Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 51 of 235
Found at i:17051713 original size:13 final size:14
Alignment explanation
Indices: 17051683--17051720 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
17051673 GGATTCTGAT
17051683 TATCT-AATTTGTA
1 TATCTGAATTTGTA
*
17051696 TATCTGACTTTGTA
1 TATCTGAATTTGTA
17051710 -ATCTGAATTTG
1 TATCTGAATTTG
17051721 AAATGGGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (14 bp):
TATCTGAATTTGTA
Found at i:17053118 original size:44 final size:44
Alignment explanation
Indices: 17053031--17053121 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
17053021 AACTCAATTT
* *
17053031 TTAGTTTACCACTCAAACTCTGATTAGGATAAGTTATTTTAATA
1 TTAGTTTACCACTCAAACTCTGACTAGGATAAGTTATTATAATA
* * * * * *
17053075 TTAGTTTTCCACTTAAACTCTTACTAGTATAGGTTGTTATAATA
1 TTAGTTTACCACTCAAACTCTGACTAGGATAAGTTATTATAATA
17053119 TTA
1 TTA
17053122 TTTGACCTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (44 bp):
TTAGTTTACCACTCAAACTCTGACTAGGATAAGTTATTATAATA
Found at i:17055451 original size:42 final size:42
Alignment explanation
Indices: 17055385--17055486 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
17055375 TGCGGATACT
* * * * *
17055385 CAACAGCTTTTGTGAGCAGCATCATGTAGCTTATATTCTGAC
1 CAACAACTTGTGTGAGCAGCATCATGTAGCTTACATTCCGAA
*
17055427 CAATAACTTGTGTGAGCAGCATCATGTAGCTTACATTCCGAA
1 CAACAACTTGTGTGAGCAGCATCATGTAGCTTACATTCCGAA
*
17055469 CAACAGCTTGTGTGAGCA
1 CAACAACTTGTGTGAGCA
17055487 AACTCATTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (42 bp):
CAACAACTTGTGTGAGCAGCATCATGTAGCTTACATTCCGAA
Found at i:17058539 original size:27 final size:27
Alignment explanation
Indices: 17058499--17058552 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17058489 TGTCATGTGA
* * *
17058499 AATTGAATGGCAAATTATTGTTACATG
1 AATTCAATGGCAAATTACTATTACATG
*
17058526 AATTCAATGTCAAATTACTATTACATG
1 AATTCAATGGCAAATTACTATTACATG
17058553 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (27 bp):
AATTCAATGGCAAATTACTATTACATG
Found at i:17068891 original size:21 final size:20
Alignment explanation
Indices: 17068852--17068891 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17068842 TGGTCCGTAA
*
17068852 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCACTTTTG
*
17068872 GCCCATTGAGGCCCTCTTTT
1 GCCCATTG-GGCCCACTTTT
17068892 TCCGAAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.10, C:0.33, G:0.25, T:0.33
Consensus pattern (20 bp):
GCCCATTGGGCCCACTTTTG
Found at i:17071779 original size:22 final size:22
Alignment explanation
Indices: 17071740--17071786 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
17071730 TTTTGAATGT
* *
17071740 AAACACAGACGATTGAATACAA
1 AAACACAGACGATCGAATAAAA
17071762 AAACACAGA-GAATCGAATAAAA
1 AAACACAGACG-ATCGAATAAAA
17071784 AAA
1 AAA
17071787 GGAAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.11
Consensus pattern (22 bp):
AAACACAGACGATCGAATAAAA
Found at i:17072653 original size:21 final size:21
Alignment explanation
Indices: 17072616--17072655 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17072606 ATACACTTAT
*
17072616 TTTATTTTATTCGTTTTATTA
1 TTTATTTTATTCCTTTTATTA
17072637 TTTA-TTTATATCCTTTTAT
1 TTTATTTTAT-TCCTTTTAT
17072656 ATAATTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTATTTTATTCCTTTTATTA
Found at i:17072701 original size:3 final size:3
Alignment explanation
Indices: 17072679--17072733 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
17072669 TTAGGTATTC
* * * *
17072679 TAT TAT T-T GTAT TAT CAT TAT TAA TAT TAT CAT TAT TAT TAT TAA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17072724 TAT TAT TAT T
1 TAT TAT TAT T
17072734 TTTAAACCGT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:17083631 original size:53 final size:53
Alignment explanation
Indices: 17083551--17083656 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
17083541 TAATTCCTCT
17083551 CGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGACCTTCTTGCATC
1 CGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGACCTTCTTGCATC
* *
17083604 CGTGTGGCTTCAATTGTCTTGACGCATAGGTCACAACTCGACCTTCTTGCATC
1 CGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGACCTTCTTGCATC
17083657 AATACGCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (53 bp):
CGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGACCTTCTTGCATC
Found at i:17084468 original size:27 final size:26
Alignment explanation
Indices: 17084437--17084614 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
17084427 TAAATTGTAC
17084437 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
17084464 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
17084490 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
17084518 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
17084546 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
17084573 GGCACTAAGTGTGCGAGTTGAATATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
17084600 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17084615 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:17084553 original size:82 final size:81
Alignment explanation
Indices: 17084438--17084593 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
17084428 AAATTGTACA
* * *
17084438 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
17084502 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17084519 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
17084584 TGCGAGTTGA
65 TGCGAATTGA
17084594 ATATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17084605 original size:82 final size:81
Alignment explanation
Indices: 17084434--17084614 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
17084424 GATTAAATTG
* * *
17084434 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
17084499 GTGTGCGAATTGACCA
66 GTGTGCGAATTGAACA
* * ** *
17084515 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
17084579 AAGTGTGCGAGTTGAATA
64 AAGTGTGCGAATTGAACA
* *
17084597 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17084615 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGAACA
Found at i:17084623 original size:27 final size:27
Alignment explanation
Indices: 17084519--17084625 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
17084509 TGACCATGCG
* * *
17084519 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * ** *
17084547 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
17084574 GCACTAAGTGTGCGAGTTGAATATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
17084601 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
17084626 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 50 0.77
28 15 0.23
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:17092610 original size:27 final size:26
Alignment explanation
Indices: 17092579--17092756 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
17092569 TAAATTGTAC
17092579 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
17092606 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
17092632 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
17092660 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
17092688 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
17092715 GGCACTAAGTGTGCGAGTTGAATATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
17092742 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17092757 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:17092695 original size:82 final size:81
Alignment explanation
Indices: 17092580--17092735 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
17092570 AAATTGTACA
* * *
17092580 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
17092644 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
17092661 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
17092726 TGCGAGTTGA
65 TGCGAATTGA
17092736 ATATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17092747 original size:82 final size:81
Alignment explanation
Indices: 17092576--17092756 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
17092566 GATTAAATTG
* * *
17092576 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
17092641 GTGTGCGAATTGACCA
66 GTGTGCGAATTGAACA
* * ** *
17092657 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
17092721 AAGTGTGCGAGTTGAATA
64 AAGTGTGCGAATTGAACA
* *
17092739 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17092757 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGAACA
Found at i:17092765 original size:27 final size:27
Alignment explanation
Indices: 17092661--17092767 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
17092651 TGACCATGCG
* * *
17092661 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * ** *
17092689 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
17092716 GCACTAAGTGTGCGAGTTGAATATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
17092743 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
17092768 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 50 0.77
28 15 0.23
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:17096083 original size:20 final size:20
Alignment explanation
Indices: 17096058--17096121 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
17096048 AAAGAATGTT
17096058 TATAATTGAGATATTTAAAG
1 TATAATTGAGATATTTAAAG
*** *
17096078 TATAA-TGTCTTA-TT-ATG
1 TATAATTGAGATATTTAAAG
17096095 TTTATAATTGAGATATTTAAAG
1 --TATAATTGAGATATTTAAAG
17096117 TATAA
1 TATAA
17096122 ATGTCTTATT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 9 0.29
20 14 0.45
21 2 0.06
22 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (20 bp):
TATAATTGAGATATTTAAAG
Found at i:17096107 original size:39 final size:40
Alignment explanation
Indices: 17096053--17096131 Score: 151
Period size: 39 Copynumber: 2.0 Consensus size: 40
17096043 ATTGAAAAGA
17096053 ATGTTTATAATTGAGATATTTAAAGTAT-AATGTCTTATT
1 ATGTTTATAATTGAGATATTTAAAGTATAAATGTCTTATT
17096092 ATGTTTATAATTGAGATATTTAAAGTATAAATGTCTTATT
1 ATGTTTATAATTGAGATATTTAAAGTATAAATGTCTTATT
17096132 GTTATATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 28 0.72
40 11 0.28
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.48
Consensus pattern (40 bp):
ATGTTTATAATTGAGATATTTAAAGTATAAATGTCTTATT
Found at i:17096162 original size:38 final size:38
Alignment explanation
Indices: 17096114--17096192 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
17096104 GAGATATTTA
17096114 AAGTATAAATGTCTTATTGTTATATTGTATGTGTTACC
1 AAGTATAAATGTCTTATTGTTATATTGTATGTGTTACC
17096152 AAGTATAAATGTCTTATTGTTATATTGTATGTGTTACC
1 AAGTATAAATGTCTTATTGTTATATTGTATGTGTTACC
17096190 AAG
1 AAG
17096193 CCCCGTTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (38 bp):
AAGTATAAATGTCTTATTGTTATATTGTATGTGTTACC
Found at i:17099023 original size:34 final size:34
Alignment explanation
Indices: 17098977--17099051 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
17098967 TTTGCTTGCA
* *
17098977 TACTG-TACTGAAATGGGCTAAGGCCTAGACTG-
1 TACTGTTATTGAAATGGGCTAAGGCCCAGACTGC
17099009 TCACTGTTATTGAAATGGGCTAAGGCCCAGACTGC
1 T-ACTGTTATTGAAATGGGCTAAGGCCCAGACTGC
17099044 TACTGTTA
1 TACTGTTA
17099052 CTGGAAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
32 1 0.03
33 4 0.11
34 32 0.84
35 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (34 bp):
TACTGTTATTGAAATGGGCTAAGGCCCAGACTGC
Found at i:17102855 original size:18 final size:18
Alignment explanation
Indices: 17102834--17102884 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
17102824 TTTTGGGTTA
17102834 AATGGGTCGTATGGGCCT
1 AATGGGTCGTATGGGCCT
*
17102852 AATGGG-CCTAATGGGCCT
1 AATGGGTCGT-ATGGGCCT
17102870 -ATGGGCTCGTATGGG
1 AATGGG-TCGTATGGG
17102885 TAAATTTCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 7 0.25
18 19 0.68
19 2 0.07
ACGTcount: A:0.18, C:0.18, G:0.39, T:0.25
Consensus pattern (18 bp):
AATGGGTCGTATGGGCCT
Found at i:17102875 original size:8 final size:9
Alignment explanation
Indices: 17102844--17102875 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
17102834 AATGGGTCGT
17102844 ATGGGCCTA
1 ATGGGCCTA
17102853 ATGGGCCTA
1 ATGGGCCTA
17102862 ATGGGCCT-
1 ATGGGCCTA
17102870 ATGGGC
1 ATGGGC
17102876 TCGTATGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.22
Consensus pattern (9 bp):
ATGGGCCTA
Found at i:17103242 original size:27 final size:27
Alignment explanation
Indices: 17103204--17103257 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
17103194 GTTAAGACCT
17103204 CTAATTTGTAAAATGACCGAAATACCC
1 CTAATTTGTAAAATGACCGAAATACCC
*
17103231 CTAATTTGTAAAATTACCGAAATACCC
1 CTAATTTGTAAAATGACCGAAATACCC
17103258 TTGTAGCGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
CTAATTTGTAAAATGACCGAAATACCC
Found at i:17103937 original size:31 final size:31
Alignment explanation
Indices: 17103878--17103937 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
17103868 TATTGGGCTC
* *
17103878 AGGCCCACTTGTTCTGTTATTGGTTTGTGCT
1 AGGCCCAATTGTTCTGTTATTGGGTTGTGCT
17103909 AGGCCCAATTGATTCTGTTA-TGGGTTGTG
1 AGGCCCAATTG-TTCTGTTATTGGGTTGTG
17103938 GCCCAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.13, C:0.17, G:0.28, T:0.42
Consensus pattern (31 bp):
AGGCCCAATTGTTCTGTTATTGGGTTGTGCT
Found at i:17107621 original size:27 final size:27
Alignment explanation
Indices: 17107563--17107721 Score: 115
Period size: 27 Copynumber: 5.9 Consensus size: 27
17107553 TACACTAAAA
* * *
17107563 GGGTATTTCGGTAATTTTACAAACCGA
1 GGGTATTTCAGTAATTTTACAAATCGG
* *
17107590 AGGTATTTCAGTAATTTTACAAGTCGG
1 GGGTATTTCAGTAATTTTACAAATCGG
* ** * * *
17107617 GGGTATTT-TGATAATTACAAAAATTGA
1 GGGTATTTCAG-TAATTTTACAAATCGG
* * **
17107644 GGGTATTTCGGTAATTTCACAAATTAG
1 GGGTATTTCAGTAATTTTACAAATCGG
* **
17107671 GGGTATTTC-GATATTTTTACAACCCGG
1 GGGTATTTCAG-TAATTTTACAAATCGG
*
17107698 GGGTATTTTAGTAATTTTACAAAT
1 GGGTATTTCAGTAATTTTACAAAT
17107722 TAGGGGTCTT
Statistics
Matches: 100, Mismatches: 28, Indels: 8
0.74 0.21 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.96
28 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGG
Found at i:17107621 original size:54 final size:54
Alignment explanation
Indices: 17107563--17107728 Score: 170
Period size: 54 Copynumber: 3.1 Consensus size: 54
17107553 TACACTAAAA
* * * *
17107563 GGGTATTTCGGTAATTTTACAAACCGAAGGTATTTCAGTAATTTTACAAGTCGG
1 GGGTATTTCGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAAATCAG
* ** * ** * * *
17107617 GGGTATTTTGATAATTACAAAAATTGAGGGTATTTCGGTAATTTCACAAATTAG
1 GGGTATTTCGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAAATCAG
* * * * *
17107671 GGGTATTTCGATATTTTTACAACCCGGGGGTATTTTAGTAATTTTACAAATTAG
1 GGGTATTTCGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAAATCAG
17107725 GGGT
1 GGGT
17107729 CTTAACGACC
Statistics
Matches: 87, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAAATCAG
Found at i:17116745 original size:33 final size:33
Alignment explanation
Indices: 17116703--17116774 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
17116693 TAACTAACAG
17116703 TTCACATTTTCAATCATAATCTTATGTATGAAC
1 TTCACATTTTCAATCATAATCTTATGTATGAAC
17116736 TTCACATTTTCAATCATAATCTTATGTATGAAC
1 TTCACATTTTCAATCATAATCTTATGTATGAAC
17116769 TTCACA
1 TTCACA
17116775 ACTTCTTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (33 bp):
TTCACATTTTCAATCATAATCTTATGTATGAAC
Found at i:17121371 original size:28 final size:28
Alignment explanation
Indices: 17121340--17121393 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
17121330 CCCGATTTGT
*
17121340 AAAATTACCATAATGCCCCTATATGGCA
1 AAAATTACCATAATACCCCTATATGGCA
* *
17121368 AAAATTACCGTAATACCCCTGTATGG
1 AAAATTACCATAATACCCCTATATGG
17121394 TAGAATGACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (28 bp):
AAAATTACCATAATACCCCTATATGGCA
Found at i:17124609 original size:28 final size:28
Alignment explanation
Indices: 17124568--17124623 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
17124558 CCTGGTTTGT
*
17124568 AAAATTACCATAATGCCCCTATATGGTA
1 AAAATTACCATAATACCCCTATATGGTA
* * *
17124596 AAAATTACCGTAATACCCTTGTATGGTA
1 AAAATTACCATAATACCCCTATATGGTA
17124624 GAATGACGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (28 bp):
AAAATTACCATAATACCCCTATATGGTA
Found at i:17124903 original size:22 final size:22
Alignment explanation
Indices: 17124873--17124915 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17124863 TACGACCTTT
17124873 AGCCATCCTGTCTAGGGTGTTG
1 AGCCATCCTGTCTAGGGTGTTG
* *
17124895 AGCCGTCCTGTCTATGGTGTT
1 AGCCATCCTGTCTAGGGTGTT
17124916 ATATCGTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.30, T:0.35
Consensus pattern (22 bp):
AGCCATCCTGTCTAGGGTGTTG
Found at i:17126604 original size:40 final size:40
Alignment explanation
Indices: 17126549--17126685 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
17126539 NNNNNNNNNN
*
17126549 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA-C
17126589 CGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAAC
1 CGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAAC
* * * * * *
17126629 CGAGCTATGTCTCGAAGGCATTTGAACGAG-TAGCTATATC
1 CGGGTTAAGTCCCGAAGGCATTTGTACGAGTTA-CTATAAC
* *
17126669 C-GGTTAAATTCCGAAGG
1 CGGGTTAAGTCCCGAAGG
17126686 TACGTGATTT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 12 0.15
40 68 0.83
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAAC
Found at i:17127605 original size:83 final size:83
Alignment explanation
Indices: 17127451--17127605 Score: 256
Period size: 83 Copynumber: 1.9 Consensus size: 83
17127441 ATAAATTATG
* * * *
17127451 CAAACGAACCTTGATGAATCTATTTTCATAGGAAAGTAACGAAACGATCATATGGATAGTATGTT
1 CAAACGAACATTGATGAATCTATTTTCATAGGAAAGTAACGAAACGATCATATGAATAGGATATT
17127516 AAGAGATATTCAAGTTCT
66 AAGAGATATTCAAGTTCT
*
17127534 CAAACGAACATTGATGAATCTATTTTCATAGGAAAGTAACGAAACGTTCATATGAATAGGATATT
1 CAAACGAACATTGATGAATCTATTTTCATAGGAAAGTAACGAAACGATCATATGAATAGGATATT
*
17127599 ATGAGAT
66 AAGAGAT
17127606 GCTAAAGTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 66 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (83 bp):
CAAACGAACATTGATGAATCTATTTTCATAGGAAAGTAACGAAACGATCATATGAATAGGATATT
AAGAGATATTCAAGTTCT
Found at i:17134590 original size:39 final size:40
Alignment explanation
Indices: 17134495--17134756 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
17134485 TTGAATGATG
*
17134495 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
17134533 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
17134574 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
17134613 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
17134652 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
17134691 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
17134730 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
17134757 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:17139461 original size:43 final size:43
Alignment explanation
Indices: 17139340--17139466 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 43
17139330 AAGTCTGAAC
* * *
17139340 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGGTA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
* * *
17139381 TCATTTCACCAGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
* * * *
17139424 TTATCTCACCGGCATTATAGCCTACTAGGCCTAAAGCCTGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
17139467 ATATTATTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 4 0.06
42 10 0.14
43 58 0.81
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
Found at i:17141191 original size:14 final size:15
Alignment explanation
Indices: 17141162--17141191 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17141152 AAAAATTTAG
17141162 ACATGATACTTTCAC
1 ACATGATACTTTCAC
17141177 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
17141191 A
1 A
17141192 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:17154633 original size:42 final size:41
Alignment explanation
Indices: 17154549--17154671 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 41
17154539 ATTAAGATTC
* *
17154549 CATATAAGGCCATATTCGGGATATGGCCTCGGTATG-TGATTT
1 CATATAAGGCCATA-TCGGGATATGGCATCGATATGAT-ATTT
* * *
17154591 CGTATAAGGCCATGTCGGAGACATGGCATCGATATGATATTT
1 CATATAAGGCCATATCGG-GATATGGCATCGATATGATATTT
* * * *
17154633 CATGTAAGACCATATCGGGGATATGGCATTGAAATGATA
1 CATATAAGGCCATATC-GGGATATGGCATCGATATGATA
17154672 CTATATGTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 4 0.06
42 59 0.89
43 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (41 bp):
CATATAAGGCCATATCGGGATATGGCATCGATATGATATTT
Found at i:17156543 original size:21 final size:20
Alignment explanation
Indices: 17156509--17156547 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17156499 GTTTCATGAT
17156509 GAAGTTTTCTAAGTATTCCCA
1 GAAGTTTTCTAAGT-TTCCCA
17156530 GAAGTTTT-TAAAGTTTCC
1 GAAGTTTTCT-AAGTTTCC
17156548 TGTTTAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
GAAGTTTTCTAAGTTTCCCA
Found at i:17158684 original size:15 final size:15
Alignment explanation
Indices: 17158652--17158680 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17158642 ATTTTCTATG
17158652 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
17158667 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
17158681 ATTTTCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:17163127 original size:12 final size:13
Alignment explanation
Indices: 17163107--17163168 Score: 69
Period size: 12 Copynumber: 4.9 Consensus size: 13
17163097 TTTTTAAACA
17163107 TATTTAATTTTAT
1 TATTTAATTTTAT
17163120 TA-TTAATTATTA-
1 TATTTAATT-TTAT
17163132 TATTTAATTTTAT
1 TATTTAATTTTAT
*
17163145 TA-TTAAGTATT-T
1 TATTTAA-TTTTAT
17163157 TATTTAATTTTA
1 TATTTAATTTTA
17163169 GAAATTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
12 21 0.51
13 20 0.49
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TATTTAATTTTAT
Found at i:17163134 original size:25 final size:25
Alignment explanation
Indices: 17163106--17163168 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
17163096 TTTTTTAAAC
*
17163106 ATATTTAATTTTATTATTAATTATT
1 ATATTTAATTTTATTATTAAGTATT
17163131 ATATTTAATTTTATTATTAAGTATT
1 ATATTTAATTTTATTATTAAGTATT
*
17163156 TTATTTAATTTTA
1 ATATTTAATTTTA
17163169 GAAATTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATTTAATTTTATTATTAAGTATT
Found at i:17163198 original size:22 final size:22
Alignment explanation
Indices: 17163148--17163200 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
17163138 ATTTTATTAT
*
17163148 TAAG-TATTTTATTTAATTTTA
1 TAAGTTATTTTATTGAATTTTA
* *
17163169 GAAATTATTTTATTG-ATATTTA
1 TAAGTTATTTTATTGAAT-TTTA
17163191 TAAGTTATTT
1 TAAGTTATTT
17163201 ATTAGTTTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (22 bp):
TAAGTTATTTTATTGAATTTTA
Found at i:17169821 original size:19 final size:18
Alignment explanation
Indices: 17169799--17169835 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
17169789 CTTAGTACAT
17169799 AAACATATACAAGTCTTTC
1 AAACATATACAAGT-TTTC
*
17169818 AAACATATATAAGTTTTC
1 AAACATATACAAGTTTTC
17169836 GAGACTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (18 bp):
AAACATATACAAGTTTTC
Found at i:17170256 original size:20 final size:21
Alignment explanation
Indices: 17170231--17170270 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
17170221 TTCTTGAAAC
17170231 AGGGCA-CATGCCCGTGTGGA
1 AGGGCAGCATGCCCGTGTGGA
17170251 AGGGCAGCATGCCCGTGTGG
1 AGGGCAGCATGCCCGTGTGG
17170271 TCATTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.15
Consensus pattern (21 bp):
AGGGCAGCATGCCCGTGTGGA
Found at i:17172147 original size:47 final size:45
Alignment explanation
Indices: 17171853--17172164 Score: 128
Period size: 47 Copynumber: 6.6 Consensus size: 45
17171843 GTATAATGCT
* * * * *
17171853 GATGCCATATCCCAGACATGGTCTTACACTGGCTC-AACTGTTAAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCA-TATCAAGGC
* * * * *
17171900 GATGCCATGTCCCAAACATGGTATTACACTGGCTATCGAAATCGAGGC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATATCAAGGC
* * * * *
17171948 GAACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATC-CGTCCC
1 G-ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATATCAAG--GC
* * * * * * * *
17171999 GATGCCATGTCCTACACATGGTCTTACA-TTG-ACACATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATC-AAGGC
* * *
17172045 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATCAAGGC
* * ***
17172090 TAATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAATGTGGGC
1 -GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATCAAGGC
*
17172139 GATGCATGTCCTAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
17172165 ATAGCACACA
Statistics
Matches: 205, Mismatches: 45, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
44 8 0.04
45 16 0.08
46 28 0.14
47 56 0.27
48 28 0.14
49 38 0.19
50 28 0.14
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATCAAGGC
Found at i:17177928 original size:27 final size:27
Alignment explanation
Indices: 17177023--17177927 Score: 1076
Period size: 27 Copynumber: 33.5 Consensus size: 27
17177013 CTCATATTTA
* *
17177023 TAGGCTAGTATTACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
17177050 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177077 TAGGGTAGAATTACCGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTG
* * * *
17177104 TAAGGTAGAATTACCGAAATACTCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177131 TAAGGTAGAATTACCGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177158 TAGGGTAAAAATACCGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
17177185 TAGGGTAGAATTACTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177212 TAGGGTAGAAATACTGAAATACCACTA
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177239 TAGGATAAAATTATTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177266 TAGGGTAGAATTACCGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177293 TAGGATAGAAATACCGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177320 TAGAGTAGAATTACTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177347 TAGGGTAGAAATATTGAAACACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
17177374 TAGGGTGGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
17177401 TAGGGTAGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177428 TAGGGTAGAATTA-TCAAAATACCCTTG
1 TAGGGTAGAATTACT-GAAATACCCCTG
* *
17177455 TAAGGTAGAAATA-TCGAAATACCCCTG
1 TAGGGTAGAATTACT-GAAATACCCCTG
* *
17177482 TAGGGTAGAATTACTAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * * *
17177509 TAAGGTAGAAATACTAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177536 TAGGGTAGAATTACTAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * * *
17177563 TAAGGTAGAAATACTAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
** *
17177590 TAGGGTAGAATTACCAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177617 TAGGGTAGAAATACTGAAATACTCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177644 TAGGGTAGAATTACCGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177671 TAGGATAGAAATACCGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177698 TAGAGTAGAATTACTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177725 TAGGGTAGAAATATTGAAACACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
17177752 TAGGGTGGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177779 TAGGGTAGAATTACTAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * * *
17177806 TAAGGTAGAAATACTAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* *
17177833 TAGGGTAGAATTACTAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
17177860 TAGGGTAGAAATACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTG
* * *
17177887 TAGGGTAGAATTACCGAGATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCCTG
*
17177914 TAGGGTAAAATTAC
1 TAGGGTAGAATTAC
17177928 CATTTTGCCC
Statistics
Matches: 766, Mismatches: 110, Indels: 4
0.87 0.12 0.00
Matches are distributed among these distances:
26 1 0.00
27 764 1.00
28 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTG
Found at i:17178363 original size:22 final size:22
Alignment explanation
Indices: 17178311--17178375 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
17178301 GCCAATTATT
* *
17178311 CTGATTATGGCTTTGCGCCATC
1 CTGATTATGGCTTTGTGCCAAC
*
17178333 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
17178355 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
17178376 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:17178548 original size:25 final size:27
Alignment explanation
Indices: 17178516--17178610 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
17178506 GATGGCTTTG
*
17178516 TGCCACATAT-TCTGTT-AAGTGGCTT
1 TGCCACATATATCTGTTCAAGTGGCTC
*
17178541 TGCCACAT-TATCTGTTTCTAGTGGCTC
1 TGCCACATATATCTG-TTCAAGTGGCTC
** *
17178568 TGCCACA-ATATCTGTATCTGGTGACTC
1 TGCCACATATATCTGT-TCAAGTGGCTC
*
17178595 TGTCACA-ATATCTGTT
1 TGCCACATATATCTGTT
17178611 TTGGCAGCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
24 1 0.02
25 12 0.20
26 4 0.07
27 43 0.72
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (27 bp):
TGCCACATATATCTGTTCAAGTGGCTC
Found at i:17178563 original size:27 final size:27
Alignment explanation
Indices: 17178533--17178611 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
17178523 TATTCTGTTA
* *
17178533 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTCTGCCACAATATCTGTTTCT
*
17178560 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTTTCT
* * *
17178587 GGTGACTCTGTCACAATATCTGTTT
1 AGTGGCTCTGCCACAATATCTGTTT
17178612 TGGCAGCTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTTTCT
Found at i:17178741 original size:6 final size:6
Alignment explanation
Indices: 17178732--17178850 Score: 84
Period size: 6 Copynumber: 19.3 Consensus size: 6
17178722 TTGTATTCAC
* * *
17178732 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG -TCATCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
17178782 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTA ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
17178831 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
17178851 AATGTTTCTT
Statistics
Matches: 89, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
5 5 0.06
6 72 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17178767 original size:31 final size:31
Alignment explanation
Indices: 17178732--17178829 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 31
17178722 TTGTATTCAC
*
17178732 ATTCTGATTCTGATTCTGTTACCTGA---T-
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
* * *
17178759 A--CTGATTCTGATTTTGTCATCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
17178788 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
*
17178819 ATTCTAATTCT
1 ATTCTGATTCT
17178830 CATTTTGATT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
25 19 0.33
27 1 0.02
28 1 0.02
29 1 0.02
31 35 0.61
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTG
Found at i:17178828 original size:25 final size:25
Alignment explanation
Indices: 17178732--17178829 Score: 106
Period size: 25 Copynumber: 3.7 Consensus size: 25
17178722 TTGTATTCAC
*
17178732 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
17178757 ATACTGATTCTGATTTTGTCATCTAATTCTG
1 ATTCTGATTCTGATTCTGTCA-C-----CTG
17178788 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
17178813 ATTCTGATTCTAATTCT
1 ATTCTGATTCTGATTCT
17178830 CATTTTGATT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 37 0.61
26 1 0.02
30 1 0.02
31 22 0.36
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:17182808 original size:47 final size:48
Alignment explanation
Indices: 17182739--17183053 Score: 208
Period size: 47 Copynumber: 6.6 Consensus size: 48
17182729 GGTATAATAC
*
17182739 CGATGGCATGTCCCAGACATGGTCTTACACTGGCTCATC-CGTTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGTTAAGT
* * * ** * *
17182786 CGATGCCATGTCTCAAACATGGTATTACACTGGCT-ATCAAAATTGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACGTTAAGT
* * **
17182834 CGAATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCCGT
1 CG-ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGT-TAAGT
* * * * * *
17182883 CCCGATGCCATGTCCTAGACATGGTCTTACATTGACACATCTCG-T-AGC
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGTTAAGT
*
17182931 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT--T-TCGTCTCAA-T
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGT-T-AAGT
* * ** ** *
17182975 ACCAATGCCATGTCCCATACATGGTCTTACACTGGCTC-TCATATTGTGGG
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGTT-AAGT
17183025 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
17183054 AGCACACAAA
Statistics
Matches: 208, Mismatches: 41, Indels: 39
0.72 0.14 0.14
Matches are distributed among these distances:
41 3 0.01
42 1 0.00
43 1 0.00
44 11 0.05
45 14 0.07
46 22 0.11
47 57 0.27
48 28 0.13
49 36 0.17
50 30 0.14
51 5 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACGTTAAGT
Found at i:17183038 original size:94 final size:94
Alignment explanation
Indices: 17182739--17183053 Score: 286
Period size: 94 Copynumber: 3.3 Consensus size: 94
17182729 GGTATAATAC
* *
17182739 CGATGGCATGTCCCAGACATGGTCTTACACTGGCTCATCCGTT-AAGT-CGATGCCATGTCTCAA
1 CGAT-GCATGTCCCAGACATGGTCTTACACTGGCTC-TACGTTCAA-TCCGATGCCATGTCCCAA
* * *
17182802 ACATGGTATTACACTGGCTATCAAAATTG-AGG
63 ACATGGTCTTACACTGGCTCTC-ATATTGTAGG
* * ** *
17182834 CGAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTCCCGATGCCATGTCCT
1 CG-ATG-CATGTCCCAGACATGGTCTTACACTGGCTCT-ACGT-TCAAT-CCGATGCCATGTCCC
* * * * * * *
17182899 AGACATGGTCTTACA-TTG-ACACATCTCGTAGC
61 AAACATGGTCTTACACTGGCTCTCATATTGTAGG
* * *
17182931 CGATGCATGTCCCAGACAT-GTCTTACACTGGCT-TTCGTCTCAATACCAATGCCATGTCCCATA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACGT-TCAAT-CCGATGCCATGTCCCAAA
*
17182994 CATGGTCTTACACTGGCTCTCATATTGTGGG
64 CATGGTCTTACACTGGCTCTCATATTGTAGG
17183025 CGATGCATGTCCCAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
17183054 AGCACACAAA
Statistics
Matches: 176, Mismatches: 34, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
92 32 0.18
93 3 0.02
94 50 0.28
95 18 0.10
96 39 0.22
97 7 0.04
98 2 0.01
99 25 0.14
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACGTTCAATCCGATGCCATGTCCCAAACA
TGGTCTTACACTGGCTCTCATATTGTAGG
Found at i:17195559 original size:3 final size:3
Alignment explanation
Indices: 17195553--17195652 Score: 69
Period size: 3 Copynumber: 34.0 Consensus size: 3
17195543 TTGCCTAATA
* * ** *
17195553 TAT TAT TGT TAT TAT TTT TAT CCT CAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
17195601 TAT T-T GA- TAC TAT CAT TAC TAT TAT TAT TCT AAT TAC CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17195647 TAT TAT
1 TAT TAT
17195653 ATATATACAT
Statistics
Matches: 72, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
2 2 0.03
3 70 0.97
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:17195694 original size:25 final size:24
Alignment explanation
Indices: 17195638--17195705 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
17195628 TTCTAATTAC
17195638 CATTATTATTATTATATATATACATA
1 CATT-TTATTATTAT-TATATACATA
* *
17195664 CCTTTTATTATTATTCATGTACATA
1 CATTTTATTATTATT-ATATACATA
* *
17195689 TATTTTAAATATTATTA
1 CATTTT-ATTATTATTA
17195706 CCATTATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 23 0.66
26 11 0.31
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (24 bp):
CATTTTATTATTATTATATACATA
Found at i:17195872 original size:3 final size:3
Alignment explanation
Indices: 17195864--17195910 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
17195854 GCATTTTAAC
*
17195864 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17195911 CATATATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17196091 original size:22 final size:23
Alignment explanation
Indices: 17196063--17196119 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
17196053 TGTATTATAA
*
17196063 TTATTATT-ATACTTTTAT-TTTC
1 TTATTATTCAT-CTATTATGTTTC
17196085 TTATTATTCATCTATTATGTTTC
1 TTATTATTCATCTATTATGTTTC
17196108 TTATCTATTCAT
1 TTAT-TATTCAT
17196120 GTTTCCATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 14 0.45
23 10 0.32
24 7 0.23
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATTATTCATCTATTATGTTTC
Found at i:17197317 original size:20 final size:20
Alignment explanation
Indices: 17197284--17197321 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17197274 GCGTAGACCA
* *
17197284 AAGTTGTTTTTTAAAAAATC
1 AAGTTATTTATTAAAAAATC
17197304 AAGTTATTTATTAAAAAA
1 AAGTTATTTATTAAAAAA
17197322 CAACCACTGT
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:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (20 bp):
AAGTTATTTATTAAAAAATC
Found at i:17201860 original size:11 final size:11
Alignment explanation
Indices: 17201846--17201904 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
17201836 AAAGAAAGGT
17201846 GAAAGAAGAAA
1 GAAAGAAGAAA
17201857 GAAAGAAGAAAA
1 GAAAGAAG-AAA
17201869 GAACAAGAAGAACA
1 G-A-AAGAAGAA-A
17201883 -AAAGAAG-AA
1 GAAAGAAGAAA
17201892 G-AAGAA-AAA
1 GAAAGAAGAAA
17201901 GAAA
1 GAAA
17201905 AAGTTAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
9 9 0.22
10 3 0.07
11 14 0.34
12 5 0.12
13 3 0.07
14 7 0.17
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (11 bp):
GAAAGAAGAAA
Found at i:17201865 original size:3 final size:3
Alignment explanation
Indices: 17201848--17201903 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
17201838 AGAAAGGTGA
* *
17201848 AAG AAG AAAG AAAG AAG AA- AAG AAC AAG AAG AAC AA- AAG AAG AAG
1 AAG AAG -AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
17201893 AAG AAA AAG AA
1 AAG AAG AAG AA
17201904 AAAGTTAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 4 0.09
3 34 0.76
4 7 0.16
ACGTcount: A:0.73, C:0.04, G:0.23, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17201885 original size:17 final size:17
Alignment explanation
Indices: 17201859--17201897 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
17201849 AGAAGAAAGA
*
17201859 AAGAAGAAAAGAACAAG
1 AAGAACAAAAGAACAAG
*
17201876 AAGAACAAAAGAAGAAG
1 AAGAACAAAAGAACAAG
17201893 AAGAA
1 AAGAA
17201898 AAAGAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (17 bp):
AAGAACAAAAGAACAAG
Found at i:17205740 original size:26 final size:28
Alignment explanation
Indices: 17205698--17205749 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
17205688 AATCGAAATA
*
17205698 TTTATAAAAATTCT-AA-AATTTATATT
1 TTTATAAAAATTATAAACAATTTATATT
17205724 TTTA-AAAAATTTATAAACAATTTATA
1 TTTATAAAAA-TTATAAACAATTTATA
17205750 AAAAGAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 5 0.23
26 7 0.32
27 2 0.09
28 8 0.36
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (28 bp):
TTTATAAAAATTATAAACAATTTATATT
Found at i:17210344 original size:38 final size:38
Alignment explanation
Indices: 17210223--17210365 Score: 135
Period size: 38 Copynumber: 3.7 Consensus size: 38
17210213 CACCAACACA
* * *
17210223 AAGCCTACGGGACTTTAAACTCAGATATAATACCAGTACT
1 AAGCCTGCGGGA-TTT-AACCCGGATATAATACCAGTACT
* ** *
17210263 AGGCCTGCGGGATTTAACCCGGATATAATACCAACACG
1 AAGCCTGCGGGATTTAACCCGGATATAATACCAGTACT
* *
17210301 AAGCCTGCGGGATTTAACCTGGATATAATTCCAGTA-T
1 AAGCCTGCGGGATTTAACCCGGATATAATACCAGTACT
**
17210338 ATAGCCTGCTGGTCTTTAAGCCCGGATA
1 A-AGCCTGC-GGGATTTAA-CCCGGATA
17210366 CACATCAAAT
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.01
38 56 0.67
39 10 0.12
40 17 0.20
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (38 bp):
AAGCCTGCGGGATTTAACCCGGATATAATACCAGTACT
Found at i:17210345 original size:76 final size:80
Alignment explanation
Indices: 17210209--17210365 Score: 189
Period size: 78 Copynumber: 2.0 Consensus size: 80
17210199 AAACCTGAAC
*
17210209 ATAACACCAACACAAAGCCTACGGGACTTTAAACTCAGATATAATACCAGTACTAGGCCTGC-GG
1 ATAACACCAACACAAAGCCTACGGGACTTTAAACTCAGATATAATACCAGTACTAAGCCTGCTGG
17210273 GATTTAA-CCCGGAT
66 GATTTAAGCCCGGAT
* * * * * *
17210287 ATAATACCAACACGAAGCCTGCGGGA-TTTAACCT-GGATATAATTCCAGTA-TATAGCCTGCTG
1 ATAACACCAACACAAAGCCTACGGGACTTTAAACTCAGATATAATACCAGTACTA-AGCCTGCTG
**
17210349 GTCTTTAAGCCCGGAT
65 GGATTTAAGCCCGGAT
17210365 A
1 A
17210366 CACATCAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
75 2 0.03
76 20 0.30
77 14 0.21
78 31 0.46
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (80 bp):
ATAACACCAACACAAAGCCTACGGGACTTTAAACTCAGATATAATACCAGTACTAAGCCTGCTGG
GATTTAAGCCCGGAT
Found at i:17216190 original size:51 final size:50
Alignment explanation
Indices: 17216061--17216253 Score: 201
Period size: 50 Copynumber: 3.9 Consensus size: 50
17216051 TATTGTGAGG
* * * * *
17216061 TCAC-TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT-GG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTAGA
* * * * * *
17216109 TCGCATGTATAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTAGA
* * * * * * *
17216160 TCACGTGTGTTGTACTAAGTGCAGGTTACTACGTGTATCAGATGATTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTAGA
17216210 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
17216254 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
48 3 0.03
49 34 0.30
50 43 0.37
51 35 0.30
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTAGA
Found at i:17216283 original size:101 final size:99
Alignment explanation
Indices: 17216075--17216286 Score: 237
Period size: 101 Copynumber: 2.1 Consensus size: 99
17216065 TGTGTAGTAC
* *
17216075 TAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTATAGTACTAAGTACAGGCTACTA
1 TAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTATAGTACTAAGTACAGGCTACTA
* * ** *
17216140 TGCGTACCCGATAACTTCGATCACGTGTGTTGTAC
66 TGCGTACCAGATAACTTCGATCAAGTGTG-TAAAA
* * * * *
17216175 TAAGTGCAGGTTACTACGTGTATCAGATGATTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACT
1 TAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACATGTATAGTACTAAGTACAGGCTACT
* * *
17216240 ATGCGTACCAGATAGCTTTGGCTACAAGTGTG-AAAA
65 ATGCGTACCAGATAAC-TTCGAT-CAAGTGTGTAAAA
*
17216276 TATGTGCAGGC
1 TAAGTGCAGGC
17216287 AACTGAGTAT
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
100 29 0.32
101 52 0.57
102 4 0.04
103 7 0.08
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (99 bp):
TAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTATAGTACTAAGTACAGGCTACTA
TGCGTACCAGATAACTTCGATCAAGTGTGTAAAA
Found at i:17221728 original size:15 final size:15
Alignment explanation
Indices: 17221708--17221737 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17221698 AACACTTGTG
17221708 CCGAAACCACAAAAA
1 CCGAAACCACAAAAA
*
17221723 CCGAAACCTCAAAAA
1 CCGAAACCACAAAAA
17221738 ATACATTAGT
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:0.57, C:0.33, G:0.07, T:0.03
Consensus pattern (15 bp):
CCGAAACCACAAAAA
Found at i:17222740 original size:202 final size:202
Alignment explanation
Indices: 17222389--17222791 Score: 743
Period size: 202 Copynumber: 2.0 Consensus size: 202
17222379 ACCGAACACT
* * ** * *
17222389 TTTTGTTAGTTCAATTCGGCAAAAGCCGAAATGCTGAAATTTCGGCATTTCATGGGCTTGTGAGT
1 TTTTCTTAGTTCAATTCGACAAAAGCCGAAATGCCAAAATTCCGACATTTCATGGGCTTGTGAGT
17222454 ATGCGAATGCTCTCAAGACGTAGAGTAATTGTTAGATCTAGCACCGCAAGGTGGTAAGTAAGTTT
66 ATGCGAATGCTCTCAAGACGTAGAGTAATTGTTAGATCTAGCACCGCAAGGTGGTAAGTAAGTTT
17222519 GTGTGACATCTTAACGTACTTCGGAAAAAGAGGGCCTCGATGGGCCAAAATTGGGCCCAATGGGC
131 GTGTGACATCTTAACGTACTTCGGAAAAAGAGGGCCTCGATGGGCCAAAATTGGGCCCAATGGGC
17222584 TTACGGC
196 TTACGGC
*
17222591 TTTTCTTAGTTCAATTCGACAAAAGTCGAAATGCCAAAATTCCGACATTTCATGGGCTTGTGAGT
1 TTTTCTTAGTTCAATTCGACAAAAGCCGAAATGCCAAAATTCCGACATTTCATGGGCTTGTGAGT
17222656 ATGCGAATGCTCTCAAGACGTAGAGTAATTGTTAGATCTAGCACCGCAAGGTGGTAAGTAAGTTT
66 ATGCGAATGCTCTCAAGACGTAGAGTAATTGTTAGATCTAGCACCGCAAGGTGGTAAGTAAGTTT
17222721 GTGTGACATCTTAACGTACTTCGGAAAAAGAGGGCCTCGATGGGCCAAAATTGGGCCCAATGGGC
131 GTGTGACATCTTAACGTACTTCGGAAAAAGAGGGCCTCGATGGGCCAAAATTGGGCCCAATGGGC
17222786 TTACGG
196 TTACGG
17222792 ACCAATATGG
Statistics
Matches: 194, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 194 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (202 bp):
TTTTCTTAGTTCAATTCGACAAAAGCCGAAATGCCAAAATTCCGACATTTCATGGGCTTGTGAGT
ATGCGAATGCTCTCAAGACGTAGAGTAATTGTTAGATCTAGCACCGCAAGGTGGTAAGTAAGTTT
GTGTGACATCTTAACGTACTTCGGAAAAAGAGGGCCTCGATGGGCCAAAATTGGGCCCAATGGGC
TTACGGC
Found at i:17239075 original size:39 final size:40
Alignment explanation
Indices: 17238831--17239093 Score: 275
Period size: 40 Copynumber: 6.6 Consensus size: 40
17238821 TTGAATGCTG
* * * * * *
17238831 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** *
17238871 TCCGGACTAAGAT-CCGAAGGCAATT-GTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTCGTGCGAGTTACTAAA
* * * * *
17238910 TTCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
17238951 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
17238991 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
17239031 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
17239070 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17239094 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 22, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
39 39 0.20
40 145 0.75
41 8 0.04
42 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:17239113 original size:79 final size:80
Alignment explanation
Indices: 17238945--17239128 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
17238935 TGTGCGAGAT
* *
17238945 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
** *
17239010 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * * *
17239025 ATTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
*
17239089 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
17239103 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
17239129 TACGTGATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 15 0.17
79 46 0.52
80 28 0.31
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:17239114 original size:119 final size:120
Alignment explanation
Indices: 17238832--17239128 Score: 284
Period size: 120 Copynumber: 2.5 Consensus size: 120
17238822 TGAATGCTGT
* ** * * **
17238832 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCAAT
* * *
17238895 TGTGCGAGATACAAATTCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAAT
64 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAA
* ** * *
17238952 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGC-ATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCAATT-
* * * * * *
17239016 GTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAA
65 GTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAA
* * *
17239071 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
17239129 TACGTGATTT
Statistics
Matches: 147, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
118 16 0.11
119 53 0.36
120 69 0.47
121 9 0.06
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCAATTG
TGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAA
Found at i:17251257 original size:50 final size:49
Alignment explanation
Indices: 17251192--17251289 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 49
17251182 AGAAGAAAGC
17251192 TTTTTTACAAAAGCTTGGAGAACACAACAATGGAAGCAAGATAAATAAT
1 TTTTTTACAAAAGCTTGGAGAACACAACAATGGAAGCAAGATAAATAAT
17251241 TTTTTTCACAAAAGCTTGGAGAACACAACAATGGAAGCAAGATAAATAA
1 TTTTTT-ACAAAAGCTTGGAGAACACAACAATGGAAGCAAGATAAATAA
17251290 ATTAAAACAC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 6 0.12
50 42 0.88
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.23
Consensus pattern (49 bp):
TTTTTTACAAAAGCTTGGAGAACACAACAATGGAAGCAAGATAAATAAT
Found at i:17251438 original size:12 final size:12
Alignment explanation
Indices: 17251421--17251447 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17251411 GCTATAGTGT
17251421 TAACTAATTAAC
1 TAACTAATTAAC
17251433 TAACTAATTAAC
1 TAACTAATTAAC
17251445 TAA
1 TAA
17251448 ATAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:17267025 original size:38 final size:39
Alignment explanation
Indices: 17266917--17267028 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 39
17266907 GCATTCAAGG
* * * * *
17266917 GTACCGAAAGTACAAACAAGGGTACTTATGTGCATTTAGGG
1 GTACCG-AAGTACAAAC-GGGGCACATATGTGCAATTAGGA
** * *
17266958 GTAGTGAAGTACAAATAGGAGCACATATGTGCAATTA-GA
1 GTACCGAAGTACAAA-CGGGGCACATATGTGCAATTAGGA
17266997 GTACCGAAGTACAAACGGGGCACATATGTGCA
1 GTACCGAAGTACAAACGGGGCACATATGTGCA
17267029 TTCATACAAT
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
38 15 0.26
39 14 0.25
40 24 0.42
41 4 0.07
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (39 bp):
GTACCGAAGTACAAACGGGGCACATATGTGCAATTAGGA
Found at i:17269972 original size:27 final size:26
Alignment explanation
Indices: 17269932--17270043 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
17269922 AGCATGGCTG
* * *
17269932 CCAGAACATATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17269958 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
17269986 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
17270013 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
17270040 CCAG
1 CCAG
17270044 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.70
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17270026 original size:54 final size:54
Alignment explanation
Indices: 17269932--17270043 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
17269922 AGCATGGCTG
* *
17269932 CCAGAACATATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
17269986 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
17270040 CCAG
1 CCAG
17270044 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:17273117 original size:18 final size:18
Alignment explanation
Indices: 17273094--17273134 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
17273084 AGCTCCTTCT
17273094 GACTCAACAAATACTTAA
1 GACTCAACAAATACTTAA
17273112 GACTCAACAAATACTTAA
1 GACTCAACAAATACTTAA
17273130 GACTC
1 GACTC
17273135 TTATGGTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (18 bp):
GACTCAACAAATACTTAA
Found at i:17277359 original size:27 final size:27
Alignment explanation
Indices: 17277328--17277432 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
17277318 CTGCCAGAAT
** *
17277328 AGATAATGTGATAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
17277355 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
17277382 AGAAATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
17277409 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
17277433 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 51 0.75
28 16 0.24
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:17277376 original size:28 final size:28
Alignment explanation
Indices: 17277340--17277432 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
17277330 ATAATGTGAT
* *
17277340 AGAGTCACCAGATACAGATAATCGTGGC
1 AGAGCCACCAGATACAGATAATTGTGGC
17277368 AGAGCCACCAGA-ACAGA-AATATGTGGC
1 AGAGCCACCAGATACAGATAAT-TGTGGC
17277395 AGAGCCACCAGAT-CAGATAATTGTGGC
1 AGAGCCACCAGATACAGATAATTGTGGC
*
17277422 ATAGCCACCAG
1 AGAGCCACCAG
17277433 GACGCTTCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
26 3 0.05
27 42 0.71
28 14 0.24
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.15
Consensus pattern (28 bp):
AGAGCCACCAGATACAGATAATTGTGGC
Found at i:17278340 original size:24 final size:24
Alignment explanation
Indices: 17278313--17278455 Score: 268
Period size: 24 Copynumber: 6.0 Consensus size: 24
17278303 CTAGATTTCC
**
17278313 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
17278337 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
17278361 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
17278385 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
17278409 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
17278433 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
17278456 CTCATGACAA
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 117 1.00
ACGTcount: A:0.27, C:0.38, G:0.01, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:17282886 original size:27 final size:27
Alignment explanation
Indices: 17282856--17283033 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17282846 ATATTGAGTC
* * * *
17282856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17282883 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17282910 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17282938 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17282965 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17282992 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17283019 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17283034 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17282995 original size:82 final size:81
Alignment explanation
Indices: 17282877--17283032 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17282867 TGCTATATAA
* *
17282877 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17282942 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17282959 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17283023 CACTTAGTGC
65 CACTTAGTGC
17283033 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17290949 original size:27 final size:27
Alignment explanation
Indices: 17290919--17291096 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17290909 ATATTGAGTC
* * * *
17290919 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17290946 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17290973 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17291001 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17291028 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17291055 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17291082 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17291097 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17291058 original size:82 final size:81
Alignment explanation
Indices: 17290940--17291095 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17290930 TGCTATATAA
* *
17290940 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17291005 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17291022 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17291086 CACTTAGTGC
65 CACTTAGTGC
17291096 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17295081 original size:29 final size:29
Alignment explanation
Indices: 17295015--17295133 Score: 159
Period size: 29 Copynumber: 4.1 Consensus size: 29
17295005 ACATACATGT
* * * *
17295015 ATATGGCTCACTAGGCCC-AATCTCATCC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
17295043 ATATGACCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
17295072 GTATGGCCCATTAGGCCCAAATTACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
17295101 ATATGGCCCATTAGGCCCAAATCATATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
17295130 ATAT
1 ATAT
17295134 TCATGCTTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 15 0.19
29 64 0.81
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:17303307 original size:19 final size:19
Alignment explanation
Indices: 17303282--17303331 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
17303272 AATTGATGCC
*
17303282 TCATTTGCATT-CATTTCA
1 TCATTTGCATTACATTACA
17303300 TGCATTTGCATTACATTACA
1 T-CATTTGCATTACATTACA
*
17303320 TCATATGCATTA
1 TCATTTGCATTA
17303332 AAGACCATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (19 bp):
TCATTTGCATTACATTACA
Found at i:17306474 original size:37 final size:37
Alignment explanation
Indices: 17306424--17306573 Score: 237
Period size: 37 Copynumber: 4.1 Consensus size: 37
17306414 CTTTAGCTCA
* * *
17306424 GACAAAATCTCCACACGAAGTTATCAGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
17306461 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
17306498 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
17306535 GACATAATCTCCACACGTAGTCATCGGGTTTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
17306572 GA
1 GA
17306574 ATATATTTCT
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:17306839 original size:47 final size:47
Alignment explanation
Indices: 17306778--17306962 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
17306768 TACATATATT
* * * * *
17306778 TCACATTAGCCATTCAGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
17306825 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
17306872 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
17306919 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
17306963 CACAATTATC
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:17306898 original size:22 final size:22
Alignment explanation
Indices: 17306871--17306946 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
17306861 GCTCACATTC
17306871 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
17306893 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
*
17306917 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
17306940 ATCACAT
1 ATCACAT
17306947 ATATGCACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:17310385 original size:6 final size:6
Alignment explanation
Indices: 17310367--17310454 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
17310357 AAGAAACATT
* * * *
17310367 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAAA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
17310416 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
17310455 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:17310420 original size:31 final size:31
Alignment explanation
Indices: 17310378--17310454 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
17310368 TCAGAACTAG
* *
17310378 AATCAGAATCAGAATCAGAATTAGGTGACAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
* * *
17310409 AATTAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAA
*
17310440 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
17310455 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAA
Found at i:17310916 original size:27 final size:27
Alignment explanation
Indices: 17310875--17311341 Score: 769
Period size: 27 Copynumber: 17.3 Consensus size: 27
17310865 ACCTCATATC
17310875 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
17310902 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
17310929 TCGGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
17310956 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
17310983 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
17311010 TCGGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
17311037 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
17311064 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
17311091 TCGGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
17311118 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
17311145 TCAGTAATTCTACCCTACAGGGGTA-T
1 TCGGTAATTCTACCCTACAGGGGTATT
17311171 TCTGGTAATTCTACCCTACAGGGGTATT
1 TC-GGTAATTCTACCCTACAGGGGTATT
* *
17311199 GCGATAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
17311226 CCGGTAATTCTACCCAACAGGGGTA-T
1 TCGGTAATTCTACCCTACAGGGGTATT
17311252 TCTGGTAATTCTACCCTACAGGGGTATT
1 TC-GGTAATTCTACCCTACAGGGGTATT
17311280 TCGGTAATTCTACCCTACA-GGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
17311306 GCGATAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
17311333 TCGGTAATT
1 TCGGTAATT
17311342 TTACAAGTTA
Statistics
Matches: 409, Mismatches: 26, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
26 28 0.07
27 376 0.92
28 5 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:17311436 original size:27 final size:27
Alignment explanation
Indices: 17311324--17311467 Score: 139
Period size: 27 Copynumber: 5.4 Consensus size: 27
17311314 TCTACCCTAT
* * ***
17311324 AGGGGTATTTCGGTAATTTTACAAGTT
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
17311351 AGGGGTATTTTAGTAA-TTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
*
17311377 AGGGGTATTTTAGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
* * *
17311404 AGGGGTATTTTGGTAATTTTACTGATCG
1 AGGGGTATTTTGGTAATTTTA-TAAACC
* *
17311432 A-GGGTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTTGGTAATTTTATAAACC
*
17311458 AAGGGTATTT
1 AGGGGTATTT
17311468 CAATAATTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 27 0.27
27 69 0.69
28 4 0.04
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACC
Found at i:17311449 original size:54 final size:53
Alignment explanation
Indices: 17311324--17311476 Score: 155
Period size: 54 Copynumber: 2.9 Consensus size: 53
17311314 TCTACCCTAT
* * **
17311324 AGGGGTATTTCGGTAATTTTACAAGTTAGGGGTATTTTAGTAATTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTACAAACC
* * * ** *
17311377 AGGGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAA-TTTACAAACC
* * * *
17311431 -GAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTCAATAATTT
1 AG-GGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTT
17311477 TGTAAATCGA
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
53 40 0.49
54 41 0.51
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (53 bp):
AGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTAGTAATTTACAAACC
Found at i:17311501 original size:27 final size:27
Alignment explanation
Indices: 17311479--17311785 Score: 443
Period size: 27 Copynumber: 11.4 Consensus size: 27
17311469 AATAATTTTG
* * *
17311479 TAAATCGAGGATAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
17311506 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
17311533 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
17311560 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
17311587 TAAATTGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
17311614 TAAATTGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* * *
17311641 TAAACCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
* *
17311668 TAAATCGAGGGTAAAATAGTAATTTTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
17311695 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
* * *
17311722 TAAATCGAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAATGGTAATTCTA
*
17311749 TAAATCGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAATGGTAATTCTA
17311776 TAAATCGAGG
1 TAAATCGAGG
17311786 ATATTTGGGT
Statistics
Matches: 250, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 250 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATGGTAATTCTA
Found at i:17311827 original size:27 final size:27
Alignment explanation
Indices: 17311471--17311829 Score: 396
Period size: 27 Copynumber: 13.3 Consensus size: 27
17311461 GGTATTTCAA
* * *
17311471 TAATTTTGTAAATCGAGGATAAAATAG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * *
17311498 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
*
17311525 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* *
17311552 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * * *
17311579 TAATTCTGTAAATTGAGGGTAAAATAG
1 TAATTTTATAAATCGAGGGTAAAATGG
* *
17311606 TAATTCTATAAATTGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * *
17311633 TAATTCTATAAACCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * *
17311660 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTTTATAAATCGAGGGTAAAATGG
*
17311687 TAATTTTATAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* *
17311714 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTATAAATCGAGGGTAAAATGG
* *
17311741 TAATTTTGTAAATCGAGGGTAAAATAG
1 TAATTTTATAAATCGAGGGTAAAATGG
* * **
17311768 TAATTCTATAAATCGAGGAT-ATTTGGG
1 TAATTTTATAAATCGAGGGTAAAAT-GG
* ***
17311795 TAATTTTATAAATCGGGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTAAAATGG
17311822 TAATTTTA
1 TAATTTTA
17311830 CAAGTCGAAG
Statistics
Matches: 291, Mismatches: 39, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 286 0.98
28 3 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
TAATTTTATAAATCGAGGGTAAAATGG
Found at i:17311828 original size:81 final size:81
Alignment explanation
Indices: 17311479--17311785 Score: 515
Period size: 81 Copynumber: 3.8 Consensus size: 81
17311469 AATAATTTTG
* ** **
17311479 TAAATCGAGGATAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
17311544 TAAAATGGTAATTCTA
66 TAAAATGGTAATTCTA
* *
17311560 TAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTATAAATTGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
17311625 TAAAATGGTAATTCTA
66 TAAAATGGTAATTCTA
* *
17311641 TAAACCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
*
17311706 TAAAACGGTAATTCTA
66 TAAAATGGTAATTCTA
*
17311722 TAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGG
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGG
17311786 ATATTTGGGT
Statistics
Matches: 211, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 211 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
TAAAATGGTAATTCTA
Found at i:17313715 original size:39 final size:40
Alignment explanation
Indices: 17313670--17313841 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
17313660 GCTCCTCGTT
* *
17313670 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCA
* *
17313710 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCA
* * *
17313749 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCA
* * * * *
17313789 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTTTAGTAACTCGCA
17313829 CAAATGCCTTCGG
1 CAAATGCCTTCGG
17313842 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.68
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTTTAGTAACTCGCA
Found at i:17313770 original size:40 final size:39
Alignment explanation
Indices: 17313672--17313894 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
17313662 TCCTCGTTCA
* * * *
17313672 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
17313711 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
17313750 GAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
17313790 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
17313830 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
17313871 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17313895 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 104 0.67
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:17313903 original size:41 final size:41
Alignment explanation
Indices: 17313826--17313903 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17313816 TTTGTATCTC
* * *
17313826 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17313867 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17313904 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17314589 original size:46 final size:46
Alignment explanation
Indices: 17314536--17314630 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
17314526 CAAGAATCAT
*
17314536 CAAGCCATCATCACATGCATCATTAACAAGCTTCATATTTTGTATG
1 CAAGCCATCATCACATGCATCATTAACAAGCTTCATATTTTGCATG
*
17314582 CAAGCCATCATCACATGCATCATTAACTAGCTTCATATTTTGCATG
1 CAAGCCATCATCACATGCATCATTAACAAGCTTCATATTTTGCATG
17314628 CAA
1 CAA
17314631 TGGCATTAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (46 bp):
CAAGCCATCATCACATGCATCATTAACAAGCTTCATATTTTGCATG
Found at i:17315366 original size:125 final size:125
Alignment explanation
Indices: 17315204--17315455 Score: 461
Period size: 125 Copynumber: 2.0 Consensus size: 125
17315194 GCCGGCCACT
*
17315204 ACTAGTAGGGGGGGAATTTGACATGGAATCCCCCCTTTGTCCACATGCACTAATAGGTCCTCACA
1 ACTAGTA-GGGGGGAATTTGACATGCAATCCCCCCTTTGTCCACATGCACTAATAGGTCCTCACA
17315269 CATTGACCTATCACATTTTAGAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAA
65 CATTGACCTATCACATTTTAGAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAA
*
17315330 ACTAGTA-GGGGGAATTTGACATGCAAGTCGCCCCTTTGTCCACATGCACTAATAGGTCCTCACA
1 ACTAGTAGGGGGGAATTTGACATGCAA-TCCCCCCTTTGTCCACATGCACTAATAGGTCCTCACA
17315394 CATTGACCTATCACATTTTAGAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAA
65 CATTGACCTATCACATTTTAGAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAA
17315455 A
1 A
17315456 TCAACCAAAT
Statistics
Matches: 123, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
124 18 0.15
125 98 0.80
126 7 0.06
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (125 bp):
ACTAGTAGGGGGGAATTTGACATGCAATCCCCCCTTTGTCCACATGCACTAATAGGTCCTCACAC
ATTGACCTATCACATTTTAGAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAA
Found at i:17316291 original size:82 final size:82
Alignment explanation
Indices: 17316154--17316316 Score: 263
Period size: 82 Copynumber: 2.0 Consensus size: 82
17316144 GCCAAATCTG
* * *
17316154 AGTACCTTTTTCCAAGGCGAATCTTTAAGAAACACTTTATCTCCCACCTGATATTCGATGGCTTT
1 AGTACCTTTTTCCAAGGCGAAACTTTAAGAAACACTTTATCTCCCACCTGATATTCAATGGCCTT
*
17316219 TCGTTTCAAATCCGCAA
66 CCGTTTCAAATCCGCAA
* *
17316236 AGTACCTTTTTCCAAGGCGAAACTTTAAGGAACACTTTATCTCCCACCTGATATTCAATGTCCTT
1 AGTACCTTTTTCCAAGGCGAAACTTTAAGAAACACTTTATCTCCCACCTGATATTCAATGGCCTT
*
17316301 CCGTTTCAGATCCGCA
66 CCGTTTCAAATCCGCA
17316317 TACGATTTCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.33
Consensus pattern (82 bp):
AGTACCTTTTTCCAAGGCGAAACTTTAAGAAACACTTTATCTCCCACCTGATATTCAATGGCCTT
CCGTTTCAAATCCGCAA
Found at i:17321981 original size:27 final size:27
Alignment explanation
Indices: 17321951--17322128 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
17321941 ATATTGAGTC
* * * *
17321951 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
17321978 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17322005 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17322033 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17322060 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17322087 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17322114 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17322129 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17322090 original size:82 final size:81
Alignment explanation
Indices: 17321972--17322127 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
17321962 TGCTATATAA
* *
17321972 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
17322037 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
17322054 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
17322118 CACTTAGTGC
65 CACTTAGTGC
17322128 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:17322629 original size:12 final size:12
Alignment explanation
Indices: 17322612--17322638 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17322602 ATGGCATACT
17322612 TATGTATATATA
1 TATGTATATATA
17322624 TATGTATATATA
1 TATGTATATATA
17322636 TAT
1 TAT
17322639 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:17326245 original size:43 final size:41
Alignment explanation
Indices: 17326191--17326381 Score: 165
Period size: 43 Copynumber: 4.5 Consensus size: 41
17326181 TGAGATTACA
17326191 TGTAAGACCATGTCT-GGATCATTGGCATTGTATTGTGATTATG
1 TGTAAGACCATGTCTGGGA-CATTGGCATTGTA-T-TGATTATG
*
17326234 TGTAAGACCATGTCTGGGACATTGGCATCAT-TATACGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCAT--TGTAT-TGATTATG
* *
17326277 TGTAAGACCATGTCTGGGACATTGGCATCGTCAATTGATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATTGT--ATTGATTATG
* * * * *
17326320 AGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTG-TTA-G
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TAT-TGATTATG
*
17326361 CATGTAAGACCATATCTGGGA
1 --TGTAAGACCATGTCTGGGA
17326382 TATGACATTG
Statistics
Matches: 124, Mismatches: 14, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 109 0.88
44 8 0.06
45 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGATTATG
Found at i:17326367 original size:86 final size:89
Alignment explanation
Indices: 17326189--17326382 Score: 224
Period size: 86 Copynumber: 2.2 Consensus size: 89
17326179 GATGAGATTA
* * * *
17326189 CATGTAAGACCATGTCT-GGATCATTGGCATTGTATTGTGATTATGTGTAAGACCATGTCTGGGA
1 CATGTAAGACCATGTCTGGGATCATTGGCATCGTAATGTGATTATGAGTAAGACCATGTCTAGGA
*
17326253 CATTGGCATCATTATACGATTATG
66 CAGTGGCATCATTATACGATTATG
* *
17326277 --TGTAAGACCATGTCTGGGA-CATTGGCATCGTCAAT-TGATTTTGAGTAAGACCCTGTCTAGG
1 CATGTAAGACCATGTCTGGGATCATTGGCATCGT-AATGTGATTATGAGTAAGACCATGTCTAGG
**
17326338 ACAGTGGCATCGA-TATGTG-TTA-G
65 ACAGTGGCATC-ATTATACGATTATG
*
17326361 CATGTAAGACCATATCTGGGAT
1 CATGTAAGACCATGTCTGGGAT
17326383 ATGACATTGT
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
84 1 0.01
85 3 0.03
86 80 0.89
87 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (89 bp):
CATGTAAGACCATGTCTGGGATCATTGGCATCGTAATGTGATTATGAGTAAGACCATGTCTAGGA
CAGTGGCATCATTATACGATTATG
Found at i:17330543 original size:20 final size:20
Alignment explanation
Indices: 17330518--17330558 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17330508 ACTAAAATGC
17330518 AAAATTCTGAAATTTGATGA
1 AAAATTCTGAAATTTGATGA
* *
17330538 AAAATTTTGAAATTTTATGA
1 AAAATTCTGAAATTTGATGA
17330558 A
1 A
17330559 TACATGTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (20 bp):
AAAATTCTGAAATTTGATGA
Found at i:17333121 original size:58 final size:58
Alignment explanation
Indices: 17333051--17333215 Score: 287
Period size: 58 Copynumber: 2.8 Consensus size: 58
17333041 ACAATAGTCG
*
17333051 AAACCATACCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCA
1 AAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCA
* *
17333109 AAACCATCCCTTTTCATATTCAATGGTCGTCACCATCCCTTTTCATATTTGATGGTCG
1 AAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCA
17333167 AAACCATCCCTTTTCATATTCGATGGTCGTCACCA-CCCTTTTTCATATT
1 AAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCC-TTTTCATATT
17333216 CGATAGGCGT
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
57 3 0.03
58 99 0.97
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (58 bp):
AAACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTTGATGGTCA
Found at i:17333226 original size:29 final size:29
Alignment explanation
Indices: 17333053--17333219 Score: 237
Period size: 29 Copynumber: 5.8 Consensus size: 29
17333043 AATAGTCGAA
*
17333053 ACCATACCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* ***
17333082 ACCATCCCTTTTCATATTTGATGGTCAAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
17333111 ACCATCCCTTTTCATATTCAATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
17333140 ACCATCCCTTTTCATATTTGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
17333169 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
17333198 ACCA-CCCTTTTTCATATTCGAT
1 ACCATCCC-TTTTCATATTCGAT
17333220 AGGCGTCGAT
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
28 3 0.03
29 117 0.98
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:17334156 original size:19 final size:20
Alignment explanation
Indices: 17334132--17334170 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
17334122 TCCCATTATT
17334132 TATTTATTTAT-TGTTTTAA
1 TATTTATTTATATGTTTTAA
*
17334151 TATTTATTTTTATGTTTTAA
1 TATTTATTTATATGTTTTAA
17334171 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TATTTATTTATATGTTTTAA
Found at i:17334158 original size:23 final size:23
Alignment explanation
Indices: 17334128--17334186 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 23
17334118 TTAGTCCCAT
17334128 TATTTATTTATTTATTGTTTTAA
1 TATTTATTTATTTATTGTTTTAA
17334151 TATTTA-TT-TTTA-TGTTTTAA
1 TATTTATTTATTTATTGTTTTAA
*
17334171 -ATGTATTTGATTTATT
1 TATTTATTT-ATTTATT
17334187 ATATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 4 0.13
22 6 0.19
23 7 0.23
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (23 bp):
TATTTATTTATTTATTGTTTTAA
Found at i:17334194 original size:25 final size:23
Alignment explanation
Indices: 17334151--17334196 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
17334141 ATTGTTTTAA
*
17334151 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
17334174 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
17334197 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:17345259 original size:43 final size:43
Alignment explanation
Indices: 17345191--17345336 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
17345181 AGCTCATACA
* * ** *
17345191 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATAATCTTACACGTAATCAAATATCG
* * *
17345234 ATGCCATTGTCCCAGACATAATCTTACACGAAATCAAGTA-CG
1 ATGCCAATGTCCCAGACATAATCTTACACGTAATCAAATATCG
** * ** *
17345276 ACACCAATGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGACATAATCTTACACGT-AATCA-AATATCG
*
17345320 ATGCCAACGTCCCAGAC
1 ATGCCAATGTCCCAGAC
17345337 GTGGTCTTAC
Statistics
Matches: 80, Mismatches: 20, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
42 26 0.32
43 37 0.46
44 17 0.21
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATAATCTTACACGTAATCAAATATCG
Found at i:17345345 original size:86 final size:85
Alignment explanation
Indices: 17345194--17345350 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 85
17345184 TCATACAATG
* **
17345194 CCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAGACATAATCTT
1 CCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGACATAATCTT
17345259 ACACGAAATCAAGTACGACA
66 ACACGAAATCAAGTACGACA
* * * **
17345279 CCAATGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCGATGCCAACGTCCCAGACGTGGTC
1 CCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCGATGCCAACGTCCCAGACATAATC
17345343 TTACACGA
64 TTACACGA
17345351 TAACACATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 26 0.42
86 34 0.55
87 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (85 bp):
CCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGACATAATCTT
ACACGAAATCAAGTACGACA
Found at i:17347419 original size:64 final size:64
Alignment explanation
Indices: 17347339--17347522 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
17347329 AGACATTATG
* * *
17347339 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
17347403 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
17347468 AA
63 AA
* * *
17347470 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
17347523 CAAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:17353549 original size:30 final size:30
Alignment explanation
Indices: 17353515--17353574 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
17353505 ATTTAATACG
*
17353515 AACTTTGGAAAAATTACATTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * * *
17353545 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
17353575 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:17360619 original size:93 final size:93
Alignment explanation
Indices: 17360506--17360676 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
17360496 GCCCATAAGT
* *
17360506 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17360571 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17360599 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17360664 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17360677 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.