTTTCTCTT
*
59064262 TTTTCTTCCCTT
1 TTTT-TTCTCTT
59064274 TTTTTTCTCTT
1 TTTTTTCTCTT
59064285 TTTTTTCT
1 TTTTTTCT
59064293 GGCCTGCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 11 0.32
11 17 0.50
12 6 0.18
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:59064288 original size:13 final size:13
Alignment explanation
Indices: 59064245--59064290 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
59064235 TTTTTCCTTT
59064245 TTTTCTTTTTTCTC
1 TTTT-TTTTTTCTC
*
59064259 TTTTTTTCTTC-C
1 TTTTTTTTTTCTC
*
59064271 -CTTTTTTTTCTC
1 TTTTTTTTTTCTC
59064283 TTTTTTTT
1 TTTTTTTT
59064291 CTGGCCTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 12 0.46
14 4 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:59064577 original size:6 final size:6
Alignment explanation
Indices: 59064568--59064654 Score: 79
Period size: 7 Copynumber: 13.8 Consensus size: 6
59064558 TATTTTTTTC
*
59064568 TTCTTT TTCTTT TTCCTTT TTCCTTT TTCCTTT TTCTTT CTTCTTT TTCTTC
1 TTCTTT TTCTTT TT-CTTT TT-CTTT TT-CTTT TTCTTT -TTCTTT TTCTTT
* *
59064620 TTC--T TTCTTT CTCTTT TTCTTCT TTTTTCT TTCTT
1 TTCTTT TTCTTT TTCTTT TTCTT-T TTCTT-T TTCTT
59064655 CCTTTCTTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
4 3 0.04
6 30 0.43
7 37 0.53
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTCTTT
Found at i:59064602 original size:22 final size:20
Alignment explanation
Indices: 59064560--59064650 Score: 93
Period size: 20 Copynumber: 4.5 Consensus size: 20
59064550 AATATTATTA
59064560 TTTT-TTTCTT-CTTTTTCT
1 TTTTCTTTCTTCCTTTTTCT
59064578 TTTTCCTTT-TTCCTTTTTCCT
1 TTTT-CTTTCTTCCTTTTT-CT
59064599 TTTTCTTTCTT-CTTTTTCT
1 TTTTCTTTCTTCCTTTTTCT
*
59064618 TCTTCTTTCTTTCTCTTTTTCT
1 TTTTCTTTC-TTC-CTTTTTCT
59064640 TCTTT-TTTCTT
1 T-TTTCTTTCTT
59064651 TCTTCCTTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.06
19 12 0.19
20 21 0.34
21 10 0.16
22 13 0.21
23 2 0.03
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCTTTCTTCCTTTTTCT
Found at i:59064623 original size:19 final size:19
Alignment explanation
Indices: 59064564--59064667 Score: 97
Period size: 19 Copynumber: 5.4 Consensus size: 19
59064554 TTATTATTTT
*
59064564 TTTCTTCTTTTTCTTTTTCC
1 TTTCTTCTTTTTCTTCTT-C
*
59064584 TTT-TTCCTTTTTCCTTTTTC
1 TTTCTT-CTTTTT-CTTCTTC
59064604 TTTCTTCTTTTTCTTCTTC
1 TTTCTTCTTTTTCTTCTTC
*
59064623 TTTCTTTCTCTTT-TTCTTC
1 TTTC-TTCTTTTTCTTCTTC
* *
59064642 TTTTTTCTTTCTTCCT-TTC
1 TTTCTTCTTT-TTCTTCTTC
59064661 TTTCTTC
1 TTTCTTC
59064668 CTCCCCGATC
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.07
19 32 0.44
20 27 0.38
21 8 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTCTTTTTCTTCTTC
Found at i:59064636 original size:49 final size:52
Alignment explanation
Indices: 59064562--59064662 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 52
59064552 TATTATTATT
*
59064562 TTTTTCTTCTTTTTCTTTTTCCTTTTTC-CTTTTTCCTTT-TT-CTTTCTTC
1 TTTTTCTTCTTTTTCTTTCTCCTTTTTCTCTTTTTCCTTTCTTCCTTTCTTC
*
59064611 TTTTTCTTCTTCTTTCTTTCT-CTTTTTCTTCTTTTTTCTTTCTTCCTTTCTT
1 TTTTTCTTCTT-TTTCTTTCTCCTTTTTC-TCTTTTTCCTTTCTTCCTTTCTT
59064663 TCTTCCTCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
49 18 0.40
50 8 0.18
51 10 0.22
52 2 0.04
53 7 0.16
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (52 bp):
TTTTTCTTCTTTTTCTTTCTCCTTTTTCTCTTTTTCCTTTCTTCCTTTCTTC
Found at i:59064651 original size:22 final size:23
Alignment explanation
Indices: 59064565--59064666 Score: 83
Period size: 22 Copynumber: 4.6 Consensus size: 23
59064555 TATTATTTTT
*
59064565 TTCTTCTT-TTTCTTTTTCCTTT-
1 TTCTT-TTCTTTCTTTTTTCTTTC
* *
59064587 TTC-CTT-TTTCCTTTTTCTTTC
1 TTCTTTTCTTTCTTTTTTCTTTC
*
59064608 TTCTTTT-TCTTCTTCTTTCTTTC
1 TTCTTTTCT-TTCTTTTTTCTTTC
59064631 -TCTTTT-TCTTCTTTTTTCTTTC
1 TTCTTTTCT-TTCTTTTTTCTTTC
*
59064653 TTCCTTTCTTTCTT
1 TTCTTTTCTTTCTT
59064667 CCTCCCCGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
20 14 0.21
21 3 0.04
22 27 0.40
23 22 0.33
24 1 0.01
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (23 bp):
TTCTTTTCTTTCTTTTTTCTTTC
Found at i:59065248 original size:59 final size:60
Alignment explanation
Indices: 59065166--59065296 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 60
59065156 TAATTTTGAG
** * * **
59065166 AAAGTTTA-GGGTCAAAATATAATTTTGAGAAATTTTAGAGGTTGAAATGTAATTTCA-A
1 AAAGTTTAGGGGTTTAAATATAATTTTGAAAAAGTTTAGAGGTCAAAATGTAATTTCAGA
* * *
59065224 AATA-TTTAGGGGTTTAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATGTAATTTTAGA
1 AA-AGTTTAGGGGTTTAAATATAATTTTGAAAAAGTTTAGAGGTCAAAATGTAATTTCAGA
59065284 AAAGTTTAGGGGT
1 AAAGTTTAGGGGT
59065297 CAAAATGCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
58 6 0.10
59 42 0.70
60 12 0.20
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (60 bp):
AAAGTTTAGGGGTTTAAATATAATTTTGAAAAAGTTTAGAGGTCAAAATGTAATTTCAGA
Found at i:59065264 original size:30 final size:30
Alignment explanation
Indices: 59065135--59065303 Score: 166
Period size: 30 Copynumber: 5.7 Consensus size: 30
59065125 TAATGGCAGC
* * * *
59065135 AAAACTTTTGGGGTCGAAACGTAATTTTGA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTGA
* *
59065165 GAAAGTTTA-GGGTCAAAATATAATTTTGA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTGA
* * * ** *
59065194 GAAATTTTAGAGGTTGAAATGTAA-TTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTGA
**
59065223 AAATA-TTTAGGGGTTTAAATGTAATTTTGA
1 AAA-AGTTTAGGGGTCAAAATGTAATTTTGA
59065253 AAAAGTTTAGGGGTCAAAATGTAATTTT-A
1 AAAAGTTTAGGGGTCAAAATGTAATTTTGA
59065282 GAAAAGTTTAGGGGTCAAAATG
1 -AAAAGTTTAGGGGTCAAAATG
59065304 CAAAAAAAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
29 50 0.43
30 66 0.57
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.35
Consensus pattern (30 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTGA
Found at i:59071058 original size:49 final size:49
Alignment explanation
Indices: 59070982--59071173 Score: 176
Period size: 49 Copynumber: 3.9 Consensus size: 49
59070972 CAAAATGTGG
* * *
59070982 AAAACCATCATTGAC-GGGCCACTCGGGATGGTAAATTGTGTAAATTGTA
1 AAAACCATCATTG-CTGAGCCACCCGGGATGGTAAATTGTGCAAATTGTA
* ** *
59071031 AAAATCATCATTGCTGAGCCACCCGGGATGGTAGAATAT-T-CAAATAATG
1 AAAACCATCATTGCTGAGCCACCCGGGATGGTA-AAT-TGTGCAAATTGTA
* * * * *
59071080 AAAACCATCATTGTTGGGCCACTCGGGATGGTAAATTTTGTAAATTGTA
1 AAAACCATCATTGCTGAGCCACCCGGGATGGTAAATTGTGCAAATTGTA
* * * *
59071129 AAAACTATCATTG-TCGAGCTATCCGGGATGGTAAAATGTGCAAAT
1 AAAACCATCATTGCT-GAGCCACCCGGGATGGTAAATTGTGCAAAT
59071174 AATGAAAGCC
Statistics
Matches: 114, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
47 1 0.01
48 6 0.05
49 102 0.89
50 4 0.04
51 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (49 bp):
AAAACCATCATTGCTGAGCCACCCGGGATGGTAAATTGTGCAAATTGTA
Found at i:59071155 original size:98 final size:97
Alignment explanation
Indices: 59070981--59071555 Score: 423
Period size: 98 Copynumber: 5.9 Consensus size: 97
59070971 TCAAAATGTG
* * * *
59070981 GAAAACCATCATTGACGGGCCACTCGGGATGGTAAATTGTGTAAATTGTAAAAATCATCATTG-C
1 GAAAACCATCGTTGTCGGGCCACTCGGGATGGTAAATTGCGTAAATTGTAAAAACCATCATTGTC
* * *
59071045 TGAGCCACCCGGGATGGTAGAATATTCAAATAAT
66 -GAG-CATCCGAGATGGTAGAATATGCAAATAAT
* * ** *
59071079 GAAAACCATCATTGTTGGGCCACTCGGGATGGTAAATTTTGTAAATTGTAAAAACTATCATTGTC
1 GAAAACCATCGTTGTCGGGCCACTCGGGATGGTAAATTGCGTAAATTGTAAAAACCATCATTGTC
* * *
59071144 GAGCTATCCGGGATGGTAAAATGTGCAAATAAT
66 GAGC-ATCCGAGATGGTAGAATATGCAAATAAT
* * * * * ** * * * * *
59071177 GAAAGCCATTGCTGTCGTGCCAC-CTGGAATCATGAATTGCATAAACTATGAAAACCATCATTGT
1 GAAAACCATCGTTGTCGGGCCACTC-GGGATGGTAAATTGCGTAAATTGTAAAAACCATCATTGT
* * * *
59071241 CAAGACATCCGAGATGGTAGAATATACAGATAGT
65 CGAG-CATCCGAGATGGTAGAATATGCAAATAAT
* * * * * * * * *
59071275 GGAAGCCATTGTTGTTGGGCCA-TCTAGGATTGTAGAAAAT-CG--AA--GTGAGAACCATCATT
1 GAAAACCATCGTTGTCGGGCCACTC-GGGATGGT--AAATTGCGTAAATTGTAAAAACCATCATT
** *
59071334 ACCTG-GCCACCCGAGATGGTAGAATATGCAAATAAT
63 GTC-GAG-CATCCGAGATGGTAGAATATGCAAATAAT
* * * * *
59071370 GAAAACCATCGTTGTTGGGTCACCCGGGAT-GTAAATTGTGTAAATTGTAAAAACTATCATTGTC
1 GAAAACCATCGTTGTCGGGCCACTCGGGATGGTAAATTGCGTAAATTGTAAAAACCATCATTGTC
* *
59071434 GAGCTATCCGGGATGGTAAAATATGCAAATAAT
66 GAGC-ATCCGAGATGGTAGAATATGCAAATAAT
* * * * * * * * * **
59071467 GAAAACCATTGCTGTCAGGCCACTCAGGATGATAAATTACATAAACTGTGAAAACCATTGTTGTC
1 GAAAACCATCGTTGTCGGGCCACTCGGGATGGTAAATTGCGTAAATTGTAAAAACCATCATTGTC
59071532 GAGACATCCGAGATGGTAGAATAT
66 GAG-CATCCGAGATGGTAGAATAT
59071556 ACAGATAGTG
Statistics
Matches: 371, Mismatches: 88, Indels: 36
0.75 0.18 0.07
Matches are distributed among these distances:
92 4 0.01
93 1 0.00
94 2 0.01
95 64 0.17
96 3 0.01
97 66 0.18
98 224 0.60
99 4 0.01
100 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (97 bp):
GAAAACCATCGTTGTCGGGCCACTCGGGATGGTAAATTGCGTAAATTGTAAAAACCATCATTGTC
GAGCATCCGAGATGGTAGAATATGCAAATAAT
Found at i:59071394 original size:49 final size:47
Alignment explanation
Indices: 59071341--59071475 Score: 119
Period size: 48 Copynumber: 2.8 Consensus size: 47
59071331 ATTACCTGGC
* * * *
59071341 CACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCGTTGTTGGG
1 CACCCGGGATGGTA-AATATGCAAATAATGAAAACCATCATTGTCGAG
* * ** * *
59071389 TCACCCGGGAT-GTAAATTGTGTAAATTGTAAAAACTATCATTGTCGAG
1 -CACCCGGGATGGTAAA-TATGCAAATAATGAAAACCATCATTGTCGAG
*
59071437 CTATCCGGGATGGTAAAATATGCAAATAATGAAAACCAT
1 C-ACCCGGGATGGT-AAATATGCAAATAATGAAAACCAT
59071476 TGCTGTCAGG
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
47 3 0.05
48 33 0.51
49 26 0.40
50 3 0.05
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (47 bp):
CACCCGGGATGGTAAATATGCAAATAATGAAAACCATCATTGTCGAG
Found at i:59071557 original size:290 final size:291
Alignment explanation
Indices: 59071048--59071634 Score: 957
Period size: 290 Copynumber: 2.0 Consensus size: 291
59071038 TCATTGCTGA
* * *
59071048 GCCACCCGGGATGGTAGAATATTCAAATAATGAAAACCATCATTGTTGGGCCACTCGGGATGGTA
1 GCCACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCATTGTTGGGCCACCCGGGATGGTA
* *
59071113 AATTTTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAATGTGCAAATAATG
66 AATTGTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAATATGCAAATAATG
* * * *
59071178 AAAGCCATTGCTGTCGTGCCACCTGGAATCATGAATTGCATAAACTATGAAAACCATCATTGTCA
131 AAAACCATTGCTGTCGTGCCACCAGGAATCATAAATTACATAAACTATGAAAACCATCATTGTCA
* *
59071243 AGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGGCCATCTAGGATTGT
196 AGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGGCCATCTAGAATGGT
59071308 AGAAAATCGAAGTGAGAACCATCATTACCT-G
261 AGAAAATCGAAGTGAGAACCATCATTA-CTAG
* *
59071339 GCCACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCGTTGTTGGGTCACCCGGGAT-GTA
1 GCCACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCATTGTTGGGCCACCCGGGATGGTA
59071403 AATTGTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAATATGCAAATAATG
66 AATTGTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAATATGCAAATAATG
* * **
59071468 AAAACCATTGCTGTCAG-GCCACTCAGG-ATGATAAATTACATAAACTGTGAAAACCATTGTTGT
131 AAAACCATTGCTGTC-GTGCCAC-CAGGAATCATAAATTACATAAACTATGAAAACCATCATTGT
*
59071531 CGAGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGGCCATCTAGAATG
194 CAAGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGGCCATCTAGAATG
59071596 GTAGAAAATCGAAGTGAGAACCATCATTACTAG
259 GTAGAAAATCGAAGTGAGAACCATCATTACTAG
59071629 GCCACC
1 GCCACC
59071635 TAGGATGGTG
Statistics
Matches: 275, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
289 2 0.01
290 213 0.77
291 60 0.22
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (291 bp):
GCCACCCGAGATGGTAGAATATGCAAATAATGAAAACCATCATTGTTGGGCCACCCGGGATGGTA
AATTGTGTAAATTGTAAAAACTATCATTGTCGAGCTATCCGGGATGGTAAAATATGCAAATAATG
AAAACCATTGCTGTCGTGCCACCAGGAATCATAAATTACATAAACTATGAAAACCATCATTGTCA
AGACATCCGAGATGGTAGAATATACAGATAGTGGAAGCCATTGTTGTTGGGCCATCTAGAATGGT
AGAAAATCGAAGTGAGAACCATCATTACTAG
Found at i:59073147 original size:3 final size:3
Alignment explanation
Indices: 59073139--59073189 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
59073129 CTGTTGTCAC
59073139 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59073187 TAA
1 TAA
59073190 CCTTTATCCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:59078701 original size:14 final size:14
Alignment explanation
Indices: 59078675--59078715 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
59078665 TTTATAGATA
59078675 CAGATA-ACAGAAT
1 CAGATATACAGAAT
*
59078688 CAGATATGCAGAAT
1 CAGATATACAGAAT
59078702 -AGATATACAGAAT
1 CAGATATACAGAAT
59078715 C
1 C
59078716 CTACCCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:59080316 original size:13 final size:13
Alignment explanation
Indices: 59080298--59080322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59080288 AATCGATAAT
59080298 GGTGGTCAATGGC
1 GGTGGTCAATGGC
59080311 GGTGGTCAATGG
1 GGTGGTCAATGG
59080323 AGGCTGGTGA
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:0.16, C:0.12, G:0.48, T:0.24
Consensus pattern (13 bp):
GGTGGTCAATGGC
Found at i:59081931 original size:27 final size:28
Alignment explanation
Indices: 59081816--59081962 Score: 99
Period size: 27 Copynumber: 5.4 Consensus size: 28
59081806 ATTATCCTAG
** * *
59081816 GTTTACTGTCCCGACAGGCTACCTC-AT
1 GTTTACTGTCCCGACAGATTACCACTGT
* * *
59081843 GTTTACTGTTACGGA-AGATTA-CTCTGT
1 GTTTACTG-TCCCGACAGATTACCACTGT
* * * * **
59081870 GTTTACTATCCCAAAAGACTA-TTCTGT
1 GTTTACTGTCCCGACAGATTACCACTGT
**
59081897 GTTTACTGTCCCGATGGATTACC-CTGT
1 GTTTACTGTCCCGACAGATTACCACTGT
*
59081924 GTTTACTGTCCTGACAGATTACCAC-GT
1 GTTTACTGTCCCGACAGATTACCACTGT
59081951 GTTTACTGTCCC
1 GTTTACTGTCCC
59081963 AGCAGACTAT
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
26 6 0.06
27 83 0.88
28 5 0.05
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (28 bp):
GTTTACTGTCCCGACAGATTACCACTGT
Found at i:59085279 original size:17 final size:18
Alignment explanation
Indices: 59085246--59085279 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59085236 ATTATATTAA
*
59085246 ATGAATTTTGACATATTT
1 ATGAACTTTGACATATTT
59085264 ATGAACTTTG-CATATT
1 ATGAACTTTGACATATT
59085280 CGATCTGTGA
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:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (18 bp):
ATGAACTTTGACATATTT
Found at i:59091383 original size:21 final size:22
Alignment explanation
Indices: 59091354--59091400 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
59091344 CAGAAGGAGT
*
59091354 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59091376 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59091397 GAGT
1 GAGT
59091401 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:59098021 original size:3 final size:3
Alignment explanation
Indices: 59098006--59098040 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
59097996 ATAAATTTCA
* *
59098006 TAT TAT TAC TAT TAT TAT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
59098041 GTTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:59098021 original size:12 final size:12
Alignment explanation
Indices: 59098006--59098037 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
59097996 ATAAATTTCA
59098006 TATTATTACTAT
1 TATTATTACTAT
59098018 TATTATTACTAT
1 TATTATTACTAT
59098030 TATTATTA
1 TATTATTA
59098038 TTAGTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:59098438 original size:4 final size:4
Alignment explanation
Indices: 59098405--59098488 Score: 53
Period size: 4 Copynumber: 19.8 Consensus size: 4
59098395 TTATTATTAT
* * **
59098405 TTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA TTTA TATG TCCA
1 TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA TTTA TTTA TTTA
* *
59098454 TTTT TTTA TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
59098489 GTTGTTGTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
3 2 0.03
4 38 0.60
5 21 0.33
6 2 0.03
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:59098446 original size:32 final size:31
Alignment explanation
Indices: 59098373--59098446 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 31
59098363 ATTTTATGAT
* *
59098373 TTTTATCTATTTTCCTTTATTGTTATTATTA
1 TTTTATTTATTTTACTTTATTGTTATTATTA
59098404 TTTTATTTTATTTTACTTTA-TGTTCATTTATT-
1 TTTTA-TTTATTTTACTTTATTGTT-A-TTATTA
59098436 TATTTATTTAT
1 T-TTTATTTAT
59098447 ATGTCCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
31 9 0.24
32 19 0.51
33 9 0.24
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (31 bp):
TTTTATTTATTTTACTTTATTGTTATTATTA
Found at i:59098449 original size:24 final size:23
Alignment explanation
Indices: 59098405--59098488 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 23
59098395 TTATTATTAT
*
59098405 TTTATTTTATTTTACTTTATGTTCA
1 TTTA-TTTA-TTTATTTTATGTTCA
*
59098430 TTTATTTATTTATTTATATGTCCA
1 TTTATTTATTTATTT-TATGTTCA
* * *
59098454 TTT-TTT-TATGTTTTA-GTTTA
1 TTTATTTATTTATTTTATGTTCA
59098474 TTTATTTATTTATTT
1 TTTATTTATTTATTT
59098489 GTTGTTGTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 6 0.12
21 5 0.10
22 10 0.21
23 9 0.19
24 14 0.29
25 4 0.08
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTATTTATTTATTTTATGTTCA
Found at i:59098845 original size:107 final size:107
Alignment explanation
Indices: 59098624--59098945 Score: 432
Period size: 106 Copynumber: 3.0 Consensus size: 107
59098614 AAAAAAAAAG
* * * * * * * *
59098624 AAAATTTTTCTAAATGAGGCAATATTTAGCTTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-AAACGTGCCCTAAGGTGCT
* * * *
59098689 GGGTGTCGATTTTTCTCGTTCAACCAAATTGCTTAATATTCTTTT
65 GGGTTTCGA--TTTCTCGTTCAACCAAATTGCTAAATATCCTTTC
*
59098734 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCCAGAAACGTGCCCTAAGGTGCTG
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAACGTGCCCTAAGGTGCTG
*
59098799 GGTTTCGATTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
66 GGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTTC
* *
59098841 AAAAA-TTACAAAATAAGGCAATGTTTTGCGTTT-AGAAATTCGAGGAACGTGCCCTAAGGTGCT
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGA-AAATTCGAGAAACGTGCCCTAAGGTGCT
* *
59098904 GGGTTTCGATTTCTCGTTTAACCAAATTGCCAAATATCCTTT
65 GGGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTT
59098946 TGAATTTTAA
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
105 1 0.01
106 92 0.48
107 35 0.18
109 26 0.14
110 37 0.19
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (107 bp):
AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAACGTGCCCTAAGGTGCTG
GGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTTC
Found at i:59100368 original size:19 final size:20
Alignment explanation
Indices: 59100328--59100371 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
59100318 GTCTCTTTAG
* *
59100328 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
59100347 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
59100366 GCATTA
1 GCATTA
59100372 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:59102644 original size:274 final size:274
Alignment explanation
Indices: 59102041--59102862 Score: 1412
Period size: 274 Copynumber: 3.0 Consensus size: 274
59102031 CAAAGATGTC
* * ** *
59102041 TTTGTATGATCATACTAGGGTATGCCTCGATTCTTATAATAAAATCTGCACAACAGCATGATGTC
1 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
** * *
59102106 AGAAATTCGCAATGCGAACGATGCAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
66 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
* ** * * * **
59102171 AGCTTTGCCCATTTGAAGTCAAGTTCCCATCCCTTCAAGATGTTGCTGGATTTTATCCTAATTAA
131 AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
* *
59102236 AGAGGAAGAT-CTAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
196 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
59102300 TATCAAAGAAGGTT
261 TATCAAAGAAGGTT
*
59102314 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCTTGCACAACAGCACGATGTC
1 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
* *
59102379 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCTGGGCAATGCCTCTCTCGTTGAGTCAACAT
66 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
59102444 AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
131 AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
59102509 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
196 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
*
59102574 TATCAAAAAAGGTT
261 TATCAAAGAAGGTT
59102588 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
1 TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
59102653 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
66 AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
59102718 AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
131 AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
*
59102783 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCATCCCAAAAGGGCTCTATGAAAGAAATCTGG
196 AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
*
59102848 TACCAAAGAAGGTT
261 TATCAAAGAAGGTT
59102862 T
1 T
59102863 CTCACATACA
Statistics
Matches: 519, Mismatches: 29, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
273 184 0.35
274 335 0.65
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (274 bp):
TTTGTATGATCATACCAGGGTATGCCTCAATTCTTATAATAAAGCCTGCACAACAGCACGATGTC
AGAAATTTACAGTGCGAACGATACAATTCTTTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCAT
AGCTTTGCCCATTTAAAGTTGAGTTTCCATCCCTTCAAGATGTTGTTGGATTTTGTCCGGATTAA
AAAGGAAGATCCAAAAGTTTTCTGTCGTAGTTGCGTCCCAAAAGGGCTCTATGAAAGAAATCTGG
TATCAAAGAAGGTT
Found at i:59103005 original size:22 final size:21
Alignment explanation
Indices: 59102971--59103013 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
59102961 AGTTCAGACT
59102971 CAAAAACAAAAAAATAGAAAAA
1 CAAAAACAAAAAAATA-AAAAA
59102993 CAAAAA-AACAAAAATAAAAAA
1 CAAAAACAA-AAAAATAAAAAA
59103014 TTGAAGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (21 bp):
CAAAAACAAAAAAATAAAAAA
Found at i:59103039 original size:12 final size:12
Alignment explanation
Indices: 59103022--59103095 Score: 105
Period size: 12 Copynumber: 6.0 Consensus size: 12
59103012 AATTGAAGTC
*
59103022 AAAAAAAAAAAG
1 AAAAATAAAAAG
59103034 AGAAAA-AAAGAAG
1 A-AAAATAAA-AAG
59103047 AAAAAATAAAAAG
1 -AAAAATAAAAAG
59103060 AAAAATAAAAAG
1 AAAAATAAAAAG
59103072 AAAAATAAAAAG
1 AAAAATAAAAAG
59103084 AAAAATAAAAAG
1 AAAAATAAAAAG
59103096 GAGAGGTTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
12 40 0.69
13 14 0.24
14 4 0.07
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:59103039 original size:27 final size:24
Alignment explanation
Indices: 59102973--59103090 Score: 84
Period size: 24 Copynumber: 4.8 Consensus size: 24
59102963 TTCAGACTCA
*
59102973 AAAACAAAAAAATAGAAAAACA-AA-
1 AAAA-AAAAAAA-AGAAAAATAGAAG
* * *
59102997 AAAACAAAAATA-AAAAATTGAAG
1 AAAAAAAAAAAAGAAAAATAGAAG
*
59103020 TCAAAAAAAAAAAGAGAAAAAAAGAAG
1 --AAAAAAAAAAA-AGAAAAATAGAAG
*
59103047 AAAAAATAAAAAGAAAAATA-AA-
1 AAAAAAAAAAAAGAAAAATAGAAG
59103069 AAGAAAAATAAAAAGAAAAATA
1 AA-AAAAA-AAAAAGAAAAATA
59103091 AAAAGGAGAG
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
21 5 0.07
22 5 0.07
23 11 0.15
24 25 0.33
25 19 0.25
26 1 0.01
27 9 0.12
ACGTcount: A:0.81, C:0.03, G:0.08, T:0.08
Consensus pattern (24 bp):
AAAAAAAAAAAAGAAAAATAGAAG
Found at i:59103050 original size:18 final size:18
Alignment explanation
Indices: 59103022--59103095 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
59103012 AATTGAAGTC
*
59103022 AAAAAAAAAAAGAGAAAA-
1 AAAAAGAAAAAGA-AAAAG
*
59103040 AAAGAAGAAAAAATAAAAAG
1 AAA-AAG-AAAAAGAAAAAG
* *
59103060 AAAAATAAAAAGAAAAAT
1 AAAAAGAAAAAGAAAAAG
*
59103078 AAAAAGAAAAATAAAAAG
1 AAAAAGAAAAAGAAAAAG
59103096 GAGAGGTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 28 0.62
19 8 0.18
20 9 0.20
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAAAG
Found at i:59103064 original size:36 final size:36
Alignment explanation
Indices: 59103022--59103095 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 36
59103012 AATTGAAGTC
*
59103022 AAAAAAAAAAAGAGAAAA-AAAGAAGAAAAAATAAAAAG
1 AAAAATAAAAAGA-AAAATAAA-AAG-AAAAATAAAAAG
59103060 AAAAATAAAAAGAAAAATAAAAAGAAAAATAAAAAG
1 AAAAATAAAAAGAAAAATAAAAAGAAAAATAAAAAG
59103096 GAGAGGTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 12 0.35
37 7 0.21
38 15 0.44
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (36 bp):
AAAAATAAAAAGAAAAATAAAAAGAAAAATAAAAAG
Found at i:59103941 original size:15 final size:14
Alignment explanation
Indices: 59103921--59103956 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59103911 TTTGAGTCAA
59103921 AAAAATGAAAAAAT
1 AAAAATGAAAAAAT
*
59103935 GAAAAATGAAAAAGT
1 -AAAAATGAAAAAAT
59103950 AAAAATG
1 AAAAATG
59103957 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:59105345 original size:50 final size:50
Alignment explanation
Indices: 59105280--59105546 Score: 166
Period size: 50 Copynumber: 5.3 Consensus size: 50
59105270 GCAGCGGAGC
* * *
59105280 AGATTGAAGCTACAACGACAAATCTCACTTCCCCGACATTGTAATTCAAA
1 AGATTAAAGCCACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
* ** * ** **** **
59105330 ATATTAAAGCCACAACGGTAAATCTTACTT-CCAAAGCGA-TGCAGCGGAGC
1 AGATTAAAGCCACAACGACAAATCTCACTTCCCCGA-C-ATTGCAATTCAAA
* * *
59105380 AGATTGAAGCTATAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTAAAGCCACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
* * * * **** **
59105430 AGATTAAAGCCACAAC-AGTAAATCTTACTT-CTCAAGCGA-TGCAGCGGAGC
1 AGATTAAAGCCACAACGA-CAAATCTCACTTCCCCGA-C-ATTGCAATTCAAA
* * * *
59105480 AGATTGAAGCTATAACGGCAAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTAAAGCCACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
59105530 AGATTAAAGCCACAACG
1 AGATTAAAGCCACAACG
59105547 TTAAAAAGAT
Statistics
Matches: 147, Mismatches: 60, Indels: 20
0.65 0.26 0.09
Matches are distributed among these distances:
49 9 0.06
50 130 0.88
51 8 0.05
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (50 bp):
AGATTAAAGCCACAACGACAAATCTCACTTCCCCGACATTGCAATTCAAA
Found at i:59105397 original size:100 final size:99
Alignment explanation
Indices: 59105218--59105551 Score: 578
Period size: 100 Copynumber: 3.3 Consensus size: 99
59105208 AAACCATAGT
*
59105218 TTGCAATTCAAAAGATTGAAGCCACAACGGTAAATCTTACTTTCCAAGCGATGCAGCGGAGCAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTAC-TTCCAAGCGATGCAGCGGAGCAGA
*
59105283 TTGAAGCTACAACGACAAATCTCACTTCCCCGACA
65 TTGAAGCTATAACGACAAATCTCACTTCCCCGACA
* *
59105318 TTGTAATTCAAAATATTAAAGCCACAACGGTAAATCTTACTTCCAAAGCGATGCAGCGGAGCAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCC-AAGCGATGCAGCGGAGCAGA
59105383 TTGAAGCTATAACGACAAATCTCACTTCCCCGACA
65 TTGAAGCTATAACGACAAATCTCACTTCCCCGACA
*
59105418 TTGCAATTCAAAAGATTAAAGCCACAACAGTAAATCTTACTTCTCAAGCGATGCAGCGGAGCAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTC-CAAGCGATGCAGCGGAGCAGA
*
59105483 TTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
65 TTGAAGCTATAACGACAAATCTCACTTCCCCGACA
*
59105518 TTGCAATTCAAAAGATTAAAGCCACAACGTTAAA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAA
59105552 AAGATTAAAG
Statistics
Matches: 222, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
99 4 0.02
100 217 0.98
101 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.22
Consensus pattern (99 bp):
TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCAAGCGATGCAGCGGAGCAGAT
TGAAGCTATAACGACAAATCTCACTTCCCCGACA
Found at i:59105600 original size:25 final size:25
Alignment explanation
Indices: 59105554--59105603 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59105544 ACGTTAAAAA
* * * *
59105554 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCAACAACAGCGAATCTT
59105579 GATTAAAGCAACAACAGCGAATCTT
1 GATTAAAGCAACAACAGCGAATCTT
59105604 ACGCCCAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (25 bp):
GATTAAAGCAACAACAGCGAATCTT
Found at i:59106054 original size:374 final size:374
Alignment explanation
Indices: 59105546--59107062 Score: 2777
Period size: 374 Copynumber: 4.1 Consensus size: 374
59105536 AAGCCACAAC
*
59105546 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
* *
59105610 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTTCGACATTGCAGTTAA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTAA
* * *
59105675 AAAGATTAAAGCCATATCAGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACG-CCCAAGCG
131 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
59105739 ATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGA
196 ATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGA
* *
59105804 TTAAGGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCTAAGCGATGCA
261 TTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCC-AAGCGATGCA
*
59105869 GTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTGACATTGCA
325 GTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59105919 GTTAAAAAGATTAAAGCCATATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCATACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59105984 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTGA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTAA
*
59106049 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGTGAATCTTACGCCCCAAGCG
131 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
*
59106114 GTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGA
196 ATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGA
*
59106179 TTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCAAATCTTACGCCCAAGCGATGCAG
261 TTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCAAGCGATGCAG
59106244 TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
326 TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59106293 ATTAAAAAGATTAAAGCCATATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59106358 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTGA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTAA
59106423 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
131 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
*
59106488 GTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGA
196 ATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGA
59106553 TTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCAAGCGATGCAG
261 TTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCAAGCGATGCAG
59106618 TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
326 TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59106667 GTTAAAAAGATTAAGGCCACATCGGCGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59106732 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTAA
59106797 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
131 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
*
59106862 ATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTGAAAAGA
196 ATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGA
*
59106927 TTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCA
261 TTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACG-CCCAAGCGATGCA
59106992 GTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
325 GTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59107042 GTAAAAAAGATTAAAGCCACA
1 GTTAAAAAGATTAAAGCCACA
59107063 ATGACGAATC
Statistics
Matches: 1111, Mismatches: 30, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
373 58 0.05
374 848 0.76
375 205 0.18
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (374 bp):
GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTAA
AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCG
ATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGA
TTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCAAGCGATGCAG
TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
Found at i:59106080 original size:25 final size:25
Alignment explanation
Indices: 59106052--59106101 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
59106042 CAGTTGAAAA
* *
59106052 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
*
59106077 GATTAAAGCTACAACAGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
59106102 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (25 bp):
GATTAAAGCCACAACAGTGAATCTT
Found at i:59106472 original size:25 final size:25
Alignment explanation
Indices: 59106426--59106475 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59106416 CAGTTGAAAA
* * *
59106426 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
59106451 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
59106476 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:59106597 original size:25 final size:25
Alignment explanation
Indices: 59106551--59106600 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59106541 CAGTTAAAAA
* * * *
59106551 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCAACAACAGCGAATCTT
59106576 GATTAAAGCAACAACAGCGAATCTT
1 GATTAAAGCAACAACAGCGAATCTT
59106601 ACGCCCAAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (25 bp):
GATTAAAGCAACAACAGCGAATCTT
Found at i:59106703 original size:25 final size:25
Alignment explanation
Indices: 59106675--59106724 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59106665 CAGTTAAAAA
* * *
59106675 GATTAAGGCCACATCGGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
59106700 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
59106725 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:59106846 original size:25 final size:25
Alignment explanation
Indices: 59106800--59106849 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59106790 CAGTTAAAAA
* * *
59106800 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
59106825 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
59106850 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:59106971 original size:25 final size:25
Alignment explanation
Indices: 59106925--59106974 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
59106915 CAGTTGAAAA
* * *
59106925 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
59106950 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
59106975 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:59107074 original size:125 final size:125
Alignment explanation
Indices: 59105546--59107062 Score: 2772
Period size: 125 Copynumber: 12.2 Consensus size: 125
59105536 AAGCCACAAC
*
59105546 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59105610 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTTCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* * *
59105670 GTTAAAAAGATTAAAGCCATATCAGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59105734 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59105794 GTTAAAAAGATTAAGGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCT
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59105859 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59105919 GTTAAAAAGATTAAAGCCATATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCATACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59105984 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59106044 GTTGAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGTGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59106109 AAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59106169 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCAAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59106233 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59106293 ATTAAAAAGATTAAAGCCATATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59106358 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59106418 GTTGAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
*
59106483 AAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59106543 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACG-CCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59106607 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* *
59106667 GTTAAAAAGATTAAGGCCACATCGGCGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59106732 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
59106792 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59106857 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59106917 GTTGAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
59106982 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
66 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59107042 GTAAAAAAGATTAAAGCCACA
1 GTTAAAAAGATTAAAGCCACA
59107063 ATGACGAATC
Statistics
Matches: 1341, Mismatches: 49, Indels: 5
0.96 0.04 0.00
Matches are distributed among these distances:
124 415 0.31
125 926 0.69
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (125 bp):
GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCC
AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
Found at i:59107074 original size:499 final size:498
Alignment explanation
Indices: 59105546--59107062 Score: 2800
Period size: 499 Copynumber: 3.0 Consensus size: 498
59105536 AAGCCACAAC
59105546 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCA
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCA
*
59105611 AGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTTCGACATTGCAGTTAAA
66 AGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAA
* * *
59105676 AAGATTAAAGCCATATCAGTGAATCTTGATTAAAGCTACAATAGCGAATCTTACGCCCAAGCGAT
131 AAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCAAGCGAT
59105741 GCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATT
196 GCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATT
* *
59105806 AAGGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCTAAGCGATGCAGT
261 AAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGT
* *
59105871 GGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCTGACATTGCAGTTAAAAAGATTAAAGC
326 GGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTGAAAAGATTAAAGC
* *
59105936 CATATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCATACGCCCCAAGCGATGCAGTGGAAT
391 CACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAAT
*
59106001 AGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCA
456 AGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
* * *
59106044 GTTGAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGTGAATCTTACGCCCC
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACG-CCC
*
59106109 AAGCGGTGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAA
65 AAGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAA
* *
59106174 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCAAATCTTACGCCCAAGCGA
130 AAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCAAGCGA
*
59106239 TGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAATTAAAAAGAT
195 TGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGAT
*
59106304 TAAAGCCATATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAG
260 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAG
*
59106369 TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCAACATTGCAGTTGAAAAGATTAAAG
325 TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTGAAAAGATTAAAG
*
59106434 CCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGGTGCAGTGGAA
390 CCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAA
59106499 TAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
455 TAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
59106543 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCA
1 GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCA
59106608 AGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAA
66 AGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAA
* *
59106673 AAGATTAAGGCCACATCGGCGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGA
131 AAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACG-CCCAAGCGA
59106738 TGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGAT
195 TGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGAT
59106803 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAG
260 TAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAG
59106868 TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTGAAAAGATTAAAG
325 TGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTGAAAAGATTAAAG
59106933 CCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAA
390 CCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAA
59106998 TAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
455 TAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
*
59107042 GTAAAAAAGATTAAAGCCACA
1 GTTAAAAAGATTAAAGCCACA
59107063 ATGACGAATC
Statistics
Matches: 983, Mismatches: 34, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
498 177 0.18
499 806 0.82
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (498 bp):
GTTAAAAAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCAACAACAGCGAATCTTACGCCCA
AGCGATGCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAA
AAGATTAAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCAAGCGAT
GCAGTGGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATT
AAAGCCACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGT
GGAATAGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCAGTTGAAAAGATTAAAGC
CACATCGGTGAATCTTGATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAAT
AGATTAAAGCCAAATTGGTGAATCTTGTTTCTCCGACATTGCA
Found at i:59108899 original size:5 final size:5
Alignment explanation
Indices: 59108876--59108950 Score: 70
Period size: 5 Copynumber: 15.4 Consensus size: 5
59108866 TCTATTTTCC
*
59108876 TTTAT TGTTAT TATTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTTAC TTTAT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
59108927 GTTCA- TTTA- TTTA- TTTA- TTTAT TT
1 -TTTAT TTTAT TTTAT TTTAT TTTAT TT
59108951 ATATGTCCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
4 19 0.31
5 29 0.48
6 13 0.21
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:59108907 original size:4 final size:4
Alignment explanation
Indices: 59108893--59108994 Score: 64
Period size: 4 Copynumber: 23.8 Consensus size: 4
59108883 TTATTATTAT
59108893 TTTA TTTTA TTTA TTTTA TTTTA TTTTA CTTTA TGTTCA TTTA TTTA TTTA
1 TTTA -TTTA TTTA -TTTA -TTTA -TTTA -TTTA T-TT-A TTTA TTTA TTTA
* * ** *
59108944 TTTA TTTA TATG TCCAA TTT- TTTA TGT- TTTA GTTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
59108992 TTT
1 TTT
59108995 GTTGTTGTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
3 5 0.06
4 42 0.52
5 31 0.39
6 2 0.03
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:59109334 original size:107 final size:107
Alignment explanation
Indices: 59109124--59109446 Score: 432
Period size: 106 Copynumber: 3.0 Consensus size: 107
59109114 AAAAAAAAAG
* * * * * * * *
59109124 AAAATTTTTCTAAATGAGGCAATATTTAGCTTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCT
* * *
59109189 GGGTGTCGATTTTTCTCGTTCAACCAAATTGCTTAATATTCTTTT
65 GGGTTTCGA--TTTCTCGTTCAACCAAATTGCTAAATATCCTTTT
*
59109234 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTG
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTG
* * * *
59109299 TGTTTCGATTTCTCATTCAACCAAATAGCTAAATATCCTTTC
66 GGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTTT
*
59109341 AAAAA-TTACAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTG
1 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTG
* * *
59109405 GGTTTTGATTTCTCGTTTAACCAAATTGCCAAATATCCTTTT
66 GGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTTT
59109447 GAATTTTAAT
Statistics
Matches: 188, Mismatches: 25, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
106 92 0.49
107 34 0.18
109 24 0.13
110 38 0.20
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (107 bp):
AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTG
GGTTTCGATTTCTCGTTCAACCAAATTGCTAAATATCCTTTT
Found at i:59110293 original size:17 final size:18
Alignment explanation
Indices: 59110259--59110293 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59110249 TGTAGATGAG
59110259 ATCACTTTCCACAAATTT
1 ATCACTTTCCACAAATTT
59110277 ATCACTTTCCA-AAATTT
1 ATCACTTTCCACAAATTT
59110294 GATAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (18 bp):
ATCACTTTCCACAAATTT
Found at i:59114641 original size:20 final size:20
Alignment explanation
Indices: 59114609--59114646 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
59114599 ATCATTTTCT
59114609 TAAATTTAGAATT-TTATCC
1 TAAATTTAGAATTCTTATCC
59114628 TAAATTTAAGAATTCTTAT
1 TAAATTT-AGAATTCTTAT
59114647 TTGAATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (20 bp):
TAAATTTAGAATTCTTATCC
Found at i:59118323 original size:25 final size:25
Alignment explanation
Indices: 59118287--59118342 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
59118277 GGACACACCA
*
59118287 CAGCTCGTATGAGC-TTCACGTTATT
1 CAGCTCGCATGAGCTTTC-CGTTATT
*
59118312 CAGCTCGCATGAGCTTTCTGTTATT
1 CAGCTCGCATGAGCTTTCCGTTATT
59118337 CAGCTC
1 CAGCTC
59118343 AGAAGAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTTCCGTTATT
Found at i:59118374 original size:24 final size:25
Alignment explanation
Indices: 59118306--59118374 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
59118296 TGAGCTTCAC
*
59118306 GTTATTCAGCTC-GCATGAGCTTTCT
1 GTTATACAGCTCAG-ATGAGCTTTCT
* *
59118331 GTTATTCAGCTCAGAAGAGCTTAT-T
1 GTTATACAGCTCAGATGAGCTT-TCT
*
59118356 GTT-TACAGCTCATATGAGC
1 GTTATACAGCTCAGATGAGC
59118375 ATACATGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
24 13 0.34
25 23 0.61
26 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (25 bp):
GTTATACAGCTCAGATGAGCTTTCT
Found at i:59119974 original size:17 final size:17
Alignment explanation
Indices: 59119952--59119991 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
59119942 ACAGTGACAA
* *
59119952 TTCACACATTTACACGG
1 TTCACACATTGACACAG
59119969 TTCACACATTGACACAG
1 TTCACACATTGACACAG
59119986 TTCACA
1 TTCACA
59119992 TATAAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.28
Consensus pattern (17 bp):
TTCACACATTGACACAG
Found at i:59120000 original size:17 final size:17
Alignment explanation
Indices: 59119980--59120028 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
59119970 TCACACATTG
*
59119980 ACACAGTTCACATATAA
1 ACACAGCTCACATATAA
*
59119997 ACACAGCTCGCATATAA
1 ACACAGCTCACATATAA
* *
59120014 ACACAACTCGCATAT
1 ACACAGCTCACATAT
59120029 TGTCATAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.43, C:0.29, G:0.08, T:0.20
Consensus pattern (17 bp):
ACACAGCTCACATATAA
Found at i:59127024 original size:24 final size:24
Alignment explanation
Indices: 59126980--59127029 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
59126970 CAAAGAATTC
*
59126980 AAATTAAAATTAATAACAAAAATA
1 AAATTAAAATCAATAACAAAAATA
59127004 AAATTAAAA-CAAT-ACAGAAAA-A
1 AAATTAAAATCAATAACA-AAAATA
59127026 AAAT
1 AAAT
59127030 GTATCTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.33
23 7 0.29
24 9 0.38
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.20
Consensus pattern (24 bp):
AAATTAAAATCAATAACAAAAATA
Found at i:59131390 original size:12 final size:11
Alignment explanation
Indices: 59131362--59131391 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
59131352 AATATTTTTT
59131362 TATTTTTAAAA
1 TATTTTTAAAA
59131373 TATTTTTAAAA
1 TATTTTTAAAA
59131384 TACTTTTT
1 TA-TTTTT
59131392 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:59133974 original size:35 final size:35
Alignment explanation
Indices: 59133892--59133964 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
59133882 TCACTTCACA
59133892 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
1 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
59133927 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
1 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
59133962 AAA
1 AAA
59133965 AGTATGCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (35 bp):
AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
Found at i:59138741 original size:31 final size:30
Alignment explanation
Indices: 59138706--59138784 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
59138696 AACTATGAAA
59138706 ATTTTCAATTTAGTCA-TTA-ACGTTTTAAATC
1 ATTTT-AATTTAGTCACTTATA--TTTTAAATC
*
59138737 ATTTTATTTTAGTCACTTATATTTTAAATC
1 ATTTTAATTTAGTCACTTATATTTTAAATC
*
59138767 ATTTCTATTTTAGTCACT
1 ATTT-TAATTTAGTCACT
59138785 CTCTGTTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
30 22 0.50
31 21 0.48
32 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.53
Consensus pattern (30 bp):
ATTTTAATTTAGTCACTTATATTTTAAATC
Found at i:59138777 original size:16 final size:15
Alignment explanation
Indices: 59138728--59138778 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
59138718 GTCATTAACG
59138728 TTTTAAATCATTTTA
1 TTTTAAATCATTTTA
* *
59138743 TTTT-AGTCACTTATA
1 TTTTAAATCA-TTTTA
59138758 TTTTAAATCATTTCTA
1 TTTTAAATCATTT-TA
59138774 TTTTA
1 TTTTA
59138779 GTCACTCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 4 0.14
15 14 0.48
16 11 0.38
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (15 bp):
TTTTAAATCATTTTA
Found at i:59139030 original size:14 final size:14
Alignment explanation
Indices: 59138991--59139032 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
59138981 AAAAATACAA
*
59138991 AAATAATATTATTT
1 AAATAATATTATAT
*
59139005 ATAT-ATATTTATAT
1 AAATAATA-TTATAT
59139019 AAATAATATTATAT
1 AAATAATATTATAT
59139033 GTGTTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATAATATTATAT
Found at i:59146548 original size:3 final size:3
Alignment explanation
Indices: 59146540--59146586 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
59146530 GATTTAGTCC
*
59146540 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
59146587 CCTACTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:59150872 original size:21 final size:21
Alignment explanation
Indices: 59150848--59150887 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59150838 AAAAGAAAAA
**
59150848 AGAAAAATTAAAATCAAAAGT
1 AGAAAAAAGAAAATCAAAAGT
59150869 AGAAAAAAGAAAATCAAAA
1 AGAAAAAAGAAAATCAAAA
59150888 AAAAAGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.12
Consensus pattern (21 bp):
AGAAAAAAGAAAATCAAAAGT
Found at i:59151791 original size:7 final size:7
Alignment explanation
Indices: 59151756--59151816 Score: 74
Period size: 7 Copynumber: 9.0 Consensus size: 7
59151746 TCTGAGTTAA
*
59151756 AAAAATA
1 AAAAATG
59151763 AAATAAT-
1 AAA-AATG
59151770 AAAAAT-
1 AAAAATG
*
59151776 AAGAATG
1 AAAAATG
59151783 AAAAATG
1 AAAAATG
59151790 AAAAATG
1 AAAAATG
59151797 -AAAATG
1 AAAAATG
59151803 AAAAATG
1 AAAAATG
59151810 AAAAATG
1 AAAAATG
59151817 GAGAGGCTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
6 14 0.29
7 32 0.65
8 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:59151795 original size:20 final size:20
Alignment explanation
Indices: 59151757--59151816 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
59151747 CTGAGTTAAA
*
59151757 AAAATAAAATAAT-AAAAAT-
1 AAAATGAAA-AATGAAAAATG
59151776 AAGAATGAAAAATGAAAAATG
1 AA-AATGAAAAATGAAAAATG
59151797 AAAATGAAAAATGAAAAATG
1 AAAATGAAAAATGAAAAATG
59151817 GAGAGGCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 5 0.14
20 30 0.81
21 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.17
Consensus pattern (20 bp):
AAAATGAAAAATGAAAAATG
Found at i:59151815 original size:14 final size:14
Alignment explanation
Indices: 59151756--59151816 Score: 74
Period size: 13 Copynumber: 4.5 Consensus size: 14
59151746 TCTGAGTTAA
*
59151756 AAAAATAAAATAAT-
1 AAAAATGAAA-AATG
*
59151770 AAAAAT-AAGAATG
1 AAAAATGAAAAATG
59151783 AAAAATGAAAAATG
1 AAAAATGAAAAATG
59151797 -AAAATGAAAAATG
1 AAAAATGAAAAATG
59151810 AAAAATG
1 AAAAATG
59151817 GAGAGGCTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.07
13 21 0.50
14 18 0.43
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.16
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:59153092 original size:35 final size:37
Alignment explanation
Indices: 59153050--59153119 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
59153040 ATGAAGACAT
*
59153050 CAGATCTTG-CT-GACTGCGAAGCAGATCAAAGATAG
1 CAGATCTTGCCTAGACGGCGAAGCAGATCAAAGATAG
*
59153085 CAGATCTTGCCTACGACGGTGAAGCAGATCAAAGA
1 CAGATCTTGCCTA-GACGGCGAAGCAGATCAAAGA
59153120 ATTTCAGATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 9 0.30
36 2 0.07
38 19 0.63
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (37 bp):
CAGATCTTGCCTAGACGGCGAAGCAGATCAAAGATAG
Found at i:59153279 original size:85 final size:85
Alignment explanation
Indices: 59153175--59153458 Score: 329
Period size: 85 Copynumber: 3.3 Consensus size: 85
59153165 CTAGTAATCC
* *
59153175 TATCTCTCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
59153240 GAGTAGATCGCGTCAGGTCT
66 GAGTAGATCGCGTCAGGTCT
** ** ** * *
59153260 TATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA-GATCTTATCTCCCTGAAATTACA
1 TATCTCCCTGAGATTACAGTGGAGTGGA-TTAA-AA-TAAAGGATCTTATCTCTCTGAAGTTACA
* * * * * *
59153324 GTGGAGCAGATTGAAG-CTAGTAATCC
63 GTAGAGTAGATCG-CGTC-AG--GTCT
59153350 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
59153415 GAGTAGATCGCATCAGGTCT
66 GAGTAGATCGCGTCAGGTCT
*
59153435 TATCTCCCTGAGATTACAGCGGAG
1 TATCTCCCTGAGATTACAGTGGAG
59153459 CAGATTGATG
Statistics
Matches: 158, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
85 50 0.32
86 2 0.01
87 37 0.23
88 39 0.25
89 2 0.01
90 28 0.18
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (85 bp):
TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATCGCGTCAGGTCT
Found at i:59153407 original size:175 final size:175
Alignment explanation
Indices: 59153107--59153462 Score: 631
Period size: 175 Copynumber: 2.0 Consensus size: 175
59153097 ACGACGGTGA
* **
59153107 AGCAGATCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTAGTAA
1 AGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCTAGTAA
*
59153172 TCCTATCTCTCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
66 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
* *
59153237 GCAGAGTAGATCGCGTCAGGTCTTATCTCCCTGAGATTACAGTGG
131 GCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGCGG
* *
59153282 AGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAAATTACAGTGGAGCAGATTGAAGCTAGTAA
1 AGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCTAGTAA
59153347 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
66 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
*
59153412 GTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGCGG
131 GCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGCGG
59153457 AGCAGA
1 AGCAGA
59153463 TTGATGATAG
Statistics
Matches: 172, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 172 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
AGCAGACCAAAGAATTTCAGATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCTAGTAA
TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
GCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGATTACAGCGG
Found at i:59153459 original size:129 final size:129
Alignment explanation
Indices: 59153298--59153639 Score: 542
Period size: 129 Copynumber: 2.6 Consensus size: 129
59153288 CCGAAGAATT
* * *
59153298 TCAGATCTTATCTCCCTGAAATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* *
59153363 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCA
* *
59153427 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGATGATAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
59153492 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCA
** * *
59153556 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAGAT-TTCAGATCTTATCTCCCTG
1 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-AAGATAGT-A-ATCCTATCTCCCTG
*
59153620 AGATTACAGTGGAGCAGATT
63 AGATTACAGTGGAGCGGATT
59153640 GAAGATAGTA
Statistics
Matches: 196, Mismatches: 14, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
129 159 0.81
130 5 0.03
131 32 0.16
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCA
Found at i:59153613 original size:175 final size:175
Alignment explanation
Indices: 59153427--59153921 Score: 850
Period size: 175 Copynumber: 2.8 Consensus size: 175
59153417 GTAGATCGCA
* *
59153427 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGATGATAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
*
59153492 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
59153557 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAG-ATT
131 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACC-AAAGAATT
*
59153602 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* *
59153667 TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
59153732 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATT
131 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATT
* *
59153777 TCAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* **
59153842 TTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCT-AAGGTTACAGTAGAGTAGATCGTT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA-GTTACAGTAGAGTAGATCGCA
*
59153906 TCAGATCTTATCTCCC
130 TCAGGTCTTATCTCCC
59153922 AAAGTGGAGC
Statistics
Matches: 303, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
174 6 0.02
175 297 0.98
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (175 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATT
Found at i:59153677 original size:304 final size:304
Alignment explanation
Indices: 59153123--59153766 Score: 1137
Period size: 304 Copynumber: 2.1 Consensus size: 304
59153113 TCAAAGAATT
* * * *
59153123 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* * *
59153188 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGCAGAGTAGATCGCAT
59153253 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAA
131 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAA
* **
59153318 ATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
196 ATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
*
59153383 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
261 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
*
59153427 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGATGATAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
*
59153492 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGCAGAGTAGATCGCAT
59153557 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA-AGATTTCAGATCTTATCTCCCTGA
131 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGA-ATTTCAGATCTTATCTCCCTGA
*
59153621 GATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
195 AATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
59153686 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
260 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
*
59153731 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGA
59153767 CCAAAGAATT
Statistics
Matches: 324, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
303 1 0.00
304 323 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (304 bp):
TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGCAGAGTAGATCGCAT
CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAA
ATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
Found at i:59153910 original size:304 final size:300
Alignment explanation
Indices: 59153123--59153921 Score: 895
Period size: 304 Copynumber: 2.6 Consensus size: 300
59153113 TCAAAGAATT
* * *** * *
59153123 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGACCAAAGATAGTAATCCTATCTCCCTGAGA
* ** * * * * * ** ****
59153188 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGCGGAGCAGATTAAAAT-AAGAATCCTATCTCCCTGAAATTACAGTAGAACAGATAAAAT
* * *
59153253 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAA
130 AAGGTCTTATCTCCCTAAGATTACAGTAGAGCAGACC--AG-ATTTCAGATCTTATCTCCCTGAA
* **
59153318 ATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAA
192 ATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
*
59153383 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
257 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
*** *
59153427 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGATGATAGTAATCCTATCTCCCTGAGA
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGACCAAAGATAGTAATCCTATCTCCCTGAGA
* * * * * ** ***
59153492 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCAT
66 TTACAGCGGAGCAGATTAAAAT-AAGAATCCTATCTCCCTGAAATTACAGTAGAACAGATAAAAT
* * * *
59153557 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAGATTTCAGATCTTATCTCCCTGAG
130 AAGGTCTTATCTCCCTAAGATTACAGTAGAGCAGACC---AGATTTCAGATCTTATCTCCCTGAA
59153622 ATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
192 ATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
59153687 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
257 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
* * *
59153731 TCAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGA-ATTTCAGATCTTATCTCCCTG
1 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGACCAAAGATA-GT-A-ATCCTATCTCCCTG
* ** * * *
59153795 AGATTACAGCGGAGTAGATTGAAGCT-AGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATT
63 AGATTACAGCGGAGCAGATT-AAAATAAG-AATCCTATCTCCCTGAAATTACAGTAGAACAGA-T
* * * *
59153859 AAAATAAAGGATCTTATCTCTCTAAGGTTACAGTAGAGTAGATC-G-TTTCAGATCTTATCTCCC
125 AAAAT-AAGG-TCTTATCTCCCTAAGATTACAGTAGAGCAGACCAGATTTCAGATCTTATCTCCC
59153922 AAAGTGGAGC
Statistics
Matches: 441, Mismatches: 45, Indels: 18
0.88 0.09 0.04
Matches are distributed among these distances:
303 1 0.00
304 342 0.78
305 7 0.02
306 55 0.12
307 6 0.01
308 3 0.01
309 27 0.06
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (300 bp):
TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGACCAAAGATAGTAATCCTATCTCCCTGAGA
TTACAGCGGAGCAGATTAAAATAAGAATCCTATCTCCCTGAAATTACAGTAGAACAGATAAAATA
AGGTCTTATCTCCCTAAGATTACAGTAGAGCAGACCAGATTTCAGATCTTATCTCCCTGAAATTA
CAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
Found at i:59155528 original size:3 final size:3
Alignment explanation
Indices: 59155520--59155548 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
59155510 GATTTAGTCC
59155520 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
59155549 CCTACTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:59158955 original size:17 final size:16
Alignment explanation
Indices: 59158924--59158959 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
59158914 ACGTTTGTGG
*
59158924 TTAATGAAAATATACT
1 TTAATGAAAACATACT
59158940 TTAATAGAAAACATACT
1 TTAAT-GAAAACATACT
59158957 TTA
1 TTA
59158960 TTTATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (16 bp):
TTAATGAAAACATACT
Found at i:59159118 original size:19 final size:17
Alignment explanation
Indices: 59159085--59159119 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
59159075 AAAATGTGAT
59159085 AAATTTTATAAATAATA
1 AAATTTTATAAATAATA
59159102 AAATATTTATAATATAAT
1 AAAT-TTTATAA-ATAAT
59159120 TTCAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTTTATAAATAATA
Found at i:59161345 original size:31 final size:29
Alignment explanation
Indices: 59161283--59161345 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
59161273 AGTAGATTAT
* *
59161283 AATTTATTTTTTTATTTAAAAAATGAGTA
1 AATTAATTTTTATATTTAAAAAATGAGTA
59161312 AATTAATTTTTATATATTAAATTAAA-GAGTA
1 AATTAATTTTTATAT-TTAAA--AAATGAGTA
59161343 AAT
1 AAT
59161346 AGTATAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 13 0.45
30 5 0.17
31 8 0.28
32 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (29 bp):
AATTAATTTTTATATTTAAAAAATGAGTA
Found at i:59163127 original size:33 final size:33
Alignment explanation
Indices: 59163089--59163204 Score: 112
Period size: 33 Copynumber: 3.5 Consensus size: 33
59163079 AGATTAATTT
* *
59163089 ATATTTTATGTACCATTATATTAAATTATTTAA
1 ATATTTCATGTATCATTATATTAAATTATTTAA
* * * **
59163122 ATATTTCATGTATTATCATTTTAGGTTATTTAA
1 ATATTTCATGTATCATTATATTAAATTATTTAA
* *
59163155 ATA-TT-ATTTATCATTATATTTAAAATTA-TAAA
1 ATATTTCATGTATCATTATA-TT-AAATTATTTAA
59163187 ATATTTCATGTATCATTA
1 ATATTTCATGTATCATTA
59163205 AATTTACACA
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
31 9 0.14
32 10 0.16
33 35 0.55
34 10 0.16
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (33 bp):
ATATTTCATGTATCATTATATTAAATTATTTAA
Found at i:59164041 original size:18 final size:19
Alignment explanation
Indices: 59164013--59164048 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
59164003 ATAATCACAC
59164013 TTTAGTCTGGTGCCACCAA
1 TTTAGTCTGGTGCCACCAA
*
59164032 TTTA-TCTGGTGGCACCA
1 TTTAGTCTGGTGCCACCA
59164049 CTAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (19 bp):
TTTAGTCTGGTGCCACCAA
Found at i:59165773 original size:19 final size:20
Alignment explanation
Indices: 59165744--59165793 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
59165734 AATAAAACAA
59165744 ATAAAAATATTTTAAAAA-T
1 ATAAAAATATTTTAAAAAGT
*
59165763 -TAAAAAT-TATTAAAAAGT
1 ATAAAAATATTTTAAAAAGT
59165781 ATAAAAATATTTT
1 ATAAAAATATTTT
59165794 TTAATCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 7 0.27
20 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAAATATTTTAAAAAGT
Found at i:59168095 original size:14 final size:14
Alignment explanation
Indices: 59168070--59168111 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
59168060 TACCATTTAC
59168070 AATTCC-TTTTTCA
1 AATTCCATTTTTCA
*
59168083 AATTTCATTTTTCA
1 AATTCCATTTTTCA
*
59168097 AATTCCCTTTTTCA
1 AATTCCATTTTTCA
59168111 A
1 A
59168112 CCACCCCACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTCCATTTTTCA
Found at i:59179368 original size:19 final size:20
Alignment explanation
Indices: 59179344--59179383 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
59179334 TGGTAGTAAA
* *
59179344 TTATAT-ATGAATTTTGATT
1 TTATATAATAAATTATGATT
59179363 TTATATAATAAATTATGATT
1 TTATATAATAAATTATGATT
59179383 T
1 T
59179384 AAATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTATATAATAAATTATGATT
Found at i:59182804 original size:16 final size:16
Alignment explanation
Indices: 59182783--59182814 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59182773 TGTTAGCTTG
59182783 GTCATTAATAATGGAA
1 GTCATTAATAATGGAA
59182799 GTCATTAATAATGGAA
1 GTCATTAATAATGGAA
59182815 CCAACTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
GTCATTAATAATGGAA
Found at i:59186120 original size:77 final size:77
Alignment explanation
Indices: 59185993--59186151 Score: 291
Period size: 77 Copynumber: 2.1 Consensus size: 77
59185983 ATAATTTTGG
*
59185993 CTTTTCACCGATTATCTTCGGTTTGGTTCAATTTCTGATTTATACAACTATTTTATTCAATTTAT
1 CTTTTCACCGATTATCTTCAGTTTGGTTCAATTTCTGATTTATACAACTATTTTATTCAATTTAT
59186058 CAATACCAAAAA
66 CAATACCAAAAA
* *
59186070 CTTTTCACCGATTATCTTTAGTTTGGTTCAATTTTTGATTTATACAACTATTTTATTCAATTTAT
1 CTTTTCACCGATTATCTTCAGTTTGGTTCAATTTCTGATTTATACAACTATTTTATTCAATTTAT
59186135 CAATACCAAAAA
66 CAATACCAAAAA
59186147 CTTTT
1 CTTTT
59186152 TTATCATCCC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (77 bp):
CTTTTCACCGATTATCTTCAGTTTGGTTCAATTTCTGATTTATACAACTATTTTATTCAATTTAT
CAATACCAAAAA
Found at i:59198185 original size:35 final size:36
Alignment explanation
Indices: 59198142--59198225 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 36
59198132 TTATTGATTG
*
59198142 GTCC-TTCGGGGTGACATTGTGTAAACGATATATAA
1 GTCCTTTCGGGGTGACACTGTGTAAACGATATATAA
** * * *
59198177 GT-CTTTCGGGACGACACTGTGTAAATGATATTTAG
1 GTCCTTTCGGGGTGACACTGTGTAAACGATATATAA
59198212 GTCCTTT-GGGGTGA
1 GTCCTTTCGGGGTGA
59198226 AACCTTGAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
34 1 0.03
35 34 0.87
36 4 0.10
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (36 bp):
GTCCTTTCGGGGTGACACTGTGTAAACGATATATAA
Found at i:59203476 original size:14 final size:14
Alignment explanation
Indices: 59203457--59203487 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
59203447 TATTTCTTTA
59203457 AATGTGTACAATTG
1 AATGTGTACAATTG
59203471 AATGTGTACAATTG
1 AATGTGTACAATTG
59203485 AAT
1 AAT
59203488 CAAAATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (14 bp):
AATGTGTACAATTG
Found at i:59203518 original size:31 final size:31
Alignment explanation
Indices: 59203483--59203542 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
59203473 TGTGTACAAT
*
59203483 TGAATCA-AAATCAAAGTTTCTTGTATATATA
1 TGAATCACAAATC-AAGTTTCATGTATATATA
* *
59203514 TGAATCACAATTCAAGTTTCATGTTTATA
1 TGAATCACAAATCAAGTTTCATGTATATA
59203543 ATTGCACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (31 bp):
TGAATCACAAATCAAGTTTCATGTATATATA
Found at i:59203563 original size:29 final size:30
Alignment explanation
Indices: 59203542--59203604 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
59203532 TCATGTTTAT
59203542 AATTGC-ACCAAAACAAAGTTCATGTATCA
1 AATTGCAACCAAAACAAAGTTCATGTATCA
**
59203571 AATTGCATATTAAAACAAAGTTCATGTAT-A
1 AATTGCA-ACCAAAACAAAGTTCATGTATCA
59203601 AATT
1 AATT
59203605 TAATATTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 6 0.20
30 5 0.17
31 19 0.63
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (30 bp):
AATTGCAACCAAAACAAAGTTCATGTATCA
Found at i:59203611 original size:30 final size:31
Alignment explanation
Indices: 59203551--59203611 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
59203541 TAATTGCACC
*
59203551 AAAACAAAGTTCATGTATCAAATTGCATATT
1 AAAACAAAGTTCATGTATCAAATTGAATATT
*
59203582 AAAACAAAGTTCATGTAT-AAATTTAATATT
1 AAAACAAAGTTCATGTATCAAATTGAATATT
59203612 CATCCCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (31 bp):
AAAACAAAGTTCATGTATCAAATTGAATATT
Found at i:59205904 original size:13 final size:13
Alignment explanation
Indices: 59205869--59205916 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
59205859 TTTGATTTTC
*
59205869 AAATATTATATTT
1 AAATATTTTATTT
*
59205882 TAAT-TTTTATTT
1 AAATATTTTATTT
*
59205894 AAATATTTTATAT
1 AAATATTTTATTT
*
59205907 AAAAATTTTA
1 AAATATTTTA
59205917 AAAATATGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATATTTTATTT
Done.