Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 135 of 316
Found at i:43203537 original size:19 final size:20
Alignment explanation
Indices: 43203491--43203538 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
43203481 TATGGACTGA
43203491 AATTAAAAATAAAATAAAAT
1 AATTAAAAATAAAATAAAAT
*
43203511 AATAAAAAATAAAA-AAAAT
1 AATTAAAAATAAAATAAAAT
*
43203530 TATTAAAAA
1 AATTAAAAA
43203539 ATGTGATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AATTAAAAATAAAATAAAAT
Found at i:43204227 original size:22 final size:23
Alignment explanation
Indices: 43204202--43204251 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
43204192 ACTTACATTT
*
43204202 TAAAATCTA-AAAAATAAATAA-A
1 TAAAATCTATAAAAA-AAAGAATA
*
43204224 TAAAATTTATAAAAAAAAGAATA
1 TAAAATCTATAAAAAAAAGAATA
43204247 TAAAA
1 TAAAA
43204252 ATTTGGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAAATCTATAAAAAAAAGAATA
Found at i:43210286 original size:43 final size:43
Alignment explanation
Indices: 43210225--43210311 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
43210215 ATAATGTCAT
43210225 TAGTTAGTCTAAATATTTAATATTATTAACTATTTCAATAAAA
1 TAGTTAGTCTAAATATTTAATATTATTAACTATTTCAATAAAA
* *
43210268 TAGTTAGTCTAAATATTTAATATTATTAATTGTTTCAATAAAA
1 TAGTTAGTCTAAATATTTAATATTATTAACTATTTCAATAAAA
43210311 T
1 T
43210312 TATCAATGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (43 bp):
TAGTTAGTCTAAATATTTAATATTATTAACTATTTCAATAAAA
Found at i:43211209 original size:44 final size:44
Alignment explanation
Indices: 43211148--43211341 Score: 198
Period size: 44 Copynumber: 4.4 Consensus size: 44
43211138 GGGTCCCTAA
* *
43211148 TCCC-ATCTTATGTGTATGCAATGTGTGAATTTTATCCCGTTCT
1 TCCCTATCTTGTGTGTATGCAATGTGTGAATTTTATCCAGTTCT
** * *
43211191 TCCAC-ATCTTGTACGTATG-ATATGTGTGAGTTTTATCGAGTTCT
1 TCC-CTATCTTGTGTGTATGCA-ATGTGTGAATTTTATCCAGTTCT
* * *
43211235 TCCCTATCTTGTGTGTATGTC-ATGTATGGATTTTATCCAATTCT
1 TCCCTATCTTGTGTGTATG-CAATGTGTGAATTTTATCCAGTTCT
* * * ** *
43211279 TTCCTATCTTGTGTATATGCTATGTGTGGGTTTTATCCCGTTCT
1 TCCCTATCTTGTGTGTATGCAATGTGTGAATTTTATCCAGTTCT
43211323 TCCCTATCTTGTGTGTATG
1 TCCCTATCTTGTGTGTATG
43211342 TCATGTATGG
Statistics
Matches: 124, Mismatches: 21, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
43 6 0.05
44 118 0.95
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (44 bp):
TCCCTATCTTGTGTGTATGCAATGTGTGAATTTTATCCAGTTCT
Found at i:43211279 original size:88 final size:87
Alignment explanation
Indices: 43211148--43211385 Score: 266
Period size: 88 Copynumber: 2.7 Consensus size: 87
43211138 GGGTCCCTAA
* * * ** *
43211148 TCCC-ATCTTATGTGTATG-CAATGTGTGAATTTTATCCCGTTCTTCCACATCTTGTACGTATGA
1 TCCCTATCTTGTGTGTATGTC-ATGTATGGATTTTATCCAATTCTTCC-CATCTTGTACATATGA
*
43211211 TATGTGTGAGTTTTATCGAGTTCT
64 TATGTGTGAGTTTTATCCAGTTCT
* ** *
43211235 TCCCTATCTTGTGTGTATGTCATGTATGGATTTTATCCAATTCTTTCCTATCTTGTGTATATGCT
1 TCCCTATCTTGTGTGTATGTCATGTATGGATTTTATCCAATTC-TTCCCATCTTGTACATATGAT
* *
43211300 ATGTGTGGGTTTTATCCCGTTCT
65 ATGTGTGAGTTTTATCCAGTTCT
* * *
43211323 TCCCTATCTTGTGTGTATGTCATGTATGGGTTTTATTCAATTCTTCTCTC-TCTTGTATATATG
1 TCCCTATCTTGTGTGTATGTCATGTATGGATTTTATCCAATTCTTC-C-CATCTTGTACATATG
43211386 TCCGTTGTGC
Statistics
Matches: 129, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
87 7 0.05
88 117 0.91
89 5 0.04
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.47
Consensus pattern (87 bp):
TCCCTATCTTGTGTGTATGTCATGTATGGATTTTATCCAATTCTTCCCATCTTGTACATATGATA
TGTGTGAGTTTTATCCAGTTCT
Found at i:43211353 original size:44 final size:44
Alignment explanation
Indices: 43211177--43211387 Score: 212
Period size: 44 Copynumber: 4.8 Consensus size: 44
43211167 AATGTGTGAA
* ** * *
43211177 TTTTATCCCGTTCTTCCAC-ATCTTGTACGTATGAT-ATGTGTGAG
1 TTTTATCCAGTTCTTCC-CTATCTTGTGTGTATG-TCATGTATGGG
* *
43211221 TTTTATCGAGTTCTTCCCTATCTTGTGTGTATGTCATGTATGGA
1 TTTTATCCAGTTCTTCCCTATCTTGTGTGTATGTCATGTATGGG
* * * *
43211265 TTTTATCCAATTCTTTCCTATCTTGTGTATATG-CTATGTGTGGG
1 TTTTATCCAGTTCTTCCCTATCTTGTGTGTATGTC-ATGTATGGG
*
43211309 TTTTATCCCGTTCTTCCCTATCTTGTGTGTATGTCATGTATGGG
1 TTTTATCCAGTTCTTCCCTATCTTGTGTGTATGTCATGTATGGG
* * * * * *
43211353 TTTTATTCAATTCTTCTCTCTCTTGTATATATGTC
1 TTTTATCCAGTTCTTCCCTATCTTGTGTGTATGTC
43211388 CGTTGTGCTT
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
43 3 0.02
44 134 0.97
45 1 0.01
ACGTcount: A:0.16, C:0.18, G:0.17, T:0.49
Consensus pattern (44 bp):
TTTTATCCAGTTCTTCCCTATCTTGTGTGTATGTCATGTATGGG
Found at i:43211463 original size:28 final size:28
Alignment explanation
Indices: 43211405--43211463 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
43211395 CTTTATATTG
* **
43211405 ATTTGATTCTATGCCATGTGTGGATTTT
1 ATTTGATTCTATGCAATGTAAGGATTTT
*
43211433 ATTTGATTCTATG-AATGTAAGTATTTAT
1 ATTTGATTCTATGCAATGTAAGGATTT-T
43211461 ATT
1 ATT
43211464 AATGCTCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (28 bp):
ATTTGATTCTATGCAATGTAAGGATTTT
Found at i:43213494 original size:7 final size:7
Alignment explanation
Indices: 43213468--43213523 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
43213458 ACTTCTCTAA
43213468 AAAATATT
1 AAAAT-TT
*
43213476 ATAATTT
1 AAAATTT
43213483 AAAATTT
1 AAAATTT
*
43213490 TAAATTT
1 AAAATTT
*
43213497 TAAATTT
1 AAAATTT
43213504 AAAA-TT
1 AAAATTT
*
43213510 AAGAATTA
1 AA-AATTT
43213518 AAAATT
1 AAAATT
43213524 AAATTCGGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
6 4 0.10
7 30 0.73
8 7 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:43218340 original size:35 final size:35
Alignment explanation
Indices: 43218287--43218361 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
43218277 TTTTTATAAT
43218287 AAAG-TAAATTTTTTTTTGAAATATGGTGATTAAG
1 AAAGATAAATTTTTTTTTGAAATATGGTGATTAAG
*
43218321 AAAGATAATTTTTTTTTTGAAATATGGTGATTAAG
1 AAAGATAAATTTTTTTTTGAAATATGGTGATTAAG
43218356 AAAGAT
1 AAAGAT
43218362 GATATCAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 4 0.10
35 35 0.90
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (35 bp):
AAAGATAAATTTTTTTTTGAAATATGGTGATTAAG
Found at i:43221391 original size:38 final size:38
Alignment explanation
Indices: 43221270--43221425 Score: 186
Period size: 41 Copynumber: 3.9 Consensus size: 38
43221260 AAACGCCTTT
* *
43221270 AAAAACTGAGCAATAGTGGCGTTTTTATCCAAAACGCCGC
1 AAAAACTGAGAAATAGTGGCGTTTTT-T-CAAAACGCTGC
* *
43221310 TAAAAACTGAGTAATAGTGGCGTTTTCATCCAAAACGCTGC
1 -AAAAACTGAGAAATAGTGGCGTTTT--TTCAAAACGCTGC
*
43221351 AAAAACTGAGAAATAGTGGCGTTTTTTCAAAACACTGC
1 AAAAACTGAGAAATAGTGGCGTTTTTTCAAAACGCTGC
* *
43221389 AAAAACTGAGATATAGTGGCGCTTTATTTCCAAACGC
1 AAAAACTGAGAAATAGTGGCG-TTT-TTTCAAAACGC
43221426 CACAAAAGGT
Statistics
Matches: 102, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
38 31 0.30
39 3 0.03
40 33 0.32
41 34 0.33
43 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (38 bp):
AAAAACTGAGAAATAGTGGCGTTTTTTCAAAACGCTGC
Found at i:43222009 original size:14 final size:14
Alignment explanation
Indices: 43221992--43222042 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
43221982 ATATGAAGCC
43221992 TAACCCATAAATCA
1 TAACCCATAAATCA
*
43222006 TAACCCAT-GATCGCA
1 TAACCCATAAAT--CA
*
43222021 TAACCCCTAAATCA
1 TAACCCATAAATCA
43222035 TAACCCAT
1 TAACCCAT
43222043 GATCTAAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 17 0.57
15 9 0.30
16 2 0.07
ACGTcount: A:0.41, C:0.33, G:0.04, T:0.22
Consensus pattern (14 bp):
TAACCCATAAATCA
Found at i:43223307 original size:20 final size:20
Alignment explanation
Indices: 43223262--43223313 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
43223252 CCCCACCCAA
*
43223262 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
43223282 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
*
43223301 ATTTCCCCGAATC
1 ATTTCCCCAAATC
43223314 AAAATCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:43226040 original size:64 final size:64
Alignment explanation
Indices: 43225972--43226105 Score: 250
Period size: 64 Copynumber: 2.1 Consensus size: 64
43225962 TAATATTTCT
* *
43225972 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATGTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
43226036 ATATTTCTATCACGATGTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATGTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
43226100 ATATTT
1 ATATTT
43226106 AATAAAATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (64 bp):
ATATTTCTATCACGATGTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
Found at i:43226180 original size:24 final size:24
Alignment explanation
Indices: 43226153--43226223 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
43226143 ATTATTATTG
*
43226153 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
* *
43226177 AAATATTATTGTTCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
43226201 AAATATTATCGCCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
43226224 TTTAAGTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:43226430 original size:29 final size:29
Alignment explanation
Indices: 43226397--43226470 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
43226387 ACCGACATGT
* * *
43226397 ATATTATTGAATTAAAATAATTTTTTTCA
1 ATATTATTTAATTAAAATAATTTTTATAA
*
43226426 GTATTATTTAATTAAAATAATTTTTATAA
1 ATATTATTTAATTAAAATAATTTTTATAA
43226455 ATATTATTTAATTAAA
1 ATATTATTTAATTAAA
43226471 TATTATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
ATATTATTTAATTAAAATAATTTTTATAA
Found at i:43226470 original size:15 final size:15
Alignment explanation
Indices: 43226427--43226481 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
43226417 TTTTTTTCAG
43226427 TATTATTTAATTAAAA
1 TATTATTTAATT-AAA
43226443 TAATT-TTT-A-TAAA
1 T-ATTATTTAATTAAA
43226456 TATTATTTAATTAAA
1 TATTATTTAATTAAA
43226471 TATTATTTAAT
1 TATTATTTAAT
43226482 CCGCAGCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATTTAATTAAA
Found at i:43226610 original size:9 final size:9
Alignment explanation
Indices: 43226592--43226881 Score: 302
Period size: 9 Copynumber: 32.7 Consensus size: 9
43226582 TAAATATTTA
43226592 ACATAACTT
1 ACATAACTT
*
43226601 ACAAAACTT
1 ACATAACTT
43226610 ACATAACTT
1 ACATAACTT
*
43226619 ATATAACTT
1 ACATAACTT
43226628 ACATAACTT
1 ACATAACTT
*
43226637 ATATAACTT
1 ACATAACTT
*
43226646 ATATAACTT
1 ACATAACTT
* *
43226655 AGATAA-AT
1 ACATAACTT
*
43226663 ATATAACTT
1 ACATAACTT
43226672 ACATAACTT
1 ACATAACTT
43226681 ACATAACTT
1 ACATAACTT
*
43226690 ATATAACTT
1 ACATAACTT
* *
43226699 AGATAA-AT
1 ACATAACTT
*
43226707 ATATAACTT
1 ACATAACTT
43226716 ACATAACTT
1 ACATAACTT
43226725 ACATAACTT
1 ACATAACTT
43226734 ACATAACTT
1 ACATAACTT
*
43226743 ATATAACTT
1 ACATAACTT
43226752 ACATAACTT
1 ACATAACTT
*
43226761 AGATAACTT
1 ACATAACTT
*
43226770 ATATAACTT
1 ACATAACTT
* *
43226779 AGATAA-AT
1 ACATAACTT
*
43226787 ATATAACTT
1 ACATAACTT
43226796 ACATAACTT
1 ACATAACTT
43226805 ACATAACTT
1 ACATAACTT
**
43226814 ATGTAACTT
1 ACATAACTT
* *
43226823 AGATAA-AT
1 ACATAACTT
*
43226831 ATATAACTT
1 ACATAACTT
*
43226840 ACATAA-AT
1 ACATAACTT
* * *
43226848 ATATATCAT
1 ACATAACTT
43226857 ATCATAACTT
1 A-CATAACTT
43226867 ACATAACTT
1 ACATAACTT
43226876 ACATAA
1 ACATAA
43226882 TACTTAAATA
Statistics
Matches: 236, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
8 29 0.12
9 201 0.85
10 6 0.03
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (9 bp):
ACATAACTT
Found at i:43226675 original size:44 final size:44
Alignment explanation
Indices: 43226593--43226881 Score: 181
Period size: 44 Copynumber: 6.5 Consensus size: 44
43226583 AAATATTTAA
* * * * *
43226593 CATAACTTACAAAACTTACATAACTTATATAACTTACATAACTTA
1 CATAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTA
* * * * * * *
43226638 TATAACTTATATAACTTAGATAA-ATATATAACTTACATAACTTA
1 CATAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTA
* * * * * *
43226682 CATAACTTATATAACTTAGATAA-ATATATAACTTACATAACTTA
1 CATAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTA
* * *
43226726 CATAACTTACATAACTTATATAACTTACATAACTTAGATAACTTA
1 CATAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTA
* * * * * *
43226771 TATAACTTAGATAA-ATATATAACTTACATAACTTACATAACTTA
1 CATAACTTACATAACTTATATAACTTAGATAA-ATATATAACTTA
** * * * * *
43226815 TGTAACTTAGATAA-ATATATAACTTACATAAATATATATCATA
1 CATAACTTACATAACTTATATAACTTAGATAAATATATAACTTA
*
43226858 TCATAACTTACATAACTTACATAA
1 -CATAACTTACATAACTTATATAA
43226882 TACTTAAATA
Statistics
Matches: 216, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
43 8 0.04
44 153 0.71
45 55 0.25
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (44 bp):
CATAACTTACATAACTTATATAACTTAGATAAATATATAACTTA
Found at i:43226812 original size:124 final size:124
Alignment explanation
Indices: 43226592--43226881 Score: 492
Period size: 124 Copynumber: 2.3 Consensus size: 124
43226582 TAAATATTTA
* *
43226592 ACATAACTTACAAAACTTACATAACTTATATAACTTACATAACTTATATAACTTATATAACTTAG
1 ACATAACTTACATAACTTACATAACTTATATAACTTACATAACTTAGATAACTTATATAACTTAG
43226657 ATAAATATATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTT
66 ATAAATATATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTT
43226716 ACATAACTTACATAACTTACATAACTTATATAACTTACATAACTTAGATAACTTATATAACTTAG
1 ACATAACTTACATAACTTACATAACTTATATAACTTACATAACTTAGATAACTTATATAACTTAG
*
43226781 ATAAATATATAACTTACATAACTTACATAACTTATGTAACTTAGATAAATATATAACTT
66 ATAAATATATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTT
* * * * *
43226840 ACATAA-ATATATATCATATCATAACTTACATAACTTACATAA
1 ACATAACTTACATAACTTA-CATAACTTATATAACTTACATAA
43226882 TACTTAAATA
Statistics
Matches: 157, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
123 8 0.05
124 149 0.95
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (124 bp):
ACATAACTTACATAACTTACATAACTTATATAACTTACATAACTTAGATAACTTATATAACTTAG
ATAAATATATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTT
Found at i:43228767 original size:12 final size:12
Alignment explanation
Indices: 43228750--43228774 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43228740 AAGATCGAGG
43228750 GATGAATCTGAT
1 GATGAATCTGAT
43228762 GATGAATCTGAT
1 GATGAATCTGAT
43228774 G
1 G
43228775 GAGAAGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:43232034 original size:40 final size:40
Alignment explanation
Indices: 43231990--43232141 Score: 286
Period size: 40 Copynumber: 3.8 Consensus size: 40
43231980 ATAACCACAA
*
43231990 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
43232030 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
43232070 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
43232110 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
43232142 CATTCAAATG
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:43235832 original size:13 final size:14
Alignment explanation
Indices: 43235816--43235844 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43235806 TTCTAAATAT
43235816 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
43235829 TTATAATTGTTTAA
1 TTATAATTGTTTAA
43235843 TT
1 TT
43235845 CAATTCCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:43236344 original size:21 final size:21
Alignment explanation
Indices: 43236271--43236355 Score: 111
Period size: 21 Copynumber: 4.0 Consensus size: 21
43236261 GGCAACAGAA
* *
43236271 AGGGAGGCAGCGACAGCAGCG
1 AGGGAGGCAGAGGCAGCAGCG
43236292 AGGGAGGCAGCA-GCAGCAGCG
1 AGGGAGGCAG-AGGCAGCAGCG
43236313 AGGGAGGCAGAGGCA-CGAGCG
1 AGGGAGGCAGAGGCAGC-AGCG
*
43236334 AGGGAGGCAGAGGTAGCAGCG
1 AGGGAGGCAGAGGCAGCAGCG
43236355 A
1 A
43236356 TGGCAGAAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.04
21 54 0.95
22 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.01
Consensus pattern (21 bp):
AGGGAGGCAGAGGCAGCAGCG
Found at i:43238674 original size:16 final size:15
Alignment explanation
Indices: 43238646--43238698 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
43238636 AAGTAATTAA
43238646 AAATAGTACTATATAT
1 AAATA-TACTATATAT
43238662 AAATATACATATATAT
1 AAATATAC-TATATAT
* *
43238678 ACATATA-TA-ATAA
1 AAATATACTATATAT
43238691 AAATATAC
1 AAATATAC
43238699 ACTAGTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 9 0.28
14 2 0.06
15 3 0.09
16 18 0.56
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (15 bp):
AAATATACTATATAT
Found at i:43238696 original size:29 final size:28
Alignment explanation
Indices: 43238662--43238723 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
43238652 TACTATATAT
43238662 AAATATACA-TA-TATATACATATATAATAA
1 AAATATACACTAGTAT-TA-ATA-ATAATAA
43238691 AAATATACACTAGTATTAATAATAATAA
1 AAATATACACTAGTATTAATAATAATAA
*
43238719 TAATA
1 AAATA
43238724 ATAATAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 11 0.37
29 12 0.40
30 4 0.13
31 3 0.10
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (28 bp):
AAATATACACTAGTATTAATAATAATAA
Found at i:43238715 original size:3 final size:3
Alignment explanation
Indices: 43238707--43238909 Score: 91
Period size: 3 Copynumber: 66.7 Consensus size: 3
43238697 ACACTAGTAT
* * *
43238707 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAT TGA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * *
43238754 TACA -AA AAA GCA -AA T-A TAA T-A TAA TAA AAA TAT TAA -AA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
43238795 -AG TAA TTAA AAA AAA TAA TAC T-A TGTA TAAA TATA TATA TGTA TACA
1 TAA TAA -TAA TAA TAA TAA TAA TAA T-AA T-AA TA-A TA-A T-AA TA-A
*
43238842 TACA TATA TAA TAA AAA T-A TACA CTAA TAA TAA TAA TAA TAA TAA TAA
1 TA-A TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA
*
43238890 TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
43238910 TTGAAATACA
Statistics
Matches: 155, Mismatches: 28, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
2 13 0.08
3 112 0.72
4 28 0.18
5 2 0.01
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:43238826 original size:16 final size:16
Alignment explanation
Indices: 43238807--43238850 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
43238797 TAATTAAAAA
43238807 AAATA-ATACTATGTAT
1 AAATATATA-TATGTAT
43238823 AAATATATATATGTAT
1 AAATATATATATGTAT
* *
43238839 ACATACATATAT
1 AAATATATATAT
43238851 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (16 bp):
AAATATATATATGTAT
Found at i:43239026 original size:3 final size:3
Alignment explanation
Indices: 43239012--43239050 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
43239002 AAGTATACAC
*
43239012 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
43239051 TTGAAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:43239054 original size:141 final size:141
Alignment explanation
Indices: 43238841--43239359 Score: 623
Period size: 141 Copynumber: 3.5 Consensus size: 141
43238831 ATATGTATAC
*
43238841 ATACATATATAATA-AAAATATACACTAATAATAATAATAATAATAATAATAATAATAATAGTAA
1 ATACGTATATAATATAAAATATACAC---TAAT-AT-ATAATAATAATAATAATAATAATAGTAA
* *
43238905 TAATATTGAAATACAAAAAGCAAATATAATAAAAATATTAAAATAGACTAATAAAAAATAATACT
61 TAATATTGAAATACAAAAAGCAAATATAATAAAAATATTAAAATAAAGTAATAAAAAATAATACT
43238970 ATATATAAATATACAT
126 ATATATAAATATACAT
* *
43238986 ATACGTATATAATATCAAGTATACACTAATATATAATAATAATAATAATAATAATAGTAATAATA
1 ATACGTATATAATATAAAATATACACTAATATATAATAATAATAATAATAATAATAGTAATAATA
* *
43239051 TTGAAATACAAAAAGCCAATATAATAAAAATATTAAAACAAAGTAATAAAAAATAATACTATATA
66 TTGAAATACAAAAAGCAAATATAATAAAAATATTAAAATAAAGTAATAAAAAATAATACTATATA
*
43239116 TAAATATATATATAT
131 T--A-A-ATATACAT
* *
43239131 ATACGTATACATATATAATAAAAAAATACACTAATATATAATAAAAAT-ATAATAATAATAGTAA
1 ATACGTAT--ATA-AT-AT-AAAATATACACTAATATATAATAATAATAATAATAATAATAGTAA
43239195 TAATATTGAAATACAAAAAGCCAATACAATATAATAAAAATATTAAAATAAAGTAATTAAAAAAT
61 TAATATTGAAATACAAAAAG-C---A-AATATAATAAAAATATTAAAATAAAGTAA-TAAAAAAT
*
43239260 AATACTATGTATAAATATATATACAT
120 AATACTA--TAT--ATAAATATACAT
* * * *
43239286 ATACATACATATAATA-AAAATATACACTAATAT-TAATAATGATAATAATGATAATATTAATAA
1 ATACGT--ATATAATATAAAATATACACTAATATATAATAATAATAATAATAATAATAGTAATAA
*
43239349 TAATAGAAATA
64 T-ATTGAAATA
43239360 ATAATAATAT
Statistics
Matches: 327, Mismatches: 23, Indels: 41
0.84 0.06 0.10
Matches are distributed among these distances:
141 95 0.29
142 2 0.01
143 5 0.02
144 1 0.00
145 28 0.09
146 9 0.03
147 3 0.01
148 2 0.01
149 38 0.12
150 33 0.10
151 34 0.10
152 8 0.02
153 1 0.00
154 30 0.09
155 30 0.09
157 6 0.02
159 2 0.01
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (141 bp):
ATACGTATATAATATAAAATATACACTAATATATAATAATAATAATAATAATAATAGTAATAATA
TTGAAATACAAAAAGCAAATATAATAAAAATATTAAAATAAAGTAATAAAAAATAATACTATATA
TAAATATACAT
Found at i:43239129 original size:16 final size:16
Alignment explanation
Indices: 43239101--43239152 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
43239091 AAGTAATAAA
43239101 AAATA-ATACTATATAT
1 AAATATATA-TATATAT
43239117 AAATATATATATATAT
1 AAATATATATATATAT
** *
43239133 ACGTATACATATATAAT
1 AAATATATATATAT-AT
43239150 AAA
1 AAA
43239153 AAAATACACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 23 0.79
17 6 0.21
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (16 bp):
AAATATATATATATAT
Found at i:43239176 original size:21 final size:21
Alignment explanation
Indices: 43239141--43239197 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
43239131 ATACGTATAC
*
43239141 ATATATAATAAAAAAATACACTA
1 ATATATAAT--AAAAATACAATA
*
43239164 ATATATAATAAAAATATAATA
1 ATATATAATAAAAATACAATA
43239185 ATAATAGTAATAA
1 AT-ATA-TAATAA
43239198 TATTGAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.40
22 3 0.10
23 15 0.50
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
ATATATAATAAAAATACAATA
Found at i:43239309 original size:21 final size:22
Alignment explanation
Indices: 43239284--43239324 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
43239274 ATATATATAC
43239284 ATATACA-TACATA-TAATAAAA
1 ATATACACTA-ATATTAATAAAA
43239305 ATATACACTAATATTAATAA
1 ATATACACTAATATTAATAA
43239325 TGATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATACACTAATATTAATAAAA
Found at i:43239333 original size:3 final size:3
Alignment explanation
Indices: 43239313--43239368 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
43239303 AAATATACAC
* * * *
43239313 TAA TAT TAA TAA TGA TAA TAA TGA TAA TAT TAA TAA TAA TAGA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
43239358 TAA TAA TAA TA
1 TAA TAA TAA TA
43239369 TTTAATAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:43239380 original size:24 final size:24
Alignment explanation
Indices: 43239313--43239390 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 24
43239303 AAATATACAC
* *
43239313 TAATA-TTAATAATGATAATAATGA
1 TAATATTTAATAAAGA-AATAATAA
43239337 TAATATTAATAATAATAGAAATAATAA
1 TAATATT--TAATAA-AGAAATAATAA
43239364 TAATATTTAATAAAGAAATGAA-AA
1 TAATATTTAATAAAGAAAT-AATAA
43239388 TAA
1 TAA
43239391 ACAAGAAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 16 0.34
25 9 0.19
27 20 0.43
28 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (24 bp):
TAATATTTAATAAAGAAATAATAA
Found at i:43241097 original size:133 final size:134
Alignment explanation
Indices: 43240833--43241097 Score: 349
Period size: 133 Copynumber: 2.0 Consensus size: 134
43240823 AAACTGACGT
* * * * * *
43240833 TCAACTCATCTCTCGGATTATGAGTTAATTTTTGAAAAAAGTAAAAAAATTGAAAATACCTTAGT
1 TCAACTCACCTCTCGCAATATGAGTCAATTTTTGAAAAAAGTAAAAAAATTGAAAATA-CTCAGC
* * *
43240898 GTGTGACCTGAGGCTCAACTCACATCTCTCAATATGAGTTGAATTTTTTGAAAAATAGAGATTAA
65 GTGTGACCCGAGGCTCAACTCACATCTCTCAATATGAGTTGAATTTTTTGAAAAATAGAAACTAA
43240963 AAGGC
130 AAGGC
*
43240968 TCAACTCACCTCTCGCAATATGAGTCAATTTTTTG-AAAAAG-AACATAAATTGAAAAT-CTCAG
1 TCAACTCACCTCTCGCAATATGAGTCAA-TTTTTGAAAAAAGTAA-AAAAATTGAAAATACTCAG
* * *
43241030 CGTGTGTCCCGAGGCTCAACTCACCTCTCGT-AATATGAGTTGATTTTTTTGAAAAATAGAAACT
64 CGTGTGACCCGAGGCTCAACTCACATCTC-TCAATATGAGTTGAATTTTTTGAAAAATAGAAACT
43241094 AAAA
128 AAAA
43241098 ATACCTCAGC
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
133 63 0.55
134 3 0.03
135 42 0.37
136 6 0.05
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (134 bp):
TCAACTCACCTCTCGCAATATGAGTCAATTTTTGAAAAAAGTAAAAAAATTGAAAATACTCAGCG
TGTGACCCGAGGCTCAACTCACATCTCTCAATATGAGTTGAATTTTTTGAAAAATAGAAACTAAA
AGGC
Found at i:43241106 original size:77 final size:77
Alignment explanation
Indices: 43240964--43241326 Score: 402
Period size: 77 Copynumber: 4.8 Consensus size: 77
43240954 AGAGATTAAA
* * * *
43240964 AGGCTCAACTCACCTCTCGCAATATGAG-TCAATTTTTTG-AAAA-AG-AACATAAATTGAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAAC-TAAA---AATAC
*
43241025 CTCAGCGTGTGTCCCG
62 CTCAGCGTGTGACCCG
*
43241041 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
*
43241106 GCATGTGACCCG
66 GCGTGTGACCCG
* * ** * *
43241118 AGGCTCAACTCACTTCTCGCAATTTGAGTTGATTTTTTTGAAACGT--AAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
* * ****
43241181 GTGCGTGATTTA
66 GCGTGTGACCCG
* * * *
43241193 AGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTTTGAAAAATAGGAACTAAAGATGCCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
43241258 GCGTGTGACCCG
66 GCGTGTGACCCG
* *
43241270 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAAATAAA-TAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATA
43241327 TCAGGATACC
Statistics
Matches: 237, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
74 6 0.03
75 75 0.32
77 134 0.57
78 9 0.04
79 4 0.02
80 6 0.03
81 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
GCGTGTGACCCG
Found at i:43241319 original size:152 final size:150
Alignment explanation
Indices: 43240964--43241319 Score: 464
Period size: 152 Copynumber: 2.3 Consensus size: 150
43240954 AGAGATTAAA
**
43240964 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTGAAAAAGAACATAAATTGAAAATCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAA-AA-ATAAATTGAAAATCTCA
* *
43241029 GCGTGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACT
62 GCGCGTGTCCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACT
43241094 AAAAATACCTCAGCATGTGACCCG
127 AAAAATACCTCAGCATGTGACCCG
* * *** ** *
43241118 AGGCTCAACTCACTTCTCGCAATTTGAGTTGATTTTTTTGAAACGTAAATTGAAAATACCTCAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAATAAATTGAAAAT--CTCAGC
** *
43241183 GCGTGAT-TTAAGGCTCAACTCACCTCTC-TCAATATGAGTTGATTTTTTTGAAAAATAGGAACT
64 GCGTG-TCCCAAGGCTCAACTCACCTCTCGT-AATATGAGTTGATTTTTTTGAAAAATAGAAACT
* * *
43241246 AAAGATGCCTCAGCGTGTGACCCG
127 AAAAATACCTCAGCATGTGACCCG
43241270 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAATAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAATAAAT
43241320 AAAAATATCA
Statistics
Matches: 173, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
150 12 0.07
151 2 0.01
152 125 0.72
153 6 0.03
154 28 0.16
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (150 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAAATAAATTGAAAATCTCAGCGC
GTGTCCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAA
ATACCTCAGCATGTGACCCG
Found at i:43255123 original size:14 final size:14
Alignment explanation
Indices: 43255094--43255139 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
43255084 AAGTAATTAA
43255094 AAATAGTACTATATAT
1 AAATA-TAC-ATATAT
43255110 AAATATACATATAT
1 AAATATACATATAT
*
43255124 ATATATACATATAT
1 AAATATACATATAT
43255138 AA
1 AA
43255140 TAAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 20 0.71
15 3 0.11
16 5 0.18
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (14 bp):
AAATATACATATAT
Found at i:43255150 original size:19 final size:19
Alignment explanation
Indices: 43255126--43255166 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
43255116 ACATATATAT
43255126 ATATACA-TATATAATAAAA
1 ATATACACTA-ATAATAAAA
*
43255145 ATATACACTAATAATAATA
1 ATATACACTAATAATAAAA
43255164 ATA
1 ATA
43255167 ATATTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
ATATACACTAATAATAAAA
Found at i:43255216 original size:153 final size:145
Alignment explanation
Indices: 43255059--43255812 Score: 636
Period size: 153 Copynumber: 5.1 Consensus size: 145
43255049 AAAAGCAAAT
* * * * *
43255059 ATAAAATAATAATAATGTTAAAATAAAGTAATTAAAAATAGTACTATATATAAATATACATATAT
1 ATAAAGTAATAATAA--TTAAAATAAA-TAATTATAAATA-TAC-ATATATATATATA-ATAAAA
* *
43255124 ATATATACATATATAATAAAAATATACACTAATAATAATAATAATATTGAAATACAAAAAGCAAA
60 AAATACACATATATAATAAAAATATA-A-TAATAATAATAATAATATTGAAATACAAAAAGCAAA
*
43255189 TATAATATAATAAAAATATTAAA
123 TACAATATAATAAAAATATTAAA
*
43255212 ATAAAGTAAT--TAA-AAAAAT-AATACTATGTATAAATATATATACATATACATACATATATAA
1 ATAAAGTAATAATAATTAAAATAAATA--AT-TAT--A-A-ATATACATAT--AT--ATATATAA
* * * * *
43255273 TAAAAATATACAC-TA-ATATTAATAATAATAATGATAATAGTAATAATATTGAAATACAAAAAG
55 TAAAAAAATACACATATATAATAAAAAT-ATAATAATAATAATAATAATATTGAAATACAAAAAG
43255336 C----A-AATATAATAAAAATATTAAA
119 CAAATACAATATAATAAAAATATTAAA
* * * * * * *
43255358 ATAAAGTAATAAAAAATAATACTATATATAAATATACATATACATATATGTATATAATAAAAAGT
1 ATAAAGTAATAATAATTAA-A--ATAAATAATTATAAATATACATATATATATATAATAAAAA-A
* *
43255423 ATACAC-TA-ATATATAATAATAATAATAATAATAATAATAATATTTAAATACAAAAAG----T-
62 ATACACATATATA-ATAAAAAT-ATAATAATAATAATAATAATATTGAAATACAAAAAGCAAATA
43255481 CAATATAATAAAAATATTAAA
125 CAATATAATAAAAATATTAAA
* * * * *
43255502 ACAAAGTAATAA-AGAATAATACTATATATAA--ATATATATACATATACATATATAATAAAAAA
1 ATAAAGTAATAATA-ATTAA-A--ATAAATAATTATAAATATACATATATATATATAATAAAAAA
43255564 ATACACTAATATATAATAAAAATATAATAATAATAGTAGTAATAATATTGAAATACAAAAAAGCA
62 ATACAC--ATATATAATAAAAATATAATAATAATA--A-TAATAATATTGAAATAC-AAAAAGCA
43255629 AATACAATATAATAAAAATATTAAA
121 AATACAATATAATAAAAATATTAAA
* * * * * *
43255654 ATAAAGTAATTAAAAAATAATACTATATATAA--ATATATATACATATACATATATAATAAAAAT
1 ATAAAGTAA-TAATAATTAA-A--ATAAATAATTATAAATATACATATATATATATAATAAAAAA
* * *
43255717 ATACACTAATATATAATAAAAATATAATAATAATAGTAATAATATTGAAATACAAAAAACCAATA
62 ATACAC--ATATATAATAAAAATATAATAATAATAATAATAATATTGAAATACAAAAAGCAAATA
43255782 CAATATAATAAAAATATTAAA
125 CAATATAATAAAAATATTAAA
43255803 ATAAAGTAAT
1 ATAAAGTAAT
43255813 TAAAAATAAT
Statistics
Matches: 529, Mismatches: 33, Indels: 83
0.82 0.05 0.13
Matches are distributed among these distances:
141 6 0.01
142 40 0.08
143 25 0.05
144 100 0.19
145 4 0.01
146 58 0.11
147 9 0.02
148 11 0.02
149 44 0.08
150 21 0.04
151 41 0.08
152 45 0.09
153 107 0.20
154 12 0.02
155 6 0.01
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (145 bp):
ATAAAGTAATAATAATTAAAATAAATAATTATAAATATACATATATATATATAATAAAAAAATAC
ACATATATAATAAAAATATAATAATAATAATAATAATATTGAAATACAAAAAGCAAATACAATAT
AATAAAAATATTAAA
Found at i:43255443 original size:3 final size:3
Alignment explanation
Indices: 43255429--43255464 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
43255419 AAGTATACAC
43255429 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
43255465 TTTAAATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:43255728 original size:23 final size:21
Alignment explanation
Indices: 43255635--43255758 Score: 92
Period size: 23 Copynumber: 5.4 Consensus size: 21
43255625 AGCAAATACA
43255635 ATATAATAAAAATATTAA-AAT
1 ATATAATAAAAATA-TAATAAT
* *
43255656 AAAGTAATTAAAAA-ATAATACT
1 ATA-TAA-TAAAAATATAATAAT
43255678 ATAT-ATAAATATATATACATATACAT
1 ATATAATAAA-A-ATAT--A-ATA-AT
43255704 ATATAATAAAAATATACACTAAT
1 ATATAATAAAAATATA-A-TAAT
43255727 ATATAATAAAAATATAATAAT
1 ATATAATAAAAATATAATAAT
43255748 AATAGTAATAA
1 -ATA-TAATAA
43255759 TATTGAAATA
Statistics
Matches: 84, Mismatches: 5, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
19 4 0.05
20 2 0.02
21 11 0.13
22 14 0.17
23 32 0.38
24 3 0.04
25 7 0.08
26 6 0.07
27 5 0.06
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
ATATAATAAAAATATAATAAT
Found at i:43255743 original size:11 final size:11
Alignment explanation
Indices: 43255704--43255758 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
43255694 ACATATACAT
43255704 ATATAATAAAA
1 ATATAATAAAA
*
43255715 ATATACACT-AAT
1 ATATA-A-TAAAA
43255727 ATATAATAAAA
1 ATATAATAAAA
*
43255738 ATATAATAATA
1 ATATAATAAAA
43255749 ATAGTAATAA
1 ATA-TAATAA
43255759 TATTGAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 1 0.03
11 21 0.57
12 14 0.38
13 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:43255748 original size:14 final size:13
Alignment explanation
Indices: 43255635--43255749 Score: 62
Period size: 14 Copynumber: 8.7 Consensus size: 13
43255625 AGCAAATACA
43255635 ATATAATAAAAAT
1 ATATAATAAAAAT
43255648 AT-TAA-AATAAAGT
1 ATATAATAA-AAA-T
*
43255661 A-ATTAAAAAATAAT
1 ATA-TAATAAA-AAT
*
43255675 ACTATATATAAATAT
1 A-TATA-ATAAAAAT
* *
43255690 ATATACATATACAT
1 ATATA-ATAAAAAT
43255704 ATATAATAAAAAT
1 ATATAATAAAAAT
* *
43255717 ATACACT---AAT
1 ATATAATAAAAAT
43255727 ATATAATAAAAAT
1 ATATAATAAAAAT
43255740 ATAATAATAA
1 AT-ATAATAA
43255750 TAGTAATAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
10 8 0.10
11 2 0.03
12 6 0.08
13 20 0.26
14 28 0.36
15 9 0.12
16 5 0.06
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (13 bp):
ATATAATAAAAAT
Found at i:43255868 original size:150 final size:146
Alignment explanation
Indices: 43255132--43255909 Score: 1051
Period size: 144 Copynumber: 5.2 Consensus size: 146
43255122 ATATATATAC
* * *
43255132 ATATATAATAAAAATATACACTAATAATAATAATAATATTGAAATACAAAAAGCAAATATAATAT
1 ATATATAAT-AAAA-ATA-A-TAATAATAGTAATAATATTGAAATACAAAAAACAAATACAATAT
*
43255197 AATAAAAATATTAAAATAAAGTAATTAAAAAAATAATACTATGTATAAATATATATACATATACA
62 AATAAAAATATTAAAATAAAGTAATT--AAAAATAATACTATATATAAATATATATAC--AT--A
43255262 TACATATATAATAAAAATATACACTA
121 TACATATATAATAAAAATATACACTA
* * *
43255288 ATAT-TAATAATAATAATGATAATAGTAATAATATTGAAATACAAAAAGC----A-AATATAATA
1 ATATATAATAAAAATAATAATAATAGTAATAATATTGAAATACAAAAAACAAATACAATATAATA
* **
43255347 AAAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATACATATACATATATGTATA
66 AAAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATAT--ATATACATATACATATA
43255412 TAATAAAAAGTATACACTA
129 TAATAAAAA-TATACACTA
* * * *
43255431 ATATATAATAATAATAATAATAATAATAATAATATTTAAATAC---AAA-AAGT-CAATATAATA
1 ATATATAATAAAAATAATAATAATAGTAATAATATTGAAATACAAAAAACAAATACAATATAATA
*
43255491 AAAATATTAAAACAAAGTAA-TAAAGAATAATACTATATATAAATATATATACATATACATATAT
66 AAAATATTAAAATAAAGTAATTAAA-AATAATACTATATATAAATATATATACATATACATATAT
*
43255555 AATAAAAAAATACACTA
130 AATAAAAATATACACTA
43255572 ATATATAATAAAAATATAATAATAATAGTAGTAATAATATTGAAATACAAAAAAGCAAATACAAT
1 ATATATAAT-AAAA-ATAATAAT-A-A-TAGTAATAATATTGAAATACAAAAAA-CAAATACAAT
43255637 ATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATATATAAATATATATACATATAC
60 ATAATAAAAATATTAAAATAAAGTAATT-AAAAATAATACTATATATAAATATATATACATATAC
43255702 ATATATAATAAAAATATACACTA
124 ATATATAATAAAAATATACACTA
*
43255725 ATATATAATAAAAATATAATAATAATAGTAATAATATTGAAATACAAAAAACCAATACAATATAA
1 ATATATAAT-AAAA-ATAATAATAATAGTAATAATATTGAAATACAAAAAACAAATACAATATAA
*
43255790 TAAAAATATTAAAATAAAGTAATTAAAAATAATACTATGTATAAATATATATACATATACATACA
64 TAAAAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATACATATACAT--A
43255855 TATAATAAAAATATACACTA
127 TATAATAAAAATATACACTA
* * *
43255875 ATAT-TAATAATAATAATGATAATAGTGATAATATT
1 ATATATAATAAAAATAATAATAATAGTAATAATATT
43255910 AATAATATTA
Statistics
Matches: 570, Mismatches: 27, Indels: 59
0.87 0.04 0.09
Matches are distributed among these distances:
141 19 0.03
142 43 0.08
143 24 0.04
144 110 0.19
145 1 0.00
146 54 0.09
147 22 0.04
148 40 0.07
149 44 0.08
150 51 0.09
151 35 0.06
152 31 0.05
153 82 0.14
154 6 0.01
155 4 0.01
156 4 0.01
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (146 bp):
ATATATAATAAAAATAATAATAATAGTAATAATATTGAAATACAAAAAACAAATACAATATAATA
AAAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATACATATACATATATA
ATAAAAATATACACTA
Found at i:43255869 original size:21 final size:22
Alignment explanation
Indices: 43255844--43255889 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
43255834 ATATATATAC
43255844 ATATACA-TACATA-TAATAAAA
1 ATATACACTA-ATATTAATAAAA
*
43255865 ATATACACTAATATTAATAATA
1 ATATACACTAATATTAATAAAA
43255887 ATA
1 ATA
43255890 ATGATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATACACTAATATTAATAAAA
Found at i:43255887 original size:3 final size:3
Alignment explanation
Indices: 43255873--43255934 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
43255863 AAATATACAC
* * * * * *
43255873 TAA TAT TAA TAA TAA TAA TGA TAA TAG TGA TAA TAT TAA TAA TAT TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
43255922 -AA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
43255935 TTTAATAAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:43255935 original size:18 final size:18
Alignment explanation
Indices: 43255884--43255936 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
43255874 AATATTAATA
* *
43255884 ATAATAATGATAATAGTG
1 ATAATAATAATAATATTG
*
43255902 ATAATATTAATAATATTAG
1 ATAATAATAATAATATT-G
43255921 A-AATAATAATAATATT
1 ATAATAATAATAATATT
43255937 TAATAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 28 0.93
19 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.38
Consensus pattern (18 bp):
ATAATAATAATAATATTG
Found at i:43256810 original size:39 final size:39
Alignment explanation
Indices: 43256756--43256836 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
43256746 GCTTTGCTTT
*
43256756 TATAGCTATTTTTACATGCTTTCATTATTATTTCTTTAC
1 TATAGCCATTTTTACATGCTTTCATTATTATTTCTTTAC
43256795 TATAGCCATTTTTACATGCTTTCATTATTATTTCTTTAC
1 TATAGCCATTTTTACATGCTTTCATTATTATTTCTTTAC
43256834 TAT
1 TAT
43256837 CTCTTGTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (39 bp):
TATAGCCATTTTTACATGCTTTCATTATTATTTCTTTAC
Found at i:43262049 original size:18 final size:18
Alignment explanation
Indices: 43261979--43262042 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
43261969 GGACTTGCAT
*
43261979 ACTGTTTACTGATACTAC
1 ACTGTTTACTGATACTGC
*
43261997 ACTGTTTATTGATACTGC
1 ACTGTTTACTGATACTGC
*
43262015 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGATACTGC
43262033 ACTGTTTACT
1 ACTGTTTACT
43262043 ATTACTGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (18 bp):
ACTGTTTACTGATACTGC
Found at i:43268852 original size:14 final size:14
Alignment explanation
Indices: 43268833--43268861 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43268823 TTATTGACCC
43268833 AACATATCCAGAAG
1 AACATATCCAGAAG
43268847 AACATATCCAGAAG
1 AACATATCCAGAAG
43268861 A
1 A
43268862 TATGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
AACATATCCAGAAG
Found at i:43273220 original size:22 final size:22
Alignment explanation
Indices: 43273186--43273229 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
43273176 TTGTGTTTAG
43273186 GGTTTAAAGGTTAATTAAATTAA
1 GGTTTAAAGGTTAATT-AATTAA
43273209 GGTTT-AAGGTTAATTAATTAA
1 GGTTTAAAGGTTAATTAATTAA
43273230 ATTAACTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 10 0.48
23 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (22 bp):
GGTTTAAAGGTTAATTAATTAA
Found at i:43273307 original size:8 final size:8
Alignment explanation
Indices: 43273296--43273372 Score: 56
Period size: 8 Copynumber: 10.0 Consensus size: 8
43273286 ATTAATTAAA
43273296 TTAGGGTT
1 TTAGGGTT
43273304 TTA-GGTT
1 TTAGGGTT
43273311 TTA-GGTT
1 TTAGGGTT
43273318 TTAGGG--
1 TTAGGGTT
*
43273324 TTAAGGTT
1 TTAGGGTT
*
43273332 TTAAGAG-T
1 TT-AGGGTT
*
43273340 TTAAGGTT
1 TTAGGGTT
**
43273348 TTATTGTGT
1 TTAGGGT-T
43273357 TTAGGGTT
1 TTAGGGTT
43273365 TTAGGGTT
1 TTAGGGTT
43273373 AATTAAATTA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
6 5 0.09
7 16 0.30
8 25 0.46
9 8 0.15
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (8 bp):
TTAGGGTT
Found at i:43273312 original size:7 final size:7
Alignment explanation
Indices: 43273300--43273369 Score: 59
Period size: 7 Copynumber: 9.3 Consensus size: 7
43273290 ATTAAATTAG
43273300 GGTTTTA
1 GGTTTTA
43273307 GGTTTTA
1 GGTTTTA
43273314 GGTTTTA
1 GGTTTTA
* *
43273321 GGGTTAA
1 GGTTTTA
43273328 GGTTTTAA
1 GGTTTT-A
*
43273336 GAGTTTAA
1 G-GTTTTA
43273344 GGTTTTA
1 GGTTTTA
*
43273351 TTGTGTTTA
1 -GGT-TTTA
43273360 GGGTTTTA
1 -GGTTTTA
43273368 GG
1 GG
43273370 GTTAATTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
7 30 0.60
8 10 0.20
9 10 0.20
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (7 bp):
GGTTTTA
Found at i:43273319 original size:14 final size:14
Alignment explanation
Indices: 43273300--43273374 Score: 69
Period size: 14 Copynumber: 5.0 Consensus size: 14
43273290 ATTAAATTAG
*
43273300 GGTTTTAGGTTTTA
1 GGTTTTAGGTTTAA
*
43273314 GGTTTTAGGGTTAA
1 GGTTTTAGGTTTAA
43273328 GGTTTTAAGAGTTTAA
1 GGTTTT-AG-GTTTAA
*
43273344 GGTTTTATTGTGTTTAG
1 GGTTTTA--G-GTTTAA
*
43273361 GGTTTTAGGGTTAA
1 GGTTTTAGGTTTAA
43273375 TTAAATTAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
14 22 0.44
15 4 0.08
16 11 0.22
17 13 0.26
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
GGTTTTAGGTTTAA
Found at i:43273392 original size:22 final size:23
Alignment explanation
Indices: 43273357--43273400 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
43273347 TTTATTGTGT
43273357 TTAGGGTTTTAGGGTTAATTAAA
1 TTAGGGTTTTAGGGTTAATTAAA
43273380 TTAGGG-TTTAGGGTTAATTAA
1 TTAGGGTTTTAGGGTTAATTAA
43273401 TTAAATTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (23 bp):
TTAGGGTTTTAGGGTTAATTAAA
Found at i:43273549 original size:180 final size:173
Alignment explanation
Indices: 43273134--43273651 Score: 761
Period size: 175 Copynumber: 2.9 Consensus size: 173
43273124 TGATTTGGGA
* * * * *
43273134 TTTTAGGGTTTAGGGTTAGGGTTTTAAGAGTTTAAGAG-TTTGTTGTGTTTAGGGTTTAAAGGTT
1 TTTTAGGTTTTAGGGTTAAGGTTTTAAGAGTTTAAG-GTTTTATTGTGTTTAGGGTTTTAGGGTT
* *
43273198 AATTAAATTAAGGTTTAAGGTTAATTAATTAAATTAACTATTAATTTTAAAAAATCAATTAAATT
65 AATTAAATTAGGGTTTAGGGTTAATTAATTAAATTAACTATTAA-TTTAAAAAATCAATTAAATT
* * *
43273263 AGGGTTTAGAGTTTTTAAGGTTAATTAATTAAATTAGGGTTTTAGG
129 AGGGTTTAG-GTTTTTAAGGTTAATTAATTAAATCAGGGTTTAAAG
43273309 TTTTAGGTTTTAGGGTTAAGGTTTTAAGAGTTTAAGGTTTTATTGTGTTTAGGGTTTTAGGGTTA
1 TTTTAGGTTTTAGGGTTAAGGTTTTAAGAGTTTAAGGTTTTATTGTGTTTAGGGTTTTAGGGTTA
*
43273374 ATTAAATTAGGGTTTAGGGTTAATTAATTAAATTAACTATTAATTTAAAAAA-CAATTAAATTAA
66 ATTAAATTAGGGTTTAGGGTTAATTAATTAAATTAACTATTAATTTAAAAAATCAATTAAATTAG
43273438 GGTTTAAGGTTTTTAAGGTTAATTAATTAAATCAGGGTTTAAAG
131 GGTTT-AGGTTTTTAAGGTTAATTAATTAAATCAGGGTTTAAAG
* * *
43273482 TTTTAAGGTTCAGGATTTAGGGTTAATGTTTTAAGAGTTTAAGGTTTTATTGTGTTTATGATTTT
1 TTTT-AGG-T-----TTTAGGGTTAAGGTTTTAAGAGTTTAAGGTTTTATTGTGTTTAGGGTTTT
*
43273547 AGGGTTAATTAAATTAGGGTTTAGGGTTAATTAATTAAATTAACTATTAATTTAAAAAAATTAAT
59 AGGGTTAATTAAATTAGGGTTTAGGGTTAATTAATTAAATTAACTATTAATTT-AAAAAATCAAT
*
43273612 TAATTTAGGGTTTAGGATTTTTAAGGTTAATTAATTAAAT
123 TAAATTAGGGTTTAGG-TTTTTAAGGTTAATTAATTAAAT
43273652 TAGGATGCAC
Statistics
Matches: 314, Mismatches: 17, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
173 53 0.17
174 15 0.05
175 100 0.32
180 100 0.32
181 9 0.03
182 37 0.12
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (173 bp):
TTTTAGGTTTTAGGGTTAAGGTTTTAAGAGTTTAAGGTTTTATTGTGTTTAGGGTTTTAGGGTTA
ATTAAATTAGGGTTTAGGGTTAATTAATTAAATTAACTATTAATTTAAAAAATCAATTAAATTAG
GGTTTAGGTTTTTAAGGTTAATTAATTAAATCAGGGTTTAAAG
Found at i:43273569 original size:47 final size:44
Alignment explanation
Indices: 43273460--43273574 Score: 99
Period size: 47 Copynumber: 2.5 Consensus size: 44
43273450 TTAAGGTTAA
* *
43273460 TTAATTAAATCAGGGTTTAAAGTTTTAAGGTTCAGGATTTAGGG
1 TTAATTAAATTAGGGTTTAAGGTTTTAAGGTTCAGGATTTAGGG
* * * * *
43273504 TTAATGT--TTTAAGAGTTTAAGGTTTTATTGTGTTTATGATTTTAGGG
1 TTAAT-TAAATT-AGGGTTTAAGGTTTTA-AG-GTTCAGGA-TTTAGGG
*
43273551 TTAATTAAATTAGGGTTTAGGGTT
1 TTAATTAAATTAGGGTTTAAGGTT
43273575 AATTAATTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.02
44 19 0.35
45 2 0.04
46 7 0.13
47 23 0.43
48 2 0.04
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (44 bp):
TTAATTAAATTAGGGTTTAAGGTTTTAAGGTTCAGGATTTAGGG
Found at i:43273912 original size:126 final size:125
Alignment explanation
Indices: 43273653--43273913 Score: 391
Period size: 126 Copynumber: 2.1 Consensus size: 125
43273643 TAATTAAATT
*
43273653 AGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCTAACATAGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTAACATAGACGCTCTTTTGCTACAGTAGT
** *
43273718 ATTTGAAAAATAATTTTGAGAAGACATTTCTGAACAAATAATGTCCAAAACGCTTCAAGC
66 ATTAAAAAAATAATTTTGAGAAAACATTTCTGAACAAATAATGTCCAAAACGCTTCAAGC
* * *
43273778 AGGATGCACTGTCAGCAAAATTACT-AAGATAAGCTC-ACACTTGGACGCTCTTTTGCTACAGTA
1 AGGATGCACTGTCAGCAAAATTACTGAA-AAAAGCTCTA-ACATAGACGCTCTTTTGCTACAGTA
* * *
43273841 GTATCTAAAAAAATAATTTTGAGAAAATATTTCTGAATAAATAGTGTCCAAAACGCTTCAAGC
64 GTAT-TAAAAAAATAATTTTGAGAAAACATTTCTGAACAAATAATGTCCAAAACGCTTCAAGC
43273904 AGGATGCACT
1 AGGATGCACT
43273914 ATGTAACACC
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
124 3 0.02
125 58 0.47
126 62 0.50
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (125 bp):
AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTAACATAGACGCTCTTTTGCTACAGTAGT
ATTAAAAAAATAATTTTGAGAAAACATTTCTGAACAAATAATGTCCAAAACGCTTCAAGC
Found at i:43274794 original size:46 final size:47
Alignment explanation
Indices: 43274734--43274961 Score: 306
Period size: 46 Copynumber: 5.0 Consensus size: 47
43274724 TTTGACATGA
* * * * * *
43274734 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** *
43274780 TGCCATGGTATCTTTCAACCATGGTCTTA-TTATTTTCATGTCACGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCA-GGT
43274826 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
43274872 TGTCATGGTACCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
43274918 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
43274962 AGAGCACACT
Statistics
Matches: 166, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
45 9 0.05
46 155 0.93
47 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:43277108 original size:11 final size:11
Alignment explanation
Indices: 43277092--43277144 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
43277082 TTTACTAAAT
43277092 AAATAATAATA
1 AAATAATAATA
43277103 AAATAATAAT-
1 AAATAATAATA
* *
43277113 AAATATCTCATTA
1 AAATA-AT-AATA
*
43277126 AAATATTAATA
1 AAATAATAATA
43277137 AAATAATA
1 AAATAATA
43277145 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 5 0.15
11 21 0.62
12 3 0.09
13 5 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAATAATA
Found at i:43277151 original size:31 final size:33
Alignment explanation
Indices: 43277092--43277157 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
43277082 TTTACTAAAT
*
43277092 AAATAATAATAAAATAATAATAAATATCTCATTA
1 AAATAATAATAAAATAATAAT-AATATCTAATTA
* *
43277126 AAATATTAATAAAATAAT-AT-TTATCTAATTA
1 AAATAATAATAAAATAATAATAATATCTAATTA
43277157 A
1 A
43277158 TTAATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
33 2 0.07
34 17 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (33 bp):
AAATAATAATAAAATAATAATAATATCTAATTA
Found at i:43281070 original size:24 final size:23
Alignment explanation
Indices: 43281019--43281063 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
43281009 AATAATAATT
*
43281019 GCGGAGGTGTTTGCATCACCCATG
1 GCGGAGGTGTTTGAAT-ACCCATG
43281043 GCGGAGGTGTTTGAAT-CCCAT
1 GCGGAGGTGTTTGAATACCCAT
43281064 AAGGCGGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
24 15 0.75
ACGTcount: A:0.18, C:0.22, G:0.33, T:0.27
Consensus pattern (23 bp):
GCGGAGGTGTTTGAATACCCATG
Found at i:43281330 original size:30 final size:30
Alignment explanation
Indices: 43281296--43281360 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
43281286 GTTGAAGTGT
* *
43281296 TGGGCACGGTGACTGTGTGGATGCTGTTAA
1 TGGGCACGGTGACTGTGTGGACGCTATTAA
* * *
43281326 TGGGCCCGGTGATTGTGTGGACGCTATTGA
1 TGGGCACGGTGACTGTGTGGACGCTATTAA
43281356 TGGGC
1 TGGGC
43281361 TCGCGTGATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.14, C:0.15, G:0.42, T:0.29
Consensus pattern (30 bp):
TGGGCACGGTGACTGTGTGGACGCTATTAA
Found at i:43282448 original size:13 final size:13
Alignment explanation
Indices: 43282430--43282457 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43282420 AAAATATTTT
43282430 TTAATTAAAAAAA
1 TTAATTAAAAAAA
43282443 TTAATTAAAAAAA
1 TTAATTAAAAAAA
43282456 TT
1 TT
43282458 TTAAATAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAATTAAAAAAA
Found at i:43286851 original size:19 final size:19
Alignment explanation
Indices: 43286823--43286870 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
43286813 ATATATATTT
43286823 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
43286841 TAAATTTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
43286860 TAAATTTTATT
1 TAAATTTTATT
43286871 CTTATTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:43286934 original size:39 final size:39
Alignment explanation
Indices: 43286878--43286959 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
43286868 ATTCTTATTT
* *
43286878 TAAGAATATTATATTTTATCTTTTTGTAGTTTATTAGAA
1 TAAGAATATTATATTTTATATTTTAGTAGTTTATTAGAA
*
43286917 TAAGAGATATT-TTTTTTATATTTTAGTAGTTTATTAGAA
1 TAAGA-ATATTATATTTTATATTTTAGTAGTTTATTAGAA
43286956 TAAG
1 TAAG
43286960 GGAATTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
39 34 0.87
40 5 0.13
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.52
Consensus pattern (39 bp):
TAAGAATATTATATTTTATATTTTAGTAGTTTATTAGAA
Found at i:43287159 original size:104 final size:105
Alignment explanation
Indices: 43286946--43287159 Score: 333
Period size: 104 Copynumber: 2.1 Consensus size: 105
43286936 ATTTTAGTAG
* * *
43286946 TTTATTAGAATAAGGGAATTATTTTCTCAATTAGGATTAATATTCTTTTCTCTATTTAAGTTCAG
1 TTTATTAGAATAAGAGAATTATTTTCTCAATTAGGATTAAGACTCTTTTCTCTATTTAAGTTCAG
*
43287011 TTCTTTAATTAATAAAAGATATATCACTTTTATTAGAAGC
66 TTCTTTAATTAATAAAAGATATATCACTTTTATTAAAAGC
* * * *
43287051 -TTATTAGAATAAGAGAATTATTTTCTTAATTAGGATTAAGACTCTTTTTTCTATTTAATTTTAG
1 TTTATTAGAATAAGAGAATTATTTTCTCAATTAGGATTAAGACTCTTTTCTCTATTTAAGTTCAG
*
43287115 TTCTTTAATTAATAAGA-ATATATCACTTTTATTAAAAGC
66 TTCTTTAATTAATAAAAGATATATCACTTTTATTAAAAGC
43287154 TTTATT
1 TTTATT
43287160 GAAAACTTTC
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 21 0.21
104 78 0.79
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (105 bp):
TTTATTAGAATAAGAGAATTATTTTCTCAATTAGGATTAAGACTCTTTTCTCTATTTAAGTTCAG
TTCTTTAATTAATAAAAGATATATCACTTTTATTAAAAGC
Found at i:43296336 original size:39 final size:39
Alignment explanation
Indices: 43296293--43296456 Score: 238
Period size: 39 Copynumber: 4.2 Consensus size: 39
43296283 CTATAACCCT
** * *
43296293 GATATTTTTCCAGCACGTAGCCTGCGGACCTTAAGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* * *
43296332 GATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
* *
43296371 GATATTTTTACAGCATATAGCCTGCGGATCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
43296410 GATATTTTTCCTGCATATAGCCTGCGGACCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
43296449 GATATTTT
1 GATATTTT
43296457 CAATCTCATA
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:43296385 original size:78 final size:78
Alignment explanation
Indices: 43296256--43296456 Score: 246
Period size: 78 Copynumber: 2.6 Consensus size: 78
43296246 AGAGCTCGAA
* * ** * * *
43296256 ATATATTACTAGCATA-AGCCTGCGGGTCT-ATAACCCTGATATTTTTCCAGCACGTAGCCTGCG
1 ATATATTTCTAGCATATAGCCTGCGGATCTCAT-GTCCGGATATTTTTACAGCACATAGCCTGCG
*
43296319 GACCTTAAGTCCGG
65 GACCTCAAGTCCGG
*
43296333 ATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCGGATATTTTTACAGCATATAGCCTGCGG
1 ATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCGGATATTTTTACAGCACATAGCCTGCGG
* *
43296398 ATCTCATGTCCGG
66 ACCTCAAGTCCGG
* *
43296411 ATATTTTTCCT-GCATATAGCCTGCGGACCTCATGTCCGGATATTTT
1 ATATATTT-CTAGCATATAGCCTGCGGATCTCATGTCCGGATATTTT
43296457 CAATCTCATA
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
77 15 0.14
78 89 0.82
79 4 0.04
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (78 bp):
ATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCGGATATTTTTACAGCACATAGCCTGCGG
ACCTCAAGTCCGG
Found at i:43305385 original size:14 final size:14
Alignment explanation
Indices: 43305366--43305392 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43305356 TTCTCTTGCA
43305366 CACTTGTATTTTAC
1 CACTTGTATTTTAC
43305380 CACTTGTATTTTA
1 CACTTGTATTTTA
43305393 TTTTATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAC
Found at i:43307774 original size:31 final size:31
Alignment explanation
Indices: 43307736--43307804 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
43307726 TGACTTCTAT
* *
43307736 AGTTCATTAAACTTATCAGAACAGATATTTA
1 AGTTCATTAAACTCATCAGAACAGAAATTTA
43307767 AGTTCATTAAACTCATCAGAACAGAAATTTA
1 AGTTCATTAAACTCATCAGAACAGAAATTTA
43307798 AG-TCATT
1 AGTTCATT
43307805 GTTTGTGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.33
Consensus pattern (31 bp):
AGTTCATTAAACTCATCAGAACAGAAATTTA
Found at i:43315546 original size:15 final size:15
Alignment explanation
Indices: 43315522--43315562 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
43315512 AATTTAAGCA
43315522 TATATCACAATTATC
1 TATATCACAATTATC
*
43315537 TATATGACAATTATC
1 TATATCACAATTATC
43315552 TTATAATCACA
1 -TAT-ATCACA
43315563 CAACATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (15 bp):
TATATCACAATTATC
Found at i:43315600 original size:23 final size:24
Alignment explanation
Indices: 43315571--43315637 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 24
43315561 CACAACATTC
43315571 AAGCATATATAACAATACTCATAT
1 AAGCATATATAACAATACTCATAT
* * *
43315595 AA-CATATA-ATCACATA-ACATTT
1 AAGCATATATAACA-ATACTCATAT
*
43315617 AAGCATATATCACAATACTCA
1 AAGCATATATAACAATACTCA
43315638 AAAACATGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
22 9 0.27
23 18 0.55
24 6 0.18
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.28
Consensus pattern (24 bp):
AAGCATATATAACAATACTCATAT
Found at i:43315630 original size:22 final size:22
Alignment explanation
Indices: 43315557--43315630 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
43315547 TTATCTTATA
* *
43315557 ATCACACAACATTCAAGCATAT
1 ATCACATAACATTTAAGCATAT
* * *
43315579 ATAACAATACTCATATAA-CATAT
1 ATCAC-ATA-ACATTTAAGCATAT
43315602 AATCACATAACATTTAAGCATAT
1 -ATCACATAACATTTAAGCATAT
43315625 ATCACA
1 ATCACA
43315631 ATACTCAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
22 16 0.40
23 15 0.38
24 9 0.22
ACGTcount: A:0.49, C:0.22, G:0.03, T:0.27
Consensus pattern (22 bp):
ATCACATAACATTTAAGCATAT
Found at i:43323727 original size:22 final size:22
Alignment explanation
Indices: 43323683--43323727 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
43323673 AGATGTATTA
* *
43323683 TGCCAATATAGTTGATTGATTG
1 TGCCAATATAATTGAATGATTG
*
43323705 TGCCAATATAATTGAATGTTTG
1 TGCCAATATAATTGAATGATTG
43323727 T
1 T
43323728 AACACCCCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (22 bp):
TGCCAATATAATTGAATGATTG
Found at i:43325213 original size:39 final size:40
Alignment explanation
Indices: 43325096--43325280 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
43325086 GCTACTCGTT
*
43325096 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * * *
43325136 CAATTGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
43325176 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
43325215 CAAATGCC-TCCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43325256 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43325281 CATCATTCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 4 0.03
39 29 0.24
40 71 0.60
41 15 0.13
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43325240 original size:79 final size:82
Alignment explanation
Indices: 43325096--43325280 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 82
43325086 GCTACTCGTT
* * * **
43325096 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTTGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCCGGACTTAACCCG
* * *
43325160 GATTTAGTAAC-TCGCG
66 GATATAGTAACTTAGCA
* **
43325176 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCC-TCCGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCCGGA-CTTAACCC
* *
43325238 GGATATGGTCACTTAGCA
65 GGATATAGTAACTTAGCA
43325256 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43325281 CATCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 4 0.05
79 51 0.58
80 33 0.38
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCCGGACTTAACCCG
GATATAGTAACTTAGCA
Found at i:43333168 original size:39 final size:40
Alignment explanation
Indices: 43333045--43333229 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
43333035 GCTACTCGTT
*
43333045 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * * *
43333085 GAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
43333125 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
43333164 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43333205 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43333230 CATCATTCAA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 73 0.62
41 13 0.11
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43333190 original size:79 final size:81
Alignment explanation
Indices: 43333045--43333229 Score: 191
Period size: 79 Copynumber: 2.3 Consensus size: 81
43333035 GCTACTCGTT
* * * *
43333045 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAGAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
43333110 ATTTAGTAAC-TCGCG
66 ATATAGTAACTTAGCA
* * * **
43333125 CAAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTATCTTGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
43333187 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
43333205 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43333230 CATCATTCAA
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
78 4 0.05
79 51 0.59
80 31 0.36
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:43337433 original size:29 final size:30
Alignment explanation
Indices: 43337378--43337435 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
43337368 GCTCGTATGA
* *
43337378 GCTTACTGTTTCAGCTATTCGGGGCTTACT
1 GCTTACTGTTTCAGCTATACGGAGCTTACT
*
43337408 GCTT-CTGTTTCAGCTCTACGGAGCTTAC
1 GCTTACTGTTTCAGCTATACGGAGCTTAC
43337436 CATTTAGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (30 bp):
GCTTACTGTTTCAGCTATACGGAGCTTACT
Found at i:43337444 original size:22 final size:22
Alignment explanation
Indices: 43337419--43337463 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
43337409 CTTCTGTTTC
*
43337419 AGCTCTACGGAGCTTACCATTT
1 AGCTCTACAGAGCTTACCATTT
*
43337441 AGCTCTTCAGAGCTTACCATTT
1 AGCTCTACAGAGCTTACCATTT
43337463 A
1 A
43337464 TCAGCTCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (22 bp):
AGCTCTACAGAGCTTACCATTT
Found at i:43352662 original size:22 final size:22
Alignment explanation
Indices: 43352630--43352674 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
43352620 TTTCTATTTC
43352630 AGCTCTACGGAGCTTACCGTTT
1 AGCTCTACGGAGCTTACCGTTT
* *
43352652 AGCTCTTCGGAGCTTACTGTTT
1 AGCTCTACGGAGCTTACCGTTT
43352674 A
1 A
43352675 TCATCTCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (22 bp):
AGCTCTACGGAGCTTACCGTTT
Found at i:43352914 original size:27 final size:25
Alignment explanation
Indices: 43352850--43352914 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
43352840 TAAGAGCTAT
*
43352850 ATGAT-TTACATGAATTATAAGTTAC
1 ATGATATT-CATGAATTATAAATTAC
*
43352875 ATGATTTTCATGAATTATATGAATTAC
1 ATGATATTCATGAATTATA--AATTAC
43352902 ATGGATATT-ATGA
1 AT-GATATTCATGA
43352915 TACATGAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 16 0.47
26 2 0.06
27 11 0.32
28 5 0.15
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (25 bp):
ATGATATTCATGAATTATAAATTAC
Found at i:43362552 original size:38 final size:38
Alignment explanation
Indices: 43362501--43362584 Score: 168
Period size: 38 Copynumber: 2.2 Consensus size: 38
43362491 ATAATTATAG
43362501 AAGAAAACATCTCAGAAGAATAATGAATACAAAACATA
1 AAGAAAACATCTCAGAAGAATAATGAATACAAAACATA
43362539 AAGAAAACATCTCAGAAGAATAATGAATACAAAACATA
1 AAGAAAACATCTCAGAAGAATAATGAATACAAAACATA
43362577 AAGAAAAC
1 AAGAAAAC
43362585 CTAAAACCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.62, C:0.13, G:0.11, T:0.14
Consensus pattern (38 bp):
AAGAAAACATCTCAGAAGAATAATGAATACAAAACATA
Found at i:43365823 original size:40 final size:40
Alignment explanation
Indices: 43365779--43366007 Score: 275
Period size: 40 Copynumber: 5.7 Consensus size: 40
43365769 ATTTGATGTG
* *
43365779 TGTATCCGTGTTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCTGCAGGCT-TCATGCTGGAAT
* *
43365819 TGTATCCGGGCTTAAAGACCTACAGGCTTCATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCTGCAGGCTTCATGCTGGAAT
*
43365859 TGTATCCGGGCTTAAAGACCTGCAGGCTTCATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCTGCAGGCTTCATGCTGGAAT
* **
43365899 GGTATCCGGGTTTAAAGACCCACAGGCTAT-ATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCTGCAGGCT-TCATGCTGGAAT
* *
43365939 TGTATCTGGGTTTAAAAAGACCTGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGTTT--AAAGACCTGCAGGCTTCATGCTGGAAT
* * * *
43365981 GGAATTCGGG-TTAAAGACCTGTAGGCT
1 TGTATCCGGGTTTAAAGACCTGCAGGCT
43366008 CGTGTTAGAA
Statistics
Matches: 165, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
39 15 0.09
40 118 0.72
41 4 0.02
42 28 0.17
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCTGCAGGCTTCATGCTGGAAT
Found at i:43365954 original size:120 final size:120
Alignment explanation
Indices: 43365780--43366007 Score: 341
Period size: 120 Copynumber: 1.9 Consensus size: 120
43365770 TTTGATGTGT
* *
43365780 GTATCCGTGTTTAAAGACCCGCAGGCTATATGCTGGAATTGTATCCGGGCTT-AAAGACCTACAG
1 GTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAATTGTATCCGGGCTTAAAAGACCTACAG
* *
43365844 GCTTCATGCTGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCATGCTGGAATG
66 GCTTCATGCTGGAATGGAATCCGGG-TTAAAGACCTGCAGGCTTCATGCTGGAATG
* * *
43365900 GTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAATTGTATCTGGGTTTAAAAAGACCTGCA
1 GTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAATTGTATCCGGGCTT-AAAAGACCTACA
* * *
43365965 GGCTTCGTGCTGGAATGGAATTCGGGTTAAAGACCTGTAGGCT
65 GGCTTCATGCTGGAATGGAATCCGGGTTAAAGACCTGCAGGCT
43366008 CGTGTTAGAA
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
120 48 0.50
121 16 0.17
122 32 0.33
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (120 bp):
GTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAATTGTATCCGGGCTTAAAAGACCTACAG
GCTTCATGCTGGAATGGAATCCGGGTTAAAGACCTGCAGGCTTCATGCTGGAATG
Found at i:43371144 original size:25 final size:25
Alignment explanation
Indices: 43371116--43371191 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 25
43371106 ATATATATGC
43371116 ATGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
* * ** **
43371141 ATG--AATG-TGAACACGCGTATGTG
1 ATGATAAGGCCGAA-TGGCCAATGTG
43371164 -TGATAAGGCCGAATGGCCAATGTG
1 ATGATAAGGCCGAATGGCCAATGTG
43371188 ATGA
1 ATGA
43371192 ATGTGAACAT
Statistics
Matches: 34, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
22 5 0.15
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (25 bp):
ATGATAAGGCCGAATGGCCAATGTG
Found at i:43371242 original size:45 final size:47
Alignment explanation
Indices: 43371038--43371311 Score: 349
Period size: 47 Copynumber: 5.8 Consensus size: 47
43371028 TTAGGATTTT
** * * * * *
43371038 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCAA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
* * *
43371085 ATGTGATGAATGTGAACCTGTATATATATGCATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TGTATGTG--TGATAAGGCCGAATGGCCA
* *
43371136 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
*
43371183 ATGTGATGAATGTGAACATGTGTATGTGTGATAA-G-C-ATTCGGCCA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAAT-GGCCA
43371228 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
43371275 ATGTGATGAATGTGAACATGCT-TATGTGTGATAAGGC
1 ATGTGATGAATGTGAACATG-TGTATGTGTGATAAGGC
43371312 AACATGCGTA
Statistics
Matches: 204, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
44 2 0.01
45 40 0.20
46 2 0.01
47 110 0.54
48 3 0.01
49 13 0.06
51 34 0.17
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
Found at i:43371258 original size:92 final size:93
Alignment explanation
Indices: 43371038--43371309 Score: 343
Period size: 92 Copynumber: 2.9 Consensus size: 93
43371028 TTAGGATTTT
** * * * * * *
43371038 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
43371103 TGTATATATATGCATGATAAGGCCGAATGGCCA
66 TG-AT-TATGTG--TGATAA-GCCGAATGGCCA
* *
43371136 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
43371201 TG-TGTATGTGTGATAAG-C-ATTCGGCCA
66 TGAT-TATGTGTGATAAGCCGAAT-GGCCA
43371228 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
43371293 TGCTTATGTGTGATAAG
66 TGATTATGTGTGATAAG
43371310 GCAACATGCG
Statistics
Matches: 157, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
91 2 0.01
92 84 0.54
93 2 0.01
94 6 0.04
96 6 0.04
98 57 0.36
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (93 bp):
ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGATTATGTGTGATAAGCCGAATGGCCA
Found at i:43371315 original size:23 final size:23
Alignment explanation
Indices: 43371289--43371334 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
43371279 GATGAATGTG
*
43371289 AACATGCTTATGTGTGATAAGGC
1 AACATGCGTATGTGTGATAAGGC
43371312 AACATGCGTATGTGTGATAAGGC
1 AACATGCGTATGTGTGATAAGGC
43371335 CGAATGGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (23 bp):
AACATGCGTATGTGTGATAAGGC
Found at i:43371316 original size:70 final size:70
Alignment explanation
Indices: 43371242--43371381 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
43371232 GATGAATGTG
* * * *
43371242 AACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCTTATGTGTGAT
1 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
43371307 AAGGC
66 AAGGC
43371312 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
1 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
43371377 AAGGC
66 AAGGC
43371382 TGAATGGCCA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (70 bp):
AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
AAGGC
Found at i:43371349 original size:47 final size:47
Alignment explanation
Indices: 43371312--43371441 Score: 197
Period size: 47 Copynumber: 2.8 Consensus size: 47
43371302 GTGATAAGGC
* *
43371312 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
43371359 AACATGCATATATGAGATAAGGCTGAATGGCCAATGTGATGAATGTG
1 AACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * *
43371406 AACATGTATATATGTGGTAAGGCCGAATGGCTAATG
1 AACATGCATATATGTGATAAGGCCGAATGGCCAATG
43371442 CGAAACGTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
AACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
Found at i:43371357 original size:117 final size:115
Alignment explanation
Indices: 43371197--43371428 Score: 333
Period size: 117 Copynumber: 2.0 Consensus size: 115
43371187 GATGAATGTG
* * ** * *
43371197 AACATGTGTATGTGTGATAAGCATTCGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAA
1 AACATGCGTATGTGTGATAAGCAATCGGCCAATGTGATGAATGTGAACATGCATATATGAGATAA
*
43371262 GGCCGAATGGCCAATGTGATGAATGTGAACATGCT-TATGTGTGATAAGGC
66 GGCCGAATGGCCAATGTGATGAATGTGAACATG-TATATATGTGATAAGGC
43371312 AACATGCGTATGTGTGATAAGGCCGAAT-GGCCAATGTGATGAATGTGAACATGCATATATGAGA
1 AACATGCGTATGTGTGATAA-G-C-AATCGGCCAATGTGATGAATGTGAACATGCATATATGAGA
* *
43371376 TAAGGCTGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGGTAAGGC
63 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGC
43371429 CGAATGGCTA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
115 19 0.18
116 2 0.02
117 81 0.78
118 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.28
Consensus pattern (115 bp):
AACATGCGTATGTGTGATAAGCAATCGGCCAATGTGATGAATGTGAACATGCATATATGAGATAA
GGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGC
Found at i:43371481 original size:46 final size:46
Alignment explanation
Indices: 43371415--43371505 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
43371405 GAACATGTAT
* * *
43371415 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
43371461 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
43371506 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:43371753 original size:37 final size:37
Alignment explanation
Indices: 43371687--43371797 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
43371677 GTGGTGACTA
* *
43371687 TGTCCGGGTAAGACCCGATGACTATGTGTGGAGATTT
1 TGTCTGGGTAAGACCCGATGACTACGTGTGGAGATTT
43371724 TGTCTGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCTGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
43371761 TGT-TCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCT-GGGTAAGACCCGATGACTACGTGTGGAGATTT
43371798 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 1 0.01
37 68 0.99
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.31
Consensus pattern (37 bp):
TGTCTGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:43374999 original size:27 final size:27
Alignment explanation
Indices: 43374978--43375126 Score: 192
Period size: 27 Copynumber: 5.6 Consensus size: 27
43374968 CCTTAATCGA
43374978 TAAAATGACTATTTTACCCTTATGTGG
1 TAAAATGACTATTTTACCCTTATGTGG
* * *
43375005 TAAAATTA-TTTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTACCCTTATGTGG
*
43375031 TAAAATGACTAATTTACCCTTATGTGG
1 TAAAATGACTATTTTACCCTTATGTGG
* * * *
43375058 TAAAATGATTGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTACCCTTATGTGG
*
43375085 TAAAATGACTATTTTACCCTTATATGG
1 TAAAATGACTATTTTACCCTTATGTGG
* *
43375112 TAAGATAACTATTTT
1 TAAAATGACTATTTT
43375127 TCCCCTAGTG
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
26 23 0.22
27 81 0.78
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTACCCTTATGTGG
Found at i:43375047 original size:53 final size:54
Alignment explanation
Indices: 43374978--43375114 Score: 231
Period size: 54 Copynumber: 2.6 Consensus size: 54
43374968 CCTTAATCGA
* *
43374978 TAAAATGACTATTTTACCCTTATGTGGTAAAATTATT-TTTTGCCCTTATGTGG
1 TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATATGG
*
43375031 TAAAATGACTAATTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATATGG
1 TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATATGG
*
43375085 TAAAATGACTATTTTACCCTTATATGGTAA
1 TAAAATGACTATTTTACCCTTATGTGGTAA
43375115 GATAACTATT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 35 0.45
54 43 0.55
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (54 bp):
TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATATGG
Found at i:43375490 original size:18 final size:18
Alignment explanation
Indices: 43375456--43375490 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43375446 ACTTGCATAC
**
43375456 TGTTTACTGTTTTTGCAT
1 TGTTTACTGTTACTGCAT
43375474 TGTTTACTGTTACTGCA
1 TGTTTACTGTTACTGCA
43375491 ATGGGCCAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.54
Consensus pattern (18 bp):
TGTTTACTGTTACTGCAT
Found at i:43384825 original size:21 final size:21
Alignment explanation
Indices: 43384767--43384826 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
43384757 GTCAAATTGG
43384767 TATCGATA-TTGTGTAT-AAAGA
1 TATCGATACTT-TGT-TCAAAGA
*
43384788 TATCGATACCTAT-TTCAAAGA
1 TATCGATA-CTTTGTTCAAAGA
43384809 TATCGATACTTTGTTCAA
1 TATCGATACTTTGTTCAA
43384827 GTTTTGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 4 0.12
21 27 0.82
22 1 0.03
23 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.38
Consensus pattern (21 bp):
TATCGATACTTTGTTCAAAGA
Found at i:43389728 original size:23 final size:23
Alignment explanation
Indices: 43389691--43389866 Score: 203
Period size: 23 Copynumber: 7.7 Consensus size: 23
43389681 GGAATCTATA
* *
43389691 GGCTACAATATAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
*
43389714 GGCTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAAT-ACAGTGGTAGCTTC
*
43389737 GGCTACAATACAGTGGTAACTTC
1 GGCTACAATACAGTGGTAGCTTC
*
43389760 GGCTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAAT-ACAGTGGTAGCTTC
*
43389783 GGCTACAATACAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
*
43389806 GGCTACAATACAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
** * *
43389829 GGCTACGTTACAGTGATAGCTGC
1 GGCTACAATACAGTGGTAGCTTC
* *
43389852 GGCTATATTACAGTG
1 GGCTACAATACAGTG
43389867 TGGCACTTTG
Statistics
Matches: 133, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
22 4 0.03
23 125 0.94
24 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCTACAATACAGTGGTAGCTTC
Found at i:43389764 original size:46 final size:46
Alignment explanation
Indices: 43389691--43389849 Score: 230
Period size: 46 Copynumber: 3.5 Consensus size: 46
43389681 GGAATCTATA
*
43389691 GGCTACAATATAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTC
* *
43389737 GGCTACAATACAGTGGTAACTTCGGCTACATCTCAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTC
* *
43389783 GGCTACAATACAGTGGTAGCTTTGGCTACAAT-ACAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTTGGCTAC-ATCTCAGTGGTAGCTTC
** *
43389829 GGCTACGTTACAGTGATAGCT
1 GGCTACAATACAGTGGTAGCT
43389850 GCGGCTATAT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 100 0.98
47 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
GGCTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTC
Found at i:43399592 original size:26 final size:27
Alignment explanation
Indices: 43399563--43399614 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
43399553 TATACCTAGA
43399563 CCCCAA-GTTGAT-AAATGACTATTATG
1 CCCCAATG-TGATAAAATGACTATTATG
* *
43399589 CCCCTATGTGGTAAAATGACTATTAT
1 CCCCAATGTGATAAAATGACTATTAT
43399615 ACCCTTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (27 bp):
CCCCAATGTGATAAAATGACTATTATG
Found at i:43407181 original size:17 final size:18
Alignment explanation
Indices: 43407153--43407188 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
43407143 GGGCCGAAAT
43407153 AGGCCGTGTGGGACCCAC
1 AGGCCGTGTGGGACCCAC
*
43407171 AGGCC-TGTGGGCCCCAC
1 AGGCCGTGTGGGACCCAC
43407188 A
1 A
43407189 CGGGTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.17, C:0.36, G:0.36, T:0.11
Consensus pattern (18 bp):
AGGCCGTGTGGGACCCAC
Found at i:43407495 original size:25 final size:27
Alignment explanation
Indices: 43407467--43407518 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
43407457 ACTAATTGAG
43407467 CATGC-CATTTTAT-ATATGTTGCATA
1 CATGCACATTTTATGATATGTTGCATA
*
43407492 CATGCATGATTTTATGATATGTTGCAT
1 CATGCA-CATTTTATGATATGTTGCAT
43407519 GGGGATAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
27 7 0.30
28 11 0.48
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (27 bp):
CATGCACATTTTATGATATGTTGCATA
Found at i:43411108 original size:44 final size:42
Alignment explanation
Indices: 43411058--43411211 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 42
43411048 GTTTTCGTGC
* *
43411058 AAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTACGTGT
1 AAGACCATGTCTAGGACGTTGGCATCGA-TT-TGATTTACATGT
* * *
43411102 AAGACCATGTCTAGGACATCGGCATCGTATTTGATTT-CATGA
1 AAGACCATGTCTAGGACGTTGGCATCG-ATTTGATTTACATGT
* * *
43411144 AAGACCCTGCCTAGGACAG-TGGCATCGATATTTGA-TTACATTT
1 AAGACCATGTCTAGGAC-GTTGGCATCG--ATTTGATTTACATGT
* *
43411187 AAGACCACGTCTGGGACGTTGGCAT
1 AAGACCATGTCTAGGACGTTGGCAT
43411212 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.31
43 35 0.39
44 26 0.29
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (42 bp):
AAGACCATGTCTAGGACGTTGGCATCGATTTGATTTACATGT
Found at i:43411191 original size:43 final size:42
Alignment explanation
Indices: 43411058--43411193 Score: 123
Period size: 42 Copynumber: 3.2 Consensus size: 42
43411048 GTTTTCGTGC
* * * * *
43411058 AAGACCATGTCTGGGACGTTGGCATCG-ACTTATGATTTACGTGT
1 AAGACCATGCCTAGGACATCGGCATCGTA-TT-TGA-TTACATGT
* * *
43411102 AAGACCATGTCTAGGACATCGGCATCGTATTTGATTTCATGA
1 AAGACCATGCCTAGGACATCGGCATCGTATTTGATTACATGT
* *
43411144 AAGACCCTGCCTAGGACAGT-GGCATCGATATTTGATTACATTT
1 AAGACCATGCCTAGGACA-TCGGCATCG-TATTTGATTACATGT
43411187 AAGACCA
1 AAGACCA
43411194 CGTCTGGGAC
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
42 28 0.36
43 22 0.29
44 26 0.34
45 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (42 bp):
AAGACCATGCCTAGGACATCGGCATCGTATTTGATTACATGT
Found at i:43425395 original size:42 final size:44
Alignment explanation
Indices: 43425297--43425451 Score: 151
Period size: 43 Copynumber: 3.6 Consensus size: 44
43425287 TGTTTTCATT
* * *
43425297 TAAGACCACGTCTGGGAC-GTTGGCATCGACT-TATGATTTACGTG
1 TAAGACCATGTCTAGGACAG-TGGCATCGA-TATTTGATTTACGTG
*
43425341 TAAGACCATGTCTAGGACA-TCGGCGTCG-TATTTGATTT-CGTG
1 TAAGACCATGTCTAGGACAGT-GGCATCGATATTTGATTTACGTG
* * *
43425383 TAGGACCCTGTCTAGGACAGTGGCATCGATATTTGA-TTACATG
1 TAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTTACGTG
* * *
43425426 TAAGACCACGTCTGGGACATTGGCAT
1 TAAGACCATGTCTAGGACAGTGGCAT
43425452 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
42 30 0.33
43 40 0.43
44 22 0.24
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (44 bp):
TAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTTACGTG
Found at i:43428638 original size:30 final size:30
Alignment explanation
Indices: 43428604--43428664 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43428594 TCCTTAACTC
43428604 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
43428634 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
43428664 A
1 A
43428665 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:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:43432313 original size:42 final size:43
Alignment explanation
Indices: 43432212--43432349 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 43
43432202 TAAGCTCATA
* * * *
43432212 CAATGCCAACGTCCTAGAC-GTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATAT
* *
43432255 CAATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATA-
1 CAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATAT
* *
43432297 CGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-AT
1 CAATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCA-AATAT
*
43432341 CGATGCCAA
1 CAATGCCAA
43432350 CATCCAAGAC
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 29 0.36
43 41 0.51
44 11 0.14
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAATAT
Found at i:43432369 original size:86 final size:85
Alignment explanation
Indices: 43432209--43432382 Score: 194
Period size: 86 Copynumber: 2.0 Consensus size: 85
43432199 TCATAAGCTC
* * * * *
43432209 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCAATGCCACTATCCAAGAC
*
43432274 AGGGTCTTACACGA-AATCAT
66 AGGATCTTACACGATAA-CAT
* * *
43432294 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCGATGCCAAC-ATCCAA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACGT-AATCA-AATATCAATGCC-ACTATCCAA
43432357 GAC-GTGATCTTACACGATAACAT
63 GACAG-GATCTTACACGATAACAT
43432380 ATA
1 ATA
43432383 TTAGAATCCT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
85 32 0.43
86 37 0.49
87 6 0.08
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCAATGCCACTATCCAAGAC
AGGATCTTACACGATAACAT
Found at i:43434688 original size:38 final size:38
Alignment explanation
Indices: 43434646--43435057 Score: 452
Period size: 38 Copynumber: 10.9 Consensus size: 38
43434636 TTGGGCCATG
**
43434646 TGCCTAGCAGGCTTTGTGCCGGTGATATTTAGGCTCTA
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * *
43434684 TGCCTAACAAGCTGTGTGCCGGTGATATTCGGGCTCTA
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * ** * * *
43434722 TGCCTTGCAGGGTTTGTGCTAGTGTTATTCAGGCTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * * *
43434760 TGCCTAGCAGGCTTTGTGCAGGTGATATTAGGGCTTTG
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * *
43434798 TGCCTAGCAGGCTATGTGCCGGTGATATTTGGGCTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * * * *
43434836 TGCCTAGCAGGCTTTGTGCAGGTGTTATTTGGCCTTTA
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * * *
43434874 TG---AGCAAGTTTTGTGCCGGTGATATTCAGGCTCTT
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * *
43434909 TGCCTACCAGGCTGTGTGCCAGTGATATTCGGGCTCTA
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * *
43434947 TGCTTAGCAGGCTTTGTGCTGGTGTTATTCGGGCTCTA
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* *
43434985 TGCCTAGCAGGCTTTGTGCTGGTGATATTCGGGCTCTG
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
* * *
43435023 TGCCTAGCAAGCTTTGTGTCGGTGTTATTCGGGCT
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCT
43435058 TTGTGCTGGT
Statistics
Matches: 309, Mismatches: 62, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
35 26 0.08
38 283 0.92
ACGTcount: A:0.14, C:0.20, G:0.31, T:0.35
Consensus pattern (38 bp):
TGCCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTA
Found at i:43435061 original size:22 final size:22
Alignment explanation
Indices: 43435033--43435085 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
43435023 TGCCTAGCAA
43435033 GCTTTGTG-TCGGTGTTATTCGG
1 GCTTTGTGCT-GGTGTTATTCGG
43435055 GCTTTGTGCTGGTGTTATTCGG
1 GCTTTGTGCTGGTGTTATTCGG
*
43435077 GCTATGTGC
1 GCTTTGTGC
43435086 CTGCAAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.06, C:0.15, G:0.36, T:0.43
Consensus pattern (22 bp):
GCTTTGTGCTGGTGTTATTCGG
Found at i:43439943 original size:27 final size:27
Alignment explanation
Indices: 43439889--43439945 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
43439879 TCCTCATGGT
* *
43439889 CTTCCATAAAAGATAGTCCTGGTAGAC
1 CTTCCACAAAAGATAGTCCTGATAGAC
* * *
43439916 CTTCCACATAAGATAGTCTTGATCGAC
1 CTTCCACAAAAGATAGTCCTGATAGAC
43439943 CTT
1 CTT
43439946 TCGTATTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (27 bp):
CTTCCACAAAAGATAGTCCTGATAGAC
Found at i:43439988 original size:26 final size:26
Alignment explanation
Indices: 43439957--43440012 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
43439947 CGTATTTCAA
*
43439957 ATAGTCCTAACAGACTTCCATAAAAG
1 ATAGTCCTAACAGACTTCCACAAAAG
* * *
43439983 ATAGTCTTGACGGACTTCCACAAAAG
1 ATAGTCCTAACAGACTTCCACAAAAG
43440009 ATAG
1 ATAG
43440013 CCTTGGCGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (26 bp):
ATAGTCCTAACAGACTTCCACAAAAG
Found at i:43440025 original size:108 final size:108
Alignment explanation
Indices: 43439889--43440084 Score: 261
Period size: 108 Copynumber: 1.8 Consensus size: 108
43439879 TCCTCATGGT
* * * **
43439889 CTTCCATAAAAGATAGTCCTGGTAGACCTTCCACATAAGATAGTCTTGATCGACCTT-TCGTATT
1 CTTCCACAAAAGATAGTCCTGGCAGACCTTCCACATAAGATAGTCTTGATCGA-CTTCCCACATT
43439953 TCAAATAGTCCTAACAGACTTCCATAAAAGATAGTCTTGACGGA
65 TCAAATAGTCCTAACAGACTTCCATAAAAGATAGTCTTGACGGA
* * * *
43439997 CTTCCACAAAAGATAG-CCTTGGCGGACCTTTCACATTAGATAGTCTTGATGGACTTCCCACATT
1 CTTCCACAAAAGATAGTCC-TGGCAGACCTTCCACATAAGATAGTCTTGATCGACTTCCCACATT
* *
43440061 TCAAATAGTCCTTACGGACTTCCA
65 TCAAATAGTCCTAACAGACTTCCA
43440085 CATATATAGT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 5 0.07
108 70 0.93
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (108 bp):
CTTCCACAAAAGATAGTCCTGGCAGACCTTCCACATAAGATAGTCTTGATCGACTTCCCACATTT
CAAATAGTCCTAACAGACTTCCATAAAAGATAGTCTTGACGGA
Found at i:43440038 original size:27 final size:26
Alignment explanation
Indices: 43439969--43440054 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
43439959 AGTCCTAACA
*
43439969 GACTTCCATAAAAGATAGTCTTGACG
1 GACTTCCACAAAAGATAGTCTTGACG
* *
43439995 GACTTCCACAAAAGATAGCCTTGGCG
1 GACTTCCACAAAAGATAGTCTTGACG
* ** *
43440021 GACCTTTCACATTAGATAGTCTTGATG
1 GA-CTTCCACAAAAGATAGTCTTGACG
43440048 GACTTCC
1 GACTTCC
43440055 CACATTTCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
26 29 0.59
27 20 0.41
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
GACTTCCACAAAAGATAGTCTTGACG
Found at i:43440058 original size:27 final size:26
Alignment explanation
Indices: 43439981--43440087 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 26
43439971 CTTCCATAAA
**
43439981 AGATAGTCTTGACGGACTTCCACAAA
1 AGATAGTCTTGACGGACTTCCACATT
* * *
43440007 AGATAGCCTTGGCGGACCTTTCACATT
1 AGATAGTCTTGACGGA-CTTCCACATT
*
43440034 AGATAGTCTTGATGGACTTCCCACATTT
1 AGATAGTCTTGACGGACTT-CCACA-TT
*
43440062 CAAATAGTCCTT-ACGGACTTCCACAT
1 -AGATAGT-CTTGACGGACTTCCACAT
43440088 ATATAGTATT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
26 17 0.26
27 25 0.38
28 7 0.11
29 13 0.20
30 3 0.05
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
AGATAGTCTTGACGGACTTCCACATT
Found at i:43441607 original size:16 final size:16
Alignment explanation
Indices: 43441586--43441617 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43441576 TAACTTGTAG
43441586 GATTAATTATTGGTCT
1 GATTAATTATTGGTCT
43441602 GATTAATTATTGGTCT
1 GATTAATTATTGGTCT
43441618 CCCAAACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
GATTAATTATTGGTCT
Found at i:43451110 original size:13 final size:13
Alignment explanation
Indices: 43451092--43451117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43451082 AAAAATATAA
43451092 TAGGAATCAGATT
1 TAGGAATCAGATT
43451105 TAGGAATCAGATT
1 TAGGAATCAGATT
43451118 GTATTTTTTT
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:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
TAGGAATCAGATT
Done.