Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold311
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 800152
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 5 of 7
Found at i:582536 original size:18 final size:18
Alignment explanation
Indices: 582515--582553 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
582505 ACCAGCTGCT
582515 ATCCCCCCATTTTTATCC
1 ATCCCCCCATTTTTATCC
***
582533 ATCCTTTCATTTTTATCC
1 ATCCCCCCATTTTTATCC
582551 ATC
1 ATC
582554 ATTCCATGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.36, G:0.00, T:0.46
Consensus pattern (18 bp):
ATCCCCCCATTTTTATCC
Found at i:582615 original size:35 final size:35
Alignment explanation
Indices: 582549--582667 Score: 188
Period size: 35 Copynumber: 3.4 Consensus size: 35
582539 TCATTTTTAT
*
582549 CCATCATTCCATGCCTTCA-ATTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
582583 CCATCATAT-TATGCCTTCATTTTTTTATTCCATGC
1 CCATCAT-TCCATGCCTTCATTTTTTTATTCCATGC
*
582618 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
582653 CCATCATTCCATGCC
1 CCATCATTCCATGCC
582668 CATCATATTA
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
34 17 0.22
35 61 0.78
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:582628 original size:14 final size:14
Alignment explanation
Indices: 582609--582673 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 14
582599 TCATTTTTTT
582609 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
582623 ATTCCATGCCTTCATTTTT
1 ATTCCATGCC--CA---TC
582642 ATATTCCATGCCCATC
1 AT--TCCATGCCCATC
582658 ATTCCATGCCCATC
1 ATTCCATGCCCATC
582672 AT
1 AT
582674 ATTATGCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
14 24 0.57
16 5 0.12
19 5 0.12
21 8 0.19
ACGTcount: A:0.22, C:0.35, G:0.06, T:0.37
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:582662 original size:49 final size:49
Alignment explanation
Indices: 582609--582713 Score: 167
Period size: 49 Copynumber: 2.1 Consensus size: 49
582599 TCATTTTTTT
582609 ATTCCATGCCCATCAT-TCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCCATCATAT-CATGCCTTCATTTTTATATTCCATGCCCATC
* * *
582658 ATTCCATGCCCATCATATTATGCCTTCATTTTTGTCTTCCATGCCCATC
1 ATTCCATGCCCATCATATCATGCCTTCATTTTTATATTCCATGCCCATC
582707 ATTCCAT
1 ATTCCAT
582714 TTTTTTTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
49 51 0.98
50 1 0.02
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (49 bp):
ATTCCATGCCCATCATATCATGCCTTCATTTTTATATTCCATGCCCATC
Found at i:582681 original size:14 final size:14
Alignment explanation
Indices: 582644--582673 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
582634 TCATTTTTAT
582644 ATTCCATGCCCATC
1 ATTCCATGCCCATC
582658 ATTCCATGCCCATC
1 ATTCCATGCCCATC
582672 AT
1 AT
582674 ATTATGCCTT
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:0.23, C:0.40, G:0.07, T:0.30
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:583382 original size:40 final size:41
Alignment explanation
Indices: 583336--583467 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 41
583326 CCCACTTTTT
583336 TTGAGGACAAA-GAAAAAGGGAATGAAATAG-GTCCTGCTCC
1 TTGAGGACAAAGGAAAAAGGGAA-GAAATAGTGTCCTGCTCC
** * *
583376 TTGAGGACAAAGGAAAAGAAGAAAAGGAA-AGTGTCCTGCTTC
1 TTGAGGACAAAGG-AAA-AAGGGAAGAAATAGTGTCCTGCTCC
* *
583418 TTGAGGACAAAGTGAAAAAGGGAAAAAAGT-GTGTCCTGCTCT
1 TTGAGGACAAAG-GAAAAAGGGAAGAAA-TAGTGTCCTGCTCC
583460 TTGAGGAC
1 TTGAGGAC
583468 TGAAAAGTGC
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
40 11 0.15
41 10 0.13
42 48 0.64
43 6 0.08
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.19
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGGGAAGAAATAGTGTCCTGCTCC
Found at i:583648 original size:59 final size:60
Alignment explanation
Indices: 583451--583683 Score: 328
Period size: 61 Copynumber: 3.9 Consensus size: 60
583441 AAAAAGTGTG
* * *
583451 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-AAAAAGCA
* * * * * *
583512 TCCTACTCTTTGAGGACTG-GAAGATGCCACCAACTAGTGCGGGATTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTG-AAAAAAAAAGCA
*
583573 TCCTGCTTTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAGCA
583632 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAA
583684 GCGTCCTGCT
Statistics
Matches: 153, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
59 62 0.41
60 3 0.02
61 81 0.53
62 7 0.05
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAGCA
Found at i:583867 original size:214 final size:212
Alignment explanation
Indices: 583512--584073 Score: 796
Period size: 214 Copynumber: 2.6 Consensus size: 212
583502 AGAAAAGGCA
* * * * * *
583512 TCCTACTCTTTGAGGACT-GGAAGATGCCACCAACTAGTGCGGGATTTGCAAAA-AGAAAGCATC
1 TCCTGCTCTTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGGGCTTT-AAAAAGAGAAAGCGTC
* * * *
583575 CTGCTTTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAGCATCCTGCTC
64 CTGCTTTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGC-TTAAAAGAAAGGCGTCCTGCTC
583640 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTGC-TTGAGGAC
127 TTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCT-CTTTGAGGAC
* *
583704 AAAAAGGCGAAAAGAGAGAGCG
191 AAAAAGGCGAAAAGAAAGAACG
*
583726 TCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCGTCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCGTCCT
* *
583791 ACTTTTTGAGGACTGAAGGTGCCATCAACTTGTGTGGGCTTAAAAGGAGAAGGCGTCCTGCTCTT
66 GCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTAAAA-GA-AAGGCGTCCTGCTCTT
* *
583856 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACAAA
129 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCTTTGAGGACAAA
*
583921 AAGGCGAAAGGAAAGAACG
194 AAGGCGAAAAGAAAGAACG
* *
583940 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATG-GAAAAGGTGTC
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAG-AAA-GCGTC
* *
584004 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTT---TGAAAGGCGTCCTGCTCTT
64 CTGCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAAAGGCGTCCTGCTCTT
584066 TGAGGACT
129 TGAGGACT
584074 AAAGGGTGAG
Statistics
Matches: 316, Mismatches: 25, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
210 24 0.08
211 2 0.01
212 6 0.02
213 29 0.09
214 206 0.65
215 49 0.16
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (212 bp):
TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCGTCCT
GCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTAAAAGAAAGGCGTCCTGCTCTTTG
AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCTTTGAGGACAAAAA
GGCGAAAAGAAAGAACG
Found at i:583873 original size:60 final size:60
Alignment explanation
Indices: 583713--583917 Score: 246
Period size: 60 Copynumber: 3.5 Consensus size: 60
583703 CAAAAAGGCG
* *
583713 AAAAGAG-AGAGCGTCTTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAAGAGAAG-GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGC-TTA
* * * * *
583774 AAAAGAGAAAGCGTCCTACTTTTTGAGGACTG-AAGGTGCCATCAACTTGTGTGGGCTTA
1 AAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTA
*
583833 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTT-
1 AAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTA
*
583892 ---TGA-AAGGCGTCCTGCTCTTTGAGGAC
1 AAAAGAGAAGGCGTCCTGCTCTTTGAGGAC
583918 AAAAAGGCGA
Statistics
Matches: 127, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
55 23 0.18
56 2 0.02
59 31 0.24
60 45 0.35
61 25 0.20
62 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (60 bp):
AAAAGAGAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTA
Found at i:584045 original size:155 final size:155
Alignment explanation
Indices: 583783--584334 Score: 777
Period size: 155 Copynumber: 3.6 Consensus size: 155
583773 AAAAAGAGAA
* * * *
583783 AGCGTCCTACTTTTTGAGGACT--GAAGGTGCCATCAACTTGTGTGGGC-TTAAAAGGAGAAGGC
1 AGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
583845 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
65 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * *
583910 TTGAGGACAAAAAGGCGAAAGGAAAG
130 TTGAGGACTAAAGGGTGAAAGGAAAG
* *
583936 AACGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAATGGAAAAGGT
1 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAAGGC
584001 GTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
65 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
*
584065 TTGAGGACTAAAGGGTGAGA-GAAGAG
130 TTGAGGACTAAAGGGTGAAAGGAA-AG
*
584091 AGTGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG---A---G
1 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
584150 TCCTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTCTT
66 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCT
*
584215 GCTCTTTGAGGACTAAAGGGTGAAAGGAGAG
125 GCTCTTTGAGGACTAAAGGGTGAAAGGAAAG
*
584246 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGTTTTAAAATGGAAAAGGC
1 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAAGGC
584311 GTCCTGCTCTTTGAGGACT-AAAGG
65 GTCCTGCTCTTTGAGGACTGAAAGG
584335 GTGAGAGAAG
Statistics
Matches: 358, Mismatches: 21, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
148 19 0.05
149 27 0.08
151 1 0.00
153 19 0.05
154 27 0.08
155 210 0.59
156 31 0.09
159 1 0.00
161 5 0.01
162 18 0.05
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (155 bp):
AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTAAAGGGTGAAAGGAAAG
Found at i:584159 original size:55 final size:55
Alignment explanation
Indices: 584094--584204 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
584084 AGAAGAGAGT
*
584094 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGAC-AGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
584149 GTCCTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
584204 G
1 G
584205 AATGCGTCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 3 0.06
55 50 0.94
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:584359 original size:101 final size:100
Alignment explanation
Indices: 584149--584401 Score: 391
Period size: 101 Copynumber: 2.5 Consensus size: 100
584139 TTTAAAAGGA
* * * *
584149 GTCCTGCTCTTTGAGGAC-CGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTC
1 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* *
584213 TTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
65 CTGCTCTTTGAGGACTAAAGGGTGAAAGAAGAGAGC
*
584249 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGTTTTAAAATGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAAGGCGTC
* *
584314 CTGCTCTTTGAGGACTAAAGGGTGAGAGAAGAGAGT
65 CTGCTCTTTGAGGACTAAAGGGTGAAAGAAGAGAGC
*
584350 GTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
584402 AGAGTCCTAC
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
100 45 0.32
101 95 0.68
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (100 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
TGCTCTTTGAGGACTAAAGGGTGAAAGAAGAGAGC
Found at i:584369 original size:256 final size:247
Alignment explanation
Indices: 584001--584488 Score: 782
Period size: 256 Copynumber: 1.9 Consensus size: 247
583991 TGGAAAAGGT
584001 GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
*
584066 TGAGGACTAAAGGGTGAGAGAAGAGAGTGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTT
66 TGAGGACTAAAGGGTGAGAGAAGAGAGTGTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTT
* *
584131 GTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTT
131 GTGTGGGCTTTAAAAAGAGTCCTACTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTT
* * *
584196 TAAAAGGAGAATGC-GTCTTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
196 TAAAA-AAGAAAGCATTC-TGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
*
584249 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGTTTTAAAATGGAAAAGGCGT
1 GTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGG-CTT----T-G-AAAGGCGT
584313 CCTGCTCTTTGAGGACTAAAGGGTGAGAGAAGAGAGTGTCCTGCTCTTTAAGGACTAGGAAGTGC
57 CCTGCTCTTTGAGGACTAAAGGGTGAGAGAAGAGAGTGTCCTGCTCTTTAAGGACTAGGAAGTGC
*
584378 CACCAACTTGTGTGGGCTTTAAAAAGAGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTG
122 CACCAACTTGTGTGGGCTTTAAAAAGAGTCCTACTCTTTGAGGACCGAAAGGTGCCACCAACTTG
*
584443 TGTGGGCTTTAAAAAAGAAAGCATTCTGCTCTTTGAGGACTGAAGG
187 TGTGGGCTTTAAAAAAGAAAGCATTCTGCTCTTTGAGGACTAAAGG
584489 TGCCACCAAC
Statistics
Matches: 221, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
248 19 0.09
249 20 0.09
250 5 0.02
254 1 0.00
255 26 0.12
256 150 0.68
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (247 bp):
GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTAAAGGGTGAGAGAAGAGAGTGTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTT
GTGTGGGCTTTAAAAAGAGTCCTACTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTT
TAAAAAAGAAAGCATTCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGC
Found at i:584625 original size:115 final size:114
Alignment explanation
Indices: 584351--584742 Score: 582
Period size: 115 Copynumber: 3.5 Consensus size: 114
584341 GAAGAGAGTG
* * *
584351 TCCTGCTCTTTAAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGTCCTACTCT
1 TCCTGCTCTTTAAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
584415 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
64 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
* * * *
584466 TTCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTTTTT
1 TCCTGCTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
*
584531 GAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCA
66 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAAGAAAGCA
* *
584581 TCCTGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
1 TCCTGCTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
* *
584646 GAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT--AAAAG---GCG
66 GAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
584690 TCCTGCTCTTTAAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTAAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG
584743 AAAAGGCGTC
Statistics
Matches: 256, Mismatches: 17, Indels: 13
0.90 0.06 0.05
Matches are distributed among these distances:
109 22 0.09
110 30 0.12
112 5 0.02
113 3 0.01
114 73 0.29
115 119 0.46
116 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (114 bp):
TCCTGCTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTT
GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCA
Found at i:584710 original size:170 final size:169
Alignment explanation
Indices: 584350--584773 Score: 578
Period size: 170 Copynumber: 2.5 Consensus size: 169
584340 AGAAGAGAGT
*
584350 GTCCTGCTCTTTAAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAAG--AG-TCCT
1 GTCCTGCTCTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCTCCT
*
584410 ACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCATTCTGCTCT
65 ACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAG--AGCATCCTGCTCT
** *
584475 TTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
126 TTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
*
584519 GTCCTGCTTTTTGAA-GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCATC
1 GTCCTGCTCTTT-AAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAAAGAAAGC-TC
* * *
584583 CTGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTT-AAAAG-GCGTCCTGCTCTTT
63 CTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGCATCCTGCTCTTT
584646 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
128 GAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
584689 GTCCTGCTCTTTAAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA-AAGGCGTC
1 GTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AAGAAAGC-TC
584753 CTACTCTTTGAGGACTGAAGG
63 CTACTCTTTGAGGACTGAAGG
584774 GCTAAAAGAG
Statistics
Matches: 229, Mismatches: 14, Indels: 23
0.86 0.05 0.09
Matches are distributed among these distances:
168 3 0.01
169 64 0.28
170 103 0.45
171 8 0.03
172 5 0.02
173 2 0.01
174 26 0.11
175 18 0.08
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (169 bp):
GTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGCTCCTA
CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGCATCCTGCTCTTTGAG
GACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:584741 original size:55 final size:54
Alignment explanation
Indices: 584350--584742 Score: 500
Period size: 55 Copynumber: 7.0 Consensus size: 54
584340 AGAAGAGAGT
* * *
584350 GTCCTGCTCTTTAAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGA
1 GTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
*
584405 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAGAAAGC
1 GTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT--AAAAG---GC
* * *
584465 ATTCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
584519 GTCCTGCTTTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGC
1 GTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT---AAAAG---GC
* *
584580 ATCCTGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
**
584634 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
*
584689 GTCCTGCTCTTTAAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 GTCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG
584743 AAAAGGCGTC
Statistics
Matches: 298, Mismatches: 24, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
53 1 0.00
54 43 0.14
55 147 0.49
57 13 0.04
58 4 0.01
59 27 0.09
60 44 0.15
61 19 0.06
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (54 bp):
GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:590159 original size:33 final size:33
Alignment explanation
Indices: 590122--590188 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
590112 TTCAACGATT
*
590122 TGTATCGATATATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
590155 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
590188 T
1 T
590189 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:590160 original size:13 final size:13
Alignment explanation
Indices: 590142--590166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
590132 TATAAAATGT
590142 TGTATCGATACAA
1 TGTATCGATACAA
590155 TGTATCGATACA
1 TGTATCGATACA
590167 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:590247 original size:13 final size:13
Alignment explanation
Indices: 590229--590253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
590219 ATTACTCAAA
590229 TGTATCGATACAT
1 TGTATCGATACAT
590242 TGTATCGATACA
1 TGTATCGATACA
590254 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:590318 original size:52 final size:52
Alignment explanation
Indices: 590262--590386 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
590252 CACTGATCTT
* *
590262 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
590314 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
590366 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
590387 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:595582 original size:16 final size:18
Alignment explanation
Indices: 595560--595605 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
595550 TTGTTCTTTT
*
595560 CCAAAAAAGAAACAA-AA
1 CCAAAAAAGAAAAAAGAA
595577 -CAAAAAAGAAAAAAGAA
1 CCAAAAAAGAAAAAAGAA
595594 CCAAAAAA-AAAA
1 CCAAAAAAGAAAA
595606 GGAAAAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 13 0.50
17 6 0.23
18 7 0.27
ACGTcount: A:0.80, C:0.13, G:0.07, T:0.00
Consensus pattern (18 bp):
CCAAAAAAGAAAAAAGAA
Found at i:595603 original size:22 final size:23
Alignment explanation
Indices: 595562--595612 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
595552 GTTCTTTTCC
595562 AAAAAAGAAACAAAACAAAAAAG
1 AAAAAAGAAACAAAACAAAAAAG
*
595585 AAAAAAGAACCAAAA-AAAAAAG
1 AAAAAAGAAACAAAACAAAAAAG
*
595607 GAAAAA
1 AAAAAA
595613 CCCCTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAACAAAACAAAAAAG
Found at i:596571 original size:30 final size:30
Alignment explanation
Indices: 596535--596863 Score: 316
Period size: 30 Copynumber: 10.8 Consensus size: 30
596525 ATACCTTTTT
596535 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
596565 AAAGTCCACGACTTAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TC
596597 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
596627 AAAGTCCACGACTTAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TC
* * * *
596659 AAAGCCCACGAATTAGTGGCAT-TTTGTCCC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
* *
596689 AAAGTCCATGACTTAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TC
* *
596721 AAAGCCCACGAATCAGTGGCAT-TTTGTC-C
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
596750 TAAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 -AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
* *
596782 AAAGCCCACGACTCAGTGGCAT-TTTGTCCTA
1 AAAGTCCACGACTCAGTGGCATCTTT-T-CTC
* * *
596813 AAAGTCCACAATTCAGTGGCATCCCTTT-T-
1 AAAGTCCACGACTCAGTGGCAT-CTTTTCTC
596842 -AAGTCCACGACTCAGTGGCATC
1 AAAGTCCACGACTCAGTGGCATC
596864 GAAGCCCACG
Statistics
Matches: 253, Mismatches: 26, Indels: 43
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.00
28 19 0.08
29 3 0.01
30 95 0.38
31 56 0.22
32 77 0.30
33 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:596632 original size:62 final size:62
Alignment explanation
Indices: 596535--596862 Score: 447
Period size: 62 Copynumber: 5.4 Consensus size: 62
596525 ATACCTTTTT
*
596535 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCTTC
1 AAAGCCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCTTC
*
596597 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCTTC
1 AAAGCCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCTTC
* * * *
596659 AAAGCCCACGAATTAGTGGCATTTTGTCCCAAAGTCCATGACTTAGTGGCATCCTTTTCTTC
1 AAAGCCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCTTC
* * *
596721 AAAGCCCACGAATCAGTGGCATTTTGTC-CTAAAGTCCACGACTCAGTGGCAAT-CTCTTC-TC
1 AAAGCCCACGACTCAGTGGCATTTTGTCTC-AAAGTCCACGACTTAGTGGC-ATCCTTTTCTTC
* * *
596782 AAAGCCCACGACTCAGTGGCATTTTGTCCTAAAAGTCCAC-AATTCAGTGGCATCC-CTT-TT-
1 AAAGCCCACGACTCAGTGGCATTTTGT-CTCAAAGTCCACGACTT-AGTGGCATCCTTTTCTTC
*
596842 -AAGTCCACGACTCAGTGGCAT
1 AAAGCCCACGACTCAGTGGCAT
596863 CGAAGCCCAC
Statistics
Matches: 245, Mismatches: 14, Indels: 17
0.89 0.05 0.06
Matches are distributed among these distances:
59 20 0.08
61 37 0.15
62 186 0.76
63 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (62 bp):
AAAGCCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTTAGTGGCATCCTTTTCTTC
Found at i:596997 original size:27 final size:28
Alignment explanation
Indices: 596902--597421 Score: 310
Period size: 27 Copynumber: 16.9 Consensus size: 28
596892 CTTTCAAAGT
*
596902 CCACAACTCTGTGGCACCTCCTTTTCAAAGC
1 CCACAACTCCGTGGCA-CTCCTTTT--AAGC
*
596933 CCACAACTACGTGGCACTCTCTTCCTTTTAAGC
1 CCACAACTCCGTGGCA----C-TCCTTTTAAGC
*
596966 CCACAACTCCGTGGCAC-CCGTTTAAGC
1 CCACAACTCCGTGGCACTCCTTTTAAGC
*
596993 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCA--C----TCCTTTTAAGC
* *
597027 CCACAACTCTGTGGCACCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCA-CTCCTTTT--AAGC
*
597058 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA--C----TCCTTTTAAGC
* *
597092 CTACAACTCCGTGGCACTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCCTTTT-AAGC
* *
597121 CCACAACTCTGTGGCAC-CCTTTTAAGT
1 CCACAACTCCGTGGCACTCCTTTTAAGC
* *
597148 CCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGC
1 CCACAACTCCGTGGCA--C-----TCCTTTTAAGC
*
597183 CCACAACTACGTGGCACTCTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCA--C---TCCTTTTAAGC
*
597216 CCACAACTCCGTGGCAC-CCGTTTAAGC
1 CCACAACTCCGTGGCACTCCTTTTAAGC
*
597243 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCA--C----TCCTTTTAAGC
* *
597277 TCACAACTCCGTGGCACCTTCTTTTTAAAGC
1 CCACAACTCCGTGGCA-C-TCCTTTT-AAGC
*
597308 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA--C----TCCTTTTAAGC
* * *
597342 CCACGACTCTGTGGCACTCTTTTTTAAGC
1 CCACAACTCCGTGGCACTC-CTTTTAAGC
*
597371 CCACAACTCCGTGGCAC-CCTTTTAAGT
1 CCACAACTCCGTGGCACTCCTTTTAAGC
* * *
597398 CCACGACTCCGTGACACTCTTTTT
1 CCACAACTCCGTGGCACTCCTTTT
597422 CTTTTTAAGC
Statistics
Matches: 397, Mismatches: 51, Indels: 85
0.74 0.10 0.16
Matches are distributed among these distances:
27 89 0.22
28 19 0.05
29 49 0.12
30 6 0.02
31 53 0.13
32 6 0.02
33 49 0.12
34 82 0.21
35 38 0.10
36 6 0.02
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (28 bp):
CCACAACTCCGTGGCACTCCTTTTAAGC
Found at i:597031 original size:34 final size:33
Alignment explanation
Indices: 596865--597437 Score: 399
Period size: 34 Copynumber: 18.3 Consensus size: 33
596855 AGTGGCATCG
* *
596865 AAGCCCACGACTCTGTGGCAC-CTTTTT-CTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* * * *
596896 CAAAGTCCACAACTCTGTGGCACCTCCTTTT-C--A
1 --AAGCCCACAACTCCGTGGCA-CTCTTTTTCCTTT
* *
596929 AAGCCCACAACTACGTGGCACTC-TCTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCC-TTT
*
596962 AAGCCCACAACTCCGTGGCAC-C-----CGTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
596989 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTT-T
* **
597023 AAGCCCACAACTCTGTGGCAC-CTTCTTT--TCA
1 AAGCCCACAACTCCGTGGCACTCTT-TTTCCTTT
*
597054 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCC-TTT
* * *
597088 AAGTCTACAACTCCGTGGCACTC--TTT--TTA
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* *
597117 AAGCCCACAACTCTGTGGCAC-C-----CTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* * *
597144 AAGTCCACGACTCCGTGGCACCCTTTTTTCCTTT
1 AAGCCCACAACTCCGTGGCACTC-TTTTTCCTTT
*
597178 AAAGCCCACAACTACGTGGCACTC-TTTTCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTTTCC-TTT
*
597212 AAGCCCACAACTCCGTGGCAC-C-----CGTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
597239 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTT-T
* *
597273 AAGCTCACAACTCCGTGGCAC-CTTCTTT--TTA
1 AAGCCCACAACTCCGTGGCACTCTT-TTTCCTTT
*
597304 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCC-TTT
* * *
597338 AAGTCCACGACTCTGTGGCACTC--TTT--TTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
*
597367 AAGCCCACAACTCCGTGGCAC-C-----CTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
* * * *
597394 AAGTCCACGACTCCGTGACACTCTTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTC-CTTT
597428 AAGCCCACAA
1 AAGCCCACAA
597438 GTTAGTGGCA
Statistics
Matches: 437, Mismatches: 53, Indels: 99
0.74 0.09 0.17
Matches are distributed among these distances:
27 89 0.20
28 8 0.02
29 44 0.10
30 4 0.01
31 63 0.14
32 17 0.04
33 77 0.18
34 110 0.25
35 25 0.06
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
Found at i:597041 original size:94 final size:90
Alignment explanation
Indices: 596902--597393 Score: 389
Period size: 94 Copynumber: 5.3 Consensus size: 90
596892 CTTTCAAAGT
* * * *
596902 CCACAACTCTGTGGCAC-CTCCTTTTCAAAGCCCACAACTACGTGGCACTCTCTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCT-TTTTTTAAAGCCCACAACTCCGTGGCA--C-CTTCCTTTTAAGC
*
596966 CCACAACTCCGTGGCAC-C-CGTTTAAGC
62 CCACAACTCCGTGGCACTCTCCTTTAAGC
* *
596993 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCTT-CTTTTCAAAG
1 CCACAACTCCGTGGCACTCTTTTT--TT-AAAGCCCACAACTCCGTGGCACCTTCCTTTT--AAG
* *
597057 CCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGT
61 CCCACAACTCCGTGGCA--C--TCTCC-TTTAAGC
* * *
597092 CTACAACTCCGTGGCACTC--TTTTTAAAGCCCACAACTCTGTGGCA-C--CCTTTTAAGTCCAC
1 CCACAACTCCGTGGCACTCTTTTTTTAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAGCCCAC
* *
597152 GACTCCGTGGCACCCTTTTTTCCTTTAAAGC
66 AACTCCGTGGCA--C---TCTCCTTT-AAGC
* * *
597183 CCACAACTACGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCA-C--CCGTTTAAGCCC
1 CCACAACTCCGTGGCACTCTTTT--TTTAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAGCCC
597245 ACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
64 ACAACTCCGTGGCACTC----TCCTT-TAAGC
*
597277 TCACAACTCCGTGGCAC-CTTCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAG
1 CCACAACTCCGTGGCACTCTT-TTTTTAAAGCCCACAACTCCGTGGCA-CC---TTCCTTTTAAG
* * * **
597341 TCCACGACTCTGTGGCACTCTTTTTTAAGC
61 CCCACAACTCCGTGGCACTCTCCTTTAAGC
*
597371 CCACAACTCCGTGGCACCCTTTT
1 CCACAACTCCGTGGCACTCTTTT
597394 AAGTCCACGA
Statistics
Matches: 335, Mismatches: 32, Indels: 65
0.78 0.07 0.15
Matches are distributed among these distances:
90 30 0.09
91 49 0.15
92 51 0.15
93 8 0.02
94 89 0.27
95 55 0.16
97 3 0.01
98 1 0.00
99 49 0.15
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (90 bp):
CCACAACTCCGTGGCACTCTTTTTTTAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAGCCCAC
AACTCCGTGGCACTCTCCTTTAAGC
Found at i:597053 original size:125 final size:126
Alignment explanation
Indices: 596865--597393 Score: 639
Period size: 125 Copynumber: 4.2 Consensus size: 126
596855 AGTGGCATCG
* * * * * * *
596865 AAGCCCACGACTCTGTGGCACCTTTTTCTTTCAAAGTCCACAACTCTGTGGCACCTCCTTTTCAA
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCAA
* *
596930 AGCCCACAACTACGTGGCACTC-TCTTCCTTTTAAGCCCACAACTCCGTGGCAC-CCGTTT
66 AGCCCACAACTACGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCCGTTT
*
596989 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCTTCTTTTCA
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCA
* * * **
597054 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCTACAACTCCGTGGCACTCTTTTT
65 AAGCCCACAACTACGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCCGTTT
* * * *
597116 AAAGCCCACAACTCTGTGGCA-C-----CCTTTTAAGTCCACGACTCCGTGGCACCCTT-TTTTC
1 -AAGCCCACAACTCCGTGGCACCTTTTTCCTTCTAAGCCCACAACTCCGTGGCA-CCTTCTTTT-
*
597174 CTTTAAAGCCCACAACTACGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCGTGGCAC-CCGT
63 C---AAAGCCCACAACTACGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCCGT
597237 TT
125 TT
* *
597239 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCTCACAACTCCGTGGCACCTTCTTTTTA
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCA
* * * * **
597304 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCCACGACTCTGTGGCACTCTTTTTT
65 AAGCCCACAACTACGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTC-CGTTT
*
597367 AAGCCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTT
597394 AAGTCCACGA
Statistics
Matches: 347, Mismatches: 38, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
121 26 0.07
122 24 0.07
123 4 0.01
124 49 0.14
125 104 0.30
126 57 0.16
127 10 0.03
128 47 0.14
129 26 0.07
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (126 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCAA
AGCCCACAACTACGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCCGTTT
Found at i:597081 original size:65 final size:64
Alignment explanation
Indices: 596865--597393 Score: 560
Period size: 65 Copynumber: 8.4 Consensus size: 64
596855 AGTGGCATCG
* * * * * *
596865 AAGCCCACGACTCTGTGGCA-CCTTTTT-CTTTCAAAGTCCACAACTCTGTGGCACCTCCTTTTC
1 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTT-TAAGCCCACAACTCCGTGGCACCTTCTTTT-
596928 A
64 A
* * * *
596929 AAGCCCACAACTACGTGGCACTC-TCTTCCTTTTAAGCCCACAACTCCGTGGCACC--CGTTT-
1 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTA
* * *
596989 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTT-A
* *
597054 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCTACAACTCCGTGGCA-C-TCTTTTTA
1 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTC-TTTTA
* * * *
597117 AAGCCCACAACTCTGTGGCA--C-----CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCC
1 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-CC----TTCT
597175 TTTA
61 TTTA
* * *
597179 AAGCCCACAACTACGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCGTGGCACC--CGTTT-
1 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTA
* * *
597239 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCTCACAACTCCGTGGCACCTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTC-TTTTA
* * *
597304 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCCACGACTCTGTGGCACTCTT-TTTT-
1 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC-CTTCTTTTA
597367 AAGCCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACCCTTTT
597394 AAGTCCACGA
Statistics
Matches: 400, Mismatches: 38, Indels: 55
0.81 0.08 0.11
Matches are distributed among these distances:
56 24 0.06
58 1 0.00
60 44 0.11
61 64 0.16
62 26 0.06
63 56 0.14
64 53 0.13
65 103 0.26
66 3 0.01
67 2 0.00
68 24 0.06
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (64 bp):
AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTA
Found at i:597273 original size:250 final size:249
Alignment explanation
Indices: 596928--597455 Score: 896
Period size: 250 Copynumber: 2.1 Consensus size: 249
596918 CCTCCTTTTC
*
596928 AAAGCCCACAACTACGTGGCACTCTCTTCCTTTTAAGCCCACAACTCCGTGGCACCCGTTTAAGC
1 AAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCGTTTAAGC
*
596993 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCTTCTTTTCAAAGC
66 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGC
*
597058 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCTACAACTCCGTGGCACTCTTTTTAAAGCCC
131 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCC
* *
597123 ACAACTCTGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTT
196 ACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGACACCC-TTTTTCCTTT
597178 AAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCGTTTAAGC
1 AAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCGTTTAAGC
* *
597243 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCTCACAACTCCGTGGCACCTTCTTTTTAAAGC
66 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGC
* * *
597308 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCCACGACTCTGTGGCACTCTTTTTTAAGCCC
131 CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCC
* *
597373 ACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGACACTCTTTTTCTTTT
196 ACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGACACCCTTTTTCCTTT
* * *
597427 TAAGCCCACAAGTTA-GTGGCACCCTTTTC
1 AAAGCCCACAA-CTACGTGGCACTCTTTTC
597456 AAAAGCCCAC
Statistics
Matches: 262, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
249 32 0.12
250 230 0.88
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.30
Consensus pattern (249 bp):
AAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCGTTTAAGC
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGC
CCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTAAAGCCC
ACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGACACCCTTTTTCCTTT
Found at i:597296 original size:26 final size:28
Alignment explanation
Indices: 597273--597534 Score: 82
Period size: 29 Copynumber: 8.7 Consensus size: 28
597263 TTTTCCTTCT
*
597273 AAGCTCACAACTCCGTGGCACCTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACCTTC---TTA
*
597304 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTT
1 AAGCCCACAACTCCGTGGCA-CC---TT-C-TTA
* * * * *
597338 AAGTCCACGACTCTGTGGCACTCTTTTTT
1 AAGCCCACAACTCCGTGGCAC-CTTCTTA
597367 AAGCCCACAACTCCGTGGCACCCTT-TT-
1 AAGCCCACAACTCCGTGGCA-CCTTCTTA
* * * *
597394 AAGTCCACGACTCCGTGACACTCTTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCAC-C---TTC--TTA
* **
597428 AAGCCCACAAGTTAGTGGCACCCTT-TTCAA
1 AAGCCCACAACTCCGTGGCA-CCTTCTT--A
* * *
597458 AAGCCCACAAGTCAGTGGCAACCTT-TAA
1 AAGCCCACAACTCCGTGGC-ACCTTCTTA
* ** * *
597486 AAGCCCACAAGTTAGTGGCATCTTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTCTT-A
* *
597515 AAGCCCACAAGTCAGTGGCA
1 AAGCCCACAACTCCGTGGCA
597535 TTTTTTTTCA
Statistics
Matches: 185, Mismatches: 25, Indels: 44
0.73 0.10 0.17
Matches are distributed among these distances:
26 1 0.01
27 22 0.12
28 24 0.13
29 43 0.23
30 26 0.14
31 24 0.13
32 2 0.01
33 3 0.02
34 36 0.19
35 3 0.02
36 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (28 bp):
AAGCCCACAACTCCGTGGCACCTTCTTA
Found at i:597395 original size:155 final size:154
Alignment explanation
Indices: 596865--597483 Score: 643
Period size: 155 Copynumber: 3.9 Consensus size: 154
596855 AGTGGCATCG
* * * * *
596865 AAGCCCACGACTCTGTGGCACCTTTTTCTTTCAAAGTCCACAACTCTGTGGCACCTCCTTTTCAA
1 AAGCCCACAACTCTGTGGCA-C-TCTTCTTTTAAAGCCCACAACTCCGTGGCACCTCCTTTT--A
* * *
596930 AGCCCACAACTACGTGGCACTCTCTTCCTTTTAAGCCCACAACTCCGTGGCACCCGTTTAAGCCC
62 AGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCC
* *
596995 ACAACTCCGTGGCACTCTTTTTCCTTCT
127 ACAACTCCGTGGCACCCTTTTTCCTTTT
597023 AAGCCCACAACTCTGTGGCAC-CTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTTTTCCTTT
1 AAGCCCACAACTCTGTGGCACTCTTCTTTT-AAAGCCCACAACTCCGTGGCA-CC----TCCTTT
* * * * *
597087 TAAGTCTACAACTCCGTGGCACTC--TT--TTTAAAGCCCACAACTCTGTGGCACCCTTTTAAGT
60 TAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGC
* *
597148 CCACGACTCCGTGGCACCCTTTTTTCCTTTA
125 CCACAACTCCGTGGCACCC-TTTTTCCTTTT
*
597179 AAGCCCACAACTAC-GTGGCACTCTTTTCCTTTT-AAGCCCACAACTCCGTGGCA-C-CCGTTTA
1 AAGCCCACAACT-CTGTGGCACTC--TT-CTTTTAAAGCCCACAACTCCGTGGCACCTCCTTTTA
* *
597240 AGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCTCACAACTCCGTGGCACCTTCTTTTTAA
62 AGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCGTGGCACC--C-TTTT-A
597305 AGCCCACAACTCCGTGGCACCCTTTTTCCTTTT
122 AGCCCACAACTCCGTGGCACCCTTTTTCCTTTT
* * *
597338 AAGTCCACGACTCTGTGGCACTCTT-TTTT-AAGCCCACAACTCCGTGGCA-C-CCTTTTAAGTC
1 AAGCCCACAACTCTGTGGCACTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTCCTTTTAAGCC
* * * * **
597399 CACGACTCCGTGACACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCC
66 CACAACTCCGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTT---AAGCCC
* * *
597464 ACAAGTCAGTGGCAACCTTT
127 ACAACTCCGTGGCACCCTTT
597484 AAAAGCCCAC
Statistics
Matches: 396, Mismatches: 41, Indels: 52
0.81 0.08 0.11
Matches are distributed among these distances:
151 26 0.07
152 4 0.01
153 1 0.00
154 26 0.07
155 131 0.33
156 70 0.18
157 9 0.02
158 41 0.10
159 55 0.14
160 26 0.07
161 7 0.02
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (154 bp):
AAGCCCACAACTCTGTGGCACTCTTCTTTTAAAGCCCACAACTCCGTGGCACCTCCTTTTAAGCC
CACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAA
CTCCGTGGCACCCTTTTTCCTTTT
Found at i:597448 original size:216 final size:210
Alignment explanation
Indices: 596865--597482 Score: 475
Period size: 216 Copynumber: 2.8 Consensus size: 210
596855 AGTGGCATCG
* * * *
596865 AAGCCCACGACTCTGTGGCACCTTTTTCTTTCAAAGTCCACAACTCTGTGGCACCTCCTTTTCAA
1 AAGCCCACAACTCCGTGGCA-C-TCTT-TTT-AAAGCCCACAACTCTGTGGCA-C-CCTTTT--A
* * * * *
596930 AGCCCACAACTACGTGGCACTCTCTTCCTTTTAAGCCCACAACTCCGTGGCA--C----CCGTTT
58 AGCCCACAACTCCGTGGCAC-C-CTT-CTTTAAAGCCCACAACTACGTGACACTCTTTTCCTTTT
* * *
596989 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACCTTCTTTTCA
120 AAGCCCACAACTCAGTGGCAC-C-----CGTT-TAAGCCCACAACTCAGTGGCACCTTCTTTTCA
* *
597054 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTT
178 AAGCCCACAACTCCGTGGCACCCTTCTT-CTTTA
* * * *
597088 AAGTCTACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTTAAGTCCACG
1 AAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTTAAGCCCACA
*
597153 ACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTCTTTTCCTTTTAAGCCC
66 ACTCCGTGGCACCC----TT-CTTTAAAGCCCACAACTACGTGACACTCTTTTCCTTTTAAGCCC
* * * * *
597218 ACAACTCCGTGGCACCCGTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCTCACAA
126 ACAACTCAGTGGCACCCGTTTAAGCCCACAACTCAGTGGCAC-CTTCTT--TTCAAAGCCCACAA
597283 CTCCGTGGCA-CCTTCTT-TTTA
188 CTCCGTGGCACCCTTCTTCTTTA
* * * * *
597304 AAGCCCACAACTCCGTGGCACCCTTTTTCCTTTTAAGTCCACGACTCTGTGGCACTCTTTTTTAA
1 AAGCCCACAACTCCGTGGCA--C-TCTT--TTTAAAGCCCACAACTCTGTGGCAC-C-CTTTTAA
* * * *
597369 GCCCACAACTCCGTGGCACCC-T-TTT-AAGTCCACGACTCCGTGACACTCTTTTTCTTTTTAAG
59 GCCCACAACTCCGTGGCACCCTTCTTTAAAGCCCACAACTACGTGACACTC-TTTTCCTTTTAAG
* * * *
597431 CCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTT
123 CCCACAACTCAGTGGCACCCGTTT---AAGCCCACAACTCAGTGGC-ACCTT
597483 TAAAAGCCCA
Statistics
Matches: 331, Mismatches: 39, Indels: 54
0.78 0.09 0.13
Matches are distributed among these distances:
213 1 0.00
214 1 0.00
215 37 0.11
216 77 0.23
217 40 0.12
218 9 0.03
219 66 0.20
220 5 0.02
221 25 0.08
222 3 0.01
223 67 0.20
ACGTcount: A:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (210 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTTAAGCCCACA
ACTCCGTGGCACCCTTCTTTAAAGCCCACAACTACGTGACACTCTTTTCCTTTTAAGCCCACAAC
TCAGTGGCACCCGTTTAAGCCCACAACTCAGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGG
CACCCTTCTTCTTTA
Found at i:597560 original size:88 final size:87
Alignment explanation
Indices: 597421--597628 Score: 251
Period size: 88 Copynumber: 2.4 Consensus size: 87
597411 ACACTCTTTT
* **
597421 TCTTTTT-AAGCCCACAAGTTAGTGGCA-CCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTT
1 TCTTTTTCAAGCCCACAAGTCAGTGGCATCTTTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TT
* *
597484 AAAAGCCCACAAGTTAGTGGCA-
65 AAAAGCCCACAAATCAGTGGCAC
* * *
597506 TCTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCTAGAAGTCAGTGGCAACCTT
1 TCTTTTTC-AAGCCCACAAGTCAGTGGCATCTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTT
* *
597571 CAAAGGCCACAAATCAGTGGCAC
65 AAAAGCCCACAAATCAGTGGCAC
* * *
597594 CCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTTT
1 TCTTTTTC-AAGCCCACAAGTCAGTGGCATCTTTT
597629 CCAAAGTCCA
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 7 0.07
87 39 0.38
88 58 0.56
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (87 bp):
TCTTTTTCAAGCCCACAAGTCAGTGGCATCTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTA
AAAGCCCACAAATCAGTGGCAC
Found at i:597677 original size:35 final size:34
Alignment explanation
Indices: 597636--597710 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
597626 TTTCCAAAGT
* * *
597636 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTATTTTTCTTTT-TAAGC
* *
597671 TCACAACTCTATAGCACTATTTTTCTTTTTAAGC
1 CCACAACTCCATAGCACTATTTTTCTTTTTAAGC
597705 CCACAA
1 CCACAA
597711 GTTAGTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.24, C:0.29, G:0.09, T:0.37
Consensus pattern (34 bp):
CCACAACTCCATAGCACTATTTTTCTTTTTAAGC
Found at i:597851 original size:49 final size:49
Alignment explanation
Indices: 597787--598207 Score: 525
Period size: 49 Copynumber: 8.7 Consensus size: 49
597777 GCAACCCTTC
* * * * *
597787 TAAGCCCAATATAGCTAGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
597836 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
597884 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C--CA---T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
597927 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
597976 TAAGTCCAATGTCGCTGGCCTTGACTCAGTACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
598025 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
** *
598074 TAACACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA-CTAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT-T
* * * *
598123 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
598172 TAAGACCAATGTAGCTGGCCTTAAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
598208 ACATCCTTTT
Statistics
Matches: 319, Mismatches: 45, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
43 37 0.12
44 1 0.00
46 3 0.01
47 1 0.00
48 47 0.15
49 228 0.71
50 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:598060 original size:98 final size:98
Alignment explanation
Indices: 597787--598207 Score: 595
Period size: 98 Copynumber: 4.4 Consensus size: 98
597777 GCAACCCTTC
* * * * * * * * *
597787 TAAGCCCAATATAGCTAGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
* * * *
597852 GGCCTTGACTCAGCACATTGGCACC-TCACCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
*
597884 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG------CACCATTAAGTCCAATATAGCT
1 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
597943 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
* * *
597976 TAAGTCCAATGTCGCTGGCCTTGACTCAGTACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
598041 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
598074 TAACACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACTATTAAGTCCAATATAGCT
1 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
*
598139 GGCCTTGAATCAGCATATTAGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
* *
598172 TAAGACCAATGTAGCTGGCCTTAAATCAGCACATTG
1 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTG
598208 ACATCCTTTT
Statistics
Matches: 293, Mismatches: 24, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
91 42 0.14
92 40 0.14
97 31 0.11
98 180 0.61
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (98 bp):
TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTTTATCTT
Found at i:598328 original size:67 final size:68
Alignment explanation
Indices: 598220--598346 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
598210 ATCCTTTTTC
* * *
598220 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
598284 TCT
66 TCT
* * * *
598287 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
598347 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:599287 original size:52 final size:52
Alignment explanation
Indices: 599226--599365 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 52
599216 ATCGATACCT
***
599226 TGTATCGATACACTAATCTTTGTATCGATACATGCAGGAAAATTTG-CTCAGA
1 TGTATCGATACACTAATAAATGTATCGATACATGCAGGAAAATTTGCCT-AGA
* * * *
599278 TGTATCGATATA-TTATAAAATGTATCGATACATGTAGGCAAATTTGCCTAGA
1 TGTATCGATACACTAAT-AAATGTATCGATACATGCAGGAAAATTTGCCTAGA
*
599330 TGTATCGATACACTATTAAATGTATCGATACATGCA
1 TGTATCGATACACTAATAAATGTATCGATACATGCA
599366 AGCAACTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
51 3 0.04
52 67 0.91
53 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (52 bp):
TGTATCGATACACTAATAAATGTATCGATACATGCAGGAAAATTTGCCTAGA
Found at i:601765 original size:19 final size:19
Alignment explanation
Indices: 601741--601808 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
601731 AATTCATCGA
601741 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
601760 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
601775 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
601792 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
601809 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:601780 original size:13 final size:13
Alignment explanation
Indices: 601762--601786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
601752 ACATAAGTTT
601762 TGTATCGATACAA
1 TGTATCGATACAA
601775 TGTATCGATACA
1 TGTATCGATACA
601787 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:601780 original size:32 final size:32
Alignment explanation
Indices: 601743--601805 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
601733 TTCATCGATT
*
601743 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
601775 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
601806 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:601866 original size:13 final size:13
Alignment explanation
Indices: 601848--601873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
601838 CATTTTTCTG
601848 TGTATCGATACAT
1 TGTATCGATACAT
601861 TGTATCGATACAT
1 TGTATCGATACAT
601874 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:601870 original size:33 final size:33
Alignment explanation
Indices: 601828--601894 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
601818 GCCAAGGAAA
***
601828 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
601861 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
601894 T
1 T
601895 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:614748 original size:1 final size:1
Alignment explanation
Indices: 614742--614812 Score: 70
Period size: 1 Copynumber: 71.0 Consensus size: 1
614732 CCTTCTCTTC
** * * * * *
614742 AAAAAAAAAAGCAAAAAAAAAACAAAAAAAAAAAACAAAACAAAGAAAAAGAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
614807 GAAAAA
1 AAAAAA
614813 TCTGCTTAAG
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:614770 original size:21 final size:21
Alignment explanation
Indices: 614747--614812 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
614737 TCTTCAAAAA
614747 AAAAAGCAAAAAAAAAAC-AA-
1 AAAAAG-AAAAAAAAAACAAAG
*
614767 AAAAA-AAAAACAAAACAAAG
1 AAAAAGAAAAAAAAAACAAAG
*
614787 AAAAAGAAAAAAAAAAAAAAG
1 AAAAAGAAAAAAAAAACAAAG
614808 AAAAA
1 AAAAA
614813 TCTGCTTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 10 0.25
19 2 0.05
20 10 0.25
21 18 0.45
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAAAAACAAAG
Found at i:615860 original size:27 final size:27
Alignment explanation
Indices: 615830--615915 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
615820 TTGGTGGCAT
615830 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
615857 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
615885 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
615912 TTTC
1 TTTC
615916 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:615863 original size:55 final size:54
Alignment explanation
Indices: 615778--616595 Score: 861
Period size: 55 Copynumber: 14.4 Consensus size: 54
615768 CGTCCGCTTC
* *
615778 TCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
615832 TCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 T-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
615887 TCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 T-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTT
* *
615942 TCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCT
1 T-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACTT
* *
615997 TCAGTCCTCAAAGAGCAGGACTCCTTTCAAAGCCCACACAAGTTGGTGGCATTT
1 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
616051 TCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAGCCCACATAAGTTGGTGGCACCT
1 T-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACTT
* * * *
616106 TCAGTCCTCAAAGAGCGGGACACATTTTTTTTTTTTTTAAAAGCCCACACAAGTTGGTGGCACCT
1 TCAGTCCTCAAAGAGCAGGACAC-----------CTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * *
616171 TCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAATTGGTGGCACCT
1 TCAGTCCTCAAAGAGCAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * * *
616230 TCAGTCCTCAAATAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT
1 TCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA-CTT
* *
616290 T-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTT
* * * *
616350 TCAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
1 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTT
* *
616405 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTT
*
616466 TCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT
1 TCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTT
* *
616521 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTT
1 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC-TT
* * *
616576 TTACTCCTCAATGAGCAGGA
1 TCAGTCCTCAAAGAGCAGGA
616596 TACAGTTTAT
Statistics
Matches: 670, Mismatches: 55, Indels: 77
0.84 0.07 0.10
Matches are distributed among these distances:
53 2 0.00
54 72 0.11
55 346 0.52
56 6 0.01
57 1 0.00
59 92 0.14
60 30 0.04
61 65 0.10
64 6 0.01
65 50 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (54 bp):
TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:616436 original size:116 final size:110
Alignment explanation
Indices: 616140--616595 Score: 468
Period size: 116 Copynumber: 4.0 Consensus size: 110
616130 TTTTTTTTTT
** * *
616140 TTTTAAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTT
1 TTTT-AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACTC-TTTTC----
* * * *
616204 AAAGCCCACACAAATTGGTGGCACC-TTCAGTCCTCAAATAGCGGGACGCCTTTTC
60 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-AC----C
* **
616259 TTTTAAAGCCCACCCAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGATGCTTTGTCTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGA--C----TCTTTTC
*
616323 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACC
60 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
*
616374 TTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGA--C----TCTTTTC
*
616439 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACC
60 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
* ** * *
616490 TCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCC
* * * * *
616555 CACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
66 CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
616596 TACAGTTTAT
Statistics
Matches: 302, Mismatches: 26, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
110 46 0.15
114 1 0.00
115 29 0.10
116 129 0.43
118 39 0.13
119 32 0.11
120 20 0.07
123 5 0.02
124 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (110 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACTCTTTTCAAAGCC
CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
Found at i:616519 original size:29 final size:28
Alignment explanation
Indices: 616439--616521 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
616429 TTTTCTTTTC
616439 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
* * **
616467 -CAGTCCC-CA-AAG-AGCAGGACACCTCTT
1 AAAG-CCCACACAAGTTGGTGG-CACCT-TT
616494 AAAGCCCACACAAGTTGGTGGCACCTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTT
616522 CAGTCCTCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
25 3 0.08
26 8 0.20
27 9 0.22
28 9 0.22
29 8 0.20
30 3 0.08
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (28 bp):
AAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:617458 original size:19 final size:19
Alignment explanation
Indices: 617434--617501 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
617424 AATTCACCGA
617434 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
617453 TTTGTATCAATAC--AA--
1 TTTGTATCGATACATAAGT
617468 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
617485 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
617502 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:617472 original size:32 final size:32
Alignment explanation
Indices: 617436--617498 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
617426 TTCACCGATT
*
617436 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTATTGTATCAATACAA
*
617468 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCAATACA
617499 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCAATACAA
Found at i:617559 original size:13 final size:13
Alignment explanation
Indices: 617541--617566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
617531 CATTTTTCTG
617541 TGTATCGATACAT
1 TGTATCGATACAT
617554 TGTATCGATACAT
1 TGTATCGATACAT
617567 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:617563 original size:33 final size:33
Alignment explanation
Indices: 617521--617587 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
617511 GCCAAGGAAA
***
617521 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
617554 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
617587 T
1 T
617588 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:621210 original size:79 final size:79
Alignment explanation
Indices: 621076--621380 Score: 484
Period size: 79 Copynumber: 3.9 Consensus size: 79
621066 GAATAAAATT
* * * *
621076 GGGGTTAGAGTATCCCCAATTATGAAAATTTGATGTTTTAGAAATAAAACCGGGGTTGGATTATC
1 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATC
*
621141 CCCTCGGAAATAAC
66 CCCTCGAAAATAAC
* * *
621155 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACTGGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATC
621220 CCCTCGAAAATAAC
66 CCCTCGAAAATAAC
* * *
621234 GGGGTTAGAGTATCCCCGAATGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATC
621299 CCCTCGAAAATAAC
66 CCCTCGAAAATAAC
* * *
621313 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATC
621378 CCC
66 CCC
621381 GATTATGAAA
Statistics
Matches: 206, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 206 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
GGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCGAAAATAAC
Found at i:621388 original size:51 final size:51
Alignment explanation
Indices: 621312--621431 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
621302 TCGAAAATAA
*
621312 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
*
621363 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* *
621414 AGGGGTTTGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
621432 TCAGAAATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:621390 original size:130 final size:130
Alignment explanation
Indices: 621233--621510 Score: 441
Period size: 130 Copynumber: 2.1 Consensus size: 130
621223 TCGAAAATAA
* * *
621233 CGGGGTTAGAGTATCCCCGAATGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGAATATGAAAAATTAATATTTTAGAAATAAAACAGGGGTTGGAGTAT
*
621298 CCCCTC-GAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAA
66 CCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
621362 C
130 C
* ** * *
621363 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACAGGGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGAATATGAAAAATTAATATTTTAGAAATAAAACAGGGGTTGGAGTAT
621428 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* *
621493 TGGGGTCGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
621511 TCGGAAATAA
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
130 135 0.99
131 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGAATATGAAAAATTAATATTTTAGAAATAAAACAGGGGTTGGAGTAT
CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:621428 original size:209 final size:209
Alignment explanation
Indices: 621154--621554 Score: 660
Period size: 209 Copynumber: 1.9 Consensus size: 209
621144 TCGGAAATAA
*
621154 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACAGGGGTTGGAGTAT
*
621219 CCCCTC-GAAAATAACGGGGTTAGAGTATCCCCGAATGTGAAAAATTAATATTTTAGAAATAAAA
66 CCCCTCAG-AAATAACGGGGTTAGAGTATCCCCGAATATGAAAAATTAATATTTTAGAAATAAAA
* * *
621283 CCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATG
130 CCGGGGTCGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGATG
621348 TTTTAGAGATAAAAC
195 TTTTAGAGATAAAAC
* *
621363 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACAGGGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACAGGGGTTGGAGTAT
* * * *
621428 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
66 CCCCTCAGAAATAACGGGGTTAGAGTATCCCCGAATATGAAAAATTAATATTTTAGAAATAAAAC
* * *
621493 TGGGGTCGGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCCGATTGTGAAAAATTGA
131 CGGGGTCGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGA
621555 GAAACTTAAC
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
209 176 0.99
210 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (209 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACAGGGGTTGGAGTAT
CCCCTCAGAAATAACGGGGTTAGAGTATCCCCGAATATGAAAAATTAATATTTTAGAAATAAAAC
CGGGGTCGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGATGT
TTTAGAGATAAAAC
Found at i:621446 original size:79 final size:79
Alignment explanation
Indices: 621363--621554 Score: 312
Period size: 79 Copynumber: 2.4 Consensus size: 79
621353 GAGATAAAAC
* **
621363 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACAGGGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACAGGGGTCGGAGTAT
621428 CCCCTCAGAAATAA
66 CCCCTCAGAAATAA
*
621442 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACTGGGGTCGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACAGGGGTCGGAGTAT
*
621507 CCCCTCGGAAATAA
66 CCCCTCAGAAATAA
* * *
621521 CAGGGTTAGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
621555 GAAACTTAAC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 105 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACAGGGGTCGGAGTAT
CCCCTCAGAAATAA
Found at i:621964 original size:35 final size:35
Alignment explanation
Indices: 621898--622012 Score: 180
Period size: 35 Copynumber: 3.3 Consensus size: 35
621888 TCATTTTTAT
*
621898 CCATCATTCCATGCCTTCA-ATTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
621932 CCATCATAT-TATGCCTTCATTTTTTTATTCCATGC
1 CCATCAT-TCCATGCCTTCATTTTTTTATTCCATGC
*
621967 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
622002 CCATCATTCCA
1 CCATCATTCCA
622013 CGCCCATCAT
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
34 17 0.23
35 57 0.77
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.43
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:622011 original size:49 final size:49
Alignment explanation
Indices: 621958--622062 Score: 167
Period size: 49 Copynumber: 2.1 Consensus size: 49
621948 TCATTTTTTT
621958 ATTCCATGCCCATCAT-TCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCCATCATAT-CATGCCTTCATTTTTATATTCCATGCCCATC
* * *
622007 ATTCCACGCCCATCATATTATGCCTTCATTTTTTTATTCCATGCCCATC
1 ATTCCATGCCCATCATATCATGCCTTCATTTTTATATTCCATGCCCATC
622056 ATTCCAT
1 ATTCCAT
622063 TTTTTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 50 0.98
50 1 0.02
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.40
Consensus pattern (49 bp):
ATTCCATGCCCATCATATCATGCCTTCATTTTTATATTCCATGCCCATC
Found at i:624397 original size:13 final size:13
Alignment explanation
Indices: 624379--624408 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
624369 CATTTCTTCA
624379 TGTATCGATACAT
1 TGTATCGATACAT
624392 TGTATCGATACAT
1 TGTATCGATACAT
624405 TGTA
1 TGTA
624409 CCATGTATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:624401 original size:33 final size:33
Alignment explanation
Indices: 624359--624423 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
624349 TACAAGCCAA
624359 TGTATCGATACATT-T-CTTCATGTATCGATACAT
1 TGTATCGATACATTGTAC--CATGTATCGATACAT
624392 TGTATCGATACATTGTACCATGTATCGATACA
1 TGTATCGATACATTGTACCATGTATCGATACA
624424 AATAGTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTGTACCATGTATCGATACAT
Found at i:624480 original size:21 final size:21
Alignment explanation
Indices: 624453--624508 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 21
624443 CTGCCAATTT
*
624453 CATGTATCGATACAATTTG-T
1 CATGTATCGATACAATTTGAA
624473 CAATGTATCGATAC-A-TTGAA
1 C-ATGTATCGATACAATTTGAA
624493 CATGTATCGATACAAT
1 CATGTATCGATACAAT
624509 GTATCGATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 15 0.48
20 4 0.13
21 12 0.39
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:624512 original size:13 final size:13
Alignment explanation
Indices: 624494--624520 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
624484 TACATTGAAC
624494 ATGTATCGATACA
1 ATGTATCGATACA
624507 ATGTATCGATACA
1 ATGTATCGATACA
624520 A
1 A
624521 GGCAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:624514 original size:32 final size:33
Alignment explanation
Indices: 624473--624539 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
624463 TACAATTTGT
**
624473 CAATGTATCGATACATTG-AACATGTATCGATA
1 CAATGTATCGATACAAGGCAACATGTATCGATA
624505 CAATGTATCGATACAAGGCAACATGTATCGATA
1 CAATGTATCGATACAAGGCAACATGTATCGATA
624538 CA
1 CA
624540 TCTGAGTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.50
33 16 0.50
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (33 bp):
CAATGTATCGATACAAGGCAACATGTATCGATA
Found at i:627987 original size:13 final size:13
Alignment explanation
Indices: 627961--627999 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
627951 ATATTTATAT
627961 TTAAATAT--ATA
1 TTAAATATAAATA
627972 TTAAATATAAATA
1 TTAAATATAAATA
*
627985 TTAAATAAAAATA
1 TTAAATATAAATA
627998 TT
1 TT
628000 TAAAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
13 17 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:629644 original size:33 final size:32
Alignment explanation
Indices: 629588--629649 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
629578 TATAATAATA
*
629588 TTTAATATATTAATAATTAATATTATATAAAT
1 TTTAAAATATTAATAATTAATATTATATAAAT
* * *
629620 TTTAAAATATTTATATATTTATATTTTATA
1 TTTAAAATATTAATA-ATTAATATTATATA
629650 TTATATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 13 0.52
33 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TTTAAAATATTAATAATTAATATTATATAAAT
Found at i:634367 original size:2 final size:2
Alignment explanation
Indices: 634360--634392 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
634350 CGAATGAGTA
634360 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
634393 GTGTAGATGC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:635269 original size:19 final size:20
Alignment explanation
Indices: 635245--635283 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
635235 ATTTTTTTGA
*
635245 AATATTTTTTTAA-AATTTT
1 AATATTTATTTAATAATTTT
635264 AATATTTATTTAATAATTTT
1 AATATTTATTTAATAATTTT
635284 TAATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATATTTATTTAATAATTTT
Found at i:635428 original size:26 final size:25
Alignment explanation
Indices: 635373--635430 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
635363 TCTTTACATG
*
635373 ATAAAATTACCTAATATATAAAAAT
1 ATAAAATTACATAATATATAAAAAT
* *
635398 CTAAAATTA-ATATATATTATATAAAT
1 ATAAAATTACATA-ATA-TATAAAAAT
635424 ATAAAAT
1 ATAAAAT
635431 AGATCGAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.07
25 11 0.41
26 14 0.52
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAAATTACATAATATATAAAAAT
Found at i:636467 original size:2 final size:2
Alignment explanation
Indices: 636460--636492 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
636450 TCCACAAATT
636460 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
636493 TAGAAAATAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:636765 original size:18 final size:18
Alignment explanation
Indices: 636742--636777 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
636732 AGCAAATAGA
636742 TATATTTATAAATAATTT
1 TATATTTATAAATAATTT
636760 TATATTTATAAATAATTT
1 TATATTTATAAATAATTT
636778 GACTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATTTATAAATAATTT
Found at i:636883 original size:23 final size:22
Alignment explanation
Indices: 636849--636897 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
636839 CAAAACTACA
*
636849 CAAATTTAAAAAAATTAATAA-T
1 CAAATTTTAAAAAATTAA-AATT
636871 CAAATTTTAAAAAATTAAAATT
1 CAAATTTTAAAAAATTAAAATT
636893 CAAAT
1 CAAAT
636898 AATTAGACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (22 bp):
CAAATTTTAAAAAATTAAAATT
Found at i:638020 original size:2 final size:2
Alignment explanation
Indices: 638009--638042 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
637999 TGTTCTTTTC
638009 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
638043 TTAGTTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:638225 original size:20 final size:19
Alignment explanation
Indices: 638183--638226 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
638173 TGTATATTTT
*
638183 TAAATATTATAATTATATT
1 TAAATATTATAATTATATA
* *
638202 TAAACTATTATAATTTTGTA
1 TAAA-TATTATAATTATATA
638222 TAAAT
1 TAAAT
638227 TTTGATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TAAATATTATAATTATATA
Found at i:638340 original size:13 final size:14
Alignment explanation
Indices: 638322--638352 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
638312 ATACTTTGAT
638322 TATTTTTAT-ATAA
1 TATTTTTATAATAA
638335 TATTTTTATAATAA
1 TATTTTTATAATAA
638349 TATT
1 TATT
638353 ATGTCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTTTATAATAA
Found at i:639532 original size:30 final size:30
Alignment explanation
Indices: 639491--639561 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
639481 ATGTAACGTT
* *
639491 AAGAGTTTATTTG-GATAAAAAATAAATATTA
1 AAGA-TTTATTTGAG-TAAAAAATAAAGAATA
*
639522 AAGATTTATTTGAGTATAAAATAAAGAATA
1 AAGATTTATTTGAGTAAAAAATAAAGAATA
*
639552 AAGACTTATT
1 AAGATTTATT
639562 AATATGCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (30 bp):
AAGATTTATTTGAGTAAAAAATAAAGAATA
Found at i:640850 original size:73 final size:73
Alignment explanation
Indices: 640681--641006 Score: 351
Period size: 72 Copynumber: 4.5 Consensus size: 73
640671 AAATTTTAGG
* * * * * *
640681 GTATTATTTATCTTTATTTGTAGAAGTTTAAATTTATTTTTGGATATGATTATACGAG-TTAAAA
1 GTATAATTTATCTTTATTTATAAAAGTTTAAATTTGTTTTTGGGTATGATTATACGAGTTTAAAT
640745 TTTTTAAA
66 TTTTTAAA
* * *
640753 GTATAATTTATCTTTATTTATAAAAGTTTAAATGTGTTTTTGGGTGT-ACTTATATGAGTTTAAA
1 GTATAATTTATCTTTATTTATAAAAGTTTAAATTTGTTTTTGGGTATGA-TTATACGAGTTTAAA
*
640817 TTTTTTATA
65 TTTTTTAAA
* * * *
640826 GTATAATTTATTTTTATTTGTAAAAGTTTAAATATATTTTTTTGGGTATGATTATACGAGTTTAT
1 GTATAATTTATCTTTATTTATAAAAGTTTAAAT-T-TGTTTTTGGGTATGATTATACGAGTTTAA
* *
640891 ATTTTTGATCA
64 ATTTTTTA-AA
* * **
640902 -TATAATTTATTTTTATTTATAGAAA-TTTAAATTTGTTTTTGGGT-TGTTTATATAAGTTTAAA
1 GTATAATTTATCTTTATTTATA-AAAGTTTAAATTTGTTTTTGGGTATGATTATACGAGTTTAAA
640964 --TTTTAAA
65 TTTTTTAAA
* *
640971 GATATTATTTATCTTTATTTATAAAATTTTAAATTT
1 G-TATAATTTATCTTTATTTATAAAAGTTTAAATTT
641007 TAATTTAAAA
Statistics
Matches: 215, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
69 1 0.00
70 7 0.03
71 29 0.13
72 62 0.29
73 53 0.25
74 1 0.00
75 57 0.27
76 5 0.02
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.54
Consensus pattern (73 bp):
GTATAATTTATCTTTATTTATAAAAGTTTAAATTTGTTTTTGGGTATGATTATACGAGTTTAAAT
TTTTTAAA
Found at i:642664 original size:15 final size:15
Alignment explanation
Indices: 642644--642673 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
642634 AAGTATTTTT
642644 AAATTTTTTAATTTA
1 AAATTTTTTAATTTA
*
642659 AAATTTTTTATTTTA
1 AAATTTTTTAATTTA
642674 TTAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
AAATTTTTTAATTTA
Found at i:642739 original size:14 final size:14
Alignment explanation
Indices: 642693--642739 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
642683 AATAATTAAT
642693 ATTTTAA-TTTTTA
1 ATTTTAATTTTTTA
* *
642706 ATATAAATTTTTTA
1 ATTTTAATTTTTTA
* *
642720 AATTTAATTTTTTT
1 ATTTTAATTTTTTA
642734 ATTTTA
1 ATTTTA
642740 CTAAAATTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
13 5 0.19
14 21 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTAATTTTTTA
Found at i:642739 original size:66 final size:66
Alignment explanation
Indices: 642643--642789 Score: 192
Period size: 66 Copynumber: 2.3 Consensus size: 66
642633 TAAGTATTTT
* *
642643 TAAATTTTTTAATTTAAAATTTTTTATTTTATTAAAAAATAATAATTAATATTTTAATTTTTAAT
1 TAAATTTTTTAATTTAAAATTTTTTATTTTACTAAAAAATAATAATTAATACTTTAATTTTTAAT
642708 A
66 A
* ** *
642709 TAAATTTTTTAAATTT-AATTTTTTTATTTTACTAAAATTTAATAATTAATACTTTAA-TTTCAA
1 TAAATTTTTT-AATTTAAAATTTTTTATTTTACTAAAAAATAATAATTAATACTTTAATTTTTAA
*
642772 CA
65 TA
*
642774 CAAATTTTTT-ATTTAA
1 TAAATTTTTTAATTTAA
642790 TTAAATTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
63 4 0.06
64 1 0.01
65 15 0.21
66 46 0.65
67 5 0.07
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (66 bp):
TAAATTTTTTAATTTAAAATTTTTTATTTTACTAAAAAATAATAATTAATACTTTAATTTTTAAT
A
Found at i:642809 original size:14 final size:15
Alignment explanation
Indices: 642780--642812 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
642770 AACACAAATT
642780 TTTTATTTAATTAAA
1 TTTTATTTAATTAAA
*
642795 TTTTATTT-TTTAAA
1 TTTTATTTAATTAAA
642809 TTTT
1 TTTT
642813 TATAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATTTAATTAAA
Found at i:642813 original size:15 final size:16
Alignment explanation
Indices: 642779--642815 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
642769 CAACACAAAT
642779 TTTTTATTTAATTAAA
1 TTTTTATTTAATTAAA
*
642795 -TTTTATTT-TTTAAA
1 TTTTTATTTAATTAAA
642809 TTTTTAT
1 TTTTTAT
642816 AATAAAATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTATTTAATTAAA
Found at i:643404 original size:13 final size:13
Alignment explanation
Indices: 643380--643411 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
643370 TGAATATTTT
643380 TTATTA-AAAAAA
1 TTATTATAAAAAA
643392 TTATTATAAAAAA
1 TTATTATAAAAAA
643405 TTATTAT
1 TTATTAT
643412 TATAAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATTATAAAAAA
Found at i:643570 original size:21 final size:21
Alignment explanation
Indices: 643532--643594 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
643522 TTTTATGAAT
*
643532 AATT-ATTTTAT-TTTGTAAA
1 AATTAATTTTATACTTGTAAA
643551 AATTAATTTTATACTTGTAAA
1 AATTAATTTTATACTTGTAAA
* *
643572 AATTAATTTTCTACTTATAAA
1 AATTAATTTTATACTTGTAAA
643593 AA
1 AA
643595 AATATTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
19 4 0.10
20 7 0.18
21 28 0.72
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (21 bp):
AATTAATTTTATACTTGTAAA
Found at i:644883 original size:2 final size:2
Alignment explanation
Indices: 644878--644913 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
644868 CTCAAAAAAC
644878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
644914 GGCTATGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:645056 original size:16 final size:16
Alignment explanation
Indices: 645035--645065 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
645025 CTGAAATTTA
*
645035 CAATTGACGGCCCAAG
1 CAATTGACAGCCCAAG
645051 CAATTGACAGCCCAA
1 CAATTGACAGCCCAA
645066 ACGATTGGTC
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:0.35, C:0.32, G:0.19, T:0.13
Consensus pattern (16 bp):
CAATTGACAGCCCAAG
Found at i:645072 original size:16 final size:16
Alignment explanation
Indices: 645034--645072 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
645024 ACTGAAATTT
*
645034 ACAATTGACGGCCCAA
1 ACAATTGACAGCCCAA
*
645050 GCAATTGACAGCCCAA
1 ACAATTGACAGCCCAA
*
645066 ACGATTG
1 ACAATTG
645073 GTCCGGCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (16 bp):
ACAATTGACAGCCCAA
Found at i:648095 original size:18 final size:17
Alignment explanation
Indices: 648062--648094 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
648052 TTCTTTATCT
648062 TTTATCTTTTTTTTTTC
1 TTTATCTTTTTTTTTTC
648079 TTTATCTTTTTTTTTT
1 TTTATCTTTTTTTTTT
648095 TAGCAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTATCTTTTTTTTTTC
Found at i:648519 original size:2 final size:2
Alignment explanation
Indices: 648504--648541 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
648494 ATCTACTATG
* *
648504 AT AT AT GT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
648542 GTAGAGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:650095 original size:15 final size:14
Alignment explanation
Indices: 650070--650115 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
650060 AAAAAATGAT
650070 AAAAAAA-AAACAA
1 AAAAAAACAAACAA
*
650083 AAAACAAAGAAACAA
1 AAAA-AAACAAACAA
*
650098 AAAAAAACACACAA
1 AAAAAAACAAACAA
650112 AAAA
1 AAAA
650116 GTGCAAAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 4 0.14
14 15 0.52
15 10 0.34
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAACAA
Found at i:650226 original size:21 final size:21
Alignment explanation
Indices: 650202--650241 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
650192 TAAAAAATGA
650202 AAAAAAAAAAAACAAAAAAAC
1 AAAAAAAAAAAACAAAAAAAC
* *
650223 AAAAAAAACACACAAAAAA
1 AAAAAAAAAAAACAAAAAA
650242 GTGCAAAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAACAAAAAAAC
Found at i:650231 original size:9 final size:9
Alignment explanation
Indices: 650201--650232 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
650191 TTAAAAAATG
650201 AAAAA-AAA
1 AAAAACAAA
650209 AAAAAC-AA
1 AAAAACAAA
650217 AAAAACAAA
1 AAAAACAAA
650226 AAAAACA
1 AAAAACA
650233 CACAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 13 0.59
9 9 0.41
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAA
Found at i:650260 original size:126 final size:129
Alignment explanation
Indices: 650024--650289 Score: 403
Period size: 126 Copynumber: 2.1 Consensus size: 129
650014 AATGCCCATC
* * *
650024 AACAAAGGGCAAATCAGAAATGTATGGAGTTCCTTTAAAAAATGATAAAAAAAAAACAAAAAACA
1 AACAAAGGGCAAATAAGAAATGTATGGACTTCCCTTAAAAAATG----AAAAAAAACAAAAAACA
* *
650089 AAGAAACAAAAAAAAACACACAAAAAAGTGCAAAGGCAAAATCAAAAAGGGAACAATAAAAGTCG
62 AAAAAACAAAAAAAAACACACAAAAAAGTGCAAAGGCAAAATCAAAAAAGGAACAATAAAAGTCG
650154 AAA
127 AAA
* *
650157 AACAAAGGTCAAATAAGAAATGTATTGACTTCCCTTAAAAAATG-AAAAAAA-AAAAAACAAAAA
1 AACAAAGGGCAAATAAGAAATGTATGGACTTCCCTTAAAAAATGAAAAAAAACAAAAAACAAAAA
*
650220 AAC-AAAAAAAACACACAAAAAAGTGCAAAGGCAAAATCAAAAAAGGAATAATAAAAGTCGAAA
66 AACAAAAAAAAACACACAAAAAAGTGCAAAGGCAAAATCAAAAAAGGAACAATAAAAGTCGAAA
650283 AACAAAG
1 AACAAAG
650290 ACATAAATGC
Statistics
Matches: 125, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
126 65 0.52
127 14 0.11
128 7 0.06
133 39 0.31
ACGTcount: A:0.64, C:0.12, G:0.13, T:0.12
Consensus pattern (129 bp):
AACAAAGGGCAAATAAGAAATGTATGGACTTCCCTTAAAAAATGAAAAAAAACAAAAAACAAAAA
AACAAAAAAAAACACACAAAAAAGTGCAAAGGCAAAATCAAAAAAGGAACAATAAAAGTCGAAA
Found at i:651566 original size:34 final size:34
Alignment explanation
Indices: 651514--652147 Score: 762
Period size: 34 Copynumber: 18.7 Consensus size: 34
651504 TCTCTTCTCC
* *
651514 AAGCTCACAACTCCGTGGCACCTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* *
651548 AAGCCCACCACTCCGTGGCACC-TTTTCCTTTT-
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* *
651580 AAGTCCACAACTCCATGGCACCTTTTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* * * *
651614 AAGCTCACAACTCCGCGGTACCTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* * *
651648 AAGCCCACTACTTCATGGCACC-TTTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* * **
651681 AAGCCCACAACTTCGTGGCACCTTTCTCTTTTCC
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
*
651715 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
*
651749 AAGCCCACCACTCCGTGGCACCTTTTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
651783 AAGCCCACAACTCCGTGGCACCTTTTTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACC-TTTTTCTTTTTA
*
651818 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* * * *
651852 AAGCCCACCATTCCGTGACACC-TTTTCCTTTT-
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* *
651884 AAGTCTACAACTCCGTGGCACCTTTTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
*
651918 AAGCCCACAACTTCGTGGCACCTTTTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
*
651952 AAGCCCACAACTCCGTGGCACATTTTTCTTTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
*
651986 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* * *
652020 AAGCTCACAACTCCGTGGCA-CATTTTCCTTTT-
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
* * * *
652052 AAGTCCACAACTTCGTGACATCTTTTTTCCTTTTT-
1 AAGCCCACAACTCCGTGGCA-CCTTTTT-CTTTTTA
* * * * * *
652087 AAGTCTACAACTCCGTAGCATCTTTCTCCTTTTCAA
1 AAGCCCACAACTCCGTGGCACCTTT-TTCTTTT-TA
* *
652123 AAGCCCACAAGTCAGTGGCAACCTT
1 AAGCCCACAACTCCGTGGC-ACCTT
652148 CAAAAGCCCA
Statistics
Matches: 511, Mismatches: 76, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
32 52 0.10
33 73 0.14
34 312 0.61
35 56 0.11
36 14 0.03
37 4 0.01
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.35
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTA
Found at i:651942 original size:203 final size:202
Alignment explanation
Indices: 651514--652147 Score: 855
Period size: 203 Copynumber: 3.1 Consensus size: 202
651504 TCTCTTCTCC
* *
651514 AAGCTCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACC-TTTTCCTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
* * * *
651578 TT-AAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCTCACAACTCCGCGGTACCTTTTTC
66 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCTCACAACTCCGTGGCACCTTTTTC
* * * * * * * *
651642 TTTTCAAAGCCCACTACTTCATGGCACCTTTTCTTTTTAAAGCCCACAACTTCGTGGCACCTTTC
131 TTTTCAAAGCCCACAACTTCGTGACACCTTTTCCTTTT-AAGTCTACAACTCCGTGGCACCTTTT
**
651707 TCTTTTCC
195 TCTTTTAA
651715 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
*
651780 TTAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
66 TTAAAGCCCACAACTCCGTGGCACC-TTTTTCTTTTTAAAGCTCACAACTCCGTGGCACCTTTTT
*
651845 CTTTTCAAAGCCCACCA-TTCCGTGACACCTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTT
130 CTTTTCAAAGCCCACAACTT-CGTGACACCTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTT
*
651909 TTCTTTTTA
194 TTCTTTTAA
* * * *
651918 AAGCCCACAACTTCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACATTTTTCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
* * *
651983 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCTCACAACTCCGTGGCACATTTTCC
66 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCTCACAACTCCGTGGCACCTTTTTC
* * * *
652048 TTTT--AAGTCCACAACTTCGTGACATCTTTTTTCCTTTTTAAGTCTACAACTCCGTAGCATCTT
131 TTTTCAAAGCCCACAACTTCGTGACA-C-CTTTTCC-TTTTAAGTCTACAACTCCGTGGCACCTT
*
652111 TCTCCTTTTCAA
193 T-TTCTTTT-AA
* *
652123 AAGCCCACAAGTCAGTGGCAACCTT
1 AAGCCCACAACTCCGTGGC-ACCTT
652148 CAAAAGCCCA
Statistics
Matches: 387, Mismatches: 35, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
200 15 0.04
201 58 0.15
202 55 0.14
203 163 0.42
204 74 0.19
205 17 0.04
206 5 0.01
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.35
Consensus pattern (202 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCTCACAACTCCGTGGCACCTTTTTC
TTTTCAAAGCCCACAACTTCGTGACACCTTTTCCTTTTAAGTCTACAACTCCGTGGCACCTTTTT
CTTTTAA
Found at i:652288 original size:43 final size:43
Alignment explanation
Indices: 652227--652684 Score: 457
Period size: 43 Copynumber: 10.1 Consensus size: 43
652217 GCACCTTTGT
*
652227 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
652270 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA--C
* *
652315 TTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
1 ----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
652362 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
* ** * *
652406 TTTGTCTTTAAGACCAATGTCGCTGGTTTTGAATTAGCACATTGACAC
1 -----CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
652454 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
652497 TTTTGTTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGACAC
1 ------CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
652546 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* **
652589 TTTTGTTTTTAAGACCAATGCCGCTGGCCTTGAATCAGCACATTGGCAC
1 ------CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
652638 GTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
652681 CTTT
1 CTTT
652685 GTCATCTTTT
Statistics
Matches: 342, Mismatches: 49, Indels: 48
0.78 0.11 0.11
Matches are distributed among these distances:
43 190 0.56
44 1 0.00
45 1 0.00
47 1 0.00
48 1 0.00
49 148 0.43
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (43 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:652334 original size:92 final size:92
Alignment explanation
Indices: 652177--652736 Score: 913
Period size: 92 Copynumber: 6.0 Consensus size: 92
652167 GTGGCATCTT
* *
652177 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATAGTGGCACCTTTGTCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
652242 CGCTGGCCTTGAATCAGCACATTGGCA
66 CGCTGGCCTTGAATCAGCACATTGGCA
*
652269 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTTGTCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
*
652334 CGCTGGCCTTGAATCAACACATTGGCA
66 CGCTGGCCTTGAATCAGCACATTGGCA
652361 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
** * *
652426 CGCTGGTTTTGAATTAGCACATTGACA
66 CGCTGGCCTTGAATCAGCACATTGGCA
* * *
652453 CCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACTTTTGTTTTTAAGACCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
*
652518 CGCTGGCCTTGAATCAGCACATTGACA
66 CGCTGGCCTTGAATCAGCACATTGGCA
* * *
652545 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTTGTTTTTAAGACCAATGC
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
652610 CGCTGGCCTTGAATCAGCACATTGGCA
66 CGCTGGCCTTGAATCAGCACATTGGCA
* * *
652637 CGTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTG---TC-TTTAAGACCA
*
652702 ATGTCGTTGGCCTTGAATCAGCACATTGGCA
62 ATGTCGCTGGCCTTGAATCAGCACATTGGCA
652733 CCTT
1 CCTT
652737 CATCTTTAAC
Statistics
Matches: 437, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
92 395 0.90
95 1 0.00
96 41 0.09
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGT
CGCTGGCCTTGAATCAGCACATTGGCA
Found at i:653557 original size:13 final size:13
Alignment explanation
Indices: 653539--653565 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
653529 TTTCAACGAT
653539 TTGTATCGATACA
1 TTGTATCGATACA
653552 TTGTATCGATACA
1 TTGTATCGATACA
653565 T
1 T
653566 AAGTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:659700 original size:2 final size:2
Alignment explanation
Indices: 659693--659723 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
659683 CGCTAATTGT
659693 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
659724 TAATAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:660690 original size:31 final size:32
Alignment explanation
Indices: 660655--660715 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
660645 AATTTTAACT
660655 TATAGTTGAAAT-AACAGTAAATTCAAATTAC
1 TATAGTTGAAATAAACAGTAAATTCAAATTAC
*
660686 TATAGTTGAAATAAACAGTAAATTTAAATT
1 TATAGTTGAAATAAACAGTAAATTCAAATT
660716 GTATGATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (32 bp):
TATAGTTGAAATAAACAGTAAATTCAAATTAC
Found at i:661402 original size:16 final size:15
Alignment explanation
Indices: 661377--661416 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
661367 TTCATTGGTG
* *
661377 AAAAACAAAAATGGA
1 AAAAAAAAAAAAGGA
661392 AAAAAAAAAAAAGGA
1 AAAAAAAAAAAAGGA
661407 AAAAAGAAAA
1 AAAAA-AAAA
661417 GAGTTAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAAGGA
Found at i:661811 original size:24 final size:24
Alignment explanation
Indices: 661777--661832 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
661767 TAATAATTAA
661777 ATTTAAA-TAAAAATAAATATTTT
1 ATTTAAATTAAAAATAAATATTTT
**
661800 -TATTAAATTAAATTTAAATATTTT
1 AT-TTAAATTAAAAATAAATATTTT
661824 ATTTAAATT
1 ATTTAAATT
661833 TAATTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.04
23 5 0.18
24 21 0.75
25 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTAAATTAAAAATAAATATTTT
Found at i:661823 original size:23 final size:23
Alignment explanation
Indices: 661790--661872 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
661780 TAAATAAAAA
661790 TAAATATTTTTATTAAATTAAATT
1 TAAATA-TTTTATTAAATTAAATT
*
661814 TAAATATTTTATTTAAATTTAA-T
1 TAAATATTTTA-TTAAATTAAATT
* * * *
661837 TATATATTATATAAATATTAATATA
1 TAAATATTTTATTAA-ATTAA-ATT
*
661862 AAAATATTTTA
1 TAAATATTTTA
661873 AAATTATTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
22 3 0.07
23 19 0.41
24 16 0.35
25 8 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAATATTTTATTAAATTAAATT
Found at i:661837 original size:24 final size:24
Alignment explanation
Indices: 661790--661837 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
661780 TAAATAAAAA
661790 TAAATATTTTTATTAAATTAAATT
1 TAAATATTTTTATTAAATTAAATT
*
661814 TAAATA-TTTTATTTAAATTTAATT
1 TAAATATTTTTA-TTAAATTAAATT
661838 ATATATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TAAATATTTTTATTAAATTAAATT
Found at i:661878 original size:22 final size:22
Alignment explanation
Indices: 661848--661901 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
661838 ATATATTATA
*
661848 TAAATATTAATATAA-AAATATTT
1 TAAA-ATTAATAAAATAAAT-TTT
*
661871 TAAAATTATTAAAATAAATTTT
1 TAAAATTAATAAAATAAATTTT
*
661893 TAAACTTAA
1 TAAAATTAA
661902 ATTAAATTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAATTAATAAAATAAATTTT
Found at i:662623 original size:3 final size:3
Alignment explanation
Indices: 662611--662641 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
662601 TTCTTCTTCT
662611 TCA TCTA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TC-A TCA TCA TCA TCA TCA TCA TCA TCA
662642 ATGTCGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:666380 original size:16 final size:16
Alignment explanation
Indices: 666328--666374 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
666318 TTTTTAAATT
666328 TTTA-ATAAA-ATATA
1 TTTATATAAATATATA
*
666342 TTTATATAGATATATA
1 TTTATATAAATATATA
666358 TTTATATAAATATATA
1 TTTATATAAATATATA
666374 T
1 T
666375 AAATATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 4 0.14
15 4 0.14
16 21 0.72
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTTATATAAATATATA
Found at i:666498 original size:62 final size:64
Alignment explanation
Indices: 666351--666506 Score: 219
Period size: 62 Copynumber: 2.4 Consensus size: 64
666341 ATTTATATAG
* *
666351 ATATATATTTATATAAATATATATAAATATTTAATATGTAAAATATATTTATAATTTTTTAATTA
1 ATATAGATTTATATAAA-ATATATAAATATTTAATATGTAAAATATATTTATAATTTTTAAATTA
* *
666416 ATATGAGATTTAGATAAAATATATAAATA-TTAATATG-AAAATATTATTTCTAA-TTTTAAATT
1 ATAT-AGATTTATATAAAATATATAAATATTTAATATGTAAAATA-TATTTATAATTTTTAAATT
666478 A
64 A
*
666479 ATATAGATTTATATAAAATACATAAATA
1 ATATAGATTTATATAAAATATATAAATA
666507 ATAGATATAT
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
62 22 0.27
63 19 0.23
64 16 0.19
65 15 0.18
66 11 0.13
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (64 bp):
ATATAGATTTATATAAAATATATAAATATTTAATATGTAAAATATATTTATAATTTTTAAATTA
Found at i:666629 original size:32 final size:30
Alignment explanation
Indices: 666579--666643 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
666569 TTATAAATAT
*
666579 TTAATATGTAAAATTTTTAAGTAAAAAATAAA
1 TTAATATGAAAAATTTTTAA--AAAAAATAAA
*
666611 TTAATAT-AAAAATATTTTAAAAATAATAAA
1 TTAATATGAAAAAT-TTTTAAAAAAAATAAA
666641 TTA
1 TTA
666644 TTATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 12 0.40
31 5 0.17
32 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
TTAATATGAAAAATTTTTAAAAAAAATAAA
Found at i:666630 original size:16 final size:16
Alignment explanation
Indices: 666573--666630 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
666563 TAAAAATTAT
*
666573 AAATA-TTTAATATGTA
1 AAATATTTTAATAT-AA
666589 AAAT-TTTTAAGTA-AA
1 AAATATTTTAA-TATAA
**
666604 AAATAAATTAATATAA
1 AAATATTTTAATATAA
666620 AAATATTTTAA
1 AAATATTTTAA
666631 AAATAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 7 0.21
16 24 0.73
17 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAATATTTTAATATAA
Found at i:667775 original size:30 final size:29
Alignment explanation
Indices: 667741--667800 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
667731 TATTAATTTT
* *
667741 TTAATTATAAATTAAATATTGATATAATAA
1 TTAATTATAAATAAAATATTAATAT-ATAA
* *
667771 TTAATTATCAATAAAATCTTAATATATAA
1 TTAATTATAAATAAAATATTAATATATAA
667800 T
1 T
667801 AAAATATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAATTATAAATAAAATATTAATATATAA
Found at i:667801 original size:18 final size:18
Alignment explanation
Indices: 667771--667820 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
667761 GATATAATAA
667771 TTAATTATCAATAAAATC
1 TTAATTATCAATAAAATC
*
667789 TTAATATAT-AATAAAATA
1 TTAAT-TATCAATAAAATC
*
667807 TTATATTATTAATA
1 TTA-ATTATCAATA
667821 TCAAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTATCAATAAAATC
Found at i:668314 original size:19 final size:19
Alignment explanation
Indices: 668289--668330 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
668279 ATTAAATTAA
*
668289 ATTAAATTA-ATTTTAAAT
1 ATTAAAATATATTTTAAAT
*
668307 ATTAAAATATATTTTTAAT
1 ATTAAAATATATTTTAAAT
668326 ATTAA
1 ATTAA
668331 GTAATAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTAAAATATATTTTAAAT
Found at i:668656 original size:17 final size:18
Alignment explanation
Indices: 668623--668656 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
668613 ATCTCCTTAA
*
668623 TTATATGATTGAATATAT
1 TTATATGATTAAATATAT
668641 TTATAT-ATTAAATATA
1 TTATATGATTAAATATA
668657 ATTAAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
TTATATGATTAAATATAT
Found at i:670050 original size:59 final size:58
Alignment explanation
Indices: 669957--670077 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 58
669947 ATTATATATG
*
669957 TTAATATATTAAACACTAAAAAGAAAATTATTCAACCAAAACCTAAGTGCATTGAACA
1 TTAATATATTAAACACTAAAAAGAAAATTATTCAACCAAAACCAAAGTGCATTGAACA
* * * *
670015 TTAATGTATTAAGCCCTAAAAAAGAAAATTATTCAACCAAAACCAAAGTGCATTGAATA
1 TTAATATATTAAACACT-AAAAAGAAAATTATTCAACCAAAACCAAAGTGCATTGAACA
670074 TTAA
1 TTAA
670078 ACAACATACG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 14 0.25
59 43 0.75
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.26
Consensus pattern (58 bp):
TTAATATATTAAACACTAAAAAGAAAATTATTCAACCAAAACCAAAGTGCATTGAACA
Found at i:672347 original size:13 final size:13
Alignment explanation
Indices: 672329--672361 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
672319 TAGATATGTA
672329 TTATTTTATAAAT
1 TTATTTTATAAAT
672342 TTA-TTTATAAAT
1 TTATTTTATAAAT
*
672354 TTTTTTTA
1 TTATTTTA
672362 CTATCGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTTTATAAAT
Found at i:673801 original size:14 final size:13
Alignment explanation
Indices: 673784--673828 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
673774 AATATAAAAT
673784 AAATAAAATAATTA
1 AAATAAAAT-ATTA
673798 AAATAAAAT-TTA
1 AAATAAAATATTA
*
673810 AAATATAAATATAA
1 AAATA-AAATATTA
673824 AAATA
1 AAATA
673829 TATATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 16 0.57
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAAAATATTA
Found at i:673829 original size:14 final size:14
Alignment explanation
Indices: 673774--673936 Score: 56
Period size: 16 Copynumber: 11.6 Consensus size: 14
673764 TTTAAATTTG
*
673774 AATATAAAATAAATAA
1 AATATAAAA-ATAT-A
*
673790 AATAATTAAAATA-A
1 AAT-ATAAAAATATA
*
673804 AAT-TTAAAATATA
1 AATATAAAAATATA
673817 AATATAAAAATAT-
1 AATATAAAAATATA
*
673830 -ATATAAACATATTA
1 AATATAAAAATA-TA
* *
673844 AATTTTATATAATATA
1 AA-TATA-AAAATATA
* *
673860 AATTATTAACATATTA
1 AA-TATAAAAATA-TA
673876 AA-AT--AAATATA
1 AATATAAAAATATA
* *
673887 AATATATAATATTTTA
1 AATATA-AA-AATATA
* *
673903 AATATATAATTAT-
1 AATATAAAAATATA
*
673916 AATATATAAATAT-
1 AATATAAAAATATA
673929 AATATAAA
1 AATATAAA
673937 TTATTATATT
Statistics
Matches: 115, Mismatches: 18, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
11 4 0.03
12 24 0.21
13 24 0.21
14 18 0.16
15 7 0.06
16 29 0.25
17 9 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATAAAAATATA
Done.