Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold678
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1173314
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 74412 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:606013 original size:53 final size:53
Alignment explanation
Indices: 605933--606036 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
605923 ATTTCAATAG
* *
605933 TAGTTGCAACATACCCATACACGATGAGATATGAAATGCTTAGAGCAGATGCC
1 TAGTTGCAACATACCCACACACGATGAGATATGAAATGCATAGAGCAGATGCC
* *
605986 TAGTTGCAACATACCCACACATGATGAGATATGAAATGCATATAGCAGATG
1 TAGTTGCAACATACCCACACACGATGAGATATGAAATGCATAGAGCAGATG
606037 TCTTGACTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (53 bp):
TAGTTGCAACATACCCACACACGATGAGATATGAAATGCATAGAGCAGATGCC
Found at i:610715 original size:3 final size:3
Alignment explanation
Indices: 610709--610734 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
610699 CCGTCACGAT
610709 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
610735 TTTTATAGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:611297 original size:2 final size:2
Alignment explanation
Indices: 611292--611342 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
611282 AACTTATCTC
611292 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
611334 AG AG AG AG A
1 AG AG AG AG A
611343 TATTGTGAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:614114 original size:2 final size:2
Alignment explanation
Indices: 614107--614153 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
614097 TGTAAAATGA
614107 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
614149 TC TC T
1 TC TC T
614154 TTCTTAACCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:614713 original size:28 final size:28
Alignment explanation
Indices: 614672--615196 Score: 488
Period size: 28 Copynumber: 18.8 Consensus size: 28
614662 AATAAAACAC
* *
614672 GGATAGCATTGTAACATAGCACAGTCAT
1 GGATATCATTGTAACATAACACAGTCAT
* **
614700 TGATATC-TCTGTAACATAACACAGAAAT
1 GGATATCAT-TGTAACATAACACAGTCAT
*
614728 GGATATCATTGTAATC-TAACACAGTCAC
1 GGATATCATTGTAA-CATAACACAGTCAT
* * * * *
614756 GAATATCAATGTAACATAGCTCAGTCAC
1 GGATATCATTGTAACATAACACAGTCAT
*
614784 GGATATCATTGTAACATAACACAGTCAC
1 GGATATCATTGTAACATAACACAGTCAT
* * * *
614812 GGATATCAATGTAACATAGCTCAGTCAC
1 GGATATCATTGTAACATAACACAGTCAT
614840 GGATATCATTGTAACATAACACAGTCAT
1 GGATATCATTGTAACATAACACAGTCAT
* * *
614868 AGACATCATTGTAACATAACTCAGTCAT
1 GGATATCATTGTAACATAACACAGTCAT
*
614896 GGATATCATTGTAACA-ATACTCAGTCAT
1 GGATATCATTGTAACATA-ACACAGTCAT
* * ** *
614924 GGATATAACTGTAACATAATTCAGACAT
1 GGATATCATTGTAACATAACACAGTCAT
* * *
614952 GGATATCATTGTAACATAGCTCAATC-T
1 GGATATCATTGTAACATAACACAGTCAT
** * * *
614979 CTAATATAACTGTAACATAACACAGTCAC
1 -GGATATCATTGTAACATAACACAGTCAT
* ** *
615008 GAATATCATTGTAACATAACTTAGTCAC
1 GGATATCATTGTAACATAACACAGTCAT
** * *
615036 CAATATCATTGTAACATAAAACAGTCAC
1 GGATATCATTGTAACATAACACAGTCAT
** * * *
615064 CAATATCATTGTTACATAACTCAGTCAC
1 GGATATCATTGTAACATAACACAGTCAT
* *
615092 GGATATTATTGTAACATAACTCAGTCA-
1 GGATATCATTGTAACATAACACAGTCAT
* *
615119 CGATTATCATTATAACATAACACAGTCAT
1 GGA-TATCATTGTAACATAACACAGTCAT
615148 GGATATC-TCTGTAACATAACACAGTCAT
1 GGATATCAT-TGTAACATAACACAGTCAT
615176 GGATATC-TCTGTAACATAACA
1 GGATATCAT-TGTAACATAACA
615197 AACAAATCAT
Statistics
Matches: 417, Mismatches: 69, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
27 7 0.02
28 405 0.97
29 5 0.01
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (28 bp):
GGATATCATTGTAACATAACACAGTCAT
Found at i:615280 original size:28 final size:28
Alignment explanation
Indices: 615240--615369 Score: 130
Period size: 28 Copynumber: 4.8 Consensus size: 28
615230 ATCACACAAT
* * *
615240 GGATATCATTGTAACCTTATACAGTCAC
1 GGATATCATTGTAACATAACACAGTCAC
615268 GGATATCATTGTAACATAACACAGTCAC
1 GGATATCATTGTAACATAACACAGTCAC
615296 GGATATCAATTG-AACAT-A-ACA--CA-
1 GGATATC-ATTGTAACATAACACAGTCAC
* * *
615319 GGATATCATTGTAAAATAACACATTCAT
1 GGATATCATTGTAACATAACACAGTCAC
*
615347 GGATAGT-ATTGTTACATAACACA
1 GGATA-TCATTGTAACATAACACA
615370 TTCATGTAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
22 4 0.05
23 11 0.12
24 3 0.03
25 3 0.03
26 3 0.03
27 3 0.03
28 56 0.64
29 5 0.06
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (28 bp):
GGATATCATTGTAACATAACACAGTCAC
Found at i:615322 original size:23 final size:23
Alignment explanation
Indices: 615268--615341 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 23
615258 ATACAGTCAC
*
615268 GGATATCATTGTAACATAACACAGTCA
1 GGATATCATTGTAAAAT-A-ACA--CA
*
615295 CGGATATCAATTG-AACATAACACA
1 -GGATATC-ATTGTAAAATAACACA
615319 GGATATCATTGTAAAATAACACA
1 GGATATCATTGTAAAATAACACA
615342 TTCATGGATA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 4 0.09
23 17 0.40
24 2 0.05
26 3 0.07
27 1 0.02
28 12 0.28
29 4 0.09
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.24
Consensus pattern (23 bp):
GGATATCATTGTAAAATAACACA
Found at i:615364 original size:51 final size:50
Alignment explanation
Indices: 615268--615369 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 50
615258 ATACAGTCAC
*
615268 GGATATCATTGTAACATAACACAGTCACGGATATCAATTGAACATAACACA
1 GGATATCATTGTAAAATAACACAGTCACGGATAT-AATTGAACATAACACA
* * *
615319 GGATATCATTGTAAAATAACACATTCATGGATAGT-ATTGTTACATAACACA
1 GGATATCATTGTAAAATAACACAGTCACGGATA-TAATTG-AACATAACACA
615370 TTCATGTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 4 0.09
51 40 0.89
52 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (50 bp):
GGATATCATTGTAAAATAACACAGTCACGGATATAATTGAACATAACACA
Found at i:622053 original size:2 final size:2
Alignment explanation
Indices: 622046--622107 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
622036 AACGTAGATT
*
622046 TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
622088 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
622108 GTTTATAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:622661 original size:2 final size:2
Alignment explanation
Indices: 622654--622732 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
622644 GGAAAAACAA
622654 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
622696 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
622733 AACTTAAACC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:639864 original size:14 final size:14
Alignment explanation
Indices: 639847--639876 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
639837 TATTAGTAAT
639847 ATAGTAATGTAGCA
1 ATAGTAATGTAGCA
639861 ATAGTAATGTAGCA
1 ATAGTAATGTAGCA
639875 AT
1 AT
639877 TTACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
ATAGTAATGTAGCA
Found at i:642636 original size:2 final size:2
Alignment explanation
Indices: 642629--642663 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
642619 ATCTTACCTA
*
642629 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AT AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
642664 AAAAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (2 bp):
AG
Found at i:644034 original size:14 final size:14
Alignment explanation
Indices: 644017--644046 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
644007 TATTAGTAAT
644017 ATAGTAATGTAGCA
1 ATAGTAATGTAGCA
644031 ATAGTAATGTAGCA
1 ATAGTAATGTAGCA
644045 AT
1 AT
644047 TTACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
ATAGTAATGTAGCA
Found at i:646806 original size:2 final size:2
Alignment explanation
Indices: 646799--646844 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
646789 ATCTTACCTA
646799 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
646841 AG AG
1 AG AG
646845 TTTACCCACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:647718 original size:138 final size:138
Alignment explanation
Indices: 647470--647749 Score: 542
Period size: 138 Copynumber: 2.0 Consensus size: 138
647460 TGTATCATTT
*
647470 AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCCTATTGCCAATTATTACAAC
1 AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCATATTGCCAATTATTACAAC
647535 AATTATCAACAAGTCCCTTTCAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC
66 AATTATCAACAAGTCCCTTTCAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC
647600 CGTTGCTA
131 CGTTGCTA
647608 AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCATATTGCCAATTATTACAAC
1 AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCATATTGCCAATTATTACAAC
*
647673 AATTATCAACAAGTCCCTTTTAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC
66 AATTATCAACAAGTCCCTTTCAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC
647738 CGTTGCTA
131 CGTTGCTA
647746 AAAA
1 AAAA
647750 AGCAAGGACT
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 140 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (138 bp):
AAAATTGATCATCTTGAATATGTTCTGAAACAATCCATTGACGTCATATTGCCAATTATTACAAC
AATTATCAACAAGTCCCTTTCAGAATCATCAGTGCCATCCTCTTTCAAAGAAGCTGTAGTCCGCC
CGTTGCTA
Found at i:649323 original size:3 final size:3
Alignment explanation
Indices: 649315--649349 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
649305 TATAAATGTT
649315 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
649350 GTTTATTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:656506 original size:16 final size:16
Alignment explanation
Indices: 656485--656515 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
656475 TAGATGTGAA
656485 AATTTTCTTACCTGGT
1 AATTTTCTTACCTGGT
656501 AATTTTCTTACCTGG
1 AATTTTCTTACCTGG
656516 AAATATTCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (16 bp):
AATTTTCTTACCTGGT
Found at i:656692 original size:2 final size:2
Alignment explanation
Indices: 656685--656718 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
656675 CCGGCAGCTA
656685 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
656719 TTTAACCCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:658769 original size:18 final size:18
Alignment explanation
Indices: 658746--658793 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
658736 GGGACGAATT
*
658746 ACAGTTCA-CACACATATC
1 ACAGTTCACCA-ACAGATC
658764 ACAGTTCACCAACAGATC
1 ACAGTTCACCAACAGATC
*
658782 ACAGTTCTCCAA
1 ACAGTTCACCAA
658794 AAGTTAAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.38, C:0.33, G:0.08, T:0.21
Consensus pattern (18 bp):
ACAGTTCACCAACAGATC
Found at i:666460 original size:28 final size:28
Alignment explanation
Indices: 666420--666918 Score: 800
Period size: 28 Copynumber: 17.8 Consensus size: 28
666410 CAATTCGCTT
666420 TGTCTACCGGGATGTTACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
*
666448 TGTCTACCAGGATGTTACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
* *
666476 TGTCTATCGGGATGTCACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
666504 TGTCTACCGGGATGTTACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
666532 TGTCTACCGGGATGTTACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
*
666560 TGTCTACCGGGATGTTACTGGCAATAAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
* * *
666588 TGTCTACCGGGCTGTTACAGGCAATGCA
1 TGTCTACCGGGATGTTACTGGCAATGAA
* * *
666616 TGTCTACCGGGCTGTTACAGGCAATGAC
1 TGTCTACCGGGATGTTACTGGCAATGAA
* *
666644 TGTCTACCGGGATATCACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
*
666672 TGTTTACCGGGATGTTACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
666700 TGTCTACCGGGATGTTACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
*
666728 TGTCTACCGGGATGTCACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
*
666756 TGTCTACCGGGATGTTACTGCCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
*
666784 TGTCTACCGGGATGTCACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
* *
666812 TGTCTATCGGGATGTTACAGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
*
666840 TGTCTACCGGGATGTCACTGGCAATGAA
1 TGTCTACCGGGATGTTACTGGCAATGAA
* * *
666868 TGTCTATCGGGATGTTACAGGCAATGCA
1 TGTCTACCGGGATGTTACTGGCAATGAA
666896 TGTCTACCGGGATGTTACTGGCA
1 TGTCTACCGGGATGTTACTGGCA
666919 CTACGTGTAC
Statistics
Matches: 432, Mismatches: 39, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 432 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (28 bp):
TGTCTACCGGGATGTTACTGGCAATGAA
Found at i:667978 original size:35 final size:35
Alignment explanation
Indices: 667896--667978 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
667886 TCCGTGATCT
* * * **
667896 ATGATCATCCTAGACCAAAACAAACAAGTTAGATCC
1 ATGATCATCTTATA-CAAAACAAACAAGGTAGATAA
*
667932 ATGATCTTCTTATACAAAACAAACAAGGTAGATAA
1 ATGATCATCTTATACAAAACAAACAAGGTAGATAA
*
667967 ATGGTCATCTTA
1 ATGATCATCTTA
667979 AATTATTACA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 28 0.72
36 11 0.28
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25
Consensus pattern (35 bp):
ATGATCATCTTATACAAAACAAACAAGGTAGATAA
Found at i:668002 original size:38 final size:37
Alignment explanation
Indices: 667950--668182 Score: 171
Period size: 38 Copynumber: 6.2 Consensus size: 37
667940 CTTATACAAA
**
667950 ACAAACAAGG-TAGATAAATGGTCATCTTAAATTATT
1 ACAAACAAGGTTAGATCTATGGTCATCTTAAATTATT
667986 ACAAACAAGGTATAGATCTATGGTCATC-T-AATCCTATT
1 ACAAACAAGGT-TAGATCTATGGTCATCTTAAAT--TATT
* * * * *
668024 A-TAACATGG-TAGATTTATTGTCATCTTAAAATATT
1 ACAAACAAGGTTAGATCTATGGTCATCTTAAATTATT
* *
668059 ----ACAATG-TAGATCTATGGTCATCTTAATTTATT
1 ACAAACAAGGTTAGATCTATGGTCATCTTAAATTATT
* *
668091 ACAAACAATGTATAGATCTATGGTCATCTTAATTTATT
1 ACAAACAAGGT-TAGATCTATGGTCATCTTAAATTATT
* *
668129 ACAAACAATGTACATATTGTAGATCTATGGTCATCTTAAAGTATT
1 ACAAACAA-G------GT-TAGATCTATGGTCATCTTAAATTATT
668174 ACAAACAAG
1 ACAAACAAG
668183 TTTGATTCAT
Statistics
Matches: 160, Mismatches: 18, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
32 26 0.16
35 18 0.11
36 20 0.12
37 9 0.06
38 53 0.33
44 1 0.01
45 33 0.21
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (37 bp):
ACAAACAAGGTTAGATCTATGGTCATCTTAAATTATT
Found at i:683922 original size:44 final size:45
Alignment explanation
Indices: 683845--683931 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 45
683835 ATATTAAAGT
* *
683845 AGTAAACGAGAAATACTGAAAAGGAGGGGTTTT-AAAAGTAAAAC
1 AGTAAACGAGAAATACTGAAAAGAAGGAGTTTTAAAAAGTAAAAC
* *
683889 AGTAAACGAGAAATACTGAAAAGAATGATTTTTAAAAAGTAAA
1 AGTAAACGAGAAATACTGAAAAGAAGGAGTTTTAAAAAGTAAA
683932 GTACTGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 29 0.76
45 9 0.24
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTAAACGAGAAATACTGAAAAGAAGGAGTTTTAAAAAGTAAAAC
Found at i:686156 original size:35 final size:35
Alignment explanation
Indices: 686110--686319 Score: 402
Period size: 35 Copynumber: 6.0 Consensus size: 35
686100 GGACTTTGAT
*
686110 GGACGCTCCTTGATGAACCACTGCAATAATTTATA
1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
686145 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
686180 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
686215 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
*
686250 GGACGTTCCTTGATGAACCATTGCAATAATTTATA
1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
686285 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
1 GGACGTTCCTTGATGAACCACTGCAATAATTTATA
686320 CATGGGCTTT
Statistics
Matches: 172, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 172 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (35 bp):
GGACGTTCCTTGATGAACCACTGCAATAATTTATA
Found at i:694797 original size:15 final size:15
Alignment explanation
Indices: 694777--694818 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
694767 TACCGCTCCA
*
694777 AATTAAGTACTCATT
1 AATTAAGTACTCACT
*
694792 AATTAAGTACTCGCT
1 AATTAAGTACTCACT
694807 AATTAAGTACTC
1 AATTAAGTACTC
694819 CCTGTCAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (15 bp):
AATTAAGTACTCACT
Found at i:694989 original size:2 final size:2
Alignment explanation
Indices: 694982--695016 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
694972 TTGCTAAATA
694982 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
695017 TTTTCTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:696881 original size:77 final size:77
Alignment explanation
Indices: 696692--698772 Score: 3653
Period size: 77 Copynumber: 26.9 Consensus size: 77
696682 ATAAAATTTT
* * * * *
696692 TGTTACACGTTACAGGTTTGGTGGGGGCTCCTACCGTC-CATCTGGTCCTATGTCTGATTTACGA
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCAC-CCTGATCCTATGTCTGATTAACGA
696756 GACGTTATAACTA
65 GACGTTATAACTA
696769 TTTGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACG
1 --TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACG
696834 AGACGTTATAACTA
64 AGACGTTATAACTA
*
696848 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
* *
696913 ACTTTATAACTT
66 ACGTTATAACTA
*
696925 TGTTACACGTTACAGGTCTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
696990 ACGTTATAACTA
66 ACGTTATAACTA
* *
697002 TGTTACACGTTACAGGTTTGGTGGGGACCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697067 ACGTTATAACTA
66 ACGTTATAACTA
* * *
697079 TGTTATACGTTACAGGTTTGATGGGGGCTCTTACTGTCACCCTGATCCTTTGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
* *
697144 ATGTTATAACTTTT
66 ACGTTATAAC--TA
697158 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697223 ACGTTATAACTA
66 ACGTTATAACTA
697235 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
*
697300 ACGTTATAACTTTT
66 ACGTTATAAC--TA
*
697314 TGTTATACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
*
697379 ACGTTATAACTTTT
66 ACGTTATAAC--TA
* *
697393 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTACTGTTACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697458 ACGTTATAACTA
66 ACGTTATAACTA
* * *
697470 TGTTACACGTTACATGTCTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAA
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697535 ACGTTATAACTA
66 ACGTTATAACTA
* *
697547 TGTTACACGTTACAGGTTTGGTGGGAGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697612 ACGTTATAACTA
66 ACGTTATAACTA
*
697624 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697689 ACGTTATAACTA
66 ACGTTATAACTA
697701 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697766 ACGTTATAACTA
66 ACGTTATAACTA
*
697778 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAA
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697843 ACGTTATAACTA
66 ACGTTATAACTA
*
697855 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAA
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697920 ACGTTATAACTA
66 ACGTTATAACTA
697932 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
697997 ACGTTATAACTA
66 ACGTTATAACTA
698009 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
698074 ACGTTATAACTA
66 ACGTTATAACTA
*
698086 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
698151 ACGTTATAACTA
66 ACGTTATAACTA
*
698163 TGTTACACGTTACAGGTTTGG-GGAGGGCCCTTACTGTCACCCTGATCCTATGTCTGATTAACGA
1 TGTTACACGTTACAGGTTTGGTGG-GGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGA
698227 GACGTTATAACTA
65 GACGTTATAACTA
*
698240 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTAATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
*
698305 ACGTTATAAGTA
66 ACGTTATAACTA
*
698317 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTAATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
698382 ACGTTATAACTA
66 ACGTTATAACTA
* *
698394 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACCGTTACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
*
698459 ACGTTTTAACTA
66 ACGTTATAACTA
698471 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
698536 ACGTTATAACTA
66 ACGTTATAACTA
*
698548 TGTTACACGTTACAGGTTTGGTGGGGGTTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
*
698613 ACGTTTTAACTA
66 ACGTTATAACTA
* *
698625 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACCGTCACCCTGATCCTTTGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
*
698690 ACTTTATAACTA
66 ACGTTATAACTA
* * *
698702 TGTTACACGTTACAGGTTTGGTGGGGGCCCTTTCTGTCACCCTGATCCTTTGTCTGATTAACGAG
1 TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
698767 ACGTTA
66 ACGTTA
698773 CACGCCTTCA
Statistics
Matches: 1925, Mismatches: 70, Indels: 16
0.96 0.03 0.01
Matches are distributed among these distances:
76 2 0.00
77 1627 0.85
78 2 0.00
79 293 0.15
80 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (77 bp):
TGTTACACGTTACAGGTTTGGTGGGGGCTCTTACTGTCACCCTGATCCTATGTCTGATTAACGAG
ACGTTATAACTA
Found at i:703397 original size:2 final size:2
Alignment explanation
Indices: 703390--703446 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
703380 ACCCAGGTAA
703390 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
703432 AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
703447 NATTGTTAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:703928 original size:16 final size:16
Alignment explanation
Indices: 703907--703942 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
703897 CGTGGAGGAC
703907 AAGAAAGACCCAGGTA
1 AAGAAAGACCCAGGTA
703923 AAGAAAGACCCAGGTA
1 AAGAAAGACCCAGGTA
703939 AAGA
1 AAGA
703943 GAGAGAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.25, T:0.06
Consensus pattern (16 bp):
AAGAAAGACCCAGGTA
Found at i:703947 original size:2 final size:2
Alignment explanation
Indices: 703940--703998 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
703930 ACCCAGGTAA
703940 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
703982 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
703999 TATTTTGTAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:705401 original size:15 final size:15
Alignment explanation
Indices: 705381--705432 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
705371 GAACATCCGG
705381 CGGAAGTAGAGGAAA
1 CGGAAGTAGAGGAAA
705396 CGGAAGTAGAGGAAA
1 CGGAAGTAGAGGAAA
*
705411 CGAAAGTAGAGGAAA
1 CGGAAGTAGAGGAAA
*
705426 TGGAAGT
1 CGGAAGT
705433 GGAAAACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.46, C:0.06, G:0.38, T:0.10
Consensus pattern (15 bp):
CGGAAGTAGAGGAAA
Found at i:708084 original size:21 final size:21
Alignment explanation
Indices: 708060--708338 Score: 355
Period size: 21 Copynumber: 13.3 Consensus size: 21
708050 AATAGGATGG
*
708060 TACTTTAACATTACATGCTGA
1 TACTTCAACATTACATGCTGA
*
708081 TACTTCAACATTACATGATGGA
1 TACTTCAACATTACATGCT-GA
* * *
708103 -ACTTCATCATTACATGATGG
1 TACTTCAACATTACATGCTGA
708123 TACTTCAACATTACATGCTGA
1 TACTTCAACATTACATGCTGA
708144 TACTTCAACATTACATGCTGA
1 TACTTCAACATTACATGCTGA
*
708165 TACTTCAGCATTACATGCTGA
1 TACTTCAACATTACATGCTGA
* *
708186 TACTTCAACATTACGTGATGA
1 TACTTCAACATTACATGCTGA
* *
708207 TACTTCAACATTACGTGATGA
1 TACTTCAACATTACATGCTGA
* *
708228 TACTTCAACATTACGTGATG-
1 TACTTCAACATTACATGCTGA
* * *
708248 TACTTCAGCATTACATGATGG
1 TACTTCAACATTACATGCTGA
* *
708269 TACTTTAACATTTCATGCTGA
1 TACTTCAACATTACATGCTGA
* *
708290 CACCTCAACATTACATGCTGA
1 TACTTCAACATTACATGCTGA
708311 TACTTCAACATTACATGCTGA
1 TACTTCAACATTACATGCTGA
*
708332 TATTTCA
1 TACTTCA
708339 TAAAATGATG
Statistics
Matches: 230, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
20 19 0.08
21 209 0.91
22 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (21 bp):
TACTTCAACATTACATGCTGA
Found at i:708834 original size:12 final size:12
Alignment explanation
Indices: 708819--708849 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
708809 TCGTAACTCG
708819 AAACGTAGACGT
1 AAACGTAGACGT
708831 AAACGTAGACGT
1 AAACGTAGACGT
*
708843 AGACGTA
1 AAACGTA
708850 ACTTGGGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (12 bp):
AAACGTAGACGT
Found at i:712167 original size:21 final size:21
Alignment explanation
Indices: 712142--712231 Score: 117
Period size: 21 Copynumber: 4.3 Consensus size: 21
712132 ATATAAAGAA
* * *
712142 GAAGTATCAGCAAATAATGTT
1 GAAGTACCATCAAGTAATGTT
* *
712163 TAAGTACCATCATGTAATGTT
1 GAAGTACCATCAAGTAATGTT
*
712184 GAAGTACCATCATGTAATGTT
1 GAAGTACCATCAAGTAATGTT
712205 GAAGTACCATCAAGTAATGTT
1 GAAGTACCATCAAGTAATGTT
*
712226 AAAGTA
1 GAAGTA
712232 TGAGCATTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
GAAGTACCATCAAGTAATGTT
Found at i:712188 original size:42 final size:42
Alignment explanation
Indices: 712123--712237 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
712113 TATTGAAGAC
* * ** *
712123 AGTACCATCATATAAAGAAGAAGTATCAGCAAATAATGTTTA
1 AGTACCATCATGTAATGTTGAAGTATCAGCAAATAATGTTGA
* * **
712165 AGTACCATCATGTAATGTTGAAGTACCATCATGTAATGTTGA
1 AGTACCATCATGTAATGTTGAAGTATCAGCAAATAATGTTGA
* * *
712207 AGTACCATCAAGTAATGTTAAAGTATGAGCA
1 AGTACCATCATGTAATGTTGAAGTATCAGCA
712238 TTTTCAGTTT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (42 bp):
AGTACCATCATGTAATGTTGAAGTATCAGCAAATAATGTTGA
Found at i:712224 original size:26 final size:21
Alignment explanation
Indices: 712156--712231 Score: 125
Period size: 21 Copynumber: 3.6 Consensus size: 21
712146 TATCAGCAAA
*
712156 TAATGTTTAAGTACCATCATG
1 TAATGTTGAAGTACCATCATG
712177 TAATGTTGAAGTACCATCATG
1 TAATGTTGAAGTACCATCATG
*
712198 TAATGTTGAAGTACCATCAAG
1 TAATGTTGAAGTACCATCATG
*
712219 TAATGTTAAAGTA
1 TAATGTTGAAGTA
712232 TGAGCATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (21 bp):
TAATGTTGAAGTACCATCATG
Found at i:714128 original size:12 final size:12
Alignment explanation
Indices: 714104--714164 Score: 70
Period size: 12 Copynumber: 4.8 Consensus size: 12
714094 ATCACATTTT
714104 GTCTGTC-GTCC
1 GTCTGTCTGTCC
714115 GTCTGTCTGTCC
1 GTCTGTCTGTCC
714127 GTCTGTCCGTCTGTCC
1 GTC--T--GTCTGTCC
*
714143 GTCCGTCTGTCC
1 GTCTGTCTGTCC
714155 GTCTGTCTGT
1 GTCTGTCTGT
714165 AAACTTTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
11 7 0.16
12 24 0.56
14 1 0.02
16 11 0.26
ACGTcount: A:0.00, C:0.34, G:0.26, T:0.39
Consensus pattern (12 bp):
GTCTGTCTGTCC
Found at i:714136 original size:20 final size:20
Alignment explanation
Indices: 714111--714164 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
714101 TTTGTCTGTC
714111 GTCCGTCTGTCTGTCCGTCT
1 GTCCGTCTGTCTGTCCGTCT
*
714131 GTCCGTCTGTCCGTCCGTCT
1 GTCCGTCTGTCTGTCCGTCT
714151 GTCCGTCTGTCTGT
1 GTCCGTCTGTCTGT
714165 AAACTTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.00, C:0.35, G:0.26, T:0.39
Consensus pattern (20 bp):
GTCCGTCTGTCTGTCCGTCT
Found at i:714162 original size:4 final size:4
Alignment explanation
Indices: 714103--714164 Score: 63
Period size: 4 Copynumber: 15.8 Consensus size: 4
714093 GATCACATTT
* * * * *
714103 TGTC TGTC -GTC CGTC TGTC TGTC CGTC TGTC CGTC TGTC CGTC CGTC
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC
*
714150 TGTC CGTC TGTC TGT
1 TGTC TGTC TGTC TGT
714165 AAACTTTTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
3 3 0.06
4 45 0.94
ACGTcount: A:0.00, C:0.34, G:0.26, T:0.40
Consensus pattern (4 bp):
TGTC
Found at i:714608 original size:166 final size:164
Alignment explanation
Indices: 714334--715343 Score: 1388
Period size: 166 Copynumber: 6.2 Consensus size: 164
714324 AGAAATTTTC
* * * *
714334 AAAAATCTTCTTCTCATG-AAC-CATAAGACCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCA
1 AAAAATCTTCTTCTCA-GAAACTAATCAG-CCAGGAAAGCTGACACTTGTGTGAAAGCATCATCA
* * *
714397 GGTAGTGTAAATACTAAA-TTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACATTGAGG
64 GGTAGTGTAGATTC-AAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGG-GCCACAATG-GG
*
714461 GGTCGAATTTTAACATATGAATATATAGAGTATATCTTT
126 GGTCGAATTTTAACATATGAATATATAGAGTAAATCTTT
* * *
714500 AAAAATCTTCTTCTCAGAAACTAATCGGCCATGAAAGCTGACACTTGTATGAAAGCATCATCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG
* * *
714565 TAGTGTAGATTGAAAATTGTGAAAATCATGATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTC
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGG-TGGGCCACAATGGGGGTC
* * *
714630 GAAGTTTT-ACAAAGGAATATATAGAGTAAATCTTG
130 GAA-TTTTAACATATGAATATATAGAGTAAATCTTT
* *
714665 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATTATCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG
714730 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGG-GCCACAAT-GGGGGT
*
714795 CGAATTTTAACATATGAATATATAGAGTATATCTTT
129 CGAATTTTAACATATGAATATATAGAGTAAATCTTT
* *
714831 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTAGTGTGAAAGCATCATCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG
714896 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTC
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGG-TGGGCCACAATGGGGGTC
* * *
714961 GAATTATAATATATGAATATATAGAGTAAATCTTG
130 GAATTTTAACATATGAATATATAGAGTAAATCTTT
* * *
714996 AAAAATCTTCTTCTCAGAAAATAATCGGCCAGGAAAGCTGACACTTGTGTGAAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG
* *
715061 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAGGGGGTAGGGTGGGGCCAAAATGGGGGGT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGT-GGGCCACAAT-GGGGGT
* *
715126 CGAAATTTT-ACATAGGAATATATAGAATAAATCTTT
129 CG-AATTTTAACATATGAATATATAGAGTAAATCTTT
* * * *
715162 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAACTGAAACTTGTGTGGAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG
* * * **
715227 TAGTGTAGACTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGT-GG------T----GTTA
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGGCCACAATGGGGGTCG
*
715281 AAGTTTT-ACATAGGAATATATAGAGTAAATCTTT
131 AA-TTTTAACATATGAATATATAGAGTAAATCTTT
*
715315 AAGAATCTTCTTCTCAGAAACTAATCAGC
1 AAAAATCTTCTTCTCAGAAACTAATCAGC
715344 AAGATGATTC
Statistics
Matches: 771, Mismatches: 60, Indels: 39
0.89 0.07 0.04
Matches are distributed among these distances:
152 2 0.00
153 60 0.08
158 1 0.00
164 6 0.01
165 303 0.39
166 385 0.50
167 14 0.02
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (164 bp):
AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGAAAGCATCATCAGG
TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGGCCACAATGGGGGTCG
AATTTTAACATATGAATATATAGAGTAAATCTTT
Found at i:714936 original size:331 final size:331
Alignment explanation
Indices: 714334--715343 Score: 1507
Period size: 331 Copynumber: 3.1 Consensus size: 331
714324 AGAAATTTTC
* *
714334 AAAAATCTTCTTCTCATG-AAC-CATAAGACCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCA
1 AAAAATCTTCTTCTCA-GAAACTAATCAG-CCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCA
* * * *
714397 GGTAGTGTAAATACTAAA-TTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACATTGAGG
64 GGTAGTGTAGATTC-AAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGG
714461 GGTCGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATC
128 GGTCGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATC
* * * * * *
714526 GGCCATGAAAGCTGACACTTGTATGAAAGCATCATCAGGTAGTGTAGATTGAAAATTGTGAAAAT
193 AGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAAT
714591 CATGATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACAAAGGAATATATAGAG
258 CATGATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACAAAGGAATATATAGAG
714656 TAAATCTTG
323 TAAATCTTG
**
714665 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATTATCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGG
714730 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT
714795 CGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
131 CGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
*
714860 CAGGAAAGCTGAAACTAGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT
196 CAGGAAAGCTGAAACTTGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT
* * *
714925 GACCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAA-TTATA-ATATATGAATATATAGAGT
261 GATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACA-A-AGGAATATATAGAGT
714988 AAATCTTG
324 AAATCTTG
* * *
714996 AAAAATCTTCTTCTCAGAAAATAATCGGCCAGGAAAGCTGACACTTGTGTGAAAGCATCCTCAGG
1 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGG
* * *
715061 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCAGGGGGTAGGGTGGGGCCAAAATGGGGGGT
66 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT
* * *
715126 CGAAATTTT-ACATAGGAATATATAGAATAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG
131 CG-AATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAG
* * * *
715190 CCAGGAAAACTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGACTCAAAGTTGTGAAAATCA
195 CCAGGAAAGCTGAAACTTGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAATCA
* ** *
715255 TGATCCCTGGGGGTAGGG-T-GG------T----GTTAAAGTTTTACATAGGAATATATAGAGTA
260 TGATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACAAAGGAATATATAGAGTA
*
715308 AATCTTT
325 AATCTTG
*
715315 AAGAATCTTCTTCTCAGAAACTAATCAGC
1 AAAAATCTTCTTCTCAGAAACTAATCAGC
715344 AAGATGATTC
Statistics
Matches: 626, Mismatches: 45, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
319 51 0.08
320 4 0.01
321 1 0.00
323 1 0.00
329 3 0.00
330 10 0.02
331 546 0.87
332 10 0.02
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (331 bp):
AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGACACTTGTGTGGAAGCATCCTCAGG
TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCGGGGGTAGGGTGGCGCCACAATGGGGGGT
CGAATTTTAACATATGAATATATAGAGTATATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGC
CAGGAAAGCTGAAACTTGTGTGAAAGCATCATCAGGTAGTGTAGATTCAAAGTTGTGAAAATCAT
GATCCCCGGGGGTAGGGTTGGGCCACAATGGGGGTCGAAGTTTTACAAAGGAATATATAGAGTAA
ATCTTG
Found at i:723939 original size:16 final size:16
Alignment explanation
Indices: 723918--723948 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
723908 ATGGATTTAC
723918 TTCGTTATATCCGTAA
1 TTCGTTATATCCGTAA
723934 TTCGTTATATCCGTA
1 TTCGTTATATCCGTA
723949 GAAAGAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (16 bp):
TTCGTTATATCCGTAA
Found at i:725876 original size:16 final size:16
Alignment explanation
Indices: 725855--725900 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
725845 TTGTCGATAT
725855 GAGAGAGACAGAGACA
1 GAGAGAGACAGAGACA
*
725871 GAGAGAGACAGAGACC
1 GAGAGAGACAGAGACA
* *
725887 GAGAAAGAAAGAGA
1 GAGAGAGACAGAGA
725901 GAGTTTTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.37, T:0.00
Consensus pattern (16 bp):
GAGAGAGACAGAGACA
Found at i:726088 original size:2 final size:2
Alignment explanation
Indices: 726081--726113 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
726071 GATTTACATA
726081 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
726114 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:727449 original size:32 final size:32
Alignment explanation
Indices: 727396--727460 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
727386 TTTTACACAA
727396 AAGGGGTGAATAAACCCGGGGTTTAAACTATT
1 AAGGGGTGAATAAACCCGGGGTTTAAACTATT
727428 ANAGGGGTGAAT-AACCCGGGGTTTAAACTATT
1 A-AGGGGTGAATAAACCCGGGGTTTAAACTATT
727460 A
1 A
727461 CTGGTGTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (32 bp):
AAGGGGTGAATAAACCCGGGGTTTAAACTATT
Found at i:727584 original size:7 final size:7
Alignment explanation
Indices: 727569--727640 Score: 72
Period size: 7 Copynumber: 10.3 Consensus size: 7
727559 GTCTACTTAG
*
727569 ATCTTGA
1 ATCTCGA
727576 ATCTCGA
1 ATCTCGA
*
727583 ATTTCGA
1 ATCTCGA
*
727590 ATCTTGA
1 ATCTCGA
*
727597 ATCTCGT
1 ATCTCGA
*
727604 ATTTCGA
1 ATCTCGA
*
727611 ATCTCGT
1 ATCTCGA
* *
727618 ATTTTGA
1 ATCTCGA
727625 ATCTCGA
1 ATCTCGA
727632 ATCTCGA
1 ATCTCGA
727639 AT
1 AT
727641 GATCCTTCTC
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (7 bp):
ATCTCGA
Found at i:727595 original size:21 final size:21
Alignment explanation
Indices: 727569--727614 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
727559 GTCTACTTAG
727569 ATCTTGAATCTCGAATTTCGA
1 ATCTTGAATCTCGAATTTCGA
*
727590 ATCTTGAATCTCGTATTTCGA
1 ATCTTGAATCTCGAATTTCGA
727611 ATCT
1 ATCT
727615 CGTATTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (21 bp):
ATCTTGAATCTCGAATTTCGA
Found at i:729228 original size:4 final size:4
Alignment explanation
Indices: 729221--729265 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
729211 GAGGCGAGAG
* *
729221 AGAC AGAC AGAC AGAC AGA- A-AC AGAA AGAC AGAC AGAC AAAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
729266 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 2 0.06
4 32 0.91
ACGTcount: A:0.58, C:0.20, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:729250 original size:18 final size:18
Alignment explanation
Indices: 729223--729257 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
729213 GGCGAGAGAG
*
729223 ACAGACAGACAGACAGAA
1 ACAGAAAGACAGACAGAA
729241 ACAGAAAGACAGACAGA
1 ACAGAAAGACAGACAGA
729258 CAAACAGAGA
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:0.57, C:0.20, G:0.23, T:0.00
Consensus pattern (18 bp):
ACAGAAAGACAGACAGAA
Found at i:729270 original size:2 final size:2
Alignment explanation
Indices: 729263--729319 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
729253 ACAGACAAAC
* * * * * * *
729263 AG AG AG AG AG AG AC CG AT AG AC AG AG AG AC AA AC AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
729305 AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
729320 ATCATTGCAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.09, G:0.39, T:0.02
Consensus pattern (2 bp):
AG
Found at i:729276 original size:26 final size:26
Alignment explanation
Indices: 729216--729285 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
729206 GGAGAGAGGC
*
729216 GAGAGAGACAGACAGACAGACAGAAA
1 GAGAGAGACAGACAGACAAACAGAAA
* * *
729242 CAGAAAGACAGACAGACAAACAGAGA
1 GAGAGAGACAGACAGACAAACAGAAA
* *
729268 GAGAGAGACCGATAGACA
1 GAGAGAGACAGACAGACA
729286 GAGAGACAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.53, C:0.17, G:0.29, T:0.01
Consensus pattern (26 bp):
GAGAGAGACAGACAGACAAACAGAAA
Found at i:729300 original size:34 final size:34
Alignment explanation
Indices: 729217--729309 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 34
729207 GAGAGAGGCG
* * * *
729217 AGAGAGACAGACAGACAGACAGAAACAGAAAGAC
1 AGAGAGACAAACAGAGAGAGAGAGACAGAAAGAC
* * *
729251 AGACAGACAAACAGAGAGAGAGAGACCGATAGAC
1 AGAGAGACAAACAGAGAGAGAGAGACAGAAAGAC
729285 AGAGAGACAAACAGAGAGAGAGAGA
1 AGAGAGACAAACAGAGAGAGAGAGA
729310 GAGAGAGAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.54, C:0.15, G:0.30, T:0.01
Consensus pattern (34 bp):
AGAGAGACAAACAGAGAGAGAGAGACAGAAAGAC
Found at i:737723 original size:17 final size:17
Alignment explanation
Indices: 737701--737744 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
737691 CAGTTCGTTA
737701 TATATCCGTAAACTCGT
1 TATATCCGTAAACTCGT
*
737718 TATATCCG--AATTCGT
1 TATATCCGTAAACTCGT
*
737733 TATAACCGTAAA
1 TATATCCGTAAA
737745 ATTTTACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.57
17 10 0.43
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (17 bp):
TATATCCGTAAACTCGT
Found at i:739938 original size:11 final size:11
Alignment explanation
Indices: 739915--739958 Score: 56
Period size: 10 Copynumber: 4.2 Consensus size: 11
739905 CACTGACTGA
739915 AACAGAA-TTT
1 AACAGAAGTTT
739925 AACAGAAGTTT
1 AACAGAAGTTT
739936 AACAG-AGTTT
1 AACAGAAGTTT
**
739946 ATTAGAAGTTT
1 AACAGAAGTTT
739957 AA
1 AA
739959 ATAAAACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 15 0.52
11 14 0.48
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (11 bp):
AACAGAAGTTT
Found at i:739941 original size:21 final size:21
Alignment explanation
Indices: 739915--739958 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
739905 CACTGACTGA
739915 AACAGAATTTAACAGAAGTTT
1 AACAGAATTTAACAGAAGTTT
* **
739936 AACAGAGTTTATTAGAAGTTT
1 AACAGAATTTAACAGAAGTTT
739957 AA
1 AA
739959 ATAAAACTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (21 bp):
AACAGAATTTAACAGAAGTTT
Found at i:747625 original size:2 final size:2
Alignment explanation
Indices: 747618--747651 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
747608 TGAGTACTAA
*
747618 AT AT AT AT AT AT AT AT AT AN 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
747652 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:747656 original size:2 final size:2
Alignment explanation
Indices: 747651--747677 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
747641 TATATATATA
747651 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
747678 ATTATGTACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:749295 original size:18 final size:19
Alignment explanation
Indices: 749272--749313 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
749262 TTTGAGTTTT
749272 CTCAA-ATTTGAGAAAAAA
1 CTCAATATTTGAGAAAAAA
749290 CTCAAATATTTGAGAAAAAA
1 CTC-AATATTTGAGAAAAAA
749310 CTCA
1 CTCA
749314 GACTTAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 16 0.73
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (19 bp):
CTCAATATTTGAGAAAAAA
Found at i:761148 original size:2 final size:2
Alignment explanation
Indices: 761141--761198 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
761131 CACATACCTC
761141 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
761183 AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG
761199 TTCATTGCAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:764711 original size:20 final size:19
Alignment explanation
Indices: 764688--764727 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
764678 TATTTGGCAA
* *
764688 TAATTTTTTTTTTCATTTTT
1 TAATTTCTTATTT-ATTTTT
764708 TAATTTCTTATTTATTTTT
1 TAATTTCTTATTTATTTTT
764727 T
1 T
764728 TCTCTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
TAATTTCTTATTTATTTTT
Found at i:770188 original size:2 final size:2
Alignment explanation
Indices: 770181--770208 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
770171 TTTGGAGACG
770181 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
770209 GTTGTTACTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:773032 original size:8 final size:8
Alignment explanation
Indices: 773017--773045 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
773007 AAAAAGATAA
773017 AAGA-TAT
1 AAGATTAT
773024 AAGATTAT
1 AAGATTAT
773032 AAGATTAT
1 AAGATTAT
773040 AAGATT
1 AAGATT
773046 GAAGGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (8 bp):
AAGATTAT
Found at i:776763 original size:33 final size:33
Alignment explanation
Indices: 776725--776819 Score: 93
Period size: 33 Copynumber: 2.9 Consensus size: 33
776715 ACATAAATAA
* * *
776725 TGACGTCACAATGCATTATATGCGTAGATAATG
1 TGACGTCACAATGCATTAAATGCGTAAATAACG
* *
776758 TGACGT-ACTCATTCATTAAATGCGTAAATAACG
1 TGACGTCAC-AATGCATTAAATGCGTAAATAACG
** * *
776791 TGATATCACAATGCATTAGATGGGTAAAT
1 TGACGTCACAATGCATTAAATGCGTAAAT
776820 GGTATATCTT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
32 2 0.04
33 45 0.92
34 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (33 bp):
TGACGTCACAATGCATTAAATGCGTAAATAACG
Found at i:777676 original size:14 final size:14
Alignment explanation
Indices: 777659--777688 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
777649 CATGTATGCT
777659 TTAATATGTTAACA
1 TTAATATGTTAACA
777673 TTAATATGTTAACA
1 TTAATATGTTAACA
777687 TT
1 TT
777689 TTCGAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (14 bp):
TTAATATGTTAACA
Found at i:782934 original size:19 final size:18
Alignment explanation
Indices: 782898--782934 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
782888 ACGCCTGCCG
*
782898 ACGCCTGCCGGGGAAAAC
1 ACGCCTGCCGGAGAAAAC
782916 ACGCCTGCCGAGAGAAAAC
1 ACGCCTGCCG-GAGAAAAC
782935 CGCACGCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.32, C:0.32, G:0.30, T:0.05
Consensus pattern (18 bp):
ACGCCTGCCGGAGAAAAC
Found at i:783408 original size:184 final size:183
Alignment explanation
Indices: 783078--783513 Score: 563
Period size: 184 Copynumber: 2.4 Consensus size: 183
783068 GTTCAATGTT
* * *
783078 GGTAAAGATAGATAACTCTTACGTAGAATTCATACGCCTGCCGAGGAAATCTAGACGCCTGCCGT
1 GGTAAA-ATAGATAACTCTTACGTAGAAATCATACGCCTGCCGAGAAAATCTATACGCCTGCCGT
* * * * * *
783143 TAATTTGATGGATTATTTTACTTTTTTCTTTGATATTTTATTTCTTTTAACTAAATAGATGATAA
65 TTAGTTGATGGATTATTTTAATTATTTCTTTGATATTTTATTTC-TTTAACTAAATAAACGATAA
* * * * *
783208 TAGAAATCAGAAGTTGATTTTATATTAATTAATTAACACAAAATAAGTAAAAATC
129 CAGAAATAAAAAGTTGACTTTAAATTAATTAATTAACACAAAATAAGTAAAAATC
** * * * *
783263 GGGTAAGCT-GATAGCTCTTACGAAGAAATCATACGCCTGCCAAGAAAATGTATACGCCTGCCGT
1 -GGTAAAATAGATAACTCTTACGTAGAAATCATACGCCTGCCGAGAAAATCTATACGCCTGCCGT
** *
783327 TTAGTTGATGGATTATTTTAATTATTTCTTTGATATTTTAGTTTAC-TTGGCTTAATAAACGATA
65 TTAGTTGATGGATTATTTTAATTATTTCTTTGATATTTTA-TTT-CTTTAACTAAATAAACGATA
** *
783391 ACAGAAATAAAAAGTTGACTTTAAATTCGTTAATTAACACAAAATTAGTAAAAATC
128 ACAGAAATAAAAAGTTGACTTTAAATTAATTAATTAACACAAAATAAGTAAAAATC
783447 GGTAAAATAGATAACTCTTACGTAG-AATGCATACGCCTGCCGAGAAAATCTATACGCCTGCCGT
1 GGTAAAATAGATAACTCTTACGTAGAAAT-CATACGCCTGCCGAGAAAATCTATACGCCTGCCGT
783511 TTA
65 TTA
783514 TCAGATATAT
Statistics
Matches: 214, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
183 9 0.04
184 195 0.91
185 4 0.02
186 6 0.03
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
GGTAAAATAGATAACTCTTACGTAGAAATCATACGCCTGCCGAGAAAATCTATACGCCTGCCGTT
TAGTTGATGGATTATTTTAATTATTTCTTTGATATTTTATTTCTTTAACTAAATAAACGATAACA
GAAATAAAAAGTTGACTTTAAATTAATTAATTAACACAAAATAAGTAAAAATC
Found at i:787563 original size:43 final size:43
Alignment explanation
Indices: 787473--787565 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
787463 TTGCTCTTCT
* * * **
787473 GAGTCGATTCAAGTAACCAAATAGCGAAGCATATTGTTTTATT
1 GAGTCGATTCAAGTAACCAAATAGCAAAGCATATTATTCTAGA
*
787516 GAGTCGATTCCAGTAACC-AATCAGCAAAGCATATTATTCTAGA
1 GAGTCGATTCAAGTAACCAAAT-AGCAAAGCATATTATTCTAGA
787559 GAGTCGA
1 GAGTCGA
787566 GAAAGCAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 3 0.07
43 40 0.93
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (43 bp):
GAGTCGATTCAAGTAACCAAATAGCAAAGCATATTATTCTAGA
Found at i:805758 original size:2 final size:2
Alignment explanation
Indices: 805751--805782 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
805741 AGACTGGCAA
805751 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
805783 ACACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:805787 original size:2 final size:2
Alignment explanation
Indices: 805782--805823 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
805772 CTCTCTCTCT
805782 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
805824 TACTTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:808518 original size:9 final size:9
Alignment explanation
Indices: 808506--808539 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
808496 TAATATTTTA
808506 AATACATTC
1 AATACATTC
808515 AATACATTC
1 AATACATTC
*
808524 AATACAATAC
1 AATAC-ATTC
808534 AATACA
1 AATACA
808540 GATCACTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (9 bp):
AATACATTC
Found at i:811314 original size:166 final size:166
Alignment explanation
Indices: 811040--811571 Score: 782
Period size: 168 Copynumber: 3.2 Consensus size: 166
811030 AGAAATTTTC
* * *
811040 AAAATCTTCTTCTCAAGAAAC--ATTAAGCCAGGAAAACTGAAACTTTTGTGGACGCATTCTTAG
1 AAAATCTTCTTCTC-AGAAACTAATCAA-CCAGGAAAACTAAAACTTGTGTGGACGCATTCTTAG
811103 GTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGAGGG
64 GTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGG-GGG
* *
811168 -TCAAAGTTTTACATAGGAATATATAAAGTAAATCTTTA
128 ATCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTA
* * * **
811206 AAAATCTTCTTCTCAGAAACTAATCAACCAGGAAAGCTAAAACTTGTGTGGAAGCATCCCCAGGT
1 AAAATCTTCTTCTCAGAAACTAATCAACCAGGAAAACTAAAACTTGTGTGGACGCATTCTTAGGT
* *
811271 AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCAACAATGGGGGATT
66 AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC
811336 GAAGTTTTACATAGGAATATATAGAGTAAATCTTTAA
131 GAAGTTTTACATAGGAATATATAGAGTAAATCTTT-A
* * * *
811373 AAAACCTTCTTCTCCAAAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGG
1 AAAATCTTCTTCT-CAGAAACTAATCAACCAGGAAAACTAAAACTTGTGTGGACGCATTCTTAGG
* * * * *
811438 TAGTGTAGATTCAAAGTTGTGAAAATCATAACCACTAGGGGCAGGGTGGGTCCACAATGGGGGAT
65 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGAT
*
811503 CGAAGTTTTACATAGGAATATATAGGTGTAAATCTTTA
130 CGAAGTTTTACATAGGAATATATA-GAGTAAATCTTTA
*
811541 AAAATCTTCTTCTCAGAAACTAATCAGCCAG
1 AAAATCTTCTTCTCAGAAACTAATCAACCAG
811572 ATGATTTTTT
Statistics
Matches: 329, Mismatches: 31, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
165 9 0.03
166 137 0.42
167 34 0.10
168 138 0.42
169 11 0.03
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (166 bp):
AAAATCTTCTTCTCAGAAACTAATCAACCAGGAAAACTAAAACTTGTGTGGACGCATTCTTAGGT
AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC
GAAGTTTTACATAGGAATATATAGAGTAAATCTTTA
Found at i:811487 original size:168 final size:166
Alignment explanation
Indices: 811040--811572 Score: 791
Period size: 166 Copynumber: 3.2 Consensus size: 166
811030 AGAAATTTTC
* * * * *
811040 AAAATCTTCTTCTCAAGAAAC-ATTAAGCCAGGAAAACTGAAACTTTTGTGGACGCATTCTTAGG
1 AAAATCTTCTTCTC-AGAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGG
811104 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGAGGG-
65 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGG-GGGA
* *
811168 TCAAAGTTTTACATAGGAATATATAAAGTAAATCTTTA
129 TCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTA
* * * * * **
811206 AAAATCTTCTTCTCAGAAACTAATCAACCAGGAAAGCTAAAACTTGTGTGGAAGCATCCCCAGGT
1 AAAATCTTCTTCTCAGAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGGT
* *
811271 AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCAACAATGGGGGATT
66 AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC
811336 GAAGTTTTACATAGGAATATATAGAGTAAATCTTTAA
131 GAAGTTTTACATAGGAATATATAGAGTAAATCTTT-A
* *
811373 AAAACCTTCTTCTCCAAAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGG
1 AAAATCTTCTTCT-CAGAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGG
* * * * *
811438 TAGTGTAGATTCAAAGTTGTGAAAATCATAACCACTAGGGGCAGGGTGGGTCCACAATGGGGGAT
65 TAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGAT
*
811503 CGAAGTTTTACATAGGAATATATAGGTGTAAATCTTTA
130 CGAAGTTTTACATAGGAATATATA-GAGTAAATCTTTA
811541 AAAATCTTCTTCTCAGAAACTAATCAGCCAGA
1 AAAATCTTCTTCTCAGAAACTAATCAGCCAGA
811573 TGATTTTTTA
Statistics
Matches: 329, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
165 9 0.03
166 140 0.43
167 31 0.09
168 138 0.42
169 11 0.03
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (166 bp):
AAAATCTTCTTCTCAGAAACTAATCAGCCAGAAAAACTAAAACTTGTGTGGACGCATTCTTAGGT
AGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAATGGGGGATC
GAAGTTTTACATAGGAATATATAGAGTAAATCTTTA
Found at i:814773 original size:16 final size:16
Alignment explanation
Indices: 814752--814792 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
814742 ATGATGATGA
814752 TGCGATGGCGCAACAC
1 TGCGATGGCGCAACAC
814768 TGCGATGGCGCAACAC
1 TGCGATGGCGCAACAC
814784 TGCGATGGC
1 TGCGATGGC
814793 ACGATGAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.22, C:0.29, G:0.34, T:0.15
Consensus pattern (16 bp):
TGCGATGGCGCAACAC
Found at i:814828 original size:16 final size:16
Alignment explanation
Indices: 814784--814829 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
814774 GGCGCAACAC
*
814784 TGCGATGGCACGATGA
1 TGCGATGGCATGATGA
* *
814800 AGCGATAGCATGATGA
1 TGCGATGGCATGATGA
*
814816 TGCGATGGTATGAT
1 TGCGATGGCATGAT
814830 AGCGATAATG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.35, T:0.24
Consensus pattern (16 bp):
TGCGATGGCATGATGA
Found at i:814991 original size:16 final size:16
Alignment explanation
Indices: 814966--814996 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
814956 ACATCATTGT
*
814966 CATCGTACCATCGCTC
1 CATCGCACCATCGCTC
814982 CATCGCACCATCGCT
1 CATCGCACCATCGCT
814997 TATATCGTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.45, G:0.13, T:0.23
Consensus pattern (16 bp):
CATCGCACCATCGCTC
Found at i:823788 original size:14 final size:14
Alignment explanation
Indices: 823769--823800 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
823759 TTTTGGTTGG
823769 AAAATTGAATAGAC
1 AAAATTGAATAGAC
823783 AAAATTGAATAGAC
1 AAAATTGAATAGAC
823797 AAAA
1 AAAA
823801 CTAATACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (14 bp):
AAAATTGAATAGAC
Found at i:826031 original size:54 final size:54
Alignment explanation
Indices: 825927--826033 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
825917 TTGTACTTGT
* * * *
825927 ATTATGAGTTAGGGCCCACTGGGTTGTCTTTTAAGTCAAGGCTCAATGGGTTGG
1 ATTATGAGTCAGGGCCCACAGGGTTGTATTTGAAGTCAAGGCTCAATGGGTTGG
*
825981 ATTATGAGTCAGGGCCCACAGGGTTGTATTATGAA-TCAGGGCT-AACTGGGTTG
1 ATTATGAGTCAGGGCCCACAGGGTTGTATT-TGAAGTCAAGGCTCAA-TGGGTTG
826034 TTCGGTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 2 0.04
54 41 0.89
55 3 0.07
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31
Consensus pattern (54 bp):
ATTATGAGTCAGGGCCCACAGGGTTGTATTTGAAGTCAAGGCTCAATGGGTTGG
Found at i:826034 original size:27 final size:27
Alignment explanation
Indices: 825923--826034 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 27
825913 TGGATTGTAC
* * *
825923 TTGTATTATGAGTTAGGGCCCACTGGG
1 TTGTATTATGAATCAGGGCCAACTGGG
* * *
825950 TTGTCTT-TTAAGTCAAGGCTCAA-TGGG
1 TTGTATTATGAA-TCAGGGC-CAACTGGG
* * * *
825977 TTGGATTATGAGTCAGGGCCCACAGGG
1 TTGTATTATGAATCAGGGCCAACTGGG
*
826004 TTGTATTATGAATCAGGGCTAACTGGG
1 TTGTATTATGAATCAGGGCCAACTGGG
826031 TTGT
1 TTGT
826035 TCGGTATACA
Statistics
Matches: 63, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
26 4 0.06
27 55 0.87
28 4 0.06
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.33
Consensus pattern (27 bp):
TTGTATTATGAATCAGGGCCAACTGGG
Found at i:827175 original size:28 final size:27
Alignment explanation
Indices: 826985--827338 Score: 234
Period size: 28 Copynumber: 12.8 Consensus size: 27
826975 GGCTGTCATT
* *
826985 AAAGTAATGTAACTGTTGGAATGTAATC
1 AAAGT-ATGTAATTGTTGGACTGTAATC
* * * * *
827013 AAGGTAGTGTAATTGATAGAATATAATC
1 AAAGTA-TGTAATTGTTGGACTGTAATC
* * * * * *
827041 -AAGTGTGAAATTGTAGTATTGTAATG
1 AAAGTATGTAATTGTTGGACTGTAATC
*
827067 AAAGT-TGTGAAGTTGTTTGACTG-AATC
1 AAAGTATGT-AA-TTGTTGGACTGTAATC
* * * *
827094 AAAAT-TGTGAAATTGTT-AATTGGAATC
1 AAAGTATGT--AATTGTTGGACTGTAATC
* * *
827121 TAAATTATGTAACTGTTGGA-TCATAATC
1 -AAAGTATGTAATTGTTGGACT-GTAATC
827149 AAAGGTATGTAATTGTTGGACTGTAATC
1 AAA-GTATGTAATTGTTGGACTGTAATC
* * *
827177 ATAGTATTGTAATTGTTGAAATGTAATC
1 AAAGTA-TGTAATTGTTGGACTGTAATC
* * *
827205 AAACTTACGTTATTGTTGGACTGTAATC
1 AAA-GTATGTAATTGTTGGACTGTAATC
* *
827233 AAAATAGTGTAATTTTTGGACTGTAATC
1 AAAGTA-TGTAATTGTTGGACTGTAATC
827261 AAAGTAATGTAATTGTTGGACTGTAATC
1 AAAGT-ATGTAATTGTTGGACTGTAATC
* *
827289 AAAATAATGTAATTTTTGGACTGTAATC
1 AAAGT-ATGTAATTGTTGGACTGTAATC
* * *
827317 TAAGAATGAAATTGTTGGACTG
1 AAAGTATGTAATTGTTGGACTG
827339 CAATTAAAAG
Statistics
Matches: 255, Mismatches: 55, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
26 18 0.07
27 59 0.23
28 171 0.67
29 7 0.03
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (27 bp):
AAAGTATGTAATTGTTGGACTGTAATC
Found at i:828234 original size:24 final size:24
Alignment explanation
Indices: 828202--828255 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
828192 AAATCATTTC
828202 AAAATGGCTATGTCGACACACTAT
1 AAAATGGCTATGTCGACACACTAT
828226 AAAATGGCTATGTCGACACACTAT
1 AAAATGGCTATGTCGACACACTAT
828250 AAAATG
1 AAAATG
828256 TGTCAACAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
AAAATGGCTATGTCGACACACTAT
Found at i:831877 original size:33 final size:33
Alignment explanation
Indices: 831838--831904 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
831828 TGTGTAGTGG
831838 GGACAGGTTTATATAAGTCCCCTGTCAATAAGT
1 GGACAGGTTTATATAAGTCCCCTGTCAATAAGT
831871 GGACAGGTTTATATAAGTCCCCTGTCAATAAGT
1 GGACAGGTTTATATAAGTCCCCTGTCAATAAGT
831904 G
1 G
831905 TAGCCTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (33 bp):
GGACAGGTTTATATAAGTCCCCTGTCAATAAGT
Found at i:839435 original size:28 final size:28
Alignment explanation
Indices: 839395--839509 Score: 221
Period size: 28 Copynumber: 4.1 Consensus size: 28
839385 GTGATAAAGT
*
839395 TGGCAGCAGAACAGGGAGGGTTGGTGTG
1 TGGCAGCAGAACAGGGAGGGTGGGTGTG
839423 TGGCAGCAGAACAGGGAGGGTGGGTGTG
1 TGGCAGCAGAACAGGGAGGGTGGGTGTG
839451 TGGCAGCAGAACAGGGAGGGTGGGTGTG
1 TGGCAGCAGAACAGGGAGGGTGGGTGTG
839479 TGGCAGCAGAACAGGGAGGGTGGGTGTG
1 TGGCAGCAGAACAGGGAGGGTGGGTGTG
839507 TGG
1 TGG
839510 NNNNNNNNNN
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.21, C:0.10, G:0.53, T:0.16
Consensus pattern (28 bp):
TGGCAGCAGAACAGGGAGGGTGGGTGTG
Found at i:840758 original size:15 final size:15
Alignment explanation
Indices: 840738--840767 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
840728 NNNNNGGGAG
840738 GGTGATTGTGTGGCA
1 GGTGATTGTGTGGCA
840753 GGTGATTGTGTGGCA
1 GGTGATTGTGTGGCA
840768 ACAGAACAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.47, T:0.33
Consensus pattern (15 bp):
GGTGATTGTGTGGCA
Found at i:840827 original size:28 final size:28
Alignment explanation
Indices: 840753--841100 Score: 398
Period size: 28 Copynumber: 12.4 Consensus size: 28
840743 TTGTGTGGCA
* *
840753 GGTGATTGTGTGGCAACAGAACAGGGAG
1 GGTGGTTGTGTGGCAGCAGAACAGGGAG
* *
840781 GTTGGGTTGTGTGGCAACAGAACAGGGAG
1 GGT-GGTTGTGTGGCAGCAGAACAGGGAG
* *
840810 GGTGATTGTGTGGCAACAGAACAGGGAG
1 GGTGGTTGTGTGGCAGCAGAACAGGGAG
* *
840838 GGTGGTTGTGTGGCAGGAGATCAGGGAGG
1 GGTGGTTGTGTGGCAGCAGAACAGGGA-G
* *
840867 GGGGGTTGTGTGGCAACAGAACAGGGAG
1 GGTGGTTGTGTGGCAGCAGAACAGGGAG
840895 GGTAGG-TGTGTGGCAGCA-AGACAGGGAG
1 GGT-GGTTGTGTGGCAGCAGA-ACAGGGAG
* *
840923 GGTGGGTGTGTGGCAACAGAACAGGGAG
1 GGTGGTTGTGTGGCAGCAGAACAGGGAG
* *
840951 GGTGGATGTGTGGCAGGAGAACA-GGAG
1 GGTGGTTGTGTGGCAGCAGAACAGGGAG
* * * *
840978 GGTGGGTGTGTGGCGGCAGGACAGGGAA
1 GGTGGTTGTGTGGCAGCAGAACAGGGAG
* * *
841006 GGTGATTGTGTTGCAGCAGGACAGGGAG
1 GGTGGTTGTGTGGCAGCAGAACAGGGAG
*
841034 GGTGGGTTCTGTGGCAGCAGAACAGGGAG
1 GGT-GGTTGTGTGGCAGCAGAACAGGGAG
* *
841063 GGTGGGTGTGTGGCGGCAGAACA-GGAG
1 GGTGGTTGTGTGGCAGCAGAACAGGGAG
*
841090 GTTGGTTGTGT
1 GGTGGTTGTGT
841101 TTAAGTCTAC
Statistics
Matches: 275, Mismatches: 37, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
27 39 0.14
28 159 0.58
29 77 0.28
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.18
Consensus pattern (28 bp):
GGTGGTTGTGTGGCAGCAGAACAGGGAG
Found at i:840876 original size:57 final size:56
Alignment explanation
Indices: 840758--841100 Score: 403
Period size: 57 Copynumber: 6.1 Consensus size: 56
840748 TGGCAGGTGA
* * *
840758 TTGTGTGGCAACAGAACAGGGAGGTTGGGTTGTGTGGCAACAGAACAGGGAGGGT-GA
1 TTGTGTGGCAACAGAACAGGGAGGGT-GGTTGTGTGGCAGCAG-ACAGGGAGGGTGGG
* *
840815 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGGAGATCAGGGAGGGGGGG
1 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCAGA-CAGGGAGGGTGGG
840872 TTGTGTGGCAACAGAACAGGGAGGGTAGG-TGTGTGGCAGCAAGACAGGGAGGGTGGG
1 TTGTGTGGCAACAGAACAGGGAGGGT-GGTTGTGTGGCAGC-AGACAGGGAGGGTGGG
* *
840929 -TGTGTGGCAACAGAACAGGGAGGGTGGATGTGTGGCAGGAGAACA-GGAGGGTGGG
1 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCAG-ACAGGGAGGGTGGG
** * * * *
840984 -TGTGTGGCGGCAGGACAGGGAAGGTGATTGTGTTGCAGCAGGACAGGGAGGGTGGG
1 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCA-GACAGGGAGGGTGGG
* * * * *
841040 TTCTGTGGCAGCAGAACAGGGAGGGTGGGTGTGTGGCGGCAGAACA-GGA-GGTTGG
1 TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCAG-ACAGGGAGGGTGGG
841095 TTGTGT
1 TTGTGT
841101 TTAAGTCTAC
Statistics
Matches: 250, Mismatches: 26, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
55 60 0.24
56 76 0.30
57 109 0.44
58 5 0.02
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.18
Consensus pattern (56 bp):
TTGTGTGGCAACAGAACAGGGAGGGTGGTTGTGTGGCAGCAGACAGGGAGGGTGGG
Found at i:840905 original size:85 final size:85
Alignment explanation
Indices: 840753--841100 Score: 416
Period size: 85 Copynumber: 4.1 Consensus size: 85
840743 TTGTGTGGCA
* ** **
840753 GGTGATTGTGTGGCAACAGAACAGGGAGGTTGGGTTGTGTGGCAACAGAACAGGGAGGGTGATTG
1 GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG
*
840818 TGTGGCAACAGAACAGGGAG
66 TGTGGCAGCAGAACAGGGAG
** * *
840838 GGTGGTTGTGTGGCAGGAGATCAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTAGGTG
1 GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG
840903 TGTGGCAGCA-AGACAGGGAG
66 TGTGGCAGCAGA-ACAGGGAG
* * * **
840923 GGTGGGTGTGTGGCAACAGAACAGGGA-GGGTGGATGTGTGGCAGGAGAACA-GGAGGGTGGGTG
1 GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG
* * *
840986 TGTGGCGGCAGGACAGGGAA
66 TGTGGCAGCAGAACAGGGAG
* * * * * * *
841006 GGTGATTGTGTTGCAGCAGGACAGGGAGGGTGGGTTCTGTGGCAGCAGAACAGGGAGGGTGGGTG
1 GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG
*
841071 TGTGGCGGCAGAACA-GGAG
66 TGTGGCAGCAGAACAGGGAG
*
841090 GTTGGTTGTGT
1 GGTGGTTGTGT
841101 TTAAGTCTAC
Statistics
Matches: 223, Mismatches: 36, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
83 49 0.22
84 52 0.23
85 122 0.55
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.18
Consensus pattern (85 bp):
GGTGGTTGTGTGGCAACAGAACAGGGAGGGGGGGTTGTGTGGCAACAGAACAGGGAGGGTGGGTG
TGTGGCAGCAGAACAGGGAG
Found at i:842152 original size:27 final size:26
Alignment explanation
Indices: 842115--842212 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 26
842105 CATATAGTCA
842115 CACAATACACAGAAATAAGTCTCAAGT
1 CACAATACACAG-AATAAGTCTCAAGT
* *
842142 CACAATGCAC--AA-AAGTCTCAAAT
1 CACAATACACAGAATAAGTCTCAAGT
* * * * *
842165 AACAAGACACAGAATAACTTATCAAGC
1 CACAATACACAGAATAA-GTCTCAAGT
842192 CACAATACACAGAAATAAGTC
1 CACAATACACAG-AATAAGTC
842213 AAAACAATTT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
23 17 0.32
24 2 0.04
25 2 0.04
26 2 0.04
27 25 0.47
28 5 0.09
ACGTcount: A:0.50, C:0.23, G:0.10, T:0.16
Consensus pattern (26 bp):
CACAATACACAGAATAAGTCTCAAGT
Found at i:842422 original size:117 final size:115
Alignment explanation
Indices: 842173--842445 Score: 379
Period size: 117 Copynumber: 2.3 Consensus size: 115
842163 ATAACAAGAC
* *
842173 ACAGAATAACTTATCAAGCCACAATACACAGAAATAAGTCAAAACAATTTACAAGTCACAAGACT
1 ACAGAATAACTTATCAAGTCACAATACACAGAAACAAGTCAAAACAATTTACAAGTCACAAGACT
*
842238 CGGAAATCTAAAAAGTCAAAATACACAGAAACAAGCCTCAAGTCACAGCTT
66 AGGAAATCT-AAAAGTCAAAATACACAGAAACAAGCCTCAAGTCACAGCTT
* *
842289 ACAGAATAACTTATCAAGTCACAATACACAAAAACAAGTCAAAACAATTTACAAGTCACAATAC-
1 ACAGAATAACTTATCAAGTCACAATACACAGAAACAAGTCAAAACAATTTACAAGTCACAAGACT
* * * * * *
842353 AGAAAGTAAGTCT-AGAGTCACAATACACAGAACCAAGCCTCAAGTCACTGTTT
66 AG---G-AAATCTAAAAGTCAAAATACACAGAAACAAGCCTCAAGTCACAGCTT
*
842406 ATAGAATAACTTATCAAGTCACAATACACAGAAACAAGTC
1 ACAGAATAACTTATCAAGTCACAATACACAGAAACAAGTC
842446 TTAAGTCACA
Statistics
Matches: 140, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
115 1 0.01
116 60 0.43
117 73 0.52
118 1 0.01
119 5 0.04
ACGTcount: A:0.48, C:0.22, G:0.11, T:0.19
Consensus pattern (115 bp):
ACAGAATAACTTATCAAGTCACAATACACAGAAACAAGTCAAAACAATTTACAAGTCACAAGACT
AGGAAATCTAAAAGTCAAAATACACAGAAACAAGCCTCAAGTCACAGCTT
Found at i:842506 original size:81 final size:82
Alignment explanation
Indices: 842340--842546 Score: 203
Period size: 81 Copynumber: 2.6 Consensus size: 82
842330 AAACAATTTA
* * **
842340 CAAGTCACAAT--ACAGAAAGTAAGTCTAGAGTCACAATACACAGAACCAAGCCTCAAGTCACTG
1 CAAGTCACAATACACAGAAAGCAAGTCTAGAGTCACAATACACAGAAACAAGCCTCAAGTCACAA
** * * *
842403 TTTATAGAATAACTTAT
66 TACACAGAACAACCTAT
842420 CAAGTCACAATACACAGAAA-CAAGTCTTA-AGTCACAATACACAGAAACAAGCCTCAAGTCACA
1 CAAGTCACAATACACAGAAAGCAAGTC-TAGAGTCACAATACACAGAAACAAGCCTCAAGTCACA
842483 ATACACAGAAACAAGCCT-T
65 ATACACAG-AACAA-CCTAT
* * * * * *
842502 -AAGTCTCAATACACA-AAAGTAAGTCTAAAGTTACCATACAAAGAA
1 CAAGTCACAATACACAGAAAGCAAGTCTAGAGTCACAATACACAGAA
842547 TAACTTATCT
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
80 16 0.15
81 74 0.70
82 14 0.13
83 2 0.02
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19
Consensus pattern (82 bp):
CAAGTCACAATACACAGAAAGCAAGTCTAGAGTCACAATACACAGAAACAAGCCTCAAGTCACAA
TACACAGAACAACCTAT
Found at i:842587 original size:27 final size:27
Alignment explanation
Indices: 842340--842592 Score: 169
Period size: 27 Copynumber: 9.4 Consensus size: 27
842330 AAACAATTTA
*
842340 CAAGTCACAAT--ACAGAAAGTAAGTCT
1 CAAGTCACAATACACAGAAA-CAAGTCT
* *
842366 -AGAGTCACAATACACAGAACCAAGCCT
1 CA-AGTCACAATACACAGAAACAAGTCT
** ** * ** *
842393 CAAGTCACTGTTTATAGAATA-ACTTAT
1 CAAGTCACAATACACAGAA-ACAAGTCT
842420 CAAGTCACAATACACAGAAACAAGTCT
1 CAAGTCACAATACACAGAAACAAGTCT
* *
842447 TAAGTCACAATACACAGAAACAAGCCT
1 CAAGTCACAATACACAGAAACAAGTCT
*
842474 CAAGTCACAATACACAGAAACAAGCCT
1 CAAGTCACAATACACAGAAACAAGTCT
* * *
842501 TAAGTCTCAATACACA-AAAGTAAGTCT
1 CAAGTCACAATACACAGAAA-CAAGTCT
* * * * ** *
842528 AAAGTTACCATACAAAGAATA-ACTTAT
1 CAAGTCACAATACACAGAA-ACAAGTCT
*
842555 CTAGTCACAATACACAGTAAA-AAGTCT
1 CAAGTCACAATACACAG-AAACAAGTCT
*
842582 CAAGTCTCAAT
1 CAAGTCACAAT
842593 GCATTGAAAT
Statistics
Matches: 171, Mismatches: 46, Indels: 19
0.72 0.19 0.08
Matches are distributed among these distances:
25 1 0.01
26 13 0.08
27 145 0.85
28 11 0.06
29 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21
Consensus pattern (27 bp):
CAAGTCACAATACACAGAAACAAGTCT
Found at i:842803 original size:33 final size:33
Alignment explanation
Indices: 842699--842887 Score: 248
Period size: 33 Copynumber: 5.8 Consensus size: 33
842689 CACATTATTC
*
842699 TAGA-CAAGTCACAATACAC--AAA-ATTCAAGT
1 TAGATCAAGTCACAATACACAGAAACATT-AGGT
*
842729 CTAGATTAAGTCACAATACACAGAAACA--A-GT
1 -TAGATCAAGTCACAATACACAGAAACATTAGGT
842760 CTAGATCAAGTCACAATACACAGAAACATTAGGT
1 -TAGATCAAGTCACAATACACAGAAACATTAGGT
*
842794 TAGATCAAGTCACCATACACAGAAACATTAGGT
1 TAGATCAAGTCACAATACACAGAAACATTAGGT
*
842827 TAGATCAAGTCACAATACACAGAAACGTTAGGT
1 TAGATCAAGTCACAATACACAGAAACATTAGGT
* *
842860 TAGATCAAGTCACCATACACAGATACAT
1 TAGATCAAGTCACAATACACAGAAACAT
842888 ACACACAGTA
Statistics
Matches: 143, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
31 33 0.23
32 15 0.10
33 89 0.62
34 5 0.03
35 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (33 bp):
TAGATCAAGTCACAATACACAGAAACATTAGGT
Found at i:843737 original size:16 final size:16
Alignment explanation
Indices: 843716--843746 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
843706 GTACCTGAGT
843716 GTGATGTTTTACCTGA
1 GTGATGTTTTACCTGA
843732 GTGATGTTTTACCTG
1 GTGATGTTTTACCTG
843747 TGTGGATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.45
Consensus pattern (16 bp):
GTGATGTTTTACCTGA
Found at i:843935 original size:2 final size:2
Alignment explanation
Indices: 843928--843961 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
843918 GATGTATTTT
*
843928 TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
843962 GTATTGGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:851658 original size:44 final size:38
Alignment explanation
Indices: 851616--851692 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
851606 CTTAAGATAT
*
851616 AAGA-ATAAGTGTACAAGTTCAGACTTAGTGATGGTTA
1 AAGATATAAGAGTACAAGTTCAGACTTAGTGATGGTTA
851653 AAGATATAAGAGTACAAGTTCAGACTTAGTGATGGTTA
1 AAGATATAAGAGTACAAGTTCAGACTTAGTGATGGTTA
851691 AA
1 AA
851693 AAAAATGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 4 0.11
38 34 0.89
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (38 bp):
AAGATATAAGAGTACAAGTTCAGACTTAGTGATGGTTA
Found at i:852729 original size:54 final size:53
Alignment explanation
Indices: 852568--853025 Score: 475
Period size: 53 Copynumber: 8.6 Consensus size: 53
852558 GGTAAGATAT
* * *
852568 AAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACA
1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA
852622 AAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA
* * * ** * *
852675 ATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAGGTACATGTCTAC-
1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA
* * * * *
852728 -AA--TACGTCAGAAGTATGTGCATTCAATATGTAGTTAGAATTACGTGTATACA
1 AAATGTA-GTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA
852780 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA
* * *
852834 AAATGTAGTCAGAATTAGTGTATACAATATTTAGTCAGAATTATGTGTATACA
1 AAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA
* ** * * * * * *
852887 AAATGTAGACAGAGGTACATGTCTAC--AA--TACGTCAGAAGTATGTGCATTCA
1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTA-GTCAGAATTACGTGTATACA
* *
852938 ATATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACA
1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACA
* * * *
852991 ATATTTAGTTAGAATTACGTGTATACAAAGTGTAG
1 AAATGTAGTCAGAATTA-GTGTATACAAAATGTAG
853026 AAAGAAGTAT
Statistics
Matches: 341, Mismatches: 51, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
50 4 0.01
51 72 0.21
52 2 0.01
53 139 0.41
54 120 0.35
55 4 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (53 bp):
AAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA
Found at i:852784 original size:78 final size:78
Alignment explanation
Indices: 852572--853034 Score: 366
Period size: 80 Copynumber: 5.9 Consensus size: 78
852562 AGATATAAAT
* * *
852572 GTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAAT
1 GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAAG
*
852637 TAGTGTATACAAAA
66 TAATGTATAC-AAA
* * * *
852651 TGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAG
1 -GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAA
*
852716 GTACATGTCTAC-AA
65 GTA-ATGTATACAAA
* * * * *
852730 -TACGTCAGAAGTATGTGCATTCAATATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAA
1 GTA-GTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAA
* *
852794 TTACGTGTATACAAAA
65 GTA-ATGTATAC-AAA
* * * * * *
852810 TGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAATATTTAGTCAGAA
1 -GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAA
* *
852874 TTATGTGTATACAAAA
65 GTA-ATGTATAC-AAA
* * * * * * * * *
852890 TGTAGACAGAGGTACATGTC-TACAATA---CGTCAGAAGTATGTGCATTCAATATGTAGTTAGA
1 -GTAGTCAGAAGTACGTG-CATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGA
* *
852951 ATTACGTGTATACAAAA
64 AGTA-ATGTATAC-AAA
* * * * * **
852968 TGTAGTCAGAATTA-GTGTATACAATATTTAGTTAGAATTACGTGTATACAAAGTGTAGAAAGAA
1 -GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAA
853032 GTA
65 GTA
853035 TGTGTATCTC
Statistics
Matches: 316, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
77 20 0.06
78 106 0.34
79 2 0.01
80 149 0.47
81 37 0.12
82 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (78 bp):
GTAGTCAGAAGTACGTGCATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAAG
TAATGTATACAAA
Found at i:852789 original size:105 final size:105
Alignment explanation
Indices: 852568--853034 Score: 424
Period size: 107 Copynumber: 4.4 Consensus size: 105
852558 GGTAAGATAT
* * * * **
852568 AAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCA
1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATAC-AAA-GTAGTCA
* * *
852633 GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACA
64 GAAGTAGTGCATACAATATGTAGTCAGAATTACGTGTATACA
* * * * *
852675 ATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAGGTACATGTCTAC-AA-TACGTCAG
1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATACAAAGTA-GTCAG
* *
852738 AAGTATGTGCATTCAATATGTAGTTAGAATTACGTGTATACA
65 AAGTA-GTGCATACAATATGTAGTCAGAATTACGTGTATACA
* * *
852780 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA
1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATAC-AAA-GTAGTCA
* * * *
852845 GAATTAGTGTATACAATATTTAGTCAGAATTATGTGTATACA
64 GAAGTAGTGCATACAATATGTAGTCAGAATTACGTGTATACA
* ** * * * * ** * * *
852887 AAATGTAGACAGAGGTACATGTCTACAATACGT---CAGAAGTATGTGCATTCAATATGTAGTTA
1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATACAA-A-GTAGTCA
* * *
852949 GAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACA
64 GAAGTA-GTGCATACAATATGTAGTCAGAATTACGTGTATACA
* * * * *
852991 ATATTTAGTTAGAATTACGTGTATACAAAGTGTAGAAAGAAGTA
1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTA
853035 TGTGTATCTC
Statistics
Matches: 293, Mismatches: 56, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
103 4 0.01
104 67 0.23
105 103 0.35
107 108 0.37
108 9 0.03
109 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (105 bp):
AAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTATACAAAGTAGTCAGA
AGTAGTGCATACAATATGTAGTCAGAATTACGTGTATACA
Found at i:852882 original size:185 final size:185
Alignment explanation
Indices: 852570--853025 Score: 817
Period size: 185 Copynumber: 2.5 Consensus size: 185
852560 TAAGATATAA
* * *
852570 ATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGA
1 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGA
852635 ATTA-GTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTAT
65 ATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTAT
852699 ACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT
130 ACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT
852755 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGA
1 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAAAATGTAGTCAGA
852820 ATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAATATTTAGTCAGAATTATGTGTAT
65 ATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTAT
852884 ACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT
130 ACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT
* * *
852940 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTAGTGTATACAATATTTAGTTAGAA
1 ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAA
*
853005 TTACGTGTATACAAAGTGTAG
66 TTACGTGTATACAAAATGTAG
853026 AAAGAAGTAT
Statistics
Matches: 262, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
184 40 0.15
185 196 0.75
186 26 0.10
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (185 bp):
ATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTAGTGTATACAAAATGTAGTCAGAA
TTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATA
CAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAAT
Found at i:852887 original size:158 final size:159
Alignment explanation
Indices: 852593--853034 Score: 554
Period size: 158 Copynumber: 2.8 Consensus size: 159
852583 TACGTGTATA
*
852593 CAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAAAATGTAGT
1 CAATATATAGTCAGAATTATGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGT
* *
852657 CAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAGGTACAT
66 CAGAATTACGTGTATACAATATTTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACAT
* * * *
852722 GTCTACAATACGTCAGA-AGTATGTGCAT-T
131 GTATACAAAACGT-AGACAG-AGGTACATGT
* * *
852751 CAATATGTAGTTAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGT
1 CAATATATAGTCAGAATTATGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGT
* * * * * * **
852816 CAGAATTACGTGTATACAAAATGTAGTCAGAATTA-GTGTATACAATATTTAGTCAGAATTATGT
66 CAGAATTACGTGTATACAATATTTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACAT
*
852880 GTATACAAAATGTAGACAGAGGTACATGT
131 GTATACAAAACGTAGACAGAGGTACATGT
* * * * * * *
852909 CTACA-ATACGTCAGAAGTATGTGCATTCAATATGTAGTTAGAATTACGTGTATACAAAATGTAG
1 CAATATATA-GTCAGAATTATGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAG
* * *
852973 TCAGAATTA-GTGTATACAATATTTAGTTAGAATTACGTGTATACAAAGTGTAGAAAGAAGTA
65 TCAGAATTACGTGTATACAATATTTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTA
853035 TGTGTATCTC
Statistics
Matches: 243, Mismatches: 36, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
157 34 0.14
158 158 0.65
159 51 0.21
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (159 bp):
CAATATATAGTCAGAATTATGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGT
CAGAATTACGTGTATACAATATTTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACAT
GTATACAAAACGTAGACAGAGGTACATGT
Found at i:852973 original size:212 final size:211
Alignment explanation
Indices: 852568--853025 Score: 571
Period size: 212 Copynumber: 2.2 Consensus size: 211
852558 GGTAAGATAT
* * *
852568 AAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGTCA
1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA
* * * * **
852633 GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACAATATTTAGTCAGAATTATGTGTA
66 GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTA
* * * * * *
852698 TACAAAATGTAGACAGAGGTACATGTCTACAATACGTCAGAAGTATGTGCATTCAATATGTAGTT
131 TACAAAACGTAGACAGAGGTACATGTCAACAATACGTCAGAAGTACGTGCATACAAAATGTAGTC
852763 AGAATTACGTGTATACA
196 AGAATTA-GTGTATACA
852780 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA
1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA
* * * * *
852845 GAATTAGTGTATACAATATTTAGTCAGAATTATGTGTATACAAAATGTAGACAGAGGTACATGTC
66 GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTA
* * * * * * * *
852910 TACAATACGTCAGA-AGTATGTGCAT-TCAATATGTA-GTTAGAATTACGTGTATACAAAATGTA
131 TACAAAACGT-AGACAG-AGGTACATGTCAACA-ATACGTCAGAAGTACGTGCATACAAAATGTA
852972 GTCAGAATTAGTGTATACA
193 GTCAGAATTAGTGTATACA
* * * *
852991 ATATTTAGTTAGAATTACGTGTATACAAAGTGTAG
1 AAATGTAGTCAGAATTACGTGTATACAAAATGTAG
853026 AAAGAAGTAT
Statistics
Matches: 211, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
211 40 0.19
212 160 0.76
213 11 0.05
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (211 bp):
AAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGTCA
GAATTAGTGTATACAAAATGTAGTCAGAATTACGTGTATACAAAATGTAGACAGAAGTACATGTA
TACAAAACGTAGACAGAGGTACATGTCAACAATACGTCAGAAGTACGTGCATACAAAATGTAGTC
AGAATTAGTGTATACA
Found at i:853041 original size:27 final size:27
Alignment explanation
Indices: 852568--853025 Score: 506
Period size: 27 Copynumber: 17.3 Consensus size: 27
852558 GGTAAGATAT
852568 AAATGTAGTCAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
* * *
852595 ATATTTAGTCAGAATTATGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
852622 AAATGTAGTCAGAATTA-GTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
852648 AAATGTAGTCAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
* * *
852675 ATATTTAGTCAGAATTATGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
* ** * *
852702 AAATGTAGACAGAGGTACATGTCTAC-
1 AAATGTAGTCAGAATTACGTGTATACA
* * * *
852728 -AA--TACGTCAGAAGTATGTGCATTCA
1 AAATGTA-GTCAGAATTACGTGTATACA
* *
852753 ATATGTAGTTAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
852780 AAATGTAGTCAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
852807 AAATGTAGTCAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
852834 AAATGTAGTCAGAATTA-GTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
* * *
852860 ATATTTAGTCAGAATTATGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
* ** * *
852887 AAATGTAGACAGAGGTACATGTCTAC-
1 AAATGTAGTCAGAATTACGTGTATACA
* * * *
852913 -AA--TACGTCAGAAGTATGTGCATTCA
1 AAATGTA-GTCAGAATTACGTGTATACA
* *
852938 ATATGTAGTTAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
852965 AAATGTAGTCAGAATTA-GTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
* * *
852991 ATATTTAGTTAGAATTACGTGTATACA
1 AAATGTAGTCAGAATTACGTGTATACA
*
853018 AAGTGTAG
1 AAATGTAG
853026 AAAGAAGTAT
Statistics
Matches: 356, Mismatches: 62, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
23 4 0.01
24 24 0.07
25 4 0.01
26 75 0.21
27 245 0.69
28 4 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (27 bp):
AAATGTAGTCAGAATTACGTGTATACA
Found at i:855857 original size:22 final size:22
Alignment explanation
Indices: 855816--855857 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
855806 TCCATCCTGT
* *
855816 GTTAGGTGAACTGATTCTCCTC
1 GTTAGGTGAACTAATACTCCTC
855838 GTTAGGTGAACTAATACTCC
1 GTTAGGTGAACTAATACTCC
855858 CCAATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (22 bp):
GTTAGGTGAACTAATACTCCTC
Found at i:860789 original size:10 final size:10
Alignment explanation
Indices: 860774--860813 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
860764 AATCCCCTGA
860774 AACTTAGCTT
1 AACTTAGCTT
860784 AACTTAGCTT
1 AACTTAGCTT
860794 AAACTTAGCTT
1 -AACTTAGCTT
860805 AACTTAGCT
1 AACTTAGCT
860814 GTGTAACAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (10 bp):
AACTTAGCTT
Found at i:860799 original size:21 final size:21
Alignment explanation
Indices: 860773--860813 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
860763 CAATCCCCTG
860773 AAACTTAGCTTAACTTAGCTT
1 AAACTTAGCTTAACTTAGCTT
860794 AAACTTAGCTTAACTTAGCT
1 AAACTTAGCTTAACTTAGCT
860814 GTGTAACAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
AAACTTAGCTTAACTTAGCTT
Found at i:865397 original size:2 final size:2
Alignment explanation
Indices: 865390--865425 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
865380 TATTTCAAGC
*
865390 AG AG AG AG AG AA AG AG AG AG AG AG AG AG -G AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
865426 TTATTGAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:867655 original size:37 final size:37
Alignment explanation
Indices: 867605--867677 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
867595 TTGACGGCGA
** *
867605 AGTTTACAGGGAGACGCCACTAGATCCGCGCGCGGAT
1 AGTTTACAGGGAGACGCCAAGAGATCCGCACGCGGAT
867642 AGTTTACAGGGAGACGCCAAGAGATCCGCACGCGGA
1 AGTTTACAGGGAGACGCCAAGAGATCCGCACGCGGA
867678 CCGTCAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.26, G:0.33, T:0.14
Consensus pattern (37 bp):
AGTTTACAGGGAGACGCCAAGAGATCCGCACGCGGAT
Found at i:873593 original size:14 final size:16
Alignment explanation
Indices: 873563--873594 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
873553 CCGGAAATCA
873563 AAATGCTTTGCCCATT
1 AAATGCTTTGCCCATT
873579 AAAT-CTTTG-CCATT
1 AAATGCTTTGCCCATT
873593 AA
1 AA
873595 CTGAATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (16 bp):
AAATGCTTTGCCCATT
Found at i:873877 original size:61 final size:61
Alignment explanation
Indices: 873812--873935 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 61
873802 ACCAACAGAA
* *
873812 ACTGAATTCATAATTATATATCAGTAATGTTATAAATTCC-TAAGCACTACATCATTGTCCC
1 ACTGAATTAATAATTACATATCAGTAATGTTATAAATTCCAT-AGCACTACATCATTGTCCC
* **
873873 ACTGAATTAATAATTACATATCAGTAGTGTTATAAATTCCATAGCACTATTTCATTGTCCC
1 ACTGAATTAATAATTACATATCAGTAATGTTATAAATTCCATAGCACTACATCATTGTCCC
873934 AC
1 AC
873936 ATTAAGCATG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 56 0.98
62 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (61 bp):
ACTGAATTAATAATTACATATCAGTAATGTTATAAATTCCATAGCACTACATCATTGTCCC
Found at i:874425 original size:21 final size:21
Alignment explanation
Indices: 874401--874442 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
874391 ACCAACCAGT
874401 GTGGAGAAGTACTAATACTTG
1 GTGGAGAAGTACTAATACTTG
*
874422 GTGGAGTAGTACTAATACTTG
1 GTGGAGAAGTACTAATACTTG
874443 TTTGATGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.31
Consensus pattern (21 bp):
GTGGAGAAGTACTAATACTTG
Found at i:874500 original size:66 final size:66
Alignment explanation
Indices: 874423--874811 Score: 646
Period size: 66 Copynumber: 6.0 Consensus size: 66
874413 TAATACTTGG
* * *
874423 TGGAGTAGTACTAATACTTGTTTGATGGTACTCATATACTGACCAGTAAGAGTATACCAACCAGT
1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
874488 C
66 C
*
874489 TGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
874554 C
66 C
874555 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
874620 C
66 C
* *
874621 TGGAGTAGTACTAATACTTGGTCGATGGTA--CATACACTGACCAGT-AG-G-A-ACCAACCAGT
1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
874680 C
66 C
* * *
874681 TGGAGAAGTACTATTACTTGGTTTATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
874746 C
66 C
*
874747 TGGAGAAGTACTAATACTTGGTTGGTGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
1 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
874812 GGGTACTGGT
Statistics
Matches: 301, Mismatches: 16, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
60 36 0.12
61 1 0.00
62 16 0.05
63 4 0.01
64 16 0.05
65 1 0.00
66 227 0.75
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (66 bp):
TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
C
Found at i:874509 original size:87 final size:86
Alignment explanation
Indices: 874358--874525 Score: 282
Period size: 87 Copynumber: 1.9 Consensus size: 86
874348 AGGACTTAAC
*
874358 TGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGTGTGGAGAAGTACTAATACTTGG
1 TGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGTCTGGAGAAGTACTAATACTTGG
874423 TGGAGTAGTACTAATACTTGTT
66 TGGA-TAGTACTAATACTTGTT
* *
874445 TGATGGTACTCATATACTGACCAGTAAGAGTATACCAACCAGTCTGGAGAAGTACTAATACTTGG
1 TGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGTCTGGAGAAGTACTAATACTTGG
* *
874510 TTGATAGTACTCATAC
66 TGGATAGTACTAATAC
874526 ACTGACCAGT
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 11 0.14
87 65 0.86
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (86 bp):
TGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGTCTGGAGAAGTACTAATACTTGG
TGGATAGTACTAATACTTGTT
Found at i:874724 original size:126 final size:130
Alignment explanation
Indices: 874423--874811 Score: 617
Period size: 126 Copynumber: 3.0 Consensus size: 130
874413 TAATACTTGG
* *
874423 TGGAGTAGTACTAATACTT-GTTTGATGGTACTCATATACTGACCAGTAAGAGTATACCAACCAG
1 TGGAGAAGTACTAATACTTGGTTT-ATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG
*
874487 TCTGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCA
65 TCTGGAGAAGTACTAATACTTGGTTGATGGTAC-CATACACTGACCAGT-AGAGTATACCAACCA
874552 GTC
128 GTC
*
874555 TGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
1 TGGAGAAGTACTAATACTTGGTTTATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
* *
874620 CTGGAGTAGTACTAATACTTGGTCGATGGTA-CATACACTGACCAGTAG-G-A-ACCAACCAGTC
66 CTGGAGAAGTACTAATACTTGGTTGATGGTACCATACACTGACCAGTAGAGTATACCAACCAGTC
* *
874681 TGGAGAAGTACTATTACTTGGTTTATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
1 TGGAGAAGTACTAATACTTGGTTTATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
*
874746 CTGGAGAAGTACTAATACTTGGTTGGTGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG
66 CTGGAGAAGTACTAATACTTGGTTGATGGTAC-CATACACTGACCAGT-AGAGTATACCAACCAG
874811 T
129 T
874812 GGGTACTGGT
Statistics
Matches: 238, Mismatches: 12, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
126 101 0.42
127 1 0.00
128 16 0.07
129 4 0.02
130 16 0.07
131 1 0.00
132 96 0.40
133 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (130 bp):
TGGAGAAGTACTAATACTTGGTTTATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
CTGGAGAAGTACTAATACTTGGTTGATGGTACCATACACTGACCAGTAGAGTATACCAACCAGTC
Found at i:874756 original size:192 final size:197
Alignment explanation
Indices: 874423--874811 Score: 680
Period size: 192 Copynumber: 2.0 Consensus size: 197
874413 TAATACTTGG
* * *
874423 TGGAGTAGTACTAATACTTGTTTGATGGTACTCATATACTGACCAGTAAGAGTATACCAACCAGT
1 TGGAGTAGTACTAATACTTGGTCGATGGTAC-CATACACTGACCAGTAAGAGTATACCAACCAGT
874488 CTGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAG
65 CTGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAG
874553 TCTGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCA
130 TCTGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCA
874618 GTC
195 GTC
874621 TGGAGTAGTACTAATACTTGGTCGATGGTA-CATACACTGACCAGT-AG-G-A-ACCAACCAGTC
1 TGGAGTAGTACTAATACTTGGTCGATGGTACCATACACTGACCAGTAAGAGTATACCAACCAGTC
* *
874681 TGGAGAAGTACTATTACTTGGTTTATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
66 TGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
*
874746 CTGGAGAAGTACTAATACTTGGTTGGTGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG
131 CTGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG
874811 T
196 T
874812 GGGTACTGGT
Statistics
Matches: 185, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
192 139 0.75
193 1 0.01
194 1 0.01
195 2 0.01
196 14 0.08
198 28 0.15
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (197 bp):
TGGAGTAGTACTAATACTTGGTCGATGGTACCATACACTGACCAGTAAGAGTATACCAACCAGTC
TGGAGAAGTACTAATACTTGGTTGATAGTACTCATACACTGACCAGTAAGAGTATACCAACCAGT
CTGGAGAAGTACTAATACTTGGTTGATGGTACTCATACACTGACCAGTAAGAGTATACCAACCAG
TC
Found at i:877414 original size:53 final size:53
Alignment explanation
Indices: 877334--877811 Score: 875
Period size: 53 Copynumber: 9.0 Consensus size: 53
877324 ATGTGCTCCT
877334 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
877387 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
* *
877440 ACAGGGTTAAAGTATCGTAGCATGATGATGTTCCAGTCCTACAAACAATCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
877493 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
* *
877546 ACAGGGTTAAAGTATCATAGCATGATGATGTTCCAGTCCTACAAACATTCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
877599 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
* * *
877652 ACAGGGTTAAAGTATCGTAGCATGATGATGTTCCAATCCTACAAACAATCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
877705 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
* *
877758 ACAGGGTTAAAGTATCGTAGCATGATGATGTTCCAGTCCTACAAATATTCACA
1 ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
877811 A
1 A
877812 TTTGTAGCTC
Statistics
Matches: 409, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 409 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (53 bp):
ACAGGGTTAAAGTATCGTAACATGATGATGTTCCAGTCCTACAAACATTCACA
Found at i:880692 original size:1 final size:1
Alignment explanation
Indices: 880686--880711 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
880676 TTGACCCATG
880686 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
880712 AATGATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:883006 original size:161 final size:161
Alignment explanation
Indices: 882705--883011 Score: 393
Period size: 161 Copynumber: 1.9 Consensus size: 161
882695 GATAAACATA
**
882705 TTGAAATGAAATTTGATATTCAGGTTTATCATGATAATATCAAGGTCAAGTTCGATATTGGGTAC
1 TTGAAATGAAATTTGATATAAAGGTTTATCATGATAATATCAAGGTCAAGTTCGATATTGGGTAC
* * * * *
882770 AATCGAGCAATTTTTGACAGAGTTATGGCTCTTGGACTGAGAAAAATTCAAGTTATGTACAGTTT
66 AATAGAGCAATTTTCGACAGAGTTATGCCGCTTGGACTGAGAAAAATTCAAGATATGTACAGTTT
*
882835 CCGCTCATTTTCTTTGCAGAGAGGGCAAATT
131 ACGCTCATTTTCTTTGCAGAGAGGGCAAATT
* * * * * *
882866 TTGATATGAAATTTGGTATAAAGGTTTTTC-TAGATAATATCTAGGTCAAGTTTGATTTTGGGTA
1 TTGAAATGAAATTTGATATAAAGGTTTATCAT-GATAATATCAAGGTCAAGTTCGATATTGGGTA
** * * *
882930 TGATAGAGCAATTTTCGACAGAGTTATGCCGCTTGGACTTAGAAAAATTCCAA-ATATTTGCAGT
65 CAATAGAGCAATTTTCGACAGAGTTATGCCGCTTGGACTGAGAAAAATT-CAAGATATGTACAGT
* *
882994 TTATGTTCATTTTCTTTG
129 TTACGCTCATTTTCTTTG
883012 TGGATGTTTC
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
160 1 0.01
161 119 0.97
162 3 0.02
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (161 bp):
TTGAAATGAAATTTGATATAAAGGTTTATCATGATAATATCAAGGTCAAGTTCGATATTGGGTAC
AATAGAGCAATTTTCGACAGAGTTATGCCGCTTGGACTGAGAAAAATTCAAGATATGTACAGTTT
ACGCTCATTTTCTTTGCAGAGAGGGCAAATT
Found at i:883771 original size:28 final size:28
Alignment explanation
Indices: 883720--884232 Score: 812
Period size: 28 Copynumber: 18.1 Consensus size: 28
883710 AAATGTACAC
*
883720 ACTGGTATATTAT-CATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
883747 ACTGGTATATTGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
883775 ACTGGTATATTGTACATCTTACTGTACAT
1 ACTGGTATATTGTACATCTTACTGT-CAT
*
883804 ACTGGCATATTGTACATCTTACTGTACAT
1 ACTGGTATATTGTACATCTTACTGT-CAT
*
883833 ACTGGCATATTGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
*
883861 ACTAGTATATTGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
883889 ACTGGTATATTGTACATCTTACTGTACAT
1 ACTGGTATATTGTACATCTTACTGT-CAT
883918 ACTGGTATATTGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
*
883946 ACTAGTATATTGTACATCTTACTGTACAT
1 ACTGGTATATTGTACATCTTACTGT-CAT
*
883975 ACTGGTATAATGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
*
884003 ACTGCTATATTGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
*
884031 ACTGCTATATTGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
* *
884059 ATTAGTATATTGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
* *
884087 ACTGCTATATTGTACATCTTTCTGTACAT
1 ACTGGTATATTGTACATCTTACTGT-CAT
*
884116 ACTGGTATATTGTACATCTTTCTGTACAT
1 ACTGGTATATTGTACATCTTACTGT-CAT
*
884145 ACTGGTATAATGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
* *
884173 ACTGCTATATTGTACATCTTTCTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
*
884201 ACTAGTATATTGTACATCTTACTGTCAT
1 ACTGGTATATTGTACATCTTACTGTCAT
884229 ACTG
1 ACTG
884233 TCAATGAGAT
Statistics
Matches: 454, Mismatches: 27, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
27 12 0.03
28 278 0.61
29 164 0.36
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (28 bp):
ACTGGTATATTGTACATCTTACTGTCAT
Found at i:883819 original size:17 final size:17
Alignment explanation
Indices: 883797--883849 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
883787 TACATCTTAC
883797 TGTACATACTGGCATAT
1 TGTACATACTGGCATAT
*
883814 TGTACAT-CT----TAC
1 TGTACATACTGGCATAT
883826 TGTACATACTGGCATAT
1 TGTACATACTGGCATAT
883843 TGTACAT
1 TGTACAT
883850 CTTACTGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 9 0.31
13 2 0.07
16 2 0.07
17 16 0.55
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (17 bp):
TGTACATACTGGCATAT
Found at i:883912 original size:114 final size:113
Alignment explanation
Indices: 883724--884232 Score: 803
Period size: 114 Copynumber: 4.5 Consensus size: 113
883714 GTACACACTG
* *
883724 GTATATTAT-CATCTTACTGTCATACTGGTATATTGTACATCTTACTGTCATACTGGTATATTGT
1 GTATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTGT
*
883788 ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTACATACTG
66 ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGT-CATACTA
*
883837 GCATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTGT
1 GTATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTGT
*
883902 ACATCTTACTGTACATACTGGTATATTGTACATCTTACTGTCATACTA
66 ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTCATACTA
* * *
883950 GTATATTGTACATCTTACTGTACATACTGGTATAATGTACATCTTACTGTCATACTGCTATATTG
1 GTATATTGTACATCTTACTGT-CATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTG
*
884015 TACATCTTACTGT-CATACT-GCTATATTGTACATCTTACTGTCATATTA
65 TACATCTTACTGTACATACTGGC-ATATTGTACATCTTACTGTCATACTA
*
884063 GTATATTGTACATCTTACTGTCATACT-GCTATATTGTACATCTTTCTGTACATACTGGTATATT
1 GTATATTGTACATCTTACTGTCATACTAG-TATATTGTACATCTTACTGT-CATACTGGTATATT
* * *
884127 GTACATCTTTCTGTACATACTGGTATAATGTACATCTTACTGTCATACT-
64 GTACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTCATACTA
*
884176 GCTATATTGTACATCTTTCTGTCATACTAGTATATTGTACATCTTACTGTCATACTG
1 G-TATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTG
884233 TCAATGAGAT
Statistics
Matches: 367, Mismatches: 20, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
111 1 0.00
112 25 0.07
113 119 0.32
114 220 0.60
115 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (113 bp):
GTATATTGTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTCATACTGGTATATTGT
ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTCATACTA
Found at i:883989 original size:142 final size:139
Alignment explanation
Indices: 883724--884233 Score: 815
Period size: 142 Copynumber: 3.6 Consensus size: 139
883714 GTACACACTG
* * *
883724 GTATATTAT-CATCTTACTGTCATACTGGTATATTGTACATCTTACTGTCATACTGGTATATTGT
1 GTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATACTAGTATATTGT
* *
883788 ACATCTTACTGTACATACTGGCATATTGTACATCTTACTGTACATACTGGCATATTGTACATCTT
66 ACATCTTACTGT-CATACT-GTATATTGTACATCTTACTGTACATACTGGTATATTGTACATCTT
883853 ACTGTCATACT
129 ACTGTCATACT
* *
883864 AGTATATTGTACATCTTACTGTCATACTGGTATATTGTACATCTTACTGTACATACTGGTATATT
1 -GTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGT-CATACTAGTATATT
*
883929 GTACATCTTACTGTCATACTAGTATATTGTACATCTTACTGTACATACTGGTATAATGTACATCT
64 GTACATCTTACTGTCATACT-GTATATTGTACATCTTACTGTACATACTGGTATATTGTACATCT
883994 TACTGTCATACT
128 TACTGTCATACT
*
884006 GCTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATATTAGTATATTG
1 G-TATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATACTAGTATATTG
*
884071 TACATCTTACTGTCATACTGCTATATTGTACATCTTTCTGTACATACTGGTATATTGTACATCTT
65 TACATCTTACTGTCATACTG-TATATTGTACATCTTACTGTACATACTGGTATATTGTACATCTT
*
884136 TCTGTACATACT
129 ACTGT-CATACT
* *
884148 GGTATAATGTACATCTTACTGTCATACTGCTATATTGTACATCTTTCTGTCATACTAGTATATTG
1 -GTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATACTAGTATATTG
884213 TACATCTTACTGTCATACTGT
65 TACATCTTACTGTCATACTGT
884234 CAATGAGATT
Statistics
Matches: 349, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
140 1 0.00
141 88 0.25
142 231 0.66
143 29 0.08
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (139 bp):
GTATATTGTACATCTTACTGTCATACTGCTATATTGTACATCTTACTGTCATACTAGTATATTGT
ACATCTTACTGTCATACTGTATATTGTACATCTTACTGTACATACTGGTATATTGTACATCTTAC
TGTCATACT
Done.