Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 96 of 208
Found at i:32669458 original size:16 final size:17
Alignment explanation
Indices: 32669423--32669491 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 17
32669413 AATTGAAATT
32669423 TATTTTATAATAGGAATAA
1 TATTTTATAATA--AATAA
32669442 TATTTTATAAT-AATAA
1 TATTTTATAATAAATAA
*
32669458 T-TATTAT-AT--ATAA
1 TATTTTATAATAAATAA
* *
32669471 -ACTTAATAATAAATAA
1 TATTTTATAATAAATAA
32669487 TATTT
1 TATTT
32669492 AATTAAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
13 7 0.17
14 4 0.10
15 5 0.12
16 10 0.25
17 3 0.08
19 11 0.28
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTTTATAATAAATAA
Found at i:32669758 original size:15 final size:16
Alignment explanation
Indices: 32669738--32669767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32669728 ATTTTCAAAT
32669738 TTAAAA-TTATTATTG
1 TTAAAATTTATTATTG
32669753 TTAAAATTTATTATT
1 TTAAAATTTATTATT
32669768 AAAACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTG
Found at i:32671056 original size:2 final size:2
Alignment explanation
Indices: 32671049--32671081 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32671039 TCAATCAAGC
*
32671049 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32671082 GTACAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:32671082 original size:6 final size:6
Alignment explanation
Indices: 32671053--32671110 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
32671043 TCAAGCATAT
* * * * *
32671053 ATATAT ATATAT ATATAT ATATAG ATATAG -TACAAA ATATAG ATATAG
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATA-TAG ATATAG ATATAG
32671101 ATATAG ATAT
1 ATATAG ATAT
32671111 CTAATAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
5 2 0.04
6 41 0.91
7 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (6 bp):
ATATAG
Found at i:32685241 original size:35 final size:33
Alignment explanation
Indices: 32685164--32685397 Score: 285
Period size: 35 Copynumber: 7.0 Consensus size: 33
32685154 AAATAATACA
* *
32685164 TGAACAGGAGAGATTCCCTGCAA-GAAATGATG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATG
32685196 TGAACAGGAGAGATTCCCTGCAACAAAATAATCCG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT--G
* * *
32685231 TGAATAGGAGAGATTCCCTGCAA-GAAATGATG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATG
*
32685263 TGAACAGGAAAGATTCCCTGCAACAAAATAATTTG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAA--TG
32685298 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAAT--G
* * *
32685333 TGAACAGGGGAGATTCCCTGCAA-GAAATGATG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATG
* * *
32685365 TGAACAGGAAAGATTCTCTGCAACAGAATAATG
1 TGAACAGGAGAGATTCCCTGCAACAAAATAATG
32685398 CGTTCCTCTT
Statistics
Matches: 174, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
32 66 0.38
33 18 0.10
34 12 0.07
35 78 0.45
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (33 bp):
TGAACAGGAGAGATTCCCTGCAACAAAATAATG
Found at i:32685262 original size:67 final size:67
Alignment explanation
Indices: 32685154--32685387 Score: 303
Period size: 67 Copynumber: 3.5 Consensus size: 67
32685144 GTCCAAAAAG
*
32685154 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
32685219 CA
66 CA
* * *
32685221 AAATAATCCGTGAATAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
32685286 CA
66 CA
** * * *
32685288 AAATAATTTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGGGAGATTCCCTG
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAA-GAAATGAT--GTGAACAGGAGAGATTCCCTG
*
32685353 CAA-G
63 CAACA
* * *
32685357 AAATGAT--GTGAACAGGAAAGATTCTCTGCAA
1 AAATAATACGTGAACAGGAGAGATTCCCTGCAA
32685388 CAGAATAATG
Statistics
Matches: 149, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
67 115 0.77
68 6 0.04
69 6 0.04
70 22 0.15
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (67 bp):
AAATAATACGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
CA
Found at i:32685346 original size:102 final size:101
Alignment explanation
Indices: 32685164--32685396 Score: 371
Period size: 102 Copynumber: 2.3 Consensus size: 101
32685154 AAATAATACA
* * *
32685164 TGAACAGGAGAGATTCCCTGCAA-GAAATGA-TGTGAACAGGAGAGATTCCCTGCAACAAAATAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATTGTGAACAGGAGAGATTCCCTGCAACAAAATAA
*
32685227 TCCGTGAATAGGAGAGATTCCCTGCAAGAAATGATG
66 TCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
32685263 TGAACAGGAAAGATTCCCTGCAACAAAATAATTTGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAA-TTGTGAACAGGAGAGATTCCCTGCAACAAAATA
* *
32685328 ATGCGTGAACAGGGGAGATTCCCTGCAAGAAATGATG
65 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* *
32685365 TGAACAGGAAAGATTCTCTGCAACAGAATAAT
1 TGAACAGGAAAGATTCCCTGCAACAAAATAAT
32685397 GCGTTCCTCT
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
99 22 0.18
100 5 0.04
101 1 0.01
102 95 0.77
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (101 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATTGTGAACAGGAGAGATTCCCTGCAACAAAATAA
TCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:32685682 original size:21 final size:22
Alignment explanation
Indices: 32685652--32685696 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
32685642 GAGCAAATTG
32685652 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
32685674 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
32685695 TT
1 TT
32685697 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:32688441 original size:27 final size:27
Alignment explanation
Indices: 32688410--32688464 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
32688400 GTCCAATATG
*
32688410 TTGTTCTCTAACGCACATATTCATGCA
1 TTGTTCTCTAACACACATATTCATGCA
32688437 TTGTTCTCTAACACACATATTCATGCA
1 TTGTTCTCTAACACACATATTCATGCA
32688464 T
1 T
32688465 CGATTTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
TTGTTCTCTAACACACATATTCATGCA
Found at i:32712632 original size:15 final size:14
Alignment explanation
Indices: 32712598--32712639 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
32712588 TCTATTTATT
32712598 TTTACAATTTCAA-
1 TTTACAATTTCAAC
32712611 TTT-CAATTTCAAC
1 TTTACAATTTCAAC
32712624 TTATACAATTTCAAC
1 TT-TACAATTTCAAC
32712639 T
1 T
32712640 CGTCCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 9 0.35
13 5 0.19
14 1 0.04
15 11 0.42
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTACAATTTCAAC
Found at i:32716467 original size:20 final size:20
Alignment explanation
Indices: 32716442--32716481 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32716432 AGTTAATTCG
32716442 TTATTGATCTTGACATTTAA
1 TTATTGATCTTGACATTTAA
32716462 TTATTGATCTTGACATTTAA
1 TTATTGATCTTGACATTTAA
32716482 GATTCAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTATTGATCTTGACATTTAA
Found at i:32727211 original size:15 final size:18
Alignment explanation
Indices: 32727191--32727226 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
32727181 CCCCTATACT
32727191 TTTCAA-ATTT-T-AAAA
1 TTTCAATATTTATGAAAA
32727206 TTTCAATATTTATGAAAA
1 TTTCAATATTTATGAAAA
32727224 TTT
1 TTT
32727227 ATAGTCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.33
16 4 0.22
17 1 0.06
18 7 0.39
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTCAATATTTATGAAAA
Found at i:32727932 original size:18 final size:17
Alignment explanation
Indices: 32727898--32727948 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
32727888 GCTTTTATAA
32727898 TTTTATAATTATT-TATT
1 TTTTATAATT-TTATATT
32727915 TTTTATAGATTTTATATT
1 TTTTATA-ATTTTATATT
* *
32727933 TTTAATAAATTTATAT
1 TTTTATAATTTTATAT
32727949 AATTTCTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTATAATTTTATATT
Found at i:32729191 original size:17 final size:17
Alignment explanation
Indices: 32729169--32729201 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32729159 TTTCCATGTG
32729169 TTAAAATGTGATTGGGC
1 TTAAAATGTGATTGGGC
32729186 TTAAAATGTGATTGGG
1 TTAAAATGTGATTGGG
32729202 TTAGAGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (17 bp):
TTAAAATGTGATTGGGC
Found at i:32729617 original size:24 final size:23
Alignment explanation
Indices: 32729581--32729642 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
32729571 TCCGTCTATT
* *
32729581 TATTTTATGAAATTT-ATTTTTTA
1 TATTTTATAAAATTTGA-TATTTA
*
32729604 TTTTTTATCAAAATTTGATATTTA
1 TATTTTAT-AAAATTTGATATTTA
32729628 TATTTTATAAAATTT
1 TATTTTATAAAATTT
32729643 TATAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 14 0.42
24 18 0.55
25 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (23 bp):
TATTTTATAAAATTTGATATTTA
Found at i:32734981 original size:80 final size:82
Alignment explanation
Indices: 32734852--32735048 Score: 204
Period size: 80 Copynumber: 2.4 Consensus size: 82
32734842 TAGGTGATTT
* * * ** * ** * **
32734852 TTAGAATTGACATTCACGAAAACATTATGCATAAGAAATTTTCAAAATATAACATA-AGCGGTCG
1 TTAGAATTGCCTTTCACCAAAACATTAAACATAGGAGTTTTTAAAAATATAACATAGA-CGACCG
* *
32734916 CTCTCATAT-G-TGATCT
65 CTCTCAGATAGCTGATCC
* *
32734932 TTAGAATTGCCTTTCGCC-AAACATTTAAACATAGGAGTTTTTAAAAATATAACATAGATGACCG
1 TTAGAATTGCCTTTCACCAAAACA-TTAAACATAGGAGTTTTTAAAAATATAACATAGACGACCG
*
32734996 TTCTCAGATAGCTGATCC
65 CTCTCAGATAGCTGATCC
32735014 TTAGAATTGCCTTTCACCAAAACATTAAACATAGG
1 TTAGAATTGCCTTTCACCAAAACATTAAACATAGG
32735049 TGATCTTCAA
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
79 5 0.05
80 50 0.53
81 2 0.02
82 33 0.35
83 5 0.05
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (82 bp):
TTAGAATTGCCTTTCACCAAAACATTAAACATAGGAGTTTTTAAAAATATAACATAGACGACCGC
TCTCAGATAGCTGATCC
Found at i:32751346 original size:26 final size:26
Alignment explanation
Indices: 32751317--32751369 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
32751307 TGATAAATAG
32751317 TCCAATTAAGACTAAAATGAGTTCAT
1 TCCAATTAAGACTAAAATGAGTTCAT
32751343 TCCAATTAAGACTAAAATGAGTTCAT
1 TCCAATTAAGACTAAAATGAGTTCAT
32751369 T
1 T
32751370 TAGATGGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (26 bp):
TCCAATTAAGACTAAAATGAGTTCAT
Found at i:32755374 original size:21 final size:21
Alignment explanation
Indices: 32755324--32755381 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
32755314 ATCAAATTGT
* *
32755324 TGCTCCTGGTCAAAATTATTT
1 TGCTCCTGGTCAAAATAATTC
*
32755345 TG-TGGCTGGTCAAAATAATTC
1 TGCT-CCTGGTCAAAATAATTC
*
32755366 TGCTTCTGGTCAAAAT
1 TGCTCCTGGTCAAAAT
32755382 GTGTGTGCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (21 bp):
TGCTCCTGGTCAAAATAATTC
Found at i:32758931 original size:7 final size:7
Alignment explanation
Indices: 32758908--32759004 Score: 83
Period size: 7 Copynumber: 14.0 Consensus size: 7
32758898 AATCAAAGTC
*
32758908 TAAATTT
1 TAAATCT
*
32758915 TAAA-CC
1 TAAATCT
*
32758921 TAAATAT
1 TAAATCT
32758928 TAAATCT
1 TAAATCT
*
32758935 TAAA-CAA
1 TAAATC-T
32758942 TAAAT-T
1 TAAATCT
32758948 ATAAATCT
1 -TAAATCT
*
32758956 TAAATAT
1 TAAATCT
*
32758963 TAAATCG
1 TAAATCT
32758970 TAAATCT
1 TAAATCT
*
32758977 TAAATAT
1 TAAATCT
*
32758984 TAAATTT
1 TAAATCT
32758991 TAAATCT
1 TAAATCT
32758998 TAAATCT
1 TAAATCT
32759005 ATTACTATTG
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
6 5 0.07
7 65 0.92
8 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.40
Consensus pattern (7 bp):
TAAATCT
Found at i:32758952 original size:21 final size:21
Alignment explanation
Indices: 32758928--32759002 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
32758918 ACCTAAATAT
* *
32758928 TAAATCTTAAACAATAAATTA
1 TAAATCTTAAATATTAAATTA
**
32758949 TAAATCTTAAATATTAAATCG
1 TAAATCTTAAATATTAAATTA
*
32758970 TAAATCTTAAATATTAAATTT
1 TAAATCTTAAATATTAAATTA
32758991 TAAATCTTAAAT
1 TAAATCTTAAAT
32759003 CTATTACTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (21 bp):
TAAATCTTAAATATTAAATTA
Found at i:32759719 original size:14 final size:16
Alignment explanation
Indices: 32759696--32759727 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32759686 GTCTGTTTGA
32759696 TTTCCAGTAAAAT-AT
1 TTTCCAGTAAAATGAT
32759711 TTTCC-GTAAAATGAT
1 TTTCCAGTAAAATGAT
32759726 TT
1 TT
32759728 CTAGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (16 bp):
TTTCCAGTAAAATGAT
Found at i:32759727 original size:15 final size:15
Alignment explanation
Indices: 32759696--32759741 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
32759686 GTCTGTTTGA
32759696 TTTCCAGTAAAATAT
1 TTTCCAGTAAAATAT
32759711 TTTCC-GTAAAATGA-
1 TTTCCAGTAAAAT-AT
*
32759725 TTTCTAG-AAAATAT
1 TTTCCAGTAAAATAT
32759739 TTT
1 TTT
32759742 ACTTTTCTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 1 0.04
14 19 0.70
15 7 0.26
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (15 bp):
TTTCCAGTAAAATAT
Found at i:32759754 original size:34 final size:35
Alignment explanation
Indices: 32759710--32759776 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
32759700 CAGTAAAATA
32759710 TTTTCCGTAAAATGATTT-CTAGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
32759744 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
32759777 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:32760827 original size:9 final size:9
Alignment explanation
Indices: 32760813--32760842 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
32760803 GACTCAATCT
32760813 ATTATTTGA
1 ATTATTTGA
32760822 ATTATTTGA
1 ATTATTTGA
*
32760831 GTTATTTGA
1 ATTATTTGA
32760840 ATT
1 ATT
32760843 GTAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (9 bp):
ATTATTTGA
Found at i:32761386 original size:2 final size:2
Alignment explanation
Indices: 32761379--32761405 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32761369 GGCAAAAATA
32761379 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
32761406 CCCCCTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:32765085 original size:29 final size:30
Alignment explanation
Indices: 32765046--32765116 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
32765036 CAATGTATAA
* *
32765046 TTAATAAAAATTCAATAAATTTAAAAAA-T
1 TTAATAAAAATTCAACAAATTAAAAAAAGT
32765075 TTAATAAAAATTCAACAAATTAAAAAAAGT
1 TTAATAAAAATTCAACAAATTAAAAAAAGT
* *
32765105 TTTAGAAAAATT
1 TTAATAAAAATT
32765117 ATACAACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 26 0.70
30 11 0.30
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (30 bp):
TTAATAAAAATTCAACAAATTAAAAAAAGT
Found at i:32768685 original size:14 final size:14
Alignment explanation
Indices: 32768668--32768697 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32768658 TGAAAACGGA
32768668 TTTTAAAAAATGAT
1 TTTTAAAAAATGAT
*
32768682 TTTTGAAAAATGAT
1 TTTTAAAAAATGAT
32768696 TT
1 TT
32768698 ATTTTTCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTAAAAAATGAT
Found at i:32776123 original size:16 final size:17
Alignment explanation
Indices: 32776095--32776126 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
32776085 ATATAAAAAG
32776095 AAAATTGTAGTTAAATT
1 AAAATTGTAGTTAAATT
32776112 AAAATT-TAGTTAAAT
1 AAAATTGTAGTTAAAT
32776127 GTTTAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
AAAATTGTAGTTAAATT
Found at i:32776424 original size:12 final size:12
Alignment explanation
Indices: 32776390--32776428 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
32776380 TAAAATATAT
32776390 TAAATTTATTT-
1 TAAATTTATTTA
32776401 TATAATTT-TTTA
1 TA-AATTTATTTA
32776413 TAAATTTATTTA
1 TAAATTTATTTA
32776425 TAAA
1 TAAA
32776429 CAACATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TAAATTTATTTA
Found at i:32781445 original size:15 final size:15
Alignment explanation
Indices: 32781425--32781455 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32781415 TTTTCAAATG
*
32781425 AACAACAATGAACAA
1 AACAACAAAGAACAA
32781440 AACAACAAAGAACAA
1 AACAACAAAGAACAA
32781455 A
1 A
32781456 GGCCGTAAAA
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:0.71, C:0.19, G:0.06, T:0.03
Consensus pattern (15 bp):
AACAACAAAGAACAA
Found at i:32782812 original size:22 final size:23
Alignment explanation
Indices: 32782780--32782829 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
32782770 CTTACGGAAG
*
32782780 CTCAATATCTCAAGACATGAA-C
1 CTCAATATCTCAAGACATCAAGC
*
32782802 CTCAATGTCTCAAGACATCAAGC
1 CTCAATATCTCAAGACATCAAGC
32782825 CTCAA
1 CTCAA
32782830 AGCTAAGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (23 bp):
CTCAATATCTCAAGACATCAAGC
Found at i:32785383 original size:17 final size:17
Alignment explanation
Indices: 32785339--32785395 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
32785329 TATATTATTT
* *
32785339 TAATTTAATATTTAATA
1 TAATTAAATATTTTATA
*
32785356 -AATTTATATATTTT-TA
1 TAA-TTAAATATTTTATA
32785372 TTAATTAAATATTTTATA
1 -TAATTAAATATTTTATA
32785390 TAATTA
1 TAATTA
32785396 TCTTTAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 4 0.12
17 24 0.75
18 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTAAATATTTTATA
Found at i:32785383 original size:34 final size:34
Alignment explanation
Indices: 32785329--32785394 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
32785319 AAACTATATT
*
32785329 TATATTATTTTAATTTAATATTTAATA-AATTTA
1 TATATTATTTTAATTAAATATTTAATATAATTTA
* *
32785362 TATATTTTTATTAATTAAATATTTTATATAATT
1 TATATTATT-TTAATTAAATATTTAATATAATT
32785395 ATCTTTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 8 0.29
34 16 0.57
35 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TATATTATTTTAATTAAATATTTAATATAATTTA
Found at i:32785600 original size:23 final size:24
Alignment explanation
Indices: 32785556--32785601 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
32785546 TTCAAACTCG
32785556 AGCCTAACCCATATTTTTAAACAA
1 AGCCTAACCCATATTTTTAAACAA
32785580 AGCCTAACCCATA-TTTTAAACA
1 AGCCTAACCCATATTTTTAAACA
32785602 TACATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.28
Consensus pattern (24 bp):
AGCCTAACCCATATTTTTAAACAA
Found at i:32788188 original size:6 final size:6
Alignment explanation
Indices: 32788177--32788202 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32788167 CATATAAATC
32788177 TAGATA TAGATA TAGATA TAGATA TA
1 TAGATA TAGATA TAGATA TAGATA TA
32788203 ATTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
TAGATA
Found at i:32788189 original size:18 final size:18
Alignment explanation
Indices: 32788168--32788202 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32788158 TTGGATAAAC
*
32788168 ATATAAATCTAGATATAG
1 ATATAAATATAGATATAG
*
32788186 ATATAGATATAGATATA
1 ATATAAATATAGATATA
32788203 ATTATAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
ATATAAATATAGATATAG
Found at i:32790798 original size:14 final size:16
Alignment explanation
Indices: 32790764--32790800 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32790754 TTTCTAATAT
*
32790764 AAATTTAGCACTTATA
1 AAATTTAGCACGTATA
32790780 AAATTTAGCA-GTA-A
1 AAATTTAGCACGTATA
32790794 AAATTTA
1 AAATTTA
32790801 ATATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 2 0.10
16 10 0.50
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (16 bp):
AAATTTAGCACGTATA
Found at i:32792856 original size:27 final size:27
Alignment explanation
Indices: 32792825--32792889 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
32792815 GTAGGTAGTG
32792825 CCTATCT-AGTAGGCGCCACTA-GTGACT
1 CCTATCTGA-TAGGCGCCA-TAGGTGACT
32792852 CCTATCTGATAGGCGCCATAGGTGACT
1 CCTATCTGATAGGCGCCATAGGTGACT
32792879 CCTATCTGATA
1 CCTATCTGATA
32792890 TGTGCCACTG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 2 0.06
27 33 0.92
28 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCATAGGTGACT
Found at i:32793277 original size:101 final size:101
Alignment explanation
Indices: 32793053--32793382 Score: 378
Period size: 101 Copynumber: 3.1 Consensus size: 101
32793043 GTTTAATTTA
* ** *
32793053 AAAAAATTACAAAATACTAAACTAAACACTAACAACTTATATAACCTAATCATAAATTACTAACA
1 AAAAAATAACAAAACCCTAAACTAAACACTAACAA-TT-TGTAACC----CATAAATTACTAACA
** * * *
32793118 AAATAGCT-A-TAAAATTATTTTTTTAAA-AAATTACATTACT
60 AAATAAATAACTATAA-CATTTTTTAAAAGAAATTACATTACT
*
32793158 AAAAAATCACAAAACCCTAAACTAAACACTAACAATTTGTAACCCATAAATTACTAACAAAATAA
1 AAAAAATAACAAAACCCTAAACTAAACACTAACAATTTGTAACCCATAAATTACTAACAAAATAA
*
32793223 ATAACTATAACATTTTTTAAAAGAAATTACATCACT
66 ATAACTATAACATTTTTTAAAAGAAATTACATTACT
* *
32793259 AAAAAATAACAAAGCCCTAAACTAAACACTAACAATTTGTAACCTAATCCCATAAATTGCTAACA
1 AAAAAATAACAAAACCCTAAACTAAACACTAACAATTTG-----TAA-CCCATAAATTACTAACA
32793324 AAATAAATAACTATAACACTTTTTTTAAAAGAAATTACATTACT
60 AAATAAATAACTATAACA--TTTTTTAAAAGAAATTACATTACT
*
32793368 AAAAAATAGCAAAAC
1 AAAAAATAACAAAAC
32793383 ACAAAACACT
Statistics
Matches: 198, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
99 21 0.11
100 11 0.06
101 53 0.27
103 6 0.03
104 2 0.01
105 32 0.16
106 3 0.02
107 34 0.17
109 36 0.18
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.27
Consensus pattern (101 bp):
AAAAAATAACAAAACCCTAAACTAAACACTAACAATTTGTAACCCATAAATTACTAACAAAATAA
ATAACTATAACATTTTTTAAAAGAAATTACATTACT
Found at i:32793488 original size:38 final size:37
Alignment explanation
Indices: 32793445--32793562 Score: 93
Period size: 38 Copynumber: 3.2 Consensus size: 37
32793435 TTAAATTTAC
32793445 ATTACTAAAGACTCACAAAATACAACAATTTATAATAA
1 ATTACTAAA-ACTCACAAAATACAACAATTTATAATAA
** * * ** *
32793483 ATTACT--AA--CA-AAATATTTAACAAAATAATTTTAC
1 ATTACTAAAACTCACAAA-ATACAAC-AATTTATAATAA
*
32793517 ATTACTAAAAACTCACAAAACACAACAATTTATAATAA
1 ATTACT-AAAACTCACAAAATACAACAATTTATAATAA
32793555 ATTACTAA
1 ATTACTAA
32793563 CAAAATATTT
Statistics
Matches: 57, Mismatches: 15, Indels: 17
0.64 0.17 0.19
Matches are distributed among these distances:
32 3 0.05
33 7 0.12
34 13 0.23
35 1 0.02
36 1 0.02
37 4 0.07
38 19 0.33
39 6 0.11
40 3 0.05
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (37 bp):
ATTACTAAAACTCACAAAATACAACAATTTATAATAA
Found at i:32793495 original size:31 final size:31
Alignment explanation
Indices: 32793459--32793569 Score: 78
Period size: 31 Copynumber: 3.3 Consensus size: 31
32793449 CTAAAGACTC
32793459 ACAAAATACAACAATTTATAATAAATTACTA
1 ACAAAATACAACAATTTATAATAAATTACTA
* * ** *
32793490 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
1 ACAAAATA--CAAC--AAT--TTATA-A-TA--AATTACTA
*
32793531 ACAAAACACAACAATTTATAATAAATTACTA
1 ACAAAATACAACAATTTATAATAAATTACTA
32793562 ACAAAATA
1 ACAAAATA
32793570 TTTAACACAA
Statistics
Matches: 58, Mismatches: 12, Indels: 20
0.64 0.13 0.22
Matches are distributed among these distances:
31 20 0.34
33 5 0.09
34 1 0.02
35 7 0.12
37 7 0.12
38 1 0.02
39 5 0.09
41 12 0.21
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (31 bp):
ACAAAATACAACAATTTATAATAAATTACTA
Found at i:32793535 original size:72 final size:72
Alignment explanation
Indices: 32793440--32793576 Score: 256
Period size: 72 Copynumber: 1.9 Consensus size: 72
32793430 TATTTTTAAA
* *
32793440 TTTACATTACTAAAGACTCACAAAATACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
32793505 AAATAAT
66 AAATAAT
32793512 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
32793577 CAACCAGTGA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
AAATAAT
Found at i:32793547 original size:34 final size:34
Alignment explanation
Indices: 32793440--32793547 Score: 83
Period size: 34 Copynumber: 3.1 Consensus size: 34
32793430 TATTTTTAAA
* *
32793440 TTTACATTACTAAAGACTCACAAAATACAACAATT
1 TTTACATTACTAAAAACTCACAAAACACAACAA-T
* * *** * *
32793475 TATAATAAATTACTAACAAAAT-ATTTAACAAAATAAT
1 T-T--TACATTACTAA-AAACTCACAAAACACAACAAT
32793512 TTTACATTACTAAAAACTCACAAAACACAACAAT
1 TTTACATTACTAAAAACTCACAAAACACAACAAT
32793546 TT
1 TT
32793548 ATAATAAATT
Statistics
Matches: 52, Mismatches: 16, Indels: 11
0.66 0.20 0.14
Matches are distributed among these distances:
33 4 0.08
34 22 0.42
35 1 0.02
36 2 0.04
37 2 0.04
38 18 0.35
39 3 0.06
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.30
Consensus pattern (34 bp):
TTTACATTACTAAAAACTCACAAAACACAACAAT
Found at i:32793577 original size:38 final size:38
Alignment explanation
Indices: 32793466--32793580 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 38
32793456 CTCACAAAAT
32793466 ACAACAATTTATAATAAATTACTAACAAAATATTTAAC
1 ACAACAATTTATAATAAATTACTAACAAAATATTTAAC
* * * * ***
32793504 AAAATAA-TT-T--TACATTACTAA-AAACTCACAAAAC
1 ACAACAATTTATAATAAATTACTAACAAAAT-ATTTAAC
32793538 ACAACAATTTATAATAAATTACTAACAAAATATTTAAC
1 ACAACAATTTATAATAAATTACTAACAAAATATTTAAC
32793576 ACAAC
1 ACAAC
32793581 CAGTGACGCC
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
33 4 0.07
34 19 0.33
35 2 0.04
36 2 0.04
37 2 0.04
38 24 0.42
39 4 0.07
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.29
Consensus pattern (38 bp):
ACAACAATTTATAATAAATTACTAACAAAATATTTAAC
Found at i:32793635 original size:27 final size:27
Alignment explanation
Indices: 32793579--32793636 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
32793569 ATTTAACACA
* *
32793579 ACCAGTGACGCCTATCAAATAGGAGTC
1 ACCAGTGACGCCTACCAAATAGGAGCC
* *
32793606 ACCAGTGGCGCCTACCAGATAGGCA-CC
1 ACCAGTGACGCCTACCAAATAGG-AGCC
32793633 ACCA
1 ACCA
32793637 ACCCCATACC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.14
Consensus pattern (27 bp):
ACCAGTGACGCCTACCAAATAGGAGCC
Found at i:32793734 original size:16 final size:17
Alignment explanation
Indices: 32793708--32793749 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
32793698 GGCGCCACCA
* *
32793708 ATAAAATAATATTTCTT
1 ATAAAAAAATATATCTT
32793725 -TAAAAAAATATATCTT
1 ATAAAAAAATATATCTT
32793741 ATAAAAAAA
1 ATAAAAAAA
32793750 AAGTGGTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAAAAATATATCTT
Found at i:32794262 original size:23 final size:24
Alignment explanation
Indices: 32794236--32794290 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
32794226 TTTTTTTAAT
*
32794236 AATATTTTTTTTTACTTT-TAAAA
1 AATATTTTATTTTACTTTATAAAA
*
32794259 AATATTGTTATTTTATTTTATAAAA
1 AATATT-TTATTTTACTTTATAAAA
32794284 AATATTT
1 AATATTT
32794291 AAATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.21
24 11 0.39
25 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
AATATTTTATTTTACTTTATAAAA
Found at i:32794272 original size:25 final size:23
Alignment explanation
Indices: 32794236--32794290 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
32794226 TTTTTTTAAT
32794236 AATATTTTTTTTTACTTT-TAAAA
1 AATA-TTTTTTTTACTTTATAAAA
*
32794259 AATATTGTTATTTTATTTTATAAAA
1 AATATT-TT-TTTTACTTTATAAAA
32794284 AATATTT
1 AATATTT
32794291 AAATAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 6 0.21
24 9 0.32
25 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
AATATTTTTTTTACTTTATAAAA
Found at i:32794461 original size:7 final size:7
Alignment explanation
Indices: 32794449--32794485 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
32794439 CACAGCCCCT
32794449 CCCTCTG
1 CCCTCTG
32794456 CCCTCTG
1 CCCTCTG
32794463 CCCTCTG
1 CCCTCTG
32794470 CCCTCTG
1 CCCTCTG
32794477 CCCTCTG
1 CCCTCTG
32794484 CC
1 CC
32794486 GTGGACTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.00, C:0.59, G:0.14, T:0.27
Consensus pattern (7 bp):
CCCTCTG
Found at i:32794873 original size:57 final size:57
Alignment explanation
Indices: 32794785--32794897 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
32794775 TTTTTTGTTT
*
32794785 TTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGCTATAAATTGTG
1 TTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGCTATAAATTGTG
*
32794842 TTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGT
1 TTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGCTATAAATTGT
32794898 TGTGTTTAGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.52
Consensus pattern (57 bp):
TTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGCTATAAATTGTG
Found at i:32794999 original size:72 final size:72
Alignment explanation
Indices: 32794918--32795093 Score: 286
Period size: 72 Copynumber: 2.5 Consensus size: 72
32794908 TTAATATTTG
*
32794918 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGATGGTAAATCATTATAAATTGTT
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGATAGTAAATCATTATAAATTGTT
32794983 GTGTTTT
66 GTGTTTT
* * *
32794990 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTGTT
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGATAGTAAATCATTATAAATTGTT
32795055 GTGTTTT
66 GTGTTTT
*
32795062 GTTAGTTTTTAGTAATGT-AAATT-TTTT-TTAAA
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAA
32795094 AAAATTTTAT
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
69 5 0.05
70 4 0.04
71 5 0.05
72 85 0.86
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (72 bp):
GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGATAGTAAATCATTATAAATTGTT
GTGTTTT
Found at i:32795013 original size:34 final size:33
Alignment explanation
Indices: 32794975--32795082 Score: 90
Period size: 34 Copynumber: 3.1 Consensus size: 33
32794965 AAATCATTAT
32794975 AAATTGTTGTGTTTTGTGAGTTTTTAGTAATGTA
1 AAATTGTTGTGTTTTGT-AGTTTTTAGTAATGTA
* * *** * *
32795009 AAATTATTTTGTTAAATATTTTGTTAGTAATTTATTA
1 AAATTGTTGTGTTTTGTAGTTT-TTAGTAA--T-GTA
32795046 TAAATTGTTGTGTTTTGTTAGTTTTTAGTAATGTA
1 -AAATTGTTGTGTTTTG-TAGTTTTTAGTAATGTA
32795081 AA
1 AA
32795083 TTTTTTTTAA
Statistics
Matches: 54, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
33 4 0.07
34 21 0.39
35 2 0.04
36 2 0.04
37 2 0.04
38 18 0.33
39 5 0.09
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (33 bp):
AAATTGTTGTGTTTTGTAGTTTTTAGTAATGTA
Found at i:32795172 original size:98 final size:96
Alignment explanation
Indices: 32795058--32795361 Score: 351
Period size: 103 Copynumber: 3.0 Consensus size: 96
32795048 AATTGTTGTG
*
32795058 TTTTGTTAGTTTTTAGTAATGTAAATTTTTTTTAAAAAAATTTTATAGTTATTTTGTTAGTAGTT
1 TTTTGTTATTTTTTAGTAATGT-AATTTTTTTTAAAAAAATTTTATAGTTATTTTGTTAGTA-TT
*
32795123 TATGATTAGGTTATAAATTGTTAGTGTTTTGTT
64 TATGATTAGGTTATAAATTGTTAGTGTTTAGTT
* *
32795156 TTTTGTTATTTTTTAGTAATGTAATTTCTTTTAAAAAAATGTTATAGTTATTTATTTTGTTAGTA
1 TTTTGTTATTTTTTAGTAATGTAATTTTTTTTAAAAAAAT-TT-TA--TAGTTATTTTGTTAGT-
**
32795221 ATTTATGAGATTAGGTTACCAATTGTTAGTGTTTAGTTT
61 ATTTAT--GATTAGGTTATAAATTGTTAGTGTTTAG-TT
* * * *
32795260 AGGGTTTTGTGATTTTTTAGTAATATAA--TTTTTAAAAAATAATTTTATAGTTGTTTTGTTAGT
1 ----TTTTGTTATTTTTTAGTAATGTAATTTTTTTTAAAAA-AATTTTATAGTTATTTTGTTAGT
32795323 ATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTT
61 ATTTATGATTAGG-T-TATAAATTGTTAGTGTTTAGTT
32795361 T
1 T
32795362 AGTGTTTTGT
Statistics
Matches: 177, Mismatches: 14, Indels: 31
0.80 0.06 0.14
Matches are distributed among these distances:
97 18 0.10
98 23 0.13
99 2 0.01
100 7 0.04
101 23 0.13
102 25 0.14
103 39 0.22
104 2 0.01
105 2 0.01
106 11 0.06
107 3 0.02
108 22 0.12
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.55
Consensus pattern (96 bp):
TTTTGTTATTTTTTAGTAATGTAATTTTTTTTAAAAAAATTTTATAGTTATTTTGTTAGTATTTA
TGATTAGGTTATAAATTGTTAGTGTTTAGTT
Found at i:32795359 original size:102 final size:99
Alignment explanation
Indices: 32795057--32795392 Score: 380
Period size: 102 Copynumber: 3.3 Consensus size: 99
32795047 AAATTGTTGT
* * *
32795057 GTTTTGTTAGTTTTTAGTAATGTAAATTTTTTTTAAAAAAATTTTATAGTTATTTTGTTAGTAGT
1 GTTTTGTGATTTTTTAGTAATGT-AA-TTTTTTAAAAAAAATTTTATAGTTATTTTGTTAGTA-T
*
32795122 TTATGATTAGGTTATAAATTGTTAGTGTTTTG-TT--
63 TTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAG
* * *
32795156 -TTTTGTTATTTTTTAGTAATGTAATTTCTTTTAAAAAAATGTTATAGTTATTTATTTTGTTAGT
1 GTTTTGTGATTTTTTAGTAATGTAATTT-TTTAAAAAAAAT-TT-TA--TAGTTATTTTGTTAGT
**
32795220 AATTTATGAGATTAGGTTACCAATTGTTAGTGTTTAGTTTAGG
61 -ATTTAT--GATTAGGTTATAAATTGTTAGTGTTTAGTTTA-G
* *
32795263 GTTTTGTGATTTTTTAGTAATATAA-TTTTTAAAAAATAATTTTATAGTTGTTTTGTTAGTATTT
1 GTTTTGTGATTTTTTAGTAATGTAATTTTTTAAAAAA-AATTTTATAGTTATTTTGTTAGTATTT
32795327 ATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAG
65 ATGATTAGG-T-TATAAATTGTTAGTGTTTAGTTTAG
32795364 TGTTTTGTGATTTTTT--TAATGTAATTTTT
1 -GTTTTGTGATTTTTTAGTAATGTAATTTTT
32795393 ATATAATGCA
Statistics
Matches: 206, Mismatches: 13, Indels: 34
0.81 0.05 0.13
Matches are distributed among these distances:
96 3 0.01
97 14 0.07
98 23 0.11
99 2 0.01
100 14 0.07
101 26 0.13
102 44 0.21
103 39 0.19
104 2 0.01
105 2 0.01
106 10 0.05
107 5 0.02
108 22 0.11
ACGTcount: A:0.27, C:0.01, G:0.16, T:0.56
Consensus pattern (99 bp):
GTTTTGTGATTTTTTAGTAATGTAATTTTTTAAAAAAAATTTTATAGTTATTTTGTTAGTATTTA
TGATTAGGTTATAAATTGTTAGTGTTTAGTTTAG
Found at i:32797541 original size:33 final size:33
Alignment explanation
Indices: 32797438--32797553 Score: 119
Period size: 33 Copynumber: 3.5 Consensus size: 33
32797428 TTTCAGCCCG
* * *
32797438 TATCCACCACCGTACTCCATTCCTTCTAGCCTA
1 TATCCACCGCCGTACTCCACTCCTTCCAGCCTA
*
32797471 TATCCACCGTCGTACTCCACTCCTTCCAG-CTA
1 TATCCACCGCCGTACTCCACTCCTTCCAGCCTA
* * *
32797503 GTATCCACCGCCGTTCTCTAC-CCTTTCCAGCCCA
1 -TATCCACCGCCGTACTCCACTCC-TTCCAGCCTA
* *
32797537 TATCCACCACTGTACTC
1 TATCCACCGCCGTACTC
32797554 TACTACTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 5 0.07
33 62 0.90
34 2 0.03
ACGTcount: A:0.19, C:0.44, G:0.09, T:0.28
Consensus pattern (33 bp):
TATCCACCGCCGTACTCCACTCCTTCCAGCCTA
Found at i:32797986 original size:77 final size:76
Alignment explanation
Indices: 32797762--32798054 Score: 418
Period size: 77 Copynumber: 3.9 Consensus size: 76
32797752 AATAATTTCA
* * *
32797762 TATTTATATAATGACTTTTTTGCCATTTTA-GTATTTAATTTTATGGGTTTTTTTTGCAATTTAA
1 TATTTATGTAATGACTTTTTTGTCATTTTATTTA-TTAATTTTAT-GGTTTTTTTTGCAATTTAA
32797826 ATAGTCAACTTTG
64 ATAGTCAACTTTG
*
32797839 TATTTATGTAATGA-TTTTTT-TCCATTTTATTTATTAATTTTATGGTTTTTTTTACAATTTAAA
1 TATTTATGTAATGACTTTTTTGT-CATTTTATTTATTAATTTTATGGTTTTTTTTGCAATTTAAA
*
32797902 TATTCAACTTTG
65 TAGTCAACTTTG
32797914 TATTTATGTAATGACTTTTTTGTCATTTTATTTATTAATTTTATGGGTTTTTTTTGCAATTTAAA
1 TATTTATGTAATGACTTTTTTGTCATTTTATTTATTAATTTTAT-GGTTTTTTTTGCAATTTAAA
32797979 TAGTCAACTTTG
65 TAGTCAACTTTG
* * * *
32797991 TATTTATGTAATGAATTTTTCG-CTATTTTAGTTATTAATTTTA-GG-ATTTTTTGCAATTTAAA
1 TATTTATGTAATGACTTTTTTGTC-ATTTTATTTATTAATTTTATGGTTTTTTTTGCAATTTAAA
32798053 TA
65 TA
32798055 ATAAAATTTA
Statistics
Matches: 199, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
74 18 0.09
75 46 0.23
76 51 0.26
77 84 0.42
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (76 bp):
TATTTATGTAATGACTTTTTTGTCATTTTATTTATTAATTTTATGGTTTTTTTTGCAATTTAAAT
AGTCAACTTTG
Found at i:32798041 original size:152 final size:151
Alignment explanation
Indices: 32797762--32798054 Score: 466
Period size: 152 Copynumber: 1.9 Consensus size: 151
32797752 AATAATTTCA
32797762 TATTTATATAATGACTTTTTTGCCATTTTAGTATTTAATTTTATGGGTTTTTTTTGCAATTTAAA
1 TATTTATATAATGACTTTTTTGCCATTTTAGTATTTAATTTTATGGGTTTTTTTTGCAATTTAAA
* * *
32797827 TAGTCAACTTTGTATTTATGTAATGATTTTTTTCCATTTTATTTATTAATTTTATGGTTTTTTTT
66 TAGTCAACTTTGTATTTATGTAATGATATTTTTCCATTTTAGTTATTAATTTTATGG-ATTTTTT
32797892 ACAATTTAAATATTCAACTTTG
130 ACAATTTAAATATTCAACTTTG
* * *
32797914 TATTTATGTAATGACTTTTTTGTCATTTTA-TTTATTAATTTTATGGGTTTTTTTTGCAATTTAA
1 TATTTATATAATGACTTTTTTGCCATTTTAGTAT-TTAATTTTATGGGTTTTTTTTGCAATTTAA
32797978 ATAGTCAACTTTGTATTTATGTAATGA-ATTTTTCGCTATTTTAGTTATTAATTTTA-GGATTTT
65 ATAGTCAACTTTGTATTTATGTAATGATATTTTTC-C-ATTTTAGTTATTAATTTTATGGATTTT
*
32798041 TTGCAATTTAAATA
128 TTACAATTTAAATA
32798055 ATAAAATTTA
Statistics
Matches: 131, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
151 25 0.19
152 88 0.67
153 18 0.14
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (151 bp):
TATTTATATAATGACTTTTTTGCCATTTTAGTATTTAATTTTATGGGTTTTTTTTGCAATTTAAA
TAGTCAACTTTGTATTTATGTAATGATATTTTTCCATTTTAGTTATTAATTTTATGGATTTTTTA
CAATTTAAATATTCAACTTTG
Found at i:32798106 original size:152 final size:150
Alignment explanation
Indices: 32797798--32798108 Score: 328
Period size: 152 Copynumber: 2.0 Consensus size: 150
32797788 TTTAGTATTT
*
32797798 AATTTTATGGGTTTTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAATGATTTTTTTCCA
1 AATTTTATGGGTTTTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAATGATATTTTTCCA
* * * * * *
32797863 TTTTATTTATTAATTTTATGGTTTTTTTTACAATTTAAATATTCAACTTTGTATTTATGTAATGA
66 TTTTAGTTATTAATTTTATGGTATTTTTTACAATTTAAATAATAAAATTTGTACTTATGTAAT-A
**** * * * **
32797928 CTTTTTTGTCATTTTATTTATT
130 -TCAAATGACATTTAATTAACA
32797950 AATTTTATGGGTTTTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAATGA-ATTTTTCGC
1 AATTTTATGGGTTTTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAATGATATTTTTC-C
*
32798014 TATTTTAGTTATTAATTTTA-GG-ATTTTTTGCAATTTAAATAATAAAATTTAGACTAACTT-TG
65 -ATTTTAGTTATTAATTTTATGGTATTTTTTACAATTTAAATAATAAAATTT-G--T-ACTTATG
*
32798076 TAAT-TCAAATGAGA-TTAATTGCAACA
125 TAATATCAAATGACATTTAATT--AACA
32798102 AATTTTA
1 AATTTTA
32798109 GATTCAATCC
Statistics
Matches: 133, Mismatches: 18, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
150 5 0.04
151 33 0.25
152 67 0.50
153 18 0.14
154 7 0.05
155 3 0.02
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (150 bp):
AATTTTATGGGTTTTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAATGATATTTTTCCA
TTTTAGTTATTAATTTTATGGTATTTTTTACAATTTAAATAATAAAATTTGTACTTATGTAATAT
CAAATGACATTTAATTAACA
Found at i:32801181 original size:27 final size:27
Alignment explanation
Indices: 32801166--32801222 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
32801156 ACCTATTAGG
*
32801166 TAGGAGTCACCAGTGGTGCCTACCAGA
1 TAGGAGTCACCAGTGGCGCCTACCAGA
* *
32801193 TAGGAGTCACCAATGGCGCCTACTAGA
1 TAGGAGTCACCAGTGGCGCCTACCAGA
32801220 TAG
1 TAG
32801223 ATACCACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (27 bp):
TAGGAGTCACCAGTGGCGCCTACCAGA
Found at i:32803552 original size:23 final size:23
Alignment explanation
Indices: 32803509--32803551 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
32803499 CATATTCAAG
* *
32803509 TATTATTATTATTTTATAAAATA
1 TATTATTAATATTTTAAAAAATA
32803532 TATTA-TAATATTTTAAAAAA
1 TATTATTAATATTTTAAAAAA
32803552 ACTTAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTATTAATATTTTAAAAAATA
Found at i:32805877 original size:60 final size:60
Alignment explanation
Indices: 32805805--32805926 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
32805795 AAATAAATAT
32805805 ATCCTATAATTTCATATGTTCTTAAGAGCTCCGATTACCCACGGTACTTTGAGGAGACAA
1 ATCCTATAATTTCATATGTTCTTAAGAGCTCCGATTACCCACGGTACTTTGAGGAGACAA
* *
32805865 ATCCTATAATTTCATATGTTCTTAGGAGCTCCGATTACCTACGGTACTTTGAGGAGACAA
1 ATCCTATAATTTCATATGTTCTTAAGAGCTCCGATTACCCACGGTACTTTGAGGAGACAA
32805925 AT
1 AT
32805927 TTAGGCAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (60 bp):
ATCCTATAATTTCATATGTTCTTAAGAGCTCCGATTACCCACGGTACTTTGAGGAGACAA
Found at i:32808669 original size:16 final size:16
Alignment explanation
Indices: 32808641--32808684 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
32808631 AAGAAAAAAT
*
32808641 TAATAATA-GTATAAA
1 TAATAATATATATAAA
* *
32808656 TGATAATATATATACA
1 TAATAATATATATAAA
32808672 TAATAATATATAT
1 TAATAATATATAT
32808685 TAAGCAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (16 bp):
TAATAATATATATAAA
Found at i:32811273 original size:34 final size:35
Alignment explanation
Indices: 32811201--32811275 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
32811191 TAGGTCCCTG
* *
32811201 TTTATTTTATTTTATTTTAATTTGACTCGTTATGT
1 TTTATTTTATTTTATTTTAATTTGACACCTTATGT
32811236 TTTATTTT-TGTTT-TTTTAATTTGACACCTTA-GAT
1 TTTATTTTAT-TTTATTTTAATTTGACACCTTATG-T
32811270 TTTATT
1 TTTATT
32811276 ACATATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 1 0.03
34 24 0.67
35 11 0.31
ACGTcount: A:0.20, C:0.07, G:0.08, T:0.65
Consensus pattern (35 bp):
TTTATTTTATTTTATTTTAATTTGACACCTTATGT
Found at i:32824026 original size:21 final size:21
Alignment explanation
Indices: 32824003--32824043 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
32823993 ATTTGAATTA
32824003 AAAATTTTAATAT-ATATTTT
1 AAAATTTTAATATAATATTTT
*
32824023 AAAATTTTGATATAATATTTT
1 AAAATTTTAATATAATATTTT
32824044 TAATTTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AAAATTTTAATATAATATTTT
Found at i:32824350 original size:9 final size:9
Alignment explanation
Indices: 32824336--32824363 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
32824326 AATTAAAGAA
32824336 TAAATAAAT
1 TAAATAAAT
32824345 TAAATAAAT
1 TAAATAAAT
32824354 TAAATAAAT
1 TAAATAAAT
32824363 T
1 T
32824364 TACTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAATAAAT
Found at i:32832821 original size:25 final size:25
Alignment explanation
Indices: 32832793--32832844 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
32832783 AAATGAGATT
32832793 AATATTCACAAAACTAGATAAAAAG
1 AATATTCACAAAACTAGATAAAAAG
32832818 AATATTCACAAAACTAGATAAAAAG
1 AATATTCACAAAACTAGATAAAAAG
32832843 AA
1 AA
32832845 CAGTAAATAA
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:0.62, C:0.12, G:0.08, T:0.19
Consensus pattern (25 bp):
AATATTCACAAAACTAGATAAAAAG
Found at i:32833216 original size:11 final size:11
Alignment explanation
Indices: 32833202--32833231 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
32833192 ACTTTTTTTT
32833202 TATTTTTAAAA
1 TATTTTTAAAA
32833213 TATTTTTAAAA
1 TATTTTTAAAA
32833224 TACTTTTT
1 TA-TTTTT
32833232 TTAATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:32833231 original size:32 final size:33
Alignment explanation
Indices: 32833178--32833252 Score: 102
Period size: 32 Copynumber: 2.3 Consensus size: 33
32833168 GGCCCGGCCC
*
32833178 AAATA-TTTTAAAATACTTTTTTTTTATTTT-T
1 AAATATTTTTAAAATACTTTTTTTTAATTTTCT
32833209 AAAATATTTTTAAAATAC-TTTTTTTAATTTTCT
1 -AAATATTTTTAAAATACTTTTTTTTAATTTTCT
*
32833242 AAATTTTTTTA
1 AAATATTTTTA
32833253 GTGTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 27 0.69
33 12 0.31
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (33 bp):
AAATATTTTTAAAATACTTTTTTTTAATTTTCT
Found at i:32834657 original size:5 final size:5
Alignment explanation
Indices: 32834647--32834692 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
32834637 TGAATATTAA
*
32834647 TTATT TTATT TTATT TTAGTAT TTA-T TTA-T TTATT TTATA TTATT T
1 TTATT TTATT TTATT TTA-T-T TTATT TTATT TTATT TTATT TTATT T
32834693 ATGTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 8 0.22
5 23 0.64
6 1 0.03
7 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:32835169 original size:14 final size:14
Alignment explanation
Indices: 32835146--32835179 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32835136 TACAATATCC
32835146 AAATAATAACAATA
1 AAATAATAACAATA
*
32835160 AAATAGTAACAATA
1 AAATAATAACAATA
*
32835174 TAATAA
1 AAATAA
32835180 CGAAATGACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:32835607 original size:22 final size:22
Alignment explanation
Indices: 32835582--32835626 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
32835572 GTTTTATAAA
32835582 TAAAAGTA-TCATGAAAA-TCAAT
1 TAAAA-TATTCAT-AAAAGTCAAT
32835604 TAAAATATTCATAAAAGTCAAT
1 TAAAATATTCATAAAAGTCAAT
32835626 T
1 T
32835627 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (22 bp):
TAAAATATTCATAAAAGTCAAT
Found at i:32836166 original size:20 final size:19
Alignment explanation
Indices: 32836105--32836168 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
32836095 TTGGATGAAG
*
32836105 AAAAGAAGGAA-AAAAGAACA
1 AAAAGAAAGAAGAAAAG-A-A
*
32836125 AAAAGAAATAGATGAAAA-AA
1 AAAAG-AA-AGAAGAAAAGAA
32836145 AAAAGAAAGAAGAAAAGGAA
1 AAAAGAAAGAAGAAAA-GAA
32836165 AAAA
1 AAAA
32836169 TAGCAATGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 2 0.06
20 17 0.47
21 3 0.08
22 2 0.06
23 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.03
Consensus pattern (19 bp):
AAAAGAAAGAAGAAAAGAA
Found at i:32836755 original size:29 final size:29
Alignment explanation
Indices: 32836721--32836779 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
32836711 TCCACCTTGA
* * * *
32836721 CACGAATTCTCAATGAATAATTTCTTCAC
1 CACGAACTCTCAACGAATAAGTTCTCCAC
32836750 CACGAACTCTCAACGAATAAGTTCTCCAC
1 CACGAACTCTCAACGAATAAGTTCTCCAC
32836779 C
1 C
32836780 TCTTCTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.08, T:0.27
Consensus pattern (29 bp):
CACGAACTCTCAACGAATAAGTTCTCCAC
Found at i:32840427 original size:25 final size:25
Alignment explanation
Indices: 32840399--32840448 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
32840389 AAGAGTAGAG
32840399 ATTAATTAAAATTGAATTAGAAGAA
1 ATTAATTAAAATTGAATTAGAAGAA
32840424 ATTAATTAAAATTGAATTAGAAGAA
1 ATTAATTAAAATTGAATTAGAAGAA
32840449 CTTCTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (25 bp):
ATTAATTAAAATTGAATTAGAAGAA
Found at i:32842414 original size:40 final size:40
Alignment explanation
Indices: 32842349--32842435 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
32842339 TAAATTATAA
32842349 CCTT-TTTGTACTTCGGTACCTTTGATTGCACATATGTGC
1 CCTTGTTTGTACTTCGGTACCTTTGATTGCACATATGTGC
* *
32842388 CCTTGTTTGTACTTCTGTATCC-TTGATTGCACTTATGTGC
1 CCTTGTTTGTACTTCGGTA-CCTTTGATTGCACATATGTGC
*
32842428 CCCTGTTT
1 CCTTGTTT
32842436 ACTTTTCGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 4 0.09
40 37 0.86
41 2 0.05
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (40 bp):
CCTTGTTTGTACTTCGGTACCTTTGATTGCACATATGTGC
Found at i:32843821 original size:14 final size:15
Alignment explanation
Indices: 32843784--32843821 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
32843774 GATTCAATTG
32843784 AATAAAT-TATTAAA
1 AATAAATATATTAAA
*
32843798 AATAAAAATATTTAAA
1 AATAAATATA-TTAAA
32843814 AATAAATA
1 AATAAATA
32843822 AAATCAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 6 0.30
15 2 0.10
16 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATATATTAAA
Found at i:32846484 original size:5 final size:5
Alignment explanation
Indices: 32846395--32846483 Score: 115
Period size: 5 Copynumber: 17.8 Consensus size: 5
32846385 ATTTTTTTAT
32846395 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
1 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATAA
* * * * * * *
32846445 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATA
1 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CATA
32846484 TTATATTGCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 83 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (5 bp):
CATAA
Found at i:32847571 original size:5 final size:5
Alignment explanation
Indices: 32847561--32847585 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32847551 TTGATAGACT
32847561 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
32847586 ATAACAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:32851059 original size:21 final size:21
Alignment explanation
Indices: 32851035--32851093 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
32851025 TGAACTTGAA
32851035 TTTAAAACTTTTAATAT-ATAT
1 TTTAAAA-TTTTAATATAATAT
*
32851056 TTTAAAATTTTGATATAATAT
1 TTTAAAATTTTAATATAATAT
*
32851077 TTT-TAATTTT-ATATAAT
1 TTTAAAATTTTAATATAAT
32851094 TAACATATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.20
20 14 0.40
21 14 0.40
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTAAAATTTTAATATAATAT
Found at i:32851404 original size:23 final size:20
Alignment explanation
Indices: 32851362--32851410 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 20
32851352 TATTTTTAAA
32851362 TAAAAATAAAAATAAACAAT
1 TAAAAATAAAAATAAACAAT
32851382 TAAAGAATAAAAAATAAATCAAT
1 TAAA-AAT-AAAAATAAA-CAAT
32851405 TAAAAA
1 TAAAAA
32851411 ATCGATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.15
21 3 0.12
22 11 0.42
23 8 0.31
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAACAAT
Found at i:32853022 original size:17 final size:16
Alignment explanation
Indices: 32853000--32853042 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
32852990 ATTAAAGTAT
*
32853000 ATTTTTTAACTTTTATA
1 ATTTTTTAACTTTT-CA
*
32853017 ATTTTTAATACTTTTCA
1 ATTTTTTA-ACTTTTCA
32853034 ATTTTTTAA
1 ATTTTTTAA
32853043 TATTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 15 0.68
18 6 0.27
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTTTAACTTTTCA
Found at i:32859390 original size:6 final size:6
Alignment explanation
Indices: 32859379--32859407 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
32859369 TTTATAATAT
32859379 ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATA
32859408 TATTTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:32865719 original size:3 final size:3
Alignment explanation
Indices: 32865700--32865799 Score: 71
Period size: 3 Copynumber: 34.0 Consensus size: 3
32865690 TAGTATAACC
* * * * *
32865700 ATT ATT TTT ACT ATT ATT ATT ATT ATT -TT -TT AAT ATT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
32865746 ATT ATT -GT ATTT ATC ATT TTT ATT TTT ATT ACT ATT ATT ATT CTT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32865791 ATT ATT ATT
1 ATT ATT ATT
32865800 TACTCATTTA
Statistics
Matches: 72, Mismatches: 22, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
2 5 0.07
3 65 0.90
4 2 0.03
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32866123 original size:53 final size:50
Alignment explanation
Indices: 32866042--32866174 Score: 146
Period size: 53 Copynumber: 2.6 Consensus size: 50
32866032 ACATACATAC
* ** *
32866042 ATATTTC-TAATTTTTATAAACATGTATATACACATACTTTTATATATTTTTT
1 ATATTTCATAA-TTTTAT-AACATATATATACACATACTTACATATA-CTTTT
*
32866094 ATATTTCATAATTCTTATATACATATATATATACATACTTACATATACTTTT
1 ATATTTCATAATT-TTATA-ACATATATATACACATACTTACATATACTTTT
*
32866146 ATATTTAATAATTTTA-AA-ATATATATACA
1 ATATTTCATAATTTTATAACATATATATACA
32866175 TATATTATTC
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
48 10 0.14
49 1 0.01
50 1 0.01
51 3 0.04
52 26 0.37
53 30 0.42
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.50
Consensus pattern (50 bp):
ATATTTCATAATTTTATAACATATATATACACATACTTACATATACTTTT
Found at i:32868044 original size:114 final size:110
Alignment explanation
Indices: 32867790--32868040 Score: 339
Period size: 110 Copynumber: 2.3 Consensus size: 110
32867780 AAAAATTACA
* * *
32867790 GGCCAGCACCCAGTAC-AATTT-AAAAAAAATTTCTTTTTTTTGTGTCAGAGTCAGCTATAATTA
1 GGCCAGCACCCAGTACAAATTTAAAAAAAAATTTCTTTTTTTTGTGTCAAAGTCAGATATAAATA
** *
32867853 TACGAAAAAAATTTTAAAAAATTTTTTTTGGGTGCTGGCCTGTCAAT
66 TACGAAAAAAA-TTTAAAAAA-TAATTTTAGGTGCTGGCCTGTCAAT
* *
32867900 GGCCAGCACCCAGTACAAATTTTAAAAAAAATTCTTTTTTTTTTCGTGTCAAAGTCAGATATAAA
1 GGCCAGCACCCAGTACAAATTTAAAAAAAAATT-TCTTTTTTTT-GTGTCAAAGTCAGATATAAA
* *
32867965 TATACTAAAAAAA-TTAAAAAA-AATTTTAGGTGTTGGCCTGTCAAT
64 TATACGAAAAAAATTTAAAAAATAATTTTAGGTGCTGGCCTGTCAAT
*
32868010 GGCCGGCACCCAGTACAAATTTAAAAAAAAA
1 GGCCAGCACCCAGTACAAATTTAAAAAAAAA
32868041 AAAAAATTTC
Statistics
Matches: 126, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
110 65 0.52
111 5 0.04
112 18 0.14
113 9 0.07
114 29 0.23
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (110 bp):
GGCCAGCACCCAGTACAAATTTAAAAAAAAATTTCTTTTTTTTGTGTCAAAGTCAGATATAAATA
TACGAAAAAAATTTAAAAAATAATTTTAGGTGCTGGCCTGTCAAT
Found at i:32868355 original size:21 final size:21
Alignment explanation
Indices: 32868331--32868382 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
32868321 GAATTTGAAA
32868331 TTAAAACTTTTAATAT-ATATT
1 TTAAAA-TTTTAATATAATATT
*
32868352 TTAAAATTTTGATATAATATT
1 TTAAAATTTTAATATAATATT
*
32868373 TT-TAATTTTA
1 TTAAAATTTTA
32868383 TATTATTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAAAATTTTAATATAATATT
Found at i:32868366 original size:20 final size:22
Alignment explanation
Indices: 32868331--32868374 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
32868321 GAATTTGAAA
32868331 TTAAAACTTTTAATAT-ATATT
1 TTAAAACTTTTAATATAATATT
*
32868352 TTAAAA-TTTTGATATAATATT
1 TTAAAACTTTTAATATAATATT
32868373 TT
1 TT
32868375 TAATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAAAACTTTTAATATAATATT
Found at i:32868379 original size:20 final size:19
Alignment explanation
Indices: 32868331--32868389 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 19
32868321 GAATTTGAAA
32868331 TTAAAACTTTTAATATATATT
1 TTAAAA-TTTT-ATATATATT
32868352 TTAAAATTTTGATATAATATT
1 TTAAAATTTT-ATAT-ATATT
*
32868373 TT-TAATTTTATAT-TATT
1 TTAAAATTTTATATATATT
32868390 AACATATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.11
19 4 0.11
20 14 0.40
21 13 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTAAAATTTTATATATATT
Found at i:32868705 original size:20 final size:19
Alignment explanation
Indices: 32868662--32868706 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
32868652 TCTTTAAATA
32868662 AAAAT-AAAAATAAACAAT
1 AAAATAAAAAATAAACAAT
**
32868680 TGAATAAAAAATAAATCAAT
1 AAAATAAAAAATAAA-CAAT
32868700 AAAATAA
1 AAAATAA
32868707 TTTATTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 3 0.14
19 9 0.43
20 9 0.43
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAATAAACAAT
Found at i:32870048 original size:63 final size:63
Alignment explanation
Indices: 32869949--32870077 Score: 222
Period size: 63 Copynumber: 2.0 Consensus size: 63
32869939 TTTGATATTA
* *
32869949 GAACAACCAGAGATAGTTAACTTGTCAAGATGAGTGCAGTGTAGCAACATCCGTTCCAATATG
1 GAACAACCAGAGATAATTAACCTGTCAAGATGAGTGCAGTGTAGCAACATCCGTTCCAATATG
* *
32870012 GAACAACCAGAGATAATTAACCTGTCAAGATGAGTGCAGTGTTGCAACATCTGTTCCAATATG
1 GAACAACCAGAGATAATTAACCTGTCAAGATGAGTGCAGTGTAGCAACATCCGTTCCAATATG
32870075 GAA
1 GAA
32870078 TCATTCATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (63 bp):
GAACAACCAGAGATAATTAACCTGTCAAGATGAGTGCAGTGTAGCAACATCCGTTCCAATATG
Found at i:32877878 original size:72 final size:71
Alignment explanation
Indices: 32877787--32877966 Score: 220
Period size: 72 Copynumber: 2.5 Consensus size: 71
32877777 CGAAGTATGT
* * * *
32877787 TTTTATCAATAGTTATTTATATTTAGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGT-G
1 TTTTATTAATAGTTGTTTATATTT-GTTTTTGGATATTGAATTTATGTTCCACTTATTT-TGTAC
32877851 T-AATCTAG
64 TAAAT-TAG
* * * *
32877859 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCCACTTATTTTTTACT
1 TTTTATTAATAGTTGTTTATATTT-GTTTTTGGATATTGAATTTATGTTCCACTTATTTTGTACT
32877924 AAATTAG
65 AAATTAG
* *
32877931 TTTTATTAATAGTTGTTTATATATGATTTTGGATAT
1 TTTTATTAATAGTTGTTTATATTTGTTTTTGGATAT
32877967 AAAATCTATT
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
71 11 0.12
72 78 0.85
73 3 0.03
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (71 bp):
TTTTATTAATAGTTGTTTATATTTGTTTTTGGATATTGAATTTATGTTCCACTTATTTTGTACTA
AATTAG
Found at i:32880010 original size:13 final size:13
Alignment explanation
Indices: 32879992--32880016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32879982 CTCAAAATTT
32879992 TCAAAAGCACTTC
1 TCAAAAGCACTTC
32880005 TCAAAAGCACTT
1 TCAAAAGCACTT
32880017 TTCTGCAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:32880682 original size:23 final size:22
Alignment explanation
Indices: 32880655--32880697 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
32880645 TTATTTAAAC
32880655 AAATACTCATATTTATATAATTA
1 AAATACTCATATTT-TATAATTA
*
32880678 AAATATTCATATTTTATAAT
1 AAATACTCATATTTTATAAT
32880698 AGGTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATACTCATATTTTATAATTA
Found at i:32881100 original size:17 final size:17
Alignment explanation
Indices: 32881058--32881100 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
32881048 TTATACTATA
* *
32881058 AAATATTTATTATTAAT
1 AAATATTTAATAATAAT
* *
32881075 ACATTTTTAATAATAAT
1 AAATATTTAATAATAAT
32881092 AAATATTTA
1 AAATATTTA
32881101 TTATTAAATA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATTTAATAATAAT
Found at i:32886302 original size:3 final size:3
Alignment explanation
Indices: 32886294--32886354 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
32886284 ATATTTGGTG
* *
32886294 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
32886342 TTA TATA ATA ATA
1 ATA -ATA ATA ATA
32886355 CCAGTATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
3 49 0.96
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:32892077 original size:5 final size:5
Alignment explanation
Indices: 32892067--32892094 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32892057 CCCAAGTATT
32892067 CAACC CAACC CAACC CAACC CAACC CAA
1 CAACC CAACC CAACC CAACC CAACC CAA
32892095 TCATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.57, G:0.00, T:0.00
Consensus pattern (5 bp):
CAACC
Found at i:32892214 original size:9 final size:9
Alignment explanation
Indices: 32892197--32892246 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
32892187 GTAGTGATTC
32892197 AATTTGGTT
1 AATTTGGTT
*
32892206 AATTCGGTT
1 AATTTGGTT
*
32892215 AATTTGGGT
1 AATTTGGTT
*
32892224 AATTCGGTT
1 AATTTGGTT
32892233 AATTTGGTT
1 AATTTGGTT
32892242 AATTT
1 AATTT
32892247 TTAACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (9 bp):
AATTTGGTT
Found at i:32892220 original size:18 final size:18
Alignment explanation
Indices: 32892197--32892245 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
32892187 GTAGTGATTC
32892197 AATTTGGTTAATTCGGTT
1 AATTTGGTTAATTCGGTT
*
32892215 AATTTGGGTAATTCGGTT
1 AATTTGGTTAATTCGGTT
32892233 AATTTGGTTAATT
1 AATTTGGTTAATT
32892246 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (18 bp):
AATTTGGTTAATTCGGTT
Found at i:32894056 original size:25 final size:26
Alignment explanation
Indices: 32894028--32894081 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
32894018 AGAGATGTTT
**
32894028 CATATATATTGTGAAGTCATGAT-TA
1 CATATATACCGTGAAGTCATGATATA
32894053 CATATATACCGTGAAGTCATGATATA
1 CATATATACCGTGAAGTCATGATATA
32894079 CAT
1 CAT
32894082 GATTAATGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (26 bp):
CATATATACCGTGAAGTCATGATATA
Found at i:32897467 original size:78 final size:78
Alignment explanation
Indices: 32897329--32897520 Score: 205
Period size: 78 Copynumber: 2.5 Consensus size: 78
32897319 ATATTGAGTA
* * * * *
32897329 TAAGTATGAAATTATATATG-TATATGTTAAATTTGAAAATGTATGTGTATACAAGCATAAGTAC
1 TAAGTATGAAATTATATATGATATATGTTAGATTCGAATATGTATATATATACAAGCATAAGTAC
32897393 TTGT-TCCG-AATG
66 TTGTAT-CGAAATG
* * * * *
32897405 TAAGTATAAAATTATATATGTATATATGTTAGATTCGAATATGTATATATGTACATGTATAAGTT
1 TAAGTATGAAATTATATATG-ATATATGTTAGATTCGAATATGTATATATATACAAGCATAAGTA
* *
32897470 TTTGTATTGAAATG
65 CTTGTATCGAAATG
* *
32897484 -AGGTATGAAATTATATA-GATATATGTGAGATTCGAAT
1 TAAGTATGAAATTATATATGATATATGTTAGATTCGAAT
32897521 GTTAAATGTA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
76 37 0.38
77 1 0.01
78 54 0.56
79 5 0.05
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.40
Consensus pattern (78 bp):
TAAGTATGAAATTATATATGATATATGTTAGATTCGAATATGTATATATATACAAGCATAAGTAC
TTGTATCGAAATG
Found at i:32897964 original size:41 final size:41
Alignment explanation
Indices: 32897855--32898049 Score: 185
Period size: 41 Copynumber: 4.7 Consensus size: 41
32897845 CATTTCGGAC
* ** * *
32897855 TATAAGTCTAGCAGGCTAAAAGTCGGTGTACTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGT
* * *
32897896 TTTAAAACCTAGCAGGCTAAGTGCCGGTGAACTGAATTAGGT
1 TAT-AAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGT
* ** *
32897938 TATAAGCCTAGCAGGCTAAGTACCGGTGATTTGAATCATGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGT
* * * * * *
32897979 TATATGCCTAGCAGGATAAGTGCCGGTGATCAGAATTAGACT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAG-GT
* *
32898021 T-TAAGCCTAACAGGCTAAGTGCTGGTGAA
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAA
32898050 TCTATTTAAA
Statistics
Matches: 124, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 89 0.72
42 35 0.28
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (41 bp):
TATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGT
Found at i:32898254 original size:36 final size:36
Alignment explanation
Indices: 32898214--32898327 Score: 108
Period size: 34 Copynumber: 3.2 Consensus size: 36
32898204 GTTGGATATA
*
32898214 TATATATGTATGCATTTGGCATATGTGGATT-ATAAG
1 TATATATGTATGCATTTGGCATATGTAG-TTGATAAG
* * *
32898250 TATATATG--TGCATTCGACACATGTAGTTGATAAG
1 TATATATGTATGCATTTGGCATATGTAGTTGATAAG
* * * * *
32898284 TATAAATATATGCTTTTGGCATATGTATTTGAATAAT
1 TATATATGTATGCATTTGGCATATGTAGTTG-ATAAG
32898321 TATATAT
1 TATATAT
32898328 ATAAATGCAT
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
33 2 0.03
34 25 0.41
36 24 0.39
37 10 0.16
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (36 bp):
TATATATGTATGCATTTGGCATATGTAGTTGATAAG
Found at i:32900907 original size:43 final size:43
Alignment explanation
Indices: 32900825--32900936 Score: 102
Period size: 43 Copynumber: 2.6 Consensus size: 43
32900815 TGTTTTCGAG
* * * **
32900825 TAAGACCCTGTGTGGGACAGTGTCATTGATTTGTAATTACGA-A
1 TAAGACCATGTGTGGGACAGTGGCATCGATTCATAATTAC-ATA
* * *
32900868 TAAGACCTTGTGTGGGACAGTGGCATCG-TTACATGATTACATG
1 TAAGACCATGTGTGGGACAGTGGCATCGATT-CATAATTACATA
* *
32900911 TAAGACCACGTGTGGGACATTGGCAT
1 TAAGACCATGTGTGGGACAGTGGCAT
32900937 TGTACGATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 3 0.05
43 54 0.95
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
TAAGACCATGTGTGGGACAGTGGCATCGATTCATAATTACATA
Found at i:32901781 original size:24 final size:23
Alignment explanation
Indices: 32901732--32902299 Score: 467
Period size: 24 Copynumber: 23.7 Consensus size: 23
32901722 TTGATATATA
* * *
32901732 TATATATGCTGCCCAAATTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
32901755 TATAAATGTTGTCCAATTTTGATG
1 TATAAATGCTGTCCAA-TTTGGTG
32901779 TATAAATGCTG-CCTAATTTGGTG
1 TATAAATGCTGTCC-AATTTGGTG
* * *
32901802 TCTATATGCAGTCCAATTTTGGTG
1 TATAAATGCTGTCCAA-TTTGGTG
* * *
32901826 TAAAAATGCTGTCCAATTAT-ATA
1 TATAAATGCTGTCCAATT-TGGTG
* * *
32901849 TATATATATGCTGCCCAAATTGATG
1 TATA-A-ATGCTGTCCAATTTGGTG
32901874 TATAAATGCTGTCCAATTTTGGTG
1 TATAAATGCTGTCCAA-TTTGGTG
* ** *
32901898 TATAAATGCAGTCCAATCTGATATATA
1 TATAAATGCTGTCCAAT-T--T-GGTG
** *
32901925 TATATATATGCTACCCAAATTGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
*
32901950 TATAAATGCTGTCCAATTTTGATG
1 TATAAATGCTGTCCAA-TTTGGTG
32901974 TATAAATGCTG-CCTAATTTGGTG
1 TATAAATGCTGTCC-AATTTGGTG
* * *
32901997 TCTATATGCAGTCCAATTTTGGTG
1 TATAAATGCTGTCCAA-TTTGGTG
* * *
32902021 TAAAAATGCTGTCCAATTTGATA
1 TATAAATGCTGTCCAATTTGGTG
* * *
32902044 TATATATGCTGCCCAAATTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
32902067 TATAAATGCTATCCAGTTTTGGTG
1 TATAAATGCTGTCCA-ATTTGGTG
* *
32902091 TATAAATGCTGTCCAATTTGATATA
1 TATAAATGCTGTCCAATTTG--GTG
* *
32902116 TATATATATGTTGCCCAATTTGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
*
32902141 TATAAATGCTGTCTAATTTTGGTG
1 TATAAATGCTGTCCAA-TTTGGTG
32902165 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
32902188 TATATATGCTGTCCAATTTTGATG
1 TATAAATGCTGTCCAA-TTTGGTG
32902212 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* *
32902235 TATATATACTGTCCAATTTTGGTG
1 TATAAATGCTGTCCAA-TTTGGTG
* * *
32902259 TAAAAATACTGTCCAATTTGGTA
1 TATAAATGCTGTCCAATTTGGTG
*
32902282 TATATATATGCTGCCCAA
1 TATA-A-ATGCTGTCCAA
32902300 CCTATGTTGT
Statistics
Matches: 433, Mismatches: 83, Indels: 56
0.76 0.15 0.10
Matches are distributed among these distances:
23 172 0.40
24 189 0.44
25 41 0.09
26 3 0.01
27 18 0.04
28 2 0.00
29 8 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:32901800 original size:47 final size:47
Alignment explanation
Indices: 32901732--32902299 Score: 520
Period size: 47 Copynumber: 11.8 Consensus size: 47
32901722 TTGATATATA
* * * *
32901732 TATATATGCTGCCCAAATTGGTGTATAAATGTTGTCCAATTTTGATG
1 TATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGATG
* * * *
32901779 TATAAATGCTG-CCTAATTTGGTGTCTATATGCAGTCCAATTTTGGTG
1 TATAAATGCTGTCC-AATTTGGTGTATAAATGCTGTCCAATTTTGATG
* * * * *
32901826 TAAAAATGCTGTCCAATTAT-ATATATATATATGCTGCCCAA-ATTGATG
1 TATAAATGCTGTCCAATT-TGGTGTATA-A-ATGCTGTCCAATTTTGATG
* *
32901874 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAATCTGATAT-ATA
1 TATAAATGCTGTCCAA-TTTGGTGTATAAATGCTGTCCAAT-T--T-TGATG
** *
32901925 TATATATATGCTACCCAAATTGGTGTATAAATGCTGTCCAATTTTGATG
1 TATA-A-ATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGATG
* * * *
32901974 TATAAATGCTG-CCTAATTTGGTGTCTATATGCAGTCCAATTTTGGTG
1 TATAAATGCTGTCC-AATTTGGTGTATAAATGCTGTCCAATTTTGATG
* * * * * * *
32902021 TAAAAATGCTGTCCAATTTGATATATATATGCTGCCCAA-ATTGGTG
1 TATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGATG
* * *
32902067 TATAAATGCTATCCAGTTTTGGTGTATAAATGCTGTCCAA-TTTGATATA
1 TATAAATGCTGTCCA-ATTTGGTGTATAAATGCTGTCCAATTTTG--ATG
* * * *
32902116 TATATATATGTTGCCCAATTTGGTGTATAAATGCTGTCTAATTTTGGTG
1 TATA-A-ATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGATG
*
32902165 TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTTGATG
1 TATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGATG
* * *
32902212 TATAAATGCTGTCCAATTTGGTGTATATATACTGTCCAATTTTGGTG
1 TATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGATG
* * * *
32902259 TAAAAATACTGTCCAATTTGGTATATATATATGCTGCCCAA
1 TATAAATGCTGTCCAATTTGGTGTATA-A-ATGCTGTCCAA
32902300 CCTATGTTGT
Statistics
Matches: 425, Mismatches: 71, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
46 23 0.05
47 255 0.60
48 30 0.07
49 42 0.10
50 23 0.05
51 19 0.04
52 24 0.06
53 9 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (47 bp):
TATAAATGCTGTCCAATTTGGTGTATAAATGCTGTCCAATTTTGATG
Found at i:32901961 original size:76 final size:72
Alignment explanation
Indices: 32901732--32902299 Score: 283
Period size: 70 Copynumber: 7.9 Consensus size: 72
32901722 TTGATATATA
* * * ** * * * *
32901732 TATATATGCTGCCCAA-ATTGGTGTATAAATGTTGTCCAATT-T-TGATGTATAAATGCTGCCTA
1 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAATTATAT-ATATATATATGCTACCCA
*
32901794 ATTTGGTG
65 AATTGGTG
* * * * * *
32901802 TCTATATGCAGTCCAATTTTGGTGTAAAAATGCTGTCCAATTATATATATATATATGCTGCCCAA
1 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAATTATATATATATATATGCTACCCAA
*
32901867 ATTGATG
66 ATTGGTG
32901874 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAATCTGATATATATATATATATGCTAC
1 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAA--T--TATATATATATATATGCTAC
32901939 CCAAATTGGTG
62 CCAAATTGGTG
* * ** * * *
32901950 TATAAATGCTGTCCAATTTTGATGTATAAATGCTG-CCTAATT-T-GGTGTCTATATGC-AGTCC
1 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCC-AATTATATATATATATATGCTA-CCC
*
32902011 AATTTTGGTG
64 AA-ATTGGTG
* * * * * * * * * *
32902021 TAAAAATGCTGTCCAA-TTTGATATATATATGCTGCCCAA--AT-TGGTGTATAAATGCTATCCA
1 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAATTATAT-ATATATATATGCTACCCA
**
32902082 GTTTTGGTG
65 -AATTGGTG
* * ** * * * *
32902091 TATAAATGCTGTCCAA-TTTGATATATATATATATGTTGCCCAATT-TGGTGTATA-A-ATGCTG
1 TATAAATGCTGTCCAATTTTG--GTGTATA-A-ATGCAGTCCAATTAT-ATATATATATATGCTA
* * *
32902152 TCTAATTTTGGTG
61 CCCAA-ATTGGTG
* * * * **
32902165 TATAAATGCTGTCCAA-TTTGGTGTATATATGCTGTCCAATT-T-TGATGTATAAATGCTGTCCA
1 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAATTATAT-ATATATATATGCTACCCA
*
32902227 ATTTGGTG
65 AATTGGTG
* * * * * * *
32902235 TATATATACTGTCCAATTTTGGTGTAAAAATACTGTCCAATT-TGGTATATATATATGCTGCCCA
1 TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAATTAT-ATATATATATATGCTACCCA
32902299 A
65 A
32902300 CCTATGTTGT
Statistics
Matches: 412, Mismatches: 56, Indels: 58
0.78 0.11 0.11
Matches are distributed among these distances:
68 1 0.00
69 5 0.01
70 118 0.29
71 80 0.19
72 86 0.21
73 2 0.00
74 47 0.11
75 4 0.01
76 68 0.17
77 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (72 bp):
TATAAATGCTGTCCAATTTTGGTGTATAAATGCAGTCCAATTATATATATATATATGCTACCCAA
ATTGGTG
Found at i:32902047 original size:195 final size:192
Alignment explanation
Indices: 32901715--32902285 Score: 846
Period size: 191 Copynumber: 3.0 Consensus size: 192
32901705 TTCGATTCAT
* *
32901715 GTCCAATTTGATATATATATATATGCTGCCCAAATTGGTGTATAAATGTTGTCCAATTTTGATGT
1 GTCCAATCTGATATATATATATATGCTGCCCAAATTGGTGTATAAATGCTGTCCAATTTTGATGT
32901780 ATAAATGCTGCCTAATTTGGTGTCTATATGCAGTCCAATTTTGGTGTAAAAATGCTGTCCAATTA
66 ATAAATGCTGCCTAATTTGGTGTCTATATGCAGTCCAATTTTGGTGTAAAAATGCTGTCCAATT-
* *
32901845 TATATATATATATGCTGCCCAAATTGATGTATAAATGCTGTCCAATTTTGGTGTATAAATGCA
130 TGTATATATATATGCTGCCCAAATTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGCA
*
32901908 GTCCAATCTGATATATATATATATATGCTACCCAAATTGGTGTATAAATGCTGTCCAATTTTGAT
1 GTCCAATCTG--ATATATATATATATGCTGCCCAAATTGGTGTATAAATGCTGTCCAATTTTGAT
32901973 GTATAAATGCTGCCTAATTTGGTGTCTATATGCAGTCCAATTTTGGTGTAAAAATGCTGTCCAAT
64 GTATAAATGCTGCCTAATTTGGTGTCTATATGCAGTCCAATTTTGGTGTAAAAATGCTGTCCAAT
* * *
32902038 TTG-ATATATATATGCTGCCCAAATTGGTGTATAAATGCTATCCAGTTTTGGTGTATAAATGCT
129 TTGTATATATATATGCTGCCCAAATTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGCA
* * * * *
32902101 GTCCAATTTGATATATATATATATGTTGCCCAATTTGGTGTATAAATGCTGTCTAATTTTGGTGT
1 GTCCAATCTGATATATATATATATGCTGCCCAAATTGGTGTATAAATGCTGTCCAATTTTGATGT
* * * *
32902166 ATAAATGCTGTCC-AATTTGGTGTATATATGCTGTCCAATTTTGATGTATAAATGCTGTCCAATT
66 ATAAATGCTG-CCTAATTTGGTGTCTATATGCAGTCCAATTTTGGTGTAAAAATGCTGTCCAATT
* * * * * *
32902230 TGGTGTATATATA--CTGTCCAATTTTGGTGTAAAAATACTGTCCAA-TTTGGTATATA
130 T-GTATATATATATGCTGCCCAA-ATTGGTGTATAAATGCTGTCCAATTTTGGTGTATA
32902286 TATATGCTGC
Statistics
Matches: 346, Mismatches: 26, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
191 125 0.36
192 21 0.06
193 82 0.24
194 1 0.00
195 117 0.34
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (192 bp):
GTCCAATCTGATATATATATATATGCTGCCCAAATTGGTGTATAAATGCTGTCCAATTTTGATGT
ATAAATGCTGCCTAATTTGGTGTCTATATGCAGTCCAATTTTGGTGTAAAAATGCTGTCCAATTT
GTATATATATATGCTGCCCAAATTGGTGTATAAATGCTGTCCAATTTTGGTGTATAAATGCA
Found at i:32902053 original size:70 final size:70
Alignment explanation
Indices: 32901944--32902253 Score: 381
Period size: 70 Copynumber: 4.4 Consensus size: 70
32901934 GCTACCCAAA
* * * * *
32901944 TTGGTGTATAAATGCTGTCCAATTTTGATGTATAAATGCTGCCTAATTTGGTGTCTATATGCAGT
1 TTGGTGTATAAATGCTGTCCAA-TTTGATATATATATGCTGCCCAATTTGGTGTATAAATGCAGT
32902009 CCAATT
65 CCAATT
* *
32902015 TTGGTGTAAAAATGCTGTCCAATTTGATATATATATGCTGCCCAAATTGGTGTATAAATGCTA-T
1 TTGGTGTATAAATGCTGTCCAATTTGATATATATATGCTGCCCAATTTGGTGTATAAATGC-AGT
*
32902079 CCAGTT
65 CCAATT
*
32902085 TTGGTGTATAAATGCTGTCCAATTTGATATATATATATATGTTGCCCAATTTGGTGTATAAATGC
1 TTGGTGTATAAATGCTGTCCAATTTG----ATATATATATGCTGCCCAATTTGGTGTATAAATGC
* *
32902150 TGTCTAATT
62 AGTCCAATT
* * * * *
32902159 TTGGTGTATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTTGATGTATAAATGCTGT
1 TTGGTGTATAAATGCTGTCCAATTTGATATATATATGCTGCCCAA-TTTGGTGTATAAATGCAGT
32902224 CCAA-T
65 CCAATT
* *
32902229 TTGGTGTATATATACTGTCCAATTT
1 TTGGTGTATAAATGCTGTCCAATTT
32902254 TGGTGTAAAA
Statistics
Matches: 210, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
70 103 0.49
71 43 0.20
74 64 0.30
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (70 bp):
TTGGTGTATAAATGCTGTCCAATTTGATATATATATGCTGCCCAATTTGGTGTATAAATGCAGTC
CAATT
Found at i:32906088 original size:16 final size:18
Alignment explanation
Indices: 32906048--32906086 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
32906038 AATAATGTAT
32906048 TATATTATAAAGTTAATA
1 TATATTATAAAGTTAATA
32906066 TATATTATAAAGTTAATA
1 TATATTATAAAGTTAATA
32906084 TAT
1 TAT
32906087 TAAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATTATAAAGTTAATA
Found at i:32907355 original size:78 final size:77
Alignment explanation
Indices: 32907189--32907380 Score: 212
Period size: 78 Copynumber: 2.5 Consensus size: 77
32907179 ATATTGAGTA
* * * *
32907189 TAAGTATGAAATTATATATG-TATATGTTAAATTCGAAAATGTATGTGTATACAAGTATAAGTAC
1 TAAGTATGAAATTATATATGATATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTAC
32907253 TTGTTCCGAATG
66 TTGTTCCGAATG
* * * *
32907265 TAAGTATAAAATTATATATGTATATATGTTAGATTCGAATATGTATATATGTACATGTATAAGTT
1 TAAGTATGAAATTATATATG-ATATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTA
* *
32907330 TTTGTAT-TGAAATG
65 CTTGT-TCCG-AATG
** *
32907344 -GGGTATGAAATTATATA-GATATATGTGAGATTCGAAT
1 TAAGTATGAAATTATATATGATATATGTTAGATTCGAAT
32907381 GTTAAATGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
76 37 0.38
77 1 0.01
78 55 0.56
79 5 0.05
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (77 bp):
TAAGTATGAAATTATATATGATATATGTTAGATTCGAATATGTATATATATACAAGTATAAGTAC
TTGTTCCGAATG
Found at i:32910733 original size:42 final size:41
Alignment explanation
Indices: 32910668--32910864 Score: 168
Period size: 41 Copynumber: 4.8 Consensus size: 41
32910658 TTTCGGACTA
* ** *
32910668 TAAGTCTAGCAGGCTAAAAGCCGGTGTA-CTGAATCAGATTT
1 TAAGCCTAGCAGGCTAAGTGCCGGTGAATCTGAATCA-ATTT
* ** *
32910709 TAAAACCTAGCAGGCTAAGTGCCGGTGAA-CTGAATCAGGCTA
1 T-AAGCCTAGCAGGCTAAGTGCCGGTGAATCTGAATCA-ATTT
* * * * *
32910751 TAAGTCGAGCAGGCTAAGTACCGGT-TATCTGAATCAAGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGAATCTGAATCAA-TTT
* *
32910792 TAAGCCTAGCAGGCTGAGTGCCGGT-AATCAGAATCAATCTT
1 TAAGCCTAGCAGGCTAAGTGCCGGTGAATCTGAATCAAT-TT
**
32910833 TAAGCCTAATAGGCTAAGTGCCGGTGAATCTG
1 TAAGCCTAGCAGGCTAAGTGCCGGTGAATCTG
32910865 TTTAAATTAA
Statistics
Matches: 125, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
40 2 0.02
41 85 0.68
42 38 0.30
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGAATCTGAATCAATTT
Found at i:32910775 original size:83 final size:82
Alignment explanation
Indices: 32910665--32910816 Score: 202
Period size: 83 Copynumber: 1.8 Consensus size: 82
32910655 ACATTTCGGA
* *
32910665 CTATAAGTCTAGCAGGCTAAAAGCCGGTGTA-CTGAATC-AGATTTTAAAACCTAGCAGGCTAAG
1 CTATAAGTCGAGCAGGCTAAAAGCCGGT-TATCTGAATCAAG-TTAT-AAACCTAGCAGGCTAAG
32910728 TGCCGGTGAACTGAATCAGG
63 TGCCGGTGAACTGAATCAGG
* * *
32910748 CTATAAGTCGAGCAGGCTAAGTA-CCGGTTATCTGAATCAAGTTATAAGCCTAGCAGGCTGAGTG
1 CTATAAGTCGAGCAGGCTAA-AAGCCGGTTATCTGAATCAAGTTATAAACCTAGCAGGCTAAGTG
32910812 CCGGT
65 CCGGT
32910817 AATCAGAATC
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
82 24 0.39
83 34 0.56
84 3 0.05
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (82 bp):
CTATAAGTCGAGCAGGCTAAAAGCCGGTTATCTGAATCAAGTTATAAACCTAGCAGGCTAAGTGC
CGGTGAACTGAATCAGG
Found at i:32911071 original size:34 final size:34
Alignment explanation
Indices: 32911033--32911104 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
32911023 GTTGGATATA
* * *
32911033 TATATGTCTGCATTCGGCATATGTGGATT-ATAAG
1 TATATATCTGCATTCGGCACATGTAG-TTGATAAG
*
32911067 TATATATGTGCATTCGGCACATGTAGTTGATAAG
1 TATATATCTGCATTCGGCACATGTAGTTGATAAG
32911101 TATA
1 TATA
32911105 AATATATGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (34 bp):
TATATATCTGCATTCGGCACATGTAGTTGATAAG
Found at i:32917999 original size:26 final size:26
Alignment explanation
Indices: 32917970--32918020 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
32917960 ATTAATGATA
* * *
32917970 AAATAATATGCAGAATAATTTAAAAT
1 AAATAATATACAAAATAAGTTAAAAT
*
32917996 AAATAATTTACAAAATAAGTTAAAA
1 AAATAATATACAAAATAAGTTAAAA
32918021 AAACACACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (26 bp):
AAATAATATACAAAATAAGTTAAAAT
Found at i:32918209 original size:22 final size:22
Alignment explanation
Indices: 32918157--32918211 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
32918147 TATATACAAA
*
32918157 AGTTTAAAATAACTAAATAAAGT
1 AGTTTAAAATAAC-AAATAAAAT
* *
32918180 ACTGTAAAATAGA-AAATAAAAT
1 AGTTTAAAATA-ACAAATAAAAT
32918202 AGTTTAAAAT
1 AGTTTAAAAT
32918212 GTAGAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 16 0.62
23 9 0.35
24 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (22 bp):
AGTTTAAAATAACAAATAAAAT
Found at i:32925508 original size:12 final size:12
Alignment explanation
Indices: 32925491--32925516 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32925481 CTTATTATCA
32925491 TTATTTTATTAT
1 TTATTTTATTAT
32925503 TTATTTTATTAT
1 TTATTTTATTAT
32925515 TT
1 TT
32925517 TCGACACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:32929655 original size:18 final size:19
Alignment explanation
Indices: 32929619--32929657 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32929609 GTGACCCCTG
* *
32929619 TTTTCTAAATTTTCATATT
1 TTTTCGAAACTTTCATATT
32929638 TTTTCGAAACTTTC-TATT
1 TTTTCGAAACTTTCATATT
32929656 TT
1 TT
32929658 GCTTTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTCGAAACTTTCATATT
Found at i:32932379 original size:27 final size:27
Alignment explanation
Indices: 32932324--32932376 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
32932314 TACATGATGA
* *
32932324 AATTAAATAATAATATATGATAAAAAT
1 AATTAAATAATAATACATAATAAAAAT
*
32932351 AATTAAAATAATAGTACATAATAAAA
1 AATT-AAATAATAATACATAATAAAA
32932377 TAAAATAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (27 bp):
AATTAAATAATAATACATAATAAAAAT
Found at i:32932383 original size:51 final size:50
Alignment explanation
Indices: 32932295--32932398 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 50
32932285 GGATTAATAT
* * *
32932295 AAATATATATAAAAAATAATACATGATGAAATTAAATAATAATATATGATAA
1 AAATATATATAAAAAATAATACATAATAAAATAAAATAAT-ATATAT-ATAA
* *
32932347 AAATA-AT-TAAAATAATAGTACATAATAAAATAAAATAATGTATATATAA
1 AAATATATATAAAA-AATAATACATAATAAAATAAAATAATATATATATAA
32932396 AAA
1 AAA
32932399 GGTAAACAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
49 7 0.15
50 10 0.22
51 24 0.52
52 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (50 bp):
AAATATATATAAAAAATAATACATAATAAAATAAAATAATATATATATAA
Found at i:32932384 original size:23 final size:21
Alignment explanation
Indices: 32932354--32932397 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
32932344 TAAAAATAAT
32932354 TAAAATAATAGTACATAATAAAA
1 TAAAATAAT-GTACAT-ATAAAA
*
32932377 TAAAATAATGTATATATAAAA
1 TAAAATAATGTACATATAAAA
32932398 AGGTAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAATAATGTACATATAAAA
Done.