Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 86 of 207
Found at i:25132527 original size:43 final size:42
Alignment explanation
Indices: 25132432--25132554 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
25132422 CATAAAACTG
* * *
25132432 ACAAAATGCCATAGAGGCCATATCAGAATACCACAAAGGTTA
1 ACAAAATGCCACAAAGGCCATATCAGAATACCACAAAGGCTA
* *
25132474 GCAAAATGCCACAAAGGCCATATTAGAATA-CACCTAAAGGCTA
1 ACAAAATGCCACAAAGGCCATATCAGAATACCA-C-AAAGGCTA
25132517 ACAAAATGCCACAAAGGCCA-A-CAGAATACCACAAAGGC
1 ACAAAATGCCACAAAGGCCATATCAGAATACCACAAAGGC
25132555 CATATTAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
40 6 0.08
41 9 0.13
42 30 0.42
43 26 0.37
ACGTcount: A:0.46, C:0.24, G:0.16, T:0.13
Consensus pattern (42 bp):
ACAAAATGCCACAAAGGCCATATCAGAATACCACAAAGGCTA
Found at i:25132534 original size:20 final size:20
Alignment explanation
Indices: 25132458--25132556 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
25132448 GCCATATCAG
** *
25132458 AATACCACAAAGGTTAGCAA
1 AATACCACAAAGGCCAACAA
* * *
25132478 AATGCCACAAAGGCCATATTAG
1 AATACCACAAAGGCCA-A-CAA
*
25132500 AATA-CACCTAAAGGCTAACAA
1 AATACCA-C-AAAGGCCAACAA
* *
25132521 AATGCCACAAAGGCCAACAG
1 AATACCACAAAGGCCAACAA
25132541 AATACCACAAAGGCCA
1 AATACCACAAAGGCCA
25132557 TATTAAAATA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
20 38 0.63
21 7 0.12
22 8 0.13
23 7 0.12
ACGTcount: A:0.47, C:0.25, G:0.15, T:0.12
Consensus pattern (20 bp):
AATACCACAAAGGCCAACAA
Found at i:25133710 original size:115 final size:115
Alignment explanation
Indices: 25133508--25133757 Score: 448
Period size: 115 Copynumber: 2.2 Consensus size: 115
25133498 ACGAGATACA
* *
25133508 TAAAAACTTTACTACTAATGGGTTTAATAATTTTGCTTAAAAACTTTACTCGAATACATAAAGTG
1 TAAAAAATTTACTACTAATGGGTTTAATAATTTTGCTTAAAAAATTTACTCGAATACATAAAGTG
*
25133573 GACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCTTTATTCCT
66 GACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
25133623 TAAAAAATTTACTACTAATGGGTTTAATAATTTTGCTTAAAAAATTTACTC-AGATACATAAAGT
1 TAAAAAATTTACTACTAATGGGTTTAATAATTTTGCTTAAAAAATTTACTCGA-ATACATAAAGT
*
25133687 GGATGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
65 GGACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
25133738 TAAAAAATTTACTACTAATG
1 TAAAAAATTTACTACTAATG
25133758 TAGCATGTTT
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
114 1 0.01
115 129 0.99
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (115 bp):
TAAAAAATTTACTACTAATGGGTTTAATAATTTTGCTTAAAAAATTTACTCGAATACATAAAGTG
GACGCTCTGACTTCACTCGAATCTCAAGTATCTTTGATATCCTTATTCCT
Found at i:25138657 original size:21 final size:21
Alignment explanation
Indices: 25138625--25138665 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25138615 TAATAACAAC
25138625 TAATAATAATTATATT-TTATA
1 TAATAATAATTA-ATTGTTATA
25138646 TAAT-ATATATTAATTGTTAT
1 TAATAATA-ATTAATTGTTAT
25138666 TAACCTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TAATAATAATTAATTGTTATA
Found at i:25139933 original size:33 final size:33
Alignment explanation
Indices: 25139891--25139968 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
25139881 CTTATCAGTA
25139891 CGTGACATAACAACCCATCCTCACGCAATATAT
1 CGTGACATAACAACCCATCCTCACGCAATATAT
25139924 CGTGACATAACAACCCATCCTCACGCAATATAT
1 CGTGACATAACAACCCATCCTCACGCAATATAT
25139957 CGTGACATAACA
1 CGTGACATAACA
25139969 TCGTACGTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.21
Consensus pattern (33 bp):
CGTGACATAACAACCCATCCTCACGCAATATAT
Found at i:25140073 original size:27 final size:27
Alignment explanation
Indices: 25140054--25140356 Score: 392
Period size: 27 Copynumber: 11.3 Consensus size: 27
25140044 GGGTATGACA
25140054 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
25140081 ATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
**
25140108 GTCATTTTACCCTATGGGGGTATTTTT
1 GTCATTTTACCCTATGGGGGTATTTCG
* * **
25140135 TTCATTCTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25140162 GTTATTTAACCCTATGGGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25140189 GTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25140216 ATCAATTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
25140243 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25140269 ATCATTCTACCATATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
25140296 GTCATTCTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25140323 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
25140350 GTAATTT
1 GTCATTT
25140357 ATCGACCTCT
Statistics
Matches: 237, Mismatches: 38, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 22 0.09
27 215 0.91
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:25157100 original size:40 final size:40
Alignment explanation
Indices: 25157016--25157199 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
25157006 TTGAATGCTG
* * * *
25157016 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
25157055 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
25157096 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
25157136 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
25157176 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25157200 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:25157153 original size:80 final size:81
Alignment explanation
Indices: 25157016--25157196 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
25157006 TTGAATGCTG
* * *
25157016 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
25157080 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
25157096 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
25157157 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
25157176 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
25157197 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:25157220 original size:39 final size:38
Alignment explanation
Indices: 25157097--25157246 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
25157087 GTTATTAATT
* ** * *
25157097 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
25157137 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
25157176 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
25157216 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
25157247 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:25164997 original size:40 final size:40
Alignment explanation
Indices: 25164913--25165096 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
25164903 TTGAATGCTG
* * * *
25164913 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
25164952 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * **
25164993 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACCAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
25165033 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
25165073 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25165097 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 110 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:25165117 original size:39 final size:39
Alignment explanation
Indices: 25164993--25165143 Score: 117
Period size: 40 Copynumber: 3.8 Consensus size: 39
25164983 AGTTATTAAT
* ** * * *
25164993 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATAC-CAAT
1 TCCGGGTTAAGTCCCGAAGG-CATTGAACGAG-TTCTAAAA
** *
25165033 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
25165073 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
25165113 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
25165144 GAGCTATATC
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 29 0.31
40 64 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:25167969 original size:29 final size:29
Alignment explanation
Indices: 25167926--25168020 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
25167916 ATATCGACTC
* *
25167926 AGACTAGACTTAAATTGGTATGTACCTCT
1 AGACTCGACTTAAATTGGCATGTACCTCT
*
25167955 TGACTCGACTTAAATTGGCATGTACCTCT
1 AGACTCGACTTAAATTGGCATGTACCTCT
25167984 AGACTCGACTTAAATTGGCATGTACCTCT
1 AGACTCGACTTAAATTGGCATGTACCTCT
25168013 AGACTCGA
1 AGACTCGA
25168021 TTCTAAGCTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (29 bp):
AGACTCGACTTAAATTGGCATGTACCTCT
Found at i:25171345 original size:23 final size:23
Alignment explanation
Indices: 25171315--25171377 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
25171305 TTTTTTTCAA
*
25171315 AGAATATTTACTGTTCACGCCAG
1 AGAATATTTACTGTTCACACCAG
* *
25171338 AGAATATTTACTATTCACATCAG
1 AGAATATTTACTGTTCACACCAG
*
25171361 AGAATATTTATTGTTCA
1 AGAATATTTACTGTTCA
25171378 TTCGTCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (23 bp):
AGAATATTTACTGTTCACACCAG
Found at i:25176419 original size:29 final size:29
Alignment explanation
Indices: 25176361--25176419 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
25176351 TCTGAGCCTT
**
25176361 GGGGAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAATGTAATTATGTAAAAAATTA
*
25176390 GGGGAAAAATCGTAATTTTG-AAAAAATTA
1 GGGGAAAAAT-GTAATTATGTAAAAAATTA
25176419 G
1 G
25176420 AGTCGATGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.29
Consensus pattern (29 bp):
GGGGAAAAATGTAATTATGTAAAAAATTA
Found at i:25176866 original size:50 final size:50
Alignment explanation
Indices: 25176755--25176995 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
25176745 ATTTGGTTAA
*
25176755 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCAG-TGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-GTTGGCA-CC--GAG---ATG
25176811 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
25176861 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * *
25176911 AGAGGTCGCC-CGTAAGACTATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
**
25176961 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
25176996 ATTTGGCATG
Statistics
Matches: 167, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
50 96 0.57
51 26 0.16
53 3 0.02
55 3 0.02
56 39 0.23
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:25195713 original size:23 final size:23
Alignment explanation
Indices: 25195678--25195772 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
25195668 GATAAGATCA
* *
25195678 ATTCTGTGATGCCTTTTTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
* *
25195701 ATTCTATGCTGCCTTTGTGTCGT
1 ATTCTATGATGCCTTTGTGGCGT
** *
25195724 ATTCTGCGATGCCTTTGTGGTGT
1 ATTCTATGATGCCTTTGTGGCGT
25195747 ATTCTATGATGCCTTTGTGGCGT
1 ATTCTATGATGCCTTTGTGGCGT
25195770 ATT
1 ATT
25195773 TTGTAACGTC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (23 bp):
ATTCTATGATGCCTTTGTGGCGT
Found at i:25195749 original size:46 final size:46
Alignment explanation
Indices: 25195678--25195772 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
25195668 GATAAGATCA
* * * *
25195678 ATTCTGTGATGCCTTTTTGGCGTATTCTATGCTGCCTTTGTGTCGT
1 ATTCTGCGATGCCTTTGTGGCGTATTCTATGATGCCTTTGTGGCGT
*
25195724 ATTCTGCGATGCCTTTGTGGTGTATTCTATGATGCCTTTGTGGCGT
1 ATTCTGCGATGCCTTTGTGGCGTATTCTATGATGCCTTTGTGGCGT
25195770 ATT
1 ATT
25195773 TTGTAACGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (46 bp):
ATTCTGCGATGCCTTTGTGGCGTATTCTATGATGCCTTTGTGGCGT
Found at i:25198361 original size:14 final size:14
Alignment explanation
Indices: 25198342--25198369 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25198332 CTAATTTATT
25198342 AATGAATTATTAAA
1 AATGAATTATTAAA
25198356 AATGAATTATTAAA
1 AATGAATTATTAAA
25198370 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:25207604 original size:14 final size:14
Alignment explanation
Indices: 25207585--25207612 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25207575 CCAATTTATT
25207585 AATGAATTATTAAA
1 AATGAATTATTAAA
25207599 AATGAATTATTAAA
1 AATGAATTATTAAA
25207613 TATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:25210026 original size:10 final size:9
Alignment explanation
Indices: 25209997--25210022 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25209987 TGAAAAATAT
25209997 AATATTTTA
1 AATATTTTA
25210006 AATATTTTA
1 AATATTTTA
25210015 AATATTTT
1 AATATTTT
25210023 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:25211633 original size:16 final size:16
Alignment explanation
Indices: 25211612--25211642 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25211602 ATAAATTGAG
25211612 CAAAAAACCTAGAAAC
1 CAAAAAACCTAGAAAC
*
25211628 CAAAAAACTTAGAAA
1 CAAAAAACCTAGAAA
25211643 GTAAGAACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (16 bp):
CAAAAAACCTAGAAAC
Found at i:25215570 original size:7 final size:7
Alignment explanation
Indices: 25215558--25215586 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
25215548 TTTGGCTTAA
25215558 TCTTTCT
1 TCTTTCT
25215565 TCTTTCT
1 TCTTTCT
25215572 TCTTTCT
1 TCTTTCT
25215579 TCTTTCT
1 TCTTTCT
25215586 T
1 T
25215587 TCTTCCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTCT
Found at i:25218442 original size:28 final size:28
Alignment explanation
Indices: 25218402--25218591 Score: 136
Period size: 28 Copynumber: 6.7 Consensus size: 28
25218392 ATCTTTATTA
25218402 AAAGGAAGT-CTTTGTGGCGATCTCTGTT
1 AAAGGAA-TCCTTTGTGGCGATCTCTGTT
*
25218430 AAAGGAATCCTTTGTGGTGATCTCTGTT
1 AAAGGAATCCTTTGTGGCGATCTCTGTT
** * ** *
25218458 AAAAAAATTCTTTGTAACGATCTTTGTT
1 AAAGGAATCCTTTGTGGCGATCTCTGTT
* * *
25218486 AAAGGAAGCCTTTATGGCTATCTCTGTT
1 AAAGGAATCCTTTGTGGCGATCTCTGTT
* **
25218514 AAAAGG-ATGCCTTTGTGGCTATCTCAATT
1 -AAAGGAAT-CCTTTGTGGCGATCTCTGTT
* * * *
25218543 AAATGAAT-GTCTTGTGGCAAACTCTGTT
1 AAAGGAATCCT-TTGTGGCGATCTCTGTT
*
25218571 AAAAGG-ATGCCTTCGTGGCGA
1 -AAAGGAAT-CCTTTGTGGCGA
25218592 GACTCTGAAA
Statistics
Matches: 123, Mismatches: 31, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
27 2 0.02
28 85 0.69
29 35 0.28
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (28 bp):
AAAGGAATCCTTTGTGGCGATCTCTGTT
Found at i:25218479 original size:56 final size:56
Alignment explanation
Indices: 25218410--25218517 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
25218400 TAAAAGGAAG
** * *
25218410 TCTTTGTGGCGATCTCTGTTAAAGGAATCCTTTGTGG-TGATCTCTGTTAAAAAAAT
1 TCTTTGTAACGATCTCTGTTAAAGGAAGCCTTTATGGCT-ATCTCTGTTAAAAAAAT
*
25218466 TCTTTGTAACGATCTTTGTTAAAGGAAGCCTTTATGGCTATCTCTGTTAAAA
1 TCTTTGTAACGATCTCTGTTAAAGGAAGCCTTTATGGCTATCTCTGTTAAAA
25218518 GGATGCCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 45 0.98
57 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (56 bp):
TCTTTGTAACGATCTCTGTTAAAGGAAGCCTTTATGGCTATCTCTGTTAAAAAAAT
Found at i:25218526 original size:29 final size:29
Alignment explanation
Indices: 25218316--25218589 Score: 163
Period size: 29 Copynumber: 9.7 Consensus size: 29
25218306 CTTATATTCG
25218316 TAAAAGTGA-GCCTTTGTGGCTA--TCT-T
1 TAAAAG-GATGCCTTTGTGGCTATCTCTGT
* * * * *
25218342 TGAAAGGACGCCTTTATGACAATCTCTGT
1 TAAAAGGATGCCTTTGTGGCTATCTCTGT
* * * ** * *
25218371 TAAAAAGACGCCCTTGTGGAAATCTTTAT
1 TAAAAGGATGCCTTTGTGGCTATCTCTGT
* * *
25218400 TAAAAGGAAGTCTTTGTGGCGATCTCTGT
1 TAAAAGGATGCCTTTGTGGCTATCTCTGT
25218429 T-AAAGGAAT-CCTTTGTGG-TGATCTCTGT
1 TAAAAGG-ATGCCTTTGTGGCT-ATCTCTGT
** * ** * *
25218457 TAAAAAAAT-TCTTTGTAACGATCTTTGT
1 TAAAAGGATGCCTTTGTGGCTATCTCTGT
* *
25218485 T-AAAGGAAGCCTTTATGGCTATCTCTGT
1 TAAAAGGATGCCTTTGTGGCTATCTCTGT
**
25218513 TAAAAGGATGCCTTTGTGGCTATCTCAAT
1 TAAAAGGATGCCTTTGTGGCTATCTCTGT
* * * * *
25218542 TAAATGAATGTC-TTGTGGCAAACTCTGT
1 TAAAAGGATGCCTTTGTGGCTATCTCTGT
*
25218570 TAAAAGGATGCCTTCGTGGC
1 TAAAAGGATGCCTTTGTGGC
25218590 GAGACTCTGA
Statistics
Matches: 183, Mismatches: 54, Indels: 19
0.71 0.21 0.07
Matches are distributed among these distances:
25 2 0.01
26 15 0.08
27 4 0.02
28 76 0.42
29 86 0.47
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (29 bp):
TAAAAGGATGCCTTTGTGGCTATCTCTGT
Found at i:25218616 original size:57 final size:56
Alignment explanation
Indices: 25218507--25218617 Score: 125
Period size: 57 Copynumber: 1.9 Consensus size: 56
25218497 TTATGGCTAT
* * * * * * *
25218507 CTCTGTTAAAAGGATGCCTTTGTGGCTATCTCAATTAAATGAATGTCTTGTGGCAAA
1 CTCTGTTAAAAGGATGCCTTCGTGGCGAACTC-ATGAAAGGAAAGCCTTGTGGCAAA
25218564 CTCTGTTAAAAGGATGCCTTCGTGGCGAGACTC-TGAAAGGAAAGCCTCTGTGGC
1 CTCTGTTAAAAGGATGCCTTCGTGGCGA-ACTCATGAAAGGAAAGCCT-TGTGGC
25218618 TATCTTTGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
56 10 0.22
57 32 0.71
58 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (56 bp):
CTCTGTTAAAAGGATGCCTTCGTGGCGAACTCATGAAAGGAAAGCCTTGTGGCAAA
Found at i:25219704 original size:5 final size:5
Alignment explanation
Indices: 25219696--25219721 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25219686 AAATAAAAAT
25219696 AAGAA AAGAA AAGAA AAGAA AAGAA A
1 AAGAA AAGAA AAGAA AAGAA AAGAA A
25219722 TAGGGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:25220098 original size:15 final size:14
Alignment explanation
Indices: 25220078--25220115 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
25220068 TAAGGTTTAT
25220078 GAATTATGGAATTA
1 GAATTATGGAATTA
25220092 CGAATTAT-GAATTA
1 -GAATTATGGAATTA
25220106 GAGATTATGG
1 GA-ATTATGG
25220116 TTTAAGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (14 bp):
GAATTATGGAATTA
Found at i:25221287 original size:33 final size:33
Alignment explanation
Indices: 25221245--25221310 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
25221235 ATCTTGCTTA
25221245 CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
1 CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
25221278 CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
1 CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
25221311 TAACCATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (33 bp):
CACAAAAAAATAAGCTTTACAAAGTTTAAAATT
Found at i:25222109 original size:3 final size:3
Alignment explanation
Indices: 25222101--25222160 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
25222091 ACACACCTAT
* *
25222101 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ACG ACG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
25222149 ATG ATG ATG ATG
1 ATG ATG ATG ATG
25222161 TTATTAGCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:25225196 original size:43 final size:43
Alignment explanation
Indices: 25225105--25225410 Score: 307
Period size: 43 Copynumber: 7.2 Consensus size: 43
25225095 TATTTTTACT
* * * *
25225105 GGCGTTT-TTGTGAGAAGCGTCGCTAAAGGT-TTGTTCTATAAC
1 GGCGTTTGTTG-GAAAAGCGCCGCTAAAGGTATTGATCTATAGC
* *
25225147 GGCGTTTGTTGGAAAATCGCCGCTAAAGGTATTGAGCTATAGC
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTATTGATCTATAGC
* * * * *
25225190 GACGTTTGTAGAAAAAGCACCGCTAAAGGTCA-TGATCTATAAC
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGT-ATTGATCTATAGC
* ** * * * *
25225233 GGCGTTTGTGGGAAAAATGCCACTAAAGGTCTTAAGCTATAGC
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTATTGATCTATAGC
* * *
25225276 GGCGTTTGTTGGAAAAGCGTCGCTAAAGGTCTTGAGCTATAGC
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTATTGATCTATAGC
* * * **
25225319 GGCGTTTG-TGTAAAAGAGCCGTTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTATTGATCTATAGC
*
25225361 AGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCA-TGATCTATAGC
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGT-ATTGATCTATAGC
25225404 GGCGTTT
1 GGCGTTT
25225411 ATTTCTAAAA
Statistics
Matches: 216, Mismatches: 42, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
42 58 0.27
43 157 0.73
44 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTATTGATCTATAGC
Found at i:25225234 original size:86 final size:85
Alignment explanation
Indices: 25225119--25225410 Score: 338
Period size: 86 Copynumber: 3.4 Consensus size: 85
25225109 TTTTTGTGAG
* * * *
25225119 AAGCGTCGCTAAAGGT-TTGTTCTATAACGGCGTTTGTTGGAAAATCGCCGCTAAAGGTATTGAG
1 AAGCGCCGCTAAAGGTCATGATCTATAACGGCGTTTGTTGGAAAAT-GCCGCTAAAGGTCTTGAG
* *
25225183 CTATAGCGACGTTTGTAGAAA
65 CTATAGCGACGTTTGTTGGAA
* * * *
25225204 AAGCACCGCTAAAGGTCATGATCTATAACGGCGTTTGTGGGAAAAATGCCACTAAAGGTCTTAAG
1 AAGCGCCGCTAAAGGTCATGATCTATAACGGCGTTTGTTGG-AAAATGCCGCTAAAGGTCTTGAG
*
25225269 CTATAGCGGCGTTTGTTGGAA
65 CTATAGCGACGTTTGTTGGAA
* * * * * * * * *
25225290 AAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCGTTTG-TGTAAAAGAGCCGTTAAAGGTCCTGAT
1 AAGCGCCGCTAAAGGTCATGATCTATAACGGCGTTTGTTGGAAAA-TGCCGCTAAAGGTCTTGAG
25225354 CTATAGC-AGCGTTTGTTGGAA
65 CTATAGCGA-CGTTTGTTGGAA
*
25225375 AAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCATGATCTATAACGGCGTTT
25225411 ATTTCTAAAA
Statistics
Matches: 175, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
84 4 0.02
85 80 0.46
86 86 0.49
87 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (85 bp):
AAGCGCCGCTAAAGGTCATGATCTATAACGGCGTTTGTTGGAAAATGCCGCTAAAGGTCTTGAGC
TATAGCGACGTTTGTTGGAA
Found at i:25225469 original size:12 final size:12
Alignment explanation
Indices: 25225452--25225480 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
25225442 TTGACAACAA
25225452 CGGCGTTTTTTG
1 CGGCGTTTTTTG
25225464 CGGCGTTTTTTG
1 CGGCGTTTTTTG
25225476 CGGCG
1 CGGCG
25225481 CTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.38, T:0.41
Consensus pattern (12 bp):
CGGCGTTTTTTG
Found at i:25245281 original size:42 final size:42
Alignment explanation
Indices: 25245234--25245464 Score: 209
Period size: 42 Copynumber: 5.5 Consensus size: 42
25245224 GGCTTAGCGC
* *
25245234 CTAGCAGGCTTATTGCCAGTGAAACAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * * * *
25245276 CTAGCAGGCTTAATGTCGGTGAAATAATTTCAAACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * * * *
25245318 ATAGCAGGCTTGATACTGGTGAAATAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * * *
25245360 CTAGCAGACTTAATGCCGGTGAAAC-ATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* *** * * *
25245401 CTAGCAGGC-TAAGTGCCGGTGTATTGA-ATCAGGCTTTAAGC
1 CTAGCAGGCTTAA-TGCCGGTGAAACAATATCAGACTTTACGT
25245442 CTAGCAGGC-TAAGTGCCGGTGAA
1 CTAGCAGGCTTAA-TGCCGGTGAA
25245465 TCTATTTAAA
Statistics
Matches: 153, Mismatches: 34, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
40 3 0.02
41 61 0.40
42 89 0.58
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
Found at i:25245359 original size:84 final size:83
Alignment explanation
Indices: 25245252--25245410 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 83
25245242 CTTATTGCCA
* * *
25245252 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGTCGGTGAAATAATTTCAAACTTTATG
1 GTGAAACAATATCAGACTTTACGTCTAGCAGACTTAATGCCGGTGAAA-AATTTCAAACTATATG
25245317 TATAGCAGGCTTGATACTG
65 TATAGCAGGCTTGATACTG
* * *
25245336 GTGAAATAATATCAGACTTTACGTCTAGCAGACTTAATGCCGGTGAAACATTTCAGACTATATGT
1 GTGAAACAATATCAGACTTTACGTCTAGCAGACTTAATGCCGGTGAAAAATTTCAAACTATATGT
*
25245401 CTAGCAGGCT
66 ATAGCAGGCT
25245411 AAGTGCCGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
83 23 0.34
84 45 0.66
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (83 bp):
GTGAAACAATATCAGACTTTACGTCTAGCAGACTTAATGCCGGTGAAAAATTTCAAACTATATGT
ATAGCAGGCTTGATACTG
Found at i:25246842 original size:344 final size:343
Alignment explanation
Indices: 25246216--25247249 Score: 1872
Period size: 344 Copynumber: 3.0 Consensus size: 343
25246206 TCGTAATTTG
*
25246216 TTATATTGTATATGAATTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
1 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
25246281 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTT-AAATTTTGCATGTTTAATATTA
66 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
*
25246345 GACCTAGCTTATCATATGGAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
131 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
*
25246410 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGCAACGGATACGAGTTAGGGGTGTTACAAAT
196 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGCAACGGATACGGGTTAGGGGTGTTACAAAT
* *
25246475 GGTATTTCTACAGAAGTTTTTTCTATTGATAACATAATGAATTTTTTATCAATAGAAAATGGTAA
261 GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAAT-AAATTTTTATCAATAGAAAATGGTAA
25246540 ATGTTGATATATAAAATTA
325 ATGTTGATATATAAAATTA
25246559 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
1 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
*
25246624 GTAATGTCTTGGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
66 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
25246689 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
131 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
* *
25246754 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGCAACAGATACGGGTTAGGGGTGTTACAATT
196 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGCAACGGATACGGGTTAGGGGTGTTACAAAT
* * *
25246819 GGTATTTCTACAGAATTTTTTTCTACTGATAACATAATAAAAATTTTATCAATAGAAAATGGTCA
261 GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAAT-AAATTTTTATCAATAGAAAATGGTAA
25246884 ATGTTGATATATAAAATTA
325 ATGTTGATATATAAAATTA
*
25246903 TTATATTGTATATAAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
1 TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
25246968 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
66 GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
*
25247033 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTTTGTTCTGAGTTGT
131 GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
* * * *
25247098 GTTTTGATTAGCAATGCCTCTTAACCCTAATTAGGTAATGGATACGGGTTAGGGGTGTTACAAAT
196 GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGCAACGGATACGGGTTAGGGGTGTTACAAAT
*
25247163 GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAATTTAATTTTTATCAATAGAAAATGGTAA
261 GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAA-TAAATTTTTATCAATAGAAAATGGTAA
25247228 ATGTTGATATATAAAATTA
325 ATGTTGATATATAAAATTA
25247247 TTA
1 TTA
25247250 CCTAATAATA
Statistics
Matches: 664, Mismatches: 25, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
343 105 0.16
344 558 0.84
345 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (343 bp):
TTATATTGTATATGAACTTAATAGCCATACGAAATTGGTTTATTTCCTTATGGATTTGCTAGTTT
GTAATGTCTTTGTTTTGTTTTAAATGGTCAAAAGAGAAGCTTAAAATTTTGCATGTTTAATATTA
GACCTAGCTTATCATATGTAACTGTTATAATTATTGAACTTTAATGAATGTCTGTTCTGAGTTGT
GTTTTGATTAGTAATGCCTCTTAACCCTAATTCGGCAACGGATACGGGTTAGGGGTGTTACAAAT
GGTATTTCTACAGAAGTTTTTTCTACTGATAACATAATAAATTTTTATCAATAGAAAATGGTAAA
TGTTGATATATAAAATTA
Found at i:25259327 original size:29 final size:29
Alignment explanation
Indices: 25259294--25259354 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
25259284 GCTTCCACAT
*
25259294 GATAATGCATACAATTATTCAAAGATAAC
1 GATAATGCATAAAATTATTCAAAGATAAC
25259323 GATAATGCATAAAATTATTCAAAGATAAC
1 GATAATGCATAAAATTATTCAAAGATAAC
25259352 GAT
1 GAT
25259355 TTCTACCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (29 bp):
GATAATGCATAAAATTATTCAAAGATAAC
Found at i:25264110 original size:15 final size:15
Alignment explanation
Indices: 25264090--25264118 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25264080 GTCTTATAAC
25264090 AAGTTAAATAACAAT
1 AAGTTAAATAACAAT
25264105 AAGTTAAATAACAA
1 AAGTTAAATAACAA
25264119 GTAAACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
AAGTTAAATAACAAT
Found at i:25271655 original size:26 final size:26
Alignment explanation
Indices: 25271622--25271690 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
25271612 AACACACCAA
*
25271622 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
25271648 TATTGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
25271674 TATCGCAGCAAAGCTGC
1 TATCGCAGCAAAGCTGC
25271691 TAGCATGTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:25275807 original size:18 final size:17
Alignment explanation
Indices: 25275774--25275812 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
25275764 TTTTATAAAT
25275774 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
25275792 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
25275809 TGTG
1 TGTG
25275813 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:25276065 original size:23 final size:23
Alignment explanation
Indices: 25276038--25276113 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
25276028 AGTGTTATTG
*
25276038 ATCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
25276061 TTCAGTGGTAGCTACGGCTGCAT
1 ATCAGTGGTAGCTTCGGCTACAT
25276084 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25276107 ATCAGTG
1 ATCAGTG
25276114 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25281488 original size:26 final size:26
Alignment explanation
Indices: 25281459--25281539 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
25281449 AACACACCAA
25281459 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGTAAAGCTGCCAGTAACAG
** * *
25281485 TATCGCAACAAAGTTGCTAGTAACAG
1 TATCGCAGTAAAGCTGCCAGTAACAG
25281511 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGTAAAGCTGCCAGTAACAG
25281537 TAT
1 TAT
25281540 ACTTCCTCCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (26 bp):
TATCGCAGTAAAGCTGCCAGTAACAG
Found at i:25282489 original size:18 final size:18
Alignment explanation
Indices: 25282466--25282510 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
25282456 TGAAAAGAAA
25282466 AGTATACCCAAAATGAGC
1 AGTATACCCAAAATGAGC
25282484 AGTATACCCAAAATGAGC
1 AGTATACCCAAAATGAGC
25282502 AGTATACCC
1 AGTATACCC
25282511 CTCTGGCCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (18 bp):
AGTATACCCAAAATGAGC
Found at i:25284943 original size:33 final size:33
Alignment explanation
Indices: 25284877--25284952 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
25284867 ATCCTGCCAC
*
25284877 TGAGGAGAAGGCCACAAAAGGGCCGAAGGGAGA
1 TGAGGAGAAGGCCACAAAAGGGACGAAGGGAGA
*
25284910 TGAGTAGAAGGCCACAAAA-GGAC-AAGAGAGAGA
1 TGAGGAGAAGGCCACAAAAGGGACGAAG-G-GAGA
*
25284943 TGAAGAGAAG
1 TGAGGAGAAG
25284953 ACTGAATCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 3 0.08
32 4 0.11
33 30 0.81
ACGTcount: A:0.45, C:0.12, G:0.38, T:0.05
Consensus pattern (33 bp):
TGAGGAGAAGGCCACAAAAGGGACGAAGGGAGA
Found at i:25292071 original size:16 final size:16
Alignment explanation
Indices: 25292047--25292077 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25292037 ATTACTAATT
25292047 ACAAATTTATTTCATA
1 ACAAATTTATTTCATA
*
25292063 ACAATTTTATTTCAT
1 ACAAATTTATTTCAT
25292078 TACAGTGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (16 bp):
ACAAATTTATTTCATA
Found at i:25292520 original size:16 final size:17
Alignment explanation
Indices: 25292495--25292527 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25292485 TCATCTCATA
25292495 CAATTAATTTT-TTTTT
1 CAATTAATTTTATTTTT
*
25292511 CAATTCATTTTATTTTT
1 CAATTAATTTTATTTTT
25292528 TACTAAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
CAATTAATTTTATTTTT
Found at i:25292863 original size:5 final size:5
Alignment explanation
Indices: 25292853--25292895 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
25292843 CATACATACA
25292853 CATAT CATAT CATAT CATAT CATAT CATAT -ATAT CATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
25292896 AATAAAATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
4 8 0.22
5 29 0.78
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (5 bp):
CATAT
Found at i:25302293 original size:27 final size:27
Alignment explanation
Indices: 25302262--25302439 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25302252 TAAATTGTAC
25302262 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25302289 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25302315 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25302343 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25302371 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25302398 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25302425 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25302440 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25302376 original size:82 final size:81
Alignment explanation
Indices: 25302263--25302418 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25302253 AAATTGTACA
* *
25302263 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25302327 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25302344 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25302409 TGCGAGTTGA
65 TGCGAATTGA
25302419 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25302430 original size:82 final size:81
Alignment explanation
Indices: 25302259--25302439 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
25302249 GATTAAATTG
* *
25302259 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25302324 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25302340 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25302404 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25302422 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25302440 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25310478 original size:27 final size:27
Alignment explanation
Indices: 25310447--25310624 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25310437 TAAATTGTAC
25310447 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25310474 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25310500 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25310528 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25310556 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25310583 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25310610 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25310625 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25310561 original size:82 final size:81
Alignment explanation
Indices: 25310448--25310603 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25310438 AAATTGTACA
* *
25310448 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25310512 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25310529 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25310594 TGCGAGTTGA
65 TGCGAATTGA
25310604 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25310615 original size:82 final size:81
Alignment explanation
Indices: 25310444--25310624 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
25310434 GATTAAATTG
* *
25310444 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25310509 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25310525 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25310589 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25310607 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25310625 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25313303 original size:16 final size:17
Alignment explanation
Indices: 25313284--25313327 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
25313274 TGAAAGTATT
25313284 AATG-ATTGAATGAATG
1 AATGCATTGAATGAATG
*
25313300 AATGCATT-AAAGAATG
1 AATGCATTGAATGAATG
*
25313316 ATTGCATTGAAT
1 AATGCATTGAAT
25313328 AAACATGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (17 bp):
AATGCATTGAATGAATG
Found at i:25322158 original size:19 final size:20
Alignment explanation
Indices: 25322129--25322170 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
25322119 TAAAAAATAA
25322129 TTTTTGAAAAATGATTTACT
1 TTTTTGAAAAATGATTTACT
25322149 TTTTTG-AAAATGATTTACT
1 TTTTTGAAAAATGATTTACT
25322168 TTT
1 TTT
25322171 CTGCTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTTTGAAAAATGATTTACT
Found at i:25322276 original size:18 final size:18
Alignment explanation
Indices: 25322250--25322292 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
25322240 AAAAGTTGTT
* *
25322250 TTTACATATATTAATAAA
1 TTTATATATATAAATAAA
25322268 TTTATATATATAAATAAA
1 TTTATATATATAAATAAA
25322286 TTTATAT
1 TTTATAT
25322293 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATATATATAAATAAA
Found at i:25325209 original size:30 final size:31
Alignment explanation
Indices: 25325169--25325231 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
25325159 TAAATATTTT
*
25325169 AATATGTA-TTTTTTTATTTCATGTAGTTTC
1 AATATATATTTTTTTTATTTCATGTAGTTTC
25325199 AATATATATTTTTTTTATTTCATGTAGTTTC
1 AATATATATTTTTTTTATTTCATGTAGTTTC
25325230 AA
1 AA
25325232 ACTTTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (31 bp):
AATATATATTTTTTTTATTTCATGTAGTTTC
Found at i:25331113 original size:18 final size:18
Alignment explanation
Indices: 25331092--25331134 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
25331082 ACAATTTAAA
25331092 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
25331110 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
25331128 ATGTAAA
1 ATATAAA
25331135 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:25331254 original size:20 final size:19
Alignment explanation
Indices: 25331214--25331255 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25331204 CAAACACCAA
* *
25331214 AAAAGTAAATCATTTCTAG
1 AAAAGTAAAACATTTCCAG
25331233 AAAAGTAAAACATTCTCCAG
1 AAAAGTAAAACATT-TCCAG
25331253 AAA
1 AAA
25331256 TCATTTTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (19 bp):
AAAAGTAAAACATTTCCAG
Found at i:25349251 original size:11 final size:11
Alignment explanation
Indices: 25349229--25349272 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
25349219 TGAATGTTTG
25349229 AATAACTTTAAA
1 AATAA-TTTAAA
25349241 AATAATTT-AA
1 AATAATTTAAA
*
25349251 AATCATTTAAA
1 AATAATTTAAA
*
25349262 AATAGTTTAAA
1 AATAATTTAAA
25349273 GTGAATTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 9 0.32
11 14 0.50
12 5 0.18
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:25353776 original size:35 final size:35
Alignment explanation
Indices: 25353730--25353810 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
25353720 CATTCACATT
25353730 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
1 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
25353765 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
1 AATCACATATTCAATGGTCCTCCTACATAGTGAAA
25353800 AATCACATATT
1 AATCACATATT
25353811 AATAAATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (35 bp):
AATCACATATTCAATGGTCCTCCTACATAGTGAAA
Found at i:25359696 original size:5 final size:5
Alignment explanation
Indices: 25359686--25359719 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
25359676 TCTAATGGAA
25359686 ACATT ACATT ACATT ACATT ACATT ACATT ACAT
1 ACATT ACATT ACATT ACATT ACATT ACATT ACAT
25359720 CTTTGAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (5 bp):
ACATT
Found at i:25373941 original size:71 final size:71
Alignment explanation
Indices: 25373825--25374015 Score: 205
Period size: 71 Copynumber: 2.7 Consensus size: 71
25373815 ATTATATCAT
*
25373825 CCTACAATTACATACAAAAAGTTATATTACTCCACCACCACACCCAAT-TACACATACAAAAAAG
1 CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCC-ATCTACACATACAAAAAAG
25373889 TGCAAAA
65 TGCAAAA
* * **
25373896 CCTACAATTACATACAAAAAGTGATATTAGTTCACCACTGCACCCATCTACACATAC-AAAAAGT
1 CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCCATCTACACATACAAAAAAGT
25373960 G-ATGAAA
66 GCA--AAA
* * * *
25373967 -CT-CTATGACATACAAAATGTTATATT-CATCCACCACCACAGCCACATCT
1 CCTACAATTACATACAAAAAGTGATATTAC-TCCACCACCACA-CC-CATCT
25374016 TTAATGGGTA
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
69 30 0.30
70 14 0.14
71 57 0.56
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.23
Consensus pattern (71 bp):
CCTACAATTACATACAAAAAGTGATATTACTCCACCACCACACCCATCTACACATACAAAAAAGT
GCAAAA
Found at i:25376764 original size:40 final size:40
Alignment explanation
Indices: 25376688--25376764 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
25376678 ATTTGAAAAA
* * * * *
25376688 GATTTAAATCGATTGTAACTGGTTTAAATTGCTTGTAACT
1 GATTTAAATCAATTGAAACTGATTTAAATCGATTGTAACT
25376728 GATTTAAATCAATTGAAACAT-ATTTAAATCGATTGTA
1 GATTTAAATCAATTGAAAC-TGATTTAAATCGATTGTA
25376765 GCATATTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (40 bp):
GATTTAAATCAATTGAAACTGATTTAAATCGATTGTAACT
Found at i:25376769 original size:20 final size:20
Alignment explanation
Indices: 25376649--25376772 Score: 83
Period size: 20 Copynumber: 6.2 Consensus size: 20
25376639 GATGAAATAA
** *
25376649 ATTTAAATCGATTGTAGTAG
1 ATTTAAATCGATTGTAACAT
* * * *
25376669 ATTTAAAT-AATTTGAAAAAG
1 ATTTAAATCGA-TTGTAACAT
25376689 ATTTAAATCGATTGTAAC-T
1 ATTTAAATCGATTGTAACAT
* * *
25376708 GGTTTAAATTGCTTGTAAC-T
1 -ATTTAAATCGATTGTAACAT
* *
25376728 GATTTAAATCAATTGAAACAT
1 -ATTTAAATCGATTGTAACAT
*
25376749 ATTTAAATCGATTGTAGCAT
1 ATTTAAATCGATTGTAACAT
25376769 ATTT
1 ATTT
25376773 GGATCGAGTG
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.01
20 78 0.96
21 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (20 bp):
ATTTAAATCGATTGTAACAT
Found at i:25378728 original size:16 final size:18
Alignment explanation
Indices: 25378697--25378729 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
25378687 TAATTTTAGC
25378697 TCTCTATTTAAATTTTTA
1 TCTCTATTTAAATTTTTA
25378715 TCTCT-TTT-AATTTTT
1 TCTCTATTTAAATTTTT
25378730 GAATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTCTATTTAAATTTTTA
Found at i:25378909 original size:16 final size:15
Alignment explanation
Indices: 25378888--25378917 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25378878 TTTTAAAAAC
25378888 AATTTTTATAATTTTG
1 AATTTTTA-AATTTTG
25378904 AATTTTTAAATTTT
1 AATTTTTAAATTTT
25378918 AAAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
AATTTTTAAATTTTG
Found at i:25379582 original size:18 final size:17
Alignment explanation
Indices: 25379556--25379589 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25379546 TACACAATAC
25379556 GAAAACAAAATCATTATA
1 GAAAAC-AAATCATTATA
*
25379574 GAAACCAAATCATTAT
1 GAAAACAAATCATTAT
25379590 TATATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.24
Consensus pattern (17 bp):
GAAAACAAATCATTATA
Found at i:25380493 original size:41 final size:41
Alignment explanation
Indices: 25380385--25380595 Score: 253
Period size: 41 Copynumber: 5.2 Consensus size: 41
25380375 CTTTCGGGGT
* * * *
25380385 TTTAGCGACGTTTTTGAGAAAACACAGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
*
25380426 TTTAGCGACG-TTTTGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
25380466 TTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGATCAGGGT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * * * **
25380507 TTTAGTGGCGTTTTTAAGGAAGCCCCGCTAATGATCAGGAA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
** *
25380548 TTTAGCGGCGTTTTTGAGTTAGCGCCACTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
25380589 TTTAGCG
1 TTTAGCG
25380596 CCGCTGATGC
Statistics
Matches: 148, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 36 0.24
41 112 0.76
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:25381639 original size:14 final size:15
Alignment explanation
Indices: 25381622--25381654 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25381612 TATTGATTAT
25381622 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
25381636 GGTTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
25381651 GGTT
1 GGTT
25381655 AGAGGTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.39
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:25382270 original size:14 final size:14
Alignment explanation
Indices: 25382253--25382279 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25382243 TGTAAAGAAA
25382253 AGGGGGGAAAGATG
1 AGGGGGGAAAGATG
25382267 AGGGGGGAAAGAT
1 AGGGGGGAAAGAT
25382280 ATTTCAACAA
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:0.37, C:0.00, G:0.56, T:0.07
Consensus pattern (14 bp):
AGGGGGGAAAGATG
Found at i:25385767 original size:43 final size:43
Alignment explanation
Indices: 25385701--25385970 Score: 337
Period size: 43 Copynumber: 6.3 Consensus size: 43
25385691 AGAACGTACT
* * *
25385701 TTTAGTAGCGTTTGT-GATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCAGCGTTTGTGGGT-AAAGCGCCGCTAAAGGTCATGTTC
* * *
25385744 TTTAACAGCGTGTGTGGGCAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCAGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
* * * *
25385787 TTTAGC-GGGTTTGTGGTTAAAGCGCCGCTAAAGGTTAGGTTC
1 TTTAGCAGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
* *
25385829 TTTAGCGGCGTTTGTGGGTAAAGCGCCGTTAAAGGTCATGTTC
1 TTTAGCAGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
* *
25385872 TTTAGCGGCGTTTGTAGGTAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCAGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
* *** *
25385915 TTTAGCAGTGTTTGTGGGTAAAGCGCTATTAAAGATCATGTTC
1 TTTAGCAGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
*
25385958 TTTAGTAGCGTTT
1 TTTAGCAGCGTTT
25385971 TTTCACATAA
Statistics
Matches: 196, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
42 36 0.18
43 159 0.81
44 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TTTAGCAGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTC
Found at i:25385830 original size:85 final size:86
Alignment explanation
Indices: 25385708--25385962 Score: 361
Period size: 85 Copynumber: 3.0 Consensus size: 86
25385698 ACTTTTAGTA
* * * * * * *
25385708 GCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAACAGCGTGTGTGGGCAAAGCGCCGC
1 GCGTTTGTGGTTAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGTAAAGCGCCGT
25385773 TAAAGGTCATGTTCTTTAGCG
66 TAAAGGTCATGTTCTTTAGCG
* * *
25385794 G-GTTTGTGGTTAAAGCGCCGCTAAAGGTTAGGTTCTTTAGCGGCGTTTGTGGGTAAAGCGCCGT
1 GCGTTTGTGGTTAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGTAAAGCGCCGT
25385858 TAAAGGTCATGTTCTTTAGCG
66 TAAAGGTCATGTTCTTTAGCG
* **
25385879 GCGTTTGTAGG-TAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGTGTTTGTGGGTAAAGCGCTA
1 GCGTTTGT-GGTTAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGTAAAGCGCCG
*
25385943 TTAAAGATCATGTTCTTTAG
65 TTAAAGGTCATGTTCTTTAG
25385963 TAGCGTTTTT
Statistics
Matches: 150, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
85 75 0.50
86 73 0.49
87 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (86 bp):
GCGTTTGTGGTTAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGTAAAGCGCCGT
TAAAGGTCATGTTCTTTAGCG
Found at i:25387907 original size:19 final size:20
Alignment explanation
Indices: 25387885--25387922 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25387875 TTTAAGATAA
*
25387885 TAAAATGAACTAA-ACTAAT
1 TAAAATAAACTAACACTAAT
*
25387904 TAAAGTAAACTAACACTAA
1 TAAAATAAACTAACACTAA
25387923 ATCTAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (20 bp):
TAAAATAAACTAACACTAAT
Found at i:25396771 original size:12 final size:13
Alignment explanation
Indices: 25396754--25396782 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25396744 CTCATACATG
25396754 AATAAATAAA-GC
1 AATAAATAAATGC
25396766 AATAAATAAATGC
1 AATAAATAAATGC
25396779 AATA
1 AATA
25396783 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:25398012 original size:19 final size:19
Alignment explanation
Indices: 25397990--25398034 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
25397980 ATAAATATTT
25397990 TGATGTATAATATTAAATA
1 TGATGTATAATATTAAATA
* *
25398009 TGATATATTATATTAAATA
1 TGATGTATAATATTAAATA
*
25398028 TAATGTA
1 TGATGTA
25398035 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (19 bp):
TGATGTATAATATTAAATA
Found at i:25398043 original size:19 final size:19
Alignment explanation
Indices: 25397999--25398046 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
25397989 TTGATGTATA
* *
25397999 ATATTAAATATGATATATT
1 ATATTAAATATAATATAAT
*
25398018 ATATTAAATATAATGTAAT
1 ATATTAAATATAATATAAT
*
25398037 ATTTTAAATA
1 ATATTAAATA
25398047 CTTCGTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
ATATTAAATATAATATAAT
Found at i:25399838 original size:17 final size:18
Alignment explanation
Indices: 25399802--25399839 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25399792 TCAATTAAAA
25399802 TATTTTGAAGTTTGGGAC
1 TATTTTGAAGTTTGGGAC
25399820 TATTTTAGAA-TTT-GGAC
1 TATTTT-GAAGTTTGGGAC
25399837 TAT
1 TAT
25399840 AGTTCAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 9 0.47
19 3 0.16
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (18 bp):
TATTTTGAAGTTTGGGAC
Found at i:25405721 original size:62 final size:60
Alignment explanation
Indices: 25405610--25405727 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 60
25405600 ATCACTTTAA
** * *
25405610 TATTAAAATTAATCTAATTTTTATCAAGATAAATATTAGATTAATTTTAATATTAAATCT
1 TATTAAAATTAATAGAATTTTTATCAAGATAAACATTAGATTAAATTTAATATTAAATCT
25405670 TATTAAAA-TAATAGAATTTTTATCTACAAGATAAACATTCA-ATTAAATTTAATATTAA
1 TATTAAAATTAATAGAATTTTTA--T-CAAGATAAACATT-AGATTAAATTTAATATTAA
25405728 GATAATTACT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
59 12 0.24
60 8 0.16
61 1 0.02
62 28 0.56
63 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (60 bp):
TATTAAAATTAATAGAATTTTTATCAAGATAAACATTAGATTAAATTTAATATTAAATCT
Found at i:25409966 original size:7 final size:8
Alignment explanation
Indices: 25409941--25409969 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
25409931 GTTCCAAAGG
25409941 TTTCACTT
1 TTTCACTT
25409949 TTTCACTT
1 TTTCACTT
25409957 TTTCACTT
1 TTTCACTT
25409965 TTTCA
1 TTTCA
25409970 TTACTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTCACTT
Found at i:25411894 original size:18 final size:18
Alignment explanation
Indices: 25411871--25411909 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
25411861 TACGGCTAAG
*
25411871 CCACACTGGCATGTGGGC
1 CCACACGGGCATGTGGGC
*
25411889 CCACACGGGCATGTGTGC
1 CCACACGGGCATGTGGGC
25411907 CCA
1 CCA
25411910 TAGTTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (18 bp):
CCACACGGGCATGTGGGC
Found at i:25432121 original size:37 final size:35
Alignment explanation
Indices: 25432064--25432135 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
25432054 CGAGAATCAT
*
25432064 ATTAAATTAATAAAATACTATTAATATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAGATAA-TATTAA
*
25432100 ATTAAATTTAATATTAA-ACTATTAAGATAATATTAA
1 ATTAAA-TTAATA-AAATACTATTAAGATAATATTAA
25432136 TTTTGGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 12 0.38
37 18 0.56
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAGATAATATTAA
Found at i:25435285 original size:15 final size:15
Alignment explanation
Indices: 25435261--25435292 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25435251 TATGCATGCA
*
25435261 AAATATAAAAGATAT
1 AAATACAAAAGATAT
25435276 AAATACAAAAGATAT
1 AAATACAAAAGATAT
25435291 AA
1 AA
25435293 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATACAAAAGATAT
Found at i:25439779 original size:12 final size:12
Alignment explanation
Indices: 25439764--25439793 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
25439754 ATTTTTATTC
25439764 TTATAATTACAT
1 TTATAATTACAT
25439776 TTATAATTACAT
1 TTATAATTACAT
25439788 TTATAA
1 TTATAA
25439794 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
TTATAATTACAT
Found at i:25440063 original size:73 final size:73
Alignment explanation
Indices: 25439944--25440088 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
25439934 AAACCTTACC
25439944 AGGAAAACTCAATGGGACAAAACTTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCCC
1 AGGAAAACTCAATGGGACAAAACTTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCCC
25440009 TCATGAAT
66 TCATGAAT
25440017 AGGAAAACTCAATGGGACAAAA-TCTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCC
1 AGGAAAACTCAATGGGACAAAACT-TCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCC
25440081 CTCATGAA
65 CTCATGAA
25440089 AACATCACAT
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 1 0.01
73 70 0.99
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (73 bp):
AGGAAAACTCAATGGGACAAAACTTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCCC
TCATGAAT
Found at i:25446929 original size:14 final size:14
Alignment explanation
Indices: 25446910--25446949 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25446900 TTGTTTGCCA
25446910 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
25446924 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
25446938 GGAAAATGTTTT
1 GTAAAATGTTTT
25446950 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:25446958 original size:20 final size:20
Alignment explanation
Indices: 25446933--25446972 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25446923 CGTAAAATGA
*
25446933 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
25446953 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25446973 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:25446962 original size:34 final size:35
Alignment explanation
Indices: 25446918--25446984 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
25446908 CAGTAAAATG
*
25446918 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
25446952 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
25446985 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:25446988 original size:14 final size:15
Alignment explanation
Indices: 25446912--25446988 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
25446902 GTTTGCCAGT
* *
25446912 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
25446926 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
25446940 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
25446960 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
25446975 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
25446989 TGTTTGGATG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:25448902 original size:14 final size:14
Alignment explanation
Indices: 25448883--25448910 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25448873 CAGAAATTAA
25448883 GGAAAATATTTTCC
1 GGAAAATATTTTCC
25448897 GGAAAATATTTTCC
1 GGAAAATATTTTCC
25448911 ACCAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:25451059 original size:11 final size:11
Alignment explanation
Indices: 25451042--25451078 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25451032 ATAGGTATAA
25451042 GAAGTATAAAT
1 GAAGTATAAAT
*
25451053 AAAGTAT-AA-
1 GAAGTATAAAT
25451062 GAAGTATAAAT
1 GAAGTATAAAT
25451073 GAAGTA
1 GAAGTA
25451079 GATGTCTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.27
10 4 0.18
11 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.24
Consensus pattern (11 bp):
GAAGTATAAAT
Found at i:25451061 original size:20 final size:20
Alignment explanation
Indices: 25451036--25451078 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
25451026 CTATTTATAG
25451036 GTATAAGAAGTATAAATAAA
1 GTATAAGAAGTATAAATAAA
*
25451056 GTATAAGAAGTATAAATGAA
1 GTATAAGAAGTATAAATAAA
25451076 GTA
1 GTA
25451079 GATGTCTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (20 bp):
GTATAAGAAGTATAAATAAA
Found at i:25451337 original size:13 final size:13
Alignment explanation
Indices: 25451319--25451344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25451309 TACGCGTTTA
25451319 ATTTTTAATTATT
1 ATTTTTAATTATT
25451332 ATTTTTAATTATT
1 ATTTTTAATTATT
25451345 GTAATCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTAATTATT
Found at i:25451950 original size:17 final size:18
Alignment explanation
Indices: 25451928--25451965 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
25451918 ATCACAAATT
25451928 TTATTAAA-TTATAAGTA
1 TTATTAAATTTATAAGTA
*
25451945 TTATTAAATTTATAATTA
1 TTATTAAATTTATAAGTA
25451963 TTA
1 TTA
25451966 AAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTATTAAATTTATAAGTA
Found at i:25453384 original size:29 final size:29
Alignment explanation
Indices: 25453351--25453407 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
25453341 TAATTCTTTA
*
25453351 AAATTAAAAAAAATATTTTTAAAAATTAT
1 AAATTAAAAAAAATATTTTAAAAAATTAT
* *
25453380 AAATTATAAAAATTATTTTAAAAAATTA
1 AAATTAAAAAAAATATTTTAAAAAATTA
25453408 ATTAAATACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATTAAAAAAAATATTTTAAAAAATTAT
Found at i:25454223 original size:16 final size:16
Alignment explanation
Indices: 25454202--25454233 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25454192 TATATTAGTG
25454202 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
25454218 CATATATATTTGAAAT
1 CATATAAATTTGAAAT
25454234 TTTTTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:25454388 original size:19 final size:19
Alignment explanation
Indices: 25454366--25454467 Score: 59
Period size: 18 Copynumber: 5.4 Consensus size: 19
25454356 TTTTTAGATT
25454366 TTTTGAAAATTTTATAATA
1 TTTTGAAAATTTTATAATA
***
25454385 TTTT-AAAAAAATATAA-A
1 TTTTGAAAATTTTATAATA
* *
25454402 TTTTGGAATTTTTATAGATA
1 TTTTGAAAATTTTATA-ATA
*
25454422 TTTTG--AATTTTAAAATTTA
1 TTTTGAAAATTTTATAA--TA
* * *
25454441 TTTTGAATATTTGAAAATTA
1 TTTTGAAAATTTTATAA-TA
25454461 TTTTGAA
1 TTTTGAA
25454468 CTTTGTTTCT
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
17 6 0.09
18 22 0.34
19 12 0.19
20 16 0.25
21 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TTTTGAAAATTTTATAATA
Found at i:25454463 original size:20 final size:19
Alignment explanation
Indices: 25454420--25454467 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
25454410 TTTTTATAGA
25454420 TATTTTGAATTTTAAAATT
1 TATTTTGAATTTTAAAATT
25454439 TATTTTGAATATTTGAAAA-T
1 TATTTTGAAT-TTT-AAAATT
25454459 TATTTTGAA
1 TATTTTGAA
25454468 CTTTGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.37
20 13 0.48
21 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTTTGAATTTTAAAATT
Found at i:25454789 original size:20 final size:20
Alignment explanation
Indices: 25454752--25454790 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25454742 AATATAAAAA
* * *
25454752 TAACTAAGTTTTTTATTAAT
1 TAACTAAATTGTTAATTAAT
25454772 TAACTAAATTGTTAATTAA
1 TAACTAAATTGTTAATTAA
25454791 GTAGGAGTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TAACTAAATTGTTAATTAAT
Found at i:25457516 original size:87 final size:85
Alignment explanation
Indices: 25457335--25457732 Score: 286
Period size: 82 Copynumber: 4.7 Consensus size: 85
25457325 TTTGTTTCCA
* * *
25457335 AATTAAAAGTAAATAAAAT-TCGTTTCGGGATTTATTCCCGC------ACGGTTTTTATTTCATT
1 AATTAAAATTAAATAAAATCT-GTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTA-TTCATT
*
25457393 TTGTTATTTTATTTCCAAACAGGA-
64 TTG--ATTTTATTTCCAAA-ACGAG
* * *
25457417 AATTAAAGTTAAATAAGATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGGTTTTATTCCAATT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATT-C-ATT
25457482 TTGATTTTATTTCCAAAACGAG
64 TTGATTTTATTTCCAAAACGAG
* * ** * * **
25457504 TATTAAAATTAAAATAAAATATGTTTCAAGATTTATTCCCGCCGTTCAAGTGA-TTTATTACATT
1 AATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATT-CATT
* * *
25457568 TTGATTATGTTGCCAAAAACGAG
64 TTGATTTTATTTCC-AAAACGAG
* * * * * * *
25457591 AAATTAAAATTAAATACAATTTGTTTCGGGATTTAATCCC-ATCGTTTAATAAGATTATATTTTA
1 -AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCT-GTTTAA-CAGATTTTA-TTCA
**
25457655 TTTT-A-TTT-TTTCC-AAATTAG
62 TTTTGATTTTATTTCCAAAACGAG
* * * *
25457675 AATT-AAATGAAATAAAATCTATTTCGGGATTTATTCCCGTTGTTTAACATATTTTATT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATT
25457733 TTGATTTAAT
Statistics
Matches: 251, Mismatches: 47, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
80 2 0.01
81 6 0.02
82 71 0.28
83 6 0.02
84 5 0.02
86 21 0.08
87 70 0.28
88 54 0.22
89 14 0.06
90 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (85 bp):
AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATTCATTTT
GATTTTATTTCCAAAACGAG
Found at i:25457538 original size:88 final size:87
Alignment explanation
Indices: 25457381--25457617 Score: 214
Period size: 87 Copynumber: 2.7 Consensus size: 87
25457371 CCCGCACGGT
* * * * * **
25457381 TTTTATTTCATTTTGTTATTTTATTTCCAAACAGGAAATTAAAGTTAAATAAGATCTGTTTCGGG
1 TTTTATTCCATTTTG-TATTTTATTTCCAAACACGAAATTAAAATTAAATAAAATATGTTTCAAG
25457446 ATTTATTCCCGCTGTTTAACAGG
65 ATTTATTCCCGCTGTTTAACAGG
*
25457469 TTTTATTCCAATTTTG-ATTTTATTTCCAAA-ACGAGTATTAAAATTAAAATAAAATATGTTTCA
1 TTTTATTCC-ATTTTGTATTTTATTTCCAAACACGA-AATTAAAATT-AAATAAAATATGTTTCA
* *
25457532 AGATTTATTCCCGCCG-TTCA-AGTG
63 AGATTTATTCCCGCTGTTTAACAG-G
* * * * * * * *
25457556 ATTTATTACATTTTG-ATTATGTTGCCAAAAACGAGAAATTAAAATTAAATACAATTTGTTTC
1 TTTTATTCCATTTTGTATTTTATTTCCAAACAC--GAAATTAAAATTAAATAAAATATGTTTC
25457618 GGGATTTAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
86 22 0.18
87 49 0.40
88 45 0.36
89 8 0.06
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (87 bp):
TTTTATTCCATTTTGTATTTTATTTCCAAACACGAAATTAAAATTAAATAAAATATGTTTCAAGA
TTTATTCCCGCTGTTTAACAGG
Found at i:25458257 original size:13 final size:14
Alignment explanation
Indices: 25458230--25458258 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25458220 CGAGAAACCT
25458230 ACAAAATTCTCAAG
1 ACAAAATTCTCAAG
25458244 ACAAAATT-TCAAG
1 ACAAAATTCTCAAG
25458257 AC
1 AC
25458259 TTGGCAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
ACAAAATTCTCAAG
Found at i:25458512 original size:31 final size:31
Alignment explanation
Indices: 25458474--25458533 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
25458464 GAAAAGAATG
25458474 AAGGAATTATGGACATCGTTGGACCATAATT
1 AAGGAATTATGGACATCGTTGGACCATAATT
25458505 AAGGAATTATGGACATCGTTGGACCATAA
1 AAGGAATTATGGACATCGTTGGACCATAA
25458534 ATAATTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (31 bp):
AAGGAATTATGGACATCGTTGGACCATAATT
Found at i:25464077 original size:13 final size:13
Alignment explanation
Indices: 25464059--25464084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25464049 TCAATATGAA
25464059 TTATTTTTTATAT
1 TTATTTTTTATAT
25464072 TTATTTTTTATAT
1 TTATTTTTTATAT
25464085 ATAAATAATT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTTATAT
Found at i:25464095 original size:22 final size:22
Alignment explanation
Indices: 25464070--25464117 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
25464060 TATTTTTTAT
25464070 ATTTATTT-TTTATATATAAATA
1 ATTT-TTTATTTATATATAAATA
*
25464092 ATTTTTTATTTATATTTAAAT-
1 ATTTTTTATTTATATATAAATA
25464113 ATTTT
1 ATTTT
25464118 GTTCGTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTTATTTATATATAAATA
Found at i:25467970 original size:21 final size:21
Alignment explanation
Indices: 25467946--25467986 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25467936 CCCACAACTG
*
25467946 GAGCAACTACAACCCCCGTCA
1 GAGCAACCACAACCCCCGTCA
*
25467967 GAGCAACCAGAACCCCCGTC
1 GAGCAACCACAACCCCCGTC
25467987 GGAAGTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.44, G:0.17, T:0.07
Consensus pattern (21 bp):
GAGCAACCACAACCCCCGTCA
Found at i:25471459 original size:126 final size:125
Alignment explanation
Indices: 25471235--25471504 Score: 425
Period size: 126 Copynumber: 2.2 Consensus size: 125
25471225 GGCCAAACAT
** * *
25471235 GAACTACTGTAGAAAAAGAGTGTCGATGTGGGAGCTTTTTCATCAAATTTGCTGATAGTGCATCC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTCATCAAATTTGCTGATAGTGCATCC
* * *
25471300 TGCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATTATTTTTTTAG
66 TGCTTGAAGCATTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAG
* *
25471360 GAACTATTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAAT-AATTTTGCTGATAGTGCAT
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGC-TTTTTC-ATCAAATTTGCTGATAGTGCAT
25471424 CCTGCTTGAAGCATTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAG
64 CCTGCTTGAAGCATTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAG
*
25471486 GAACTACTATAGAAAAAGA
1 GAACTACTGTAGAAAAAGA
25471505 ACGTGGGAGC
Statistics
Matches: 132, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
125 30 0.23
126 100 0.76
127 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTCATCAAATTTGCTGATAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAG
Found at i:25471663 original size:126 final size:127
Alignment explanation
Indices: 25471523--25471844 Score: 477
Period size: 126 Copynumber: 2.6 Consensus size: 127
25471513 GCTTTTTTGG
* * * **
25471523 AGCATTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTGTTGTAG
1 AGCATTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
*
25471588 AAAAAGAGCGTCCACGTAGGAGC-TTTTTCCAGTAATTTTGCTAACAGTGCATCCTACTTGA
66 AAAAAGAGCGTCCACGTAGGAGCTTTTTTCCAGTAATTTTGCTAACAATGCATCCTACTTGA
* *
25471649 AGCATTTTTGACACTATTTTTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
1 AGCATTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
* * ** * * * *
25471714 AAAAAGAGCGTCCACGTGGGTGCTTTTTTTTAGTAATTTTGCTGACAATGTATCTTGCTTGA
66 AAAAAGAGCGTCCACGTAGGAGCTTTTTTCCAGTAATTTTGCTAACAATGCATCCTACTTGA
*
25471776 AGCGTTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTT-AGGAACTACTGTAG
1 AGCATTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
25471840 AAAAA
66 AAAAA
25471845 AAATCCTTAT
Statistics
Matches: 176, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 98 0.56
127 78 0.44
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (127 bp):
AGCATTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
AAAAAGAGCGTCCACGTAGGAGCTTTTTTCCAGTAATTTTGCTAACAATGCATCCTACTTGA
Found at i:25471698 original size:216 final size:216
Alignment explanation
Indices: 25471311--25471720 Score: 660
Period size: 216 Copynumber: 1.9 Consensus size: 216
25471301 GCTTGAAGCG
* * * *
25471311 TTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATTATTTTTTTAGGAACTATTGTAGAAAA
1 TTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTATTGTAGAAAA
* * * * *
25471376 AGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTGCTGATAGTGCATCCTGCTTGAAGCATTTT
66 AGAGCATCCACGTAGGAGCTTTTTCCAATAATTTTGCTAACAGTGCATCCTACTTGAAGCATTTT
*
25471441 TGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAGGAACTACTATAGAAAAAGAA
131 TGACACTATTTGTTTAGAACCGTATTCTCAAAATAATTTTTTCAGGAACTACTATAGAAAAAGAA
25471506 CGTGGGAGCTTTTTTGGAGCA
196 CGTGGGAGCTTTTTTGGAGCA
* *
25471527 TTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTGTTGTAGAAAA
1 TTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTATTGTAGAAAA
* *
25471592 AGAGCGTCCACGTAGGAGCTTTTTCCAGTAATTTTGCTAACAGTGCATCCTACTTGAAGCATTTT
66 AGAGCATCCACGTAGGAGCTTTTTCCAATAATTTTGCTAACAGTGCATCCTACTTGAAGCATTTT
* *
25471657 TGACACTATTT-TTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAAAAGA
131 TGACACTATTTGTTT-AGAACCGTATTCTCAAAATAATTTTTTCAGGAACTACTATAGAAAAAGA
25471721 GCGTCCACGT
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
215 3 0.02
216 174 0.98
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (216 bp):
TTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTATTGTAGAAAA
AGAGCATCCACGTAGGAGCTTTTTCCAATAATTTTGCTAACAGTGCATCCTACTTGAAGCATTTT
TGACACTATTTGTTTAGAACCGTATTCTCAAAATAATTTTTTCAGGAACTACTATAGAAAAAGAA
CGTGGGAGCTTTTTTGGAGCA
Found at i:25471948 original size:34 final size:33
Alignment explanation
Indices: 25471904--25472009 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
25471894 ATATTATTTA
*
25471904 AAAAAAACTAAACCCTAATTTAATTTAATTTTTT
1 AAAAACACTAAACCCTAATTTAA-TTAATTTTTT
*
25471938 AAAAACACTAAACCCTTATTTAATTAATTTATTT
1 AAAAACACTAAACCCTAATTTAATTAATTT-TTT
* * *
25471972 -TAAACCCTTAAACCCTAATTTAATTAATTTTTA
1 AAAAACAC-TAAACCCTAATTTAATTAATTTTTT
25472005 AAAAA
1 AAAAA
25472010 GAACACTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
33 14 0.23
34 48 0.77
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (33 bp):
AAAAACACTAAACCCTAATTTAATTAATTTTTT
Found at i:25473696 original size:38 final size:40
Alignment explanation
Indices: 25473629--25473714 Score: 131
Period size: 38 Copynumber: 2.2 Consensus size: 40
25473619 AAAAATATTT
*
25473629 ATATTAAAAACACTACCATAAATATAATAAATATTTTATC
1 ATATTAAAAACACTACAATAAATATAATAAATATTTTATC
*
25473669 ATATTAAAAACAC-A-AATAAATATAATAAATATTTTATT
1 ATATTAAAAACACTACAATAAATATAATAAATATTTTATC
*
25473707 GTATTAAA
1 ATATTAAA
25473715 TATAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 29 0.67
39 1 0.02
40 13 0.30
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (40 bp):
ATATTAAAAACACTACAATAAATATAATAAATATTTTATC
Found at i:25475788 original size:3 final size:3
Alignment explanation
Indices: 25475780--25475804 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25475770 GAAAAGAGCC
25475780 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
25475805 GCAAAGACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:25476084 original size:30 final size:30
Alignment explanation
Indices: 25476048--25476112 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
25476038 ATTAATCAGC
* *
25476048 GACTGTTTTGTCATTTTTTATAACGTT-AGT
1 GACTGTTTTATCATTTTTTA-AAAGTTGAGT
*
25476078 GACTGTTTTATTATTTTTTAAAAGTTGAGT
1 GACTGTTTTATCATTTTTTAAAAGTTGAGT
25476108 GACTG
1 GACTG
25476113 AATGAAACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.51
Consensus pattern (30 bp):
GACTGTTTTATCATTTTTTAAAAGTTGAGT
Found at i:25477256 original size:14 final size:15
Alignment explanation
Indices: 25477233--25477263 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
25477223 AGGTCTGGTG
25477233 TATAAGTTTAGAGTT
1 TATAAGTTTAGAGTT
25477248 TATAA-TTTAGAGTT
1 TATAAGTTTAGAGTT
25477262 TA
1 TA
25477264 GCGTCTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (15 bp):
TATAAGTTTAGAGTT
Found at i:25481259 original size:88 final size:87
Alignment explanation
Indices: 25481111--25481277 Score: 262
Period size: 88 Copynumber: 1.9 Consensus size: 87
25481101 AAAATTTAAC
* * * * *
25481111 TTCTTCTGTGCCTAAAAACATTGCTCATAAATTGATTTTTCCAATAATTGCTATTAGACCAGGTT
1 TTCTTCTATACCTAAAAACACTGCTCATAAATTAATTTTTCCAATAATTGCTATAAGACCAGGTT
*
25481176 GTGTTATGTTTATAGTATAAAA
66 GTGCTATGTTTATAGTATAAAA
*
25481198 TTCTTCTATACCTAAAAACACTGCTCACTAAATTAATTTTTCCAATAATTGGTATAAGACCAGGT
1 TTCTTCTATACCTAAAAACACTGCTCA-TAAATTAATTTTTCCAATAATTGCTATAAGACCAGGT
25481263 TGTGCTATGTTTATA
65 TGTGCTATGTTTATA
25481278 ATAAATTGAA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 24 0.33
88 48 0.67
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (87 bp):
TTCTTCTATACCTAAAAACACTGCTCATAAATTAATTTTTCCAATAATTGCTATAAGACCAGGTT
GTGCTATGTTTATAGTATAAAA
Found at i:25482734 original size:27 final size:27
Alignment explanation
Indices: 25482704--25482776 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
25482694 GGGGGTGGTG
*
25482704 CCTATCTGATAGGCGGTACCAGTGACC
1 CCTATCTGATAGGCGGCACCAGTGACC
* ***
25482731 CCTATCTGGTAGGCGGCATTGGTGACC
1 CCTATCTGATAGGCGGCACCAGTGACC
*
25482758 CCTATCTAATAGGCGGCAC
1 CCTATCTGATAGGCGGCAC
25482777 GCACCAGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACCAGTGACC
Found at i:25484481 original size:20 final size:20
Alignment explanation
Indices: 25484426--25484482 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
25484416 GGTGAAGAAC
*
25484426 ATGGAGCTCAAGAAACGTGT
1 ATGGAGCTCAAGAACCGTGT
* *
25484446 ATGGTGGCTTAAGAACCGTGT
1 ATGG-AGCTCAAGAACCGTGT
25484467 ATGGAGCTCAAGAACC
1 ATGGAGCTCAAGAACC
25484483 ATTGATAGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.21
Consensus pattern (20 bp):
ATGGAGCTCAAGAACCGTGT
Found at i:25486871 original size:49 final size:49
Alignment explanation
Indices: 25486751--25486987 Score: 354
Period size: 49 Copynumber: 4.9 Consensus size: 49
25486741 AATTTAAACT
** * *
25486751 ACAAAGTTTGTTCCTCGTTTTAATGTTGTAATGCATCTAATTTAT-ATT
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
* *
25486799 ACAAATTTTTTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
*
25486848 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGACC
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
25486897 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATG-TCC
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGAT-C
* *
25486946 ACAAAGTTTGTTCCAAGTTTTAATATTGCAAT-TAATCTAATT
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT-ATCTAATT
25486988 AAATAAATAC
Statistics
Matches: 174, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
48 41 0.24
49 133 0.76
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (49 bp):
ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
Found at i:25489804 original size:16 final size:16
Alignment explanation
Indices: 25489785--25489852 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 16
25489775 ATAACATGCC
25489785 AAATAAATTACATAAA
1 AAATAAATTACATAAA
25489801 AAATAAATCTA-AT-AA
1 AAATAAAT-TACATAAA
** **
25489816 ACCTAAAACACATATGAA
1 AAATAAATTACATA--AA
25489834 AAATAAATTACA-AAA
1 AAATAAATTACATAAA
25489849 AAAT
1 AAAT
25489853 TAAAACTAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
14 1 0.03
15 15 0.38
16 10 0.26
17 3 0.08
18 10 0.26
ACGTcount: A:0.66, C:0.10, G:0.01, T:0.22
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:25489823 original size:49 final size:49
Alignment explanation
Indices: 25489778--25489907 Score: 199
Period size: 49 Copynumber: 2.6 Consensus size: 49
25489768 AATAAAAATA
* *
25489778 ACATGCCAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
1 ACATGACAAATAAATTACATAAAAAATAAAACTAATAAACCTAAAACAC
* *
25489827 ATATGAAAAATAAATTACA-AAAAAATTAAAACTAATAAACCTAAAACAC
1 ACATGACAAATAAATTACATAAAAAA-TAAAACTAATAAACCTAAAACAC
25489876 ACATGACAAATAAATTACATAAAAAAATAAAA
1 ACATGACAAATAAATTACAT-AAAAAATAAAA
25489908 TATTCTTTCT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
48 6 0.08
49 55 0.76
50 5 0.07
51 6 0.08
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (49 bp):
ACATGACAAATAAATTACATAAAAAATAAAACTAATAAACCTAAAACAC
Done.