Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 97 of 199
Found at i:32968727 original size:21 final size:21
Alignment explanation
Indices: 32968674--32968727 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
32968664 TAAAGATTAT
32968674 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
32968695 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
32968716 TAATTTAAAATT
1 TAATTTAAAATT
32968728 GAAAAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:32968744 original size:10 final size:10
Alignment explanation
Indices: 32968729--32968762 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
32968719 TTTAAAATTG
32968729 AAAAATTGTA
1 AAAAATTGTA
32968739 AAAAATTGT-
1 AAAAATTGTA
*
32968748 AAAAATTATA
1 AAAAATTGTA
32968758 AAAAA
1 AAAAA
32968763 AAATAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (10 bp):
AAAAATTGTA
Found at i:32968751 original size:9 final size:9
Alignment explanation
Indices: 32968722--32968761 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
32968712 ATAATAATTT
32968722 AAAATTG-A
1 AAAATTGTA
32968730 AAAATTGTAA
1 AAAATTGT-A
32968740 AAAATTGTA
1 AAAATTGTA
*
32968749 AAAATTATA
1 AAAATTGTA
32968758 AAAA
1 AAAA
32968762 AAAATAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 7 0.24
9 13 0.45
10 9 0.31
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (9 bp):
AAAATTGTA
Found at i:32968753 original size:19 final size:18
Alignment explanation
Indices: 32968722--32968762 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
32968712 ATAATAATTT
*
32968722 AAAATTGAAAAATTGTAA
1 AAAATTGAAAAATTATAA
32968740 AAAATTGTAAAAATTATAA
1 AAAATTG-AAAAATTATAA
32968759 AAAA
1 AAAA
32968763 AAATAGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAATTGAAAAATTATAA
Found at i:32968776 original size:11 final size:10
Alignment explanation
Indices: 32968755--32968793 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
32968745 TGTAAAAATT
32968755 ATAAAAAAAA
1 ATAAAAAAAA
*
32968765 ATAGAAATAAA
1 ATA-AAAAAAA
32968776 ATAAAAAAGAA
1 ATAAAAAA-AA
32968787 ATAAAAA
1 ATAAAAA
32968794 CACTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (10 bp):
ATAAAAAAAA
Found at i:32968776 original size:16 final size:15
Alignment explanation
Indices: 32968755--32968793 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
32968745 TGTAAAAATT
32968755 ATAAAAAAAAATAGAA
1 ATAAAAAAAAA-AGAA
32968771 ATAAAATAAAAAAGAA
1 ATAAAA-AAAAAAGAA
32968787 ATAAAAA
1 ATAAAAA
32968794 CACTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (15 bp):
ATAAAAAAAAAAGAA
Found at i:32975194 original size:26 final size:26
Alignment explanation
Indices: 32975139--32975273 Score: 116
Period size: 26 Copynumber: 5.3 Consensus size: 26
32975129 TGGTACCTAT
* * ** *
32975139 TAAATAATCACCGGATCAAATCTTGC
1 TAAATAAACACCGGCTCAAGGCCTGC
* *
32975165 TAAATAAACATCGGCTCAAGGCCTGT
1 TAAATAAACACCGGCTCAAGGCCTGC
*
32975191 TAAATACACACCGGCTCAAGG-C--C
1 TAAATAAACACCGGCTCAAGGCCTGC
* *
32975214 TAAATACACACCGACTCAAGGCCTGC
1 TAAATAAACACCGGCTCAAGGCCTGC
* * *
32975240 TAAATAATCACTAGGC-CAAGGCCTAC
1 TAAATAAACAC-CGGCTCAAGGCCTGC
32975266 TAAATAAA
1 TAAATAAA
32975274 GTACATCAAA
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
23 20 0.23
24 1 0.01
25 1 0.01
26 64 0.73
27 2 0.02
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (26 bp):
TAAATAAACACCGGCTCAAGGCCTGC
Found at i:32975221 original size:23 final size:23
Alignment explanation
Indices: 32975164--32975237 Score: 94
Period size: 23 Copynumber: 3.1 Consensus size: 23
32975154 TCAAATCTTG
* *
32975164 CTAAATAAACATCGGCTCAAGGC
1 CTAAATACACACCGGCTCAAGGC
32975187 CTGTTAAATACACACCGGCTCAAGGC
1 C---TAAATACACACCGGCTCAAGGC
*
32975213 CTAAATACACACCGACTCAAGGC
1 CTAAATACACACCGGCTCAAGGC
32975236 CT
1 CT
32975238 GCTAAATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 24 0.53
26 21 0.47
ACGTcount: A:0.35, C:0.31, G:0.16, T:0.18
Consensus pattern (23 bp):
CTAAATACACACCGGCTCAAGGC
Found at i:32975260 original size:49 final size:49
Alignment explanation
Indices: 32975164--32975264 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
32975154 TCAAATCTTG
* * * *
32975164 CTAAATAAACATCGGCTCAAGGCCTGTTAAATACACACCGGCTCAAGGC
1 CTAAATAAACACCGACTCAAGGCCTGCTAAATACACACAGGCTCAAGGC
*
32975213 CTAAATACACACCGACTCAAGGCCTGCTAAATA-ATCACTAGGC-CAAGGC
1 CTAAATAAACACCGACTCAAGGCCTGCTAAATACA-CAC-AGGCTCAAGGC
32975262 CTA
1 CTA
32975265 CTAAATAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
48 1 0.02
49 41 0.91
50 3 0.07
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.18
Consensus pattern (49 bp):
CTAAATAAACACCGACTCAAGGCCTGCTAAATACACACAGGCTCAAGGC
Found at i:32980469 original size:35 final size:35
Alignment explanation
Indices: 32980421--32980503 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
32980411 TAAACATATG
*
32980421 AACAATCACATTT-GGACA-ATAATATAACATATAAA
1 AACAACCACATTTGGGACATAT-ATATAACATA-AAA
* * *
32980456 AACAACCATATTTGGGACATATTTATAACATACAA
1 AACAACCACATTTGGGACATATATATAACATAAAA
32980491 AACAACCACATTT
1 AACAACCACATTT
32980504 AATTATTCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 25 0.61
36 14 0.34
37 2 0.05
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.27
Consensus pattern (35 bp):
AACAACCACATTTGGGACATATATATAACATAAAA
Found at i:32988240 original size:18 final size:19
Alignment explanation
Indices: 32988217--32988255 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32988207 TGCTTCAAGC
*
32988217 TTTTTAA-ATTTTAATTCT
1 TTTTTAACATATTAATTCT
*
32988235 TTTTTAACATATTAGTTCT
1 TTTTTAACATATTAATTCT
32988254 TT
1 TT
32988256 GGTTAGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTTAACATATTAATTCT
Found at i:32988413 original size:139 final size:139
Alignment explanation
Indices: 32988191--32988561 Score: 453
Period size: 139 Copynumber: 2.7 Consensus size: 139
32988181 CACATTTATA
*
32988191 TATTTTTTATTT-ATGTTGCTTCAAGCTTTTTAAA-TTTTAATT--CTTTTTTAACATATTAGTT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAGTT
* * * *
32988252 CTTTGGTTAGATAGTTAAATAGTTGCAATTACATCCTTAAGTCTCGAGTTCAATTCCTCT-CTTA
66 CTTTCGTTAGATGGTTAGATAGTTACAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTAC-TA
**
32988316 CTCTTATTTG
130 CTCACATTTG
*
32988326 TA-TTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATGTTTTTTAACATTTTAGT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAAT-TTTTTTAACATATTAGT
* * * * *
32988390 TCTTTCGTTAGATGGTTAGATAGTTATAATTACATCCTTGAGTCTCGAGTTCGATTTCTTTACTA
65 TCTTTCGTTAGATGGTTAGATAGTTACAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTACTA
32988455 CTCACATTTG
130 CTCACATTTG
*
32988465 TATTTTTTATTTCATGTTGCTTCAA----TTT---TTTTTAATTAATATTTTTAACATATTAGCT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAG-T
* * * * *
32988523 CCTTTTGTTAGGTGGTTAGATAATTTCAATTACATCCTT
65 TCTTTCGTTAGATGGTTAGATAGTTACAATTACATCCTT
32988562 GTGTATGAGG
Statistics
Matches: 207, Mismatches: 21, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
132 14 0.07
133 46 0.22
134 9 0.04
135 24 0.12
136 11 0.05
139 80 0.39
140 23 0.11
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (139 bp):
TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAGTT
CTTTCGTTAGATGGTTAGATAGTTACAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTACTAC
TCACATTTG
Found at i:32988670 original size:12 final size:12
Alignment explanation
Indices: 32988635--32988673 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
32988625 GCTTTTTTTA
32988635 TTTTTAATTATT
1 TTTTTAATTATT
*
32988647 TTTTATGA-TATT
1 TTTT-TAATTATT
32988659 TTTTTAATTATT
1 TTTTTAATTATT
32988671 TTT
1 TTT
32988674 ATTTTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTAATTATT
Found at i:32988978 original size:140 final size:137
Alignment explanation
Indices: 32988834--32989269 Score: 427
Period size: 140 Copynumber: 3.1 Consensus size: 137
32988824 TTTAAATAGT
32988834 ATGAAATAAAAAATACATTAATAAGCTTATAAAAATAATAGAACCTC-AGACTCAATG-ATGTAA
1 ATGAAATAAAAAATACATTAATAAG-TTATAAAAA-AATAGAA-CTCGAGACTCAA-GAATGTAA
* * * * * *
32988897 TTGCAATTATCTAACCATATAATGAAAGGAACTAATATGTTAAAAATATTAATTAAAA-ATAAAA
62 TTGCAACTATCTAACCATCTAA-CAAA-AAACTAATATGTTAAAAAAATTAATTAAAATTTAAAA
*
32988961 ACCTTGAAGCAAC
125 AGCTTGAAGCAAC
* * * * * * *
32988974 ATGAAATAAAAAATACAATT-GTGAG-TAGTAGAAGAATCGAACTCGAAACTTAAGAATGTAATT
1 ATGAAATAAAAAATAC-ATTAATAAGTTA-TAAAAAAATAGAACTCGAGACTCAAGAATGTAATT
* * * *
32989037 ACAACTATCTTACCATCTAACAAAAAAACTAATATATTAAGAAACATTAATTAAAATTTTAAAAA
64 GCAACTATCTAACCATCTAAC-AAAAAACTAATATGTTAA-AAAAATTAATTAAAA-TTTAAAAA
* *
32989102 GCTTTAAGTAAC
126 GCTTGAAGCAAC
* * * * * *
32989114 ATGAAGTAAAAAATACA--AATATGAGTAAGAAAGAAATTGAACTCGAGACTCAAGAATGTTATT
1 ATGAAATAAAAAATACATTAATA--AGTTATAAAAAAATAGAACTCGAGACTCAAGAATGTAATT
* *
32989177 GCAACTATCTAACCATCTAACCAAATAACTATTATGTTAAAAAAATTAATTAAAATTTTAAAAAG
64 GCAACTATCTAACCATCTAA-CAAAAAACTAATATGTTAAAAAAATTAATTAAAA-TTTAAAAAG
*
32989242 CTTGAAGGAAC
127 CTTGAAGCAAC
32989253 ATGAAATAAAAAATACA
1 ATGAAATAAAAAATACA
32989270 AACGTGAGTA
Statistics
Matches: 243, Mismatches: 40, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
137 17 0.07
138 56 0.23
139 54 0.22
140 111 0.46
141 5 0.02
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (137 bp):
ATGAAATAAAAAATACATTAATAAGTTATAAAAAAATAGAACTCGAGACTCAAGAATGTAATTGC
AACTATCTAACCATCTAACAAAAAACTAATATGTTAAAAAAATTAATTAAAATTTAAAAAGCTTG
AAGCAAC
Found at i:32989278 original size:139 final size:140
Alignment explanation
Indices: 32988881--32989279 Score: 486
Period size: 140 Copynumber: 2.9 Consensus size: 140
32988871 ATAGAACCTC
* * * ** *
32988881 AGACTCAATG-ATGTAATTGCAATTATCTAACCATATAATGAAAGGAACTAATATGTTAAAAATA
1 AGACTCAA-GAATGTAATTGCAACTATCTAACCATCTAA-CAAAAAAACTAATATGTTAAAAAAA
* * *
32988945 TTAATTAAAA--ATAAAAACCTTGAAGCAACATGAAATAAAAAATACAATTGTGAGT-AGTAGAA
64 TTAATTAAAATTTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTAAGTAGAA
32989007 GAATCGAACTCG
129 GAATCGAACTCG
* * * * * *
32989019 AAACTTAAGAATGTAATTACAACTATCTTACCATCTAACAAAAAAACTAATATATTAAGAAACAT
1 AGACTCAAGAATGTAATTGCAACTATCTAACCATCTAACAAAAAAACTAATATGTTAA-AAAAAT
* * * *
32989084 TAATTAAAATTTTAAAAAGCTTTAAGTAACATGAAGTAAAAAATACAAATATGAGTAAG-A-AAG
65 TAATTAAAATTTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTAAGTAGAAG
*
32989147 AAATTGAACTCG
130 -AATCGAACTCG
* * * *
32989159 AGACTCAAGAATGTTATTGCAACTATCTAACCATCTAACCAAATAACTATTATGTTAAAAAAATT
1 AGACTCAAGAATGTAATTGCAACTATCTAACCATCTAACAAAAAAACTAATATGTTAAAAAAATT
* *
32989224 AATTAAAATTTTAAAAAGCTTGAAGGAACATGAAATAAAAAATACAAACGTGAGTA
66 AATTAAAATTTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTA
32989280 GGAGCGGAAT
Statistics
Matches: 221, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
137 17 0.08
138 44 0.20
139 60 0.27
140 98 0.44
141 2 0.01
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (140 bp):
AGACTCAAGAATGTAATTGCAACTATCTAACCATCTAACAAAAAAACTAATATGTTAAAAAAATT
AATTAAAATTTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTAAGTAGAAGA
ATCGAACTCG
Found at i:32990466 original size:19 final size:20
Alignment explanation
Indices: 32990430--32990481 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
32990420 TATTATTATC
* **
32990430 ATATTTATAATTGTAATA-A
1 ATATTTATTATTAAAATATA
32990449 ATATTTATTATTAAAATATTA
1 ATATTTATTATTAAAATA-TA
*
32990470 ATATTTAATATT
1 ATATTTATTATT
32990482 TGTCACTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTATTATTAAAATATA
Found at i:32990538 original size:13 final size:14
Alignment explanation
Indices: 32990502--32990541 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
32990492 ATATTAATAA
32990502 TATTATTTAAAATTC
1 TATTA-TTAAAATTC
*
32990517 TATTCTTAAAATT-
1 TATTATTAAAATTC
32990530 TATTATTAAAAT
1 TATTATTAAAAT
32990542 AAAATTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 8 0.35
15 4 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATTAAAATTC
Found at i:32995855 original size:7 final size:7
Alignment explanation
Indices: 32995843--32995876 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
32995833 AACTTAAACG
32995843 TCAAATA
1 TCAAATA
32995850 TCAAATA
1 TCAAATA
32995857 TCAAATA
1 TCAAATA
32995864 TCAAATA
1 TCAAATA
32995871 TCAAAT
1 TCAAAT
32995877 TGAACTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (7 bp):
TCAAATA
Found at i:32997655 original size:12 final size:12
Alignment explanation
Indices: 32997638--32997664 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32997628 AGTCGTTAAT
32997638 TGTCATTAACGG
1 TGTCATTAACGG
32997650 TGTCATTAACGG
1 TGTCATTAACGG
32997662 TGT
1 TGT
32997665 AACGGTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (12 bp):
TGTCATTAACGG
Found at i:32998775 original size:19 final size:20
Alignment explanation
Indices: 32998739--32998776 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
32998729 GGGAAATAAG
*
32998739 AAAAGAAAAATAAATAAATA
1 AAAAGAAAAACAAATAAATA
*
32998759 AAAAG-AAAACAATTAAAT
1 AAAAGAAAAACAAATAAAT
32998777 TGTTCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAGAAAAACAAATAAATA
Found at i:32999918 original size:15 final size:15
Alignment explanation
Indices: 32999888--32999936 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
32999878 AAATGACTAT
*
32999888 ATAAAAAAT-TT-CA
1 ATAAAAAATATTAAA
32999901 ATAAAAAATATTAAA
1 ATAAAAAATATTAAA
**
32999916 ATACTAAATATTAAA
1 ATAAAAAATATTAAA
32999931 ATAAAA
1 ATAAAA
32999937 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 9 0.31
14 2 0.07
15 18 0.62
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAAAAAATATTAAA
Found at i:32999965 original size:25 final size:25
Alignment explanation
Indices: 32999901--32999966 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
32999891 AAAAATTTCA
32999901 ATAAAAAATATTAAAATACTAAATATT
1 ATAAAAAA-ATTAAAATAC-AAATATT
*
32999928 A-AAATAAAA-TAAAATA-AATATTTT
1 ATAAA-AAAATTAAAATACAA-ATATT
32999952 ATAAAAAAATTAAAA
1 ATAAAAAAATTAAAA
32999967 AATAATATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
23 2 0.06
24 9 0.26
25 15 0.44
26 4 0.12
27 4 0.12
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAAAAAAATTAAAATACAAATATT
Found at i:33003330 original size:18 final size:18
Alignment explanation
Indices: 33003309--33003345 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33003299 TGAGTTTTCG
*
33003309 AATTTGAATAACTTGAAT
1 AATTCGAATAACTTGAAT
*
33003327 AATTCGAATAATTTGAAT
1 AATTCGAATAACTTGAAT
33003345 A
1 A
33003346 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (18 bp):
AATTCGAATAACTTGAAT
Found at i:33006799 original size:109 final size:106
Alignment explanation
Indices: 33006619--33006926 Score: 413
Period size: 108 Copynumber: 2.8 Consensus size: 106
33006609 AAAATTTTTT
* * * * * *
33006619 TTTTTGGGTGCTGGCCTGTCAATAGACAGCACCACCTTTACGGAAATTTTTTTTTATATTTTGGG
1 TTTTT-GGTGGTGGCCTGCCAATGGACAGCACCACCTTTATGTAAATTTTTTTTTACATTTTGGG
33006684 GTGTCATTGGCCGCAACCAGTATAC-AAAAAATTTAAAAAAAATA
65 GTGTCATTGGCCGC-ACCAGTATACGAAAAAA-TTAAAAAAAA-A
* * *
33006728 TTTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTTACATTTTAGG
1 TTTTTGGTGGTGGCCTGCCAATGGACAGCACCACCTTTATGTAAA-TTTTTTTTTACATTTTGGG
*
33006793 GTGTCATTGGCAGGCACCAGTATACGAAAAAATTAAAAAAAAA
65 GTGTCATTGGC-CGCACCAGTATACGAAAAAATTAAAAAAAAA
* *
33006836 ATTTTGGTGGTGGCCTGCCAAT-GATCAGCACCACCTTTATGTAAGTTTTTTTTTACATTTTGGG
1 TTTTTGGTGGTGGCCTGCCAATGGA-CAGCACCACCTTTATGTAAATTTTTTTTTACATTTTGGG
*
33006900 GTGTCATTAGCCGGCACCAGTATACGA
65 GTGTCATTGGCC-GCACCAGTATACGA
33006927 TTTTTTTTTA
Statistics
Matches: 177, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
107 43 0.24
108 73 0.41
109 53 0.30
110 8 0.05
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (106 bp):
TTTTTGGTGGTGGCCTGCCAATGGACAGCACCACCTTTATGTAAATTTTTTTTTACATTTTGGGG
TGTCATTGGCCGCACCAGTATACGAAAAAATTAAAAAAAAA
Found at i:33007417 original size:108 final size:107
Alignment explanation
Indices: 33007229--33007443 Score: 272
Period size: 108 Copynumber: 2.0 Consensus size: 107
33007219 CGACCATTTA
**** *
33007229 AAAATTTTTTTTGTATACAGGTATCCGCCAATGACACCCCAAAATGTAAAATTTTTTTACATAAA
1 AAAATTTTTTTTGTATACAGGTATCCGCCAATGACACCCCAAAATGTAAAAAAAATCTACATAAA
* * *
33007294 GGTGGTGCCGGCCATTGGCAGGCCACCACCAAAATTTTTTTT
66 GGTGGTGCCGACCATTGACAGACCACCACCAAAATTTTTTTT
* * *
33007336 AAAATTTTTTTTCGTATACTGGTA-CCGGTCAATGACACCCCAAAATGTAAAAAAAAATCT-CGT
1 AAAATTTTTTTT-GTATACAGGTATCC-GCCAATGACACCCCAAAATGT-AAAAAAAATCTACAT
* *
33007399 AAAGGTGGTGCCGACCATTGACAGACCAGCACCAAATTTTTTTTT
63 AAAGGTGGTGCCGACCATTGACAGACCACCACCAAAATTTTTTTT
33007444 CCTTGTATAC
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
107 14 0.15
108 72 0.78
109 6 0.07
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (107 bp):
AAAATTTTTTTTGTATACAGGTATCCGCCAATGACACCCCAAAATGTAAAAAAAATCTACATAAA
GGTGGTGCCGACCATTGACAGACCACCACCAAAATTTTTTTT
Found at i:33007645 original size:18 final size:19
Alignment explanation
Indices: 33007622--33007660 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
33007612 ATTTTAGGTT
33007622 ATTTTAATAATTTTT-TAA
1 ATTTTAATAATTTTTATAA
* *
33007640 ATTTTAGTTATTTTTATAA
1 ATTTTAATAATTTTTATAA
33007659 AT
1 AT
33007661 ATAAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTTAATAATTTTTATAA
Found at i:33009173 original size:106 final size:105
Alignment explanation
Indices: 33008998--33009421 Score: 408
Period size: 106 Copynumber: 4.0 Consensus size: 105
33008988 AAAAAAAAAG
* * * * *
33008998 AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCTGTACCACCTTTACG-AATTTTTTTTTTT
1 AAAAAAAAA-TTTT-GGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAA-TTTTTTTTTT
* * * *
33009062 ACATTTTGGAGTTTCGTTGGGCGGCACCAGTATACAAAAAATT
63 ACATTTTGGGGTGTCATTGGTCGGCACCAGTATACAAAAAATT
* * *
33009105 AAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCATCACCTTTATGTAAATTTTCTTTTTAC
1 AAAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGT-AATTTTTTTTTTAC
* * *
33009170 ATTTTGGGGTGTCAATGGTCGGCACCTGTATATGAAAAAATT
65 ATTTTGGGGTGTCATTGGTCGGCACCAGTATA-CAAAAAATT
* *** * * *
33009212 -TAAAATTTTTTTTGTGGTGACTTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACA
1 AAAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACA
* **
33009276 TTTTGGGGTGTCATTGGCCAACACCAGTATACAAAAAAAAATTTT
66 TTTTGGGGTGTCATTGGTCGGCACCAGTATAC---AAAAAA--TT
**** * * *
33009321 AAAAATTCTTTTTGGTAGTAGCCTGCAAATGGCCGGCACCACCTTTATGTAA--TTTTTTTTACA
1 AAAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACA
* *
33009384 TTTTAGGGTGTCATT-TTCTGGCACCAGTATACAAAAAA
66 TTTTGGGGTGTCATTGGTC-GGCACCAGTATACAAAAAA
33009422 AAATTACATA
Statistics
Matches: 262, Mismatches: 45, Indels: 22
0.80 0.14 0.07
Matches are distributed among these distances:
105 76 0.29
106 80 0.31
107 26 0.10
108 36 0.14
109 2 0.01
110 42 0.16
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (105 bp):
AAAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACA
TTTTGGGGTGTCATTGGTCGGCACCAGTATACAAAAAATT
Found at i:33009374 original size:110 final size:107
Alignment explanation
Indices: 33009002--33009426 Score: 409
Period size: 105 Copynumber: 4.0 Consensus size: 107
33008992 AAAAAGAAAA
* * * * * * *
33009002 AAAAATTTTTGGGTGCTGGCCTGTCAATGGCCTGTACCACCTTTACG-AATTTTTTTTTTTACAT
1 AAAATTTTTTTGGTGGT-GCCTGCCAATGGCCGGCACCACCTTTATGTAA-TTTTTTTTTTACAT
* * * * **
33009066 TTTGGAGTTTCGTTGGGCGGCACCAGTATAC---AAAAAATTAA
64 TTTGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAAATTTT
**** * *
33009107 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCATCACCTTTATGTAAATTTTCTTTTTACAT
1 AAAATTTTTTTGGTGGT-GCCTGCCAATGGCCGGCACCACCTTTATGT-AATTTTTTTTTTACAT
* * * **
33009172 TTTGGGGTGTCAATGGTCGGCACCTGTAT--ATGAAAAAA-TTT
64 TTTGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAAATTTT
* *
33009213 AAAATTTTTTTTGTGGTGACTTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACATT
1 AAAATTTTTTTGGTGGTG-CCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACATT
**
33009278 TTGGGGTGTCATTGGCCAACACCAGTATACAAAAAAAAATTTT
65 TTGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAAATTTT
* *
33009321 AAAAATTCTTTTTGGTAGTAGCCTGCAAATGGCCGGCACCACCTTTATGTAA--TTTTTTTTACA
1 -AAAATT-TTTTTGGTGGT-GCCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACA
* ** *
33009384 TTTTAGGGTGTCATTTTCTGGCACCAGTATACAAAAAAAAATT
63 TTTTGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAAATT
33009427 ACATAAAGGT
Statistics
Matches: 264, Mismatches: 44, Indels: 21
0.80 0.13 0.06
Matches are distributed among these distances:
105 77 0.29
106 76 0.29
107 15 0.06
108 51 0.19
109 6 0.02
110 38 0.14
111 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (107 bp):
AAAATTTTTTTGGTGGTGCCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACATTT
TGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAAATTTT
Found at i:33009636 original size:109 final size:109
Alignment explanation
Indices: 33009518--33009793 Score: 380
Period size: 109 Copynumber: 2.5 Consensus size: 109
33009508 ACACCCCAAA
*** *
33009518 ATGTAAATTTTTTTTTACATTTTTTTAGTGTCATTGGCCGGCACCTGTATACGAAAAAA-TAAAA
1 ATGT-AATTTTTTTTTACA-TTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAATTAAAA
* *
33009582 AAAAATAT-TTTTTGGTGGTGACTTGCCAATGGCC-AGCACCACCTTT
64 AAAAAT-TCTTTTTGGTGGTGACCTGCAAATGGCCGA-CACCACCTTT
* * * *
33009628 ATGTAA-TTTTTTTTACATTTTGGGGTGTCATTTGCCGACACCAGTATACAAAAAAAATTTAAAA
1 ATGTAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATAC-GAAAAAATTAAAAA
*
33009692 AAAATTCTTTTTGGTGGTGGCCTGCAAATGGCCGACACCACCTTT
65 AAAATTCTTTTTGGTGGTGACCTGCAAATGGCCGACACCACCTTT
33009737 ATGTAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAA
1 ATGTAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAA
33009794 AATTACATAA
Statistics
Matches: 147, Mismatches: 14, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
107 26 0.18
108 18 0.12
109 57 0.39
110 46 0.31
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (109 bp):
ATGTAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAATTAAAAAA
AAATTCTTTTTGGTGGTGACCTGCAAATGGCCGACACCACCTTT
Found at i:33009794 original size:110 final size:109
Alignment explanation
Indices: 33009518--33009794 Score: 382
Period size: 110 Copynumber: 2.5 Consensus size: 109
33009508 ACACCCCAAA
*** *
33009518 ATGTAAATTTTTTTTTACATTTTTTTAGTGTCATTGGCCGGCACCTGTATACG-AAAAAATAAAA
1 ATGT-AATTTTTTTTTACA-TTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAATAAAA
* *
33009582 AAAAATATTTTTTGGTGGTGACTTGCCAATGGCCAGCACCACCTTT
64 AAAAATATTTTTTGGTGGTGACCTGCAAATGGCCAGCACCACCTTT
* * * *
33009628 ATGTAA-TTTTTTTTACATTTTGGGGTGTCATTTGCCGACACCAGTATACAAAAAAAATTTAAAA
1 ATGTAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAA-TAAAAA
*
33009692 AAAAT-TCTTTTTGGTGGTGGCCTGCAAATGGCC-GACACCACCTTT
65 AAAATAT-TTTTTGGTGGTGACCTGCAAATGGCCAG-CACCACCTTT
33009737 ATGTAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAA
1 ATGTAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAA
33009795 ATTACATAAA
Statistics
Matches: 148, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
107 26 0.18
108 19 0.13
109 51 0.34
110 52 0.35
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (109 bp):
ATGTAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAATAAAAAA
AAATATTTTTTGGTGGTGACCTGCAAATGGCCAGCACCACCTTT
Found at i:33010074 original size:105 final size:103
Alignment explanation
Indices: 33009812--33010148 Score: 327
Period size: 107 Copynumber: 3.2 Consensus size: 103
33009802 AAATGGCCGG
* * *
33009812 CACCACCAAATTTTTTTTTTAAA-TTTTTCGTATACTAGTGCCGGCCAATGACACCCCAAAATGT
1 CACCACCAAA-ATTTTTTTAAAATTTTTTCGTATACTGGTG-CGGCCAATGACACCCCAAAATG-
****** * *
33009876 AAATTTTTTTTACATAAAGGTGGTGCTGACTATTGACAGGC
63 AAAAAAAAATTACATAAAGGTGGTGCCGGCTATTGACAGGC
* ** * * *
33009917 CACCACTAAATAAAATTTTTAAAATTTTTTTGTATACTGGTGCTAGCTAATGACACCCCAAAATG
1 CACCAC-CAA-AATTTTTTTAAAATTTTTTCGTATACTGGTGC-GGCCAATGACACCCCAAAATG
* * * *
33009982 AAAAAAAAATTACATAAAGGTAGTGCCGGCCATTGGCAGGT
63 AAAAAAAAATTACATAAAGGTGGTGCCGGCTATTGACAGGC
33010023 CACCACCAAAATTTTTTTAAAAATTTTTTCGTATACTGGTGTCGGCCAATGACACCCCAAAAT-A
1 CACCACCAAAATTTTTTT-AAAATTTTTTCGTATACTGGTG-CGGCCAATGACACCCCAAAATGA
* * *
33010087 TAAAAAAAATTTCCCGTAAAGGTGGTGCCAGCTATTGACAGGC
64 -AAAAAAAA-TT-ACATAAAGGTGGTGCCGGCTATTGACAGGC
*
33010130 CAGCACCCAAAATTTTTTT
1 CACCA-CCAAAATTTTTTT
33010149 TTCTTTTTTT
Statistics
Matches: 187, Mismatches: 35, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
104 8 0.04
105 55 0.29
106 49 0.26
107 62 0.33
108 13 0.07
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (103 bp):
CACCACCAAAATTTTTTTAAAATTTTTTCGTATACTGGTGCGGCCAATGACACCCCAAAATGAAA
AAAAAATTACATAAAGGTGGTGCCGGCTATTGACAGGC
Found at i:33011795 original size:18 final size:18
Alignment explanation
Indices: 33011772--33011806 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33011762 AAAATTTTAA
33011772 TTAAATATTTA-TATACAT
1 TTAAAT-TTTATTATACAT
33011790 TTAAATTTTATTATACA
1 TTAAATTTTATTATACA
33011807 CACTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATTTTATTATACAT
Found at i:33014499 original size:12 final size:12
Alignment explanation
Indices: 33014484--33014510 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33014474 TTAAAAATTG
33014484 AAAAAAAAAAGA
1 AAAAAAAAAAGA
33014496 AAAAAAAAAAGA
1 AAAAAAAAAAGA
33014508 AAA
1 AAA
33014511 GAAATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:33015491 original size:3 final size:3
Alignment explanation
Indices: 33015485--33015518 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
33015475 AGGAGGTTGC
33015485 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33015519 GCCCTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33016732 original size:38 final size:38
Alignment explanation
Indices: 33016680--33016763 Score: 154
Period size: 38 Copynumber: 2.3 Consensus size: 38
33016670 TGATCATTTC
33016680 CAAAA-AAG-AATGTCTAATTTTACGATGCAATGATGG
1 CAAAAGAAGTAATGTCTAATTTTACGATGCAATGATGG
33016716 CAAAAGAAGTAATGTCTAATTTTACGATGCAATGATGG
1 CAAAAGAAGTAATGTCTAATTTTACGATGCAATGATGG
33016754 CAAAAGAAGT
1 CAAAAGAAGT
33016764 TTTTTTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 5 0.11
37 3 0.07
38 38 0.83
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (38 bp):
CAAAAGAAGTAATGTCTAATTTTACGATGCAATGATGG
Found at i:33023332 original size:7 final size:7
Alignment explanation
Indices: 33023320--33023358 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
33023310 TTATATGACA
33023320 AAGCATT
1 AAGCATT
33023327 AAGCATT
1 AAGCATT
33023334 AAGCATT
1 AAGCATT
33023341 AAGCATT
1 AAGCATT
33023348 AAGCATT
1 AAGCATT
33023355 AAGC
1 AAGC
33023359 TCGCACATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (7 bp):
AAGCATT
Found at i:33023444 original size:22 final size:22
Alignment explanation
Indices: 33023418--33023466 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
33023408 ACAACTCTGA
*
33023418 GCTCGCATCAAATTACAACAGG
1 GCTCGCATCAAAATACAACAGG
* * *
33023440 GCTCGCATGAAAATATAATAGG
1 GCTCGCATCAAAATACAACAGG
33023462 GCTCG
1 GCTCG
33023467 TATGCACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
GCTCGCATCAAAATACAACAGG
Found at i:33024007 original size:3 final size:3
Alignment explanation
Indices: 33023999--33024029 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33023989 TGTAAACCTT
33023999 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33024030 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33032978 original size:33 final size:33
Alignment explanation
Indices: 33032937--33033053 Score: 171
Period size: 33 Copynumber: 3.5 Consensus size: 33
33032927 TGTATATATG
*
33032937 TAAGACCATAGCTGGGCTATGGCATACTGATGG
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
* * * *
33032970 TAAGACCATAGTTAGGCTATAGCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
* *
33033003 TAAGACCATAGCTGGGCTATGTCATACTAATGA
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
33033036 TAAGACCATAGCTGGGCT
1 TAAGACCATAGCTGGGCT
33033054 GTAACACCCC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATACTGATGA
Found at i:33034472 original size:36 final size:36
Alignment explanation
Indices: 33034425--33034595 Score: 279
Period size: 36 Copynumber: 4.8 Consensus size: 36
33034415 GCTAAGCTAC
*
33034425 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
*
33034461 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
* * *
33034497 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
*
33034533 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
*
33034569 CACTTATCACTTTGTCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
33034596 AGTACTCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 123 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
Found at i:33034542 original size:72 final size:72
Alignment explanation
Indices: 33034425--33034595 Score: 324
Period size: 72 Copynumber: 2.4 Consensus size: 72
33034415 GCTAAGCTAC
*
33034425 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
33034490 AGTATAA
66 AGTATAA
*
33034497 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
33034562 AGTATAA
66 AGTATAA
33034569 CACTTATCACTTTGTCTCTTGATCAGA
1 CACTTATCACTTTGTCTCTTGATCAGA
33034596 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 97 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (72 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTATAA
Found at i:33039820 original size:12 final size:12
Alignment explanation
Indices: 33039803--33039827 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33039793 TAGAAATATC
33039803 ACAAAAAAAAAA
1 ACAAAAAAAAAA
33039815 ACAAAAAAAAAA
1 ACAAAAAAAAAA
33039827 A
1 A
33039828 ACTATGACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAAAA
Found at i:33039823 original size:13 final size:13
Alignment explanation
Indices: 33039805--33039829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33039795 GAAATATCAC
33039805 AAAAAAAAAAACA
1 AAAAAAAAAAACA
33039818 AAAAAAAAAAAC
1 AAAAAAAAAAAC
33039830 TATGACTATT
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:33046499 original size:17 final size:20
Alignment explanation
Indices: 33046479--33046515 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
33046469 TTATAATGAT
33046479 TTTTA-ATA-TAAAA-AATA
1 TTTTATATATTAAAATAATA
33046496 TTTTATATATTAAAATAATA
1 TTTTATATATTAAAATAATA
33046516 AAAGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 5 0.29
20 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTATATATTAAAATAATA
Found at i:33046968 original size:118 final size:118
Alignment explanation
Indices: 33046797--33047040 Score: 427
Period size: 118 Copynumber: 2.1 Consensus size: 118
33046787 CGTTAAGATA
* * *
33046797 ACTAAAATTTTTATCATTCAACTAAATTAATTCTAACTAGGCACAAACCTTATTTATTATTA-TT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
33046861 ATTTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 A-TTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
*
33046915 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
33046980 ATTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 ATTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
*
33047033 ACGAACAT
1 ACTAACAT
33047041 ATAATTATGT
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
118 117 0.98
119 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (118 bp):
ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
ATTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
Found at i:33047069 original size:7 final size:7
Alignment explanation
Indices: 33047057--33047094 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
33047047 ATGTTTGAAA
33047057 ATAATAT
1 ATAATAT
33047064 ATAATAT
1 ATAATAT
*
33047071 ATAATAA
1 ATAATAT
33047078 ATAATA-
1 ATAATAT
33047084 A-AATAT
1 ATAATAT
33047090 ATAAT
1 ATAAT
33047095 TTTAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 4 0.14
6 2 0.07
7 22 0.79
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:33047079 original size:21 final size:19
Alignment explanation
Indices: 33047055--33047094 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 19
33047045 TTATGTTTGA
33047055 AAATAATATATAATATATAAT
1 AAATAATA-A-AATATATAAT
33047076 AAATAATAAAATATATAAT
1 AAATAATAAAATATATAAT
33047095 TTTAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATAATAAAATATATAAT
Found at i:33048001 original size:23 final size:23
Alignment explanation
Indices: 33047971--33048017 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
33047961 ATGGGTTTTT
33047971 TATTAAAATAATACAAAAAAAAA
1 TATTAAAATAATACAAAAAAAAA
* *
33047994 TATTAAAATAATATATAAAAAAA
1 TATTAAAATAATACAAAAAAAAA
33048017 T
1 T
33048018 TTATTTACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
TATTAAAATAATACAAAAAAAAA
Found at i:33048022 original size:25 final size:24
Alignment explanation
Indices: 33047969--33048022 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
33047959 ATATGGGTTT
33047969 TTTATTAAAATAATACAAAAAAAA
1 TTTATTAAAATAATACAAAAAAAA
* *
33047993 -ATATTAAAATAATATATAAAAAAA
1 TTTATTAAAATAATACA-AAAAAAA
33048017 TTTATT
1 TTTATT
33048023 TACCAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 14 0.56
24 7 0.28
25 4 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTTATTAAAATAATACAAAAAAAA
Found at i:33048684 original size:152 final size:152
Alignment explanation
Indices: 33048125--33049088 Score: 1238
Period size: 155 Copynumber: 6.3 Consensus size: 152
33048115 TAATTATTTG
* * ** *
33048125 TATTTCGGCCATTTGTTCGTATTTTTTCTCAAATTTTATTACTTTTAAAAAATATATTATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTTCT
*
33048190 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTGTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
*
33048255 AAATAAATTAAAAAAAAAACTCT
131 AAATAAATT-AAAAAAAAACCCT
** * *
33048278 TATTTCATCCCTTTGTTCGTATTTTTTTCCTCAGATTTTATTACTTT-TAAAAA-ATA-TA----
1 TATTTCGGCCCTTTGTTCGTA-TTTTTTCC-CGGATTTTATTACTTTAAAAAAATATATTATTTT
* * *
33048336 CT-ATTTTATAATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
64 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-TTT
**
33048400 TTTATTTAAATT-AAAAAAAACCCT
128 TTTAAATAAATTAAAAAAAAACCCT
* *
33048424 TATTTCGGCCCTTTGTTTGTATTTTTTTCCGGATTTTATTACTTTTAATAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTAC-TTTAA-AAAAATATATTATTTT
* * *
33048489 -TGTATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
64 CT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-TT
**
33048553 TTTTAAATAAATTAAAAAAAAACAAT
127 TTTTAAATAAATTAAAAAAAAACCCT
* *
33048579 TATTTCGGCCCTTTGTTCTTATTTTTTCCCGGATTTTATTACTTT-AAAAAATATACTATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTTCT
* *
33048643 AATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
* * *
33048708 AAATAAATTTAAAGAAAATCCT
131 AAATAAATTAAAAAAAAACCCT
* * *
33048730 TATTTCGACCATTTGTTCGTATTTTTTCCCTAGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCC-GGATTTTATTACTTT-AA-AAAAATATATTATTT
* *
33048795 TCTAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTT
63 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTT
**
33048860 TTTAAATAAATTTAGTAAAAAACCCT
128 TTTAAATAAA-TTAAAAAAAAACCCT
* ** * * *
33048886 TTTTTCGGCCC----TTCGTATTTTTTTTCGAATTTTATTATTTTAAAAAAATATAATATTTTCT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTTCT
* * *
33048947 AATTTTATTATTTTACATTATTTTATTACATTATGTTTTAAATGTATTCATTTAGTGTGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
* *
33049012 AAATAAATTTAAAAAAAGCCCT
131 AAATAAATTAAAAAAAAACCCT
* *
33049034 TATTTCGGCCCTTTGTTCGTATTTTTTTACCGAATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGGATTTTATTACTTT-AA-AAAAA
33049089 ATACACTAAA
Statistics
Matches: 705, Mismatches: 78, Indels: 54
0.84 0.09 0.06
Matches are distributed among these distances:
144 12 0.02
145 10 0.01
146 29 0.04
147 60 0.09
148 38 0.05
149 86 0.12
150 2 0.00
151 62 0.09
152 105 0.15
153 44 0.06
154 85 0.12
155 154 0.22
156 18 0.03
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (152 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTAAAAAAATATATTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTT
AAATAAATTAAAAAAAAACCCT
Found at i:33049054 original size:304 final size:301
Alignment explanation
Indices: 33048125--33049088 Score: 1290
Period size: 304 Copynumber: 3.2 Consensus size: 301
33048115 TAATTATTTG
* * *
33048125 TATTTCGGCCATTTGTTCGTATTTTTTCTCAAATTTTATTACTTT-TA-AAAAATATATTATTTT
1 TATTTCGGCCATTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
* *
33048188 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTGTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTT
* * **
33048253 TTAAATAAATTAAAAAAAAAACTCTTATTTCATCCCTTTGTTCGTATTTTTTTCCTC-AGATTTT
131 TTAAATAAATTTAAAAAAAAACACTTATTTCGGCCC----TTCGTATTTTTTT--TCGA-ATTTT
* *
33048317 ATTACTTTT-AAAAA-AT-ATA----CT-ATTTTATAATTTTATATTATTTTAGTACATTATGTT
189 ATTA-TTTTAAAAAATATAATATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTT
** *
33048374 TGAAATGTATTCATTTAGTGTGTTTTTTTATTTAAATTAAAAAAAACCCT
253 TGAAATGTATTCATTTAGTGTG-TTTTTTAAATAAATTTAAAAAAACCCT
* * * * *
33048424 TATTTCGGCCCTTTGTTTGTATTTTTTTCCGGATTTTATTACTTTTAATAAAAATATATTATTTT
1 TATTTCGGCCATTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
* *
33048489 -TGTATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
66 CT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTG-TT
* * * *
33048553 TTTTAAATAAA-TTAAAAAAAAACAATTATTTCGGCCCTTTGTTCTTATTTTTTCCCGGATTTTA
129 TTTTAAATAAATTTAAAAAAAAACACTTATTTCGGCCCTTCG-TATT-TTTTTT--CGAATTTTA
* *
33048617 TTACTTTAAAAAATATACTATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTG
190 TTATTTTAAAAAATATAATATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTG
*
33048682 AAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAGAAAATCCT
255 AAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAA-AAAACCCT
*
33048730 TATTTCGACCATTTGTTCGTATTTTTTCCCTAGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTCCC-AGATTTTATTACTTTCAATAAAAATATATTATTT
*
33048795 TCTAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTT
65 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
** * *
33048860 TTTAAATAAATTTAGTAAAAAACCCTTTTTTCGGCCCTTCGTATTTTTTTTCGAATTTTATTATT
130 TTTAAATAAATTTAAAAAAAAACACTTATTTCGGCCCTTCGTATTTTTTTTCGAATTTTATTATT
* * *
33048925 TTAAAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTATTACATTATGTTTTAAAT
195 TT-AAAAAATATAATATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAAT
33048990 GTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAAAGCCCT
259 GTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAAA-CCCT
* *
33049034 TATTTCGGCCCTTTGTTCGTATTTTTTTACC-GAATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCATTTGTTCGTA-TTTTTTCCCAG-ATTTTATTACTTTCAATAAAAA
33049089 ATACACTAAA
Statistics
Matches: 587, Mismatches: 53, Indels: 45
0.86 0.08 0.07
Matches are distributed among these distances:
297 4 0.01
298 6 0.01
299 59 0.10
300 4 0.01
301 95 0.16
302 12 0.02
303 19 0.03
304 137 0.23
305 32 0.05
306 105 0.18
307 113 0.19
308 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (301 bp):
TATTTCGGCCATTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTT
TTAAATAAATTTAAAAAAAAACACTTATTTCGGCCCTTCGTATTTTTTTTCGAATTTTATTATTT
TAAAAAATATAATATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAATGT
ATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACCCT
Found at i:33051513 original size:21 final size:21
Alignment explanation
Indices: 33051470--33051513 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
33051460 CCAATTAATT
* * *
33051470 AACCTATTCAAAATATGATAA
1 AACCTACTCAAAACATGACAA
*
33051491 AACCTACTCAAAACATGCCAA
1 AACCTACTCAAAACATGACAA
33051512 AA
1 AA
33051514 TAATCATCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
AACCTACTCAAAACATGACAA
Found at i:33052786 original size:17 final size:17
Alignment explanation
Indices: 33052755--33052787 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33052745 TACCAAATCA
33052755 ATAACATTCAATCAACT
1 ATAACATTCAATCAACT
33052772 ATAA-ATTCAATTCAAC
1 ATAACATTCAA-TCAAC
33052788 CTCAAAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAACATTCAATCAACT
Found at i:33055601 original size:9 final size:9
Alignment explanation
Indices: 33055582--33055618 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33055572 TGAGTTTTCG
*
33055582 AATTTGAAT
1 AATTCGAAT
*
33055591 AACTCGAAT
1 AATTCGAAT
33055600 AATTCGAAT
1 AATTCGAAT
33055609 AATTCGAAT
1 AATTCGAAT
33055618 A
1 A
33055619 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33056544 original size:5 final size:5
Alignment explanation
Indices: 33056534--33056559 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33056524 GAACAAATAT
33056534 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
33056560 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:33065338 original size:23 final size:22
Alignment explanation
Indices: 33065311--33065362 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
33065301 ATATCCATCG
33065311 GTTTATTCGATCTATCTTCTATTT
1 GTTTATTCGATC-AT-TTCTATTT
* *
33065335 -TTTATTCTATCATTTTTATTT
1 GTTTATTCGATCATTTCTATTT
33065356 GTTTATT
1 GTTTATT
33065363 ATTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.28
22 8 0.32
23 10 0.40
ACGTcount: A:0.17, C:0.12, G:0.06, T:0.65
Consensus pattern (22 bp):
GTTTATTCGATCATTTCTATTT
Found at i:33068447 original size:25 final size:25
Alignment explanation
Indices: 33068410--33068469 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
33068400 AATGCGGGCA
*
33068410 TGGTCGTGCGTAAGACACGGTGGTG
1 TGGTCGTGTGTAAGACACGGTGGTG
33068435 TGGTCGTGTGTAAGACACGGTGGTG
1 TGGTCGTGTGTAAGACACGGTGGTG
33068460 TGGTCGTGTG
1 TGGTCGTGTG
33068470 GGCCCACACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.13, C:0.13, G:0.45, T:0.28
Consensus pattern (25 bp):
TGGTCGTGTGTAAGACACGGTGGTG
Found at i:33070166 original size:20 final size:20
Alignment explanation
Indices: 33070141--33070184 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33070131 AACATTAAAT
*
33070141 TAAATTTGATATTAAGA-TAA
1 TAAATTTAATATTAA-ATTAA
33070161 TAAATTTAATATTAAATTAA
1 TAAATTTAATATTAAATTAA
33070181 TAAA
1 TAAA
33070185 ATACTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAATTTAATATTAAATTAA
Found at i:33072563 original size:22 final size:23
Alignment explanation
Indices: 33072538--33072586 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
33072528 ATCAGCTTCT
33072538 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
33072560 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
33072582 TTAAT
1 TTAAT
33072587 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:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:33084244 original size:31 final size:31
Alignment explanation
Indices: 33084209--33084273 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
33084199 TCTTATGAGG
33084209 GTAGCACACTTATGACAATGTCATTAGATGA
1 GTAGCACACTTATGACAATGTCATTAGATGA
33084240 GTAGCACACTTATGACAATGTCATTAGATGA
1 GTAGCACACTTATGACAATGTCATTAGATGA
33084271 GTA
1 GTA
33084274 CTTAATAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (31 bp):
GTAGCACACTTATGACAATGTCATTAGATGA
Found at i:33089335 original size:19 final size:19
Alignment explanation
Indices: 33089311--33089354 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33089301 ACATTGATAA
*
33089311 AAAAAAT-TAAAAATATTTT
1 AAAAAATAT-AAAATAATTT
*
33089330 AAAAAATATAAATTAATTT
1 AAAAAATATAAAATAATTT
33089349 AAAAAA
1 AAAAAA
33089355 AGTATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAATATAAAATAATTT
Found at i:33089355 original size:20 final size:21
Alignment explanation
Indices: 33089325--33089364 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
33089315 AATTAAAAAT
*
33089325 ATTTTAAAAAA-TATAAATTA
1 ATTTAAAAAAAGTATAAATTA
33089345 ATTTAAAAAAAGTATAAATT
1 ATTTAAAAAAAGTATAAATT
33089365 TTTGGACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
ATTTAAAAAAAGTATAAATTA
Found at i:33092737 original size:9 final size:9
Alignment explanation
Indices: 33092720--33092750 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33092710 TCGAGTTGAT
33092720 TCGAATAAC
1 TCGAATAAC
*
33092729 TCGATTAAC
1 TCGAATAAC
33092738 TCGAATAAC
1 TCGAATAAC
33092747 TCGA
1 TCGA
33092751 TTTGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:33093097 original size:4 final size:4
Alignment explanation
Indices: 33093081--33093149 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
33093071 TCAAAATTGA
* * * **
33093081 AAAT AAGT AAAT AAAT AAAT -ATT AAAT GAAAT -ATT AAAT AAA- ATTT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT
*
33093127 TAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
33093150 AACAATTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
3 5 0.10
4 40 0.82
5 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:33093112 original size:12 final size:11
Alignment explanation
Indices: 33093092--33093147 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
33093082 AATAAGTAAA
33093092 TAAATAAATAT
1 TAAATAAATAT
33093103 TAAATGAAATAT
1 TAAAT-AAATAT
33093115 TAAATAAA-ATT
1 TAAATAAATA-T
* *
33093126 TTAATAAATAAA
1 TAAATAAAT-AT
33093138 TAAATAAATA
1 TAAATAAATA
33093148 AAAACAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.03
11 17 0.45
12 19 0.50
13 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:33098150 original size:15 final size:16
Alignment explanation
Indices: 33098116--33098155 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
33098106 TATATATTCT
33098116 TTTTATTTTAAATTAG
1 TTTTATTTTAAATTAG
*
33098132 TTTTATTTTAATTTA-
1 TTTTATTTTAAATTAG
*
33098147 TTTTCTTTT
1 TTTTATTTT
33098156 CCCAAATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTATTTTAAATTAG
Found at i:33098612 original size:51 final size:51
Alignment explanation
Indices: 33098552--33098653 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
33098542 CTCTGAGTAA
33098552 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
33098603 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
33098654 TTTCACTATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.51
Consensus pattern (51 bp):
GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
Found at i:33109290 original size:40 final size:40
Alignment explanation
Indices: 33109235--33109440 Score: 304
Period size: 40 Copynumber: 5.2 Consensus size: 40
33109225 TTTGTCTAGC
** ** * * *
33109235 GTGTTTCGGCTGGATTAGCTCCGATGAGCTTCGGCCTGTT
1 GTGTTTCGATTGGATTAGCTCTTATGAGCTTCTGTCTGGT
*
33109275 GTGTTTCGGTTGGATTAGCTCTTATGAGCTTCTGTCTGGT
1 GTGTTTCGATTGGATTAGCTCTTATGAGCTTCTGTCTGGT
* * *
33109315 GTGTTTCAATTGGATTAGCTCTTATAAGCTTCTTTCTGGT
1 GTGTTTCGATTGGATTAGCTCTTATGAGCTTCTGTCTGGT
33109355 GTGTTTCGATTGGATTAGCTCTTATGAGCTTCTGTCTGGT
1 GTGTTTCGATTGGATTAGCTCTTATGAGCTTCTGTCTGGT
*
33109395 GTGTTTCGATTGGATTAGCTCTTATGAGCTTCTGTTTGGT
1 GTGTTTCGATTGGATTAGCTCTTATGAGCTTCTGTCTGGT
33109435 GTGTTT
1 GTGTTT
33109441 GGTTGATCTG
Statistics
Matches: 152, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 152 1.00
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.45
Consensus pattern (40 bp):
GTGTTTCGATTGGATTAGCTCTTATGAGCTTCTGTCTGGT
Found at i:33114514 original size:19 final size:19
Alignment explanation
Indices: 33114487--33114524 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
33114477 TTACAACCAG
33114487 TTTTCATTTTATACAATTT
1 TTTTCATTTTATACAATTT
* *
33114506 TTTTTATTTTATTCAATTT
1 TTTTCATTTTATACAATTT
33114525 AGTTCTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCATTTTATACAATTT
Found at i:33117649 original size:27 final size:27
Alignment explanation
Indices: 33117618--33117775 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
33117608 GAGACCCTCA
* *
33117618 ATTTGTAAAATTACCAGAATACCCCTG
1 ATTTGTAAAATTACCAAAATACCCCAG
* ***
33117645 ATTTGCAAAATTATTGAAATACCCCAG
1 ATTTGTAAAATTACCAAAATACCCCAG
* *
33117672 -TGTGTAAAATTACTAAAATATCCCCA-
1 ATTTGTAAAATTACCAAAATA-CCCCAG
* *
33117698 ATTTGTAAAATTATCAAAACACCCCAG
1 ATTTGTAAAATTACCAAAATACCCCAG
* * *
33117725 ACTTGTGAAATTACCAAAATACCTCTAG
1 ATTTGTAAAATTACCAAAATACC-CCAG
* *
33117753 -TTTGTGAAATTACTAAAATACCC
1 ATTTGTAAAATTACCAAAATACCC
33117776 TTGTAGAGTA
Statistics
Matches: 106, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
26 22 0.21
27 81 0.76
28 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
ATTTGTAAAATTACCAAAATACCCCAG
Found at i:33117722 original size:53 final size:53
Alignment explanation
Indices: 33117621--33117756 Score: 141
Period size: 53 Copynumber: 2.5 Consensus size: 53
33117611 ACCCTCAATT
* * ** *
33117621 TGTAAAATTACCAGAATACCCCTGATTTGCAAAATTATTGAAATACCCCAGTG
1 TGTAAAATTACCAAAATACCCCTAATTTGCAAAATTATCAAAACACCCCAGTG
* *
33117674 TGTAAAATTACTAAAATATCCCC-AATTTGTAAAATTATCAAAACACCCCAGACT-
1 TGTAAAATTACCAAAATA-CCCCTAATTTGCAAAATTATCAAAACACCCCAG--TG
* * *
33117728 TGTGAAATTACCAAAATACCTCTAGTTTG
1 TGTAAAATTACCAAAATACCCCTAATTTG
33117757 TGAAATTACT
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
53 42 0.62
54 25 0.37
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (53 bp):
TGTAAAATTACCAAAATACCCCTAATTTGCAAAATTATCAAAACACCCCAGTG
Found at i:33118287 original size:28 final size:28
Alignment explanation
Indices: 33118235--33118298 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
33118225 TACTGCATAA
* *
33118235 TGTTTCTGTATTGGGCGAAGGCCCACCT
1 TGTTTCTGTATTGGGCGAAAGCCCACAT
* *
33118263 TGTTTCTGTATTGGGCTAAATCCCACAT
1 TGTTTCTGTATTGGGCGAAAGCCCACAT
33118291 TG-TTCTGT
1 TGTTTCTGT
33118299 TCTGTTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCGAAAGCCCACAT
Found at i:33121427 original size:55 final size:55
Alignment explanation
Indices: 33121361--33121484 Score: 203
Period size: 55 Copynumber: 2.3 Consensus size: 55
33121351 TGTCGCAGAT
**
33121361 CGTGTGCCAAACCAAGTGTGCATTTTATGTTGGGTCACACAACCATGTCCTAGGC
1 CGTGTGCCAAACCAAGTGTGCATTCGATGTTGGGTCACACAACCATGTCCTAGGC
** *
33121416 CGTGTGCCAAACCGTGTGTGCATTCGATGTTGGGTCACACAACCATGTCGTAGGC
1 CGTGTGCCAAACCAAGTGTGCATTCGATGTTGGGTCACACAACCATGTCCTAGGC
33121471 CGTGTGCCAAACCA
1 CGTGTGCCAAACCA
33121485 TGTTACATAC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.25
Consensus pattern (55 bp):
CGTGTGCCAAACCAAGTGTGCATTCGATGTTGGGTCACACAACCATGTCCTAGGC
Found at i:33122999 original size:16 final size:17
Alignment explanation
Indices: 33122967--33122999 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33122957 ATCATTACAC
33122967 AAATATTTATGTAACAT
1 AAATATTTATGTAACAT
33122984 AAATATTTAT-TAACAT
1 AAATATTTATGTAACAT
33123000 TACATACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATATTTATGTAACAT
Found at i:33125148 original size:29 final size:29
Alignment explanation
Indices: 33125093--33125148 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
33125083 TAACAAAGTA
* *
33125093 AACGTGAGTAACGTGAAGGGGATGAGGAG
1 AACGTGAGTAACGTGAAGGAGAGGAGGAG
33125122 AACGTGAGTAACGTG-AGAGAGAGGAGG
1 AACGTGAGTAACGTGAAG-GAGAGGAGG
33125149 GGGACTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.36, C:0.07, G:0.45, T:0.12
Consensus pattern (29 bp):
AACGTGAGTAACGTGAAGGAGAGGAGGAG
Found at i:33130957 original size:85 final size:83
Alignment explanation
Indices: 33130843--33131023 Score: 272
Period size: 84 Copynumber: 2.2 Consensus size: 83
33130833 ATGTGCAAAA
* *
33130843 GCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCTATATTATTGAA
1 GCTGATTCCACCGTATCTTTGATTGTGAAA-GGGTTGCTATGTGCTGATTCCCCATATCATTGAA
* *
33130908 TATAAAGGTGGTTTCTAAGT
65 T-TAAAGGTAGTTGCTAAGT
* *
33130928 GTTGATTCCACCGTATCTTTGATTGTGAAAGGGTTGCTATGTGCTGATTCCCCGTATCATTGAAT
1 GCTGATTCCACCGTATCTTTGATTGTGAAAGGGTTGCTATGTGCTGATTCCCCATATCATTGAAT
*
33130993 TTAAGGTAGTTGCTAAGT
66 TAAAGGTAGTTGCTAAGT
*
33131011 GCTGAATCCACCG
1 GCTGATTCCACCG
33131024 AGTAACGGTT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 26 0.30
84 32 0.37
85 29 0.33
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (83 bp):
GCTGATTCCACCGTATCTTTGATTGTGAAAGGGTTGCTATGTGCTGATTCCCCATATCATTGAAT
TAAAGGTAGTTGCTAAGT
Found at i:33130976 original size:42 final size:42
Alignment explanation
Indices: 33130843--33131023 Score: 167
Period size: 42 Copynumber: 4.3 Consensus size: 42
33130833 ATGTGCAAAA
*
33130843 GCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGT
1 GCTGATTCCACCGTATCTTTGATTGT-AAAGGGGTTGCTAAGT
** * * *
33130886 GCTGATTCC-CTATAT-TATTGAATATAAAGGTGGTTTCTAAGT
1 GCTGATTCCACCGTATCT-TTGATTGTAAAGG-GGTTGCTAAGT
* *
33130928 GTTGATTCCACCGTATCTTTGATTGTGAAA-GGGTTGCTATGT
1 GCTGATTCCACCGTATCTTTGATTGT-AAAGGGGTTGCTAAGT
* *
33130970 GCTGATTCC-CCGTATCATTGAATT-T-AAGGTAGTTGCTAAGT
1 GCTGATTCCACCGTATCTTTG-ATTGTAAAGG-GGTTGCTAAGT
*
33131011 GCTGAATCCACCG
1 GCTGATTCCACCG
33131024 AGTAACGGTT
Statistics
Matches: 111, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 34 0.31
42 50 0.45
43 20 0.18
44 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (42 bp):
GCTGATTCCACCGTATCTTTGATTGTAAAGGGGTTGCTAAGT
Found at i:33142060 original size:66 final size:66
Alignment explanation
Indices: 33141952--33142083 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
33141942 CCAAAGGGGA
* * *
33141952 AATTGAAGCTTAAACACTTAACTAGCAAGCTCATTCTTACACATGTTGAGCGAAAATTTTATTTA
1 AATTGAAGCTTAAACACTGAACTAGCAAGCTCATTCTAACACATGTTGAGCGAAAATATTATTTA
33142017 T
66 T
*
33142018 AATTGAAGCTTAACCACTGAACTAGCAAGCTCATTCTAACACATGTTGAGCGAAAATATTATTTA
1 AATTGAAGCTTAAACACTGAACTAGCAAGCTCATTCTAACACATGTTGAGCGAAAATATTATTTA
33142083 T
66 T
33142084 GCCAGAGGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (66 bp):
AATTGAAGCTTAAACACTGAACTAGCAAGCTCATTCTAACACATGTTGAGCGAAAATATTATTTA
T
Found at i:33145642 original size:28 final size:28
Alignment explanation
Indices: 33145556--33145644 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
33145546 CTATACAGTA
33145556 ACAGT-ATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
* * *
33145583 ATAATAAAAGTGTGGGCCTTAGCCCAAT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
33145611 ACAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
33145639 ACAGTA
1 ACAGTA
33145645 TCAATTTAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
27 3 0.05
28 52 0.95
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
ACAGTAATAGTGTGGGCCTTAGCCCAAT
Found at i:33146013 original size:27 final size:27
Alignment explanation
Indices: 33145983--33146099 Score: 114
Period size: 27 Copynumber: 4.3 Consensus size: 27
33145973 TTTCATCTCC
*
33145983 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATATCAGTCATTTTACCCTA
** *
33146010 TAGGGGTAT-TTTGATCATTTTACCATA
1 TAGGGGTATATCAG-TCATTTTACCCTA
*
33146037 T-GGTGGTATTTCAGTCATTTTACCCTA
1 TAGG-GGTATATCAGTCATTTTACCCTA
* *
33146064 TGGGGGTA-ATTCAGTTATTTTACCCTA
1 TAGGGGTATA-TCAGTCATTTTACCCTA
*
33146091 TGGGGGTAT
1 TAGGGGTAT
33146100 TTATGTCATT
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.04
27 68 0.91
28 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (27 bp):
TAGGGGTATATCAGTCATTTTACCCTA
Found at i:33146110 original size:27 final size:26
Alignment explanation
Indices: 33145995--33146110 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
33145985 GGGGTATAAC
*
33145995 AGTCATTTTACCCTATAGGGGTATTT
1 AGTCATTTTACCCTATGGGGGTATTT
* * *
33146021 TGATCATTTTACCATATGGTGGTATTT
1 AG-TCATTTTACCCTATGGGGGTATTT
*
33146048 CAGTCATTTTACCCTATGGGGGTAATTC
1 -AGTCATTTTACCCTATGGGGGT-ATTT
*
33146076 AGTTATTTTACCCTATGGGGGTATTT
1 AGTCATTTTACCCTATGGGGGTATTT
33146102 ATGTCATTT
1 A-GTCATTT
33146111 ATTAGCCTCT
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
26 5 0.07
27 66 0.88
28 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (26 bp):
AGTCATTTTACCCTATGGGGGTATTT
Found at i:33155431 original size:14 final size:14
Alignment explanation
Indices: 33155412--33155455 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
33155402 TAATTTTTAT
33155412 ATTATATAATATAA
1 ATTATATAATATAA
33155426 ATTATATAATAT--
1 ATTATATAATATAA
33155438 ATTATATAA-ATAGA
1 ATTATATAATATA-A
33155452 ATTA
1 ATTA
33155456 GTATTGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 9 0.33
14 16 0.59
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
ATTATATAATATAA
Found at i:33155438 original size:21 final size:21
Alignment explanation
Indices: 33155409--33155448 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33155399 ATTTAATTTT
*
33155409 TATATTATATAATATAAATTA
1 TATAATATATAATATAAATTA
*
33155430 TATAATATATTATATAAAT
1 TATAATATATAATATAAAT
33155449 AGAATTAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAATATATAATATAAATTA
Found at i:33155441 original size:12 final size:12
Alignment explanation
Indices: 33155409--33155446 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
33155399 ATTTAATTTT
33155409 TATATTATATAA
1 TATATTATATAA
33155421 TATAAATTATATAA
1 TAT--ATTATATAA
33155435 TATATTATATAA
1 TATATTATATAA
33155447 ATAGAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATTATATAA
Found at i:33157151 original size:10 final size:11
Alignment explanation
Indices: 33157126--33157151 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33157116 TGTGTGTTTC
33157126 TTTTTTAAATA
1 TTTTTTAAATA
33157137 TTTTTTAAATA
1 TTTTTTAAATA
33157148 TTTT
1 TTTT
33157152 ATTATATTCT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:33159818 original size:2 final size:2
Alignment explanation
Indices: 33159811--33159838 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33159801 ATGAACCCTT
33159811 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
33159839 TATGACCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:33171072 original size:23 final size:22
Alignment explanation
Indices: 33171042--33171084 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33171032 CTTAGTTAAC
33171042 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33171065 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33171085 TTTTGAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33179830 original size:23 final size:22
Alignment explanation
Indices: 33179800--33179842 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33179790 CTTAGTTAAC
33179800 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33179823 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33179843 TTTTGAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33529845 original size:23 final size:22
Alignment explanation
Indices: 33529815--33529857 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33529805 CTTAGTTAAC
33529815 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33529838 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33529858 TTTTGAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33538595 original size:23 final size:22
Alignment explanation
Indices: 33538565--33538607 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33538555 CTTAGTTAAC
33538565 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33538588 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33538608 TTTTGAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33547412 original size:23 final size:22
Alignment explanation
Indices: 33547382--33547424 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33547372 CTTAGTTAAC
33547382 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33547405 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33547425 TTTTGAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33560080 original size:13 final size:12
Alignment explanation
Indices: 33560046--33560080 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
33560036 AATTATTATA
33560046 TTTTTCT-TTTT
1 TTTTTCTCTTTT
33560057 TTTTTCTCTTTT
1 TTTTTCTCTTTT
33560069 TTTTTCTACTTT
1 TTTTTCT-CTTT
33560081 AGGAATATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 11 0.50
13 4 0.18
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTCTCTTTT
Found at i:33561117 original size:9 final size:10
Alignment explanation
Indices: 33561103--33561145 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
33561093 ATTAATATCC
33561103 AAAT-AAGTA
1 AAATAAAGTA
*
33561112 AAATAAAATA
1 AAATAAAGTA
33561122 AAATAAAGTAA
1 AAATAAAGT-A
33561133 TAAATAAAGTA
1 -AAATAAAGTA
33561144 AA
1 AA
33561146 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 14 0.48
11 2 0.07
12 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:33561139 original size:17 final size:17
Alignment explanation
Indices: 33561116--33561170 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
33561106 TAAGTAAAAT
*
33561116 AAAATAAAATAAAGTAA
1 AAAATAAAATAAAGAAA
* *
33561133 TAAATAAAGTAAAGAAA
1 AAAATAAAATAAAGAAA
*
33561150 AAAAT-AAA-AAATAAA
1 AAAATAAAATAAAGAAA
33561165 AAAATA
1 AAAATA
33561171 TTGGGTTGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 11 0.35
16 2 0.06
17 18 0.58
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAAAGAAA
Found at i:33561165 original size:12 final size:12
Alignment explanation
Indices: 33561111--33561165 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
33561101 CCAAATAAGT
33561111 AAAATAAAAT--
1 AAAATAAAATAA
*
33561121 AAAATAAAGTAA
1 AAAATAAAATAA
* *
33561133 TAAATAAAGTAA
1 AAAATAAAATAA
33561145 AGAAA-AAAATAA
1 A-AAATAAAATAA
33561157 AAAATAAAA
1 AAAATAAAA
33561166 AAATATTGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
10 9 0.24
11 3 0.08
12 22 0.59
13 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:33569782 original size:23 final size:22
Alignment explanation
Indices: 33569752--33569794 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33569742 CTTAGTTAAC
33569752 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33569775 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33569795 TTTTGAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33572039 original size:3 final size:3
Alignment explanation
Indices: 33572031--33572079 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
33572021 CCTTTTACCA
*
33572031 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
33572079 T
1 T
33572080 TTTTGCATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:33576919 original size:23 final size:22
Alignment explanation
Indices: 33576889--33576931 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33576879 CTTAGTTAAC
33576889 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33576912 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33576932 TTTTGAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33587892 original size:23 final size:22
Alignment explanation
Indices: 33587862--33587904 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33587852 CTTAGTTAAC
33587862 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33587885 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33587905 TTTTGAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33598550 original size:23 final size:22
Alignment explanation
Indices: 33598520--33598562 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33598510 CTTAGTTAAC
33598520 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33598543 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33598563 TTTTGAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33620357 original size:18 final size:19
Alignment explanation
Indices: 33620334--33620382 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
33620324 GCAAATATAT
*
33620334 AATAAAAAG-AAATCAACA
1 AATAAAAAGTAAATAAACA
33620352 AAT-AAAAGTAAATAAACA
1 AATAAAAAGTAAATAAACA
*
33620370 AATAAAAATTAAA
1 AATAAAAAGTAAA
33620383 GCACTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 14 0.52
19 8 0.30
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (19 bp):
AATAAAAAGTAAATAAACA
Found at i:33622548 original size:46 final size:46
Alignment explanation
Indices: 33622492--33623384 Score: 1239
Period size: 46 Copynumber: 19.4 Consensus size: 46
33622482 CTGCTTAGGG
* * * **
33622492 AGACAGGATCTGCAATCTTCGATCTACTTCATTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
*
33622538 AGACAAGATCTGCTATATTCGATCTACTCCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * *
33622584 AGACAAGATCTTCTATCTTCGATATACTCCACTGCCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTG-CCAAATACAGGA
* * *
33622631 AGACAAGATCTTCTATCTTCGATCCACTCCACTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * *
33622677 AGACAAGATCTTCTATCTTCGATCTACTTCACTGCCAAATACAGAA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * * *
33622723 AGATAAGATCTGCTATCTTTGATCTCCTCTGCTGCCAAATATAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * *
33622769 AGACAAAATATGCTATCTTTGATCTCCTCCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * *
33622815 AGACAAGATCTGCTATCTACGATCTCCTCCACTACCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
*
33622861 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATATAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* *
33622907 AGACAAGATCTGCTATCTTCGATCTCCTTCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * *
33622953 AGACAAGATATTCTATCTTCGATCTACTTCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * *
33622999 AGACAAGATCTGCTATCTTCGATCCATTCTGCTGCCAAATACAAGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* *
33623045 AGTCAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * *
33623091 AGACAAGATCTGCTATATTCGATCTCCTCTGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * *
33623137 AGACAAGATCTGCTATCTTTGATCTACTCCGTTGCCAAATACAAGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
** *
33623183 AGACAAGATCTTTTTTCTTCGATCTACTCCGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
*
33623229 AGACAAGATCTGCTATCTTCGATCTACTCCGCTACCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * * *
33623275 AGACAAGATCTGCTTTCTTTGATCTACTCCTCTACCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
* * *
33623321 AGACAATATCTGCTTTCTTCGATCTACTCTGCTGCCAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
*
33623367 AGACTAGATCTGC-ATCTT
1 AGACAAGATCTGCTATCTT
33623385 TTAGTCCATT
Statistics
Matches: 757, Mismatches: 89, Indels: 3
0.89 0.10 0.00
Matches are distributed among these distances:
45 4 0.01
46 709 0.94
47 44 0.06
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (46 bp):
AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGA
Found at i:33624458 original size:108 final size:106
Alignment explanation
Indices: 33624272--33624587 Score: 398
Period size: 97 Copynumber: 3.0 Consensus size: 106
33624262 AAATGCTTGA
* * * * * *
33624272 AAAATATTATCAAAATGGACAAGATGAAATTTTATTAAGAATAAGGCTCAAAATGAATAAATTAA
1 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATTAA
*
33624337 TCAAAATAACAAATTTTGCTAAGATATGAACTGAATAAGATG
66 TCAAAATAGCAAATTTTGCTAAGATATGAA-TGAATAAGATG
*
33624379 AAAAGGGTTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATTA
1 AAAA-GATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATTA
*
33624444 ATCAAGATAGCAAATTTTGCTAAG--AT-AA-G-AT--GA--
65 ATCAAAATAGCAAATTTTGCTAAGATATGAATGAATAAGATG
* * *
33624477 AAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCATAGCTCGAAATGAATAAATTAA
1 AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATTAA
* * * *
33624542 TTAATATAGCAAATTTTTCTAAGATACGAAATGAATAAGATG
66 TCAAAATAGCAAATTTTGCTAAGATATG-AATGAATAAGATG
33624584 AAAA
1 AAAA
33624588 CAGGTGCCCC
Statistics
Matches: 181, Mismatches: 17, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
97 77 0.43
98 4 0.02
99 1 0.01
100 2 0.01
101 2 0.01
102 3 0.02
103 3 0.02
105 4 0.02
106 2 0.01
107 8 0.04
108 75 0.41
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.28
Consensus pattern (106 bp):
AAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAATTAA
TCAAAATAGCAAATTTTGCTAAGATATGAATGAATAAGATG
Found at i:33624876 original size:7 final size:7
Alignment explanation
Indices: 33624849--33624932 Score: 68
Period size: 7 Copynumber: 11.9 Consensus size: 7
33624839 TTGGCCTCTC
33624849 CTTTTTT
1 CTTTTTT
*
33624856 C-ATTTT
1 CTTTTTT
33624862 CTTCTTTT
1 CTT-TTTT
33624870 CTTTTTT
1 CTTTTTT
33624877 C-TTTTT
1 CTTTTTT
33624883 -TTTTTT
1 CTTTTTT
33624889 CATTTTTTT
1 C--TTTTTT
*
33624898 CATTTTT
1 CTTTTTT
*
33624905 CATTTTT
1 CTTTTTT
33624912 CATTTCTTT
1 C-TTT-TTT
33624921 C-TTTTT
1 CTTTTTT
33624927 CTTTTT
1 CTTTTT
33624933 CTTCTCCTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
6 19 0.30
7 25 0.39
8 9 0.14
9 11 0.17
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (7 bp):
CTTTTTT
Found at i:33624876 original size:15 final size:14
Alignment explanation
Indices: 33624849--33624932 Score: 68
Period size: 15 Copynumber: 5.9 Consensus size: 14
33624839 TTGGCCTCTC
*
33624849 CTTTTTTC-ATTTT
1 CTTTTTTCTTTTTT
33624862 CTTCTTTTCTTTTTT
1 CTT-TTTTCTTTTTT
33624877 C-TTTTT-TTTTTT
1 CTTTTTTCTTTTTT
*
33624889 CATTTTTTTCATTTTT
1 C--TTTTTTCTTTTTT
*
33624905 CATTTTTCATTTCTTT
1 CTTTTTTC-TTT-TTT
33624921 C-TTTTTCTTTTT
1 CTTTTTTCTTTTT
33624933 CTTCTCCTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
12 7 0.12
13 9 0.15
14 15 0.25
15 18 0.31
16 10 0.17
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTTTTTCTTTTTT
Found at i:33624933 original size:28 final size:29
Alignment explanation
Indices: 33624851--33624933 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 29
33624841 GGCCTCTCCT
* *
33624851 TTTTTCATTT-TCTTC-TTTTCTTTTTTCT
1 TTTTTCATTTCT-TTCTTTTTCATTTTTCA
** *
33624879 TTTTTTTTTTCATT-TTTTTCATTTTTCA
1 TTTTTCATTTCTTTCTTTTTCATTTTTCA
33624907 TTTTTCATTTCTTTCTTTTTC-TTTTTC
1 TTTTTCATTTCTTTCTTTTTCATTTTTC
33624934 TTCTCCTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 38 0.86
29 6 0.14
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTTTCATTTCTTTCTTTTTCATTTTTCA
Found at i:33627292 original size:12 final size:12
Alignment explanation
Indices: 33627261--33627294 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
33627251 CTTTTCTAGT
33627261 TGTTCTTGCATC
1 TGTTCTTGCATC
**
33627273 TGGGCTTGCATC
1 TGTTCTTGCATC
33627285 TGTTCTTGCA
1 TGTTCTTGCA
33627295 ATTGCTCTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.44
Consensus pattern (12 bp):
TGTTCTTGCATC
Found at i:33632540 original size:42 final size:42
Alignment explanation
Indices: 33632481--33632813 Score: 540
Period size: 42 Copynumber: 7.9 Consensus size: 42
33632471 AGCGTTTACA
*
33632481 AAAAAAACGCCGCTAAAGTCCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* * *
33632523 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCTCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
33632565 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* *
33632607 AAAAAACCGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
33632649 AAAAAAAACGCCGCTAAAGACCATGTTCCTTAGCGGCGCTTAG
1 -AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
33632692 AAAAGAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAA-AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
* * * * *
33632735 AGAAAAATGCCGATAAAGAACATGGTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
33632777 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
33632814 TTTTTATACA
Statistics
Matches: 266, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
42 187 0.70
43 79 0.30
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
Found at i:33633184 original size:21 final size:21
Alignment explanation
Indices: 33633135--33633184 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
33633125 TTTTGGCCTG
* *
33633135 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
33633156 TTCCGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
33633177 CTCTGCTT
1 CTCTGCTT
33633185 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.44, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:33638711 original size:9 final size:9
Alignment explanation
Indices: 33638699--33638929 Score: 146
Period size: 9 Copynumber: 26.4 Consensus size: 9
33638689 ATTAAGTCAA
33638699 TTATGTAAG
1 TTATGTAAG
*
33638708 TTATGTACG
1 TTATGTAAG
*
33638717 -TATATAAG
1 TTATGTAAG
33638725 TTATGTAAG
1 TTATGTAAG
33638734 TTATGT-A-
1 TTATGTAAG
*
33638741 TTAAGTAAG
1 TTATGTAAG
* *
33638750 CTATTTAAG
1 TTATGTAAG
33638759 -T-TGTATAG
1 TTATGTA-AG
33638767 -TATGTAAG
1 TTATGTAAG
33638775 TTATGTAAG
1 TTATGTAAG
**
33638784 TTATCAAAG
1 TTATGTAAG
* *
33638793 TAATGTATG
1 TTATGTAAG
33638802 TTATGTAAG
1 TTATGTAAG
33638811 -T-TGTAAGG
1 TTATGTAA-G
33638819 TATTATGT-A-
1 --TTATGTAAG
**
33638828 TTATGTCGG
1 TTATGTAAG
33638837 TTATGTAAG
1 TTATGTAAG
33638846 TTATGTAAG
1 TTATGTAAG
*
33638855 TTTTGT-AG
1 TTATGTAAG
*
33638863 -TATTTAAG
1 TTATGTAAG
*
33638871 TTGTGTAAG
1 TTATGTAAG
*
33638880 TTATGTATG
1 TTATGTAAG
*
33638889 CTATGTAAG
1 TTATGTAAG
* *
33638898 TAATGTGTA-
1 TTATGT-AAG
33638907 TTATGTAAG
1 TTATGTAAG
*
33638916 CTTATATAAG
1 -TTATGTAAG
33638926 TTAT
1 TTAT
33638930 TATGTAACTA
Statistics
Matches: 169, Mismatches: 35, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
7 22 0.13
8 21 0.12
9 112 0.66
10 9 0.05
11 2 0.01
12 3 0.02
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:33638758 original size:25 final size:25
Alignment explanation
Indices: 33638683--33638886 Score: 122
Period size: 25 Copynumber: 8.3 Consensus size: 25
33638673 TGATATATAT
*
33638683 TTATGTATTAAGTCAA-TTATGTAAG
1 TTATGTAGTAAGT-AAGTTATGTAAG
33638708 TTATGTACGTATA-TAAGTTATGTAAG
1 TTATGTA-GTA-AGTAAGTTATGTAAG
* * *
33638734 TTATGTATTAAGTAAGCTATTTAAG
1 TTATGTAGTAAGTAAGTTATGTAAG
* * *
33638759 TTGTATAGTATGTAAGTTATGTAAG
1 TTATGTAGTAAGTAAGTTATGTAAG
** *
33638784 TTATCAAAGTAATGTATGTTATGTAAG
1 TTAT-GTAGTAA-GTAAGTTATGTAAG
*
33638811 -T-TGTA--AGGT-A-TTATGT-A-
1 TTATGTAGTAAGTAAGTTATGTAAG
* *
33638828 TTATGTCGGTTATGTAAGTTATGTAAG
1 TTATGT-AG-TAAGTAAGTTATGTAAG
* ** *
33638855 TTTTGTAGTATTTAAGTTGTGTAAG
1 TTATGTAGTAAGTAAGTTATGTAAG
33638880 TTATGTA
1 TTATGTA
33638887 TGCTATGTAA
Statistics
Matches: 138, Mismatches: 25, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
18 2 0.01
19 9 0.07
21 2 0.01
22 1 0.01
23 3 0.02
24 3 0.02
25 72 0.52
26 27 0.20
27 19 0.14
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (25 bp):
TTATGTAGTAAGTAAGTTATGTAAG
Found at i:33639288 original size:13 final size:12
Alignment explanation
Indices: 33639270--33639318 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
33639260 CACATTTTAG
33639270 TAAGTAATGTATT
1 TAAGTAAT-TATT
33639283 TAAGTAAATTATT
1 TAAGT-AATTATT
33639296 TAAGTAATATATT
1 TAAGTAAT-TATT
*
33639309 CAAGTTAATT
1 TAAG-TAATT
33639319 TTAGTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 3 0.09
13 22 0.69
14 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (12 bp):
TAAGTAATTATT
Found at i:33639432 original size:74 final size:72
Alignment explanation
Indices: 33639346--33639641 Score: 531
Period size: 74 Copynumber: 4.1 Consensus size: 72
33639336 GTAAGTAATG
33639346 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTT-AAA-AT
33639411 ATATATTAA
64 ATATATTAA
33639420 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
33639485 ATATTAA
66 ATATTAA
* *
33639492 TAAGTCATGTAAAATATACTTAAAAACAT-TATTTAAGTAATGTAAGTTATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTT-AAA-AT
33639556 ATATATTAA
64 ATATATTAA
33639565 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
33639630 ATATTAA
66 ATATTAA
33639637 TAAGT
1 TAAGT
33639642 TAAATTAAAT
Statistics
Matches: 215, Mismatches: 4, Indels: 8
0.95 0.02 0.04
Matches are distributed among these distances:
71 27 0.13
72 58 0.27
73 45 0.21
74 85 0.40
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.39
Consensus pattern (72 bp):
TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
ATATTAA
Found at i:33639545 original size:145 final size:146
Alignment explanation
Indices: 33639346--33639641 Score: 567
Period size: 145 Copynumber: 2.0 Consensus size: 146
33639336 GTAAGTAATG
*
33639346 TAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAACATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
33639411 ATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATT
66 ATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATT
33639476 TTAAAATATATATTAA
131 TTAAAATATATATTAA
*
33639492 TAAGTCATGTAAAATATACTTAAAAACAT-TATTTAAGTAATGTAAGTTATCAATTTTAAAATAT
1 TAAGTCATGTAAAATATACTTAAAAACATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
33639556 ATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATT
66 ATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATT
33639621 TTAAAATATATATTAA
131 TTAAAATATATATTAA
33639637 TAAGT
1 TAAGT
33639642 TAAATTAAAT
Statistics
Matches: 148, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
145 120 0.81
146 28 0.19
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.39
Consensus pattern (146 bp):
TAAGTCATGTAAAATATACTTAAAAACATATATTTAAGTAATGTAAGATATCAATTTTAAAATAT
ATATATTAATAAGTCATGTAAAATATACTTAAAAATATATATTTAAGTAATGTAAGATATCAATT
TTAAAATATATATTAA
Found at i:33639838 original size:67 final size:67
Alignment explanation
Indices: 33639766--33639904 Score: 235
Period size: 67 Copynumber: 2.1 Consensus size: 67
33639756 TTTGTTAAGA
* *
33639766 ATTCATTATATAATGAATTTATTAAACATTCAATCAATTA-ACTAACCAAAATTGATAATTCATT
1 ATTCATTATATAATGAATTTATAAAACACTCAATCAATTAGA-TAACCAAAATTGATAATTCATT
33639830 GAC
65 GAC
*
33639833 ATTCATTATATAATGAATTTATAAAACACTCAATCAATTAGATAACCAAATTTGATAATTCATTG
1 ATTCATTATATAATGAATTTATAAAACACTCAATCAATTAGATAACCAAAATTGATAATTCATTG
33639898 AC
66 AC
33639900 ATTCA
1 ATTCA
33639905 ATCAATTAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 67 0.99
68 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.37
Consensus pattern (67 bp):
ATTCATTATATAATGAATTTATAAAACACTCAATCAATTAGATAACCAAAATTGATAATTCATTG
AC
Found at i:33639990 original size:16 final size:16
Alignment explanation
Indices: 33639969--33640001 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33639959 TTAACCGGAT
*
33639969 AAATTGTAAATCGATA
1 AAATTGCAAATCGATA
33639985 AAATTGCAAATCGATA
1 AAATTGCAAATCGATA
33640001 A
1 A
33640002 TTATAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (16 bp):
AAATTGCAAATCGATA
Found at i:33642342 original size:21 final size:21
Alignment explanation
Indices: 33642318--33642387 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
33642308 ACCTCAAAAA
* *
33642318 CCAAACCCCAAGCCCCAACCC
1 CCAAACCCCAAACCCCAAACC
33642339 CCAAACCCCAAACCCCAAACC
1 CCAAACCCCAAACCCCAAACC
* *
33642360 CTAAACCCCAAACCCCAAAACT
1 CCAAACCCCAAACCCC-AAACC
33642382 CCAAAC
1 CCAAAC
33642388 AGTAAAAGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 34 0.79
22 9 0.21
ACGTcount: A:0.41, C:0.54, G:0.01, T:0.03
Consensus pattern (21 bp):
CCAAACCCCAAACCCCAAACC
Found at i:33642385 original size:8 final size:8
Alignment explanation
Indices: 33642334--33642386 Score: 51
Period size: 7 Copynumber: 7.1 Consensus size: 8
33642324 CCCAAGCCCC
*
33642334 AACCCCCA
1 AACCCCAA
33642342 AACCCC-A
1 AACCCCAA
33642349 AACCCC-A
1 AACCCCAA
*
33642356 AA-CCCTA
1 AACCCCAA
33642363 AACCCC-A
1 AACCCCAA
33642370 AACCCCAA
1 AACCCCAA
*
33642378 AACTCCAA
1 AACCCCAA
33642386 A
1 A
33642387 CAGTAAAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
6 3 0.07
7 20 0.49
8 18 0.44
ACGTcount: A:0.45, C:0.51, G:0.00, T:0.04
Consensus pattern (8 bp):
AACCCCAA
Found at i:33642387 original size:7 final size:7
Alignment explanation
Indices: 33642318--33642378 Score: 95
Period size: 7 Copynumber: 8.7 Consensus size: 7
33642308 ACCTCAAAAA
33642318 CCAAACC
1 CCAAACC
*
33642325 CCAAGCC
1 CCAAACC
*
33642332 CCAACCC
1 CCAAACC
33642339 CCAAACC
1 CCAAACC
33642346 CCAAACC
1 CCAAACC
33642353 CCAAACC
1 CCAAACC
*
33642360 CTAAACC
1 CCAAACC
33642367 CCAAACC
1 CCAAACC
33642374 CCAAA
1 CCAAA
33642379 ACTCCAAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.41, C:0.56, G:0.02, T:0.02
Consensus pattern (7 bp):
CCAAACC
Found at i:33643193 original size:20 final size:20
Alignment explanation
Indices: 33643158--33643195 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33643148 CTATCTTTTC
33643158 TAATTATATATGAAATTATT
1 TAATTATATATGAAATTATT
33643178 TAATATATATAT-AAATTA
1 TAAT-TATATATGAAATTA
33643196 CAAATCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTATATATGAAATTATT
Done.