Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 78 of 349
Found at i:22937185 original size:17 final size:17
Alignment explanation
Indices: 22937165--22937197 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22937155 CTTAATGAAA
22937165 AAATAAAATACAAAAAG
1 AAATAAAATACAAAAAG
22937182 AAATAAAATACAAAAA
1 AAATAAAATACAAAAA
22937198 AATAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AAATAAAATACAAAAAG
Found at i:22939040 original size:15 final size:15
Alignment explanation
Indices: 22939020--22939049 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22939010 TAATAAAAAG
22939020 GAAAAAGAAAGCTAA
1 GAAAAAGAAAGCTAA
22939035 GAAAAAGAAAGCTAA
1 GAAAAAGAAAGCTAA
22939050 AATCAACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (15 bp):
GAAAAAGAAAGCTAA
Found at i:22953355 original size:18 final size:18
Alignment explanation
Indices: 22953334--22953372 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
22953324 CGAGCCATAA
*
22953334 CCAGATCCCAAGCCTGAG
1 CCAGAGCCCAAGCCTGAG
22953352 CCAGAGCCCAAGCCTGAG
1 CCAGAGCCCAAGCCTGAG
22953370 CCA
1 CCA
22953373 CAGTTGGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.41, G:0.23, T:0.08
Consensus pattern (18 bp):
CCAGAGCCCAAGCCTGAG
Found at i:22953595 original size:33 final size:32
Alignment explanation
Indices: 22953500--22953598 Score: 81
Period size: 33 Copynumber: 3.0 Consensus size: 32
22953490 TTTGATATCT
* * *
22953500 TTGGGTTGTATCCACTGTAGCATAGCACTTCTC
1 TTGGGTTGTATCCACCGCAGCATA-CACTCCTC
* * * * * *
22953533 TCGGCTCGTATCTACCGCAGTATTCCACTCCTC
1 TTGGGTTGTATCCACCGCAGCA-TACACTCCTC
*
22953566 TTGGGTTGTATCCACGGCAGCATGACACTCCTC
1 TTGGGTTGTATCCACCGCAGCAT-ACACTCCTC
22953599 CCGGCTCAAC
Statistics
Matches: 48, Mismatches: 16, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
32 1 0.02
33 46 0.96
34 1 0.02
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.31
Consensus pattern (32 bp):
TTGGGTTGTATCCACCGCAGCATACACTCCTC
Found at i:22953983 original size:17 final size:17
Alignment explanation
Indices: 22953963--22954011 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
22953953 CTTTAAATAC
22953963 ATTACAACATTAATCTA
1 ATTACAACATTAATCTA
*
22953980 ATTAACTACATTAATCTA
1 ATT-ACAACATTAATCTA
**
22953998 ATTGGAACATTAAT
1 ATTACAACATTAAT
22954012 TAAATACATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (17 bp):
ATTACAACATTAATCTA
Found at i:22954044 original size:17 final size:17
Alignment explanation
Indices: 22953968--22954044 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 17
22953958 AATACATTAC
22953968 AACATTAATCTAATT-A
1 AACATTAATCTAATTGA
*
22953984 ACTACATTAATCTAATTGG
1 A--ACATTAATCTAATTGA
* *
22954003 AACATTAATTAAATACATTAA
1 AACATTAA-T--CTA-ATTGA
*
22954024 AACATTAATCTAATTGG
1 AACATTAATCTAATTGA
22954041 AACA
1 AACA
22954045 AACTTTGCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
16 1 0.02
17 14 0.30
18 17 0.36
19 1 0.02
20 3 0.06
21 11 0.23
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (17 bp):
AACATTAATCTAATTGA
Found at i:22957796 original size:19 final size:18
Alignment explanation
Indices: 22957774--22957812 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
22957764 AAACATAAAA
22957774 ATAACAATAAAAAAACTAT
1 ATAACAATAAAAAAA-TAT
* *
22957793 ATAATACTAAAAAAATAT
1 ATAACAATAAAAAAATAT
22957811 AT
1 AT
22957813 TTTTCTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAACAATAAAAAAATAT
Found at i:22958136 original size:27 final size:28
Alignment explanation
Indices: 22958094--22958156 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
22958084 CATCCACCTC
22958094 TATATTTTTAT-TTTTTTCAGCTTTTAT
1 TATATTTTTATATTTTTTCAGCTTTTAT
22958121 TATATTTTTATATTTTTTCAGCTTTTAT
1 TATATTTTTATATTTTTTCAGCTTTTAT
22958149 T-T-TTTTTA
1 TATATTTTTA
22958157 CTGTTTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 6 0.17
27 12 0.34
28 17 0.49
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (28 bp):
TATATTTTTATATTTTTTCAGCTTTTAT
Found at i:22958170 original size:19 final size:19
Alignment explanation
Indices: 22958148--22958185 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22958138 TCAGCTTTTA
*
22958148 TTTTTTTT-ACTGTTTATG
1 TTTTTTTTAACTGATTATG
22958166 TTTTTTTTAACTGATTATG
1 TTTTTTTTAACTGATTATG
22958185 T
1 T
22958186 CAGAAACCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (19 bp):
TTTTTTTTAACTGATTATG
Found at i:22970584 original size:20 final size:20
Alignment explanation
Indices: 22970559--22970631 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 20
22970549 ATTCCAAAAA
22970559 TAATATTATTTTAATAAATT
1 TAATATTATTTTAATAAATT
22970579 TAATATTTATCTTGTAAATAAATAT
1 TAATA-TTAT-TT-T-AATAAAT-T
* *
22970604 T-TTATTAATTTAATAAGATT
1 TAATATTATTTTAATAA-ATT
22970624 TAATATTA
1 TAATATTA
22970632 AAGTGATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 12 0.28
21 12 0.28
22 4 0.09
23 4 0.09
24 9 0.21
25 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (20 bp):
TAATATTATTTTAATAAATT
Found at i:22971016 original size:20 final size:20
Alignment explanation
Indices: 22970991--22971031 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
22970981 AGATAACACG
22970991 ACCAAGATTTTGTTTTGGAA
1 ACCAAGATTTTGTTTTGGAA
* *
22971011 ACCAAGTTTTTGTTTTTGAA
1 ACCAAGATTTTGTTTTGGAA
22971031 A
1 A
22971032 ATTTTTCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (20 bp):
ACCAAGATTTTGTTTTGGAA
Found at i:22976467 original size:29 final size:29
Alignment explanation
Indices: 22976387--22976467 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
22976377 GAAGAGGTGG
* * *
22976387 AGAACTTGTTCGTTGAGAGTTCACGATGA
1 AGAACTTGTTCATTGAGAATTCGCGATGA
* * *
22976416 AGAATTTATTCATTGAGATTTCGCGATGA
1 AGAACTTGTTCATTGAGAATTCGCGATGA
22976445 AGAACTTGTTCATTGAGAATTCG
1 AGAACTTGTTCATTGAGAATTCG
22976468 TGTCAATGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAATTCGCGATGA
Found at i:22987011 original size:8 final size:8
Alignment explanation
Indices: 22987000--22987027 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
22986990 TTATAATTGC
22987000 TAAAGGAT
1 TAAAGGAT
22987008 TAAAGGAT
1 TAAAGGAT
22987016 TAAAGGAT
1 TAAAGGAT
22987024 TAAA
1 TAAA
22987028 ATAACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.25
Consensus pattern (8 bp):
TAAAGGAT
Found at i:22994946 original size:10 final size:9
Alignment explanation
Indices: 22994915--22995061 Score: 59
Period size: 10 Copynumber: 15.4 Consensus size: 9
22994905 AATTTTAAAC
*
22994915 TTTTAACTT
1 TTTTAAATT
22994924 TCTTATAAATT
1 T-TT-TAAATT
22994935 TTTTAGAA--
1 TTTTA-AATT
22994943 TTTTAAATTT
1 TTTTAAA-TT
22994953 TTTTATATATT
1 TTTTA-A-ATT
*
22994964 TTTTAAAAT
1 TTTTAAATT
22994973 TTTTATAATT
1 TTTTA-AATT
22994983 TTTTAAA--
1 TTTTAAATT
* * *
22994990 ATATATATT
1 TTTTAAATT
22994999 TTTTGAAATT
1 TTTT-AAATT
*
22995009 TTTATAAATA
1 TTT-TAAATT
*
22995019 TTTTGAATT
1 TTTTAAATT
**
22995028 TTAAAAATT
1 TTTTAAATT
*
22995037 ATTTTGAATT
1 -TTTTAAATT
*
22995047 ATTTTGTAATT
1 -TTTT-AAATT
22995058 TTTT
1 TTTT
22995062 TTAGAGAGAG
Statistics
Matches: 104, Mismatches: 19, Indels: 29
0.68 0.12 0.19
Matches are distributed among these distances:
7 6 0.06
8 5 0.05
9 24 0.23
10 49 0.47
11 19 0.18
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTAAATT
Found at i:22994946 original size:28 final size:28
Alignment explanation
Indices: 22994907--22994975 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
22994897 TTTAGAAAAA
22994907 TTTTAAACTTTT-AACTTTCTTATAAATT
1 TTTTAAA-TTTTAAACTTTCTTATAAATT
* * *
22994935 TTTTAGAATTTTAAATTTTTTTATATATT
1 TTTTA-AATTTTAAACTTTCTTATAAATT
22994964 TTTTAAAATTTT
1 TTTT-AAATTTT
22994976 TATAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 9 0.26
29 25 0.71
30 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTAAATTTTAAACTTTCTTATAAATT
Found at i:22994967 original size:29 final size:31
Alignment explanation
Indices: 22994926--22995015 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 31
22994916 TTTAACTTTC
*
22994926 TTATAAATTTTTTAGAA-TTTTA-AATTTTT
1 TTATAAATTTTTTAAAATTTTTATAATTTTT
*
22994955 TTATATATTTTTTAAAATTTTTATAATTTTT
1 TTATAAATTTTTTAAAATTTTTATAATTTTT
* *
22994986 TAAAATATATATTTTTTGAAATTTTTATAA
1 T----TATAAATTTTTTAAAATTTTTATAA
22995016 ATATTTTGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
29 15 0.29
30 5 0.10
31 8 0.15
35 24 0.46
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (31 bp):
TTATAAATTTTTTAAAATTTTTATAATTTTT
Found at i:22995029 original size:19 final size:20
Alignment explanation
Indices: 22994999--22995046 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
22994989 AATATATATT
*
22994999 TTTTGAAATTTTTATAAA-TA
1 TTTTG-AATTTTTAAAAATTA
22995019 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
22995038 TTTTGAATT
1 TTTTGAATT
22995047 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
19 11 0.44
20 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:23002013 original size:28 final size:28
Alignment explanation
Indices: 23001947--23002103 Score: 215
Period size: 29 Copynumber: 5.5 Consensus size: 28
23001937 CATGAGATTG
* * **
23001947 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
23001976 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23002004 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
23002033 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
23002062 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23002090 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
23002104 GACTTACTAT
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
28 45 0.38
29 73 0.62
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23002036 original size:57 final size:58
Alignment explanation
Indices: 23001947--23002102 Score: 219
Period size: 57 Copynumber: 2.7 Consensus size: 58
23001937 CATGAGATTG
* * * *
23001947 GCACTAAGTGTGCGGGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATAT-A
1 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCAAGTTTGATTATATAA
* *
23002004 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
*
23002062 GCACTAAGTGTGCGAGTTTGATTATATAA-CACTAAGTGTGC
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGC
23002103 GGACTTACTA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 58 0.64
58 32 0.36
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
Found at i:23010034 original size:28 final size:28
Alignment explanation
Indices: 23009968--23010124 Score: 215
Period size: 29 Copynumber: 5.5 Consensus size: 28
23009958 CATGAGATTG
* * **
23009968 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
23009997 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23010025 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
23010054 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
23010083 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23010111 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
23010125 GACTTACTAT
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
28 45 0.38
29 73 0.62
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23010057 original size:57 final size:58
Alignment explanation
Indices: 23009968--23010123 Score: 219
Period size: 57 Copynumber: 2.7 Consensus size: 58
23009958 CATGAGATTG
* * * *
23009968 GCACTAAGTGTGCGGGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATAT-A
1 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCAAGTTTGATTATATAA
* *
23010025 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
*
23010083 GCACTAAGTGTGCGAGTTTGATTATATAA-CACTAAGTGTGC
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGC
23010124 GGACTTACTA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 58 0.64
58 32 0.36
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
Found at i:23015289 original size:17 final size:17
Alignment explanation
Indices: 23015265--23015304 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
23015255 AACCGATTAA
23015265 AATAAAAAAGTAAAAAAC
1 AATAAAAAAG-AAAAAAC
*
23015283 AATAAAAAAGGAAAAAC
1 AATAAAAAAGAAAAAAC
23015300 AATAA
1 AATAA
23015305 GATTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (17 bp):
AATAAAAAAGAAAAAAC
Found at i:23016022 original size:15 final size:16
Alignment explanation
Indices: 23015995--23016024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23015985 ATTAAAATAA
23015995 TTTTAAAACTAATTAT
1 TTTTAAAACTAATTAT
23016011 TTTTAAAA-TAATTA
1 TTTTAAAACTAATTA
23016025 ATAAAAAGGT
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTAAAACTAATTAT
Found at i:23024397 original size:13 final size:13
Alignment explanation
Indices: 23024379--23024403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23024369 AATTTTTTTA
23024379 TTTTTAATTAATG
1 TTTTTAATTAATG
23024392 TTTTTAATTAAT
1 TTTTTAATTAAT
23024404 AAATATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:23026814 original size:30 final size:30
Alignment explanation
Indices: 23026780--23026840 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
23026770 TTCCCGAGCC
*
23026780 TAGGGGAAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
23026810 TAGGGGTAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
23026840 T
1 T
23026841 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.33
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:23027734 original size:28 final size:28
Alignment explanation
Indices: 23027702--23027785 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
23027692 AACTTCGATC
23027702 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* *
23027730 ACGTGTATCAG-A-TAA-T-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
23027752 ACGTGTGTAGTGCTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
23027780 ACGTGT
1 ACGTGT
23027786 ACCGGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
21 2 0.05
22 7 0.16
23 4 0.09
24 2 0.05
25 6 0.14
26 2 0.05
27 4 0.09
28 14 0.33
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:23027761 original size:101 final size:99
Alignment explanation
Indices: 23027645--23027829 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 99
23027635 TATATGTAGC
* *
23027645 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTATACCCGATAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCCGATAA-TT-GATCACATGTGT
23027710 AGTACTAAGTGCAGGCTACTACGTGTATCAGATAAT
64 AGTACTAAGTGCAGGCTACTACGTGTATCAGATAAT
* * * * * *
23027746 TAGGTCACGTGTGTAGTGCTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCCGATAATTGATCACATGTGTAG
23027811 TACTAAGTGCAGGCTACTA
66 TACTAAGTGCAGGCTACTA
23027830 TGCATATCAG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
99 30 0.39
100 2 0.03
101 44 0.58
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (99 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCCGATAATTGATCACATGTGTAG
TACTAAGTGCAGGCTACTACGTGTATCAGATAAT
Found at i:23027775 original size:50 final size:50
Alignment explanation
Indices: 23027645--23027829 Score: 255
Period size: 50 Copynumber: 3.7 Consensus size: 50
23027635 TATATGTAGC
* * *
23027645 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTATACCCGATAACT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T
* * * *
23027696 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
* * *
23027746 TAGGTCACGTGTGTAGTGCTAAGTGCAGGCTACTACGTGTACCGGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
*
23027796 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
23027830 TGCATATCAG
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.25
50 47 0.39
51 42 0.35
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
Found at i:23031497 original size:24 final size:24
Alignment explanation
Indices: 23031465--23031511 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
23031455 TACCCGAAAT
23031465 AAAAGCACATTGAGAATCGTCAAC
1 AAAAGCACATTGAGAATCGTCAAC
23031489 AAAAGCACATTGAGAATCGTCAA
1 AAAAGCACATTGAGAATCGTCAA
23031512 TACACTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (24 bp):
AAAAGCACATTGAGAATCGTCAAC
Found at i:23034668 original size:19 final size:19
Alignment explanation
Indices: 23034627--23034715 Score: 74
Period size: 19 Copynumber: 4.5 Consensus size: 19
23034617 CAAAATTACT
* *
23034627 AAAAATTCAAAATA-ATATT
1 AAAAATT-AAAATATTTATA
23034646 AAAAATTAAAATATTTATA
1 AAAAATTAAAATATTTATA
*
23034665 AAAAATCACAAAT-TTTATA
1 AAAAATTA-AAATATTTATA
* *
23034684 AAAAAATAAAGTATAGATTATA
1 AAAAATTAAA--ATA-TTTATA
23034706 AAAAATTAAA
1 AAAAATTAAA
23034716 TTTCAAATGT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
18 8 0.14
19 29 0.51
20 6 0.11
22 14 0.25
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATTAAAATATTTATA
Found at i:23045438 original size:64 final size:67
Alignment explanation
Indices: 23045271--23045438 Score: 189
Period size: 68 Copynumber: 2.5 Consensus size: 67
23045261 CTTTCCAAGG
* * ** *
23045271 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATGTTT
*
23045336 TT
66 AT
* ** *
23045338 CAAAATAAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT-A-GTT
1 -AAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATGTT
23045401 TAT
65 TAT
** *
23045404 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCT
23045439 TTTAATTTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 31 0.36
66 4 0.05
67 1 0.01
68 50 0.58
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (67 bp):
AAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATGTTT
AT
Found at i:23045560 original size:76 final size:73
Alignment explanation
Indices: 23045456--23045792 Score: 421
Period size: 75 Copynumber: 4.5 Consensus size: 73
23045446 TTTGTTTTTC
*
23045456 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
23045520 TGTTGTTAAAAA
65 TGTT-TT--AAA
** *
23045532 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
23045597 GTTTT-CA
66 GTTTTAAA
* * * * *
23045604 AAATTCAACTTATATTGCGAG-GAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
23045668 TATTTTCAAAA
65 TGTTTT--AAA
* *
23045679 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
*
23045743 TCTGTTTTTAA
63 TCTGTTTTAAA
*
23045754 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
23045793 ATTACACACT
Statistics
Matches: 229, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
72 63 0.28
74 1 0.00
75 77 0.34
76 61 0.27
77 27 0.12
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAA
Found at i:23045654 original size:72 final size:72
Alignment explanation
Indices: 23045442--23045792 Score: 363
Period size: 72 Copynumber: 4.7 Consensus size: 72
23045432 TAAGCCTTTT
*
23045442 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGG--TGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGC--GAGGAATGAGTTGAGCCTCAGGACACGCTG
*
23045504 AGGTAATTTT
63 AGGTAATTTC
* *
23045514 AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
1 AATTTCTGTT-TT---CAAAAATCAACTCATATTGCGAGGAATGAGTTGAGCCTCAGGACACGCT
23045579 GAGGTAATTTC
62 GAGGTAATTTC
* * * *
23045590 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGGAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGGAATGAGTTGAGCCTCAGGACACGCTGAGG
*
23045655 TATTTTC
66 TAATTTC
* * * *
23045662 AATTTCTATTTTCAAAAAAAATCAACTTATATTGCGA-GAGGTGAGTTGAGCCTC-GGTTCACAT
1 AATTTCTGTTTTC---AAAAATCAACTCATATTGCGAGGA-ATGAGTTGAGCCTCAGG---ACAC
*
23045725 GCTGAGGTATTTTC
59 GCTGAGGTAATTTC
* * *
23045739 AATTTCTGTTTTTAAAAAATCAACTCATATTGCGA-GAGGTGAGTTGAGCTTCAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGGA-ATGAGTTGAGCCTCAG
23045793 ATTACACACT
Statistics
Matches: 242, Mismatches: 21, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
71 2 0.01
72 74 0.31
74 6 0.02
75 71 0.29
76 62 0.26
77 23 0.10
78 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGGAATGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:23046000 original size:127 final size:127
Alignment explanation
Indices: 23045679--23046041 Score: 376
Period size: 127 Copynumber: 2.8 Consensus size: 127
23045669 ATTTTCAAAA
* * * *
23045679 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
*
23045744 CTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTA
64 CTG-TTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGACCTTCAGATTACACACTGT-GTA
23045809 TT
126 TT
**** * * * *
23045811 TTTTTCAATTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* * * * *
23045876 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGACCCTTTTA-ATTTC-TACT-T-T-T
66 GTTT-T-AAAAATCAACTCATATTGCGAGAGGTGAGTTGA-CC-TTCAGATTACACACTGTGTAT
23045936 T
127 T
* * *
23045937 CAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
1 -AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
* **
23046002 TGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 TGT-TTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
23046042 GCCTCAGGAC
Statistics
Matches: 191, Mismatches: 35, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
126 30 0.16
127 58 0.30
128 2 0.01
129 4 0.02
130 58 0.30
131 5 0.03
132 34 0.18
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (127 bp):
AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCTTCAGATTACACACTGTGTATT
Found at i:23046377 original size:73 final size:72
Alignment explanation
Indices: 23046193--23046446 Score: 366
Period size: 73 Copynumber: 3.5 Consensus size: 72
23046183 TTTGAAAGAA
* *
23046193 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAAGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
23046258 TCAAAAT
66 TAAAAAT
*
23046265 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
23046330 TTAAAAAT
65 TTAAAAAT
* * * *
23046338 TCAACTCATATTGCGAGAAATGAGTTGAGCTTCAGGACACGCTGAGGTAATTTAAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT-
* *
23046403 TCAAAAAAAA
65 T--TAAAAAT
23046413 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
23046447 GTTCACATGT
Statistics
Matches: 165, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
72 61 0.37
73 67 0.41
74 3 0.02
75 34 0.21
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TAAAAAT
Found at i:23048500 original size:11 final size:11
Alignment explanation
Indices: 23048484--23048510 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23048474 GTACGTATTG
23048484 TATATGTTCTA
1 TATATGTTCTA
23048495 TATATGTTCTA
1 TATATGTTCTA
23048506 TATAT
1 TATAT
23048511 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:23049625 original size:20 final size:20
Alignment explanation
Indices: 23049584--23049626 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
23049574 ATGATTGTTA
* *
23049584 ATATCAATATTTATATAAAT
1 ATATCAATATTTAAAGAAAT
23049604 ATAT-AATATTTAAAGAAGAT
1 ATATCAATATTTAAAGAA-AT
23049624 ATA
1 ATA
23049627 GTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATCAATATTTAAAGAAAT
Found at i:23051682 original size:42 final size:42
Alignment explanation
Indices: 23051613--23051727 Score: 101
Period size: 42 Copynumber: 2.7 Consensus size: 42
23051603 AAGTGCTTAA
* *
23051613 AGAAACCCATAAGGGTTGAA-TGAAAGCTCGTA-AGAACTGAAT
1 AGAAACCCAT-AGGGTTAAACAG-AAGCTCGTATAGAACTGAAT
* * * *
23051655 GGAAACCCATGAGGGTTTAACAGAAGCTC-AATAGAGCTGAAT
1 AGAAACCCAT-AGGGTTAAACAGAAGCTCGTATAGAACTGAAT
* *
23051697 AGAAACTCATATGAGTTAAACAGAAGCTCGT
1 AGAAACCCATA-GGGTTAAACAGAAGCTCGT
23051728 GAGAGCTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 55 0.95
43 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (42 bp):
AGAAACCCATAGGGTTAAACAGAAGCTCGTATAGAACTGAAT
Found at i:23054738 original size:35 final size:35
Alignment explanation
Indices: 23054686--23054757 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
23054676 ACACTTTTGC
23054686 AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
1 AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
*
23054721 AATAGAGT-CTTTCGAATTTGTGCAATCTAAAGGAT
1 AATAGAGTCCTTT-GAATTTGTGCAACCTAAAGGAT
23054756 AA
1 AA
23054758 GAAAAATGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (35 bp):
AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
Found at i:23058482 original size:16 final size:17
Alignment explanation
Indices: 23058461--23058499 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
23058451 TGTATATTTA
23058461 TTTATTGAG-AAGTTTT
1 TTTATTGAGTAAGTTTT
*
23058477 TTTATTGAGTTAATTTTT
1 TTTATTGAG-TAAGTTTT
23058495 TTTAT
1 TTTAT
23058500 AATTATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (17 bp):
TTTATTGAGTAAGTTTT
Found at i:23059399 original size:19 final size:19
Alignment explanation
Indices: 23059354--23059392 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
23059344 TGATCCTAAT
23059354 TATA-AAAAATTAAAGAAA
1 TATATAAAAATTAAAGAAA
*
23059372 TATATAAAAA-TAAATAAA
1 TATATAAAAATTAAAGAAA
23059390 TAT
1 TAT
23059393 TCTAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
TATATAAAAATTAAAGAAA
Found at i:23059487 original size:16 final size:15
Alignment explanation
Indices: 23059459--23059497 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
23059449 TAAAATAAAA
*
23059459 TAAAAATTAAAAACTTT
1 TAAAAAGTAAAAA--TT
23059476 TAAAAAGTAAAAATT
1 TAAAAAGTAAAAATT
23059491 TAAAAAG
1 TAAAAAG
23059498 AATATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (15 bp):
TAAAAAGTAAAAATT
Found at i:23060066 original size:17 final size:17
Alignment explanation
Indices: 23060025--23060088 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
23060015 TAATAATATT
*
23060025 TTTTTTACAAATTTATAACA
1 TTTTTTA-AAAATT-TAA-A
23060045 TTTTTTAAAAATTTAAA
1 TTTTTTAAAAATTTAAA
*
23060062 TTTTTTAAAAAATTAAA
1 TTTTTTAAAAATTTAAA
*
23060079 ATTTTTAAAA
1 TTTTTTAAAA
23060089 GAATTTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
17 26 0.63
18 3 0.07
19 5 0.12
20 7 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTTTAAAAATTTAAA
Found at i:23060066 original size:18 final size:18
Alignment explanation
Indices: 23060024--23060084 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
23060014 ATAATAATAT
*
23060024 TTTTTTTACAAATTTATAA
1 TTTTTTTAAAAATTTA-AA
*
23060043 CATTTTTTAAAAATTTAAA
1 -TTTTTTTAAAAATTTAAA
* *
23060062 TTTTTTAAAAAATTAAAA
1 TTTTTTTAAAAATTTAAA
23060080 TTTTT
1 TTTTT
23060085 AAAAGAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 20 0.56
19 2 0.06
20 14 0.39
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTTAAAAATTTAAA
Found at i:23060093 original size:18 final size:17
Alignment explanation
Indices: 23060046--23060093 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
23060036 TTTATAACAT
* *
23060046 TTTTTAAAAATTTAAAT
1 TTTTTAAAAAATTAAAA
23060063 TTTTTAAAAAATTAAAA
1 TTTTTAAAAAATTAAAA
23060080 TTTTTAAAAGAATT
1 TTTTTAAAA-AATT
23060094 TAATATTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTTTAAAAAATTAAAA
Found at i:23060118 original size:35 final size:33
Alignment explanation
Indices: 23060079--23060145 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 33
23060069 AAAAATTAAA
*
23060079 ATTTTT-AAAAGAATTTAATATTCCTTTTATTTTTT
1 ATTTTTCAAAA-AAATTAA-ATT-CTTTTATTTTTT
*
23060114 ATTTTTCAAAAAAATTAAATTTTTTTATTTTT
1 ATTTTTCAAAAAAATTAAATTCTTTTATTTTT
23060146 GTTGACATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 10 0.34
34 3 0.10
35 12 0.41
36 4 0.14
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (33 bp):
ATTTTTCAAAAAAATTAAATTCTTTTATTTTTT
Found at i:23061764 original size:48 final size:48
Alignment explanation
Indices: 23061693--23061789 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
23061683 GGAGCCCAGT
23061693 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
1 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
23061741 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
1 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
23061789 T
1 T
23061790 AAAAATATCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (48 bp):
TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
Found at i:23062902 original size:23 final size:24
Alignment explanation
Indices: 23062872--23062918 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
23062862 CAAACGAAGC
*
23062872 TAAAACATATTATTCATG-GAAAT
1 TAAAACATATTATACATGTGAAAT
*
23062895 TAAAACATGTTATACATGTGAAAT
1 TAAAACATATTATACATGTGAAAT
23062919 GAACTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.34
Consensus pattern (24 bp):
TAAAACATATTATACATGTGAAAT
Found at i:23064605 original size:47 final size:47
Alignment explanation
Indices: 23064554--23064683 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 47
23064544 GAATTATGAG
23064554 GCATCCGAACTCGTTGAGTTTCGTTTCGAGTTCACTTATGGATGC-AA
1 GCATCCGAACTCGTTGAGTTTCGTTTCGAGTTCA-TTATGGATGCGAA
* * *
23064601 GCATCTGAACTCGTTGAGTTGT-GTTCCAAGTTCATT-TGGATGCGAA
1 GCATCCGAACTCGTTGAGTT-TCGTTTCGAGTTCATTATGGATGCGAA
* * *
23064647 -CACCCGAGCTCGTTGAGTTGCGTTTCGAGTTCATTAT
1 GCATCCGAACTCGTTGAGTTTCGTTTCGAGTTCATTAT
23064684 AGGTGAGATT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
45 35 0.50
46 5 0.07
47 29 0.41
48 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTTCGTTTCGAGTTCATTATGGATGCGAA
Found at i:23064998 original size:13 final size:13
Alignment explanation
Indices: 23064980--23065005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23064970 ATTTTTTACT
23064980 TAGCCAGTTAGTA
1 TAGCCAGTTAGTA
23064993 TAGCCAGTTAGTA
1 TAGCCAGTTAGTA
23065006 CAGTTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
TAGCCAGTTAGTA
Found at i:23066134 original size:19 final size:19
Alignment explanation
Indices: 23066088--23066135 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
23066078 GTATATATTT
23066088 TAAA-TTTATTTAGATAGA
1 TAAATTTTATTTAGATAGA
* *
23066106 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGATAGA
23066125 TAAATTTTATT
1 TAAATTTTATT
23066136 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATAGA
Found at i:23067825 original size:46 final size:46
Alignment explanation
Indices: 23067672--23067880 Score: 166
Period size: 46 Copynumber: 4.5 Consensus size: 46
23067662 CACTTGTGTG
* * * *
23067672 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTAAG-A
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA
* * * * *
23067717 GAGCCAGTGTAAGACCATGTCTGAGACATGACATCGGCATTGAGA--CA
1 -AGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAGATGTA
23067764 AGTGCTA-TAGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 A--GCTAGT-GTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
* *
23067812 AGCTAGTATAAGACATGTCTGGGACATGCATAGG-CTACGAGATGT-
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTA
23067857 -G-TCAGTGTAAGACCATGTCTGGGA
1 AGCT-AGTGTAAGA-CATGTCTGGGA
23067881 TGTAGCATTG
Statistics
Matches: 135, Mismatches: 15, Indels: 27
0.76 0.08 0.15
Matches are distributed among these distances:
43 1 0.01
44 9 0.07
45 13 0.10
46 62 0.46
47 31 0.23
48 18 0.13
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
Found at i:23079123 original size:20 final size:20
Alignment explanation
Indices: 23079098--23079137 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23079088 TCGGCCTCGA
23079098 GACGTAAGCTAGTGTAAGAC
1 GACGTAAGCTAGTGTAAGAC
23079118 GACGTAAGCTAGTGTAAGAC
1 GACGTAAGCTAGTGTAAGAC
23079138 ATGTCTAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (20 bp):
GACGTAAGCTAGTGTAAGAC
Found at i:23080725 original size:16 final size:16
Alignment explanation
Indices: 23080706--23080739 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
23080696 ATAATTGCGC
23080706 GGCTTATTAATTCCAT
1 GGCTTATTAATTCCAT
23080722 GGCTTATTAATTCCAT
1 GGCTTATTAATTCCAT
23080738 GG
1 GG
23080740 AAGCGTCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (16 bp):
GGCTTATTAATTCCAT
Found at i:23083807 original size:14 final size:14
Alignment explanation
Indices: 23083788--23083817 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23083778 CCATATACAA
*
23083788 ATAAACTTATCAAC
1 ATAAACTTATAAAC
23083802 ATAAACTTATAAAC
1 ATAAACTTATAAAC
23083816 AT
1 AT
23083818 CAAGAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAACTTATAAAC
Found at i:23100156 original size:13 final size:13
Alignment explanation
Indices: 23100138--23100162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23100128 CCGAGCACAC
23100138 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
23100151 GCCCGTGTCCCT
1 GCCCGTGTCCCT
23100163 CACACTGCCA
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:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:23106137 original size:11 final size:11
Alignment explanation
Indices: 23106121--23106149 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
23106111 GCCACGCGAA
23106121 CACCTTCTCCC
1 CACCTTCTCCC
23106132 CACCTTCTCCC
1 CACCTTCTCCC
23106143 CACCTTC
1 CACCTTC
23106150 CCATTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.62, G:0.00, T:0.28
Consensus pattern (11 bp):
CACCTTCTCCC
Found at i:23114902 original size:17 final size:18
Alignment explanation
Indices: 23114872--23114905 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23114862 AATTTCTATT
23114872 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
23114890 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
23114906 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:23115436 original size:7 final size:7
Alignment explanation
Indices: 23115416--23115454 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
23115406 GTTTTTATTA
23115416 ATATAAT
1 ATATAAT
23115423 AATATAAT
1 -ATATAAT
23115431 ATATAAT
1 ATATAAT
23115438 ATATAAT
1 ATATAAT
23115445 ATATAA-
1 ATATAAT
23115451 ATAT
1 ATAT
23115455 CTTTACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 4 0.13
7 20 0.65
8 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:23116841 original size:20 final size:19
Alignment explanation
Indices: 23116816--23116931 Score: 74
Period size: 20 Copynumber: 5.8 Consensus size: 19
23116806 CATAATAGAG
23116816 GAGGCATCGAAGTGCAAACA
1 GAGGCA-CGAAGTGCAAACA
* * *
23116836 GAGGCACAAATGTGCGATCA
1 GAGGCACGAA-GTGCAAACA
23116856 GAGGCACCGAAGTGCAAACA
1 GAGGCA-CGAAGTGCAAACA
* * *
23116876 AAGACACCGAAGTGTGAAA-A
1 GAGGCA-CGAAGTG-CAAACA
* *
23116896 -AGGCATCAAAGTGCAAATA
1 GAGGCA-CGAAGTGCAAACA
*
23116915 GAGACACTGAAGTGCAA
1 GAGGCAC-GAAGTGCAA
23116932 TCCCGTACAA
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
18 3 0.04
19 15 0.20
20 51 0.68
21 6 0.08
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (19 bp):
GAGGCACGAAGTGCAAACA
Found at i:23121145 original size:20 final size:20
Alignment explanation
Indices: 23121120--23121171 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
23121110 GAGACAATGA
23121120 ACACGCCTGTGTGCTTTAGG
1 ACACGCCTGTGTGCTTTAGG
*
23121140 ACACGCCCGTGTGCTTTAGG
1 ACACGCCTGTGTGCTTTAGG
*
23121160 ACACGTCTGTGT
1 ACACGCCTGTGT
23121172 CCCTAACCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (20 bp):
ACACGCCTGTGTGCTTTAGG
Found at i:23142867 original size:27 final size:27
Alignment explanation
Indices: 23142829--23142882 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
23142819 AACTAGACTC
23142829 AATAAGGAATATTTACATATAAAGATT
1 AATAAGGAATATTTACATATAAAGATT
23142856 AATAAGGAATATTTACATATAAAGATT
1 AATAAGGAATATTTACATATAAAGATT
23142883 GACTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (27 bp):
AATAAGGAATATTTACATATAAAGATT
Found at i:23143901 original size:93 final size:93
Alignment explanation
Indices: 23143794--23143964 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
23143784 ACCCCTAAGT
* *
23143794 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
23143859 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
23143887 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23143952 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23143965 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:23143961 original size:46 final size:46
Alignment explanation
Indices: 23143789--23143961 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
23143779 AACCCACCCC
* * *
23143789 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
23143835 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
23143883 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
23143928 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23143962 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:23150880 original size:24 final size:25
Alignment explanation
Indices: 23150853--23150900 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
23150843 AAGCATACTC
*
23150853 CAAACAAAAAGAGTAA-AAAAAAAT
1 CAAACAAAAAGAGAAACAAAAAAAT
*
23150877 CAAACAAATAGAGAAACAAAAAAA
1 CAAACAAAAAGAGAAACAAAAAAA
23150901 GAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.75, C:0.10, G:0.08, T:0.06
Consensus pattern (25 bp):
CAAACAAAAAGAGAAACAAAAAAAT
Found at i:23155116 original size:19 final size:19
Alignment explanation
Indices: 23155092--23155132 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
23155082 ATAAGTCATT
23155092 ATGCCTTGTCGATTTCACC
1 ATGCCTTGTCGATTTCACC
23155111 ATGCCTTGTCGATTTCACC
1 ATGCCTTGTCGATTTCACC
23155130 ATG
1 ATG
23155133 TATCATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (19 bp):
ATGCCTTGTCGATTTCACC
Found at i:23155219 original size:28 final size:29
Alignment explanation
Indices: 23155188--23155249 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
23155178 AATTCTTTTT
23155188 AAAATAATAAAAATTCTGTAAAAA-ATTA
1 AAAATAATAAAAATTCTGTAAAAATATTA
* * *
23155216 AAAATATTTAAAATTTTGTAAAAATTATTA
1 AAAATAATAAAAATTCTGTAAAAA-TATTA
23155246 AAAA
1 AAAA
23155250 CTCTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.72
30 8 0.28
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATAATAAAAATTCTGTAAAAATATTA
Found at i:23155762 original size:20 final size:21
Alignment explanation
Indices: 23155728--23155766 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
23155718 CTCTCTCTAG
23155728 GGTTAGGGTTTTTTATTTTTA
1 GGTTAGGGTTTTTTATTTTTA
23155749 GGTTAGGG-TTTTTATTTT
1 GGTTAGGGTTTTTTATTTT
23155767 ATCAGCGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.62
Consensus pattern (21 bp):
GGTTAGGGTTTTTTATTTTTA
Found at i:23166109 original size:28 final size:27
Alignment explanation
Indices: 23166077--23166163 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 27
23166067 TTAAACCACC
*
23166077 ATACATATTATTATTTTGAAGTTTTTTT
1 ATACATATTATTATTTT-AAATTTTTTT
* * * *
23166105 TTACATGTCTTTTATTTTAAATTATTTT
1 ATACATAT-TATTATTTTAAATTTTTTT
* *
23166133 ATACATAATATATATTTTAAATTTTTGT
1 ATACATATTAT-TATTTTAAATTTTTTT
23166161 ATA
1 ATA
23166164 TGTTAGTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
27 2 0.04
28 36 0.78
29 8 0.17
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (27 bp):
ATACATATTATTATTTTAAATTTTTTT
Found at i:23176836 original size:18 final size:18
Alignment explanation
Indices: 23176810--23176848 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
23176800 CCTAAGAAAC
* *
23176810 TTTATATCCTTTTGGGAT
1 TTTAAATCCTTTAGGGAT
23176828 TTTAAATCCTTTAGGGAT
1 TTTAAATCCTTTAGGGAT
23176846 TTT
1 TTT
23176849 CATATAAATT
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:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (18 bp):
TTTAAATCCTTTAGGGAT
Found at i:23178239 original size:43 final size:43
Alignment explanation
Indices: 23178174--23178487 Score: 429
Period size: 43 Copynumber: 7.3 Consensus size: 43
23178164 ATGCCGTTAT
* *
23178174 AGAACATGATCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * *
23178217 AGAACGTGACCTTTAGCAGCGCTTTT-CCACAAAAGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* *
23178259 AGAATATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
*
23178302 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* *
23178345 AGAACATGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * * * *
23178388 AGAATC-TGACCTTTAGCGACACTTTTCCCACGAACGCCACTAT
1 AGAA-CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* *
23178431 A-AA-ATAGACCTTTAGCGGCGCTTTTCTCACAAGCGCCGCTAA
1 AGAACAT-GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
23178473 AGAACATGACCTTTA
1 AGAACATGACCTTTA
23178488 AAAATATATA
Statistics
Matches: 238, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.00
42 69 0.29
43 165 0.69
44 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
Found at i:23178294 original size:85 final size:84
Alignment explanation
Indices: 23178174--23178487 Score: 411
Period size: 85 Copynumber: 3.7 Consensus size: 84
23178164 ATGCCGTTAT
* * *
23178174 AGAACATGATCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGAACGTGACCTTTAGCAGCGC
1 AGAACATGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGAACATGACCTTTAGC-GCGC
*
23178239 TTTT-CCACAAAAGCCGCTAA
64 TTTTCCCACAAACGCCGCTAA
*
23178259 AGAATATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC
1 AGAACATGACCTTTAGCGGCGC-TTTTCCACAAACGCCGCTAAAGAACATGACCTTTAGC-GCGC
*
23178324 TTTTCCCACAAACGCTGCTAA
64 TTTTCCCACAAACGCCGCTAA
* *
23178345 AGAACATGACCTTTAGCGGCACTTTTCCTACAAACGCCGCTAAAGAATC-TGACCTTTAGCGACA
1 AGAACATGACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAGAA-CATGACCTTTAGCG-CG
* * *
23178409 CTTTTCCCACGAACGCCACTAT
63 CTTTTCCCACAAACGCCGCTAA
*
23178431 A-AA-ATAGACCTTTAGCGGCGCTTTTCTCACAAGCGCCGCTAAAGAACATGACCTTTA
1 AGAACAT-GACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGAACATGACCTTTA
23178488 AAAATATATA
Statistics
Matches: 205, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
84 3 0.01
85 113 0.55
86 88 0.43
87 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (84 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAACATGACCTTTAGCGCGCTT
TTCCCACAAACGCCGCTAA
Found at i:23178414 original size:128 final size:129
Alignment explanation
Indices: 23178174--23178487 Score: 447
Period size: 128 Copynumber: 2.4 Consensus size: 129
23178164 ATGCCGTTAT
* * * *
23178174 AGAACATGATCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGAACGTGACCTTTAGCAGCGC
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCAC
* * *
23178239 TTTTCCACAAAAGCCGCTAAAGAATATGACCTTTAGCGGCGCTTTTT-CCACAAACGCCGCTAA
66 TTTTCCACAAAAGCCGCTAAAGAATATGACCTTTAGCGACACTTTTTCCCACAAACGCCACTAA
* *
23178302 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCAC
1 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCAC
* * * *
23178367 TTTTCCTACAAACGCCGCTAAAGAATCTGACCTTTAGCGACAC-TTTTCCCACGAACGCCACTAT
66 TTTTCC-ACAAAAGCCGCTAAAGAATATGACCTTTAGCGACACTTTTTCCCACAAACGCCACTAA
* *
23178431 A-AA-ATAGACCTTTAGCGGCGCTTTTCTCACAAGCGCCGCTAAAGAACATGACCTTTA
1 AGAACAT-GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
23178488 AAAATATATA
Statistics
Matches: 167, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
127 2 0.01
128 119 0.71
129 46 0.28
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (129 bp):
AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCAC
TTTTCCACAAAAGCCGCTAAAGAATATGACCTTTAGCGACACTTTTTCCCACAAACGCCACTAA
Found at i:23178593 original size:22 final size:22
Alignment explanation
Indices: 23178567--23178612 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
23178557 TTTGAACTTT
*
23178567 AAACTATATACTTTTAAGGATA
1 AAACTATATAATTTTAAGGATA
23178589 AAACTATATAATTTTAAGGATA
1 AAACTATATAATTTTAAGGATA
23178611 AA
1 AA
23178613 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
AAACTATATAATTTTAAGGATA
Found at i:23184270 original size:11 final size:11
Alignment explanation
Indices: 23184256--23184280 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23184246 GAGTAAAATG
23184256 AGATGAGAAGA
1 AGATGAGAAGA
23184267 AGATGAGAAGA
1 AGATGAGAAGA
23184278 AGA
1 AGA
23184281 GGGAGTAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (11 bp):
AGATGAGAAGA
Found at i:23184608 original size:18 final size:19
Alignment explanation
Indices: 23184585--23184621 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23184575 TTAAATATTA
*
23184585 AAATTTTAAGTTTT-TTTT
1 AAATTTTAAATTTTATTTT
23184603 AAATTTTAAATTTTATTTT
1 AAATTTTAAATTTTATTTT
23184622 GAAGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
AAATTTTAAATTTTATTTT
Found at i:23184641 original size:31 final size:30
Alignment explanation
Indices: 23184587--23184645 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
23184577 AAATATTAAA
* *
23184587 ATTTTAAGTTTTTTTTAAATTTTAAATTTT
1 ATTTTAAGATTTTTATAAATTTTAAATTTT
*
23184617 ATTTTGAAGATTTTTATAATTTTTAAATT
1 ATTTT-AAGATTTTTATAAATTTTAAATT
23184646 AACATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (30 bp):
ATTTTAAGATTTTTATAAATTTTAAATTTT
Found at i:23185296 original size:21 final size:21
Alignment explanation
Indices: 23185270--23185316 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23185260 CCCAAACCCC
23185270 AAACCCCAAATCCTAGACCAT
1 AAACCCCAAATCCTAGACCAT
* * *
23185291 AAACCCTAATTCTTAGACCAT
1 AAACCCCAAATCCTAGACCAT
23185312 AAACC
1 AAACC
23185317 TACACCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.34, G:0.04, T:0.19
Consensus pattern (21 bp):
AAACCCCAAATCCTAGACCAT
Found at i:23185704 original size:14 final size:14
Alignment explanation
Indices: 23185686--23185729 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23185676 TCCCCTATCC
*
23185686 CCATAAACCCTAAA
1 CCATAAAACCTAAA
* *
23185700 TCATAAAACATAAA
1 CCATAAAACCTAAA
*
23185714 CCATAAATCCTAAA
1 CCATAAAACCTAAA
23185728 CC
1 CC
23185730 CCTAACCCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (14 bp):
CCATAAAACCTAAA
Found at i:23185713 original size:21 final size:21
Alignment explanation
Indices: 23185687--23185727 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23185677 CCCCTATCCC
*
23185687 CATAAACCCTAAATCATAAAA
1 CATAAACCATAAATCATAAAA
*
23185708 CATAAACCATAAATCCTAAA
1 CATAAACCATAAATCATAAA
23185728 CCCCTAACCC
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:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
CATAAACCATAAATCATAAAA
Found at i:23185820 original size:14 final size:14
Alignment explanation
Indices: 23185773--23185826 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
23185763 AATAATAACT
23185773 CCTAAAGCT-TAAAC
1 CCTAAA-CTATAAAC
* * *
23185787 CCTAAACCATATAT
1 CCTAAACTATAAAC
*
23185801 CTTAAACTATAAAC
1 CCTAAACTATAAAC
23185815 CCTAAACTATAA
1 CCTAAACTATAA
23185827 TGATAATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
13 1 0.03
14 30 0.97
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (14 bp):
CCTAAACTATAAAC
Found at i:23186222 original size:40 final size:40
Alignment explanation
Indices: 23186178--23186273 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
23186168 TTTTTTTGCG
* * * *
23186178 GCGTTTTTCAAAAAGTGTCGCTAATGGTCGACCTATAGCA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCA
* **
23186218 GCGTTTTTTAAAAAGCGCCGCTAATGCTCAATTTATAGCA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCA
*
23186258 GCATTTTTCAAAAAGC
1 GCGTTTTTCAAAAAGC
23186274 AAAACTACTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCA
Found at i:23186293 original size:155 final size:155
Alignment explanation
Indices: 23186060--23186590 Score: 711
Period size: 155 Copynumber: 3.4 Consensus size: 155
23186050 AACGTTTTTT
* * * * * *
23186060 GCGGCGTTTTTGATAAAGCGCCGCTAAAGCTCGATCTATAGCGGCATTTTTCAAAAAGTACCGTT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
* * * *
23186125 AATGTCACTAAAGCTCAACACAAAACGACGGCATTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
66 AATGCCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
*
23186190 AAGTGTCGCTAATGGTCGACCTATA
131 AAGCGTCGCTAATGGTCGACCTATA
* * * ***
23186215 GCAGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATTTATAGCAGCATTTTTCAAAAAGCAAAACT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
* * *
23186280 ACTGCCACTAAAGCTCAACATAAAACGACGACGTTTTGCTTAATTTTTTTGCGGCATTTTTCAAA
66 AATGCCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
*
23186345 AAGCGCCGCTAATGGTCGACCTATA
131 AAGCGTCGCTAATGGTCGACCTATA
* *** *
23186370 GCGGCGTTTTTTAAAAAGCGCTGCTAATGCTCAATCTATAGCGGTGGTTTTCAAAAAGCGCCGCT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
* * * * *
23186435 AGTGCCACTACATCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGTGGCGTTTGTCAAA
66 AATGCCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
23186500 AAGCGTCGCTAATGGTCGACCTATA
131 AAGCGTCGCTAATGGTCGACCTATA
* * * * * * * *
23186525 GCGGCATTTTTTGAAAAGCTCCGCTAATACTCGATCTATAGCGGCGTTTTTCAAAGAGCGCCGCT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
23186590 A
66 A
23186591 CTGTTCGAGA
Statistics
Matches: 327, Mismatches: 49, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
155 327 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (155 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
AATGCCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
AAGCGTCGCTAATGGTCGACCTATA
Found at i:23186386 original size:40 final size:40
Alignment explanation
Indices: 23186330--23186435 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
23186320 TAATTTTTTT
* * *
23186330 GCGGCATTTTTCAAAAAGCGCCGCTAATGGTCGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATA
* * *
23186370 GCGGCGTTTTTTAAAAAGCGCTGCTAATGCTCAATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATA
* *
23186410 GCGGTGGTTTTCAAAAAGCGCCGCTA
1 GCGGCGTTTTTCAAAAAGCGCCGCTA
23186436 GTGCCACTAC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATA
Found at i:23186589 original size:40 final size:39
Alignment explanation
Indices: 23186487--23186590 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 39
23186477 ATTTTTTTGT
* * **
23186487 GGCGTTTGTCAAAAAGCGTCGCTAATGGTCGACCTATAGC
1 GGCGTTTTTC-AAAAGCGCCGCTAATACTCGACCTATAGC
* * * *
23186527 GGCATTTTTTGAAAAGCTCCGCTAATACTCGATCTATAGC
1 GGC-GTTTTTCAAAAGCGCCGCTAATACTCGACCTATAGC
23186567 GGCGTTTTTCAAAGAGCGCCGCTA
1 GGCGTTTTTCAAA-AGCGCCGCTA
23186591 CTGTTCGAGA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
39 8 0.16
40 39 0.76
41 4 0.08
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (39 bp):
GGCGTTTTTCAAAAGCGCCGCTAATACTCGACCTATAGC
Found at i:23194883 original size:20 final size:21
Alignment explanation
Indices: 23194841--23194885 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
23194831 CATGTATATG
* **
23194841 TTTTTATATGTTTTTTTTCAA
1 TTTTTATATGTATTTTTAAAA
23194862 TTTTT-TATGTATTTTTAAAA
1 TTTTTATATGTATTTTTAAAA
23194882 TTTT
1 TTTT
23194886 AAATTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTTATATGTATTTTTAAAA
Found at i:23195629 original size:44 final size:44
Alignment explanation
Indices: 23195581--23195674 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
23195571 TATTAAGTTA
* *
23195581 AAATTTAATATAGTTATCAAATAGAATTAAAAAAAATTAAATGT
1 AAATTTAAAATAGTTATCAAACAGAATTAAAAAAAATTAAATGT
23195625 AAATTTAAAATAGTTATCAAACAGAATTAAAAAAAATTAAATGT
1 AAATTTAAAATAGTTATCAAACAGAATTAAAAAAAATTAAATGT
23195669 AAATTT
1 AAATTT
23195675 TTTTCAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.33
Consensus pattern (44 bp):
AAATTTAAAATAGTTATCAAACAGAATTAAAAAAAATTAAATGT
Found at i:23207741 original size:46 final size:46
Alignment explanation
Indices: 23207674--23207811 Score: 240
Period size: 46 Copynumber: 3.0 Consensus size: 46
23207664 CTTCGGCTAA
23207674 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
1 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
** *
23207720 ATGTGGCACTTGGTACGCGATTTGAGATAGCTTCGGCTATATATAT
1 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
*
23207766 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGTCTATATATAT
1 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
23207812 GTGACACTTA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (46 bp):
ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
Found at i:23207886 original size:28 final size:28
Alignment explanation
Indices: 23207816--23207887 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
23207806 ATATATGTGA
* *
23207816 CACTTAGTATGCGAAATATTAAGAACAG
1 CACTTAGTGTGCGAGATATTAAGAACAG
* * **
23207844 CACTTGGTGTGCGAGATATTAAGTATGG
1 CACTTAGTGTGCGAGATATTAAGAACAG
23207872 CACTTAGTGTGCGAGA
1 CACTTAGTGTGCGAGA
23207888 CATCGAAGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATTAAGAACAG
Found at i:23210770 original size:16 final size:16
Alignment explanation
Indices: 23210746--23210792 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
23210736 AGGAGTAGAA
23210746 TTCATAGTAGGTATAG
1 TTCATAGTAGGTATAG
*
23210762 TTCAGAGTA-G-A-AG
1 TTCATAGTAGGTATAG
23210775 -TCATAGTAGGTATAG
1 TTCATAGTAGGTATAG
23210790 TTC
1 TTC
23210793 CTACTGCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 7 0.28
13 3 0.12
14 2 0.08
15 3 0.12
16 10 0.40
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.34
Consensus pattern (16 bp):
TTCATAGTAGGTATAG
Found at i:23210771 original size:28 final size:28
Alignment explanation
Indices: 23210738--23210792 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
23210728 CGAGTAGTAG
*
23210738 GAGTAGAATTCATAGTAGGTATAGTTCA
1 GAGTAGAAGTCATAGTAGGTATAGTTCA
23210766 GAGTAGAAGTCATAGTAGGTATAGTTC
1 GAGTAGAAGTCATAGTAGGTATAGTTC
23210793 CTACTGCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (28 bp):
GAGTAGAAGTCATAGTAGGTATAGTTCA
Found at i:23211429 original size:21 final size:21
Alignment explanation
Indices: 23211396--23211450 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
23211386 GAGCAGTACC
* *
23211396 ACACACCCTTGTGGTTTAGAG
1 ACACGCCCGTGTGGTTTAGAG
*
23211417 ACACGCCCGTGTGGTTTAGGG
1 ACACGCCCGTGTGGTTTAGAG
*
23211438 ACACGCTCGTGTG
1 ACACGCCCGTGTG
23211451 TCTCTATGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.31, T:0.25
Consensus pattern (21 bp):
ACACGCCCGTGTGGTTTAGAG
Found at i:23214199 original size:23 final size:23
Alignment explanation
Indices: 23214173--23214220 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23214163 TTCGAGATCA
23214173 TAATAGCTTTAATCTAGCTATCT
1 TAATAGCTTTAATCTAGCTATCT
23214196 TAATAGCTTTAATCTAGCTATCT
1 TAATAGCTTTAATCTAGCTATCT
23214219 TA
1 TA
23214221 GGGATTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (23 bp):
TAATAGCTTTAATCTAGCTATCT
Found at i:23214568 original size:21 final size:21
Alignment explanation
Indices: 23214544--23214583 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23214534 TTTGCCTAAG
*
23214544 ATATGAATTGGATTGAATTAA
1 ATATGAATTGGATTAAATTAA
*
23214565 ATATGAATTGTATTAAATT
1 ATATGAATTGGATTAAATT
23214584 GATGTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTAA
Found at i:23218597 original size:43 final size:43
Alignment explanation
Indices: 23218549--23218632 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
23218539 GTTATCGATA
*
23218549 TGTGATAACATGTAAGACCATGTTTGGGATATTGGCATTGTAT
1 TGTGATAACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
* *
23218592 TGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATTGT
1 TGTGATAACATGTAAGACCATGTTTGGGACATTGGCATTGT
23218633 TAATCGAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (43 bp):
TGTGATAACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
Found at i:23218707 original size:42 final size:43
Alignment explanation
Indices: 23218542--23218713 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
23218532 ACATTAGGTT
* * *
23218542 ATCGATATGTGATAACATGTAAGACCATGTTTGGGATATTGGC
1 ATCGATATGTGATAACATGTAAGACCATATCTGGGATATTGAC
* * * * * * *
23218585 ATTG-TATTGTGATTACGTGTAAGACCATGTTTGGGACATTGGC
1 ATCGATA-TGTGATAACATGTAAGACCATATCTGGGATATTGAC
* * * * * *
23218628 ATTGTTAAT-CGA-ATACGTGTAAGACCCTATCTAGGATA-TGAC
1 ATCGAT-ATGTGATA-ACATGTAAGACCATATCTGGGATATTGAC
23218670 ATCGATATGTGATAACATGTAAGACCATATCTGGGATA-TGAC
1 ATCGATATGTGATAACATGTAAGACCATATCTGGGATATTGAC
23218712 AT
1 AT
23218714 TTTATGAGCT
Statistics
Matches: 105, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 38 0.36
43 62 0.59
44 2 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (43 bp):
ATCGATATGTGATAACATGTAAGACCATATCTGGGATATTGAC
Found at i:23233123 original size:47 final size:47
Alignment explanation
Indices: 23233001--23233395 Score: 641
Period size: 47 Copynumber: 8.4 Consensus size: 47
23232991 CAGCCAAGAC
23233001 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
23233048 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
23233097 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
23233144 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
23233191 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
23233238 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
23233285 AGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
23233331 AGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
23233377 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
23233396 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 83 0.25
47 201 0.61
49 47 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:23233569 original size:36 final size:37
Alignment explanation
Indices: 23233514--23233591 Score: 106
Period size: 36 Copynumber: 2.1 Consensus size: 37
23233504 CCGAGCTCTA
* *
23233514 AAGACCCGATGACTACGTGTGG-GAATTTTGT-CGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
23233550 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
23233587 AAGAC
1 AAGAC
23233592 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 26 0.70
37 11 0.30
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:23237456 original size:43 final size:43
Alignment explanation
Indices: 23237399--23237548 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
23237389 GTTATTAATA
* * * *
23237399 TGTGATAACATGTAAGACCATGTCTGA-GACATTGGCCTTGTGT
1 TGTGATTACGTGTAAGACCATGTCTGAGGACATTGGCATCGT-T
*
23237442 TGTGATTACGTGTAAGACTATGTCT-AGGACATTGGCATCGTT
1 TGTGATTACGTGTAAGACCATGTCTGAGGACATTGGCATCGTT
** * * * * *
23237484 AATCGATTACGTGTAAGACCCTGTCTG-GGATAATGGCATCAATA
1 TGT-GATTACGTGTAAGACCATGTCTGAGGACATTGGCATC-GTT
* *
23237528 TGTGATAACATGTAAGACCAT
1 TGTGATTACGTGTAAGACCAT
23237549 ACCTGGGATA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 3 0.04
43 80 0.94
44 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGAGGACATTGGCATCGTT
Found at i:23258411 original size:14 final size:13
Alignment explanation
Indices: 23258385--23258416 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
23258375 TTTTATGAGA
23258385 TATTTATTATTA-
1 TATTTATTATTAT
23258397 TA-TTATTATTAT
1 TATTTATTATTAT
23258409 TATTTATT
1 TATTTATT
23258417 TAGTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.50
12 4 0.22
13 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:23260352 original size:46 final size:46
Alignment explanation
Indices: 23260304--23260470 Score: 255
Period size: 46 Copynumber: 3.6 Consensus size: 46
23260294 GCTCTCTGAT
** *
23260304 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
**
23260350 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGGGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
23260396 ATGAAATGAATAAGACCATGGTTGAAAGATACGATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
23260442 A-GAAAATGAATAAGACCATGGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
23260471 CACTATAGCA
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 110 0.99
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:23260587 original size:13 final size:13
Alignment explanation
Indices: 23260569--23260598 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23260559 TCAGATGACG
23260569 AATGGTTATATGA
1 AATGGTTATATGA
*
23260582 AATGGTTATGTGA
1 AATGGTTATATGA
23260595 AATG
1 AATG
23260599 TTTACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:23264418 original size:29 final size:29
Alignment explanation
Indices: 23264379--23264457 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
23264369 CTTAATAATC
*
23264379 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
23264409 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
23264438 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
23264458 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:23272521 original size:29 final size:29
Alignment explanation
Indices: 23272482--23272560 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
23272472 CTTAATAATC
*
23272482 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
23272512 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
23272541 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
23272561 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:23342938 original size:38 final size:38
Alignment explanation
Indices: 23342874--23342948 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
23342864 AATCCGAGTT
*
23342874 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
23342912 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
23342949 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:23343061 original size:40 final size:40
Alignment explanation
Indices: 23343002--23343354 Score: 508
Period size: 40 Copynumber: 9.1 Consensus size: 40
23342992 AGGTCTCGAC
23343002 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
23343041 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
23343081 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
23343121 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
23343160 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
23343199 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
23343239 GATGTATCC-GACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
23343278 G-TATATCC-TGCTAA--ACC-AAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
23343313 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
23343353 GA
1 GA
23343355 CGTGTATTCG
Statistics
Matches: 289, Mismatches: 18, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
35 18 0.06
36 9 0.03
37 4 0.01
38 10 0.03
39 111 0.38
40 137 0.47
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:23343223 original size:79 final size:79
Alignment explanation
Indices: 23343002--23343354 Score: 513
Period size: 79 Copynumber: 4.5 Consensus size: 79
23342992 AGGTCTCGAC
23343002 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCGAAG
23343066 AGCATTCATGCTAGT
65 AGCATTCATGCTAGT
*
23343081 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGA
23343146 GCATTCATGCTAGT
66 GCATTCATGCTAGT
23343160 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTC-CGAAG
*
23343224 AGCATTCGTGCTAGT
65 AGCATTCATGCTAGT
* * * * *
23343239 GATGTATCC-GACTAAGTTCCGAAGAGCATTCGTGCTAGTG-TATATCC-TGCTAA-ACC-AAGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGA
* *
23343299 GCATTCGTGCTGGT
66 GCATTCATGCTAGT
* * * * *
23343313 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGTGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
23343355 CGTGTATTCG
Statistics
Matches: 254, Mismatches: 15, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
74 24 0.09
75 27 0.11
76 1 0.00
77 5 0.02
78 52 0.20
79 93 0.37
80 52 0.20
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGA
GCATTCATGCTAGT
Found at i:23346747 original size:47 final size:47
Alignment explanation
Indices: 23346693--23347022 Score: 398
Period size: 47 Copynumber: 6.9 Consensus size: 47
23346683 GATGTACAAG
* *
23346693 TATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAA-A
1 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
23346739 GTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT-AACA
1 -TATATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
23346788 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
23346835 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
23346882 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC-
1 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
23346928 -ATGTATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTGA
1 TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-----CA
* * *
23346979 TAATATGTATATGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 T-ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
23347023 GAAGTGTATA
Statistics
Matches: 257, Mismatches: 14, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
45 41 0.16
46 33 0.13
47 106 0.41
48 8 0.03
49 32 0.12
53 37 0.14
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
Found at i:23346910 original size:94 final size:93
Alignment explanation
Indices: 23346701--23347022 Score: 441
Period size: 94 Copynumber: 3.4 Consensus size: 93
23346691 AGTATATATA
* * * * *
23346701 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATATATATGCGTGATAAGGCCGAAT
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AA-CAT-TGTATGTGTGATAAGGCCGAAT
23346766 GGCCAATGTGATGAATGT-AACATGTGTATG
63 GGCCAATGTGATGAATGTGAACATGTGTATG
23346796 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT-TGTATGTGTGATAAGGCCGAATGG
23346861 CCAATGTGATGAATGTGAACATGTGTATG
65 CCAATGTGATGAATGTGAACATGTGTATG
* *
23346890 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATATGAGATAAGGCCGAATGGC
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATTGTATGTGTGATAAGGCCGAATGGC
**
23346954 CAATGTGATGAATGTGAATGTGTGATAATATG
66 CAATGTGATGAATGTGAACATGTG----TATG
* *
23346986 TATATGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 --TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
23347023 GAAGTGTATA
Statistics
Matches: 208, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
92 45 0.22
93 40 0.19
94 53 0.25
95 33 0.16
96 4 0.02
98 33 0.16
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (93 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATTGTATGTGTGATAAGGCCGAATGGC
CAATGTGATGAATGTGAACATGTGTATG
Found at i:23357982 original size:21 final size:21
Alignment explanation
Indices: 23357958--23357999 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23357948 AAGAAAGGTC
*
23357958 AAAGCCCAGCTAAGTGAAGAA
1 AAAGCCCAACTAAGTGAAGAA
23357979 AAAGCCCAACTAAGTGAAGAA
1 AAAGCCCAACTAAGTGAAGAA
23358000 TTTGAGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.19, G:0.21, T:0.10
Consensus pattern (21 bp):
AAAGCCCAACTAAGTGAAGAA
Found at i:23360162 original size:28 final size:28
Alignment explanation
Indices: 23360122--23360233 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
23360112 GGCCAAGCAA
* * *
23360122 AATATCTCTACAGTGACCAGTGTTACTG
1 AATATCTCTACAGAGACCACTATTACTG
*
23360150 AATATCTCTACAGAGACCACTATTACTT
1 AATATCTCTACAGAGACCACTATTACTG
* ** *
23360178 AATGTCTCTAGGGAGACCACAATTACTG
1 AATATCTCTACAGAGACCACTATTACTG
* * *
23360206 AATGTCTCTTC-GAAGACCACTGTTACTG
1 AATATCTCTACAG-AGACCACTATTACTG
23360234 TATGTGTCAT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
27 1 0.01
28 69 0.99
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (28 bp):
AATATCTCTACAGAGACCACTATTACTG
Found at i:23373448 original size:49 final size:49
Alignment explanation
Indices: 23373325--23373450 Score: 130
Period size: 49 Copynumber: 2.6 Consensus size: 49
23373315 AGTGTCAGAA
* * **
23373325 TAAGACTTTTCTAGGACATGGCATCGACACCGATAGATGGGAGTAAGTG
1 TAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAAAGTAAGTG
* * * * * *
23373374 TAAAACCTGTTTAGGACACGACATCGGC-CTCGAT-GTATGAAAGTTAGTG
1 TAAGACCTGTCTAGGACATGGCATCGACAC-CGATAG-ATGAAAGTAAGTG
23373423 TAAGACCTGTCTAGGACATGGCATCGAC
1 TAAGACCTGTCTAGGACATGGCATCGAC
23373451 TTTGATGTGC
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
48 2 0.03
49 58 0.97
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
TAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAAAGTAAGTG
Found at i:23379381 original size:6 final size:6
Alignment explanation
Indices: 23379370--23379394 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23379360 GAACCAAAAT
23379370 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
23379395 GAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:23382855 original size:40 final size:42
Alignment explanation
Indices: 23382746--23382881 Score: 140
Period size: 40 Copynumber: 3.4 Consensus size: 42
23382736 TATTATAATC
* *
23382746 TCGCACACTAAGTGCCT-TTCATACCCGAAGCTA-TCTCAATT
1 TCGCACACTAAGTG-CTATTTATAACCGAAGCTATTCTCAATT
** * *
23382787 TCGCACACTAAGTTTTATATATAACCGAAGCTATTC-CGA-T
1 TCGCACACTAAGTGCTATTTATAACCGAAGCTATTCTCAATT
* **
23382827 TCGCACACTAAGTGCTATTTATAGCCGAAGCTA-TCTCAAAA
1 TCGCACACTAAGTGCTATTTATAACCGAAGCTATTCTCAATT
23382868 T-GCACACTAAGTGC
1 TCGCACACTAAGTGC
23382882 CAAACATAGT
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.03
40 46 0.58
41 29 0.37
42 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
TCGCACACTAAGTGCTATTTATAACCGAAGCTATTCTCAATT
Found at i:23385670 original size:64 final size:64
Alignment explanation
Indices: 23385589--23385772 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
23385579 AGACATTATG
* * *
23385589 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
23385653 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
23385718 AA
63 AA
** *
23385720 ACTG--GCTAGGTTACATGGGTGGTACTAAGTGCT-CACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTG-TACACCATGTAG-ACAAGAGAGC
23385773 CGAACTATAT
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 26 0.26
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:23385706 original size:67 final size:64
Alignment explanation
Indices: 23385565--23385718 Score: 182
Period size: 67 Copynumber: 2.3 Consensus size: 64
23385555 CATCATGTGT
* * * *
23385565 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATG
23385630 TAG
62 TAG
* * *
23385633 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACTA--TG-AGGACACCATGT
23385698 AG
63 AG
23385700 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
23385719 AACTGGCTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
64 25 0.33
65 3 0.04
66 4 0.05
67 30 0.40
68 13 0.17
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGATACTATGAGGACACCATGTAG
Found at i:23394347 original size:78 final size:78
Alignment explanation
Indices: 23394216--23394398 Score: 233
Period size: 78 Copynumber: 2.3 Consensus size: 78
23394206 CCAAGCAGAC
* * *
23394216 CCTTTGTTGAAAGTCATCTGTAAATCCCTTGGGGAAAATTATCTAAAAAGCCTATGTCACGTGTT
1 CCTTTGTTGCAAGTCATCTGTAAAGCCCTTGGGGAAAATTATCTAAAAAGCCTATGTCACATGTT
*
23394281 GTTATCTGGAAAG
66 GTTATCTAGAAAG
* ** * * * **
23394294 CCTTTGTGGCAAGTCATCTGTAAAGCCCTTGGGGCTAATTATTTGAAACGCCTATGTGGCATGTT
1 CCTTTGTTGCAAGTCATCTGTAAAGCCCTTGGGGAAAATTATCTAAAAAGCCTATGTCACATGTT
23394359 GTTATCTAGAAAG
66 GTTATCTAGAAAG
*
23394372 CCTTTGTTACAAGTCATCTAG-AAAGCC
1 CCTTTGTTGCAAGTCATCT-GTAAAGCC
23394399 TATATGGCGA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 89 0.99
79 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (78 bp):
CCTTTGTTGCAAGTCATCTGTAAAGCCCTTGGGGAAAATTATCTAAAAAGCCTATGTCACATGTT
GTTATCTAGAAAG
Found at i:23397637 original size:12 final size:12
Alignment explanation
Indices: 23397620--23397645 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23397610 GTACTACACA
23397620 GACCATTCAGAT
1 GACCATTCAGAT
23397632 GACCATTCAGAT
1 GACCATTCAGAT
23397644 GA
1 GA
23397646 ATTCCACATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (12 bp):
GACCATTCAGAT
Found at i:23426422 original size:6 final size:6
Alignment explanation
Indices: 23426411--23426492 Score: 78
Period size: 6 Copynumber: 13.3 Consensus size: 6
23426401 TATCAAAACT
* *
23426411 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
23426460 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AG
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AG
23426493 TATTAGGTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
5 3 0.05
6 52 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:23426447 original size:31 final size:31
Alignment explanation
Indices: 23426411--23426521 Score: 168
Period size: 31 Copynumber: 3.5 Consensus size: 31
23426401 TATCAAAACT
* * *
23426411 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
* *
23426442 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
23426473 AGAATCAAAATCAGAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
23426504 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
23426522 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 63 0.85
32 11 0.15
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATTAGGTAAC
Done.