Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 118 of 211
Found at i:33236921 original size:6 final size:6
Alignment explanation
Indices: 33236859--33236924 Score: 78
Period size: 6 Copynumber: 11.0 Consensus size: 6
33236849 CTAAAAATAG
* * * *
33236859 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGA AAATGA AAATGG
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
**
33236907 AAACAA AAATGA AAATGA
1 AAATGA AAATGA AAATGA
33236925 TCCATTTGCA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.62, C:0.02, G:0.21, T:0.15
Consensus pattern (6 bp):
AAATGA
Found at i:33237142 original size:25 final size:26
Alignment explanation
Indices: 33237070--33237142 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
33237060 ATATTTTCTT
* * *
33237070 AAAATTTTACCAGGGGCAAAATCGTT
1 AAAATTTTACCAGGAGTAAAATCGTC
*
33237096 AAAATTTTACCAGGAGTAAAATTGTC
1 AAAATTTTACCAGGAGTAAAATCGTC
*
33237122 AAAATTTT-CCTGGAGTAAAAT
1 AAAATTTTACCAGGAGTAAAAT
33237143 AGGAATGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 12 0.29
26 30 0.71
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (26 bp):
AAAATTTTACCAGGAGTAAAATCGTC
Found at i:33265134 original size:17 final size:17
Alignment explanation
Indices: 33265095--33265127 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33265085 AATTATGTTT
33265095 TGTTTTTAGGACTTTTA
1 TGTTTTTAGGACTTTTA
*
33265112 TGTTTTTATGACTTTT
1 TGTTTTTAGGACTTTT
33265128 TATTTTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.06, G:0.15, T:0.64
Consensus pattern (17 bp):
TGTTTTTAGGACTTTTA
Found at i:33269385 original size:35 final size:35
Alignment explanation
Indices: 33269346--33269416 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
33269336 TAAGATAAGG
33269346 TTAGTAAAACTTTTTATATTAAATATATACTACTA
1 TTAGTAAAACTTTTTATATTAAATATATACTACTA
*
33269381 TTAGTAAAACTTTTTATATTAATTATATACTACTA
1 TTAGTAAAACTTTTTATATTAAATATATACTACTA
33269416 T
1 T
33269417 GTTAAATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.48
Consensus pattern (35 bp):
TTAGTAAAACTTTTTATATTAAATATATACTACTA
Found at i:33274169 original size:4 final size:4
Alignment explanation
Indices: 33274160--33274187 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
33274150 AAGTTTTATT
33274160 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
33274188 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:33298639 original size:49 final size:49
Alignment explanation
Indices: 33298563--33298658 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 49
33298553 GAGAGAATAA
* * * *
33298563 GATGGGCCACTGCCAGGGCATGTTAGTTGCTAATCAGATTGGTGTGAAT
1 GATGGGCCACTGCCAGGGCATGATAGTTACTAACCAGATTGATGTGAAT
* ** * *
33298612 GATGGGTCACTGGTAGGGTATGATAGTTACTAACCGGATTGATGTGA
1 GATGGGCCACTGCCAGGGCATGATAGTTACTAACCAGATTGATGTGA
33298659 GTGCTAAGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (49 bp):
GATGGGCCACTGCCAGGGCATGATAGTTACTAACCAGATTGATGTGAAT
Found at i:33299941 original size:25 final size:25
Alignment explanation
Indices: 33299887--33299941 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
33299877 AATTATTAAA
*
33299887 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
33299912 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
33299936 TATTAA
1 T-TTAA
33299942 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:33304666 original size:102 final size:103
Alignment explanation
Indices: 33304430--33304695 Score: 417
Period size: 102 Copynumber: 2.6 Consensus size: 103
33304420 ATTGAATATG
* *
33304430 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
* *
33304495 TTAAATGTAAAAGGGGGTTGCTAAGTGCTGATTCCCTC
66 TGAAATGTAAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* ** * *
33304533 GAGGGGTTGCTAAGTGCTGATTCTCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
*
33304598 TGAAATGT-GAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TGAAATGTAAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* *
33304635 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCGGAATCCACCG
1 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
33304696 ATAACGGTTA
Statistics
Matches: 146, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
102 81 0.55
103 65 0.45
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (103 bp):
AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
TGAAATGTAAAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:33311987 original size:27 final size:29
Alignment explanation
Indices: 33311951--33312032 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 29
33311941 AATGTGAAAG
33311951 GGGGTTGCTAAGTGCTGATTCCC-TCA-A
1 GGGGTTGCTAAGTGCTGATTCCCTTCATA
*
33311978 GGGGTTGCTAAGTGCTGATTCCCCTATTCATT
1 GGGGTTGCTAAGTGCTGATT-CCC--TTCATA
33312010 GGTGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
33312033 ACCGCATCTG
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
27 20 0.42
28 3 0.06
31 3 0.06
32 4 0.08
33 18 0.38
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (29 bp):
GGGGTTGCTAAGTGCTGATTCCCTTCATA
Found at i:33312086 original size:102 final size:103
Alignment explanation
Indices: 33311907--33312138 Score: 367
Period size: 102 Copynumber: 2.3 Consensus size: 103
33311897 TGAATATGAA
* * *
33311907 GGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTC
1 GGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGGGGTTGCTAAGTGCTGATTC
* *
33311972 CCTCAAGGGGTTGCTAAGTGCTGATTCCCCTATTCATT
66 CCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATT
33312010 GGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTC
1 GGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGGGGTTGCTAAGTGCTGATTC
**
33312074 CCCCAAGGGGTTGCTGTGTGCTGATTCCCCAATTCATT
66 CCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATT
* * *
33312112 GGTGGTTACTAAGTGCGGAATCCACCG
1 GGTGGTTGCTAAGTGCTGATTCCACCG
33312139 ATAACGGTTA
Statistics
Matches: 119, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
102 82 0.69
103 37 0.31
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (103 bp):
GGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGGGGTTGCTAAGTGCTGATTC
CCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATT
Found at i:33314911 original size:14 final size:12
Alignment explanation
Indices: 33314881--33314906 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33314871 ATCATTATTT
33314881 TAACATAAAAAA
1 TAACATAAAAAA
33314893 TAACATAAAAAA
1 TAACATAAAAAA
33314905 TA
1 TA
33314907 TAACAAAATG
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:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (12 bp):
TAACATAAAAAA
Found at i:33318379 original size:18 final size:18
Alignment explanation
Indices: 33318352--33318393 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
33318342 CAGGTGTGTG
*
33318352 ACACGACCGTCTGGCCCA
1 ACACGGCCGTCTGGCCCA
*
33318370 ACACGGCCGTGTGGCCCA
1 ACACGGCCGTCTGGCCCA
33318388 ACACGG
1 ACACGG
33318394 GCCTTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.40, G:0.29, T:0.10
Consensus pattern (18 bp):
ACACGGCCGTCTGGCCCA
Found at i:33318892 original size:12 final size:12
Alignment explanation
Indices: 33318872--33318916 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
33318862 CTTTTTCTTT
33318872 TTATTATTTGTA
1 TTATTATTTGTA
* *
33318884 TTCTTATTTTTA
1 TTATTATTTGTA
*
33318896 TTATTATTAGTA
1 TTATTATTTGTA
*
33318908 TCATTATTT
1 TTATTATTT
33318917 TTTTGTTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (12 bp):
TTATTATTTGTA
Found at i:33319007 original size:15 final size:16
Alignment explanation
Indices: 33318980--33319009 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33318970 TAAATTTTAT
33318980 TAAGTTCTTGTTTTTG
1 TAAGTTCTTGTTTTTG
33318996 TAAGTT-TTGTTTTT
1 TAAGTTCTTGTTTTT
33319010 AGTTTTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.03, G:0.17, T:0.67
Consensus pattern (16 bp):
TAAGTTCTTGTTTTTG
Found at i:33320496 original size:6 final size:6
Alignment explanation
Indices: 33320481--33320518 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
33320471 TTTTTTCATG
33320481 TTTA-T TTTATT TTTATT TTTATTGT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT T
33320519 CTTAGACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.13
6 19 0.63
7 2 0.07
8 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:33320510 original size:14 final size:14
Alignment explanation
Indices: 33320491--33320517 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33320481 TTTATTTTAT
33320491 TTTTATTTTTATTG
1 TTTTATTTTTATTG
33320505 TTTTATTTTTATT
1 TTTTATTTTTATT
33320518 TCTTAGACTT
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:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTATTTTTATTG
Found at i:33340859 original size:79 final size:81
Alignment explanation
Indices: 33340757--33340941 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
33340747 GCTACTCATT
* * *
33340757 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
33340820 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
33340837 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
33340901 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
33340917 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33340942 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:33340941 original size:40 final size:40
Alignment explanation
Indices: 33340757--33340941 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
33340747 GCTACTCATT
* *
33340757 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
33340797 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
33340837 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
33340876 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
33340917 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33340942 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:33343685 original size:16 final size:15
Alignment explanation
Indices: 33343655--33343689 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33343645 TTCTATTGTC
33343655 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
33343670 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
33343686 TATA
1 TATA
33343690 CAAGATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:33358194 original size:19 final size:19
Alignment explanation
Indices: 33358170--33358207 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33358160 AAACACTAGT
*
33358170 AAGAATTTTTCTGCTATCA
1 AAGAATTTCTCTGCTATCA
33358189 AAGAATTTCTCTGCTATCA
1 AAGAATTTCTCTGCTATCA
33358208 CTACTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (19 bp):
AAGAATTTCTCTGCTATCA
Found at i:33364105 original size:11 final size:11
Alignment explanation
Indices: 33364089--33364114 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33364079 TTAAACCAAG
33364089 AAAAAAACAAA
1 AAAAAAACAAA
33364100 AAAAAAACAAA
1 AAAAAAACAAA
33364111 AAAA
1 AAAA
33364115 CCAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:33364597 original size:42 final size:41
Alignment explanation
Indices: 33364538--33364694 Score: 192
Period size: 42 Copynumber: 3.8 Consensus size: 41
33364528 TTTATTACAT
*
33364538 TTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCAA
1 TTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGC-A
*
33364580 TTAGAGACCCAGGTGTGGAGGTCCATTCACTTTTCATTGCA
1 TTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCA
* ** * *
33364621 TCTAGAGACCTAGGTGTGGAGGTCTGTTTACTTTTC-TAG-T
1 T-TAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCA
* * *
33364661 TTAGAGGCTCAGGTGTGGAGGTCCGTTTACTTTT
1 TTAGAGACCCAGGTGTGGAGGTCCATTTACTTTT
33364695 TTAGTTTACT
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 29 0.28
40 1 0.01
41 4 0.04
42 68 0.67
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (41 bp):
TTAGAGACCCAGGTGTGGAGGTCCATTTACTTTTCATTGCA
Found at i:33365279 original size:16 final size:16
Alignment explanation
Indices: 33365254--33365284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33365244 ACTACATGCA
*
33365254 TTCTATTTTTTTTTTC
1 TTCTACTTTTTTTTTC
33365270 TTCTACTTTTTTTTT
1 TTCTACTTTTTTTTT
33365285 GCCATAAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (16 bp):
TTCTACTTTTTTTTTC
Found at i:33365698 original size:144 final size:143
Alignment explanation
Indices: 33365498--33365764 Score: 369
Period size: 145 Copynumber: 1.9 Consensus size: 143
33365488 TTAAGGAAAT
* * * *
33365498 TTTAAATTTTTAAAACAAGGTTTTGAATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATATTT
1 TTTAAAATTTTAAAACAAGGTTTTGAATTTTTTTCAACTACTCCAAAATAAAAGCTTTAATATTT
* *
33365563 AA-AAAAA-AGTGTTTTTCTTAAAAAAAAAAAGAAATTTTAGTTTTTGAAAATTAAAAAAAAAAT
66 AAGAAAAATAGT-TTTTTCTTAAAAAAAAAAAGAAATTTTAGATTTTGAAAAATAAAAAAAAAAT
33365626 TAGTCATTTCTAAG
130 TAGTCATTTCTAAG
* * *
33365640 TTTAAAATTTTAAAAC-AGAGTTTTGATTTTTTTTTTCAACTACTCCAAAATAACAGCTTTAATC
1 TTTAAAATTTTAAAACAAG-GTTTTGA--ATTTTTTTCAACTACTCCAAAATAAAAGCTTTAATA
* **
33365704 TTTAAGAAAAATAGTTTTTTTTTAAAAAAAAGGAGAAATTTTAGATTTTGAAAAATAAAAA
63 TTTAAGAAAAATAGTTTTTTCTTAAAAAAAAAAAGAAATTTTAGATTTTGAAAAATAAAAA
33365765 TTTGTTTTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
141 2 0.02
142 22 0.20
144 35 0.32
145 46 0.43
146 3 0.03
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (143 bp):
TTTAAAATTTTAAAACAAGGTTTTGAATTTTTTTCAACTACTCCAAAATAAAAGCTTTAATATTT
AAGAAAAATAGTTTTTTCTTAAAAAAAAAAAGAAATTTTAGATTTTGAAAAATAAAAAAAAAATT
AGTCATTTCTAAG
Found at i:33365785 original size:27 final size:27
Alignment explanation
Indices: 33365751--33365806 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
33365741 ATTTTAGATT
* *
33365751 TTGAAAAATAAAAATTTGTTTTTTTAAG
1 TTGAAAAACAAAAA-TTGATTTTTTAAG
33365779 TTGAAAAACAAAAATTGATTTTTTAAG
1 TTGAAAAACAAAAATTGATTTTTTAAG
33365806 T
1 T
33365807 CATTTTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (27 bp):
TTGAAAAACAAAAATTGATTTTTTAAG
Found at i:33366475 original size:10 final size:9
Alignment explanation
Indices: 33366457--33366525 Score: 61
Period size: 10 Copynumber: 7.1 Consensus size: 9
33366447 CACTTGTATA
33366457 ATTTTATTT
1 ATTTTATTT
33366466 ATTCTTATTT
1 ATT-TTATTT
33366476 CATTTTATTT
1 -ATTTTATTT
33366486 ATTTTCATGTTT
1 ATTTT-A--TTT
33366498 ATTTATATTT
1 ATTT-TATTT
33366508 ATATTT-TTT
1 AT-TTTATTT
33366517 ATTTT-TTT
1 ATTTTATTT
33366525 A
1 A
33366526 AACATTCCCC
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.13
9 13 0.25
10 19 0.36
11 5 0.09
12 8 0.15
13 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (9 bp):
ATTTTATTT
Found at i:33366498 original size:16 final size:15
Alignment explanation
Indices: 33366473--33366521 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
33366463 TTTATTCTTA
33366473 TTTCATTTTATTTAT
1 TTTCATTTTATTTAT
33366488 TTTCATGTTTATTTAT
1 TTTCAT-TTTATTTAT
33366504 ATTT-ATATTT-TTTAT
1 -TTTCAT-TTTATTTAT
33366519 TTT
1 TTT
33366522 TTTAAACATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 14 0.45
17 3 0.10
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTCATTTTATTTAT
Found at i:33382298 original size:5 final size:5
Alignment explanation
Indices: 33382288--33382312 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33382278 ACTATTTATA
33382288 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
33382313 CATTTTTATT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:33387208 original size:86 final size:85
Alignment explanation
Indices: 33386921--33387330 Score: 429
Period size: 86 Copynumber: 4.8 Consensus size: 85
33386911 TTATGCCTTT
* * * * **
33386921 GTTTGGAAACAAAATCAAGATCGAATAAAATCAGTTAAACATCGGGAATAAATCCCGAAACAGA-
1 GTTTGGAAACAAAATAAAAATCGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGAT
* *
33386985 -TTATTCAA--TT--TTCTA
66 TTTATTTAACTTTAATTCTC
* * * * ** * * *
33387000 ATTTGGAAACAAAATCAAAATCGAATAAAATTTGTTAAACGATGTGAATAAATCCAGAAATAGAT
1 GTTTGGAAACAAAATAAAAATCGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGAT
*
33387065 TTTATTTAATTTTAATTTCTC
66 TTTATTTAACTTTAA-TTCTC
* * *
33387086 GTTTTGGAAACAAAATCAAAATTGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAA
1 G-TTTGGAAACAAAAT-AAAAATCGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAG
33387151 ATTTTATTTAACTTTAATTCTC
64 ATTTTATTTAACTTTAATTCTC
* * * *
33387173 GTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCGAGAATAAATCTCGAAACAGA
1 GTTTGGAAACAAAAT-AAAAATCGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGA
33387238 TTTTATTTAACTTTAATTCTC
65 TTTTATTTAACTTTAATTCTC
* * * * * *
33387259 ATTTGGAAATAAAATCAAAAAAT-GAATAAAATCCGTTGAACGGCAGGAATAAATCCCAAAACAA
1 GTTTGGAAACAAAAT--AAAAATCGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAG
*
33387323 ATCTTATT
64 ATTTTATT
33387331 CAATTTTTAT
Statistics
Matches: 282, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
79 54 0.19
81 7 0.02
83 2 0.01
86 139 0.49
87 27 0.10
88 53 0.19
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (85 bp):
GTTTGGAAACAAAATAAAAATCGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGAT
TTTATTTAACTTTAATTCTC
Found at i:33387302 original size:172 final size:168
Alignment explanation
Indices: 33386922--33387337 Score: 475
Period size: 172 Copynumber: 2.5 Consensus size: 168
33386912 TATGCCTTTG
* * ** *
33386922 TTTGGAAACAAAATC-AAGATCGAATAAAATCAGTTAAACATCGGGAATAAATCCCGAAACAGA-
1 TTTGGAAACAAAATCAAAAATCGAATAAAATCAGTTGAACGGCGGGAATAAATCCCGAAACAAAT
* * * *
33386985 TTATTCAATTTTCTAATTTGGAAACAAAATCAAAATCGAATAAAATTTGTTAAACGATGTGAATA
66 TTATTCAATTTTCTAATTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAACGACGAGAATA
* * *
33387050 AATCCAGAAATAGATTTTATTTAATTTTAATTTCTCGT
131 AATCCAGAAACAGATTTTATTTAACTTTAATTTCTCGA
* * *
33387088 TTTGGAAACAAAATCAAAATTGGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAAAT
1 TTTGGAAACAAAATCAAAAATCGAATAAAATCAGTTGAACGGCGGGAATAAATCCCGAAACAAA-
* ** * * * *
33387153 TTTATTTAACTTTAATTCTCGTTTGGAAATAAAATAAAAAATGGAATAAAATCTGTTGAACGGCG
65 TTTATTCAA--TT--TTCTAATTTGGAAACAAAAT-AAAAATCGAATAAAATCTGTTAAACGACG
33387218 AGAATAAATCTC-GAAACAGATTTTATTTAACTTTAA-TTCTC-A
125 AGAATAAATC-CAGAAACAGATTTTATTTAACTTTAATTTCTCGA
* * * *
33387260 TTTGGAAATAAAATCAAAAAAT-GAATAAAATCCGTTGAACGGCAGGAATAAATCCCAAAACAAA
1 TTTGGAAACAAAATC-AAAAATCGAATAAAATCAGTTGAACGGCGGGAATAAATCCCGAAACAAA
33387324 TCTTATTCAATTTT
65 T-TTATTCAATTTT
33387338 TATTTTTATT
Statistics
Matches: 211, Mismatches: 28, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
166 15 0.07
167 40 0.19
168 2 0.01
169 7 0.03
170 2 0.01
171 3 0.01
172 60 0.28
173 27 0.13
174 54 0.26
175 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (168 bp):
TTTGGAAACAAAATCAAAAATCGAATAAAATCAGTTGAACGGCGGGAATAAATCCCGAAACAAAT
TTATTCAATTTTCTAATTTGGAAACAAAATAAAAATCGAATAAAATCTGTTAAACGACGAGAATA
AATCCAGAAACAGATTTTATTTAACTTTAATTTCTCGA
Found at i:33387832 original size:15 final size:14
Alignment explanation
Indices: 33387795--33387833 Score: 69
Period size: 14 Copynumber: 2.7 Consensus size: 14
33387785 TAAAGGAGAA
33387795 ATTAAATCAATTTG
1 ATTAAATCAATTTG
33387809 ATTAAATCAATTTG
1 ATTAAATCAATTTG
33387823 ATTAAAATCAA
1 ATT-AAATCAA
33387834 ATCAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (14 bp):
ATTAAATCAATTTG
Found at i:33388595 original size:22 final size:20
Alignment explanation
Indices: 33388567--33388607 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
33388557 TGCCTGCATA
*
33388567 AAAGTTTCATTTGTTTAATTTC
1 AAAGTTT-ATTT-TATAATTTC
33388589 AAAGTTTATTTTATAATTT
1 AAAGTTTATTTTATAATTT
33388608 AAGATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (20 bp):
AAAGTTTATTTTATAATTTC
Found at i:33394063 original size:28 final size:28
Alignment explanation
Indices: 33393991--33394065 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
33393981 TAGTCCTTAC
* *
33393991 AAACTTTTCACATTAACATATTCATGGA
1 AAACTTTCCACATTAAGATATTCATGGA
* *
33394019 AAACTTTCCATATTAAGATATTCATGGC
1 AAACTTTCCACATTAAGATATTCATGGA
**
33394047 GGACTTTCCACATTAAGAT
1 AAACTTTCCACATTAAGAT
33394066 CATCCTAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (28 bp):
AAACTTTCCACATTAAGATATTCATGGA
Found at i:33394079 original size:28 final size:28
Alignment explanation
Indices: 33394052--33394145 Score: 100
Period size: 28 Copynumber: 3.4 Consensus size: 28
33394042 ATGGCGGACT
33394052 TTCCACA-TTAAGATCATCCTAACAGAC
1 TTCCACATTTAAGATCATCCTAACAGAC
* ** * * *
33394079 TTCCACATTTAAAATGGTACTGACGGAC
1 TTCCACATTTAAGATCATCCTAACAGAC
* **
33394107 TTCCACATTTAAGATCATCCTGAGGGAC
1 TTCCACATTTAAGATCATCCTAACAGAC
33394135 TTCCACATTTA
1 TTCCACATTTA
33394146 TGATAATGCC
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 7 0.13
28 48 0.87
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.30
Consensus pattern (28 bp):
TTCCACATTTAAGATCATCCTAACAGAC
Found at i:33394448 original size:57 final size:57
Alignment explanation
Indices: 33394299--33394449 Score: 221
Period size: 57 Copynumber: 2.6 Consensus size: 57
33394289 CATAGTCCAA
* *
33394299 CCGAACCTTCCTCAAAGTCACATAAATATAATGCAAATGCAATCCCATGTATGACAAT
1 CCGAACC-TCCTCAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
* * *
33394357 CTGAACCTCTTCAAAGCCACATAAATATAATGCATATTCAATCCCATGTATGACAAT
1 CCGAACCTCCTCAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
* * *
33394414 CCGAACCTCCTCTAAGCCACATACATATCATGCATA
1 CCGAACCTCCTCAAAGCCACATAAATATAATGCATA
33394450 CATATGCAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 77 0.93
58 6 0.07
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.25
Consensus pattern (57 bp):
CCGAACCTCCTCAAAGCCACATAAATATAATGCATATGCAATCCCATGTATGACAAT
Found at i:33400600 original size:51 final size:52
Alignment explanation
Indices: 33400545--33400737 Score: 202
Period size: 51 Copynumber: 3.8 Consensus size: 52
33400535 ATGTGAAAGT
* *
33400545 GAAAGTGAT-GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
* * * *
33400596 GAAA--GATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCG
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
* * * * *
33400646 GATAGCT--TCA-ATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCT
1 GAAAG-TGAT-AGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
* *
33400697 GATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACT
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACT
33400738 GTGTAAACCG
Statistics
Matches: 117, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
49 3 0.03
50 40 0.34
51 72 0.62
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (52 bp):
GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
Found at i:33402800 original size:37 final size:37
Alignment explanation
Indices: 33402750--33402826 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
33402740 TTCAGTTTGT
*
33402750 CTAATTATCCACCTATGACTGATTTTCAACCTTTAAA
1 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
33402787 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
1 CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
33402824 CTA
1 CTA
33402827 CTCAAAACTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (37 bp):
CTAATTATCCACCTATGACTGATTCTCAACCTTTAAA
Found at i:33405499 original size:61 final size:61
Alignment explanation
Indices: 33405404--33405528 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
33405394 CATATGATGC
33405404 AGTCGTGGTGGACTAATATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
1 AGTCGTGGTGGACTAATATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
*
33405465 AGTCGTGGTGGACTATTATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
1 AGTCGTGGTGGACTAATATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
33405526 AGT
1 AGT
33405529 AATGGATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (61 bp):
AGTCGTGGTGGACTAATATTTCTTTCAAATATGGTTCCACATACATAGATAACTCGCACAT
Found at i:33405935 original size:28 final size:28
Alignment explanation
Indices: 33405897--33405994 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
33405887 TTGGTGAACT
*
33405897 TTCCACA-TTAAGATCATCTTGATAGG-C
1 TTCCACATTTAAGATCATCCTGA-AGGAC
* *
33405924 TTCCACATTTAAGATCGTCCTGACGGAC
1 TTCCACATTTAAGATCATCCTGAAGGAC
* * *
33405952 TACCACATTTAAGATCGTCCT-AATGGAT
1 TTCCACATTTAAGATCATCCTGAA-GGAC
*
33405980 TTTCACATTTAAGAT
1 TTCCACATTTAAGAT
33405995 TGTCCTAACA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.17
28 50 0.83
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (28 bp):
TTCCACATTTAAGATCATCCTGAAGGAC
Found at i:33405999 original size:28 final size:28
Alignment explanation
Indices: 33405923--33406046 Score: 140
Period size: 28 Copynumber: 4.4 Consensus size: 28
33405913 TCTTGATAGG
*
33405923 CTTCCACATTTAAGATCGTCCTGACGGA
1 CTTCCACATTTAAGATCGTCCTAACGGA
* *
33405951 CTACCACATTTAAGATCGTCCTAATGGA
1 CTTCCACATTTAAGATCGTCCTAACGGA
* * * *
33405979 TTTTCACATTTAAGATTGTCCTAACAGA
1 CTTCCACATTTAAGATCGTCCTAACGGA
* * * *
33406007 CTTCCAGATTTACGATTGTCCTAACGGG
1 CTTCCACATTTAAGATCGTCCTAACGGA
*
33406035 CTTCCATATTTA
1 CTTCCACATTTA
33406047 TGGTAATGCC
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 80 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (28 bp):
CTTCCACATTTAAGATCGTCCTAACGGA
Found at i:33418990 original size:32 final size:32
Alignment explanation
Indices: 33418954--33419015 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
33418944 ATATCAATCC
* **
33418954 TTAAGGTTGGCATTTATTATACAAATTGGTCA
1 TTAAGGTTAGCATCCATTATACAAATTGGTCA
* *
33418986 TTAAGTTTAGCATCCGTTATACAAATTGGT
1 TTAAGGTTAGCATCCATTATACAAATTGGT
33419016 TACTCAAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (32 bp):
TTAAGGTTAGCATCCATTATACAAATTGGTCA
Found at i:33419280 original size:28 final size:28
Alignment explanation
Indices: 33419239--33419301 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
33419229 AAAATAGTTA
*
33419239 AAATTTCAAAAATAAAAAAAATATTATG
1 AAATTTTAAAAATAAAAAAAATATTATG
* * * *
33419267 AAATTTTAATAATAATAAAAATATTCTT
1 AAATTTTAAAAATAAAAAAAATATTATG
33419295 AAATTTT
1 AAATTTT
33419302 TAGAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (28 bp):
AAATTTTAAAAATAAAAAAAATATTATG
Found at i:33419631 original size:23 final size:26
Alignment explanation
Indices: 33419591--33419644 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
33419581 TTGCAAAGTA
*
33419591 TTTTTGAATTATTGAATTA-TTATAT
1 TTTTTAAATTATTGAATTATTTATAT
*
33419616 TTTTTAAATT-TT-AATTATTTTTAT
1 TTTTTAAATTATTGAATTATTTATAT
33419640 TTTTT
1 TTTTT
33419645 TGAATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 5 0.19
24 12 0.46
25 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTTAAATTATTGAATTATTTATAT
Found at i:33422713 original size:25 final size:26
Alignment explanation
Indices: 33422656--33422731 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 26
33422646 ATATGATTGA
*
33422656 GATATATTTGCATGTATATATAATAT
1 GATATATTTTCATGTATATATAATAT
*
33422682 GTTTATATTTTCATGTAT-T-TAATTAT
1 G-ATATATTTTCATGTATATATAA-TAT
* *
33422708 GATATATTTTCCTCTATATATAAT
1 GATATATTTTCATGTATATATAAT
33422732 TTTTTTAAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
25 16 0.39
26 8 0.20
27 17 0.41
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.53
Consensus pattern (26 bp):
GATATATTTTCATGTATATATAATAT
Found at i:33423382 original size:22 final size:22
Alignment explanation
Indices: 33423357--33423402 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
33423347 TTTTGTTGTC
* *
33423357 ATTTCTCTATTATTTTGCTATT
1 ATTTCGCTATTATATTGCTATT
*
33423379 ATTTCGCTATTATATTGTTATT
1 ATTTCGCTATTATATTGCTATT
33423401 AT
1 AT
33423403 ATTGTTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTCGCTATTATATTGCTATT
Found at i:33423408 original size:11 final size:11
Alignment explanation
Indices: 33423363--33423406 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
33423353 TGTCATTTCT
*
33423363 CTATTATTTTG
1 CTATTATATTG
33423374 CTATTAT-TTCG
1 CTATTATATT-G
33423385 CTATTATATTG
1 CTATTATATTG
*
33423396 TTATTATATTG
1 CTATTATATTG
33423407 TTGTTATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 2 0.07
11 26 0.87
12 2 0.07
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (11 bp):
CTATTATATTG
Found at i:33423612 original size:10 final size:11
Alignment explanation
Indices: 33423589--33423625 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
33423579 TGATGTATTA
33423589 TATTTTAAATT
1 TATTTTAAATT
*
33423600 TATTTT-TATT
1 TATTTTAAATT
33423610 TATTTTAAATT
1 TATTTTAAATT
33423621 TATTT
1 TATTT
33423626 AATGTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTTTAAATT
Found at i:33427602 original size:26 final size:26
Alignment explanation
Indices: 33427551--33427627 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
33427541 ATGAGAACTG
* * *
33427551 TATGTGCGAGCCCCTA-TGAGCAAGCC
1 TATGTGCGA-ACCCTAGTGTGCGAGCC
33427577 TATGTGCGAACCCTAGTGTGCGAGCC
1 TATGTGCGAACCCTAGTGTGCGAGCC
* * * *
33427603 TGTGTGTGAA-GCTTGTGTGCGAGCC
1 TATGTGCGAACCCTAGTGTGCGAGCC
33427628 CCAATGTACG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 18 0.42
26 25 0.58
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (26 bp):
TATGTGCGAACCCTAGTGTGCGAGCC
Found at i:33427708 original size:27 final size:28
Alignment explanation
Indices: 33427662--33427719 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
33427652 AACCTTGTAT
* * *
33427662 GTGCGAACTCATTTATGTGAA-CCCTAG
1 GTGCGAACCCATCTACGTGAACCCCTAG
33427689 GTGCGAACCCATCTACGTGAACCCCTAG
1 GTGCGAACCCATCTACGTGAACCCCTAG
33427717 GTG
1 GTG
33427720 TGTGAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (28 bp):
GTGCGAACCCATCTACGTGAACCCCTAG
Found at i:33427770 original size:29 final size:29
Alignment explanation
Indices: 33427711--33427771 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
33427701 CTACGTGAAC
* *
33427711 CCCTAGGTGTGTGAACACTAGTGTGCCAA
1 CCCTAGGTGTGTGAACACTAATGTGACAA
* * *
33427740 CCCTAGGTGTGTGCACCCTAATGTGAGAA
1 CCCTAGGTGTGTGAACACTAATGTGACAA
33427769 CCC
1 CCC
33427772 CTTAGGTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (29 bp):
CCCTAGGTGTGTGAACACTAATGTGACAA
Found at i:33427917 original size:14 final size:14
Alignment explanation
Indices: 33427879--33427962 Score: 51
Period size: 14 Copynumber: 5.8 Consensus size: 14
33427869 GAACCCATCC
*
33427879 GTGCGAACCCTTAGGT
1 GTGCGAACCC-T-GAT
*
33427895 GTGCAAACCCTGAT
1 GTGCGAACCCTGAT
*
33427909 GTGCGAACCCTAGGT
1 GTGCGAACCCT-GAT
* * *
33427924 GAGTGAACCCTAAT
1 GTGCGAACCCTGAT
* * *
33427938 GTGTGACCCCTAAT
1 GTGCGAACCCTGAT
*
33427952 GAGCGAACCCT
1 GTGCGAACCCT
33427963 AGGTGTAAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
14 33 0.61
15 12 0.22
16 9 0.17
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.21
Consensus pattern (14 bp):
GTGCGAACCCTGAT
Found at i:33427932 original size:29 final size:29
Alignment explanation
Indices: 33427879--33427963 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
33427869 GAACCCATCC
* * *
33427879 GTGCGAACCCTTAGGTGTGCAAACCCTGAT
1 GTGCGAACCC-TAGGTGAGCGAACCCTAAT
*
33427909 GTGCGAACCCTAGGTGAGTGAACCCTAAT
1 GTGCGAACCCTAGGTGAGCGAACCCTAAT
* * *
33427938 GTGTGACCCCTA-ATGAGCGAACCCTA
1 GTGCGAACCCTAGGTGAGCGAACCCTA
33427964 GGTGTAAACC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.26
29 25 0.53
30 10 0.21
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.21
Consensus pattern (29 bp):
GTGCGAACCCTAGGTGAGCGAACCCTAAT
Found at i:33427963 original size:14 final size:14
Alignment explanation
Indices: 33427900--33427963 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
33427890 TAGGTGTGCA
* *
33427900 AACCCTGATGTGCG
1 AACCCTAATGAGCG
* *
33427914 AACCCTAGGTGAGTG
1 AACCCTA-ATGAGCG
* *
33427929 AACCCTAATGTGTG
1 AACCCTAATGAGCG
*
33427943 ACCCCTAATGAGCG
1 AACCCTAATGAGCG
33427957 AACCCTA
1 AACCCTA
33427964 GGTGTAAACC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 28 0.72
15 11 0.28
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (14 bp):
AACCCTAATGAGCG
Found at i:33438131 original size:10 final size:10
Alignment explanation
Indices: 33438118--33438142 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33438108 AATTATTTAG
33438118 AATTTATTAT
1 AATTTATTAT
33438128 AATTTATTAT
1 AATTTATTAT
33438138 AATTT
1 AATTT
33438143 CTTAGAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTTATTAT
Found at i:33439342 original size:17 final size:17
Alignment explanation
Indices: 33439320--33439352 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33439310 AAAATCAAAT
*
33439320 TAGAAGATATCTTATTG
1 TAGAAGATATCCTATTG
33439337 TAGAAGATATCCTATT
1 TAGAAGATATCCTATT
33439353 AGGCCCCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (17 bp):
TAGAAGATATCCTATTG
Found at i:33452552 original size:7 final size:7
Alignment explanation
Indices: 33452540--33452566 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33452530 ATTTTACTCT
33452540 TAAACCC
1 TAAACCC
33452547 TAAACCC
1 TAAACCC
33452554 TAAACCC
1 TAAACCC
33452561 TAAACC
1 TAAACC
33452567 TACCACCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:33458697 original size:50 final size:49
Alignment explanation
Indices: 33458589--33458737 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 49
33458579 ATTGCGAAAT
*
33458589 TATTTAAGCAACTAAAGAAAATTGAAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAA-TG-AAAACAATTTAATTAATTAAACTAAG
*
33458640 TATTTAAGCAACTAAAGAAAACTGAAAATAATTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAA-TGAAAACAATTTAATTAATTAAACTAAG
* * *
33458690 TATTTAAGCAACCAAAGAAAATTAAAACAATTGAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAATGAAAACAATTTAATTAATTAAACTAA
33458738 ACATATTAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 24 0.26
50 44 0.48
51 23 0.25
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.28
Consensus pattern (49 bp):
TATTTAAGCAACTAAAGAAAATGAAAACAATTTAATTAATTAAACTAAG
Found at i:33462130 original size:12 final size:11
Alignment explanation
Indices: 33462095--33462127 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
33462085 AAACTAGCTT
33462095 TTTTTTTCTCAA
1 TTTTTTT-TCAA
33462107 -TTTTTTTCAA
1 TTTTTTTTCAA
33462117 TTTTTTTTCAA
1 TTTTTTTTCAA
33462128 ATTACAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:33462194 original size:27 final size:27
Alignment explanation
Indices: 33462156--33462214 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
33462146 TAAAAACATC
*
33462156 GATACTTACTTCAATTTCACTATCTTT
1 GATACTTACTTCAATTTCACTATCTCT
33462183 GATACTTACTTCAATTTCACTATCTCT
1 GATACTTACTTCAATTTCACTATCTCT
33462210 GATAC
1 GATAC
33462215 CAAATGATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (27 bp):
GATACTTACTTCAATTTCACTATCTCT
Found at i:33463522 original size:22 final size:22
Alignment explanation
Indices: 33463471--33463536 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
33463461 GGTATTTGGG
* *
33463471 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
33463492 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
33463514 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
33463537 TGAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:33464894 original size:51 final size:51
Alignment explanation
Indices: 33464806--33464954 Score: 232
Period size: 51 Copynumber: 3.0 Consensus size: 51
33464796 ATGCCGGAAT
*
33464806 TATTTAAGCAACTAAA-AAAACTGAAAAGCAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
*
33464856 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAT
1 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
* * *
33464907 TATTTAAGCAACGAAAGAAAA-T-TAAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAA
33464955 ACATATTACA
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 24 0.26
50 17 0.18
51 52 0.56
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.26
Consensus pattern (51 bp):
TATTTAAGCAACTAAAGAAAACTGAAAAACAACTTAATTAATTAAACTAAG
Found at i:33466177 original size:9 final size:9
Alignment explanation
Indices: 33466163--33466188 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33466153 AAATCTAATT
33466163 CAAATAAAA
1 CAAATAAAA
33466172 CAAATAAAA
1 CAAATAAAA
33466181 CAAATAAA
1 CAAATAAA
33466189 TAACTAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAATAAAA
Found at i:33469075 original size:12 final size:12
Alignment explanation
Indices: 33469034--33469076 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
33469024 CTCTTCTAAA
33469034 AGAAAACTCAAG
1 AGAAAACTCAAG
* *
33469046 AGAAATTCTTCAAA
1 AGAAA-AC-TCAAG
33469060 AGAAAACTCAAG
1 AGAAAACTCAAG
33469072 AGAAA
1 AGAAA
33469077 TTCTTCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 14 0.56
13 2 0.08
14 9 0.36
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (12 bp):
AGAAAACTCAAG
Found at i:33469105 original size:27 final size:26
Alignment explanation
Indices: 33469019--33469103 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
33469009 AAAGATTTTT
*
33469019 AGAAACTCTTCTAAAAGAAAACTCAAG
1 AGAAATTCTTC-AAAAGAAAACTCAAG
33469046 AGAAATTCTTCAAAAGAAAACTCAAG
1 AGAAATTCTTCAAAAGAAAACTCAAG
33469072 AGAAATTCTTCAAAAGAAAAACTCAAAG
1 AGAAATTCTTCAAAAG-AAAACTC-AAG
33469100 AGAA
1 AGAA
33469104 TTTATTAACT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
26 31 0.56
27 17 0.31
28 7 0.13
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (26 bp):
AGAAATTCTTCAAAAGAAAACTCAAG
Found at i:33475465 original size:21 final size:20
Alignment explanation
Indices: 33475408--33475465 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
33475398 TCCAGTGCGA
**
33475408 GTATCGATACTAATCAAGTAG
1 GTATCGATACTAAT-GTGTAG
* * *
33475429 GTATCGGTATTTATGTGTTAG
1 GTATCGATACTAATGTG-TAG
33475450 GTATCGATACTAATGT
1 GTATCGATACTAATGT
33475466 AAATATCGAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (20 bp):
GTATCGATACTAATGTGTAG
Found at i:33477684 original size:42 final size:42
Alignment explanation
Indices: 33477638--33477731 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
33477628 GCGTGTCTCT
* ** *
33477638 CAGTCACACGGCCGT-GTCCCTCAGTCACATGGGCA-TGTGCCC
1 CAGTCACACGGCC-TAGACCCTCAGTCACACAGG-AGTGTACCC
*
33477680 CAGTCACACGGTCTAGACCCTCAGTCACACAGGAGTGTACCC
1 CAGTCACACGGCCTAGACCCTCAGTCACACAGGAGTGTACCC
33477722 CAGTCACACG
1 CAGTCACACG
33477732 ATCAAGACCC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 2 0.04
42 43 0.96
ACGTcount: A:0.22, C:0.37, G:0.23, T:0.17
Consensus pattern (42 bp):
CAGTCACACGGCCTAGACCCTCAGTCACACAGGAGTGTACCC
Found at i:33477704 original size:21 final size:21
Alignment explanation
Indices: 33477680--33477743 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
33477670 GCATGTGCCC
33477680 CAGTCACACGGTCTAGACCCT
1 CAGTCACACGGTCTAGACCCT
**
33477701 CAGTCACACAGGAGT-GTACCC-
1 CAGTCACAC-GGTCTAG-ACCCT
* *
33477722 CAGTCACACGATCAAGACCCT
1 CAGTCACACGGTCTAGACCCT
33477743 C
1 C
33477744 CCACAAGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 5 0.15
21 21 0.64
22 7 0.21
ACGTcount: A:0.28, C:0.38, G:0.19, T:0.16
Consensus pattern (21 bp):
CAGTCACACGGTCTAGACCCT
Found at i:33477740 original size:42 final size:42
Alignment explanation
Indices: 33477655--33477743 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
33477645 ACGGCCGTGT
** * * *
33477655 CCCTCAGTCACATGGGCATGTGCCCCAGTCACACGGTCTAGA
1 CCCTCAGTCACACAGGCATGTACCCCAGTCACACGATCAAGA
33477697 CCCTCAGTCACACAGG-AGTGTACCCCAGTCACACGATCAAGA
1 CCCTCAGTCACACAGGCA-TGTACCCCAGTCACACGATCAAGA
33477739 CCCTC
1 CCCTC
33477744 CCACAAGGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.25, C:0.38, G:0.20, T:0.17
Consensus pattern (42 bp):
CCCTCAGTCACACAGGCATGTACCCCAGTCACACGATCAAGA
Found at i:33478710 original size:23 final size:23
Alignment explanation
Indices: 33478684--33478744 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
33478674 TTCATTTAAC
*
33478684 TTAATCAAACATGTGCACGAACA
1 TTAATCGAACATGTGCACGAACA
* * *
33478707 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTGCACGAACA
*
33478730 TATAATTGAACATGT
1 T-TAATCGAACATGT
33478745 TAACGAAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 20 0.65
24 11 0.35
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (23 bp):
TTAATCGAACATGTGCACGAACA
Found at i:33478743 original size:24 final size:23
Alignment explanation
Indices: 33478691--33478751 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
33478681 AACTTAATCA
*
33478691 AACATGTGCACGAACATTAAACG
1 AACATGTTCACGAACATTAAACG
* **
33478714 AACATGTTCATGAACATATAATTG
1 AACATGTTCACGAACAT-TAAACG
*
33478738 AACATGTTAACGAA
1 AACATGTTCACGAA
33478752 GAATGTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 15 0.48
24 16 0.52
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (23 bp):
AACATGTTCACGAACATTAAACG
Found at i:33484748 original size:39 final size:40
Alignment explanation
Indices: 33484640--33484862 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
33484630 TTGAATGATG
* * * *
33484640 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * * *
33484680 TCCGGATTAAGAT-CCAAAGGCGTTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33484720 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33484759 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33484799 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33484840 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33484863 GGAACGAGGA
Statistics
Matches: 156, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.21
40 114 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33484886 original size:119 final size:119
Alignment explanation
Indices: 33484640--33484897 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
33484630 TTGAATGATG
* * * *
33484640 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGATTAAGATCCAAAGGCGTTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCAAAGGCATTT
* ** *
33484705 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * *
33484759 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACAAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAAAATCCGGATTAAGAT-CCAAAGGCAT
* * *
33484822 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTGGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
33484879 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33484898 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACAAAATCCGGATTAAGATCCAAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:33489777 original size:16 final size:17
Alignment explanation
Indices: 33489751--33489783 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
33489741 ACATTTAAAC
33489751 AAAGAAAAGAAAGAAAA
1 AAAGAAAAGAAAGAAAA
33489768 AAAG-AAAGAAAGAAAA
1 AAAGAAAAGAAAGAAAA
33489784 GGAGAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAGAAAA
Found at i:33489789 original size:12 final size:13
Alignment explanation
Indices: 33489751--33489784 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
33489741 ACATTTAAAC
33489751 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
33489764 AAA-AAAAGAAAG
1 AAAGAAAAGAAAG
33489776 AAAGAAAAG
1 AAAGAAAAG
33489785 GAGAAGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:33494126 original size:188 final size:188
Alignment explanation
Indices: 33493809--33494178 Score: 605
Period size: 188 Copynumber: 2.0 Consensus size: 188
33493799 TATTTTCTAC
* * **
33493809 ATTATTGATTATTCGGTGGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGGTAGA
1 ATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAGA
* *
33493874 CGAAATCTAAGGAACTCGTGGTGTGTAGCGGATGGTATGGGTGGGAACCTTTTTCCATTGCATCA
66 CGAAATCTAAGGAACTCGTGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCATTGCATCA
* * *
33493939 TGTGCATGACATATTCGAATGTTATTGATTTATGCTATGCATTGTATTTTTTGTACGT
131 TGTACAGGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTTTGTACGT
*
33493997 ATTATTGATTATTTAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAGA
1 ATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAGA
* * * *
33494062 CGAAATCTGAGTAACTCGTGGTGTGTAGCGAATGTTATGGGTAGGAACCTTTTTGCATTGCATCA
66 CGAAATCTAAGGAACTCGTGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCATTGCATCA
*
33494127 TGTACAGGACATATTCGAATGTTATTGGTTTATGCTACGCATTGTATTTTTT
131 TGTACAGGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTTT
33494179 TGTATTGAAT
Statistics
Matches: 167, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
188 167 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (188 bp):
ATTATTGATTATTCAGTCGTTTTACCACATCGAGCTATGCTCATAATGTTTTGGAGTTTGACAGA
CGAAATCTAAGGAACTCGTGGTGTGTAGCGAATGGTATGGGTAGGAACCTTTTTCCATTGCATCA
TGTACAGGACATATTCGAATGTTATTGATTTATGCTACGCATTGTATTTTTTGTACGT
Found at i:33495662 original size:49 final size:49
Alignment explanation
Indices: 33495590--33495683 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
33495580 TCAAGAAGGG
* *
33495590 ATAAATAGTGATAAGAGTGTAGACAGTGGAATACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCAATGT
33495639 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
33495684 TTGCATAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCAATGT
Found at i:33496483 original size:14 final size:15
Alignment explanation
Indices: 33496466--33496501 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
33496456 TAAATTTAGC
33496466 AAAATAAGAAAA-TA
1 AAAATAAGAAAATTA
*
33496480 AAAAAAAGAAAATTA
1 AAAATAAGAAAATTA
33496495 AAAATAA
1 AAAATAA
33496502 ATAATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (15 bp):
AAAATAAGAAAATTA
Found at i:33496540 original size:21 final size:21
Alignment explanation
Indices: 33496494--33496540 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
33496484 AAAGAAAATT
**
33496494 AAAAATAAATAATAAATATTG
1 AAAAATAAATAATAAATAGAG
*
33496515 GAAAAT-AATAACTAAATAGAG
1 AAAAATAAATAA-TAAATAGAG
33496536 AAAAA
1 AAAAA
33496541 ATAGATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (21 bp):
AAAAATAAATAATAAATAGAG
Found at i:33500425 original size:27 final size:27
Alignment explanation
Indices: 33500395--33500519 Score: 121
Period size: 27 Copynumber: 4.6 Consensus size: 27
33500385 ACCCTATAAA
*
33500395 GGTATTTCAGTAATTTTCCAAACTGAG
1 GGTATTTCAGTAATTTTCCAAACTAAG
* *
33500422 GGTATTTC-GATAATATTCCAAATTAAG
1 GGTATTTCAG-TAATTTTCCAAACTAAG
* * *
33500449 GGTACTTT-GGTAA-TTTCAAAAATTAAG
1 GGTA-TTTCAGTAATTTTC-CAAACTAAG
* * *
33500476 GGTATTTCGGTAATTTTACAAACTGAG
1 GGTATTTCAGTAATTTTCCAAACTAAG
33500503 GGTATTTCAGTAATTTT
1 GGTATTTCAGTAATTTT
33500520 GTAATCCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
26 7 0.09
27 68 0.83
28 7 0.09
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTCCAAACTAAG
Found at i:33510429 original size:19 final size:19
Alignment explanation
Indices: 33510401--33510440 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33510391 ATCGTGATTT
* * *
33510401 AAAAATTTATTCCCTTTAA
1 AAAAAGTTATTACCTTCAA
33510420 AAAAAGTTATTACCTTCAA
1 AAAAAGTTATTACCTTCAA
33510439 AA
1 AA
33510441 CTTTGTTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAAGTTATTACCTTCAA
Found at i:33516230 original size:25 final size:24
Alignment explanation
Indices: 33516185--33516256 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
33516175 AGCTCATGTA
* *
33516185 AGCATACCGATTTATAACTCGTGAG
1 AGCATACCGA-TTACAGCTCGTGAG
* *
33516210 AGCATACCGATCTACAGCTCGAGTG
1 AGCATACCGAT-TACAGCTCGTGAG
*
33516235 AGTATACCGATTCACAGCTCGT
1 AGCATACCGATT-ACAGCTCGT
33516257 ATGAGAATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
AGCATACCGATTACAGCTCGTGAG
Found at i:33516261 original size:25 final size:25
Alignment explanation
Indices: 33516213--33516266 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
33516203 TCGTGAGAGC
*
33516213 ATACCGATCTACAGCTCGAGTGAGT
1 ATACCGATCTACAGCTCGAGTGAGA
33516238 ATACCGAT-TCACAGCTCGTA-TGAGA
1 ATACCGATCT-ACAGCTCG-AGTGAGA
33516263 ATAC
1 ATAC
33516267 ATGTACATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 1 0.04
25 24 0.92
26 1 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
ATACCGATCTACAGCTCGAGTGAGA
Found at i:33522519 original size:21 final size:21
Alignment explanation
Indices: 33522486--33522525 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33522476 ATATTTTAAT
* *
33522486 TATAATGTATTTATATATTAG
1 TATAATCTATTTAAATATTAG
*
33522507 TATAATCTTTTTAAATATT
1 TATAATCTATTTAAATATT
33522526 TCATAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
TATAATCTATTTAAATATTAG
Found at i:33529959 original size:20 final size:20
Alignment explanation
Indices: 33529936--33529975 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33529926 GTGCTTATAC
33529936 TTTGCACTTTGGTGCCCCTA
1 TTTGCACTTTGGTGCCCCTA
*
33529956 TTTGCACTTTGGTTCCCCTA
1 TTTGCACTTTGGTGCCCCTA
33529976 CTCACACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.30, G:0.17, T:0.42
Consensus pattern (20 bp):
TTTGCACTTTGGTGCCCCTA
Found at i:33529983 original size:20 final size:20
Alignment explanation
Indices: 33529940--33529984 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
33529930 TTATACTTTG
* **
33529940 CACTTTGGTGCCCCTATTTG
1 CACTTTGGTGCCCCTACTCA
*
33529960 CACTTTGGTTCCCCTACTCA
1 CACTTTGGTGCCCCTACTCA
33529980 CACTT
1 CACTT
33529985 CAAGGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.36, G:0.13, T:0.38
Consensus pattern (20 bp):
CACTTTGGTGCCCCTACTCA
Found at i:33537145 original size:20 final size:18
Alignment explanation
Indices: 33537090--33537146 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 18
33537080 TTTTATTTCT
33537090 TTTATTTTTAATTCTTGTTTA
1 TTTA-TTTTAA-T-TTGTTTA
* *
33537111 TCTATTTTTATTTGTTTAA
1 TTTATTTTAATTTGTTT-A
33537130 TTTATTTTGAATTTGTT
1 TTTATTTT-AATTTGTT
33537147 GGTTGCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.20
19 9 0.30
20 12 0.40
21 3 0.10
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTATTTTAATTTGTTTA
Found at i:33544103 original size:28 final size:28
Alignment explanation
Indices: 33544060--33544118 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
33544050 GTAATAGTAT
* * *
33544060 AGTGTAGGCCTTAGCCCGATACTGTAAC
1 AGTGTAGGCCTCAGCCCAATACAGTAAC
* *
33544088 AGTGTGGGCCTCAGCCCAATACAGTATC
1 AGTGTAGGCCTCAGCCCAATACAGTAAC
33544116 AGT
1 AGT
33544119 ACAGTGCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (28 bp):
AGTGTAGGCCTCAGCCCAATACAGTAAC
Found at i:33544253 original size:26 final size:26
Alignment explanation
Indices: 33544222--33544292 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
33544212 GTACACCTAT
33544222 ATCGCAGCAAAGCTGCCAGTAGT-AGC
1 ATCGCAGCAAAGCTGCCAGTA-TCAGC
* * *
33544248 ATCGCAGCAGAGCTACCAGTATCAGT
1 ATCGCAGCAAAGCTGCCAGTATCAGC
* *
33544274 ATCGAAGTAAAGCTGCCAG
1 ATCGCAGCAAAGCTGCCAG
33544293 AAACAGTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 1 0.03
26 36 0.97
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTATCAGC
Found at i:33544497 original size:27 final size:27
Alignment explanation
Indices: 33544467--33544554 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
33544457 GTATAACAAC
*
33544467 CATTTTACCCTTTAGGGGTATTTCGGT
1 CATTTTACCCTTTAGGGGTATTTTGGT
*
33544494 CATTTTA-CCTTTCGGGAGTATTTTGGT
1 CATTTTACCCTTTAGGG-GTATTTTGGT
* *
33544521 CATTTTACCATTTGGGGGTATTTTGGT
1 CATTTTACCCTTTAGGGGTATTTTGGT
33544548 CATTTTA
1 CATTTTA
33544555 TTGACCCCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 8 0.15
27 40 0.73
28 7 0.13
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.48
Consensus pattern (27 bp):
CATTTTACCCTTTAGGGGTATTTTGGT
Found at i:33545641 original size:13 final size:13
Alignment explanation
Indices: 33545604--33545641 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
33545594 TAGCAAGCAG
*
33545604 AGAGAAAAGGGAA
1 AGAGAAAAGTGAA
33545617 AGAGAAAA-TGAA
1 AGAGAAAAGTGAA
*
33545629 ATAGAAAAGTGAA
1 AGAGAAAAGTGAA
33545642 CAAACCTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.08
Consensus pattern (13 bp):
AGAGAAAAGTGAA
Found at i:33551107 original size:26 final size:26
Alignment explanation
Indices: 33551040--33551107 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
33551030 CAACACACCT
* *
33551040 GTATTGCAGCAAAGATACCAGTAGTA
1 GTATCGCAGCAAAGCTACCAGTAGTA
* * *
33551066 GTATCACAGTAGAGCTACCAGTA-TCA
1 GTATCGCAGCAAAGCTACCAGTAGT-A
33551092 GTATCGCAGCAAAGCT
1 GTATCGCAGCAAAGCT
33551108 GCCAAAAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (26 bp):
GTATCGCAGCAAAGCTACCAGTAGTA
Found at i:33551303 original size:27 final size:28
Alignment explanation
Indices: 33551273--33551332 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
33551263 CCCTACTCCT
*
33551273 AGGGTTATAACATTCATTTTACCCTTC-
1 AGGGTTATAACAGTCATTTTACCCTTCG
* ***
33551300 AGGGGTATTTTAGTCATTTTACCCTTCG
1 AGGGTTATAACAGTCATTTTACCCTTCG
33551328 AGGGT
1 AGGGT
33551333 ATTTTGGTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (28 bp):
AGGGTTATAACAGTCATTTTACCCTTCG
Found at i:33551333 original size:27 final size:26
Alignment explanation
Indices: 33551286--33551402 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 26
33551276 GTTATAACAT
33551286 TCATTTTACCCTTCAGGGGTATTTTAG
1 TCATTTTACCCTTCA-GGGTATTTTAG
*
33551313 TCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTC-AGGGTATTTTAG
**
33551340 TCATTTTACCCTTTGGGGGTATTTT-G
1 TCATTTTACCC-TTCAGGGTATTTTAG
* *
33551366 ATCATTTTATCCTTTCAGGGTATTTCAG
1 -TCATTTTA-CCCTTCAGGGTATTTTAG
*
33551394 TTATTTTAC
1 TCATTTTAC
33551403 TAACCCCACG
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
26 2 0.03
27 69 0.90
28 6 0.08
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (26 bp):
TCATTTTACCCTTCAGGGTATTTTAG
Found at i:33551344 original size:54 final size:54
Alignment explanation
Indices: 33551286--33551390 Score: 151
Period size: 54 Copynumber: 1.9 Consensus size: 54
33551276 GTTATAACAT
33551286 TCATTTTACCCTTCAGGGGTATTTT-AGTCATTTTA-CCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCAGGGGTATTTTGA-TCATTTTATCCCTTC-AGGGTATTTTGG
** *
33551340 TCATTTTACCCTTTGGGGGTATTTTGATCATTTTATCCTTTCAGGGTATTT
1 TCATTTTACCCTTCAGGGGTATTTTGATCATTTTATCCCTTCAGGGTATTT
33551391 CAGTTATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
54 40 0.87
55 6 0.13
ACGTcount: A:0.16, C:0.17, G:0.19, T:0.48
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGGGTATTTTGATCATTTTATCCCTTCAGGGTATTTTGG
Found at i:33551400 original size:54 final size:54
Alignment explanation
Indices: 33551286--33551402 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
33551276 GTTATAACAT
**
33551286 TCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCAG
** *
33551340 TCATTTTACCCTTTGGGGGTATTTT-GATCATTTTATCCTTTC-AGGGTATTTCAG
1 TCATTTTACCCTTCAGGGGTATTTTAG-TCATTTTA-CCCTTCGAGGGTATTTCAG
*
33551394 TTATTTTAC
1 TCATTTTAC
33551403 TAACCCCACG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 1 0.02
54 49 0.89
55 5 0.09
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTCGAGGGTATTTCAG
Found at i:33557893 original size:22 final size:23
Alignment explanation
Indices: 33557868--33557916 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
33557858 ATCAGCTTCT
33557868 TTAATAC-ACCTATTAAGACACA
1 TTAATACTACCTATTAAGACACA
* *
33557890 TTAA-ACTACTTATTAGGACACA
1 TTAATACTACCTATTAAGACACA
33557912 TTAAT
1 TTAAT
33557917 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (23 bp):
TTAATACTACCTATTAAGACACA
Found at i:33569532 original size:126 final size:123
Alignment explanation
Indices: 33569302--33569678 Score: 524
Period size: 126 Copynumber: 3.0 Consensus size: 123
33569292 TAAGGGTTTT
** * *
33569302 TAGGTC-CTGGAAGAAATAATTTCGAGTTGATGTTTCTGATAAAATAGTATAAAATCGCTTCTAG
1 TAGGTCAC-GGAAGAAATAATTT--TTTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTAG
33569366 CAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAG
63 CAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAG
*
33569427 TAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTTTGAGAAAATAGTATAAAATCGCTTCTAG
1 TAGGTCACGGAAGAAAT-A--ATTTTTTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTAG
* * * *
33569492 CAGGATGCTATTTGAGAAGAATTTGTGAAATCACGACCTCGTCAGCT-CGCTTTTGCTACAG
63 CAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGT-GGATGCGCTTTTGCTACAG
* * * * *
33569553 TAGGTCATGTAAGAAATAATTTTTTTGACGTTTCTAAGCAAATAATATAAAATCGCTTCTAGCAG
1 TAGGTCACGGAAGAAATAATTTTTTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTAGCAG
* * *
33569618 GATGCTATTTAAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
66 GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAG
33569676 TAG
1 TAG
33569679 CATGTTTGGG
Statistics
Matches: 224, Mismatches: 22, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
122 1 0.00
123 95 0.42
125 16 0.07
126 106 0.47
127 2 0.01
128 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (123 bp):
TAGGTCACGGAAGAAATAATTTTTTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTAGCAG
GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAG
Found at i:33572904 original size:23 final size:23
Alignment explanation
Indices: 33572875--33573273 Score: 317
Period size: 23 Copynumber: 16.9 Consensus size: 23
33572865 AAATTATGTA
33572875 AAATTAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
33572898 AAATTAGGTTAGGG-TTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAA-TT
*
33572921 -AA--GGGTTTAGGGTTTTTAATT
1 AAATTAGG-TTAGGGTTTTTAATT
*
33572942 AAATTAGGTTAGGATTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
33572965 AAATTAGGTTAAGGTTAGGGTTTTTAAGTT
1 -AA--A--TT-AGGTTAGGGTTTTTAA-TT
**
33572995 -AA-GGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
33573016 AAATTAGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAA-TT
*
33573040 -AA--GGGTTTAGGGTTTTTAATT
1 AAATTAGG-TTAGGGTTTTTAATT
33573061 AAATTAGGTTAAGGTTAGGGTTTTTAAGTT
1 -AA--A--TT-AGGTTAGGGTTTTTAA-TT
*
33573091 AAA--GGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
33573112 AAATGAGGTTAAGGTTAGGGTTTTTAAGTT
1 -AA--A--TT-AGGTTAGGGTTTTTAA-TT
**
33573142 -AA-GGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
33573163 AAATTAGGTTAGGGTTTTTAAGTT
1 AAATTAGGTTAGGGTTTTTAA-TT
* * *
33573187 -AA-GAGTTTAAGG-TTTTACATT
1 AAATTAGGTTAGGGTTTTTA-ATT
* *
33573208 AAATTAGGTTGGGGTTGTTAATT
1 AAATTAGGTTAGGGTTTTTAATT
*
33573231 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAATT
33573254 AAATTAGGTTAGGGTTTTTA
1 AAATTAGGTTAGGGTTTTTA
33573274 TTACATCAAA
Statistics
Matches: 306, Mismatches: 27, Indels: 86
0.73 0.06 0.21
Matches are distributed among these distances:
20 2 0.01
21 25 0.08
22 90 0.29
23 114 0.37
24 13 0.04
25 1 0.00
26 3 0.01
27 1 0.00
28 4 0.01
29 45 0.15
30 8 0.03
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAATT
Found at i:33572986 original size:96 final size:94
Alignment explanation
Indices: 33572880--33573269 Score: 340
Period size: 96 Copynumber: 4.1 Consensus size: 94
33572870 ATGTAAAATT
* *
33572880 AGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-T
1 AGGTTAGGGTTTTTAAGTTAAA--GGGTTAGGGTTTTAA-TTAAATAGG-TTAGGGTTTTTAAGT
33572941 TAAATTAGG-TTAGGATTTTTAATTAAATTAGGTTA
62 T-AA--AGGTTTAGGATTTTTAATTAAATTAGGTTA
*
33572976 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTA
1 AGGTTAGGGTTTTTAAGTTAAAGGGTTAGGG-TTTTAATTAAA-TAGGTTAGGGTTTTTAAGTTA
* *
33573041 AGGGTTTAGGGTTTTTAATTAAATTAGGTTA
64 AAGGTTTAGGATTTTTAATTAAATTAGGTTA
33573072 AGGTTAGGGTTTTTAAGTTAAAGGGTTAGGGTTTTTAATTAAATGAGGTTAAGGTTAGGGTTTTT
1 AGGTTAGGGTTTTTAAGTTAAAGGGTTAGGG-TTTTAATT-AA--A---T-AGGTTAGGGTTTTT
* * *
33573137 AAGTTAAGGGGTTAGGGTTTTTAATT-AA--A--TT-
58 AAGTTAAAGGTTTAGGATTTTTAATTAAATTAGGTTA
* * * *
33573168 AGGTTAGGGTTTTTAAGTT-AAGAGTTTAAGGTTTTACATTAAATTAGGTTGGGGTTGTTAA-TT
1 AGGTTAGGGTTTTTAAGTTAAAG-GGTTAGGGTTTTA-ATTAAA-TAGGTTAGGGTTTTTAAGTT
* *
33573231 AAATTAGG-TTAGGGTTTTTAAATAAATTAGGTTA
63 -AA--AGGTTTAGGATTTTTAATTAAATTAGGTTA
*
33573265 GGGTT
1 AGGTT
33573270 TTTATTACAT
Statistics
Matches: 256, Mismatches: 14, Indels: 47
0.81 0.04 0.15
Matches are distributed among these distances:
89 2 0.01
90 16 0.06
91 16 0.06
92 4 0.02
93 1 0.00
94 1 0.00
95 22 0.09
96 118 0.46
97 27 0.11
98 4 0.02
99 2 0.01
101 4 0.02
102 39 0.15
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (94 bp):
AGGTTAGGGTTTTTAAGTTAAAGGGTTAGGGTTTTAATTAAATAGGTTAGGGTTTTTAAGTTAAA
GGTTTAGGATTTTTAATTAAATTAGGTTA
Found at i:33573005 original size:22 final size:21
Alignment explanation
Indices: 33572977--33573062 Score: 109
Period size: 22 Copynumber: 3.9 Consensus size: 21
33572967 ATTAGGTTAA
33572977 GGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAA-TTAAGG
**
33572999 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATT-AA-GG
33573022 GGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAA-TTAAGG
*
33573044 GTTTAGGGTTTTTAATTAA
1 GGTTAGGGTTTTTAATTAA
33573063 ATTAGGTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
21 6 0.11
22 31 0.55
23 17 0.30
24 2 0.04
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (21 bp):
GGTTAGGGTTTTTAATTAAGG
Found at i:33573012 original size:51 final size:51
Alignment explanation
Indices: 33572948--33573217 Score: 377
Period size: 51 Copynumber: 5.5 Consensus size: 51
33572938 AATTAAATTA
*
33572948 GGTTAGGATTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
33572999 GGTTAGGGTTTTTAATT-AA--A--TT-AGGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
* *
33573044 GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
*
33573095 GGTTAGGGTTTTTAATTAAATGAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
*
33573146 GGTTAGGGTTTTTAATT-AA--A--TT-AGGTTAGGGTTTTTAAGTTAAGA
1 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
* *
33573191 GTTTAAGG-TTTTACATTAAATTAGGTT
1 GGTTAGGGTTTTTA-ATTAAATTAGGTT
33573218 GGGGTTGTTA
Statistics
Matches: 198, Mismatches: 9, Indels: 25
0.85 0.04 0.11
Matches are distributed among these distances:
44 5 0.03
45 70 0.35
46 8 0.04
48 4 0.02
50 8 0.04
51 103 0.52
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (51 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGG
Found at i:33573031 original size:45 final size:45
Alignment explanation
Indices: 33572976--33573273 Score: 357
Period size: 45 Copynumber: 6.3 Consensus size: 45
33572966 AATTAGGTTA
33572976 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
*
33573021 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATT-AA--A--TT
*
33573071 AAGGTTAGGGTTTTTAAGTTAAAGGGTTAGGGTTTTTAATTAAATGAGGTT
1 -AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATT-AA--A--TT
33573122 AAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
1 -AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
* * *
33573168 AGGTTAGGGTTTTTAAGTTAAGAGTTTAAGG-TTTTACATTAAATT
1 AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTA-ATTAAATT
* * ** *
33573213 AGGTTGGGGTTGTTAA-TTAAATTAGGTTAGGGTTTTTAAATAAATT
1 AGGTTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAATTAAATT
33573259 AGGTTAGGGTTTTTA
1 AGGTTAGGGTTTTTA
33573274 TTACATCAAA
Statistics
Matches: 227, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
44 7 0.03
45 91 0.40
46 31 0.14
47 5 0.02
48 2 0.01
50 4 0.02
51 87 0.38
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (45 bp):
AGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATT
Found at i:33573081 original size:29 final size:28
Alignment explanation
Indices: 33573037--33573178 Score: 114
Period size: 29 Copynumber: 5.3 Consensus size: 28
33573027 GGGTTTTTAA
33573037 GTTAAGGGTTTAGGGTTTTTAATTAAATTAG
1 GTTAA-GG-TTAGGGTTTTTAATTAAA-TAG
33573068 GTTAAGGTTAGGGTTTTTAAGTT-AA-A-
1 GTTAAGGTTAGGGTTTTTAA-TTAAATAG
33573094 G----GGTTAGGGTTTTTAATTAAATGAG
1 GTTAAGGTTAGGGTTTTTAATTAAAT-AG
33573119 GTTAAGGTTAGGGTTTTTAAGTT--A-AG
1 GTTAAGGTTAGGGTTTTTAA-TTAAATAG
33573145 G----GGTTAGGGTTTTTAATTAAATTAG
1 GTTAAGGTTAGGGTTTTTAATTAAA-TAG
*
33573170 GTTAGGGTT
1 GTTAAGGTT
33573179 TTTAAGTTAA
Statistics
Matches: 93, Mismatches: 0, Indels: 38
0.71 0.00 0.29
Matches are distributed among these distances:
21 4 0.04
22 32 0.34
23 1 0.01
24 1 0.01
25 4 0.04
26 4 0.04
27 1 0.01
28 1 0.01
29 34 0.37
30 6 0.06
31 5 0.05
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (28 bp):
GTTAAGGTTAGGGTTTTTAATTAAATAG
Found at i:33573259 original size:147 final size:144
Alignment explanation
Indices: 33572930--33573269 Score: 510
Period size: 147 Copynumber: 2.4 Consensus size: 144
33572920 TAAGGGTTTA
* *
33572930 GGGTTTTTAATTAAATTAGGTTAGGATTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTT
1 GGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATGAGGTTAAGGTTAGGGTTTTTAAGTT
* *
33572995 AAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAT
66 AAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGAGTTTAAGGTTTTTAAT
33573060 TAAATTAGGTTAAGGTT
131 TAAATTAGGTT-A-G-T
*
33573077 AGGGTTTTTAAGTTAAA--GGGTTAGGGTTTTTAATTAAATGAGGTTAAGGTTAGGGTTTTTAAG
1 -GGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTAAATGAGGTTAAGGTTAGGGTTTTTAAG
33573140 TTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGAGTTTAAGG-TTTTA
64 TTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGAGTTTAAGGTTTTTA
33573204 CATTAAATTAGGTT-G-
129 -ATTAAATTAGGTTAGT
* * * *
33573219 GGGTTGTTAATTAAATTAGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTT
1 GGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATGAGGTTAAGGTT
33573270 TTTATTACAT
Statistics
Matches: 178, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
140 5 0.03
141 9 0.05
142 30 0.17
144 1 0.01
146 5 0.03
147 113 0.63
148 10 0.06
149 5 0.03
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (144 bp):
GGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATGAGGTTAAGGTTAGGGTTTTTAAGTT
AAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGAGTTTAAGGTTTTTAAT
TAAATTAGGTTAGT
Found at i:33574467 original size:7 final size:7
Alignment explanation
Indices: 33574457--33574481 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33574447 TTATATACAT
33574457 AATACTA
1 AATACTA
33574464 AATACTA
1 AATACTA
33574471 AATACTA
1 AATACTA
33574478 AATA
1 AATA
33574482 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:33575668 original size:22 final size:22
Alignment explanation
Indices: 33575643--33575716 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
33575633 AAATATGGAT
*
33575643 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
33575665 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
*
33575687 TTGAGAGGAA-TTGAG-AGGAAA
1 TTGAGA-GAATTTTAGAAGGAAA
33575708 TATGAGAGA
1 T-TGAGAGA
33575717 GGATTTGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.19
22 36 0.75
23 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:33575715 original size:12 final size:11
Alignment explanation
Indices: 33575659--33575715 Score: 64
Period size: 10 Copynumber: 5.2 Consensus size: 11
33575649 GAATTTTGGA
33575659 AGGAAATTGAG
1 AGGAAATTGAG
* *
33575670 A-GAATTTTAG
1 AGGAAATTGAG
33575680 AAGGAAATTGAG
1 -AGGAAATTGAG
33575692 AGG-AATTGAG
1 AGGAAATTGAG
33575702 AGGAAATATGAG
1 AGGAAAT-TGAG
33575714 AG
1 AG
33575716 AGGATTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 17 0.45
11 8 0.21
12 13 0.34
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:33576942 original size:26 final size:26
Alignment explanation
Indices: 33576913--33576983 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
33576903 AACATATCGA
*
33576913 TTCATAGCTTGTGTGAGCAGACCCAT
1 TTCACAGCTTGTGTGAGCAGACCCAT
*
33576939 TTCACAGCTTGTGTAAGCAGACCCAT
1 TTCACAGCTTGTGTGAGCAGACCCAT
33576965 TTCACAGCTTGTGTGAGCA
1 TTCACAGCTTGTGTGAGCA
33576984 CTATTGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (26 bp):
TTCACAGCTTGTGTGAGCAGACCCAT
Found at i:33579428 original size:42 final size:42
Alignment explanation
Indices: 33579365--33579444 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
33579355 ATGAGAGAAC
33579365 AGTTGCATTACAAATACATTCTGAAATTAGACACTTTGGCGG
1 AGTTGCATTACAAATACATTCTGAAATTAGACACTTTGGCGG
* * * *
33579407 AGTTGTATTACAAATAGATTCTGCAATTAGACATTTTG
1 AGTTGCATTACAAATACATTCTGAAATTAGACACTTTG
33579445 ATGGATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (42 bp):
AGTTGCATTACAAATACATTCTGAAATTAGACACTTTGGCGG
Found at i:33582945 original size:26 final size:26
Alignment explanation
Indices: 33582904--33582979 Score: 125
Period size: 26 Copynumber: 2.9 Consensus size: 26
33582894 TCTCATCCCT
* *
33582904 ATTTTACCCTTGGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
33582930 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
33582956 ATTTTTCCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
33582980 GAAAACATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:33583257 original size:10 final size:10
Alignment explanation
Indices: 33583228--33583260 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
33583218 TTCTCATTTC
33583228 TCATTTCCTAT
1 TCATTT-CTAT
33583239 TCA-TTCTAT
1 TCATTTCTAT
33583248 TCATTTCTAT
1 TCATTTCTAT
33583258 TCA
1 TCA
33583261 AACATGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.33
10 11 0.52
11 3 0.14
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (10 bp):
TCATTTCTAT
Found at i:33586056 original size:257 final size:257
Alignment explanation
Indices: 33585599--33586093 Score: 756
Period size: 257 Copynumber: 1.9 Consensus size: 257
33585589 AGAAAGTTTA
* * *
33585599 TTCGTAATCGATATGTTATTTTTGAGTATAACATTTTGCTACAAGTCTGTCATTATAAGTTTTTA
1 TTCGTAATCGATATGTTATTTCTGAGTATAACAATTTGCTACAAGTCTGTCATTATAAGTTTGTA
* * *
33585664 CTTTTCCATCCGTATTTCTTTTCCTCTTGTAGATCCACTTACACCCTATGGGTTTTATCCCTTCT
66 CTTTTCCATCCGCATCTCTTTTCCTCTTGTAGATCCACTTACACCCTATGGGTTTTATCCATTCT
** * * * *
33585729 AGTAAGTATACAAGTTTCCATACTGAGTTGGAATAAATAGAGTCCATCTTAGCTTTTATAGTTAT
131 AGTAAGTATACAAGTCCCCACAATGAGTTGGAATAAATAGAGTCCATCTCAGCTTTCATAGTTAT
* * * *
33585794 TTCCCAGAGACTAGAATTAGCACTCTGCATTATTTCATCATATATGAGTGCGTTATCATTTC
196 TTCCCAAAGACTAGAATCAACACTCTGCATCATTTCATCATATATGAGTGCGTTATCATTTC
* *
33585856 TTCGTAATCGATATGTTCTTTCTGAGTATAACAATTTGCTACAAGTCTGTCCTTATAAGTTTGTA
1 TTCGTAATCGATATGTTATTTCTGAGTATAACAATTTGCTACAAGTCTGTCATTATAAGTTTGTA
*
33585921 CTTTTCCATCCGCATCTCTTTTCCTCTTGTAGATCTACTTACACCCTATGGGTTTTATCCATTCT
66 CTTTTCCATCCGCATCTCTTTTCCTCTTGTAGATCCACTTACACCCTATGGGTTTTATCCATTCT
* ** * *
33585986 GGTAAGTATACAAGTCCCCACAATGAGTTGGAATGCATAGAGTGCATCTCAGCTTTCATAGTTGT
131 AGTAAGTATACAAGTCCCCACAATGAGTTGGAATAAATAGAGTCCATCTCAGCTTTCATAGTTAT
**
33586051 TTCCCAAATCCTAGAATCAACACTCTGCATCATTTCATCATAT
196 TTCCCAAAGACTAGAATCAACACTCTGCATCATTTCATCATAT
33586094 GTCAGTAGGT
Statistics
Matches: 212, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
257 212 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (257 bp):
TTCGTAATCGATATGTTATTTCTGAGTATAACAATTTGCTACAAGTCTGTCATTATAAGTTTGTA
CTTTTCCATCCGCATCTCTTTTCCTCTTGTAGATCCACTTACACCCTATGGGTTTTATCCATTCT
AGTAAGTATACAAGTCCCCACAATGAGTTGGAATAAATAGAGTCCATCTCAGCTTTCATAGTTAT
TTCCCAAAGACTAGAATCAACACTCTGCATCATTTCATCATATATGAGTGCGTTATCATTTC
Found at i:33592339 original size:23 final size:22
Alignment explanation
Indices: 33592294--33592352 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
33592284 TAAAGGGTGT
* * *
33592294 TTACAAATTAAATC-TCTACGA
1 TTACAAATCATATCTTCTAAGA
33592315 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
* *
33592338 TTGCATATCATATCT
1 TTACAAATCATATCT
33592353 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.13
22 18 0.58
23 9 0.29
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:33593655 original size:11 final size:11
Alignment explanation
Indices: 33593639--33593669 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
33593629 GTCTTCTTTA
33593639 GCTCCATCTCC
1 GCTCCATCTCC
33593650 GCTCCATCTCC
1 GCTCCATCTCC
33593661 GCTTCCATC
1 GC-TCCATC
33593670 GTCAATATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.10, C:0.52, G:0.10, T:0.29
Consensus pattern (11 bp):
GCTCCATCTCC
Found at i:33606555 original size:17 final size:16
Alignment explanation
Indices: 33606533--33606564 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
33606523 TTAATCACTT
33606533 TAATATTAAATTTAATC
1 TAATATT-AATTTAATC
33606550 TAATATTAATTTAAT
1 TAATATTAATTTAAT
33606565 ATTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATATTAATTTAATC
Found at i:33608270 original size:14 final size:15
Alignment explanation
Indices: 33608237--33608268 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33608227 TATGCATGCA
*
33608237 AAATATAAAAAACAT
1 AAATACAAAAAACAT
33608252 AAATACAAAAAACAT
1 AAATACAAAAAACAT
33608267 AA
1 AA
33608269 TAGTGAAATG
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:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATACAAAAAACAT
Found at i:33610108 original size:20 final size:20
Alignment explanation
Indices: 33610085--33610144 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
33610075 GGGTATCGAA
*
33610085 GTACAAATAGGGGCACGTAT
1 GTACAAACAGGGGCACGTAT
* *
33610105 GTACAAACAGGGGTACCG-AA
1 GTACAAACAGGGGCA-CGTAT
33610125 GTACAAACAGGGGCACGTAT
1 GTACAAACAGGGGCACGTAT
33610145 CAAAGCTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (20 bp):
GTACAAACAGGGGCACGTAT
Found at i:33613822 original size:45 final size:45
Alignment explanation
Indices: 33613706--33613823 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
33613696 ATATAATGTT
* * *
33613706 ATAGTGTCTTTCAACTATTGTCTTACACGTTTGAGTCGTGATGCC
1 ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
* * * *
33613751 ATAGTGTCTTTTAGCTATAGTCTTACTCGTTTGATTCGTGCTGTC
1 ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
* *
33613796 ATATTGTCTTTCAGCTATGGTCTTACTC
1 ATAGTGTCTTTCAGCTATAGTCTTACTC
33613824 ATATTTCAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (45 bp):
ATAGTGTCTTTCAGCTATAGTCTTACTCGTTTGAGTCGTGATGCC
Found at i:33618668 original size:21 final size:25
Alignment explanation
Indices: 33618644--33618701 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 25
33618634 TTTTTGTACG
33618644 AAATTACTAAAATT-CTT-A-AA-A
1 AAATTACTAAAATTCCTTAATAATA
*
33618665 AAATGACT-AAATTCCTTAATAATA
1 AAATTACTAAAATTCCTTAATAATA
*
33618689 AAATTACCAAAAT
1 AAATTACTAAAAT
33618702 CTTTTATAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.17
21 10 0.34
22 1 0.03
23 2 0.07
24 7 0.24
25 4 0.14
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATTACTAAAATTCCTTAATAATA
Found at i:33618918 original size:20 final size:20
Alignment explanation
Indices: 33618871--33618918 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
33618861 AGATTAACTC
* *
33618871 AATCTCTTCCAAATTTACTG
1 AATCTCTTACAAAATTACTG
* * *
33618891 GATTTCTTACAAAATTAGTG
1 AATCTCTTACAAAATTACTG
33618911 AATCTCTT
1 AATCTCTT
33618919 GTAGTATTAT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (20 bp):
AATCTCTTACAAAATTACTG
Done.