Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 37 of 279
Found at i:12620027 original size:39 final size:40
Alignment explanation
Indices: 12619926--12620089 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
12619916 TTGAATGATG
* *
12619926 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
12619966 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
12620005 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
12620045 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
12620085 TCCGG
1 TCCGG
12620090 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:12620089 original size:79 final size:80
Alignment explanation
Indices: 12619926--12620076 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
12619916 TTGAATGATG
*
12619926 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
12619991 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
12620006 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
12620068 TTGAACGAG
64 TTGAACGAG
12620077 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:12622953 original size:29 final size:29
Alignment explanation
Indices: 12622911--12622971 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
12622901 TTTTTCCTGA
12622911 AGGATTACCGGGTTTACCACCTGTTCGGG
1 AGGATTACCGGGTTTACCACCTGTTCGGG
12622940 AGGATTACCGGGTTTACCACCTGTTCGGG
1 AGGATTACCGGGTTTACCACCTGTTCGGG
12622969 AGG
1 AGG
12622972 TAGAGTTTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.18, C:0.23, G:0.33, T:0.26
Consensus pattern (29 bp):
AGGATTACCGGGTTTACCACCTGTTCGGG
Found at i:12627526 original size:40 final size:39
Alignment explanation
Indices: 12627482--12627586 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
12627472 AGTGACCATA
*
12627482 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
12627522 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
12627560 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
12627587 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:12627543 original size:39 final size:40
Alignment explanation
Indices: 12627442--12627605 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
12627432 TTGAATGATG
* *
12627442 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
12627482 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
12627521 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
12627561 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
12627601 TCCGG
1 TCCGG
12627606 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:12627605 original size:79 final size:80
Alignment explanation
Indices: 12627442--12627592 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
12627432 TTGAATGATG
*
12627442 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
12627507 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
12627522 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
12627584 TTGAACGAG
64 TTGAACGAG
12627593 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:12631331 original size:24 final size:24
Alignment explanation
Indices: 12631299--12631367 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
12631289 TATTGATATA
12631299 TCAGCTCGTAAGAGCTTACTGTTT
1 TCAGCTCGTAAGAGCTTACTGTTT
* * *
12631323 TCAGCTCGTCAGAGTTTACCGTTT
1 TCAGCTCGTAAGAGCTTACTGTTT
*
12631347 T-AGCTC-AATAGAGCTTACTGT
1 TCAGCTCGTA-AGAGCTTACTGT
12631368 CCATCAGTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 15 0.41
24 22 0.59
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (24 bp):
TCAGCTCGTAAGAGCTTACTGTTT
Found at i:12631569 original size:20 final size:20
Alignment explanation
Indices: 12631544--12631638 Score: 118
Period size: 20 Copynumber: 4.8 Consensus size: 20
12631534 AAAAGCTATG
* *
12631544 TGTTTATAAGGATGAATTAC
1 TGTTTATACGGATGAAGTAC
* *
12631564 TGTTTATATGGATAAAGTAC
1 TGTTTATACGGATGAAGTAC
* * *
12631584 TATTTATACGGATGAATTAT
1 TGTTTATACGGATGAAGTAC
*
12631604 TGTTTATACGGATGAAGTAT
1 TGTTTATACGGATGAAGTAC
12631624 TGTTTATACGGATGA
1 TGTTTATACGGATGA
12631639 GTTGCTATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (20 bp):
TGTTTATACGGATGAAGTAC
Found at i:12631601 original size:40 final size:40
Alignment explanation
Indices: 12631546--12631638 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
12631536 AAGCTATGTG
* *
12631546 TTTATAAGGATGAATTACTGTTTATATGGATAAAGTACTA
1 TTTATACGGATGAATTACTGTTTATACGGATAAAGTACTA
* * * *
12631586 TTTATACGGATGAATTATTGTTTATACGGATGAAGTATTG
1 TTTATACGGATGAATTACTGTTTATACGGATAAAGTACTA
12631626 TTTATACGGATGA
1 TTTATACGGATGA
12631639 GTTGCTATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.41
Consensus pattern (40 bp):
TTTATACGGATGAATTACTGTTTATACGGATAAAGTACTA
Found at i:12631647 original size:60 final size:58
Alignment explanation
Indices: 12631544--12631669 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 58
12631534 AAAAGCTATG
* * *
12631544 TGTTTATAAGGATGAATTACTGTTTATATGGATAAAGTACTATTTATACGGATGAATTAT
1 TGTTTATAAGGATGAAGTACTGTTTATACGGATAAAGTACTA-TTAT-CGAATGAATTAT
* * * *
12631604 TGTTTATACGGATGAAGTATTGTTTATACGGAT-GAGTTGCTATTATCGAATGAATTAT
1 TGTTTATAAGGATGAAGTACTGTTTATACGGATAAAG-TACTATTATCGAATGAATTAT
*
12631662 TATTTATA
1 TGTTTATA
12631670 TGATTGAGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
58 18 0.32
59 6 0.11
60 33 0.58
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (58 bp):
TGTTTATAAGGATGAAGTACTGTTTATACGGATAAAGTACTATTATCGAATGAATTAT
Found at i:12633324 original size:42 final size:40
Alignment explanation
Indices: 12633251--12633411 Score: 153
Period size: 42 Copynumber: 3.8 Consensus size: 40
12633241 TTAGGGTTAC
* * *
12633251 TGAGATTACGTGTAAGGCCCATATCTAGGATATGTCATC-AGTA
1 TGAGATT-CATGTAA-GACCATATCTGGGATATG-CATCGA-TA
12633294 TGAGACTTCATGTAAGACCATATCTGGGATATCGCATCGATA
1 TGAGA-TTCATGTAAGACCATATCTGGGATAT-GCATCGATA
* * *
12633336 TGAGATTTCCTGTAAGACCATAGCTGGGCTATTGACATCGATA
1 TGAGA-TTCATGTAAGACCATATCTGGGATA-TG-CATCGATA
* *
12633379 TGAGATGACATGTAAGACCATATATGGGATATG
1 TGAGAT-TCATGTAAGACCATATCTGGGATATG
12633412 GAATTGTTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
42 52 0.52
43 46 0.46
44 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (40 bp):
TGAGATTCATGTAAGACCATATCTGGGATATGCATCGATA
Found at i:12633393 original size:43 final size:42
Alignment explanation
Indices: 12633302--12633410 Score: 137
Period size: 43 Copynumber: 2.6 Consensus size: 42
12633292 TATGAGACTT
* **
12633302 CATGTAAGACCATATCTGGGATATCGCATCGATATGAGATTT
1 CATGTAAGACCATAGCTGGGATATCGCATCGATATGAGATGA
* * *
12633344 CCTGTAAGACCATAGCTGGGCTATTGACATCGATATGAGATGA
1 CATGTAAGACCATAGCTGGGATATCG-CATCGATATGAGATGA
**
12633387 CATGTAAGACCATATATGGGATAT
1 CATGTAAGACCATAGCTGGGATAT
12633411 GGAATTGTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 22 0.39
43 34 0.61
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATAGCTGGGATATCGCATCGATATGAGATGA
Found at i:12639439 original size:12 final size:12
Alignment explanation
Indices: 12639422--12639452 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12639412 TGATGAAAAT
12639422 GATTAATGAATA
1 GATTAATGAATA
12639434 GATTAATGAATA
1 GATTAATGAATA
*
12639446 AATTAAT
1 GATTAAT
12639453 AAAATCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (12 bp):
GATTAATGAATA
Found at i:12641394 original size:36 final size:36
Alignment explanation
Indices: 12641347--12641418 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
12641337 TGTTTGTAGG
12641347 GAAATGAGCATTGCTTCAAGGGGACAAATCAAGCAC
1 GAAATGAGCATTGCTTCAAGGGGACAAATCAAGCAC
12641383 GAAATGAGCATTGCTTCAAGGGGACAAATCAAGCAC
1 GAAATGAGCATTGCTTCAAGGGGACAAATCAAGCAC
12641419 AAACTCATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (36 bp):
GAAATGAGCATTGCTTCAAGGGGACAAATCAAGCAC
Found at i:12650610 original size:24 final size:24
Alignment explanation
Indices: 12650577--12650643 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
12650567 ATGAATCGGT
*
12650577 AAAAGCCGAAATGCCGAAATACCA
1 AAAAGTCGAAATGCCGAAATACCA
12650601 AAAAGTCGAAATGCCGAAATACCA
1 AAAAGTCGAAATGCCGAAATACCA
* *
12650625 AAAAGTTGAAATGCTGAAA
1 AAAAGTCGAAATGCCGAAA
12650644 AGCTTAAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (24 bp):
AAAAGTCGAAATGCCGAAATACCA
Found at i:12650947 original size:58 final size:57
Alignment explanation
Indices: 12650875--12650985 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
12650865 TGAATGTGAC
* * *
12650875 TGGGCCTAACGGGCCATATAAATGTGATTTGTGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * *
12650933 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
12650986 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:12650972 original size:28 final size:29
Alignment explanation
Indices: 12650863--12650976 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
12650853 TGAGCATGAT
* *
12650863 TATGAATGTGA-CTGGGCCTAACGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
12650891 TATAAATGTGATTTGTGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
12650920 TAT-ACAGGTGATTTGGGCCTAATGGGCCA
1 TATGA-ATGTGATTTGGGCCTAATGGGCCA
* *
12650949 TATGAATATGA-TTGGGCTTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
12650977 GATACAGGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:12654663 original size:36 final size:36
Alignment explanation
Indices: 12654616--12654684 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
12654606 ATGCCTTCTT
12654616 GAATGTAAATATAAATAAAACTTAGACCGAAGTTTA
1 GAATGTAAATATAAATAAAACTTAGACCGAAGTTTA
12654652 GAATGTAAATATAAATAAAACTTAGACCGAAGT
1 GAATGTAAATATAAATAAAACTTAGACCGAAGT
12654685 ATTATAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (36 bp):
GAATGTAAATATAAATAAAACTTAGACCGAAGTTTA
Found at i:12668580 original size:137 final size:137
Alignment explanation
Indices: 12668334--12668606 Score: 528
Period size: 137 Copynumber: 2.0 Consensus size: 137
12668324 TAAAGTATAA
12668334 CGTTCATATGAACAAATGAATAATTGCATATATGCATATTCTCAAAATCATACTTACTTCACACT
1 CGTTCATATGAACAAATGAATAATTGCATATATGCATATTCTCAAAATCATACTTACTTCACACT
*
12668399 TCAACCAGTATACTCATATACAGGGGATCAAACCGAACTAAAGGCCGGAAGTTGTTAATCAATAG
66 TCAACCAGTATACTCATACACAGGGGATCAAACCGAACTAAAGGCCGGAAGTTGTTAATCAATAG
12668464 AGCGAAG
131 AGCGAAG
*
12668471 CGTTCATATGACCAAATGAATAATTGCATATATGCATATTCTCAAAATCATACTTACTTCACACT
1 CGTTCATATGAACAAATGAATAATTGCATATATGCATATTCTCAAAATCATACTTACTTCACACT
12668536 TCAACCAGTATACTCATACACAGGGGATCAAACCGAACTAAAGGCCGGAAGTTGTTAATCAATAG
66 TCAACCAGTATACTCATACACAGGGGATCAAACCGAACTAAAGGCCGGAAGTTGTTAATCAATAG
12668601 AGCGAA
131 AGCGAA
12668607 TACTATCTAA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (137 bp):
CGTTCATATGAACAAATGAATAATTGCATATATGCATATTCTCAAAATCATACTTACTTCACACT
TCAACCAGTATACTCATACACAGGGGATCAAACCGAACTAAAGGCCGGAAGTTGTTAATCAATAG
AGCGAAG
Found at i:12668790 original size:40 final size:40
Alignment explanation
Indices: 12668728--12668901 Score: 271
Period size: 40 Copynumber: 4.4 Consensus size: 40
12668718 AACCTAAGTA
* * *
12668728 CCTTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
12668767 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
12668807 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
12668847 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
12668887 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
12668902 ACGAATATCA
Statistics
Matches: 124, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.10
40 109 0.88
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:12674321 original size:109 final size:109
Alignment explanation
Indices: 12674130--12674347 Score: 427
Period size: 109 Copynumber: 2.0 Consensus size: 109
12674120 TTAACCAAAA
12674130 TATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAACTCAAAACATAACAGTAACAAG
1 TATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAACTCAAAACATAACAGTAACAAG
12674195 CAGTGGATAGTGATAGTGTGACTAGTTGCTGACAATCCCCGAGC
66 CAGTGGATAGTGATAGTGTGACTAGTTGCTGACAATCCCCGAGC
12674239 TATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAACTCAAAACATAACAGTAACAAG
1 TATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAACTCAAAACATAACAGTAACAAG
*
12674304 CAGTGGATAGTGATAGTGTGACTAGTTGCTGACGATCCCCGAGC
66 CAGTGGATAGTGATAGTGTGACTAGTTGCTGACAATCCCCGAGC
12674348 CTGTAGCTTC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (109 bp):
TATTCTTCGGCCACTGGTCTATTCTTTACATGCCATAAAATAACTCAAAACATAACAGTAACAAG
CAGTGGATAGTGATAGTGTGACTAGTTGCTGACAATCCCCGAGC
Found at i:12674902 original size:37 final size:37
Alignment explanation
Indices: 12674836--12674982 Score: 170
Period size: 37 Copynumber: 4.0 Consensus size: 37
12674826 AGCTCAGATG
* * *
12674836 AAATCTCCACACGA-AGTTATCTGGCCTTACCCGGAAA
1 AAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGAAA
*
12674873 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGAAA
* * *
12674910 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGAAA
* * * * *
12674947 TAATCTCCACACGTAATCTTCAGGTCTTACCCGGAA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGAA
12674983 TATATTTCCA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 1 0.01
37 98 0.99
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGAAA
Found at i:12674958 original size:74 final size:74
Alignment explanation
Indices: 12674837--12674981 Score: 200
Period size: 74 Copynumber: 2.0 Consensus size: 74
12674827 GCTCAGATGA
* * * *
12674837 AATCTCCACACGAAGTTATCTGGCCTTACCCGGAAAAAATCTCCACACATAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGCCTTACCCGGAAAAAATCTCCACACATAATCATCAGGTCTTA
12674902 CCCGGACAT
66 CCCGGACAT
* * * * * *
12674911 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAATCTTCAGGTCTTA
1 AATCTCCACACGAAGTCATCGGGCCTTACCCGGAAAAAATCTCCACACATAATCATCAGGTCTTA
12674976 CCCGGA
66 CCCGGA
12674982 ATATATTTCC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.24
Consensus pattern (74 bp):
AATCTCCACACGAAGTCATCGGGCCTTACCCGGAAAAAATCTCCACACATAATCATCAGGTCTTA
CCCGGACAT
Found at i:12675182 original size:48 final size:48
Alignment explanation
Indices: 12675123--12675555 Score: 803
Period size: 48 Copynumber: 9.0 Consensus size: 48
12675113 TATACACACG
* * *
12675123 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
12675171 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
12675219 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
12675267 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
12675315 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
*
12675363 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
*
12675411 TCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACATA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
*
12675459 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
*
12675507 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
12675555 T
1 T
12675556 ATTTATCTTG
Statistics
Matches: 377, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 377 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
Found at i:12678413 original size:82 final size:81
Alignment explanation
Indices: 12678210--12679683 Score: 2297
Period size: 82 Copynumber: 18.0 Consensus size: 81
12678200 CCGAATACAC
* * * * * *
12678210 ATCACCAGCATGATTGCTCTTCGGGGCCTAGCCCGGATATAACACCAGCATGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
*
12678275 ACTTAGCCCG-GATAT
66 ACTTAGCCCGCTATAT
*
12678290 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
12678355 ACTTAGCCCGACTATAT
66 ACTTAGCCCG-CTATAT
12678372 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
12678437 ACTTAGCCCGACTATAT
66 ACTTAGCCCG-CTATAT
*
12678454 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCATGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
*
12678519 GCTTAGCCCGACTATAT
66 ACTTAGCCCG-CTATAT
* * * *
12678536 ATTACTAGCACGAATGCTCTTCGGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAACACCAGCACGAATGCTCTTCGG
12678601 GACTTAGCCCGCTATAT
65 GACTTAGCCCGCTATAT
* * *
12678618 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAACACCAGCACGAATGCTCTTCGG
12678683 GACTTAGCCCGCTATAT
65 GACTTAGCCCGCTATAT
* * *
12678700 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAACACCAGCACGAATGCTCTTCGG
12678765 GACTTAGCCCGCTATAT
65 GACTTAGCCCGCTATAT
* * *
12678782 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAACACCAGCACGAATGCTCTTCGG
12678847 GACTTAGCCCGCTATAT
65 GACTTAGCCCGCTATAT
* * *
12678864 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAACACCAGCACGAATGCTCTTCGG
12678929 GACTTAGCCCGCTATAT
65 GACTTAGCCCGCTATAT
* * *
12678946 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAACACCAGCACGAATGCTCTTCGG
12679011 GACTTAGCCCGCTATAT
65 GACTTAGCCCGCTATAT
* * *
12679028 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAACACCAGCACGAATGCTCTTCGG
12679093 GACTTAGCCCGCTATAT
65 GACTTAGCCCGCTATAT
* * *
12679110 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGCTATATATCACTAGCACGAATGCTCTTCGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAACACCAGCACGAATGCTCTTCGG
*
12679175 GACTTAGCCCG-GATAT
65 GACTTAGCCCGCTATAT
* * * * * *
12679191 AACACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATATATCACTAGCACGAATGCTCTTCA
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATATAACACCAGCACGAATGCTCTTCG
* *
12679256 AGACTTAGCCCG-AATAT
64 GGACTTAGCCCGCTATAT
* * *
12679273 AACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
*
12679338 GCTTAGCCCGGCTATAT
66 ACTTAGCCC-GCTATAT
* *
12679355 ATCACTAGCACGAATACTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGAG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
12679420 ACTTAGCCCGGCTATAT
66 ACTTAGCCC-GCTATAT
*
12679437 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGAG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
12679502 ACTTAGCCCGGCTATAT
66 ACTTAGCCC-GCTATAT
*
12679519 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGAG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
12679584 ACTTAGCCCGGCTATAT
66 ACTTAGCCC-GCTATAT
12679601 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
12679666 ACTTAGCCCAGCTATAT
66 ACTTAGCCC-GCTATAT
12679683 A
1 A
12679684 ACTCTCAATT
Statistics
Matches: 1344, Mismatches: 43, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
80 101 0.08
81 37 0.03
82 1171 0.87
83 35 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (81 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
ACTTAGCCCGCTATAT
Found at i:12680059 original size:8 final size:8
Alignment explanation
Indices: 12680048--12680074 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
12680038 ATCATCACAC
12680048 TATCACTT
1 TATCACTT
12680056 TATCACTT
1 TATCACTT
12680064 TATCACTT
1 TATCACTT
12680072 TAT
1 TAT
12680075 GGCATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (8 bp):
TATCACTT
Found at i:12686236 original size:85 final size:85
Alignment explanation
Indices: 12686090--12686254 Score: 269
Period size: 85 Copynumber: 1.9 Consensus size: 85
12686080 TCTCTTAACA
* *
12686090 TACTGTCCGTATGATTGTTTCGTTACTTTTCAATGAAAATAGATTCATCAAGGTTCATTTACATA
1 TACTGTCCATATGATTGTTTCGTTACTTTTCAATGAAAATAGATTCATCAAGGATCATTTACATA
12686155 ATTTATTCACTATTTTACTG
66 ATTTATTCACTATTTTACTG
* * *
12686175 TACTGTTCATATGATTGTTTCGTTAC-TTTCATATGAAAGTAGATTCATCAAGGATCGTTTACAT
1 TACTGTCCATATGATTGTTTCGTTACTTTTCA-ATGAAAATAGATTCATCAAGGATCATTTACAT
12686239 AATTTATTCACTATTT
65 AATTTATTCACTATTT
12686255 AATTCCATTC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
84 5 0.07
85 69 0.93
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (85 bp):
TACTGTCCATATGATTGTTTCGTTACTTTTCAATGAAAATAGATTCATCAAGGATCATTTACATA
ATTTATTCACTATTTTACTG
Found at i:12687882 original size:864 final size:865
Alignment explanation
Indices: 12686201--12687927 Score: 3384
Period size: 864 Copynumber: 2.0 Consensus size: 865
12686191 GTTTCGTTAC
* *
12686201 TTTCATATGAAAGTAGATTCATCAAGGATCGTTTACATAATTTATTCACTATTTAATTCCATTCC
1 TTTCATATGAAAATAGATTCATCAAGGATCATTTACATAATTTATTCACTATTTAATTCCATTCC
12686266 TACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGA
66 TACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGA
12686331 CTTTACCTATTTCATGGTTTCCATGATTCAACTAGCCCTTTTTGCATAGATAGCACAATTTATGA
131 CTTTACCTATTTCATGGTTTCCATGATTCAACTAGCCCTTTTTGCATAGATAGCACAATTTATGA
12686396 AAGTGATTAACCATTCCCATGGCCAATCCTTGTCAAGCATATCCACACCAAATGATTATAACATT
196 AAGTGATTAACCATTCCCATGGCCAATCCTTGTCAAGCATATCCACACCAAATGATTATAACATT
12686461 ATACTCAAACACATATAAGCCATTTTCGCATGGCTATCCAAAATTTTACAAGTCCAAAGGGTCCA
261 ATACTCAAACACATATAAGCCATTTTCGCATGGCTATCCAAAATTTTACAAGTCCAAAGGGTCCA
12686526 CGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAA
326 CGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAA
12686591 GGGGGCTTTGATAGTGTGGGCGACTTTAACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
391 GGGGGCTTTGATAGTGTGGGCGACTTTAACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
12686656 TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGA
456 TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGA
12686721 ATTCCAGCACAACAAAAGTATAGCATTCATATAGTTAAACGGATAATTTCATATGCACAAATTTT
521 ATTCCAGCACAACAAAAGTATAGCATTCATATAGTTAAACGGATAATTTCATATGCACAAATTTT
12686786 CGATATCATACTTGCTTCACATTACCAACCCTTATGTACATACACAAAAGATCAACTTAGCCAAA
586 CGATATCATACTTGCTTCACATTACCAACCCTTATGTACATACACAAAAGATCAACTTAGCCAAA
12686851 GGCCGGTAGCTCGTTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAAATTCAAGCAC
651 GGCCGGTAGCTCGTTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAAATTCAAGCAC
*
12686916 ATACGAAACATACCTCAATGTTGGGATGTTTCTAGAGTATTAACTGAAATTTTTACAGCAAGATC
716 ATACGAAACATACCTCAATGGTGGGATGTTTCTAGAGTATTAACTGAAATTTTTACAGCAAGATC
*
12686981 ATTCATTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTTGTTCAAATGCCTTCG
781 ATTCATTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCG
12687046 GGACATAGCCCGGTTATACT
846 GGACATAGCCCGGTTATACT
*
12687066 TTTCA-ATGAAAATAGATTCATCAAGGTTCATTTACATAATTTATTCACTATTTAATTCCATTCC
1 TTTCATATGAAAATAGATTCATCAAGGATCATTTACATAATTTATTCACTATTTAATTCCATTCC
12687130 TACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGA
66 TACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGA
12687195 CTTTACCTATTTCATGGTTTCCATGATTCAACTAGCCCTTTTTGCATAGATAGCACAATTTATGA
131 CTTTACCTATTTCATGGTTTCCATGATTCAACTAGCCCTTTTTGCATAGATAGCACAATTTATGA
12687260 AAGTGATTAACCATTCCCATGGCCAATCCTTGTCAAGCATATCCACACCAAATGATTATAACATT
196 AAGTGATTAACCATTCCCATGGCCAATCCTTGTCAAGCATATCCACACCAAATGATTATAACATT
12687325 ATACTCAAACACATATAAGCCATTTTCGCATGGCTATCCAAAATTTTACAAGTCCAAAGGGTCCA
261 ATACTCAAACACATATAAGCCATTTTCGCATGGCTATCCAAAATTTTACAAGTCCAAAGGGTCCA
12687390 CGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAA
326 CGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAA
12687455 GGGGGCTTTGATAGTGTGGGCGACTTTAACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
391 GGGGGCTTTGATAGTGTGGGCGACTTTAACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
12687520 TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGA
456 TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGA
12687585 ATTCCAGCACAACAAAAGTATAGCATTCATATAGTTAAACGGATAATTTCATATGCACAAATTTT
521 ATTCCAGCACAACAAAAGTATAGCATTCATATAGTTAAACGGATAATTTCATATGCACAAATTTT
12687650 CGATATCATACTTGCTTCACATTACCAACCCTTATGTACATACACAAAAGATCAACTTAGCCAAA
586 CGATATCATACTTGCTTCACATTACCAACCCTTATGTACATACACAAAAGATCAACTTAGCCAAA
12687715 GGCCGGTAGCTCGTTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAAATTCAAGCAC
651 GGCCGGTAGCTCGTTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAAATTCAAGCAC
12687780 ATACGAAACATACCTCAATGGTGGGATGTTTCTAGAGTATTAACTGAAATTTTTACAGCAAGATC
716 ATACGAAACATACCTCAATGGTGGGATGTTTCTAGAGTATTAACTGAAATTTTTACAGCAAGATC
*
12687845 ATTCATTCTCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCG
781 ATTCATTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCG
*
12687910 TGACATAGCCCGGTTATA
846 GGACATAGCCCGGTTATA
12687928 GTAACTCGCA
Statistics
Matches: 855, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
864 850 0.99
865 5 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (865 bp):
TTTCATATGAAAATAGATTCATCAAGGATCATTTACATAATTTATTCACTATTTAATTCCATTCC
TACTATTTTTAGTGATTTTCCAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGA
CTTTACCTATTTCATGGTTTCCATGATTCAACTAGCCCTTTTTGCATAGATAGCACAATTTATGA
AAGTGATTAACCATTCCCATGGCCAATCCTTGTCAAGCATATCCACACCAAATGATTATAACATT
ATACTCAAACACATATAAGCCATTTTCGCATGGCTATCCAAAATTTTACAAGTCCAAAGGGTCCA
CGACCCACAACAAACGGGTAGTCCTATACATGCCATTTCGAAGTTCAACCAAAATTGTACCAAAA
GGGGGCTTTGATAGTGTGGGCGACTTTAACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAA
TCTATAAAACAGAGGAGCAATGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGA
ATTCCAGCACAACAAAAGTATAGCATTCATATAGTTAAACGGATAATTTCATATGCACAAATTTT
CGATATCATACTTGCTTCACATTACCAACCCTTATGTACATACACAAAAGATCAACTTAGCCAAA
GGCCGGTAGCTCGTTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAAATTCAAGCAC
ATACGAAACATACCTCAATGGTGGGATGTTTCTAGAGTATTAACTGAAATTTTTACAGCAAGATC
ATTCATTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCG
GGACATAGCCCGGTTATACT
Found at i:12688025 original size:99 final size:99
Alignment explanation
Indices: 12687854--12688048 Score: 390
Period size: 99 Copynumber: 2.0 Consensus size: 99
12687844 CATTCATTCT
12687854 CAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGTGACATAGC
1 CAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGTGACATAGC
12687919 CCGGTTATAGTAACTCGCACAAATGCCTTCGACC
66 CCGGTTATAGTAACTCGCACAAATGCCTTCGACC
12687953 CAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGTGACATAGC
1 CAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGTGACATAGC
12688018 CCGGTTATAGTAACTCGCACAAATGCCTTCG
66 CCGGTTATAGTAACTCGCACAAATGCCTTCG
12688049 GGACTTAACC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (99 bp):
CAAATCACGTACCTTCGGAATTTAACCGGATATAGCTCCTCGTTCAAATGCCTTCGTGACATAGC
CCGGTTATAGTAACTCGCACAAATGCCTTCGACC
Found at i:12688141 original size:79 final size:81
Alignment explanation
Indices: 12687997--12688181 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
12687987 GCTCCTCGTT
* * * *
12687997 CAAATGCCTTCGTGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCG-GGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCG
* *
12688061 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
12688077 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCG
* *
12688140 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
*
12688157 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
12688182 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 56 0.63
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:12688181 original size:40 final size:40
Alignment explanation
Indices: 12687997--12688181 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
12687987 GCTCCTCGTT
* * *
12687997 CAAATGCCTTCGTGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
12688037 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
12688077 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
12688116 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
12688157 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12688182 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:12696078 original size:40 final size:40
Alignment explanation
Indices: 12695933--12696078 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
12695923 GCTCCTTGTT
* *
12695933 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
12695973 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
12696013 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
12696054 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12696079 CATCATTCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.03
40 78 0.86
41 10 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:12700166 original size:19 final size:19
Alignment explanation
Indices: 12700142--12700184 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
12700132 ACATCCGCAC
12700142 ACTTAGTACCTTAAAGATT
1 ACTTAGTACCTTAAAGATT
*
12700161 ACTTAGTACTTTAAAGATT
1 ACTTAGTACCTTAAAGATT
12700180 ACTTA
1 ACTTA
12700185 AAGCTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
ACTTAGTACCTTAAAGATT
Found at i:12710610 original size:50 final size:51
Alignment explanation
Indices: 12710549--12710654 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 51
12710539 CTTGATCAGA
* * * *
12710549 GCTACAATTATCTGATCAAGGACAAGTGA-AAGTGATAAGTGATTACTTCG
1 GCTACAATTATCTAATCAAGGACAAATGACAAGTGAAAAGTGATAACTTCG
* *
12710599 GCTACATTTATCTAATCAAGGACAAATGACAAGTGAAAAGTGGTAACTTCG
1 GCTACAATTATCTAATCAAGGACAAATGACAAGTGAAAAGTGATAACTTCG
12710650 GCTAC
1 GCTAC
12710655 CTGATCAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 26 0.53
51 23 0.47
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (51 bp):
GCTACAATTATCTAATCAAGGACAAATGACAAGTGAAAAGTGATAACTTCG
Found at i:12710668 original size:31 final size:31
Alignment explanation
Indices: 12710630--12710747 Score: 164
Period size: 31 Copynumber: 3.8 Consensus size: 31
12710620 ACAAATGACA
*
12710630 AGTGAAAAGTGGTAACTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
12710661 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * * *
12710692 AGTAAAAAATGGTAGCTCCAGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
12710723 AATGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
12710748 AAGTGACAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:12710922 original size:48 final size:48
Alignment explanation
Indices: 12710769--12711035 Score: 277
Period size: 48 Copynumber: 5.7 Consensus size: 48
12710759 GATTTCCATA
* * * * * *
12710769 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATAC-GTG
* * * * * *
12710816 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATACGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
*
12710862 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
*
12710910 TAAGACCTTAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA-TACGTG
*
12710959 TAAGACCATAGCTGGGCTATGGCATCTATATGTGA-A--T-AT--GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
* *
12711001 CAAGACCATAACTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
12711036 AGATGTGTAA
Statistics
Matches: 197, Mismatches: 18, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 34 0.17
44 1 0.01
45 1 0.01
46 27 0.14
47 38 0.19
48 57 0.29
49 38 0.19
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
Found at i:12710975 original size:97 final size:95
Alignment explanation
Indices: 12710769--12711000 Score: 281
Period size: 97 Copynumber: 2.4 Consensus size: 95
12710759 GATTTCCATA
* * * * * * *
12710769 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTATAAGACCATATCTGGG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACCGTATAAGACCATAGCTGGG
*
12710832 ATATGGCATCAGTGAGATACGTGATTCGTG
66 ATATGGCATCAATGAGATACGTGATTCGTG
* *
12710862 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGAT-CCGTGTAAGACCTTAGCTGGG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACCGTATAAGACCATAGCTGGG
* * *
12710926 CTATGGCATCGATATGTGATATGTGATTACGTG
66 ATATGGCATC-A-ATGAGATACGTGATT-CGTG
*
12710959 TAAGACCATAGCTGGGCTATGGCATCTATATGTGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTG-ATATGTG
12711001 CAAGACCATA
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
93 25 0.21
94 26 0.22
95 12 0.10
96 12 0.10
97 37 0.31
98 7 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (95 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACCGTATAAGACCATAGCTGGG
ATATGGCATCAATGAGATACGTGATTCGTG
Found at i:12711006 original size:42 final size:41
Alignment explanation
Indices: 12710944--12711067 Score: 158
Period size: 42 Copynumber: 3.0 Consensus size: 41
12710934 TCGATATGTG
* *
12710944 ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 ATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* *
12710985 TATATGTGAATATGTGCAAGACCATAACTGGGCTATGGCATC
1 -ATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* * **
12711027 ATTATGTGAAGATGTGTAAGACCATAGTTGAACTATGGCAT
1 A-TATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCAT
12711068 TGAGAAAACG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 70 0.99
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (41 bp):
ATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:12714102 original size:39 final size:39
Alignment explanation
Indices: 12714042--12714259 Score: 301
Period size: 39 Copynumber: 5.6 Consensus size: 39
12714032 ATCGTGATCT
* ** *
12714042 GAAGCCCGAAGTCTAGTTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
12714081 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
12714120 GAAGCCTGAAGGCTAACTTAAGCACACAAGTGTTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
12714159 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * **
12714198 AAAGCCCGAAGGCTAACTGAAGCACACAAATGCTAAATA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
**
12714237 GAAGCGGGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
12714260 TCATCAGAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 162 1.00
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:12716887 original size:15 final size:15
Alignment explanation
Indices: 12716864--12716905 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
12716854 GAAGCCCAGA
12716864 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
12716879 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
12716894 ATAAGGAAATCC
1 ATAAGGAAATCC
12716906 CATTTACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:12719741 original size:39 final size:39
Alignment explanation
Indices: 12719683--12719890 Score: 276
Period size: 39 Copynumber: 5.3 Consensus size: 39
12719673 CGGGACTTTA
* * * *
12719683 AGCCCGGATATAATACCAGCAC-AAAGCCTGCGGGGCTCT
1 AGCCCGGATATAACACCAGCACGAAAGCCTTCAGGACT-T
* * *
12719722 AGCCTGGATATAACACCAGCACGAATGCCTTCAGGGCTT
1 AGCCCGGATATAACACCAGCACGAAAGCCTTCAGGACTT
* **
12719761 AACCCGGATATAACACCAGCACGACTGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAAAGCCTTCAGGACTT
* *
12719800 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAAAGCCTTCAGGACTT
12719839 AGCCCGGATATAACACCAGCAC-AAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAAA-GCCTTCAGGACTT
12719878 AGCCCGGATATAA
1 AGCCCGGATATAA
12719891 TTCTCCATTA
Statistics
Matches: 153, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
38 2 0.01
39 139 0.91
40 12 0.08
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAAAGCCTTCAGGACTT
Found at i:12720416 original size:110 final size:110
Alignment explanation
Indices: 12720223--12720438 Score: 387
Period size: 110 Copynumber: 2.0 Consensus size: 110
12720213 TGTGGATAGG
* *
12720223 CTACTAGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGATTTAAATT
1 CTACTAGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGATTTAAATT
12720288 TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATTCTAT
* *
12720333 CTACTCGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTAGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGATTTAAATT
*
12720398 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATT
12720439 ATAATAGTCA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (110 bp):
CTACTAGATTGCTTTCACCTTTCCCCTACCTGATTTAGTTCCTCTTTGCTCTTGAGATTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACCTTAATTCTAT
Found at i:12722443 original size:54 final size:53
Alignment explanation
Indices: 12722368--12722638 Score: 353
Period size: 54 Copynumber: 5.0 Consensus size: 53
12722358 TTAGAATACT
* * * *
12722368 TTAGTTTATCAAATTACCAAAATATCCCTGGTTTGTATAATCAATAAAATACCC
1 TTAGTTTATAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACTAAAATACCC
* * *
12722422 TTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCT
1 TTAGTTTATAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACTAAAATACCC
* *
12722476 TTAGTTTACAAAATTACCAAACTACCCTTGGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC-TGGTTTGTAAAATTACTAAAATACCC
* *
12722530 TTTGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC-TGGTTTGTAAAATTACTAAAATACCC
* * * * *
12722584 CTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACTAAAATACCC
12722638 T
1 T
12722639 CGACCTATAA
Statistics
Matches: 190, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 3 0.02
54 184 0.97
55 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (53 bp):
TTAGTTTATAAAATTACCAAAATACCCTGGTTTGTAAAATTACTAAAATACCC
Found at i:12722515 original size:81 final size:81
Alignment explanation
Indices: 12722413--12722638 Score: 308
Period size: 81 Copynumber: 2.8 Consensus size: 81
12722403 TATAATCAAT
* *
12722413 AAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTTT
1 AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT
12722478 AGTTTACAAAATTACC
66 AGTTTACAAAATTACC
* * * * *
12722494 AAACTACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCTT
1 AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT
* **
12722559 GGTTTGTAAAATTACC
66 AGTTTACAAAATTACC
* * * * **
12722575 AAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATTAAAATACCCT
1 AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT
12722639 CGACCTATAA
Statistics
Matches: 124, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 124 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (81 bp):
AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT
AGTTTACAAAATTACC
Found at i:12722650 original size:54 final size:54
Alignment explanation
Indices: 12722372--12722699 Score: 331
Period size: 54 Copynumber: 6.1 Consensus size: 54
12722362 AATACTTTAG
* * * * * *
12722372 TTTATCAAATTACCAAAATATCCCTGGTTTGTATAATCAATAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGA
* *
12722426 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCTTTA
1 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGA
* * *
12722479 GTTTACAAAATTACCAAACTACCCTTGGTTTGTAAAATTACTAAAATACCCTTTG-
1 -TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC-TTGA
* * *
12722534 TTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-A
1 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGA
* * * * *
12722587 GTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATTAAAATACCCTCGA
1 -TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGA
** *** * ** * *
12722642 CCTATAAAATTATTGAAGTA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGA
1 TTTATAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACTAAAATACCCTTGA
12722696 TTTA
1 TTTA
12722700 CAGAATTATC
Statistics
Matches: 227, Mismatches: 40, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
53 9 0.04
54 213 0.94
55 3 0.01
56 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (54 bp):
TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGA
Found at i:12722650 original size:81 final size:81
Alignment explanation
Indices: 12722378--12722775 Score: 286
Period size: 81 Copynumber: 4.9 Consensus size: 81
12722368 TTAGTTTATC
* * * * ** * *
12722378 AAATTACCAAAATATCCC-TGGTTTGTATAATCAATAAAATACCCTTGGTTTATAAAATTACCAA
1 AAATTACCAAAATA-CCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
*
12722442 AATACCCCTGGTTTGTA
65 AATACCCCTGATTTGTA
* * * * *
12722459 AAATTACCAAAATA-CCTTTAGTTTACAAAATTACCAAACTACCCTTGGTTTGTAAAATTACTAA
1 AAATTACCAAAATACCCTTGA-TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
* *
12722523 AATACCCTTTG-TTTATA
65 AATACCC-CTGATTTGTA
* * *
12722540 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
*
12722605 ATACCCCTGATTTGTG
66 ATACCCCTGATTTGTA
** * ** *** * **
12722621 AAATTATTAAAATACCCTCGACCTATAAAATTATTGAAGTA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAA
* * **
12722685 AGTACCCTTGATTTACA
65 AATACCCCTGATTTGTA
* * **** * * * **
12722702 GAATTATCGTTTTACCCTCGATTTACAAAATTACCAAAATA-CCCTTGTAGGGTAGAAA-TACCA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGT-TTGTA-AAATTACCA
12722765 AAATACCCCTG
64 AAATACCCCTG
12722776 TAGAGTAGAA
Statistics
Matches: 246, Mismatches: 63, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
79 2 0.01
80 7 0.03
81 228 0.93
82 9 0.04
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
ATACCCCTGATTTGTA
Found at i:12722687 original size:27 final size:27
Alignment explanation
Indices: 12722378--12722746 Score: 237
Period size: 27 Copynumber: 13.7 Consensus size: 27
12722368 TTAGTTTATC
*
12722378 AAATTACCAAAATATCCCT-GGTTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
* * ** * * *
12722405 TAATCAATAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
12722432 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
12722459 AAATTACCAAAATA-CCTTTAGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
12722486 AAATTACCAAACTACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
12722513 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *
12722540 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
12722567 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
12722594 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** ** *
12722621 AAATTATTAAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * *
12722648 AAATTATTGAAGTACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
12722675 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **** **
12722702 GAATTATCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
12722729 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
12722747 TGTAGGGTAG
Statistics
Matches: 271, Mismatches: 61, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
26 9 0.03
27 253 0.93
28 9 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:12722763 original size:27 final size:27
Alignment explanation
Indices: 12722730--12722951 Score: 248
Period size: 27 Copynumber: 8.3 Consensus size: 27
12722720 CGATTTACAA
* *
12722730 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
12722757 AAATACCAAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
12722784 AATTATCGAAATACCCCTCTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
12722811 AATTATCGCAATACCCCTGTAGGGAAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
12722838 AATTACCGAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
12722865 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
12722892 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
12722919 AATTACCGAGATA-TCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
12722945 AATTACC
1 AATTACC
12722952 ATTTTGCCTC
Statistics
Matches: 163, Mismatches: 32, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
26 16 0.10
27 147 0.90
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:12723660 original size:27 final size:26
Alignment explanation
Indices: 12723615--12723673 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
12723605 TTTGCCATAT
*
12723615 TATCTGTTCTGGTGGCTCTG-CTACAA
1 TATCTGTTCTGGTGACTCTGTC-ACAA
12723641 TATCTGTATCTGGTGACTCTGTCACAA
1 TATCTGT-TCTGGTGACTCTGTCACAA
12723668 TATCTG
1 TATCTG
12723674 ATAACTTAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 7 0.23
27 22 0.73
28 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTCTGTCACAA
Found at i:12723848 original size:6 final size:6
Alignment explanation
Indices: 12723810--12723901 Score: 89
Period size: 6 Copynumber: 14.8 Consensus size: 6
12723800 TTGCATTCAC
* * *
12723810 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
12723860 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
12723902 AGTTCTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
5 4 0.06
6 54 0.76
7 11 0.15
8 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:12723856 original size:31 final size:31
Alignment explanation
Indices: 12723810--12723890 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
12723800 TTGCATTCAC
12723810 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
12723842 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
12723873 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
12723891 ATTCTGATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 41 0.85
32 7 0.15
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:12729796 original size:37 final size:37
Alignment explanation
Indices: 12729685--12729798 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
12729675 CGAATAGACC
* * *
12729685 CCACATGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
12729722 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
12729759 CCACACGTAGTCATCGGGTCTTACCCGGA-ATATATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATA-ATCT
12729796 CCA
1 CCA
12729799 AGTTTCATGT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
36 3 0.04
37 70 0.96
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:12729988 original size:48 final size:48
Alignment explanation
Indices: 12729936--12730265 Score: 543
Period size: 48 Copynumber: 6.9 Consensus size: 48
12729926 ACATCTCCTC
*
12729936 CATATTTCACATTAGCCATTTGGCTTTACCACATATATATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATA
*
12729984 CATATTTCACATTAGCCATTCGGATTTACCACATATATATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATA
* **
12730032 TATATTTCATGTTAGCCATTCGGCTTTACCACATATATATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATA
*
12730080 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATA
* * *
12730128 CATATTTCACACTAGCCATTTGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATA
* *
12730176 TATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATA
* *
12730224 CATATTTCACAGTAGCCATTCGGCTTTACCACACATATATAT
1 CATATTTCACATTAGCCATTCGGCTTTACCACATATATATAT
12730266 ATTTATCTTG
Statistics
Matches: 263, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 263 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
CATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATA
Found at i:12733896 original size:29 final size:29
Alignment explanation
Indices: 12733836--12733996 Score: 152
Period size: 28 Copynumber: 5.7 Consensus size: 29
12733826 CTGACTGATT
* * *
12733836 TCGCACACATAGCG-CTCGATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTGAAGAAC
**
12733864 TCGCACACATAGTGCCTCAATT-ACCAATC
1 TCGCACACATAGTGCCTCAATTGAAGAA-C
*
12733893 TCGCACACATAGTG-CTCGATTGAAGAAC
1 TCGCACACATAGTGCCTCAATTGAAGAAC
* * * *
12733921 TCGAACACATAGTGCCTCAACT-ACTGATC
1 TCGCACACATAGTGCCTCAATTGA-AGAAC
* *
12733950 TGGCACACATAGTG-CTCAGTTGAAGAAC
1 TCGCACACATAGTGCCTCAATTGAAGAAC
*
12733978 TTGCACACATAGTGCCTCA
1 TCGCACACATAGTGCCTCA
12733997 TAACTCCAGC
Statistics
Matches: 107, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
28 58 0.54
29 49 0.46
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTGAAGAAC
Found at i:12733899 original size:57 final size:57
Alignment explanation
Indices: 12733836--12733996 Score: 234
Period size: 57 Copynumber: 2.8 Consensus size: 57
12733826 CTGACTGATT
* * *
12733836 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* **
12733893 TCGCACACATAGTGCTCGATTGAAGAACTCGAACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* *
12733950 TGGCACACATAGTGCTC-AGTTGAAGAACTTGCACACATAGTGCCTCA
1 TCGCACACATAGTGCTCGA-TTGAAGAACTCGCACACATAGTGCCTCA
12733997 TAACTCCAGC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
56 1 0.01
57 93 0.99
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:12734068 original size:40 final size:40
Alignment explanation
Indices: 12734024--12734478 Score: 766
Period size: 40 Copynumber: 11.4 Consensus size: 40
12734014 CCTTCGAGGT
12734024 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
12734064 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
12734104 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
12734144 TTAGCCCGGATATATCATTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* * *
12734184 TTAGCCCGGATACATCACTAGCACAAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
12734224 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
12734264 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* * *
12734304 TTAGCCCGGATACATCACTAGCACGAATGCTCTTTGGAAA
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
12734344 TTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
12734384 TTAGCTCAGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
12734424 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
12734464 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
12734479 ATATACCTCT
Statistics
Matches: 388, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 388 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:12734671 original size:28 final size:28
Alignment explanation
Indices: 12734629--12734685 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
12734619 ATAGTCATAA
*
12734629 CACTCTTTCATAATTGCATCACTTATAC
1 CACTCTTTCAAAATTGCATCACTTATAC
12734657 CACTCTTTCAAAATTGCATCACTTATAC
1 CACTCTTTCAAAATTGCATCACTTATAC
12734685 C
1 C
12734686 CTTATAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.37
Consensus pattern (28 bp):
CACTCTTTCAAAATTGCATCACTTATAC
Found at i:12735903 original size:37 final size:37
Alignment explanation
Indices: 12735792--12735905 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
12735782 CGAATAGTCC
* * *
12735792 CCACACGTAGTTATCAGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
12735829 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
12735866 CCACACGTAGTCATCGGGTCTTACCCGGA-ATATATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATA-ATCT
12735903 CCA
1 CCA
12735906 AGTTTCACGT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
36 3 0.04
37 70 0.96
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:12736097 original size:52 final size:52
Alignment explanation
Indices: 12736035--12736136 Score: 177
Period size: 52 Copynumber: 2.0 Consensus size: 52
12736025 ATATACACAC
* * *
12736035 ATCTCCTACATATTTCACATTAGCCATTTGGCTTTACCACATATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATATATAT
12736087 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATATAT
12736137 TAGCCATTCG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (52 bp):
ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATATATAT
Found at i:12736140 original size:30 final size:30
Alignment explanation
Indices: 12736105--12736166 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
12736095 CATATTTCAC
*
12736105 ATTAGCCATTCGGA-TTTACCACATATATAT
1 ATTAGCCATTC-GACTTTACCACATATACAT
12736135 ATTAGCCATTCGACTTTACCACATATACAT
1 ATTAGCCATTCGACTTTACCACATATACAT
12736165 AT
1 AT
12736167 CTCATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (30 bp):
ATTAGCCATTCGACTTTACCACATATACAT
Found at i:12736191 original size:48 final size:48
Alignment explanation
Indices: 12736135--12736694 Score: 967
Period size: 48 Copynumber: 11.7 Consensus size: 48
12736125 ACATATATAT
12736135 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
12736183 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
12736231 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
12736279 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
12736327 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
* * * *
12736375 ATTAGCCATTCGGCTTTACCACATATAGATATCTCATACATATTTCAT
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
* * *
12736423 ATTAGCCATTCGGCTTTACCACATGTACATATCTCATACATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
* * *
12736471 ACTAGCCATTCGGCTTTACCACATGTACATATCTCATATATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
*
12736519 ATTAGCCACTCGACTTTACCACATATACATATCTCATATATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
*
12736567 ATTAGCCACTCGACTTTACCACATATACATATCTCATATATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
*
12736615 ATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCAC
1 ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
* * * *
12736663 ACTAGCCATTCGGCTTTACCACACATATATAT
1 ATTAGCCATTCGACTTTACCACATATACATAT
12736695 ATATTTATCT
Statistics
Matches: 493, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 493 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCAC
Found at i:12739527 original size:39 final size:39
Alignment explanation
Indices: 12739460--12739794 Score: 600
Period size: 39 Copynumber: 8.5 Consensus size: 39
12739450 ACAAAGCATA
* * *
12739460 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
12739500 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
12739540 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
12739579 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
12739618 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
12739657 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
12739696 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
12739735 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
12739774 CAGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
12739795 TTCTCCATTA
Statistics
Matches: 290, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
39 269 0.93
40 21 0.07
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:12741379 original size:27 final size:27
Alignment explanation
Indices: 12741349--12741526 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12741339 ATATTGAGTC
* * * *
12741349 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12741376 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12741403 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12741431 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12741458 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12741485 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12741512 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12741527 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12741488 original size:82 final size:81
Alignment explanation
Indices: 12741370--12741525 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12741360 TGCTATATAA
* *
12741370 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12741435 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12741452 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12741516 CACTTAGTGC
65 CACTTAGTGC
12741526 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12743653 original size:110 final size:110
Alignment explanation
Indices: 12743460--12743679 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
12743450 TGTGGATAGG
*
12743460 CTACTCGATTGCTTTCTCCTTGCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTGCCCCTATCTAATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
*
12743525 TAAACAAATGAATTTGTTTAATTACTTAGTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
*
12743570 CTACTCGATTGCTTTCTCCTTTCCCCTATCTAATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTGCCCCTATCTAATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
12743635 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
12743680 AATAGTCACA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.46
Consensus pattern (110 bp):
CTACTCGATTGCTTTCTCCTTGCCCCTATCTAATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:12747636 original size:29 final size:29
Alignment explanation
Indices: 12747575--12747681 Score: 105
Period size: 29 Copynumber: 3.7 Consensus size: 29
12747565 TACATACATG
*
12747575 CATATGGCCCACTT-GGCCCAA-TCTCATT
1 CATATTGCCCA-TTAGGCCCAATTCTCATT
* *
12747603 TATATTGCCCATTAGTCCCAATTCTCATT
1 CATATTGCCCATTAGGCCCAATTCTCATT
*
12747632 CATA-TGCCCCATCAGGCCCAATTCAT-ATT
1 CATATTG-CCCATTAGGCCCAATTC-TCATT
* *
12747661 CATATGGCCCCTTAGGCCCAA
1 CATATTGCCCATTAGGCCCAA
12747682 ATCACATGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.03
28 17 0.26
29 44 0.68
30 2 0.03
ACGTcount: A:0.24, C:0.34, G:0.12, T:0.30
Consensus pattern (29 bp):
CATATTGCCCATTAGGCCCAATTCTCATT
Found at i:12747694 original size:29 final size:28
Alignment explanation
Indices: 12747576--12747694 Score: 82
Period size: 29 Copynumber: 4.1 Consensus size: 28
12747566 ACATACATGC
*
12747576 ATATGGCCCACTT-GGCCC-AATCTCATTT
1 ATATGGCCC-CTTAGGCCCAAATCACA-TT
* * * * *
12747604 ATATTGCCCATTAGTCCCAATTCTCATT
1 ATATGGCCCCTTAGGCCCAAATCACATT
* * *
12747632 CATAT-GCCCCATCAGGCCCAATTCATATT
1 -ATATGGCCCC-TTAGGCCCAAATCACATT
12747661 CATATGGCCCCTTAGGCCCAAATCACATGT
1 -ATATGGCCCCTTAGGCCCAAATCACAT-T
12747691 ATAT
1 ATAT
12747695 TCATGCTAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
27 2 0.03
28 18 0.25
29 47 0.64
30 6 0.08
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (28 bp):
ATATGGCCCCTTAGGCCCAAATCACATT
Found at i:12747937 original size:24 final size:24
Alignment explanation
Indices: 12747902--12747962 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
12747892 TCGTAGCCCA
12747902 ACTTTT-GGCTTTTCAGCATTCTG
1 ACTTTTCGGCTTTTCAGCATTCTG
* *
12747925 ACTTTTCGGCTTTTCAGTATTTTG
1 ACTTTTCGGCTTTTCAGCATTCTG
* *
12747949 GCATTTCGGCTTTT
1 ACTTTTCGGCTTTT
12747963 GCCAATTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 6 0.18
24 27 0.82
ACGTcount: A:0.11, C:0.20, G:0.18, T:0.51
Consensus pattern (24 bp):
ACTTTTCGGCTTTTCAGCATTCTG
Found at i:12752796 original size:25 final size:24
Alignment explanation
Indices: 12752748--12752793 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12752738 AGGTTGGGAT
12752748 TTTTTGCTGCACGCGTAGGGAAGA
1 TTTTTGCTGCACGCGTAGGGAAGA
* * *
12752772 TTTTTGTTGCATGCGTGGGGAA
1 TTTTTGCTGCACGCGTAGGGAA
12752794 AGAGTTGGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.13, G:0.35, T:0.35
Consensus pattern (24 bp):
TTTTTGCTGCACGCGTAGGGAAGA
Found at i:12753081 original size:18 final size:17
Alignment explanation
Indices: 12753060--12753110 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
12753050 ACAATTCTTT
12753060 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
12753078 TCTCTTCATCTATTT-TC
1 TCTCTTCTTCT-TTTCTC
12753095 TCTTCTTCTTCTTTTC
1 TC-TCTTCTTCTTTTC
12753111 CTTTATAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 6 0.21
18 19 0.68
19 3 0.11
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:12754381 original size:28 final size:28
Alignment explanation
Indices: 12754341--12754484 Score: 184
Period size: 28 Copynumber: 5.2 Consensus size: 28
12754331 GGAGGAAACG
*
12754341 TTCTGGTGGCTCTGCCACAAATATTTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
12754369 TTCTGATGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
12754397 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * * * *
12754425 TTCTAGTGGCCCTACCATAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
12754453 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
12754479 TTCTGG
1 TTCTGG
12754485 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 5 0.05
27 7 0.07
28 87 0.88
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:12756247 original size:40 final size:40
Alignment explanation
Indices: 12756185--12756264 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
12756175 TATCTTGAGT
* *
12756185 TTCACAACTTGAAAATCTGTTTCGTGATTTTTCCCTGAAA
1 TTCAAAACTTGAAAATCAGTTTCGTGATTTTTCCCTGAAA
12756225 TTCAAAACTTGAAAATCAGTTTCGTGATTTTTCCCTGAAA
1 TTCAAAACTTGAAAATCAGTTTCGTGATTTTTCCCTGAAA
12756265 CTAGACTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (40 bp):
TTCAAAACTTGAAAATCAGTTTCGTGATTTTTCCCTGAAA
Found at i:12757723 original size:29 final size:29
Alignment explanation
Indices: 12757660--12757727 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
12757650 TAATCAACCG
*
12757660 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
12757689 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
12757718 CGCACACTTA
1 CGCACACTTA
12757728 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:12757897 original size:29 final size:29
Alignment explanation
Indices: 12757834--12757901 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
12757824 TAATCAACCA
*
12757834 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
12757863 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
12757892 CGCACACTTA
1 CGCACACTTA
12757902 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:12758071 original size:29 final size:29
Alignment explanation
Indices: 12758008--12758075 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
12757998 TAATCAACCG
12758008 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
12758037 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
12758066 CGCACACTTA
1 CGCACACTTA
12758076 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:12758216 original size:29 final size:30
Alignment explanation
Indices: 12758177--12758255 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
12758167 CTTAATAATC
12758177 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
12758207 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
12758236 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
12758256 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:12758249 original size:174 final size:174
Alignment explanation
Indices: 12757549--12758224 Score: 1262
Period size: 174 Copynumber: 3.9 Consensus size: 174
12757539 AACTCAAGGT
* *
12757549 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
12757614 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
12757679 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
12757723 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
12757788 GAAAATATATATTGGGCTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
12757853 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
12757897 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
12757962 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
12758027 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
12758071 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
12758136 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
12758201 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
12758225 TGTACAATTT
Statistics
Matches: 490, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 490 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:12769426 original size:28 final size:28
Alignment explanation
Indices: 12769395--12769504 Score: 100
Period size: 29 Copynumber: 3.9 Consensus size: 28
12769385 ACATACATGC
*
12769395 ATATGGCCCA-CTTGGCCCAATATCATTT
1 ATATGGCCCATC-AGGCCCAATATCATTT
* * *
12769423 ATATGACCCATCAGGCCCAATACTAATTC
1 ATATGGCCCATCAGGCCCAATA-TCATTT
*
12769452 ATATAGCCCATCAGGCCCAAT-TCATATT
1 ATATGGCCCATCAGGCCCAATATCAT-TT
* *
12769480 CATATGGCCCCTTAGGCCCAA-ATCA
1 -ATATGGCCCATCAGGCCCAATATCA
12769505 CATGCATATT
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
27 3 0.05
28 19 0.29
29 44 0.67
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATATCATTT
Found at i:12769604 original size:18 final size:19
Alignment explanation
Indices: 12769581--12769617 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12769571 TGGGCCCAAC
*
12769581 AGCCCA-TCGGGCCCATTT
1 AGCCCATTCCGGCCCATTT
12769599 AGCCCATTCCGGCCCATTT
1 AGCCCATTCCGGCCCATTT
12769618 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.41, G:0.19, T:0.24
Consensus pattern (19 bp):
AGCCCATTCCGGCCCATTT
Found at i:12769626 original size:19 final size:19
Alignment explanation
Indices: 12769590--12769626 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12769580 CAGCCCATCG
*
12769590 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
12769609 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
12769627 ACAATCCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:12769753 original size:16 final size:16
Alignment explanation
Indices: 12769728--12769766 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
12769718 CCCAACTTTT
*
12769728 GGCTTCTAGGCATTTC
1 GGCTTTTAGGCATTTC
12769744 GGCTTTTAGGCATTTC
1 GGCTTTTAGGCATTTC
12769760 GGCTTTT
1 GGCTTTT
12769767 CAGCTTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.10, C:0.21, G:0.26, T:0.44
Consensus pattern (16 bp):
GGCTTTTAGGCATTTC
Found at i:12769772 original size:8 final size:8
Alignment explanation
Indices: 12769740--12769790 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
12769730 CTTCTAGGCA
12769740 TTTCGGCT
1 TTTCGGCT
* *
12769748 TTTAGGCA
1 TTTCGGCT
12769756 TTTCGGCT
1 TTTCGGCT
*
12769764 TTTCAGCT
1 TTTCGGCT
*
12769772 TTTCGGCA
1 TTTCGGCT
12769780 TTTCGGCT
1 TTTCGGCT
12769788 TTT
1 TTT
12769791 GTCGATTCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.08, C:0.22, G:0.22, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:12769772 original size:24 final size:24
Alignment explanation
Indices: 12769740--12769790 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
12769730 CTTCTAGGCA
*
12769740 TTTCGGCTTTTAGGCATTTCGGCT
1 TTTCAGCTTTTAGGCATTTCGGCT
*
12769764 TTTCAGCTTTTCGGCATTTCGGCT
1 TTTCAGCTTTTAGGCATTTCGGCT
12769788 TTT
1 TTT
12769791 GTCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.22, G:0.22, T:0.49
Consensus pattern (24 bp):
TTTCAGCTTTTAGGCATTTCGGCT
Found at i:12777704 original size:22 final size:21
Alignment explanation
Indices: 12777661--12777704 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
12777651 CAAAACTAGC
* *
12777661 CTACTATTCCTTTCTTCCCAT
1 CTACTACTCCTTTCTTACCAT
*
12777682 CTACTACTCTCTTTCTTATCAT
1 CTACTACTC-CTTTCTTACCAT
12777704 C
1 C
12777705 ACTTTTGCCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (21 bp):
CTACTACTCCTTTCTTACCAT
Found at i:12778895 original size:25 final size:25
Alignment explanation
Indices: 12778861--12778930 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
12778851 AGGAAGTGCT
12778861 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
12778886 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
12778911 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
12778931 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:12780868 original size:40 final size:40
Alignment explanation
Indices: 12780784--12780991 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
12780774 GGCCAAGTCT
* * * * * *
12780784 CGAAGGCTTTTGTGCTAGGTGACTACAACCGGACTAAGATC
1 CGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAGACC
* * * *
12780825 CGAAGGCATTCGTGCGAGTTG-CTATATCCTGGCTAAGACC
1 CGAAGGCATTTGTGCTAG-CGACTATATCCGGGCTAAGACC
* * *
12780865 CGAAGGCATTTGTGCTAGCGATTATACCCGGGCTAAAACC
1 CGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACC
* *
12780905 CGAAGGCATTTGTGCTAGCGACTAAATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACC
* * * * *
12780945 CGAAGGAATTTATGCTAGTGACCACATCCGGGCTAAGACC
1 CGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACC
12780985 CGAAGGC
1 CGAAGGC
12780992 CTTGCGCAAG
Statistics
Matches: 138, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.88
41 16 0.12
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
CGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGACC
Found at i:12788044 original size:27 final size:27
Alignment explanation
Indices: 12788013--12788190 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12788003 TAAATTGTAC
12788013 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
12788040 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12788066 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
12788094 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
12788122 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
12788149 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
12788176 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
12788191 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:12788127 original size:82 final size:81
Alignment explanation
Indices: 12788014--12788169 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12788004 AAATTGTACA
* *
12788014 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12788078 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
12788095 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12788160 TGCGAGTTGA
65 TGCGAATTGA
12788170 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12788181 original size:82 final size:81
Alignment explanation
Indices: 12788010--12788190 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
12788000 GATTAAATTG
* *
12788010 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12788075 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
12788091 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12788155 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
12788173 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
12788191 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12789799 original size:39 final size:39
Alignment explanation
Indices: 12789745--12790741 Score: 1834
Period size: 39 Copynumber: 25.5 Consensus size: 39
12789735 TAATGGAGAA
**
12789745 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12789784 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12789823 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12789862 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12789901 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12789940 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12789979 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790018 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790057 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790096 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790135 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790174 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790213 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790252 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790291 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790330 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790369 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790408 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790447 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
12790486 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
*
12790525 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
* * *
12790564 TTATATCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
*
12790603 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
* * *
12790642 TTATATCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
** * *
12790681 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCAAAGGCATTCGTGCTGGTG
12790720 TTATATCCGGGCTTAAAGTCCC
1 TTATATCCGGGC-T-AAGTCCC
12790742 GTATGCTTTG
Statistics
Matches: 942, Mismatches: 14, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
39 922 0.98
40 20 0.02
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
Found at i:12793580 original size:48 final size:48
Alignment explanation
Indices: 12793508--12793937 Score: 621
Period size: 48 Copynumber: 8.9 Consensus size: 48
12793498 AGATAAATAT
* * *
12793508 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12793556 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
12793604 ATATGTATATGTGGTAAAGTCGAGTGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12793652 ATATGTACATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12793700 ATATGTACATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12793748 ATATCTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** *
12793796 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATATAT--G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12793842 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12793890 ATATATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTA
1 ----ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
12793938 GGGGATGTGT
Statistics
Matches: 349, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
46 41 0.12
48 266 0.76
52 42 0.12
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:12793903 original size:52 final size:53
Alignment explanation
Indices: 12793837--12793937 Score: 177
Period size: 52 Copynumber: 1.9 Consensus size: 53
12793827 CATGAAATAT
* *
12793837 ATATGATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
12793890 ATAT-ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTA
1 ATATGATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTA
12793938 GGGGATGTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 42 0.91
53 4 0.09
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.34
Consensus pattern (53 bp):
ATATGATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
Found at i:12794125 original size:37 final size:37
Alignment explanation
Indices: 12794073--12794186 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
12794063 ACATGAAACT
12794073 TGGAGATATAT-TCCGGGTAAGACCCGATGACTACGTG
1 TGGAGAT-TATGTCCGGGTAAGACCCGATGACTACGTG
12794110 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* * *
12794147 TGGAGATTTTGTCCGGGTAAGACCTGATAACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
12794184 TGG
1 TGG
12794187 GGACTATTCG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
36 3 0.04
37 70 0.96
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:12795908 original size:40 final size:40
Alignment explanation
Indices: 12795485--12795899 Score: 704
Period size: 40 Copynumber: 10.4 Consensus size: 40
12795475 AGAGGTATAT
*
12795485 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
12795525 ATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
12795565 ATATATCTGAGCTAAGTTCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
12795605 ATATATCCGGGCTAATTTCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * *
12795645 ATGTATCCGGGCTAAGTTTCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
12795685 ATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAATG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
12795725 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
12795765 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
12795805 ATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
12795845 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
12795885 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
12795900 ACCTCGAAGG
Statistics
Matches: 352, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 352 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:12796018 original size:57 final size:57
Alignment explanation
Indices: 12795927--12796094 Score: 239
Period size: 57 Copynumber: 2.9 Consensus size: 57
12795917 GCTGGAGTTA
* * *
12795927 TGAGGCACTATGTGTGCAAGTTCTTCAA-CTGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATC-GAGCACTATGTGTGCGAGATCAGTAAT
* **
12795984 TGAGGCACTATGTGTTCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * *
12796041 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
12796095 CAGTGGGCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
57 97 0.99
58 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:12796054 original size:29 final size:29
Alignment explanation
Indices: 12795927--12796087 Score: 143
Period size: 28 Copynumber: 5.7 Consensus size: 29
12795917 GCTGGAGTTA
* * *
12795927 TGAGGCACTATGTGTGCAAGTTCTTCAAC
1 TGAGGCACTATGTGTGCGAGTTCGTCAAT
* * *
12795956 TGA-GCACTATGTGTGCCAGATCAGT-AGT
1 TGAGGCACTATGTGTGCGAGTTC-GTCAAT
* *
12795984 TGAGGCACTATGTGTTCGAGTTCTTCAAT
1 TGAGGCACTATGTGTGCGAGTTCGTCAAT
* *
12796013 CGA-GCACTATGTGTGCGAGATTGGT-AAT
1 TGAGGCACTATGTGTGCGAG-TTCGTCAAT
* *
12796041 TGAGGCACTATGTGTGCGAGTTCTTTAAT
1 TGAGGCACTATGTGTGCGAGTTCGTCAAT
* *
12796070 CGA-GCGCTATGTGTGCGA
1 TGAGGCACTATGTGTGCGA
12796088 AATCAGTCAG
Statistics
Matches: 107, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
28 59 0.55
29 48 0.45
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (29 bp):
TGAGGCACTATGTGTGCGAGTTCGTCAAT
Found at i:12799964 original size:49 final size:50
Alignment explanation
Indices: 12799907--12800165 Score: 162
Period size: 50 Copynumber: 5.1 Consensus size: 50
12799897 TGTACGCATT
* * * ** *
12799907 GTAGCCTACATTTAATACTACACATGCGACC-AAAAATCTGGTGCACGTA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAAAAATCTAATACACGTA
* **
12799956 GTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATACACGTA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAAAAATCTAATACACGTA
* * * * *** *** * *
12800006 GTAGCCTCCACTTAGTACTACACACGAGATCGAAGTTGTCGGGTACGCATA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAA-AAATCTAATACACGTA
* * * ** ** *
12800057 GTATCCTACACTTAGTACTATACATGCGACCTAACTATCTGGTACATGTA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAAAAATCTAATACACGTA
* * * * *
12800107 GTAGCCTGCACTTAGAACTATACACGTGACCTAAAACCATCTTAA-ACACATA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAAAA--ATC-TAATACACGTA
12800159 GTAGCCT
1 GTAGCCT
12800166 GCGCATATTA
Statistics
Matches: 160, Mismatches: 45, Indels: 7
0.75 0.21 0.03
Matches are distributed among these distances:
49 27 0.17
50 82 0.51
51 35 0.22
52 15 0.09
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
GTAGCCTACACTTAGTACTACACACGCGACCTAAAAATCTAATACACGTA
Found at i:12800018 original size:50 final size:50
Alignment explanation
Indices: 12799950--12800165 Score: 173
Period size: 50 Copynumber: 4.3 Consensus size: 50
12799940 AAATCTGGTG
12799950 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATA
1 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATA
* * * * *** ***
12800000 CACGTAGTAGCCTCCACTTAGTACTACACACGAGATCGAAGTTGTCGGGTA
1 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA-CCATCTAATA
* * * * * * * **
12800051 CGCATAGTATCCTACACTTAGTACTATACATGCGACCTAACTATCTGGTA
1 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATA
* * * *
12800101 CATGTAGTAGCCTGCACTTAGAACTATACACGTGACCTAAAACCATCTTAA-A
1 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCT--AACCATC-TAATA
*
12800153 CACATAGTAGCCT
1 CACGTAGTAGCCT
12800166 GCGCATATTA
Statistics
Matches: 127, Mismatches: 35, Indels: 6
0.76 0.21 0.04
Matches are distributed among these distances:
50 73 0.57
51 35 0.28
52 18 0.14
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATA
Found at i:12806843 original size:30 final size:30
Alignment explanation
Indices: 12806809--12806869 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12806799 TCCTTAACTC
12806809 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
12806839 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
12806869 A
1 A
12806870 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:12810298 original size:16 final size:15
Alignment explanation
Indices: 12810274--12810303 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12810264 AACTGTTTTA
12810274 TTACAAATTTCACTC
1 TTACAAATTTCACTC
12810289 TTACATAATTTCACT
1 TTACA-AATTTCACT
12810304 TACTCCATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:12810749 original size:50 final size:50
Alignment explanation
Indices: 12810513--12810750 Score: 174
Period size: 50 Copynumber: 4.8 Consensus size: 50
12810503 ATCTTGTATG
* *** *
12810513 CATAGTAGACTGCACTTAGTACTACACATACAACC-AA-TAATCGGGTGCA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACT-ATCGGGTACA
* * * * * ** * *
12810562 CGTAGTACCCTACACTTAGTGCTACAGATGTGACCTAACCGTCTGGCACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCGGGTACA
* * * * * * *
12810612 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CTATCGGGTACA
* * ** * *
12810663 CATAATAGCCTGTACTTAGTACTATTCATGCGACCTAACTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCGGGTACA
* * *
12810713 CATAGTAGCCTACACTTAGTACTACATATGTAACCTAA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
12810751 AACCATCTTA
Statistics
Matches: 139, Mismatches: 47, Indels: 5
0.73 0.25 0.03
Matches are distributed among these distances:
49 26 0.19
50 77 0.55
51 36 0.26
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCGGGTACA
Found at i:12816242 original size:39 final size:40
Alignment explanation
Indices: 12816142--12816326 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
12816132 TCGAATGATG
* * *
12816142 TCCGGGCTAATTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
12816181 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
12816222 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
12816261 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
12816300 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
12816327 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:12817819 original size:22 final size:23
Alignment explanation
Indices: 12817791--12817833 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12817781 TATCCTCACA
*
12817791 TGGAGTGTAG-GGTTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
12817813 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
12817834 GTAGGATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.53, T:0.26
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:12821316 original size:40 final size:40
Alignment explanation
Indices: 12821272--12821350 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
12821262 TTTTAGTGGT
* * *
12821272 GTTTTCGAAAAAACGA-CGCTAAAGGTTGACCTATAGCGGC
1 GTTTT-GAAAAAACCACCGATAAAGGTCGACCTATAGCGGC
* *
12821312 GTTTTTAAAAAACCACCGATAAAGGTCGACTTATAGCGG
1 GTTTTGAAAAAACCACCGATAAAGGTCGACCTATAGCGG
12821351 TATTTTTTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 8 0.24
40 25 0.76
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (40 bp):
GTTTTGAAAAAACCACCGATAAAGGTCGACCTATAGCGGC
Found at i:12822112 original size:14 final size:14
Alignment explanation
Indices: 12822095--12822157 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
12822085 CTCTAAACAC
12822095 TAAACCCTAACCCA
1 TAAACCCTAACCCA
*
12822109 TAAATCCTAACCCA
1 TAAACCCTAACCCA
*
12822123 TTAACCCTAACTCC-
1 TAAACCCTAAC-CCA
* *
12822137 TAACCCCTAACCCT
1 TAAACCCTAACCCA
12822151 TAAACCC
1 TAAACCC
12822158 ATAAACTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.05
14 37 0.90
15 2 0.05
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAACCCA
Found at i:12822218 original size:22 final size:22
Alignment explanation
Indices: 12822181--12822234 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
12822171 TTTAAATCTC
12822181 AAAC-CTTAAACTATAAACCCT
1 AAACTCTTAAACTATAAACCCT
12822202 AAACTCTTAAA-TCATAAACCCT
1 AAACTCTTAAACT-ATAAACCCT
*
12822224 AAAATCTTAAA
1 AAACTCTTAAA
12822235 AATAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
AAACTCTTAAACTATAAACCCT
Found at i:12822736 original size:42 final size:41
Alignment explanation
Indices: 12822690--12822818 Score: 159
Period size: 42 Copynumber: 3.1 Consensus size: 41
12822680 TCAAGGTTTA
* * * *
12822690 GGGTATTGGGTTCAAATTTTAGTTTATAAGGTTTAGAGTATT
1 GGGTATTGGGTTTAGA-TTTAGTCTATAAGGTTTAGGGTATT
12822732 GGGTATTGGGTTTAGGATTTAGTCTATAAGGTTTAGGGTATT
1 GGGTATTGGGTTTA-GATTTAGTCTATAAGGTTTAGGGTATT
* * * *
12822774 AGGTATTTGGTTTAGGGTTTAGTCTATAGGGTTTAGGGTATT
1 GGGTATTGGGTTTA-GATTTAGTCTATAAGGTTTAGGGTATT
12822816 GGG
1 GGG
12822819 GTTTACTCTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 76 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (41 bp):
GGGTATTGGGTTTAGATTTAGTCTATAAGGTTTAGGGTATT
Found at i:12822764 original size:21 final size:21
Alignment explanation
Indices: 12822740--12822812 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
12822730 TTGGGTATTG
*
12822740 GGTTTAGGATTTAGTCTATAA
1 GGTTTAGGGTTTAGTCTATAA
* **
12822761 GGTTTAGGGTATTAG-GTATTT
1 GGTTTAGGGT-TTAGTCTATAA
*
12822782 GGTTTAGGGTTTAGTCTATAG
1 GGTTTAGGGTTTAGTCTATAA
12822803 GGTTTAGGGT
1 GGTTTAGGGT
12822813 ATTGGGGTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 4 0.09
21 35 0.81
22 4 0.09
ACGTcount: A:0.21, C:0.03, G:0.33, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAGTCTATAA
Found at i:12823266 original size:84 final size:84
Alignment explanation
Indices: 12823167--12823347 Score: 272
Period size: 84 Copynumber: 2.2 Consensus size: 84
12823157 GTGGATTTAG
* * *
12823167 TGGCGGTATCTTATAAACGCCACTAAAAATATGAGAAACCGAATGAAAACTACGTCGTTTTATGT
1 TGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAACCGAATAAAAACTACGTCATTTTATGT
*
12823232 GGTGTGGTTTAGGAATTAC
66 GGTGCGGTTTAGGAATTAC
* * *
12823251 TGGCGCTATCTTATAAACGCCACTAAAAATTTGAGAAACCGAATAAAAACTATGTCATTTTATTT
1 TGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAACCGAATAAAAACTACGTCATTTTATGT
* *
12823316 TGTGCGGTTTAGGAATTAG
66 GGTGCGGTTTAGGAATTAC
*
12823335 TGGCTCTATCTTA
1 TGGCGCTATCTTA
12823348 GAAATACCGT
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (84 bp):
TGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAACCGAATAAAAACTACGTCATTTTATGT
GGTGCGGTTTAGGAATTAC
Found at i:12825793 original size:50 final size:49
Alignment explanation
Indices: 12825709--12825814 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 49
12825699 GTTTACACAA
* * * *
12825709 AACAAA-TAGATCTTAAATTTATATATTCTATCAATTT-GATCTTGATTT
1 AACAAATTAAATCGTAAATTTATATATTCTATCAATTTAG-TCATAATTT
* *
12825757 AACAAATTAAATCGTAATATTTATATCTTCTGTCAATTTAGTCATAATTT
1 AACAAATTAAATCGTAA-ATTTATATATTCTATCAATTTAGTCATAATTT
12825807 AACAAATT
1 AACAAATT
12825815 TAGCTCATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 6 0.12
49 8 0.16
50 34 0.69
51 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (49 bp):
AACAAATTAAATCGTAAATTTATATATTCTATCAATTTAGTCATAATTT
Found at i:12826325 original size:11 final size:9
Alignment explanation
Indices: 12826295--12826378 Score: 71
Period size: 9 Copynumber: 9.1 Consensus size: 9
12826285 TATATCATAT
*
12826295 CATAAGTTA
1 CATAACTTA
12826304 CATAACTTA
1 CATAACTTA
12826313 CATATACCTTA
1 CATA-A-CTTA
*
12826324 CATAAATGTA
1 CATAACT-TA
* * *
12826334 TATCA-TAA
1 CATAACTTA
12826342 CATAACTTA
1 CATAACTTA
12826351 CATAACTTA
1 CATAACTTA
*
12826360 CAAAACTTA
1 CATAACTTA
*
12826369 CTTAACTTA
1 CATAACTTA
12826378 C
1 C
12826379 GTAATACATA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
8 4 0.07
9 41 0.68
10 7 0.12
11 8 0.13
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:12828181 original size:12 final size:12
Alignment explanation
Indices: 12828164--12828189 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12828154 AAGATCGAGG
12828164 GATGAATCTGAT
1 GATGAATCTGAT
12828176 GATGAATCTGAT
1 GATGAATCTGAT
12828188 GA
1 GA
12828190 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:12831529 original size:13 final size:14
Alignment explanation
Indices: 12831513--12831541 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12831503 TTATAAATAT
12831513 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
12831526 TTATAATTGTTTAA
1 TTATAATTGTTTAA
12831540 TT
1 TT
12831542 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:12839880 original size:7 final size:6
Alignment explanation
Indices: 12839860--12839899 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
12839850 TAAACTCATA
*
12839860 TTATTT TTATTTT TTCATTT TTATTT TTATTT CTATTT TT
1 TTATTT TTA-TTT TT-ATTT TTATTT TTATTT TTATTT TT
12839900 TTTGAAGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.63
7 10 0.33
8 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:12843682 original size:13 final size:13
Alignment explanation
Indices: 12843664--12843688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12843654 TAATGGTATA
12843664 TTGAATCCATGAC
1 TTGAATCCATGAC
12843677 TTGAATCCATGA
1 TTGAATCCATGA
12843689 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:12844272 original size:27 final size:27
Alignment explanation
Indices: 12844237--12844415 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
12844227 TTAAATTGTA
12844237 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
12844264 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
12844291 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
12844318 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
12844346 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
12844373 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
12844400 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
12844416 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:12844353 original size:82 final size:81
Alignment explanation
Indices: 12844239--12844394 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
12844229 AAATTGTATA
* *
12844239 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
12844303 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
12844320 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
12844385 TGCGAGTTGA
65 TGCGAATTGA
12844395 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:12844406 original size:82 final size:81
Alignment explanation
Indices: 12844235--12844415 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
12844225 GATTAAATTG
* *
12844235 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
12844300 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
12844316 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
12844380 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
12844398 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
12844416 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:12866077 original size:37 final size:37
Alignment explanation
Indices: 12866027--12866100 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
12866017 CAGAATTATA
*
12866027 TCAAATTCGTCGAAAGGCAAAAGCATCATATCAGCAG
1 TCAAATTCGTCGAAAGGCAAAAGCATCAGATCAGCAG
12866064 TCAAATTCGTCGAAAGGCAAAAGCATCAGATCAGCAG
1 TCAAATTCGTCGAAAGGCAAAAGCATCAGATCAGCAG
12866101 GAAAACAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (37 bp):
TCAAATTCGTCGAAAGGCAAAAGCATCAGATCAGCAG
Found at i:12866746 original size:20 final size:20
Alignment explanation
Indices: 12866709--12866746 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12866699 TTCAAATGTC
*
12866709 CTATATCATCCTTTGAATGG
1 CTATATCATCCTTAGAATGG
12866729 CTATAGTCATCC-TAGAAT
1 CTATA-TCATCCTTAGAAT
12866747 TTTTTTGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (20 bp):
CTATATCATCCTTAGAATGG
Done.