Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 39 of 438
Found at i:9667767 original size:23 final size:23
Alignment explanation
Indices: 9667689--9667771 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 23
9667679 ATCAGTATAC
* *
9667689 GACACATAAAGTGCCT-AAA-AC
1 GACACACAAAGTGCCTGAAATAT
* *
9667710 GACACACGAGGTGCCTG--ATAT
1 GACACACAAAGTGCCTGAAATAT
* *
9667731 GACACACGAGGTGCCTGAAATAT
1 GACACACAAAGTGCCTGAAATAT
*
9667754 GACACATAAAGTGCCTGA
1 GACACACAAAGTGCCTGA
9667772 TCGGTAAAGC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.02
21 31 0.61
23 19 0.37
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (23 bp):
GACACACAAAGTGCCTGAAATAT
Found at i:9668167 original size:15 final size:15
Alignment explanation
Indices: 9668142--9668199 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
9668132 TCATATATAT
9668142 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
9668158 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
9668173 AATAATTTCAATCAA
1 TATAAATTCAATCAA
9668188 TATAAATTCAAT
1 TATAAATTCAAT
9668200 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:9669687 original size:39 final size:39
Alignment explanation
Indices: 9669593--9669699 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 39
9669583 GGTCGTTACA
* *
9669593 AAACTACTGTACTGAATAATTGATAGTTATTGAATAACT
1 AAACTACTATACTGAATAATTGATAGTTACTGAATAACT
** * * **
9669632 AAACTACTGCATTGAATATTTGATAGTTACTGAATGCCT
1 AAACTACTATACTGAATAATTGATAGTTACTGAATAACT
* *
9669671 AAA-TGACTATACTGAATAACTGATTGTTA
1 AAACT-ACTATACTGAATAATTGATAGTTA
9669700 TTAATTGTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
38 1 0.02
39 54 0.98
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (39 bp):
AAACTACTATACTGAATAATTGATAGTTACTGAATAACT
Found at i:9672082 original size:20 final size:21
Alignment explanation
Indices: 9672059--9672098 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9672049 TCATGACATT
9672059 AAGCCT-AAAGTCACAACACC
1 AAGCCTCAAAGTCACAACACC
*
9672079 AAGCCTCCAAGGTCACAACA
1 AAGCCT-CAAAGTCACAACA
9672099 TCACTAGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.42, C:0.35, G:0.12, T:0.10
Consensus pattern (21 bp):
AAGCCTCAAAGTCACAACACC
Found at i:9685038 original size:6 final size:6
Alignment explanation
Indices: 9685027--9685061 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
9685017 CGTTGCTCTG
9685027 CAAAAA CAAAAA C-AAAA CAAAAA CAAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
9685062 ACCATAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:9685045 original size:11 final size:12
Alignment explanation
Indices: 9685027--9685061 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
9685017 CGTTGCTCTG
9685027 CAAAAACAAAAA
1 CAAAAACAAAAA
9685039 C-AAAACAAAAA
1 CAAAAACAAAAA
9685050 CAAAAACAAAAA
1 CAAAAACAAAAA
9685062 ACCATAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAACAAAAA
Found at i:9685049 original size:17 final size:17
Alignment explanation
Indices: 9685027--9685060 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9685017 CGTTGCTCTG
9685027 CAAAAACAAAAACAAAA
1 CAAAAACAAAAACAAAA
9685044 CAAAAACAAAAACAAAA
1 CAAAAACAAAAACAAAA
9685061 AACCATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAACAAAAACAAAA
Found at i:9695755 original size:2 final size:2
Alignment explanation
Indices: 9695748--9695783 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9695738 TGGTGGGATG
9695748 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9695784 GTTGGAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9706345 original size:17 final size:17
Alignment explanation
Indices: 9706323--9706362 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
9706313 CATATGCCTA
*
9706323 AATATTTTGTTTCTGTT
1 AATATTTTGTTTCTATT
9706340 AATATTTTGTTTCTATT
1 AATATTTTGTTTCTATT
9706357 AATATT
1 AATATT
9706363 CTTTAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.62
Consensus pattern (17 bp):
AATATTTTGTTTCTATT
Found at i:9710349 original size:16 final size:17
Alignment explanation
Indices: 9710328--9710362 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9710318 AATAAAATAT
*
9710328 AATTTTAT-TATTTTAA
1 AATTTTATAAATTTTAA
9710344 AATTTTATAAATTTTAA
1 AATTTTATAAATTTTAA
9710361 AA
1 AA
9710363 GGTTAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTTATAAATTTTAA
Found at i:9713993 original size:113 final size:111
Alignment explanation
Indices: 9713863--9714304 Score: 593
Period size: 113 Copynumber: 4.0 Consensus size: 111
9713853 ATTTTTTAAA
* *
9713863 AAATTATTTTAAAGTTATTTTGTTAGTAGTTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTT
1 AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGTTT
9713928 AGTGTTTATTGTGATTTTTTATGAATGTAATATTTTTTTTCTTTTTTT
66 AGTGTTTATTGTGATTTTTTATGAATGTAA-ATTTTTTTT-TTTTTTT
*
9713976 AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTATTTAGTTT
1 AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGTTT
* *
9714041 AGTGTTTATTATGATTTCTTATGAATGTAAATTTTTTGTTTGTTTTTT
66 AGTGTTTATTGTGATTTTTTATGAATGTAAATTTTTT-TTT-TTTTTT
*
9714089 AAAATTATTTTAAAGTTATTTTTGTTAGTAATTTATGATTAGGTTATAAAATGTTTGTATTTAGT
1 -AAATTATTTTAAAGTTA-TTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGT
* *
9714154 TTAGTGTTTATTGTGATTTTGTATGAATTTAAA--------TTTTTTT
64 TTAGTGTTTATTGTGATTTTTTATGAATGTAAATTTTTTTTTTTTTTT
* * *
9714194 AATTTTTTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTG--TTTAGTTT
1 AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGTTT
* * *
9714257 AATGTGTATTGTGATTTGTTAT-AATGT-AATTTTAATTTTTTTTATTT
66 AGTGTTTATTGTGATTTTTTATGAATGTAAATTTT--TTTTTTTT-TTT
9714304 A
1 A
9714305 TTTGATAATT
Statistics
Matches: 294, Mismatches: 20, Indels: 33
0.85 0.06 0.10
Matches are distributed among these distances:
99 2 0.01
100 4 0.01
101 26 0.09
103 36 0.12
104 15 0.05
105 6 0.02
106 1 0.00
109 4 0.01
110 4 0.01
112 8 0.03
113 98 0.33
114 17 0.06
115 73 0.25
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (111 bp):
AAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTATTTAGTTT
AGTGTTTATTGTGATTTTTTATGAATGTAAATTTTTTTTTTTTTTT
Found at i:9714133 original size:228 final size:213
Alignment explanation
Indices: 9713862--9714289 Score: 622
Period size: 228 Copynumber: 1.9 Consensus size: 213
9713852 AATTTTTTAA
* * *
9713862 AAAATTATTTTAAAGTTATTTTGTTAGTAGTTTATGATTAGGTTATAAATTGTTTGTGTTTAGTT
1 AAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAAATGTTTGTATTTAGTT
*
9713927 TAGTGTTTATTGTGATTTTTTATGAATGTAATATTTTTTTTCTTTTTTTAAATTATTTTAAAGTT
66 TAGTGTTTATTGTGATTTTGTATGAATGTAA-A---------TTTTTTTAAATTATTTTAAAGTT
* *
9713992 ATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTATTTAGTTTAGTGTTTATTATGATT
121 ATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTG--TTTAGTTTAATGTGTATTATGATT
9714057 TCTTATGAATGTAAATTTTTTGTTTGTTTTTT
184 TCTTAT-AATGT-AATTTTTTGTTTGTTTTTT
9714089 AAAATTATTTTAAAGTTATTTTTGTTAGTAATTTATGATTAGGTTATAAAATGTTTGTATTTAGT
1 AAAATTATTTTAAAGTTA-TTTTGTTAGTAATTTATGATTAGGTTATAAAATGTTTGTATTTAGT
* * *
9714154 TTAGTGTTTATTGTGATTTTGTATGAATTTAAATTTTTTTAATTTTTTTTAAAGTTATTTTGTTA
65 TTAGTGTTTATTGTGATTTTGTATGAATGTAAATTTTTTTAAATTATTTTAAAGTTATTTTGTTA
* *
9714219 GTAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTGTGATTTGTTATAATGT
130 GTAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTATGATTTCTTATAATGT
9714284 AATTTT
195 AATTTT
9714290 AATTTTTTTT
Statistics
Matches: 189, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
214 6 0.03
215 5 0.03
216 26 0.14
218 60 0.32
227 19 0.10
228 73 0.39
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.58
Consensus pattern (213 bp):
AAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAAATGTTTGTATTTAGTT
TAGTGTTTATTGTGATTTTGTATGAATGTAAATTTTTTTAAATTATTTTAAAGTTATTTTGTTAG
TAATTTATGATTAGGTTATAAATTATTTGTTTAGTTTAATGTGTATTATGATTTCTTATAATGTA
ATTTTTTGTTTGTTTTTT
Found at i:9714296 original size:103 final size:102
Alignment explanation
Indices: 9714096--9714297 Score: 282
Period size: 103 Copynumber: 1.9 Consensus size: 102
9714086 TTTAAAATTA
* *
9714096 TTTTAAAGTTATTTTTGTTAGTAATTTATGATTAGGTTATAAAATGTTTGTATTTAGTTTAGTGT
1 TTTTAAAGTTATTTTTGTTAGTAATTTATGATTAGGTTATAAAATATTTG-ATTTAGTTTAATGT
* *
9714161 TTATTGTGATTTTGTATGAATTTAAATTTTTTTAATTTT
65 GTATTGTGATTTTATATGAATTTAAA-TTTTTTAATTTT
*
9714200 TTTTAAAGTTA-TTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTG-TTTAGTTTAATGTG
1 TTTTAAAGTTATTTTTGTTAGTAATTTATGATTAGGTTATAAAATATTTGATTTAGTTTAATGTG
*
9714263 TATTGTGATTTGTTATAATGTAATTTTAATTTTTT
66 TATTGTGA-TT-TTAT-ATG-AATTTAAATTTTTT
9714298 TTATTTATTT
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
101 20 0.23
102 2 0.02
103 39 0.44
104 20 0.23
105 7 0.08
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.58
Consensus pattern (102 bp):
TTTTAAAGTTATTTTTGTTAGTAATTTATGATTAGGTTATAAAATATTTGATTTAGTTTAATGTG
TATTGTGATTTTATATGAATTTAAATTTTTTAATTTT
Found at i:9714543 original size:17 final size:18
Alignment explanation
Indices: 9714511--9714555 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
9714501 ATGAGAATTT
*
9714511 ATTATATTTTTTATTGTA
1 ATTATATTTATTATTGTA
9714529 ATTATA-TTATTATTGT-
1 ATTATATTTATTATTGTA
*
9714545 ACTATATTTAT
1 ATTATATTTAT
9714556 CGTATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.21
17 13 0.54
18 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
ATTATATTTATTATTGTA
Found at i:9714582 original size:21 final size:20
Alignment explanation
Indices: 9714509--9714583 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 20
9714499 AAATGAGAAT
* * *
9714509 TTATTATATTTTTTATTGTAA
1 TTATAATATTATTTACTGT-A
* *
9714530 TTATATTATTATTGTACTATA
1 TTATAATATTATT-TACTGTA
**
9714551 TTTATCGTATTATTTACTGTA
1 -TTATAATATTATTTACTGTA
9714572 TGTATAATATTA
1 T-TATAATATTA
9714584 ATGTTTTTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
20 1 0.02
21 25 0.61
22 15 0.37
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.59
Consensus pattern (20 bp):
TTATAATATTATTTACTGTA
Found at i:9720537 original size:12 final size:12
Alignment explanation
Indices: 9720508--9720540 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
9720498 TAATTAACAA
*
9720508 TTAATAATAAAT
1 TTAAAAATAAAT
9720520 TT-AAAATAAAT
1 TTAAAAATAAAT
9720531 TTAAAAATAA
1 TTAAAAATAA
9720541 TAAAAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAAAAATAAAT
Found at i:9720876 original size:24 final size:23
Alignment explanation
Indices: 9720848--9720917 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 23
9720838 TCCTTTCATT
9720848 TTTCTTCTCCTTTTTTTTTCTTTC
1 TTTCTTCTCCTTTTTTTTTC-TTC
9720872 TTTCTTCTCCTTCTCTTTTTTCTTC
1 TTTCTTCTCCTT-T-TTTTTTCTTC
* *
9720897 TCTTCTGCTATCTTTTTTTTT
1 T-TTCTTCT-CCTTTTTTTTT
9720918 TTGTTAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 12 0.30
25 11 0.28
26 14 0.35
27 3 0.08
ACGTcount: A:0.01, C:0.26, G:0.01, T:0.71
Consensus pattern (23 bp):
TTTCTTCTCCTTTTTTTTTCTTC
Found at i:9720895 original size:18 final size:18
Alignment explanation
Indices: 9720866--9720902 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9720856 CCTTTTTTTT
9720866 TCTTTCTTTCTTCTCCTTC
1 TCTTTCTTTCTTCT-CTTC
9720885 TCTTT-TTTCTTCTCTTC
1 TCTTTCTTTCTTCTCTTC
9720902 T
1 T
9720903 GCTATCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 8 0.44
19 5 0.28
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TCTTTCTTTCTTCTCTTC
Found at i:9720910 original size:22 final size:22
Alignment explanation
Indices: 9720848--9720914 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
9720838 TCCTTTCATT
* *
9720848 TTTCTTCTCCTTTTTTTTTCTTTC
1 TTTCTTCTCC-TTATCTTT-TTTC
*
9720872 TTTCTTCTCCTTCTCTTTTTTC
1 TTTCTTCTCCTTATCTTTTTTC
*
9720894 TTCTCTTCTGC-TATCTTTTTT
1 TT-TCTTCTCCTTATCTTTTTT
9720915 TTTTTGTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.39
23 13 0.34
24 10 0.26
ACGTcount: A:0.01, C:0.27, G:0.01, T:0.70
Consensus pattern (22 bp):
TTTCTTCTCCTTATCTTTTTTC
Found at i:9720913 original size:23 final size:21
Alignment explanation
Indices: 9720848--9720915 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 21
9720838 TCCTTTCATT
*
9720848 TTTCTTCTCCTTTTTTTTTCTTTC
1 TTTCTTCTCC--TTCTTTT-TTTC
9720872 TTTCTTCTCCTTCTCTTTTTTC
1 TTTCTTCTCCTTCT-TTTTTTC
*
9720894 TTCTCTTCTGCTATCTTTTTTT
1 TT-TCTTCTCCT-TCTTTTTTT
9720916 TTTTGTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 9 0.23
23 17 0.44
24 13 0.33
ACGTcount: A:0.01, C:0.26, G:0.01, T:0.71
Consensus pattern (21 bp):
TTTCTTCTCCTTCTTTTTTTC
Found at i:9725272 original size:28 final size:28
Alignment explanation
Indices: 9725232--9725288 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
9725222 TAGATATTCT
9725232 AATTAAGAAATATTCTTTCCTTAAGTTG
1 AATTAAGAAATATTCTTTCCTTAAGTTG
9725260 AATTAAGAAATATTCTTTCCTTAAGTTG
1 AATTAAGAAATATTCTTTCCTTAAGTTG
9725288 A
1 A
9725289 TTCAATCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (28 bp):
AATTAAGAAATATTCTTTCCTTAAGTTG
Found at i:9727451 original size:19 final size:19
Alignment explanation
Indices: 9727405--9727452 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
9727395 GTATATATTT
9727405 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
9727423 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
9727442 TAAGTTTTATT
1 TAAATTTTATT
9727453 CATATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:9727533 original size:42 final size:43
Alignment explanation
Indices: 9727466--9727556 Score: 148
Period size: 42 Copynumber: 2.1 Consensus size: 43
9727456 ATTATAAGAA
* *
9727466 TATTTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTTATTTTATATTTTAATAGTTTATTAGAATAAGGGAAC
*
9727509 TATTTTT-TTTTATATTTTAATAGTTTATTAGAATAAGTGAAC
1 TATTTTTATTTTATATTTTAATAGTTTATTAGAATAAGGGAAC
9727551 TATTTT
1 TATTTT
9727557 CCTAATTAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 38 0.84
43 7 0.16
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.55
Consensus pattern (43 bp):
TATTTTTATTTTATATTTTAATAGTTTATTAGAATAAGGGAAC
Found at i:9730694 original size:19 final size:19
Alignment explanation
Indices: 9730648--9730695 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
9730638 GTATATATTT
*
9730648 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAAA
* *
9730666 TAAATCTTATTTAGTTAAA
1 TAAATTTTATTTAGGTAAA
*
9730685 TAAGTTTTATT
1 TAAATTTTATT
9730696 CATATTCTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAAA
Found at i:9730771 original size:42 final size:42
Alignment explanation
Indices: 9730712--9730799 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
9730702 CTAGGAATAT
9730712 TTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
* *
9730754 TTTTCTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
9730796 TTTT
1 TTTT
9730800 TCTAATTAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.52
Consensus pattern (42 bp):
TTTTATTTTATCTTTTAGTAGTTTATTAGAATAAGGGAACTA
Found at i:9735568 original size:3 final size:3
Alignment explanation
Indices: 9735560--9735608 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
9735550 CCTTTTACCC
*
9735560 CAT CAT CAT CAT CAT CAT CAT TAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
9735608 C
1 C
9735609 GAGAACAACG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:9742651 original size:35 final size:35
Alignment explanation
Indices: 9742563--9742784 Score: 230
Period size: 35 Copynumber: 6.4 Consensus size: 35
9742553 GTGCAAAATA
* **
9742563 TAGGTATGGTA-TAACCATACCGAGTTGTGAAATA
1 TAGGTATGGTATTAACCATACCGAGATGTGAAACG
** *** * * * *
9742597 TAGGTATGGCGTCGTCCATACTGAGCTATGATACG
1 TAGGTATGGTATTAACCATACCGAGATGTGAAACG
* *
9742632 TGGGTATGGTATTAACCATACCGAGTTGTGAAACG
1 TAGGTATGGTATTAACCATACCGAGATGTGAAACG
9742667 TAGGTATGGTATTAACCATACCGAGATGTGAAACG
1 TAGGTATGGTATTAACCATACCGAGATGTGAAACG
* * * *
9742702 TAGGTATGGTATCATCCATACCGAGTTGTGAAATG
1 TAGGTATGGTATTAACCATACCGAGATGTGAAACG
* * * * *
9742737 TAGGTATGGTATCATCCATACCGAGTTGAGAAATG
1 TAGGTATGGTATTAACCATACCGAGATGTGAAACG
9742772 TAGGTATGGTATT
1 TAGGTATGGTATT
9742785 TCAATGAGGA
Statistics
Matches: 158, Mismatches: 29, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
34 9 0.06
35 149 0.94
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (35 bp):
TAGGTATGGTATTAACCATACCGAGATGTGAAACG
Found at i:9742658 original size:70 final size:70
Alignment explanation
Indices: 9742563--9742784 Score: 259
Period size: 70 Copynumber: 3.2 Consensus size: 70
9742553 GTGCAAAATA
* * ** * *
9742563 TAGGTATGGTA-TAACCATACCGAGTTGTGAAATATAGGTATGGCGTCGTCCATACTGAGCTATG
1 TAGGTATGGTATTAACCATACCGAGTTGTGAAATGTAGGTATGGCATCAACCATACCGAGATATG
*
9742627 ATACG
66 AAACG
* * * * *
9742632 TGGGTATGGTATTAACCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATACCGAGATGTG
1 TAGGTATGGTATTAACCATACCGAGTTGTGAAATGTAGGTATGGCATCAACCATACCGAGATATG
9742697 AAACG
66 AAACG
* * * * *
9742702 TAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATCATCCATACCGAGTTGA-
1 TAGGTATGGTATTAACCATACCGAGTTGTGAAATGTAGGTATGGCATCAACCATACCGAGAT-AT
*
9742766 GAAATG
65 GAAACG
9742772 TAGGTATGGTATT
1 TAGGTATGGTATT
9742785 TCAATGAGGA
Statistics
Matches: 129, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
69 10 0.08
70 119 0.92
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (70 bp):
TAGGTATGGTATTAACCATACCGAGTTGTGAAATGTAGGTATGGCATCAACCATACCGAGATATG
AAACG
Found at i:9742756 original size:105 final size:105
Alignment explanation
Indices: 9742563--9742784 Score: 293
Period size: 105 Copynumber: 2.1 Consensus size: 105
9742553 GTGCAAAATA
* * * * *
9742563 TAGGTATGGTA-TAACCATACCGAGTTGTGAAATATAGGTATGGCGTCGTCCATACTGAGCTATG
1 TAGGTATGGTATTAACCATACCGAGATGTGAAACATAGGTATGGCATCATCCATACCGAGCTATG
* * * *
9742627 ATACGTGGGTATGGTATTAACCATACCGAGTTGTGAAACG
66 AAACGTAGGTATGGTATCAACCATACCGAGTTGAGAAACG
* * * *
9742667 TAGGTATGGTATTAACCATACCGAGATGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTG
1 TAGGTATGGTATTAACCATACCGAGATGTGAAACATAGGTATGGCATCATCCATACCGAGCTATG
* * *
9742732 AAATGTAGGTATGGTATCATCCATACCGAGTTGAGAAATG
66 AAACGTAGGTATGGTATCAACCATACCGAGTTGAGAAACG
9742772 TAGGTATGGTATT
1 TAGGTATGGTATT
9742785 TCAATGAGGA
Statistics
Matches: 101, Mismatches: 16, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
104 11 0.11
105 90 0.89
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (105 bp):
TAGGTATGGTATTAACCATACCGAGATGTGAAACATAGGTATGGCATCATCCATACCGAGCTATG
AAACGTAGGTATGGTATCAACCATACCGAGTTGAGAAACG
Found at i:9742938 original size:35 final size:35
Alignment explanation
Indices: 9742899--9743088 Score: 256
Period size: 35 Copynumber: 5.4 Consensus size: 35
9742889 TTGAATTTAT
9742899 ATGTAGGTATGGTATCATCCATACCGAGTTGAGAA
1 ATGTAGGTATGGTATCATCCATACCGAGTTGAGAA
* *
9742934 ATGTAGGTATGGTATCATCCATACTGAGTTGTGAA
1 ATGTAGGTATGGTATCATCCATACCGAGTTGAGAA
*
9742969 ACGTAGGTATGGTATCATCCATACCGAGTTGAGAA
1 ATGTAGGTATGGTATCATCCATACCGAGTTGAGAA
* * * *
9743004 ATATAGGTATGGTATTATCCATACTGAGTTAAGAA
1 ATGTAGGTATGGTATCATCCATACCGAGTTGAGAA
* * * * *
9743039 GTGTAGGTATAGCAT-TTCCCATACCGAGTTGTGAA
1 ATGTAGGTATGGTATCAT-CCATACCGAGTTGAGAA
9743074 ATGTAGGTATGGTAT
1 ATGTAGGTATGGTAT
9743089 TTTAATGAGG
Statistics
Matches: 133, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
34 1 0.01
35 132 0.99
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (35 bp):
ATGTAGGTATGGTATCATCCATACCGAGTTGAGAA
Found at i:9743148 original size:305 final size:305
Alignment explanation
Indices: 9742634--9743206 Score: 932
Period size: 305 Copynumber: 1.9 Consensus size: 305
9742624 ATGATACGTG
* * *
9742634 GGTATGGTATTAACCATACCGAGTTGTGAAACGTAGGTATGGTATTAACCATACCGAGATGTGAA
1 GGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCATACCGAGATGAGAA
* ** * *
9742699 ACGTAGGTATGGTATCATCCATACCGAGTTGTGAAATGTAGGTATGGTATCATCCATACCGAGTT
66 ACATAGGTATGGTATCATCCATACCGAGTTAAGAAATGTAGGTATAGCATCATCCATACCGAGTT
*
9742764 GAGAAATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTATGAATCGTAGCACTGGGT
131 GAGAAATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTATGAATCGTAGCACTGAGT
*
9742829 AATGACGTACTCAATTTCATAAGACGTTCTCCAATTTGACAAAGTTTTGGTAATTATTATTTGAA
196 AACGACGTACTCAATTTCATAAGACGTTCTCCAATTTGACAAAGTTTTGGTAATTATTATTTGAA
9742894 TTTATATGTAGGTATGGTATCATCCATACCGAGTTGAGAAATGTA
261 TTTATATGTAGGTATGGTATCATCCATACCGAGTTGAGAAATGTA
* * * *
9742939 GGTATGGTATCATCCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGAGAA
1 GGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCATACCGAGATGAGAA
* * * * *
9743004 ATATAGGTATGGTATTATCCATACTGAGTTAAGAAGTGTAGGTATAGCAT-TTCCCATACCGAGT
66 ACATAGGTATGGTATCATCCATACCGAGTTAAGAAATGTAGGTATAGCATCAT-CCATACCGAGT
* * *
9743068 TGTGAAATGTAGGTATGGTATTTTAATGAGGAAAACCATATTGAGTTATGAATCGTAGCACTGAG
130 TGAGAAATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTATGAATCGTAGCACTGAG
9743133 TAACGACGTACTCAATTTCATAAGACGTTCTCCAATTTGACAAAGTTTTGGTAATTATTATTTGA
195 TAACGACGTACTCAATTTCATAAGACGTTCTCCAATTTGACAAAGTTTTGGTAATTATTATTTGA
9743198 ATTTATATG
260 ATTTATATG
9743207 ACAGATTTTA
Statistics
Matches: 245, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
304 1 0.00
305 244 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (305 bp):
GGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCATACCGAGATGAGAA
ACATAGGTATGGTATCATCCATACCGAGTTAAGAAATGTAGGTATAGCATCATCCATACCGAGTT
GAGAAATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTATGAATCGTAGCACTGAGT
AACGACGTACTCAATTTCATAAGACGTTCTCCAATTTGACAAAGTTTTGGTAATTATTATTTGAA
TTTATATGTAGGTATGGTATCATCCATACCGAGTTGAGAAATGTA
Found at i:9744798 original size:44 final size:45
Alignment explanation
Indices: 9744708--9744836 Score: 143
Period size: 44 Copynumber: 2.8 Consensus size: 45
9744698 GACAGAACGA
* *
9744708 AATGAGCCACGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
9744754 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
9744798 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
9744837 CAGGATATTG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 36 0.52
45 1 0.01
46 32 0.46
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:9747707 original size:18 final size:17
Alignment explanation
Indices: 9747660--9747708 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
9747650 AAAACCCTAA
9747660 TTTTTCCTTCTTTCTTTCC
1 TTTTT-CTT-TTTCTTTCC
*
9747679 TCCTTTCTTTTTCTTTCC
1 T-TTTTCTTTTTCTTTCC
9747697 TTTTTCGTTTTT
1 TTTTTC-TTTTT
9747709 GCTTGTCCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 15 0.58
19 4 0.15
20 3 0.12
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTCC
Found at i:9754954 original size:12 final size:12
Alignment explanation
Indices: 9754921--9754962 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
9754911 TATGCTCCAC
*
9754921 AAAAGAAAA-AA
1 AAAATAAAATAA
9754932 AAAATTAAAAATAA
1 AAAA-T-AAAATAA
9754946 AAAATAAAATAA
1 AAAATAAAATAA
9754958 AAAAT
1 AAAAT
9754963 CCCACAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 4 0.15
12 12 0.44
13 5 0.19
14 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:9754954 original size:19 final size:18
Alignment explanation
Indices: 9754921--9754962 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
9754911 TATGCTCCAC
* *
9754921 AAAAGAAAAAAAAAATTA
1 AAAATAAAAAAAAAATAA
9754939 AAAATAAAAAATAAAATAA
1 AAAATAAAAAA-AAAATAA
9754958 AAAAT
1 AAAAT
9754963 CCCACAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAATAAAAAAAAAATAA
Found at i:9759508 original size:19 final size:18
Alignment explanation
Indices: 9759484--9759520 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
9759474 TATATTTTGT
*
9759484 AAAATTTATTCTAATTTAA
1 AAAATTTAAT-TAATTTAA
9759503 AAAATTTAATTAATTTAA
1 AAAATTTAATTAATTTAA
9759521 CTTTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATTTAATTAATTTAA
Found at i:9760805 original size:45 final size:45
Alignment explanation
Indices: 9760741--9760831 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
9760731 GACGTAAATA
9760741 TATTTGGCTAATATATAAATTTTAATATTAATTTAACATGATTAT
1 TATTTGGCTAATATATAAATTTTAATATTAATTTAACATGATTAT
9760786 TATTTGGCTAATATATAAATTTTAATATTAATTTAACATGATTAT
1 TATTTGGCTAATATATAAATTTTAATATTAATTTAACATGATTAT
9760831 T
1 T
9760832 GAACTTTCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (45 bp):
TATTTGGCTAATATATAAATTTTAATATTAATTTAACATGATTAT
Found at i:9760814 original size:25 final size:25
Alignment explanation
Indices: 9760740--9760814 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
9760730 TGACGTAAAT
9760740 ATATTTGGCTAATATATAAATTTTA
1 ATATTTGGCTAATATATAAATTTTA
*
9760765 ATA--T---TAAT-T-TAACATGATTA
1 ATATTTGGCTAATATATAA-AT-TTTA
*
9760785 TTATTTGGCTAATATATAAATTTTA
1 ATATTTGGCTAATATATAAATTTTA
9760810 ATATT
1 ATATT
9760815 AATTTAACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 18
0.63 0.07 0.31
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 9 0.24
22 1 0.03
23 1 0.03
25 14 0.38
26 3 0.08
27 3 0.08
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (25 bp):
ATATTTGGCTAATATATAAATTTTA
Found at i:9776806 original size:6 final size:6
Alignment explanation
Indices: 9776797--9776860 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
9776787 TACCTTGTAC
* * * * *
9776797 TCATCT TCATCT TCATCGT T-GTCT TAATCT TCATCT CCA-CAC TCAACT
1 TCATCT TCATCT TCATC-T TCATCT TCATCT TCATCT TCATC-T TCATCT
9776845 TCATCT TCATCT TCAT
1 TCATCT TCATCT TCAT
9776861 TGGCTTCCTC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 3 0.07
6 40 0.87
7 3 0.07
ACGTcount: A:0.20, C:0.33, G:0.03, T:0.44
Consensus pattern (6 bp):
TCATCT
Found at i:9778160 original size:38 final size:38
Alignment explanation
Indices: 9778109--9778187 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
9778099 GCAGGCAACC
9778109 ACTAATTGATATTTTATCCGATTTCGTTTCCCGACACA
1 ACTAATTGATATTTTATCCGATTTCGTTTCCCGACACA
9778147 ACTAATTGATATTTTATCCGATTTCGTTTCCCGACACA
1 ACTAATTGATATTTTATCCGATTTCGTTTCCCGACACA
9778185 ACT
1 ACT
9778188 CTTGGTACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (38 bp):
ACTAATTGATATTTTATCCGATTTCGTTTCCCGACACA
Found at i:9779058 original size:16 final size:18
Alignment explanation
Indices: 9779019--9779062 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
9779009 AACTTGAGAA
9779019 AATTGAGAGAATTAAGAG
1 AATTGAGAGAATTAAGAG
* *
9779037 AGTTGAGAG-TTTAA-AG
1 AATTGAGAGAATTAAGAG
9779053 AATTGAGAGA
1 AATTGAGAGA
9779063 GTTGGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
18 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
AATTGAGAGAATTAAGAG
Found at i:9783254 original size:17 final size:17
Alignment explanation
Indices: 9783232--9783271 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
9783222 ACACGATGAG
9783232 TAATATTATTAATTTGT
1 TAATATTATTAATTTGT
9783249 TAATATTATTAATTTGT
1 TAATATTATTAATTTGT
9783266 T-ATATT
1 TAATATT
9783272 TTGGTCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TAATATTATTAATTTGT
Found at i:9783927 original size:15 final size:14
Alignment explanation
Indices: 9783896--9783930 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9783886 TTATAAAATG
9783896 AAAAAAATAATTGA
1 AAAAAAATAATTGA
9783910 AAAATAAAT-ATTGA
1 AAAA-AAATAATTGA
9783924 AAAAAAA
1 AAAAAAA
9783931 GTTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 13 0.65
15 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (14 bp):
AAAAAAATAATTGA
Found at i:9791180 original size:32 final size:32
Alignment explanation
Indices: 9791144--9791208 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
9791134 TTTTTTTAAG
*
9791144 AACAAATCAAGTCAATACAATATAGAAATCAT
1 AACAAATCAAGTCAATACAATATAAAAATCAT
9791176 AACAAATCAAGTCAATACAATATAAAAATCAT
1 AACAAATCAAGTCAATACAATATAAAAATCAT
9791208 A
1 A
9791209 CTTCATGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.22
Consensus pattern (32 bp):
AACAAATCAAGTCAATACAATATAAAAATCAT
Found at i:9792298 original size:6 final size:6
Alignment explanation
Indices: 9792287--9792373 Score: 167
Period size: 6 Copynumber: 14.7 Consensus size: 6
9792277 GAAAATAATT
9792287 AAAATA AAAAT- AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
9792334 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
9792374 GATAAGAGGA
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.06
6 75 0.94
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:9802085 original size:30 final size:30
Alignment explanation
Indices: 9802051--9802111 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
9802041 TTAATTAATC
* *
9802051 TTTTACGGATCTTGTAGAATCTATTGTTAA
1 TTTTACGGATCTTGCAGAACCTATTGTTAA
*
9802081 TTTTACGGTTCTTGCAGAACCTATTGTTAA
1 TTTTACGGATCTTGCAGAACCTATTGTTAA
9802111 T
1 T
9802112 CTTGATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (30 bp):
TTTTACGGATCTTGCAGAACCTATTGTTAA
Found at i:9804480 original size:11 final size:11
Alignment explanation
Indices: 9804464--9804492 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
9804454 TATAGACAAC
9804464 TTTATTTCTAG
1 TTTATTTCTAG
9804475 TTTATTTCTAG
1 TTTATTTCTAG
9804486 TTTATTT
1 TTTATTT
9804493 TACACTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (11 bp):
TTTATTTCTAG
Found at i:9817303 original size:23 final size:24
Alignment explanation
Indices: 9817273--9817406 Score: 95
Period size: 23 Copynumber: 5.8 Consensus size: 24
9817263 GGACTCACCA
9817273 CAGCTCGTAT-GAGCTTACCGATT
1 CAGCTCGTATAGAGCTTACCGATT
*
9817296 CAGCTCGTA-AGAGCTTACTCCGTTT
1 CAGCTCGTATAGAGCTTA--CCGATT
* * * **
9817321 CATCTCAT-TGGAGCTTACTAATT
1 CAGCTCGTATAGAGCTTACCGATT
*
9817344 CAGCTCG-ATAGAGCTTACTG-TT
1 CAGCTCGTATAGAGCTTACCGATT
* * *
9817366 CAGCTCG-ATAGAGGTTTCCGTTT
1 CAGCTCGTATAGAGCTTACCGATT
9817389 CAGCTC--ATAGGAGCTTAC
1 CAGCTCGTATA-GAGCTTAC
9817407 TGTCCATCAG
Statistics
Matches: 88, Mismatches: 16, Indels: 14
0.75 0.14 0.12
Matches are distributed among these distances:
22 22 0.25
23 48 0.55
25 18 0.20
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (24 bp):
CAGCTCGTATAGAGCTTACCGATT
Found at i:9820273 original size:5 final size:5
Alignment explanation
Indices: 9820263--9820296 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
9820253 GCTAAAATTT
*
9820263 TAAAA TAAAA TAAAA TAAAA TAAAA TAGAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
9820297 TATCCTAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:9829627 original size:64 final size:64
Alignment explanation
Indices: 9829437--9829749 Score: 276
Period size: 64 Copynumber: 4.8 Consensus size: 64
9829427 ATTTTGGCTT
* * * * * * * *
9829437 TCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCATAGCTC
1 TCTTGT-CTACATGGTGTATACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTAGCTC
* * * * * * * * *
9829500 TCTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTATCTCGTAGC
1 TCTTGTCTACATGGTGT--AT-ACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTAGC
9829565 TC
63 TC
*
9829567 TCTTGTCTACATGGTGTATACATAGTATCACCCATGCGACCTAGCTACATATATCCCGTAGCTC
1 TCTTGTCTACATGGTGTATACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTAGCTC
* *
9829631 TCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTTATAATGTCTCGTAG
1 TCTTGTCTACATGGTGTATACATAGTATCACCCATGCGACCTAGCTA-C--AT-ATATCTCGTAG
9829696 CTC
62 CTC
* * * *
9829699 TCTTGTAC-ACAT-G-GTATACATCCCGTATTACACATGTGACCTAGCTACATA
1 TCTTGT-CTACATGGTGTATACAT--AGTATCACCCATGCGACCTAGCTACATA
9829750 CCATCTGTAT
Statistics
Matches: 209, Mismatches: 29, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
63 14 0.07
64 84 0.40
65 4 0.02
66 30 0.14
67 34 0.16
68 42 0.20
69 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (64 bp):
TCTTGTCTACATGGTGTATACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTAGCTC
Found at i:9829712 original size:132 final size:129
Alignment explanation
Indices: 9829437--9829749 Score: 321
Period size: 130 Copynumber: 2.4 Consensus size: 129
9829427 ATTTTGGCTT
* * * * * * *
9829437 TCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCATAGCTCT
1 TCTTGTACACATGGTGTATACATAGTATCACCCATGTGACCTAGCTACATATATCCCATAGCTCT
* * * *
9829501 CTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTATCTCGTAGCT
66 CTTGTCTACATGGTG--CTACACATAGAACCACACATGCAACCTAGCTACATTTATCTCGTAGCT
9829566 C
129 C
* *
9829567 TCTTGT-CTACATGGTGTATACATAGTATCACCCATGCGACCTAGCTACATATATCCCGTAGCTC
1 TCTTGTAC-ACATGGTGTATACATAGTATCACCCATGTGACCTAGCTACATATATCCCATAGCTC
* * * * *
9829631 TCTTGTCTACATGGTG-TACACATAGTATCACCCATGCGACCTAGCTACCTTATAATGTCTCGTA
65 TCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACATT-T-A--TCTCGTA
9829695 GCTC
126 GCTC
* * *
9829699 TCTTGTACACAT-G-GTATACATCCCGTATTACACATGTGACCTAGCTACATA
1 TCTTGTACACATGGTGTATACAT--AGTATCACCCATGTGACCTAGCTACATA
9829750 CCATCTGTAT
Statistics
Matches: 152, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
128 27 0.18
129 2 0.01
130 49 0.32
131 28 0.18
132 45 0.30
133 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (129 bp):
TCTTGTACACATGGTGTATACATAGTATCACCCATGTGACCTAGCTACATATATCCCATAGCTCT
CTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACATTTATCTCGTAGCTC
Found at i:9832955 original size:17 final size:17
Alignment explanation
Indices: 9832930--9832982 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
9832920 ATGAAGGTCA
*
9832930 GGCCATGCATAAGACAC
1 GGCCGTGCATAAGACAC
9832947 GGCCGTGCATAAGACAC
1 GGCCGTGCATAAGACAC
**
9832964 GGCCGTGCGCAAGACAC
1 GGCCGTGCATAAGACAC
9832981 GG
1 GG
9832983 TCTTGTGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.28, C:0.30, G:0.32, T:0.09
Consensus pattern (17 bp):
GGCCGTGCATAAGACAC
Found at i:9835879 original size:2 final size:2
Alignment explanation
Indices: 9835872--9835899 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9835862 AATGATTTAG
9835872 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9835900 GGCACTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9835948 original size:40 final size:40
Alignment explanation
Indices: 9835893--9836033 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
9835883 TATATATATA
9835893 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* * *
9835933 TATATATGGCACTTAGTCTGCAATTCGAAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
* * ** *
9835973 TATATATGACACTTAGTGTGTGAGACCGAGATATCTTCGAG-
1 TATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCG-GC
*
9836014 TATATAAGGCACTTAGTGTG
1 TATATATGGCACTTAGTGTG
9836034 TGGGATTATA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 56 0.65
41 29 0.34
42 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGGC
Found at i:9844051 original size:23 final size:23
Alignment explanation
Indices: 9844018--9844074 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
9844008 ACCCCATTCA
9844018 CTACACACCATCTCCAATCATCC
1 CTACACACCATCTCCAATCATCC
* **
9844041 CTACACGCCATCTCTGATCATCC
1 CTACACACCATCTCCAATCATCC
9844064 CTACACACCAT
1 CTACACACCAT
9844075 ATAGGGTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.46, G:0.04, T:0.23
Consensus pattern (23 bp):
CTACACACCATCTCCAATCATCC
Found at i:9844195 original size:2 final size:2
Alignment explanation
Indices: 9844188--9844259 Score: 90
Period size: 2 Copynumber: 36.0 Consensus size: 2
9844178 GCTAGAAACA
* * * *
9844188 AT AT AT AT AT AT AT AT AC AT AT AT AT AC AT AT TT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
9844230 AT AT AT AC AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9844260 GGCTGAGCCA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9844219 original size:22 final size:22
Alignment explanation
Indices: 9844188--9844258 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
9844178 GCTAGAAACA
*
9844188 ATATATATATATATATACATAT
1 ATATACATATATATATACATAT
*
9844210 ATATACATATTTATATACATAT
1 ATATACATATATATATACATAT
* *
9844232 ATATACATATATATATATATGT
1 ATATACATATATATATACATAT
9844254 ATATA
1 ATATA
9844259 TGGCTGAGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (22 bp):
ATATACATATATATATACATAT
Found at i:9846633 original size:26 final size:26
Alignment explanation
Indices: 9846604--9846742 Score: 100
Period size: 26 Copynumber: 5.3 Consensus size: 26
9846594 ATCCCTATTT
*
9846604 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACTTTGGTTTATAAAATTACC
* ** * *
9846630 AAAATACTCTACTTTGTAAAATTACT
1 AAAATACTTTGGTTTATAAAATTACC
*
9846656 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATA-CTTTGGTTTATAAAATTACC
** * * *
9846683 -AAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CTTTGGTTTATAAAATTACC
** * *
9846709 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CTTTGGTTTATAAAATTACC
9846736 AAAATAC
1 AAAATAC
9846743 CCCTAATTTG
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 49 0.52
27 45 0.48
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (26 bp):
AAAATACTTTGGTTTATAAAATTACC
Found at i:9846680 original size:27 final size:27
Alignment explanation
Indices: 9846621--9846771 Score: 173
Period size: 27 Copynumber: 5.7 Consensus size: 27
9846611 TTTGGTTTAC
* * *
9846621 AAAATTACCAAAATA-CTCTACTTTGT
1 AAAATTACTAAAATACCCCTAGTTTGT
* * *
9846647 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACTAAAATACCCCTAGTTTGT
*
9846674 AAAATTAC-CAAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCCTAGTTTGT
9846700 AAAATTA-TCAAAATACCCCTAGTTTGT
1 AAAATTACT-AAAATACCCCTAGTTTGT
* *
9846727 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACTAAAATACCCCTAGTTTGT
* *
9846754 GAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
9846772 TCGACCTGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
26 35 0.33
27 70 0.67
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTAGTTTGT
Found at i:9846682 original size:53 final size:54
Alignment explanation
Indices: 9846603--9846772 Score: 213
Period size: 53 Copynumber: 3.2 Consensus size: 54
9846593 TATCCCTATT
* * * *
9846603 TAAAATA-CTTTGGTTTACAAAATTACCAAAATA-CTCTACTTTGTAAAATTAC
1 TAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAATTTGTAAAATTAC
*
9846655 TAAAATACCCTTGGTTTATAAAATTACC-AAATACCCCTAGTTTGTAAAATTA-
1 TAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAATTTGTAAAATTAC
* * * *
9846707 TCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTAC
1 T-AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAATTTGTAAAATTAC
*
9846762 TGAAATACCCT
1 TAAAATACCCT
9846773 CGACCTGTAA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
52 13 0.13
53 58 0.57
54 30 0.29
55 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.34
Consensus pattern (54 bp):
TAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAATTTGTAAAATTAC
Found at i:9846785 original size:27 final size:27
Alignment explanation
Indices: 9846755--9846829 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
9846745 CTAATTTGTG
9846755 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
9846782 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
9846809 CAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
9846830 TTTATAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:9846851 original size:27 final size:27
Alignment explanation
Indices: 9846821--9847104 Score: 365
Period size: 27 Copynumber: 10.6 Consensus size: 27
9846811 ATTACCAAAG
*
9846821 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
9846848 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
9846875 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
9846902 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
9846929 CACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
9846956 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
9846983 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
9847010 CA-CCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
9847036 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
9847063 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
9847090 TACCCTCGATTTACA
1 TACCCTCGATTTACA
9847105 AAAATTACTA
Statistics
Matches: 222, Mismatches: 32, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
26 25 0.11
27 196 0.88
28 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:9847121 original size:28 final size:27
Alignment explanation
Indices: 9847012--9847123 Score: 71
Period size: 27 Copynumber: 4.1 Consensus size: 27
9847002 TACCGTTTCA
* * ***
9847012 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTAAAATAC
* * ****
9847039 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTAAAATAC
* ****
9847066 CCTTGATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTAAAATAC
9847093 CCTCGATTTACAAAAATTACTAAAATAC
1 CCTCGATTTAC-AAAATTACTAAAATAC
9847121 CCT
1 CCT
9847124 TGGTTTGTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 58 0.79
28 15 0.21
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTAAAATAC
Found at i:9848379 original size:25 final size:25
Alignment explanation
Indices: 9848351--9848398 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9848341 TTATACCATG
* * *
9848351 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
9848376 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
9848399 GTTTATGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:9848500 original size:21 final size:20
Alignment explanation
Indices: 9848440--9848502 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 20
9848430 TAAAATATGG
*
9848440 TATGTATGAGATGCACATTGA
1 TATGTATGATATGCACA-TGA
*
9848461 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
9848481 TATGTATGATATTGCACATGA
1 TATGTATGATA-TGCACATGA
9848502 T
1 T
9848503 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 13 0.34
21 25 0.66
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:9850953 original size:26 final size:26
Alignment explanation
Indices: 9850924--9851063 Score: 145
Period size: 26 Copynumber: 5.3 Consensus size: 26
9850914 TATCCTATTT
* *
9850924 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
* * * *
9850950 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCTTGGTTTATAAAATTACC
9850976 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * * *
9851003 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * *
9851030 AAAATACCCTAGTTTGTAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
9851056 AAAATACC
1 AAAATACC
9851064 CCTAATTTGT
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 53 0.54
27 45 0.46
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATACCTTGGTTTATAAAATTACC
Found at i:9851002 original size:53 final size:53
Alignment explanation
Indices: 9850923--9851092 Score: 213
Period size: 53 Copynumber: 3.2 Consensus size: 53
9850913 TTATCCTATT
* *
9850923 TAAAATA-CTTTGGTTTACAAAATTACCAAAATA-CCCTGCTTTGTAAAATTAC
1 TAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTG-TTTGTAAAATTAC
9850975 TAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-
1 TAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-GTTTGTAAAATTAC
* * * *
9851028 TCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTAC
1 T-AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-GTTTGTAAAATTAC
*
9851082 TGAAATACCCT
1 TAAAATACCCT
9851093 CGACCTGTAA
Statistics
Matches: 105, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
52 7 0.07
53 71 0.68
54 26 0.25
55 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (53 bp):
TAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGTTTGTAAAATTAC
Found at i:9851147 original size:27 final size:27
Alignment explanation
Indices: 9850941--9851162 Score: 209
Period size: 27 Copynumber: 8.3 Consensus size: 27
9850931 TTTGGTTTAC
*
9850941 AAAATTACCAAAATACCCT-GCTTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * *
9850967 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
*
9850994 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* *
9851021 AAAATTATCAAAATACCCTAG-TTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*
9851047 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* ** **
9851074 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*** *
9851101 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
9851128 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
*
9851155 AGAATTAC
1 AAAATTAC
9851163 TGTTTTACCC
Statistics
Matches: 160, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
26 40 0.25
27 119 0.74
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:9851174 original size:81 final size:80
Alignment explanation
Indices: 9850941--9851145 Score: 216
Period size: 80 Copynumber: 2.5 Consensus size: 80
9850931 TTTGGTTTAC
* * * ** * **
9850941 AAAATTACCAAAATACCCT-GCTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAA
1 AAAATTATCAAAATACCCTAGC-TTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTGA
* **
9851005 AATACCC-CTAGTTTGT
65 AATACCCTCGA-CCTGT
* *
9851021 AAAATTATCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAA
1 AAAATTATCAAAATACCCTAGCTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTGAA
9851086 ATACCCTCGACCTGT
66 ATACCCTCGACCTGT
** * *
9851101 AAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAAATTATCAAAATACCCTAG-CTTGTAAAATTACCAAAATACCC
9851146 TCGATTTATA
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 80 0.77
81 24 0.23
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTATCAAAATACCCTAGCTTGTAAAATTACCAAAATACCCCTAATTTATGAAATTACTGAA
ATACCCTCGACCTGT
Found at i:9851186 original size:26 final size:27
Alignment explanation
Indices: 9851141--9851426 Score: 349
Period size: 27 Copynumber: 10.9 Consensus size: 27
9851131 ATTACCAAAG
*
9851141 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
9851168 TACCCTC-ATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
9851194 TACCC-CGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
9851220 TACCCTCGATTTACAGAATTACCG--T
1 TACCCTCGATTTACAGAATTACTGTTT
**
9851245 TACCCTCGATTTAC--AATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
9851270 TACCCTCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
9851297 TACCCTCGATTTACAGAATTACCG-TT
1 TACCCTCGATTTACAGAATTACTGTTT
**
9851323 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
9851350 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
9851377 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
9851404 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
9851427 AAAATACCCT
Statistics
Matches: 231, Mismatches: 17, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
23 7 0.03
25 32 0.14
26 69 0.30
27 123 0.53
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:9851233 original size:53 final size:53
Alignment explanation
Indices: 9851141--9851425 Score: 359
Period size: 53 Copynumber: 5.4 Consensus size: 53
9851131 ATTACCAAAG
* * *
9851141 TACCCTCGATTTATAGAATTACTGTTTTACCCTC-ATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTAC-GTTTTACCCTCGATTTACAGAATTACCGTTT
*
9851194 TACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCG--T
1 TACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTT
* * *
9851245 TACCCTCGATTTAC--AATTACCATTTTACCCTCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTT
*
9851297 TACCCTCGATTTACAGAATTACCG-TTTACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * *
9851350 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTTTACCCTCGATTTACAGAATTACCGTTT
*
9851404 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
9851426 TAAAATACCC
Statistics
Matches: 204, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
50 31 0.15
51 6 0.03
52 48 0.24
53 67 0.33
54 52 0.25
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (53 bp):
TACCCTCGATTTACAGAATTACGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:9851434 original size:27 final size:27
Alignment explanation
Indices: 9850936--9851436 Score: 142
Period size: 27 Copynumber: 18.9 Consensus size: 27
9850926 AATACTTTGG
* * *
9850936 TTTACAAAATTACCAAAATACCCT-GC
1 TTTACAAAATTACTAAATTACCCTCGA
** * * *
9850962 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAATTACCCTCGA
* * * *
9850989 TTTATAAAATTACCAAAATACCC-CTA
1 TTTACAAAATTACTAAATTACCCTCGA
** * *
9851015 GTTTGTAAAATTA-TCAAAATACCCTAG-
1 -TTTACAAAATTACT-AAATTACCCTCGA
** * * *
9851042 TTTGTAAAATTACCAAAATACCC-CTAA
1 TTTACAAAATTACTAAATTACCCTC-GA
***
9851069 TTTGTGAAATTACTGAAA-TACCCTCGA
1 TTTACAAAATTACT-AAATTACCCTCGA
** ** *
9851096 CCTGTAAAATTATTGAAA-TACCCTCGA
1 TTTACAAAATTACT-AAATTACCCTCGA
* ** * *
9851123 CTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * ***
9851150 TTTATAGAATTACTGTTTTACCCTC-A
1 TTTACAAAATTACTAAATTACCCTCGA
* *
9851176 TTTACATAATTATCGT--TTTACCC-CGA
1 TTTACAAAATTA-C-TAAATTACCCTCGA
* *
9851202 TTTACATAATTATCGT--TTTACCCTCGA
1 TTTACAAAATTA-C-TAAATTACCCTCGA
* **
9851229 TTTACAGAATTAC--CGTTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* **
9851254 TTTAC--AATTACCATTTTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* *
9851279 TTTACATAATTATCGT--TTTACCCTCGA
1 TTTACAAAATTA-C-TAAATTACCCTCGA
* ***
9851306 TTTACAGAATTAC-CGTTTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * **
9851332 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * *** *
9851359 TTTATAGAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACTAAATTACCCTCGA
***
9851386 TTTACAAAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
*
9851413 TTTACAAAATTACTAAAATACCCT
1 TTTACAAAATTACTAAATTACCCT
9851437 TGGTTTGTGA
Statistics
Matches: 396, Mismatches: 55, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
23 6 0.02
25 31 0.08
26 113 0.29
27 240 0.61
28 6 0.02
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTAAATTACCCTCGA
Found at i:9851452 original size:81 final size:80
Alignment explanation
Indices: 9851141--9851436 Score: 282
Period size: 80 Copynumber: 3.7 Consensus size: 80
9851131 ATTACCAAAG
* * * * * ****
9851141 TACCCTCGATTTATAGAATTACTGTTTTACCCTC-ATTTACATAATTATCGTTTTACCC-CGATT
1 TACCCTCGATTTACAAAATTACCG-TTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* *
9851204 TACATAATTA-TCGTTT
65 TATAGAATTACT-GTTT
* ***
9851220 TACCCTCGATTTACAGAATTACCG-TTACCCTCGATTTAC--AATTACCATTTTACCCTCGATTT
1 TACCCTCGATTTACAAAATTACCGTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTT
* *
9851282 ACATAATTA-TCGTTT
66 ATAGAATTACT-GTTT
* * ***
9851297 TACCCTCGATTTACAGAATTACCGTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTT
1 TACCCTCGATTTACAAAATTACCGTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTT
9851362 ATAGAATTACTGTTT
66 ATAGAATTACTGTTT
* * *
9851377 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGATTTACAAAATTACCG-TTTACCCTCGATTTACAAAATTACCAAAATACCCT
9851437 TGGTTTGTGA
Statistics
Matches: 196, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
76 14 0.07
77 53 0.27
78 21 0.11
79 22 0.11
80 55 0.28
81 31 0.16
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACCGTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTT
ATAGAATTACTGTTT
Found at i:9851462 original size:81 final size:80
Alignment explanation
Indices: 9851220--9851464 Score: 210
Period size: 80 Copynumber: 3.1 Consensus size: 80
9851210 ATTATCGTTT
* * ***
9851220 TACCCTCGATTTACAGAATTACCG-TTACCCTCGATTTAC--AATTACCATTTTACCCTCGATTT
1 TACCCTTGATTTACAAAATTACCGTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTT
* * * ***
9851282 ACATAATTATCGTTT
66 ATAGAATTACCGCAA
* * * ***
9851297 TACCCTCGATTTACAGAATTACCGTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTT
1 TACCCTTGATTTACAAAATTACCGTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTT
* ***
9851362 ATAGAATTACTGTTT
66 ATAGAATTACCGCAA
* * * *
9851377 TACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTTGATTTACAAAATTACCG-TTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
9851442 TGT-GAAATTACCGCAA
65 TATAG-AATTACCGCAA
9851458 TACCCTT
1 TACCCTT
9851465 CAATTTGTAA
Statistics
Matches: 144, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
77 24 0.17
78 15 0.10
80 56 0.39
81 49 0.34
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (80 bp):
TACCCTTGATTTACAAAATTACCGTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTT
ATAGAATTACCGCAA
Found at i:9852686 original size:25 final size:25
Alignment explanation
Indices: 9852658--9852705 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9852648 TTATACCATG
* * *
9852658 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
9852683 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
9852706 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:9852808 original size:20 final size:20
Alignment explanation
Indices: 9852748--9852808 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
9852738 ATAAATATGG
*
9852748 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
9852768 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
9852788 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
9852808 T
1 T
9852809 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:9852885 original size:24 final size:24
Alignment explanation
Indices: 9852858--9853000 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
9852848 GAGGAAGTGA
9852858 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
9852882 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
9852906 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
9852929 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
9852953 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
9852977 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
9853001 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:9852951 original size:47 final size:47
Alignment explanation
Indices: 9852858--9853000 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
9852848 GAGGAAGTGA
9852858 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
9852906 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
9852953 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
9853001 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:9852974 original size:71 final size:72
Alignment explanation
Indices: 9852858--9853001 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
9852848 GAGGAAGTGA
*
9852858 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
9852921 CCAGTTAT
65 CCAGTTAT
** * *
9852929 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
9852994 CAGTTAT
66 CAGTTAT
9853001 A
1 A
9853002 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:9853254 original size:31 final size:32
Alignment explanation
Indices: 9853191--9853255 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
9853181 CGTTTACAGT
9853191 AAAGGCTTCGGCCCAAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAAGTAATATGAAATATGA
** *
9853223 AAAGGCTTCGGCCC-AGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAAGTAATATGAAATATGA
9853254 AA
1 AA
9853256 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 16 0.53
32 14 0.47
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (32 bp):
AAAGGCTTCGGCCCAAGTAATATGAAATATGA
Found at i:9862864 original size:29 final size:29
Alignment explanation
Indices: 9862823--9862903 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
9862813 AGTTTGGCAC
*
9862823 ACGACCTGTCACACGGTCATGTGTCACAA
1 ACGACCTGCCACACGGTCATGTGTCACAA
*
9862852 ACGACTTGCCACACGGTCATGTGTCACAA
1 ACGACCTGCCACACGGTCATGTGTCACAA
* *
9862881 ACGACCTGCCACACCGCCATGTG
1 ACGACCTGCCACACGGTCATGTG
9862904 GCATTTGTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.19
Consensus pattern (29 bp):
ACGACCTGCCACACGGTCATGTGTCACAA
Found at i:9864676 original size:43 final size:43
Alignment explanation
Indices: 9864526--9864664 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 43
9864516 CGTCCTAAAT
* * *
9864526 GTGGTCTTACATGTAATCACATATCGATGCCACTGTTCCAGAC
1 GTGGTCTTACACGTAATCACATATCGATGCCAATGTACCAGAC
* * *
9864569 AG-GGTC-TACACG-AATCAAATA-CGATGCCGATGTCCCAGAC
1 -GTGGTCTTACACGTAATCACATATCGATGCCAATGTACCAGAC
*
9864609 ATGGTCTTACACGTAATCACATATCGATGCCAATGTACCAGAC
1 GTGGTCTTACACGTAATCACATATCGATGCCAATGTACCAGAC
9864652 GTGGTCTTACACG
1 GTGGTCTTACACG
9864665 AGAACACATA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
40 20 0.25
41 14 0.17
42 13 0.16
43 33 0.41
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
GTGGTCTTACACGTAATCACATATCGATGCCAATGTACCAGAC
Found at i:9867205 original size:27 final size:27
Alignment explanation
Indices: 9867186--9867476 Score: 415
Period size: 27 Copynumber: 10.8 Consensus size: 27
9867176 ATTACCAAAG
9867186 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
9867213 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* **
9867240 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
9867267 TACCCTCGATTTACAGAATTAACATTT
1 TACCCTCGATTTATAGAATTACCATTT
9867294 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
**
9867321 TACCCTCGATTTATAGAA-TACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
9867347 TACCCTCGATTTATAGAATTTCCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
9867374 TACCC-CTAATTTATAGAATTACCATTT
1 TACCCTC-GATTTATAGAATTACCATTT
* *
9867401 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
9867428 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
9867455 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
9867477 TAAAATACCT
Statistics
Matches: 236, Mismatches: 25, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
26 25 0.11
27 211 0.89
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:9867485 original size:27 final size:27
Alignment explanation
Indices: 9867455--9867675 Score: 130
Period size: 27 Copynumber: 8.2 Consensus size: 27
9867445 ATTATCGTTT
* *
9867455 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
** *
9867482 TA-CCTTTAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
*
9867509 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * **
9867536 TACCC-CTGGTTTGTAAAATTATTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
9867563 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * *
9867590 TACCCT-TAGCTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
9867617 TACCC-CTGATTTGTGAAATTATCGAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * * * *
9867644 TACTCTCGATTTGTAGAATTATCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
9867671 TACCC
1 TACCC
9867676 CTGTAGGGTA
Statistics
Matches: 158, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.04
27 144 0.91
28 7 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:9867622 original size:54 final size:54
Alignment explanation
Indices: 9867469--9867678 Score: 208
Period size: 54 Copynumber: 3.9 Consensus size: 54
9867459 CTCGATTTAC
* * ** **
9867469 AAAATTACTAAAATACCTTTAGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCT-GATTTGT
* * ** *
9867523 AAAATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
*
9867577 AAAATTACCAAAATACCCTTAGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * * * * *
9867631 GAAATTATCGAAATACTC-TCGATTTGTAGAATTATCGAAATACCCCTG
1 AAAATTACCAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCCCTG
9867679 TAGGGTAGAA
Statistics
Matches: 128, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.02
54 122 0.95
55 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:9867630 original size:81 final size:81
Alignment explanation
Indices: 9867469--9867638 Score: 225
Period size: 81 Copynumber: 2.1 Consensus size: 81
9867459 CTCGATTTAC
* ** *
9867469 AAAATTACTAAAATACCTTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTATTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
*
9867534 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* ** * *
9867550 AAAATTATTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAGCT-TGTAAAATTACCA
1 AAAATTATTAAAATACCCCTAGTTTACAAAATTACCAAAATACCC-TAGATCAGTAAAATTACCA
9867614 AAATACCCCTGATTTGT
65 AAATACCCCTGATTTGT
*
9867631 GAAATTAT
1 AAAATTAT
9867639 CGAAATACTC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 74 0.96
82 3 0.04
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTATTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:9867657 original size:81 final size:81
Alignment explanation
Indices: 9867496--9867675 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
9867486 TTTAGTTTAC
* * *
9867496 AAAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATTAA
1 AAAATTACCAAAATACCCTAGATCAGTAAAATTACCAAAATACCCCTGATTTGTAAAATTATCAA
*
9867561 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* * * *
9867577 AAAATTACCAAAATACCCTTAGCT-TGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATCG
1 AAAATTACCAAAATACCC-TAGATCAGTAAAATTACCAAAATACCCCTGATTTGTAAAATTATCA
*
9867641 AAATA-CTCTCGATTTGT
65 AAATACCCCT-GATTTGT
* * *
9867658 AGAATTATCGAAATACCC
1 AAAATTACCAAAATACCC
9867676 CTGTAGGGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 3 0.04
81 79 0.93
82 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTAGATCAGTAAAATTACCAAAATACCCCTGATTTGTAAAATTATCAA
AATACCCCTGATTTGT
Found at i:9867691 original size:81 final size:78
Alignment explanation
Indices: 9867525--9867855 Score: 242
Period size: 81 Copynumber: 4.1 Consensus size: 78
9867515 CGATCAGTAA
* ** * * *
9867525 AATTACCAAAATACCCCTGGTTTGTAAAATTATTAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 AATTACCAAAATACCCCT-GTTTGTGAAATTATCGAAATA--CCTCGTTTGTAGAATTACCGAAA
* *
9867590 TA-CCCT-TAGCTTGTAA
63 TACCCCTGTAG--GGTAG
*
9867606 AATTACCAAAATACCCCTGATTTGTGAAATTATCGAAATACTCTCGATTTGTAGAATTATCGAAA
1 AATTACCAAAATACCCCTG-TTTGTGAAATTATCGAAATAC-CTCG-TTTGTAGAATTACCGAAA
9867671 TACCCCTGTAGGGTAG
63 TACCCCTGTAGGGTAG
* * * * **
9867687 AATTACCGAAATACCTCTG-TAGGGTAGAATTA-CTGAAATAACC-CTGTAGGGTAGAATTACCG
1 AATTACCAAAATACCCCTGTTTGTG-A-AATTATC-GAAAT-ACCTC-GT-TTGTAGAATTACCG
9867749 AAATACCCCTGTAGGGTAG
60 AAATACCCCTGTAGGGTAG
* * * * * ** *
9867768 AATTACCGAAATACCCCTG-TAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACTGAA
1 AATTACCAAAATACCCCTGTTTGTG-A-AATTATCGAAATACCTC-GT-TTGTAGAATTACCGAA
*
9867832 ATACCCTTGTAGGGTAG
62 ATACCCCTGTAGGGTAG
9867849 AATTACC
1 AATTACC
9867856 GAGATACCTT
Statistics
Matches: 217, Mismatches: 20, Indels: 26
0.83 0.08 0.10
Matches are distributed among these distances:
79 4 0.02
80 11 0.05
81 193 0.89
82 6 0.03
83 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (78 bp):
AATTACCAAAATACCCCTGTTTGTGAAATTATCGAAATACCTCGTTTGTAGAATTACCGAAATAC
CCCTGTAGGGTAG
Found at i:9867874 original size:27 final size:27
Alignment explanation
Indices: 9867656--9867863 Score: 335
Period size: 27 Copynumber: 7.7 Consensus size: 27
9867646 CTCTCGATTT
*
9867656 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
9867683 GTAGAATTACCGAAATACCTCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
9867710 GTAGAATTACTGAAATAACCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
9867737 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
9867764 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
9867791 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
9867818 GTAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
9867845 GTAGAATTACCGAGATACC
1 GTAGAATTACCGAAATACC
9867864 TTGGTGGGGT
Statistics
Matches: 168, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 168 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:9868123 original size:25 final size:25
Alignment explanation
Indices: 9868085--9868154 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
9868075 AGGAAGTGCT
* *
9868085 AAAAGGGCTATGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
9868110 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
9868135 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
9868155 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:9868167 original size:24 final size:24
Alignment explanation
Indices: 9868084--9868167 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
9868074 GAGGAAGTGC
*
9868084 TAAAAGGGCTATGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
9868108 CGAAAAGGGCTTTGCCCCAGTTTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
*
9868133 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
9868157 TAAAAGAGGCT
1 TAAAAG-GGCT
9868168 AGGCCTCTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 41 0.76
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:9868420 original size:31 final size:31
Alignment explanation
Indices: 9868380--9868456 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
9868370 CAGTAAAAGC
9868380 TTCGG-CCAGTGATATGATTTATGAAAAGGCT
1 TTCGGCCCAGTGATATGATTTATGAAAAGG-T
9868411 TT-GGCCCAGTGATATGATTTATGAAAAGGT
1 TTCGGCCCAGTGATATGATTTATGAAAAGGT
9868441 TTCGGCCCAGT-ATATG
1 TTCGGCCCAGTGATATG
9868457 TCGAGACTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
30 10 0.23
31 34 0.77
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.32
Consensus pattern (31 bp):
TTCGGCCCAGTGATATGATTTATGAAAAGGT
Found at i:9869750 original size:6 final size:6
Alignment explanation
Indices: 9869739--9869763 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9869729 AAGCCCCCTT
9869739 TCAGTA TCAGTA TCAGTA TCAGTA T
1 TCAGTA TCAGTA TCAGTA TCAGTA T
9869764 GCACAAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (6 bp):
TCAGTA
Found at i:9873706 original size:20 final size:20
Alignment explanation
Indices: 9873653--9873708 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
9873643 ATCATATGAG
* *
9873653 ACTGTTTTATTATGGG-CCA
1 ACTGTATTAATATGGGCCCA
9873672 ACTGTATTGAA-ATGGGCCCA
1 ACTGTATT-AATATGGGCCCA
*
9873692 ACTGTGTTAATATGGGC
1 ACTGTATTAATATGGGC
9873709 AAGGCCCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (20 bp):
ACTGTATTAATATGGGCCCA
Found at i:9873768 original size:60 final size:61
Alignment explanation
Indices: 9873701--9873836 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 61
9873691 AACTGTGTTA
* * * *
9873701 ATATGGGCAAGGCCCATTAT-ATCTCGA-CTTGTAATAGGGCTACGGCCCAGACTGATACTG
1 ATATGGGCAAGGCCCAGTATGCT-TCGATATTGTAATAGGGCTACGGCCCAGACTAATACTG
* * ** *
9873761 ATATGGGCTAGGCCCAGTATGCTTTGATATTGTAATAGGGCTTTGGCCCAGATTAATACTG
1 ATATGGGCAAGGCCCAGTATGCTTCGATATTGTAATAGGGCTACGGCCCAGACTAATACTG
9873822 ATATGGGCTAAGGCC
1 ATATGGGC-AAGGCC
9873837 TAGTTAACAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 21 0.33
61 37 0.59
62 5 0.08
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (61 bp):
ATATGGGCAAGGCCCAGTATGCTTCGATATTGTAATAGGGCTACGGCCCAGACTAATACTG
Found at i:9888808 original size:25 final size:27
Alignment explanation
Indices: 9888776--9888832 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
9888766 GTATCTTGTA
*
9888776 TTTTTATA-AATCATTAAGTACACTT-
1 TTTTTATATAATCATAAAGTACACTTG
* *
9888801 TTTTTATATTATTATAAAGTACACTTG
1 TTTTTATATAATCATAAAGTACACTTG
9888828 TTTTT
1 TTTTT
9888833 CTTTAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 8 0.30
26 14 0.52
27 5 0.19
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (27 bp):
TTTTTATATAATCATAAAGTACACTTG
Found at i:9889499 original size:18 final size:19
Alignment explanation
Indices: 9889465--9889500 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9889455 AAAATAATCT
9889465 TTAATACTAAGTATATAAC
1 TTAATACTAAGTATATAAC
*
9889484 TTAATACTTA-TATATAA
1 TTAATACTAAGTATATAA
9889501 TCAAACTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (19 bp):
TTAATACTAAGTATATAAC
Found at i:9892920 original size:15 final size:15
Alignment explanation
Indices: 9892902--9892932 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9892892 ATCCTCTGGG
9892902 CCAGCAGGCTCTTTT
1 CCAGCAGGCTCTTTT
9892917 CCAGCAGGCTCTTTT
1 CCAGCAGGCTCTTTT
9892932 C
1 C
9892933 TGTCATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.35, G:0.19, T:0.32
Consensus pattern (15 bp):
CCAGCAGGCTCTTTT
Found at i:9897036 original size:14 final size:15
Alignment explanation
Indices: 9897017--9897050 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
9897007 TTTATTTGCT
9897017 TATGACTTACTAAG-
1 TATGACTTACTAAGC
9897031 TATGACTTACTAAGC
1 TATGACTTACTAAGC
9897046 TATGA
1 TATGA
9897051 TAGCTTACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (15 bp):
TATGACTTACTAAGC
Found at i:9905733 original size:34 final size:34
Alignment explanation
Indices: 9905685--9905782 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
9905675 TCTAATTTGT
*
9905685 TATGACATTTTGATATGATATATGTTTATGGAAA
1 TATGACATTATGATATGATATATGTTTATGGAAA
* *
9905719 TATGACATTATGATATGATATATGTTTCTGGTAA
1 TATGACATTATGATATGATATATGTTTATGGAAA
* * *
9905753 TATGACA-TACTGATCTGATATTTGTATATG
1 TATGACATTA-TGATATGATATATGTTTATG
9905783 TCTACATCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 2 0.04
34 54 0.96
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (34 bp):
TATGACATTATGATATGATATATGTTTATGGAAA
Found at i:9907152 original size:34 final size:33
Alignment explanation
Indices: 9907104--9907172 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
9907094 GTTGACCGTT
* * *
9907104 ATGAAAGTGAATATGATAGTATGTTATTCATGCC
1 ATGAAAGTAAATATGAGAGTATGTT-GTCATGCC
* *
9907138 ATGATAGTAAATATGAGGGTATGTTGTCATGCC
1 ATGAAAGTAAATATGAGAGTATGTTGTCATGCC
9907171 AT
1 AT
9907173 ATGTAAGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 9 0.30
34 21 0.70
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (33 bp):
ATGAAAGTAAATATGAGAGTATGTTGTCATGCC
Found at i:9907945 original size:21 final size:21
Alignment explanation
Indices: 9907921--9907961 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9907911 GCTTATTCTA
*
9907921 GTTCTAGGGAATAGAAAGGTT
1 GTTCTAGGGAATAAAAAGGTT
9907942 GTTCTAGGGAATAAAAAGGT
1 GTTCTAGGGAATAAAAAGGT
9907962 AATGTGGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.27
Consensus pattern (21 bp):
GTTCTAGGGAATAAAAAGGTT
Found at i:9909641 original size:5 final size:5
Alignment explanation
Indices: 9909633--9909679 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
9909623 AGCATATAAT
*
9909633 ATATC ATATC -TAATC ATATC ATATC ATATCTC ATATC ATTTC ATATC
1 ATATC ATATC AT-ATC ATATC ATATC ATA--TC ATATC ATATC ATATC
9909680 GTTGCCCCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
4 1 0.03
5 29 0.81
6 1 0.03
7 5 0.14
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATC
Found at i:9909650 original size:10 final size:11
Alignment explanation
Indices: 9909632--9909671 Score: 57
Period size: 10 Copynumber: 3.7 Consensus size: 11
9909622 GAGCATATAA
9909632 TATATCATATC
1 TATATCATATC
9909643 TA-ATCATATC
1 TATATCATATC
9909653 -ATATCATATC
1 TATATCATATC
9909663 TCATATCAT
1 T-ATATCAT
9909672 TTCATATCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.04
10 16 0.62
11 2 0.08
12 7 0.27
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (11 bp):
TATATCATATC
Found at i:9909666 original size:17 final size:17
Alignment explanation
Indices: 9909633--9909679 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
9909623 AGCATATAAT
*
9909633 ATATCATATC-TA-ATC
1 ATATCATATCATATCTC
9909648 ATATCATATCATATCTC
1 ATATCATATCATATCTC
*
9909665 ATATCATTTCATATC
1 ATATCATATCATATC
9909680 GTTGCCCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 10 0.36
16 2 0.07
17 16 0.57
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATCATATCATATCTC
Found at i:9909931 original size:4 final size:4
Alignment explanation
Indices: 9909924--9910030 Score: 214
Period size: 4 Copynumber: 26.8 Consensus size: 4
9909914 TGATGTCATT
9909924 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9909972 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
9910020 CATA CATA CAT
1 CATA CATA CAT
9910031 CACAAGTCCT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 103 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:9916558 original size:26 final size:24
Alignment explanation
Indices: 9916529--9916589 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
9916519 TATTATTATT
*
9916529 ATTATTTTTACCATTTCCTAATAACA
1 ATTATTTTTACCATTT-ATAA-AACA
* *
9916555 ATTAAATTTTATCATTTATAAAACA
1 ATT-ATTTTTACCATTTATAAAACA
9916580 ATGTATTTTT
1 AT-TATTTTT
9916590 CACAAACTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 11 0.38
26 7 0.24
27 11 0.38
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (24 bp):
ATTATTTTTACCATTTATAAAACA
Found at i:9917935 original size:36 final size:36
Alignment explanation
Indices: 9917854--9917935 Score: 83
Period size: 36 Copynumber: 2.2 Consensus size: 36
9917844 TATTTTCCCT
* *
9917854 TTTTCTTTCTTTTTCTTCTTTTCTTTCCCCTGTTTCG
1 TTTTCTTT-TTGTTCTTCTTTCCTTTCCCCTGTTTCG
** * ***
9917891 AATGCTTTTTGTTCTTCTTTCCTTTCTTTTGTTTCG
1 TTTTCTTTTTGTTCTTCTTTCCTTTCCCCTGTTTCG
9917927 TTTTCTTTT
1 TTTTCTTTT
9917936 ATTTAGTTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
36 29 0.85
37 5 0.15
ACGTcount: A:0.02, C:0.22, G:0.07, T:0.68
Consensus pattern (36 bp):
TTTTCTTTTTGTTCTTCTTTCCTTTCCCCTGTTTCG
Found at i:9928630 original size:23 final size:23
Alignment explanation
Indices: 9928594--9928649 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
9928584 ATGGGAAGTC
* **
9928594 CATTAGAAAAATTGTTTGGTTTGG
1 CATT-GAAATATTGTTTGGAATGG
*
9928618 GATTGAAATATTGTTTGGAATGG
1 CATTGAAATATTGTTTGGAATGG
9928641 CATTGAAAT
1 CATTGAAAT
9928650 CAGAGTTGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.39
Consensus pattern (23 bp):
CATTGAAATATTGTTTGGAATGG
Found at i:9931747 original size:56 final size:56
Alignment explanation
Indices: 9931656--9931876 Score: 318
Period size: 56 Copynumber: 3.9 Consensus size: 56
9931646 TCTTACATGT
* * * * * *
9931656 AATCACATATCGATGCCAACGTACTAGACGGGGTCTAACTTGTACACATATATTGG
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATTGG
* *
9931712 AATCACATATCGATTCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATTGG
* * *
9931768 AATCACATAAT-GATGCCAACATATTAAACATGGTCTTACTCGCACATATATATTGG
1 AATCACAT-ATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATTGG
*
9931824 AATCACATATCGTTGCCAACGTATTAAACGTGGTCTTACTCGCACACATATAT
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATAT
9931877 CGATGCCATG
Statistics
Matches: 146, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
55 2 0.01
56 142 0.97
57 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATTGG
Found at i:9935855 original size:49 final size:49
Alignment explanation
Indices: 9935794--9935891 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
9935784 TTCCAAAAAG
*
9935794 ATAATCTCTTGATCTCGTTATGAAAAGGAATGTAAATCGAAAAGGTAAT
1 ATAATCTCTTGATCTCATTATGAAAAGGAATGTAAATCGAAAAGGTAAT
* * *
9935843 ATAATCTTTTGATCTCATTATGAAAAGGAATGTAAATTGAAAGGGTAAT
1 ATAATCTCTTGATCTCATTATGAAAAGGAATGTAAATCGAAAAGGTAAT
9935892 TCTTGAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (49 bp):
ATAATCTCTTGATCTCATTATGAAAAGGAATGTAAATCGAAAAGGTAAT
Found at i:9937670 original size:96 final size:96
Alignment explanation
Indices: 9937490--9937671 Score: 256
Period size: 96 Copynumber: 1.9 Consensus size: 96
9937480 ATGATGCCGT
* ** * *
9937490 TCACACAAGCTGACGAGTATCTGCAACAAATGTTGGAACTCAGCCATCGGTAGGACATTCAGGAC
1 TCACACAAGCTGACGAGCATCTGCAACAAATGCCGAAACTCAGCCATCGGTAAGACATTCAGGAC
* ** *
9937555 TAGCACCCTGAACATGGTAACCTGGGTCTGC
66 GAGCACCCAAAACAAGGTAACCTGGGTCTGC
* * *
9937586 TCACACAAGCTGATGAGCATCTGGAACAAATGCCGAAACTCAGCCATCGGTAAGACATTCAGTAC
1 TCACACAAGCTGACGAGCATCTGCAACAAATGCCGAAACTCAGCCATCGGTAAGACATTCAGGAC
9937651 GAGCACCCAAAACAAGGTAAC
66 GAGCACCCAAAACAAGGTAAC
9937672 TCTAATGACA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (96 bp):
TCACACAAGCTGACGAGCATCTGCAACAAATGCCGAAACTCAGCCATCGGTAAGACATTCAGGAC
GAGCACCCAAAACAAGGTAACCTGGGTCTGC
Found at i:9939511 original size:104 final size:104
Alignment explanation
Indices: 9939331--9939538 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
9939321 TATCACCCTT
*
9939331 ATGACAGTGTTTAGGTTGTGTTTAAATTATGAAATCAAATAAGGTGGTTAGTGGAGAGATTTAGT
1 ATGACAGTGTTCAGGTTGTGTTTAAATTATGAAATCAAATAAGGTGGTTAGTGGAGAGATTTAGT
9939396 GGGAGTGTGGGTGGTTAATATTTGTTTAAAATAAAATAA
66 GGGAGTGTGGGTGGTTAATATTTGTTTAAAATAAAATAA
9939435 ATGACAGTGTTCAGGTTGTGTTTAAATTATGAAATCAAATAAGGTGGTTAGTGGAGAGATTTAGT
1 ATGACAGTGTTCAGGTTGTGTTTAAATTATGAAATCAAATAAGGTGGTTAGTGGAGAGATTTAGT
9939500 GGGAGTGTGGGTGGTTAATATTTGTTTAAAATAAAATAA
66 GGGAGTGTGGGTGGTTAATATTTGTTTAAAATAAAATAA
9939539 TTAGTTTTCA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (104 bp):
ATGACAGTGTTCAGGTTGTGTTTAAATTATGAAATCAAATAAGGTGGTTAGTGGAGAGATTTAGT
GGGAGTGTGGGTGGTTAATATTTGTTTAAAATAAAATAA
Found at i:9940207 original size:3 final size:3
Alignment explanation
Indices: 9940199--9940280 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
9940189 CATGGTTAAG
9940199 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9940247 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
9940281 ATATCATGTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:9943463 original size:38 final size:38
Alignment explanation
Indices: 9943419--9943491 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
9943409 ATAAATATAT
9943419 AATCATAAGATAGGGAGAGAAGTGAAACTTCCTAAATG
1 AATCATAAGATAGGGAGAGAAGTGAAACTTCCTAAATG
9943457 AATCATAAGATAGGGAGAGAAGTGAAACTTCCTAA
1 AATCATAAGATAGGGAGAGAAGTGAAACTTCCTAA
9943492 TTGATGAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (38 bp):
AATCATAAGATAGGGAGAGAAGTGAAACTTCCTAAATG
Found at i:9955007 original size:48 final size:49
Alignment explanation
Indices: 9954940--9955036 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 49
9954930 ACACGGGTAG
* * *
9954940 ACCACACGCCCATGCCTATTTAAAAGATTGT-AACATGGCCTGAGCCAC
1 ACCACACGCCCATGCCTATTTAAAAGACTCTAAACATGGCCTAAGCCAC
* * **
9954988 ACCACACGGCCATGTCTATTTAGTAGACTCTAAACATGGCCTAAGCCAC
1 ACCACACGCCCATGCCTATTTAAAAGACTCTAAACATGGCCTAAGCCAC
9955037 CTTACACAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 25 0.61
49 16 0.39
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (49 bp):
ACCACACGCCCATGCCTATTTAAAAGACTCTAAACATGGCCTAAGCCAC
Found at i:9956144 original size:40 final size:40
Alignment explanation
Indices: 9956093--9956185 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
9956083 AGGCCTACTG
9956093 ACACAAGCTGTCAGTAAGACGTAGCTACACAGTGCTACAC
1 ACACAAGCTGTCAGTAAGACGTAGCTACACAGTGCTACAC
* *
9956133 ACACAAGCTGTCAGTAAGACGTAGCTACACGGTGCTACGC
1 ACACAAGCTGTCAGTAAGACGTAGCTACACAGTGCTACAC
9956173 ACACAAGCTGTCA
1 ACACAAGCTGTCA
9956186 AGTATCCGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.17
Consensus pattern (40 bp):
ACACAAGCTGTCAGTAAGACGTAGCTACACAGTGCTACAC
Found at i:9957501 original size:19 final size:19
Alignment explanation
Indices: 9957477--9957520 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
9957467 GTTACATTAA
9957477 TCCCTCTCCCATATGTGAT
1 TCCCTCTCCCATATGTGAT
9957496 TCCCTCTCCCATATGTGAT
1 TCCCTCTCCCATATGTGAT
*
9957515 TTCCTC
1 TCCCTC
9957521 GCCATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.14, C:0.39, G:0.09, T:0.39
Consensus pattern (19 bp):
TCCCTCTCCCATATGTGAT
Found at i:9958366 original size:18 final size:18
Alignment explanation
Indices: 9958343--9958377 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9958333 CTGATAAATT
*
9958343 TGTTGTTTGTTAGCAAAA
1 TGTTGTTTGTTACCAAAA
9958361 TGTTGTTTGTTACCAAA
1 TGTTGTTTGTTACCAAA
9958378 CAAAAAGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.46
Consensus pattern (18 bp):
TGTTGTTTGTTACCAAAA
Found at i:9961248 original size:3 final size:3
Alignment explanation
Indices: 9961236--9961390 Score: 303
Period size: 3 Copynumber: 52.0 Consensus size: 3
9961226 CATGGTTGAG
9961236 CTT C-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9961283 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9961331 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9961379 CTT CTT CTT CTT
1 CTT CTT CTT CTT
9961391 TATTTTAAAA
Statistics
Matches: 151, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
3 149 0.99
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Done.