Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 113 of 427
Found at i:29869919 original size:40 final size:38
Alignment explanation
Indices: 29869864--29870078 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 38
29869854 TGGATGATAA
*
29869864 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCG--AGTTACTA-TAT
29869904 CCGGGCTAAGTCCCGAAGGCATTTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGAGTTACTATAT
29869942 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATT-TGCGAGTTACTATAT
29869981 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATT--TGCGAGTTACTATAT
* *
29870021 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATT--TGCGAGTTA-CTATAT
* *
29870061 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
29870079 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
37 1 0.01
38 31 0.19
39 53 0.32
40 80 0.48
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGAGTTACTATAT
Found at i:29870034 original size:79 final size:77
Alignment explanation
Indices: 29869864--29870078 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 77
29869854 TGGATGATAA
*
29869864 CCGGGCTAAGTCCCGAAGGCATT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
29869927 TGCGAGTTACTATAT
63 TGCGAGTTACTATAT
29869942 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT--T
29870007 GCGAGTTACTATAT
64 GCGAGTTACTATAT
* * * *
29870021 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
29870079 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 5, Indels: 11
0.89 0.04 0.08
Matches are distributed among these distances:
76 1 0.01
77 31 0.25
78 23 0.18
79 57 0.45
80 14 0.11
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGC
GAGTTACTATAT
Found at i:29877701 original size:40 final size:40
Alignment explanation
Indices: 29877646--29877862 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
29877636 TGGATGATAA
* * * *
29877646 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
*
29877686 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
29877726 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
29877766 CCGGGCTAAGTCCC-AAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
29877805 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
29877845 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
29877863 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 54 0.33
40 111 0.67
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:29877819 original size:79 final size:80
Alignment explanation
Indices: 29877646--29877862 Score: 307
Period size: 79 Copynumber: 2.7 Consensus size: 80
29877636 TGGATGATAA
* * * * *
29877646 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTC
29877710 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
*
29877726 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGTCCC-AAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
29877790 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * *
29877805 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
29877863 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
78 11 0.09
79 66 0.53
80 48 0.38
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGTTACTATAT
Found at i:29889722 original size:17 final size:18
Alignment explanation
Indices: 29889705--29889758 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 18
29889695 TATTTTATTT
29889705 ATTAAATTATTATTTTTA
1 ATTAAATTATTATTTTTA
*
29889723 ATT-AATTTTTA-TTTTA
1 ATTAAATTATTATTTTTA
* *
29889739 A--AATTTATTATTTTTC
1 ATTAAATTATTATTTTTA
29889755 ATTA
1 ATTA
29889759 TCTCGCCCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 6 0.21
16 11 0.39
17 7 0.25
18 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTAAATTATTATTTTTA
Found at i:29889733 original size:32 final size:32
Alignment explanation
Indices: 29889697--29889758 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
29889687 TTCCAGTTTA
*
29889697 TTTTATTTATTAAA-TTATTATTTTTAATTAAT
1 TTTTATTT-TAAAATTTATTATTTTTAATTAAT
*
29889729 TTTTATTTTAAAATTTATTATTTTTCATTA
1 TTTTATTTTAAAATTTATTATTTTTAATTA
29889759 TCTCGCCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (32 bp):
TTTTATTTTAAAATTTATTATTTTTAATTAAT
Found at i:29899271 original size:29 final size:30
Alignment explanation
Indices: 29899211--29899282 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
29899201 ATAACTTCAT
* *
29899211 ATTTTATAATATTTAGAAAGATCAAATTATA
1 ATTTTATCATATTTAGAAAGA-CAAAATATA
* *
29899242 ATTTTATCATTTTTAGAAGGA-AAAATATA
1 ATTTTATCATATTTAGAAAGACAAAATATA
29899271 ATTTTATCATAT
1 ATTTTATCATAT
29899283 ATTAATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 18 0.50
31 18 0.50
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (30 bp):
ATTTTATCATATTTAGAAAGACAAAATATA
Found at i:29900005 original size:5 final size:5
Alignment explanation
Indices: 29899997--29900081 Score: 53
Period size: 5 Copynumber: 15.0 Consensus size: 5
29899987 TTAAGTTGAA
*
29899997 ATTTT ATTTT AACTATTT ATTTT AATTTT AATTTTT ACTTTTT ATTTT ATTTC
1 ATTTT ATTTT -A-T-TTT ATTTT -ATTTT -A-TTTT A--TTTT ATTTT ATTTT
* *
29900050 ATTTT ATTGTT ATTCT ACTTT ATTTT AATTTT
1 ATTTT ATT-TT ATTTT ATTTT ATTTT -ATTTT
29900082 TTTGGTACTT
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
5 31 0.47
6 20 0.30
7 12 0.18
8 3 0.05
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.69
Consensus pattern (5 bp):
ATTTT
Found at i:29900015 original size:13 final size:12
Alignment explanation
Indices: 29899998--29900045 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
29899988 TAAGTTGAAA
29899998 TTTTATTTTAAC
1 TTTTATTTTAAC
29900010 TATTTATTTTAA-
1 T-TTTATTTTAAC
*
29900022 TTTTAATTTTTAC
1 TTTT-ATTTTAAC
29900035 TTTTTATTTTA
1 -TTTTATTTTA
29900046 TTTCATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 15 0.50
14 4 0.13
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATTTTAAC
Found at i:29900026 original size:19 final size:17
Alignment explanation
Indices: 29899997--29900078 Score: 55
Period size: 16 Copynumber: 4.8 Consensus size: 17
29899987 TTAAGTTGAA
29899997 ATTTTATTTTAACTATTT
1 ATTTTATTTTAA-TATTT
*
29900015 ATTTTAATTTTAATTTTT
1 ATTTT-ATTTTAATATTT
*
29900033 ACTTTTTATTTT-AT-TTC
1 A--TTTTATTTTAATATTT
*
29900050 ATTTTATTGTT-AT-TCT
1 ATTTTATT-TTAATATTT
*
29900066 ACTTTATTTTAAT
1 ATTTTATTTTAAT
29900079 TTTTTTGGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
15 9 0.17
16 14 0.26
17 3 0.06
18 12 0.22
19 12 0.22
20 4 0.07
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.68
Consensus pattern (17 bp):
ATTTTATTTTAATATTT
Found at i:29900040 original size:25 final size:24
Alignment explanation
Indices: 29899996--29900055 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
29899986 TTTAAGTTGA
29899996 AATTTTATTTTAACTATTTATTTT
1 AATTTTATTTTAACTATTTATTTT
* *
29900020 AATTTTAATTTTTACTTTTTATTTT
1 AATTTT-ATTTTAACTATTTATTTT
*
29900045 -ATTTCATTTTA
1 AATTTTATTTTA
29900056 TTGTTATTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 5 0.16
24 10 0.32
25 16 0.52
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (24 bp):
AATTTTATTTTAACTATTTATTTT
Found at i:29903464 original size:25 final size:24
Alignment explanation
Indices: 29903432--29903491 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
29903422 TTAAGTTAAA
29903432 ATTT-TATTTTAACTATTTATTTTT
1 ATTTCTATTTTAACTATTTA-TTTT
* *
29903456 ATTTCTATTTTTTACTTTTTATTTT
1 ATTTCTA-TTTTAACTATTTATTTT
29903481 ATTTC-ATTTTA
1 ATTTCTATTTTA
29903492 TTTTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 4 0.13
24 5 0.16
25 11 0.35
26 11 0.35
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (24 bp):
ATTTCTATTTTAACTATTTATTTT
Found at i:29903467 original size:26 final size:24
Alignment explanation
Indices: 29903438--29903490 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
29903428 TAAAATTTTA
29903438 TTTTAACTATTTATTTTTATTTCTAT
1 TTTTAACTATTTA-TTTTATTTC-AT
* *
29903464 TTTTTACTTTTTATTTTATTTCAT
1 TTTTAACTATTTATTTTATTTCAT
29903488 TTT
1 TTT
29903491 ATTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.20
25 9 0.36
26 11 0.44
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTAACTATTTATTTTATTTCAT
Found at i:29903483 original size:19 final size:18
Alignment explanation
Indices: 29903433--29903484 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
29903423 TAAGTTAAAA
* *
29903433 TTTTATTTTAACTATTTAT
1 TTTTATTTT-ATTTTTTAT
29903452 TTTTATTTCTATTTTTTACT
1 TTTTATTT-TATTTTTTA-T
29903472 TTTTATTTTATTT
1 TTTTATTTTATTT
29903485 CATTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTATTTTTTAT
Found at i:29904196 original size:21 final size:21
Alignment explanation
Indices: 29904158--29904246 Score: 108
Period size: 21 Copynumber: 4.2 Consensus size: 21
29904148 TCACATGGTC
*
29904158 GTGTGCCTCTCTTCACACAAG-T
1 GTGTGCCTCT-ATCACAC-AGTT
* * *
29904180 GTATGCCTCTGTCACACGGTT
1 GTGTGCCTCTATCACACAGTT
29904201 GTGTGCCTCTATCACACAGTT
1 GTGTGCCTCTATCACACAGTT
*
29904222 GTGTGCCTCTATCACACGGTT
1 GTGTGCCTCTATCACACAGTT
29904243 GTGT
1 GTGT
29904247 ACCCCTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
20 1 0.02
21 49 0.83
22 9 0.15
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (21 bp):
GTGTGCCTCTATCACACAGTT
Found at i:29904229 original size:42 final size:43
Alignment explanation
Indices: 29904137--29904246 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
29904127 CAACACGGGC
* * *
29904137 GTATGCCT-TAGTCACATGGTCGTGTGCCTCTCTTCACACAAGT
1 GTATGCCTCT-GTCACACGGTTGTGTGCCTCTCATCACACAAGT
29904180 GTATGCCTCTGTCACACGGTTGTGTGCCTCT-ATCACAC-AGTT
1 GTATGCCTCTGTCACACGGTTGTGTGCCTCTCATCACACAAG-T
* *
29904222 GTGTGCCTCTATCACACGGTTGTGT
1 GTATGCCTCTGTCACACGGTTGTGT
29904247 ACCCCTTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 2 0.03
42 30 0.50
43 27 0.45
44 1 0.02
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (43 bp):
GTATGCCTCTGTCACACGGTTGTGTGCCTCTCATCACACAAGT
Found at i:29906055 original size:21 final size:22
Alignment explanation
Indices: 29906031--29906072 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29906021 AACATAAATA
*
29906031 TAAAAAAA-TATTAAAATTATT
1 TAAAAAAACTATAAAAATTATT
29906052 TAAAAAAACTATAAAAATTAT
1 TAAAAAAACTATAAAAATTAT
29906073 AACTGCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAAAACTATAAAAATTATT
Found at i:29906239 original size:18 final size:19
Alignment explanation
Indices: 29906194--29906256 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
29906184 ATAATATTTT
*
29906194 TATTTTTACTAATTTTATA
1 TATTTTTACTTATTTTATA
*
29906213 GT-TTATTA-TTATTTTATA
1 -TATTTTTACTTATTTTATA
*
29906231 TATTTTTATTGTATTTTA-A
1 TATTTTTACT-TATTTTATA
29906250 -ATTTTTA
1 TATTTTTA
29906257 ATATTTATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.03
18 21 0.57
19 7 0.19
20 8 0.22
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (19 bp):
TATTTTTACTTATTTTATA
Found at i:29906637 original size:41 final size:40
Alignment explanation
Indices: 29906575--29906651 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
29906565 CACAACCAAC
* *
29906575 TTCATTTAATCTATTTCATACATTTTTATTTTAATAAAGT
1 TTCATTTAATATATTTCATACATATTTATTTTAATAAAGT
* *
29906615 TTCATTTTAATATGTTTTATACATATTTATTTTAATA
1 TTCA-TTTAATATATTTCATACATATTTATTTTAATA
29906652 TGTAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 4 0.12
41 28 0.88
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (40 bp):
TTCATTTAATATATTTCATACATATTTATTTTAATAAAGT
Found at i:29909328 original size:24 final size:24
Alignment explanation
Indices: 29909296--29909344 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
29909286 GGAAAAAAAG
29909296 AAAATTGACTGCACATGTGAAGTT
1 AAAATTGACTGCACATGTGAAGTT
29909320 AAAATTGACTGCACATGTGAAGTT
1 AAAATTGACTGCACATGTGAAGTT
29909344 A
1 A
29909345 GCTTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAATTGACTGCACATGTGAAGTT
Found at i:29913452 original size:30 final size:30
Alignment explanation
Indices: 29913418--29913475 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
29913408 TAATCTTATC
*
29913418 AATTAATTTGGAGTCTATTAATTATCCATT
1 AATTAATTAGGAGTCTATTAATTATCCATT
* * *
29913448 AATTAATTAGGGGTTTGTTAATTATCCA
1 AATTAATTAGGAGTCTATTAATTATCCA
29913476 ACACAGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
AATTAATTAGGAGTCTATTAATTATCCATT
Found at i:29913931 original size:18 final size:18
Alignment explanation
Indices: 29913908--29913943 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
29913898 CAAGTGTTAC
29913908 CTACTTTTCGGCGATGAG
1 CTACTTTTCGGCGATGAG
29913926 CTACTTTTCGGCGATGAG
1 CTACTTTTCGGCGATGAG
29913944 AAGGATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (18 bp):
CTACTTTTCGGCGATGAG
Found at i:29918080 original size:20 final size:20
Alignment explanation
Indices: 29918055--29918098 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
29918045 TAATTTCTTT
29918055 TTTAGTCCCTTTAATTATTC
1 TTTAGTCCCTTTAATTATTC
*
29918075 TTTAGTCCCTTTAATTATTT
1 TTTAGTCCCTTTAATTATTC
29918095 TTTA
1 TTTA
29918099 ATCTATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.16, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAGTCCCTTTAATTATTC
Found at i:29928462 original size:39 final size:39
Alignment explanation
Indices: 29928405--29928517 Score: 154
Period size: 39 Copynumber: 2.9 Consensus size: 39
29928395 CGCGGCCTGC
* *
29928405 TGATTTACGATCACGACCTTCAGCTTTCTTACGATCTAT
1 TGATTTACGATCATGACCTTCAGCTTTCTTACGATCCAT
* * * * *
29928444 TGATTTACGATCATGACCTTCGGTTTTCTTATGGTCCCT
1 TGATTTACGATCATGACCTTCAGCTTTCTTACGATCCAT
*
29928483 TGATTTACGATCATGACCTTCAGCCTTCTTACGAT
1 TGATTTACGATCATGACCTTCAGCTTTCTTACGAT
29928518 ACGCTGATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (39 bp):
TGATTTACGATCATGACCTTCAGCTTTCTTACGATCCAT
Found at i:29928526 original size:39 final size:38
Alignment explanation
Indices: 29928403--29928534 Score: 147
Period size: 39 Copynumber: 3.4 Consensus size: 38
29928393 CTCGCGGCCT
*
29928403 GCTGATTTACGATCACGACCTTCAGCTTTCTTACGATC
1 GCTGATTTACGATCATGACCTTCAGCTTTCTTACGATC
** * * * *
29928441 TATTGATTTACGATCATGACCTTCGGTTTTCTTATGGTC
1 -GCTGATTTACGATCATGACCTTCAGCTTTCTTACGATC
* *
29928480 CCTTGATTTACGATCATGACCTTCAGCCTTCTTACGATAC
1 GC-TGATTTACGATCATGACCTTCAGCTTTCTTACGAT-C
*
29928520 GCTGATTTATGATCA
1 GCTGATTTACGATCA
29928535 CAACCTTTTA
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 73 0.97
40 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (38 bp):
GCTGATTTACGATCATGACCTTCAGCTTTCTTACGATC
Found at i:29928579 original size:54 final size:54
Alignment explanation
Indices: 29928520--29928720 Score: 251
Period size: 54 Copynumber: 3.7 Consensus size: 54
29928510 CTTACGATAC
* *
29928520 GCTGATTTATGATCACAACCTTTTACTTACAAGATTTTACAAATCTCGCAGTCA
1 GCTGATTTACGATCACGACCTTTTACTTACAAGATTTTACAAATCTCGCAGTCA
* * * *
29928574 GCTGATTTACGATCATGACCTTTTACTTACAGGATTTTACAAATCTTGCAGTCC
1 GCTGATTTACGATCACGACCTTTTACTTACAAGATTTTACAAATCTCGCAGTCA
*** * *
29928628 GCTGATTTACGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGTTCA
1 GCTGATTTACGATCACGACCTTTTACTTACAAGATTTTACAAATCTCGCAG-TCA
* * **
29928683 -CTGATTTACGATTATGACCTTTTACTTATGAGATTTTA
1 GCTGATTTACGATCACGACCTTTTACTTACAAGATTTTA
29928721 TGAACCTTGT
Statistics
Matches: 130, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 128 0.98
55 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (54 bp):
GCTGATTTACGATCACGACCTTTTACTTACAAGATTTTACAAATCTCGCAGTCA
Found at i:29928741 original size:54 final size:54
Alignment explanation
Indices: 29928519--29928745 Score: 233
Period size: 54 Copynumber: 4.2 Consensus size: 54
29928509 TCTTACGATA
* ** ** * * *
29928519 CGCTGATTTATGATCACAACCTTTTACTTACAAGATTTTACAAATCTCGCAG-T
1 CGCTGATTTACGATCATGACCTTTTACTTATGAGATTTTACGAATCTTGCGGTT
* * * *
29928572 CAGCTGATTTACGATCATGACCTTTTACTTA-CAGGATTTTACAAATCTTGCAGTC
1 C-GCTGATTTACGATCATGACCTTTTACTTATGA-GATTTTACGAATCTTGCGGTT
* * *
29928627 CGCTGATTTACGATCACGACCTTTTACTTATGGGATTTTACGAATCTCGCGGTT
1 CGCTGATTTACGATCATGACCTTTTACTTATGAGATTTTACGAATCTTGCGGTT
* * * * *
29928681 CACTGATTTACGATTATGACCTTTTACTTATGAGATTTTATGAACCTTGTGGTT
1 CGCTGATTTACGATCATGACCTTTTACTTATGAGATTTTACGAATCTTGCGGTT
*
29928735 TGCTGATTTAC
1 CGCTGATTTAC
29928746 AATTGCGATC
Statistics
Matches: 147, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.01
54 144 0.98
55 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (54 bp):
CGCTGATTTACGATCATGACCTTTTACTTATGAGATTTTACGAATCTTGCGGTT
Found at i:29928820 original size:39 final size:39
Alignment explanation
Indices: 29928759--29928952 Score: 190
Period size: 39 Copynumber: 5.0 Consensus size: 39
29928749 TGCGATCTTT
** ** *
29928759 GGCTTTCTTATAGTCCACTGATTTACGGTCACGACCTTC
1 GGCTTTCTTACGGTCCGTTGATTTACGATCACGACCTTC
* * * *
29928798 AGCTTTCTTACGGTTCGTTGATTTACGATCACGACTTTT
1 GGCTTTCTTACGGTCCGTTGATTTACGATCACGACCTTC
* * * *
29928837 GGCTTTCTTACGGTTCATTGATTTACGATCATGACCTTT
1 GGCTTTCTTACGGTCCGTTGATTTACGATCACGACCTTC
** * * * * * *
29928876 GATTTTCTTACGGTCCGCTAATTTACAACCATGGCCTTC
1 GGCTTTCTTACGGTCCGTTGATTTACGATCACGACCTTC
*
29928915 GGCTTTCTTATGGTCCGTTGATTTACGATCACGACCTT
1 GGCTTTCTTACGGTCCGTTGATTTACGATCACGACCTT
29928953 TTACTTACAC
Statistics
Matches: 123, Mismatches: 32, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 123 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (39 bp):
GGCTTTCTTACGGTCCGTTGATTTACGATCACGACCTTC
Found at i:29928873 original size:78 final size:78
Alignment explanation
Indices: 29928755--29928952 Score: 218
Period size: 78 Copynumber: 2.5 Consensus size: 78
29928745 CAATTGCGAT
* * * * * *
29928755 CTTTGGCTTTCTTATAGTCCACTGATTTACGGTCACGACCTTCAG-CTTTCTTACGGTTCGTTGA
1 CTTTGGCTTTCTTATGGTCCATTGATTTACGATCACGACCTT-AGACTTTCTTACGGTCCGCTAA
* *
29928819 TTTACGATCACGAC
65 TTTACAACCACGAC
* * * * * *
29928833 TTTTGGCTTTCTTACGGTTCATTGATTTACGATCATGACCTTTGATTTTCTTACGGTCCGCTAAT
1 CTTTGGCTTTCTTATGGTCCATTGATTTACGATCACGACCTTAGACTTTCTTACGGTCCGCTAAT
* *
29928898 TTACAACCATGGC
66 TTACAACCACGAC
* *
29928911 CTTCGGCTTTCTTATGGTCCGTTGATTTACGATCACGACCTT
1 CTTTGGCTTTCTTATGGTCCATTGATTTACGATCACGACCTT
29928953 TTACTTACAC
Statistics
Matches: 97, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
77 1 0.01
78 96 0.99
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (78 bp):
CTTTGGCTTTCTTATGGTCCATTGATTTACGATCACGACCTTAGACTTTCTTACGGTCCGCTAAT
TTACAACCACGAC
Found at i:29928978 original size:54 final size:54
Alignment explanation
Indices: 29928920--29929054 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 54
29928910 CCTTCGGCTT
29928920 TCTTATGGTCCGTTGATTTACGATCACGACCTTTTACTTACACGATTTTAT-GAA
1 TCTTATGGTCCGTTGATTTACGATCACGACCTTTTACTTACACGATTTT-TCGAA
* * ** * ** *
29928974 TCTTACGGTCTGCCGATTTACGATCATGACCTTTTACTTACGGGCTTTTTCGAA
1 TCTTATGGTCCGTTGATTTACGATCACGACCTTTTACTTACACGATTTTTCGAA
* * *
29929028 TCTCATGGTTCGTTGATTTATGATCAC
1 TCTTATGGTCCGTTGATTTACGATCAC
29929055 TACTTATTTA
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (54 bp):
TCTTATGGTCCGTTGATTTACGATCACGACCTTTTACTTACACGATTTTTCGAA
Found at i:29929177 original size:22 final size:23
Alignment explanation
Indices: 29929152--29929213 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
29929142 GTTCGTAATA
29929152 TTCTATAATATAGTTCGT-GCAT
1 TTCTATAATATAGTTCGTGGCAT
*
29929174 TTCTATAA-ATGCAGTTCGTGGCGT
1 TTCTATAATAT--AGTTCGTGGCAT
*
29929198 TTCTATGAATACAGTT
1 TTCTAT-AATATAGTT
29929214 GGCGGTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
21 2 0.06
22 8 0.24
23 7 0.21
24 13 0.39
25 2 0.06
26 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (23 bp):
TTCTATAATATAGTTCGTGGCAT
Found at i:29929212 original size:24 final size:22
Alignment explanation
Indices: 29929127--29929213 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
29929117 AGTTTGCGGT
* *
29929127 ATTTTTATAAATACAGTTCGT-A
1 ATTTCTAT-AATACAGTTCGTGC
*
29929149 ATATTCTATAATATAGTTCGTGC
1 AT-TTCTATAATACAGTTCGTGC
*
29929172 ATTTCTATAAATGCAGTTCGTGGC
1 ATTTCTAT-AATACAGTTCGT-GC
*
29929196 GTTTCTATGAATACAGTT
1 ATTTCTAT-AATACAGTT
29929214 GGCGGTATTC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
22 19 0.36
23 17 0.32
24 17 0.32
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (22 bp):
ATTTCTATAATACAGTTCGTGC
Found at i:29931449 original size:26 final size:26
Alignment explanation
Indices: 29931417--29931472 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
29931407 TCATAAAGTG
29931417 GTTAGATGCTAGTTACGAGTTTTAAA
1 GTTAGATGCTAGTTACGAGTTTTAAA
29931443 GTTAGATGCTAGTTACGAGTTTTAAA
1 GTTAGATGCTAGTTACGAGTTTTAAA
29931469 GTTA
1 GTTA
29931473 TTTCATATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.39
Consensus pattern (26 bp):
GTTAGATGCTAGTTACGAGTTTTAAA
Found at i:29935045 original size:40 final size:40
Alignment explanation
Indices: 29934983--29935059 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
29934973 ACAGTACCAT
* * *
29934983 TTGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATGC
1 TTGGTGTGTAGGGCTGGATGGGTCGATTCTATCCCCATGC
*
29935023 TTGGTGTGTAGGGCTGGGTGGGTCGATTCTATCCCCA
1 TTGGTGTGTAGGGCTGGATGGGTCGATTCTATCCCCA
29935060 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.12, C:0.16, G:0.36, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTAGGGCTGGATGGGTCGATTCTATCCCCATGC
Found at i:29936208 original size:18 final size:18
Alignment explanation
Indices: 29936182--29936216 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29936172 CGTGCACAAG
29936182 GGTGCATTTAATTTATTT
1 GGTGCATTTAATTTATTT
*
29936200 GGTGTATTTAATTTATT
1 GGTGCATTTAATTTATT
29936217 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.17, T:0.57
Consensus pattern (18 bp):
GGTGCATTTAATTTATTT
Found at i:29937043 original size:19 final size:20
Alignment explanation
Indices: 29937019--29937057 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
29937009 TCTCATTTTT
29937019 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
29937038 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
29937058 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:29937075 original size:25 final size:23
Alignment explanation
Indices: 29937019--29937084 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 23
29937009 TCTCATTTTT
*
29937019 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
29937038 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
29937061 TATTTGATTTATTATATTTTAAAT
1 TATTTG-TTT-TTATATTTTAAAT
29937085 TTTTTATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 12 0.30
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:29937444 original size:15 final size:16
Alignment explanation
Indices: 29937425--29937465 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
29937415 TTAATTTTTA
29937425 AAAATTATAAAAATAG
1 AAAATTATAAAAATAG
*
29937441 -AAATTATTAAAATAG
1 AAAATTATAAAAATAG
29937456 TAAAATTATA
1 -AAAATTATA
29937466 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 14 0.67
17 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAATTATAAAAATAG
Found at i:29943365 original size:37 final size:37
Alignment explanation
Indices: 29943321--29943400 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
29943311 AGCATCTCAT
29943321 TCATTCCTCATTCATTTCACAACACTTCTCTCATCTC
1 TCATTCCTCATTCATTTCACAACACTTCTCTCATCTC
29943358 TCATTCCTCATTCATTTCACAACACTTCTCTCATCTC
1 TCATTCCTCATTCATTTCACAACACTTCTCTCATCTC
29943395 TCATTC
1 TCATTC
29943401 TTTTTCTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (37 bp):
TCATTCCTCATTCATTTCACAACACTTCTCTCATCTC
Found at i:29950658 original size:17 final size:18
Alignment explanation
Indices: 29950632--29950665 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29950622 TTTTTGTTTA
29950632 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
29950649 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
29950666 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:29951304 original size:16 final size:17
Alignment explanation
Indices: 29951274--29951305 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29951264 TCTCCTAAAT
29951274 TTTAATTTATTCAATTA
1 TTTAATTTATTCAATTA
29951291 TTTAATTT-TTCAATT
1 TTTAATTTATTCAATT
29951306 TACTAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAATTTATTCAATTA
Found at i:29954276 original size:40 final size:40
Alignment explanation
Indices: 29954221--29954442 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
29954211 TATTCGAATG
29954221 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
29954261 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
29954301 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
29954341 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
29954381 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
29954421 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
29954443 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.08
40 154 0.90
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:29957347 original size:22 final size:19
Alignment explanation
Indices: 29957322--29957369 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
29957312 TATCGTTTCG
29957322 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
29957344 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
29957362 ATTAAATT
1 ATTAAATT
29957370 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:29958241 original size:27 final size:27
Alignment explanation
Indices: 29958211--29958266 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
29958201 CTTGTTCCCT
29958211 ATCTCTTTAATTTTTGTTGTTGTTATG
1 ATCTCTTTAATTTTTGTTGTTGTTATG
29958238 ATCTCTTTAATTTTTGTTGTTGTTATG
1 ATCTCTTTAATTTTTGTTGTTGTTATG
29958265 AT
1 AT
29958267 GAACATATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.16, C:0.07, G:0.14, T:0.62
Consensus pattern (27 bp):
ATCTCTTTAATTTTTGTTGTTGTTATG
Found at i:29963001 original size:31 final size:31
Alignment explanation
Indices: 29962957--29963015 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
29962947 CAGCCAAGTA
29962957 AATTAATTGATTTTCT-AATTAACTAAATTT
1 AATTAATTGATTTTCTAAATTAACTAAATTT
* *
29962987 AATTTATTGAATTTTCTAAATTAATTAAA
1 AATTAATTG-ATTTTCTAAATTAACTAAA
29963016 GAAAAATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 7 0.28
32 10 0.40
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (31 bp):
AATTAATTGATTTTCTAAATTAACTAAATTT
Found at i:29964448 original size:43 final size:43
Alignment explanation
Indices: 29964388--29964474 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
29964378 ACTTAGCTTA
29964388 TATAATAAAATTCTAAGGGATGAGATGTGAGAGGGCCCAAGTT
1 TATAATAAAATTCTAAGGGATGAGATGTGAGAGGGCCCAAGTT
29964431 TATAATAAAATTCTAAGGGATGAGATGTGAGAGGGCCCAAGTT
1 TATAATAAAATTCTAAGGGATGAGATGTGAGAGGGCCCAAGTT
29964474 T
1 T
29964475 TTATTTTCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (43 bp):
TATAATAAAATTCTAAGGGATGAGATGTGAGAGGGCCCAAGTT
Found at i:29966190 original size:16 final size:16
Alignment explanation
Indices: 29966169--29966204 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
29966159 AATCAAATTA
*
29966169 ATATAAGCAAATATTT
1 ATATAAACAAATATTT
29966185 ATATAAACAAATATTT
1 ATATAAACAAATATTT
29966201 ATAT
1 ATAT
29966205 TTATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATAAACAAATATTT
Found at i:29967227 original size:20 final size:20
Alignment explanation
Indices: 29967202--29967250 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
29967192 ATGCATTAAT
*
29967202 AAATCAATTTGAATAAAATC
1 AAATCAAATTGAATAAAATC
* **
29967222 AAATCAAATTGATTGGAATC
1 AAATCAAATTGAATAAAATC
29967242 AAATCAAAT
1 AAATCAAAT
29967251 CAAGATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (20 bp):
AAATCAAATTGAATAAAATC
Found at i:29967230 original size:25 final size:25
Alignment explanation
Indices: 29967202--29967253 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
29967192 ATGCATTAAT
*
29967202 AAATCAATTTGAATAAAATCAAATC
1 AAATCAATTGGAATAAAATCAAATC
** *
29967227 AAATTGATTGGAATCAAATCAAATC
1 AAATCAATTGGAATAAAATCAAATC
29967252 AA
1 AA
29967254 GATATTTGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.27
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATCAAATC
Found at i:29970952 original size:52 final size:52
Alignment explanation
Indices: 29970866--29971013 Score: 195
Period size: 52 Copynumber: 3.0 Consensus size: 52
29970856 GAAACCAATT
* * *
29970866 ACATGTATCGCATCCATAATGAACTTGGATCAACTCAACGAGCTAGGATGTC
1 ACATGTATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGTC
*
29970918 ACATGTATCGCATCCATTATGAACTCGGACCAACTCAACGAGCTCGGATG--
1 ACATGTATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGTC
*
29970968 ----G--TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGTC
1 ACATGTATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGTC
29971014 TCATACATAT
Statistics
Matches: 88, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
44 41 0.47
46 1 0.01
52 46 0.52
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (52 bp):
ACATGTATCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGTC
Found at i:29970975 original size:44 final size:44
Alignment explanation
Indices: 29970925--29971100 Score: 176
Period size: 44 Copynumber: 4.0 Consensus size: 44
29970915 GTCACATGTA
*
29970925 TCGCATCCATTATGAACTCGGACCAACTCAACGAGCTCGGATGG
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGG
*
29970969 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGAT-G
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGG
* * * * * * ** ** **
29971012 TCTCATACATATCACGAAC-CTGAACCTACTCAACAATTTTAGATAC
1 TCGCATCCATA--ATGAACTC-GGACCAACTCAACGAGCTCGGATGG
*
29971058 TCGCATCCATAATGAACTCGGACCAACTCAATGAGCTCGGATG
1 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATG
29971101 CCTCTTAAAT
Statistics
Matches: 101, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
43 10 0.10
44 61 0.60
45 21 0.21
46 9 0.09
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGG
Found at i:29971113 original size:89 final size:89
Alignment explanation
Indices: 29970969--29971144 Score: 271
Period size: 89 Copynumber: 2.0 Consensus size: 89
29970959 GCTCGGATGG
* * *
29970969 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGTCTCATACATATCACGAACCTG
1 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCCTCATAAATATCACGAACCCG
*
29971034 AACCTACTCAACAATTTTAGATAC
66 AACCTACTCAACAATTTCAGATAC
* * *
29971058 TCGCATCCATAATGAACTCGGACCAACTCAATGAGCTCGGATGCCTCTTAAATATCACGAACCCG
1 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCCTCATAAATATCACGAACCCG
* *
29971123 GACCTACTCAACGATTTCAGAT
66 AACCTACTCAACAATTTCAGAT
29971145 TTCTAAATTC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (89 bp):
TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCCTCATAAATATCACGAACCCG
AACCTACTCAACAATTTCAGATAC
Found at i:29973961 original size:15 final size:15
Alignment explanation
Indices: 29973943--29973991 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
29973933 GACAAGAAGA
*
29973943 CCAAAATAAAGAAAT
1 CCAAGATAAAGAAAT
*
29973958 CCAAGACAGAA-AAAT
1 CCAAGATA-AAGAAAT
*
29973973 CCAAGATGAAGAAAT
1 CCAAGATAAAGAAAT
29973988 CCAA
1 CCAA
29973992 TATACGATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.10
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:29975763 original size:18 final size:18
Alignment explanation
Indices: 29975740--29975779 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
29975730 CCCCTTACCC
29975740 GAGTCCGACGCTTGGACA
1 GAGTCCGACGCTTGGACA
29975758 GAGTCCGACGCTTGGACA
1 GAGTCCGACGCTTGGACA
29975776 GAGT
1 GAGT
29975780 ACGAGGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.35, T:0.17
Consensus pattern (18 bp):
GAGTCCGACGCTTGGACA
Found at i:29977940 original size:21 final size:21
Alignment explanation
Indices: 29977916--29977963 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
29977906 GACACATAAA
29977916 GTGCCTAAAACAACACACGAG
1 GTGCCTAAAACAACACACGAG
* * *
29977937 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACAACACACGAG
29977958 GTGCCT
1 GTGCCT
29977964 GAAATATGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (21 bp):
GTGCCTAAAACAACACACGAG
Found at i:29979457 original size:16 final size:17
Alignment explanation
Indices: 29979422--29979457 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
29979412 CCTAATTCTC
29979422 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
29979438 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
29979453 CCTTC
1 CCTTC
29979458 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:29979516 original size:15 final size:14
Alignment explanation
Indices: 29979496--29979547 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
29979486 CTTTTCTTTG
29979496 TTCTTTTTCTTTATT
1 TTCTTTTT-TTTATT
*
29979511 TTCTTTCTTTTATT
1 TTCTTTTTTTTATT
*
29979525 TCCTTTTTATTTACTT
1 TTCTTTTT-TTTA-TT
*
29979541 TACTTTT
1 TTCTTTT
29979548 AATAATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 12 0.39
15 11 0.35
16 8 0.26
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (14 bp):
TTCTTTTTTTTATT
Found at i:29981160 original size:52 final size:52
Alignment explanation
Indices: 29981082--29981183 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
29981072 GAACCCAATT
* *
29981082 ACATGTATCACATCCATAATGAACTCGTACCAACTCAACGAGCTCAGATGTC
1 ACATGTATCACATCCATAATGAACTCGGACCAACTCAACCAGCTCAGATGTC
* * *
29981134 ACATGTATCGCATCCATTATGAACTCGGACCAACTCAACCAGCTTAGATG
1 ACATGTATCACATCCATAATGAACTCGGACCAACTCAACCAGCTCAGATG
29981184 CCTCATACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (52 bp):
ACATGTATCACATCCATAATGAACTCGGACCAACTCAACCAGCTCAGATGTC
Found at i:29988999 original size:17 final size:18
Alignment explanation
Indices: 29988977--29989010 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29988967 ACATCCTAAT
*
29988977 ATACAATTAA-TCAGATC
1 ATACAATCAATTCAGATC
29988994 ATACAATCAATTCAGAT
1 ATACAATCAATTCAGAT
29989011 ATCATAGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (18 bp):
ATACAATCAATTCAGATC
Found at i:29991628 original size:29 final size:28
Alignment explanation
Indices: 29991594--29991696 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
29991584 TACTCAATCA
*
29991594 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
29991623 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
29991652 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
29991681 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
29991697 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:29993704 original size:82 final size:82
Alignment explanation
Indices: 29993615--29994159 Score: 569
Period size: 82 Copynumber: 6.8 Consensus size: 82
29993605 TTTTGGATTG
* *
29993615 AATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATTGAAATCGAATAAAATCT
1 AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATTAAAATCGAATAAAATCT
29993680 ATTAAATGGAGGGAATA
66 ATTAAATGGAGGGAATA
* * * * * *
29993697 AATCCCGAAACAAAATTTATTTGATTAAATCTTGCTTGGAAATAAAA-T-CAA---AATAAAATA
1 AATCCCGAAACAGAA-TTATTTAATTAAATCTTGTTTGGAAACAAAATTAAAATCGAATAAAATC
* *
29993757 TGTTAACT-GAGGGAATA
65 TATTAAATGGAGGGAATA
* * * *
29993774 AATCCCGAAACAGAATTATTTAATTAAATATTGTTTGAAAATAAAATCAAAATC-----AAATCT
1 AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATTAAAATCGAATAAAATCT
** *
29993834 GA-TAAA-CAACGAGAATA
66 -ATTAAATGGA-GGGAATA
*
29993851 AATCGCGAAACAGAATTATTTAATTAAATCTTAGTTTGGAAACAAAATTAAAATCGAATAAAATC
1 AATCCCGAAACAGAATTATTTAATTAAATCTT-GTTTGGAAACAAAATTAAAATCGAATAAAATC
* *
29993916 AATTAAATGGTGGGAATA
65 TATTAAATGGAGGGAATA
*** * *
29993934 AATGTTGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
1 AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATTAAAATCGAATAAAATCT
* **
29993999 GTTAAATGGCCGGAATA
66 ATTAAATGGAGGGAATA
* * * * **
29994016 AATCCCGAGACAGAATTATTCAATTAATTCTTTTTTGGAAACAAAA-TAAAAAAGAATAAAATCT
1 AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATTAAAATCGAATAAAATCT
** *
29994080 ATTAAATGTCGGCAATA
66 ATTAAATGGAGGGAATA
* * * * **
29994097 AATCCCGAAATAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATAAAAAAAGAATAAAAT
1 AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATTAAAATCGAATAAAAT
29994160 TTGTTGAACG
Statistics
Matches: 389, Mismatches: 57, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
76 36 0.09
77 59 0.15
78 35 0.09
81 73 0.19
82 115 0.30
83 71 0.18
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (82 bp):
AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATTAAAATCGAATAAAATCT
ATTAAATGGAGGGAATA
Found at i:29993851 original size:77 final size:76
Alignment explanation
Indices: 29993615--29993992 Score: 299
Period size: 83 Copynumber: 4.8 Consensus size: 76
29993605 TTTTGGATTG
* * ** * *
29993615 AATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATTGAAATCGAATAAAATCT
1 AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAATAAAATCAAAATC--A-AATATGT
* * *
29993680 ATTAAATGGAGGGAATA
63 A--AACT-AAGAGAATA
* * * * *
29993697 AATCCCGAAACAAAATTTATTTGATTAAATCTTGCTTGGAAATAAAATCAAAATAAAATATGTTA
1 AATCCCGAAACAGAA-TTATTTAATTAAATCTTGTTTGGAAATAAAATCAAAATCAAATATGTAA
* *
29993762 ACTGAGGGAATA
65 ACTAAGAGAATA
* * *
29993774 AATCCCGAAACAGAATTATTTAATTAAATATTGTTTGAAAATAAAATCAAAATCAAATCTGATAA
1 AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAATAAAATCAAAATCAAATATG-TAA
29993839 AC-AACGAGAATA
65 ACTAA-GAGAATA
* * * * ** *
29993851 AATCGCGAAACAGAATTATTTAATTAAATCTTAGTTTGGAAACAAAATTAAAATCGAATAAAATC
1 AATCCCGAAACAGAATTATTTAATTAAATCTT-GTTTGGAAATAAAATCAAAATCAAAT-ATGTA
* *
29993916 AATTAAATGGTGGGAATA
64 AACT-AA----GAGAATA
*** * * *
29993934 AATGTTGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATA
1 AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAATAAAATCAAAATCAAATA
29993993 AAATCTGTTA
Statistics
Matches: 248, Mismatches: 38, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
76 41 0.17
77 63 0.25
78 28 0.11
80 7 0.03
81 2 0.01
82 40 0.16
83 67 0.27
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (76 bp):
AATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAATAAAATCAAAATCAAATATGTAAA
CTAAGAGAATA
Found at i:29994131 original size:163 final size:162
Alignment explanation
Indices: 29993615--29994188 Score: 612
Period size: 163 Copynumber: 3.6 Consensus size: 162
29993605 TTTTGGATTG
**
29993615 AATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATTGAAATCGAATAAAATCT
1 AATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
* * * * * *
29993680 ATTAAATGGAGGGAATAAATCCCGAAACAAAATTTATTTGATTAAATCTTGCTTGGAAATAAAAT
66 GTTAAATGGACGGAATAAATCCCGAAACAGAA-TTATTTAATTAAATCTTGTTTGGAAACAAAAT
* * * * *
29993745 ---CAA-AATAAAATATGTTAACTGAGGGAATA
130 AAAAAAGAATAAAATCTATTAAATGTGGGAATA
* * * *
29993774 AATCCCGAAACAGAATTATTTAATTAAATATTGTTTGAAAATAAAATCAAAATC-----AAATCT
1 AATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
* ** *
29993834 GATAAA-CAACGAGAATAAATCGCGAAACAGAATTATTTAATTAAATCTTAGTTTGGAAACAAAA
66 GTTAAATGGACG-GAATAAATCCCGAAACAGAATTATTTAATTAAATCTT-GTTTGGAAACAAAA
** *
29993898 TTAAAATCGAATAAAATCAATTAAATGGTGGGAATA
129 -TAAAAAAGAATAAAATCTATTAAAT-GTGGGAATA
***
29993934 AATGTTGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
1 AATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
* * * * *
29993999 GTTAAATGGCCGGAATAAATCCCGAGACAGAATTATTCAATTAATTCTTTTTTGGAAACAAAATA
66 GTTAAATGGACGGAATAAATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATA
*
29994064 AAAAAGAATAAAATCTATTAAATGTCGGCAATA
131 AAAAAGAATAAAATCTATTAAATGT-GGGAATA
* * * * * ** *
29994097 AATCCCGAAATAGAATTATTCAATTAATTCTTGTTTGGAAACAAAATAAAAAAAGAATAAAATTT
1 AATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
* * *
29994162 GTTGAACGG-CAGGAATAAATCCTGAAA
66 GTTAAATGGAC-GGAATAAATCCCGAAA
29994189 TAGATTTTAT
Statistics
Matches: 340, Mismatches: 59, Indels: 28
0.80 0.14 0.07
Matches are distributed among these distances:
153 18 0.05
154 40 0.12
155 1 0.00
159 61 0.18
160 55 0.16
162 3 0.01
163 103 0.30
164 13 0.04
165 44 0.13
166 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (162 bp):
AATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
GTTAAATGGACGGAATAAATCCCGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATA
AAAAAGAATAAAATCTATTAAATGTGGGAATA
Found at i:29997193 original size:13 final size:13
Alignment explanation
Indices: 29997175--29997200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29997165 TTATGTTTAA
29997175 TATATTATTATAT
1 TATATTATTATAT
29997188 TATATTATTATAT
1 TATATTATTATAT
29997201 AATAAAGATA
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:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATTATTATAT
Found at i:29997212 original size:32 final size:32
Alignment explanation
Indices: 29997176--29997236 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
29997166 TATGTTTAAT
*
29997176 ATATTATTATATTAT-ATTATTATATAATAAAG
1 ATATT-TTATATTATAATTATAATATAATAAAG
* *
29997208 ATATTTTATGTTTTAATTATAATATAATA
1 ATATTTTATATTATAATTATAATATAATA
29997237 TAATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (32 bp):
ATATTTTATATTATAATTATAATATAATAAAG
Found at i:29997240 original size:10 final size:9
Alignment explanation
Indices: 29997225--29997258 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
29997215 ATGTTTTAAT
29997225 TATAATATAA
1 TATAATAT-A
29997235 TATAATATA
1 TATAATATA
29997244 TATACATATA
1 TATA-ATATA
29997254 TATAA
1 TATAA
29997259 ACTAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
TATAATATA
Found at i:30000429 original size:27 final size:27
Alignment explanation
Indices: 30000399--30000506 Score: 121
Period size: 27 Copynumber: 3.9 Consensus size: 27
30000389 GGCAGCCAAA
* * *
30000399 ACAGATAATGTGACAGAGTCACGAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
30000426 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
30000453 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
30000481 -CAGATAATTTGTAGCATAGCCACCAG
1 ACAGATAA--TGTGGCAGAGCCACCAG
30000507 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
26 1 0.01
27 39 0.55
28 31 0.44
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:30000503 original size:55 final size:54
Alignment explanation
Indices: 30000398--30000506 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 54
30000388 TGGCAGCCAA
* * *
30000398 AACAGATAATGTGACAGAGTCACGAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTAGCAGAGCCACCAG
* * *
30000452 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTAGCATAGCCACCAG
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTAGCAGAGCCACCAG
30000507 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 15 0.32
55 32 0.68
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTAGCAGAGCCACCAG
Found at i:30008335 original size:55 final size:54
Alignment explanation
Indices: 30008252--30008360 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 54
30008242 TGGCAGCCAA
*
30008252 AACAGATAATGTGACAGAGTCACGAGATACAGATAA-TCGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGAGTCACCAGATA-AGATAATTCGTGGCAGAGCCACCAG
* * *
30008306 AACAGATATATGTGGCAGA-TCCACCAGATAAGATAATTTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGAGT-CACCAGATAAGATAATTCGTGGCAGAGCCACCAG
30008361 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
54 15 0.31
55 33 0.69
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGTCACCAGATAAGATAATTCGTGGCAGAGCCACCAG
Found at i:30008357 original size:28 final size:29
Alignment explanation
Indices: 30008253--30008360 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 29
30008243 GGCAGCCAAA
* * *
30008253 ACAGATAA--TGTGACAGAGTCACGAGAT
1 ACAGATAATTTGTGGCAGAGCCACCAGAT
*
30008280 ACAGATAA-TCGTGGCAGAGCCACCAGA-
1 ACAGATAATTTGTGGCAGAGCCACCAGAT
* *
30008307 ACAGAT-ATATGTGGCAGATCCACCAGAT
1 ACAGATAATTTGTGGCAGAGCCACCAGAT
*
30008335 A-AGATAATTTGTGGCATAGCCACCAG
1 ACAGATAATTTGTGGCAGAGCCACCAG
30008361 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.01
27 34 0.51
28 32 0.48
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (29 bp):
ACAGATAATTTGTGGCAGAGCCACCAGAT
Found at i:30011443 original size:37 final size:37
Alignment explanation
Indices: 30011402--30011550 Score: 253
Period size: 37 Copynumber: 4.0 Consensus size: 37
30011392 TGTTAATTTC
* *
30011402 AAGACTTGTGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
* *
30011439 AAGACTTGTGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
30011476 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
*
30011513 AAGACTTATGTAATATGTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
30011550 A
1 A
30011551 TTTAGGTAAT
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 109 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:30011486 original size:20 final size:20
Alignment explanation
Indices: 30011424--30011524 Score: 79
Period size: 20 Copynumber: 5.3 Consensus size: 20
30011414 ATGTTTTTAA
30011424 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* * ***
30011444 TTGTGTAATG-TTTTTA-A-
1 TTATGTAGTGATTCAAAGAC
30011461 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
30011481 TTATGTAAT-ATTTTTA-A-
1 TTATGTAGTGATTCAAAGAC
30011498 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
30011518 TTATGTA
1 TTATGTA
30011525 ATATGTTTAA
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 16 0.28
18 9 0.16
19 9 0.16
20 23 0.40
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.45
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAC
Found at i:30011567 original size:9 final size:9
Alignment explanation
Indices: 30011555--30011605 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
30011545 ATTCAATTTA
30011555 GGTAATTCG
1 GGTAATTCG
30011564 GGTAATTCG
1 GGTAATTCG
* *
30011573 GTTAATTTG
1 GGTAATTCG
*
30011582 GGTAATTTG
1 GGTAATTCG
*
30011591 GTTAATTCG
1 GGTAATTCG
*
30011600 GTTAAT
1 GGTAAT
30011606 GTTTAACCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (9 bp):
GGTAATTCG
Found at i:30011578 original size:18 final size:18
Alignment explanation
Indices: 30011557--30011605 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
30011547 TCAATTTAGG
30011557 TAATTCGGGTAATTCGGT
1 TAATTCGGGTAATTCGGT
* *
30011575 TAATTTGGGTAATTTGGT
1 TAATTCGGGTAATTCGGT
*
30011593 TAATTCGGTTAAT
1 TAATTCGGGTAAT
30011606 GTTTAACCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.45
Consensus pattern (18 bp):
TAATTCGGGTAATTCGGT
Found at i:30011580 original size:27 final size:27
Alignment explanation
Indices: 30011549--30011605 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
30011539 GTAGTGATTC
30011549 AATTTAGGTAATTCGGGTAATTCGGTT
1 AATTTAGGTAATTCGGGTAATTCGGTT
* * *
30011576 AATTTGGGTAATTTGGTTAATTCGGTT
1 AATTTAGGTAATTCGGGTAATTCGGTT
30011603 AAT
1 AAT
30011606 GTTTAACCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (27 bp):
AATTTAGGTAATTCGGGTAATTCGGTT
Found at i:30020451 original size:13 final size:13
Alignment explanation
Indices: 30020435--30020459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30020425 TAGAAAAAAA
30020435 ATATGTGTATTTG
1 ATATGTGTATTTG
30020448 ATATGTGTATTT
1 ATATGTGTATTT
30020460 ATTTGTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
ATATGTGTATTTG
Found at i:30024664 original size:17 final size:17
Alignment explanation
Indices: 30024623--30024664 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
30024613 CGAGATAAAC
*
30024623 AGTTATATGTGAAATTT
1 AGTTAAATGTGAAATTT
30024640 AG-TAAATGT-AAATTCT
1 AGTTAAATGTGAAATT-T
30024656 AGTTAAATG
1 AGTTAAATG
30024665 AAGTCAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.23
16 9 0.41
17 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (17 bp):
AGTTAAATGTGAAATTT
Found at i:30027631 original size:22 final size:20
Alignment explanation
Indices: 30027583--30027623 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30027573 CATTCCAATT
*
30027583 CATTTCACATATTACATTTC
1 CATTTCACATATTAAATTTC
30027603 CATTTCACATATATAAATTTC
1 CATTTCACATAT-TAAATTTC
30027624 ATAATTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (20 bp):
CATTTCACATATTAAATTTC
Found at i:30028401 original size:121 final size:121
Alignment explanation
Indices: 30028256--30028498 Score: 423
Period size: 121 Copynumber: 2.0 Consensus size: 121
30028246 TTTCAGAACG
*
30028256 ACGTTTGCTATGGAATAAAATAATTAAAATAGATTAATAATACATAACTTAATTTTTATTAAATT
1 ACGTTTGCTATGGAATAAAATAATTAAAATAGATTAATAATACATAACTCAATTTTTATTAAATT
*
30028321 TCAATTTTTTTACCATATTTTACTTAATCTTCAATTTAGTCCCTAAACTAAGACTA
66 TCAATTTTTTTACCATACTTTACTTAATCTTCAATTTAGTCCCTAAACTAAGACTA
* *
30028377 ACGTTTGTTATGGAATAAAATAATTAAAATAGATTAATAATACATAACTCAGTTTTTATTAAATT
1 ACGTTTGCTATGGAATAAAATAATTAAAATAGATTAATAATACATAACTCAATTTTTATTAAATT
* * *
30028442 TCAATTTTTTTACCATACTTTGCTTAATCTTCAATTTAGTCCCTAAATTGAGACTA
66 TCAATTTTTTTACCATACTTTACTTAATCTTCAATTTAGTCCCTAAACTAAGACTA
30028498 A
1 A
30028499 TTTTAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 115 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (121 bp):
ACGTTTGCTATGGAATAAAATAATTAAAATAGATTAATAATACATAACTCAATTTTTATTAAATT
TCAATTTTTTTACCATACTTTACTTAATCTTCAATTTAGTCCCTAAACTAAGACTA
Found at i:30028953 original size:3 final size:3
Alignment explanation
Indices: 30028945--30028999 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
30028935 TAGTACTAAC
30028945 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30028993 TAT TAT T
1 TAT TAT T
30029000 TAACTAATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30031686 original size:19 final size:18
Alignment explanation
Indices: 30031651--30031689 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30031641 ATAGTTTCAG
*
30031651 ATAAAATTAAAAAATAAA
1 ATAAAAATAAAAAATAAA
*
30031669 ATAAAAATAAAGATATAAA
1 ATAAAAATAAA-AAATAAA
30031688 AT
1 AT
30031690 CTTTGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAAAATAAAAAATAAA
Found at i:30032735 original size:2 final size:2
Alignment explanation
Indices: 30032728--30032756 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30032718 ATCTAACTTT
30032728 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30032757 TGCGTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30046524 original size:14 final size:14
Alignment explanation
Indices: 30046505--30046549 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
30046495 GAAACTACCA
30046505 AAAATAATTCCTAC
1 AAAATAATTCCTAC
30046519 AAAATAA---CT-C
1 AAAATAATTCCTAC
*
30046529 GAAATAATTCCTAC
1 AAAATAATTCCTAC
30046543 AAAATAA
1 AAAATAA
30046550 GTCCACAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
13 2 0.08
14 14 0.56
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.24
Consensus pattern (14 bp):
AAAATAATTCCTAC
Found at i:30046759 original size:17 final size:16
Alignment explanation
Indices: 30046722--30046760 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
30046712 AATAAACAAT
30046722 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
30046737 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
30046755 TAAATT
1 TAAATT
30046761 CGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:30054948 original size:39 final size:39
Alignment explanation
Indices: 30054823--30054949 Score: 150
Period size: 39 Copynumber: 3.2 Consensus size: 39
30054813 TTGCTGGAAA
* * *
30054823 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCC-GGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
30054863 CTACATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
30054902 TTCTATCCGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
30054941 TTATATCCG
1 TTATATCCG
30054950 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
38 4 0.05
39 64 0.86
40 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.24
Consensus pattern (39 bp):
TTATATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:30062928 original size:124 final size:124
Alignment explanation
Indices: 30062706--30062930 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
30062696 GAATTATGTG
* * * * * * *
30062706 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
30062771 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
30062830 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
30062895 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
30062931 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:30063052 original size:40 final size:40
Alignment explanation
Indices: 30062925--30063054 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
30062915 TTGCTGGAAA
* * *
30062925 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
30062965 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
30063005 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
30063045 TTATATCCGG
1 TTATATCCGG
30063055 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:30073431 original size:13 final size:13
Alignment explanation
Indices: 30073415--30073460 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
30073405 TTATTTTCTT
30073415 TTATTTAGTTTTA
1 TTATTTAGTTTTA
*
30073428 TTATTTATTTTTA
1 TTATTTAGTTTTA
30073441 TT-TTTA-TTTTA
1 TTATTTAGTTTTA
30073452 TTAATTTAG
1 TT-ATTTAG
30073461 AATAGGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 7 0.24
12 4 0.14
13 18 0.62
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:30075268 original size:30 final size:30
Alignment explanation
Indices: 30075232--30075294 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
30075222 AGTGCCTTGA
30075232 TCATATTGATGCTACTCTACATCAGATTTG
1 TCATATTGATGCTACTCTACATCAGATTTG
30075262 TCATATTGATGCTACTCTACATCAGATTTG
1 TCATATTGATGCTACTCTACATCAGATTTG
30075292 TCA
1 TCA
30075295 GCACCTTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.40
Consensus pattern (30 bp):
TCATATTGATGCTACTCTACATCAGATTTG
Found at i:30080297 original size:5 final size:5
Alignment explanation
Indices: 30080289--30080362 Score: 98
Period size: 5 Copynumber: 14.6 Consensus size: 5
30080279 TTTGTTTTAT
30080289 ATATA ATATA ATATA AT-TAA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA
*
30080339 ATA-A TATAATA ATATA TTATA ATA
1 ATATA -AT-ATA ATATA ATATA ATA
30080363 AAAATCTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
4 2 0.03
5 55 0.89
6 4 0.06
7 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:30081085 original size:5 final size:5
Alignment explanation
Indices: 30081075--30081119 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
30081065 TTCGATTAGG
* *
30081075 TTTCT TTTCT TTTCT TTCTCT TGTCT TTTCT TATCT TTTCAT TTT
1 TTTCT TTTCT TTTCT TT-TCT TTTCT TTTCT TTTCT TTTC-T TTT
30081120 TAGATTAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 26 0.76
6 8 0.24
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTCT
Found at i:30081096 original size:16 final size:15
Alignment explanation
Indices: 30081077--30081119 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
30081067 CGATTAGGTT
30081077 TCTTTTCTTTTCTT-
1 TCTTTTCTTTTCTTA
30081091 TCTCTTGTCTTTTCTTA
1 TCT-TT-TCTTTTCTTA
30081108 TCTTTTCATTTT
1 TCTTTTC-TTTT
30081120 TAGATTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
15 4 0.16
16 15 0.60
17 3 0.12
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (15 bp):
TCTTTTCTTTTCTTA
Found at i:30083070 original size:21 final size:22
Alignment explanation
Indices: 30083040--30083080 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
30083030 ATTAATCTTT
30083040 TTTTATTTTATAAA-AAAAATAA
1 TTTTATTTTA-AAACAAAAATAA
30083062 TTTTA-TTTAAAACAAAAAT
1 TTTTATTTTAAAACAAAAAT
30083081 TATGATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 10 0.56
22 5 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTTATTTTAAAACAAAAATAA
Found at i:30085641 original size:12 final size:12
Alignment explanation
Indices: 30085610--30085642 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
30085600 TATATTTTTA
30085610 AAAAATT-ATAT
1 AAAAATTAATAT
30085621 AAAAA-TAATAT
1 AAAAATTAATAT
30085632 AAAAATTAATA
1 AAAAATTAATA
30085643 GGGTCAGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATTAATAT
Found at i:30086510 original size:85 final size:85
Alignment explanation
Indices: 30086367--30086541 Score: 341
Period size: 85 Copynumber: 2.1 Consensus size: 85
30086357 AAAAAAATTA
30086367 AATTTCGAGTTAATCAAATCAAGTTATTCAAGTTATTTGAGTCAACTCGAATAAGTAATTCAAGT
1 AATTTCGAGTTAATCAAATCAAGTTATTCAAGTTATTTGAGTCAACTCGAATAAGTAATTCAAGT
30086432 TTCTAGTTCGAATCAAGTTG
66 TTCTAGTTCGAATCAAGTTG
*
30086452 AATTTCGAGTTAATCAAATCAAGTTATTCAAGTTATTTGAGTCAACTCGAATAAGTAATTCGAGT
1 AATTTCGAGTTAATCAAATCAAGTTATTCAAGTTATTTGAGTCAACTCGAATAAGTAATTCAAGT
30086517 TTCTAGTTCGAATCAAGTTG
66 TTCTAGTTCGAATCAAGTTG
30086537 AATTT
1 AATTT
30086542 TACAATTTGA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (85 bp):
AATTTCGAGTTAATCAAATCAAGTTATTCAAGTTATTTGAGTCAACTCGAATAAGTAATTCAAGT
TTCTAGTTCGAATCAAGTTG
Found at i:30086714 original size:25 final size:26
Alignment explanation
Indices: 30086686--30086736 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
30086676 TAAATTCAAA
*
30086686 ATATTTATAAAAAATTCTAA-AATTT
1 ATATTTATAAAAAATTATAATAATTT
*
30086711 ATATTTTTAAAAAATTATAATAATTT
1 ATATTTATAAAAAATTATAATAATTT
30086737 TAAAAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATTTATAAAAAATTATAATAATTT
Found at i:30088764 original size:14 final size:14
Alignment explanation
Indices: 30088747--30088777 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30088737 AAAATGTCAC
30088747 ACAAAAAAAAATTA
1 ACAAAAAAAAATTA
*
30088761 ACAAAAAGAAATTA
1 ACAAAAAAAAATTA
30088775 ACA
1 ACA
30088778 GCATTACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.10, G:0.03, T:0.13
Consensus pattern (14 bp):
ACAAAAAAAAATTA
Found at i:30091362 original size:19 final size:20
Alignment explanation
Indices: 30091338--30091376 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
30091328 ATTATTGTAA
30091338 ATAGTAAAAT-AAATTTTTT
1 ATAGTAAAATAAAATTTTTT
30091357 ATAGTAAAATAAAATTTTTT
1 ATAGTAAAATAAAATTTTTT
30091377 CCCTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
ATAGTAAAATAAAATTTTTT
Found at i:30098041 original size:14 final size:14
Alignment explanation
Indices: 30098024--30098050 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30098014 TTAAAGTGTT
30098024 AAAAATAAAAATAA
1 AAAAATAAAAATAA
30098038 AAAAATAAAAATA
1 AAAAATAAAAATA
30098051 TGTTAGTGCT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:30108256 original size:23 final size:22
Alignment explanation
Indices: 30108229--30108347 Score: 84
Period size: 23 Copynumber: 5.2 Consensus size: 22
30108219 TTTTTAATAT
30108229 TATATTTCACATATATTATTATA
1 TATATTTCA-ATATATTATTATA
*
30108252 TATATTTTAATATTATTAGTTATA
1 TATATTTCAATA-TATTA-TTATA
** *
30108276 T-T-TTTCTTTTATACTATTATA
1 TATATTTC-AATATATTATTATA
* *
30108297 TATATTTCTA-ATATTA-TATTG
1 TATATTTCAATATATTATTA-TA
30108318 TATATTTCTAATACTATTATTTATA
1 TATATTTC-AATA-TATTA-TTATA
30108343 TATAT
1 TATAT
30108348 ATGTGTGTGT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.03
21 20 0.27
22 13 0.17
23 21 0.28
24 11 0.15
25 6 0.08
26 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATTTCAATATATTATTATA
Found at i:30108323 original size:21 final size:21
Alignment explanation
Indices: 30108228--30108343 Score: 85
Period size: 21 Copynumber: 5.3 Consensus size: 21
30108218 GTTTTTAATA
30108228 TTATATTTC-ACATA-TATTAT
1 TTATATTTCTA-ATACTATTAT
* *
30108248 TATATATATTTTAATATTATTAGT
1 T-TATAT-TTCTAATACTATTA-T
* *
30108272 TATATTTTTCTTTTATACTATTAT
1 T-TATATTTC--TAATACTATTAT
* *
30108296 ATATATTTCTAATATTA-TAT
1 TTATATTTCTAATACTATTAT
30108316 TGTATATTTCTAATACTATTAT
1 T-TATATTTCTAATACTATTAT
30108338 TTATAT
1 TTATAT
30108344 ATATATGTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.05
21 31 0.41
22 9 0.12
23 15 0.20
24 8 0.11
25 9 0.12
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATATTTCTAATACTATTAT
Found at i:30120817 original size:74 final size:71
Alignment explanation
Indices: 30120696--30121047 Score: 375
Period size: 74 Copynumber: 4.9 Consensus size: 71
30120686 TTTGGGTACT
* * * **
30120696 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
30120761 GGTCACACG
65 GG--ACACG
* * **
30120770 CTGAGGTATTTTTAGTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
1 CTGAGGTATTTTTAATTTATGTTTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
30120835 GGTCACG
65 GGACACG
* *
30120842 CTGAGGTATTTTTAATTCCTGTTGTTTCAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
30120907 CAAGACACA
63 CAGGACACG
* * * * * *
30120916 TTAAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
30120979 GGCACG
66 GACACG
* * * * * *
30120985 CTGAGGTATTTTTAGTTTATGTTTAGAAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTT-CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
30121048 TTTAATTTCT
Statistics
Matches: 230, Mismatches: 42, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
69 21 0.09
70 39 0.17
71 33 0.14
72 21 0.09
73 4 0.02
74 106 0.46
75 6 0.03
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACG
Found at i:30121257 original size:88 final size:87
Alignment explanation
Indices: 30121047--30121277 Score: 261
Period size: 88 Copynumber: 2.6 Consensus size: 87
30121037 GAGTTAAGCC
* * * * *
30121047 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTCACAT
1 TTTTAATTTTTACTTTCCTAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACAT
* *
30121112 CTGAGCTGTTTTCAACTTCTAT
66 CTGAGCTATTTTCAAATTCTAT
* * * *
30121134 TTTTCAA--ATT-CTGTTCGTCAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGTCA
1 TTTT-AATTTTTACT-TTCCT-AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCA
* * *
30121196 CATGTCGAGGTATTTTCAAATTCTGT
63 CATCT-GAGCTATTTTCAAATTCTAT
* *
30121222 TTTTAATTTTTACTTTCCTAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTAATTTTTACTTTCCTAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC
30121278 AAGACACGTT
Statistics
Matches: 118, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
85 1 0.01
86 3 0.03
87 50 0.42
88 56 0.47
89 6 0.05
90 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (87 bp):
TTTTAATTTTTACTTTCCTAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGCTCACAT
CTGAGCTATTTTCAAATTCTAT
Found at i:30121425 original size:172 final size:170
Alignment explanation
Indices: 30121210--30121541 Score: 513
Period size: 172 Copynumber: 1.9 Consensus size: 170
30121200 TCGAGGTATT
* * *
30121210 TTCAAATTCTGTTTTTAATTTTTACTTTCCTAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTCAAATCCTGTCTTTAATTTTTACTTTCCTAAAACCAACTCATATTGCGAGAGGTGAGTTAAGC
*
30121275 CTCAAGACACGTTGAGGTAATTTCAATTTATGCTTCAAAAAATCAACTCATATTGCGAGAAGTAA
66 CTCAAGACACGTTAAGGTAATTTCAATTTATGCTTC-AAAAATCAACTCATATTGCGAGAAGTAA
* * *
30121340 GTTGAGCCTCGGGGCATGCCGCGGTATTTTCAAATTCTCTTG
130 GCTGAGCCTC-GGGCACGCCGAGGTATTTTCAAATTCTCTTG
*
30121382 TTCAAATCCTGTCTTTAATTTTTACTTTTCC-AAAATCAACTCATATTGCGAGAGGTGAGTTAAG
1 TTCAAATCCTGTCTTTAATTTTTAC-TTTCCTAAAACCAACTCATATTGCGAGAGGTGAGTTAAG
* * * *
30121446 CCTTAAGACACGTTAAGGTAATTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGA
65 CCTCAAGACACGTTAAGGTAATTTCAATTTATGCTTCAAAAATCAACTCATATTGCGAGAAGTAA
*
30121511 GCTGAGCCTCGGGCACGCTGAGGTATTTTCA
130 GCTGAGCCTCGGGCACGCCGAGGTATTTTCA
30121542 TTTTCTACTT
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
170 18 0.12
171 35 0.24
172 88 0.60
173 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (170 bp):
TTCAAATCCTGTCTTTAATTTTTACTTTCCTAAAACCAACTCATATTGCGAGAGGTGAGTTAAGC
CTCAAGACACGTTAAGGTAATTTCAATTTATGCTTCAAAAATCAACTCATATTGCGAGAAGTAAG
CTGAGCCTCGGGCACGCCGAGGTATTTTCAAATTCTCTTG
Found at i:30121654 original size:56 final size:54
Alignment explanation
Indices: 30121561--30121717 Score: 210
Period size: 54 Copynumber: 2.9 Consensus size: 54
30121551 TTCTAATTCC
30121561 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
1 TGTTTTTCAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTTTTAATTT-T
* * *
30121616 GTTTTTTTCAAAAAAGCAACTCATATTGCGAGAGTGAGTT-ATACCTTTTAATTTT
1 -TGTTTTTCAAAAAATCAACTCATATTGCGAGAGTGAGTTGA-GCCTTTTAATTTT
* *
30121671 TGTTTTTCAAAAAATCAACCCATATTACGAGAAGTGAGTTGAGCCTT
1 TGTTTTTCAAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTT
30121718 AGGTCATATG
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
54 27 0.30
55 14 0.16
56 26 0.29
57 22 0.25
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (54 bp):
TGTTTTTCAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTTTTAATTTT
Found at i:30125072 original size:46 final size:46
Alignment explanation
Indices: 30125022--30125197 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30125012 TGGTTGAGCA
30125022 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30125068 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30125113 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30125161 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30125198 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30125178 original size:93 final size:93
Alignment explanation
Indices: 30125019--30125190 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30125009 GGATGGTTGA
* *
30125019 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30125084 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30125112 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30125177 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30125191 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30132649 original size:46 final size:46
Alignment explanation
Indices: 30132599--30132774 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30132589 TGGTTGAGCA
30132599 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30132645 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30132690 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30132738 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30132775 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30132755 original size:93 final size:93
Alignment explanation
Indices: 30132596--30132767 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30132586 GGATGGTTGA
* *
30132596 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30132661 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30132689 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30132754 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30132768 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30134288 original size:23 final size:22
Alignment explanation
Indices: 30134261--30134379 Score: 84
Period size: 21 Copynumber: 5.2 Consensus size: 22
30134251 TTTTTAATAT
30134261 TATATTTCACATATATTATTATA
1 TATATTTCA-ATATATTATTATA
*
30134284 TATATTTTAATATTATTAGTTATA
1 TATATTTCAATA-TATTA-TTATA
** *
30134308 T-T-TTTCTTTTATACTATTATA
1 TATATTTC-AATATATTATTATA
* *
30134329 TATATTTCTA-ATATTA-TATTG
1 TATATTTCAATATATTATTA-TA
30134350 TATATTTCTAATAATATTATTTATA
1 TATATTTC-AAT-ATATTA-TTATA
30134375 TATAT
1 TATAT
30134380 ATATATGTGT
Statistics
Matches: 75, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
20 2 0.03
21 20 0.27
22 13 0.17
23 20 0.27
24 12 0.16
25 6 0.08
26 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATTTCAATATATTATTATA
Found at i:30134353 original size:25 final size:25
Alignment explanation
Indices: 30134280--30134354 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
30134270 CATATATTAT
*
30134280 TATATATATTT-TAATATTAT-TAG
1 TATATATATTTCTAATATTATATTG
*
30134303 T-TATATTTTTCT--T-TTATACTAT-
1 TATATATATTTCTAATATTATA-T-TG
30134325 TATATATATTTCTAATATTATATTG
1 TATATATATTTCTAATATTATATTG
30134350 TATAT
1 TATAT
30134355 TTCTAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
20 4 0.10
21 1 0.03
22 10 0.25
23 12 0.30
24 1 0.03
25 7 0.17
26 5 0.12
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (25 bp):
TATATATATTTCTAATATTATATTG
Found at i:30140856 original size:22 final size:22
Alignment explanation
Indices: 30140823--30140890 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
30140813 ACAAAAAAAA
30140823 ATCAT-ACTATACATATTAACAT
1 ATCATAAC-ATACATATTAACAT
* * *
30140845 ATCATAACATACACACTAATAT
1 ATCATAACATACATATTAACAT
* *
30140867 ATCATAACAAACATAATAAACAT
1 ATCATAACATACAT-ATTAACAT
30140890 A
1 A
30140891 CTAATATATC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 28 0.78
23 8 0.22
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (22 bp):
ATCATAACATACATATTAACAT
Found at i:30140894 original size:31 final size:31
Alignment explanation
Indices: 30140859--30140932 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
30140849 TAACATACAC
*
30140859 ACTAATATATCATAACAAACATAATAAACAT
1 ACTAATATATCATAACAAACAAAATAAACAT
* *
30140890 ACTAATATATCATAACATACAAAATATACAT
1 ACTAATATATCATAACAAACAAAATAAACAT
**
30140921 AAGAATATATCA
1 ACTAATATATCA
30140933 ATTGATTGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.27
Consensus pattern (31 bp):
ACTAATATATCATAACAAACAAAATAAACAT
Found at i:30140906 original size:18 final size:17
Alignment explanation
Indices: 30140862--30140922 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 17
30140852 CATACACACT
*
30140862 AATATATCATAACAAAC
1 AATATATCATAACATAC
30140879 -ATA-AT-A-AACATAC
1 AATATATCATAACATAC
30140892 TAATATATCATAACATAC
1 -AATATATCATAACATAC
*
30140910 AAAATATACATAA
1 AATATAT-CATAA
30140923 GAATATATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
13 6 0.17
14 1 0.03
15 5 0.14
16 5 0.14
17 7 0.19
18 12 0.33
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (17 bp):
AATATATCATAACATAC
Found at i:30144654 original size:17 final size:17
Alignment explanation
Indices: 30144634--30144676 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
30144624 TAAAAAGCAT
*
30144634 AAAAATAT-AATTTTTA
1 AAAAATATAAATTTATA
30144650 AAAAATATAAATTTATA
1 AAAAATATAAATTTATA
30144667 AAAAA-ATAAA
1 AAAAATATAAA
30144677 AACTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATATAAATTTATA
Found at i:30144676 original size:16 final size:16
Alignment explanation
Indices: 30144634--30144676 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
30144624 TAAAAAGCAT
*
30144634 AAAAATATAATTTTTAA
1 AAAAATA-AATTTATAA
30144651 AAAATATAAATTTATAA
1 AAAA-ATAAATTTATAA
30144668 AAAAATAAA
1 AAAAATAAA
30144677 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 16 0.67
18 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAATAAATTTATAA
Found at i:30144892 original size:8 final size:8
Alignment explanation
Indices: 30144881--30144905 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30144871 AACAAATTTT
30144881 TATATTAA
1 TATATTAA
30144889 TATATTAA
1 TATATTAA
30144897 TATATTAA
1 TATATTAA
30144905 T
1 T
30144906 TTTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATATTAA
Found at i:30147742 original size:27 final size:28
Alignment explanation
Indices: 30147680--30147742 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
30147670 GATAGAAGAG
30147680 CCTTTGT-GCTGTAATATAAAAGAAACA
1 CCTTTGTGGCTGTAATATAAAAGAAACA
*
30147707 CCTTTGTGGC-GTAATATGAAAGAATA-A
1 CCTTTGTGGCTGTAATATAAAAGAA-ACA
30147734 CCTTTGTGG
1 CCTTTGTGG
30147743 AAAACTCTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 30 0.91
28 3 0.09
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (28 bp):
CCTTTGTGGCTGTAATATAAAAGAAACA
Found at i:30148288 original size:17 final size:17
Alignment explanation
Indices: 30148266--30148299 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30148256 ATGGATTCAC
*
30148266 TTAGATATATTTAGTAT
1 TTAGATATAATTAGTAT
30148283 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
30148300 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:30149890 original size:17 final size:17
Alignment explanation
Indices: 30149868--30149904 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
30149858 AATCGAGATA
*
30149868 ATTTAAAACGTCTCTTG
1 ATTTAAAACGTCCCTTG
30149885 ATTTAAAACGTCCCTTG
1 ATTTAAAACGTCCCTTG
30149902 ATT
1 ATT
30149905 GGACCCTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (17 bp):
ATTTAAAACGTCCCTTG
Done.