Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 149 of 185
Found at i:46042116 original size:41 final size:41
Alignment explanation
Indices: 46042071--46042189 Score: 170
Period size: 41 Copynumber: 2.9 Consensus size: 41
46042061 TCAGGTTTAT
46042071 TGCCAGTGAAACATTTCAGACTTTTAGTCTAGCAGGCTTGA
1 TGCCAGTGAAACATTTCAGACTTTTAGTCTAGCAGGCTTGA
*
46042112 TGCCAGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTTGA
1 TGCCAGTGAAACATTTCAGACTTTTAGTCTAGCAGGCTTGA
* ***
46042153 CGGTGGTGAAACATTTCAGAC-TTTATGTC-AGCAGGCT
1 TGCCAGTGAAACATTTCAGACTTTTA-GTCTAGCAGGCT
46042190 AAGTGCCAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
40 11 0.15
41 60 0.85
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (41 bp):
TGCCAGTGAAACATTTCAGACTTTTAGTCTAGCAGGCTTGA
Found at i:46043648 original size:17 final size:17
Alignment explanation
Indices: 46043626--46043675 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
46043616 ATAGAAAGTC
46043626 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
46043643 AAAGATATAGGTATCAG
1 AAAGATATGGGTATCAG
46043660 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
46043676 AAATCTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:46049238 original size:20 final size:20
Alignment explanation
Indices: 46049213--46049251 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
46049203 AACATTCAAA
46049213 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
46049233 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
46049252 ACCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:46050366 original size:25 final size:25
Alignment explanation
Indices: 46050338--46050462 Score: 142
Period size: 25 Copynumber: 5.0 Consensus size: 25
46050328 TATACTCAGT
46050338 TGAGCTATAGATTGGTATGCTCTCA
1 TGAGCTATAGATTGGTATGCTCTCA
* * * *
46050363 TGAGCTGTAAATCGGTATGCTCACA
1 TGAGCTATAGATTGGTATGCTCTCA
* *
46050388 CGAGCTATAGATTAGTATGCTCTCA
1 TGAGCTATAGATTGGTATGCTCTCA
* * * * *
46050413 TGAGTTGTAAATTGGTATGATCACA
1 TGAGCTATAGATTGGTATGCTCTCA
*
46050438 TGAGCTATAGATCGGTATGCTCTCA
1 TGAGCTATAGATTGGTATGCTCTCA
46050463 CGAGTTGTAA
Statistics
Matches: 77, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (25 bp):
TGAGCTATAGATTGGTATGCTCTCA
Found at i:46050393 original size:50 final size:50
Alignment explanation
Indices: 46050339--46050491 Score: 243
Period size: 50 Copynumber: 3.1 Consensus size: 50
46050329 ATACTCAGTT
*
46050339 GAGCTATAGATTGGTATGCTCTCATGAGCTGTAAATCGGTATGCTCACAC
1 GAGCTATAGATTGGTATGCTCTCATGAGTTGTAAATCGGTATGCTCACAC
* * * *
46050389 GAGCTATAGATTAGTATGCTCTCATGAGTTGTAAATTGGTATGATCACAT
1 GAGCTATAGATTGGTATGCTCTCATGAGTTGTAAATCGGTATGCTCACAC
* *
46050439 GAGCTATAGATCGGTATGCTCTCACGAGTTGTAAATCGGTATGCTCACAC
1 GAGCTATAGATTGGTATGCTCTCATGAGTTGTAAATCGGTATGCTCACAC
46050489 GAG
1 GAG
46050492 GTGTGGGTCG
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 92 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
GAGCTATAGATTGGTATGCTCTCATGAGTTGTAAATCGGTATGCTCACAC
Found at i:46050476 original size:25 final size:25
Alignment explanation
Indices: 46050351--46050491 Score: 138
Period size: 25 Copynumber: 5.6 Consensus size: 25
46050341 GCTATAGATT
* *
46050351 GGTATGCTCTCATGAGCTGTAAATC
1 GGTATGCTCACACGAGCTGTAAATC
* * *
46050376 GGTATGCTCACACGAGCTATAGATT
1 GGTATGCTCACACGAGCTGTAAATC
* * * * *
46050401 AGTATGCTCTCATGAGTTGTAAATT
1 GGTATGCTCACACGAGCTGTAAATC
* * * *
46050426 GGTATGATCACATGAGCTATAGATC
1 GGTATGCTCACACGAGCTGTAAATC
* *
46050451 GGTATGCTCTCACGAGTTGTAAATC
1 GGTATGCTCACACGAGCTGTAAATC
46050476 GGTATGCTCACACGAG
1 GGTATGCTCACACGAG
46050492 GTGTGGGTCG
Statistics
Matches: 91, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 91 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (25 bp):
GGTATGCTCACACGAGCTGTAAATC
Found at i:46051013 original size:20 final size:20
Alignment explanation
Indices: 46050985--46051022 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
46050975 AACTATCATG
*
46050985 TTTTCTTTATTTTATTAACC
1 TTTTATTTATTTTATTAACC
46051005 TTTTATTTATTTTATTAA
1 TTTTATTTATTTTATTAA
46051023 TAAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTTATTAACC
Found at i:46066906 original size:16 final size:16
Alignment explanation
Indices: 46066883--46066918 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
46066873 TATTATTATC
46066883 TATATTTTT-TATAGA
1 TATATTTTTATATAGA
*
46066898 TATATTTTTATCTAGA
1 TATATTTTTATATAGA
46066914 TATAT
1 TATAT
46066919 AAGATCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (16 bp):
TATATTTTTATATAGA
Found at i:46069626 original size:17 final size:17
Alignment explanation
Indices: 46069604--46069637 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46069594 ATAGACTCGC
*
46069604 TTAGATATACTTAGTAT
1 TTAGATATAATTAGTAT
46069621 TTAGATATAATTAGTAT
1 TTAGATATAATTAGTAT
46069638 AATATACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGATATAATTAGTAT
Found at i:46080415 original size:23 final size:23
Alignment explanation
Indices: 46080389--46080436 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
46080379 ATCTCACACA
46080389 TCTCTCTCTC-TTTCCCTCATTTT
1 TCTCTCTCTCATTTCCC-CATTTT
* *
46080412 TCTCTCTGTCATTTCCCCTTTTT
1 TCTCTCTCTCATTTCCCCATTTT
46080435 TC
1 TC
46080437 ATCCATTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.04, C:0.38, G:0.02, T:0.56
Consensus pattern (23 bp):
TCTCTCTCTCATTTCCCCATTTT
Found at i:46082287 original size:15 final size:15
Alignment explanation
Indices: 46082267--46082298 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46082257 ATCTGTAGAT
*
46082267 TTAACAGACAGAGGA
1 TTAACAGACAAAGGA
46082282 TTAACAGACAAAGGA
1 TTAACAGACAAAGGA
46082297 TT
1 TT
46082299 TCTTCTGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (15 bp):
TTAACAGACAAAGGA
Found at i:46085445 original size:24 final size:24
Alignment explanation
Indices: 46085393--46085446 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
46085383 AATAATACGT
* *
46085393 AAAGAAGTGCATGTCGTGTCAGTC
1 AAAGATGTGCATGTCGCGTCAGTC
*
46085417 AAAGATGTGCATGTCGCGTCGGTC
1 AAAGATGTGCATGTCGCGTCAGTC
*
46085441 GAAGAT
1 AAAGAT
46085447 AAGGCAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (24 bp):
AAAGATGTGCATGTCGCGTCAGTC
Found at i:46085646 original size:15 final size:14
Alignment explanation
Indices: 46085613--46085646 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
46085603 TTTTGTTATT
*
46085613 TTTTATTTTATTCA
1 TTTTATTTTATTAA
46085627 TTTTATTATTATTAA
1 TTTTATT-TTATTAA
46085642 TTTTA
1 TTTTA
46085647 GTTGTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTTATTAA
Found at i:46094244 original size:19 final size:20
Alignment explanation
Indices: 46094209--46094253 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
46094199 TTACCCTAAA
* *
46094209 CTCCCAAATATTTTTACTTT
1 CTCCCAAATACTTTTACTCT
46094229 CTCCCAAA-ACTTTTACTCT
1 CTCCCAAATACTTTTACTCT
46094248 CTCCCA
1 CTCCCA
46094254 CTTTCCCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (20 bp):
CTCCCAAATACTTTTACTCT
Found at i:46096325 original size:12 final size:12
Alignment explanation
Indices: 46096303--46096334 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
46096293 CATAAAAATT
46096303 TAAACTAAGTAAA
1 TAAA-TAAGTAAA
46096316 TAAATAAGTAAA
1 TAAATAAGTAAA
46096328 TAAATAA
1 TAAATAA
46096335 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAATAAGTAAA
Found at i:46097747 original size:23 final size:22
Alignment explanation
Indices: 46097695--46097747 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
46097685 TCCACGTCTT
*
46097695 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
46097717 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
46097740 TTTCTTTT
1 TTTCTTTT
46097748 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:46100135 original size:12 final size:12
Alignment explanation
Indices: 46100113--46100144 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
46100103 CATAAAAATT
46100113 TAAACTAAGTAAA
1 TAAA-TAAGTAAA
46100126 TAAATAAGTAAA
1 TAAATAAGTAAA
46100138 TAAATAA
1 TAAATAA
46100145 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAATAAGTAAA
Found at i:46103414 original size:16 final size:17
Alignment explanation
Indices: 46103375--46103407 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
46103365 AAAGTTTAGG
46103375 GGGGAAATAATAAGTTTT
1 GGGG-AATAATAAGTTTT
46103393 GGGGAATAA-AAGTTT
1 GGGGAATAATAAGTTT
46103408 GAGGGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (17 bp):
GGGGAATAATAAGTTTT
Found at i:46103793 original size:9 final size:9
Alignment explanation
Indices: 46103779--46103833 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
46103769 TATAGTTTGA
46103779 TATTCGAAT
1 TATTCGAAT
46103788 TATTCGAAT
1 TATTCGAAT
*
46103797 TATTCGAGT
1 TATTCGAAT
46103806 TATTCGAAT
1 TATTCGAAT
*
46103815 TATTCGAGT
1 TATTCGAAT
46103824 TATTCGAAT
1 TATTCGAAT
46103833 T
1 T
46103834 CGAAAACTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:46103928 original size:9 final size:9
Alignment explanation
Indices: 46103885--46103915 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46103875 TCGAGTTGAT
*
46103885 TCGAATAAC
1 TCGATTAAC
46103894 TCGATTAAC
1 TCGATTAAC
46103903 TCGATTAAC
1 TCGATTAAC
46103912 TCGA
1 TCGA
46103916 CTCGTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (9 bp):
TCGATTAAC
Found at i:46109807 original size:33 final size:33
Alignment explanation
Indices: 46109770--46109834 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
46109760 TAATACTGTC
46109770 TTAGTTGACACATTATTCAAAATATAACAAATT
1 TTAGTTGACACATTATTCAAAATATAACAAATT
*
46109803 TTAGTTGGCACATTATTCAAAATATAACAAAT
1 TTAGTTGACACATTATTCAAAATATAACAAAT
46109835 AGTTTGTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (33 bp):
TTAGTTGACACATTATTCAAAATATAACAAATT
Found at i:46113390 original size:20 final size:19
Alignment explanation
Indices: 46113351--46113387 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
46113341 AAAAAAAAAG
*
46113351 AAAATATAAAATTTATATA
1 AAAAAATAAAATTTATATA
46113370 AAAAAAT-AAATTTATATA
1 AAAAAATAAAATTTATATA
46113388 TAATACATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAATAAAATTTATATA
Found at i:46113478 original size:56 final size:54
Alignment explanation
Indices: 46113418--46113592 Score: 148
Period size: 62 Copynumber: 3.1 Consensus size: 54
46113408 AGAAAAATAC
46113418 ATATATAGAAATTATAAAATATGTATGGAAAGTATAATATGTATATACGTACATAT
1 ATATATAGAAATTATAAAATATGTAT-GAAAGTATAATAT-TATATACGTACATAT
* *
46113474 ATATATAAGTTAATAAATATATATATATAGATCAT-AAAG-ATAATGATTATATA--T--ATAT
1 ATATAT-AG---A-AATTATA-AAATAT-G-T-ATGAAAGTATAAT-ATTATATACGTACATAT
* *
46113532 ATATAGAAAAATTATAAAATATGTATAGAAAGTATAATA-TATATACGTACATAT
1 ATATATAGAAATTATAAAATATGTAT-GAAAGTATAATATTATATACGTACATAT
46113586 ATATATA
1 ATATATA
46113593 AATTAATAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 36
0.69 0.05 0.26
Matches are distributed among these distances:
49 2 0.02
50 7 0.07
51 6 0.06
52 11 0.12
53 6 0.06
54 11 0.12
56 6 0.06
57 3 0.03
58 9 0.09
60 2 0.02
61 6 0.06
62 16 0.17
63 7 0.07
64 1 0.01
65 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (54 bp):
ATATATAGAAATTATAAAATATGTATGAAAGTATAATATTATATACGTACATAT
Found at i:46113558 original size:22 final size:23
Alignment explanation
Indices: 46113519--46113562 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
46113509 AAAGATAATG
*
46113519 ATTATATATATATATATAGAAAA
1 ATTATATAAATATATATAGAAAA
*
46113542 ATTATA-AAATATGTATAGAAA
1 ATTATATAAATATATATAGAAA
46113563 GTATAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAATATATATAGAAAA
Found at i:46113575 original size:22 final size:23
Alignment explanation
Indices: 46113524--46113576 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
46113514 TAATGATTAT
*
46113524 ATATATATATATAGAAAAATTATA
1 ATATATATATATAG-AAAAGTATA
*
46113548 A-A-ATATGTATAG-AAAGTATA
1 ATATATATATATAGAAAAGTATA
46113568 ATATATATA
1 ATATATATA
46113577 CGTACATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 13 0.54
23 1 0.04
24 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (23 bp):
ATATATATATATAGAAAAGTATA
Found at i:46113627 original size:106 final size:109
Alignment explanation
Indices: 46113418--46113636 Score: 322
Period size: 106 Copynumber: 2.0 Consensus size: 109
46113408 AGAAAAATAC
*
46113418 ATATATAGAAATTATAAAATATGTATGGAAAGTATAATATGTATATACGTACATATATATATAAG
1 ATATATAGAAATTATAAAATATGTATAGAAAGTATAATA-GTATATACGTACATATATATATAA-
* *
46113483 TTAATAAATATATATATATAGATCATAAAGATAATGATTATATATAT
64 -TAATAAATATATATATATAGATCAGAAAGATAATGATTACATATAT
46113530 ATATATAGAAAAATTATAAAATATGTATAGAAAGTATAATA-TATATACGTACATATATATAT-A
1 ATATATAG--AAATTATAAAATATGTATAGAAAGTATAATAGTATATACGTACATATATATATAA
*
46113593 -AATTAATA-A-ATATATAGATCAGAAAGATAATGATTACATATAT
64 TAATAAATATATATATATAGATCAGAAAGATAATGATTACATATAT
46113636 A
1 A
46113637 AACTTAAAAA
Statistics
Matches: 101, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
106 33 0.33
107 1 0.01
108 7 0.07
111 1 0.01
112 29 0.29
114 30 0.30
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (109 bp):
ATATATAGAAATTATAAAATATGTATAGAAAGTATAATAGTATATACGTACATATATATATAATA
ATAAATATATATATATAGATCAGAAAGATAATGATTACATATAT
Found at i:46113657 original size:106 final size:111
Alignment explanation
Indices: 46113433--46113659 Score: 288
Period size: 106 Copynumber: 2.1 Consensus size: 111
46113423 TAGAAATTAT
*
46113433 AAAATATGTATGGAAAGTATAATATGTATATACGTACATATATATATAAGTTAATAAATATATAT
1 AAAATATGTATAGAAAGTATAATA-GTATATACGTACATATATATATAA--TAATAAATATATAT
* * * ** *
46113498 ATATAGATCATAAAGATAATGATTATATATATATATATAGAAAAATTAT
63 ATATAGATCAGAAAGATAATGATTACATATATAAATATAGAAAAAGGAA
*
46113547 AAAATATGTATAGAAAGTATAATA-TATATACGTACATATATATAT-A-AATTAATA-A-ATATA
1 AAAATATGTATAGAAAGTATAATAGTATATACGTACATATATATATAATAATAAATATATATATA
46113607 TAGATCAGAAAGATAATGATTACATATATAAACT-TA-AAAAAGGGAA
66 TAGATCAGAAAGATAATGATTACATATATAAA-TATAGAAAAA-GGAA
46113653 AAAATAT
1 AAAATAT
46113660 TTTGAAATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
105 5 0.05
106 44 0.43
107 2 0.02
108 7 0.07
111 1 0.01
112 21 0.20
114 23 0.22
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (111 bp):
AAAATATGTATAGAAAGTATAATAGTATATACGTACATATATATATAATAATAAATATATATATA
TAGATCAGAAAGATAATGATTACATATATAAATATAGAAAAAGGAA
Found at i:46114404 original size:14 final size:14
Alignment explanation
Indices: 46114385--46114411 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46114375 CAATAACACA
46114385 AAATAAAAAAAAAG
1 AAATAAAAAAAAAG
46114399 AAATAAAAAAAAA
1 AAATAAAAAAAAA
46114412 ACAACCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.04, T:0.07
Consensus pattern (14 bp):
AAATAAAAAAAAAG
Found at i:46114704 original size:15 final size:15
Alignment explanation
Indices: 46114684--46114714 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46114674 AGGGTTTCTG
46114684 ACTGTAATTTGGGCC
1 ACTGTAATTTGGGCC
*
46114699 ACTGTAGTTTGGGCC
1 ACTGTAATTTGGGCC
46114714 A
1 A
46114715 TTGTTATTGT
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:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (15 bp):
ACTGTAATTTGGGCC
Found at i:46122263 original size:3 final size:3
Alignment explanation
Indices: 46122255--46122302 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
46122245 CTTATAGGCT
46122255 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
46122303 TTGAACGGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:46125530 original size:23 final size:23
Alignment explanation
Indices: 46125504--46125555 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
46125494 AGGGTATTTT
46125504 ATAAAAATAATACAAAAATAAAA
1 ATAAAAATAATACAAAAATAAAA
* *
46125527 ATAAAAATAATACCAAAATAATA
1 ATAAAAATAATACAAAAATAAAA
46125550 A-AAAAA
1 ATAAAAA
46125556 CAGTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (23 bp):
ATAAAAATAATACAAAAATAAAA
Found at i:46125555 original size:11 final size:11
Alignment explanation
Indices: 46125506--46125555 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
46125496 GGTATTTTAT
*
46125506 AAAAATAATAC
1 AAAAATAATAA
*
46125517 AAAAATAAAAA
1 AAAAATAATAA
*
46125528 TAAAAATAATAC
1 -AAAAATAATAA
*
46125540 CAAAATAATAA
1 AAAAATAATAA
46125551 AAAAA
1 AAAAA
46125556 CAGTTAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:46126189 original size:156 final size:154
Alignment explanation
Indices: 46125766--46126425 Score: 897
Period size: 156 Copynumber: 4.3 Consensus size: 154
46125756 TTAGTGTGTG
*
46125766 TTTTATTGAAAGTAATAAAATTCGGAAAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTT
1 TTTTATTGAAAGTAATAAAATT-GGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
* * * *
46125830 T-AATTTATTTAAAACACACACTAAATGAATACATTTCAAATATAATGTACTGAAATAATGTAAA
65 TAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
46125894 ATAATAAAATTAGAAAATAGTATAT
130 ATAATAAAATTAGAAAATAATATAT
* * *
46125919 TTTT-TT-AAAGTAATAAAATTTGGGGAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTT
1 TTTTATTGAAAGTAATAAAA-TTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
* * *
46125982 TAAAAATTATTTAAAAAACACAGTAAATTAATACATTTTAAACATAATGTACTAAAATAATGTAA
65 T-AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
46126047 AATAATAAAA-TACGAAACTAATATAT
129 AATAATAAAATTA-GAAAATAATATAT
*
46126073 TTTTATTGAAAGTAATAAAATCTAGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
1 TTTTATTGAAAGTAATAAAAT-TGGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT
* * *
46126138 TAATTTTATTTAAAAAATACAGTAAATTAATACATTTCAAACATAATTGTACTAAAATAATGTAA
65 TAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAA-TGTACTAAAATAATGTAA
46126203 AATAATAAAA-TATGAAAATAATATAT
129 AATAATAAAATTA-GAAAATAATATAT
* ** * * *
46126229 ATTTATTGAAAGTAATAAAATTCGGGATTAGAATACGAACAAATGGCTGAAATAATG-GTTTTTT
1 TTTTATTGAAAGTAATAAAATT-GGGAAAAAAATACGAACAAAGGGCCGAAATAA-GAGTTTTTT
*
46126293 TTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAGTGTAA
64 TTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
* *
46126358 AATAAAAAAAATTAGAAAATAGTATA-
129 AAT-AATAAAATTAGAAAATAATATAT
* **
46126384 TTTT-TTAAAAGTAATAAAATCTGAAAAAAAAATACGAACAAA
1 TTTTATTGAAAGTAATAAAAT-TGGGAAAAAAATACGAACAAA
46126426 AGGTCAAAAT
Statistics
Matches: 450, Mismatches: 43, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
151 43 0.10
152 11 0.02
153 6 0.01
154 110 0.24
155 69 0.15
156 208 0.46
157 3 0.01
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (154 bp):
TTTTATTGAAAGTAATAAAATTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTT
AAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATTAGAAAATAATATAT
Found at i:46126582 original size:19 final size:19
Alignment explanation
Indices: 46126549--46126593 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
46126539 AAATAAAAAA
*
46126549 TATTTATATTGTTTTGATAT
1 TATTTTTATTGTTTTG-TAT
*
46126569 T-TTTTTATTTTTTTGTAT
1 TATTTTTATTGTTTTGTAT
46126587 TATTTTT
1 TATTTTT
46126594 GTAAAGGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 17 0.77
20 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.76
Consensus pattern (19 bp):
TATTTTTATTGTTTTGTAT
Found at i:46128080 original size:123 final size:123
Alignment explanation
Indices: 46127861--46128139 Score: 488
Period size: 123 Copynumber: 2.3 Consensus size: 123
46127851 TTATTTCTAG
*
46127861 TTGACGTTTCTGGTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * *
46127926 AAATTGTGTCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAA-TTTTT
65 AAATCGTGACATCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
46127984 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCT-AGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
46128049 AAATCGTGACATCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
65 AAATCGTGACATCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
46128108 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
1 TTGACGTTTCT-AGCAAATAGTATAAAATCGC
46128140 GCCCTCGTGG
Statistics
Matches: 149, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
123 112 0.75
124 37 0.25
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (123 bp):
TTGACGTTTCTAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGA
AATCGTGACATCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:46131327 original size:30 final size:30
Alignment explanation
Indices: 46131285--46131992 Score: 949
Period size: 30 Copynumber: 23.8 Consensus size: 30
46131275 TTGTTAATGG
*
46131285 TTAGGTTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131315 TTATGGTTTTTAATTAAATTAGATTAGGTTAGGGT
1 TTAGGGTTTTTAATT--A--A-ATTAGGTTAGGGT
*
46131350 TTAAGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131380 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGT
1 TTAGGGTTTTTAATTAAATTAGGTTA--G----GGT
*
46131416 TTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131445 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131475 TTAGGGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131504 TTAGAGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131533 TTAGAGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131563 TTACGGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131592 TTAGGGTTTTTAATTAAATTAAGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131622 TTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131651 TTA-GGTTTTTAATTAAATTAGGTTA--G-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131677 -T---GTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131703 TTAGGGTTTTTAATTAAATTAAGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131733 TTAGGATTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131762 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGT
1 TTAGGGTTTTTAATT-AA--A--TTA-GG-TTAGGGT
46131799 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131829 TTAGAGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131858 TTAGGGTTTTTAATTAAATTAAGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131887 TTAGGGTTTTTAATTAAATTAGGTTA--G-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131914 --A--GTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
** *
46131940 TTATAGTTTTTAATTAAATTAGGTTAGTGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131970 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
46131993 ATTTTTATTA
Statistics
Matches: 619, Mismatches: 23, Indels: 72
0.87 0.03 0.10
Matches are distributed among these distances:
23 42 0.07
25 4 0.01
26 1 0.00
27 2 0.00
28 22 0.04
29 181 0.29
30 271 0.44
31 3 0.00
32 6 0.01
33 1 0.00
34 6 0.01
35 29 0.05
36 36 0.06
37 15 0.02
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (30 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGT
Found at i:46131470 original size:59 final size:60
Alignment explanation
Indices: 46131277--46131992 Score: 814
Period size: 59 Copynumber: 12.0 Consensus size: 60
46131267 AAAAACTTTT
* * *
46131277 GTTAATGG-TTAGGTTTTTTAATTAAATTAGGTTAGGGTTTATGGTTTTTAATTAAATTAGATTA
1 GTTAA-GGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATT--A--A-ATTA
46131341 G
60 G
* * *
46131342 GTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATT-AA--A--TTA-
46131407 G
60 G
46131408 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGG-TTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* * *
46131467 GTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGAGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* * * *
46131526 GTT-AGGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTACGGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* *
46131585 GTT-AGGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAA
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* *
46131644 GTT-AGGGTTA-GGTTTTTAATT--A--AA-TTA-GG-TTAGTGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* *
46131695 GTTAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGATTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
*
46131755 GTT-AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTAGGGTTTTTAATTAAATT
1 GTTAAGGTTTAGGGTTTTTAATTAAATTA----A--G-TTAGGGTTTAGGGTTTTTAATTAAATT
46131819 AG
59 AG
* * * *
46131821 GTTAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAA
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* *
46131880 GTT-AGGGTTAGGGTTTTTAATT--A--AA-TTA-GG-TTAGAGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
* ** * *
46131932 GTTAGGGTTTATAGTTTTTAATTAAATTAGGTTAGTGTTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
46131992 G
1 G
46131993 ATTTTTATTA
Statistics
Matches: 573, Mismatches: 47, Indels: 67
0.83 0.07 0.10
Matches are distributed among these distances:
51 23 0.04
52 32 0.06
53 32 0.06
54 3 0.01
55 2 0.00
56 2 0.00
57 3 0.01
58 63 0.11
59 195 0.34
60 54 0.09
61 1 0.00
62 2 0.00
63 2 0.00
64 6 0.01
65 65 0.11
66 66 0.12
67 22 0.04
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (60 bp):
GTTAAGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTTAGGGTTTTTAATTAAATTAG
Found at i:46131729 original size:23 final size:23
Alignment explanation
Indices: 46131622--46131734 Score: 100
Period size: 23 Copynumber: 4.4 Consensus size: 23
46131612 AAGTTAGGGT
46131622 TTAGGGTTTTTAATTAAATTAAG
1 TTAGGGTTTTTAATTAAATTAAG
*
46131645 TTAGGGTTAGGTTTTTAATTAAATTAGG
1 TTA--G---GGTTTTTAATTAAATTAAG
*
46131673 TTAGTGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTA----A--G
46131702 TTTAGGGTTTTTAATTAAATTAAG
1 -TTAGGGTTTTTAATTAAATTAAG
46131726 TTAGGGTTT
1 TTAGGGTTT
46131735 AGGATTTTTA
Statistics
Matches: 74, Mismatches: 4, Indels: 24
0.73 0.04 0.24
Matches are distributed among these distances:
23 28 0.38
24 1 0.01
25 1 0.01
26 2 0.03
28 21 0.28
29 1 0.01
30 20 0.27
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAAG
Found at i:46131805 original size:37 final size:36
Alignment explanation
Indices: 46131756--46131918 Score: 168
Period size: 29 Copynumber: 5.1 Consensus size: 36
46131746 TTAAATTAGG
46131756 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131792 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131829 TTA--G--A--GTTTTTAATT-AA--A--TTA-GG-
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131852 TTAGGGTTAGGGTTTTTAATTAAATTA----A--G-
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
46131881 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGAGT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
46131917 TT
1 TT
46131919 TTAATTAAAT
Statistics
Matches: 110, Mismatches: 0, Indels: 34
0.76 0.00 0.24
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 4 0.04
27 2 0.02
29 40 0.36
30 13 0.12
32 2 0.02
33 1 0.01
35 2 0.02
36 8 0.07
37 33 0.30
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (36 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
Found at i:46131825 original size:23 final size:23
Alignment explanation
Indices: 46131799--46131941 Score: 106
Period size: 23 Copynumber: 5.4 Consensus size: 23
46131789 GGTTTAGGGT
46131799 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
46131822 TTAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGG
1 TTA--G----G-GTTTTTAATTAAATT-----AGG
46131857 GTTAGGGTTTTTAATTAAATTAAGTTAGGG
1 -TTAGGGTTTTTAATT-A---AA-TTA-GG
46131887 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
46131910 TTAGAGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
46131933 TTAGGGTTT
1 TTAGGGTTT
46131942 ATAGTTTTTA
Statistics
Matches: 99, Mismatches: 2, Indels: 38
0.71 0.01 0.27
Matches are distributed among these distances:
23 35 0.35
24 3 0.03
25 3 0.03
28 1 0.01
29 27 0.27
30 19 0.19
33 2 0.02
34 3 0.03
35 3 0.03
36 3 0.03
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:46131971 original size:23 final size:23
Alignment explanation
Indices: 46131874--46131971 Score: 97
Period size: 23 Copynumber: 3.9 Consensus size: 23
46131864 TTTTTAATTA
* *
46131874 AATTAAGTTAGGGTTAGGGTTTTT
1 AATTAAATTA-GGTTAGTGTTTTT
*
46131898 AATTAAATTAGGTTAGAGTTTTT
1 AATTAAATTAGGTTAGTGTTTTT
46131921 AATTAAATTAGGTTAGGGTTTATAGTTTTT
1 AATTAAATTAGGTTA--G----T-GTTTTT
46131951 AATTAAATTAGGTTAGTGTTT
1 AATTAAATTAGGTTAGTGTTT
46131972 AGGGTTTTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
23 31 0.48
24 10 0.16
25 1 0.02
28 1 0.02
30 21 0.33
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (23 bp):
AATTAAATTAGGTTAGTGTTTTT
Found at i:46134416 original size:30 final size:30
Alignment explanation
Indices: 46134380--46134438 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
46134370 TTAATATGGA
*
46134380 TTTGAGAGATTTTTGGAAGGAAATTGAGAG
1 TTTGAGAGAATTTTGGAAGGAAATTGAGAG
46134410 TTTGAGAGAATTTTGGAAGGAAATTGAGA
1 TTTGAGAGAATTTTGGAAGGAAATTGAGA
46134439 TAGGATTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (30 bp):
TTTGAGAGAATTTTGGAAGGAAATTGAGAG
Found at i:46135832 original size:7 final size:7
Alignment explanation
Indices: 46135820--46135860 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
46135810 AGATGATTGA
46135820 CTAAACC
1 CTAAACC
46135827 CTAAACC
1 CTAAACC
46135834 CTAAACC
1 CTAAACC
46135841 CTAAACC
1 CTAAACC
*
46135848 TTAAACC
1 CTAAACC
46135855 CTAAAC
1 CTAAAC
46135861 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:46150189 original size:40 final size:39
Alignment explanation
Indices: 46150114--46150213 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 39
46150104 ATAATGAAAT
*
46150114 ATTTTTAGGTATTTTTAGAATTTGTTTTCAAATTTTTTGG
1 ATTTTTAGGTATTTTTAGAATTTCTTTT-AAATTTTTTGG
* *
46150154 ATTTTTTGGTATTTTTAGAAATTTCTCTTT-GATTTTTT--
1 ATTTTTAGGTATTTTTAG-AATTTCT-TTTAAATTTTTTGG
* *
46150192 ATTTTTA-TTAATTTTAGAATTT
1 ATTTTTAGGTATTTTTAGAATTT
46150214 TTAAAATACG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
36 5 0.10
37 8 0.15
38 6 0.12
40 24 0.46
41 6 0.12
42 3 0.06
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (39 bp):
ATTTTTAGGTATTTTTAGAATTTCTTTTAAATTTTTTGG
Found at i:46153002 original size:34 final size:34
Alignment explanation
Indices: 46152950--46153058 Score: 121
Period size: 34 Copynumber: 3.2 Consensus size: 34
46152940 GTCTCGGTGG
* * * *
46152950 ACTTA-CTTTGCTCTGTGTTTACTGTCTCGACAA
1 ACTTATCTTTGTTCCGTGTTTACTGTCCCAACAA
* *
46152983 ACTTATCTTTGTTCCGTGTTTATTGTCCCAACAG
1 ACTTATCTTTGTTCCGTGTTTACTGTCCCAACAA
* * *
46153017 ACTTATCCTTCTTCCGTGTTTACTGTCCCAACAG
1 ACTTATCTTTGTTCCGTGTTTACTGTCCCAACAA
*
46153051 GCTTATCT
1 ACTTATCT
46153059 ATGTGGATGC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
33 5 0.08
34 59 0.92
ACGTcount: A:0.17, C:0.27, G:0.14, T:0.42
Consensus pattern (34 bp):
ACTTATCTTTGTTCCGTGTTTACTGTCCCAACAA
Found at i:46153264 original size:51 final size:49
Alignment explanation
Indices: 46153183--46153279 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 49
46153173 TATCATAATA
* * *
46153183 TCTTTCATTTATGGTCTTACACTGATTACCTTATACCTTGCTACCATGGCG
1 TCTTTCATTCATGGTCTTACACTCATTACCTT-TACCGTG-TACCATGGCG
*
46153234 TCTTTCATTCATGGTCTTATAC-CATATACCTTTACCGTGTACCATG
1 TCTTTCATTCATGGTCTTACACTCAT-TACCTTTACCGTGTACCATG
46153280 TTGCCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 7 0.17
50 8 0.20
51 26 0.63
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (49 bp):
TCTTTCATTCATGGTCTTACACTCATTACCTTTACCGTGTACCATGGCG
Found at i:46161972 original size:25 final size:25
Alignment explanation
Indices: 46161944--46161995 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
46161934 ACTATTGATC
46161944 AAACATTGTATATTATTTGAATATT
1 AAACATTGTATATTATTTGAATATT
46161969 AAACATTGTATATTATTTGAATATT
1 AAACATTGTATATTATTTGAATATT
46161994 AA
1 AA
46161996 TATAAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (25 bp):
AAACATTGTATATTATTTGAATATT
Found at i:46176836 original size:50 final size:49
Alignment explanation
Indices: 46176770--46176958 Score: 193
Period size: 50 Copynumber: 3.8 Consensus size: 49
46176760 AACGAAACAG
* * * * *
46176770 AATAATATATAGAACAATTTGAAGTAAATAATATAAAACAATCTAAAGTA
1 AATAATATATAAAACAATTTAAAATAAATAATATAAAACGAT-TAAAATA
* *
46176820 AATAATATGTAAAACAAATTAAAATAAATAATATACAAAGCGATTTAAAATA
1 AATAATATATAAAACAATTTAAAATAAATAATATA-AAA-CGA-TTAAAATA
* * * *
46176872 AATAACATATAAGACAATTTAAAAT-AAT-ATATAAAAGGCTTAAAATA
1 AATAATATATAAAACAATTTAAAATAAATAATATAAAACGATTAAAATA
* *
46176919 AATAATATGTAAAAAGAAGTTTAAAATAAATAATATAAAA
1 AATAATATAT-AAAACAA-TTTAAAATAAATAATATAAAA
46176959 ATTAGTTTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
47 16 0.14
48 6 0.05
49 11 0.10
50 38 0.33
51 14 0.12
52 29 0.25
53 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.28
Consensus pattern (49 bp):
AATAATATATAAAACAATTTAAAATAAATAATATAAAACGATTAAAATA
Found at i:46176895 original size:26 final size:26
Alignment explanation
Indices: 46176770--46177184 Score: 157
Period size: 26 Copynumber: 15.8 Consensus size: 26
46176760 AACGAAACAG
* * *
46176770 AATAATATATAGAACAATTTGAAGTA
1 AATAATATATAAAACAATTTAAAATA
* *
46176796 AAT-A-ATATAAAACAATCTAAAGTA
1 AATAATATATAAAACAATTTAAAATA
* *
46176820 AATAATATGTAAAACAAATTAAAATA
1 AATAATATATAAAACAATTTAAAATA
* * *
46176846 AATAATATACAAAGCGATTTAAAATA
1 AATAATATATAAAACAATTTAAAATA
* *
46176872 AATAACATATAAGACAATTTAAAAT-
1 AATAATATATAAAACAATTTAAAATA
*
46176897 AAT-ATATA-AAAGGC---TTAAAATA
1 AATAATATATAAA-ACAATTTAAAATA
* *
46176919 AATAATATGTAAAAAGAAGTTTAAAATA
1 AATAATATAT-AAAACAA-TTTAAAATA
* *
46176947 AATAATATA-AAAATTAGTTTTTAAAAAATA
1 AATAATATATAAAA-CA--ATTT--AAAATA
* * **
46176977 ACTGATATATATAAAAAGACAGTACAAAATA
1 A---ATA-ATATATAAA-ACAATTTAAAATA
* *
46177008 AATAAATAATATATATGACAGTTTAAAAATA
1 AAT-AAT-ATATA-A-AACAATTT-AAAATA
*
46177039 AATAATATATAAAA-AATTTAAAATG
1 AATAATATATAAAACAATTTAAAATA
* * * ** *
46177064 GATAATAGTTTGAAGTAGTTTAAAAT-
1 AATAATA-TATAAAACAATTTAAAATA
* * **
46177090 -A-CATGT-GGAAA-AA-TTAAAATA
1 AATAATATATAAAACAATTTAAAATA
*
46177111 AATAATA-ATAAAACAATATAAAATA
1 AATAATATATAAAACAATTTAAAATA
*
46177136 AATAATATATGAGAAAAAAGGTTTAAAATA
1 AATAATATAT-A-AAACAA--TTTAAAATA
46177166 AATAA-ATA-AATAACAATTT
1 AATAATATATAA-AACAATTT
46177185 TGCGAAAATA
Statistics
Matches: 293, Mismatches: 55, Indels: 83
0.68 0.13 0.19
Matches are distributed among these distances:
20 7 0.02
21 8 0.03
22 7 0.02
23 12 0.04
24 29 0.10
25 37 0.13
26 75 0.26
27 17 0.06
28 29 0.10
29 13 0.04
30 29 0.10
31 16 0.05
33 4 0.01
34 5 0.02
35 4 0.01
36 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.29
Consensus pattern (26 bp):
AATAATATATAAAACAATTTAAAATA
Found at i:46177020 original size:31 final size:29
Alignment explanation
Indices: 46176893--46177053 Score: 97
Period size: 31 Copynumber: 5.6 Consensus size: 29
46176883 AGACAATTTA
*
46176893 AAATAATATAT-AAAAGGC--TT-AAAAT
1 AAATAATATATAAAAAGACAGTTAAAAAT
* *
46176918 AAATAATATGTAAAAAGA-AGTTTAAAAT
1 AAATAATATATAAAAAGACAGTTAAAAAT
***
46176946 AAATAATATA-AAAATTAG-TTTTTAAAAAAT
1 AAATAATATATAAAA--AGACAGTT-AAAAAT
*
46176976 AACTGATATATATAAAAAGACAG-TACAAAAT
1 AAAT-A-ATATATAAAAAGACAGTTA-AAAAT
* *
46177007 AAATAA-ATAATATATATGACAGTTTAAAAAT
1 AAATAATAT-ATA-AAAAGACAG-TTAAAAAT
46177038 AAATAATATATAAAAA
1 AAATAATATATAAAAA
46177054 ATTTAAAATG
Statistics
Matches: 103, Mismatches: 15, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
25 10 0.10
26 5 0.05
27 6 0.06
28 16 0.16
29 8 0.08
30 19 0.18
31 26 0.25
32 9 0.09
33 4 0.04
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATAATATATAAAAAGACAGTTAAAAAT
Found at i:46177053 original size:60 final size:58
Alignment explanation
Indices: 46176913--46177053 Score: 142
Period size: 60 Copynumber: 2.4 Consensus size: 58
46176903 TAAAAGGCTT
* ** * ***
46176913 AAAATAAATAATATGTAAAAAGAAGTTTAAAATAAATAATATAAAAATTAGTTTTTAA
1 AAAATAAATAATATATAAAAAGAAGTACAAAATAAATAATATAAAAATGACAGTTTAA
*
46176971 AAAATAACTGATATATATAAAAAGACAGTACAAAATAAATAA-ATAATATATATGACAGTTT-A
1 AAAATAAAT-A-ATATATAAAAAGA-AGTACAAAATAAATAATATAA-A-A-ATGACAGTTTAA
46177033 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATATAAAAA
46177054 ATTTAAAATG
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
58 8 0.12
59 1 0.01
60 27 0.40
61 16 0.24
62 10 0.15
63 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (58 bp):
AAAATAAATAATATATAAAAAGAAGTACAAAATAAATAATATAAAAATGACAGTTTAA
Found at i:46177061 original size:25 final size:25
Alignment explanation
Indices: 46177007--46177170 Score: 70
Period size: 27 Copynumber: 6.4 Consensus size: 25
46176997 AGTACAAAAT
* * *
46177007 AAATAAATAATATATATGACAGTTTAA
1 AAATAAATAATATATA-AAAAATTT-A
46177034 AAATAAATAATATATAAAAAATTTA
1 AAATAAATAATATATAAAAAATTTA
** * ** *
46177059 AAATGGATAATAGTTTGAAGTAGTTTA
1 AAATAAATAATA-TAT-AAAAAATTTA
* * **
46177086 AAAT--A-CATGT-GGAAAAA-TTA
1 AAATAAATAATATATAAAAAATTTA
*
46177106 AAATAAATAATA-ATAAAACAATATA
1 AAATAAATAATATATAAAA-AATTTA
46177131 AAATAAATAATATATGAGAAAAAAGGTTTA
1 AAATAAATAATATAT---AAAAAA--TTTA
46177161 AAATAAATAA
1 AAATAAATAA
46177171 ATAAATAACA
Statistics
Matches: 101, Mismatches: 22, Indels: 25
0.68 0.15 0.17
Matches are distributed among these distances:
20 7 0.07
21 2 0.02
22 1 0.01
23 6 0.06
24 4 0.04
25 26 0.26
26 9 0.09
27 27 0.27
28 2 0.02
29 4 0.04
30 13 0.13
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (25 bp):
AAATAAATAATATATAAAAAATTTA
Found at i:46177142 original size:14 final size:16
Alignment explanation
Indices: 46177104--46177144 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
46177094 GTGGAAAAAT
46177104 TAAAATAA-ATAATAA
1 TAAAATAATATAATAA
*
46177119 TAAAACAATATAA-AA
1 TAAAATAATATAATAA
46177134 T-AAATAATATA
1 TAAAATAATATA
46177145 TGAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 10 0.43
16 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAATAATATAATAA
Found at i:46177954 original size:20 final size:21
Alignment explanation
Indices: 46177931--46177969 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46177921 AACAAATGCC
46177931 AACAAAG-AGAAAAAAATAGT
1 AACAAAGAAGAAAAAAATAGT
46177951 AACAAAGAAGAAAAAAATA
1 AACAAAGAAGAAAAAAATA
46177970 TAAACTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.74, C:0.05, G:0.13, T:0.08
Consensus pattern (21 bp):
AACAAAGAAGAAAAAAATAGT
Found at i:46178003 original size:19 final size:21
Alignment explanation
Indices: 46177979--46178024 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 21
46177969 ATAAACTACC
46177979 TTTGAAATCT-CT-ATTTTTG
1 TTTGAAATCTACTGATTTTTG
*
46177998 TTTGAAATTTACTGATTTTTG
1 TTTGAAATCTACTGATTTTTG
46178019 TATTGA
1 T-TTGA
46178025 TTCTCTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 8 0.35
22 4 0.17
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.57
Consensus pattern (21 bp):
TTTGAAATCTACTGATTTTTG
Found at i:46183262 original size:18 final size:17
Alignment explanation
Indices: 46183229--46183267 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46183219 TTGTATAAAT
46183229 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
46183247 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
46183264 TGTG
1 TGTG
46183268 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:46183520 original size:23 final size:23
Alignment explanation
Indices: 46183493--46183590 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
46183483 AGTGTTATTG
46183493 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
46183516 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
46183539 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46183561 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
46183584 ATCAGTG
1 ATCAGTG
46183591 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:46183559 original size:45 final size:45
Alignment explanation
Indices: 46183495--46183583 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
46183485 TGTTATTGAT
* *
46183495 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
46183540 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
46183584 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:46199073 original size:16 final size:16
Alignment explanation
Indices: 46199052--46199097 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
46199042 TTTATATAAT
46199052 TTAAATTCAGTACTTA
1 TTAAATTCAGTACTTA
*
46199068 TTAAATTCAATA-TTA
1 TTAAATTCAGTACTTA
*
46199083 -AAAATTCAGTACTTA
1 TTAAATTCAGTACTTA
46199098 ATTTCTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 9 0.35
15 6 0.23
16 11 0.42
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.41
Consensus pattern (16 bp):
TTAAATTCAGTACTTA
Found at i:46204904 original size:15 final size:16
Alignment explanation
Indices: 46204884--46204918 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
46204874 TTTTTTTAAT
46204884 TTCTAAGT-AAGGAAA
1 TTCTAAGTAAAGGAAA
*
46204899 TTCTAAGTAAAGGAAT
1 TTCTAAGTAAAGGAAA
46204915 TTCT
1 TTCT
46204919 TTTTGTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (16 bp):
TTCTAAGTAAAGGAAA
Found at i:46224347 original size:15 final size:14
Alignment explanation
Indices: 46224324--46224356 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
46224314 TTGATTCCTA
46224324 AAAAAATGA--ATG
1 AAAAAATGATGATG
46224336 AAAAAATGATGATG
1 AAAAAATGATGATG
46224350 AAAAAAT
1 AAAAAAT
46224357 AAAAATAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (14 bp):
AAAAAATGATGATG
Found at i:46225687 original size:44 final size:43
Alignment explanation
Indices: 46225624--46226088 Score: 231
Period size: 44 Copynumber: 10.2 Consensus size: 43
46225614 TCCCTAAGCA
* * *
46225624 ACAGTGGAACAGATCGAAGCCAGAATTCTTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCAAGAA-TCTTATCTCCCTGAGATT
* * * *
46225668 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGGTT
1 ACAGTGGAGCAGATTGAAGCAAG-AATCTTATCTCCCTGAGATT
* ** *
46225712 ACAGTGGAGCAGATTAAAATAAAGAATCTTATCTCTCTGA-AGTT
1 ACAGTGGAGCAGATT-GAAGCAAGAATCTTATCTCCCTGAGA-TT
* * *
46225756 ACAACAGAGTAGATCACATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 ---AC--AGT-G----GAGCAGATTGAAGCAAG-AATCTTATCTCCCTGAGATT
* * *
46225810 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCAAG-AATCTTATCTCCCTGAGATT
* ** * ** * *
46225854 ACAATGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTT
1 ACAGTGGAGCAGATT-GAAGCAAGAATCTTATCTCCCTGAGA-TT
* *
46225898 ACAGCAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
1 --A-C--AGT-G---G-AGCAGATTGAAGCAAG-AATCTTATCTCCCTGAGATT
*
46225952 ACAGTGGAGCAGATTGAAGCAAGTAATCCTATCTCCCTGAGATT
1 ACAGTGGAGCAGATTGAAGCAAG-AATCTTATCTCCCTGAGATT
* * * *
46225996 ACAGTGGAGCGGATT-AAGATAAAGGATCTTATCTCTCTGA-AGTT
1 ACAGTGGAGCAGATTGAAG--CAAGAATCTTATCTCCCTGAGA-TT
* * * * * ** *
46226040 ACAGTAGAGTAGATCGTATC--GGGTCTTATCTCCCTAAGATT
1 ACAGTGGAGCAGATTGAAGCAAGAATCTTATCTCCCTGAGATT
46226081 ACAGTGGA
1 ACAGTGGA
46226089 ATAGACCGAA
Statistics
Matches: 319, Mismatches: 68, Indels: 71
0.70 0.15 0.16
Matches are distributed among these distances:
41 23 0.07
42 1 0.00
43 5 0.02
44 197 0.62
45 15 0.05
46 1 0.00
47 3 0.01
48 2 0.01
49 10 0.03
50 2 0.01
51 3 0.01
52 1 0.00
53 9 0.03
54 45 0.14
55 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (43 bp):
ACAGTGGAGCAGATTGAAGCAAGAATCTTATCTCCCTGAGATT
Found at i:46225856 original size:98 final size:97
Alignment explanation
Indices: 46225677--46225857 Score: 231
Period size: 98 Copynumber: 1.8 Consensus size: 97
46225667 TACAGCGGAG
* * * * *
46225677 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAAAGAATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
46225742 ATCTCTCTGAAGTTACAACAGAGTAGATCACAT
65 ATCTCCCTGAAGTTACAACAGAGTAGATCACAT
* **
46225775 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATCC
46225839 TATCTCCCTG-AGATTACAA
64 TATCTCCCTGAAG-TTACAA
46225858 TGGAGTGGAT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
97 4 0.06
98 64 0.90
99 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAACAGAGTAGATCACAT
Found at i:46225998 original size:98 final size:98
Alignment explanation
Indices: 46225819--46225999 Score: 222
Period size: 98 Copynumber: 1.8 Consensus size: 98
46225809 TACAGCGGAG
* * ** * * *
46225819 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGTGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAATGGAGCAGATTAAAAGAAAGAATCCT
*
46225884 ATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
66 ATCTCCCTGAAGTTACAGCAGAGTAGATCGCAT
* * * *
46225917 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGCAAGTAATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAATGGAGCAGATTAAAAGAAAG-AATCC
46225981 TATCTCCCTG-AGATTACAG
65 TATCTCCCTGAAG-TTACAG
46226000 TGGAGCGGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
97 7 0.10
98 62 0.90
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (98 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAATGGAGCAGATTAAAAGAAAGAATCCT
ATCTCCCTGAAGTTACAGCAGAGTAGATCGCAT
Found at i:46226055 original size:142 final size:142
Alignment explanation
Indices: 46225633--46226055 Score: 729
Period size: 142 Copynumber: 3.0 Consensus size: 142
46225623 AACAGTGGAA
* *
46225633 CAGATCGAAGCCAGAATTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
46225698 ATCTCCCTGAGGTTACAGTGGAGCAGATTAAAATAAAGAATCTTATCTCTCTGAAGTTACAACAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
*
46225763 AGTAGATCACAT
131 AGTAGATCGCAT
46225775 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
46225840 ATCTCCCTGAGATTACAATGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
46225905 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
46225917 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
46225982 ATCTCCCTGAGATTACAGTGGAGCGGATTAAGATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
46226047 AGTAGATCG
131 AGTAGATCG
46226056 TATCGGGTCT
Statistics
Matches: 266, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 266 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
AGTAGATCGCAT
Found at i:46232334 original size:67 final size:67
Alignment explanation
Indices: 46232261--46232396 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
46232251 CTGTCATACG
*
46232261 TAGAAGTGTTGGTGCTGAAAAAACAATAGACTTGTTAAAATTTATGGACTGGCTCGAGCACTGCT
1 TAGAAGTGTTGGTGCTGAAAAAACAATAGACTTGTTAAAATTTATGGACTGACTCGAGCACTGCT
46232326 CA
66 CA
*
46232328 TAGAAGTGTTGGTGCTGAAAAAACAATAGACTTGTTGAAATTTATGGACTGACTCGAGCACTGCT
1 TAGAAGTGTTGGTGCTGAAAAAACAATAGACTTGTTAAAATTTATGGACTGACTCGAGCACTGCT
46232393 CA
66 CA
46232395 TA
1 TA
46232397 CTCTCACAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (67 bp):
TAGAAGTGTTGGTGCTGAAAAAACAATAGACTTGTTAAAATTTATGGACTGACTCGAGCACTGCT
CA
Found at i:46233317 original size:30 final size:31
Alignment explanation
Indices: 46233252--46233323 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
46233242 ACAATTGAAT
*
46233252 CAAAATCAAAGTTTTATGTGTATATTTCAAC
1 CAAAATCAAAGTTTTATGTGTATATTGCAAC
46233283 CAAAATCAAA-TTTTAATGTGTATAGTTGC-A-
1 CAAAATCAAAGTTTT-ATGTGTATA-TTGCAAC
46233313 CAAAATCAAAG
1 CAAAATCAAAG
46233324 ATTATGTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 14 0.38
31 20 0.54
32 3 0.08
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (31 bp):
CAAAATCAAAGTTTTATGTGTATATTGCAAC
Found at i:46234944 original size:2 final size:2
Alignment explanation
Indices: 46234937--46234961 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46234927 CTTTGAGCCT
46234937 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
46234962 TTCCATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46235000 original size:18 final size:18
Alignment explanation
Indices: 46234977--46235022 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
46234967 TAATTGGATG
*
46234977 CTTAAATATGTTTTAAAA
1 CTTAAATATGTTGTAAAA
*
46234995 CTTAAATATGTTGTAACA
1 CTTAAATATGTTGTAAAA
*
46235013 CATAAATATG
1 CTTAAATATG
46235023 GGGTGGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (18 bp):
CTTAAATATGTTGTAAAA
Found at i:46235587 original size:9 final size:9
Alignment explanation
Indices: 46235573--46235610 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
46235563 TGACCAGCCA
46235573 AAAAATATT
1 AAAAATATT
46235582 AAAAATA-T
1 AAAAATATT
*
46235590 AAAAGTTATT
1 AAAA-ATATT
46235600 AAAAATATT
1 AAAAATATT
46235609 AA
1 AA
46235611 GATTAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 5 0.20
9 15 0.60
10 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:46249276 original size:19 final size:19
Alignment explanation
Indices: 46249248--46249290 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
46249238 GAGGTATCAT
46249248 AATTTCTAAT-AGATACCAA
1 AATTTCTAATCA-ATACCAA
*
46249267 AATTTTTAATCAATACC-A
1 AATTTCTAATCAATACCAA
46249285 AATTTC
1 AATTTC
46249291 CAACGCGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 14 0.67
20 1 0.05
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.37
Consensus pattern (19 bp):
AATTTCTAATCAATACCAA
Found at i:46250464 original size:21 final size:22
Alignment explanation
Indices: 46250440--46250486 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
46250430 TATCATGATT
*
46250440 TAAAACCTTAAAAAAT-TTATA
1 TAAAACCATAAAAAATATTATA
*
46250461 TAAAATCATAAAAAATATTATA
1 TAAAACCATAAAAAATATTATA
46250483 -AAAA
1 TAAAA
46250487 TATTTTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAACCATAAAAAATATTATA
Found at i:46250487 original size:21 final size:21
Alignment explanation
Indices: 46250448--46250487 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
46250438 TTTAAAACCT
46250448 TAAAAAATTTATATAAAATCA
1 TAAAAAATTTATATAAAATCA
46250469 TAAAAAATATTATA-AAAAT
1 TAAAAAAT-TTATATAAAAT
46250488 ATTTTGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAAATTTATATAAAATCA
Found at i:46251628 original size:15 final size:15
Alignment explanation
Indices: 46251583--46251629 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
46251573 CGTCCGGCCC
46251583 AAAACCAAAAATAAA
1 AAAACCAAAAATAAA
*
46251598 TAAA-CAAAACAT--A
1 AAAACCAAAA-ATAAA
46251611 AAAACCAAAAATAAA
1 AAAACCAAAAATAAA
46251626 AAAA
1 AAAA
46251630 AATTCAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 6 0.23
14 10 0.38
15 10 0.38
ACGTcount: A:0.79, C:0.13, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAACCAAAAATAAA
Found at i:46252963 original size:17 final size:20
Alignment explanation
Indices: 46252941--46252978 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
46252931 CTTTATTTAC
46252941 TAAAT-CTT-TTATTT-TTT
1 TAAATCCTTGTTATTTATTT
46252958 TAAATCCTTGTTATTTATTT
1 TAAATCCTTGTTATTTATTT
46252978 T
1 T
46252979 CTTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
19 6 0.33
20 4 0.22
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (20 bp):
TAAATCCTTGTTATTTATTT
Found at i:46253012 original size:15 final size:16
Alignment explanation
Indices: 46252980--46253020 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
46252970 ATTTATTTTC
*
46252980 TTTATTATTATGCATT
1 TTTATTATTATCCATT
*
46252996 TTTATT-TTATCC-CT
1 TTTATTATTATCCATT
46253010 TTTATTATTAT
1 TTTATTATTAT
46253021 TATTTCTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 7 0.32
15 9 0.41
16 6 0.27
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATTATTATCCATT
Found at i:46253170 original size:12 final size:12
Alignment explanation
Indices: 46253155--46253179 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46253145 TCTTTTTTAT
46253155 TTTATTTATTCA
1 TTTATTTATTCA
46253167 TTTATTTATTCA
1 TTTATTTATTCA
46253179 T
1 T
46253180 CTATCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:46264465 original size:17 final size:17
Alignment explanation
Indices: 46264443--46264495 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
46264433 TAATATTAGT
46264443 TTATTAATATTTTATTA
1 TTATTAATATTTTATTA
***
46264460 TTATTAGCCTTTTATTA
1 TTATTAATATTTTATTA
* *
46264477 TTATTACTA-TATATTA
1 TTATTAATATTTTATTA
46264493 TTA
1 TTA
46264496 CTCTTATTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATTAATATTTTATTA
Found at i:46264481 original size:28 final size:28
Alignment explanation
Indices: 46264442--46264508 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
46264432 TTAATATTAG
* *
46264442 TTTATTAATATT-TTAT-TATTATTAGCCT
1 TTTATTATTATTACTATATATTATTA--CT
46264470 TTTATTATTATTACTATATATTATTACT
1 TTTATTATTATTACTATATATTATTACT
*
46264498 CTTATTATTAT
1 TTTATTATTAT
46264509 AGATTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 23 0.68
29 3 0.09
30 8 0.24
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTATTATTATTACTATATATTATTACT
Found at i:46264493 original size:13 final size:12
Alignment explanation
Indices: 46264472--46264507 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
46264462 ATTAGCCTTT
46264472 TATTATTATTAC
1 TATTATTATTAC
46264484 TATATATTATTAC
1 TAT-TATTATTAC
*
46264497 TCTTATTATTA
1 TATTATTATTA
46264508 TAGATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:46264524 original size:22 final size:21
Alignment explanation
Indices: 46264445--46264524 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
46264435 ATATTAGTTT
*
46264445 ATTAATATTTTATTATTATTAG
1 ATTATTATTTTATTATTA-TAG
* * *
46264467 CCTT-TTATTATTATTACTATAT
1 -ATTATTATT-TTATTATTATAG
*
46264489 ATTATTACTCTTATTATTATAG
1 ATTATTA-TTTTATTATTATAG
46264511 ATTATTATATTTAT
1 ATTATTAT-TTTAT
46264525 CATATTTTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
21 3 0.07
22 30 0.68
23 11 0.25
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (21 bp):
ATTATTATTTTATTATTATAG
Found at i:46271954 original size:50 final size:50
Alignment explanation
Indices: 46271898--46272280 Score: 312
Period size: 50 Copynumber: 7.7 Consensus size: 50
46271888 GCAGTGGAAC
* * * *
46271898 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCTACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** ** *
46271948 ATATTAAAGCTACAACAGCGAATCTTAC-TCCCC-AGGTGATGCAGTGGAAC
1 AGATTAAAGCTACATCAGTGAATCTTACTTCCCCGACAT--TGCAGTTAAAA
* * * *
46271998 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAACATTGCAGTTAAAA
1 AGATTAAAGCTACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** *
46272048 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCTACATCAGTGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
* * *
46272098 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTAAAGCTACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * ** * * * ** *
46272148 AGATTATAGCTACAACACCGAATCTTAC-TCCCCAAGCGA-CGCAATGGAAC
1 AGATTAAAGCTACATCAGTGAATCTTACTTCCCCGA-C-ATTGCAGTTAAAA
* * *
46272198 AGATTAAAGCAACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCTACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
46272248 AGATTAAAGCTACAAT-AGTGAATCTTACTTCCC
1 AGATTAAAGCTAC-ATCAGTGAATCTTACTTCCC
46272281 AGGCGGTGTA
Statistics
Matches: 251, Mismatches: 69, Indels: 26
0.73 0.20 0.08
Matches are distributed among these distances:
48 2 0.01
49 18 0.07
50 209 0.83
51 20 0.08
52 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCTACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:46272303 original size:50 final size:50
Alignment explanation
Indices: 46271872--46272330 Score: 288
Period size: 50 Copynumber: 9.2 Consensus size: 50
46271862 AATGCCAGTT
* *
46271872 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATC
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCTACAAT-AGTGAATC
* * * * ** * * * *
46271922 TTGCTTCCCCGAC-ATTGTAGTTAAAAATATTAAAGCTACAACAGCGAATC
1 TTACTTCCCAGGCGA-TGCAGTGGAACAGATTAAAGCTACAATAGTGAATC
* * * *
46271972 TTACTCCCCAGGTGATGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATC
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCTACAAT-AGTGAATC
* * ** * * *
46272022 TTGCTTCCCCA-AC-ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
1 TTACTT-CCCAGGCGA-TGCAGTGGAACAGATTAAAGCTACAATAGTGAATC
* *
46272072 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCAC-ATCAGTGAATC
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCTACAAT-AGTGAATC
* * * * ** * * * **
46272122 TTGCTTCCCCGAC-ATTGCAATTAAAAAGATTATAGCTACAACACCGAATC
1 TTACTTCCCAGGCGA-TGCAGTGGAACAGATTAAAGCTACAATAGTGAATC
* * * * * *
46272172 TTACTCCCCAAGCGACGCAATGGAACAGATTAAAGCAAC-ATCGGTGAATC
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCTACAAT-AGTGAATC
* * * ** *
46272222 TTGCTTCCCCGAC-ATTGCAGTTAAAAAGATTAAAGCTACAATAGTGAATC
1 TTACTTCCCAGGCGA-TGCAGTGGAACAGATTAAAGCTACAATAGTGAATC
* * * * *
46272272 TTACTTCCCAGGCGGTGTAGTGGAACTGATTAAAGCTACAGTAGCGAATC
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCTACAATAGTGAATC
*
46272322 TTATTTCCC
1 TTACTTCCC
46272331 CGACATCAGT
Statistics
Matches: 294, Mismatches: 98, Indels: 34
0.69 0.23 0.08
Matches are distributed among these distances:
49 11 0.04
50 271 0.92
51 12 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (50 bp):
TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCTACAATAGTGAATC
Found at i:46272336 original size:100 final size:100
Alignment explanation
Indices: 46271872--46272307 Score: 701
Period size: 100 Copynumber: 4.4 Consensus size: 100
46271862 AATGCCAGTT
*
46271872 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* *
46271937 TGTAGTTAAAAATATTAAAGCTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* *
46271972 TTACTCCCCAGGTGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAACAT
1 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
46272037 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
*
46272072 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* * *
46272137 TGCAATTAAAAAGATTATAGCTACAACACCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * *
46272172 TTACTCCCCAAGCGACGCAATGGAACAGATTAAAGCAACATCGGTGAATCTTGCTTCCCCGACAT
1 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* *
46272237 TGCAGTTAAAAAGATTAAAGCTACAATAGTGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * *
46272272 TTACTTCCCAGGCGGTGTAGTGGAACTGATTAAAGC
1 TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGC
46272308 TACAGTAGCG
Statistics
Matches: 308, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 308 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (100 bp):
TTACTCCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
Found at i:46273805 original size:17 final size:17
Alignment explanation
Indices: 46273783--46273835 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
46273773 TAATATTAGT
46273783 TTATTAATATTTTATTA
1 TTATTAATATTTTATTA
***
46273800 TTATTAGCCTTTTATTA
1 TTATTAATATTTTATTA
* *
46273817 TTATTACTA-TATATTA
1 TTATTAATATTTTATTA
46273833 TTA
1 TTA
46273836 CTCTTATTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATTAATATTTTATTA
Found at i:46273821 original size:28 final size:28
Alignment explanation
Indices: 46273782--46273848 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
46273772 TTAATATTAG
* *
46273782 TTTATTAATATT-TTAT-TATTATTAGCCT
1 TTTATTATTATTACTATATATTATTA--CT
46273810 TTTATTATTATTACTATATATTATTACT
1 TTTATTATTATTACTATATATTATTACT
*
46273838 CTTATTATTAT
1 TTTATTATTAT
46273849 AGATTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 23 0.68
29 3 0.09
30 8 0.24
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTATTATTATTACTATATATTATTACT
Found at i:46273833 original size:13 final size:12
Alignment explanation
Indices: 46273812--46273847 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
46273802 ATTAGCCTTT
46273812 TATTATTATTAC
1 TATTATTATTAC
46273824 TATATATTATTAC
1 TAT-TATTATTAC
*
46273837 TCTTATTATTA
1 TATTATTATTA
46273848 TAGATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:46273864 original size:22 final size:21
Alignment explanation
Indices: 46273785--46273864 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
46273775 ATATTAGTTT
*
46273785 ATTAATATTTTATTATTATTAG
1 ATTATTATTTTATTATTA-TAG
* * *
46273807 CCTT-TTATTATTATTACTATAT
1 -ATTATTATT-TTATTATTATAG
*
46273829 ATTATTACTCTTATTATTATAG
1 ATTATTA-TTTTATTATTATAG
46273851 ATTATTATATTTAT
1 ATTATTAT-TTTAT
46273865 CATATTTTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
21 3 0.07
22 30 0.68
23 11 0.25
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (21 bp):
ATTATTATTTTATTATTATAG
Found at i:46277220 original size:23 final size:23
Alignment explanation
Indices: 46277187--46277231 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
46277177 CATGTTAAAG
*
46277187 CTACAAATCTTATCTCCCTGAAA
1 CTACAAATCTTATCCCCCTGAAA
*
46277210 CTACAAGTCTTATCCCCCTGAA
1 CTACAAATCTTATCCCCCTGAA
46277232 GTTGCAGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.29
Consensus pattern (23 bp):
CTACAAATCTTATCCCCCTGAAA
Found at i:46277273 original size:44 final size:44
Alignment explanation
Indices: 46277210--46277463 Score: 192
Period size: 44 Copynumber: 5.6 Consensus size: 44
46277200 CTCCCTGAAA
* *
46277210 CTACAAGTCTTATCCCCCTGAAGTTGCAGTGGAGCTGATTAAAG
1 CTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* * * *
46277254 CTACAAGTTTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAG
1 CTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* * * * * * *
46277298 CGACAAATCCTATGC-CTCTGAATTTGTAGTGG-GTCAGATTAAAT
1 CTACAAGTCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTAAAG
* *
46277342 CTACCATAGCCAGTCTTATTTCCCTGAAGTAGCAGTGGAGCAGATTAAAG
1 CTA-C--A---AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
* * * *
46277392 CTACAAATCATATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAA-
1 CTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAG
* * *
46277436 CTACGATTCCTATAC-CCCTGAAGTTGCA
1 CTACAAGTCTTAT-CTCCCTGAAGTTGCA
46277464 ATGGGTTAGA
Statistics
Matches: 163, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 121 0.74
45 6 0.04
47 2 0.01
49 1 0.01
50 31 0.19
51 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
CTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
Found at i:46277431 original size:94 final size:94
Alignment explanation
Indices: 46277263--46277439 Score: 209
Period size: 94 Copynumber: 1.9 Consensus size: 94
46277253 GCTACAAGTT
* * * * * *
46277263 TTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGCGACAAATCCTATGCCTCTGAATTTGTAGT
1 TTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCGACAAATCATATGCCCCTGAAGTTGCAGC
46277328 GGGTCAGATT-AAATCTACCATAGCCAGTC
66 GGGTCAGATTGAAA-CTACCATAGCCAGTC
* * *
46277357 TTATTTCCCTGAAG-TAGCAGTGGAGCAGATTAAAGCTACAAATCATAT-CTCCCTGAAGTTGCA
1 TTATCTCCCTGAAGTTA-CAATGGAGCAGATTAAAGCGACAAATCATATGC-CCCTGAAGTTGCA
46277420 GCGGAGT-AGATTGAAACTAC
64 GCGG-GTCAGATTGAAACTAC
46277440 GATTCCTATA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
93 3 0.04
94 62 0.89
95 5 0.07
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (94 bp):
TTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCGACAAATCATATGCCCCTGAAGTTGCAGC
GGGTCAGATTGAAACTACCATAGCCAGTC
Found at i:46277469 original size:138 final size:138
Alignment explanation
Indices: 46277215--46277469 Score: 330
Period size: 138 Copynumber: 1.8 Consensus size: 138
46277205 TGAAACTACA
* * * **
46277215 AGTCTTATCCCCCTGAAGTTGCAGTGGAGCTGATTAAAGCTACAAGTTTTATCTCCCTGAAGTTA
1 AGTCTTATCCCCCTGAAGTAGCAGTGGAGCAGATTAAAGCTACAAATCATATCTCCCTGAAGTTA
* * * * * * *
46277280 CAATGGAGCAGATTGAAGCGACAAATCCTATGCCTCTGAATTTGTAGTGGGTCAGATTAAATCTA
66 CAACGGAGCAGATTGAAACGACAAATCCTATACCCCTGAAGTTGCAATGGGTCAGATTAAATCTA
46277345 CCATAGCC
131 CCATAGCC
** *
46277353 AGTCTTATTTCCCTGAAGTAGCAGTGGAGCAGATTAAAGCTACAAATCATATCTCCCTGAAGTTG
1 AGTCTTATCCCCCTGAAGTAGCAGTGGAGCAGATTAAAGCTACAAATCATATCTCCCTGAAGTTA
* * * * *
46277418 CAGCGGAGTAGATTGAAACTACGATTCCTATACCCCTGAAGTTGCAATGGGT
66 CAACGGAGCAGATTGAAACGACAAATCCTATACCCCTGAAGTTGCAATGGGT
46277470 TAGAATGAGA
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
138 97 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (138 bp):
AGTCTTATCCCCCTGAAGTAGCAGTGGAGCAGATTAAAGCTACAAATCATATCTCCCTGAAGTTA
CAACGGAGCAGATTGAAACGACAAATCCTATACCCCTGAAGTTGCAATGGGTCAGATTAAATCTA
CCATAGCC
Found at i:46277662 original size:15 final size:14
Alignment explanation
Indices: 46277624--46277669 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
46277614 CGTTCGGCCC
46277624 AAAACCAAAAATAA
1 AAAACCAAAAATAA
*
46277638 ATAAA--TAAAATATA
1 A-AAACCAAAAATA-A
46277652 AAAACCAAAAATAA
1 AAAACCAAAAATAA
46277666 AAAA
1 AAAA
46277670 ATCCAAGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 9 0.35
14 8 0.31
15 9 0.35
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACCAAAAATAA
Found at i:46277665 original size:13 final size:13
Alignment explanation
Indices: 46277624--46277668 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
46277614 CGTTCGGCCC
46277624 AAAACCAAAAATA
1 AAAACCAAAAATA
**
46277637 AATAAATAAAATATA
1 AA-AACCAAAA-ATA
46277652 AAAACCAAAAATA
1 AAAACCAAAAATA
46277665 AAAA
1 AAAA
46277669 AATCCAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.35
14 12 0.46
15 5 0.19
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAACCAAAAATA
Found at i:46277670 original size:15 final size:15
Alignment explanation
Indices: 46277624--46277675 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
46277614 CGTTCGGCCC
46277624 AAAACCAAAAATAAA
1 AAAACCAAAAATAAA
* * *
46277639 TAAA--TAAAATATA
1 AAAACCAAAAATAAA
46277652 AAAACCAAAAATAAA
1 AAAACCAAAAATAAA
46277667 AAAATCCAA
1 AAAA-CCAA
46277676 GTTCATTTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
13 10 0.36
15 14 0.50
16 4 0.14
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAACCAAAAATAAA
Found at i:46279053 original size:15 final size:16
Alignment explanation
Indices: 46279021--46279061 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
46279011 ATTTATTTTC
*
46279021 TTTATTATTATGCATT
1 TTTATTATTATCCATT
*
46279037 TTTATT-TTATCC-CT
1 TTTATTATTATCCATT
46279051 TTTATTATTAT
1 TTTATTATTAT
46279062 TATTATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 7 0.32
15 9 0.41
16 6 0.27
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATTATTATCCATT
Found at i:46279217 original size:12 final size:12
Alignment explanation
Indices: 46279200--46279224 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46279190 CCTTTTTTAT
46279200 TTTATTTATTCA
1 TTTATTTATTCA
46279212 TTTATTTATTCA
1 TTTATTTATTCA
46279224 T
1 T
46279225 CTATCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:46279979 original size:17 final size:16
Alignment explanation
Indices: 46279957--46279996 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
46279947 TAACTGCTTA
*
46279957 TATTTTTCTCTATTGTG
1 TATTTTTCTCTATT-TC
*
46279974 TATTTTTCTTTATTTC
1 TATTTTTCTCTATTTC
46279990 TATTTTT
1 TATTTTT
46279997 TTTATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.72
Consensus pattern (16 bp):
TATTTTTCTCTATTTC
Found at i:46279993 original size:16 final size:16
Alignment explanation
Indices: 46279957--46280019 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
46279947 TAACTGCTTA
* *
46279957 TATTTTTCTCTATTGTG
1 TATTTTTCTTTATT-TC
46279974 TATTTTTCTTTATTTC
1 TATTTTTCTTTATTTC
*
46279990 TATTTTT-TTTATTTT
1 TATTTTTCTTTATTTC
* *
46280005 TATGTTTGTTTATTT
1 TATTTTTCTTTATTT
46280020 TTTTTACTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
15 13 0.32
16 15 0.37
17 13 0.32
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (16 bp):
TATTTTTCTTTATTTC
Found at i:46280020 original size:16 final size:15
Alignment explanation
Indices: 46279977--46280021 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
46279967 TATTGTGTAT
* *
46279977 TTTTCTTTATTTCTA
1 TTTTGTTTATTTTTA
*
46279992 TTTTTTTTATTTTTA
1 TTTTGTTTATTTTTA
46280007 TGTTTGTTTATTTTT
1 T-TTTGTTTATTTTT
46280022 TTTACTACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (15 bp):
TTTTGTTTATTTTTA
Found at i:46280947 original size:3 final size:3
Alignment explanation
Indices: 46280939--46281003 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
46280929 TATACATTTC
46280939 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46280987 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
46281004 CATCATCATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:46283411 original size:19 final size:19
Alignment explanation
Indices: 46283375--46283474 Score: 78
Period size: 19 Copynumber: 5.3 Consensus size: 19
46283365 AATAGGGGAA
46283375 ACTGGCACACATAA-TGCAT
1 ACTGGCACACA-AAGTGCAT
*
46283394 ACTGGCACACGAAGTGCAT
1 ACTGGCACACAAAGTGCAT
* * *
46283413 CCTGACATACAAAGTGCAT
1 ACTGGCACACAAAGTGCAT
* * * * * *
46283432 ATTGACGCACGAAGCGTAT
1 ACTGGCACACAAAGTGCAT
46283451 -CTTGGCACACAAAGTGCAT
1 AC-TGGCACACAAAGTGCAT
46283470 ACTGG
1 ACTGG
46283475 GAAAATTAGT
Statistics
Matches: 60, Mismatches: 18, Indels: 6
0.71 0.21 0.07
Matches are distributed among these distances:
18 2 0.03
19 57 0.95
20 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (19 bp):
ACTGGCACACAAAGTGCAT
Found at i:46283431 original size:38 final size:38
Alignment explanation
Indices: 46283380--46283474 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
46283370 GGGAAACTGG
*
46283380 CACACATAA-TGCATACTGGCACACGAAGTGCATCCTGA
1 CACACA-AAGTGCATACTGGCACACGAAGCGCATCCTGA
* * * * * * *
46283418 CATACAAAGTGCATATTGACGCACGAAGCGTATCTTGG
1 CACACAAAGTGCATACTGGCACACGAAGCGCATCCTGA
46283456 CACACAAAGTGCATACTGG
1 CACACAAAGTGCATACTGG
46283475 GAAAATTAGT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
37 2 0.04
38 43 0.96
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (38 bp):
CACACAAAGTGCATACTGGCACACGAAGCGCATCCTGA
Found at i:46293695 original size:9 final size:9
Alignment explanation
Indices: 46293681--46293847 Score: 53
Period size: 9 Copynumber: 18.1 Consensus size: 9
46293671 TTTTAGTACG
46293681 ATAATTTTT
1 ATAATTTTT
46293690 ATAATTTTCTTTT
1 ATAA--TT--TTT
46293703 ATGAATTTTAT
1 AT-AATTTT-T
*
46293714 ATATTTTTT
1 ATAATTTTT
* *
46293723 ACATTTTTT
1 ATAATTTTT
*
46293732 ATACTTTTCTT
1 ATA-ATTT-TT
* *
46293743 ACGAATTTAT
1 A-TAATTTTT
*
46293753 A-AAATTTT
1 ATAATTTTT
46293761 AT-ATTTTT
1 ATAATTTTT
* *
46293769 CCTATATTTCT
1 -ATA-ATTTTT
46293780 ATAATTTTT
1 ATAATTTTT
*
46293789 ATGATTTTT
1 ATAATTTTT
46293798 ATAA-TTTT
1 ATAATTTTT
46293806 -T--TTTTT
1 ATAATTTTT
*
46293812 A-AA-TTTA
1 ATAATTTTT
*
46293819 ATTATTTTT
1 ATAATTTTT
*
46293828 ATAAATTTT
1 ATAATTTTT
46293837 ATTAATTTTT
1 A-TAATTTTT
46293847 A
1 A
46293848 CTTTTTATCC
Statistics
Matches: 117, Mismatches: 21, Indels: 39
0.66 0.12 0.22
Matches are distributed among these distances:
6 4 0.03
7 5 0.04
8 16 0.14
9 43 0.37
10 23 0.20
11 16 0.14
12 3 0.03
13 5 0.04
14 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:46293847 original size:19 final size:18
Alignment explanation
Indices: 46293799--46293847 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
46293789 ATGATTTTTA
* *
46293799 TAATTTTTTTTTTAAATT
1 TAATTATTTTTATAAATT
46293817 TAATTATTTTTATAAATT
1 TAATTATTTTTATAAATT
*
46293835 TTATTAATTTTTA
1 TAATT-ATTTTTA
46293848 CTTTTTATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TAATTATTTTTATAAATT
Found at i:46300600 original size:14 final size:14
Alignment explanation
Indices: 46300577--46300610 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
46300567 TGGTATGAGT
46300577 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
46300590 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
46300604 TTATAGG
1 TTATAGG
46300611 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:46301179 original size:29 final size:29
Alignment explanation
Indices: 46301103--46301197 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 29
46301093 TCGTCTACAT
*
46301103 AATAATAAC-TTTT-TTTTTA-TTTTAAA
1 AATAATAACATTTTATTTTAATTTTTAAA
* *
46301129 TTAATAAGATAAAATTATATTTTAATTTTTAAA
1 --AAT-A-ATAACATTTTATTTTAATTTTTAAA
46301162 AATAATAACATTTTATTTTAATTTTTAGAA
1 AATAATAACATTTTATTTTAATTTTTA-AA
46301192 AA-AATA
1 AATAATA
46301198 TAAAGATATA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.05
29 26 0.46
30 9 0.16
31 6 0.11
32 5 0.09
33 7 0.12
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (29 bp):
AATAATAACATTTTATTTTAATTTTTAAA
Found at i:46301252 original size:14 final size:14
Alignment explanation
Indices: 46301233--46301260 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46301223 AAAATTATAG
46301233 TCTAAAATGATGAA
1 TCTAAAATGATGAA
46301247 TCTAAAATGATGAA
1 TCTAAAATGATGAA
46301261 AAAAAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
TCTAAAATGATGAA
Found at i:46301892 original size:23 final size:23
Alignment explanation
Indices: 46301837--46301893 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
46301827 CTAATAAATA
* *
46301837 AAAATAAAAAACTTGAAAAACAG
1 AAAAGAAAATACTTGAAAAACAG
46301860 AAAAGAAAATACTTGAAAAACAG
1 AAAAGAAAATACTTGAAAAACAG
46301883 AAAAGAAAATA
1 AAAAGAAAATA
46301894 TACTCATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.70, C:0.07, G:0.11, T:0.12
Consensus pattern (23 bp):
AAAAGAAAATACTTGAAAAACAG
Found at i:46306275 original size:89 final size:87
Alignment explanation
Indices: 46305802--46306371 Score: 305
Period size: 84 Copynumber: 6.6 Consensus size: 87
46305792 ACTACTGCTT
* *
46305802 AGGGAGATAAGA-TCTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAG-A--
1 AGGGAGATAAGACT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATC
* *
46305863 TAC-GATCTGCTCTCTGCAACTTC
65 TTCAG-TCTGCTCACTGCAACTTC
* * * * ** * *
46305886 AGAGAGATAAGATCTGAGATT--TTAATCCACTCC-CTGCAACTTCAGGGAGAT-AGAATTGTCG
1 AGGGAGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CA
* * *
46305947 GCTTTAATCTGCTCCACTGCAACTTC
63 TCTTCAGTCTGCT-CACTGCAACTTC
* *
46305973 AGGGAGATAAGATTTGC-CATCTTCAGTCTGC-CTCACTGCAACTTC-GGGAGGATAAGACTTGC
1 AGGGAGATAAGACTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGC
* *
46306035 TTACTT-AGTTTGCTCCACTGCAACTTC
62 AT-CTTCAGTCTGCT-CACTGCAACTTC
* * * * * ** *
46306062 AGGGAGATAAGACTAG-ATAC-GA-TCTACT-CTCTGCAACTTCAGAAAGATAAGA-TCTGAGAT
1 AGGGAGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-CAT
* * * ** *
46306122 -TTTAATCCGCTTCACCACAACTTT
64 CTTCAGTCTGC-TCACTGCAACTTC
* * * *
46306146 AGGGAGATAGGA-TTGTCAGTT--TTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTC
1 AGGGAGATAAGACTTG-C--TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-C
46306208 ATCTTCAGTCTGCCTCACTGCAACTTC
62 ATCTTCAGTCTG-CTCACTGCAACTTC
*
46306235 A-GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-AT-
1 AGGGA-GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATC
* * * * *
46306297 GTGA-TCCGCTCTCTGCAATTTC
65 TTCAGTCTGCTCACTGCAACTTC
* * * * *
46306319 AGAGAGATAAGATCTGGGATT--TTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 AGGGAGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
46306372 GGATCCCGGC
Statistics
Matches: 369, Mismatches: 76, Indels: 82
0.70 0.14 0.16
Matches are distributed among these distances:
82 5 0.01
83 22 0.06
84 114 0.31
85 16 0.04
86 19 0.05
87 35 0.09
88 37 0.10
89 108 0.29
90 13 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (87 bp):
AGGGAGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCT
TCAGTCTGCTCACTGCAACTTC
Found at i:46306364 original size:44 final size:44
Alignment explanation
Indices: 46305802--46306376 Score: 340
Period size: 44 Copynumber: 13.3 Consensus size: 44
46305792 ACTACTGCTT
* * *
46305802 AGGGAGATAAGATCT--GCTTACTTAGTCTGCTCCACTACAACTTC
1 AGGGAGATAAGATCTGAGATT--TTAATCTGCTCCACTGCAACTTC
*** *
46305846 AGGGAGATAAGA-CT-AGA-TACGATCTGCT-CTCTGCAACTTC
1 AGGGAGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTC
* **
46305886 AGAGAGATAAGATCTGAGATTTTAATCCACTCC-CTGCAACTTC
1 AGGGAGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTC
* **
46305929 AGGGAGAT-AGAAT-TGTCGGCTTTAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAG-ATCTG-AGATTTTAATCTGCTCCACTGCAACTTC
* ** * *
46305973 AGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTTC
1 AGGGAGATAAGATCTGAGAT-TTTAATCTGCTC-CACTGCAACTTC
* * * *
46306018 -GGGAGGATAAGA-CT-TGCTTACTTAGTTTGCTCCACTGCAACTTC
1 AGGGA-GATAAGATCTGAGATT--TTAATCTGCTCCACTGCAACTTC
*** * *
46306062 AGGGAGATAAGA-CT-AGA-TACGATCTACT-CTCTGCAACTTC
1 AGGGAGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTC
** * * ** *
46306102 AGAAAGATAAGATCTGAGATTTTAATCCGCTTCACCACAACTTT
1 AGGGAGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTC
* *
46306146 AGGGAGATAGGAT-TGTCAG-TTTTAATCTGCTCTACTGCAACTTC
1 AGGGAGATAAGATCTG--AGATTTTAATCTGCTCCACTGCAACTTC
* ** * *
46306190 AGGGAGATAAGATTTGTCATCTTCAGTCTGC-CTCACTGCAACTTC
1 AGGGAGATAAGATCTGAGAT-TTTAATCTGCTC-CACTGCAACTTC
* * *
46306235 A-GGAGGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTGCAACTTC
1 AGGGA-GATAAGATCTGAGATT--TTAATCTGCTCCACTGCAACTTC
* * * * *
46306279 AGGGAGATAAGA-CT-AGA-TGTGATCCGCT-CTCTGCAATTTC
1 AGGGAGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTC
* * *
46306319 AGAGAGATAAGATCTGGGATTTTAATCCGCTCCACTGCAACTTC
1 AGGGAGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTC
*
46306363 AGGGAGATAGGATC
1 AGGGAGATAAGATC
46306377 CCGGCCACTA
Statistics
Matches: 410, Mismatches: 85, Indels: 72
0.72 0.15 0.13
Matches are distributed among these distances:
40 63 0.15
41 22 0.05
42 14 0.03
43 62 0.15
44 178 0.43
45 71 0.17
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTC
Found at i:46306391 original size:217 final size:217
Alignment explanation
Indices: 46305807--46306375 Score: 935
Period size: 217 Copynumber: 2.6 Consensus size: 217
46305797 TGCTTAGGGA
*
46305807 GATAAGA-TCTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATACGATCT
1 GATAAGACT-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCT
*
46305871 GCTCTCTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATCCACTCC-CTGCAACTTCAGGGAG
65 GCTCTCTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATCCGCTCCACTGCAACTTCAGGGAG
*
46305935 ATAGAATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
130 ATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGT
*
46306000 CTGCCTCACTGCAACTTCGGGAG
195 CTGCCTCACTGCAACTTCAGGAG
* *
46306023 GATAAGACTTGCTTACTTAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTA
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTG
* * ** *
46306088 CTCTCTGCAACTTCAGAAAGATAAGATCTGAGATTTTAATCCGCTTCACCACAACTTTAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
* * * *
46306153 TAGGATTGTCAGTTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTC
131 TAGGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
46306218 TGCCTCACTGCAACTTCAGGAG
196 TGCCTCACTGCAACTTCAGGAG
** *
46306240 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCCG
1 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTG
* *
46306305 CTCTCTGCAATTTCAGAGAGATAAGATCTGGGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
66 CTCTCTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
46306370 TAGGAT
131 TAGGAT
46306376 CCCGGCCACT
Statistics
Matches: 324, Mismatches: 27, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
216 104 0.32
217 220 0.68
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (217 bp):
GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
TAGGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC
TGCCTCACTGCAACTTCAGGAG
Found at i:46322306 original size:7 final size:7
Alignment explanation
Indices: 46322294--46322389 Score: 86
Period size: 7 Copynumber: 13.4 Consensus size: 7
46322284 AATGCACCAC
46322294 AAACCCT
1 AAACCCT
46322301 AAACCCT
1 AAACCCT
*
46322308 AAAACCTT
1 -AAACCCT
46322316 AAACCCT
1 AAACCCT
46322323 -AACCCT
1 AAACCCT
46322329 AAAACCCT
1 -AAACCCT
* *
46322337 AAGCACT
1 AAACCCT
**
46322344 AAACATT
1 AAACCCT
46322351 AAACCCT
1 AAACCCT
**
46322358 ATAATTCT
1 A-AACCCT
46322366 AAACCCT
1 AAACCCT
*
46322373 AAACTCT
1 AAACCCT
46322380 AAACCCT
1 AAACCCT
46322387 AAA
1 AAA
46322390 ATTAATAAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
6 6 0.08
7 48 0.68
8 17 0.24
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:46322318 original size:8 final size:8
Alignment explanation
Indices: 46322294--46322338 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
46322284 AATGCACCAC
46322294 AAACCCT-
1 AAACCCTA
46322301 AAACCCTA
1 AAACCCTA
*
46322309 AAA-CCTT
1 AAACCCTA
46322316 AAACCCT-
1 AAACCCTA
46322323 -AACCCTA
1 AAACCCTA
46322330 AAACCCTA
1 AAACCCTA
46322338 A
1 A
46322339 GCACTAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
6 6 0.18
7 13 0.39
8 14 0.42
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (8 bp):
AAACCCTA
Found at i:46322355 original size:29 final size:29
Alignment explanation
Indices: 46322294--46322390 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
46322284 AATGCACCAC
*
46322294 AAACCCT-AAACCCTAAA-ACCTTAAACCCT
1 AAACCCTAAAACCCTAAACA-C-TAAACTCT
*
46322323 -AACCCTAAAACCCTAAGCACTAAACAT-T
1 AAACCCTAAAACCCTAAACACTAAAC-TCT
* ** *
46322351 AAACCCTATAATTCTAAACCCTAAACTCT
1 AAACCCTAAAACCCTAAACACTAAACTCT
46322380 AAACCCTAAAA
1 AAACCCTAAAA
46322391 TTAATAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
28 13 0.24
29 41 0.75
30 1 0.02
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACCCTAAAACCCTAAACACTAAACTCT
Found at i:46330459 original size:20 final size:19
Alignment explanation
Indices: 46330418--46330470 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
46330408 TTGAGAACTT
46330418 TTTGAG-AATTGTGAGAAA
1 TTTGAGAAATTGTGAGAAA
46330436 TTTGAGAAATTAG-GAGAGAA
1 TTTGAGAAATT-GTGAGA-AA
*
46330456 TTTGTGAAAATTGTG
1 TTTGAG-AAATTGTG
46330471 TGTGTGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.21
19 8 0.28
20 9 0.31
21 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (19 bp):
TTTGAGAAATTGTGAGAAA
Found at i:46335781 original size:72 final size:71
Alignment explanation
Indices: 46335704--46335909 Score: 211
Period size: 72 Copynumber: 2.9 Consensus size: 71
46335694 GCATTGGCTA
* *
46335704 GTAAAATCGACAAATGAGTGTGCCTAGCACTGGTCAGTATAATTGACAAATAAGTGCGCCCTGA-
1 GTAAAATCGAAAAATGAGTGTGCCTAGCACTGGTC-GTATAAATGACAAATAAGTGCGCCCT-AC
*
46335768 GCTGGTCG
64 GCTAGTCG
** * * *
46335776 GTAAAATAAAAAAATGAGTGTG-ATCAGCACTGGTCGGTATAAACGACAAATAAGTGCGCACTAC
1 GTAAAATCGAAAAATGAGTGTGCCT-AGCACTGGTC-GTATAAATGACAAATAAGTGCGCCCTAC
46335840 GCTAGTCG
64 GCTAGTCG
* * * * * *
46335848 ATAAAA-CTGAAAAATGATTGTGCCCAGCACTGGTCGATATAACTAACAAATAAGTACGCCCT
1 GTAAAATC-GAAAAATGAGTGTGCCTAGCACTGGTCG-TATAAATGACAAATAAGTGCGCCCT
46335910 CCTTGGTCAG
Statistics
Matches: 109, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
71 3 0.03
72 106 0.97
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (71 bp):
GTAAAATCGAAAAATGAGTGTGCCTAGCACTGGTCGTATAAATGACAAATAAGTGCGCCCTACGC
TAGTCG
Found at i:46336483 original size:14 final size:13
Alignment explanation
Indices: 46336464--46336499 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
46336454 AGTTGTGCCA
46336464 TTTTTATTTTTATT
1 TTTTTATTTTTA-T
46336478 TTTTTATTTTTAT
1 TTTTTATTTTTAT
46336491 TTTTTATTT
1 TTTTTATTT
46336500 ACATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:46351492 original size:45 final size:46
Alignment explanation
Indices: 46351426--46351544 Score: 159
Period size: 45 Copynumber: 2.6 Consensus size: 46
46351416 AAGGAGAAGG
**
46351426 GACCAAGGTGAAAACTTGCAAAGGGCACTTTGAGTCCT-AAAAAGA
1 GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCTAAAAAAGA
* *
46351471 GACCAAGGTGAAAACCCGCAAATGGCGCTTTGAGTCCTAAAAAAAAGA
1 GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCT--AAAAAAGA
* *
46351519 GGCCAAGGTGAAAACCCTCAAAGGGC
1 GACCAAGGTGAAAACCCGCAAAGGGC
46351545 GCCTTGAGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
45 34 0.53
48 30 0.47
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (46 bp):
GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCTAAAAAAGA
Found at i:46351533 original size:48 final size:45
Alignment explanation
Indices: 46351426--46351552 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 45
46351416 AAGGAGAAGG
** *
46351426 GACCAAGGTGAAAACTTGCAAAGGGCACTTTGAGTCCTAAAAAGA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAGA
*
46351471 GACCAAGGTGAAAACCCGCAAATGGCGCTTTGAGTCCTAAAAAAAAGA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCT---AAAAAGA
* * *
46351519 GGCCAAGGTGAAAACCCTCAAAGGGCGCCTTGAG
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG
46351553 ACCAAAGGGG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
45 34 0.48
48 37 0.52
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (45 bp):
GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAGA
Done.