Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 252 of 311
Found at i:84236504 original size:42 final size:42
Alignment explanation
Indices: 84236457--84236548 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
84236447 TGGCCCTTAG
* ** *
84236457 GCCCATTTCAATATCACATGTAATGTCAATGGATATATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
*
84236499 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
84236541 GCCCATTT
1 GCCCATTT
84236549 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
Found at i:84237629 original size:27 final size:27
Alignment explanation
Indices: 84237568--84237631 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
84237558 GGCGTATTCA
84237568 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * * *
84237595 TCACTTTACCCTACAGGGGTTTTACGG
1 TCATTTTACCATACAAGGGTATTACGG
*
84237622 TCTTTTTACC
1 TCATTTTACC
84237632 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:84237733 original size:27 final size:26
Alignment explanation
Indices: 84237685--84237740 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
84237675 GTAAATCTAC
*
84237685 AAACCAATGGTATTTCAGTAATTTTGT
1 AAACCAATGGTATTCCAGTAATTTT-T
84237712 AAACCAATGGTATTCCTA-TAATTTTT
1 AAACCAATGGTATTCC-AGTAATTTTT
84237738 AAA
1 AAA
84237741 AAAGTCAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (26 bp):
AAACCAATGGTATTCCAGTAATTTTT
Found at i:84237792 original size:27 final size:25
Alignment explanation
Indices: 84237770--84237846 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 25
84237760 GCAATTTTGT
84237770 AAATCATGGGTATTTTGGTAATTTTAC
1 AAATCA-GGGTATTTTGGTAATTTT-C
* *
84237797 AAATTGAGGGTATTTCGGTAATTTCTC
1 AAA-TCAGGGTATTTTGGTAATTT-TC
*
84237824 AAACCAGTGGTATTTTGGTAATT
1 AAATCAG-GGTATTTTGGTAATT
84237847 CTATCCTACA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 37 0.88
28 3 0.07
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (25 bp):
AAATCAGGGTATTTTGGTAATTTTC
Found at i:84238139 original size:27 final size:27
Alignment explanation
Indices: 84237878--84238158 Score: 278
Period size: 27 Copynumber: 10.4 Consensus size: 27
84237868 GTAATTTCAG
* * * *
84237878 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
84237905 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
* *
84237932 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*** *
84237959 AATCGAGGGTACTTTGGTAACTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
84237986 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
84238013 AATC-AGGGGTAAAACGGTAATTCTATA
1 AATCGA-GGGTAAAATGGTAATTCTATA
* *
84238040 AATCAAGAGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
84238067 AATTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
** *
84238094 AATCGAGGGTAAACCGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
*** *
84238121 AATCGAGGGTACTTTGGTAATTTTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
84238148 ATTTGAGGGTA
1 AATCGAGGGTA
84238159 TTTCAGTAAT
Statistics
Matches: 210, Mismatches: 40, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 206 0.98
28 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:84238176 original size:81 final size:81
Alignment explanation
Indices: 84237903--84238158 Score: 370
Period size: 81 Copynumber: 3.2 Consensus size: 81
84237893 GATAATTTTG
* *
84237903 TAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGG
1 TAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
*
84237968 TACTTTGGTAACTCTA
66 TACTTTGGTAATTCTA
* * *
84237984 TAAATCGAGGGTAAAATGGTAATTTTGTAAATC-AGGGGTAAAACGGTAATTCTATAAATCAAGA
1 TAAATTGAGGGTAAAATGGTAATTTTGTAAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGG
***
84238048 GTAAAATGGTAATTCTA
65 GTACTTTGGTAATTCTA
* * *
84238065 TAAATTGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAACCGGTAATTCTGTAAATCGAGGG
1 TAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
*
84238130 TACTTTGGTAATTTTA
66 TACTTTGGTAATTCTA
*
84238146 TAATTTGAGGGTA
1 TAAATTGAGGGTA
84238159 TTTCAGTAAT
Statistics
Matches: 153, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 151 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (81 bp):
TAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
TACTTTGGTAATTCTA
Found at i:84245126 original size:137 final size:137
Alignment explanation
Indices: 84244875--84245143 Score: 461
Period size: 137 Copynumber: 2.0 Consensus size: 137
84244865 TCCGATTCGA
* *
84244875 AGTCAGAATAACAAGTGAAGTCTAGGTGGATTCTTCCTTATGTATCGTCTTAATTCAATCGTTTT
1 AGTCAGAATAACAAATGAAGTCTAGGTGGATTCTTCCTTAGGTATCGTCTTAATTCAATCGTTTT
*
84244940 CCAAAAGTAATTCCCCAATTCTATTGTTTTTGAATTCTTAGTTTAGATAATTAATTAGTTAAAAC
66 CCAAAAATAATTCCCCAATTCTATTGTTTTTGAATTCTTAGTTTAGATAATTAATTAGTTAAAAC
84245005 AATTTGG
131 AATTTGG
* *
84245012 AGTCTGAATAACAAATGAAGTCTAGGTGGATTCTTCCTTAGGTATTGTCTTAATTCAATCGTTTT
1 AGTCAGAATAACAAATGAAGTCTAGGTGGATTCTTCCTTAGGTATCGTCTTAATTCAATCGTTTT
84245077 CCAAAAATAA-TCCCCTAATTCTATT-TTTTGTGAATTCTTAGTTTAGATAATTAATTAGTTAAA
66 CCAAAAATAATTCCCC-AATTCTATTGTTTT-TGAATTCTTAGTTTAGATAATTAATTAGTTAAA
84245140 ACAA
129 ACAA
84245144 AACCCCTTTA
Statistics
Matches: 125, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
136 9 0.07
137 116 0.93
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (137 bp):
AGTCAGAATAACAAATGAAGTCTAGGTGGATTCTTCCTTAGGTATCGTCTTAATTCAATCGTTTT
CCAAAAATAATTCCCCAATTCTATTGTTTTTGAATTCTTAGTTTAGATAATTAATTAGTTAAAAC
AATTTGG
Found at i:84245875 original size:45 final size:45
Alignment explanation
Indices: 84245824--84245914 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
84245814 TATTTGCATC
84245824 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
1 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
84245869 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
1 ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
84245914 A
1 A
84245915 CATCTAGCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (45 bp):
ATAAGGACCCCTCATTTATAAAGCCAAATCAAATAGGCACTTTTA
Found at i:84250729 original size:14 final size:14
Alignment explanation
Indices: 84250710--84250738 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
84250700 AGCAAAGATT
84250710 CTACGCATTTAATA
1 CTACGCATTTAATA
84250724 CTACGCATTTAATA
1 CTACGCATTTAATA
84250738 C
1 C
84250739 ATTCTTCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (14 bp):
CTACGCATTTAATA
Found at i:84252042 original size:10 final size:10
Alignment explanation
Indices: 84252027--84252069 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
84252017 GTAATACATG
84252027 CCAAATCATA
1 CCAAATCATA
84252037 CCAAATCATAA
1 CCAAATCAT-A
84252048 GGCCAAATCATA
1 --CCAAATCATA
*
84252060 CCAAAACATA
1 CCAAATCATA
84252070 TGATTCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 18 0.62
11 1 0.03
12 1 0.03
13 9 0.31
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.16
Consensus pattern (10 bp):
CCAAATCATA
Found at i:84252052 original size:23 final size:23
Alignment explanation
Indices: 84252026--84252069 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
84252016 TGTAATACAT
*
84252026 GCCAAATCATACCAAATCATAAG
1 GCCAAATCATACCAAAACATAAG
84252049 GCCAAATCATACCAAAACATA
1 GCCAAATCATACCAAAACATA
84252070 TGATTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.27, G:0.07, T:0.16
Consensus pattern (23 bp):
GCCAAATCATACCAAAACATAAG
Found at i:84258343 original size:18 final size:18
Alignment explanation
Indices: 84258314--84258358 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
84258304 TTGCATACTG
* *
84258314 TTTACTGATACTGCACTA
1 TTTACTGTTACTACACTA
* *
84258332 TTTATTGTTACTACATTA
1 TTTACTGTTACTACACTA
84258350 TTTACTGTT
1 TTTACTGTT
84258359 TCTGTAATAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTACTGTTACTACACTA
Found at i:84259848 original size:27 final size:27
Alignment explanation
Indices: 84259818--84259904 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
84259808 TAAATTGGTG
84259818 AAATGACTATTTTTCCCTTATGAGGTA
1 AAATGACTATTTTTCCCTTATGAGGTA
* **
84259845 AAATGATTATTTTTCTTTTATGAGGTA
1 AAATGACTATTTTTCCCTTATGAGGTA
* * *
84259872 AAACGAC-AGTTTTGCCCTTATAAGGTA
1 AAATGACTA-TTTTTCCCTTATGAGGTA
84259899 AAATGA
1 AAATGA
84259905 TTTTTTTGGC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (27 bp):
AAATGACTATTTTTCCCTTATGAGGTA
Found at i:84264936 original size:43 final size:43
Alignment explanation
Indices: 84264877--84264963 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
84264867 CATCTTTGTC
* *
84264877 TCCTATGGACGGCCATGCCTCTTTAAAGGGTCTAATTGCTCTT
1 TCCTATAGACGGCCATGCCTCGTTAAAGGGTCTAATTGCTCTT
*
84264920 TCCTATAGACGTCCATGCCTCGTTAAAGGGTCTAATTGCTCTT
1 TCCTATAGACGGCCATGCCTCGTTAAAGGGTCTAATTGCTCTT
84264963 T
1 T
84264964 AAAGACCCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (43 bp):
TCCTATAGACGGCCATGCCTCGTTAAAGGGTCTAATTGCTCTT
Found at i:84268907 original size:30 final size:30
Alignment explanation
Indices: 84268872--84268940 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
84268862 ACCCCAGGGG
84268872 ACACACGGCCATACAGCATGACCGTGTGTC
1 ACACACGGCCATACAGCATGACCGTGTGTC
*
84268902 ACACACGGCCATATAGCATGACCGTGTGTC
1 ACACACGGCCATACAGCATGACCGTGTGTC
84268932 ACACACGGC
1 ACACACGGC
84268941 TGAGACACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.16
Consensus pattern (30 bp):
ACACACGGCCATACAGCATGACCGTGTGTC
Found at i:84269965 original size:41 final size:39
Alignment explanation
Indices: 84269920--84270056 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 39
84269910 TATTATAATA
*
84269920 TCGCACACTAAGTGCCTTTCATAGCCGAATCTATCTCAAT
1 TCGCACACTAAGTGCCTTT-ATAGCCGAAGCTATCTCAAT
* *
84269960 CTCGCACATTAAGTGCCATATATAGCCGAAGCTAT-TCCAAT
1 -TCGCACACTAAGTGCC-TTTATAGCCGAAGCTATCT-CAAT
* *
84270001 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCTAT
1 TCGCACACTAAGTGCCTT-TATAGCCGAAGCTATCTCAAT
* * *
84270041 ACGCCCGCTAAGTGCC
1 TCGCACACTAAGTGCC
84270057 AAACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 45 0.56
41 33 0.41
42 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (39 bp):
TCGCACACTAAGTGCCTTTATAGCCGAAGCTATCTCAAT
Found at i:84270025 original size:81 final size:83
Alignment explanation
Indices: 84269875--84270037 Score: 224
Period size: 81 Copynumber: 2.0 Consensus size: 83
84269865 AATACTCGAT
* *
84269875 ATCTCGCACATTAAGTGCCAAAGCATAGCTGAAACTATTATAATATCGCACACTAAGTGCCTTTC
1 ATCTCGCACATTAAGTGCCAAAGCATAGCCGAAACTATTACAATATCGCACACTAAGTGCCTTTC
*
84269940 ATAGCCGAATCTATCTCA
66 ATAGCCGAAGCTATCTCA
* * * *
84269958 ATCTCGCACATTAAGTGCCATA-TATAGCCGAAGCTATTCCAAT-TCGCACACTAAGTG-CTTTA
1 ATCTCGCACATTAAGTGCCAAAGCATAGCCGAAACTATTACAATATCGCACACTAAGTGCCTTT-
*
84270020 TATAGCCGAAGCTATCTC
65 CATAGCCGAAGCTATCTC
84270038 TATACGCCCG
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
80 4 0.06
81 30 0.42
82 16 0.23
83 21 0.30
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (83 bp):
ATCTCGCACATTAAGTGCCAAAGCATAGCCGAAACTATTACAATATCGCACACTAAGTGCCTTTC
ATAGCCGAAGCTATCTCA
Found at i:84270052 original size:40 final size:40
Alignment explanation
Indices: 84269879--84270057 Score: 130
Period size: 40 Copynumber: 4.4 Consensus size: 40
84269869 CTCGATATCT
* * * * * **
84269879 CGCACATTAAGTGCCAAAGCATAGCTGAAACTATTATAATA
1 CGCACACTAAGTGCCATA-TATAGCCGAAGCTATTCCAATA
* * *
84269920 TCGCACACTAAGTGCC-TTTCATAGCCGAATCTA-TCTCAATCT
1 -CGCACACTAAGTGCCATAT-ATAGCCGAAGCTATTC-CAAT-A
* *
84269962 CGCACATTAAGTGCCATATATAGCCGAAGCTATTCCAATT
1 CGCACACTAAGTGCCATATATAGCCGAAGCTATTCCAATA
** *
84270002 CGCACACTAAGTGCTTTATATAGCCGAAGCTA-TCTCTATA
1 CGCACACTAAGTGCCATATATAGCCGAAGCTATTC-CAATA
* *
84270042 CGCCCGCTAAGTGCCA
1 CGCACACTAAGTGCCA
84270058 AACATAATCA
Statistics
Matches: 110, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
39 2 0.02
40 46 0.42
41 44 0.40
42 18 0.16
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATAGCCGAAGCTATTCCAATA
Found at i:84293552 original size:11 final size:10
Alignment explanation
Indices: 84293526--84293559 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
84293516 GGAGAGCACC
*
84293526 AAGAGTCAAA
1 AAGAGCCAAA
84293536 AAGAGCCAAA
1 AAGAGCCAAA
84293546 AACGAGCCAAA
1 AA-GAGCCAAA
84293557 AAG
1 AAG
84293560 GGACAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:84295638 original size:7 final size:7
Alignment explanation
Indices: 84295626--84295699 Score: 85
Period size: 7 Copynumber: 10.4 Consensus size: 7
84295616 TATTTGTATT
84295626 AACCCTA
1 AACCCTA
84295633 AACCCTA
1 AACCCTA
84295640 AACCCTA
1 AACCCTA
* *
84295647 AATCTTA
1 AACCCTA
* *
84295654 AATCTTA
1 AACCCTA
*
84295661 AACCTTA
1 AACCCTA
84295668 AACCCTA
1 AACCCTA
*
84295675 AACTCTAA
1 AACCCT-A
84295683 AACCCTA
1 AACCCTA
84295690 AACCCTA
1 AACCCTA
84295697 AAC
1 AAC
84295700 TGTCTTACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
7 54 0.90
8 6 0.10
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.22
Consensus pattern (7 bp):
AACCCTA
Found at i:84307481 original size:10 final size:10
Alignment explanation
Indices: 84307466--84307504 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
84307456 TGCTTTTGTA
84307466 CATGATATGC
1 CATGATATGC
84307476 CATGATATGC
1 CATGATATGC
84307486 ACATGATATGC
1 -CATGATATGC
84307497 CATGATAT
1 CATGATAT
84307505 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:84307490 original size:21 final size:21
Alignment explanation
Indices: 84307465--84307504 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
84307455 CTGCTTTTGT
84307465 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
84307486 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
84307505 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:84318326 original size:11 final size:11
Alignment explanation
Indices: 84318286--84318318 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
84318276 TTTCTTTTCC
84318286 CTTTATTATTT
1 CTTTATTATTT
84318297 CTTTATTTATTT
1 CTTTA-TTATTT
84318309 CTTTATTATT
1 CTTTATTATT
84318319 ATTTTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (11 bp):
CTTTATTATTT
Found at i:84318484 original size:18 final size:19
Alignment explanation
Indices: 84318461--84318507 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
84318451 TCATTCTGCA
84318461 GTTTTATACATTCATT-TT
1 GTTTTATACATTCATTGTT
*
84318479 GTTTTAGTTACTTTCATTGTT
1 GTTTTA--TACATTCATTGTT
84318500 GATTTTAT
1 G-TTTTAT
84318508 TCTAGCTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 6 0.25
20 10 0.42
21 3 0.12
22 5 0.21
ACGTcount: A:0.19, C:0.09, G:0.11, T:0.62
Consensus pattern (19 bp):
GTTTTATACATTCATTGTT
Found at i:84320917 original size:25 final size:25
Alignment explanation
Indices: 84320888--84320935 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84320878 TTATAACATG
* * *
84320888 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
84320913 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
84320936 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:84321019 original size:11 final size:11
Alignment explanation
Indices: 84320983--84321038 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
84320973 GATAGTATGT
84320983 ATGATATGCAC
1 ATGATATGCAC
* *
84320994 ATGACATG--T
1 ATGATATGCAC
84321003 ATGATATGCAC
1 ATGATATGCAC
*
84321014 ATGATATG--T
1 ATGATATGCAC
84321023 ATGATATGCAC
1 ATGATATGCAC
84321034 ATGAT
1 ATGAT
84321039 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:84321038 original size:20 final size:20
Alignment explanation
Indices: 84320978--84321038 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
84320968 ATAAAGATAG
84320978 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
84320998 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
84321018 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
84321038 T
1 T
84321039 GTATTCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:84321119 original size:23 final size:23
Alignment explanation
Indices: 84321089--84321207 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
84321079 AGGAAGTGAA
84321089 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
84321112 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
84321136 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
84321159 AAAGGGCTTATGCCCCAGTTATA
1 AAAGGGCTTATGCCCCAGTTATT
*
84321182 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
84321205 AAA
1 AAA
84321208 AGAGGCAGGC
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
23 68 0.76
24 22 0.24
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:84321157 original size:47 final size:46
Alignment explanation
Indices: 84321088--84321207 Score: 222
Period size: 47 Copynumber: 2.6 Consensus size: 46
84321078 GAGGAAGTGA
84321088 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
84321134 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
84321181 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
84321208 AGAGGCAGGC
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
46 26 0.36
47 46 0.64
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:84321224 original size:70 final size:69
Alignment explanation
Indices: 84321089--84321227 Score: 208
Period size: 70 Copynumber: 2.0 Consensus size: 69
84321079 AGGAAGTGAA
* *
84321089 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGC-TAGGCCCCAG
84321154 TTATT
65 TTATT
* *
84321159 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-AGGCCTCCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTAGGCC-CCA
84321223 GTTAT
64 GTTAT
84321228 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
69 4 0.06
70 56 0.89
71 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (69 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTAGGCCCCAGT
TATT
Found at i:84328993 original size:25 final size:25
Alignment explanation
Indices: 84328964--84329011 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84328954 TTATAACATG
* * *
84328964 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
84328989 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
84329012 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:84329078 original size:20 final size:20
Alignment explanation
Indices: 84329053--84329091 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
84329043 ATAAACATGT
84329053 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
84329073 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
84329092 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:84329216 original size:47 final size:46
Alignment explanation
Indices: 84329141--84329259 Score: 220
Period size: 47 Copynumber: 2.6 Consensus size: 46
84329131 GGAGGAAGTG
84329141 AAAAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
84329187 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
84329234 AAAAGGGCTTTTGCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCAGTTATTAAA
84329260 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
46 26 0.37
47 45 0.63
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:84329260 original size:23 final size:24
Alignment explanation
Indices: 84329141--84329266 Score: 206
Period size: 23 Copynumber: 5.4 Consensus size: 24
84329131 GGAGGAAGTG
84329141 AAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
84329164 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
84329187 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
84329211 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
84329234 AAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
84329257 AAAAGAGGCT
1 AAAAG-GGCT
84329267 AGGCCTCCAG
Statistics
Matches: 98, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
22 12 0.12
23 48 0.49
24 38 0.39
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:84329506 original size:29 final size:29
Alignment explanation
Indices: 84329474--84329529 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
84329464 CGTTTACAGT
84329474 AAAGGCTTCGGCCCAGTAATATGAAATTA
1 AAAGGCTTCGGCCCAGTAATATGAAATTA
**
84329503 AAAGGCTTCGGCCCAGTGTTATGAAAT
1 AAAGGCTTCGGCCCAGTAATATGAAAT
84329530 ATGAAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (29 bp):
AAAGGCTTCGGCCCAGTAATATGAAATTA
Found at i:84335080 original size:13 final size:13
Alignment explanation
Indices: 84335025--84335082 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
84335015 AGAACAATTG
*
84335025 ATTAAAAATAATA
1 ATTAATAATAATA
84335038 ATT-ATAATAAATA
1 ATTAATAAT-AATA
*
84335051 ATTAA-ACTAA-A
1 ATTAATAATAATA
*
84335062 AATAATAATAATA
1 ATTAATAATAATA
84335075 ATTAATAA
1 ATTAATAA
84335083 AGAATTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
11 5 0.14
12 10 0.28
13 20 0.56
14 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:84335091 original size:24 final size:26
Alignment explanation
Indices: 84335037--84335091 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
84335027 TAAAAATAAT
84335037 AATT-ATAATAAATAATTAAACTAAA
1 AATTAATAATAAATAATTAAACTAAA
84335062 AA-TAATAAT-AATAATT-AA-TAAA
1 AATTAATAATAAATAATTAAACTAAA
84335084 GAATTAAT
1 -AATTAAT
84335092 TAAAGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 4 0.15
23 4 0.15
24 12 0.44
25 7 0.26
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
AATTAATAATAAATAATTAAACTAAA
Found at i:84336428 original size:26 final size:26
Alignment explanation
Indices: 84336392--84336443 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
84336382 CACCACTGAA
* *
84336392 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
84336418 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
84336444 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:84336520 original size:70 final size:71
Alignment explanation
Indices: 84336404--84336554 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
84336394 GGGGAATCAT
*
84336404 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
84336468 ATATCG
66 ATATCG
* ***
84336474 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
84336539 GATATCG
65 GATATCG
84336546 CACTTAGCA
1 CACTTAGCA
84336555 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:84336597 original size:104 final size:104
Alignment explanation
Indices: 84336473--84336696 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
84336463 AATGGATATC
84336473 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
84336538 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
84336577 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
84336642 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
84336681 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
84336697 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:84337058 original size:29 final size:29
Alignment explanation
Indices: 84337025--84337088 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
84337015 TAATCCACCA
84337025 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
84337054 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
84337084 CCCAA
1 CCCAA
84337089 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:84337062 original size:30 final size:30
Alignment explanation
Indices: 84337032--84337088 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
84337022 CCACCCAACT
84337032 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
84337061 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
84337089 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:84344070 original size:70 final size:72
Alignment explanation
Indices: 84343956--84344106 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
84343946 GGGGAATCAT
* *
84343956 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
84344020 GATATCG
66 GATATCG
***
84344027 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
84344091 GATATCG
66 GATATCG
84344098 CACTTAGCA
1 CACTTAGCA
84344107 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 34 0.46
71 40 0.54
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:84344154 original size:104 final size:104
Alignment explanation
Indices: 84344026--84344248 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
84344016 AATGGATATC
84344026 GCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
84344090 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
84344129 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
84344194 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
84344233 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
84344249 TTATATACAA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 11 0.10
104 100 0.89
105 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:84344608 original size:29 final size:29
Alignment explanation
Indices: 84344576--84344639 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
84344566 TAATTCACCA
84344576 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
84344605 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
84344635 CCCAA
1 CCCAA
84344640 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:84344615 original size:30 final size:30
Alignment explanation
Indices: 84344583--84344639 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
84344573 CCACCCAACT
84344583 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
84344612 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
84344640 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:84347243 original size:43 final size:43
Alignment explanation
Indices: 84347182--84347267 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
84347172 TGCGACCTCG
84347182 ACTTGTCCACTAGTTTGAGGGTGATAAGGGGTAGTTGTGCTAT
1 ACTTGTCCACTAGTTTGAGGGTGATAAGGGGTAGTTGTGCTAT
84347225 ACTTGTCCACTAGTTTGAGGGTGATAAGGGGTAGTTGTGCTAT
1 ACTTGTCCACTAGTTTGAGGGTGATAAGGGGTAGTTGTGCTAT
84347268 GCTGTACTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.12, G:0.33, T:0.35
Consensus pattern (43 bp):
ACTTGTCCACTAGTTTGAGGGTGATAAGGGGTAGTTGTGCTAT
Found at i:84355328 original size:40 final size:40
Alignment explanation
Indices: 84355256--84355440 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
84355246 GCTACTCGTT
* *
84355256 CAAATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
84355296 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
84355336 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
84355375 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
84355416 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84355441 CATCAATCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:84355374 original size:79 final size:81
Alignment explanation
Indices: 84355258--84355440 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
84355248 TACTCGTTCA
* * *
84355258 AATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
84355321 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
84355338 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
84355401 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
84355417 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
84355441 CATCAATCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:84358704 original size:20 final size:21
Alignment explanation
Indices: 84358665--84358704 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
84358655 CAGGCTTGAA
*
84358665 CCCAAGACTTCTTAAACACTT
1 CCCAAGACTACTTAAACACTT
*
84358686 CCCAAGAC-ACTTAACCACT
1 CCCAAGACTACTTAAACACT
84358705 GAAGTAGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.38, G:0.05, T:0.23
Consensus pattern (21 bp):
CCCAAGACTACTTAAACACTT
Found at i:84360193 original size:6 final size:6
Alignment explanation
Indices: 84360182--84360228 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
84360172 AGTCCATTTG
84360182 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
84360229 TATGTTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:84366987 original size:42 final size:42
Alignment explanation
Indices: 84366928--84367123 Score: 232
Period size: 42 Copynumber: 4.6 Consensus size: 42
84366918 AAGATTTACA
* * *
84366928 TGTAAGACCATATCTGGGATATGGAATTGATAGGAAACATCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAAACATCG
*
84366970 TGTAAGACCATATCTGGGATATGGCATCGATATGAAACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAAACATCG
* * * *
84367012 TGTAAGATCATATCTGGGATATGGCATCTATATTAAACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAAACATCG
* * * * *
84367054 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATCA-CA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGA-AACATCG
* *
84367097 TGTAAGACCATATTTGGGATATAGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
84367124 TGGTACGGTA
Statistics
Matches: 132, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
42 100 0.76
43 30 0.23
44 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAAACATCG
Found at i:84369735 original size:40 final size:40
Alignment explanation
Indices: 84369680--84369774 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
84369670 TATGTGCATA
*
84369680 GCATTTGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
84369720 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
84369760 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
84369775 GTTACATCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:84371760 original size:13 final size:13
Alignment explanation
Indices: 84371742--84371774 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
84371732 TCATGCACGA
*
84371742 GCGTGTGCTCTGG
1 GCGTGTGCCCTGG
84371755 GCGTGTGCCCTGG
1 GCGTGTGCCCTGG
84371768 GCGTGTG
1 GCGTGTG
84371775 AAGTCTGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.48, T:0.27
Consensus pattern (13 bp):
GCGTGTGCCCTGG
Found at i:84375501 original size:43 final size:44
Alignment explanation
Indices: 84375352--84375502 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 44
84375342 TTCGTGTGAG
*
84375352 ACCACGTCTGGGATGTTGGCATC-A-ACTTATGATTTACGTGTAAA
1 ACCACGTCTGGGACGTTGGCATCGATA-TT-TGATTTACGTGTAAA
*
84375396 ACCACGTCTGGGACGTTGGCATCG-TATTTGATTT-TGTGTAAA
1 ACCACGTCTGGGACGTTGGCATCGATATTTGATTTACGTGTAAA
* *
84375438 ACC-CTGTCTGGGACAG-TGGCATCGATATTTG-TTTACATGTAAG
1 ACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTTACGTGTAAA
* *
84375481 ACCACATCTAGGACGTTGGCAT
1 ACCACGTCTGGGACGTTGGCAT
84375503 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
41 1 0.01
42 31 0.34
43 34 0.37
44 25 0.27
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (44 bp):
ACCACGTCTGGGACGTTGGCATCGATATTTGATTTACGTGTAAA
Found at i:84383112 original size:43 final size:41
Alignment explanation
Indices: 84383003--84383121 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 41
84382993 CAACTTATGA
*
84383003 TTTACGTGTAAGACCACGCCTGGGATGTTGGAATCGTATTT
1 TTTACGTGTAAGACCACGTCTGGGATGTTGGAATCGTATTT
* ** * * *
84383044 TATTTCGTGTAAGACCTTGTTTGGGATAG-TGGCATTGATATTT
1 T-TTACGTGTAAGACCACGTCTGGGAT-GTTGGAATCG-TATTT
* *
84383087 GTTTACATGTAAGACCACGTCTGGGACGTTGGAAT
1 -TTTACGTGTAAGACCACGTCTGGGATGTTGGAAT
84383122 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
41 1 0.02
42 27 0.46
43 30 0.51
44 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (41 bp):
TTTACGTGTAAGACCACGTCTGGGATGTTGGAATCGTATTT
Found at i:84383319 original size:20 final size:19
Alignment explanation
Indices: 84383294--84383340 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
84383284 AAAATATGCT
84383294 ATATGTGTAAATGAATAGGA
1 ATATGTG-AAATGAATAGGA
* *
84383314 ATATGTGAAATGTATATGA
1 ATATGTGAAATGAATAGGA
84383333 ACTATGTG
1 A-TATGTG
84383341 GTTTGAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.34
Consensus pattern (19 bp):
ATATGTGAAATGAATAGGA
Found at i:84388474 original size:42 final size:42
Alignment explanation
Indices: 84388394--84388538 Score: 220
Period size: 42 Copynumber: 3.5 Consensus size: 42
84388384 TTGAGATTTA
* *
84388394 CGTGTAAGACCATATCT-GGATATGGCATCGATAGGAAACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
84388435 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
* * * *
84388477 CATGTAAGACCATATTTGGGATATGACATCTATATGAAACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
*
84388519 CGTGTAAGACCATAGCTGGG
1 CGTGTAAGACCATATCTGGG
84388539 CTATTAGCAT
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 17 0.18
42 77 0.82
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
Found at i:84388517 original size:84 final size:85
Alignment explanation
Indices: 84388396--84388586 Score: 244
Period size: 84 Copynumber: 2.3 Consensus size: 85
84388386 GAGATTTACG
* * *
84388396 TGTAAGACCATATCT-GGATATGGCATCGATAGGAAACTTCGTGTAAGACCATATCTGGGATA-T
1 TGTAAGACCATATTTGGGATATGACATCGATAGGAAACTTCGTGTAAGACCATAGCTGGGATATT
* * *
84388459 GGCATCAATATGAAA-CTTCA
66 AGCATCAATACGAAATC-ACA
* * *
84388479 TGTAAGACCATATTTGGGATATGACATCTATATGAAACTTCGTGTAAGACCATAGCTGGGCTATT
1 TGTAAGACCATATTTGGGATATGACATCGATAGGAAACTTCGTGTAAGACCATAGCTGGGATATT
* *
84388544 AGCATCGATACGAGATCACA
66 AGCATCAATACGAAATCACA
*
84388564 TGTAAGAACATATTTGGGATATG
1 TGTAAGACCATATTTGGGATATG
84388587 GCATTGGTAC
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
83 14 0.15
84 42 0.45
85 36 0.39
86 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (85 bp):
TGTAAGACCATATTTGGGATATGACATCGATAGGAAACTTCGTGTAAGACCATAGCTGGGATATT
AGCATCAATACGAAATCACA
Found at i:84390186 original size:24 final size:25
Alignment explanation
Indices: 84390159--84390210 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
84390149 GCCTAGCCTC
84390159 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
**
84390183 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
84390208 TTT
1 TTT
84390211 CACACTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:84390264 original size:16 final size:16
Alignment explanation
Indices: 84390243--84390273 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84390233 ATCCCCACCC
*
84390243 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
84390259 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
84390274 CCCATATTTG
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:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:84390447 original size:27 final size:27
Alignment explanation
Indices: 84390416--84390610 Score: 250
Period size: 27 Copynumber: 7.2 Consensus size: 27
84390406 GGGCAAAATG
* * * *
84390416 GTAATTTTACCCCACAAGGGTATCTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
84390442 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
84390470 GTATTTCTACCATACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
84390497 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
84390523 GATATTTCTACCCTACAAGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
84390551 GTAACTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
84390578 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
84390605 GTAATT
1 GTAATT
84390611 TTACAAACCA
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 143 0.97
28 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:84390622 original size:27 final size:27
Alignment explanation
Indices: 84390592--84390772 Score: 159
Period size: 27 Copynumber: 6.7 Consensus size: 27
84390582 TTCTACCCTA
*
84390592 CAGGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
84390619 CAGGGGTATTTTGGTAATTTTGA-TAAC
1 CAGGGGTATTTTGGTAATTTT-ACAAAC
** **
84390646 CAATGGTATTTTGGTAATTTTACAAGT
1 CAGGGGTATTTTGGTAATTTTACAAAC
*** * *
84390673 C-GAGGGTATTTCAATAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
* *
84390700 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * **
84390727 TAAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
84390754 TAAGGGTATTTTGGTAATT
1 CAGGGGTATTTTGGTAATT
84390773 CTACCCTACA
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:84390626 original size:81 final size:81
Alignment explanation
Indices: 84390416--84390635 Score: 230
Period size: 81 Copynumber: 2.7 Consensus size: 81
84390406 GGGCAAAATG
* * * * * * ** * **
84390416 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTAGATATTTCTACCAAACAGGGGTATTTCGGTAACTCTACC
84390481 ATACAAGGGTATTTCA
66 ATACAAGGGTATTTCA
* ** *
84390497 GTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGTAACTCTACC
1 GTAATTCTACCCTACAGGGGTATTTAGATATTTCTACCAAACAGGGGTATTTCGGTAACTCTACC
* *
84390562 CTACAGGGGTATTTCA
66 ATACAAGGGTATTTCA
*
84390578 GTAATTCTACCCTACAGGGGTATTTTAG-TAATTT-TA-CAAACCAGGGGTATTTTGGTAA
1 GTAATTCTACCCTACAGGGGTA-TTTAGAT-ATTTCTACCAAA-CAGGGGTATTTCGGTAA
84390636 TTTTGATAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 110 0.92
82 8 0.07
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTAGATATTTCTACCAAACAGGGGTATTTCGGTAACTCTACC
ATACAAGGGTATTTCA
Found at i:84390746 original size:81 final size:81
Alignment explanation
Indices: 84390595--84390747 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
84390585 TACCCTACAG
* * * * * *
84390595 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGATAACCAATGGTATTTTGG
1 GGGTATTTCAATAATTTCACAAACCAAGGGTATTTTGGTAATTTTGAAAACCAAGGGTATTTTGG
84390660 TAATTTTACAAGTCGA
66 TAATTTTACAAGTCGA
** *
84390676 GGGTATTTCAATAATTTCACAAATTAAGGGTATTTTGGTAATTTT-ACAAACTAAGGGTATTTTG
1 GGGTATTTCAATAATTTCACAAACCAAGGGTATTTTGGTAATTTTGA-AAACCAAGGGTATTTTG
84390740 GTAATTTT
65 GTAATTTT
84390748 GTAAACTAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.02
81 61 0.98
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTCAATAATTTCACAAACCAAGGGTATTTTGGTAATTTTGAAAACCAAGGGTATTTTGG
TAATTTTACAAGTCGA
Found at i:84390772 original size:81 final size:81
Alignment explanation
Indices: 84390595--84390772 Score: 200
Period size: 81 Copynumber: 2.2 Consensus size: 81
84390585 TACCCTACAG
* * * *
84390595 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGATAACCAATGGTATTTTGG
1 GGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTGAAAACCAAGGGTATTTTGG
* *
84390660 TAATTTTACAAGTCGA
66 TAATTTTACAACTCAA
* * ** *
84390676 GGGTATTTCAATAATTTCACAAATTAAGGGTATTTTGGTAATTTT-ACAAACTAAGGGTATTTTG
1 GGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTGA-AAACCAAGGGTATTTTG
84390740 GTAATTTTGTA-AACT-AA
65 GTAA-TTT-TACAACTCAA
*
84390757 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
84390773 CTACCCTACA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 1 0.01
81 71 0.89
82 6 0.08
83 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTGAAAACCAAGGGTATTTTGG
TAATTTTACAACTCAA
Found at i:84390788 original size:54 final size:54
Alignment explanation
Indices: 84390444--84390810 Score: 233
Period size: 54 Copynumber: 6.8 Consensus size: 54
84390434 GGTATCTCGA
**
84390444 TAATTCTACCCTACAGGGGTATTTCAGT-A-TTTCTACCATAC-AAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTCTA--A-ACTAAGGGTATTTTGG
** *
84390498 TAATTCTACCCTACAGGGGTATTTC-G--ATATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAGTAAT-TTTCTAAACT--AAGGGTATTTTGG
* ** *
84390552 TAACTCTACCCTACAGGGGTATTTCAGTAA--TTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTCTAAACTA-A-GGGTATTTTGG
* ** ** * * *
84390606 TAATTTTA-CAAACCAGGGGTATTTTGGTAATTTT-GATAACCAATGGTATTTTGG
1 TAATTCTACCCTA-CAGGGGTATTTCAGTAATTTTCTA-AACTAAGGGTATTTTGG
* ** * * *
84390660 TAATTTTACAAGT-C-GAGGGTATTTCAATAA-TTTCACAAATTAAGGGTATTTTGG
1 TAATTCTAC-CCTACAG-GGGTATTTCAGTAATTTTC-TAAACTAAGGGTATTTTGG
* * ** *
84390714 TAATTTTACAAACTA-A-GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGG
1 TAATTCTAC--CCTACAGGGGTATTTCAGTAATTTTCTAAACTAAGGGTATTTTGG
*
84390768 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTGTAAACTAA
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTTTCTAAACTAA
84390811 AGTATTCTAA
Statistics
Matches: 249, Mismatches: 39, Indels: 50
0.74 0.12 0.15
Matches are distributed among these distances:
51 1 0.00
52 5 0.02
53 9 0.04
54 219 0.88
55 10 0.04
56 4 0.02
57 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTTTCTAAACTAAGGGTATTTTGG
Found at i:84400945 original size:30 final size:30
Alignment explanation
Indices: 84400911--84400970 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
84400901 ATTTGCAGTG
84400911 TTTATAATGTGGCTTACCTCAATCCTGAGT
1 TTTATAATGTGGCTTACCTCAATCCTGAGT
*
84400941 TTTATAATGTGGCTTACTTCAATCCTGAGT
1 TTTATAATGTGGCTTACCTCAATCCTGAGT
84400971 AAGTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (30 bp):
TTTATAATGTGGCTTACCTCAATCCTGAGT
Found at i:84407263 original size:23 final size:23
Alignment explanation
Indices: 84407237--84407294 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
84407227 ATACATGCCA
84407237 TTATAACAAAATAAGTTTACTAT
1 TTATAACAAAATAAGTTTACTAT
*
84407260 TTATAGCAAAATAAGTTTACTAT
1 TTATAACAAAATAAGTTTACTAT
*
84407283 TTATACCAAAAT
1 TTATAACAAAAT
84407295 GAATTGGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (23 bp):
TTATAACAAAATAAGTTTACTAT
Found at i:84413730 original size:40 final size:40
Alignment explanation
Indices: 84413646--84413829 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
84413636 TTGAATGCTG
* * * *
84413646 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
84413685 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
84413726 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
84413766 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
84413806 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84413830 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:84413783 original size:80 final size:81
Alignment explanation
Indices: 84413646--84413826 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
84413636 TTGAATGCTG
* * *
84413646 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
84413710 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
84413726 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
84413787 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
84413806 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
84413827 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:84413850 original size:39 final size:38
Alignment explanation
Indices: 84413727--84413876 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
84413717 GTTATTAATT
* ** * *
84413727 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
84413767 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
84413806 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
84413846 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
84413877 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:84421611 original size:40 final size:40
Alignment explanation
Indices: 84421527--84421710 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
84421517 TTGAATGCTG
* * * *
84421527 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
84421566 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
84421607 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
84421647 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
84421687 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84421711 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:84421664 original size:80 final size:81
Alignment explanation
Indices: 84421527--84421707 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
84421517 TTGAATGCTG
* * *
84421527 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
84421591 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
84421607 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
84421668 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
84421687 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
84421708 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:84421731 original size:39 final size:38
Alignment explanation
Indices: 84421608--84421757 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
84421598 GTTATTAATT
* ** * *
84421608 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
84421648 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
84421687 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
84421727 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
84421758 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:84424585 original size:22 final size:25
Alignment explanation
Indices: 84424558--84424602 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
84424548 GTGAATTGAA
84424558 AATTG-ATTGAAAA-GTG-GAAAAT
1 AATTGAATTGAAAATGTGAGAAAAT
84424580 AATTGAATTGAAAATGTGAGAAA
1 AATTGAATTGAAAATGTGAGAAA
84424603 TTGCGGCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 3 0.15
25 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (25 bp):
AATTGAATTGAAAATGTGAGAAAAT
Found at i:84431065 original size:9 final size:10
Alignment explanation
Indices: 84431053--84431092 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
84431043 TTTTTGATTG
84431053 TTTTAAAT-T
1 TTTTAAATAT
84431062 TTTT-AATAT
1 TTTTAAATAT
84431071 TTTT-AATAT
1 TTTTAAATAT
84431080 TTTTAAATTAT
1 TTTTAAA-TAT
84431091 TT
1 TT
84431093 ATTTACGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.11
9 18 0.64
10 2 0.07
11 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:84431295 original size:6 final size:6
Alignment explanation
Indices: 84431286--84431322 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
84431276 TTTAATATTT
84431286 TAAATG TAAATG TAAATG TAAATG TAAATG TAAATG T
1 TAAATG TAAATG TAAATG TAAATG TAAATG TAAATG T
84431323 TAATTGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (6 bp):
TAAATG
Found at i:84437308 original size:42 final size:42
Alignment explanation
Indices: 84437261--84437451 Score: 179
Period size: 42 Copynumber: 4.5 Consensus size: 42
84437251 TAAAAAAAGT
* *
84437261 CGCTAAAGAACATGATTTTTAGCGGCGCTTTTCCATAAATGC
1 CGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCATAAACGC
* * * *
84437303 CGCTAAAGATCATGATCTTTAGCGGCACTTTTCCCACAAACAC
1 CGCTAAAGAACATGATCTTTAGCGGCGCTTTT-CCATAAACGC
* * * * * * *
84437346 CGTTAAAAAACATAACCTTTAGCGACGCTTTTCCCTCAAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCAT-AAACGC
* * *
84437389 CACTATA-AA-ATAGATCTTTAGCGGTGCTTTTCTCATAAACGC
1 CGCTAAAGAACAT-GATCTTTAGCGGCGCTTTTC-CATAAACGC
*
84437431 CGCTAAAGAACATGACCTTTA
1 CGCTAAAGAACATGATCTTTA
84437452 AAAAATATAT
Statistics
Matches: 114, Mismatches: 29, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
41 2 0.02
42 59 0.52
43 51 0.45
44 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
CGCTAAAGAACATGATCTTTAGCGGCGCTTTTCCATAAACGC
Found at i:84437676 original size:13 final size:14
Alignment explanation
Indices: 84437653--84437681 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
84437643 TACCAAGCCC
84437653 AACTTACAAACCCA
1 AACTTACAAACCCA
84437667 AACTTA-AAACCCA
1 AACTTACAAACCCA
84437680 AA
1 AA
84437682 ATAAAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (14 bp):
AACTTACAAACCCA
Found at i:84437953 original size:20 final size:20
Alignment explanation
Indices: 84437895--84437945 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
84437885 CTATAACCTA
*
84437895 CAAACAAGACAAAAACAAAG
1 CAAACAAGACAAAAACGAAG
* *
84437915 CAAGCAGGACAAAAACGAAG
1 CAAACAAGACAAAAACGAAG
84437935 CAAACAAGACA
1 CAAACAAGACA
84437946 GTAACGAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.63, C:0.22, G:0.16, T:0.00
Consensus pattern (20 bp):
CAAACAAGACAAAAACGAAG
Found at i:84439247 original size:22 final size:23
Alignment explanation
Indices: 84439222--84439270 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
84439212 TCTTTTACTA
84439222 TTATTACTCA-TTATTT-TTTATT
1 TTATTACTCATTTATTTATTT-TT
* *
84439244 TTATTGCTTATTTATTTATTTTT
1 TTATTACTCATTTATTTATTTTT
84439267 TTAT
1 TTAT
84439271 ACATACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
23 12 0.52
24 3 0.13
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (23 bp):
TTATTACTCATTTATTTATTTTT
Found at i:84439307 original size:3 final size:3
Alignment explanation
Indices: 84439299--84439330 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
84439289 TTCTAAGTTC
84439299 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
84439331 ATTTTTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:84439617 original size:21 final size:19
Alignment explanation
Indices: 84439592--84439637 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
84439582 CTTTTAAACA
*
84439592 TTTTATGTTATGTATGTTTAT
1 TTTTATGTCATGTAT-TTT-T
*
84439613 TTTTACGTCATGTATTTTT
1 TTTTATGTCATGTATTTTT
84439632 TTTTAT
1 TTTTAT
84439638 TGCTTTACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 3 0.14
21 13 0.59
ACGTcount: A:0.17, C:0.04, G:0.11, T:0.67
Consensus pattern (19 bp):
TTTTATGTCATGTATTTTT
Found at i:84440466 original size:7 final size:7
Alignment explanation
Indices: 84440454--84440497 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
84440444 TGTATTTTCG
84440454 TTGAAAA
1 TTGAAAA
84440461 TTGAAAA
1 TTGAAAA
84440468 TTGAAAA
1 TTGAAAA
84440475 TTGAAAA
1 TTGAAAA
84440482 TTGAAAA
1 TTGAAAA
84440489 TTGAAAA
1 TTGAAAA
84440496 TT
1 TT
84440498 TATGTCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.32
Consensus pattern (7 bp):
TTGAAAA
Found at i:84445163 original size:30 final size:30
Alignment explanation
Indices: 84445127--84445187 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
84445117 CATTTAATAC
*
84445127 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
84445157 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
84445187 A
1 A
84445188 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:84452682 original size:30 final size:30
Alignment explanation
Indices: 84452637--84452696 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
84452627 ATTTAATACG
*
84452637 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
84452667 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
84452697 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:84453562 original size:12 final size:12
Alignment explanation
Indices: 84453541--84453583 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
84453531 AAGGAGAGGT
84453541 AAGAACAGATAC
1 AAGAACAGATAC
* *
84453553 AAGAATAGATGC
1 AAGAACAGATAC
* *
84453565 AAGCACAAATAC
1 AAGAACAGATAC
84453577 AAGAACA
1 AAGAACA
84453584 ATTGGATAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.09
Consensus pattern (12 bp):
AAGAACAGATAC
Found at i:84463180 original size:45 final size:45
Alignment explanation
Indices: 84463029--84463188 Score: 164
Period size: 45 Copynumber: 3.6 Consensus size: 45
84463019 TTATGGTGAG
* *
84463029 TCTTATCTTCCTGAAGTCGCAGTGGAGCAGATTGAAGCTACTAG-
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAGA
* * * *
84463073 CCTTATCTTCCTGAAGTTGCAGCGGAGCAGATTGAATATAGC-AAA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAGA
* ** * * *
84463118 TCTCATCAACCTAAAGTTGCAGTGGAGCAGATTGAAGATATTGGA
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAGA
*
84463163 TCTTAT-TTCCCTGAAGTTGCAATGGA
1 TCTTATCTT-CCTGAAGTTGCAGTGGA
84463189 ACAAATCAAA
Statistics
Matches: 91, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
44 36 0.40
45 55 0.60
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAGA
Found at i:84463352 original size:51 final size:51
Alignment explanation
Indices: 84463271--84463371 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
84463261 CGCAATAGAG
* * * * *
84463271 TAGATTGAAGTTACAAGTTGCGAGTCTTATCTCCCTAAAGTTGCAGTGGAA
1 TAGATTAAAGCTACAAGTTACAAGTATTATCTCCCTAAAGTTGCAGTGGAA
* * *
84463322 TAGATTAAAGCTACAAGTTACAAGTATTATCTTCCTGAAGTTGTAGTGGA
1 TAGATTAAAGCTACAAGTTACAAGTATTATCTCCCTAAAGTTGCAGTGGA
84463372 GCAGATTGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (51 bp):
TAGATTAAAGCTACAAGTTACAAGTATTATCTCCCTAAAGTTGCAGTGGAA
Found at i:84463837 original size:13 final size:14
Alignment explanation
Indices: 84463814--84463842 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
84463804 TACCAAGCCC
84463814 AACTTACAAACCCA
1 AACTTACAAACCCA
84463828 AACTTA-AAACCCA
1 AACTTACAAACCCA
84463841 AA
1 AA
84463843 ATAAAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (14 bp):
AACTTACAAACCCA
Found at i:84464104 original size:20 final size:20
Alignment explanation
Indices: 84464053--84464104 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
84464043 CCTATAACCT
*
84464053 GCAAACAAGACAGAAACGAA
1 GCAAACAAGACAAAAACGAA
* * *
84464073 GCAAGCAGGACAAAAATGAA
1 GCAAACAAGACAAAAACGAA
84464093 GCAAACAAGACA
1 GCAAACAAGACA
84464105 GTAACAAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.58, C:0.19, G:0.21, T:0.02
Consensus pattern (20 bp):
GCAAACAAGACAAAAACGAA
Found at i:84465477 original size:3 final size:3
Alignment explanation
Indices: 84465469--84465526 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
84465459 GAAGTTCATT
84465469 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
84465517 TTA TTG TTA T
1 TTA TTA TTA T
84465527 ATTTTTTTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:84465813 original size:21 final size:21
Alignment explanation
Indices: 84465788--84465832 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
84465778 CTTTTAAACA
* *
84465788 TTTTATGTTATGTATGTTTAT
1 TTTTACGTCATGTATGTTTAT
* *
84465809 TTTTACGTCATGTATTTTTGT
1 TTTTACGTCATGTATGTTTAT
84465830 TTT
1 TTT
84465833 ATTGCTTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.04, G:0.13, T:0.67
Consensus pattern (21 bp):
TTTTACGTCATGTATGTTTAT
Found at i:84470623 original size:15 final size:15
Alignment explanation
Indices: 84470598--84470642 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
84470588 ATATAGACTA
*
84470598 AAATATTAATTTTTT
1 AAATTTTAATTTTTT
* *
84470613 AATTTTTAATTTTTA
1 AAATTTTAATTTTTT
*
84470628 AAATTTAAATTTTTT
1 AAATTTTAATTTTTT
84470643 TGAAGATTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATTTTAATTTTTT
Found at i:84471694 original size:7 final size:7
Alignment explanation
Indices: 84471684--84471759 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
84471674 CTTATCCCTA
84471684 TAAACCC
1 TAAACCC
* *
84471691 TAAATCA
1 TAAACCC
* *
84471698 TAAAACA
1 TAAACCC
84471705 TAAACCC
1 TAAACCC
84471712 TAAACCCC
1 TAAA-CCC
*
84471720 TAACCCC
1 TAAACCC
* *
84471727 TAAATCT
1 TAAACCC
*
84471734 TAAACCA
1 TAAACCC
*
84471741 TAAACCA
1 TAAACCC
*
84471748 TAATCCC
1 TAAACCC
84471755 TAAAC
1 TAAAC
84471760 ATATAATATA
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
7 48 0.89
8 6 0.11
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:84471809 original size:14 final size:14
Alignment explanation
Indices: 84471799--84471837 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
84471789 TCCTAAAGCT
84471799 TAAACCCTAAATCA
1 TAAACCCTAAATCA
*
84471813 TATACCCTAAATCA
1 TAAACCCTAAATCA
*
84471827 CAAACCCTAAA
1 TAAACCCTAAA
84471838 CTATAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:84472338 original size:41 final size:40
Alignment explanation
Indices: 84472257--84472364 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 40
84472247 ATTTTTTTGT
* * *
84472257 GGCGTTTTTCAAAAAGCGCCGCTAATGGTTGACCTCTAGC
1 GGCGTTTTTCAAAAAGCACCGCTAATGGTTAACCTATAGC
* *
84472297 GGCGTTTTTTTAAAAAGCACCGCTAAT-GTTCAATCTATAGC
1 GGCG-TTTTTCAAAAAGCACCGCTAATGGTT-AACCTATAGC
* * * * *
84472338 GCCATTTGTCAAAAAGCGCCACTAATG
1 GGCGTTTTTCAAAAAGCACCGCTAATG
84472365 CCACTAAAGC
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
40 25 0.46
41 29 0.54
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCACCGCTAATGGTTAACCTATAGC
Found at i:84472487 original size:39 final size:39
Alignment explanation
Indices: 84472414--84472503 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
84472404 TTTTTGCAGT
*
84472414 GTTTTTCAAAAAGCGCCGCTAATATTCGACCTATAACGAC
1 GTTTTTC-AAAAGCGCCGCTAATACTCGACCTATAACGAC
* * * * * *
84472454 GTTTTTCAAAGGGGCCGCTAATGCTCGATCTATAGCGGC
1 GTTTTTCAAAAGCGCCGCTAATACTCGACCTATAACGAC
84472493 GTTTTTCAAAA
1 GTTTTTCAAAA
84472504 AGTGCCACTA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 35 0.83
40 7 0.17
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (39 bp):
GTTTTTCAAAAGCGCCGCTAATACTCGACCTATAACGAC
Found at i:84474315 original size:92 final size:91
Alignment explanation
Indices: 84474170--84474456 Score: 414
Period size: 93 Copynumber: 3.1 Consensus size: 91
84474160 GTATGTATAT
* * *
84474170 TTTCATAAAATTCTAATGTGGTATTTGTATTTTGAAAATGTCCAATGTAGTACTTGAACTATCAA
1 TTTCATAAAATTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCAA
84474235 TTTGTATTTTATTATGGTACATGTAC
66 TTTGTATTTTATTATGGTACATGTAC
* * * *
84474261 TATCATAAAATATGTAATGTGGTACTTGTACTTTGAAAATGTCCAATTTGGTACTTGAATTATCA
1 TTTCATAAAAT-TCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
*
84474326 ATATGTGT-TTTTATTATGGTACTTGTAC
65 AT-T-TGTATTTTATTATGGTACATGTAC
* * *
84474354 TTTCATAAAATGTTTAATGTGGTACTTGCACATTGAAAATGTCCAATGTGGTACTTGAACTATCA
1 TTTCATAAAAT-TCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
* *
84474419 ATATGTATTTTATTATGTTACATGTAC
65 ATTTGTATTTTATTATGGTACATGTAC
84474446 TTTCATAAAAT
1 TTTCATAAAAT
84474457 GTCCAATGCG
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
91 13 0.07
92 78 0.45
93 80 0.46
94 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (91 bp):
TTTCATAAAATTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCAA
TTTGTATTTTATTATGGTACATGTAC
Found at i:84474376 original size:93 final size:93
Alignment explanation
Indices: 84474170--84474464 Score: 418
Period size: 92 Copynumber: 3.2 Consensus size: 93
84474160 GTATGTATAT
* * *
84474170 TTTCATAAAAT-TCTAATGTGGTATTTGTATTTTGAAAATGTCCAATGTAGTACTTGAACTATCA
1 TTTCATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
84474234 AT-T-TGTATTTTATTATGGTACATGTAC
66 ATATGTGT-TTTTATTATGGTACATGTAC
* * * * *
84474261 TATCATAAAATATGTAATGTGGTACTTGTACTTTGAAAATGTCCAATTTGGTACTTGAATTATCA
1 TTTCATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
*
84474326 ATATGTGTTTTTATTATGGTACTTGTAC
66 ATATGTGTTTTTATTATGGTACATGTAC
* * *
84474354 TTTCATAAAATGTTTAATGTGGTACTTGCACATTGAAAATGTCCAATGTGGTACTTGAACTATCA
1 TTTCATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
* *
84474419 ATATGT-ATTTTATTATGTTACATGTAC
66 ATATGTGTTTTTATTATGGTACATGTAC
*
84474446 TTTCATAAAATGTCCAATG
1 TTTCATAAAATGTCTAATG
84474465 CGGTGCCTAA
Statistics
Matches: 181, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
91 10 0.06
92 84 0.46
93 84 0.46
94 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (93 bp):
TTTCATAAAATGTCTAATGTGGTACTTGTACTTTGAAAATGTCCAATGTGGTACTTGAACTATCA
ATATGTGTTTTTATTATGGTACATGTAC
Found at i:84474380 original size:31 final size:31
Alignment explanation
Indices: 84474249--84474381 Score: 85
Period size: 31 Copynumber: 4.3 Consensus size: 31
84474239 TATTTTATTA
* * * *
84474249 TGGTACATGTACTATCATAAAATATGTAATG
1 TGGTACTTGTACTTTCATAAAATGTTTAATG
* ** *
84474280 TGGTACTTGTACTTT--GAAAATGTCCAATT
1 TGGTACTTGTACTTTCATAAAATGTTTAATG
* ** * *
84474309 TGGTACTTG-AATTATCA-ATATGTGTTTTTATTA
1 TGGTACTTGTACTT-TCATA-AAATG--TTTAATG
84474342 TGGTACTTGTACTTTCATAAAATGTTTAATG
1 TGGTACTTGTACTTTCATAAAATGTTTAATG
84474373 TGGTACTTG
1 TGGTACTTG
84474382 CACATTGAAA
Statistics
Matches: 75, Mismatches: 19, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
28 3 0.04
29 19 0.25
30 1 0.01
31 30 0.40
33 18 0.24
34 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (31 bp):
TGGTACTTGTACTTTCATAAAATGTTTAATG
Found at i:84474424 original size:29 final size:29
Alignment explanation
Indices: 84474342--84474413 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
84474332 GTTTTTATTA
* * **
84474342 TGGTACTTGTACTTTCATAAAATGTTTAATG
1 TGGTACTTGAACATTC--AAAATGTCCAATG
* *
84474373 TGGTACTTGCACATTGAAAATGTCCAATG
1 TGGTACTTGAACATTCAAAATGTCCAATG
84474402 TGGTACTTGAAC
1 TGGTACTTGAAC
84474414 TATCAATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 22 0.63
31 13 0.37
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (29 bp):
TGGTACTTGAACATTCAAAATGTCCAATG
Found at i:84474624 original size:22 final size:22
Alignment explanation
Indices: 84474599--84474641 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
84474589 AGATAATATA
* *
84474599 AAATTATGTGAAAAATTAAATT
1 AAATTAAGTGAAAAAATAAATT
*
84474621 AAATTAAGTTAAAAAATAAAT
1 AAATTAAGTGAAAAAATAAAT
84474642 AACTAATATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
AAATTAAGTGAAAAAATAAATT
Found at i:84479797 original size:114 final size:114
Alignment explanation
Indices: 84479476--84479857 Score: 381
Period size: 114 Copynumber: 3.4 Consensus size: 114
84479466 ATGGTGCTAC
* * * * * * * ** *
84479476 TACCATTCCAGTGGAGACCAACTTAGACCGTGTAAAAGATGAAGATTTGTCCTACAACCCCAAGA
1 TACCATTCCAGTAGATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAAGA
* * * * * * * *
84479541 ATCTTGTAACTTATCCCAAGGCTGATGTAGCATCCTCAGAGACAAGTGT
66 ATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGT
* * ** * *
84479590 TACCATTCCGGTAAATACGAATTTAGAATATGTAAAAGGTAAAGGTTTATCCAACAACCCCAAGA
1 TACCATTCCAGTAGATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAAGA
* *
84479655 ATCCTGTAAGTTATCCCATGGCTAAAGTTGAATCCGCAGAGACGAGTGT
66 ATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGT
* * * * * * *
84479704 TACAACTCCAGTAGATACGAATTTAGACCATGTAACAGATAACGGTTTGCCCAATAGCCCCAAGA
1 TACCATTCCAGTAGATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAAGA
* * **
84479769 ATCCTGTAACTTCTCCTATGGCTAAAGTT-ACATCCACAGAGACGAGCAT
66 ATCCTGTAACTTATCCCATGGCTAAAGTTGA-ATCCACAGAGACGAGTGT
* *
84479818 TACCATTCCAGTAGATATGAACTTT-GACCATGTAGAAGAT
1 TACCATTCCAGTAGATACGAA-TTTAGACCATGTAAAAGAT
84479858 TCCCATGCCA
Statistics
Matches: 219, Mismatches: 47, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
113 1 0.00
114 215 0.98
115 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (114 bp):
TACCATTCCAGTAGATACGAATTTAGACCATGTAAAAGATAAAGGTTTACCCAACAACCCCAAGA
ATCCTGTAACTTATCCCATGGCTAAAGTTGAATCCACAGAGACGAGTGT
Found at i:84485527 original size:24 final size:24
Alignment explanation
Indices: 84485491--84485562 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
84485481 ACATAAAAAT
84485491 TAAAT-TTATAATAAAATATAA-TAC
1 TAAATATTA-AAT-AAATATAATTAC
* *
84485515 TAAATATTAAATATATATAATTAT
1 TAAATATTAAATAAATATAATTAC
*
84485539 TAAATATTAAAATAAGTATAATTA
1 TAAATATT-AAATAAATATAATTA
84485563 TTTATTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 7 0.17
24 18 0.44
25 16 0.39
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (24 bp):
TAAATATTAAATAAATATAATTAC
Found at i:84485539 original size:17 final size:19
Alignment explanation
Indices: 84485504--84485545 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
84485494 ATTTATAATA
84485504 AAATATAATACTAAATATT
1 AAATATAATACTAAATATT
*
84485523 AAATAT-ATA-TAATTATT
1 AAATATAATACTAAATATT
84485540 AAATAT
1 AAATAT
84485546 TAAAATAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.59
18 3 0.14
19 6 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATATAATACTAAATATT
Found at i:84485558 original size:25 final size:24
Alignment explanation
Indices: 84485505--84485564 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
84485495 TTTATAATAA
*
84485505 AATATAA-TACTAAATATT-AAAT
1 AATATAATTATTAAATATTAAAAT
84485527 ATATATAATTATTAAATATTAAAAT
1 A-ATATAATTATTAAATATTAAAAT
84485552 AAGTATAATTATT
1 AA-TATAATTATT
84485565 TATTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 1 0.03
23 6 0.18
24 11 0.33
25 15 0.45
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AATATAATTATTAAATATTAAAAT
Found at i:84486323 original size:17 final size:17
Alignment explanation
Indices: 84486277--84486323 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
84486267 TTTTTACTTT
*
84486277 TTTTTTAAACTTTTGTC
1 TTTTTTAAATTTTTGTC
* *
84486294 TTTTTTAATTTTTTTTC
1 TTTTTTAAATTTTTGTC
*
84486311 TTTTTTAAGTTTT
1 TTTTTTAAATTTT
84486324 ATATTTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTTAAATTTTTGTC
Found at i:84486368 original size:14 final size:13
Alignment explanation
Indices: 84486321--84486381 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 13
84486311 TTTTTTAAGT
*
84486321 TTTATATTTTTT-
1 TTTATTTTTTTTA
* *
84486333 CTTATTTTATTTTG
1 TTTATTTT-TTTTA
*
84486347 TTTATTTTGTTTA
1 TTTATTTTTTTTA
84486360 TTTATTTTTTATTA
1 TTTATTTTTT-TTA
*
84486374 TTAATTTT
1 TTTATTTT
84486382 AAAAAAATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 6 0.15
13 16 0.41
14 17 0.44
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:84486445 original size:21 final size:20
Alignment explanation
Indices: 84486419--84486509 Score: 93
Period size: 21 Copynumber: 4.7 Consensus size: 20
84486409 GTTTTATAAT
84486419 ATATATTTTTTAAAATTTTAA
1 ATATATTTTTTAAAA-TTTAA
*
84486440 ATATATATTTTTGAAA-TT--
1 ATATAT-TTTTTAAAATTTAA
*
84486458 A-AT-TTTTTTAAATTTTAA
1 ATATATTTTTTAAAATTTAA
*
84486476 ATATTATTTTTTAAAAATTAA
1 ATA-TATTTTTTAAAATTTAA
84486497 ATATATTTTTTAA
1 ATATATTTTTTAA
84486510 TAATATGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
15 7 0.12
16 3 0.05
17 2 0.03
18 2 0.03
19 1 0.02
20 13 0.22
21 22 0.38
22 8 0.14
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
ATATATTTTTTAAAATTTAA
Found at i:84486487 original size:36 final size:37
Alignment explanation
Indices: 84486423--84486496 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 37
84486413 TATAATATAT
*
84486423 ATTTTTTAAAATTTTAAATATATATTTTT-GAAATTA
1 ATTTTTTAAAATTTTAAATATATATTTTTAAAAATTA
*
84486459 ATTTTTTTAAATTTTAAATAT-TATTTTTTAAAAATTA
1 ATTTTTTAAAATTTTAAATATATA-TTTTTAAAAATTA
84486496 A
1 A
84486497 ATATATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 2 0.06
36 25 0.74
37 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (37 bp):
ATTTTTTAAAATTTTAAATATATATTTTTAAAAATTA
Found at i:84486591 original size:17 final size:17
Alignment explanation
Indices: 84486571--84486627 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
84486561 TTGTTTTTAT
84486571 TTTTTAATAATATAAAA
1 TTTTTAATAATATAAAA
*
84486588 TTTTTAA-ACATTTAAAA
1 TTTTTAATA-ATATAAAA
84486605 -TTTT--TAA-ATAAAA
1 TTTTTAATAATATAAAA
84486618 TTTTTAATAA
1 TTTTTAATAA
84486628 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 1 0.03
16 8 0.24
17 14 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTTAATAATATAAAA
Found at i:84486626 original size:12 final size:13
Alignment explanation
Indices: 84486600--84486640 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
84486590 TTTAAACATT
84486600 TAAAATTTTTAAA
1 TAAAATTTTTAAA
84486613 TAAAATTTTTAATA
1 TAAAATTTTTAA-A
* *
84486627 AAAAATTTTAAAA
1 TAAAATTTTTAAA
84486640 T
1 T
84486641 GGTTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:84486677 original size:14 final size:15
Alignment explanation
Indices: 84486658--84486686 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
84486648 TTTCTTTAAA
84486658 AATAAT-TAAAAAAT
1 AATAATATAAAAAAT
84486672 AATAATATAAAAAAT
1 AATAATATAAAAAAT
84486687 TTTCTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAATATAAAAAAT
Found at i:84486837 original size:21 final size:21
Alignment explanation
Indices: 84486780--84486835 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
84486770 TTAAATATTA
84486780 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
84486801 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
84486822 TTAGAGAAAATAAT
1 TTA-A-AAAATAAT
84486836 TTCAAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 24 0.73
22 1 0.03
23 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:84486846 original size:32 final size:33
Alignment explanation
Indices: 84486798--84486897 Score: 139
Period size: 32 Copynumber: 3.0 Consensus size: 33
84486788 TAATATTTAA
84486798 AATTTAAAAAATAATATTTAAAATTTAGAGAAAAT
1 AATTTAAAAAATAATATTTAAAATTT-GA-AAAAT
* *
84486833 AATTTCAAAAATATATATTTAAAATTTTAAAAAT
1 AATTTAAAAAATA-ATATTTAAAATTTGAAAAAT
*
84486867 AATTT-AAAAATAATATTTAAAATTTTAAAAA
1 AATTTAAAAAATAATATTTAAAATTTGAAAAA
84486898 ATATATATTA
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
32 19 0.31
33 7 0.11
34 10 0.16
35 13 0.21
36 13 0.21
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (33 bp):
AATTTAAAAAATAATATTTAAAATTTGAAAAAT
Found at i:84486886 original size:13 final size:11
Alignment explanation
Indices: 84486828--84486897 Score: 58
Period size: 9 Copynumber: 6.4 Consensus size: 11
84486818 AAATTTAGAG
84486828 AAAATAATTTCA
1 AAAATAATTT-A
*
84486840 AAAATATATATTT
1 AAAATA-AT-TTA
84486853 AAAAT--TTTA
1 AAAATAATTTA
84486862 AAAATAATTTA
1 AAAATAATTTA
*
84486873 AAAATAATATTT
1 AAAATAAT-TTA
84486885 AAAAT--TTTA
1 AAAATAATTTA
84486894 AAAA
1 AAAA
84486898 ATATATATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
9 13 0.27
10 2 0.04
11 12 0.24
12 13 0.27
13 7 0.14
14 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAATAATTTA
Found at i:84486889 original size:57 final size:55
Alignment explanation
Indices: 84486780--84486912 Score: 153
Period size: 57 Copynumber: 2.4 Consensus size: 55
84486770 TTAAATATTA
* *
84486780 TTAAAAAATA-ATATTTAAAATTTAAAAAATAATATTTAAAATTTAGAGAAAATAAT
1 TTAAAAAATATATATTTAAAATTTAAAAAATAATATTAAAAATATAGAGAAAAT--T
* * ***
84486836 TTCAAAAATATATATTTAAAATTTTAAAAATAAT-TTAAAAATAATATTTAAAATT
1 TTAAAAAATATATATTTAAAATTTAAAAAATAATATTAAAAAT-ATAGAGAAAATT
84486891 TTAAAAAATATATATTATAAAA
1 TTAAAAAATATATATT-TAAAA
84486913 CATTTCAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
55 16 0.24
56 21 0.32
57 29 0.44
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (55 bp):
TTAAAAAATATATATTTAAAATTTAAAAAATAATATTAAAAATATAGAGAAAATT
Found at i:84486953 original size:23 final size:23
Alignment explanation
Indices: 84486927--84486979 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
84486917 TCAAATTTTT
*
84486927 TAAAATTAAT-AACAAAAAATAAA
1 TAAAATAAATGAACAAAAAA-AAA
*
84486950 TAAAATAAATGAACAAAATAAAA
1 TAAAATAAATGAACAAAAAAAAA
84486973 TAAAATA
1 TAAAATA
84486980 TAAAACTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (23 bp):
TAAAATAAATGAACAAAAAAAAA
Done.