Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 206 of 313
Found at i:63241650 original size:120 final size:119
Alignment explanation
Indices: 63241475--63241729 Score: 343
Period size: 120 Copynumber: 2.1 Consensus size: 119
63241465 GTGCATTTAG
* * * *
63241475 GGGTACCGAAATACAAACAGAGGTACGTATGTGCATTTAGGGGTACCGAAGTACAAACAAAGGCA
1 GGGTACCGAAGTACAAACAGAGGGACGTATGTGAAATTAGGGGTACCGAAGTACAAACAAAGGCA
*
63241540 CGTATGTGCATTCACGAGTACCGAA-GTACAAACAAAGGCACGGATGTGCAATCAA
66 CGTATGTGCATTCACGAGTACC-AATGTACAAAC-AAGGCACGAATGTGCAATCAA
* * *
63241595 GGGTACCGAAGTACAAACAG-GGGAGTGTATGTGAAATTAGGGGTACTGAAGTACAAACAAGGGC
1 GGGTACCGAAGTACAAACAGAGGGA-CGTATGTGAAATTAGGGGTACCGAAGTACAAACAAAGGC
* * * *
63241659 ACGTATGTGCATTCAGGGGTACCAATGTACAAGCAGGGCACGAATGTGCAATCAA
65 ACGTATGTGCATTCACGAGTACCAATGTACAAACAAGGCACGAATGTGCAATCAA
* *
63241714 GGGTATCGAAGCACAA
1 GGGTACCGAAGTACAA
63241730 GTAGCGGCAC
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
119 38 0.32
120 81 0.68
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (119 bp):
GGGTACCGAAGTACAAACAGAGGGACGTATGTGAAATTAGGGGTACCGAAGTACAAACAAAGGCA
CGTATGTGCATTCACGAGTACCAATGTACAAACAAGGCACGAATGTGCAATCAA
Found at i:63243907 original size:16 final size:16
Alignment explanation
Indices: 63243886--63243919 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
63243876 AGTCAATTTT
63243886 TCAATAATAACCCAGA
1 TCAATAATAACCCAGA
63243902 TCAATAATAACCCAGA
1 TCAATAATAACCCAGA
63243918 TC
1 TC
63243920 GAATCTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (16 bp):
TCAATAATAACCCAGA
Found at i:63248498 original size:18 final size:19
Alignment explanation
Indices: 63248468--63248504 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
63248458 AACCAGCATA
63248468 TGTATCACAACA-TTCATT
1 TGTATCACAACATTTCATT
63248486 TGTAT-ACATACATTTCATT
1 TGTATCACA-ACATTTCATT
63248505 CAATGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 8 0.47
19 6 0.35
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (19 bp):
TGTATCACAACATTTCATT
Found at i:63249351 original size:30 final size:30
Alignment explanation
Indices: 63249303--63249434 Score: 112
Period size: 30 Copynumber: 4.5 Consensus size: 30
63249293 AGAATCAATC
* * *
63249303 TGGGCC-TGAGCCCTATACAGTAGCAGTGTG
1 TGGGCCAT-AGCCCAATACAGTAACAGAGTG
*
63249333 TGGGTCATAGCCCAATACAGTAACAGAGTG
1 TGGGCCATAGCCCAATACAGTAACAGAGTG
* * *
63249363 TGGGCCTTAGCCCAATACAGAAACA-ATTTG
1 TGGGCCATAGCCCAATACAGTAACAGA-GTG
* * *
63249393 TTGGCCTTAGCCCAATATAGTAAC--AGTG
1 TGGGCCATAGCCCAATACAGTAACAGAGTG
*
63249421 T-GGCCTTAGCCCAA
1 TGGGCCATAGCCCAA
63249435 AATAGTAATC
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
27 13 0.15
28 3 0.03
29 2 0.02
30 69 0.78
31 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (30 bp):
TGGGCCATAGCCCAATACAGTAACAGAGTG
Found at i:63249442 original size:27 final size:28
Alignment explanation
Indices: 63249340--63249434 Score: 120
Period size: 30 Copynumber: 3.3 Consensus size: 28
63249330 GTGTGGGTCA
63249340 TAGCCCAATACAGTAACAGAGTGTGGGCCT
1 TAGCCCAATACAGTAACA-AGTGT-GGCCT
* *
63249370 TAGCCCAATACAGAAACAATTTGTTGGCCT
1 TAGCCCAATACAGTAACAA-GTG-TGGCCT
*
63249400 TAGCCCAATATAGTAAC-AGTGTGGCCT
1 TAGCCCAATACAGTAACAAGTGTGGCCT
63249427 TAGCCCAA
1 TAGCCCAA
63249435 AATAGTAATC
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.24
28 2 0.03
29 2 0.03
30 39 0.67
31 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (28 bp):
TAGCCCAATACAGTAACAAGTGTGGCCT
Found at i:63249583 original size:26 final size:26
Alignment explanation
Indices: 63249554--63249676 Score: 116
Period size: 26 Copynumber: 5.0 Consensus size: 26
63249544 ACACCAATAT
63249554 CGCAGCAAAGCTGCCAGTATCAGTAA
1 CGCAGCAAAGCTGCCAGTATCAGTAA
*
63249580 CGCAGCAAA---G-C--TACCAGTAA
1 CGCAGCAAAGCTGCCAGTATCAGTAA
* * *
63249600 CGCAACTAAGCTACCAGTAGT-AGTAA
1 CGCAGCAAAGCTGCCAGTA-TCAGTAA
* * *
63249626 CGTAGCAGAGCTGCCAGTATCAGTAT
1 CGCAGCAAAGCTGCCAGTATCAGTAA
*
63249652 CGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTATCAGTA
63249677 TTTGTGACAA
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
20 15 0.20
22 1 0.01
23 1 0.01
24 1 0.01
25 1 0.01
26 56 0.75
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTATCAGTAA
Found at i:63249599 original size:20 final size:20
Alignment explanation
Indices: 63249574--63249618 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
63249564 CTGCCAGTAT
*
63249574 CAGTAACGCAGCAAAGCTAC
1 CAGTAACGCAACAAAGCTAC
*
63249594 CAGTAACGCAACTAAGCTAC
1 CAGTAACGCAACAAAGCTAC
63249614 CAGTA
1 CAGTA
63249619 GTAGTAACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (20 bp):
CAGTAACGCAACAAAGCTAC
Found at i:63249842 original size:27 final size:27
Alignment explanation
Indices: 63249800--63249911 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
63249790 TCATATAAAT
*
63249800 ATTTTACCCTTCGGGGGTATTTCAGTA
1 ATTTTACCCTTCGGGGGTATTTTAGTA
* *
63249827 ATTTTACCCTT-TGGGGTATTTTGGTA
1 ATTTTACCCTTCGGGGGTATTTTAGTA
** *
63249853 ATTTTACCCTTCAAGGGTATTTTGGTA
1 ATTTTACCCTTCGGGGGTATTTTAGTA
* * *
63249880 ATTTTACCTTTTGGGGGAATTTTAGTA
1 ATTTTACCCTTCGGGGGTATTTTAGTA
63249907 ATTTT
1 ATTTT
63249912 CCCATGAATC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 23 0.32
27 50 0.68
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTTAGTA
Found at i:63249881 original size:53 final size:54
Alignment explanation
Indices: 63249800--63249911 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 54
63249790 TCATATAAAT
** * *
63249800 ATTTTACCCTTCGGGGGTATTTCAGTAATTTTACCCTTT-GGGGTATTTTGGTA
1 ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCCTTTGGGGGAATTTTAGTA
** *
63249853 ATTTTACCCTTCAAGGGTATTTTGGTAATTTTACCTTTTGGGGGAATTTTAGTA
1 ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCCTTTGGGGGAATTTTAGTA
63249907 ATTTT
1 ATTTT
63249912 CCCATGAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 34 0.67
54 17 0.33
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (54 bp):
ATTTTACCCTTCAAGGGTATTTCAGTAATTTTACCCTTTGGGGGAATTTTAGTA
Found at i:63256737 original size:26 final size:26
Alignment explanation
Indices: 63256640--63256736 Score: 115
Period size: 26 Copynumber: 3.8 Consensus size: 26
63256630 AATATCGTTG
* *
63256640 CAAAGCT-CCAGTATCAGTAACACAA
1 CAAAGCTGCCAGTAACAGTAACGCAA
*
63256665 CAAAGCTGCCAATAACAGTAACGCAA
1 CAAAGCTGCCAGTAACAGTAACGCAA
* * * *
63256691 CAGAGCTGCCAGTATCAGTATCGCAG
1 CAAAGCTGCCAGTAACAGTAACGCAA
*
63256717 CAAAGCTACCAGTAACAGTA
1 CAAAGCTGCCAGTAACAGTA
63256737 TTTGTGGCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
25 7 0.12
26 53 0.88
ACGTcount: A:0.40, C:0.27, G:0.18, T:0.15
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTAACGCAA
Found at i:63256961 original size:27 final size:27
Alignment explanation
Indices: 63256931--63257069 Score: 97
Period size: 27 Copynumber: 5.2 Consensus size: 27
63256921 TATAACGGTC
63256931 ATTTTAACCTTTGAGGGTATTTTAGTA
1 ATTTTAACCTTTGAGGGTATTTTAGTA
* *
63256958 ATTTT-ACCTTTCAAGGGTA-TTTCGATA
1 ATTTTAACCTTT-GAGGGTATTTTAG-TA
* * ** *
63256985 ATTTTACCCTTCGAGTTTATTTTGGTA
1 ATTTTAACCTTTGAGGGTATTTTAGTA
* * * *
63257012 ATTTTACCCTTTG-GGATATTTCAATA
1 ATTTTAACCTTTGAGGGTATTTTAGTA
** *
63257038 ATTTT-ACACTTCAAGGGTATTTTGGTA
1 ATTTTAAC-CTTTGAGGGTATTTTAGTA
63257065 ATTTT
1 ATTTT
63257070 CCGAATCGCA
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
25 1 0.01
26 26 0.31
27 50 0.59
28 8 0.09
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (27 bp):
ATTTTAACCTTTGAGGGTATTTTAGTA
Found at i:63257059 original size:53 final size:52
Alignment explanation
Indices: 63256944--63257069 Score: 155
Period size: 53 Copynumber: 2.4 Consensus size: 52
63256934 TTAACCTTTG
* * * *
63256944 AGGGTATTTTAGTAATTTTACCTTTCAAGGGTATTTCGATAATTTTACCCTTCG
1 AGGGTATTTTGGTAATTTTACCTTT--AGGGTATTTCAATAATTTTACACTTCA
**
63256998 AGTTTATTTTGGTAATTTTACCCTTT-GGGATATTTCAATAATTTTACACTTCA
1 AGGGTATTTTGGTAATTTTA-CCTTTAGGG-TATTTCAATAATTTTACACTTCA
63257051 AGGGTATTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTT
63257070 CCGAATCGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
52 3 0.05
53 37 0.60
54 17 0.27
55 5 0.08
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.48
Consensus pattern (52 bp):
AGGGTATTTTGGTAATTTTACCTTTAGGGTATTTCAATAATTTTACACTTCA
Found at i:63263671 original size:19 final size:19
Alignment explanation
Indices: 63263647--63263709 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
63263637 TAAGTGCGAT
63263647 CAAGGGTACCGAAGTACAA
1 CAAGGGTACCGAAGTACAA
* *
63263666 CAAGGGCA-CGTAAGT-CGAT
1 CAAGGGTACCG-AAGTAC-AA
* *
63263685 CAGGGGTACTGAAGTACAA
1 CAAGGGTACCGAAGTACAA
63263704 CAAGGG
1 CAAGGG
63263710 CACGTAAGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
18 3 0.09
19 28 0.85
20 2 0.06
ACGTcount: A:0.37, C:0.19, G:0.32, T:0.13
Consensus pattern (19 bp):
CAAGGGTACCGAAGTACAA
Found at i:63263718 original size:19 final size:19
Alignment explanation
Indices: 63263658--63263718 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
63263648 AAGGGTACCG
63263658 AAGTACAACAAGGGCACGT
1 AAGTACAACAAGGGCACGT
* * *
63263677 AAGT-CGATCAGGGGTAC-T
1 AAGTAC-AACAAGGGCACGT
63263695 GAAGTACAACAAGGGCACGT
1 -AAGTACAACAAGGGCACGT
63263715 AAGT
1 AAGT
63263719 GCGATCAGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 2 0.06
19 28 0.88
20 2 0.06
ACGTcount: A:0.38, C:0.18, G:0.30, T:0.15
Consensus pattern (19 bp):
AAGTACAACAAGGGCACGT
Found at i:63263739 original size:39 final size:39
Alignment explanation
Indices: 63263593--63263844 Score: 217
Period size: 39 Copynumber: 6.5 Consensus size: 39
63263583 ACGTAACCAC
* * ** * * *
63263593 GGCACGAAAGTGCTATCAAAAGTATCGAAGTACAA-TAG
1 GGCACGTAAGTGCGATCAGGAGTACCAAAGTACAACAAG
* *
63263631 GGGACGTAAGTGCGATCAAGG-GTACCGAAGTACAACAAG
1 GGCACGTAAGTGCGATC-AGGAGTACCAAAGTACAACAAG
* **
63263670 GGCACGTAAGT-CGATCAGGGGTACTGAAGTACAACAAG
1 GGCACGTAAGTGCGATCAGGAGTACCAAAGTACAACAAG
* *
63263708 GGCACGTAAGTGCGATCAGGAGTACCAAAGTACTAGAAG
1 GGCACGTAAGTGCGATCAGGAGTACCAAAGTACAACAAG
* * * * *
63263747 GGCATGTAAGTTCGATAATGG-GTTCCAAAGTACGACAAG
1 GGCACGTAAGTGCGATCA-GGAGTACCAAAGTACAACAAG
* *** *
63263786 GGCACGTAAGTGCGATCA-CAGGTACCAAAGTATGCCAGG
1 GGCACGTAAGTGCGATCAGGA-GTACCAAAGTACAACAAG
*
63263825 GGCACGTAAGTCCGATCAGG
1 GGCACGTAAGTGCGATCAGG
63263845 GATATAATTA
Statistics
Matches: 176, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
37 3 0.02
38 60 0.34
39 111 0.63
40 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.17
Consensus pattern (39 bp):
GGCACGTAAGTGCGATCAGGAGTACCAAAGTACAACAAG
Found at i:63265156 original size:22 final size:22
Alignment explanation
Indices: 63265131--63265173 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
63265121 ACCTCTCGAG
63265131 CCATAATTTTGATCGGTTCTTA
1 CCATAATTTTGATCGGTTCTTA
63265153 CCATAATTTTGATCGGTTCTT
1 CCATAATTTTGATCGGTTCTT
63265174 CACTGTACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.47
Consensus pattern (22 bp):
CCATAATTTTGATCGGTTCTTA
Found at i:63273431 original size:39 final size:39
Alignment explanation
Indices: 63273388--63273617 Score: 307
Period size: 39 Copynumber: 5.9 Consensus size: 39
63273378 TCAATAGTGT
*
63273388 CGAAGTACAACAGGGGCACATAAGTGCGATCAGGGGTAC
1 CGAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTAC
* * * *
63273427 CGAAGTACAATAGAGGCACGTAAGTACGATCAGGGGTAT
1 CGAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTAC
* * *
63273466 CGAAGTACAACAGGGGCACGTAAGTCCGATTAGGGGTGC
1 CGAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTAC
* * *
63273505 CAAAGTACAACAGGGGCACATAAGTGCGATCAAGGGTAC
1 CGAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTAC
* *
63273544 CGAAGTACGATAGGGGCACGTAAGTGCGATCAGGGGTAC
1 CGAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTAC
* * * *
63273583 CGAAGTACGATAGAGGCACGTAAGTGCAATCAGGG
1 CGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
63273618 ATATCATTAT
Statistics
Matches: 167, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 167 1.00
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.15
Consensus pattern (39 bp):
CGAAGTACAACAGGGGCACGTAAGTGCGATCAGGGGTAC
Found at i:63273453 original size:19 final size:19
Alignment explanation
Indices: 63273390--63273617 Score: 86
Period size: 19 Copynumber: 11.7 Consensus size: 19
63273380 AATAGTGTCG
* *
63273390 AAGTACAACAGGGGCACAT
1 AAGTACAATAGGGGCACGT
* * *
63273409 AAGTGCGATCAGGGGTACCG-
1 AAGTACAAT-AGGGGCA-CGT
*
63273429 AAGTACAATAGAGGCACGT
1 AAGTACAATAGGGGCACGT
* *
63273448 AAGTACGATCAGGGGTATCG-
1 AAGTACAAT-AGGGGCA-CGT
*
63273468 AAGTACAACAGGGGCACGT
1 AAGTACAATAGGGGCACGT
* * ** **
63273487 AAGTCCGATTAGGGGTGCCA
1 AAGTAC-AATAGGGGCACGT
* *
63273507 AAGTACAACAGGGGCACAT
1 AAGTACAATAGGGGCACGT
* * * *
63273526 AAGTGCGATCAAGGGTACCG-
1 AAGTACAAT-AGGGGCA-CGT
*
63273546 AAGTACGATAGGGGCACGT
1 AAGTACAATAGGGGCACGT
* * *
63273565 AAGTGCGATCAGGGGTACCG-
1 AAGTACAAT-AGGGGCA-CGT
* *
63273585 AAGTACGATAGAGGCACGT
1 AAGTACAATAGGGGCACGT
*
63273604 AAGTGCAATCAGGG
1 AAGTACAAT-AGGG
63273618 ATATCATTAT
Statistics
Matches: 149, Mismatches: 46, Indels: 27
0.67 0.21 0.12
Matches are distributed among these distances:
18 8 0.05
19 68 0.46
20 67 0.45
21 6 0.04
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.15
Consensus pattern (19 bp):
AAGTACAATAGGGGCACGT
Found at i:63273601 original size:117 final size:117
Alignment explanation
Indices: 63273390--63273607 Score: 364
Period size: 117 Copynumber: 1.9 Consensus size: 117
63273380 AATAGTGTCG
*
63273390 AAGTACAACAGGGGCACATAAGTGCGATCAGGGGTACCGAAGTACAATAGAGGCACGTAAGTACG
1 AAGTACAACAGGGGCACATAAGTGCGATCAAGGGTACCGAAGTACAATAGAGGCACGTAAGTACG
* *
63273455 ATCAGGGGTATCGAAGTACAACAGGGGCACGTAAGTCCGATTAGGGGTGCCA
66 ATCAGGGGTACCGAAGTACAACAGAGGCACGTAAGTCCGATTAGGGGTGCCA
* * *
63273507 AAGTACAACAGGGGCACATAAGTGCGATCAAGGGTACCGAAGTACGATAGGGGCACGTAAGTGCG
1 AAGTACAACAGGGGCACATAAGTGCGATCAAGGGTACCGAAGTACAATAGAGGCACGTAAGTACG
* *
63273572 ATCAGGGGTACCGAAGTACGATAGAGGCACGTAAGT
66 ATCAGGGGTACCGAAGTACAACAGAGGCACGTAAGT
63273608 GCAATCAGGG
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 93 1.00
ACGTcount: A:0.33, C:0.18, G:0.33, T:0.15
Consensus pattern (117 bp):
AAGTACAACAGGGGCACATAAGTGCGATCAAGGGTACCGAAGTACAATAGAGGCACGTAAGTACG
ATCAGGGGTACCGAAGTACAACAGAGGCACGTAAGTCCGATTAGGGGTGCCA
Found at i:63275504 original size:20 final size:20
Alignment explanation
Indices: 63275481--63275518 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63275471 ATAATTAATC
*
63275481 TAGTTTAATTATCTTAAACT
1 TAGTTTAATTAACTTAAACT
*
63275501 TAGTTTTATTAACTTAAA
1 TAGTTTAATTAACTTAAA
63275519 TAAACTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (20 bp):
TAGTTTAATTAACTTAAACT
Found at i:63276967 original size:14 final size:14
Alignment explanation
Indices: 63276950--63276979 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63276940 AATGATTAAA
63276950 ACGTCATGAAAAGT
1 ACGTCATGAAAAGT
*
63276964 ACGTCATGACAAGT
1 ACGTCATGAAAAGT
63276978 AC
1 AC
63276980 ATGTGACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (14 bp):
ACGTCATGAAAAGT
Found at i:63286003 original size:34 final size:34
Alignment explanation
Indices: 63285965--63286038 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
63285955 TATCTATTAT
63285965 AAGCATGTTAATTGCTACTGTATCGACTTGTCAC
1 AAGCATGTTAATTGCTACTGTATCGACTTGTCAC
* *
63285999 AAGCATGTTTATTGCTACTGTATTGACTTGTCAC
1 AAGCATGTTAATTGCTACTGTATCGACTTGTCAC
63286033 AA-CATG
1 AAGCATG
63286039 AATGATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (34 bp):
AAGCATGTTAATTGCTACTGTATCGACTTGTCAC
Found at i:63287977 original size:27 final size:27
Alignment explanation
Indices: 63287922--63287989 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
63287912 AACTGGTATG
* *
63287922 AAATGACTGTTATGCCCCCATGTGGTA
1 AAATGACTGTTATGCCCCCATATGATA
* *
63287949 AAATGACTGTTATGCCCCTATATTATA
1 AAATGACTGTTATGCCCCCATATGATA
*
63287976 AAATGATTG-TATGC
1 AAATGACTGTTATGC
63287990 TTTATGTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (27 bp):
AAATGACTGTTATGCCCCCATATGATA
Found at i:63296380 original size:21 final size:21
Alignment explanation
Indices: 63296356--63296395 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
63296346 AATCTTATCG
*
63296356 TTAGTAGTTCATCTACAACAA
1 TTAGTAGTTCATCCACAACAA
*
63296377 TTAGTGGTTCATCCACAAC
1 TTAGTAGTTCATCCACAAC
63296396 GTGGTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
TTAGTAGTTCATCCACAACAA
Found at i:63296396 original size:96 final size:96
Alignment explanation
Indices: 63296186--63296397 Score: 307
Period size: 96 Copynumber: 2.2 Consensus size: 96
63296176 TCTGTACGAC
* *
63296186 TAGTGGTTCATCCACAACATACTAGCAACTTTGATCTTCACCGATGGATGGTTCACCCACCAATA
1 TAGTGGTTCATCCACAACGTACTAGCAACTTTCATCTTCACCGATGGATGGTTCACCCACCAATA
* * **
63296251 TTTTTATCGTTAGTAGTTCATCTACAATGAT
66 ATCTTATCGTTAGTAGTTCATCTACAACAAT
* * ** * **
63296282 CAGTGGTTCATCCACAACGTACTAGTAGTTTTCATCTTCTCCGATGTTTGGTTCACCCACCAATA
1 TAGTGGTTCATCCACAACGTACTAGCAACTTTCATCTTCACCGATGGATGGTTCACCCACCAATA
63296347 ATCTTATCGTTAGTAGTTCATCTACAACAAT
66 ATCTTATCGTTAGTAGTTCATCTACAACAAT
63296378 TAGTGGTTCATCCACAACGT
1 TAGTGGTTCATCCACAACGT
63296398 GGTTTAAAGG
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 102 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (96 bp):
TAGTGGTTCATCCACAACGTACTAGCAACTTTCATCTTCACCGATGGATGGTTCACCCACCAATA
ATCTTATCGTTAGTAGTTCATCTACAACAAT
Found at i:63298554 original size:38 final size:38
Alignment explanation
Indices: 63298494--63298836 Score: 337
Period size: 38 Copynumber: 8.8 Consensus size: 38
63298484 ATAGAAACGT
** * * *
63298494 GGTGATATTTGGGCTCCATGCCTAGCAGGCTTTATGCC
1 GGTGATATTCAGGCTTCGTGCCTAGCAGGCTTTGTGCC
* * *
63298532 GATGATATTCGGGCTTCGTGCCTAGCAGGCTTTGTACC
1 GGTGATATTCAGGCTTCGTGCCTAGCAGGCTTTGTGCC
*
63298570 GGTGATATTCAGGCTCCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATTCAGGCTTCGTGCCTAGCAGGCTTTGTGCC
* *
63298608 GGTGATATTTAGGCTTCGTGCCTAGCAGGCATTGTGCC
1 GGTGATATTCAGGCTTCGTGCCTAGCAGGCTTTGTGCC
* *
63298646 GGTAATATTC-GAGCTTTGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATTCAG-GCTTCGTGCCTAGCAGGCTTTGTGCC
* * *
63298684 GGTGATATATCAGGCTTTGTGCCTAGCAGGCTTAGTGTC
1 GGTGATAT-TCAGGCTTCGTGCCTAGCAGGCTTTGTGCC
* * * **
63298723 GGTGTATTATATCAGGCTTTGTGCCTAGTAGGCTTCGTGTT
1 GGTG-A-TAT-TCAGGCTTCGTGCCTAGCAGGCTTTGTGCC
* * *
63298764 GGTGTATTATGTCAGGCTTTGTGCCTAGCAAGCTTCGTGCC
1 GGTG-A-TAT-TCAGGCTTCGTGCCTAGCAGGCTTTGTGCC
* * *
63298805 AGTGTATTATATTAGGCTTTGTGCCTAGCAGG
1 GGTG-A-TAT-TCAGGCTTCGTGCCTAGCAGG
63298837 ATTTATGCTG
Statistics
Matches: 268, Mismatches: 32, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
37 1 0.00
38 140 0.52
39 30 0.11
40 2 0.01
41 95 0.35
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.34
Consensus pattern (38 bp):
GGTGATATTCAGGCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:63298746 original size:41 final size:41
Alignment explanation
Indices: 63298512--63298884 Score: 337
Period size: 41 Copynumber: 9.4 Consensus size: 41
63298502 TTGGGCTCCA
** * * *
63298512 TGCCTAGCAGGCTTTATGCCGATG-A-TAT-TCGGGCTTCG
1 TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
* * **
63298550 TGCCTAGCAGGCTTTGTACCGGTG-A-TAT-TCAGGCTCCG
1 TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
* * *
63298588 TGCCTAGCAGGCTTTGTGCCGGTG-A-TAT-TTAGGCTTCG
1 TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
*
63298626 TGCCTAGCAGGCATT-GTGCC-G-GTAATAT-TC-GAGCTTTG
1 TGCCTAGCAGGC-TTCGTGCCGGTGTATTATATCAG-GCTTTG
*
63298664 TGCCTAGCAGGCTTTGTGCCGGTG-A-TATATCAGGCTTTG
1 TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
* *
63298703 TGCCTAGCAGGCTTAGTGTCGGTGTATTATATCAGGCTTTG
1 TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
* ** *
63298744 TGCCTAGTAGGCTTCGTGTTGGTGTATTATGTCAGGCTTTG
1 TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
* * *
63298785 TGCCTAGCAAGCTTCGTGCCAGTGTATTATATTAGGCTTTG
1 TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
* ** * *
63298826 TGCCTAGCAGGATTTATGCTGATGTATTATATCAGGCTTTG
1 TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
* * *
63298867 AGCCAAGCAGTCTTCGTG
1 TGCCTAGCAGGCTTCGTG
63298885 TCATGGTATT
Statistics
Matches: 287, Mismatches: 37, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
36 1 0.00
37 5 0.02
38 114 0.40
39 34 0.12
40 3 0.01
41 130 0.45
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCGTGCCGGTGTATTATATCAGGCTTTG
Found at i:63299174 original size:161 final size:161
Alignment explanation
Indices: 63298902--63299224 Score: 567
Period size: 161 Copynumber: 2.0 Consensus size: 161
63298892 ATTGTATCAG
* *
63298902 GTAAGTTGTACTGAAAATATTATTTTCATTATTCAATGTTATTTCATTTGATTCAACGGGTATGA
1 GTAAGTTGTACGGAAAATATTATTTTCATTATTCAATGTTATTTCATTTGATTCAACAGGTATGA
* *
63298967 AAAGGAAGGGATTGGTAAGTATTCAAAGGACTTACATCATGAATCCATGAAAA-AGAATAAAAAG
66 AAAGGAAGGGATAGGTAAGTATTCAAAGGACTTACATCAAGAATCCATGAAAAGA-AATAAAAAG
*
63299031 GTAATGTTCAATGAAAGTATGTTTATGTTCAT
130 GTAATGTTCAACGAAAGTATGTTTATGTTCAT
*
63299063 GTAAGTTGTACGGAAAATATTATTTTCATTATTCGATGTTATTTCATTTGATTCAACAGGTATGA
1 GTAAGTTGTACGGAAAATATTATTTTCATTATTCAATGTTATTTCATTTGATTCAACAGGTATGA
*
63299128 AAAGGAAGGGATAGGTAAGTATTCAAAGGACTTATATCAAGAATCCATGAAAAGAAATAAAAAGG
66 AAAGGAAGGGATAGGTAAGTATTCAAAGGACTTACATCAAGAATCCATGAAAAGAAATAAAAAGG
63299193 TAATGTTCAACGAAAGTATGTTTATGTTCAT
131 TAATGTTCAACGAAAGTATGTTTATGTTCAT
63299224 G
1 G
63299225 AAATTGATTA
Statistics
Matches: 154, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
161 153 0.99
162 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (161 bp):
GTAAGTTGTACGGAAAATATTATTTTCATTATTCAATGTTATTTCATTTGATTCAACAGGTATGA
AAAGGAAGGGATAGGTAAGTATTCAAAGGACTTACATCAAGAATCCATGAAAAGAAATAAAAAGG
TAATGTTCAACGAAAGTATGTTTATGTTCAT
Found at i:63301702 original size:17 final size:18
Alignment explanation
Indices: 63301680--63301714 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
63301670 ATTAGGGTCA
*
63301680 TGTGGG-CCACATGGGCG
1 TGTGGGCCCACACGGGCG
63301697 TGTGGGCCCACACGGGCG
1 TGTGGGCCCACACGGGCG
63301715 AACACAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.11, C:0.29, G:0.46, T:0.14
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCG
Found at i:63304131 original size:18 final size:19
Alignment explanation
Indices: 63304090--63304134 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
63304080 AAAATAAAAC
63304090 ATTTTGAAATTGAATAATG
1 ATTTTGAAATTGAATAATG
63304109 A-TTTGTAAA-TGAATAAT-
1 ATTTTG-AAATTGAATAATG
63304126 ATTTTGAAA
1 ATTTTGAAA
63304135 ACGAACAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
ATTTTGAAATTGAATAATG
Found at i:63306805 original size:44 final size:44
Alignment explanation
Indices: 63306733--63306816 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
63306723 TTGGTTGCAA
* *
63306733 CTTTAAGAAAATAAAGTAGATCAATTTAAAACACAAACTAGTGG
1 CTTTAAGAAAATAAAGAAGACCAATTTAAAACACAAACTAGTGG
* *
63306777 CTTTAAGAAAATAACGAAGACCAGTTTAAAACACAAACTA
1 CTTTAAGAAAATAAAGAAGACCAATTTAAAACACAAACTA
63306817 ACATTTATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (44 bp):
CTTTAAGAAAATAAAGAAGACCAATTTAAAACACAAACTAGTGG
Found at i:63306971 original size:19 final size:20
Alignment explanation
Indices: 63306942--63306980 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
63306932 GTATATATAT
63306942 ATATATTTAGAGTTTTTAAA
1 ATATATTTAGAGTTTTTAAA
*
63306962 ATAT-TTTAGATTTTTTAAA
1 ATATATTTAGAGTTTTTAAA
63306981 GAATTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
ATATATTTAGAGTTTTTAAA
Found at i:63307311 original size:15 final size:16
Alignment explanation
Indices: 63307293--63307333 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
63307283 TTTTTAATAC
*
63307293 TTATTTTTTAGTTT-T
1 TTATTTTTTAATTTAT
63307308 TTA-TTTTTAATTTAT
1 TTATTTTTTAATTTAT
63307323 TTATATTTTTA
1 TTAT-TTTTTA
63307334 TGTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 9 0.41
15 7 0.32
17 6 0.27
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTTTTAATTTAT
Found at i:63307320 original size:22 final size:21
Alignment explanation
Indices: 63307269--63307334 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
63307259 ATTTGATATA
* *
63307269 TTTTATTTTTTTAATTTTTAAT
1 TTTTAATTTTTT-ATTTTTTAT
**
63307291 ACTT-ATTTTTTAGTTTTTTAT
1 TTTTAATTTTTTA-TTTTTTAT
63307312 TTTTAATTTATTTATATTTTTAT
1 TTTTAATTT-TTTAT-TTTTTAT
63307335 GTCATTTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 15 0.44
22 7 0.21
23 11 0.32
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTAATTTTTTATTTTTTAT
Found at i:63308450 original size:9 final size:9
Alignment explanation
Indices: 63308433--63308474 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
63308423 AATTTACAAC
63308433 TTTTT-AAT
1 TTTTTAAAT
63308441 TTTTTAAAT
1 TTTTTAAAT
*
63308450 TTTTTAAAA
1 TTTTTAAAT
*
63308459 TTTTAAATAT
1 TTTTTAA-AT
63308469 TTTTTA
1 TTTTTA
63308475 TAGATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 5 0.18
9 17 0.61
10 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:63325175 original size:14 final size:14
Alignment explanation
Indices: 63325156--63325182 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63325146 TTACAATTTG
63325156 TAAATATTTTATAA
1 TAAATATTTTATAA
63325170 TAAATATTTTATA
1 TAAATATTTTATA
63325183 GTATAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAATATTTTATAA
Found at i:63358173 original size:15 final size:16
Alignment explanation
Indices: 63358155--63358198 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
63358145 TACTAATGTA
63358155 ATTAATAATAAATT-T
1 ATTAATAATAAATTAT
63358170 ATTAATAATCAAATTAT
1 ATTAATAAT-AAATTAT
**
63358187 AAGAATAATAAA
1 ATTAATAATAAA
63358199 ATAAATAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
ATTAATAATAAATTAT
Found at i:63358498 original size:4 final size:4
Alignment explanation
Indices: 63358489--63358531 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
63358479 AATCAGAATG
* *
63358489 AAAT AAAT AAAT AAAT AAAT AAAAT TATT AAAT -AAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAA
63358532 ACAGCTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 26 0.79
5 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:63372130 original size:40 final size:39
Alignment explanation
Indices: 63372085--63372220 Score: 193
Period size: 40 Copynumber: 3.4 Consensus size: 39
63372075 CAATCAGAGA
* *
63372085 CACATATGTGCAACCTGGGATACAGAAGTACAAACAAGGG
1 CACATATGTGCAATCAGGG-TACAGAAGTACAAACAAGGG
*
63372125 TACATATGTGCAATCAGGGTAGCCA-AAGTACAAACAAGGG
1 CACATATGTGCAATCAGGGTA--CAGAAGTACAAACAAGGG
*
63372165 CACATATGTGCAATCAGGGGTACCGAAGTACAAACAAGGG
1 CACATATGTGCAATCA-GGGTACAGAAGTACAAACAAGGG
63372205 CACATATGTGCAATCA
1 CACATATGTGCAATCA
63372221 TACAATAATT
Statistics
Matches: 87, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
39 3 0.03
40 77 0.89
41 7 0.08
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (39 bp):
CACATATGTGCAATCAGGGTACAGAAGTACAAACAAGGG
Found at i:63372886 original size:32 final size:31
Alignment explanation
Indices: 63372842--63372913 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
63372832 TTTTCATCTT
*
63372842 TTACTTAATTAACATTTAACTTAATTATCA-AA
1 TTACTTAATTAACATTTAA--AAATTATCATAA
* *
63372874 TTACTTAGTTAACCTTTAAAAATTATCATAA
1 TTACTTAATTAACATTTAAAAATTATCATAA
63372905 TTACATTAA
1 TTAC-TTAA
63372914 AACCTATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 8 0.24
31 6 0.18
32 20 0.59
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (31 bp):
TTACTTAATTAACATTTAAAAATTATCATAA
Found at i:63379563 original size:16 final size:17
Alignment explanation
Indices: 63379539--63379572 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
63379529 CTTAGATTTG
*
63379539 TATAGTTTTA-AATATT
1 TATAATTTTACAATATT
63379555 TATAATTTTACAATATT
1 TATAATTTTACAATATT
63379572 T
1 T
63379573 TATTAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TATAATTTTACAATATT
Found at i:63379574 original size:18 final size:17
Alignment explanation
Indices: 63379534--63379580 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
63379524 TGGCCCTTAG
*
63379534 ATTTGTATAGTTTTAAAT
1 ATTT-TATAATTTTAAAT
63379552 A-TTTATAATTTTACAAT
1 ATTTTATAATTTTA-AAT
63379569 ATTTTATTAATT
1 ATTTTA-TAATT
63379581 ACAAAAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 9 0.36
17 6 0.24
18 5 0.20
19 5 0.20
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTTTATAATTTTAAAT
Found at i:63380571 original size:9 final size:9
Alignment explanation
Indices: 63380549--63380599 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
63380539 TTAAAATATT
*
63380549 AATTTTTCA
1 AATTTTTTA
*
63380558 TATTTTTTA
1 AATTTTTTA
*
63380567 AATTTTTTTG
1 AA-TTTTTTA
63380577 AATTTTTTA
1 AATTTTTTA
63380586 AA-TTTTTA
1 AATTTTTTA
63380594 AATTTT
1 AATTTT
63380600 AAAAAATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 8 0.23
9 19 0.54
10 8 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
AATTTTTTA
Found at i:63392519 original size:15 final size:15
Alignment explanation
Indices: 63392499--63392528 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63392489 CTATTAATGG
*
63392499 AAAATATGAAAGACA
1 AAAATATAAAAGACA
63392514 AAAATATAAAAGACA
1 AAAATATAAAAGACA
63392529 TAACAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAATATAAAAGACA
Found at i:63395643 original size:20 final size:18
Alignment explanation
Indices: 63395593--63395680 Score: 56
Period size: 20 Copynumber: 4.7 Consensus size: 18
63395583 TATCAAGATA
63395593 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
*
63395610 AATATTACGA-TAATTACTTT
1 AATATTA-AATTAA-TA-TTT
**
63395630 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
* *
63395649 ACTATTAAGATAAATATTT
1 AATATTAA-ATTAATATTT
63395668 AAT-TTAATATTAA
1 AATATTAA-ATTAA
63395681 ATATATAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
17 10 0.19
18 9 0.17
19 15 0.28
20 19 0.36
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:63412080 original size:9 final size:9
Alignment explanation
Indices: 63412066--63412170 Score: 59
Period size: 9 Copynumber: 11.3 Consensus size: 9
63412056 AATTTTTTAA
63412066 AAAAATTAT
1 AAAAATTAT
63412075 AAAAA-TATT
1 AAAAATTA-T
*
63412084 AAAATTTAT
1 AAAAATTAT
*
63412093 ATAAAGTTAT
1 A-AAAATTAT
* *
63412103 TAATATTAT
1 AAAAATTAT
* *
63412112 AAAAACATGT
1 AAAAA-TTAT
** *
63412122 AAATTTTTT
1 AAAAATTAT
*
63412131 AAATATTAT
1 AAAAATTAT
*
63412140 AAAAAATAT
1 AAAAATTAT
*
63412149 AAAAATTCT
1 AAAAATTAT
63412158 AATAAATTAT
1 AA-AAATTAT
63412168 AAA
1 AAA
63412171 TAGAAGTTTA
Statistics
Matches: 71, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
8 2 0.03
9 47 0.66
10 22 0.31
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (9 bp):
AAAAATTAT
Found at i:63412151 original size:27 final size:27
Alignment explanation
Indices: 63412091--63412151 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
63412081 ATTAAAATTT
63412091 ATATAAAGTTATTAATATTATAAAAAC
1 ATATAAAGTTATTAATATTATAAAAAC
* * *
63412118 ATGTAAATTTTTTAAATATTATAAAAA-
1 ATATAAAGTTATT-AATATTATAAAAAC
63412145 ATATAAA
1 ATATAAA
63412152 AATTCTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (27 bp):
ATATAAAGTTATTAATATTATAAAAAC
Found at i:63412726 original size:19 final size:20
Alignment explanation
Indices: 63412704--63412746 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
63412694 TTATATCAGA
*
63412704 TTTAAT-ATTTTTAATATAT
1 TTTAATAATTTTTAAAATAT
*
63412723 TTT-ATAATTTTTAAAATTT
1 TTTAATAATTTTTAAAATAT
63412742 TTTAA
1 TTTAA
63412747 AGAATTCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 17 0.85
20 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATAATTTTTAAAATAT
Found at i:63417540 original size:14 final size:14
Alignment explanation
Indices: 63417521--63417560 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
63417511 TTGATTGCCA
63417521 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
63417535 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
63417549 GGAAAATGTTTT
1 GTAAAATGTTTT
63417561 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:63417569 original size:20 final size:20
Alignment explanation
Indices: 63417544--63417583 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
63417534 CGTAAAATGA
*
63417544 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
63417564 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
63417584 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:63417573 original size:34 final size:35
Alignment explanation
Indices: 63417529--63417595 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
63417519 CAGTAAAATG
*
63417529 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
63417563 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
63417596 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:63417599 original size:14 final size:15
Alignment explanation
Indices: 63417523--63417599 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
63417513 GATTGCCAGT
* *
63417523 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
63417537 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
63417551 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
63417571 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
63417586 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
63417600 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:63423886 original size:17 final size:19
Alignment explanation
Indices: 63423866--63423911 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 19
63423856 GGCTTTCCAA
63423866 TTTTTTAACTC-TTT-TT-
1 TTTTTTAACTCTTTTCTTC
63423882 TTTTTTAA-T-TTTTCTTC
1 TTTTTTAACTCTTTTCTTC
63423899 TTTTTTAAC-CTTT
1 TTTTTTAACTCTTT
63423912 AAATTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 8 0.32
18 3 0.12
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTAACTCTTTTCTTC
Found at i:63430628 original size:14 final size:14
Alignment explanation
Indices: 63430599--63430639 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 14
63430589 GGAACTTTAG
63430599 AAAATTAAAA--TT
1 AAAATTAAAATTTT
63430611 AAAATTAAAATTTT
1 AAAATTAAAATTTT
63430625 AAAATATAAATATTT
1 AAAAT-TAAA-ATTT
63430640 ATATAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.40
14 7 0.28
15 4 0.16
16 4 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATTAAAATTTT
Found at i:63432895 original size:6 final size:6
Alignment explanation
Indices: 63432878--63432915 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
63432868 ACTCTTCTTC
*
63432878 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
63432916 GGTTTGCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:63432901 original size:18 final size:18
Alignment explanation
Indices: 63432880--63432915 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
63432870 TCTTCTTCTC
63432880 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
63432898 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
63432916 GGTTTGCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCCTT
Found at i:63433255 original size:19 final size:16
Alignment explanation
Indices: 63433233--63433286 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 16
63433223 CTGTGATTGA
63433233 ATTTTTGTAAATTTAATAT
1 ATTTTT-TAAA-TT-ATAT
63433252 ATTTTATTAAATTATAT
1 ATTTT-TTAAATTATAT
63433269 ATTTTTATTAAATTATAT
1 A-TTTT-TTAAATTATAT
63433287 TTAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.15
18 18 0.55
19 9 0.27
20 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
ATTTTTTAAATTATAT
Found at i:63433274 original size:18 final size:17
Alignment explanation
Indices: 63433248--63433286 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
63433238 TGTAAATTTA
63433248 ATATATTTTATTAAATT
1 ATATATTTTATTAAATT
63433265 ATATATTTTTATTAAATT
1 ATATA-TTTTATTAAATT
63433283 ATAT
1 ATAT
63433287 TTAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTTTATTAAATT
Found at i:63433497 original size:21 final size:22
Alignment explanation
Indices: 63433450--63433504 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
63433440 ACCGCTGTTT
* **
63433450 CTAATCTCACTGCTACATTATC
1 CTAATCTCACCGCTACAGGATC
63433472 C-AATCTCACCGCTACAGGA-C
1 CTAATCTCACCGCTACAGGATC
63433492 CTAATCTCACCGC
1 CTAATCTCACCGC
63433505 CATCGTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.38, G:0.09, T:0.25
Consensus pattern (22 bp):
CTAATCTCACCGCTACAGGATC
Found at i:63439720 original size:73 final size:72
Alignment explanation
Indices: 63439566--63439738 Score: 211
Period size: 73 Copynumber: 2.4 Consensus size: 72
63439556 AAAAAAAGCA
* * * * *
63439566 TTAGCGGCGTTTTTCAGAAAGTGCCGCAAAAAACCTAAGCCCAACGACGCCGTATTCTGAGCTTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAAGCCCAACGACACCATATTCTGAGCTTT
*
63439631 CGCAGAT
66 CGCAGAC
* * * * *
63439638 TTAGTGGCGTTTTTGAGAAAGCGCCGCAAAAATACATAAGCTCAACGGCACCATTTTCTGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAA-ACATAAGCCCAACGACACCATATTCTGAGCTT
**
63439703 TCGGGGAC
65 TCGCAGAC
63439711 TTAGCGGCGTTTCTTAAGAAAGCGCCGC
1 TTAGCGGCGTTT-TTAAGAAAGCGCCGC
63439739 TAATACTGAG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
72 29 0.34
73 42 0.49
74 14 0.16
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (72 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAAGCCCAACGACACCATATTCTGAGCTTT
CGCAGAC
Found at i:63439799 original size:115 final size:113
Alignment explanation
Indices: 63439637--63440197 Score: 608
Period size: 115 Copynumber: 4.9 Consensus size: 113
63439627 CTTTCGCAGA
* * * * * *
63439637 TTTAGTGGCGTTTTTGAGAAAGCGCCGCAAAA-ATACATAAGCTCAACGGCACCATTTTCTGAGC
1 TTTAGCGGCGTTTTTGAG-AAGCGCCGCAAAATAAAC-TAAGCCCAACGACGCCGTTTTCTGAGC
* * * * *
63439701 TTTCGGGGACTTAGCGGCGTTTCTTAAGAAAGCGCCGCTAATACTGAGGGC
64 TTTCGCGGATTTAGTGGCGTTT-TTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
63439752 TTTAGCGGCGTTTTTGATGAAGCACCGCAAAATAAACTAAGCCCAACGATGCCGTTTTCTGAGCA
1 TTTAGCGGCGTTTTTGA-GAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
63439817 TTCGCGGATTTAGTGGCGATTTTT-AGGAAGCGCCGCTAGTGCTCAGGGC
65 TTCGCGGATTTAGTGGCG-TTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
63439866 TTTTGCGGCGTTTTTGATAAAACGTCGCAAAATAAACTAAGCCCAATGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGA-GAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCT
* * ** * *
63439931 TTCGCAGATTTAGTGGCGTTTCTTAATAAAGCGTTGCTAATGTTGAGGGC
65 TTCGCGGATTTAGTGGCGTTT-TTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
63439981 TTTAGCGACGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTTTGAGCT
1 TTTAGCGGCGTTTTTGA-GAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
63440046 TTTGCGGATTTAGTGGCGTGTTTT-AGGAAGCGCCGCTAATGCTCAGGGC
65 TTCGCGGATTTAGTGGCGT-TTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * * *
63440095 TTTAGCGGCGTTTGTGAGAAAGCGCCGGAAAA-AGACATAAGCCCAATGACGCTGTTTTTTGAGC
1 TTTAGCGGCGTTTTTGAG-AAGCGCCGCAAAATAAAC-TAAGCCCAACGACGCCGTTTTCTGAGC
* * * *
63440159 TTTTGGGGGATTTAGCGGCGTTTTTTAGGAAAGCGCCGC
64 -TTTCGCGGATTTAGTGGCG-TTTTTAAGAAAGCGCCGC
63440198 AAAAAAACAT
Statistics
Matches: 376, Mismatches: 59, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
113 7 0.02
114 168 0.45
115 181 0.48
116 20 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (113 bp):
TTTAGCGGCGTTTTTGAGAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGCGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:63440055 original size:229 final size:229
Alignment explanation
Indices: 63439637--63440197 Score: 712
Period size: 229 Copynumber: 2.4 Consensus size: 229
63439627 CTTTCGCAGA
* * * * * * * * *
63439637 TTTAGTGGCGTTTTTGAGAAAGCGCCGCAAAAATACATAAGCTCAACGGCACCATTTTCTGAGCT
1 TTTAGCGGCGTTTGTGAGAAAACGCCGCAAAAAAACATAAGCCCAATGACGCCGTTTTCTGAGCT
** *
63439702 TTCGGGGACTTAGCGGCGTTTCTTAAGAAAGCGCCGCTAATACTGAGGGCTTTAGCGGCGTTTTT
66 TTCGCAGACTTAGCGGCGTTTCTTAAGAAAGCGCCGCTAATACTGAGGGCTTTAGCGACGTTTTT
* *
63439767 GATGAAGCACCGCAAAATAAACTAAGCCCAACGATGCCGTTTTCTGAGCATTCGCGGATTTAGTG
131 GAGGAAGCACCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCATTCGCGGATTTAGTG
*
63439832 GCGAT-TTTTAGGAAGCGCCGCTAGTGCTCAGGGC
196 GCG-TGTTTTAGGAAGCGCCGCTAATGCTCAGGGC
* * * *
63439866 TTTTGCGGCGTTTTTGATAAAACGTCGCAAAATAAAC-TAAGCCCAATGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTGTGAGAAAACGCCGCAAAA-AAACATAAGCCCAATGACGCCGTTTTCTGAGC
* * * ** **
63439930 TTTCGCAGATTTAGTGGCGTTTCTTAATAAAGCGTTGCTAATGTTGAGGGCTTTAGCGACGTTTT
65 TTTCGCAGACTTAGCGGCGTTTCTTAAGAAAGCGCCGCTAATACTGAGGGCTTTAGCGACGTTTT
* * * *
63439995 TGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTTTGAGCTTTTGCGGATTTAGT
130 TGAGGAAGCACCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCATTCGCGGATTTAGT
63440060 GGCGTGTTTTAGGAAGCGCCGCTAATGCTCAGGGC
195 GGCGTGTTTTAGGAAGCGCCGCTAATGCTCAGGGC
* * * * *
63440095 TTTAGCGGCGTTTGTGAGAAAGCGCCGGAAAAAGACATAAGCCCAATGACGCTGTTTTTTGAGCT
1 TTTAGCGGCGTTTGTGAGAAAACGCCGCAAAAAAACATAAGCCCAATGACGCCGTTTTCTGAGC-
* ** * * *
63440160 TTTGGGGGATTTAGCGGCGTTTTTTAGGAAAGCGCCGC
65 TTTCGCAGACTTAGCGGCGTTTCTTAAGAAAGCGCCGC
63440198 AAAAAAACAT
Statistics
Matches: 282, Mismatches: 46, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
228 4 0.01
229 246 0.87
230 32 0.11
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (229 bp):
TTTAGCGGCGTTTGTGAGAAAACGCCGCAAAAAAACATAAGCCCAATGACGCCGTTTTCTGAGCT
TTCGCAGACTTAGCGGCGTTTCTTAAGAAAGCGCCGCTAATACTGAGGGCTTTAGCGACGTTTTT
GAGGAAGCACCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCATTCGCGGATTTAGTG
GCGTGTTTTAGGAAGCGCCGCTAATGCTCAGGGC
Found at i:63440312 original size:14 final size:14
Alignment explanation
Indices: 63440293--63440319 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63440283 GAGTATGGGT
63440293 TTAGGGATTATGGA
1 TTAGGGATTATGGA
63440307 TTAGGGATTATGG
1 TTAGGGATTATGG
63440320 TTTAAGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:63440624 original size:29 final size:29
Alignment explanation
Indices: 63440574--63440638 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
63440564 TATTTTAAGG
* *
63440574 TTTAGGGAGTATGGGTTTAGGGATTATGGA
1 TTTAGGGACTATGGGTTTAGGG-TTAGGGA
63440604 -TTAGGGACTAT-GGTTTAAGGGTTAGGGA
1 TTTAGGGACTATGGGTTT-AGGGTTAGGGA
63440632 TTTAGGG
1 TTTAGGG
63440639 GTTAGACGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.23, C:0.02, G:0.40, T:0.35
Consensus pattern (29 bp):
TTTAGGGACTATGGGTTTAGGGTTAGGGA
Found at i:63440678 original size:14 final size:14
Alignment explanation
Indices: 63440568--63440683 Score: 76
Period size: 14 Copynumber: 8.1 Consensus size: 14
63440558 AGTTCATATT
63440568 TTAAGGTTTAGGGA
1 TTAAGGTTTAGGGA
* *
63440582 GTATGGGTTTAGGGA
1 TTA-AGGTTTAGGGA
* *
63440597 TTATGGATTAGGGA
1 TTAAGGTTTAGGGA
* *
63440611 CTATGGTTTAAGGG-
1 TTAAGGTTT-AGGGA
* *
63440625 TTAGGGATTTAGGGG
1 TTAAGG-TTTAGGGA
* *
63440640 TTAGACG-TTAGGGG
1 TTA-AGGTTTAGGGA
63440654 TTAAGAG-TTAGGGA
1 TTAAG-GTTTAGGGA
63440668 TTAAGGTTTAGGGA
1 TTAAGGTTTAGGGA
63440682 TT
1 TT
63440684 CAGGGGTCGA
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
13 2 0.02
14 57 0.70
15 22 0.27
16 1 0.01
ACGTcount: A:0.25, C:0.02, G:0.39, T:0.34
Consensus pattern (14 bp):
TTAAGGTTTAGGGA
Found at i:63441165 original size:137 final size:137
Alignment explanation
Indices: 63440975--63441244 Score: 411
Period size: 137 Copynumber: 2.0 Consensus size: 137
63440965 AAAATTTAGC
* *
63440975 ATAGCAAAACGGCGTCATTTTGTTTAAAATGAAATAATATTTTGCGACATTTTTATGC-AAAACG
1 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATTTTGCGACATTTTTA-ACAAAAACG
* * *
63441039 CCGCAAAAGATAA-CAAATAGCGGTGTTTTCTATAAAAATGCCACAAA-AAATAAATCAATTTAT
65 CCGCAAAAGATAAGC-AATAGCGGCGTTTTATATAAAAATGCCACAAAGAAATAAAT-AAATTAT
*
63441102 AGAAAACAAA
128 AAAAAACAAA
* *
63441112 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATTTTGCGGCGTTTTTAACAAAAACGC
1 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATTTTGCGACATTTTTAACAAAAACGC
*
63441177 CGCAAAAGATAAGCAATAGCGGCGTTTTATATAAAAATGCCGCAAAGAAATAAATAAATTATAAA
66 CGCAAAAGATAAGCAATAGCGGCGTTTTATATAAAAATGCCACAAAGAAATAAATAAATTATAAA
63441242 AAA
131 AAA
63441245 TTATTTACAT
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
136 1 0.01
137 111 0.92
138 9 0.07
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (137 bp):
ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATTTTGCGACATTTTTAACAAAAACGC
CGCAAAAGATAAGCAATAGCGGCGTTTTATATAAAAATGCCACAAAGAAATAAATAAATTATAAA
AAACAAA
Found at i:63441631 original size:251 final size:248
Alignment explanation
Indices: 63441116--63441643 Score: 815
Period size: 251 Copynumber: 2.1 Consensus size: 248
63441106 AACAAAATAG
*
63441116 CAAAACGGCGTCATTTTGTTGAAAATGAAATAATATTTTGCGGCGTTTTTAACAAAAACGCCGCA
1 CAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCGGCGTTTTTAACAAAAACGCCGCA
* *
63441181 AAAGATAAGCAATAGCGGCGTTTTATATAAAAATGCCGCAAAGAAATAAATAAATTATAAAAAAT
66 AAAGATAAGCAATAGCGGCGTTTTATATAAAAACGCCCCAAAGAAATAAATAAATTATAAAAAAT
* *
63441246 TATTTACATAGCAAAACGGCGCCGTTTTTGATCAAAACGAAATAGCGGCGTTTCTCACAAAAACA
131 TATTTACATAGCAAAACGACGCCGTTTTTGATCAAAACGAAATAGCAGCGTTTCTCACAAAAACA
* *
63441311 CCGCAAAAAAATAAATCAATTTATAACAAATAAAAAAAAAATTTTGTGCATAG
196 CCGCAAAAAAATAAATCAATTTATAACAAACAAAAAAAAAATTTTGTGCATAA
* *
63441364 CAAAACGACGTCATTTTGTTCAAAATGAAATAATATTTTGCGGCGTTTTTCACAAAAACGCCGCA
1 CAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCGGCGTTTTTAACAAAAACGCCGCA
63441429 AAAGATAAGCAATAGCGGCGTTTTATATAAAAACGCCCCAAAGAAAATAAATAAATTATAAAAAA
66 AAAGATAAGCAATAGCGGCGTTTTATATAAAAACGCCCCAAAG-AAATAAATAAATTAT--AAAA
* * * * **
63441494 AATTATTTGCATAGCAAAACGACGCCGTTTTTGTTCAAAATGAAATAGCAGCGTTTTTCGTAAAA
128 AATTATTTACATAGCAAAACGACGCCGTTTTTGATCAAAACGAAATAGCAGCGTTTCTCACAAAA
** * *
63441559 ATGCCGCAAAAAAGTAAATCAATTTATAA-AAACCAAATAAAAAATTTTGTGCATAA
193 ACACCGCAAAAAAATAAATCAATTTATAACAAA-CAAAAAAAAAATTTTGTGCATAA
** *
63441615 CAAAACGGTATCATTTTGTTCAAATTGAA
1 CAAAACGGCGTCATTTTGTTCAAAATGAA
63441644 GTTGCGGTGT
Statistics
Matches: 253, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
248 103 0.41
249 15 0.06
250 3 0.01
251 132 0.52
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.27
Consensus pattern (248 bp):
CAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCGGCGTTTTTAACAAAAACGCCGCA
AAAGATAAGCAATAGCGGCGTTTTATATAAAAACGCCCCAAAGAAATAAATAAATTATAAAAAAT
TATTTACATAGCAAAACGACGCCGTTTTTGATCAAAACGAAATAGCAGCGTTTCTCACAAAAACA
CCGCAAAAAAATAAATCAATTTATAACAAACAAAAAAAAAATTTTGTGCATAA
Found at i:63441736 original size:104 final size:106
Alignment explanation
Indices: 63441490--63441750 Score: 332
Period size: 104 Copynumber: 2.5 Consensus size: 106
63441480 TAAATTATAA
* * * * *
63441490 AAAAAATTATT-TGCATAGCAAAACGACGCCGTTTTTGTTCAAAATGAAATAGCAGCGTTTTTCG
1 AAAAAATT-TTGTGCATAGCAAAACGGCGTC-ATTTTGTTCAAAATGAAATAGCAGCGTTTTCCA
* *
63441554 TAAAAATGCCGCAAAAAAGTAAATCAATTTATAAAAACCAAAT
64 TAAAAATGCCACAAAAAAGTAAATCAATTTATAAAAACAAAAT
* ** * * * * *
63441597 AAAAAATTTTGTGCATAACAAAACGGTATCATTTTGTTCAAATTGAAGTTGCGGTGTTTTCCATA
1 AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCAGCGTTTTCCATA
63441662 AAAATGCCAC-AAAAAGTAAATCAATTTGA-AAAAACAAAAT
66 AAAATGCCACAAAAAAGTAAATCAATTT-ATAAAAACAAAAT
63441702 -AAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
1 AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
63441751 ATATTTTGCG
Statistics
Matches: 131, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
104 43 0.33
105 27 0.21
106 39 0.30
107 22 0.17
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (106 bp):
AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCAGCGTTTTCCATA
AAAATGCCACAAAAAAGTAAATCAATTTATAAAAACAAAAT
Found at i:63442500 original size:22 final size:22
Alignment explanation
Indices: 63442474--63442523 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
63442464 TGTAAGTTTA
63442474 TTTTAGGGCAACTTTGAAACTT
1 TTTTAGGGCAACTTTGAAACTT
*
63442496 TTTTAGGGCAACTTTGAACCTT
1 TTTTAGGGCAACTTTGAAACTT
63442518 TTTTAG
1 TTTTAG
63442524 TGTAGGCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (22 bp):
TTTTAGGGCAACTTTGAAACTT
Found at i:63444239 original size:30 final size:30
Alignment explanation
Indices: 63444196--63444256 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
63444186 TATAACTTGC
* *
63444196 ATAATTTACATAACTTATAAATTTTTAATAT
1 ATAACTTACATAACTTATAAATATTT-ATAT
*
63444227 ATAACTTA-ATAACTTATTAATATTTATAT
1 ATAACTTACATAACTTATAAATATTTATAT
63444256 A
1 A
63444257 CATTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 5 0.19
30 15 0.56
31 7 0.26
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (30 bp):
ATAACTTACATAACTTATAAATATTTATAT
Found at i:63444246 original size:23 final size:22
Alignment explanation
Indices: 63444205--63444249 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
63444195 CATAATTTAC
*
63444205 ATAACTTATAAATTTTTAATAT
1 ATAACTTATAAATTATTAATAT
*
63444227 ATAACTTAATAACTTATTAATAT
1 ATAACTT-ATAAATTATTAATAT
63444250 TTATATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAACTTATAAATTATTAATAT
Found at i:63444319 original size:9 final size:9
Alignment explanation
Indices: 63444305--63444795 Score: 106
Period size: 9 Copynumber: 54.9 Consensus size: 9
63444295 TAACTTATAT
*
63444305 ATAACTTTC
1 ATAACTTAC
63444314 ATAACTTAC
1 ATAACTTAC
*
63444323 ATAA-TAAC
1 ATAACTTAC
*
63444331 ATAATAACTGAC
1 ---ATAACTTAC
63444343 ATAA--TAC
1 ATAACTTAC
* *
63444350 ATAGCCTAC
1 ATAACTTAC
* *
63444359 ATGACTTGC
1 ATAACTTAC
63444368 ATAA--TAC
1 ATAACTTAC
*
63444375 ACAACTTAC
1 ATAACTTAC
*
63444384 ATAAATTAC
1 ATAACTTAC
63444393 ATAA--TAC
1 ATAACTTAC
*
63444400 ATAACTTTC
1 ATAACTTAC
63444409 ATAACTTAC
1 ATAACTTAC
*
63444418 ATTA--TAC
1 ATAACTTAC
*
63444425 ATAACTTAT
1 ATAACTTAC
*
63444434 A-AATCATATC
1 ATAA-CTTA-C
63444444 ATAACTTAC
1 ATAACTTAC
63444453 ATAAC-T-C
1 ATAACTTAC
*
63444460 A-AATTTATC
1 ATAACTTA-C
* *
63444469 A-ATCATATC
1 ATAACTTA-C
*
63444478 ATAACTTATAT
1 ATAAC-T-TAC
63444489 ATACACTTAC
1 ATA-ACTTAC
63444499 ATAA--TAC
1 ATAACTTAC
*
63444506 ATAACTTAA
1 ATAACTTAC
* *
63444515 ATAAAATTTTTAT
1 AT--AA--CTTAC
* *
63444528 TTATTCTTAC
1 ATA-ACTTAC
63444538 ATAA--TAC
1 ATAACTTAC
*
63444545 ATAACTTAAATA
1 ATAACTT--A-C
*
63444557 ATAACCTAC
1 ATAACTTAC
*
63444566 ATAACTTGC
1 ATAACTTAC
*
63444575 ATAGAAACTTAT
1 AT---AACTTAC
*
63444587 ATAGAAACTTGC
1 AT--AA-CTTAC
*
63444599 ATAACTTAT
1 ATAACTTAC
63444608 ATAACTTA-
1 ATAACTTAC
* *
63444616 AAAACTTAG
1 ATAACTTAC
63444625 ATAA--TAC
1 ATAACTTAC
* *
63444632 ATAGCCTAC
1 ATAACTTAC
*
63444641 ATAACTTAT
1 ATAACTTAC
63444650 ATAACTTAC
1 ATAACTTAC
**
63444659 ATAACACACC
1 ATAACTTA-C
* * *
63444669 ACTTACATAA
1 A-TAACTTAC
*
63444679 ATAACTTGC
1 ATAACTTAC
63444688 ATAA--TAC
1 ATAACTTAC
* *
63444695 ATAGCCTAC
1 ATAACTTAC
63444704 ATAACTTAC
1 ATAACTTAC
*
63444713 TTAACTTAC
1 ATAACTTAC
63444722 ATAA--TAC
1 ATAACTTAC
**
63444729 ACCACTTAC
1 ATAACTTAC
*
63444738 ATAACTTAA
1 ATAACTTAC
63444747 ATAACTTAC
1 ATAACTTAC
63444756 ATAAC--AC
1 ATAACTTAC
*
63444763 TTAACGTTA-
1 ATAAC-TTAC
63444772 ATAA--TAC
1 ATAACTTAC
*
63444779 ACAACTTAC
1 ATAACTTAC
63444788 ATAACTTA
1 ATAACTTA
63444796 ATTACATTAT
Statistics
Matches: 344, Mismatches: 85, Indels: 106
0.64 0.16 0.20
Matches are distributed among these distances:
6 4 0.01
7 64 0.19
8 13 0.04
9 190 0.55
10 23 0.07
11 21 0.06
12 25 0.07
13 4 0.01
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:63444337 original size:20 final size:20
Alignment explanation
Indices: 63444292--63444352 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
63444282 ATATATTTTT
* *
63444292 TAATAACTTATAT-ATAACTT
1 TAATAACTTACATAATAAC-A
*
63444312 TCATAACTTACATAATAACA
1 TAATAACTTACATAATAACA
*
63444332 TAATAACTGACATAAT-ACA
1 TAATAACTTACATAATAACA
63444351 TA
1 TA
63444353 GCCTACATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 5 0.14
20 25 0.71
21 5 0.14
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (20 bp):
TAATAACTTACATAATAACA
Found at i:63444372 original size:25 final size:25
Alignment explanation
Indices: 63444341--63444429 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 25
63444331 ATAATAACTG
* * *
63444341 ACATAATACATAGCCTACATGACTT
1 ACATAATACATAACCTACATAAATT
* * *
63444366 GCATAATACACAACTTACATAAATT
1 ACATAATACATAACCTACATAAATT
* * *
63444391 ACATAATACATAACTTTCATAACTT
1 ACATAATACATAACCTACATAAATT
*
63444416 ACATTATACATAAC
1 ACATAATACATAAC
63444430 TTATAAATCA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.30
Consensus pattern (25 bp):
ACATAATACATAACCTACATAAATT
Found at i:63444583 original size:12 final size:12
Alignment explanation
Indices: 63444568--63444601 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
63444558 TAACCTACAT
63444568 AACTTGCATAGA
1 AACTTGCATAGA
**
63444580 AACTTATATAGA
1 AACTTGCATAGA
63444592 AACTTGCATA
1 AACTTGCATA
63444602 ACTTATATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (12 bp):
AACTTGCATAGA
Found at i:63444676 original size:34 final size:34
Alignment explanation
Indices: 63444638--63444762 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
63444628 ATACATAGCC
63444638 TACATAACTTATATAACTTACATAACACACCACT
1 TACATAACTTATATAACTTACATAACACACCACT
* * * *
63444672 TACAT-A---A-ATAACTTGCATAATACA-TAGCC
1 TACATAACTTATATAACTTACATAACACACCA-CT
*
63444701 TACATAACTTACT-TAACTTACATAATACACCACT
1 TACATAACTTA-TATAACTTACATAACACACCACT
*
63444735 TACATAACTTAAATAACTTACATAACAC
1 TACATAACTTATATAACTTACATAACAC
63444763 TTAACGTTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
28 1 0.01
29 21 0.29
30 2 0.03
33 2 0.03
34 46 0.63
35 1 0.01
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.30
Consensus pattern (34 bp):
TACATAACTTATATAACTTACATAACACACCACT
Found at i:63444729 original size:25 final size:24
Alignment explanation
Indices: 63444701--63444797 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
63444691 ATACATAGCC
* *
63444701 TACATAACTTACTTAACTTACATAA
1 TACACAACTTACATAACTTA-ATAA
*
63444726 TACACCACTTACATAACTTAAATAA
1 TACACAACTTACATAACTT-AATAA
* *
63444751 CTTACATAAC--ACTTAACGTTAATAA
1 --TACACAACTTACATAAC-TTAATAA
63444776 TACACAACTTACATAACTTAAT
1 TACACAACTTACATAACTTAAT
63444798 TACATTATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 7 0.12
24 5 0.09
25 37 0.64
26 3 0.05
27 6 0.10
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (24 bp):
TACACAACTTACATAACTTAATAA
Found at i:63448956 original size:19 final size:20
Alignment explanation
Indices: 63448932--63448978 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
63448922 TGTGAAACTC
* *
63448932 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
63448951 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
63448971 -AATGCAAA
1 TAATGCAAA
63448979 AGAAAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:63450670 original size:215 final size:214
Alignment explanation
Indices: 63450396--63450819 Score: 627
Period size: 215 Copynumber: 2.0 Consensus size: 214
63450386 AAGCTATAAG
* ** *
63450396 AGGATATTTGGCTATTTGGTTTAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
* * * *
63450461 ATTTTCAAAAGCAAAATATTATCTTATTTTGAAATTTTTAAAGGATATTTTAGCTATTTGGTCGA
66 ATTTCCAAAAGCAAAATATTACCTTATTTTGAAATTTTAAAAGGATATTTTACCTATTTGGTCGA
* * * * *
63450526 GCG-AAAAATCGAAACCCAGCGCGTTAGGGCACGTTTTTTCAAATTTCCAAA-ACGTAAAATATT
131 ACGAAAAAAGCGAAACCCAGCACGTTAGGGCACGTTTTCTCAAACTTCCAAACAC--AAAATATT
*
63450589 GCCTTATTTTGAAATTCTAAA
194 ACCTTATTTTGAAATTCTAAA
*
63450610 AGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCATGTTAGGGCACGTTTTCTCG
1 AGGATA-TTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCG
* * *
63450675 AATTTCCGAACGCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTACCTATTTGGTCG
65 AATTTCCAAAAGCAAAATATTACCTTATTTTGAAATTTTAAAAGGATATTTTACCTATTTGGTCG
* *
63450740 AACGAAAAAAGCGAAATCCAGCACGTTAGGGCACGTTTTCTCGAACTTCCAAACACAAAATATTA
130 AACGAAAAAAGCGAAACCCAGCACGTTAGGGCACGTTTTCTCAAACTTCCAAACACAAAATATTA
63450805 CCTTATTTTGAAATT
195 CCTTATTTTGAAATT
63450820 TTTATTTGAA
Statistics
Matches: 187, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
214 6 0.03
215 137 0.73
216 42 0.22
217 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (214 bp):
AGGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
ATTTCCAAAAGCAAAATATTACCTTATTTTGAAATTTTAAAAGGATATTTTACCTATTTGGTCGA
ACGAAAAAAGCGAAACCCAGCACGTTAGGGCACGTTTTCTCAAACTTCCAAACACAAAATATTAC
CTTATTTTGAAATTCTAAA
Found at i:63450741 original size:107 final size:107
Alignment explanation
Indices: 63450396--63450821 Score: 620
Period size: 108 Copynumber: 4.0 Consensus size: 107
63450386 AAGCTATAAG
* ** *
63450396 AGGATA-TTTGGCTATTTGGTTTAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCG
1 AGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCG
* * * *
63450460 AATTTTCAAAAGCAAAATATTATCTTATTTTGAAATTTTTAA
66 AATTTCCAAACGCAAAATATTACCTTATTTTGAAATTTTAAA
* * * *
63450502 AGGATATTTTAGCTATTTGGTCGAGCGAAAAATCGAAACCCAGCGCGTTAGGGCACGTTTTTTCA
1 AGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCG
* * *
63450567 AATTTCCAAAACGTAAAATATTGCCTTATTTTGAAATTCTAAA
66 AATTTCC-AAACGCAAAATATTACCTTATTTTGAAATTTTAAA
*
63450610 AGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCATGTTAGGGCACGTTTTCTCG
1 AGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCG
* *
63450675 AATTTCCGAACGCAAAATATTGCCTTATTTTGAAATTTTAAA
66 AATTTCCAAACGCAAAATATTACCTTATTTTGAAATTTTAAA
* * *
63450717 AGGATATTTTACCTATTTGGTCGAACGAAAAAAGCGAAATCCAGCACGTTAGGGCACGTTTTCTC
1 AGGATATTTTAGCTATTTGGTCGAACG-AAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTC
* *
63450782 GAACTTCCAAACACAAAATATTACCTTATTTTGAAATTTT
65 GAATTTCCAAACGCAAAATATTACCTTATTTTGAAATTTT
63450822 TATTTGAATA
Statistics
Matches: 286, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
106 6 0.02
107 114 0.40
108 166 0.58
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (107 bp):
AGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCG
AATTTCCAAACGCAAAATATTACCTTATTTTGAAATTTTAAA
Found at i:63452054 original size:19 final size:20
Alignment explanation
Indices: 63452027--63452071 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
63452017 TTTCCATTTT
63452027 AAAAGAATAAAAATGAA-AA
1 AAAAGAATAAAAATGAAGAA
*
63452046 AAAATAATAAAAATGAAGAA
1 AAAAGAATAAAAATGAAGAA
63452066 AAAAGA
1 AAAAGA
63452072 TTGAAAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAGAATAAAAATGAAGAA
Found at i:63462230 original size:18 final size:18
Alignment explanation
Indices: 63462191--63462232 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
63462181 CGTTTGTTTC
63462191 CAAAACATTATTCATTTA
1 CAAAACATTATTCATTTA
*
63462209 CAAATCATTATTCAATTT-
1 CAAAACATTATTC-ATTTA
63462227 CAAAAC
1 CAAAAC
63462233 GTTTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (18 bp):
CAAAACATTATTCATTTA
Found at i:63474539 original size:25 final size:25
Alignment explanation
Indices: 63474486--63474598 Score: 113
Period size: 25 Copynumber: 4.5 Consensus size: 25
63474476 GTACATATAT
* * * *
63474486 GCTCATATGAGCTATGAATCGATAT
1 GCTCATACGAGCTGTGAATCGGTAA
63474511 GCTC-TCACGAGCTGTGAATCGGTAA
1 GCTCAT-ACGAGCTGTGAATCGGTAA
* * *
63474536 GCTCATACGAGTTGAGAATTGGTAA
1 GCTCATACGAGCTGTGAATCGGTAA
* *
63474561 GCTC-TCACGAGCTGTAAATCGGGAA
1 GCTCAT-ACGAGCTGTGAATCGGTAA
63474586 GCTCATACGAGCT
1 GCTCATACGAGCT
63474599 ATGGTGTGTT
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
24 2 0.03
25 68 0.94
26 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (25 bp):
GCTCATACGAGCTGTGAATCGGTAA
Found at i:63476039 original size:25 final size:26
Alignment explanation
Indices: 63476011--63476068 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
63476001 CAGCTCTTAT
* *
63476011 GAGCTTACT-GTTATTTAGCTCGGAG
1 GAGCTTACTCGTTATTCAGCTCAGAG
63476036 GAGCTTA-TCGTTATTCAGCTCAGAG
1 GAGCTTACTCGTTATTCAGCTCAGAG
*
63476061 AAGCTTAC
1 GAGCTTAC
63476069 CATTTACAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (26 bp):
GAGCTTACTCGTTATTCAGCTCAGAG
Found at i:63478722 original size:50 final size:50
Alignment explanation
Indices: 63478594--63478840 Score: 246
Period size: 50 Copynumber: 4.8 Consensus size: 50
63478584 GATAATAACA
* * ** * * **
63478594 TGCCAAAGACATGTCCCAGACATGGTCTTACATGGGATGTTTCAT-GTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * * **
63478643 TGCCAATTCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * * *
63478693 TGCCTATGCCATGTCCCAGACATGGTCTTAC-GGGTGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATATTGG
*
63478743 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-AT-T---GG
*
63478798 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
63478841 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 27, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
49 39 0.24
50 78 0.48
51 3 0.02
55 2 0.01
56 40 0.25
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
Found at i:63485479 original size:74 final size:74
Alignment explanation
Indices: 63485356--63485503 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
63485346 ACCGAGCCCC
63485356 GTTTGAACCTTAGAAATTCGTAGGATACAAATGACATGTCATTAGGGTTACCAATTTCAGCTCTT
1 GTTTGAACCTTAGAAATTCGTAGGATACAAATGACATGTCATTAGGGTTACCAATTTCAGCTCTT
63485421 ATGAGCTTA
66 ATGAGCTTA
*
63485430 GTTTGAACCTTAGAAATTCGTAGGATACAAATGACATGTCATTATGGTTACCAATTTCAGCTCTT
1 GTTTGAACCTTAGAAATTCGTAGGATACAAATGACATGTCATTAGGGTTACCAATTTCAGCTCTT
63485495 ATGAGCTTA
66 ATGAGCTTA
63485504 CCGTTACTCA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (74 bp):
GTTTGAACCTTAGAAATTCGTAGGATACAAATGACATGTCATTAGGGTTACCAATTTCAGCTCTT
ATGAGCTTA
Found at i:63485541 original size:25 final size:25
Alignment explanation
Indices: 63485477--63485599 Score: 108
Period size: 25 Copynumber: 5.0 Consensus size: 25
63485467 GTCATTATGG
* *
63485477 TTACCAAT-TTCAGCTCTTATGAGC
1 TTACCATTATTCAGCTCGTATGAGC
* *
63485501 TTACCGTTACTCAGCTCGTATGAGC
1 TTACCATTATTCAGCTCGTATGAGC
* * * *
63485526 TTACCATTATTTAGCTTGGAGGAGC
1 TTACCATTATTCAGCTCGTATGAGC
*
63485551 TTACCATTATTCAGCTCAG-AGGAGC
1 TTACCATTATTCAGCTC-GTATGAGC
** *
63485576 TTACTGTT-TACAGCTCGTATGAGC
1 TTACCATTATTCAGCTCGTATGAGC
63485600 ATACATATAC
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
23 1 0.01
24 18 0.22
25 60 0.75
26 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (25 bp):
TTACCATTATTCAGCTCGTATGAGC
Found at i:63488308 original size:9 final size:9
Alignment explanation
Indices: 63488291--63488332 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
63488281 TCGAGTTGAT
*
63488291 TCGAATAAC
1 TCGATTAAC
63488300 TCGATTAAC
1 TCGATTAAC
* *
63488309 TTGAATAAC
1 TCGATTAAC
63488318 TCGATTAAC
1 TCGATTAAC
63488327 TCGATT
1 TCGATT
63488333 CGTTTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:63488316 original size:18 final size:18
Alignment explanation
Indices: 63488293--63488327 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63488283 GAGTTGATTC
63488293 GAATAACTCGATTAACTT
1 GAATAACTCGATTAACTT
63488311 GAATAACTCGATTAACT
1 GAATAACTCGATTAACT
63488328 CGATTCGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (18 bp):
GAATAACTCGATTAACTT
Found at i:63491477 original size:10 final size:10
Alignment explanation
Indices: 63491462--63491494 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
63491452 GATCAAGTAA
63491462 AATAAAAATT
1 AATAAAAATT
63491472 AAT-AAAATT
1 AATAAAAATT
*
63491481 AATAAAAACT
1 AATAAAAATT
63491491 AATA
1 AATA
63491495 TGATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (10 bp):
AATAAAAATT
Found at i:63492460 original size:40 final size:40
Alignment explanation
Indices: 63492416--63492526 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
63492406 GTTTGGATAA
* * *
63492416 AAAACGCCGCTAAAAATCGAGCATTACCGGCGCTTTACGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTCAAGG
* * * *
63492456 AAAACGCCGCTAAAGATCGATCATTAGCAGCACTTCAAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTCAAGG
* *
63492496 AAAGCGCCGCGAAAAAT-GAGCATTAGCGGCG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCG
63492527 TTTTTTGGGA
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
39 11 0.19
40 47 0.81
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.15
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTCAAGG
Found at i:63492654 original size:41 final size:41
Alignment explanation
Indices: 63492595--63492697 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
63492585 GGTATTTAGT
* *
63492595 TGAAAAAGCACCACTAATGCTCGGGTCTTTAGCGGCGTTTT
1 TGAAAAAGCGCCACTAATGCTCGGGTCTTTAGCGGCGTTTC
* ** *
63492636 TGGAAAAGCGCTGCTAATGCTCGGGTCTTTAGCGGTGTTTC
1 TGAAAAAGCGCCACTAATGCTCGGGTCTTTAGCGGCGTTTC
63492677 TGAAAAAGCGCCACTAATGCT
1 TGAAAAAGCGCCACTAATGCT
63492698 TTGAAAAAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
TGAAAAAGCGCCACTAATGCTCGGGTCTTTAGCGGCGTTTC
Found at i:63493798 original size:22 final size:23
Alignment explanation
Indices: 63493773--63493818 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
63493763 TTTAATTAAT
63493773 TAACATATCTT-TTTTTATTGAC
1 TAACATATCTTGTTTTTATTGAC
*
63493795 TAACATCTCTTGTTTTTATTGAC
1 TAACATATCTTGTTTTTATTGAC
63493818 T
1 T
63493819 CCTTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (23 bp):
TAACATATCTTGTTTTTATTGAC
Found at i:63498509 original size:42 final size:42
Alignment explanation
Indices: 63498434--63498743 Score: 349
Period size: 43 Copynumber: 7.3 Consensus size: 42
63498424 GTTTTACGAG
* *
63498434 AAGCGCCGCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGAAA
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAAA
* *
63498475 AAGTGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGTCG-AA
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGT-GAAA
* **
63498517 AAGCACCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGA
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAAA
* * * *
63498559 AAGCGCCCCAAAAGGT-TTAGATCTATAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCCT-GATCTATAGCGGCGTTTGT-GAAA
* * *
63498602 AAGCGTCGCTAAAGGTCTTGGTCTATAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGA-AA
* *
63498645 AAGTGCCGCTAAAGGTCAC-GGTCTATAGCGGCGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTC-CTGATCTATAGCGGCGTTTGTGA-AA
* * *
63498688 AAGCGCCGCTAAAGGTCTTGATTTATAGCGGCGTTTGTGGAA
1 AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAAA
* *
63498730 ACGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
63498744 TTAGTGACGC
Statistics
Matches: 231, Mismatches: 29, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
41 16 0.07
42 104 0.45
43 109 0.47
44 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAAA
Found at i:63498627 original size:43 final size:43
Alignment explanation
Indices: 63498434--63498743 Score: 371
Period size: 42 Copynumber: 7.3 Consensus size: 43
63498424 GTTTTACGAG
* *
63498434 AAGCGCCGCTAAAGGT-TTGTTCTATAGCGGCGTTTGT-GAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* * * *
63498475 AAGTGCCGCTAAAGATCCTGATCTATAGCGGCGTTTGT-CGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* *
63498517 AAGCACCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGG-A
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* *
63498559 AAGCGCCCCAAAAGGT-TTAGATCTATAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTT-GATCTATAGCGGCGTTTGTGGGAA
* * **
63498602 AAGCGTCGCTAAAGGTCTTGGTCTATAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* ** * *
63498645 AAGTGCCGCTAAAGGTCACGGTCTATAGCGGCGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
*
63498688 AAGCGCCGCTAAAGGTCTTGATTTATAGCGGCGTTTGT-GGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
* *
63498730 ACGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
63498744 TTAGTGACGC
Statistics
Matches: 231, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
41 15 0.06
42 107 0.46
43 107 0.46
44 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAA
Found at i:63498690 original size:86 final size:85
Alignment explanation
Indices: 63498434--63498726 Score: 387
Period size: 86 Copynumber: 3.5 Consensus size: 85
63498424 GTTTTACGAG
* *
63498434 AAGCGCCGCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGAAAAAGTGCCGCTAAAGATC-CTGAT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAAGTGCCGCTAAAGGTCAC-GAT
*
63498497 CTATAGCGGCGTTTGT-CGAA
65 CTATAGCGGCGTTTGTGAGAA
* * ** * * * *
63498517 AAGCACCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAGCGCCCCAAAAGGTTTA-GAT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAAGTGCCGCTAAAGG-TCACGAT
*
63498581 CTATAGCGGCGTTTGTGGGAA
65 CTATAGCGGCGTTTGTGAGAA
* * *
63498602 AAGCGTCGCTAAAGGTCTTGGTCTATAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCACGGT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGA-AAAAGTGCCGCTAAAGGTCACGAT
63498667 CTATAGCGGCGTTTGTGAGAA
65 CTATAGCGGCGTTTGTGAGAA
*
63498688 AAGCGCCGCTAAAGGTCTTGATTTATAGCGGCGTTTGTG
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTG
63498727 GAAACGCGCC
Statistics
Matches: 178, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
83 15 0.08
84 51 0.29
85 41 0.23
86 71 0.40
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (85 bp):
AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAAAGTGCCGCTAAAGGTCACGATC
TATAGCGGCGTTTGTGAGAA
Found at i:63499346 original size:27 final size:27
Alignment explanation
Indices: 63499316--63499397 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
63499306 TAATTATATT
63499316 AAGTTCCATGTGTGAACTATCTAAACA
1 AAGTTCCATGTGTGAACTATCTAAACA
* * **
63499343 AAGTAT--ATGTGT--ATTGAT-TATATT
1 AAGT-TCCATGTGTGAACT-ATCTAAACA
63499367 AAGTTCCATGTGTGAACTATCTAAACA
1 AAGTTCCATGTGTGAACTATCTAAACA
63499394 AAGT
1 AAGT
63499398 ATGTGTGTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
23 1 0.03
24 9 0.22
25 8 0.20
26 8 0.20
27 13 0.32
28 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (27 bp):
AAGTTCCATGTGTGAACTATCTAAACA
Found at i:63499349 original size:51 final size:51
Alignment explanation
Indices: 63499267--63499780 Score: 589
Period size: 51 Copynumber: 10.1 Consensus size: 51
63499257 CACAAGGAAG
* * * * * * *
63499267 AGTT-CATTTGTGAACTGTCTAAACTACGTATATGCGTACTAATTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* * **
63499317 AGTTCCATGTGTGAACTATCTAAACAAAGTATATGTGTATTGATTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* *
63499368 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGTGTACTGATTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* * * * * ** * *
63499419 AGTTTCATTTGTGAATTGTCTAAACTAAGTATGTGTATGTTAATTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* * * *
63499470 AGCTCCATTTGTGAACTATTTAAACAAAGTATGTGCGTGTTGATTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* * * * * *
63499521 AGTTCCATGTGTGAATTGTCTAAACCAGGTATGTGCATGCTGGTTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* * * * *
63499572 AGTTCTATGTGTGAACTGTCTAAACCAAGTATGTGTGTGCTAATTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* * * * *
63499623 AGCTCCATTTGTGAACTATCTAAAAAAAGTATGCGCGTGTTGATTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* * *
63499674 AGTTCCATGTGTGAACTGTCTAAACCAAGTATGTGCGTGTTGATTATATTA
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
* * *
63499725 AGTTCCATGTGTTAACTATCTAAAAAAAGTATGTGCGTGCTGATTATATTC
1 AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
63499776 AGTTC
1 AGTTC
63499781 TATAAGCAAA
Statistics
Matches: 397, Mismatches: 66, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
50 4 0.01
51 393 0.99
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (51 bp):
AGTTCCATGTGTGAACTATCTAAACAAAGTATGTGCGTGCTGATTATATTA
Found at i:63499403 original size:24 final size:24
Alignment explanation
Indices: 63499323--63499404 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
63499313 ATTAAGTTCC
63499323 ATGTGTGAACTATCTAAACAAAGT
1 ATGTGTGAACTATCTAAACAAAGT
* * * * **
63499347 ATATGTGTATTGAT-TATATTAAGTT
1 ATGTGTGAACT-ATCTAAACAAAG-T
63499372 CCATGTGTGAACTATCTAAACAAAGT
1 --ATGTGTGAACTATCTAAACAAAGT
63499398 ATGTGTG
1 ATGTGTG
63499405 TACTGATTAT
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 21 0.51
25 3 0.07
26 3 0.07
27 14 0.34
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (24 bp):
ATGTGTGAACTATCTAAACAAAGT
Found at i:63499421 original size:24 final size:24
Alignment explanation
Indices: 63499343--63499421 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
63499333 TATCTAAACA
* *
63499343 AAGTATATGTGTATTGATTATATT
1 AAGTATGTGTGTACTGATTATATT
* * **
63499367 AAGTTCCATGTGTGAACT-ATCTAAACA
1 AAG-T--ATGTGTGTACTGAT-TATATT
63499394 AAGTATGTGTGTACTGATTATATT
1 AAGTATGTGTGTACTGATTATATT
63499418 AAGT
1 AAGT
63499422 TTCATTTGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 20 0.50
25 3 0.08
26 3 0.08
27 14 0.35
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.41
Consensus pattern (24 bp):
AAGTATGTGTGTACTGATTATATT
Found at i:63499553 original size:153 final size:153
Alignment explanation
Indices: 63499269--63499774 Score: 690
Period size: 153 Copynumber: 3.3 Consensus size: 153
63499259 CAAGGAAGAG
* * * * * *
63499269 TTCATTTGTGAACTGTCTAAACTACGTATATGCGTACTAATTATATTAAGTTCCATGTGTGAACT
1 TTCATTTGTGAACTGTCTAAACTAAGTATGTGTGTGCTAATTATATTAAGCTCCATTTGTGAACT
* * * * *
63499334 ATCTAAACAAAGTATATGTGTATTGATTATATTAAGTTCCATGTGTGAACTATCTAAACAAAGTA
66 ATCTAAACAAAGTATGTGCGTGTTGATTATATTAAGTTCCATGTGTGAACTGTCTAAACCAAGTA
* *
63499399 TGTGTGTACTGATTATATTAAGT
131 TGTGCGTGCTGATTATATTAAGT
* * *
63499422 TTCATTTGTGAATTGTCTAAACTAAGTATGTGTATGTTAATTATATTAAGCTCCATTTGTGAACT
1 TTCATTTGTGAACTGTCTAAACTAAGTATGTGTGTGCTAATTATATTAAGCTCCATTTGTGAACT
* * *
63499487 ATTTAAACAAAGTATGTGCGTGTTGATTATATTAAGTTCCATGTGTGAATTGTCTAAACCAGGTA
66 ATCTAAACAAAGTATGTGCGTGTTGATTATATTAAGTTCCATGTGTGAACTGTCTAAACCAAGTA
* *
63499552 TGTGCATGCTGGTTATATTAAG-
131 TGTGCGTGCTGATTATATTAAGT
* *
63499574 TTCTATGTGTGAACTGTCTAAACCAAGTATGTGTGTGCTAATTATATTAAGCTCCATTTGTGAAC
1 TTC-ATTTGTGAACTGTCTAAACTAAGTATGTGTGTGCTAATTATATTAAGCTCCATTTGTGAAC
* *
63499639 TATCTAAAAAAAGTATGCGCGTGTTGATTATATTAAGTTCCATGTGTGAACTGTCTAAACCAAGT
65 TATCTAAACAAAGTATGTGCGTGTTGATTATATTAAGTTCCATGTGTGAACTGTCTAAACCAAGT
*
63499704 ATGTGCGTGTTGATTATATTAAGT
130 ATGTGCGTGCTGATTATATTAAGT
* * * * ** * *
63499728 TCCATGTGTTAACTATCTAAAAAAAGTATGTGCGTGCTGATTATATT
1 TTCATTTGTGAACTGTCTAAACTAAGTATGTGTGTGCTAATTATATT
63499775 CAGTTCTATA
Statistics
Matches: 310, Mismatches: 41, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
152 3 0.01
153 305 0.98
154 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (153 bp):
TTCATTTGTGAACTGTCTAAACTAAGTATGTGTGTGCTAATTATATTAAGCTCCATTTGTGAACT
ATCTAAACAAAGTATGTGCGTGTTGATTATATTAAGTTCCATGTGTGAACTGTCTAAACCAAGTA
TGTGCGTGCTGATTATATTAAGT
Found at i:63499958 original size:25 final size:25
Alignment explanation
Indices: 63499930--63499977 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
63499920 AGCTGTGGAA
* *
63499930 TATGTGAGTTGTGATATGTGAGCTC
1 TATGTAAGTGGTGATATGTGAGCTC
* *
63499955 TATGTAAGTGGTTATGTGTGAGC
1 TATGTAAGTGGTGATATGTGAGC
63499978 CAACAAAGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.06, G:0.33, T:0.40
Consensus pattern (25 bp):
TATGTAAGTGGTGATATGTGAGCTC
Found at i:63501213 original size:42 final size:43
Alignment explanation
Indices: 63501143--63501261 Score: 132
Period size: 42 Copynumber: 2.7 Consensus size: 43
63501133 GTTATGCGCC
** *
63501143 AAAAATGAGTAAGACCATAGCTTTAAGATACTATGACAT-GAT
1 AAAAATGAGTAAGACCATAGCTGAAAGATACTATAACATAGAT
*
63501185 AAAAATGAGTAAGACCATAGCTGAAAGATGCTATAACATCAAGAT
1 AAAAATGAGTAAGACCATAGCTGAAAGATACTATAACAT--AGAT
* * * *
63501230 AGAATATGATTAAGACCATATCTGAAAAATAC
1 A-AAAATGAGTAAGACCATAGCTGAAAGATAC
63501262 AATGGCATCC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 35 0.55
45 4 0.06
46 25 0.39
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.24
Consensus pattern (43 bp):
AAAAATGAGTAAGACCATAGCTGAAAGATACTATAACATAGAT
Found at i:63501558 original size:67 final size:67
Alignment explanation
Indices: 63501427--63501594 Score: 183
Period size: 67 Copynumber: 2.5 Consensus size: 67
63501417 AGGTATAGGA
* * * * * * *
63501427 CCATAGTTAGACTATGCCAACCAATAGAGTCCGCCAGGACATTAAACATGTGGTGTACTATGTAA
1 CCATAGCTCGACTATGACAACAAATATAGTCTGCCAGGACATTAAACATGGGGTGTACTATGTAA
63501492 GT
66 GT
* ** * * * *
63501494 CCATTGCTCGACTATGGGAACAAATATAGTCTGCCATGACATTAAATATGGGGTGTGCTGTGTAA
1 CCATAGCTCGACTATGACAACAAATATAGTCTGCCAGGACATTAAACATGGGGTGTACTATGTAA
63501559 GT
66 GT
* * *
63501561 CCATAGCTTGACTATGACAATAAAGATAGTCTGC
1 CCATAGCTCGACTATGACAACAAATATAGTCTGC
63501595 TGAGAAAAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
67 82 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (67 bp):
CCATAGCTCGACTATGACAACAAATATAGTCTGCCAGGACATTAAACATGGGGTGTACTATGTAA
GT
Found at i:63501612 original size:67 final size:67
Alignment explanation
Indices: 63501470--63501612 Score: 144
Period size: 67 Copynumber: 2.1 Consensus size: 67
63501460 CCAGGACATT
* * ** * *
63501470 AAACATGTGGTGTACTATGTAAGTCCATTGCTCGACTATGGGAACAAATATAGTCTGCCATGACA
1 AAACATGGGGTGTACTATGTAAGTCCATAGCTCGACTATGACAACAAAGATAGTCTGCCATGAAA
**
63501535 TT
66 AA
* * * * * *
63501537 AAATATGGGGTGTGCTGTGTAAGTCCATAGCTTGACTATGACAATAAAGATAGTCTGCTGA-GAA
1 AAACATGGGGTGTACTATGTAAGTCCATAGCTCGACTATGACAACAAAGATAGTCTGC-CATGAA
63501601 AAA
65 AAA
63501604 AAACATGGG
1 AAACATGGG
63501613 TGGGAAATAA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
67 59 0.98
68 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (67 bp):
AAACATGGGGTGTACTATGTAAGTCCATAGCTCGACTATGACAACAAAGATAGTCTGCCATGAAA
AA
Found at i:63513479 original size:78 final size:78
Alignment explanation
Indices: 63513348--63513493 Score: 213
Period size: 78 Copynumber: 1.9 Consensus size: 78
63513338 GATCTTAGCC
63513348 ATCGCTAAATAATGATTCGATGCTACTCACTCAACTTGTCAAGAATCCACAATTTATGTTGGATC
1 ATCGCTAAATAATGATTCGATGCTACTCACTCAACTTGTCAAGAATCCACAATTTATGTTGGATC
63513413 TCAACCACCACGG
66 TCAACCACCACGG
* * * ** * *
63513426 ATCGCTAAATAA-GAATTTGATGTTTCTCACTCATGTTTTCAAGAATCCGCAATTTATGTTGGAT
1 ATCGCTAAATAATG-ATTCGATGCTACTCACTCAACTTGTCAAGAATCCACAATTTATGTTGGAT
63513490 CTCA
65 CTCA
63513494 GATAGCGAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
77 1 0.02
78 59 0.98
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (78 bp):
ATCGCTAAATAATGATTCGATGCTACTCACTCAACTTGTCAAGAATCCACAATTTATGTTGGATC
TCAACCACCACGG
Found at i:63515190 original size:15 final size:17
Alignment explanation
Indices: 63515160--63515191 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
63515150 CTTTTTCTTT
63515160 CAAAACACATAATATTC
1 CAAAACACATAATATTC
63515177 CAAAA-ACA-AATATTC
1 CAAAACACATAATATTC
63515192 TCAATCCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (17 bp):
CAAAACACATAATATTC
Found at i:63518422 original size:26 final size:26
Alignment explanation
Indices: 63518392--63518469 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
63518382 CTATTCTCCC
63518392 CCTTAGTAAGCCTTCCCCACTCACCA
1 CCTTAGTAAGCCTTCCCCACTCACCA
* * *
63518418 CCTTA-T--G---TCCCCTATTCTCCC
1 CCTTAGTAAGCCTTCCCC-ACTCACCA
*
63518439 CCTTAGTAAGCCTTTCCCACTCACCA
1 CCTTAGTAAGCCTTCCCCACTCACCA
63518465 CCTTA
1 CCTTA
63518470 TGTCTCTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
20 5 0.13
21 10 0.26
22 1 0.03
23 1 0.03
24 1 0.03
25 1 0.03
26 15 0.39
27 4 0.11
ACGTcount: A:0.19, C:0.45, G:0.06, T:0.29
Consensus pattern (26 bp):
CCTTAGTAAGCCTTCCCCACTCACCA
Found at i:63518445 original size:47 final size:47
Alignment explanation
Indices: 63518376--63518473 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
63518366 TACATCATAT
63518376 TGTCCCCTATTCTCCCCCTTAGTAAGCCTTCCCCACTCACCACCTTA
1 TGTCCCCTATTCTCCCCCTTAGTAAGCCTTCCCCACTCACCACCTTA
*
63518423 TGTCCCCTATTCTCCCCCTTAGTAAGCCTTTCCCACTCACCACCTTA
1 TGTCCCCTATTCTCCCCCTTAGTAAGCCTTCCCCACTCACCACCTTA
63518470 TGTC
1 TGTC
63518474 TCTTTCTCTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.16, C:0.45, G:0.07, T:0.32
Consensus pattern (47 bp):
TGTCCCCTATTCTCCCCCTTAGTAAGCCTTCCCCACTCACCACCTTA
Found at i:63519454 original size:21 final size:21
Alignment explanation
Indices: 63519428--63519479 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
63519418 GTAGTGGCGA
* **
63519428 TGAGATTAGTTATTGTAGTGG
1 TGAGATTAGATATTGTAGCAG
*
63519449 TGAGATTGGATATTGTAGCAG
1 TGAGATTAGATATTGTAGCAG
63519470 TGAGATTAGA
1 TGAGATTAGA
63519480 AACAATGGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.37
Consensus pattern (21 bp):
TGAGATTAGATATTGTAGCAG
Found at i:63531280 original size:66 final size:66
Alignment explanation
Indices: 63531169--63531301 Score: 203
Period size: 66 Copynumber: 2.0 Consensus size: 66
63531159 TTAAGTAATT
* * * * *
63531169 TGAAGCAGCCCTAACTATAAAATGTAGATTATTTTTGCAGTTTAGGTTGTCTCTTAAGTTGGAGG
1 TGAAGCAGCCCTAACTATAAAAGGTAGATTATTATTGCAGATTAGGTTGTATCTTAAGTTGAAGG
63531234 A
66 A
* *
63531235 TGAAGCAGCCCTAACTTTAAAAGGTAGCTTATTATTGCAGATTAGGTTGTATCTTAAGTTGAAGG
1 TGAAGCAGCCCTAACTATAAAAGGTAGATTATTATTGCAGATTAGGTTGTATCTTAAGTTGAAGG
63531300 A
66 A
63531301 T
1 T
63531302 CCAAGTAGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (66 bp):
TGAAGCAGCCCTAACTATAAAAGGTAGATTATTATTGCAGATTAGGTTGTATCTTAAGTTGAAGG
A
Found at i:63536574 original size:28 final size:28
Alignment explanation
Indices: 63536494--63536602 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 28
63536484 ATGGGCCGAG
* *
63536494 TGGGC-CACACGGGTGTGCGGGCCCACA
1 TGGGCACACACGAGCGTGCGGGCCCACA
* * *
63536521 CGGGCACACAC-AGGCGTACGGACCCACA
1 TGGGCACACACGA-GCGTGCGGGCCCACA
*
63536549 TGGGCACACACGAGCGTGTGGGCCCACA
1 TGGGCACACACGAGCGTGCGGGCCCACA
** * * *
63536577 TAAGCACACACAAACGTGTGGGCCCA
1 TGGGCACACACGAGCGTGCGGGCCCA
63536603 TTTTTACCAA
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
27 4 0.06
28 61 0.92
29 1 0.02
ACGTcount: A:0.25, C:0.34, G:0.32, T:0.09
Consensus pattern (28 bp):
TGGGCACACACGAGCGTGCGGGCCCACA
Found at i:63543356 original size:25 final size:25
Alignment explanation
Indices: 63543322--63543456 Score: 129
Period size: 25 Copynumber: 5.5 Consensus size: 25
63543312 GTTACCTAGG
63543322 AAGCCTTTGTGGCTAATCTTGTGAA
1 AAGCCTTTGTGGCTAATCTTGTGAA
*
63543347 AAGCCTTTGTGGCGTATTATCTAG-G--
1 AAGCCTTTGTGGC-TA--ATCTTGTGAA
* *
63543372 AAGCCTTTGTTGCTAATGTTGTGAA
1 AAGCCTTTGTGGCTAATCTTGTGAA
** * *
63543397 AAGCC--TGTGGCGT-ATAATCTGAG
1 AAGCCTTTGTGGC-TAATCTTGTGAA
63543420 AAGCCTTTGTGGCTAATCTTGTGAA
1 AAGCCTTTGTGGCTAATCTTGTGAA
63543445 AAGCCTTTGTGG
1 AAGCCTTTGTGG
63543457 TGAAGTACTA
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
22 4 0.05
23 17 0.20
24 4 0.05
25 54 0.62
26 2 0.02
27 1 0.01
28 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGCTAATCTTGTGAA
Found at i:63543425 original size:48 final size:48
Alignment explanation
Indices: 63543317--63543450 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
63543307 GACAGGTTAC
*
63543317 CTAGGAAGCCTTTGTGGCTAATCTTGTGAAAAGCCTTTGTGGCGTATTAT
1 CTAGGAAGCCTTTGTGGCTAATCTTGTGAAAAGCC--TGTGGCGTATAAT
* *
63543367 CTAGGAAGCCTTTGTTGCTAATGTTGTGAAAAGCCTGTGGCGTATAAT
1 CTAGGAAGCCTTTGTGGCTAATCTTGTGAAAAGCCTGTGGCGTATAAT
63543415 CT-GAGAAGCCTTTGTGGCTAATCTTGTGAAAAGCCT
1 CTAG-GAAGCCTTTGTGGCTAATCTTGTGAAAAGCCT
63543451 TTGTGGTGAA
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
47 1 0.01
48 44 0.56
50 33 0.42
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (48 bp):
CTAGGAAGCCTTTGTGGCTAATCTTGTGAAAAGCCTGTGGCGTATAAT
Found at i:63545750 original size:27 final size:27
Alignment explanation
Indices: 63545720--63545904 Score: 232
Period size: 27 Copynumber: 6.9 Consensus size: 27
63545710 AGAATGACCA
* *
63545720 AAATACCCCCATACGATAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
63545747 AAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * *
63545774 AAATACCCTCATAGGAT-AAATCGAACG
1 AAATACCCCCATAGGGTAAAAT-GATCG
*
63545801 AAATACCCCCATAGGGT-AAATCGATCA
1 AAATACCCCCATAGGGTAAAAT-GATCG
*
63545828 AAATACACCCA-AGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* *
63545854 AAATATCCCCATAGGGTAAAATGATAG
1 AAATACCCCCATAGGGTAAAATGATCG
*
63545881 AAATACCCCTATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
63545905 CTGTTATACC
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 22 0.16
27 115 0.84
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:63545852 original size:80 final size:80
Alignment explanation
Indices: 63545720--63545900 Score: 228
Period size: 80 Copynumber: 2.2 Consensus size: 80
63545710 AGAATGACCA
* * *
63545720 AAATACCCCCATACGATAAAATGATCGAAATACCCCTATAGGGTAAAATGATCGAAATA-CCCTC
1 AAATACCCCCATAGGGT-AAATGATCAAAATACCCCTATAGGGTAAAATGATCGAAATATCCC-C
63545784 ATAGGAT-AAATCGA-ACG
64 ATAGGATAAAAT-GATA-G
63545801 AAATACCCCCATAGGGTAAATCGATCAAAATACACCC-A-AGGGTAAAATGATCGAAATATCCCC
1 AAATACCCCCATAGGGTAAAT-GATCAAAATAC-CCCTATAGGGTAAAATGATCGAAATATCCCC
*
63545864 ATAGGGTAAAATGATAG
64 ATAGGATAAAATGATAG
*
63545881 AAATACCCCTATAGGGTAAA
1 AAATACCCCCATAGGGTAAA
63545901 ATGACTGTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
80 53 0.59
81 34 0.38
82 3 0.03
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (80 bp):
AAATACCCCCATAGGGTAAATGATCAAAATACCCCTATAGGGTAAAATGATCGAAATATCCCCAT
AGGATAAAATGATAG
Found at i:63551471 original size:44 final size:41
Alignment explanation
Indices: 63551423--63551530 Score: 136
Period size: 36 Copynumber: 2.7 Consensus size: 41
63551413 TTTACATGGG
63551423 CATAAGTATTTATATTTTCCACTTTACAAATAAGTTACACCATT
1 CATAAGTATTTATATTTT-CACTTTAC-AA-AAGTTACACCATT
*
63551467 CATAAGTATTTATATTTT--GTTT---AAAGTTACACCATT
1 CATAAGTATTTATATTTTCACTTTACAAAAGTTACACCATT
63551503 CATAAGTATTTATATTTTTCACTTTACA
1 CATAAGTATTTATA-TTTTCACTTTACA
63551531 TAGCTCGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
36 27 0.48
37 5 0.09
39 3 0.05
41 3 0.05
44 18 0.32
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (41 bp):
CATAAGTATTTATATTTTCACTTTACAAAAGTTACACCATT
Found at i:63556533 original size:13 final size:13
Alignment explanation
Indices: 63556515--63556539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63556505 CCGAAACTAG
63556515 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
63556528 AAAGAAAAAAAA
1 AAAGAAAAAAAA
63556540 TGCTCATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:63557714 original size:39 final size:39
Alignment explanation
Indices: 63557671--63557878 Score: 303
Period size: 39 Copynumber: 5.3 Consensus size: 39
63557661 ACTAAGATCT
63557671 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
63557710 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
* *
63557749 GAAGGCATTTGTACGAGATACTAATTCTGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
* * *
63557788 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCC
* *
63557828 GAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCC
63557868 GAAGGCATTTG
1 GAAGGCATTTG
63557879 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 108 0.70
40 46 0.30
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
Found at i:63557760 original size:78 final size:79
Alignment explanation
Indices: 63557617--63557878 Score: 306
Period size: 78 Copynumber: 3.3 Consensus size: 79
63557607 TTGAATGATG
* * *
63557617 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGAT-CTGAAGGC
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAA-ATCCGGGCTAAG-TCCCGAAGGC
63557677 ATTTGTGCGAGATACTAAT
61 ATTTGTGCGAGATACTAAT
*
63557696 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
63557760 TACGAGATACTAAT
66 TGCGAGATACTAAT
* * *
63557774 TCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
63557839 TGCGA-ATTACT-AT
66 TGCGAGA-TACTAAT
* *
63557852 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
63557879 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
78 83 0.52
79 53 0.33
80 24 0.15
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAT
Done.