Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 132 of 333
Found at i:42781675 original size:30 final size:30
Alignment explanation
Indices: 42781641--42781728 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
42781631 CTAGCTTATA
42781641 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * *
42781671 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTCACGAGCTA-AACCTTAGCTCAAC
* *
42781701 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
42781729 TTTTAGTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:42782154 original size:13 final size:13
Alignment explanation
Indices: 42782136--42782160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42782126 GTATCGAAAA
42782136 TGTGTTCACACCT
1 TGTGTTCACACCT
42782149 TGTGTTCACACC
1 TGTGTTCACACC
42782161 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:42788041 original size:46 final size:46
Alignment explanation
Indices: 42787991--42788166 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
42787981 TGGTTGAGCA
42787991 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42788037 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
42788082 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
42788130 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42788167 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42788147 original size:93 final size:93
Alignment explanation
Indices: 42787988--42788159 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
42787978 GGATGGTTGA
* * *
42787988 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
42788053 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
42788081 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
42788146 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
42788160 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42808997 original size:40 final size:40
Alignment explanation
Indices: 42808913--42809096 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42808903 TTGAATGCTG
* * * *
42808913 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
42808952 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
42808993 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
42809033 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
42809073 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42809097 GTATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:42809050 original size:80 final size:81
Alignment explanation
Indices: 42808913--42809093 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
42808903 TTGAATGCTG
* * *
42808913 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
42808977 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
42808993 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
42809054 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
42809073 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
42809094 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:42809117 original size:39 final size:38
Alignment explanation
Indices: 42808914--42809133 Score: 165
Period size: 40 Copynumber: 5.6 Consensus size: 38
42808904 TGAATGCTGT
* * * * *
42808914 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * * *
42808954 CCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
42808994 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
42809034 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
**
42809073 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
42809113 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
42809134 CTTGAACGAG
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 33 0.22
40 109 0.73
41 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:42816319 original size:40 final size:40
Alignment explanation
Indices: 42816235--42816418 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42816225 TTGAATGCTG
* * * *
42816235 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
42816274 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
42816315 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
42816355 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
*
42816395 TCTGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42816419 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:42816372 original size:80 final size:81
Alignment explanation
Indices: 42816235--42816415 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
42816225 TTGAATGCTG
* *
42816235 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
42816299 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
42816315 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
42816376 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
*
42816395 TCTGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
42816416 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:42818293 original size:18 final size:18
Alignment explanation
Indices: 42818272--42818310 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
42818262 GATTGAGAGT
* *
42818272 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
42818290 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
42818308 GAA
1 GAA
42818311 GTTGAAGAAA
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:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:42834401 original size:24 final size:24
Alignment explanation
Indices: 42834369--42834417 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
42834359 TTAAAGACTA
*
42834369 AATTGATAATTTATCCACTTTTAT
1 AATTAATAATTTATCCACTTTTAT
42834393 AATTAATAATTTATCCACTTTTAT
1 AATTAATAATTTATCCACTTTTAT
42834417 A
1 A
42834418 TACAGTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTAATAATTTATCCACTTTTAT
Found at i:42835207 original size:18 final size:18
Alignment explanation
Indices: 42835184--42835220 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
42835174 ATTTGGTAAG
*
42835184 TTAGATTTGGGTTGTTAA
1 TTAGATTTCGGTTGTTAA
42835202 TTAGATTTCGGTTGTTAA
1 TTAGATTTCGGTTGTTAA
42835220 T
1 T
42835221 ACATAGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.24, T:0.51
Consensus pattern (18 bp):
TTAGATTTCGGTTGTTAA
Found at i:42842289 original size:20 final size:19
Alignment explanation
Indices: 42842260--42842298 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
42842250 CTTGTATGAG
*
42842260 ATTTCACTTCGGTGCCTCT
1 ATTTCACTTCAGTGCCTCT
42842279 ATTTGCACTTCAGTGCCTCT
1 ATTT-CACTTCAGTGCCTCT
42842299 GAATGCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.13, C:0.31, G:0.15, T:0.41
Consensus pattern (19 bp):
ATTTCACTTCAGTGCCTCT
Found at i:42842305 original size:20 final size:20
Alignment explanation
Indices: 42842264--42842318 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
42842254 TATGAGATTT
*
42842264 CACTTCGGTGCCTCT-ATTTG
1 CACTTC-GTGCCTCTGATATG
42842284 CACTTCAGTGCCTCTGA-ATG
1 CACTTC-GTGCCTCTGATATG
42842304 CACATT-GTGCCTCTG
1 CAC-TTCGTGCCTCTG
42842319 TTTGTACCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 9 0.29
20 19 0.61
21 3 0.10
ACGTcount: A:0.15, C:0.31, G:0.20, T:0.35
Consensus pattern (20 bp):
CACTTCGTGCCTCTGATATG
Found at i:42846405 original size:46 final size:46
Alignment explanation
Indices: 42846352--42846527 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
42846342 TATTTGGGCA
42846352 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42846398 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * * *
42846443 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGAATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42846491 -CCTGAGCTCGTTGAGTTGAATCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42846528 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.56
47 27 0.26
48 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42846507 original size:93 final size:93
Alignment explanation
Indices: 42846348--42846520 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
42846338 GGGATATTTG
* * *
42846348 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATACGAACGTCCGAACTCGTTGAG
*
42846413 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAATCCGAGTTCGTGAGATGTAACTA
* * *
42846441 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGAATACGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATACGAACGTCC-GAACTCGTTGA
42846505 GTTGAATCCGAGTTCG
65 GTTGAATCCGAGTTCG
42846521 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATACGAACGTCCGAACTCGTTGAG
TTGAATCCGAGTTCGTGAGATGTAACTA
Found at i:42855671 original size:92 final size:93
Alignment explanation
Indices: 42855565--42855733 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 93
42855555 GCCCATAAGT
* *
42855565 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGT-AACTCGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42855629 CAAGCTCGGATGTCTAGTTACATCTCTC
66 CAAGCTCGGATGTCTAGTTACATCTCTC
*
42855657 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
42855722 CGAGTTCGGATG
66 CAAGCTCGGATG
42855734 CCCAAACATC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 44 0.62
93 27 0.38
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGTCTAGTTACATCTCTC
Found at i:42855717 original size:46 final size:46
Alignment explanation
Indices: 42855557--42855731 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
42855547 TGTAACCCGC
*
42855557 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * ** * *
42855603 CCATAAGT-AACTCGGATTCAACTCAACAAGCTCGGATGTCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAT-TCGCAT
* *** *
42855648 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
42855695 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
42855732 TGCCCAAACA
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 31 0.30
46 41 0.40
47 31 0.30
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:42858169 original size:15 final size:15
Alignment explanation
Indices: 42858151--42858204 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
42858141 TCCAAGATGG
42858151 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
*
42858166 AGAAATCCAGAATAA
1 AGAAACCCAGAATAA
* * *
42858181 AGAGATCCAGGATAA
1 AGAAACCCAGAATAA
42858196 AGAAACCCA
1 AGAAACCCA
42858205 AGATACGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.56, C:0.19, G:0.17, T:0.09
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:42858209 original size:15 final size:15
Alignment explanation
Indices: 42858132--42858209 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
42858122 AGAAAATCGA
42858132 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
** *
42858147 ATGGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
42858161 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
42858176 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
42858192 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
42858207 ATA
1 ATA
42858210 CGATATTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:42862650 original size:13 final size:13
Alignment explanation
Indices: 42862632--42862657 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42862622 TCCATGATTT
42862632 TTTGAAAATTTTG
1 TTTGAAAATTTTG
42862645 TTTGAAAATTTTG
1 TTTGAAAATTTTG
42862658 ACGTTTGGGC
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:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:42863953 original size:96 final size:92
Alignment explanation
Indices: 42863743--42864068 Score: 282
Period size: 96 Copynumber: 3.5 Consensus size: 92
42863733 ATGTGAGTAT
* * ** * * *
42863743 TGAGATCCTGTTTAAGACCATATTTGGGATATGACATCGGCATCAAG-ATGAGATCCGTGTAAGA
1 TGAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATC-AGTATGAGATCCATGTAAGA
* *
42863807 CCATATCTGGGGTATGGCATCGACATCGATA
65 CCATATCT--GGTAT-GCATTGGCATCGATA
* * *
42863838 AGAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATCAGTATGAGATCCAATGTAAGA
1 TGAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATCAGTATGAGATCC-ATGTAAGA
*
42863903 CCATATCTGAGATATGACATTGGCATTGATA
65 CCATATCTG-G-TATG-CATTGGCATCGATA
* * * * * *
42863934 TGAGGTCCCGTATAAGACCATGTCTAGGACATGGCATCGGCATC-GTTATGAAACTTCATGTAAG
1 TGAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATCAG-TATGAGA-TCCATGTAAG
* ** *
42863998 ACCATAGCTGGGCTG--TTGGCATCGATG
64 ACCATATCTGGTATGCATTGGCATCGATA
* * * * *
42864025 TGAGATCCCATGTAAGACCACGTTTGGGACATGGCATTGGCATC
1 TGAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATC
42864069 TTTTAATGTG
Statistics
Matches: 190, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
91 47 0.25
94 5 0.03
95 48 0.25
96 88 0.46
97 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (92 bp):
TGAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATCAGTATGAGATCCATGTAAGAC
CATATCTGGTATGCATTGGCATCGATA
Found at i:42863984 original size:48 final size:48
Alignment explanation
Indices: 42863743--42863984 Score: 209
Period size: 48 Copynumber: 5.1 Consensus size: 48
42863733 ATGTGAGTAT
* * * * * *
42863743 TGAGATCCTGTTTAAGACCATATTTGGGATATGACATCGGCATCAAGA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
* ** * *
42863791 TGAGAT-CCGTGTAAGACCATATCTGGGGTATGGCATCGACATCGATA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
* * ** *
42863838 AGAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATC-AGTA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGA-TA
** * * * * *
42863886 TGAGATCCAATGTAAGACCATATCTGAGATATGACATTGGCATTGATA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
* * * * *
42863934 TGAGGTCCCGTATAAGACCATGTCTAGGACATGGCATCGGCATCGTTA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
42863982 TGA
1 TGA
42863985 AACTTCATGT
Statistics
Matches: 151, Mismatches: 40, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
47 39 0.26
48 111 0.74
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
Found at i:42864009 original size:144 final size:138
Alignment explanation
Indices: 42863755--42864044 Score: 289
Period size: 144 Copynumber: 2.1 Consensus size: 138
42863745 AGATCCTGTT
* * * * **
42863755 TAAGACCATATTTGGGATATGACATCGGCATCAAGATGAGATCCGTGTAAGACCATATCTGGGGT
1 TAAGACCATATCTGAGATATGACATCGGCATCAAGATGAGATCCGTATAAGACCATATCTAGGAC
* * *
42863820 ATGGCATCGACATCGATAAGAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATC-AG
66 ATGGCATCGACATCGATAAGAAATCTCATATAAGACCAAGTCTGGG-C-TG---TTGGCATCGA-
42863884 TATGAGATCCAATG
125 TATGAGATCCAATG
* ** * * *
42863898 TAAGACCATATCTGAGATATGACATTGGCATTGATATGAGGTCCCGTATAAGACCATGTCTAGGA
1 TAAGACCATATCTGAGATATGACATCGGCATCAAGATGAGAT-CCGTATAAGACCATATCTAGGA
* * * * *
42863963 CATGGCATCGGCATCGTTATGAAA-CTTCATGTAAGACCATAG-CTGGGCTGTTGGCATCGATGT
65 CATGGCATCGACATCGATAAGAAATC-TCATATAAGACCA-AGTCTGGGCTGTTGGCATCGATAT
*
42864026 GAGATCCCATG
128 GAGATCCAATG
42864037 TAAGACCA
1 TAAGACCA
42864045 CGTTTGGGAC
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
139 28 0.23
140 1 0.01
142 2 0.02
143 37 0.30
144 53 0.43
145 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (138 bp):
TAAGACCATATCTGAGATATGACATCGGCATCAAGATGAGATCCGTATAAGACCATATCTAGGAC
ATGGCATCGACATCGATAAGAAATCTCATATAAGACCAAGTCTGGGCTGTTGGCATCGATATGAG
ATCCAATG
Found at i:42870212 original size:35 final size:35
Alignment explanation
Indices: 42870161--42870228 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
42870151 GAGGTTTCAC
* *
42870161 TCCATAGAGCATGTAGACCATTTTCATGGTGTCTA
1 TCCATAGAGCACGTAGACCATTTACATGGTGTCTA
42870196 TCCATAGAGCACGTAGACCATTTACATGGTGTC
1 TCCATAGAGCACGTAGACCATTTACATGGTGTC
42870229 GCTCTATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (35 bp):
TCCATAGAGCACGTAGACCATTTACATGGTGTCTA
Found at i:42870238 original size:35 final size:35
Alignment explanation
Indices: 42870161--42870240 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
42870151 GAGGTTTCAC
* * *
42870161 TCCATAGAGCATGTAGACCATTTTCATGGTGTCTA
1 TCCATAGAGCACGTAGACCATTTACATGGTGTCGA
*
42870196 TCCATAGAGCACGTAGACCATTTACATGGTGTCGC
1 TCCATAGAGCACGTAGACCATTTACATGGTGTCGA
*
42870231 TCTATAGAGC
1 TCCATAGAGC
42870241 CTATAGACTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (35 bp):
TCCATAGAGCACGTAGACCATTTACATGGTGTCGA
Found at i:42870301 original size:35 final size:35
Alignment explanation
Indices: 42870209--42870317 Score: 92
Period size: 35 Copynumber: 3.1 Consensus size: 35
42870199 ATAGAGCACG
* * * *
42870209 TAGACCATTTACATGGTGTCGCTCTATAGAGCCTA
1 TAGACTATTTACACGGTGTCGCTTTGTAGAGCCTA
* * * * * *
42870244 TAGACTGTTTATACGATATCGCTTTGTAGAGTCTG
1 TAGACTATTTACACGGTGTCGCTTTGTAGAGCCTA
* * * *
42870279 TATACTATTTACACGGTGTCGCTTCGTAGATCCCA
1 TAGACTATTTACACGGTGTCGCTTTGTAGAGCCTA
42870314 TAGA
1 TAGA
42870318 TCATTTATCC
Statistics
Matches: 53, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (35 bp):
TAGACTATTTACACGGTGTCGCTTTGTAGAGCCTA
Found at i:42877846 original size:27 final size:27
Alignment explanation
Indices: 42877510--42877846 Score: 406
Period size: 27 Copynumber: 12.5 Consensus size: 27
42877500 CGTACCTGAA
* *
42877510 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTG
* *
42877537 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTG
* * *
42877564 CCCTTATGTTGCAAAATGACAGTTTTG
1 CCCTTATGTGGTAAAATGACAATTTTG
* **
42877591 CCCTTATGTTGTAAAATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACAATTTTG
* *
42877618 CCCTTATGTGTTAAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACAATTTTG
* **
42877645 CCCTTATGTGTTAAAATGATGATTTTG
1 CCCTTATGTGGTAAAATGACAATTTTG
* * **
42877672 CCTTTATATATTAAAATGACAATTTTG
1 CCCTTATGTGGTAAAATGACAATTTTG
42877699 CCCTTATGTGAG-AAAATGACAATTTTG
1 CCCTTATGTG-GTAAAATGACAATTTTG
* * *
42877726 CCCTTGTGTGGCAAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACAATTTTG
* *
42877753 CCCTTATGTGTTAAAATGACAGTTTTG
1 CCCTTATGTGGTAAAATGACAATTTTG
*
42877780 CCCTTATGTGGTAAAATGACAATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTG
* * *
42877807 CCCTTATGAGGTAAAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTG
42877834 CCCTTATGTGGTA
1 CCCTTATGTGGTA
42877847 GGATGGTTGT
Statistics
Matches: 274, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 273 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACAATTTTG
Found at i:42878255 original size:18 final size:18
Alignment explanation
Indices: 42878203--42878261 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
42878193 TGCATTCTGT
*
42878203 ACTGATTACTGCTACTAC
1 ACTGATTACTGCTACTGC
* *
42878221 ACTGATCA-TGGGTACTGC
1 ACTGATTACT-GCTACTGC
*
42878239 ACTGATTACTGCCACTGC
1 ACTGATTACTGCTACTGC
42878257 TACTG
1 -ACTG
42878262 TTTCTGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 1 0.03
18 26 0.81
19 5 0.16
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (18 bp):
ACTGATTACTGCTACTGC
Found at i:42878891 original size:15 final size:16
Alignment explanation
Indices: 42878871--42878900 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42878861 TGTAGCCTTG
42878871 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
42878886 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
42878901 AACATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:42880593 original size:17 final size:17
Alignment explanation
Indices: 42880573--42880606 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42880563 TTTCCTCGAT
*
42880573 TTTATTAAATTCATTAA
1 TTTAATAAATTCATTAA
*
42880590 TTTAATAATTTCATTAA
1 TTTAATAAATTCATTAA
42880607 ATTCATCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATAAATTCATTAA
Found at i:42884542 original size:20 final size:20
Alignment explanation
Indices: 42884517--42884555 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42884507 AGAGACTAAA
* *
42884517 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
42884537 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
42884556 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:42903428 original size:17 final size:17
Alignment explanation
Indices: 42903398--42903430 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42903388 TGGCCCTGTT
42903398 TCTCAAAAATTCAAATA
1 TCTCAAAAATTCAAATA
42903415 TCTCATAAAA-TCAAAT
1 TCTCA-AAAATTCAAAT
42903431 TTATATACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (17 bp):
TCTCAAAAATTCAAATA
Found at i:42917357 original size:44 final size:45
Alignment explanation
Indices: 42917297--42917393 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 45
42917287 CCATGGCCAA
42917297 ACATGGTCTTACACTGAC-ACATCTCGTA-GCCGATGCATGTCCCAG
1 ACAT-GTCTTACACTGACTACATCTCG-AGGCCGATGCATGTCCCAG
* *
42917342 ACATGTCTTACACTGACTTACGTCTCGAGGTCGATGCATGTCCCAG
1 ACATGTCTTACACTGAC-TACATCTCGAGGCCGATGCATGTCCCAG
42917388 ACATGT
1 ACATGT
42917394 AATCTCAATG
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
44 13 0.28
45 5 0.11
46 29 0.62
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
ACATGTCTTACACTGACTACATCTCGAGGCCGATGCATGTCCCAG
Found at i:42919082 original size:36 final size:36
Alignment explanation
Indices: 42919035--42919105 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
42919025 TGGTTTTTAT
** *
42919035 AATATGTTGAAATGGAATATTTATGATTTATGACTC
1 AATATGTTGAAATGGAATATGCATGATATATGACTC
*
42919071 AATATGTTGAAATGGACTATGCATGATATATGACT
1 AATATGTTGAAATGGAATATGCATGATATATGACT
42919106 AAATTAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (36 bp):
AATATGTTGAAATGGAATATGCATGATATATGACTC
Found at i:42938208 original size:46 final size:47
Alignment explanation
Indices: 42938064--42938376 Score: 211
Period size: 47 Copynumber: 6.7 Consensus size: 47
42938054 TTTGTGTGCT
* * *
42938064 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAGAGCC
** * * *
42938110 AAAGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
42938158 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
* * * *
42938204 AGTGTAAGACATGTCTGGTACTTGCATCAG-CTAC-ATGATGT---GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGA-GATGTAGAGCC
* * * * * * * *
42938248 AATGTAAGACTATG-CTGGGATATGGCATCGACATGGATACGTGAGAGTC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGATGT-AGAGCC
* *
42938297 AGTGTAAGACCATGTCTGGGACATGGCATC-GACT-TA-ATGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGT-AGAGCC
*
42938344 AGTGTAAGACCATGTCTGGAACATGACATCGGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC
42938377 ATTATACCCT
Statistics
Matches: 212, Mismatches: 37, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
44 17 0.08
45 14 0.07
46 61 0.29
47 65 0.31
48 24 0.11
49 16 0.08
50 15 0.07
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:42938316 original size:140 final size:139
Alignment explanation
Indices: 42938064--42938373 Score: 353
Period size: 140 Copynumber: 2.2 Consensus size: 139
42938054 TTTGTGTGCT
*
42938064 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAAAGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAAAGTAAGACCATGTCTGG
* * *
42938129 GACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
65 GACATGGCATCGACATGGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATC-GACT-G
42938193 AGATGT-A-AGCC
128 A-ATGTGAGAGCC
* * * * * * *
42938204 AGTGTAAGACATGTCTGGTACTTGCATCAGCTACATGAT-GTGTCAATGTAAGACTATG-CTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAAAGTAAGACCATGTCTGGG
* *
42938267 ATATGGCATCGACATGGATACGTGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACT
66 ACATGGCATCGACATGGAGA--TGAGAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGACT
*
42938331 TAATGTGAGAGCC
127 GAATGTGAGAGCC
*
42938344 AGTGTAAGACCATGTCTGGAACATGACATC
1 AGTGTAAGA-CATGTCTGGGACATG-CATC
42938374 GGCATTATAC
Statistics
Matches: 145, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
137 21 0.14
138 20 0.14
139 17 0.12
140 65 0.45
141 18 0.12
142 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAAAGTAAGACCATGTCTGGG
ACATGGCATCGACATGGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACTGAAT
GTGAGAGCC
Found at i:42943055 original size:30 final size:30
Alignment explanation
Indices: 42943021--42943081 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42943011 TCCTTAACTC
42943021 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42943051 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42943081 A
1 A
42943082 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42948195 original size:57 final size:58
Alignment explanation
Indices: 42948134--42948250 Score: 157
Period size: 58 Copynumber: 2.0 Consensus size: 58
42948124 TCCTCTTTCC
* *
42948134 AACATATGTTCATA-AGAGCTTA-ATCAAGATTACCCGTCCAGGCTAAATCCTATCTAT
1 AACATATGCTCA-AGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
* * * *
42948191 AACATATGCTCAAGAGGGCTTATATCAGGATTACCAGTCTAGGCTAAATCCTTTCTAT
1 AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
42948249 AA
1 AA
42948251 TGAGGTCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 1 0.02
57 18 0.35
58 33 0.63
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (58 bp):
AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
Found at i:42950466 original size:56 final size:56
Alignment explanation
Indices: 42950380--42950555 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
42950370 ACAAGGGATG
*
42950380 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42950436 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
42950492 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42950548 ATGGGCAA
1 ATGGGCAA
42950556 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:42951783 original size:39 final size:40
Alignment explanation
Indices: 42951685--42951869 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
42951675 TCGAATGATG
* * * *
42951685 TCCGGGCTAAGTCCCGAAGTC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
42951724 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
42951765 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
42951804 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42951843 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
42951870 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:42951891 original size:79 final size:79
Alignment explanation
Indices: 42951738--42951902 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
42951728 GGACTAAGAT
** **
42951738 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
42951803 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42951817 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
42951880 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42951896 CCGAAGG
1 CCGAAGG
42951903 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42958440 original size:15 final size:15
Alignment explanation
Indices: 42958420--42958450 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42958410 AAGAAGCATG
42958420 GGCAAAACATGTCAT
1 GGCAAAACATGTCAT
*
42958435 GGCAAAACGTGTCAT
1 GGCAAAACATGTCAT
42958450 G
1 G
42958451 AAACATGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (15 bp):
GGCAAAACATGTCAT
Found at i:42959812 original size:40 final size:39
Alignment explanation
Indices: 42959622--42959805 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
42959612 CGAATGATGT
* * * * *
42959622 CCGGGCTAAGTCCCGAAGTC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
42959662 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
42959702 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42959740 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
42959781 CTGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42959806 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42959827 original size:79 final size:79
Alignment explanation
Indices: 42959674--42959838 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
42959664 GGACTAAGAT
* **
42959674 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
42959739 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
42959753 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
42959816 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42959832 CCGAAGG
1 CCGAAGG
42959839 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42966162 original size:56 final size:54
Alignment explanation
Indices: 42966044--42966176 Score: 203
Period size: 56 Copynumber: 2.4 Consensus size: 54
42966034 TCCCAAATAG
* * *
42966044 GGTCTTACTCGTAAACACATATCAGAATCACATATCTGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCTGCCAACGTATTAAACGT
*
42966098 GGTCTTACTCGCACACACATATCAGAATCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATC--TGCCAACGTATTAAACGT
*
42966154 GGTCTTACTCCCACACACATATC
1 GGTCTTACTCGCACACACATATC
42966177 GTACAATGCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
54 33 0.46
56 39 0.54
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (54 bp):
GGTCTTACTCGCACACACATATCAGAATCACATATCTGCCAACGTATTAAACGT
Found at i:42966248 original size:43 final size:43
Alignment explanation
Indices: 42966182--42966475 Score: 279
Period size: 43 Copynumber: 7.0 Consensus size: 43
42966172 ATATCGTACA
* *
42966182 ATGCCAAC-GTCCTAGACATGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
42966225 ATGCCACTGTCCTAGACAGGGTCTTACACG-AATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
42966266 ATGTCGA-TGTCCCAGACCTAGTTTTACACGTAATCACATATCG
1 ATG-CCACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
42966309 ATGCCAAC-GTCCCAGACGTGGTCTTACACG-AATCAAATAT-G
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
42966350 ATGTCGA-TGTCCCAGACATGGTTTTACACGTAATCACATATCG
1 ATG-CCACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
42966393 ATGCCAAC-GTCCCAAACGTGGTCTTACACG-AATCAAATA-CG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
***
42966434 ATTTTGA-TGTCCCAGACATGGTCTTACACGTAATCACATATC
1 A-TGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATC
42966476 AAAAATCCTA
Statistics
Matches: 205, Mismatches: 30, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
41 71 0.35
42 60 0.29
43 74 0.36
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:42966293 original size:41 final size:42
Alignment explanation
Indices: 42966190--42966474 Score: 281
Period size: 41 Copynumber: 6.8 Consensus size: 42
42966180 CAATGCCAAC
* * * *
42966190 GTCCTAGACATGGTCTTACATGTAATCACATATCGATG-CCACT
1 GTCCCAGACATGGTCTTACACGTAATCAAATAT-GATGTCGA-T
* *
42966233 GTCCTAGACAGGGTCTTACACG-AATCAAATATGATGTCGAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATGATGTCGAT
* * * * * * *
42966274 GTCCCAGACCTAGTTTTACACGTAATCACATATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAATCAAATAT-GATGTCGAT
*
42966317 GTCCCAGACGTGGTCTTACACG-AATCAAATATGATGTCGAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATGATGTCGAT
* * * * *
42966358 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAATCAAATAT-GATGTCGAT
* * * * *
42966401 GTCCCAAACGTGGTCTTACACG-AATCAAATACGATTTTGAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATGATGTCGAT
*
42966442 GTCCCAGACATGGTCTTACACGTAATCACATAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATAT
42966475 CAAAAATCCT
Statistics
Matches: 196, Mismatches: 40, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
41 72 0.37
42 54 0.28
43 70 0.36
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATGATGTCGAT
Found at i:42966314 original size:84 final size:84
Alignment explanation
Indices: 42966190--42966475 Score: 441
Period size: 84 Copynumber: 3.4 Consensus size: 84
42966180 CAATGCCAAC
* * * *
42966190 GTCCTAGACATGGTCTTACATGTAATCACATATCGATGCC-ACTGTCCTAGACAG-GGTCTTACA
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACA
42966253 CGAATCAAATATGATGTCGAT
64 CGAATCAAATATGATGTCGAT
* *
42966274 GTCCCAGACCTAGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
42966339 AATCAAATATGATGTCGAT
66 AATCAAATATGATGTCGAT
*
42966358 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACG
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
* * *
42966423 AATCAAATACGATTTTGAT
66 AATCAAATATGATGTCGAT
*
42966442 GTCCCAGACATGGTCTTACACGTAATCACATATC
1 GTCCCAGACATGGTTTTACACGTAATCACATATC
42966476 AAAAATCCTA
Statistics
Matches: 187, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
83 1 0.01
84 184 0.98
85 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (84 bp):
GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
AATCAAATATGATGTCGAT
Found at i:42978809 original size:13 final size:13
Alignment explanation
Indices: 42978791--42978819 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
42978781 GGTTGTTTAT
42978791 TAAACTAATTAAC
1 TAAACTAATTAAC
42978804 TAAACTAATTAAC
1 TAAACTAATTAAC
42978817 TAA
1 TAA
42978820 TTAAAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:42980732 original size:8 final size:8
Alignment explanation
Indices: 42980719--42980747 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
42980709 ATTTCAACAA
42980719 TAATGGGT
1 TAATGGGT
42980727 TAATGGGT
1 TAATGGGT
42980735 TAATGGGT
1 TAATGGGT
42980743 TAATG
1 TAATG
42980748 ATGAGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TAATGGGT
Found at i:42981724 original size:6 final size:6
Alignment explanation
Indices: 42981715--42981747 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
42981705 AATAAAATTG
*
42981715 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
42981748 GATAAGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:42985466 original size:30 final size:30
Alignment explanation
Indices: 42985432--42985492 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42985422 TCCTTAACTC
42985432 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42985462 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42985492 A
1 A
42985493 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43004906 original size:40 final size:40
Alignment explanation
Indices: 43004804--43004945 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
43004794 TGAATTCTTG
* * * *
43004804 CACACTAAGTGCCAAAACATAGTCGAAGCTATTTCAATCTCT
1 CACACTAAGTGCC-ATACATAGTCGAAGCTATCTCAA-ATCA
* *
43004846 CACATTAAGTGTCATACATAGTCGAAGCTATCTCAAATCA
1 CACACTAAGTGCCATACATAGTCGAAGCTATCTCAAATCA
* * ** *
43004886 CACACTAAGTGCCATACATAGCCGAAGTTATCTTGAATCG
1 CACACTAAGTGCCATACATAGTCGAAGCTATCTCAAATCA
*
43004926 CACATTAAGTGCCATACATA
1 CACACTAAGTGCCATACATA
43004946 ACCGAATTGT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 54 0.63
41 21 0.24
42 11 0.13
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGTCGAAGCTATCTCAAATCA
Found at i:43008049 original size:28 final size:28
Alignment explanation
Indices: 43007954--43008054 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
43007944 TACTTAATGC
*
43007954 CTCGCACACTAAGTGCCATC-CTCGATAT
1 CTCGCACACTAAGTGCCA-CACTCAATAT
* * *
43007982 CTCGTACACTAACTGCCACACTCAGTAT
1 CTCGCACACTAAGTGCCACACTCAATAT
* *
43008010 CTCGTACACTAAGTTCCACACTCAATAT
1 CTCGCACACTAAGTGCCACACTCAATAT
*
43008038 CTCGCACGCTAAGTGCC
1 CTCGCACACTAAGTGCC
43008055 GTATATAGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.27, C:0.36, G:0.13, T:0.25
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCACACTCAATAT
Found at i:43008090 original size:40 final size:40
Alignment explanation
Indices: 43008039--43008131 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
43008029 ACTCAATATC
* *
43008039 TCGCACGCTAAGTGCCGTATATAGCAAAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCAAAAGCTATCTCAAA
** ** * *
43008079 TCGCACACTAAGTGTTATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCAAAAGCTATCTCAAA
*
43008119 TCTCACACTAAGT
1 TCGCACACTAAGT
43008132 ACCACAAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCAAAAGCTATCTCAAA
Found at i:43013496 original size:23 final size:23
Alignment explanation
Indices: 43013469--43013593 Score: 121
Period size: 23 Copynumber: 5.4 Consensus size: 23
43013459 GCTTATGAAT
*
43013469 AGTAAGCTCTAATGAGCTGGAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* * *
43013492 GGTAAGCTCTATTGAGTTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* *
43013515 -GTTAAGCTCTATTGAACT-AAAC
1 AG-TAAGCTCTAATGAGCTGAAAC
* *
43013537 AGTAAGCTC-ATACGAGCTAAAAC
1 AGTAAGCTCTA-ATGAGCTGAAAC
*
43013560 AGTAAGCTCCAATGAGCTGAAAAC
1 AGTAAGCTCTAATGAGCTG-AAAC
43013584 AGTAAGCTCT
1 AGTAAGCTCT
43013594 TTCAAGTTGA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
21 1 0.01
22 16 0.19
23 53 0.63
24 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:43017609 original size:43 final size:43
Alignment explanation
Indices: 43017554--43017726 Score: 206
Period size: 43 Copynumber: 4.0 Consensus size: 43
43017544 AGCTCGTACA
* * *
43017554 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * * *
43017596 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATAACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
*
43017639 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAT-CG
* * *
43017682 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
43017725 AT
1 AT
43017727 AACCTAATGT
Statistics
Matches: 108, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 6 0.06
43 101 0.94
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:43029118 original size:45 final size:45
Alignment explanation
Indices: 43029054--43029143 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
43029044 ATTTGCTAGC
43029054 AGACACCACTCTTGATCTTTATTTAATTGCGTTATTATAAGCCTT
1 AGACACCACTCTTGATCTTTATTTAATTGCGTTATTATAAGCCTT
43029099 AGACACCACTCTTGATCTTTATTTAATTGCGTTATTATAAGCCTT
1 AGACACCACTCTTGATCTTTATTTAATTGCGTTATTATAAGCCTT
43029144 GGTGCATGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (45 bp):
AGACACCACTCTTGATCTTTATTTAATTGCGTTATTATAAGCCTT
Found at i:43030237 original size:12 final size:12
Alignment explanation
Indices: 43030220--43030250 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
43030210 GTAAACTATT
43030220 AATATTAATACA
1 AATATTAATACA
43030232 AATATTAATACA
1 AATATTAATACA
43030244 AATATTA
1 AATATTA
43030251 TTATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
AATATTAATACA
Found at i:43032556 original size:8 final size:8
Alignment explanation
Indices: 43032522--43032556 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
43032512 AAGGGCAAAG
43032522 AAATAAT-
1 AAATAATA
43032529 AAATAAATA
1 AAAT-AATA
43032538 AAATAATA
1 AAATAATA
43032546 AAATAATA
1 AAATAATA
43032554 AAA
1 AAA
43032557 ATGAAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 4 0.15
8 18 0.69
9 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATAATA
Found at i:43032804 original size:22 final size:21
Alignment explanation
Indices: 43032744--43032805 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
43032734 TAAATTTAAA
*
43032744 TAAAATAAGTAAAT-AAAATAC
1 TAAAATAA-AAAATAAAAATAC
*
43032765 TAAAAT-AAAAATCCAAAAATAT
1 TAAAATAAAAAAT--AAAAATAC
43032787 TAAAAATAAAAAATAAAAA
1 T-AAAATAAAAAATAAAAA
43032806 AGGGACTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 6 0.18
22 12 0.35
23 5 0.15
24 6 0.18
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAAATAAAAAATAAAAATAC
Found at i:43035187 original size:47 final size:47
Alignment explanation
Indices: 43035105--43035246 Score: 223
Period size: 47 Copynumber: 3.0 Consensus size: 47
43035095 GTTGAATTTA
* *
43035105 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGAATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
43035151 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
* * **
43035198 AAGCTTGTTAAATTTTCCCTTATTATTTCAAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
43035245 AA
1 AA
43035247 AGAAAATTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 12 0.13
47 77 0.87
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:43036089 original size:45 final size:45
Alignment explanation
Indices: 43036025--43036244 Score: 306
Period size: 45 Copynumber: 5.0 Consensus size: 45
43036015 TATCGTACAG
*
43036025 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
43036070 TACTATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
43036115 TACTATTCAGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
43036160 TACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
43036205 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
43036245 ATGAATTCAG
Statistics
Matches: 159, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
42 11 0.07
43 14 0.09
44 11 0.07
45 122 0.77
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:43042823 original size:47 final size:47
Alignment explanation
Indices: 43042742--43042977 Score: 411
Period size: 47 Copynumber: 5.0 Consensus size: 47
43042732 GTTGAATTTA
*
43042742 AAGCTTGTTAAA-TTGCTCTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
43042788 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
43042835 AAGCTTGTTAAATTTGCCTTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
43042882 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
* **
43042929 AAGCTTGTTAAATTTGCCCTTATTATTTCTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
43042976 AA
1 AA
43042978 AGAAAATTTT
Statistics
Matches: 181, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 12 0.07
47 169 0.93
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Found at i:43043828 original size:45 final size:45
Alignment explanation
Indices: 43043764--43043936 Score: 214
Period size: 45 Copynumber: 4.0 Consensus size: 45
43043754 TATCGTACAG
*
43043764 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
43043809 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
43043854 TACTATTCGGGCCTTCGAGCCTAGCAGGCGA-AATACCGGTGA-A
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
43043897 TGA--ATTCGGG-TTTTAAACCTAGCAGGCT-GAATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
43043937 TTTGATAAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 23 0.20
42 7 0.06
43 2 0.02
44 11 0.10
45 71 0.62
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:43047642 original size:15 final size:16
Alignment explanation
Indices: 43047624--43047653 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43047614 AATTGTTTTA
43047624 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
43047639 TTACATAATTTCACT
1 TTACATAATTTCACT
43047654 TAATCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:43047972 original size:50 final size:50
Alignment explanation
Indices: 43047865--43048100 Score: 212
Period size: 50 Copynumber: 4.7 Consensus size: 50
43047855 TTGGTACGCA
* * * ** *
43047865 TAGTAGCCTACACTTAGTACTACACATGCGACC-AAAAAT-TCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATATGA-TACACG
* * *
43047914 TAGTAGCCTGAACTTAGTACTACACACATGACCTAACCATATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATATGATACACG
* * * * *
43047964 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCAGGTATGCA--
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTAT-ATG-ATACACG
* * * *
43048015 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATATGATACACG
* *
43048065 TAGTAGCTTGCACTTAGTACTACATACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
43048101 AACCATCTTA
Statistics
Matches: 149, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
48 3 0.02
49 30 0.20
50 75 0.50
51 34 0.23
52 3 0.02
53 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATATGATACACG
Found at i:43048050 original size:101 final size:101
Alignment explanation
Indices: 43047914--43048095 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
43047904 TCAGTACACG
*
43047914 TAGTAGCCTGAACTTAGTACTACACACATGACCTAACCATATGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGAACTTAGTACTACACACACGACCTAACCATATGATACACGTAGTAGCCTGCACTT
43047979 AGTACTACACACGTGATTGAAGTTGTCAGGTATGCA
66 AGTACTACACACGTGATTGAAGTTGTCAGGTATGCA
* ** * * * *
43048015 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCTTGCACTT
1 TAGTAGCCTGAACTTAGTACTACACACACGACCTAACCATATGATACACGTAGTAGCCTGCACTT
*
43048080 AGTACTACATACGTGA
66 AGTACTACACACGTGA
43048096 CCTAAAACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGAACTTAGTACTACACACACGACCTAACCATATGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATTGAAGTTGTCAGGTATGCA
Found at i:43051078 original size:15 final size:16
Alignment explanation
Indices: 43051053--43051094 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
43051043 ATAGATAACA
43051053 AGAAA-CCAAGATTA-
1 AGAAATCCAAGATTAG
*
43051067 AGAAGTCCAAGA-TAG
1 AGAAATCCAAGATTAG
43051082 AGAAATCCAAGAT
1 AGAAATCCAAGAT
43051095 ACAATATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.14
Consensus pattern (16 bp):
AGAAATCCAAGATTAG
Found at i:43054746 original size:40 final size:40
Alignment explanation
Indices: 43054699--43054842 Score: 209
Period size: 40 Copynumber: 3.6 Consensus size: 40
43054689 CTCGCACAAG
*
43054699 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* *
43054739 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAAT
* * *
43054779 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
*
43054819 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
43054843 CATTCGAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 89 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:43054799 original size:80 final size:79
Alignment explanation
Indices: 43054663--43054842 Score: 256
Period size: 80 Copynumber: 2.3 Consensus size: 79
43054653 ACCAAAGTAT
* * *
43054663 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGT
*
43054726 CACTAGCATAAATGC
65 CACTAGCATAAAAGC
* * *
43054741 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAGT
43054806 CACTAGCATAAAAGC
65 CACTAGCATAAAAGC
*
43054821 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
43054843 CATTCGAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
77 1 0.01
78 11 0.12
79 18 0.20
80 61 0.67
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
ACTAGCATAAAAGC
Found at i:43057983 original size:16 final size:15
Alignment explanation
Indices: 43057959--43057988 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43057949 AACTGTTTTA
43057959 TTACAAATTTCACTC
1 TTACAAATTTCACTC
43057974 TTACATAATTTCACT
1 TTACA-AATTTCACT
43057989 TAGTCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:43058255 original size:50 final size:49
Alignment explanation
Indices: 43058150--43058375 Score: 202
Period size: 50 Copynumber: 4.5 Consensus size: 49
43058140 ACAGATACAC
* * * * ***
43058150 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACGT
1 AGTAGCCTACACTTAGTACTACACACGTGACCTAACCAT-CTAAACACGT
* *
43058199 AGTAGCCTATACTTAGTTCTACACACGTGACCTAACCATCTAATACACGT
1 AGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAA-ACACGT
* * * * * * *
43058249 AGTAGCCTGCACTTAGTACTACGCATGCGACCTAACTATTTGGAACACGT
1 AGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCT-AAACACGT
* * *
43058299 AGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACAT
1 AGTAGCCTACACTTAGTACTACACACGTGACCT--AACCATC-TAAACACGT
* *
43058351 AGTAGCCTACACATAGTGCTACACA
1 AGTAGCCTACACTTAGTACTACACA
43058376 TATGCTCTCA
Statistics
Matches: 141, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
49 28 0.20
50 79 0.56
51 1 0.01
52 32 0.23
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (49 bp):
AGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAAACACGT
Found at i:43058328 original size:100 final size:100
Alignment explanation
Indices: 43058150--43058376 Score: 296
Period size: 100 Copynumber: 2.3 Consensus size: 100
43058140 ACAGATACAC
* *
43058150 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTATACTTAG
1 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGAACACGTAGTAGCCTACACTTAG
* *
43058215 TTCTACACACGTGACCT-AACCATC-TAATACACGT
66 TACTACACACGTGACCTAAACCATCTTAA-ACACAT
* * ** * *
43058249 AGTAGCCTGCACTTAGTACTACGCATGCGACCTAACTATTTGGAACACGTAGTAGCTTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGAACACGTAGTAGCCTACACTTA
43058314 GTACTACACACGTGACCTAAAACCATCTTAAACACAT
65 GTACTACACACGTGACCT-AAACCATCTTAAACACAT
* * *
43058351 AGTAGCCTACACATAGTGCTACACAT
1 AGTAGCCTGCACTTAGTACTACACAT
43058377 ATGCTCTCAC
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 31 0.28
100 42 0.38
102 34 0.31
103 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (100 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGAACACGTAGTAGCCTACACTTAG
TACTACACACGTGACCTAAACCATCTTAAACACAT
Found at i:43060286 original size:42 final size:42
Alignment explanation
Indices: 43060202--43060351 Score: 142
Period size: 42 Copynumber: 3.5 Consensus size: 42
43060192 ATATCTCAGA
* ** *
43060202 TATGGTCTTACATGGGATCACATATATCAATGCCATAG-CCCAGC
1 TATGGTCTTACACGAAATCAC--ATATCGATGCCAT-GTCCCAGC
* ** *
43060246 TATAGTCTTACACGATGTCCCATATCGATGCCATGTCCCAGAC
1 TATGGTCTTACACGAAATCACATATCGATGCCATGTCCCAG-C
* * *
43060289 -ATGGTCTTACACGAAATCACATATCGATGTCATATCCCAGA
1 TATGGTCTTACACGAAATCACATATCGATGCCATGTCCCAGC
*
43060330 TATGGTCTTACATGAAATCACA
1 TATGGTCTTACACGAAATCACA
43060352 CATAACCCTA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 71 0.81
43 1 0.01
44 15 0.17
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
TATGGTCTTACACGAAATCACATATCGATGCCATGTCCCAGC
Found at i:43061124 original size:18 final size:18
Alignment explanation
Indices: 43061063--43061125 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
43061053 CAACCTCCTA
43061063 TTTACTT-TCCCTCAAACT
1 TTTACTTCTCCCT-AAACT
*
43061081 TTTAC-TC-CCCAAAAACT
1 TTTACTTCTCCC-TAAACT
**
43061098 TTTTTTTCTCCCTAAACT
1 TTTACTTCTCCCTAAACT
43061116 TTTACTTCTC
1 TTTACTTCTC
43061126 ACCTTTTACT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 12 0.34
18 20 0.57
19 3 0.09
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTACTTCTCCCTAAACT
Found at i:43062144 original size:16 final size:16
Alignment explanation
Indices: 43062120--43062158 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
43062110 GGACTAGACT
43062120 TTTTATTTATTTTTAG
1 TTTTATTTATTTTTAG
* *
43062136 TTTTGTTTATTTTTTG
1 TTTTATTTATTTTTAG
43062152 TTTTATT
1 TTTTATT
43062159 GTTTATAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTTTTAG
Found at i:43062370 original size:46 final size:46
Alignment explanation
Indices: 43062303--43062397 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
43062293 GGTGCTCCTC
43062303 TTTTTCAAGTATTTTCATTCTAACCCAATACTTCAGAGGTATAGGG
1 TTTTTCAAGTATTTTCATTCTAACCCAATACTTCAGAGGTATAGGG
* *
43062349 TTTTTCAAGTATTTTCATTCTAACCCACTACTTTAGAGGTATAGGG
1 TTTTTCAAGTATTTTCATTCTAACCCAATACTTCAGAGGTATAGGG
43062395 TTT
1 TTT
43062398 GTCGCTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (46 bp):
TTTTTCAAGTATTTTCATTCTAACCCAATACTTCAGAGGTATAGGG
Found at i:43062571 original size:95 final size:95
Alignment explanation
Indices: 43062402--43062707 Score: 328
Period size: 95 Copynumber: 3.3 Consensus size: 95
43062392 GGGTTTGTCG
* * * *
43062402 CTTTAATCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGTAATCTTATAGCTTAATCTGTTCC
1 CTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAA-CTGATACCTTAATCTATTCC
* *
43062467 ACTGTAACTTCAGGGGAAATAAGATTCTC-AT
65 ACTGCAACTTCA-GGGAAATAAGATTCACTAT
* * *
43062498 -TTTCAATCTGCGCCACT-CAACTTCAGGGAGATAAGATTTGTAACTGGTACCTTTAATCTATTC
1 CTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTGATACC-TTAATCTATTC
43062561 CACTGCAACTTCAGGGAAATAAGATTCACTAT
64 CACTGCAACTTCAGGGAAATAAGATTCACTAT
*
43062593 CTTTAATCTGCTCCACTGCAACTTCA-ATGAGATAAGATTTGTAACT--T--C--AATCTACTCC
1 CTTTAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTAACTGATACCTTAATCTATTCC
* * * ** **
43062651 ACTGCAATTTCAAGGAGATAAGATT-TGTGG
65 ACTGCAACTTCAGGGAAATAAGATTCACTAT
*
43062681 CTTTAATCTGCTCCACTGTAACTTCAG
1 CTTTAATCTGCTCCACTGCAACTTCAG
43062708 GAATATAAGA
Statistics
Matches: 183, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
88 26 0.14
89 31 0.17
92 1 0.01
94 21 0.11
95 63 0.34
96 41 0.22
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (95 bp):
CTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTGATACCTTAATCTATTCCA
CTGCAACTTCAGGGAAATAAGATTCACTAT
Found at i:43062612 original size:45 final size:45
Alignment explanation
Indices: 43062402--43062720 Score: 200
Period size: 44 Copynumber: 6.9 Consensus size: 45
43062392 GGGTTTGTCG
* * *
43062402 CTTTAATCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGTAATCTTAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TCA-C-TAT
* * * *
43062452 AGC-TTAATCTGTTCCACTGTAACTTCAGGGGAAATAAGATTCTC-AT
1 --CTTTAATCTGCTCCACTGCAACTTCA-GGGAGATAAGATTCACTAT
* * *
43062498 -TTTCAATCTGCGCCACT-CAACTTCAGGGAGATAAGATTTGTAACTGGTAC
1 CTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-TCAC---TAT
** *
43062548 CTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCACTAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAT
** ** *
43062593 CTTTAATCTGCTCCACTGCAACTTCAATGAGATAAGATT-TGTAA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAT
* * * * ** **
43062637 CTTCAATCTACTCCACTGCAATTTCAAGGAGATAAGATT-TGTGG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAT
* * *
43062681 CTTTAATCTGCTCCACTGTAACTTCAGGAATATAAGATTC
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC
43062721 GCCATGATGA
Statistics
Matches: 213, Mismatches: 41, Indels: 33
0.74 0.14 0.11
Matches are distributed among these distances:
43 10 0.05
44 81 0.38
45 48 0.23
46 4 0.02
48 4 0.02
49 2 0.01
50 12 0.06
51 42 0.20
52 10 0.05
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (45 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAT
Found at i:43070797 original size:19 final size:20
Alignment explanation
Indices: 43070781--43070825 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
43070771 TTATGAAACT
*
43070781 TAATGCATAT-AATGAAATG
1 TAATGCAGATGAATGAAATG
43070800 TAATGCAGATGAATGAAATG
1 TAATGCAGATGAATGAAATG
43070820 -AATGCA
1 TAATGCA
43070826 AAAAAAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGAATGAAATG
Found at i:43073160 original size:22 final size:22
Alignment explanation
Indices: 43073133--43073176 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
43073123 AAAAATTACC
*
43073133 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTAATTAT
*
43073155 AAAATTAATTAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
43073177 TCTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:43073174 original size:10 final size:10
Alignment explanation
Indices: 43073133--43073175 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
43073123 AAAAATTACC
*
43073133 AAAATTAATC
1 AAAATTAATT
*
43073143 AAAATTTATTAT
1 AAAA-TTAAT-T
43073155 AAAATTAATT
1 AAAATTAATT
43073165 AAAATTAATT
1 AAAATTAATT
43073175 A
1 A
43073176 TTCTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 16 0.57
11 8 0.29
12 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTAATT
Found at i:43076562 original size:8 final size:8
Alignment explanation
Indices: 43076549--43076574 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
43076539 GCAAAGAAAT
43076549 AATAATAA
1 AATAATAA
43076557 AATAATAA
1 AATAATAA
43076565 AATAATAA
1 AATAATAA
43076573 AA
1 AA
43076575 ATAAAAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:43079903 original size:9 final size:9
Alignment explanation
Indices: 43079889--43079921 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
43079879 GTTAATTGAA
43079889 TCGAGTTAT
1 TCGAGTTAT
43079898 TCGAGTTAT
1 TCGAGTTAT
*
43079907 TCAAGTTAT
1 TCGAGTTAT
43079916 TCGAGT
1 TCGAGT
43079922 CAACTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:43080100 original size:19 final size:19
Alignment explanation
Indices: 43080076--43080124 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
43080066 AAAAAATAAA
43080076 AAAAATCAAATTAATTTTC
1 AAAAATCAAATTAATTTTC
*
43080095 AAAAATTCAAATTAATTTTT
1 AAAAA-TCAAATTAATTTTC
*
43080115 AAAATTCAAA
1 AAAAATCAAA
43080125 ATATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATCAAATTAATTTTC
Found at i:43080126 original size:20 final size:20
Alignment explanation
Indices: 43080083--43080147 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
43080073 AAAAAAAATC
43080083 AAATTAATTTTCAAAAATTC-
1 AAATTAATTTT-AAAAATTCA
*
43080103 AAATTAATTTTTAAAATTCA
1 AAATTAATTTTAAAAATTCA
43080123 AAA-T-ATTTATAAAAATTCTA
1 AAATTAATTT-TAAAAATTC-A
43080143 AAATT
1 AAATT
43080148 TATATTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.10
19 16 0.41
20 18 0.46
21 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTAATTTTAAAAATTCA
Found at i:43080137 original size:19 final size:19
Alignment explanation
Indices: 43080095--43080151 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
43080085 ATTAATTTTC
*
43080095 AAAAATTCAAATTAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
43080114 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
43080133 AAAAATTCTAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
43080151 A
1 A
43080152 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:43084162 original size:4 final size:4
Alignment explanation
Indices: 43084153--43084179 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
43084143 GGCATAAGCA
43084153 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
43084180 AGAGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:43087080 original size:6 final size:6
Alignment explanation
Indices: 43087069--43087132 Score: 128
Period size: 6 Copynumber: 10.7 Consensus size: 6
43087059 ATTTATTTTA
43087069 AATACT AATACT AATACT AATACT AATACT AATACT AATACT AATACT
1 AATACT AATACT AATACT AATACT AATACT AATACT AATACT AATACT
43087117 AATACT AATACT AATA
1 AATACT AATACT AATA
43087133 GTAAATTAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
AATACT
Found at i:43087407 original size:19 final size:19
Alignment explanation
Indices: 43087383--43087436 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
43087373 TAATCAATTT
43087383 AATTTTTTTTAAATTTTAC
1 AATTTTTTTTAAATTTTAC
* ** *
43087402 AGTTTTTAAT-AATTTTAT
1 AATTTTTTTTAAATTTTAC
*
43087420 AATTTTTTTAAAATTTT
1 AATTTTTTTTAAATTTT
43087437 TAAAAAATTA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
AATTTTTTTTAAATTTTAC
Found at i:43088259 original size:19 final size:19
Alignment explanation
Indices: 43088230--43088266 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
43088220 CGATTCAAAG
43088230 AAAATAAATTATTAAAAATT
1 AAAATAAATTA-TAAAAATT
43088250 AAAA-AAATTATAAAAAT
1 AAAATAAATTATAAAAAT
43088267 CGGTTCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 6 0.35
20 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATAAATTATAAAAATT
Found at i:43088953 original size:17 final size:16
Alignment explanation
Indices: 43088928--43088976 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
43088918 TATCATTGAA
*
43088928 TTTTGAAATTTTGAAAT
1 TTTTAAAATTTT-AAAT
**
43088945 TTTTAAAATTATTTTAT
1 TTTTAAAATT-TTAAAT
43088962 TTTTAAAATTTTAAA
1 TTTTAAAATTTTAAA
43088977 GAGTTTTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 3 0.12
17 21 0.81
18 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (16 bp):
TTTTAAAATTTTAAAT
Found at i:43092982 original size:26 final size:26
Alignment explanation
Indices: 43092943--43093128 Score: 318
Period size: 26 Copynumber: 7.2 Consensus size: 26
43092933 TATCCATAAT
*
43092943 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
43092969 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
43092995 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
43093021 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
43093047 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
43093073 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
43093099 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
43093125 TGAT
1 TGAT
43093129 GGGCATTTCA
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 151 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:43093039 original size:78 final size:78
Alignment explanation
Indices: 43092943--43093128 Score: 354
Period size: 78 Copynumber: 2.4 Consensus size: 78
43092933 TATCCATAAT
*
43092943 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTA
1 TGATAATGGATTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTA
43093008 GGTAAATGTTCCA
66 GGTAAATGTTCCA
43093021 TGATAATGGATTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTA
1 TGATAATGGATTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTA
43093086 GGTAAATGTTCCA
66 GGTAAATGTTCCA
*
43093099 TGATAATGGTTTAGGTAAATGTTCCATGAT
1 TGATAATGGATTAGGTAAATGTTCCATGAT
43093129 GGGCATTTCA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 106 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (78 bp):
TGATAATGGATTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTA
GGTAAATGTTCCA
Found at i:43097210 original size:26 final size:26
Alignment explanation
Indices: 43097180--43097230 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43097170 AAAGTTGAAG
* *
43097180 GCCAAAGTAATAAAAATAAA-ATTAGA
1 GCCAAAATAACAAAAA-AAACATTAGA
43097206 GCCAAAATAACAAAAAAAACATTAG
1 GCCAAAATAACAAAAAAAACATTAG
43097231 GGGCTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.63, C:0.12, G:0.10, T:0.16
Consensus pattern (26 bp):
GCCAAAATAACAAAAAAAACATTAGA
Found at i:43101340 original size:41 final size:41
Alignment explanation
Indices: 43101283--43101365 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
43101273 TTTCCCAAAT
43101283 ACCTTACAATACAATCAATTAAACTCTCTAAAGAATGCTTA
1 ACCTTACAATACAATCAATTAAACTCTCTAAAGAATGCTTA
43101324 ACCTTACAATACAATCAATTAAACTCTCTAAAGAATGCTTA
1 ACCTTACAATACAATCAATTAAACTCTCTAAAGAATGCTTA
43101365 A
1 A
43101366 GAAAAGAGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.29
Consensus pattern (41 bp):
ACCTTACAATACAATCAATTAAACTCTCTAAAGAATGCTTA
Found at i:43106679 original size:41 final size:42
Alignment explanation
Indices: 43106563--43106699 Score: 188
Period size: 42 Copynumber: 3.3 Consensus size: 42
43106553 CGAAACTATA
*
43106563 TGTAAGACCATATCTAGGATATGACATCATTATGAGACTTT-G
1 TGTAAGACCATATCTAGGATATGACATCAATATGAGA-TTTCG
* * * *
43106605 TGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTAGGATATGACATCAATATGAGATTTCG
* *
43106647 TGTAAGACCATAT-TTGGATATGACATCAATATGAGACTTCG
1 TGTAAGACCATATCTAGGATATGACATCAATATGAGATTTCG
43106688 TGTAAGACCATA
1 TGTAAGACCATA
43106700 GCTGGGCTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 39 0.46
42 45 0.54
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGACATCAATATGAGATTTCG
Found at i:43126990 original size:28 final size:29
Alignment explanation
Indices: 43126957--43127057 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
43126947 TATAGTAAGT
* * *
43126957 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
43126985 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
43127014 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
43127043 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
43127058 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:43134891 original size:28 final size:29
Alignment explanation
Indices: 43134858--43134958 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
43134848 TATAGTAAGT
* * *
43134858 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
43134886 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
43134915 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
43134944 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
43134959 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:43140497 original size:6 final size:6
Alignment explanation
Indices: 43140488--43140534 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
43140478 AGGTGAAATT
*
43140488 AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AA AATAAA ATTAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
43140535 CATCATCATC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:43149834 original size:29 final size:29
Alignment explanation
Indices: 43149799--43149868 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
43149789 AACTTTGGTA
43149799 TAATGGCATGTATAGGTTAATTTGGCCAT
1 TAATGGCATGTATAGGTTAATTTGGCCAT
*
43149828 TGATGGCATGTATAGGTTAATTTGGCCAT
1 TAATGGCATGTATAGGTTAATTTGGCCAT
43149857 TAATGGCATGTA
1 TAATGGCATGTA
43149869 AATGTTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (29 bp):
TAATGGCATGTATAGGTTAATTTGGCCAT
Found at i:43150441 original size:52 final size:52
Alignment explanation
Indices: 43150385--43150494 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 52
43150375 CTTGGTTGTT
* **
43150385 TGACCCTTATACCTACACATGGCCTATCACACGGGCGTGTAACTTGGCTATG
1 TGACCCCTATACCTACACACAGCCTATCACACGGGCGTGTAACTTGGCTATG
* * *
43150437 TGACCCCTGTACCTACACACAGCCTATCACACGGGCGTGTGACTTGGCTGTG
1 TGACCCCTATACCTACACACAGCCTATCACACGGGCGTGTAACTTGGCTATG
43150489 TGACCC
1 TGACCC
43150495 AAGTCAGAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.25
Consensus pattern (52 bp):
TGACCCCTATACCTACACACAGCCTATCACACGGGCGTGTAACTTGGCTATG
Found at i:43160233 original size:30 final size:30
Alignment explanation
Indices: 43160197--43160253 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43160187 ATGGCCATGA
**
43160197 CACACGGGTGTGTGG-TCTACCCGTGTGTCG
1 CACACGGGCATGTGGATC-ACCCGTGTGTCG
43160227 CACACGGGCATGTGGATCACCCGTGTG
1 CACACGGGCATGTGGATCACCCGTGTG
43160254 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.23
Consensus pattern (30 bp):
CACACGGGCATGTGGATCACCCGTGTGTCG
Found at i:43165378 original size:15 final size:15
Alignment explanation
Indices: 43165335--43165379 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
43165325 GGTATTGTAA
**
43165335 CTTGGATTTCTGAAT
1 CTTGGATTTCTTTAT
43165350 CTTGAGAGTTTCTTTAT
1 CTTG-GA-TTTCTTTAT
43165367 CTTGGATTTCTTT
1 CTTGGATTTCTTT
43165380 GTCTCGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 11 0.42
16 4 0.15
17 11 0.42
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.53
Consensus pattern (15 bp):
CTTGGATTTCTTTAT
Found at i:43167844 original size:40 final size:40
Alignment explanation
Indices: 43167760--43167984 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
43167750 TCGAATGATG
* * * * *
43167760 TCCGGGCTAAGTCCCGAAGG-GTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43167800 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43167840 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43167879 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43167919 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43167960 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43167985 AACAAGTAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43176126 original size:40 final size:40
Alignment explanation
Indices: 43176071--43176198 Score: 204
Period size: 40 Copynumber: 3.2 Consensus size: 40
43176061 CTAATTCCGG
* *
43176071 GGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAA
1 GGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAA
43176111 GGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAA
1 GGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAA
* *
43176151 GGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 GGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAA
43176191 GGCATTTG
1 GGCATTTG
43176199 AACAAGTAGC
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
40 81 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
GGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAA
Found at i:43176216 original size:80 final size:79
Alignment explanation
Indices: 43176071--43176221 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 79
43176061 CTAATTCCGG
* * ** *
43176071 GGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACTAAATCC
43176136 GGGTTAAGTCCCGAA
66 -GGTTAAGTCCCGAA
* * *
43176151 GGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACAAG-TAGCTATAT
1 GGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTA-CTAAAT
43176214 CCGGTTAA
64 CCGGTTAA
43176222 ATTTCGAAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 8 0.13
80 51 0.84
81 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (79 bp):
GGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACTAAATCC
GGTTAAGTCCCGAA
Found at i:43185306 original size:79 final size:82
Alignment explanation
Indices: 43185165--43185352 Score: 235
Period size: 79 Copynumber: 2.4 Consensus size: 82
43185155 GTTATTCGAA
* * *
43185165 TAATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
43185229 GCATTTGTGCGAGTTAC
66 GCATTTGTGCGAGTTAC
* * * **
43185246 TAAT-TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAA
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAA
43185307 GGCATTTGTGCGAGTTAC
65 GGCATTTGTGCGAGTTAC
* *
43185325 T-ATAACCGGGCTATGTCCCGAAGGCATT
1 TAATATCCGGGCTAAGTCCCGAAGGCATT
43185353 TGAACGAGTA
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.62
80 29 0.31
81 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
GCATTTGTGCGAGTTAC
Found at i:43185368 original size:40 final size:40
Alignment explanation
Indices: 43185171--43185354 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
43185161 CGAATAATGT
* * * *
43185171 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
43185211 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
43185251 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43185289 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43185330 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43185355 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43185376 original size:79 final size:79
Alignment explanation
Indices: 43185223--43185387 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
43185213 GGACTAAGAT
* **
43185223 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
43185288 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43185302 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
43185365 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43185381 CCGAAGG
1 CCGAAGG
43185388 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43191944 original size:25 final size:24
Alignment explanation
Indices: 43191910--43191956 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
43191900 TAAAGAAATG
*
43191910 GAAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAAGA-AAAAAAAATGAT
*
43191935 GAAAACAAAAGAAAAAAAAATG
1 GAAAAAAAAAGAAAAAAAAATG
43191957 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAAAAAGAAAAAAAAATGAT
Found at i:43193286 original size:40 final size:39
Alignment explanation
Indices: 43193196--43193380 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 39
43193186 TCGAATGATG
* * * *
43193196 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAA
* *
43193236 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
43193276 TTCGGGCTAAGCCCAAAGGCA-TTGATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTG-TGCGAGTTACTAAA
*
43193315 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
43193356 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
43193381 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 3 0.02
39 30 0.25
40 74 0.61
41 15 0.12
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43193361 original size:79 final size:79
Alignment explanation
Indices: 43193249--43193413 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
43193239 GGACTAAGAT
** *
43193249 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAG-CCCAAAGGCA-TTGATGCGAGTTA-C
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCCAAAGGCATTTGA-ACGAG-TAGC
43193311 TAAATCCGGGTTAAGTC
64 TAAATCC-GGTTAAGTC
* *
43193328 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGTCCCAAAGGCATTTGAACGAGTAGCT
* *
43193392 ATATCCGGTTAAGTT
65 AAATCCGGTTAAGTC
43193407 CCGAAGG
1 CCGAAGG
43193414 TACGTGATTC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 20 0.27
81 4 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCCAAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:43193394 original size:40 final size:40
Alignment explanation
Indices: 43193197--43193413 Score: 135
Period size: 40 Copynumber: 5.5 Consensus size: 40
43193187 CGAATGATGT
* ** * * * *
43193197 CCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTTACTATAA
* ** *
43193237 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGTTACTATA-A
* * *
43193277 TCGGGCTAAG-CCCAAAGGCA-TTGATGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGA-ACGAGTTACTATAA
* **
43193315 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTATAA
* *
43193356 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-CTATAA
* *
43193396 CC-GGTTAAGTTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43193414 TACGTGATTC
Statistics
Matches: 145, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.30
40 85 0.59
41 13 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTATAA
Found at i:43201389 original size:46 final size:45
Alignment explanation
Indices: 43201330--43201494 Score: 172
Period size: 46 Copynumber: 3.6 Consensus size: 45
43201320 TGATACGAGT
43201330 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATGTAA
* *
43201376 GCTAGTGTAAGACATGTCTGGGATATGCGTCGGCTACGAGATG-ATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGTA-A
* * * * *
43201422 G-TCAGTGTAAGACCATGTCTGGGACATGACTTCGACTTGAGATATGA
1 GCT-AGTGTAAGA-CATGTCTGGGACATG-CATCGGCTCGAGATGTAA
* *
43201469 GCCAGTGTAAGACTGTGTCTGGGACA
1 GCTAGTGTAAGAC-ATGTCTGGGACA
43201495 GGGCATTGGC
Statistics
Matches: 101, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
45 4 0.04
46 50 0.50
47 41 0.41
48 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGTAA
Found at i:43201464 original size:47 final size:47
Alignment explanation
Indices: 43201283--43201494 Score: 154
Period size: 47 Copynumber: 4.5 Consensus size: 47
43201273 TTTGTGTGAG
* * * *
43201283 CTAGTGTAAGACCATGTATGGGACATGGCATT-GACATTGATACG--AGT
1 CTAGTGTAAGACCATGTCTGGGACAT-GC-TTCGAC-TCGAGATGTAAGT
* *
43201330 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTAAG-
1 -CTAGTGTAAGACCATGTCTGGGACATGCTTC-GACTCGAGATGTAAGT
* * *
43201377 CTAGTGTAAGA-CATGTCTGGGATATGCGTCGGCTACGAGATG-ATAGT
1 CTAGTGTAAGACCATGTCTGGGACATGCTTCGACT-CGAGATGTA-AGT
* * *
43201424 C-AGTGTAAGACCATGTCTGGGACATGACTTCGACTTGAGATATGAG-
1 CTAGTGTAAGACCATGTCTGGGACATG-CTTCGACTCGAGATGTAAGT
* **
43201470 CCAGTGTAAGACTGTGTCTGGGACA
1 CTAGTGTAAGACCATGTCTGGGACA
43201495 GGGCATTGGC
Statistics
Matches: 136, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
45 5 0.04
46 54 0.40
47 58 0.43
48 19 0.14
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
CTAGTGTAAGACCATGTCTGGGACATGCTTCGACTCGAGATGTAAGT
Found at i:43205543 original size:49 final size:49
Alignment explanation
Indices: 43205487--43205678 Score: 224
Period size: 49 Copynumber: 3.9 Consensus size: 49
43205477 TAGCCAAAGC
*
43205487 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAG
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAG
* ** *
43205536 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACAAATGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AAG
* * * * * *
43205586 CATCTGATACACGTAGTAGCATGCACTTAGTACTACACACGTG-ATCGAAG
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAAG
* *
43205636 TTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGC
43205679 GACCTCACAA
Statistics
Matches: 118, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 44 0.37
50 38 0.32
51 34 0.29
52 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAG
Found at i:43205672 original size:101 final size:99
Alignment explanation
Indices: 43205500--43205683 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 99
43205490 CTGGTACGCA
* *
43205500 TAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCTGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCATGCACTTAGTACTACACATGCAACCAAGTATCAGGTACACATAGTAGCCTGCACTTA
*
43205565 GTACTACAAATGTGACCTAACCATCTGATACACG
66 GTACTACAAATGCGACCTAACCATCTGATACACG
* * *
43205599 TAGTAGCATGCACTTAGTACTACACACGTG-ATCGAAGTTATCAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCATGCACTTAGTACTACACA--TGCAACCAAG-TATCAGGTACACATAGTAGCCTGCAC
*
43205663 TTAGTACTACACATGCGACCT
63 TTAGTACTACAAATGCGACCT
43205684 CACAATAGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 25 0.33
100 5 0.07
101 45 0.60
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCATGCACTTAGTACTACACATGCAACCAAGTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACAAATGCGACCTAACCATCTGATACACG
Done.