Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 112 of 230
Found at i:32471808 original size:18 final size:18
Alignment explanation
Indices: 32471766--32471808 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
32471756 GCCCATTCCG
*
32471766 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
32471784 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
32471802 AAGTATG
1 AAGTATG
32471809 CCCATTCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:32472330 original size:27 final size:28
Alignment explanation
Indices: 32472246--32472340 Score: 122
Period size: 27 Copynumber: 3.4 Consensus size: 28
32472236 CATGAGATTG
* * *
32472246 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
32472275 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
32472303 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
32472330 GCACTGAGTGT
1 GCACTAAGTGT
32472341 ACGGACTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 21 0.34
28 21 0.34
29 19 0.31
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:32472354 original size:27 final size:27
Alignment explanation
Indices: 32472274--32472356 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
32472264 TAAATTGTTC
* * *
32472274 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * *
32472302 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTACGACTTGAATATAT
*
32472329 AGCACTGAGTGTACGGACTT-AATATAT
1 AGCACTAAGTGTAC-GACTTGAATATAT
32472356 A
1 A
32472357 TTTCTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTACGACTTGAATATAT
Found at i:32476926 original size:32 final size:32
Alignment explanation
Indices: 32476890--32476953 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
32476880 AATATTATAA
32476890 TGTGGTTAGATAATATATATTTTATATATCAT
1 TGTGGTTAGATAATATATATTTTATATATCAT
32476922 TGTGGTTAGATAATATATATTTTATATATCAT
1 TGTGGTTAGATAATATATATTTTATATATCAT
32476954 ACCACAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (32 bp):
TGTGGTTAGATAATATATATTTTATATATCAT
Found at i:32479705 original size:50 final size:48
Alignment explanation
Indices: 32479591--32479823 Score: 247
Period size: 50 Copynumber: 4.8 Consensus size: 48
32479581 ATATCGGTGC
* * * ** *
32479591 CGATGCCATGTCCTAAACATGGTCTTACACTGGCACTCCTC-TCGAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGTCCTGT
* * * * *
32479638 CAATGCCATATCCCAGACATGGTCTTACACTAACTCTTCTCTGTCCATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTC-GTCC-TGT
32479688 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCAGT-CTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTC-GTCCTGT
* *
32479736 ACCGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCCTCGAT-CTGT
1 --CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCG-TCCTGT
*
32479786 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 --CGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
32479824 ACTTACTGCC
Statistics
Matches: 159, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
47 33 0.21
48 3 0.02
49 4 0.03
50 119 0.75
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGTCCTGT
Found at i:32479797 original size:100 final size:97
Alignment explanation
Indices: 32479587--32479823 Score: 298
Period size: 100 Copynumber: 2.4 Consensus size: 97
32479577 TCACATATCG
* *
32479587 GTGCCGATGCCATGTCCTAAACATGGTCTTACACTGGCACTCCTCTCGAGCCAATGCCATATCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTCGAGCCAATGCCATATCCC
* *
32479652 AGACATGGTCTTACACTAACTCTTCTCTGTCC
66 AGACATGGTCTTACACTAACACTCCTCTGTCC
* * * * *
32479684 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCAGTCTGTA-CCGATGCCATG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTC--TC-G-AGCCAATGCCATA
* ** *
32479748 TCCTAGACATGGTCTTACACTGGCACTCCTC-GATCT
62 TCCCAGACATGGTCTTACACTAACACTCCTCTG-TCC
32479784 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
32479824 ACTTACTGCC
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
97 40 0.34
99 3 0.03
100 75 0.63
101 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (97 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCTCGAGCCAATGCCATATCCC
AGACATGGTCTTACACTAACACTCCTCTGTCC
Found at i:32479893 original size:44 final size:44
Alignment explanation
Indices: 32479844--32479936 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
32479834 ATGGTCCAAC
*
32479844 CATGGTCTTTTCCGTCAATTCTTTCTTAATTGCCATGTTATAAA
1 CATGGTCTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
32479888 CATGGTCTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
1 CATGGTCTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
*
32479932 AATGG
1 CATGG
32479937 ACCTTGAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (44 bp):
CATGGTCTTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
Found at i:32481409 original size:183 final size:183
Alignment explanation
Indices: 32481101--32481467 Score: 734
Period size: 183 Copynumber: 2.0 Consensus size: 183
32481091 AATTTCTATT
32481101 TAAGGACCTCTACTTTAAACTCTCATTTCAGTTAAGTACTTTATGAACTAGAACACATATTTTGC
1 TAAGGACCTCTACTTTAAACTCTCATTTCAGTTAAGTACTTTATGAACTAGAACACATATTTTGC
32481166 AACTTTTGCAAATAAATCCTAATAGACAAATTAAACATGCAATCTATAAAATTCTTATCGTTAGT
66 AACTTTTGCAAATAAATCCTAATAGACAAATTAAACATGCAATCTATAAAATTCTTATCGTTAGT
32481231 CTAACACATGCATCCAATCAATCGGTAAATCATGATAATTCATCATAATAAAC
131 CTAACACATGCATCCAATCAATCGGTAAATCATGATAATTCATCATAATAAAC
32481284 TAAGGACCTCTACTTTAAACTCTCATTTCAGTTAAGTACTTTATGAACTAGAACACATATTTTGC
1 TAAGGACCTCTACTTTAAACTCTCATTTCAGTTAAGTACTTTATGAACTAGAACACATATTTTGC
32481349 AACTTTTGCAAATAAATCCTAATAGACAAATTAAACATGCAATCTATAAAATTCTTATCGTTAGT
66 AACTTTTGCAAATAAATCCTAATAGACAAATTAAACATGCAATCTATAAAATTCTTATCGTTAGT
32481414 CTAACACATGCATCCAATCAATCGGTAAATCATGATAATTCATCATAATAAAC
131 CTAACACATGCATCCAATCAATCGGTAAATCATGATAATTCATCATAATAAAC
32481467 T
1 T
32481468 TTTCTATTTC
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 184 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (183 bp):
TAAGGACCTCTACTTTAAACTCTCATTTCAGTTAAGTACTTTATGAACTAGAACACATATTTTGC
AACTTTTGCAAATAAATCCTAATAGACAAATTAAACATGCAATCTATAAAATTCTTATCGTTAGT
CTAACACATGCATCCAATCAATCGGTAAATCATGATAATTCATCATAATAAAC
Found at i:32481692 original size:44 final size:42
Alignment explanation
Indices: 32481607--32481692 Score: 100
Period size: 44 Copynumber: 2.0 Consensus size: 42
32481597 ATTGTAAATT
* * *** *
32481607 AAAATATAATTATTTTTAAATGTGTAATTATTGCAACTTCTA
1 AAAATATAATTATTTTAAAATGTATAATTATCAAAAATTCTA
32481649 AAAATTATAATTATTTTCAAAATGTATAATTATCAAAAATTCTA
1 AAAA-TATAATTATTTT-AAAATGTATAATTATCAAAAATTCTA
32481693 TTTTACTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 4 0.11
43 12 0.33
44 20 0.56
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (42 bp):
AAAATATAATTATTTTAAAATGTATAATTATCAAAAATTCTA
Found at i:32483660 original size:4 final size:4
Alignment explanation
Indices: 32483651--32483679 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
32483641 ACTTCATGAA
32483651 TTAT TTAT TTAT TTAT TTAT TTA- TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
32483680 TCGACATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:32487489 original size:41 final size:40
Alignment explanation
Indices: 32487425--32487543 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 40
32487415 TCACATATCG
* * * * *
32487425 ATGCCACTGTCCCAGATAGGGTCTTACACGAAACAAATACG
1 ATGCCAATGTCTCAGACATGGTCTTACACGAAACAAAT-CA
* * *
32487466 ATGCCAATGTTTCAGACATGGTCTTACGCGTAACACAAGTCA
1 ATGCCAATGTCTCAGACATGGTCTTACACG-AA-ACAAATCA
*
32487508 ATGCCAATGTCTCAGACGTGGTCTTACACGATAACA
1 ATGCCAATGTCTCAGACATGGTCTTACACGA-AACA
32487544 TATATCGTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 28 0.44
42 31 0.48
43 5 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (40 bp):
ATGCCAATGTCTCAGACATGGTCTTACACGAAACAAATCA
Found at i:32490031 original size:9 final size:9
Alignment explanation
Indices: 32490019--32490043 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32490009 CAAGAAACCG
32490019 AATCTTGGA
1 AATCTTGGA
32490028 AATCTTGGA
1 AATCTTGGA
32490037 AATCTTG
1 AATCTTG
32490044 CAGCTAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (9 bp):
AATCTTGGA
Found at i:32495607 original size:23 final size:23
Alignment explanation
Indices: 32495564--32495607 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
32495554 GCATTCTCTT
**
32495564 AAAATCACAAAAGTTGTATAAAA
1 AAAATCACAAAAGGAGTATAAAA
32495587 AAAATTCACAAAAGGAG-ATAA
1 AAAA-TCACAAAAGGAGTATAA
32495608 TAAGATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAATCACAAAAGGAGTATAAAA
Found at i:32503282 original size:62 final size:62
Alignment explanation
Indices: 32503185--32503308 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
32503175 TTGACGGGCC
*
32503185 ATGTTTTGTTTGCATTACCTTACTTGTCATCTACAAATCATAAGTATGTTATCTATTTTCCT
1 ATGTTTTGTTTGCATTACCTTACTTGTAATCTACAAATCATAAGTATGTTATCTATTTTCCT
32503247 ATGTTTTGTTTGCATTACCTTACTTGTAATCTACAAATCATAAGTATGTTATCTATTTTCCT
1 ATGTTTTGTTTGCATTACCTTACTTGTAATCTACAAATCATAAGTATGTTATCTATTTTCCT
32503309 CAACTTTATC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (62 bp):
ATGTTTTGTTTGCATTACCTTACTTGTAATCTACAAATCATAAGTATGTTATCTATTTTCCT
Found at i:32518658 original size:40 final size:40
Alignment explanation
Indices: 32518613--32518699 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
32518603 AACTTGTCAT
32518613 TTACTTGTCACTTTATTACTTGATAACGGTTGTCACTTTA
1 TTACTTGTCACTTTATTACTTGATAACGGTTGTCACTTTA
*
32518653 TTACTTGTCACTTTATTACTTGATAATGGTTGTCACTTTA
1 TTACTTGTCACTTTATTACTTGATAACGGTTGTCACTTTA
32518693 TTACTTG
1 TTACTTG
32518700 ATAACGGTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (40 bp):
TTACTTGTCACTTTATTACTTGATAACGGTTGTCACTTTA
Found at i:32518662 original size:15 final size:15
Alignment explanation
Indices: 32518642--32518674 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
32518632 TTGATAACGG
32518642 TTGTCACTTTATTAC
1 TTGTCACTTTATTAC
32518657 TTGTCACTTTATTAC
1 TTGTCACTTTATTAC
32518672 TTG
1 TTG
32518675 ATAATGGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (15 bp):
TTGTCACTTTATTAC
Found at i:32518685 original size:25 final size:25
Alignment explanation
Indices: 32518657--32518710 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
32518647 ACTTTATTAC
*
32518657 TTGTCACTTTATTACTTGATAATGG
1 TTGTCACTTTATTACTTGATAACGG
32518682 TTGTCACTTTATTACTTGATAACGG
1 TTGTCACTTTATTACTTGATAACGG
32518707 TTGT
1 TTGT
32518711 GTACACTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (25 bp):
TTGTCACTTTATTACTTGATAACGG
Found at i:32523016 original size:51 final size:51
Alignment explanation
Indices: 32522935--32523051 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
32522925 CTATAAACAC
* *
32522935 GTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATA-GATAATGGTCACAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-AGGAT-ATGGTCACAT
* * * *
32522986 GTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCACGT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAGGATATGGTCACAT
32523037 GTGTAGTACTATGTG
1 GTGTAGTACTATGTG
32523052 TATTTGATCA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
51 54 0.93
52 4 0.07
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (51 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAGGATATGGTCACAT
Found at i:32523057 original size:28 final size:28
Alignment explanation
Indices: 32523026--32523079 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
32523016 ACCGGAAGGC
*
32523026 TTTGGTCACGTGTGTAGTACTATGTGTA
1 TTTGATCACGTGTGTAGTACTATGTGTA
32523054 TTTGATCACGTGTGTAGTACTATGTG
1 TTTGATCACGTGTGTAGTACTATGTG
32523080 AAGGCTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.43
Consensus pattern (28 bp):
TTTGATCACGTGTGTAGTACTATGTGTA
Found at i:32533222 original size:101 final size:102
Alignment explanation
Indices: 32533106--32533290 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
32533096 AAAGTGATGG
* *
32533106 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGCCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGAT-GGCCACATGTGTAGT
*
32533169 ACTATGTGCAGTCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
32533207 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGATGGCCACATGTGTAGTA
32533272 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
32533291 TGAACCGGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 39 0.51
102 33 0.43
103 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTACCAGATAGTGATGGCCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:32533236 original size:51 final size:50
Alignment explanation
Indices: 32533106--32533290 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
32533096 AAAGTGATGG
* * * * *
32533106 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-AT-GA
* * *
32533156 CCGCATGTGTAGTACTATGTGCAGTCTACTATGCGTACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GA
* * * * * *
32533207 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGA
32533258 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
32533291 TGAACCGGTA
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
50 36 0.33
51 71 0.65
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGA
Found at i:32533360 original size:33 final size:33
Alignment explanation
Indices: 32533318--32533445 Score: 139
Period size: 33 Copynumber: 3.6 Consensus size: 33
32533308 ATATAAAAGG
32533318 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
32533351 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
* *
32533393 GGTTGCTAAGTGCTGATTCTCCAATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
32533426 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
32533446 ACCGTATCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 41 0.52
34 3 0.04
35 1 0.01
36 1 0.01
37 4 0.05
38 4 0.05
39 1 0.01
40 1 0.01
41 2 0.03
42 21 0.27
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:32533439 original size:75 final size:76
Alignment explanation
Indices: 32533313--32533525 Score: 313
Period size: 75 Copynumber: 2.8 Consensus size: 76
32533303 TTTGAATATA
*
32533313 AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
*
32533378 -TTTAAATGTG
66 CATTAAATGTG
* *
32533388 AAGGGGGTTGCTAAGTGCTGATTCTCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
*
32533453 CATTGAATGTG
66 CATTAAATGTG
* * * * *
32533464 AAAGGGGTTGCTAAGTGTTGATTCCCCGAA-TCACTAGTGGTTGCTAAGTGCTAAATCCACCG
1 AAAGGGGTTGCTAAGTGCTGATTCCCC-AATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
32533526 ATAACGGATA
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
75 62 0.50
76 60 0.48
77 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (76 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
CATTAAATGTG
Found at i:32548916 original size:47 final size:47
Alignment explanation
Indices: 32548838--32549198 Score: 544
Period size: 47 Copynumber: 7.6 Consensus size: 47
32548828 CCCTTCGGGA
* * * * * *
32548838 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32548884 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32548932 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32548979 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32549028 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32549077 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32549126 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32549173 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
32549199 CACAATTATC
Statistics
Matches: 295, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 148 0.50
48 2 0.01
49 143 0.48
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:32549012 original size:49 final size:49
Alignment explanation
Indices: 32548838--32549198 Score: 555
Period size: 49 Copynumber: 7.6 Consensus size: 49
32548828 CCCTTCGGGA
* * * * *
32548838 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32548884 CTCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32548932 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32548979 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32549028 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32549077 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32549126 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32549173 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
32549199 CACAATTATC
Statistics
Matches: 294, Mismatches: 13, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
46 3 0.01
47 137 0.47
48 2 0.01
49 152 0.52
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:32549035 original size:96 final size:96
Alignment explanation
Indices: 32548838--32549198 Score: 570
Period size: 96 Copynumber: 3.8 Consensus size: 96
32548828 CCCTTCGGGA
* * * * * * *
32548838 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCAC--ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATATA
32548900 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
32548932 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
32548997 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
32549028 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
32549093 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
32549126 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
32549191 A--TTCACAT
66 ACTTTCACAT
32549199 CACAATTATC
Statistics
Matches: 251, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
94 51 0.20
95 2 0.01
96 104 0.41
98 94 0.37
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:32565427 original size:26 final size:25
Alignment explanation
Indices: 32565381--32565432 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
32565371 CTGATCAAAA
*
32565381 AGGGGTTTCTAAGTGCAGATTCTCCG
1 AGGGGTTGCTAAGTGCAGATTC-CCG
**
32565407 AGGGGTTGCTAAGTGTTGATTCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCG
32565432 A
1 A
32565433 ATTATTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (25 bp):
AGGGGTTGCTAAGTGCAGATTCCCG
Found at i:32565498 original size:43 final size:41
Alignment explanation
Indices: 32565410--32565553 Score: 132
Period size: 41 Copynumber: 3.5 Consensus size: 41
32565400 TTCTCCGAGG
* * ** *
32565410 GGTTGCTAAGTGTTGATTCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCGTATCCTTGATTATAAAGGT
*
32565451 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATT-C-CCGTATCCTTGATTAT-AAAGGT
* * * * *
32565494 GGTTGTTATGTGATCATTCCCGTATCAC-TGAATAT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCGTATC-CTTGATTATAAAGGT
32565534 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
32565554 ACCGAGTAAC
Statistics
Matches: 83, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
39 4 0.05
40 16 0.19
41 29 0.35
42 3 0.04
43 26 0.31
44 5 0.06
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCCGTATCCTTGATTATAAAGGT
Found at i:32570980 original size:11 final size:11
Alignment explanation
Indices: 32570964--32570989 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32570954 CTAATTTAGC
32570964 TAACTTTAATT
1 TAACTTTAATT
32570975 TAACTTTAATT
1 TAACTTTAATT
32570986 TAAC
1 TAAC
32570990 CTTTGCTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (11 bp):
TAACTTTAATT
Found at i:32573525 original size:27 final size:27
Alignment explanation
Indices: 32573508--32573653 Score: 215
Period size: 27 Copynumber: 5.4 Consensus size: 27
32573498 TATAACAGTG
*
32573508 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
32573535 ATTTTACCCTAT-GGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
32573561 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
32573588 ATTTTATCCTATGGGGGTATTTCG-GC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
32573614 TATTTTACACTATAGGGGTATTTCGATC
1 -ATTTTACCCTATGGGGGTATTTCGATC
*
32573642 ATTTTATCCTAT
1 ATTTTACCCTAT
32573654 TTTGGGGTCT
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
26 26 0.24
27 80 0.75
28 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGATC
Found at i:32577041 original size:27 final size:27
Alignment explanation
Indices: 32577011--32577068 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
32577001 TCATCTCCTA
*
32577011 GGGGCATAAT-AGTGATTTTACTCTATG
1 GGGGCAT-ATCAGTCATTTTACTCTATG
* * *
32577038 GGGGTATTTCGGTCATTTTACTCTATG
1 GGGGCATATCAGTCATTTTACTCTATG
32577065 GGGG
1 GGGG
32577069 TTTTTTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (27 bp):
GGGGCATATCAGTCATTTTACTCTATG
Found at i:32577069 original size:27 final size:27
Alignment explanation
Indices: 32577025--32577144 Score: 143
Period size: 27 Copynumber: 4.4 Consensus size: 27
32577015 CATAATAGTG
32577025 ATTTTACTCTATGGGGGTATTTCGGTC
1 ATTTTACTCTATGGGGGTATTTCGGTC
* * *
32577052 ATTTTACTCTATGGGGGTTTTTTGGTT
1 ATTTTACTCTATGGGGGTATTTCGGTC
*
32577079 ATTTTA-TCCTATGGGGATATTTCGGTC
1 ATTTTACT-CTATGGGGGTATTTCGGTC
* ** *
32577106 ATTTTACCCTATAAGGGTATTTCGATC
1 ATTTTACTCTATGGGGGTATTTCGGTC
*
32577133 ATTTTACCCTAT
1 ATTTTACTCTAT
32577145 TTTGGGGTCT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.99
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (27 bp):
ATTTTACTCTATGGGGGTATTTCGGTC
Found at i:32577422 original size:20 final size:20
Alignment explanation
Indices: 32577397--32577434 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32577387 TTAGCCCACA
*
32577397 TGGCCCATTTCGGCCTAACG
1 TGGCCCATTACGGCCTAACG
32577417 TGGCCCATTACGGCCTAA
1 TGGCCCATTACGGCCTAA
32577435 GCCCATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.34, G:0.24, T:0.24
Consensus pattern (20 bp):
TGGCCCATTACGGCCTAACG
Found at i:32581301 original size:25 final size:25
Alignment explanation
Indices: 32581256--32581303 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32581246 GAATCTTTAC
*
32581256 TATTTATTGTGTCATTTTATTTATT
1 TATTTATTGTATCATTTTATTTATT
*
32581281 TATTTATT-TATCCTTTCTATTTA
1 TATTTATTGTATCATTT-TATTTA
32581304 ATTAGGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (25 bp):
TATTTATTGTATCATTTTATTTATT
Found at i:32585782 original size:22 final size:23
Alignment explanation
Indices: 32585733--32585784 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
32585723 GAATAAATTG
* *
32585733 TAATTTTTATAATAGTAAATTAA
1 TAATTTTTAAAACAGTAAATTAA
*
32585756 TAATTTTTAAAACATTAAATTAA
1 TAATTTTTAAAACAGTAAATTAA
32585779 -AATTTT
1 TAATTTT
32585785 ATCATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATTTTTAAAACAGTAAATTAA
Found at i:32585989 original size:14 final size:15
Alignment explanation
Indices: 32585970--32585999 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32585960 CTTAAACCAG
32585970 ATTTTT-AAATTTTT
1 ATTTTTAAAATTTTT
32585984 ATTTTTAAAATTTTT
1 ATTTTTAAAATTTTT
32585999 A
1 A
32586000 AAATTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTAAAATTTTT
Found at i:32589091 original size:26 final size:26
Alignment explanation
Indices: 32589045--32589097 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
32589035 CTGATCAAAA
* *
32589045 AGGGGTTTCTAAGTGCAGATTCTCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
**
32589071 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
32589097 A
1 A
32589098 ATTATTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAGATTCCCCG
Found at i:32589114 original size:67 final size:68
Alignment explanation
Indices: 32589004--32589134 Score: 162
Period size: 67 Copynumber: 1.9 Consensus size: 68
32588994 ATTGAATGTA
*
32589004 AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGG-GGTTTCTAAGTGCAGATTCT
1 AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGGTGGTTGCTAAGTGCAGATTCT
32589068 CCG
66 CCG
** * *
32589071 AGGGGTTGCTAAGTGTTGATTCCCCGAATTA-T-TGATTC-TAAAGGTGGTTGCTAAGTGCTGAT
1 AGGGGTTGCTAAGTGCAGATTCCCCGAA--ACTCTGA-TCAAAAAGGTGGTTGCTAAGTGCAGAT
32589133 TC
63 TC
32589135 CACCGTATCC
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
67 34 0.62
68 20 0.36
69 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (68 bp):
AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGGTGGTTGCTAAGTGCAGATTCT
CCG
Found at i:32589121 original size:42 final size:43
Alignment explanation
Indices: 32589074--32589224 Score: 148
Period size: 42 Copynumber: 3.6 Consensus size: 43
32589064 TTCTCCGAGG
* * *
32589074 GGTTGCTAAGTGTTGATTCC-CCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
* * *
32589116 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTAT-AAAGGT
* * * * * * *
32589159 GGTTGTTATGTGATCATTCC-CCGTATCACTGAATAT-AAGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
32589200 GGTTGCTAAGTGCTGATTCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
32589225 GTAACGGTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 4 0.05
41 16 0.18
42 34 0.39
43 28 0.32
44 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
Found at i:32594675 original size:11 final size:11
Alignment explanation
Indices: 32594659--32594686 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
32594649 CTAATTTAGC
32594659 TAACTTTAATT
1 TAACTTTAATT
32594670 TAACTTTAATT
1 TAACTTTAATT
32594681 TAACTT
1 TAACTT
32594687 GCTTCCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (11 bp):
TAACTTTAATT
Found at i:32597249 original size:26 final size:27
Alignment explanation
Indices: 32597200--32597344 Score: 206
Period size: 27 Copynumber: 5.4 Consensus size: 27
32597190 TATAACAGTG
*
32597200 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATC
32597227 ATTTTACCCTAT-GGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
32597253 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
32597280 ATTTTATCCTAT-GGGGTATTTCG-GC
1 ATTTTACCCTATGGGGGTATTTCGATC
* *
32597305 TATTTTACACTATAGGGGTATTTCGATC
1 -ATTTTACCCTATGGGGGTATTTCGATC
*
32597333 ATTTTATCCTAT
1 ATTTTACCCTAT
32597345 TTTGGGGTCT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
25 1 0.01
26 46 0.43
27 58 0.55
28 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGATC
Found at i:32597257 original size:53 final size:53
Alignment explanation
Indices: 32597200--32597344 Score: 229
Period size: 53 Copynumber: 2.7 Consensus size: 53
32597190 TATAACAGTG
* * *
32597200 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTC-GAT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTATCCTATGGGGTATTTCGGCT
32597252 CATTTTACCCTATGGGGGTATTTCGATCATTTTATCCTATGGGGTATTTCGGCT
1 -ATTTTACCCTATGGGGGTATTTCGATCATTTTATCCTATGGGGTATTTCGGCT
* *
32597306 ATTTTACACTATAGGGGTATTTCGATCATTTTATCCTAT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTATCCTAT
32597345 TTTGGGGTCT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 84 0.98
54 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTTTATCCTATGGGGTATTTCGGCT
Found at i:32600722 original size:27 final size:27
Alignment explanation
Indices: 32600692--32600749 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
32600682 TCATCTCCTA
*
32600692 GGGGCATAAT-AGTGATTTTACTCTATG
1 GGGGCAT-ATCAGTCATTTTACTCTATG
* * *
32600719 GGGGTATTTCGGTCATTTTACTCTATG
1 GGGGCATATCAGTCATTTTACTCTATG
32600746 GGGG
1 GGGG
32600750 TTTTTTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (27 bp):
GGGGCATATCAGTCATTTTACTCTATG
Found at i:32600750 original size:27 final size:27
Alignment explanation
Indices: 32600706--32600825 Score: 143
Period size: 27 Copynumber: 4.4 Consensus size: 27
32600696 CATAATAGTG
32600706 ATTTTACTCTATGGGGGTATTTCGGTC
1 ATTTTACTCTATGGGGGTATTTCGGTC
* * *
32600733 ATTTTACTCTATGGGGGTTTTTTGGTT
1 ATTTTACTCTATGGGGGTATTTCGGTC
*
32600760 ATTTTA-TCCTATGGGGATATTTCGGTC
1 ATTTTACT-CTATGGGGGTATTTCGGTC
* ** *
32600787 ATTTTACCCTATAAGGGTATTTCGATC
1 ATTTTACTCTATGGGGGTATTTCGGTC
*
32600814 ATTTTACCCTAT
1 ATTTTACTCTAT
32600826 TTTGGGGTCT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.99
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (27 bp):
ATTTTACTCTATGGGGGTATTTCGGTC
Found at i:32601101 original size:20 final size:20
Alignment explanation
Indices: 32601076--32601113 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32601066 TTAGCCCACA
*
32601076 TGGCCCATTTCGGCCTAACG
1 TGGCCCATTACGGCCTAACG
32601096 TGGCCCATTACGGCCTAA
1 TGGCCCATTACGGCCTAA
32601114 GCCATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.34, G:0.24, T:0.24
Consensus pattern (20 bp):
TGGCCCATTACGGCCTAACG
Found at i:32604869 original size:25 final size:25
Alignment explanation
Indices: 32604824--32604871 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32604814 GAATCTTTAC
*
32604824 TATTTATTGTGTCATTTTATTTATT
1 TATTTATTGTATCATTTTATTTATT
*
32604849 TATTTATT-TATCCTTTCTATTTA
1 TATTTATTGTATCATTT-TATTTA
32604872 ATAGGTCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (25 bp):
TATTTATTGTATCATTTTATTTATT
Found at i:32621430 original size:23 final size:21
Alignment explanation
Indices: 32621398--32621448 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
32621388 TATATTTTAA
*
32621398 TAATTTATTAA-TAAAATTGAGTT
1 TAATTAATTAAGT-AAATTGA--T
32621421 TAATTAATTAAGTAAATTGAT
1 TAATTAATTAAGTAAATTGAT
32621442 TAATTAA
1 TAATTAA
32621449 AGTGGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (21 bp):
TAATTAATTAAGTAAATTGAT
Found at i:32621861 original size:7 final size:7
Alignment explanation
Indices: 32621849--32621890 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
32621839 ATTTTTTAAG
32621849 CATCCCT
1 CATCCCT
32621856 CATCCCT
1 CATCCCT
32621863 CATCCCT
1 CATCCCT
32621870 CATCCTTCT
1 CATCC--CT
*
32621879 CATCTCT
1 CATCCCT
32621886 CATCC
1 CATCC
32621891 TCTCTCTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 25 0.81
9 6 0.19
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.33
Consensus pattern (7 bp):
CATCCCT
Found at i:32621868 original size:14 final size:15
Alignment explanation
Indices: 32621849--32621894 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 15
32621839 ATTTTTTAAG
32621849 CATCCCTCATCC-CT
1 CATCCCTCATCCTCT
32621863 CATCCCTCATCCTTCT
1 CATCCCTCATCC-TCT
*
32621879 CATCTCTCATCCTCT
1 CATCCCTCATCCTCT
32621894 C
1 C
32621895 TCTCAACTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 13 0.45
ACGTcount: A:0.13, C:0.52, G:0.00, T:0.35
Consensus pattern (15 bp):
CATCCCTCATCCTCT
Found at i:32643585 original size:22 final size:22
Alignment explanation
Indices: 32643557--32643600 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32643547 TTTTGAACCA
32643557 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
32643579 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
32643601 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:32648805 original size:13 final size:12
Alignment explanation
Indices: 32648787--32648851 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 12
32648777 ATAGGTACGT
*
32648787 AAAAAAAGTTCA
1 AAAAAAAATTCA
*
32648799 AAAAAAAATT-G
1 AAAAAAAATTCA
32648810 AAAAAAAA---A
1 AAAAAAAATTCA
*
32648819 AAAAAAAATT-G
1 AAAAAAAATTCA
*
32648830 AAAAAAAATTGA
1 AAAAAAAATTCA
32648842 AGAAAAAAAT
1 A-AAAAAAAT
32648852 CGTATACGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 8 0.18
11 18 0.41
12 10 0.23
13 8 0.18
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:32648813 original size:11 final size:11
Alignment explanation
Indices: 32648799--32648849 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
32648789 AAAAAGTTCA
32648799 AAAAAAAATTG
1 AAAAAAAATTG
*
32648810 AAAAAAAA--A
1 AAAAAAAATTG
32648819 AAAAAAAATTG
1 AAAAAAAATTG
32648830 AAAAAAAATTG
1 AAAAAAAATTG
32648841 AAGAAAAAA
1 AA-AAAAAA
32648850 ATCGTATACG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 8 0.23
11 21 0.60
12 6 0.17
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:32648822 original size:19 final size:20
Alignment explanation
Indices: 32648798--32648837 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32648788 AAAAAAGTTC
32648798 AAAAAAAAATTGAAAAAAAA
1 AAAAAAAAATTGAAAAAAAA
32648818 AAAAAAAAATTGAAAAAAAA
1 AAAAAAAAATTGAAAAAAAA
32648838 TTGAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAAAAATTGAAAAAAAA
Found at i:32653310 original size:21 final size:21
Alignment explanation
Indices: 32653251--32653311 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
32653241 TTTGAACCAT
*
32653251 TACCAATTT-GTACCAAATACCA
1 TACC-ATTTCGTACC-AATTCCA
*
32653273 TACC-TTTCATA-CAATTCCA
1 TACCATTTCGTACCAATTCCA
32653292 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
32653312 CAATACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.30
20 10 0.30
21 9 0.27
22 4 0.12
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.33
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:32653649 original size:20 final size:22
Alignment explanation
Indices: 32653623--32653664 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
32653613 AAAAGTTCAA
*
32653623 AAAAAAATTTGAAA-AAAAAAC
1 AAAAAAATTCGAAAGAAAAAAC
32653644 AAAAAAATTCGAAAGAAAAAA
1 AAAAAAATTCGAAAGAAAAAA
32653665 AATTGAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAAAAATTCGAAAGAAAAAAC
Found at i:32653663 original size:36 final size:35
Alignment explanation
Indices: 32653608--32653679 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 35
32653598 ATAGGTACGT
*
32653608 ACAAAAAAAGTTCAAAAAAAAATTTGAAA-AAAAA
1 ACAAAAAAAGTTCAAAAAAAAAATTGAAAGAAAAA
32653642 ACAAAAAAA-TTCGAAAGAAAAAAAATTGAAAGAAAAA
1 ACAAAAAAAGTTC--AA-AAAAAAAATTGAAAGAAAAA
32653679 A
1 A
32653680 ATCGTATACG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
33 3 0.09
34 9 0.27
35 2 0.06
36 13 0.39
37 6 0.18
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (35 bp):
ACAAAAAAAGTTCAAAAAAAAAATTGAAAGAAAAA
Found at i:32653665 original size:16 final size:15
Alignment explanation
Indices: 32653644--32653680 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
32653634 AAAAAAAAAC
32653644 AAAAAAATTCGAAAGA
1 AAAAAAATT-GAAAGA
32653660 AAAAAAATTGAAAGA
1 AAAAAAATTGAAAGA
32653675 AAAAAA
1 AAAAAA
32653681 TCGTATACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAAAATTGAAAGA
Found at i:32672731 original size:16 final size:17
Alignment explanation
Indices: 32672707--32672739 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
32672697 AAAGCAAACT
*
32672707 TACACATAGTTTCAATG
1 TACACATAGTTACAATG
32672724 TACA-ATAGTTACAATG
1 TACACATAGTTACAATG
32672740 GCGTTTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (17 bp):
TACACATAGTTACAATG
Found at i:32675348 original size:30 final size:30
Alignment explanation
Indices: 32675312--32675369 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32675302 CGTGTTGGCA
* *
32675312 GTTATCTACTGGCCCTTCGGGGTGACACTG
1 GTTATCTACTAGCCCTTCGGGGTAACACTG
* *
32675342 GTTATCTACTAGTCCTTTGGGGTAACAC
1 GTTATCTACTAGCCCTTCGGGGTAACAC
32675370 CATGTTGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (30 bp):
GTTATCTACTAGCCCTTCGGGGTAACACTG
Found at i:32675480 original size:35 final size:36
Alignment explanation
Indices: 32675397--32675480 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 36
32675387 ACTAGTCTTT
* * *
32675397 CGGGGTGACACTGTGTAAATGGTATATAAAGGTCTTT
1 CGGGGTGACACCGTGTAAATGG-ATATAAAGGTCCTA
* ** *
32675434 TGGGGCAACACCGTGTAAATGG-TATACAGGTCCTA
1 CGGGGTGACACCGTGTAAATGGATATAAAGGTCCTA
32675469 CGGGGTGACACC
1 CGGGGTGACACC
32675481 TCGAAAAGGG
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
35 19 0.51
37 18 0.49
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (36 bp):
CGGGGTGACACCGTGTAAATGGATATAAAGGTCCTA
Found at i:32682058 original size:16 final size:16
Alignment explanation
Indices: 32682037--32682069 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32682027 TTGAGTTGAG
32682037 AAAATT-ATTGAATTAA
1 AAAATTAATT-AATTAA
32682053 AAAATTAATTAATTAA
1 AAAATTAATTAATTAA
32682069 A
1 A
32682070 TAATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AAAATTAATTAATTAA
Found at i:32688288 original size:17 final size:18
Alignment explanation
Indices: 32688257--32688292 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
32688247 GATATTCCCC
32688257 TTTCCCTTTCCAATCCCTA
1 TTTCCCTTT-CAATCCCTA
32688276 TTTCCCTTT-AATCCCTA
1 TTTCCCTTTCAATCCCTA
32688293 ATCCCTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTCCCTTTCAATCCCTA
Found at i:32698453 original size:20 final size:20
Alignment explanation
Indices: 32698388--32698453 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
32698378 AGAATAAATC
32698388 ATTTTATCTTTTAGTAGTTT
1 ATTTTATCTTTTAGTAGTTT
** * * *
32698408 ATTAGATATTCTAGGAATATTTT
1 ATTTTATCTTTTA-G--TAGTTT
32698431 ATTTTATCTTTTAGTAGTTT
1 ATTTTATCTTTTAGTAGTTT
32698451 ATT
1 ATT
32698454 AGAATAAGGG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 17 0.52
21 1 0.03
22 1 0.03
23 14 0.42
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.59
Consensus pattern (20 bp):
ATTTTATCTTTTAGTAGTTT
Found at i:32698518 original size:16 final size:16
Alignment explanation
Indices: 32698497--32698531 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
32698487 GACTATTTTC
32698497 TCTATTTAAATTCAGT
1 TCTATTTAAATTCAGT
32698513 TCTATTTAAATTCAGT
1 TCTATTTAAATTCAGT
32698529 TCT
1 TCT
32698532 TTAATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (16 bp):
TCTATTTAAATTCAGT
Found at i:32706672 original size:22 final size:22
Alignment explanation
Indices: 32706647--32706689 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
32706637 TTACACAATT
32706647 TAAAAAA-TTAAATTCTTAAAAA
1 TAAAAAATTTAAATT-TTAAAAA
32706669 TAAAAAATTTAAATTTTAAAA
1 TAAAAAATTTAAATTTTAAAA
32706690 TTTTAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAAAATTTAAATTTTAAAAA
Found at i:32707148 original size:16 final size:16
Alignment explanation
Indices: 32707127--32707157 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32707117 TTTTGTATTA
*
32707127 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
32707143 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
32707158 ATATTAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:32707683 original size:25 final size:25
Alignment explanation
Indices: 32707655--32707728 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
32707645 GTAAAATAAT
32707655 CAAATGATATATATGGTTGCTTAAG
1 CAAATGATATATATGGTTGCTTAAG
* **** *
32707680 CAAA--AGA-A-AT-GTAAAATAAT
1 CAAATGATATATATGGTTGCTTAAG
32707700 CAAATGATATATATGGTTGCTTAAG
1 CAAATGATATATATGGTTGCTTAAG
32707725 CAAA
1 CAAA
32707729 AGAAATGAAA
Statistics
Matches: 32, Mismatches: 12, Indels: 10
0.59 0.22 0.19
Matches are distributed among these distances:
20 9 0.28
21 2 0.06
22 3 0.09
23 3 0.09
24 2 0.06
25 13 0.41
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (25 bp):
CAAATGATATATATGGTTGCTTAAG
Found at i:32707704 original size:45 final size:45
Alignment explanation
Indices: 32707640--32707739 Score: 193
Period size: 45 Copynumber: 2.2 Consensus size: 45
32707630 TGTTTGATTT
32707640 GAAATGTAAAATAATCAAATGATATATATGGTTGCTTAAGCAAAA
1 GAAATGTAAAATAATCAAATGATATATATGGTTGCTTAAGCAAAA
32707685 GAAATGTAAAATAATCAAATGATATATATGGTTGCTTAAGCAAAA
1 GAAATGTAAAATAATCAAATGATATATATGGTTGCTTAAGCAAAA
32707730 GAAATG-AAAA
1 GAAATGTAAAA
32707740 GGTTCCTTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.07
45 51 0.93
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (45 bp):
GAAATGTAAAATAATCAAATGATATATATGGTTGCTTAAGCAAAA
Found at i:32707789 original size:3 final size:3
Alignment explanation
Indices: 32707781--32707819 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
32707771 TTTGCCTTCA
32707781 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
32707820 ATTAAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:32713827 original size:24 final size:24
Alignment explanation
Indices: 32713800--32713853 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
32713790 AAAAGCCTAC
32713800 AACGGGTAGCTCCAAAGAGCACTT
1 AACGGGTAGCTCCAAAGAGCACTT
***
32713824 AACGGGTAGCTTTGAAGAGCACTT
1 AACGGGTAGCTCCAAAGAGCACTT
32713848 AACGGG
1 AACGGG
32713854 AAGCACTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.19
Consensus pattern (24 bp):
AACGGGTAGCTCCAAAGAGCACTT
Found at i:32730201 original size:50 final size:50
Alignment explanation
Indices: 32730076--32730422 Score: 374
Period size: 50 Copynumber: 6.8 Consensus size: 50
32730066 ATTTGGGTAA
* *
32730076 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * *
32730132 AGAGGTTCGATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
32730182 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
32730232 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
32730282 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGAACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
32730332 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * *
32730381 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
32730423 TGTTATATTC
Statistics
Matches: 252, Mismatches: 38, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
49 36 0.14
50 174 0.69
53 3 0.01
55 1 0.00
56 38 0.15
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:32743811 original size:13 final size:12
Alignment explanation
Indices: 32743793--32743860 Score: 56
Period size: 13 Copynumber: 5.8 Consensus size: 12
32743783 ATTTTCTTGT
32743793 TTTTCTTTTCAC
1 TTTTCTTTTCAC
32743805 ATTTTCTTTTCAC
1 -TTTTCTTTTCAC
32743818 -TTTCTTTTTCTAC
1 TTTTC-TTTTC-AC
*
32743831 TTTTGTTTT--C
1 TTTTCTTTTCAC
*
32743841 -TTT-TTTTCAT
1 TTTTCTTTTCAC
32743851 TTTTCTTTTC
1 TTTTCTTTTC
32743861 TTTTTCACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 1 0.02
11 7 0.15
12 10 0.22
13 18 0.39
14 3 0.07
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.72
Consensus pattern (12 bp):
TTTTCTTTTCAC
Found at i:32743840 original size:19 final size:19
Alignment explanation
Indices: 32743818--32743883 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
32743808 TTCTTTTCAC
*
32743818 TTTCTTTTTCTACTTTTGT
1 TTTCTTTTTCTACTTTTCT
* *
32743837 TTTCTTTTTTTCATTTTTCT
1 TTTCTTTTTCT-ACTTTTCT
32743857 TTTCTTTTTC-ACTTCCTTCT
1 TTTCTTTTTCTACTT--TTCT
32743877 TTT-TTTT
1 TTTCTTTT
32743884 CCTTTTTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 3 0.08
19 14 0.36
20 22 0.56
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTCTTTTTCTACTTTTCT
Found at i:32743845 original size:20 final size:20
Alignment explanation
Indices: 32743774--32743865 Score: 78
Period size: 22 Copynumber: 4.2 Consensus size: 20
32743764 CAATCAGGCC
32743774 TTTTTTCACATTTTCTTGTT-T
1 TTTTTTCAC-TTTTCTT-TTCT
32743795 TTCTTTTCACATTTTCTTTTCACTT
1 TT-TTTTCAC-TTTTCTTTT--C-T
*
32743820 TCTTTTTCTACTTTTGTTTTCT
1 T-TTTTTC-ACTTTTCTTTTCT
*
32743842 TTTTTTCATTTTTCTTTTCT
1 TTTTTTCACTTTTCTTTTCT
32743862 TTTT
1 TTTT
32743866 CACTTCCTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
20 15 0.25
21 10 0.16
22 17 0.28
23 1 0.02
25 15 0.25
26 3 0.05
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTCACTTTTCTTTTCT
Found at i:32748153 original size:29 final size:30
Alignment explanation
Indices: 32748102--32748162 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
32748092 TGAATTGTTT
*
32748102 TTAAAAATTTGGTTGCTCTTTTTGTAAATA
1 TTAAAAATTAGGTTGCTCTTTTTGTAAATA
*
32748132 TTAAAAATTAGGTT-CTTTTTTTGTAAATA
1 TTAAAAATTAGGTTGCTCTTTTTGTAAATA
32748161 TT
1 TT
32748163 TTCAAAAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.52
Consensus pattern (30 bp):
TTAAAAATTAGGTTGCTCTTTTTGTAAATA
Found at i:32748266 original size:16 final size:15
Alignment explanation
Indices: 32748226--32748272 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
32748216 AGATGATAAT
32748226 TATTAATATATAATTA
1 TATTAAT-TATAATTA
32748242 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
*
32748258 TATTAATTATTATTA
1 TATTAATTATAATTA
32748273 GCTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 9 0.33
16 17 0.63
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:32748271 original size:10 final size:11
Alignment explanation
Indices: 32748224--32748272 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
32748214 AAAGATGATA
32748224 ATTATTAATAT
1 ATTATTAATAT
* *
32748235 ATAATTATATCT
1 ATTATTA-ATAT
32748247 ATTA-TAATAT
1 ATTATTAATAT
32748257 A-TATTAAT-T
1 ATTATTAATAT
32748266 ATTATTA
1 ATTATTA
32748273 GCTTTATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
9 4 0.13
10 13 0.42
11 8 0.26
12 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTATTAATAT
Found at i:32748271 original size:22 final size:23
Alignment explanation
Indices: 32748224--32748272 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
32748214 AAAGATGATA
32748224 ATTATTAATATATAATTATATCT
1 ATTATTAATATATAATTATATCT
32748247 ATTA-TAATATAT-ATTA-AT-T
1 ATTATTAATATATAATTATATCT
32748266 ATTATTA
1 ATTATTA
32748273 GCTTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.20
20 4 0.16
21 4 0.16
22 8 0.32
23 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTATTAATATATAATTATATCT
Found at i:32748440 original size:12 final size:12
Alignment explanation
Indices: 32748423--32748452 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
32748413 TTTAAGAACT
*
32748423 CTACTCTAGCTC
1 CTACTCTAGCGC
32748435 CTACTCTAGCGC
1 CTACTCTAGCGC
32748447 CTACTC
1 CTACTC
32748453 CTTTCACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.43, G:0.10, T:0.30
Consensus pattern (12 bp):
CTACTCTAGCGC
Found at i:32755769 original size:16 final size:16
Alignment explanation
Indices: 32755748--32755780 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
32755738 AAGTTAGGTT
32755748 ATAACTCGATATCATC
1 ATAACTCGATATCATC
32755764 ATAACTCGATATCATC
1 ATAACTCGATATCATC
32755780 A
1 A
32755781 GGAGTGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (16 bp):
ATAACTCGATATCATC
Found at i:32766082 original size:7 final size:7
Alignment explanation
Indices: 32766066--32766101 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
32766056 TTTAAATTTC
32766066 TTTT-AA
1 TTTTAAA
32766072 TTTTAAA
1 TTTTAAA
32766079 TTTTAAA
1 TTTTAAA
32766086 TTTTAAA
1 TTTTAAA
32766093 TTTTAAA
1 TTTTAAA
32766100 TT
1 TT
32766102 AAGTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTTAAA
Found at i:32771852 original size:18 final size:19
Alignment explanation
Indices: 32771821--32771857 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
32771811 TTCCATTAGG
32771821 TTAATTTAGGTTAATTAAT
1 TTAATTTAGGTTAATTAAT
*
32771840 TTAA-TTAGTTTAATTAAT
1 TTAATTTAGGTTAATTAAT
32771858 CCATTGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTAATTTAGGTTAATTAAT
Found at i:32783756 original size:20 final size:21
Alignment explanation
Indices: 32783736--32783813 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
32783726 ATACCAATAT
32783736 AAAAATATCGATACTTTTATA
1 AAAAATATCGATACTTTTATA
* **
32783757 AAAAAAATTAATACTTTTATTAA
1 AAAAATATCGATACTTTTA-T-A
* **
32783780 AAAAATATCGATACTCTT-GG
1 AAAAATATCGATACTTTTATA
32783800 AAAAATATCGATAC
1 AAAAATATCGATAC
32783814 CACTGGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 14 0.30
21 16 0.35
22 1 0.02
23 15 0.33
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (21 bp):
AAAAATATCGATACTTTTATA
Found at i:32783793 original size:23 final size:22
Alignment explanation
Indices: 32783736--32783794 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
32783726 ATACCAATAT
32783736 AAAAATATCGATACTTTTATAA
1 AAAAATATCGATACTTTTATAA
**
32783758 AAAAA-ATTAATACTTTTATTAA
1 AAAAATATCGATACTTTTA-TAA
32783780 AAAAATATCGATACT
1 AAAAATATCGATACT
32783795 CTTGGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 11 0.35
22 13 0.42
23 7 0.23
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (22 bp):
AAAAATATCGATACTTTTATAA
Found at i:32785999 original size:20 final size:20
Alignment explanation
Indices: 32785962--32786000 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32785952 AAATCAATTT
*
32785962 AAAATGATTTTAACCAAGTC
1 AAAATGATTTCAACCAAGTC
* *
32785982 AAAATTATTTCAATCAAGT
1 AAAATGATTTCAACCAAGT
32786001 TGAAGTCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (20 bp):
AAAATGATTTCAACCAAGTC
Found at i:32786477 original size:27 final size:27
Alignment explanation
Indices: 32786446--32786500 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
32786436 CCAACGACTC
32786446 TATTCATGACACCAGCAACCTCAACGG
1 TATTCATGACACCAGCAACCTCAACGG
32786473 TATTCATGACACCAGCAACCTCAACGG
1 TATTCATGACACCAGCAACCTCAACGG
32786500 T
1 T
32786501 TGGAAATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.20
Consensus pattern (27 bp):
TATTCATGACACCAGCAACCTCAACGG
Found at i:32787394 original size:64 final size:64
Alignment explanation
Indices: 32787319--32787454 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 64
32787309 GTAATGGTAT
*
32787319 ATAATAAGGGAGTGTTAAGTCATTGTAATATATTAGAATGACTCTATGATTAAATAAATTATAA
1 ATAATAAGGGAGAGTTAAGTCATTGTAATATATTAGAATGACTCTATGATTAAATAAATTATAA
* *
32787383 ATAATAAGGGAGAGTTATGTCATTGTACTATATTAGAATGACTCTATGATTAAATAAATTATAA
1 ATAATAAGGGAGAGTTAAGTCATTGTAATATATTAGAATGACTCTATGATTAAATAAATTATAA
32787447 ATAATAAG
1 ATAATAAG
32787455 TGAAGAGCCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.35
Consensus pattern (64 bp):
ATAATAAGGGAGAGTTAAGTCATTGTAATATATTAGAATGACTCTATGATTAAATAAATTATAA
Found at i:32791756 original size:13 final size:13
Alignment explanation
Indices: 32791740--32791781 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
32791730 TTTTTTAAAA
32791740 ATTTTAAAATAAT
1 ATTTTAAAATAAT
*
32791753 ATTTTTTAAA-AAT
1 A-TTTTAAAATAAT
32791766 -TTTTAAAATAAT
1 ATTTTAAAATAAT
32791778 ATTT
1 ATTT
32791782 ATAAGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 7 0.29
12 3 0.12
13 7 0.29
14 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTAAAATAAT
Found at i:32791762 original size:24 final size:25
Alignment explanation
Indices: 32791726--32791781 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
32791716 AGCAATTAAT
32791726 TAAT-TTTTTTAAAAA-TTTTAAAA
1 TAATATTTTTTAAAAATTTTTAAAA
32791749 TAATATTTTTTAAAAATTTTTAAAA
1 TAATATTTTTTAAAAATTTTTAAAA
32791774 TAATATTT
1 TAATATTT
32791782 ATAAGTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 4 0.13
24 11 0.35
25 16 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TAATATTTTTTAAAAATTTTTAAAA
Found at i:32797138 original size:28 final size:28
Alignment explanation
Indices: 32797085--32797142 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
32797075 CAAACAAAGG
*
32797085 CATGAATTTAATATGTAATATACTAAGA
1 CATGAATTTAATATGTAACATACTAAGA
* *
32797113 CATG-ATTTAAATATGTAGCATGCTAAGA
1 CATGAATTT-AATATGTAACATACTAAGA
32797141 CA
1 CA
32797143 AAATAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (28 bp):
CATGAATTTAATATGTAACATACTAAGA
Found at i:32801684 original size:141 final size:141
Alignment explanation
Indices: 32801429--32801712 Score: 523
Period size: 141 Copynumber: 2.0 Consensus size: 141
32801419 TCCAGCAACC
32801429 TGTTAAGACAAATTTTAAACACACGATTAAAGCTTCAATAAGACAATATTGAACACAATTAAATA
1 TGTTAAGACAAATTTTAAACACACGATTAAAGCTTCAATAAGACAATATTGAACACAATTAAATA
*
32801494 TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGTAATAAATCTGTCTGAAATTG
66 TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGCAATAAATCTGTCTGAAATTG
32801559 GACATGCTTAA
131 GACATGCTTAA
* * *
32801570 TGTTAAGACACATTTTAAACACACGATTAAAGCTTCAATAGGGCAATATTGAACACAATTAAATA
1 TGTTAAGACAAATTTTAAACACACGATTAAAGCTTCAATAAGACAATATTGAACACAATTAAATA
32801635 TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGCAATAAATCTGTCTGAAATTG
66 TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGCAATAAATCTGTCTGAAATTG
*
32801700 GACTTGCTTAA
131 GACATGCTTAA
32801711 TG
1 TG
32801713 GACAAACAAA
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 138 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (141 bp):
TGTTAAGACAAATTTTAAACACACGATTAAAGCTTCAATAAGACAATATTGAACACAATTAAATA
TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGCAATAAATCTGTCTGAAATTG
GACATGCTTAA
Found at i:32801778 original size:28 final size:28
Alignment explanation
Indices: 32801721--32801780 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
32801711 TGGACAAACA
*
32801721 AAGACATTAATTTAATATGTAATATACT
1 AAGACATTAATTTAATATGTAACATACT
* * *
32801749 AAGACA-TGATTTAAATATGTAGCATGCT
1 AAGACATTAATTT-AATATGTAACATACT
32801777 AAGA
1 AAGA
32801781 AAAAATAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (28 bp):
AAGACATTAATTTAATATGTAACATACT
Found at i:32808560 original size:25 final size:25
Alignment explanation
Indices: 32808526--32808578 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 25
32808516 ATTTTACCTG
32808526 AATCTTATTCGAGAACT-TCGTTATC
1 AATCTTATTCGAGAACTCT-GTTATC
32808551 AATCTTATTCGAGAACTCTGTTATC
1 AATCTTATTCGAGAACTCTGTTATC
32808576 AAT
1 AAT
32808579 ATTCTTTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (25 bp):
AATCTTATTCGAGAACTCTGTTATC
Found at i:32809536 original size:20 final size:20
Alignment explanation
Indices: 32809494--32809536 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
32809484 GAATGTTAAA
*
32809494 TTAGTATGTTTTGACATGTT
1 TTAGTATGTTTTGACATGGT
*
32809514 TTAGTGTGTTTTGA-ATAGGT
1 TTAGTATGTTTTGACAT-GGT
32809534 TTA
1 TTA
32809537 AAATGTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.53
Consensus pattern (20 bp):
TTAGTATGTTTTGACATGGT
Found at i:32824010 original size:38 final size:40
Alignment explanation
Indices: 32823925--32824022 Score: 130
Period size: 38 Copynumber: 2.5 Consensus size: 40
32823915 ATATTATAAG
* *
32823925 TATAATTACCATAATTATAATAATGTTTGACCCAAAAAAT
1 TATAATTACAATAATTATAATAATATTTGACCCAAAAAAT
* *
32823965 TACAATTACAATAATTATAATAATATTCT-A-TC-AAAAAT
1 TATAATTACAATAATTATAATAATATT-TGACCCAAAAAAT
32824003 TATAATTACAATAATTATAA
1 TATAATTACAATAATTATAA
32824023 CAAGGATTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 25 0.48
39 1 0.02
40 25 0.48
41 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (40 bp):
TATAATTACAATAATTATAATAATATTTGACCCAAAAAAT
Found at i:32841835 original size:23 final size:24
Alignment explanation
Indices: 32841799--32841846 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
32841789 TTCATCAAAT
32841799 GTTTCTCATCAAGTTTTTAAGCAA
1 GTTTCTCATCAAGTTTTTAAGCAA
*
32841823 GTTTC-CATCAAGTTTTTAATCAA
1 GTTTCTCATCAAGTTTTTAAGCAA
32841846 G
1 G
32841847 CTTTTATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (24 bp):
GTTTCTCATCAAGTTTTTAAGCAA
Found at i:32841844 original size:12 final size:12
Alignment explanation
Indices: 32841806--32841852 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
32841796 AATGTTTCTC
32841806 ATCAAGTTTTTA
1 ATCAAGTTTTTA
* **
32841818 AGCAAG-TTTCC
1 ATCAAGTTTTTA
32841829 ATCAAGTTTTTA
1 ATCAAGTTTTTA
*
32841841 ATCAAGCTTTTA
1 ATCAAGTTTTTA
32841853 TCTTTTGAGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (12 bp):
ATCAAGTTTTTA
Found at i:32849367 original size:27 final size:27
Alignment explanation
Indices: 32849337--32849391 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
32849327 CAAACAATTG
* *
32849337 ATTACAACTTTATTCCATTGCATCTCT
1 ATTACAACTCTATTCCATTACATCTCT
* *
32849364 ATTATAGCTCTATTCCATTACATCTCT
1 ATTACAACTCTATTCCATTACATCTCT
32849391 A
1 A
32849392 GTATAGCTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTACAACTCTATTCCATTACATCTCT
Found at i:32849396 original size:27 final size:27
Alignment explanation
Indices: 32849347--32849404 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
32849337 ATTACAACTT
* *
32849347 TATTCCATTGCATCTCTATTATAGCTC
1 TATTCCATTACATCTCTAGTATAGCTC
32849374 TATTCCATTACATCTCTAGTATAGCTC
1 TATTCCATTACATCTCTAGTATAGCTC
32849401 TATT
1 TATT
32849405 TCAATGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (27 bp):
TATTCCATTACATCTCTAGTATAGCTC
Found at i:32855006 original size:7 final size:7
Alignment explanation
Indices: 32854991--32855051 Score: 77
Period size: 7 Copynumber: 8.6 Consensus size: 7
32854981 GTTTTGAGGT
32854991 TTTAGGG
1 TTTAGGG
*
32854998 TTTATGG
1 TTTAGGG
*
32855005 TTTAGTGT
1 TTTAG-GG
*
32855013 TTTAAGG
1 TTTAGGG
32855020 TTTAGGG
1 TTTAGGG
32855027 TTTAGGG
1 TTTAGGG
32855034 TTTAGGG
1 TTTAGGG
*
32855041 TTTGGGG
1 TTTAGGG
32855048 TTTA
1 TTTA
32855052 ATGTTAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
7 40 0.89
8 5 0.11
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:32855016 original size:15 final size:14
Alignment explanation
Indices: 32854981--32855039 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
32854971 CGTTTTGCCT
*
32854981 GTTTTGAGGTTTTAG
1 GTTTTAAGG-TTTAG
* *
32854996 GGTTTATGGTTTAG
1 GTTTTAAGGTTTAG
32855010 TGTTTTAAGGTTTAG
1 -GTTTTAAGGTTTAG
* *
32855025 GGTTTAGGGTTTAG
1 GTTTTAAGGTTTAG
32855039 G
1 G
32855040 GTTTGGGGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 18 0.50
15 18 0.50
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (14 bp):
GTTTTAAGGTTTAG
Found at i:32855035 original size:29 final size:30
Alignment explanation
Indices: 32854980--32855043 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
32854970 GCGTTTTGCC
* *
32854980 TGTTTTGAGGTTTTAGGGTTTATGGTTTAG
1 TGTTTTAAGGTTTTAGGGTTTAGGGTTTAG
32855010 TGTTTTAAGG-TTTAGGGTTTAGGGTTTAG
1 TGTTTTAAGGTTTTAGGGTTTAGGGTTTAG
*
32855039 GGTTT
1 TGTTT
32855044 GGGGTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (30 bp):
TGTTTTAAGGTTTTAGGGTTTAGGGTTTAG
Found at i:32855679 original size:6 final size:6
Alignment explanation
Indices: 32855665--32855708 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
32855655 AAAAATCAGA
* *
32855665 TTAGGG TTAGTG TTAAGG TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
32855709 TTTGTTAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (6 bp):
TTAGGG
Found at i:32855715 original size:18 final size:18
Alignment explanation
Indices: 32855665--32855720 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
32855655 AAAAATCAGA
*
32855665 TTAGGGTTAGTGTTAAGG
1 TTAGGGTTAGTGTTAGGG
*
32855683 TTAGGGTTAGGGTTAGGG
1 TTAGGGTTAGTGTTAGGG
**
32855701 TTAGGGTTTTTGTTAGGG
1 TTAGGGTTAGTGTTAGGG
32855719 TT
1 TT
32855721 TTGGTGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (18 bp):
TTAGGGTTAGTGTTAGGG
Found at i:32855970 original size:249 final size:229
Alignment explanation
Indices: 32855522--32856100 Score: 730
Period size: 230 Copynumber: 2.4 Consensus size: 229
32855512 GAACACCTCT
* * * *
32855522 AGTTTAGGGTTTGTCAATTAAATCATTTAAAAAATTTTAAAAATTGGATTTGTTTTCGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTATAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
*
32855587 TATTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGATTACTTGAGTAATTTAATTAAAAAAAT
66 TATTTTT---AAAAAATCAATTAAATTAGGGTTTAGGATTACTTGAGTAATTTAATTAAAAAAAA
* *
32855652 TTTAAAAATCAGATTAGGGTTAGTGTTAAGGTTAGGGTTAGGGTTAGGGTTAGGGTTTTTGTTAG
128 TTTAAAAATCAGATTAGGGTTAGGGTTAAGGTTAGGATTAGGGTTAGGGTTAGGG--TTT-TTA-
32855717 GGTTTTGGTGTTTTTAAGGGTTTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
189 ---------G---TTAAGGG-TTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
* *
32855771 AGTTTAGGGTTTATCAATTAAATTATTTATAAATTTTTCAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTATAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
*
32855836 TA-TTTTAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAAATTT
66 TATTTTTAAAAAATCAATTAAATTAGGGTTTAGGATTACTTGAGTAATTTAATTAAAAAAAATTT
* * *** *
32855900 -AAAATTAGATTAGGGTTAGGGTTAGGGTTAGGATTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
131 AAAAATCAGATTAGGGTTAGGGTTAAGGTTAGGATTAGGGTTAGGG-TTAGG-GTTTTT-AGTTA
32855964 AGGGTTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
193 AGGGTTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
* *
32856001 AGTTTAGGGTTTGTCAATTAAATTATTTATAAAGTTTTCAAAATTAGATTAGTTTTCGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTATAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
*
32856066 TATTTTTTAGGAAAATATGAATTAAATTAGGGTTT
66 TA-TTTTTA--AAAA-ATCAATTAAATTAGGGTTT
32856101 TGGTGTTTTT
Statistics
Matches: 302, Mismatches: 20, Indels: 30
0.86 0.06 0.09
Matches are distributed among these distances:
230 97 0.32
231 7 0.02
232 5 0.02
234 5 0.02
235 18 0.06
243 2 0.01
244 42 0.14
245 60 0.20
246 1 0.00
248 4 0.01
249 61 0.20
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (229 bp):
AGTTTAGGGTTTGTCAATTAAATTATTTATAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
TATTTTTAAAAAATCAATTAAATTAGGGTTTAGGATTACTTGAGTAATTTAATTAAAAAAAATTT
AAAAATCAGATTAGGGTTAGGGTTAAGGTTAGGATTAGGGTTAGGGTTAGGGTTTTTAGTTAAGG
GTTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
Found at i:32857960 original size:18 final size:18
Alignment explanation
Indices: 32857934--32857976 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32857924 GACTCAAAAA
* * *
32857934 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
32857952 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
32857970 AGGATAC
1 AGGATAC
32857977 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:32859840 original size:11 final size:11
Alignment explanation
Indices: 32859807--32859834 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
32859797 TAAGAGAAAT
32859807 TTGAGAGCAAA
1 TTGAGAGCAAA
32859818 TTGAGAGCAAA
1 TTGAGAGCAAA
32859829 TTGAGA
1 TTGAGA
32859835 TTAAATAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (11 bp):
TTGAGAGCAAA
Found at i:32859848 original size:51 final size:51
Alignment explanation
Indices: 32859786--32859885 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
32859776 AATAATTAAA
*
32859786 AAATAGGGATTTAAGAGAAATTT-GAGAGCAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGGAAAG-AAATTGAGAGCAAATTGAGATT
* *
32859837 AAATAGGGATTTGAGAGAAATTTGGAAAGAAATTGAGAGGAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTGGAAAGAAATTGAGAGCAAATTGAGA
32859886 GAATAATAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 41 0.91
52 4 0.09
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTGGAAAGAAATTGAGAGCAAATTGAGATT
Found at i:32865393 original size:31 final size:32
Alignment explanation
Indices: 32865334--32865398 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
32865324 AGCAAATTAC
32865334 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
32865366 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
32865397 AA
1 AA
32865399 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:32866405 original size:13 final size:13
Alignment explanation
Indices: 32866387--32866415 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
32866377 AACACCTTCC
32866387 AAAAGTGACTAAG
1 AAAAGTGACTAAG
32866400 AAAAGTGACTAAG
1 AAAAGTGACTAAG
32866413 AAA
1 AAA
32866416 TTTTGCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.21, T:0.14
Consensus pattern (13 bp):
AAAAGTGACTAAG
Found at i:32868912 original size:106 final size:106
Alignment explanation
Indices: 32868508--32868926 Score: 551
Period size: 107 Copynumber: 4.0 Consensus size: 106
32868498 AGGAATGTTT
* *
32868508 TTCT-AAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTTT
32868572 CGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
66 CGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
** * * * *
32868613 TT-TCAAAGCGAGGCAATATTT-GCGTTTGGAAAATTGAGAAAACATGCCCTAACGTGTTAGGTT
1 TTCTCAAA-TAAGGCAATATTTCGCATTTGGAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTT
* *
32868676 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
65 TCGACTTCTCGTTCGACCAAATAGCCAAATATCC-TTTTAAAA
* * *
32868719 TTTTAAAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAATGTGCCCTAACGTGTTGGGTTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTTT
*
32868784 CGACTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAA
66 CGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAAA
* * * * *
32868826 TTCTCAAATAAGGCAATGTTTTGCGTTTGG-AAATTCGAGG-AACGTGCCCTAATGTGCTGGGTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATT-GAGGAAACGTGCCCTAACGTGTTGGGTT
* * ** *
32868889 TTGATTTCTCGTTTAACTAAATAGCCAAATATCCTTTT
65 TCGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
32868927 GAATTTCAAT
Statistics
Matches: 272, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
104 1 0.00
105 74 0.27
106 92 0.34
107 105 0.39
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (106 bp):
TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTTT
CGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:32869858 original size:16 final size:16
Alignment explanation
Indices: 32869837--32869871 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32869827 ACTTATTTTG
* *
32869837 TTTTGATTGCATGGCA
1 TTTTGACTGCATGGAA
32869853 TTTTGACTGCATGGAA
1 TTTTGACTGCATGGAA
32869869 TTT
1 TTT
32869872 CATTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.46
Consensus pattern (16 bp):
TTTTGACTGCATGGAA
Found at i:32880055 original size:107 final size:107
Alignment explanation
Indices: 32879833--32880197 Score: 502
Period size: 107 Copynumber: 3.4 Consensus size: 107
32879823 TCTTATCCAT
* ***
32879833 TGTTGGGTTTCGACTTCTCGTTCGACCAAATAGCCAAATATCC-TTTTAAAATTTCAAAGCGAGG
1 TGTTGGGTTTCGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAATTTTAAAATAAGG
* *
32879897 CAATA-TTTGCGTTTGGAAAATTGAGAAAACGTGCCCTAACG
66 CAATATTTTGCGTTTGGAAAATCGAGGAAACGTGCCCTAACG
* *
32879938 TGTTGGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGG
1 TGTTGGGTTTCGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAATTTTAAAATAAGG
*
32880003 CAATATTTTGCATTTGGAAAATCGAGGAAACGTGCCCTAACG
66 CAATATTTTGCGTTTGGAAAATCGAGGAAACGTGCCCTAACG
* * * *
32880045 TGTTGGGTTTCGACTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAATTCTCAAATAAGG
1 TGTTGGGTTTCGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAATTTTAAAATAAGG
* * * *
32880110 CAATGTTTCGCGTTTGGAAATTCGAGG-AACGTGCCCTAATG
66 CAATATTTTGCGTTTGGAAAATCGAGGAAACGTGCCCTAACG
* * * ** *
32880151 TGCTGGGTTTTGATTTCTCGTTTAACTAAATAGCCAAATATCCTTTT
1 TGTTGGGTTTCGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
32880198 GAATTTCAAT
Statistics
Matches: 231, Mismatches: 27, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
105 42 0.18
106 74 0.32
107 115 0.50
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (107 bp):
TGTTGGGTTTCGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAATTTTAAAATAAGG
CAATATTTTGCGTTTGGAAAATCGAGGAAACGTGCCCTAACG
Found at i:32891004 original size:8 final size:8
Alignment explanation
Indices: 32890991--32891062 Score: 62
Period size: 8 Copynumber: 9.1 Consensus size: 8
32890981 ATGTTATATA
32890991 ACATTAAT
1 ACATTAAT
32890999 ACATTAAT
1 ACATTAAT
32891007 ACATTAATAT
1 ACATT-A-AT
32891017 AACATTAAT
1 -ACATTAAT
*
32891026 --ATAAAT
1 ACATTAAT
**
32891032 -TTTTAAT
1 ACATTAAT
32891039 A-ATTAAT
1 ACATTAAT
32891046 ACATTAAT
1 ACATTAAT
32891054 ACATTAAT
1 ACATTAAT
32891062 A
1 A
32891063 TAACATTAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
6 5 0.09
7 10 0.19
8 28 0.52
9 3 0.06
10 3 0.06
11 5 0.09
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.40
Consensus pattern (8 bp):
ACATTAAT
Found at i:32891009 original size:39 final size:37
Alignment explanation
Indices: 32890955--32891073 Score: 131
Period size: 39 Copynumber: 3.2 Consensus size: 37
32890945 TAAAAGAATT
* *
32890955 TTTAATAATTAATACATTAATATAAGATGTTATATAACA
1 TTTAATAATTAATACATTAATATAACAT-TAATATAA-A
32890994 -TTAATACATTAATACATTAATATAACATTAATATAAA
1 TTTAATA-ATTAATACATTAATATAACATTAATATAAA
32891031 TTTTTAATAATTAATACATT-A-AT-ACATTAATATAACA
1 --TTTAATAATTAATACATTAATATAACATTAATATAA-A
32891068 -TTAATA
1 TTTAATA
32891074 CAAGCTTACA
Statistics
Matches: 73, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
34 6 0.08
36 12 0.16
37 4 0.05
38 14 0.19
39 31 0.42
40 6 0.08
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (37 bp):
TTTAATAATTAATACATTAATATAACATTAATATAAA
Found at i:32891015 original size:47 final size:44
Alignment explanation
Indices: 32890956--32891062 Score: 128
Period size: 47 Copynumber: 2.3 Consensus size: 44
32890946 AAAAGAATTT
*
32890956 TTAATA-ATTAATACATTAATATAAGATGTTATATAA-CATTAATACA
1 TTAATACATTAATACATTAATATAA-AT-TT-T-TAATAATTAATACA
32891002 TTAATACATTAATATAACATTAATATAAATTTTTAATAATTAATACA
1 TTAATACATT-A-AT-ACATTAATATAAATTTTTAATAATTAATACA
32891049 TTAATACATTAATA
1 TTAATACATTAATA
32891063 TAACATTAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
44 1 0.02
45 2 0.04
46 10 0.18
47 23 0.42
48 3 0.05
49 4 0.07
50 12 0.22
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (44 bp):
TTAATACATTAATACATTAATATAAATTTTTAATAATTAATACA
Found at i:32895410 original size:57 final size:58
Alignment explanation
Indices: 32895349--32895505 Score: 205
Period size: 57 Copynumber: 2.8 Consensus size: 58
32895339 ACATTAACCC
* * * **
32895349 ATAAGATTATACCAATTACA-ATTAAATCATTTCAATGACATATCCCA-TTATCAATTT
1 ATAAGGTTATACCAATTACACA-TAATTCATTTCAATGACATATCCAAGTTATCAATCG
* * *
32895406 ATAAGGTTATACTATTTACACATAATTCATTTCAATTACATAT-CAAGTTATCAATCG
1 ATAAGGTTATACCAATTACACATAATTCATTTCAATGACATATCCAAGTTATCAATCG
32895463 ATAAGGTTATACCAATTACACATAATTCATTTCAATG-CATATC
1 ATAAGGTTATACCAATTACACATAATTCATTTCAATGACATATC
32895506 AAATTATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
56 7 0.08
57 78 0.91
58 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (58 bp):
ATAAGGTTATACCAATTACACATAATTCATTTCAATGACATATCCAAGTTATCAATCG
Found at i:32897018 original size:17 final size:19
Alignment explanation
Indices: 32896975--32897019 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
32896965 AAACTACCTC
32896975 AAACT-AATATAGACAAAA
1 AAACTAAATATAGACAAAA
*
32896993 AAATTTAAATATA-A-AAAA
1 AAA-CTAAATATAGACAAAA
32897011 AAACTAAAT
1 AAACTAAAT
32897020 TTACGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 2 0.09
20 6 0.26
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (19 bp):
AAACTAAATATAGACAAAA
Found at i:32897326 original size:14 final size:15
Alignment explanation
Indices: 32897302--32897330 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32897292 TTCGATTTCA
32897302 AAAATAAATTTAAAT
1 AAAATAAATTTAAAT
32897317 AAAA-AAATTTAAAT
1 AAAATAAATTTAAAT
32897331 CCATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAAATTTAAAT
Found at i:32908299 original size:45 final size:45
Alignment explanation
Indices: 32908235--32908321 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
32908225 AACAGATACT
* *
32908235 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
32908280 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
32908322 ATTCGGTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Done.