Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 58 of 77
Found at i:11548342 original size:41 final size:41
Alignment explanation
Indices: 11547754--11548334 Score: 551
Period size: 42 Copynumber: 14.0 Consensus size: 41
11547744 TTTGATCAAA
* * * * **
11547754 GCTCCTCTAAGCAGAGGCTTAACGACTTTAAGAAACATTAACAAA
1 GCTCCTCTAATCAGAGGCTCAACAACTTT--GAAA-AGTAA-ATG
* * * *
11547799 GCTCTTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACG
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATG
* ** * **
11547841 GCTCCTCTAATCAAAGGCTCAATGACTTTGAAAAAATAAACA
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAGTAAATG
*
11547883 GCTCCTCTAATCAGAGGCTCAGCAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
* *
11547924 ACTCATCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
* * *
11547965 GCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAGTAAATG
* *
11548007 GCTCCTTTAATCAGAGGCTCAACATCTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
* * * *
11548048 GCTCATCTAATTAGAGGCTCAACGACTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAGTAAATG
* *
11548090 GCTCATCTAATCAGAGGCTCAACAACTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAGTAAATG
11548132 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
* * * * *
11548173 GCT-CTCCTAATCAAAAGCTTAAC--TTTTGAAAAGTAAATT
1 GCTCCT-CTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
* * * *** * *
11548212 GCTTCTCTAAACAGAGGCACCTTAACTTTTGGAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATG
* * *
11548254 GCTCCTCTAAAT-AGAGGCACCACAACTTTGGAAAA-TAAATT
1 GCTCCTCT-AATCAGAGGCTCAACAACTTT-GAAAAGTAAATG
* * * * *
11548295 GCTCCTTTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAAT
11548335 TACTCCTTGA
Statistics
Matches: 460, Mismatches: 63, Indels: 30
0.83 0.11 0.05
Matches are distributed among these distances:
39 26 0.06
40 11 0.02
41 175 0.38
42 212 0.46
43 6 0.01
44 4 0.01
45 23 0.05
46 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
Found at i:11550053 original size:13 final size:13
Alignment explanation
Indices: 11550035--11550072 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
11550025 TTTCTTTCTT
11550035 TCTTTTTTTCTCTA
1 TCTTTTTTTCTC-A
11550049 T-TTTTTTTCATCA
1 TCTTTTTTTC-TCA
11550062 TCTTTTTTTCT
1 TCTTTTTTTCT
11550073 TTTTTCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTTTTTTTCTCA
Found at i:11550067 original size:14 final size:14
Alignment explanation
Indices: 11550021--11550072 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
11550011 TTGTCTCATT
*
11550021 TTTTTTTCTTTCTTTC
1 TTTTTTTC--TCTATC
11550037 TTTTTTTCTCTAT-
1 TTTTTTTCTCTATC
11550050 TTTTTTTCATC-ATC
1 TTTTTTTC-TCTATC
11550064 TTTTTTTCT
1 TTTTTTTCT
11550073 TTTTTCTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
13 11 0.33
14 14 0.42
16 8 0.24
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTCTCTATC
Found at i:11554215 original size:59 final size:59
Alignment explanation
Indices: 11554038--11554501 Score: 486
Period size: 59 Copynumber: 7.8 Consensus size: 59
11554028 TTGTACAGGA
* * * * * ** *
11554038 AAAATTGATACTTTCAACTTTT-TCCCAAAATA-TTTTTTAGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
* * * *
11554095 AAAATTGATACTTTAAATTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTT-CTCCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
* * * * **
11554155 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCTCCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
* * *
11554214 AAAATTGGTACTTTCAACTTTTCCTCAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTT-CTC-CAAAAAAA-CTTTTTTTGAAAATTTATTTTTAAGG
*
11554276 AAAATTGATACTTTCAACTTTTC-CTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCTC-CAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
* * * * ** *
11554335 AAAAATGATACTTTCAACTTTTTTCCAAAAATATA-TTTTTTTGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAA-A-ACTTTTTTTGAAAATTTATTTTTAAGG
* ** *
11554395 AAAATTGATACTTTCAATTTTTCCTAAAAAAAAACCTTTTTTTAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTT-CTCCAAAAAAA-CTTTTTTTGAAAATTTATTTTTAAGG
* * *
11554456 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTAGAAA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAAAACTTTTTTT-GAAA
11554502 GCTTATCTAA
Statistics
Matches: 332, Mismatches: 62, Indels: 23
0.80 0.15 0.06
Matches are distributed among these distances:
57 20 0.06
59 116 0.35
60 101 0.30
61 54 0.16
62 41 0.12
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
Found at i:11554289 original size:121 final size:121
Alignment explanation
Indices: 11554036--11554486 Score: 522
Period size: 121 Copynumber: 3.8 Consensus size: 121
11554026 TTTTGTACAG
* * * * * *
11554036 GAAAAATTGATACTTTCAACTTTT-TCCCAAAATA-TTTTTTAGAAACTTTAATTTCGAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCTCCAAAAAAACTTTTTTTGAAAATTTAATTTCAAGGAAAA
* *
11554099 TTGATACTTTAAATTTTTCCTC-AAAAAAAACC-TTTTTTGAAAATTTATTTTTAA
66 TTGATACTTTCAACTTTTCCTCAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAA
* * * * *
11554153 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGAAACTTTAATTTCGAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCTCCAAAAAAACTTTTTTTGAAAATTTAATTTCAAGGAAAA
*
11554218 TTGGTACTTTCAACTTTTCCTCAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAA
66 TTGATACTTTCAACTTTTCCTCAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAA
* * *
11554274 GAAAAATTGATACTTTCAACTTTTC-CTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCTC-CAAAAAAACTTTTTTTGAAAATTTAATTTCAAGGAAA
* * * * * * **
11554338 AATGATACTTTCAACTTTT-TTCCAAAAATATA--TTTTTTTGAAACTTTAATTTCGA
65 ATTGATACTTTCAACTTTTCCT-CAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAA
* ** * * *
11554393 GAAAAATTGATACTTTCAATTTTTCCTAAAAAAAAACCTTTTTTTAAAAATTTATTTTTAAGGAA
1 GAAAAATTGATACTTTCAACTTTT-CTCCAAAAAAA-CTTTTTTTGAAAATTTAATTTCAAGGAA
*
11554458 AATTGATACTTTCAACTTTTCCCCAAAAA
64 AATTGATACTTTCAACTTTTCCTCAAAAA
11554487 TATTTTTTTT
Statistics
Matches: 292, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
117 23 0.08
118 9 0.03
119 88 0.30
120 20 0.07
121 152 0.52
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (121 bp):
GAAAAATTGATACTTTCAACTTTTCTCCAAAAAAACTTTTTTTGAAAATTTAATTTCAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAAAAAACCTTTTTTTGAAAATTTATTTTTAA
Found at i:11554336 original size:180 final size:180
Alignment explanation
Indices: 11554092--11554486 Score: 675
Period size: 180 Copynumber: 2.2 Consensus size: 180
11554082 TTTAATTTCG
* *
11554092 AGAAAAATTGATACTTTAAATTTTTCCTCAAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAA
1 AGAAAAATTGATACTTTCAACTTTTCCTC-AAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAA
* *
11554157 AATTGATACTTTCAACTTTTCTCCAAAAATAT-TTTTTTTGAAACTTTAATTTCGAGGAAAATTG
65 AAATGATACTTTCAACTTTTCTCCAAAAATATATTTTTTTGAAACTTTAATTTCGAGAAAAATTG
* *
11554221 GTACTTTCAACTTTTCCTCAAAAAAAAACCTTTTTTTGAAAATTTATTTTTA
130 ATACTTTCAACTTTTCCT-AAAAAAAAACCTTTTTTTAAAAATTTATTTTTA
11554273 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAA
*
11554338 AATGATACTTTCAACTTTTTTCCAAAAATATATTTTTTTGAAACTTTAATTTCGAGAAAAATTGA
66 AATGATACTTTCAACTTTTCTCCAAAAATATATTTTTTTGAAACTTTAATTTCGAGAAAAATTGA
*
11554403 TACTTTCAATTTTTCCTAAAAAAAAACCTTTTTTTAAAAATTTATTTTTA
131 TACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTAAAAATTTATTTTTA
* *
11554453 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAA
1 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
11554487 TATTTTTTTT
Statistics
Matches: 203, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
180 129 0.64
181 74 0.36
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.42
Consensus pattern (180 bp):
AGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGGAAA
AATGATACTTTCAACTTTTCTCCAAAAATATATTTTTTTGAAACTTTAATTTCGAGAAAAATTGA
TACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTAAAAATTTATTTTTA
Found at i:11554542 original size:10 final size:10
Alignment explanation
Indices: 11554514--11554590 Score: 51
Period size: 10 Copynumber: 7.9 Consensus size: 10
11554504 TTATCTAAAG
11554514 AAAATAAAAT
1 AAAATAAAAT
11554524 --AATAAAAT
1 AAAATAAAAT
*
11554532 AAAATACAAT
1 AAAATAAAAT
11554542 AAAAATGAAAAT
1 -AAAAT-AAAAT
11554554 -AAATAATAA-
1 AAAATAA-AAT
11554563 ATAAAT-AAAT
1 A-AAATAAAAT
11554573 -AAAT-AAAT
1 AAAATAAAAT
11554581 AAAAATAAAA
1 -AAAATAAAA
11554591 ATATTAAACA
Statistics
Matches: 54, Mismatches: 2, Indels: 21
0.70 0.03 0.27
Matches are distributed among these distances:
8 16 0.30
9 4 0.07
10 18 0.33
11 12 0.22
12 4 0.07
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:11554559 original size:4 final size:4
Alignment explanation
Indices: 11554550--11554583 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
11554540 ATAAAAATGA
11554550 AAAT AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
11554584 AATAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:11554592 original size:12 final size:12
Alignment explanation
Indices: 11554514--11554593 Score: 51
Period size: 12 Copynumber: 6.5 Consensus size: 12
11554504 TTATCTAAAG
11554514 AAAAT-AAAATA
1 AAAATAAAAATA
11554525 ATAAA-ATAAAAT-
1 A-AAATA-AAAATA
* *
11554537 ACAATAAAAATG
1 AAAATAAAAATA
11554549 AAAATAAATAATAA
1 AAAATAAA-AAT-A
11554563 ATAAATAAATAA-A
1 A-AAATAAA-AATA
*
11554576 TAAATAAAAATA
1 AAAATAAAAATA
11554588 AAAATA
1 AAAATA
11554594 TTAAACAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
11 10 0.18
12 25 0.45
13 9 0.16
14 1 0.02
15 10 0.18
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:11554948 original size:18 final size:19
Alignment explanation
Indices: 11554927--11554962 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11554917 CTTTCTTATC
11554927 TGTGTCTGCTTTT-TTCTG
1 TGTGTCTGCTTTTGTTCTG
*
11554945 TGTGTCTTCTTTTGTTCT
1 TGTGTCTGCTTTTGTTCT
11554963 TCCAACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.19, T:0.64
Consensus pattern (19 bp):
TGTGTCTGCTTTTGTTCTG
Found at i:11555183 original size:20 final size:21
Alignment explanation
Indices: 11555151--11555189 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
11555141 AATATATTAA
11555151 TAGATAACAAAAA-AAATAAT
1 TAGATAACAAAAAGAAATAAT
11555171 TAGATAA-ATAAAAGAAATA
1 TAGATAACA-AAAAGAAATA
11555190 GATAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (21 bp):
TAGATAACAAAAAGAAATAAT
Found at i:11555201 original size:24 final size:24
Alignment explanation
Indices: 11555148--11555256 Score: 62
Period size: 24 Copynumber: 4.4 Consensus size: 24
11555138 ATAAATATAT
* *
11555148 TAATAGATAACAAAAAA-A-ATAAT
1 TAATAAATAA-AAAAAATAGATAAA
*
11555171 TAGATAAATAAAAGAAATAGATAAA
1 TA-ATAAATAAAAAAAATAGATAAA
* *
11555196 TAATAATAAAAAATAAAAGCAGATAAA
1 TAATAA-ATAAAA-AAAA-TAGATAAA
**
11555223 TAATAAA-AAATATTAATAGATAAA
1 TAATAAATAAA-AAAAATAGATAAA
* *
11555247 AAATATATAA
1 TAATAAATAA
11555257 TATATATTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
23 7 0.10
24 24 0.36
25 18 0.27
26 5 0.07
27 13 0.19
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (24 bp):
TAATAAATAAAAAAAATAGATAAA
Found at i:11555287 original size:5 final size:6
Alignment explanation
Indices: 11555264--11555294 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
11555254 TAATATATAT
11555264 TAAATAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAA-AA TAAAAA TAAAAA TAAAAA TAAAAA
11555295 ACCCATTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:11555723 original size:52 final size:52
Alignment explanation
Indices: 11555639--11555743 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 52
11555629 TTATAACCAT
* *
11555639 TCAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTATTCTTCTGCAAG
1 TCAAACTTACCTATTAAAAATCCCTTTCCTCTTAGAATTATTCTTCTACAAG
* * ** * * * *
11555691 TCAAATTTACCTTTTAAAAATCTTTTTTCTCTTGGAATTCTTTTTCTACAAG
1 TCAAACTTACCTATTAAAAATCCCTTTCCTCTTAGAATTATTCTTCTACAAG
11555743 T
1 T
11555744 TTTCTTGTCC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (52 bp):
TCAAACTTACCTATTAAAAATCCCTTTCCTCTTAGAATTATTCTTCTACAAG
Found at i:11565134 original size:22 final size:22
Alignment explanation
Indices: 11565109--11565283 Score: 80
Period size: 22 Copynumber: 8.0 Consensus size: 22
11565099 GATTTAATGA
*
11565109 TAAATTAATTATAACTTAATAG
1 TAAATTAATAATAACTTAATAG
*
11565131 TAAATGT-ATAATAA-TATAGTAG
1 TAAAT-TAATAATAACT-TAATAG
* * * * **
11565153 CAAATTATTGATAATTTTGTTA-
1 TAAATTAATAATAA-CTTAATAG
* * *
11565175 TAAATTAATGATAATTTAGACA-
1 TAAATTAATAATAACTTA-ATAG
* * *
11565197 -AAATCAATAATAACTTTATAC
1 TAAATTAATAATAACTTAATAG
*
11565218 TAAATTAATGAT-ACTGT-ATAG
1 TAAATTAATAATAACT-TAATAG
11565239 TAAATT-ATGAATAACTTAATAG
1 TAAATTAAT-AATAACTTAATAG
*
11565261 TAAAAATAAT-ATAACTTAATAG
1 T-AAATTAATAATAACTTAATAG
11565283 T
1 T
11565284 GTATGATAAC
Statistics
Matches: 117, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
20 4 0.03
21 33 0.28
22 69 0.59
23 8 0.07
24 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (22 bp):
TAAATTAATAATAACTTAATAG
Found at i:11565237 original size:21 final size:21
Alignment explanation
Indices: 11565175--11565245 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
11565165 AATTTTGTTA
* *
11565175 TAAATTAATGATAATTTAGAC
1 TAAATTAATGATACTTTATAC
* * *
11565196 AAAATCAATAATAACTTTATAC
1 TAAATTAATGAT-ACTTTATAC
* *
11565218 TAAATTAATGATACTGTATAG
1 TAAATTAATGATACTTTATAC
11565239 TAAATTA
1 TAAATTA
11565246 TGAATAACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 23 0.59
22 16 0.41
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
TAAATTAATGATACTTTATAC
Found at i:11565823 original size:22 final size:22
Alignment explanation
Indices: 11565798--11566393 Score: 137
Period size: 22 Copynumber: 27.2 Consensus size: 22
11565788 AGTTTAGTAA
* *
11565798 TAAATCAATGATAATTTAATAG
1 TAAATCAATAATAACTTAATAG
*
11565820 TAAAT-AATTTATAAC-TAAGTAG
1 TAAATCAA-TAATAACTTAA-TAG
* * *
11565842 T-AATTAATAATTGGAAATTAAAAG
1 TAAATCAATAA-T--AACTTAATAG
11565866 TAAATCAAT-ATAACTTAATA-
1 TAAATCAATAATAACTTAATAG
* * * *
11565886 T-AATTATTAGTAAATTAATAG
1 TAAATCAATAATAACTTAATAG
* * * *
11565907 TTAATTAATAATAATTTAGTATAA
1 TAAATCAATAATAACTTA--ATAG
* *
11565931 TAAATAAGAGATATAACTTAATAG
1 TAAATCA-ATA-ATAACTTAATAG
* * *
11565955 TATATCAATTATAATTTAATAG
1 TAAATCAATAATAACTTAATAG
* *
11565977 TAAATTAGTAATAA-TATAATAG
1 TAAATCAATAATAACT-TAATAG
* *
11565999 TCAAAGC-ATAATAACTTAATAA
1 T-AAATCAATAATAACTTAATAG
* *
11566021 TAAATCAATTATAACGTAACT-G
1 TAAATCAATAATAACTTAA-TAG
* * *
11566043 TAAATGC-ATAATAACATAGTTG
1 TAAAT-CAATAATAACTTAATAG
* *
11566065 TAAATTAATAATAACTTCATA-
1 TAAATCAATAATAACTTAATAG
11566086 -AAA--AA-AGATAACTTAATAG
1 TAAATCAATA-ATAACTTAATAG
* * * * *
11566105 TTAATCATTGATAATTTAGTAG
1 TAAATCAATAATAACTTAATAG
*
11566127 TAAATCAATGAA-AA-TTAGTAG
1 TAAATCAAT-AATAACTTAATAG
* * * * *
11566148 TAAATTAGTGATAGCATAATAG
1 TAAATCAATAATAACTTAATAG
** ** ** *
11566170 TAAATTTATTTTAGTTTAATTG
1 TAAATCAATAATAACTTAATAG
* * * *
11566192 TAATTAAATTATAATTTTAATAG
1 TAAATCAATAATAA-CTTAATAG
*
11566215 TAAATC-ATAAATAACTTAA-CG
1 TAAATCAAT-AATAACTTAATAG
* *
11566236 ATAAATCAATGATAATTTAATAG
1 -TAAATCAATAATAACTTAATAG
* * * * * *
11566259 CAAATCACT-AGAACTCAGTAA
1 TAAATCAATAATAACTTAATAG
* *
11566280 TAAATCGATGATAAC--AA-AG
1 TAAATCAATAATAACTTAATAG
* * * * *
11566299 TGACAAATGC-ATAACAGCATAGTAA
1 T---AAAT-CAATAATAACTTAATAG
* * *
11566324 TAAATCACTAATAATTTAGTAG
1 TAAATCAATAATAACTTAATAG
*
11566346 TAAAT-TATCAATAACTTAATAG
1 TAAATCAAT-AATAACTTAATAG
*
11566368 TAAATCACTAATAA-TGTAATAG
1 TAAATCAATAATAACT-TAATAG
11566390 TAAA
1 TAAA
11566394 ACATTGATAA
Statistics
Matches: 413, Mismatches: 112, Indels: 98
0.66 0.18 0.16
Matches are distributed among these distances:
17 1 0.00
18 12 0.03
19 7 0.02
20 17 0.04
21 56 0.14
22 248 0.60
23 29 0.07
24 23 0.06
25 13 0.03
26 7 0.02
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
TAAATCAATAATAACTTAATAG
Found at i:11565907 original size:11 final size:11
Alignment explanation
Indices: 11565856--11565983 Score: 59
Period size: 11 Copynumber: 11.5 Consensus size: 11
11565846 TAATAATTGG
*
11565856 AAATTAAAAGT
1 AAATTAATAGT
*
11565867 AAATCAATA-T
1 AAATTAATAGT
*
11565877 AACTTAATA-T
1 AAATTAATAGT
*
11565887 -AATTATTAGT
1 AAATTAATAGT
11565897 AAATTAATAGT
1 AAATTAATAGT
* *
11565908 TAATTAATAAT
1 AAATTAATAGT
* *
11565919 AATTTAGTATAAT
1 AAATTA--ATAGT
*
11565932 AAA-TAAGAGAT
1 AAATTAATAG-T
11565943 ATAACTTAATAGT
1 A-AA-TTAATAGT
* *
11565956 ATATCAATTA-T
1 AAATTAA-TAGT
*
11565967 AATTTAATAGT
1 AAATTAATAGT
11565978 AAATTA
1 AAATTA
11565984 GTAATAATAT
Statistics
Matches: 86, Mismatches: 21, Indels: 20
0.68 0.17 0.16
Matches are distributed among these distances:
9 6 0.07
10 14 0.16
11 45 0.52
12 7 0.08
13 9 0.10
14 5 0.06
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.38
Consensus pattern (11 bp):
AAATTAATAGT
Found at i:11566420 original size:22 final size:24
Alignment explanation
Indices: 11566395--11566454 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 24
11566385 AATAGTAAAA
11566395 CATTGATAATTTAGTTT-T-AATT
1 CATTGATAATTTAGTTTATAAATT
11566417 CATTGATAATTTA-TTTATAAATT
1 CATTGATAATTTAGTTTATAAATT
*
11566440 -AATGATAATTTAGTT
1 CATTGATAATTTAGTT
11566455 ATATGGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 3 0.09
22 25 0.74
23 6 0.18
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (24 bp):
CATTGATAATTTAGTTTATAAATT
Found at i:11574518 original size:18 final size:18
Alignment explanation
Indices: 11574454--11574518 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
11574444 AATAAATTTA
*
11574454 AAAAATATG-AATTATTTT
1 AAAAATATGAAAAT-TTTT
* * *
11574472 AAAATTATAAAAAATTTT
1 AAAAATATGAAAATTTTT
*
11574490 -AAAA-CTGAAAATTTTT
1 AAAAATATGAAAATTTTT
11574506 AAAAATATGAAAA
1 AAAAATATGAAAA
11574519 CTTAAAAATT
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
16 9 0.26
17 7 0.20
18 17 0.49
19 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (18 bp):
AAAAATATGAAAATTTTT
Found at i:11574534 original size:25 final size:25
Alignment explanation
Indices: 11574447--11574551 Score: 84
Period size: 25 Copynumber: 4.1 Consensus size: 25
11574437 CCTAAAAAAT
* * *
11574447 AAATTTAAAAAATATGAATTATTTTA
1 AAATTTAAAAAATATGAA-AACTTAA
* * *
11574473 AAATTATAAAAAATTTTAAAACTGAA
1 AAATT-TAAAAAATATGAAAACTTAA
* *
11574499 AATTTTTAAAAATATGAAAACTTAA
1 AAATTTAAAAAATATGAAAACTTAA
* * * *
11574524 AAATTCAAAAAATCTAAAAATTTAA
1 AAATTTAAAAAATATGAAAACTTAA
11574549 AAA
1 AAA
11574552 AAAAATTGAA
Statistics
Matches: 61, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
25 38 0.62
26 12 0.20
27 11 0.18
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (25 bp):
AAATTTAAAAAATATGAAAACTTAA
Found at i:11574556 original size:21 final size:21
Alignment explanation
Indices: 11574530--11574573 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11574520 TTAAAAATTC
*
11574530 AAAAAATCT-AAAAATTTAAAA
1 AAAAAAT-TGAAAAAATTAAAA
11574551 AAAAAATTGAAAAAATTAAAA
1 AAAAAATTGAAAAAATTAAAA
11574572 AA
1 AA
11574574 GTTTGAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATTGAAAAAATTAAAA
Found at i:11574572 original size:38 final size:39
Alignment explanation
Indices: 11574522--11574601 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
11574512 ATGAAAACTT
11574522 AAAAATTCAAAAAA-TCTAAAAATTTAAAAAAAAAATTGA
1 AAAAATTCAAAAAAGTCTAAAAATTTAAAAAAAAAA-TGA
* * * *
11574561 AAAAATT-AAAAAAGTTTGAAATTTTCAAAAAAAAATGA
1 AAAAATTCAAAAAAGTCTAAAAATTTAAAAAAAAAATGA
11574599 AAA
1 AAA
11574602 CTTTAATAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 12 0.33
39 24 0.67
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.24
Consensus pattern (39 bp):
AAAAATTCAAAAAAGTCTAAAAATTTAAAAAAAAAATGA
Found at i:11574694 original size:20 final size:21
Alignment explanation
Indices: 11574669--11574727 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
11574659 TGAAAATAAT
11574669 AAAAATCTAAAATTTTTTTA-
1 AAAAATCTAAAATTTTTTTAC
11574689 AAAAATCTTAAAA--TTTTTAC
1 AAAAATC-TAAAATTTTTTTAC
* *
11574709 AAAATTGTAAAATTTTTTT
1 AAAAATCTAAAATTTTTTT
11574728 TCTTTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 11 0.33
20 12 0.36
21 10 0.30
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (21 bp):
AAAAATCTAAAATTTTTTTAC
Found at i:11574839 original size:9 final size:9
Alignment explanation
Indices: 11574825--11574863 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
11574815 TGATTTTTCC
11574825 AAAATTTTT
1 AAAATTTTT
11574834 AAAATTTTT
1 AAAATTTTT
11574843 AAGAATTTTTT
1 AA-AA-TTTTT
11574854 ATAAATTTTT
1 A-AAATTTTT
11574864 TATTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 11 0.41
10 7 0.26
11 8 0.30
12 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (9 bp):
AAAATTTTT
Found at i:11574866 original size:11 final size:10
Alignment explanation
Indices: 11574825--11574865 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
11574815 TGATTTTTCC
11574825 AAAA-TTTTT
1 AAAATTTTTT
11574834 AAAA-TTTTT
1 AAAATTTTTT
11574843 AAGAATTTTTT
1 AA-AATTTTTT
11574854 ATAAATTTTTT
1 A-AAATTTTTT
11574865 A
1 A
11574866 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 11 0.38
10 2 0.07
11 15 0.52
12 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
AAAATTTTTT
Found at i:11575040 original size:17 final size:17
Alignment explanation
Indices: 11575005--11575124 Score: 57
Period size: 17 Copynumber: 6.8 Consensus size: 17
11574995 GATTATTTTG
* *
11575005 AATTTGTTAAATTTAATA
1 AATTT-TTAATTTTTATA
11575023 AATTTTTAATTTTTAT-
1 AATTTTTAATTTTTATA
* *
11575039 AATTTCTAAAACTATTTCAT-
1 AATTT-T-TAA-T-TTTTATA
11575059 -ATTTTTAATTTTTATA
1 AATTTTTAATTTTTATA
** * *
11575075 TCTTTTAAATTTTTAGA
1 AATTTTTAATTTTTATA
* *
11575092 ACTTTTATAAATTTTTTTA
1 AATTTT-T-AATTTTTATA
11575111 AATTTTTGAATTTT
1 AATTTTT-AATTTT
11575125 CTGTTAATGT
Statistics
Matches: 79, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
15 5 0.06
16 6 0.08
17 30 0.38
18 15 0.19
19 18 0.23
20 5 0.06
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (17 bp):
AATTTTTAATTTTTATA
Found at i:11578783 original size:51 final size:50
Alignment explanation
Indices: 11578723--11578826 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
11578713 ATTTAGGAAC
* * *
11578723 ATCCCGACTCTTCGAT-GAATTCTCAAAATTTATTAAACAAATTTTAAGATT
1 ATCCCGACTCTTCGATCAAATCCT-AAAAATT-TTAAACAAATTTTAAGATT
* * *
11578774 ATCCTGACTCTTCGGTCAAATCCTAAAAATTTTAAACAAGTTTTAAGATT
1 ATCCCGACTCTTCGATCAAATCCTAAAAATTTTAAACAAATTTTAAGATT
11578824 ATC
1 ATC
11578827 TCAATTTTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 21 0.46
51 20 0.43
52 5 0.11
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.37
Consensus pattern (50 bp):
ATCCCGACTCTTCGATCAAATCCTAAAAATTTTAAACAAATTTTAAGATT
Found at i:11579467 original size:15 final size:15
Alignment explanation
Indices: 11579435--11579475 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
11579425 TTTTTAGGTC
11579435 TTTATTTTATTTCAG
1 TTTATTTTATTTCAG
*
11579450 TTTTATTTT-TTTCTG
1 -TTTATTTTATTTCAG
11579465 TTTA-TTTATTT
1 TTTATTTTATTT
11579476 GTTTCCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 7 0.30
15 5 0.22
16 8 0.35
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTTCAG
Found at i:11579558 original size:28 final size:28
Alignment explanation
Indices: 11579505--11579558 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
11579495 TAGTAATAAT
* *
11579505 ATAAAATAACAATAATAATAATAACATC
1 ATAAAAAAACAATAATAAAAATAACATC
*
11579533 ATAAAAAAATAAT-ATAAAAATCAACA
1 ATAAAAAAACAATAATAAAAAT-AACA
11579559 AAAAAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (28 bp):
ATAAAAAAACAATAATAAAAATAACATC
Found at i:11579576 original size:24 final size:23
Alignment explanation
Indices: 11579535--11579580 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
11579525 ATAACATCAT
*
11579535 AAAAAAATAATATAAAAATCAAC
1 AAAAAAATAAAATAAAAATCAAC
*
11579558 AAAAAAATCAAAATCAAAATCAA
1 AAAAAAAT-AAAATAAAAATCAA
11579581 AACAGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (23 bp):
AAAAAAATAAAATAAAAATCAAC
Found at i:11580387 original size:3 final size:3
Alignment explanation
Indices: 11580379--11580422 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11580369 TTTTAAAGAT
11580379 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11580423 TAAAAGAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11586997 original size:29 final size:30
Alignment explanation
Indices: 11586965--11587025 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
11586955 TTAGTAAAAG
*
11586965 TTTTATCTTTTAAAAAAATTTT-AGATTTT
1 TTTTATCTTTTAAAAAAATTTTAACATTTT
* **
11586994 TTTTATGTTTTATTAAAATTTTAACATTTT
1 TTTTATCTTTTAAAAAAATTTTAACATTTT
11587024 TT
1 TT
11587026 GAATTTCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTATCTTTTAAAAAAATTTTAACATTTT
Found at i:11587136 original size:11 final size:10
Alignment explanation
Indices: 11587090--11587162 Score: 60
Period size: 10 Copynumber: 7.4 Consensus size: 10
11587080 ATATTTTTAT
*
11587090 TTTTTTACAA
1 TTTTTTAAAA
11587100 TTTTTTAAAA
1 TTTTTTAAAA
* **
11587110 TATTCCAAAA
1 TTTTTTAAAA
11587120 -TTTTTAAAA
1 TTTTTTAAAA
*
11587129 CTTTTTTATAA
1 -TTTTTTAAAA
*
11587140 TTTTTAAAAA
1 TTTTTTAAAA
*
11587150 TATTTT-AAA
1 TTTTTTAAAA
11587159 TTTT
1 TTTT
11587163 CTATTAGTGT
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
9 12 0.25
10 28 0.58
11 8 0.17
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:11587141 original size:20 final size:20
Alignment explanation
Indices: 11587055--11587162 Score: 66
Period size: 20 Copynumber: 5.7 Consensus size: 20
11587045 AAAAATTTAA
*
11587055 TTTTTATAATTTCTAAAACT
1 TTTTTATAATTTTTAAAACT
* * *
11587075 GTTTGAT-ATTTTT---ATT
1 TTTTTATAATTTTTAAAACT
*
11587091 TTTTTACAATTTTTTAAAA-T
1 TTTTTATAA-TTTTTAAAACT
* ** *
11587111 ATTCCAAAATTTTTAAAACT
1 TTTTTATAATTTTTAAAACT
*
11587131 TTTTTATAATTTTTAAAAAT
1 TTTTTATAATTTTTAAAACT
*
11587151 ATTTTA-AATTTT
1 TTTTTATAATTTT
11587163 CTATTAGTGT
Statistics
Matches: 65, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
16 6 0.09
17 1 0.02
18 5 0.08
19 20 0.31
20 32 0.49
21 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTTATAATTTTTAAAACT
Found at i:11588818 original size:13 final size:14
Alignment explanation
Indices: 11588800--11588832 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11588790 CAAGTATTGG
11588800 ATATTAATATTATT
1 ATATTAATATTATT
*
11588814 A-ATTATTATTATT
1 ATATTAATATTATT
11588827 ATATTA
1 ATATTA
11588833 CTTTTACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTAATATTATT
Found at i:11595839 original size:16 final size:16
Alignment explanation
Indices: 11595818--11595857 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11595808 CTTATTTTTT
11595818 TATTTTTAATTTAAAA
1 TATTTTTAATTTAAAA
*
11595834 TATTTTGT-ATTTAAGA
1 TATTTT-TAATTTAAAA
11595850 TATTTTTA
1 TATTTTTA
11595858 TAAAACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (16 bp):
TATTTTTAATTTAAAA
Found at i:11597419 original size:22 final size:21
Alignment explanation
Indices: 11597372--11597475 Score: 75
Period size: 22 Copynumber: 4.8 Consensus size: 21
11597362 GATTTTGTTA
* *
11597372 TAAATTAATGATAA-TTTAGAC
1 TAAA-TAATAATAACTTTATAC
*
11597393 AAAATCAATAATAACTTTATAC
1 TAAAT-AATAATAACTTTATAC
* * *
11597415 TAAATTAATGATAACTGTATAG
1 TAAA-TAATAATAACTTTATAC
* * *
11597437 TAAATTATGAATAACTTAATAG
1 TAAATAAT-AATAACTTTATAC
11597459 TAAAATAATAATAACTT
1 T-AAATAATAATAACTT
11597476 AATAGTGTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.02
21 13 0.20
22 45 0.68
23 7 0.11
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (21 bp):
TAAATAATAATAACTTTATAC
Found at i:11597476 original size:22 final size:22
Alignment explanation
Indices: 11597393--11597481 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
11597383 TAATTTAGAC
* *
11597393 AAAATCAATAATAACTTTATACT
1 AAAAT-AATAATAACTTAATAGT
* *
11597416 AAATTAATGATAACTGT-ATAGT
1 AAAATAATAATAACT-TAATAGT
*
11597438 -AAATTATGAATAACTTAATAGT
1 AAAATAAT-AATAACTTAATAGT
11597460 AAAATAATAATAACTTAATAGT
1 AAAATAATAATAACTTAATAGT
11597482 GTATGATAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 6 0.11
22 38 0.69
23 11 0.20
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (22 bp):
AAAATAATAATAACTTAATAGT
Found at i:11597513 original size:22 final size:22
Alignment explanation
Indices: 11597487--11597547 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
11597477 ATAGTGTATG
11597487 ATAACATAATAATAAAT-ACATA
1 ATAACATAATAATAAATAACA-A
* *
11597509 ATAACATAGTAAGAAATAACAA
1 ATAACATAATAATAAATAACAA
* *
11597531 ATAACTTAACAATAAAT
1 ATAACATAATAATAAAT
11597548 CATTTATACA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 29 0.91
23 3 0.09
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (22 bp):
ATAACATAATAATAAATAACAA
Found at i:11597640 original size:22 final size:22
Alignment explanation
Indices: 11597582--11597677 Score: 77
Period size: 22 Copynumber: 4.4 Consensus size: 22
11597572 TAACATATAT
* * *
11597582 TAGTAAATTAAGGATAACTTAA
1 TAGTAAATCAATGATAACTTAG
**
11597604 TAAAAAAT-AAGTGATAACTTAG
1 TAGTAAATCAA-TGATAACTTAG
* * * *
11597626 TAGTTAATTATTGATAGCTTAG
1 TAGTAAATCAATGATAACTTAG
* *
11597648 TAATAAATCAATGATAACTTAA
1 TAGTAAATCAATGATAACTTAG
11597670 TAGTAAAT
1 TAGTAAAT
11597678 AAGATTCAAT
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
21 2 0.04
22 53 0.95
23 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.34
Consensus pattern (22 bp):
TAGTAAATCAATGATAACTTAG
Found at i:11598012 original size:22 final size:22
Alignment explanation
Indices: 11597968--11598026 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
11597958 TTAATTGACA
11597968 AATTTAGTAATAAATCATAAAT
1 AATTTAGTAATAAATCATAAAT
*
11597990 AGTTTAGTAATAAATCACT-AAT
1 AATTTAGTAATAAATCA-TAAAT
* *
11598012 AATTTAATAGTAAAT
1 AATTTAGTAATAAAT
11598027 AATTTATAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (22 bp):
AATTTAGTAATAAATCATAAAT
Found at i:11598035 original size:22 final size:21
Alignment explanation
Indices: 11598010--11598202 Score: 79
Period size: 22 Copynumber: 8.6 Consensus size: 21
11598000 TAAATCACTA
11598010 ATAATTTAATAGTAAATAATTT
1 ATAATTTAATAGTAAATAA-TT
*
11598032 ATAA-CTAAGTAGTAATTAATAATT
1 ATAATTTAA-TAGT-A--AATAATT
* *
11598056 GA-AAATTAAAAGTAAATCAA-T
1 -ATAATTTAATAGTAAAT-AATT
* *
11598077 ATAACTTAATAGT-AATTATT
1 ATAATTTAATAGTAAATAATT
* * *
11598097 AGTAAATTAATAGTTAATTAATA
1 A-TAATTTAATAG-TAAATAATT
* *
11598120 ATAATTTAGTATAATAAATAAGAGAT
1 ATAATTTA--ATAGTAAAT-A-A-TT
* *
11598146 ATAACTTAATAGTATATCAATT
1 ATAATTTAATAGTAAAT-AATT
* *
11598168 ATAATTTAATAGTAAATTAGTA
1 ATAATTTAATAGTAAA-TAATT
*
11598190 ATAATATAATAGT
1 ATAATTTAATAGT
11598203 CAAAGCATAA
Statistics
Matches: 128, Mismatches: 25, Indels: 36
0.68 0.13 0.19
Matches are distributed among these distances:
19 1 0.01
20 6 0.05
21 26 0.20
22 46 0.36
23 13 0.10
24 19 0.15
25 10 0.08
26 7 0.05
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (21 bp):
ATAATTTAATAGTAAATAATT
Found at i:11598110 original size:11 final size:11
Alignment explanation
Indices: 11598058--11598186 Score: 68
Period size: 11 Copynumber: 11.5 Consensus size: 11
11598048 TAATAATTGA
*
11598058 AAATTAAAAGT
1 AAATTAATAGT
*
11598069 AAATCAATA-T
1 AAATTAATAGT
*
11598079 AACTTAATAGT
1 AAATTAATAGT
*
11598090 -AATTATTAGT
1 AAATTAATAGT
11598100 AAATTAATAGT
1 AAATTAATAGT
* *
11598111 TAATTAATAAT
1 AAATTAATAGT
* *
11598122 AATTTAGTATAAT
1 AAATTA--ATAGT
*
11598135 AAA-TAAGAGAT
1 AAATTAATAG-T
11598146 ATAACTTAATAGT
1 A-AA-TTAATAGT
* *
11598159 ATATCAATTA-T
1 AAATTAA-TAGT
*
11598170 AATTTAATAGT
1 AAATTAATAGT
11598181 AAATTA
1 AAATTA
11598187 GTAATAATAT
Statistics
Matches: 87, Mismatches: 21, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
10 20 0.23
11 46 0.53
12 7 0.08
13 9 0.10
14 5 0.06
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (11 bp):
AAATTAATAGT
Found at i:11598330 original size:23 final size:22
Alignment explanation
Indices: 11598294--11598357 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
11598284 CAATAAAAAA
* * * *
11598294 GATAACTTAATAGTTAATCATT
1 GATAATTTAGTAGTAAATCAAT
11598316 GGATAATTTAGTAGTAAATCAAT
1 -GATAATTTAGTAGTAAATCAAT
*
11598339 GAAAATTTAGTAAGTAAAT
1 GATAATTTAGT-AGTAAAT
11598358 TAGTGATAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (22 bp):
GATAATTTAGTAGTAAATCAAT
Found at i:11598625 original size:22 final size:24
Alignment explanation
Indices: 11598599--11598665 Score: 90
Period size: 22 Copynumber: 3.0 Consensus size: 24
11598589 TAATAGTAAA
11598599 CATTGATAATTTAGTTT-T-AATT
1 CATTGATAATTTAGTTTATAAATT
11598621 CATTGATAATTTA-TTTATAAATT
1 CATTGATAATTTAGTTTATAAATT
*
11598644 -AATGATAATTTAG-TTATAAATT
1 CATTGATAATTTAGTTTATAAATT
11598666 ACTTAATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
21 3 0.07
22 34 0.83
23 4 0.10
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (24 bp):
CATTGATAATTTAGTTTATAAATT
Found at i:11598715 original size:22 final size:22
Alignment explanation
Indices: 11598674--11598832 Score: 128
Period size: 22 Copynumber: 7.3 Consensus size: 22
11598664 TTACTTAATT
11598674 ATTAATAACTT--TACAGTAAATC
1 ATTAATAACTTAGTA-A-TAAATC
* *
11598696 AATAATAACATTA-TAATAAATT
1 ATTAATAAC-TTAGTAATAAATC
* * * *
11598718 ATTAATACCTTAATAGTAAATT
1 ATTAATAACTTAGTAATAAATC
* *
11598740 ATCAATAACTTAGTAACAAATC
1 ATTAATAACTTAGTAATAAATC
*
11598762 ATTTATAACTTAGTAATAAATC
1 ATTAATAACTTAGTAATAAATC
* *
11598784 ATTTATAACTTAGTGATAAATC
1 ATTAATAACTTAGTAATAAATC
* * *
11598806 A-TGATAATTTAGTAGTAAATC
1 ATTAATAACTTAGTAATAAATC
*
11598827 AGTAAT
1 ATTAAT
11598833 GAGGTAGTAG
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
21 20 0.18
22 88 0.78
23 3 0.03
24 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (22 bp):
ATTAATAACTTAGTAATAAATC
Found at i:11598794 original size:44 final size:43
Alignment explanation
Indices: 11598744--11598827 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
11598734 TAAATTATCA
*
11598744 ATAACTTAGTAACAAATCATTTATAACTTAGTAATAAATCATTT
1 ATAACTTAGTAACAAATCA-TGATAACTTAGTAATAAATCATTT
* * * *
11598788 ATAACTTAGTGATAAATCATGATAATTTAGTAGTAAATCA
1 ATAACTTAGTAACAAATCATGATAACTTAGTAATAAATCA
11598828 GTAATGAGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 18 0.51
44 17 0.49
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (43 bp):
ATAACTTAGTAACAAATCATGATAACTTAGTAATAAATCATTT
Found at i:11599401 original size:43 final size:43
Alignment explanation
Indices: 11599220--11599457 Score: 142
Period size: 43 Copynumber: 5.5 Consensus size: 43
11599210 TAAATTAGCA
* * * *
11599220 ATAAATCACTAATAACATAATAATAAGTCACTT-ATAACTTAGTT
1 ATAAATCATTAATAACTTAATAATAAATCA-TTAATAACTTA-AT
* * * * * ** *
11599264 ATATATCAATAATAATTTTATAGTAAATCATCGAT-ACTTTAT
1 ATAAATCATTAATAACTTAATAATAAATCATTAATAACTTAAT
* * * * *
11599306 AGTAAATTAGTT-ACAATTTTATAATAAATTATTAATAACTTAAT
1 A-TAAATCA-TTAATAACTTAATAATAAATCATTAATAACTTAAT
* * * *
11599350 ATTAATCATTTATAACTTAGTAGTAAATCATT-ATAACTTAAT
1 ATAAATCATTAATAACTTAATAATAAATCATTAATAACTTAAT
* * * * *
11599392 AGTAAATCATTAATAATTTAATAATAAATCACTGATAACATAGT
1 A-TAAATCATTAATAACTTAATAATAAATCATTAATAACTTAAT
* *
11599436 AATAAATTAATAATAACTTAAT
1 -ATAAATCATTAATAACTTAAT
11599458 TATCATCGAT
Statistics
Matches: 148, Mismatches: 38, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
42 15 0.10
43 74 0.50
44 58 0.39
45 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (43 bp):
ATAAATCATTAATAACTTAATAATAAATCATTAATAACTTAAT
Found at i:11599429 original size:22 final size:22
Alignment explanation
Indices: 11599219--11599457 Score: 126
Period size: 22 Copynumber: 11.0 Consensus size: 22
11599209 CTAAATTAGC
*
11599219 AATAAATCACTAATAACATAAT
1 AATAAATCACTAATAACTTAAT
* * *
11599241 AATAAGTCACTTATAACTTAGT
1 AATAAATCACTAATAACTTAAT
* * * * *
11599263 TATATATCAATAATAATTTTAT
1 AATAAATCACTAATAACTTAAT
* * *
11599285 AGTAAATCA-TCGAT-ACTTTAT
1 AATAAATCACT-AATAACTTAAT
* * * * * * *
11599306 AGTAAATTAGTTACAATTTTAT
1 AATAAATCACTAATAACTTAAT
* *
11599328 AATAAATTATTAATAACTTAAT
1 AATAAATCACTAATAACTTAAT
* * * *
11599350 -ATTAATCATTTATAACTTAGT
1 AATAAATCACTAATAACTTAAT
* *
11599371 AGTAAATCA-TTATAACTTAAT
1 AATAAATCACTAATAACTTAAT
* * *
11599392 AGTAAATCATTAATAATTTAAT
1 AATAAATCACTAATAACTTAAT
* * *
11599414 AATAAATCACTGATAACATAGT
1 AATAAATCACTAATAACTTAAT
* *
11599436 AATAAATTAATAATAACTTAAT
1 AATAAATCACTAATAACTTAAT
11599458 TATCATCGAT
Statistics
Matches: 165, Mismatches: 47, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
21 53 0.32
22 112 0.68
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.39
Consensus pattern (22 bp):
AATAAATCACTAATAACTTAAT
Found at i:11599430 original size:86 final size:87
Alignment explanation
Indices: 11599221--11599430 Score: 196
Period size: 86 Copynumber: 2.4 Consensus size: 87
11599211 AAATTAGCAA
* ** * * * *
11599221 TAAATCACTAATAACATAATAATAAGTCACTTATAACTTAGTTATATATCAATAATAATTTTATA
1 TAAATCATTAATAATTTAATAATAAATCACTAATAACTTAATTATATATCAATAATAATCTTATA
*
11599286 GTAAATCATCGATACTTTATAG
66 GTAAATCATCGATACTTAATAG
* * * * * * *
11599308 TAAATTAGTT-ACAATTTTATAATAAATTATTAATAACTTAA-TAT-TAATCATTTATAA-CTTA
1 TAAATCA-TTAATAATTTAATAATAAATCACTAATAACTTAATTATAT-ATCAATAATAATCTTA
*
11599369 GTAGTAAATCAT-TATAACTTAATAG
64 -TAGTAAATCATCGAT-ACTTAATAG
*
11599394 TAAATCATTAATAATTTAATAATAAATCACTGATAAC
1 TAAATCATTAATAATTTAATAATAAATCACTAATAAC
11599431 ATAGTAATAA
Statistics
Matches: 96, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
85 8 0.08
86 59 0.61
87 28 0.29
88 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.40
Consensus pattern (87 bp):
TAAATCATTAATAATTTAATAATAAATCACTAATAACTTAATTATATATCAATAATAATCTTATA
GTAAATCATCGATACTTAATAG
Found at i:11599688 original size:22 final size:22
Alignment explanation
Indices: 11599635--11599711 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
11599625 AAATTAGTGA
11599635 TAATAATAAATCAATGATAACT
1 TAATAATAAATCAATGATAACT
* * ** *
11599657 TATTAGTAAATCAATTTTAGCT
1 TAATAATAAATCAATGATAACT
11599679 TAATAATAAAGTC--TGGATAACT
1 TAATAATAAA-TCAAT-GATAACT
*
11599701 TAATAGTAAAT
1 TAATAATAAAT
11599712 TATTCATATT
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
21 2 0.05
22 38 0.90
23 2 0.05
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAATAAATCAATGATAACT
Found at i:11601305 original size:20 final size:22
Alignment explanation
Indices: 11601280--11601323 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
11601270 TTTTATAATC
*
11601280 GAAAAA-ATTTAAAAAAA-GAA
1 GAAAAATATTAAAAAAAATGAA
11601300 GAAAAATATTAAAAAAAATGAA
1 GAAAAATATTAAAAAAAATGAA
11601322 GA
1 GA
11601324 TGATGACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (22 bp):
GAAAAATATTAAAAAAAATGAA
Found at i:11612698 original size:51 final size:50
Alignment explanation
Indices: 11612638--11612741 Score: 129
Period size: 50 Copynumber: 2.1 Consensus size: 50
11612628 TTTTAGCAAC
* ** *
11612638 ATCCCGACTCTTCGGT-GAATTTTCAAAATTTATTAAACAAATTTTAAGATT
1 ATCCCGACTCTTCGGTCAAATCCT-AAAAATT-TTAAACAAATTTTAAGATT
* *
11612689 ATCCTGACTCTTCGGTCAAATCCTAAAAATTTTAAACAAGTTTTAAGATT
1 ATCCCGACTCTTCGGTCAAATCCTAAAAATTTTAAACAAATTTTAAGATT
11612739 ATC
1 ATC
11612742 TCAATTTTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 21 0.46
51 21 0.46
52 4 0.09
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (50 bp):
ATCCCGACTCTTCGGTCAAATCCTAAAAATTTTAAACAAATTTTAAGATT
Found at i:11613494 original size:25 final size:24
Alignment explanation
Indices: 11613415--11613516 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 24
11613405 TACTAGTAAT
* *
11613415 AATATAAAAT-AACAATAATAATAA
1 AATA-AAAATCAACAAAAAAAATAA
*
11613439 TAAT-AACATC-ACAAAAAAAATAA
1 -AATAAAAATCAACAAAAAAAATAA
*
11613462 TATAAAAATCAACAAAAAAAATCAA
1 AATAAAAATCAACAAAAAAAAT-AA
* *
11613487 AATCAAAATCAA-AACAGAAAATAA
1 AATAAAAATCAACAA-AAAAAATAA
11613511 AA-AAAA
1 AATAAAA
11613517 GAAAAGAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.03
23 23 0.37
24 17 0.27
25 21 0.33
ACGTcount: A:0.73, C:0.10, G:0.01, T:0.17
Consensus pattern (24 bp):
AATAAAAATCAACAAAAAAAATAA
Found at i:11614313 original size:3 final size:3
Alignment explanation
Indices: 11614305--11614330 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11614295 TTTTAAAGAT
11614305 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
11614331 TAAAAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11620895 original size:24 final size:22
Alignment explanation
Indices: 11620855--11620901 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
11620845 TTTAAAAAAA
*
11620855 TTTTTAGATTTTTTTAAGATTT
1 TTTTTAGATTTTTTTAAAATTT
*
11620877 TTTTTGGATGTTTTATTAAAATTT
1 TTTTTAGAT-TTTT-TTAAAATTT
11620901 T
1 T
11620902 GAGATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 4 0.19
24 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (22 bp):
TTTTTAGATTTTTTTAAAATTT
Found at i:11620990 original size:10 final size:10
Alignment explanation
Indices: 11620975--11621047 Score: 71
Period size: 10 Copynumber: 7.5 Consensus size: 10
11620965 GATATTTTTT
*
11620975 ATTTTTTACA
1 ATTTTTTAAA
11620985 ATTTTTTAAA
1 ATTTTTTAAA
* **
11620995 ATATTCCAAA
1 ATTTTTTAAA
11621005 ATTTTTT-AA
1 ATTTTTTAAA
*
11621014 ATATTTTTAGA
1 AT-TTTTTAAA
11621025 A-TTTTTAAA
1 ATTTTTTAAA
11621034 A-TTTTTAAA
1 ATTTTTTAAA
11621043 ATTTT
1 ATTTT
11621048 CTATTAGTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 21 0.41
10 28 0.55
11 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:11621037 original size:18 final size:19
Alignment explanation
Indices: 11621002--11621047 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
11620992 AAAATATTCC
11621002 AAAATTTTTTAAATATTTTT
1 AAAA-TTTTTAAATATTTTT
*
11621022 AGAATTTTTAAA-ATTTTT
1 AAAATTTTTAAATATTTTT
11621040 AAAATTTT
1 AAAATTTT
11621048 CTATTAGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.54
19 8 0.33
20 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AAAATTTTTAAATATTTTT
Found at i:11631492 original size:22 final size:22
Alignment explanation
Indices: 11631467--11631642 Score: 105
Period size: 22 Copynumber: 8.0 Consensus size: 22
11631457 GATTTAATGA
*
11631467 TAAATTAATTATAACTTAATAG
1 TAAATTAATAATAACTTAATAG
*
11631489 TAAATGT-ATAATAA-TATAGTAG
1 TAAAT-TAATAATAACT-TAATAG
* * * * **
11631511 CAAATTATTGATAATTTTGTTA-
1 TAAATTAATAATAA-CTTAATAG
* * *
11631533 TAAATTAATGATAATTTAGACA-
1 TAAATTAATAATAACTTA-ATAG
* * *
11631555 -AAATCAATAATAACTTTATAC
1 TAAATTAATAATAACTTAATAG
*
11631576 TAAATTAATGATAACTGT-ATAG
1 TAAATTAATAATAACT-TAATAG
11631598 TAAATT-ATGAATAACTTAATAG
1 TAAATTAAT-AATAACTTAATAG
*
11631620 TAAAATAATAATAACTTAATAG
1 TAAATTAATAATAACTTAATAG
11631642 T
1 T
11631643 GTATGATAAC
Statistics
Matches: 120, Mismatches: 22, Indels: 24
0.72 0.13 0.14
Matches are distributed among these distances:
20 2 0.02
21 21 0.17
22 89 0.74
23 7 0.06
24 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (22 bp):
TAAATTAATAATAACTTAATAG
Found at i:11631674 original size:22 final size:22
Alignment explanation
Indices: 11631648--11631708 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
11631638 ATAGTGTATG
11631648 ATAACATAATAATAAAT-ACATA
1 ATAACATAATAATAAATAACA-A
* *
11631670 ATAACATAGTAAGAAATAACAA
1 ATAACATAATAATAAATAACAA
* *
11631692 ATAACTTAACAATAAAT
1 ATAACATAATAATAAAT
11631709 CATTTATACA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 29 0.91
23 3 0.09
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (22 bp):
ATAACATAATAATAAATAACAA
Found at i:11631823 original size:22 final size:22
Alignment explanation
Indices: 11631746--11631825 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
11631736 CATATATTAG
* *
11631746 TAAATTAAGGATAACTTAATAA
1 TAAATTAATGATAACTTAGTAA
* *
11631768 -AAAATAAGTGATAACTTAGTAG
1 TAAATTAA-TGATAACTTAGTAA
* *
11631790 TTAATTATTGATAACTTAGTAA
1 TAAATTAATGATAACTTAGTAA
*
11631812 TAAATCAATGATAA
1 TAAATTAATGATAA
11631826 GTTAATAGCA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 6 0.13
22 35 0.78
23 4 0.09
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (22 bp):
TAAATTAATGATAACTTAGTAA
Found at i:11632185 original size:22 final size:22
Alignment explanation
Indices: 11632128--11632628 Score: 152
Period size: 22 Copynumber: 22.8 Consensus size: 22
11632118 TTAATTGACA
* *
11632128 AATTTAGTAATAAATC-ATAAAT
1 AATTTAATAGTAAATCAAT-AAT
* * * *
11632150 AGTTTAGTAATAAATCAATGAT
1 AATTTAATAGTAAATCAATAAT
*
11632172 AATTTAATAGTAAAT-AATTTAT
1 AATTTAATAGTAAATCAA-TAAT
* *
11632194 AA-CTAAGTAGT-AATTAATAATT
1 AATTTAA-TAGTAAATCAATAA-T
* *
11632216 GGAAATTAAAAGTAAATCAAT-AT
1 --AATTTAATAGTAAATCAATAAT
* * * *
11632239 AACTTAATAGT-AATTATTAGT
1 AATTTAATAGTAAATCAATAAT
* * *
11632260 AAATTAATAGTTAATTAATAAT
1 AATTTAATAGTAAATCAATAAT
* * *
11632282 AATTTAGTATAATAAATAAGAGATAT
1 AATTTA--ATAGTAAATCA-ATA-AT
* * *
11632308 AACTTAATAGTATATCAATTAT
1 AATTTAATAGTAAATCAATAAT
* *
11632330 AATTTAATAGTAAATTAGTAAT
1 AATTTAATAGTAAATCAATAAT
* *
11632352 AATATAATAGTCAAAGC-ATAAT
1 AATTTAATAGT-AAATCAATAAT
* * *
11632374 AACTTAATAATAAATCAATTAT
1 AATTTAATAGTAAATCAATAAT
**
11632396 AACGTAACT-GTAAATGC-ATAAT
1 AATTTAA-TAGTAAAT-CAATAAT
* * * *
11632418 AATATAGTTGTAAATTAATAAT
1 AATTTAATAGTAAATCAATAAT
* * *
11632440 AACTTCATA--AAA--AA-GAT
1 AATTTAATAGTAAATCAATAAT
* * * *
11632457 AACTTAATAGTTAATCATTGAT
1 AATTTAATAGTAAATCAATAAT
* * *
11632479 AATTTAGTAATAAATCAATAAA
1 AATTTAATAGTAAATCAATAAT
* * * *
11632501 AATTTAGTAGTAAATTAGTGAT
1 AATTTAATAGTAAATCAATAAT
*** ** **
11632523 AGCATAATAGTAAATTTATTTT
1 AATTTAATAGTAAATCAATAAT
* * * * *
11632545 AGTTTAATTGTAATTAAATTAT
1 AATTTAATAGTAAATCAATAAT
11632567 AATTTTAATAGTAAATC-ATAAAT
1 AA-TTTAATAGTAAATCAAT-AAT
* *
11632590 AACTTAA-CGATAAATCAATAAT
1 AATTTAATAG-TAAATCAATAAT
*
11632612 AATTTAATAGCAAATCA
1 AATTTAATAGTAAATCA
11632629 CTAGAACTCA
Statistics
Matches: 351, Mismatches: 97, Indels: 62
0.69 0.19 0.12
Matches are distributed among these distances:
17 10 0.03
18 2 0.01
19 2 0.01
20 8 0.02
21 37 0.11
22 225 0.64
23 27 0.08
24 22 0.06
25 11 0.03
26 7 0.02
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (22 bp):
AATTTAATAGTAAATCAATAAT
Found at i:11632270 original size:11 final size:11
Alignment explanation
Indices: 11632218--11632346 Score: 68
Period size: 11 Copynumber: 11.5 Consensus size: 11
11632208 TAATAATTGG
*
11632218 AAATTAAAAGT
1 AAATTAATAGT
*
11632229 AAATCAATA-T
1 AAATTAATAGT
*
11632239 AACTTAATAGT
1 AAATTAATAGT
*
11632250 -AATTATTAGT
1 AAATTAATAGT
11632260 AAATTAATAGT
1 AAATTAATAGT
* *
11632271 TAATTAATAAT
1 AAATTAATAGT
* *
11632282 AATTTAGTATAAT
1 AAATTA--ATAGT
*
11632295 AAA-TAAGAGAT
1 AAATTAATAG-T
11632306 ATAACTTAATAGT
1 A-AA-TTAATAGT
* *
11632319 ATATCAATTA-T
1 AAATTAA-TAGT
*
11632330 AATTTAATAGT
1 AAATTAATAGT
11632341 AAATTA
1 AAATTA
11632347 GTAATAATAT
Statistics
Matches: 87, Mismatches: 21, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
10 20 0.23
11 46 0.53
12 7 0.08
13 9 0.10
14 5 0.06
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (11 bp):
AAATTAATAGT
Found at i:11632706 original size:22 final size:22
Alignment explanation
Indices: 11632681--11633015 Score: 154
Period size: 22 Copynumber: 14.9 Consensus size: 22
11632671 CATAACAGCA
*
11632681 TAGTAATAAATCACTAATAATT
1 TAGTAATAAATCATTAATAATT
* * ** *
11632703 TAGTAGTAAATTATCGATAACT
1 TAGTAATAAATCATTAATAATT
* * *
11632725 TAGTAGTAAATCACTAATAATG
1 TAGTAATAAATCATTAATAATT
* * * *
11632747 TAATAGTAAAACATTGATAATT
1 TAGTAATAAATCATTAATAATT
** * *
11632769 TAGTTTTAATTCATTGATAATT
1 TAGTAATAAATCATTAATAATT
* * * * *
11632791 TATTTATAAATTAATGATAATT
1 TAGTAATAAATCATTAATAATT
* * *
11632813 TAGTTATAAATTAGTTAATTATT
1 TAGTAATAAATCA-TTAATAATT
* *
11632836 AATAACTTTATAGTAAATCATCAATAACTT
1 --T-A--GTA-A-TAAATCATTAATAA-TT
* * *
11632866 TA-TAGTAAATCAATAATAACAT
1 TAGTAATAAATCATTAATAA-TT
* **
11632888 TA-TAATAAATTATTAATACCT
1 TAGTAATAAATCATTAATAATT
* * * * *
11632909 TAATAGTAAATTATCAATAACT
1 TAGTAATAAATCATTAATAATT
* *
11632931 TAGTAATAAATCATTTATAACT
1 TAGTAATAAATCATTAATAATT
* *
11632953 TAGTAATAAATCATTTATAACT
1 TAGTAATAAATCATTAATAATT
*
11632975 TAGTGATAAATCA-TAATAATT
1 TAGTAATAAATCATTAATAATT
* *
11632996 TAGTAGTAAATCAGTAATAA
1 TAGTAATAAATCATTAATAA
11633016 GGTAGTAGTA
Statistics
Matches: 244, Mismatches: 58, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
21 20 0.08
22 197 0.81
23 6 0.02
24 2 0.01
25 1 0.00
26 1 0.00
27 1 0.00
28 2 0.01
29 6 0.02
30 8 0.03
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
TAGTAATAAATCATTAATAATT
Found at i:11632821 original size:11 final size:11
Alignment explanation
Indices: 11632763--11632829 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
11632753 TAAAACATTG
11632763 ATAATTTAGTT
1 ATAATTTAGTT
* *
11632774 TTAATTCA-TT
1 ATAATTTAGTT
*
11632784 GATAATTTATTT
1 -ATAATTTAGTT
* * *
11632796 ATAAATTAATG
1 ATAATTTAGTT
11632807 ATAATTTAGTT
1 ATAATTTAGTT
*
11632818 ATAAATTAGTT
1 ATAATTTAGTT
11632829 A
1 A
11632830 ATTATTAATA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
10 2 0.05
11 39 0.91
12 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (11 bp):
ATAATTTAGTT
Found at i:11632897 original size:44 final size:45
Alignment explanation
Indices: 11632835--11633015 Score: 171
Period size: 44 Copynumber: 4.1 Consensus size: 45
11632825 AGTTAATTAT
* *
11632835 TAATAACTTTA-TAGTAAATCATCAATAACTTTA-TAGTAAATCAA
1 TAATAAC-TTAGTAATAAATCATTAATAACTTTAGTAGTAAATCAA
* * * *
11632879 TAATAACATTA-TAATAAATTATTAAT-ACCTTAATAGTAAAT-TA
1 TAATAAC-TTAGTAATAAATCATTAATAACTTTAGTAGTAAATCAA
* * *
11632922 TCAATAACTTAGTAATAAATCATTTATAAC-TTAGTAATAAATCAT
1 T-AATAACTTAGTAATAAATCATTAATAACTTTAGTAGTAAATCAA
* * *
11632967 TTATAACTTAGTGATAAATCA-TAATAA-TTTAGTAGTAAATCAG
1 TAATAACTTAGTAATAAATCATTAATAACTTTAGTAGTAAATCAA
11633010 TAATAA
1 TAATAA
11633016 GGTAGTAGTA
Statistics
Matches: 113, Mismatches: 18, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
43 33 0.29
44 77 0.68
45 3 0.03
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (45 bp):
TAATAACTTAGTAATAAATCATTAATAACTTTAGTAGTAAATCAA
Found at i:11632916 original size:66 final size:67
Alignment explanation
Indices: 11632829--11633015 Score: 224
Period size: 66 Copynumber: 2.9 Consensus size: 67
11632819 TAAATTAGTT
*
11632829 AATTATTAATAACTTTATAGTAAATCATCAATAACTTTA-TAGTAAATCAATAATAACATTA-TA
1 AATTATTAATAACTTAATAGTAAATCATCAATAACTTTAGTAGTAAATCAATAATAAC-TTAGTA
11632892 ATA
65 ATA
* * * * *
11632895 AATTATTAATACCTTAATAGTAAATTATCAATAAC-TTAGTAATAAATCATTTATAACTTAGTAA
1 AATTATTAATAACTTAATAGTAAATCATCAATAACTTTAGTAGTAAATCAATAATAACTTAGTAA
11632959 TA
66 TA
* * * *
11632961 AATCATTTATAACTTAGT-GATAAATCAT-AATAA-TTTAGTAGTAAATCAGTAATAA
1 AATTATTAATAACTTAATAG-TAAATCATCAATAACTTTAGTAGTAAATCAATAATAA
11633016 GGTAGTAGTA
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
65 30 0.29
66 73 0.71
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (67 bp):
AATTATTAATAACTTAATAGTAAATCATCAATAACTTTAGTAGTAAATCAATAATAACTTAGTAA
TA
Found at i:11633021 original size:22 final size:21
Alignment explanation
Indices: 11632981--11633026 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
11632971 AACTTAGTGA
**
11632981 TAAATCATAATAATTTAGTAG
1 TAAATCATAATAAGGTAGTAG
11633002 TAAATCAGTAATAAGGTAGTAG
1 TAAATCA-TAATAAGGTAGTAG
11633024 TAA
1 TAA
11633027 GTGAGTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (21 bp):
TAAATCATAATAAGGTAGTAG
Found at i:11633291 original size:22 final size:22
Alignment explanation
Indices: 11633266--11633348 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
11633256 TATATCATAA
*
11633266 ATAACTTAGTAGTAATTCAA-TG
1 ATAACTTAGTAGTAAAT-AATTG
*
11633288 ATAATTTAGTAGTAAATAATTG
1 ATAACTTAGTAGTAAATAATTG
* * *
11633310 ATAACTTAATAGCTAACT-GTTG
1 ATAACTTAGTAG-TAAATAATTG
* *
11633332 AAAACTTAGTAATAAAT
1 ATAACTTAGTAGTAAAT
11633349 CAATGGTAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
21 6 0.12
22 39 0.80
23 4 0.08
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAATTG
Found at i:11633612 original size:22 final size:22
Alignment explanation
Indices: 11633401--11633640 Score: 126
Period size: 22 Copynumber: 11.0 Consensus size: 22
11633391 CTAAATTAGC
*
11633401 AATAAATCACTAATAACATAAT
1 AATAAATCACTAATAACTTAAT
* * *
11633423 AATAAGTCACTTATAACTTAGT
1 AATAAATCACTAATAACTTAAT
* * * * *
11633445 TATATATCAATAATAATTTTAT
1 AATAAATCACTAATAACTTAAT
* * *
11633467 AGTAAATCA-TCGATAACTTTAT
1 AATAAATCACT-AATAACTTAAT
* * * * * * *
11633489 AGTAAATTAGTTACAATTTTAT
1 AATAAATCACTAATAACTTAAT
* * *
11633511 AATAAATTATTAACAACTTAAT
1 AATAAATCACTAATAACTTAAT
* * * *
11633533 -ATTAATCATTTATAACTTAGT
1 AATAAATCACTAATAACTTAAT
* *
11633554 AGTAAATCA-TTATAACTTAAT
1 AATAAATCACTAATAACTTAAT
* * *
11633575 AGTAAATCATTAATAATTTAAT
1 AATAAATCACTAATAACTTAAT
* * *
11633597 AATAAATCACTGATAACATAGT
1 AATAAATCACTAATAACTTAAT
* *
11633619 AATAAATTAGTAATAACTTAAT
1 AATAAATCACTAATAACTTAAT
11633641 TATCATCGAA
Statistics
Matches: 167, Mismatches: 47, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
21 37 0.22
22 129 0.77
23 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.38
Consensus pattern (22 bp):
AATAAATCACTAATAACTTAAT
Found at i:11652214 original size:19 final size:18
Alignment explanation
Indices: 11652174--11652216 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
11652164 TTTGTGTTTT
*
11652174 ATAAATATTTAAAATTAA
1 ATAAATATTTAAAAATAA
* *
11652192 ATAAGTATTATAAAAATAC
1 ATAAATATT-TAAAAATAA
11652211 ATAAAT
1 ATAAAT
11652217 TATCAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAAATATTTAAAAATAA
Found at i:11658233 original size:15 final size:15
Alignment explanation
Indices: 11658214--11658251 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
11658204 AAATCTTCAA
11658214 AAAAAATTACTATTT
1 AAAAAATTACTATTT
*
11658229 TAAAAA-TACTATTT
1 AAAAAATTACTATTT
11658243 AAAAAATTA
1 AAAAAATTA
11658252 GATTTAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAATTACTATTT
Found at i:11664910 original size:29 final size:29
Alignment explanation
Indices: 11664847--11664910 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
11664837 AAATAATTAT
* *
11664847 AAATATATTTTATAAATAAAATTTTATCA
1 AAATTTATTTAATAAATAAAATTTTATCA
* * *
11664876 ATATTTATTTAAT-AATACAAATTTTGTTA
1 AAATTTATTTAATAAATA-AAATTTTATCA
11664905 AAATTT
1 AAATTT
11664911 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
AAATTTATTTAATAAATAAAATTTTATCA
Found at i:11668171 original size:17 final size:15
Alignment explanation
Indices: 11668136--11668164 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11668126 CAATTATGTA
11668136 TATATATATTATTAT
1 TATATATATTATTAT
11668151 TATATATATTATTA
1 TATATATATTATTA
11668165 CTTTATACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATATATTATTAT
Found at i:11674110 original size:6 final size:6
Alignment explanation
Indices: 11674096--11674128 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
11674086 TTTCAGTTTG
*
11674096 TTCTAC TTCTGC TTCTAC TTCTAC TTCTAC TTC
1 TTCTAC TTCTAC TTCTAC TTCTAC TTCTAC TTC
11674129 CTCCTCTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.12, C:0.33, G:0.03, T:0.52
Consensus pattern (6 bp):
TTCTAC
Found at i:11698051 original size:119 final size:118
Alignment explanation
Indices: 11697835--11698067 Score: 378
Period size: 119 Copynumber: 2.0 Consensus size: 118
11697825 GGAATTGAAG
* *
11697835 AGCTATAAGTTCAGAGTGATATTGACATTTGGACCGAGACTAGAGAAATTATTTGTGATAGATCT
1 AGCTATAAGTTCAGAGTGACATTGACATTTGGACCGAGACTAGAGAAATTATTTGTGATAGACCT
* * *
11697900 TCATTGGTATTCACCCACAAGGTACATCAACAGCTTATTTGGATTTTGGATAAA
66 TCAGTGATATTCACCCACAAGGTACATCAACAGCTT-TTGGGATTTTGGATAAA
* *
11697954 AGCTGTAAGTTCACG-GTGACATTGACATTTGGTCCGAGACTAGAGAAATTATTTGTGATAGACC
1 AGCTATAAGTTCA-GAGTGACATTGACATTTGGACCGAGACTAGAGAAATTATTTGTGATAGACC
11698018 TTCAGTGATATTCACCCACAAGGTACATCAACAGCTTTTGGGATTTTGGA
65 TTCAGTGATATTCACCCACAAGGTACATCAACAGCTTTTGGGATTTTGGA
11698068 AACCCCCCCC
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
118 12 0.11
119 93 0.88
120 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (118 bp):
AGCTATAAGTTCAGAGTGACATTGACATTTGGACCGAGACTAGAGAAATTATTTGTGATAGACCT
TCAGTGATATTCACCCACAAGGTACATCAACAGCTTTTGGGATTTTGGATAAA
Found at i:11699541 original size:11 final size:11
Alignment explanation
Indices: 11699520--11699549 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11699510 CATAATGTTC
11699520 ATATA-TATAT
1 ATATATTATAT
11699530 ATATATTATAT
1 ATATATTATAT
11699541 ATATATTAT
1 ATATATTAT
11699550 TTTATGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATATATTATAT
Found at i:11699981 original size:3 final size:3
Alignment explanation
Indices: 11699973--11700014 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11699963 CTTTATTACC
11699973 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11700015 TATTATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11700019 original size:3 final size:3
Alignment explanation
Indices: 11700013--11700053 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11700003 AATAATAATA
11700013 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11700054 AGCTCCAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11701120 original size:21 final size:21
Alignment explanation
Indices: 11701094--11701136 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11701084 TTTTTTTGGC
11701094 TTTTTTAATTCGAAGCTTTAT
1 TTTTTTAATTCGAAGCTTTAT
11701115 TTTTTTAATTCGAAGCTTTAT
1 TTTTTTAATTCGAAGCTTTAT
11701136 T
1 T
11701137 ATTGCTTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (21 bp):
TTTTTTAATTCGAAGCTTTAT
Found at i:11701767 original size:16 final size:16
Alignment explanation
Indices: 11701746--11701779 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11701736 AAGAAAATTC
11701746 AAGAAACAAAAAGAAA
1 AAGAAACAAAAAGAAA
* *
11701762 AAGAAATAAAACGAAA
1 AAGAAACAAAAAGAAA
11701778 AA
1 AA
11701780 AAGAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (16 bp):
AAGAAACAAAAAGAAA
Found at i:11701990 original size:6 final size:6
Alignment explanation
Indices: 11701972--11702014 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
11701962 AAAGAAATTC
* *
11701972 AAAA-A AAAATA AAATTA AAGATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
11702015 TAAGAAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:11702057 original size:3 final size:3
Alignment explanation
Indices: 11702049--11702104 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
11702039 CTAATCAATA
* *
11702049 AAT AAT AAT AAT AAT GAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11702097 AAT AAT AA
1 AAT AAT AA
11702105 ATAAATAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11702685 original size:25 final size:24
Alignment explanation
Indices: 11702646--11702698 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
11702636 TCAGATTCTG
*
11702646 AAAAAATTTCAAAAATTTTCCAAAAA
1 AAAAAATTTCAAAAA-ATT-CAAAAA
11702672 AAAAAATTTC-AAAAATTCAAAAA
1 AAAAAATTTCAAAAAATTCAAAAA
11702695 AAAA
1 AAAA
11702699 TTCTCACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.38
24 2 0.08
25 4 0.15
26 10 0.38
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (24 bp):
AAAAAATTTCAAAAAATTCAAAAA
Found at i:11702693 original size:22 final size:22
Alignment explanation
Indices: 11702646--11702711 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 22
11702636 TCAGATTCTG
11702646 AAAAAATTTCAAAAATTTTCCAAAAA
1 AAAAAATTTCAAAAA--TT-C-AAAA
11702672 AAAAAATTTCAAAAATTC-AAA
1 AAAAAATTTCAAAAATTCAAAA
*
11702693 AAAAAATTCTCACAAATTC
1 AAAAAATT-TCAAAAATTC
11702712 CTAAAGTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
21 11 0.29
22 9 0.24
23 1 0.03
24 2 0.05
26 15 0.39
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAAATTTCAAAAATTCAAAA
Found at i:11703008 original size:23 final size:26
Alignment explanation
Indices: 11702981--11703028 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
11702971 AATTATCAAG
11702981 AAAAGAT-AA-AAT-TAAAGAAAAAA
1 AAAAGATAAATAATATAAAGAAAAAA
11703004 AAAAGATAAATAATATAAAGAAAAA
1 AAAAGATAAATAATATAAAGAAAAA
11703029 CATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.32
24 2 0.09
25 3 0.14
26 10 0.45
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (26 bp):
AAAAGATAAATAATATAAAGAAAAAA
Found at i:11703101 original size:22 final size:23
Alignment explanation
Indices: 11703073--11703115 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
11703063 AAAATGTTAA
11703073 TAGATAAA-AATAAATATATTAG
1 TAGATAAATAATAAATATATTAG
11703095 TAGATAAATAATAAATATATT
1 TAGATAAATAATAAATATATT
11703116 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
TAGATAAATAATAAATATATTAG
Found at i:11703123 original size:20 final size:22
Alignment explanation
Indices: 11703072--11703131 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
11703062 AAAAATGTTA
*
11703072 ATAGATAAA-AATAAATATATT
1 ATAGAAAAATAATAAATATATT
*
11703093 AGTAGATAAATAATAAATATATT
1 A-TAGAAAAATAATAAATATATT
*
11703116 -TA-AAAAATAAAAAATA
1 ATAGAAAAATAATAAATA
11703132 AAAAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 12 0.34
21 3 0.09
22 8 0.23
23 12 0.34
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
ATAGAAAAATAATAAATATATT
Found at i:11703157 original size:7 final size:7
Alignment explanation
Indices: 11703116--11703157 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
11703106 TAAATATATT
11703116 TAAAAAA
1 TAAAAAA
11703123 TAAAAAA
1 TAAAAAA
11703130 TAAAAAA
1 TAAAAAA
*
11703137 TAATACTAA
1 TAA-A-AAA
11703146 T-AAAAA
1 TAAAAAA
11703152 TAAAAA
1 TAAAAA
11703158 GAAAAAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 3 0.10
7 22 0.73
8 2 0.07
9 3 0.10
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAAAAA
Found at i:11704631 original size:20 final size:20
Alignment explanation
Indices: 11704592--11704631 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11704582 TGACGTGTCA
*
11704592 AAAATTAAATTTTAGTTATT
1 AAAATTAAATTTTAGATATT
11704612 AAAATTAAAATTTTA-ATATT
1 AAAATT-AAATTTTAGATATT
11704632 TTATTAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AAAATTAAATTTTAGATATT
Found at i:11713272 original size:12 final size:11
Alignment explanation
Indices: 11713259--11713337 Score: 69
Period size: 10 Copynumber: 7.4 Consensus size: 11
11713249 ATTATTATTA
11713259 TTTTTCTTTCT
1 TTTTTCTTTCT
*
11713270 ATTTTCCTTT-T
1 -TTTTTCTTTCT
*
11713281 TTTTTCTTGCT
1 TTTTTCTTTCT
11713292 TTCTTTC-TT-T
1 TT-TTTCTTTCT
11713302 TTTTT-TTTCTT
1 TTTTTCTTTC-T
11713313 TTTTTCTTT-T
1 TTTTTCTTTCT
*
11713323 TTTTTCCTTCT
1 TTTTTCTTTCT
11713334 TTTT
1 TTTT
11713338 CCTTATCCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
9 5 0.09
10 19 0.35
11 16 0.29
12 15 0.27
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:11713297 original size:4 final size:4
Alignment explanation
Indices: 11713261--11713335 Score: 52
Period size: 4 Copynumber: 19.8 Consensus size: 4
11713251 TATTATTATT
* * * *
11713261 TTTC TTTC TATT- TTCC TTT- TTT- TTTC TTGC TTTC TTTC TTTT TTTT
1 TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* *
11713307 TTTC TTTT TTTC TTT- TTT- TTTC CTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
11713336 TTCCTTATCC
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
3 13 0.23
4 42 0.74
5 2 0.04
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:11713309 original size:24 final size:23
Alignment explanation
Indices: 11713277--11713327 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
11713267 TCTATTTTCC
11713277 TTTTTTTTTCTTGCTTTCTTTCTT
1 TTTTTTTTTCTTGCTTTCTTT-TT
**
11713301 TTTTTTTTTCTTTTTTTCTTTTT
1 TTTTTTTTTCTTGCTTTCTTTTT
11713324 TTTT
1 TTTT
11713328 CCTTCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (23 bp):
TTTTTTTTTCTTGCTTTCTTTTT
Found at i:11713314 original size:8 final size:8
Alignment explanation
Indices: 11713279--11713325 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
11713269 TATTTTCCTT
11713279 TTTTTTTC
1 TTTTTTTC
**
11713287 TTGCTTTC
1 TTTTTTTC
11713295 TTTCTTTT-
1 TTT-TTTTC
11713303 TTTTTTTC
1 TTTTTTTC
11713311 TTTTTTTC
1 TTTTTTTC
11713319 TTTTTTT
1 TTTTTTT
11713326 TTCCTTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 4 0.12
8 26 0.79
9 3 0.09
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:11714929 original size:12 final size:12
Alignment explanation
Indices: 11714914--11714940 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11714904 AATTAAAAAT
11714914 AAAAAATTAATA
1 AAAAAATTAATA
11714926 AAAAAATTAATA
1 AAAAAATTAATA
11714938 AAA
1 AAA
11714941 TTTGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAAATTAATA
Found at i:11717688 original size:20 final size:20
Alignment explanation
Indices: 11717647--11717689 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
11717637 TGAGCTTGTG
* *
11717647 AAAAAAGAATTAGAAGTTGA
1 AAAAAAGAATAAGAAGTAGA
11717667 AAAAAAGAAATAAGAAG-AGA
1 AAAAAAG-AATAAGAAGTAGA
11717687 AAA
1 AAA
11717690 TTTAAGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.12
Consensus pattern (20 bp):
AAAAAAGAATAAGAAGTAGA
Found at i:11736032 original size:21 final size:21
Alignment explanation
Indices: 11735987--11736026 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11735977 GGACGGTGAG
*
11735987 TCATAACTAAGGTACAATGAC
1 TCATAACTAAGGTACAAAGAC
*
11736008 TCATAACTAGGGTACAAAG
1 TCATAACTAAGGTACAAAG
11736027 GTTCATTATT
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:0.17, G:0.17, T:0.23
Consensus pattern (21 bp):
TCATAACTAAGGTACAAAGAC
Found at i:11746211 original size:16 final size:16
Alignment explanation
Indices: 11746190--11746221 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11746180 CTACATGCTG
11746190 ATTGAAAATATATGTT
1 ATTGAAAATATATGTT
11746206 ATTGAAAATATATGTT
1 ATTGAAAATATATGTT
11746222 CTATGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
ATTGAAAATATATGTT
Found at i:11755749 original size:25 final size:23
Alignment explanation
Indices: 11755717--11755766 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
11755707 TTATACAATT
11755717 TGTGGAAAAACTAAGAAATAAAAC
1 TGTGGAAAAACTAAG-AATAAAAC
*
11755741 TGTGTGAAAAACTAAGAGTAAAAC
1 TGTG-GAAAAACTAAGAATAAAAC
11755765 TG
1 TG
11755767 AATATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.52, C:0.08, G:0.20, T:0.20
Consensus pattern (23 bp):
TGTGGAAAAACTAAGAATAAAAC
Found at i:11776300 original size:20 final size:20
Alignment explanation
Indices: 11776275--11776313 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11776265 AGCCACCTCT
* *
11776275 TCCTCTTTTTTTTTTCTTCA
1 TCCTCTTTTCTTTTGCTTCA
11776295 TCCTCTTTTCTTTTGCTTC
1 TCCTCTTTTCTTTTGCTTC
11776314 TTTCAGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.28, G:0.03, T:0.67
Consensus pattern (20 bp):
TCCTCTTTTCTTTTGCTTCA
Found at i:11776944 original size:2 final size:2
Alignment explanation
Indices: 11776937--11776962 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11776927 CTAAGGATTA
11776937 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11776963 TGTGAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11777543 original size:34 final size:35
Alignment explanation
Indices: 11777454--11777540 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 35
11777444 AAATAATCTC
* * *
11777454 ATAATATGA-TAAAATATGAATAAAAAATATAAAA
1 ATAATATAATTAAAATTTTAATAAAAAATATAAAA
* *
11777488 ATAATATAATTTAAAATTTTAATAAAAATTATAAAT
1 ATAATATAA-TTAAAATTTTAATAAAAAATATAAAA
*
11777524 A-AATTTAA-TAAAATTTT
1 ATAATATAATTAAAATTTT
11777541 TAAAAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
33 9 0.20
34 8 0.18
35 6 0.13
36 22 0.49
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (35 bp):
ATAATATAATTAAAATTTTAATAAAAAATATAAAA
Found at i:11777551 original size:22 final size:22
Alignment explanation
Indices: 11777500--11777551 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
11777490 AATATAATTT
11777500 AAAAT-TTTAATAAAAATTATA
1 AAAATATTTAATAAAAATTATA
* *
11777521 AATAA-ATTTAATAAAATTTTTA
1 AA-AATATTTAATAAAAATTATA
11777543 AAAATATTT
1 AAAATATTT
11777552 TATATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATTTAATAAAAATTATA
Found at i:11779143 original size:14 final size:13
Alignment explanation
Indices: 11779104--11779134 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11779094 ATAAAATTTT
*
11779104 AAATAAAAAATTA
1 AAATAAATAATTA
11779117 AAATAAATAATTA
1 AAATAAATAATTA
11779130 AAATA
1 AAATA
11779135 TTATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAAATAATTA
Found at i:11779211 original size:13 final size:14
Alignment explanation
Indices: 11779193--11779221 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11779183 TCTTATTTAA
11779193 TAAAATA-TATAAT
1 TAAAATATTATAAT
11779206 TAAAATATTATAAT
1 TAAAATATTATAAT
11779220 TA
1 TA
11779222 TATAAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:11779328 original size:33 final size:34
Alignment explanation
Indices: 11779266--11779339 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
11779256 GTATTATATA
* * * *
11779266 AATTAAATTTAATGAATAAATTTATAATTTAATT
1 AATTAAATTTAATAAAAAAATTTAAAATTTAAAT
11779300 AATTAAATTT-ATAAAAAAATTTAAAATTTAAAT
1 AATTAAATTTAATAAAAAAATTTAAAATTTAAAT
11779333 -ATTAAAT
1 AATTAAAT
11779340 CGAATCAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 7 0.19
33 19 0.53
34 10 0.28
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (34 bp):
AATTAAATTTAATAAAAAAATTTAAAATTTAAAT
Found at i:11781406 original size:32 final size:32
Alignment explanation
Indices: 11781369--11781431 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
11781359 CCTTTATGTT
11781369 TAGCATTGTCTTATTCATAAATCTTAACCTTA
1 TAGCATTGTCTTATTCATAAATCTTAACCTTA
*
11781401 TAGCATTGTCTTGTTCATAAATCTTAACCTT
1 TAGCATTGTCTTATTCATAAATCTTAACCTT
11781432 CTATCAAGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (32 bp):
TAGCATTGTCTTATTCATAAATCTTAACCTTA
Found at i:11786639 original size:20 final size:20
Alignment explanation
Indices: 11786600--11786642 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11786590 TTGCTGCCTC
*
11786600 ACAAATTAAATAAATGATAA
1 ACAAATTAAATAAATAATAA
11786620 ACAAA-TAAATAAATAAATAA
1 ACAAATTAAATAAAT-AATAA
11786640 ACA
1 ACA
11786643 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (20 bp):
ACAAATTAAATAAATAATAA
Found at i:11786647 original size:19 final size:19
Alignment explanation
Indices: 11786603--11786648 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11786593 CTGCCTCACA
*
11786603 AATTAAATAAATGATAAAC
1 AATTAAATAAATAATAAAC
*
11786622 AAATAAATAAATAAATAAAC
1 AATTAAATAAAT-AATAAAC
11786642 -ATTAAAT
1 AATTAAAT
11786649 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AATTAAATAAATAATAAAC
Found at i:11788245 original size:14 final size:13
Alignment explanation
Indices: 11788210--11788257 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
11788200 TAAATATCAA
11788210 TTTTAATAAAATT
1 TTTTAATAAAATT
*
11788223 TATTAAATATAAATT
1 T-TTTAATA-AAATT
**
11788238 TTTTAATAATTTT
1 TTTTAATAAAATT
11788251 TTTTAAT
1 TTTTAAT
11788258 CACAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 11 0.38
14 12 0.41
15 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTAATAAAATT
Found at i:11788256 original size:28 final size:26
Alignment explanation
Indices: 11788198--11788252 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
11788188 ATTAATTGAA
*
11788198 TTTAAATATCAATTTTAATAAAATTT
1 TTTAAATATAAATTTTAATAAAATTT
* *
11788224 ATTAAATATAAATTTT-TTAATAATTT
1 TTTAAATATAAATTTTAATAA-AATTT
11788250 TTT
1 TTT
11788253 TTAATCACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTAAATATAAATTTTAATAAAATTT
Found at i:11788288 original size:24 final size:25
Alignment explanation
Indices: 11788238--11788288 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
11788228 AATATAAATT
* *
11788238 TTTTAATAATTTTTTTTAATCACAA
1 TTTTAATAATTTTTTTCAAACACAA
*
11788263 TTTTAATAA-TTTTTTCAAACATAA
1 TTTTAATAATTTTTTTCAAACACAA
11788287 TT
1 TT
11788289 ACTATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTAATAATTTTTTTCAAACACAA
Found at i:11792305 original size:28 final size:27
Alignment explanation
Indices: 11792267--11792321 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
11792257 AGAAATAAAT
* *
11792267 GAAAACAATGATAAAAAAATGACAAAA
1 GAAAACAATGACAAAAAAATAACAAAA
*
11792294 GAAAACTAATGACAAAATAATAACAAAA
1 GAAAAC-AATGACAAAAAAATAACAAAA
11792322 AATTAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (27 bp):
GAAAACAATGACAAAAAAATAACAAAA
Found at i:11794638 original size:16 final size:16
Alignment explanation
Indices: 11794619--11794651 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11794609 TATCATGATC
*
11794619 TTCATTATAAATGGTA
1 TTCACTATAAATGGTA
11794635 TTCACTATAAATGGTA
1 TTCACTATAAATGGTA
11794651 T
1 T
11794652 AGGCTGGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (16 bp):
TTCACTATAAATGGTA
Found at i:11797413 original size:9 final size:9
Alignment explanation
Indices: 11797399--11797428 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
11797389 GATATTTTAT
11797399 TAATTAAAA
1 TAATTAAAA
11797408 TAATTAAAA
1 TAATTAAAA
11797417 TATATTAAAA
1 TA-ATTAAAA
11797427 TA
1 TA
11797429 TAAAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:11797425 original size:10 final size:10
Alignment explanation
Indices: 11797401--11797430 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11797391 TATTTTATTA
11797401 ATTAAAATA-
1 ATTAAAATAT
11797410 ATTAAAATAT
1 ATTAAAATAT
11797420 ATTAAAATAT
1 ATTAAAATAT
11797430 A
1 A
11797431 AAATTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:11797915 original size:34 final size:30
Alignment explanation
Indices: 11797877--11797938 Score: 79
Period size: 34 Copynumber: 1.9 Consensus size: 30
11797867 TACTCTAAAT
11797877 ATGATAATATTATCTTATTAATAAAATAAATTAA
1 ATGATAATATT-TC--ATTAAT-AAATAAATTAA
*
11797911 ATGATATTATTTCATTAATAAATAAATT
1 ATGATAATATTTCATTAATAAATAAATT
11797939 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 9 0.33
31 6 0.22
33 2 0.07
34 10 0.37
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
ATGATAATATTTCATTAATAAATAAATTAA
Found at i:11800645 original size:24 final size:24
Alignment explanation
Indices: 11800609--11800668 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
11800599 TTTTGATTGT
*
11800609 GTTATTATCTCAATTCAAATTTTG
1 GTTATTATTTCAATTCAAATTTTG
*
11800633 GTTATTATTTCAATTCTAATTTTG
1 GTTATTATTTCAATTCAAATTTTG
11800657 GTTA-TA-TTCAAT
1 GTTATTATTTCAAT
11800669 CATTTCGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 6 0.18
23 2 0.06
24 26 0.76
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.53
Consensus pattern (24 bp):
GTTATTATTTCAATTCAAATTTTG
Found at i:11801661 original size:151 final size:151
Alignment explanation
Indices: 11801379--11801652 Score: 329
Period size: 151 Copynumber: 1.8 Consensus size: 151
11801369 TTTTTTACTC
* **
11801379 AAATGAAAAAGTTGATTGGTATCAAAATATAAAAAAAAGTCATTTTAAATGATGGTAATAAAAAT
1 AAATGAAAAAGTTGATTGATATCAAAATATAAAAAAAAGTCATTTTAAATGATAATAATAAAAAT
** * * * ****
11801444 AAAGTAACAATTAAAAATATACAATCTTTTCACTTGGTAGAAGAATTTTTTTTAATGAAAAATGT
66 AAAGTAACAATTAAAAATATACAATCTTTTCACTTAATAAAAAAATTATAAAGAATGAAAAATGT
11801509 GAAATATTCTTTATTTTTTCA
131 GAAATATTCTTTATTTTTTCA
* *
11801530 AAAT-AAAGAAGTTGATTGATATCAAAATATCAAAAAAAA-TTATTTTGAATGATAATAATAAAA
1 AAATGAAA-AAGTTGATTGATATCAAAATAT-AAAAAAAAGTCATTTTAAATGATAATAATAAAA
* ***
11801593 ATGAAGTAACAATTAAAAATATATC-ATCTTTTTGTTTAATAAAAAAAATTATAAAGAATG
64 ATAAAGTAACAATTAAAAATATA-CAATCTTTTCACTTAAT-AAAAAAATTATAAAGAATG
11801653 CGAATGTGAT
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
150 3 0.03
151 77 0.76
152 21 0.21
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (151 bp):
AAATGAAAAAGTTGATTGATATCAAAATATAAAAAAAAGTCATTTTAAATGATAATAATAAAAAT
AAAGTAACAATTAAAAATATACAATCTTTTCACTTAATAAAAAAATTATAAAGAATGAAAAATGT
GAAATATTCTTTATTTTTTCA
Done.