Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 271 of 333
Found at i:89384250 original size:50 final size:49
Alignment explanation
Indices: 89384187--89384347 Score: 154
Period size: 49 Copynumber: 3.3 Consensus size: 49
89384177 GAGATGTGTC
*
89384187 AGTGTAAAACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGTGAGAGCT
* * * * *
89384237 AGTGTAAGACCATGTCTGGGACATGTCTTCGGCCTCGAT-TTTGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGTGAGAGCT
* * *
89384285 CAATGCAAGACCATGTCTGGGACATGGCATC-G-AC-TTGATG-GATGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGTGA-GAGCT
89384333 AGTGTAAGACCATGT
1 AGTGTAAGACCATGT
89384348 TATGACAGTT
Statistics
Matches: 89, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 3 0.03
47 16 0.18
48 3 0.03
49 32 0.36
50 32 0.36
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGTGAGAGCT
Found at i:89391277 original size:5 final size:5
Alignment explanation
Indices: 89391261--89391298 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
89391251 AGTATAAATA
89391261 TATTT T-TTT TATTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATT
89391299 ATTTTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TATTT
Found at i:89391370 original size:16 final size:17
Alignment explanation
Indices: 89391345--89391380 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
89391335 TAAGCAAAAA
89391345 AGAATGGAAAA-GAAAC
1 AGAATGGAAAACGAAAC
*
89391361 AGAATTGAAAACGAAAC
1 AGAATGGAAAACGAAAC
89391378 AGA
1 AGA
89391381 GAAGGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.61, C:0.08, G:0.22, T:0.08
Consensus pattern (17 bp):
AGAATGGAAAACGAAAC
Found at i:89395016 original size:50 final size:50
Alignment explanation
Indices: 89394897--89395138 Score: 252
Period size: 50 Copynumber: 4.8 Consensus size: 50
89394887 GTTATGAGAA
* ** * *
89394897 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--TACCA-GATTGTTAGAT
* * *
89394949 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGAT
** * * *
89394999 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATATCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-TGTTAGAT
* * * *
89395050 CACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAATGTTAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGAT
* * * *
89395100 CGCATGTGTAGTACTAAGCGCATGCTGCTATGTGTACCA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
89395139 AAGAGCTTTG
Statistics
Matches: 158, Mismatches: 30, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
49 3 0.02
50 84 0.53
51 40 0.25
52 31 0.20
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGAT
Found at i:89395080 original size:101 final size:101
Alignment explanation
Indices: 89394948--89395131 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 101
89394938 CGGTTTTAGG
* *
89394948 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTAC
*
89395013 TAAGTGCAGGCTACTATGCATACCCGATATCTTCGA
66 TAAGCGCAGGCTACTATGCATACCCGATATCTTCGA
* *
89395049 TCACGTGTGTAGTACTACGTGCAGGCTACTACGTGTACCAGAATGTTAGATCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTAC
* *
89395114 TAAGCGCATGCTGCTATG
66 TAAGCGCAGGCTACTATG
89395132 TGTACCAAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTAC
TAAGCGCAGGCTACTATGCATACCCGATATCTTCGA
Found at i:89395175 original size:101 final size:101
Alignment explanation
Indices: 89394969--89395175 Score: 216
Period size: 101 Copynumber: 2.0 Consensus size: 101
89394959 GTACTAAGTG
* * *
89394969 CAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCAT
1 CAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTACTAAGCGCAGGCTACTATGCAT
** * * ** * * *
89395034 ACCCGATATCTTCGATCACGTGTGTAGTACTACGTG
66 ACCAAAGAGCTTCGATCACAAGGGTAGTAATACGTA
* * * **
89395070 CAGGCTACTACGTGTACCAGAATGTTAGATCGCATGTGTAGTACTAAGCGCATGCTGCTATGTGT
1 CAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTACTAAGCGCAGGCTACTATGCAT
* * * * *
89395135 ACCAAAGAGCTTTGGTTACAAGGGTGGTAATATGTA
66 ACCAAAGAGCTTCGATCACAAGGGTAGTAATACGTA
89395171 CAGGC
1 CAGGC
89395176 CACTGGGTAT
Statistics
Matches: 84, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (101 bp):
CAGGCTACTACGTGTACCAGAATGTTAGATCACATGTGTAGTACTAAGCGCAGGCTACTATGCAT
ACCAAAGAGCTTCGATCACAAGGGTAGTAATACGTA
Found at i:89412614 original size:175 final size:172
Alignment explanation
Indices: 89412313--89412664 Score: 591
Period size: 175 Copynumber: 2.0 Consensus size: 172
89412303 AATGCTTAGG
* * *
89412313 ATTGAGAGTGTTGGGTTTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
1 ATTGGGAGTGTTAGGTCTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
* *
89412378 TTTTTTGTGCATTGGACTTAGGTTGTTGTTTGGCTTGATTTAAGTTGTTGCATGTGATAATTGAC
66 TTTTTTGTGCATTGGACTTAGATTGTTGTTTGGCTTGATTTAAGTTGTTGCATGCGATAATTGAC
*
89412443 CTTTTTTTTTTTTTGAA-ATCAATCCTCTTTCCAACGGAGT-GAGTC
131 C-----TTTTTTTTCAAGATCAATCCTCTTTCCAACGGAGTGGAGTC
89412488 ATTGGGAGTGTTAGGTCTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
1 ATTGGGAGTGTTAGGTCTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
89412553 TTTTTTGTGCATTGGACTTAGATTGTTGTTTGGCTTGATTTAAGTTGTTGCATGCGATAATTGAC
66 TTTTTTGTGCATTGGACTTAGATTGTTGTTTGGCTTGATTTAAGTTGTTGCATGCGATAATTGAC
89412618 CTTTTTTTTCAAGATCAATCCTCTTTCCAACGGAGTGGAGTC
131 CTTTTTTTTCAAGATCAATCCTCTTTCCAACGGAGTGGAGTC
89412660 ATTGG
1 ATTGG
89412665 TGGCCATGGT
Statistics
Matches: 169, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
170 10 0.06
171 23 0.14
172 10 0.06
175 126 0.75
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (172 bp):
ATTGGGAGTGTTAGGTCTTTACTTTTCCTCATTGCTATTGTCTTCCTACTGTGTGAGTCAAAACA
TTTTTTGTGCATTGGACTTAGATTGTTGTTTGGCTTGATTTAAGTTGTTGCATGCGATAATTGAC
CTTTTTTTTCAAGATCAATCCTCTTTCCAACGGAGTGGAGTC
Found at i:89415408 original size:11 final size:11
Alignment explanation
Indices: 89415392--89415434 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
89415382 GTAGGTTAGA
89415392 AATAAAATATT
1 AATAAAATATT
**
89415403 AATAAAATTAGA
1 AATAAAA-TATT
89415415 AATAAAATATT
1 AATAAAATATT
89415426 AATAAAATA
1 AATAAAATA
89415435 AATGTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:89415414 original size:23 final size:23
Alignment explanation
Indices: 89415387--89415433 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
89415377 TATTAGTAGG
89415387 TTAGAAATAAAATATTAATAAAA
1 TTAGAAATAAAATATTAATAAAA
89415410 TTAGAAATAAAATATTAATAAAA
1 TTAGAAATAAAATATTAATAAAA
89415433 T
1 T
89415434 AAATGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
TTAGAAATAAAATATTAATAAAA
Found at i:89419701 original size:18 final size:18
Alignment explanation
Indices: 89419675--89419717 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
89419665 GGTTAGGAAA
* *
89419675 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
89419693 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
89419711 AGGATAC
1 AGGATAC
89419718 GCACCTGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:89420328 original size:7 final size:7
Alignment explanation
Indices: 89420318--89420353 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
89420308 CATAATACAT
89420318 AATACTA
1 AATACTA
89420325 AATACTA
1 AATACTA
89420332 AATACTA
1 AATACTA
*
89420339 AATACGA
1 AATACTA
89420346 AATGACTA
1 AAT-ACTA
89420354 TTTTATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 23 0.88
8 3 0.12
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (7 bp):
AATACTA
Found at i:89420328 original size:14 final size:14
Alignment explanation
Indices: 89420302--89420343 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
89420292 ACTTATATAT
89420302 ATAATAC-ATAATAC
1 ATAATACTA-AATAC
89420316 ATAATACTAAATAC
1 ATAATACTAAATAC
89420330 -TAAATACTAAATAC
1 AT-AATACTAAATAC
89420344 GAAATGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAATACTAAATAC
Found at i:89421379 original size:48 final size:46
Alignment explanation
Indices: 89421303--89421435 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 46
89421293 ATGCAAACAT
* **
89421303 CATAAATGAAAAAAAATCAAGCAGTATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
* *
89421350 TATAAATGAATAAAATATCAAATAATATTGCAAATTTAATTAAATTTG
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
*
89421398 CATAAATTAAAAAAATATC-AATAGTATTGAAAATTTAA
1 CATAAA-TGAAAAAATATCAAATAGTATTG-AAATTTAA
89421436 AATTATCACT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
47 28 0.38
48 37 0.51
49 8 0.11
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:89422680 original size:70 final size:70
Alignment explanation
Indices: 89422543--89422762 Score: 246
Period size: 70 Copynumber: 3.1 Consensus size: 70
89422533 AACTCTTCTC
* * *
89422543 CCAAAAATACTAAACTGCTTTAATCAAGAAAA-AATATTATAAAAATAAAATTATTATTTTATTA
1 CCAAAAATACTAAATTGTTTTAATCAA-AAAATATTATTATAAAAATAAAATTATTATTTTATTA
89422607 TACATA
65 TACATA
* * * *
89422613 CCAAAAACACTAAATTGTTTTATTCACAAAAATATTATTATAAAACTAAAATTATT-TTTTGTTA
1 CCAAAAATACTAAATTGTTTTAATCA-AAAAATATTATTATAAAAATAAAATTATTATTTTATTA
89422677 TACATA
65 TACATA
* * * * * * *
89422683 CCACAAATATTAAATTGTTTTACTAAAAAACCATTATTATTATAAAAATAAAAATATTATCTTAC
1 CCAAAAATACTAAATTGTTTTAATCAAAAA--A-TATTATTATAAAAATAAAATTATTATTTTAT
89422748 TATACATA
63 TATACATA
*
89422756 CAAAAAA
1 CCAAAAA
89422763 ATTCAACATA
Statistics
Matches: 125, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
69 4 0.03
70 60 0.48
71 23 0.18
72 22 0.18
73 16 0.13
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (70 bp):
CCAAAAATACTAAATTGTTTTAATCAAAAAATATTATTATAAAAATAAAATTATTATTTTATTAT
ACATA
Found at i:89423683 original size:21 final size:22
Alignment explanation
Indices: 89423652--89423697 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
89423642 TAAAATGTAC
*
89423652 ATTTGAATTAAATAA-TAAAGTT
1 ATTTGAATTAAA-AATTAAAGCT
89423674 ATTT-AATTAAAAATTAAAGCT
1 ATTTGAATTAAAAATTAAAGCT
89423695 ATT
1 ATT
89423698 CTGTATGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 16 0.73
22 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (22 bp):
ATTTGAATTAAAAATTAAAGCT
Found at i:89426282 original size:19 final size:18
Alignment explanation
Indices: 89426243--89426284 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
89426233 TGAATCACCG
*
89426243 AATTTTTAAAATATATCA
1 AATTTTTAAAATAAATCA
89426261 AATTTTTGAAGAATAAAT-A
1 AATTTTT-AA-AATAAATCA
89426280 AATTT
1 AATTT
89426285 ATAATTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
AATTTTTAAAATAAATCA
Found at i:89427390 original size:21 final size:21
Alignment explanation
Indices: 89427360--89427428 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
89427350 CTCACAAAGA
* *
89427360 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
89427380 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
89427401 AAAAAGAGAAGTACCTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
89427422 AAAAAGA
1 AAAAAGA
89427429 AATAAAGTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 6 0.14
21 36 0.86
ACGTcount: A:0.54, C:0.10, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:89433073 original size:15 final size:16
Alignment explanation
Indices: 89433044--89433073 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89433034 ATACTAAACG
89433044 ATTTAATATAAAGATA
1 ATTTAATATAAAGATA
89433060 ATTTAATA-AAAGAT
1 ATTTAATATAAAGAT
89433074 TTTTTTTGTT
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:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTTAATATAAAGATA
Found at i:89460682 original size:46 final size:46
Alignment explanation
Indices: 89460535--89460751 Score: 210
Period size: 46 Copynumber: 4.7 Consensus size: 46
89460525 TTTGTGTGCT
* *
89460535 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAGAGCC
* * * *
89460581 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGAGAGCC
* *
89460629 AGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG-AGAGCC
* * * * *
89460675 AGTGTAAGACATGTTTGAGACATGCATC-GGCTACGAGA-G-GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGAGAGCC
*
89460719 AATGTAAGACCATGTCTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
89460752 ATTATACCTT
Statistics
Matches: 140, Mismatches: 22, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 60 0.43
47 29 0.21
48 24 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
Found at i:89475743 original size:48 final size:48
Alignment explanation
Indices: 89475689--89475786 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
89475679 AAAAATATTT
* *
89475689 TTTCAATTAAAATTATTCATTTGTTTTTGTCAAAAACTAAAATATCCA
1 TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
** *
89475737 TTTCAATTAAAATTATTTGTTTGTTTTTGTAAAAAACTAAACTACCCA
1 TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
89475785 TT
1 TT
89475787 ATTATTCATG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (48 bp):
TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAACTAAAATACCCA
Found at i:89478371 original size:39 final size:39
Alignment explanation
Indices: 89478328--89478466 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
89478318 TATCCACTTT
* *
89478328 TAAGCATATATCACATTACACATATAATCACATAACATC
1 TAAGCATATATCACAATACTCATATAATCACATAACATC
* * *
89478367 TAAGCATATATCAAAATACTCATATAATTACATAACGGTC
1 TAAGCATATATCACAATACTCATATAATCACATAAC-ATC
* *
89478407 -AAGCACATATCACAATACTTATATAATCACATAACAT-
1 TAAGCATATATCACAATACTCATATAATCACATAACATC
* *
89478444 TCAAGCATATGTCGCAATACTCA
1 T-AAGCATATATCACAATACTCA
89478467 AAAACATGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 80 0.96
40 2 0.02
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.28
Consensus pattern (39 bp):
TAAGCATATATCACAATACTCATATAATCACATAACATC
Found at i:89481877 original size:51 final size:52
Alignment explanation
Indices: 89481822--89481928 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
89481812 TGGTACAAAT
89481822 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATT-GGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
89481873 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
89481925 TGAT
1 TGAT
89481929 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 37 0.70
52 16 0.30
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:89481897 original size:26 final size:26
Alignment explanation
Indices: 89481822--89481928 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
89481812 TGGTACAAAT
89481822 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89481848 TGATAATGGATT-GGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89481873 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89481899 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89481925 TGAT
1 TGAT
89481929 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89483399 original size:28 final size:26
Alignment explanation
Indices: 89483368--89483431 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
89483358 AATTACTTGA
* **
89483368 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
89483396 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
89483422 ATACCCCTAG
1 ATACCCCTAG
89483432 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:89483619 original size:54 final size:53
Alignment explanation
Indices: 89483537--89483676 Score: 199
Period size: 54 Copynumber: 2.6 Consensus size: 53
89483527 GGAAGCGTCC
*
89483537 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCATATATATCTGTTA
1 TGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTTA
* * *
89483591 TGGTGGTTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTTA
* *
89483645 TGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 TGGTGGCTATGCCACATTATCTG-ATCTGGTG
89483677 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 7 0.09
54 70 0.91
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (53 bp):
TGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTTA
Found at i:89483672 original size:32 final size:27
Alignment explanation
Indices: 89483536--89483676 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
89483526 AGGAAGCGTC
*
89483536 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* * *
89483563 CTGGTGGCTCTACCATATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* * *
89483590 ATGGTGGTTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
89483617 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
89483644 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
89483671 CTGGTG
1 CTGGTG
89483677 ACTTCGTCAC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
26 9 0.09
27 83 0.87
28 3 0.03
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:89483687 original size:27 final size:27
Alignment explanation
Indices: 89483536--89483694 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
89483526 AGGAAGCGTC
*
89483536 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
89483563 CTGGTGGCTCTACCATATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * * *
89483590 ATGGTGGTTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
89483617 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
89483644 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
89483671 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
89483695 GCAGCCTCGC
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:89486110 original size:24 final size:25
Alignment explanation
Indices: 89486083--89486129 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
89486073 GTATTATGTA
89486083 TATTATAATTAT-TTACTT-ATATTT
1 TATTAT-ATTATATTACTTCATATTT
89486107 TATTATATTATATTACTTCATAT
1 TATTATATTATATTACTTCATAT
89486130 CTTTCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTATATTATATTACTTCATATTT
Found at i:89486320 original size:22 final size:21
Alignment explanation
Indices: 89486274--89486322 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
89486264 ATATTATTAT
89486274 TTATTA-TATTATTTTTCACAAA
1 TTATTATTATTATTTTTCAC--A
89486296 TTATTATTATTA-TTTT-ACA
1 TTATTATTATTATTTTTCACA
89486315 TTATTATT
1 TTATTATT
89486323 TATATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.35
21 2 0.08
22 10 0.38
23 5 0.19
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATTATTATTTTTCACA
Found at i:89486371 original size:11 final size:12
Alignment explanation
Indices: 89486253--89486390 Score: 69
Period size: 13 Copynumber: 11.2 Consensus size: 12
89486243 ATTTTAACAA
89486253 TATATTATTTCA-
1 TATATTATTT-AT
89486265 TATTATTATTTAT
1 TA-TATTATTTAT
89486278 TATATTATTT-T
1 TATATTATTTAT
* *
89486289 TCACA--AATTAT
1 T-ATATTATTTAT
89486300 TATTATTATTT-T
1 TA-TATTATTTAT
*
89486312 ACATTATTATTTAT
1 -TA-TATTATTTAT
89486326 ATATAATTATTATAT
1 -TAT-ATTATT-TAT
89486341 T-T-TTACTTGTAT
1 TATATTA-TT-TAT
89486353 TATA-TATTTAT
1 TATATTATTTAT
89486364 TA-ATTATTTAT
1 TATATTATTTAT
*
89486375 ATATATTATATAT
1 -TATATTATTTAT
89486388 TAT
1 TAT
89486391 TTTTATATAT
Statistics
Matches: 101, Mismatches: 8, Indels: 34
0.71 0.06 0.24
Matches are distributed among these distances:
10 5 0.05
11 20 0.20
12 27 0.27
13 36 0.36
14 10 0.10
15 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:89486388 original size:17 final size:17
Alignment explanation
Indices: 89486314--89486402 Score: 53
Period size: 19 Copynumber: 5.1 Consensus size: 17
89486304 ATTATTTTAC
89486314 ATTAT-TATTTATATAT
1 ATTATATATTTATATAT
* *
89486330 AATTATTATATTTTTACTTGT
1 -ATTA-TATATTTATA--TAT
89486351 ATTATATATTTAT-TA-
1 ATTATATATTTATATAT
*
89486366 ATTATTTATATATATTATAT
1 ATTA--TATATTTA-TATAT
89486386 ATTAT-T-TTTATATAT
1 ATTATATATTTATATAT
89486401 AT
1 AT
89486403 ACACTTTCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
15 11 0.19
16 4 0.07
17 12 0.21
18 3 0.05
19 17 0.30
20 8 0.14
21 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (17 bp):
ATTATATATTTATATAT
Found at i:89486403 original size:17 final size:17
Alignment explanation
Indices: 89486264--89486403 Score: 55
Period size: 17 Copynumber: 8.2 Consensus size: 17
89486254 ATATTATTTC
*
89486264 ATATTATTATT-TAT-T
1 ATATTATTTTTATATAT
* *
89486279 ATATTATTTTTCACAAAT
1 ATATTATTTTT-ATATAT
* *
89486297 -TATTATTATTAT-TTT
1 ATATTATTTTTATATAT
*
89486312 ACATTATTATTTATATAT
1 ATATTATT-TTTATATAT
89486330 AATTATTATATTTT-TACT-T
1 -A-TATTAT-TTTTATA-TAT
* *
89486349 GTATTATATATT-TAT-T
1 ATATTAT-TTTTATATAT
89486365 A-ATTATTTATATATATTAT
1 ATATTATTT-T-TATA-TAT
89486384 ATATTATTTTTATATAT
1 ATATTATTTTTATATAT
89486401 ATA
1 ATA
89486404 CACTTTCATA
Statistics
Matches: 94, Mismatches: 15, Indels: 30
0.68 0.11 0.22
Matches are distributed among these distances:
14 1 0.01
15 17 0.18
16 10 0.11
17 34 0.36
18 8 0.09
19 7 0.07
20 16 0.17
21 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (17 bp):
ATATTATTTTTATATAT
Found at i:89486403 original size:28 final size:28
Alignment explanation
Indices: 89486325--89486388 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
89486315 TTATTATTTA
* *
89486325 TATATAATTATTATATT-TTTACT-TGTAT
1 TATATATTTATTA-ATTATTTA-TATATAT
89486353 TATATATTTATTAATTATTTATATATAT
1 TATATATTTATTAATTATTTATATATAT
89486381 TATATATT
1 TATATATT
89486389 ATTTTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TATATATTTATTAATTATTTATATATAT
Found at i:89498323 original size:206 final size:206
Alignment explanation
Indices: 89497961--89498751 Score: 1142
Period size: 206 Copynumber: 3.8 Consensus size: 206
89497951 TAGGCTGTGG
* * *
89497961 CATAACAGATCTGGCCTTCAGATGCTTGTAT--TGAAGCAGATCCAAGATGGTTTGGCATCCTTG
1 CATAGCAGATCTGACCTTCAGATG-TT-TATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTG
* * * * * *
89498024 TACTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAAT
64 TGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTAAAGCAAAT
* * * *
89498089 CTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTTTGGCGACTCCATATTCGA
129 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGA
*
89498154 CGGAGGGCAGACA
194 CGGAGAGCAGACA
* *
89498167 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGTAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTGACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
* * *
89498232 CTTATAAGAAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTAAAGTAAATCT
66 CTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTAAAGCAAATCT
89498297 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGACG
89498362 GAGAGCAGACA
196 GAGAGCAGACA
* * * *
89498373 CATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTG
1 CATAGCAGATCTGACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
* * * *
89498438 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGAAAATCT
66 CTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTAAAGCAAATCT
* * *
89498503 AAGATGATTTGGCATCTTTGTATTGTTAGAGAACAAATTGAAGTTTGGCGTCTCCATATTTGACG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGACG
*
89498568 GAGAGTAGACA
196 GAGAGCAGACA
* * *
89498579 CATAGCAGATCTAACCTTCAGATGATTA-GACTGAAGTAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTGACCTTCAGATGTTTATG-CTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * *
89498643 GCTTACAAGGAGCAAAT-AGAA-ATCATAGCTGATTTAGCTTTCACGTGCTTATGCTAAAGCAAA
65 GCTTACAAGGAACAAATCA-AAGA-CATAGCTGATTTGGCTTTCACGTGCTTACGCTAAAGCAAA
* * *
89498706 TCTAAGATGATTTGACATCTCTGTATTGTCAAAGAATAAATCGAAG
128 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
89498752 AAGGCATCTC
Statistics
Matches: 525, Mismatches: 55, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
204 3 0.01
205 3 0.01
206 519 0.99
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (206 bp):
CATAGCAGATCTGACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGCTAAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGACG
GAGAGCAGACA
Found at i:89500548 original size:28 final size:28
Alignment explanation
Indices: 89500508--89500571 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
89500498 TTATTATTTA
* *
89500508 TATATAATTATTATATT-TTTACT-TGTAT
1 TATATATTTATTA-ATTATTTA-TATATAT
89500536 TATATATTTATTAATTATTTATATATAT
1 TATATATTTATTAATTATTTATATATAT
89500564 TATATATT
1 TATATATT
89500572 ATTTTTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TATATATTTATTAATTATTTATATATAT
Found at i:89500554 original size:11 final size:12
Alignment explanation
Indices: 89500499--89500573 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 12
89500489 TATTTTACAT
89500499 TATTATTTATATA
1 TATTATTTAT-TA
89500512 TAATTATTATATT-
1 T-ATTATT-TATTA
89500525 T-TTACTTGTATTA
1 TATTA-TT-TATTA
89500538 TA-TATTTATTA
1 TATTATTTATTA
89500549 -ATTATTTATATA
1 TATTATTTAT-TA
*
89500561 TATTATATATTA
1 TATTATTTATTA
89500573 T
1 T
89500574 TTTTACATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
10 1 0.02
11 15 0.29
12 13 0.25
13 13 0.25
14 7 0.13
15 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:89500558 original size:17 final size:17
Alignment explanation
Indices: 89500500--89500565 Score: 52
Period size: 17 Copynumber: 4.0 Consensus size: 17
89500490 ATTTTACATT
89500500 ATTATTTATA--TA-TA
1 ATTATTTATATTTATTA
89500514 ATTA-TTATATTT-TTA
1 ATTATTTATATTTATTA
*
89500529 CTTGTATTATATATTTATTA
1 -AT-TATT-TATATTTATTA
*
89500549 ATTATTTATATATATTA
1 ATTATTTATATTTATTA
89500566 TATATTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
13 5 0.12
14 4 0.10
15 3 0.07
16 1 0.02
17 12 0.29
18 5 0.12
19 8 0.20
20 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTATTTATATTTATTA
Found at i:89500933 original size:17 final size:16
Alignment explanation
Indices: 89500913--89500969 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 16
89500903 CCAATATGTT
89500913 TTATATTTTTCATATAA
1 TTATATTTTT-ATATAA
*
89500930 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
89500946 -TATATTTTTATTATATA
1 TTATATTTTTA-TATA-A
89500963 TTATATT
1 TTATATT
89500970 ATTAAATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 7 0.21
15 4 0.12
16 3 0.09
17 7 0.21
18 12 0.36
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:89500934 original size:15 final size:17
Alignment explanation
Indices: 89500914--89500954 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
89500904 CAATATGTTT
89500914 TATATTTTTCATAT-AA
1 TATATTTTTCATATAAA
* *
89500930 T-TATTATTCTTATAAA
1 TATATTTTTCATATAAA
89500946 TATATTTTT
1 TATATTTTT
89500955 ATTATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 10 0.50
16 4 0.20
17 6 0.30
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TATATTTTTCATATAAA
Found at i:89505505 original size:21 final size:21
Alignment explanation
Indices: 89505474--89505556 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 21
89505464 TTATCGAATA
*
89505474 ACAGGTCATACTTATCATATT
1 ACAGATCATACTTATCATATT
* * * *
89505495 GCAGATTATACATGTCATATT
1 ACAGATCATACTTATCATATT
*
89505516 ACAAATCATACTTATCATATT
1 ACAGATCATACTTATCATATT
** *
89505537 TTAGATCATACTAATCATAT
1 ACAGATCATACTTATCATAT
89505557 AACATATTAT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (21 bp):
ACAGATCATACTTATCATATT
Found at i:89510125 original size:68 final size:63
Alignment explanation
Indices: 89509978--89510125 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 63
89509968 CATAGTTTTG
* *
89509978 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
* * * *
89510041 GCTCTCTTGT-CTACATGGTGTACACATATTATCACCCATGCGACCTAGCTACA-TCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACACATAGTACCACCCATGCGACCTAGC--CAGT--T--TATC
89510104 TCGTA
59 TCGTA
89510109 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
89510126 ATGTGCACTC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 42 0.59
64 1 0.01
65 2 0.03
66 1 0.01
68 23 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
Found at i:89512458 original size:16 final size:15
Alignment explanation
Indices: 89512431--89512460 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
89512421 ATTTATTTAG
89512431 CGAAAAAATAATGAC
1 CGAAAAAATAATGAC
89512446 CGAAAATAATAATGA
1 CGAAAA-AATAATGA
89512461 TAATGTCTTC
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:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (15 bp):
CGAAAAAATAATGAC
Found at i:89523353 original size:49 final size:49
Alignment explanation
Indices: 89523263--89523359 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
89523253 GGTGGATATC
* ** *
89523263 GCGATACCATTGAAGGGTGGTCTCCAATCTTGGGTTCGTTGGAGGTATA
1 GCGATACCATTGAAGGGTGGTCTCCAATCTAGGACTCGTTGGACGTATA
89523312 GCGATACCATTGAAGGGTGGTCTCCAATCTCAGGACT-GTTGGACGTAT
1 GCGATACCATTGAAGGGTGGTCTCCAATCT-AGGACTCGTTGGACGTAT
89523360 TGTGATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 40 0.93
50 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (49 bp):
GCGATACCATTGAAGGGTGGTCTCCAATCTAGGACTCGTTGGACGTATA
Found at i:89527239 original size:22 final size:23
Alignment explanation
Indices: 89527211--89527264 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
89527201 CATATTCTCA
*
89527211 ATACCAAAGGGTC-AAAATTGCG
1 ATACCAAAGAGTCGAAAATTGCG
* *
89527233 ATACCAAAGAGTCGATAATTGTG
1 ATACCAAAGAGTCGAAAATTGCG
89527256 ATACACAAA
1 ATAC-CAAA
89527265 TATTAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 11 0.41
24 4 0.15
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (23 bp):
ATACCAAAGAGTCGAAAATTGCG
Found at i:89532933 original size:28 final size:30
Alignment explanation
Indices: 89532872--89532934 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
89532862 AGTAAGTTAC
**
89532872 AACATTTAGAGACCAAATAAGAAAAATTTGA
1 AACATTTAGAGA-CAAATAAGAAAAATTCAA
*
89532903 AACATTTAGGGA-AAATAA-AAAAATTCAA
1 AACATTTAGAGACAAATAAGAAAAATTCAA
89532931 AACA
1 AACA
89532935 GGGGTCATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 12 0.41
29 6 0.21
31 11 0.38
ACGTcount: A:0.59, C:0.10, G:0.11, T:0.21
Consensus pattern (30 bp):
AACATTTAGAGACAAATAAGAAAAATTCAA
Found at i:89533907 original size:39 final size:38
Alignment explanation
Indices: 89533806--89534035 Score: 268
Period size: 39 Copynumber: 5.9 Consensus size: 38
89533796 GATTTTATTA
* * *
89533806 AGTATAATCAGT-GGATAATGCTTGTTTGAGCA-ACTTTC
1 AGTAGAATCAGTAGG-T-ATGCTTGATTGAGCATACTTTT
*
89533844 AGTAGAATCAGT-GGTTATAGCTCGATTGAGCATACTTTT
1 AGTAGAATCAGTAGG-TAT-GCTTGATTGAGCATACTTTT
* *
89533883 AGTAGAATCGGTAGGTATGCCTCGATTGAGCATACTTTT
1 AGTAGAATCAGTAGGTATG-CTTGATTGAGCATACTTTT
* *
89533922 AGTAGAATTAGTAGGTATGGCTTGTTTGAGCATACTTTT
1 AGTAGAATCAGTAGGTAT-GCTTGATTGAGCATACTTTT
* *
89533961 AGTAGAATCAGTGGGTATGGCTTGATTGAGCATACTTTG
1 AGTAGAATCAGTAGGTAT-GCTTGATTGAGCATACTTTT
*
89534000 AATAGAATCAGTAGGTATAGCTTGATTGAGCATACT
1 AGTAGAATCAGTAGGTAT-GCTTGATTGAGCATACT
89534036 ATCATACATT
Statistics
Matches: 170, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
37 2 0.01
38 26 0.15
39 139 0.82
40 3 0.02
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (38 bp):
AGTAGAATCAGTAGGTATGCTTGATTGAGCATACTTTT
Found at i:89537169 original size:43 final size:43
Alignment explanation
Indices: 89537083--89537169 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
89537073 ATAAAGAGGT
* * *
89537083 CCCTTCAAAATAACTTCACCAAGCCTATGCTTGCATGTCCTAA
1 CCCTTCAAAATAACTTCACCAAGACTATGCCTGCATATCCTAA
* *
89537126 CCCTTCAAAATAACTTCACCAAGACTATGCCTGCGTATTCTAA
1 CCCTTCAAAATAACTTCACCAAGACTATGCCTGCATATCCTAA
89537169 C
1 C
89537170 TTGTAACGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.31, C:0.32, G:0.09, T:0.28
Consensus pattern (43 bp):
CCCTTCAAAATAACTTCACCAAGACTATGCCTGCATATCCTAA
Found at i:89537788 original size:24 final size:21
Alignment explanation
Indices: 89537761--89537811 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
89537751 TTCCGAGTTC
89537761 TTCTTCCTCTCTTTTTCCTCTATT
1 TTCTTCCTCTCTTTTT--TCT-TT
* *
89537785 TTCTTTCTTTCTTTTTTCTTT
1 TTCTTCCTCTCTTTTTTCTTT
89537806 TTCTTC
1 TTCTTC
89537812 TAGCCGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.29
22 3 0.12
24 14 0.58
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (21 bp):
TTCTTCCTCTCTTTTTTCTTT
Found at i:89541095 original size:15 final size:15
Alignment explanation
Indices: 89541071--89541101 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89541061 TTAAAAAAGA
*
89541071 AACATGTTATAATAT
1 AACATATTATAATAT
89541086 AACATATTATAATAT
1 AACATATTATAATAT
89541101 A
1 A
89541102 GTTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
AACATATTATAATAT
Found at i:89544874 original size:14 final size:14
Alignment explanation
Indices: 89544854--89544893 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
89544844 TATTTAATTT
89544854 TTAATTATATTAGGA
1 TTAATTAT-TTAGGA
*
89544869 -TAATTATTAAGGA
1 TTAATTATTTAGGA
89544882 TTAATTATTTAG
1 TTAATTATTTAG
89544894 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (14 bp):
TTAATTATTTAGGA
Found at i:89544923 original size:10 final size:10
Alignment explanation
Indices: 89544908--89544946 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
89544898 TATTTTAGCT
89544908 TTTATCTTTA
1 TTTATCTTTA
89544918 TTTATCTTTA
1 TTTATCTTTA
89544928 TTTAT-TTGTA
1 TTTATCTT-TA
89544938 TTTATCTTT
1 TTTATCTTT
89544947 TAGAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:89546486 original size:43 final size:43
Alignment explanation
Indices: 89546430--89546563 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 43
89546420 CCTACATGTT
* * *
89546430 ATCACATATCGATGCCAATGTCCCAAACATGGTCTTACACGAA
1 ATCATATAACGATGCCAATGTCCCAGACATGGTCTTACACGAA
* * *
89546473 ATCATATAACGATGTCAATGTCCCAGACATGGTTTTACACGTA
1 ATCATATAACGATGCCAATGTCCCAGACATGGTCTTACACGAA
* * *
89546516 ATCGCA-AT-ATGATGCCGATGTCCTAGACATGGTCTTACAC-ATA
1 AT--CATATAACGATGCCAATGTCCCAGACATGGTCTTACACGA-A
89546559 ATCAT
1 ATCAT
89546564 GTCTCGTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
43 69 0.92
44 2 0.03
45 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
ATCATATAACGATGCCAATGTCCCAGACATGGTCTTACACGAA
Found at i:89554379 original size:27 final size:27
Alignment explanation
Indices: 89554340--89554425 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
89554330 GGAAGCGACT
*
89554340 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCACAATTATCTGATC
89554367 TGGTGGCTCTGCCAC-ATATATCT-ATTC
1 TGGTGGCTCTGCCACAAT-TATCTGA-TC
89554394 TGGTGGCTCTGCCACAA-TATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
89554421 TGGTG
1 TGGTG
89554426 ACTTCGTCAT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
26 8 0.15
27 43 0.81
28 2 0.04
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:89556595 original size:19 final size:19
Alignment explanation
Indices: 89556567--89556604 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
89556557 GACAAAGCCC
89556567 AATAAATGATAATGCCTGA
1 AATAAATGATAATGCCTGA
*
89556586 AATAAGTGATAATGCCTGA
1 AATAAATGATAATGCCTGA
89556605 TAAACGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (19 bp):
AATAAATGATAATGCCTGA
Found at i:89556978 original size:57 final size:57
Alignment explanation
Indices: 89556848--89556995 Score: 190
Period size: 57 Copynumber: 2.6 Consensus size: 57
89556838 ATTGACCTCA
* *
89556848 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCTGATATAAGCCCTCTCGAGCATATG
1 TTATA-AAAGGATTTAGCCTGGACGGGTAATCCAGATATAAGCCCTCTAGAGCATATG
* * * * *
89556906 TTATAAATTGAATTTAGCCTAGACGGGTAATCCAGAT-TAAGCTCTTTAGAGCATATG
1 TTATAAA-AGGATTTAGCCTGGACGGGTAATCCAGATATAAGCCCTCTAGAGCATATG
*
89556963 TTACTAAAAGGATTTAGCCTGGACTGGTAATCC
1 TTA-TAAAAGGATTTAGCCTGGACGGGTAATCC
89556996 TGTTATATGA
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
57 43 0.56
58 34 0.44
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (57 bp):
TTATAAAAGGATTTAGCCTGGACGGGTAATCCAGATATAAGCCCTCTAGAGCATATG
Found at i:89559171 original size:167 final size:167
Alignment explanation
Indices: 89558891--89559213 Score: 470
Period size: 167 Copynumber: 1.9 Consensus size: 167
89558881 GAATGCGAAA
*
89558891 ATGATTGTGTATTTATGATTTGGTATATTTATGTTAATCCGTAGCTAACGTCGACCTGGATTCCT
1 ATGATTGTGTATTTATGATTTGGTATATTTATGTTAATCCGTAGCTAACGTCGACATGGATTCCT
* * * * * * * *
89558956 CCAAATGGAAAGGAAAATATATAATTATCGACAAATAGCTCTGAGTTTATGGTTTGTATTTCTAT
66 CAAAATGGAAAGGAAAAGATATAATCATCAACAAATAGCTCGGAGTTTACGATTTGCATTTCTAT
*
89559021 AACCTT-AACATTTTCATTTGTTGCATGGTAATAACAT
131 AA-CTTGAACATTTTCATTTGCTGCATGGTAATAACAT
* * * * *
89559058 ATGATTGTGTTTTTATGATTTTGTATATTTATGTTAATCTGTAGCTAATGTCGATATGGATTCCT
1 ATGATTGTGTATTTATGATTTGGTATATTTATGTTAATCCGTAGCTAACGTCGACATGGATTCCT
89559123 CAAAATGGAAAGGAAAAGATA-AAGTCATCAACAAATAGCTCGGAGTTTACGATTTGCATTTCTA
66 CAAAATGGAAAGGAAAAGATATAA-TCATCAACAAATAGCTCGGAGTTTACGATTTGCATTTCTA
*
89559187 TAACTTGAACCTTTTCATTTGCTGCAT
130 TAACTTGAACATTTTCATTTGCTGCAT
89559214 TACGAATTGC
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
166 5 0.04
167 133 0.96
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (167 bp):
ATGATTGTGTATTTATGATTTGGTATATTTATGTTAATCCGTAGCTAACGTCGACATGGATTCCT
CAAAATGGAAAGGAAAAGATATAATCATCAACAAATAGCTCGGAGTTTACGATTTGCATTTCTAT
AACTTGAACATTTTCATTTGCTGCATGGTAATAACAT
Found at i:89565993 original size:20 final size:20
Alignment explanation
Indices: 89565968--89566005 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89565958 GACTAAACCG
89565968 AAAACTTTAG-AAATTTTTAC
1 AAAAC-TTAGAAAATTTTTAC
89565988 AAAACTTAGAAAATTTTT
1 AAAACTTAGAAAATTTTT
89566006 GCCCTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
AAAACTTAGAAAATTTTTAC
Found at i:89576091 original size:20 final size:20
Alignment explanation
Indices: 89576066--89576105 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
89576056 CACCTCCATT
89576066 TGCATCGTACTGCATTACTA
1 TGCATCGTACTGCATTACTA
89576086 TGCATCGTACTGCATTACTA
1 TGCATCGTACTGCATTACTA
89576106 GATGAGCCTG
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:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (20 bp):
TGCATCGTACTGCATTACTA
Found at i:89578396 original size:13 final size:13
Alignment explanation
Indices: 89578380--89578407 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
89578370 AGTATAAAAC
89578380 ATGAAATTAAAGG
1 ATGAAATTAAAGG
89578393 ATGAAATTAAAGG
1 ATGAAATTAAAGG
89578406 AT
1 AT
89578408 TAGGAGCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.25
Consensus pattern (13 bp):
ATGAAATTAAAGG
Found at i:89580525 original size:29 final size:27
Alignment explanation
Indices: 89580450--89580531 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
89580440 GCGAGGCTGC
** *
89580450 CAGATATTGTGATGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
89580477 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
89580503 CAGATATATATGTGGCGAAGCCACCAGAT
1 CAG--ATAT-TGTGGCGAAGCCACCAGAT
89580532 TGCAGTGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.09
27 20 0.45
28 4 0.09
29 16 0.36
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:89580550 original size:69 final size:67
Alignment explanation
Indices: 89580477--89580616 Score: 172
Period size: 67 Copynumber: 2.1 Consensus size: 67
89580467 TCACCAGATA
* * * * **
89580477 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACCAGATTGCAGTGAGG
1 CAGATATTGTGACGAAGCCACCAGAAC-GA-ATATATATGGCGAAGCCACCAGATTGCAACGAGG
89580542 CTGC
64 CTGC
* * * *
89580546 CAGATATTGTGACGAAGTCACCAGAGCGAATATATATGGCGAGGCCACTAGATTGCAACGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACGAATATATATGGCGAAGCCACCAGATTGCAACGAGGCT
89580611 GC
66 GC
89580613 CAGA
1 CAGA
89580617 ACGCTTCCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
67 37 0.61
68 2 0.03
69 22 0.36
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACGAATATATATGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:89583506 original size:54 final size:54
Alignment explanation
Indices: 89583084--89583532 Score: 612
Period size: 54 Copynumber: 8.3 Consensus size: 54
89583074 TTAGTTTACC
* *
89583084 AAATTACCAAAATACCCCTAGTTTGTAAAATCACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
89583138 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** *
89583192 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTATTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * *
89583246 AAATTACAAAAAAACCCATAGTTGGTAAAATCACAAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
** *
89583300 AAACCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
89583354 AAATTATCAAAATACCCCTGGTTTGTAAAATTACTAAAATTA-CCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA-TACCCTTGGTTTATA
* * *
89583408 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * * *
89583462 AAATTATCAAAATACCACTAGTTTGTAATATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
**
89583516 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
89583533 TCGACCTGTA
Statistics
Matches: 346, Mismatches: 47, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.01
54 342 0.99
55 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:89583513 original size:27 final size:27
Alignment explanation
Indices: 89583084--89583532 Score: 506
Period size: 27 Copynumber: 16.6 Consensus size: 27
89583074 TTAGTTTACC
89583084 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * **
89583111 AAATCACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
89583138 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
89583165 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
89583192 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * **
89583219 AAATTACCAAAATACCCTTATTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
89583246 AAATTACAAAAAAACCCATAGTTGGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * * *
89583273 AAATCACAAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
**
89583300 AAACCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * **
89583327 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
89583354 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
89583381 AAATTACTAAAATTA-CCTTGGTTTATA
1 AAATTACCAAAA-TACCCCTAGTTTGTA
89583408 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
89583435 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
89583462 AAATTATCAAAATACCACTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
89583489 ATATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
**
89583516 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
89583533 TCGACCTGTA
Statistics
Matches: 352, Mismatches: 67, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
26 3 0.01
27 347 0.99
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:89583543 original size:81 final size:79
Alignment explanation
Indices: 89583084--89583585 Score: 366
Period size: 81 Copynumber: 6.2 Consensus size: 79
89583074 TTAGTTTACC
* * * * ** *
89583084 AAATTACCAAAATACCCCT-AGTTTGTAAAATCACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCC-CGATTTGTAAAATTATCAA
89583148 AATACCCCTAGTTTGTA
64 AATA-CCCTAGTTTGTA
* * * * * * *
89583165 AAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCGA-TTTGTAAAATTATCAAA
* **
89583230 ATACCCTTATTTTACA
65 ATACCC-TAGTTTGTA
* * * * * * * * * ** *
89583246 AAATTACAAAAAAACCCAT-AGTTGGTAAAATCACAAAAATACCCTTGGTTTATAAAACCACCAA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCC-CGATTTGTAAAATTATCAA
89583310 AATACCCCTAGTTTGTA
64 AATA-CCCTAGTTTGTA
* * ** *
89583327 AAATTACCAAAATACCCTTGGTTTACAAAATTA-TCAAAATACCCCTGGTTTGTAAAATTA-CTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACT-AAAATACCCC-GATTTGTAAAATTATC-A
* * *
89583390 AAATTACCTTGGTTTATA
63 AAA-TACCCTAGTTTGTA
* *
89583408 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCCGA-TTTGTAAAATTATCAA
89583472 AATACCACTAGTTTGTA
64 AATACC-CTAGTTTGTA
* * * ** **
89583489 ATATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCC-CGATTTGTAAAATTATCAAA
* * *
89583554 ATATCCTCGGCTTGTA
65 ATACCCT-AGTTTGTA
*
89583570 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
89583586 TTTGATTTAC
Statistics
Matches: 332, Mismatches: 70, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
80 10 0.03
81 313 0.94
82 9 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (79 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCGATTTGTAAAATTATCAAAA
TACCCTAGTTTGTA
Found at i:89583546 original size:27 final size:27
Alignment explanation
Indices: 89583516--89583576 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
89583506 CTGATTTGTG
89583516 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* * * *
89583543 AAATTATTGAAATATCCTCGGCTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
89583570 AAATTAC
1 AAATTAC
89583577 CAAAGTACCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:89583955 original size:27 final size:27
Alignment explanation
Indices: 89583631--89583951 Score: 430
Period size: 27 Copynumber: 11.9 Consensus size: 27
89583621 ACAAAATTAT
* *
89583631 CGAAATACCTTTGTAGGGTAGAAATGC
1 CGAAATACCCTTGTAGGGTAGAAATAC
89583658 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
*
89583685 CGAAATACCCTTGTAGGGTAGAAATGC
1 CGAAATACCCTTGTAGGGTAGAAATAC
*
89583712 CGAAATACCCTTGTAGGGTAGAAATAT
1 CGAAATACCCTTGTAGGGTAGAAATAC
*
89583739 CGAAATACCCCTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
** * *
89583766 TAAAATACCCCTGTAGGGTAGAAATAT
1 CGAAATACCCTTGTAGGGTAGAAATAC
*
89583793 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
** * *
89583820 TAAAATACCCTTGTAGGGTAGAATTAT
1 CGAAATACCCTTGTAGGGTAGAAATAC
89583847 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* *
89583874 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* * *
89583901 TGAAATACTCC-TGTAAGGTAGAATTAC
1 CGAAATAC-CCTTGTAGGGTAGAAATAC
* *
89583928 CGAGATACCCTTGTGGGGTA-AAAT
1 CGAAATACCCTTGTAGGGTAGAAAT
89583952 TACCACTTTA
Statistics
Matches: 261, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.02
27 254 0.97
28 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAAATAC
Found at i:89584379 original size:6 final size:6
Alignment explanation
Indices: 89584370--89584559 Score: 156
Period size: 6 Copynumber: 30.8 Consensus size: 6
89584360 TTGCATTCAC
* *
89584370 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
89584420 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
89584469 ATTCT- ATTACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
89584518 -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
89584560 AGTTTTGATA
Statistics
Matches: 148, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
5 10 0.07
6 118 0.80
7 12 0.08
8 8 0.05
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:89584401 original size:19 final size:19
Alignment explanation
Indices: 89584398--89584468 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
89584388 TTACCTGATA
89584398 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
89584417 CTAATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
89584435 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
89584454 CTGATACTGATTCTG
1 CTGATTCTGATTCTG
89584469 ATTCTATTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 3 0.07
18 13 0.28
19 27 0.59
20 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:89584401 original size:25 final size:25
Alignment explanation
Indices: 89584373--89584437 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
89584363 CATTCACATT
*
89584373 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
89584398 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
89584423 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
89584438 ATTCTGATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:89584439 original size:37 final size:37
Alignment explanation
Indices: 89584392--89584547 Score: 166
Period size: 37 Copynumber: 4.4 Consensus size: 37
89584382 ATTCTGTTAC
*
89584392 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
* * *
89584429 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
*
89584466 CTGATTCT-ATTACCTAATTCTG-------ATTCTGATT
1 CTGATTCTGATT--CTGATTCTGTTACCTAATTCTGATT
* * *
89584497 CTGATTCTGATTTTGATTCTGTCACCTAATTTTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
89584534 CTGATTCTGATTCT
1 CTGATTCTGATTCT
89584548 CATTTTGATT
Statistics
Matches: 98, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
30 7 0.07
31 16 0.16
32 3 0.03
36 3 0.03
37 61 0.62
38 8 0.08
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATTCTGATT
Found at i:89584465 original size:25 final size:25
Alignment explanation
Indices: 89584435--89584542 Score: 104
Period size: 25 Copynumber: 4.6 Consensus size: 25
89584425 GATTCTGGTT
*
89584435 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
* *
89584460 CTGATTCTGATTCTATTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
89584485 CTGATTCTGATTCTG--A--T--T-
1 CTGATTCTGATTCTGTTACCTAATA
* * *
89584503 CTGATTTTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
89584528 TTGATTCTGATTCTG
1 CTGATTCTGATTCTG
89584543 ATTCTCATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
18 14 0.20
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 1 0.01
24 1 0.01
25 49 0.71
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:89584468 original size:62 final size:62
Alignment explanation
Indices: 89584370--89584508 Score: 260
Period size: 62 Copynumber: 2.2 Consensus size: 62
89584360 TTGCATTCAC
*
89584370 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTG
*
89584432 GTTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTG
89584494 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
89584509 TTGATTCTGT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 74 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTG
Found at i:89584485 original size:19 final size:19
Alignment explanation
Indices: 89584401--89584493 Score: 91
Period size: 19 Copynumber: 4.6 Consensus size: 19
89584391 CCTGATACTG
89584401 ATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGTTACCTA
*
89584420 ATTCTGATTCTGGTT--CTG
1 ATTCTGATTCT-GTTACCTA
89584438 ATTCTGATTCTGTTACCTGATA
1 ATTCTGATTCTGTTACC---TA
*
89584460 CTGATTCTGATTCTATTACCTA
1 ---ATTCTGATTCTGTTACCTA
89584482 ATTCTGATTCTG
1 ATTCTGATTCTG
89584494 ATTCTGATTC
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
17 3 0.05
18 13 0.21
19 23 0.38
20 3 0.05
22 3 0.05
25 16 0.26
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (19 bp):
ATTCTGATTCTGTTACCTA
Found at i:89591061 original size:27 final size:26
Alignment explanation
Indices: 89591013--89591064 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
89591003 GCGAGGCTGC
*
89591013 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
89591039 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
89591065 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:89609230 original size:23 final size:23
Alignment explanation
Indices: 89609199--89609245 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
89609189 TTCAACTGCT
* *
89609199 CCCCCTCTCCTTCATAGATAATG
1 CCCCATCTCCTTAATAGATAATG
89609222 CCCCATCTCCTTAATAGATAATG
1 CCCCATCTCCTTAATAGATAATG
89609245 C
1 C
89609246 TTTCTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.09, T:0.30
Consensus pattern (23 bp):
CCCCATCTCCTTAATAGATAATG
Found at i:89612525 original size:53 final size:53
Alignment explanation
Indices: 89612452--89612556 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
89612442 ATAAACTACG
* * *
89612452 ATAAGGCAAAGATCCTACGTAAAACCATACCAAGGCATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATCCTACGTAAAACCATACCAAGACATGGAAATGGTAAGTTC
* * **
89612505 ATAAGGCAAGGATACC-ACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 ATAAGGCAAAGAT-CCTACGTAAAACCATACCAAGACATGGAAATGGTAAGTT
89612557 TAAAAAGGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 42 0.95
54 2 0.05
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAAGATCCTACGTAAAACCATACCAAGACATGGAAATGGTAAGTTC
Found at i:89619636 original size:41 final size:41
Alignment explanation
Indices: 89619579--89619817 Score: 290
Period size: 41 Copynumber: 5.8 Consensus size: 41
89619569 GAATATAATA
* *
89619579 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
*
89619620 CAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
89619661 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
89619702 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
89619743 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
89619784 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
89619818 ATCTGTTTAA
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 166 0.93
42 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:89619800 original size:123 final size:123
Alignment explanation
Indices: 89619589--89619817 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 123
89619579 CAGACGTTAC
*
89619589 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
* * **
89619654 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
* *
89619712 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATGTCTAGCAGGCTAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTATAAGTCTAGCAGGCTAAATGCCGGT
*
89619775 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 GATACAT--ATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGA
89619818 ATCTGTTTAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
121 3 0.03
122 5 0.05
123 86 0.91
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTATAAGTCTAGCAGGCTAAATGCCGGTGA
TACATATCAGACTTTAAGCCTAGCAGGCAAAATGCCGGTGATACATTTCAGACTATAT
Found at i:89628758 original size:12 final size:12
Alignment explanation
Indices: 89628741--89628774 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
89628731 CGACCCGCCC
89628741 ATATTAATTTTT
1 ATATTAATTTTT
*
89628753 ATATTACTTTTT
1 ATATTAATTTTT
89628765 ATA-TAATTTT
1 ATATTAATTTT
89628775 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:89628942 original size:30 final size:30
Alignment explanation
Indices: 89628899--89628956 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
89628889 TTTAACAAGC
89628899 AAATGCCTCTAAAATAAT-AATAAAATTAGA
1 AAATGCCTCTAAAATAATGAA-AAAATTAGA
* *
89628929 AAATGTCTTTAAAATAATGAAAAAATTA
1 AAATGCCTCTAAAATAATGAAAAAATTA
89628957 ACAATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATGAAAAAATTAGA
Found at i:89639369 original size:44 final size:44
Alignment explanation
Indices: 89639306--89639396 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
89639296 TATAGGGATC
89639306 GTTTATCTAATATCGCCTTTTTAGTGATTAAAATCGATGTCGCA
1 GTTTATCTAATATCGCCTTTTTAGTGATTAAAATCGATGTCGCA
*
89639350 GTTTATCTAATATTGCCTTTTTAGTGATTAAAATCGATGTCGCA
1 GTTTATCTAATATCGCCTTTTTAGTGATTAAAATCGATGTCGCA
89639394 GTT
1 GTT
89639397 ACAATTGTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (44 bp):
GTTTATCTAATATCGCCTTTTTAGTGATTAAAATCGATGTCGCA
Found at i:89639631 original size:13 final size:13
Alignment explanation
Indices: 89639613--89639667 Score: 80
Period size: 13 Copynumber: 4.5 Consensus size: 13
89639603 AGATTTTTCT
89639613 TAAATATTATCAC
1 TAAATATTATCAC
*
89639626 TAAATA--ATC-T
1 TAAATATTATCAC
89639636 TAAATATTATCAC
1 TAAATATTATCAC
89639649 TAAATATTATCAC
1 TAAATATTATCAC
89639662 TAAATA
1 TAAATA
89639668 GTTTAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 3 0.08
13 25 0.68
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:89639638 original size:23 final size:23
Alignment explanation
Indices: 89639610--89639654 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
89639600 ACTAGATTTT
89639610 TCTTAAATATTATCACTAAATAA
1 TCTTAAATATTATCACTAAATAA
89639633 TCTTAAATATTATCACTAAATA
1 TCTTAAATATTATCACTAAATA
89639655 TTATCACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (23 bp):
TCTTAAATATTATCACTAAATAA
Found at i:89640266 original size:7 final size:7
Alignment explanation
Indices: 89640254--89640283 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
89640244 TCATTTTATA
89640254 TATTTTT
1 TATTTTT
89640261 TATTTTT
1 TATTTTT
89640268 TATTTATT
1 TATTT-TT
89640276 TATTTTT
1 TATTTTT
89640283 T
1 T
89640284 CAAACGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:89640279 original size:15 final size:14
Alignment explanation
Indices: 89640254--89640283 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
89640244 TCATTTTATA
89640254 TATTTTTTATTTTT
1 TATTTTTTATTTTT
89640268 TATTTATTTATTTTT
1 TATTT-TTTATTTTT
89640283 T
1 T
89640284 CAAACGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TATTTTTTATTTTT
Found at i:89640617 original size:19 final size:19
Alignment explanation
Indices: 89640551--89640617 Score: 57
Period size: 23 Copynumber: 3.4 Consensus size: 19
89640541 TAATAATTTA
*
89640551 AATTAAAAATATTAATTTATAT
1 AATTAAAAATATTAA--T-TAC
89640573 AATTTAAAAATATTAATTAC
1 AA-TTAAAAATATTAATTAC
*
89640593 TA-TAAAAATTATTAA-TAC
1 AATTAAAAA-TATTAATTAC
89640611 AATTAAA
1 AATTAAA
89640618 CTTTTTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 10 0.26
19 10 0.26
20 3 0.08
21 1 0.03
22 2 0.05
23 13 0.33
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTAAAAATATTAATTAC
Found at i:89643420 original size:23 final size:23
Alignment explanation
Indices: 89643390--89643433 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
89643380 ACATATCAGA
*
89643390 TAACACAAAACACAGAAGTGCTG
1 TAACACAAAACACAAAAGTGCTG
*
89643413 TAACACAAAGCACAAAAGTGC
1 TAACACAAAACACAAAAGTGC
89643434 AATATCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (23 bp):
TAACACAAAACACAAAAGTGCTG
Found at i:89648151 original size:28 final size:28
Alignment explanation
Indices: 89648128--89648183 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
89648118 CCTATTTTCT
89648128 AGATCCTTCCACCCTTAAAATATTTACA
1 AGATCCTTCCACCCTTAAAATATTTACA
89648156 AGATCCTTCCACCCTTAAAATATTTACA
1 AGATCCTTCCACCCTTAAAATATTTACA
89648184 CTATTGACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (28 bp):
AGATCCTTCCACCCTTAAAATATTTACA
Found at i:89650457 original size:5 final size:5
Alignment explanation
Indices: 89650418--89650443 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
89650408 ATATTATTTA
89650418 TTAAT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT T
89650444 AGATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:89670736 original size:41 final size:41
Alignment explanation
Indices: 89670682--89670830 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
89670672 ATTAATTATA
* * *
89670682 CCCTGAACTGCACATGCGTGCCCCTGTTTGTACTTCGATAC
1 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATAC
* * * *
89670723 CCCTAAATTGCACATGCATGCCCCTATTTGTAATTCGATAC
1 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATAC
*
89670764 CCTCTGAATTGCACATACGTGCCCCTATTTGTACTTTTG-TAC
1 CC-CTGAATTGCACATACGTGCCCCTATTTGTAC-TTCGATAC
* *
89670806 CCCTGAATAGCACATACGTACCCCT
1 CCCTGAATTGCACATACGTGCCCCT
89670831 TTTTACACTC
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 59 0.63
42 32 0.34
43 3 0.03
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.31
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATAC
Found at i:89678297 original size:48 final size:47
Alignment explanation
Indices: 89678136--89678293 Score: 187
Period size: 48 Copynumber: 3.3 Consensus size: 47
89678126 GCCATACCCC
* *
89678136 AGACAGGTCTTACACTAGCCTGT-ATATCGCGAGGTCGATGCATGTCCT
1 AGACATGTCTTACACTAG-CT-TAATATCTCGAGGTCGATGCATGTCCT
* * * *
89678184 AGACATGTCTTACACTAGCTCTCATA--TCAATGTCGATGCATGTCCC
1 AGACATGTCTTACACTAGCT-TAATATCTCGAGGTCGATGCATGTCCT
* *
89678230 AAACATGTCTTACACTGGCTTAAATATCTCGAGGTCGATGCATGTCCT
1 AGACATGTCTTACACTAGCTT-AATATCTCGAGGTCGATGCATGTCCT
89678278 AGACATGTCTTACACT
1 AGACATGTCTTACACT
89678294 GGCTCTCATG
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 37 0.40
47 3 0.03
48 52 0.56
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (47 bp):
AGACATGTCTTACACTAGCTTAATATCTCGAGGTCGATGCATGTCCT
Found at i:89679969 original size:40 final size:39
Alignment explanation
Indices: 89679885--89680008 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 39
89679875 TTGAATGATG
* * * *
89679885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
89679925 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
* *
89679965 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
89680004 TCCGG
1 TCCGG
89680009 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
39 30 0.42
40 31 0.44
41 9 0.13
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:89679986 original size:39 final size:40
Alignment explanation
Indices: 89679885--89680008 Score: 130
Period size: 39 Copynumber: 3.1 Consensus size: 40
89679875 TTGAATGATG
* * *
89679885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
89679924 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
* *
89679965 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
89680004 TCCGG
1 TCCGG
89680009 NNNNNNNNNN
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
39 30 0.42
40 30 0.42
41 11 0.15
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:89693510 original size:40 final size:40
Alignment explanation
Indices: 89693429--89693725 Score: 413
Period size: 40 Copynumber: 7.5 Consensus size: 40
89693419 AAACCAAGTA
* * * *
89693429 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
89693467 CCTTCGGGACATAGCCCGAATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
89693507 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
89693547 CCTTCGGAACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
89693587 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
89693627 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
89693667 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGGAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
89693707 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
89693726 TTATCATCCG
Statistics
Matches: 234, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
38 12 0.05
39 16 0.07
40 206 0.88
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:89701603 original size:26 final size:26
Alignment explanation
Indices: 89701572--89701679 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
89701562 TGAAATTCCC
*
89701572 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
89701598 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
89701624 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
89701650 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89701676 ATCA
1 ATCA
89701680 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:89704263 original size:42 final size:41
Alignment explanation
Indices: 89704151--89704272 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 41
89704141 TACCATACCA
* *
89704151 ATGCCATATCCCAAATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCC-AATATGGTCTTACACGAAG-TCTCATATCG
*
89704193 ATGCCAATAGCCCAACTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAA-TATGGTCTTACACGAAGTCTCATATCG
* *
89704236 ATGTCATATCCTAGATATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCA-ATATGGTCTTACACG-AAGTCTCA
89704273 ACTAACCCTA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 32 0.46
43 36 0.52
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAATATGGTCTTACACGAAGTCTCATATCG
Found at i:89706872 original size:21 final size:21
Alignment explanation
Indices: 89706848--89706893 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
89706838 ATGAATTCGG
89706848 CTTCTGAGATGGATCAATCGA
1 CTTCTGAGATGGATCAATCGA
89706869 CTTCTGAGATGGATCAATCGA
1 CTTCTGAGATGGATCAATCGA
89706890 CTTC
1 CTTC
89706894 CTTGGGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (21 bp):
CTTCTGAGATGGATCAATCGA
Found at i:89711267 original size:19 final size:19
Alignment explanation
Indices: 89711230--89711267 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
89711220 ACCTGTCAGA
*
89711230 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
89711249 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
89711268 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:89712922 original size:40 final size:41
Alignment explanation
Indices: 89712845--89712924 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
89712835 GATGCAAGGG
* *
89712845 ACACACGGCCTGATTACACACCCATAGGGCTAGCCATGTGTC
1 ACACACGGCCTGATCACACACCCATA-GGCTACCCATGTGTC
*
89712887 ACACACGGCCTAGA-CACACACCCAT-GTCTACCCATGTG
1 ACACACGGCCT-GATCACACACCCATAGGCTACCCATGTG
89712925 GGCAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 11 0.32
42 21 0.62
43 2 0.06
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (41 bp):
ACACACGGCCTGATCACACACCCATAGGCTACCCATGTGTC
Found at i:89713813 original size:42 final size:42
Alignment explanation
Indices: 89713761--89713879 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
89713751 CACATAGTAC
* * *
89713761 CATACCAATGCCATATCCCAAATATAGTCTTACATAGGA-TCT
1 CATATCAATGCCATATCCCAAATATGGTCTTACA-AGAAGTCT
* * *
89713803 CATATCAATGCCAATAACCCAACTATGGTCTTACACGAAGTCT
1 CATATCAATGCC-ATATCCCAAATATGGTCTTACAAGAAGTCT
** *
89713846 CATATTGATGCCATATCCCAGATATGGTCTTACA
1 CATATCAATGCCATATCCCAAATATGGTCTTACA
89713880 CGTAATCTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 32 0.50
43 32 0.50
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAAATATGGTCTTACAAGAAGTCT
Found at i:89717827 original size:21 final size:21
Alignment explanation
Indices: 89717803--89717845 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
89717793 ACCTTTTTTA
89717803 AAGTTAAAA-ATCAAAACCATT
1 AAGTTAAAATA-CAAAACCATT
*
89717824 AAGTTAAAATACAAAATCATT
1 AAGTTAAAATACAAAACCATT
89717845 A
1 A
89717846 TATTGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.26
Consensus pattern (21 bp):
AAGTTAAAATACAAAACCATT
Found at i:89719003 original size:22 final size:22
Alignment explanation
Indices: 89718971--89719017 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
89718961 AAATAGGGTC
*
89718971 ACACGCTTGTGTGGACATAAGG
1 ACACGCCTGTGTGGACATAAGG
*
89718993 ACACGCCTGTGTGGACATAGGG
1 ACACGCCTGTGTGGACATAAGG
89719015 ACA
1 ACA
89719018 AGCCCATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.19
Consensus pattern (22 bp):
ACACGCCTGTGTGGACATAAGG
Found at i:89719027 original size:22 final size:22
Alignment explanation
Indices: 89718980--89719027 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
89718970 CACACGCTTG
* **
89718980 TGTGGACATAAGGACACGCCTG
1 TGTGGACATAAGGACAAGCCCA
*
89719002 TGTGGACATAGGGACAAGCCCA
1 TGTGGACATAAGGACAAGCCCA
89719024 TGTG
1 TGTG
89719028 CCTTTGGCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.21, G:0.33, T:0.19
Consensus pattern (22 bp):
TGTGGACATAAGGACAAGCCCA
Found at i:89721082 original size:49 final size:49
Alignment explanation
Indices: 89720990--89721161 Score: 140
Period size: 49 Copynumber: 3.6 Consensus size: 49
89720980 CATCAAAGTT
* * ** * *
89720990 GATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAGACACGTCTTACACTAACTCTCATATATCGAG-GCC
* *
89721039 GATGCCATGTCCCAGACACGTCTTACATTAACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACACGTCTTACACTAACTCTCATATATCGAGGCC
* * * ** *
89721088 GATG-TATATCCCAGACATGTCTTACACTGGCTC-CATA-AT-GTGGCC
1 GATGCCATGTCCCAGACACGTCTTACACTAACTCTCATATATCGAGGCC
* * *
89721133 GATG-CATGTCTCAGGCATGTCTTACACTA
1 GATGCCATGTCCCAGACACGTCTTACACTA
89721162 GTACACATAT
Statistics
Matches: 101, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
45 29 0.29
46 2 0.02
47 4 0.04
48 22 0.22
49 43 0.43
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
GATGCCATGTCCCAGACACGTCTTACACTAACTCTCATATATCGAGGCC
Found at i:89721833 original size:16 final size:16
Alignment explanation
Indices: 89721802--89721840 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
89721792 TTCTCGGGTT
*
89721802 TATTTTATTTTATTTTA
1 TATTTT-TTCTATTTTA
89721819 TATTTTTTCTATTTTA
1 TATTTTTTCTATTTTA
89721835 -ATTTTT
1 TATTTTT
89721841 ATATGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTCTATTTTA
Found at i:89722881 original size:26 final size:27
Alignment explanation
Indices: 89722832--89722884 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
89722822 AAACTGTTTG
89722832 TATATTAGTTATTTTAAATTTCCTTTTA
1 TATATTAGTTATTTTAAA-TTCCTTTTA
89722860 TATATTA-TTCATTTTAAA-TCCTTTT
1 TATATTAGTT-ATTTTAAATTCCTTTT
89722885 CTACGTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.29
27 2 0.08
28 15 0.62
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (27 bp):
TATATTAGTTATTTTAAATTCCTTTTA
Found at i:89724083 original size:20 final size:20
Alignment explanation
Indices: 89724059--89724097 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
89724049 ATTTTATTTT
89724059 ATTTTTATTCTTT-TTCCAA
1 ATTTTTATTCTTTCTTCCAA
*
89724078 ATTTTTCTTCTTTCTTCCAA
1 ATTTTTATTCTTTCTTCCAA
89724098 TCAACTGACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTATTCTTTCTTCCAA
Found at i:89728614 original size:45 final size:45
Alignment explanation
Indices: 89728550--89728635 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
89728540 CCAAAACATG
* * *
89728550 TGTCACATATATTACGAACTCAGACCAGAACTT-AATGAGTTCGGA
1 TGTCACATATATCACGAACTCAAACCACAA-TTCAATGAGTTCGGA
*
89728595 TGTCACATATATCATGAACTCAAACCACAATTCAATGAGTT
1 TGTCACATATATCACGAACTCAAACCACAATTCAATGAGTT
89728636 TAGGTTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAAACCACAATTCAATGAGTTCGGA
Found at i:89755265 original size:94 final size:94
Alignment explanation
Indices: 89755150--89755363 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 94
89755140 AAGCTGAAGC
* * ** *
89755150 CATGTCCTAGACAGGTTTTACACTAGATTGTATATCGCGAGGCCGATGCATGTCCCAAACATGTC
1 CATGTCCTAGACATGTCTTACACTAGATTAAATATCGCGAGGCCGATACATGTCCCAAACATGTC
*
89755215 TTACACTAGCCCTCGT-CTCAAT-GCCGATG
66 TTACACTAGCCCTCATGCT--ATGGCCGATG
* * ** * *
89755244 CATGTCCTAGACATGTCTTACACTGGCTTAAATATTTCGAGGTCGATACATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGATTAAATATCGCGAGGCCGATACATGTCCCAAACATGTC
* * * *
89755309 TTACACTGGCTCTCATGCTGTGGCTGATG
66 TTACACTAGCCCTCATGCTATGGCCGATG
* *
89755338 CATGTCCCAGATATGTCTTACACTAG
1 CATGTCCTAGACATGTCTTACACTAG
89755364 CACATATATC
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
93 1 0.01
94 96 0.97
95 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (94 bp):
CATGTCCTAGACATGTCTTACACTAGATTAAATATCGCGAGGCCGATACATGTCCCAAACATGTC
TTACACTAGCCCTCATGCTATGGCCGATG
Found at i:89760999 original size:46 final size:45
Alignment explanation
Indices: 89760894--89761111 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 45
89760884 TATTTGTGCT
* * ** *
89760894 GATGACATGTCCCAGACATAGTCTTACACTAAC-ACATCTCGTA-GTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTACGTCT-AAAGGCC
*
89760940 GATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTGAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TACGTCTAAAGGCC
* * *
89760986 GATGCATATCCCAGACATGTCTTACACTAG-TACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTA--CGTCTAAAGGCC
* * * *
89761032 AACGCCATGTCCCAGACATGGTCTTACACTGGCT-C-TCATAATATGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTACGTC-TAA-A-GGCC
89761080 GATGCATGTCCCAGACATGTCTTACACTAGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT
89761112 CACACAAGTG
Statistics
Matches: 144, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 14 0.10
45 18 0.12
46 68 0.47
47 28 0.19
48 15 0.10
49 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTACGTCTAAAGGCC
Found at i:89766610 original size:20 final size:20
Alignment explanation
Indices: 89766585--89766646 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
89766575 CGATTGAGAG
89766585 GTGTTGTGACCAACTCCCAT
1 GTGTTGTGACCAACTCCCAT
*
89766605 GTGTTGTTGACTAA-----A-
1 GTGTTG-TGACCAACTCCCAT
89766620 GTGTTGTGACCAACTCCCAT
1 GTGTTGTGACCAACTCCCAT
89766640 GTGTTGT
1 GTGTTGT
89766647 TGACTAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 1 0.03
19 1 0.03
20 13 0.39
21 6 0.18
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
GTGTTGTGACCAACTCCCAT
Found at i:89766631 original size:35 final size:35
Alignment explanation
Indices: 89766585--89766656 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
89766575 CGATTGAGAG
89766585 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
1 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
89766620 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
1 GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
89766655 GT
1 GT
89766657 TGACAACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (35 bp):
GTGTTGTGACCAACTCCCATGTGTTGTTGACTAAA
Found at i:89768537 original size:30 final size:30
Alignment explanation
Indices: 89768503--89768572 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
89768493 ACCCAGACTA
* *
89768503 ATAACACCCAGTTGAAGAAGGTCCAAACTG
1 ATAACACCCAATTGAAGAAGGTCAAAACTG
89768533 ATAACACCCAATTGAAGAAGGTCAAAACTG
1 ATAACACCCAATTGAAGAAGGTCAAAACTG
89768563 ATCAA-ACCCA
1 AT-AACACCCA
89768573 TATGAACTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (30 bp):
ATAACACCCAATTGAAGAAGGTCAAAACTG
Found at i:89779452 original size:15 final size:16
Alignment explanation
Indices: 89779432--89779467 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
89779422 CTACACAAAA
89779432 TAAAACCCTAAACC-T
1 TAAAACCCTAAACCTT
*
89779447 TAAAACTCTAAACCTT
1 TAAAACCCTAAACCTT
89779463 TAAAA
1 TAAAA
89779468 AAGTTCAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAACCCTAAACCTT
Found at i:89781345 original size:45 final size:45
Alignment explanation
Indices: 89781287--89781378 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
89781277 TATTTTATAG
89781287 TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
1 TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
89781332 TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
1 TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
89781377 TT
1 TT
89781379 TCAAATATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (45 bp):
TTAAATTGTTATTGGATTTTGTATTCCTAATCTGTGATATATTTC
Found at i:89785916 original size:21 final size:23
Alignment explanation
Indices: 89785890--89785949 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
89785880 CAATCAAAGA
*
89785890 AATCCAAAAT-TT-TTATTATAT
1 AATCCAAAATCTTAATATTATAT
89785911 AATCCAAAATCTTAAATATTATAT
1 AATCCAAAATCTT-AATATTATAT
89785935 AATCCAAAATCTTAA
1 AATCCAAAATCTTAA
89785950 ATGTTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 10 0.29
22 2 0.06
23 2 0.06
24 21 0.60
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
AATCCAAAATCTTAATATTATAT
Found at i:89785935 original size:24 final size:24
Alignment explanation
Indices: 89785903--89785956 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
89785893 CCAAAATTTT
89785903 TATTATATAATCCAAAATCTTAAA
1 TATTATATAATCCAAAATCTTAAA
89785927 TATTATATAATCCAAAATCTTAAA
1 TATTATATAATCCAAAATCTTAAA
*
89785951 TGTTAT
1 TATTAT
89785957 TATATCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (24 bp):
TATTATATAATCCAAAATCTTAAA
Found at i:89785967 original size:24 final size:24
Alignment explanation
Indices: 89785903--89785968 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
89785893 CCAAAATTTT
*
89785903 TATTATATAATCCAAAATCTTAAA
1 TATTATATAATCAAAAATCTTAAA
*
89785927 TATTATATAATCCAAAATCTTAAA
1 TATTATATAATCAAAAATCTTAAA
*
89785951 TGTTAT-TATATCAAAAAT
1 TATTATATA-ATCAAAAAT
89785969 TTCTCTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 2 0.05
24 37 0.95
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (24 bp):
TATTATATAATCAAAAATCTTAAA
Found at i:89788064 original size:49 final size:49
Alignment explanation
Indices: 89787992--89788090 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
89787982 AATACTAAAC
89787992 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
1 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
89788041 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
1 ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
89788090 A
1 A
89788091 CAACCATGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (49 bp):
ATGCTAAGAGGACTCACAGCTTCTTATTAATAGGTTAAAAATCCCTTCA
Found at i:89788420 original size:15 final size:15
Alignment explanation
Indices: 89788396--89788431 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
89788386 ATACAATATA
* *
89788396 TAAATGTTAAAATTT
1 TAAATTTTAAAACTT
89788411 TAAATTTTAAAACTT
1 TAAATTTTAAAACTT
89788426 TAAATT
1 TAAATT
89788432 ATTATTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
TAAATTTTAAAACTT
Done.