Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 20 of 85
Found at i:6595951 original size:15 final size:15
Alignment explanation
Indices: 6595907--6595961 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 15
6595897 TCGCCCATAT
6595907 TATTTTTAATTTA-A
1 TATTTTTAATTTATA
6595921 TATTTATTAATTTTATA
1 TATTT-TTAA-TTTATA
*
6595938 TATTTTTTATTTATTGA
1 TATTTTTAATTTA-T-A
6595955 TATTTTT
1 TATTTTT
6595962 TATATAGTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
14 5 0.14
15 8 0.23
16 8 0.23
17 14 0.40
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTTTAATTTATA
Found at i:6598788 original size:32 final size:32
Alignment explanation
Indices: 6598720--6598954 Score: 249
Period size: 32 Copynumber: 7.4 Consensus size: 32
6598710 GAATGATTAC
* * * *
6598720 AAGCCATAAGT-ACAGTAATGTGATTGGCAAA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
** *
6598751 AAGCCATCAGTAGTAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
6598783 TAGCCATCAGTAACGGTAACATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
6598815 AAGCCATCAGTAAGAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
6598847 CAA-CCATCAATAACAGTAAAATGATCAGCACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
* ** **
6598879 CAGCCATTGGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
6598911 AAGCCATCAGTAACGGTACTATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
6598943 AAGCCATCAGTA
1 AAGCCATCAGTA
6598955 GCATCGCAGC
Statistics
Matches: 165, Mismatches: 36, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
31 11 0.07
32 152 0.92
33 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:6599009 original size:26 final size:26
Alignment explanation
Indices: 6598957--6599010 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
6598947 CATCAGTAGC
* *
6598957 ATCGCAGCAAAGCTGCTAGCAAGAGT
1 ATCGCAACAAAGCTGCCAGCAAGAGT
* *
6598983 ATCGCAACAAAGCTGCCAGTAATAGT
1 ATCGCAACAAAGCTGCCAGCAAGAGT
6599009 AT
1 AT
6599011 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAGCAAGAGT
Found at i:6599028 original size:27 final size:27
Alignment explanation
Indices: 6598998--6599061 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
6598988 AACAAAGCTG
*
6598998 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
*
6599025 CCAGTAGCAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
6599052 CCAGT-ACAGT
1 CCAGTAACAGT
6599062 ACTTCCTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.19
27 24 0.75
28 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:6599159 original size:24 final size:24
Alignment explanation
Indices: 6599126--6599207 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
6599116 CCATGCTCAG
*
6599126 AATCAATCATTCAAATCACAGACA
1 AATCAGTCATTCAAATCACAGACA
*
6599150 AATTAGTCATATCAAAT-ACAGACA
1 AATCAGTCAT-TCAAATCACAGACA
*
6599174 AATCAGTCAATT--AACCACAGACA
1 AATCAGTC-ATTCAAATCACAGACA
* *
6599197 AAACAATCATT
1 AATCAGTCATT
6599208 TAACCTCGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
22 5 0.10
23 13 0.27
24 23 0.47
25 8 0.16
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (24 bp):
AATCAGTCATTCAAATCACAGACA
Found at i:6599197 original size:23 final size:23
Alignment explanation
Indices: 6599142--6599212 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
6599132 TCATTCAAAT
* * *
6599142 CACAGACAAATTAGTCATATCAAA
1 CACAGACAAATCAGTCA-ATTAAC
*
6599166 TACAGACAAATCAGTCAATTAAC
1 CACAGACAAATCAGTCAATTAAC
* * *
6599189 CACAGACAAAACAATCATTTAAC
1 CACAGACAAATCAGTCAATTAAC
6599212 C
1 C
6599213 TCGAGGGGCA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 24 0.62
24 15 0.38
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
CACAGACAAATCAGTCAATTAAC
Found at i:6600535 original size:21 final size:21
Alignment explanation
Indices: 6600488--6600535 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6600478 TGTGTTTAGC
* *
6600488 CACACGACTGTGTGAGAGGCT
1 CACACAACTGTGTCAGAGGCT
*
6600509 CGCACAACTGTGTCAGAGAG-T
1 CACACAACTGTGTCAGAG-GCT
6600530 CACACA
1 CACACA
6600536 GCCGTGTGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (21 bp):
CACACAACTGTGTCAGAGGCT
Found at i:6601140 original size:28 final size:29
Alignment explanation
Indices: 6601094--6601151 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
6601084 ATTTGAAAAC
* *
6601094 TTAATCATATTGCGGAATAGTCAAC-AAT
1 TTAATCATATTGCGAAATAATCAACTAAT
*
6601122 TTAATCATATTGCTAAATAATCAACTAAT
1 TTAATCATATTGCGAAATAATCAACTAAT
6601151 T
1 T
6601152 CATGTCCCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (29 bp):
TTAATCATATTGCGAAATAATCAACTAAT
Found at i:6601448 original size:71 final size:71
Alignment explanation
Indices: 6601345--6601668 Score: 353
Period size: 71 Copynumber: 4.6 Consensus size: 71
6601335 GGTAAAATCG
* * * * *** * * *
6601345 ACAAATAAGTGTGCCTAACACTGGTAGATATAACTGGCAATAATTGCGCCTTGTGTTGGTCGGTA
1 ACAAATAAGTGTGCCCAGCACTGGTCGGTATAACCAACAATAAATGCGCCTTGCGCTGGTCGGTA
6601410 GAACCA
66 GAACCA
* * * * * * * ** *
6601416 AAAAATAAGTGTACTCAGCACTAGTTGGTATAACCGACAAGAAATGTACCTTGCGCTAGTCGGTA
1 ACAAATAAGTGTGCCCAGCACTGGTCGGTATAACCAACAATAAATGCGCCTTGCGCTGGTCGGTA
**
6601481 GAACTG
66 GAACCA
* * * * *
6601487 CCAAATAAGTGTGCCCAGCACTGATTGGTATAACCAACAATAAATGCGCTTTGCACTGGTCGGTA
1 ACAAATAAGTGTGCCCAGCACTGGTCGGTATAACCAACAATAAATGCGCCTTGCGCTGGTCGGTA
6601552 GAATCC-
66 GAA-CCA
* *
6601558 ATAAATAAGTGTGCCCAGCAATGGTCGGTATAACCAACAATAAATGCGCCTTGCGCTGGTCGGTA
1 ACAAATAAGTGTGCCCAGCACTGGTCGGTATAACCAACAATAAATGCGCCTTGCGCTGGTCGGTA
*
6601623 AAACCA
66 GAACCA
*
6601629 ACAAATAAGTGTGCCCAGCACTGGTCGGTATAACCGACAA
1 ACAAATAAGTGTGCCCAGCACTGGTCGGTATAACCAACAA
6601669 ATAAGTGTTC
Statistics
Matches: 207, Mismatches: 44, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
70 2 0.01
71 204 0.99
72 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (71 bp):
ACAAATAAGTGTGCCCAGCACTGGTCGGTATAACCAACAATAAATGCGCCTTGCGCTGGTCGGTA
GAACCA
Found at i:6601583 original size:36 final size:36
Alignment explanation
Indices: 6601401--6601676 Score: 202
Period size: 36 Copynumber: 7.8 Consensus size: 36
6601391 CGCCTTGTGT
* * * *
6601401 TGGTCGGTAGAACCAAAAAATAAGTGTACTCAGCAC
1 TGGTCGGTATAACCAACAAATAAGTGTGCCCAGCAC
* * * * ** *
6601437 TAGTTGGTATAACCGACAAGA-AA-TGTACCTTGCGC
1 TGGTCGGTATAACCAACAA-ATAAGTGTGCCCAGCAC
* * ***
6601472 TAGTCGGTAGAACTGCCAAATAAGTGTGCCCAGCAC
1 TGGTCGGTATAACCAACAAATAAGTGTGCCCAGCAC
* * * * ***
6601508 TGATTGGTATAACCAAC-AATAAATGCGCTTTGCAC
1 TGGTCGGTATAACCAACAAATAAGTGTGCCCAGCAC
* * *
6601543 TGGTCGGTAGAATCC-ATAAATAAGTGTGCCCAGCAA
1 TGGTCGGTATAA-CCAACAAATAAGTGTGCCCAGCAC
* * ** *
6601579 TGGTCGGTATAACCAAC-AATAAATGCGCCTTGCGC
1 TGGTCGGTATAACCAACAAATAAGTGTGCCCAGCAC
*
6601614 TGGTCGGTAAAACCAACAAATAAGTGTGCCCAGCAC
1 TGGTCGGTATAACCAACAAATAAGTGTGCCCAGCAC
*
6601650 TGGTCGGTATAACCGACAAATAAGTGT
1 TGGTCGGTATAACCAACAAATAAGTGT
6601677 TCATTCATTT
Statistics
Matches: 178, Mismatches: 55, Indels: 14
0.72 0.22 0.06
Matches are distributed among these distances:
34 1 0.01
35 78 0.44
36 98 0.55
37 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (36 bp):
TGGTCGGTATAACCAACAAATAAGTGTGCCCAGCAC
Found at i:6602450 original size:3 final size:3
Alignment explanation
Indices: 6602426--6602461 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
6602416 CTTTTATCTT
6602426 TTA TTA TT- TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6602462 ACATATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.20
3 24 0.80
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:6602455 original size:6 final size:6
Alignment explanation
Indices: 6602426--6602461 Score: 51
Period size: 5 Copynumber: 6.5 Consensus size: 6
6602416 CTTTTATCTT
6602426 TTATTA TT-TTA TT-TTA TT-TTA TTATTA TTATTA TTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTA
6602462 ACATATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 15 0.52
6 14 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTATTA
Found at i:6617081 original size:40 final size:40
Alignment explanation
Indices: 6617025--6617212 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
6617015 ATCGAAGTGT
* *
6617025 AAACAAGGGCATGTATGTGCAATCAGGGGTACCGAAATAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAATAC
6617065 AAACAGGGGCACGTATGTGCAATCAGGGGTACC-AAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAA-TAC
* * * *
6617105 AAACAGGGGCACGTATGTGGAATTAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAATAC
* * * *
6617145 AAACAGGGGCACGTATATGCAATTAGGGGCACCGAAGTAC
1 AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAATAC
*
6617185 AAACAGGGGCATGTATGTGCAATTCAGG
1 AAACAGGGGCACGTATGTGCAA-TCAGG
6617213 TATAATTAAC
Statistics
Matches: 132, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 123 0.93
41 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.18
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAATAC
Found at i:6617158 original size:80 final size:80
Alignment explanation
Indices: 6617025--6617208 Score: 278
Period size: 80 Copynumber: 2.3 Consensus size: 80
6617015 ATCGAAGTGT
* * *
6617025 AAACAAGGGCATGTATGTGCAATCAGGGGTACCGAAATACAAACAGGGGCACGTATGTGCAATCA
1 AAACAGGGGCATGTATGTGCAATTAGGGGTACCGAAATACAAACAGGGGCACGTATATGCAATCA
*
6617090 GGGGTACCAAAGTAC
66 GGGGCACCAAAGTAC
* * * * *
6617105 AAACAGGGGCACGTATGTGGAATTAGGGGTACTGAAGTACAAACAGGGGCACGTATATGCAATTA
1 AAACAGGGGCATGTATGTGCAATTAGGGGTACCGAAATACAAACAGGGGCACGTATATGCAATCA
*
6617170 GGGGCACCGAAGTAC
66 GGGGCACCAAAGTAC
6617185 AAACAGGGGCATGTATGTGCAATT
1 AAACAGGGGCATGTATGTGCAATT
6617209 CAGGTATAAT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 92 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (80 bp):
AAACAGGGGCATGTATGTGCAATTAGGGGTACCGAAATACAAACAGGGGCACGTATATGCAATCA
GGGGCACCAAAGTAC
Found at i:6617194 original size:20 final size:20
Alignment explanation
Indices: 6617048--6617195 Score: 79
Period size: 20 Copynumber: 7.4 Consensus size: 20
6617038 TATGTGCAAT
* *
6617048 CAGGGGTACCGAAATACAAA
1 CAGGGGCACCGAAGTACAAA
* * *
6617068 CAGGGGCA-CGTATGTGCAAT
1 CAGGGGCACCG-AAGTACAAA
* *
6617088 CAGGGGTACCAAAGTACAAA
1 CAGGGGCACCGAAGTACAAA
* ** *
6617108 CAGGGGCA-CGTATGTGGAAT
1 CAGGGGCACCG-AAGTACAAA
* * *
6617128 TAGGGGTACTGAAGTACAAA
1 CAGGGGCACCGAAGTACAAA
* *
6617148 CAGGGGCA-CGTATA-TGCAAT
1 CAGGGGCACCG-A-AGTACAAA
*
6617168 TAGGGGCACCGAAGTACAAA
1 CAGGGGCACCGAAGTACAAA
6617188 CAGGGGCA
1 CAGGGGCA
6617196 TGTATGTGCA
Statistics
Matches: 88, Mismatches: 32, Indels: 16
0.65 0.24 0.12
Matches are distributed among these distances:
19 5 0.06
20 78 0.89
21 5 0.06
ACGTcount: A:0.35, C:0.18, G:0.32, T:0.15
Consensus pattern (20 bp):
CAGGGGCACCGAAGTACAAA
Found at i:6621537 original size:23 final size:23
Alignment explanation
Indices: 6621505--6621591 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
6621495 ATAGTGCTTA
*
6621505 CTGTTAATCCACTTCGGCGGTGTT
1 CTGTT-ATCCACTTCGGCAGTGTT
* *
6621529 CTGTCATCCACTTCGGTAGTGTT
1 CTGTTATCCACTTCGGCAGTGTT
* * * *
6621552 ATGTTATTCGCTTCGGTAGTGTT
1 CTGTTATCCACTTCGGCAGTGTT
* *
6621575 CTGTTATTCGCTTCGGC
1 CTGTTATCCACTTCGGC
6621592 GATGTTCAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 50 0.93
24 4 0.07
ACGTcount: A:0.11, C:0.23, G:0.24, T:0.41
Consensus pattern (23 bp):
CTGTTATCCACTTCGGCAGTGTT
Found at i:6644077 original size:47 final size:47
Alignment explanation
Indices: 6644004--6644098 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
6643994 TGTGAGTATG
6644004 ATTAATCTCTTTTAGAGAAGTACCTCTATTAAGAACCTCAAGACAAA
1 ATTAATCTCTTTTAGAGAAGTACCTCTATTAAGAACCTCAAGACAAA
* *
6644051 ATTAATCTCTTTTAGAGAAGTGCCTCTATTAAGAACCTTAAGACAAA
1 ATTAATCTCTTTTAGAGAAGTACCTCTATTAAGAACCTCAAGACAAA
6644098 A
1 A
6644099 CGCACCAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (47 bp):
ATTAATCTCTTTTAGAGAAGTACCTCTATTAAGAACCTCAAGACAAA
Found at i:6649936 original size:18 final size:17
Alignment explanation
Indices: 6649910--6649990 Score: 78
Period size: 18 Copynumber: 4.8 Consensus size: 17
6649900 GCATGCTTAA
6649910 AAAAACACTTTTGACTCC
1 AAAAACACTTTTGA-TCC
* ***
6649928 AAAAGCACTTTTGAAAA
1 AAAAACACTTTTGATCC
6649945 AAAAACACTTTTGA---
1 AAAAACACTTTTGATCC
6649959 AAAAACACTTTTGACTCC
1 AAAAACACTTTTGA-TCC
*
6649977 AAAAGCACTTTTGA
1 AAAAACACTTTTGA
6649991 AAAAAAAGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
14 14 0.26
17 13 0.25
18 26 0.49
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (17 bp):
AAAAACACTTTTGATCC
Found at i:6649948 original size:17 final size:17
Alignment explanation
Indices: 6649928--6649999 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 17
6649918 TTTTGACTCC
6649928 AAAAGCACTTTTGAAAA
1 AAAAGCACTTTTGAAAA
*
6649945 AAAAACACTTTTG--AA
1 AAAAGCACTTTTGAAAA
***
6649960 AAAA-CACTTTTGACTCC
1 AAAAGCACTTTTGA-AAA
6649977 AAAAGCACTTTTGAAAA
1 AAAAGCACTTTTGAAAA
6649994 AAAAGC
1 AAAAGC
6650000 TGTGTTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 8 0.18
15 6 0.13
17 22 0.49
18 9 0.20
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.24
Consensus pattern (17 bp):
AAAAGCACTTTTGAAAA
Found at i:6649961 original size:14 final size:14
Alignment explanation
Indices: 6649944--6649995 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
6649934 ACTTTTGAAA
6649944 AAAAAACACTTTTG
1 AAAAAACACTTTTG
6649958 AAAAAACACTTTTG
1 AAAAAACACTTTTG
*
6649972 ACTCCAAAAGCACTTTTG
1 A----AAAAACACTTTTG
6649990 AAAAAA
1 AAAAAA
6649996 AAGCTGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 19 0.59
18 13 0.41
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (14 bp):
AAAAAACACTTTTG
Found at i:6661640 original size:19 final size:18
Alignment explanation
Indices: 6661608--6661654 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
6661598 TATTCAACCT
*
6661608 TTCTTTTGAGTTAATAAA
1 TTCTTTTGACTTAATAAA
6661626 TTCTCTTTGACTTAATAAA
1 TTCT-TTTGACTTAATAAA
6661645 TTCTATTTGA
1 TTCT-TTTGA
6661655 GTTTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (18 bp):
TTCTTTTGACTTAATAAA
Found at i:6662675 original size:10 final size:10
Alignment explanation
Indices: 6662660--6662686 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6662650 GCAATCAGGG
6662660 ATCAAAATGA
1 ATCAAAATGA
6662670 ATCAAAATGA
1 ATCAAAATGA
6662680 ATCAAAA
1 ATCAAAA
6662687 CATAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.11, G:0.07, T:0.19
Consensus pattern (10 bp):
ATCAAAATGA
Found at i:6664011 original size:25 final size:25
Alignment explanation
Indices: 6663983--6664035 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
6663973 CTAGGCAGAG
*
6663983 AGCCTGACATAAATAACCGGCACGA
1 AGCCTAACATAAATAACCGGCACGA
* * **
6664008 AGCCTAATATAAATCAGTGGCACGA
1 AGCCTAACATAAATAACCGGCACGA
6664033 AGC
1 AGC
6664036 ATGCTAGGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (25 bp):
AGCCTAACATAAATAACCGGCACGA
Found at i:6664058 original size:41 final size:40
Alignment explanation
Indices: 6664008--6664206 Score: 177
Period size: 41 Copynumber: 4.8 Consensus size: 40
6663998 ACCGGCACGA
* *
6664008 AGCCTAATATAAATCAGTGGCACGAAGCATGCTAGGCACAT
1 AGCCTGATATAAATCACTGGCACGAAGC-TGCTAGGCACAT
* * *
6664049 AGCCTAATATAAATCACCGGCACGAAGCTTGCTAGGCACAC
1 AGCCTGATATAAATCACTGGCACGAAGC-TGCTAGGCACAT
* * * *
6664090 AACTTGATA-CAA-CACATGGGCACGGAGTCTGCTAGGCACAT
1 AGCCTGATATAAATCAC-T-GGCACGAAG-CTGCTAGGCACAT
* * * *
6664131 AACCTGATATAAATCACTAGCACGAAGCCTGCTAGGCATAG
1 AGCCTGATATAAATCACTGGCACGAAG-CTGCTAGGCACAT
** *
6664172 AGCCTGATATAAATCACCAGCATGAAGCCTGCTAG
1 AGCCTGATATAAATCACTGGCACGAAG-CTGCTAG
6664207 ACTCAAAGTC
Statistics
Matches: 132, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.02
40 2 0.02
41 120 0.91
42 4 0.03
43 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (40 bp):
AGCCTGATATAAATCACTGGCACGAAGCTGCTAGGCACAT
Found at i:6664204 original size:82 final size:82
Alignment explanation
Indices: 6664008--6664206 Score: 202
Period size: 82 Copynumber: 2.4 Consensus size: 82
6663998 ACCGGCACGA
* ** * * *
6664008 AGCCTAATATAAATCAGTGGCACGAAGCATGCTAGGCACATAGCCTAATATAAATCACCGGCACG
1 AGCCTGATATAAATCACCGGCACGAAGCCTGCTAGGCACATAACCTAATATAAATCACCAGCACG
*
6664073 AAGCTTGCTAGGCACAC
66 AAGCCTGCTAGGCACAC
* * * ** * * * *
6664090 AACTTGATACAACA-CATGGGCACGGAGTCTGCTAGGCACATAACCTGATATAAATCACTAGCAC
1 AGCCTGATATAA-ATCACCGGCACGAAGCCTGCTAGGCACATAACCTAATATAAATCACCAGCAC
* *
6664154 GAAGCCTGCTAGGCATAG
65 GAAGCCTGCTAGGCACAC
* *
6664172 AGCCTGATATAAATCACCAGCATGAAGCCTGCTAG
1 AGCCTGATATAAATCACCGGCACGAAGCCTGCTAG
6664207 ACTCAAAGTC
Statistics
Matches: 90, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
81 1 0.01
82 88 0.98
83 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (82 bp):
AGCCTGATATAAATCACCGGCACGAAGCCTGCTAGGCACATAACCTAATATAAATCACCAGCACG
AAGCCTGCTAGGCACAC
Found at i:6673980 original size:32 final size:32
Alignment explanation
Indices: 6673939--6674003 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
6673929 TTTCGTAATA
6673939 ATTAGAAAGTGTAATTGGAGTACTCAAATCAT
1 ATTAGAAAGTGTAATTGGAGTACTCAAATCAT
* *
6673971 ATTAGAAAGTGTCATTGGAGTACTCCAATCAT
1 ATTAGAAAGTGTAATTGGAGTACTCAAATCAT
6674003 A
1 A
6674004 CTCAATTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (32 bp):
ATTAGAAAGTGTAATTGGAGTACTCAAATCAT
Found at i:6674462 original size:13 final size:13
Alignment explanation
Indices: 6674444--6674468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6674434 TTTTATTTTA
6674444 TTTTTAATTAATG
1 TTTTTAATTAATG
6674457 TTTTTAATTAAT
1 TTTTTAATTAAT
6674469 AAATATATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:6675200 original size:13 final size:13
Alignment explanation
Indices: 6675182--6675206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6675172 ATTTTCAAGT
6675182 TTTTTAATTAATC
1 TTTTTAATTAATC
6675195 TTTTTAATTAAT
1 TTTTTAATTAAT
6675207 AACTCTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATC
Found at i:6676747 original size:38 final size:38
Alignment explanation
Indices: 6676700--6676782 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
6676690 TAGTTTCAAG
6676700 CTTGTTCCTTTAAATGCAACTATGAGAATTGTTTGTTT
1 CTTGTTCCTTTAAATGCAACTATGAGAATTGTTTGTTT
6676738 CTTGTTCCTTTAAATGCAACTATGAGAATTGTTTGTTT
1 CTTGTTCCTTTAAATGCAACTATGAGAATTGTTTGTTT
*
6676776 CCTGTTC
1 CTTGTTC
6676783 TCTGAGTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.47
Consensus pattern (38 bp):
CTTGTTCCTTTAAATGCAACTATGAGAATTGTTTGTTT
Found at i:6691635 original size:17 final size:18
Alignment explanation
Indices: 6691601--6691636 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6691591 ATAGATCTGA
6691601 CCATTTCTCACTAAAATT
1 CCATTTCTCACTAAAATT
6691619 CCATTTCTCAC-AAAATT
1 CCATTTCTCACTAAAATT
6691636 C
1 C
6691637 ACATATCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (18 bp):
CCATTTCTCACTAAAATT
Found at i:6695923 original size:19 final size:19
Alignment explanation
Indices: 6695899--6695937 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6695889 CTCCAAATTT
6695899 TTTCTATGTATTATTTGTA
1 TTTCTATGTATTATTTGTA
6695918 TTTCTATGTATTATTTGTA
1 TTTCTATGTATTATTTGTA
6695937 T
1 T
6695938 AGAAATATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (19 bp):
TTTCTATGTATTATTTGTA
Found at i:6702271 original size:146 final size:147
Alignment explanation
Indices: 6701993--6702273 Score: 467
Period size: 146 Copynumber: 1.9 Consensus size: 147
6701983 GGTAAGTTTA
*
6701993 CATAATCGGTAAAAATCCCTAATGTGCATAAGCAAGTGTTAGAGTGAGAATTTGATGTTGTCATA
1 CATAATCGGTAAAAATACCTAATGTGCATAAGCAAGTGTTAGAGTGAGAATTTGATGTTGTCATA
* *
6702058 AAAGAGAAAAATGTTCAGCATGTTATATAACATAAGAATATGAGATGAAGTTTAATTTCCGAACT
66 AAAGAGAAAAATGTTCAGCATGTTATAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAACT
6702123 TTGGGACAATAAAACTC
131 TTGGGACAATAAAACTC
* *
6702140 CATAATCGGT-AAAATACCTAATGTTCATAAG-TAGATGTTAGAGTGAGAATTTGATGTTGTCAT
1 CATAATCGGTAAAAATACCTAATGTGCATAAGCAAG-TGTTAGAGTGAGAATTTGATGTTGTCAT
* * *
6702203 AGAAGAGAAAAATGTTCAGCATGTTGTAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAGC
65 AAAAGAGAAAAATGTTCAGCATGTTATAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAAC
6702268 TTTGGG
130 TTTGGG
6702274 GCAAAAGTGT
Statistics
Matches: 125, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
145 2 0.02
146 113 0.90
147 10 0.08
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (147 bp):
CATAATCGGTAAAAATACCTAATGTGCATAAGCAAGTGTTAGAGTGAGAATTTGATGTTGTCATA
AAAGAGAAAAATGTTCAGCATGTTATAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAACT
TTGGGACAATAAAACTC
Found at i:6702327 original size:30 final size:30
Alignment explanation
Indices: 6702271--6702328 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
6702261 TCCGAGCTTT
*
6702271 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAGTGTAATTATGCAAAAGTTTA
* *
6702301 GGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 GGGGCAAAAGT-GTAATTATGCAAAAGTT
6702329 AGAGTCTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAATTATGCAAAAGTTTA
Found at i:6702785 original size:50 final size:50
Alignment explanation
Indices: 6702681--6702837 Score: 197
Period size: 50 Copynumber: 3.0 Consensus size: 50
6702671 TAAAGAAATT
** * *
6702681 CCATGTAAGACCATGTCTGGGACATGGAATTGTCATCATTGAGATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAGGTC
* * *
6702737 CCATGTAAGATCATGTCTGGGACATGGCGTTGGCCCCTAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
6702787 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
6702837 C
1 C
6702838 ACTATAATGG
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 58 0.64
53 2 0.02
55 1 0.01
56 30 0.33
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
Found at i:6714551 original size:49 final size:50
Alignment explanation
Indices: 6714435--6714554 Score: 129
Period size: 49 Copynumber: 2.4 Consensus size: 50
6714425 GAGGTCCACC
* *
6714435 GTAAGACCT-TGTCTGGGACATGGCATGGGCACCTATATGAGAACTCCCAT
1 GTAAGA-CTATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCCCAT
* * * * * *
6714485 GTAAGACCATATTTGGGATATGGCATTGGCA-GTACAAGA-AACATCCCAT
1 GTAAGACTATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC-TCCCAT
6714534 GTAAGACTATGTCTGGGACAT
1 GTAAGACTATGTCTGGGACAT
6714555 AGCTTTGGCA
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
48 3 0.05
49 29 0.52
50 24 0.43
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
GTAAGACTATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCCCAT
Found at i:6716255 original size:33 final size:33
Alignment explanation
Indices: 6716218--6716283 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
6716208 ATCACAAGTT
6716218 GGACTAAAGAGAATTTATAATTTGACTTTGTTA
1 GGACTAAAGAGAATTTATAATTTGACTTTGTTA
6716251 GGACTAAAGAGAATTTATAATTTGACTTTGTTA
1 GGACTAAAGAGAATTTATAATTTGACTTTGTTA
6716284 TATCAAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (33 bp):
GGACTAAAGAGAATTTATAATTTGACTTTGTTA
Found at i:6716605 original size:33 final size:33
Alignment explanation
Indices: 6716567--6716645 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
6716557 CTTGTAATAT
6716567 AAAAAAGAAGTATACATTTAAAAAAATAAGGGA
1 AAAAAAGAAGTATACATTTAAAAAAATAAGGGA
6716600 AAAAAAGAAGTATACATTTAAAAAAATAAGGGA
1 AAAAAAGAAGTATACATTTAAAAAAATAAGGGA
*
6716633 GAAAAAGAA-TATA
1 AAAAAAGAAGTATA
6716646 AAAGTTGAGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 4 0.09
33 41 0.91
ACGTcount: A:0.65, C:0.03, G:0.15, T:0.18
Consensus pattern (33 bp):
AAAAAAGAAGTATACATTTAAAAAAATAAGGGA
Found at i:6721688 original size:76 final size:76
Alignment explanation
Indices: 6721589--6721767 Score: 216
Period size: 76 Copynumber: 2.4 Consensus size: 76
6721579 TGTGCCCTAT
* * *
6721589 ACTAGTCGGATAAACCGGA-AATGTTTTGCGCCCAGAGCTAGTTGGATAAACCAACGATATCAAA
1 ACTAGTCGGATAAA-CTGACAATGTTTTGCGCCCAGAGCTAGTCGAATAAACCAACGATATCAAA
*
6721653 TGTATGCCCAGC
65 TATATGCCCAGC
* * ** * **
6721665 ACTAGTCGGGTAAACTGACAATGTTTTGTGCTTAGCGCTAGTCGAATAAACTGACGATATCAAAT
1 ACTAGTCGGATAAACTGACAATGTTTTGCGCCCAGAGCTAGTCGAATAAACCAACGATATCAAAT
*
6721730 ATGTGCCCAGC
66 ATATGCCCAGC
* *
6721741 ACTAGTCGAATAAATTGACAATGTTTT
1 ACTAGTCGGATAAACTGACAATGTTTT
6721768 ACATTTCATA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
75 3 0.03
76 84 0.97
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (76 bp):
ACTAGTCGGATAAACTGACAATGTTTTGCGCCCAGAGCTAGTCGAATAAACCAACGATATCAAAT
ATATGCCCAGC
Found at i:6721746 original size:40 final size:40
Alignment explanation
Indices: 6721642--6721759 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
6721632 GGATAAACCA
* * **
6721642 ACGATATCAAATGTATGCCCAGCACTAGTCGGGTAAACTG
1 ACGATATCAAATATGTGCCCAGCACTAGTCGAATAAACTG
** * ** *
6721682 AC-A-AT--GTTTTGTGCTTAGCGCTAGTCGAATAAACTG
1 ACGATATCAAATATGTGCCCAGCACTAGTCGAATAAACTG
*
6721718 ACGATATCAAATATGTGCCCAGCACTAGTCGAATAAATTG
1 ACGATATCAAATATGTGCCCAGCACTAGTCGAATAAACTG
6721758 AC
1 AC
6721760 AATGTTTTAC
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
36 24 0.41
37 1 0.02
38 4 0.07
39 1 0.02
40 28 0.48
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (40 bp):
ACGATATCAAATATGTGCCCAGCACTAGTCGAATAAACTG
Found at i:6728748 original size:17 final size:17
Alignment explanation
Indices: 6728726--6728759 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6728716 ATTGTTTTTG
6728726 TCACTTAACTTTTGGCT
1 TCACTTAACTTTTGGCT
*
6728743 TCACTTGACTTTTGGCT
1 TCACTTAACTTTTGGCT
6728760 CTTTCTCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.47
Consensus pattern (17 bp):
TCACTTAACTTTTGGCT
Found at i:6732902 original size:17 final size:17
Alignment explanation
Indices: 6732880--6732940 Score: 86
Period size: 17 Copynumber: 3.5 Consensus size: 17
6732870 AACGTACTTG
6732880 AATAAATAATCAATTTC
1 AATAAATAATCAATTTC
*
6732897 AATAAATAATCAATTTT
1 AATAAATAATCAATTTC
*
6732914 AATAAATAATCACTTATC
1 AATAAATAATCAATT-TC
6732932 AAATAAATA
1 -AATAAATA
6732941 GTTTATTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
17 30 0.77
18 1 0.03
19 8 0.21
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAAATAATCAATTTC
Found at i:6735587 original size:45 final size:45
Alignment explanation
Indices: 6735523--6735608 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
6735513 AGTTTACGAA
6735523 AACTCAATGTGTAATCCCATATAAAGCAAACAGACAAAAAGAAAT
1 AACTCAATGTGTAATCCCATATAAAGCAAACAGACAAAAAGAAAT
* *
6735568 AACTCAGTGTGTAATCCCATATAAAGTAAACAGACAAAAAG
1 AACTCAATGTGTAATCCCATATAAAGCAAACAGACAAAAAG
6735609 CAATCACAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.19
Consensus pattern (45 bp):
AACTCAATGTGTAATCCCATATAAAGCAAACAGACAAAAAGAAAT
Found at i:6749208 original size:61 final size:59
Alignment explanation
Indices: 6749098--6749213 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 59
6749088 ATTACTTTAA
* * * *
6749098 TATTAAATTAATATAATATTTATAAAGATAAAAATTAGATTAAATTTAATATTAAATAT
1 TATTAAAATAATAGAATATTTATAAAGATAAAAATTAAACTAAATTTAATATTAAATAT
* *
6749157 TATTAAAATAATAGAATATTATCTACAAGATAAACATTAAACTAAATTTAATATTAA
1 TATTAAAATAATAGAATATT-TATA-AAGATAAAAATTAAACTAAATTTAATATTAA
6749214 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 18 0.37
60 3 0.06
61 28 0.57
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATAAAGATAAAAATTAAACTAAATTTAATATTAAATAT
Found at i:6762352 original size:18 final size:17
Alignment explanation
Indices: 6762326--6762376 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
6762316 TTTTGCTTCC
6762326 TTTATTTTTACTTTTAAT
1 TTTATTTTTA-TTTTAAT
* *
6762344 TTTACTTTTATTTTCAT
1 TTTATTTTTATTTTAAT
6762361 TGTTATTTTTATTTTA
1 T-TTATTTTTATTTTA
6762377 GTCTATTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTATTTTTATTTTAAT
Found at i:6762372 original size:6 final size:6
Alignment explanation
Indices: 6762326--6762375 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
6762316 TTTTGCTTCC
* * * * *
6762326 TTTATT TTTACT TTTAAT TTTACT TTTATT TTCATT GTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
6762374 TT
1 TT
6762376 AGTCTATTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:6764881 original size:41 final size:41
Alignment explanation
Indices: 6764824--6764933 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
6764814 CCGAAAATGT
*
6764824 CGCAAAAGGTAAGGCAATAGC-GCCATTTTTCCCATAAACGC
1 CGCAAAAGGTTAGGCAATAGCAG-CATTTTTCCCATAAACGC
** *
6764865 CGCAAAAGGTTAGGCAATAGCAGTGTTTTTTCCATAAACGC
1 CGCAAAAGGTTAGGCAATAGCAGCATTTTTCCCATAAACGC
6764906 CGCAAAAGGTTAGGCAATAGCAGCATTT
1 CGCAAAAGGTTAGGCAATAGCAGCATTT
6764934 GTTACATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 61 0.98
42 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (41 bp):
CGCAAAAGGTTAGGCAATAGCAGCATTTTTCCCATAAACGC
Found at i:6765937 original size:25 final size:25
Alignment explanation
Indices: 6765908--6765955 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
6765898 TATTAGCTCA
6765908 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
6765933 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
6765956 AATCCTGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:6767978 original size:19 final size:19
Alignment explanation
Indices: 6767955--6768006 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
6767945 ATTTAATCCA
*
6767955 ATTTTTATTATT-TATTTTT
1 ATTTTTATT-TTAAATTTTT
* *
6767974 GTTTTGATTTTAAATTTTT
1 ATTTTTATTTTAAATTTTT
6767993 ATTTTTATTTTAAA
1 ATTTTTATTTTAAA
6768007 ATTTAAGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
ATTTTTATTTTAAATTTTT
Found at i:6768004 original size:5 final size:6
Alignment explanation
Indices: 6767955--6768003 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
6767945 ATTTAATCCA
* * *
6767955 ATTTTT ATTATTT ATTTTT GTTTTG ATTTTAA ATTTTT ATTTTT ATTTT
1 ATTTTT ATT-TTT ATTTTT ATTTTT ATTTT-T ATTTTT ATTTTT ATTTT
6768004 AAAATTTAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 25 0.69
7 11 0.31
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:6768337 original size:25 final size:26
Alignment explanation
Indices: 6768304--6768354 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
6768294 TTTCATATAT
*
6768304 ATTATCATAAAAATAAATA-TATTTA
1 ATTACCATAAAAATAAATATTATTTA
*
6768329 ATTACCATAAAGATAAATATTATTTA
1 ATTACCATAAAAATAAATATTATTTA
6768355 TCTATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTACCATAAAAATAAATATTATTTA
Found at i:6775815 original size:12 final size:12
Alignment explanation
Indices: 6775798--6775834 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
6775788 CAATTTCATA
6775798 AGAAGTGCAATC
1 AGAAGTGCAATC
6775810 AGAAGTGCAATC
1 AGAAGTGCAATC
6775822 AGAAGTGCAATC
1 AGAAGTGCAATC
6775834 A
1 A
6775835 TACTAGTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (12 bp):
AGAAGTGCAATC
Found at i:6776445 original size:20 final size:21
Alignment explanation
Indices: 6776406--6776445 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6776396 ATGAGAAAGA
*
6776406 TTATATGATAATGTTGTGAGT
1 TTATATGATAAAGTTGTGAGT
*
6776427 TTATTTGATAAAG-TGTGAG
1 TTATATGATAAAGTTGTGAG
6776446 AAAGAAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
TTATATGATAAAGTTGTGAGT
Found at i:6778874 original size:15 final size:16
Alignment explanation
Indices: 6778854--6778890 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6778844 AACATTATTG
*
6778854 AAAAAATTATTT-TTA
1 AAAAAATTATTTATGA
6778869 AAAAAA-TATTTATGA
1 AAAAAATTATTTATGA
6778884 AAAAAAT
1 AAAAAAT
6778891 CTTGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
AAAAAATTATTTATGA
Found at i:6782875 original size:6 final size:6
Alignment explanation
Indices: 6782864--6782892 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6782854 GCGTGCTAAT
6782864 TGAGCC TGAGCC TGAGCC TGAGCC TGAGC
1 TGAGCC TGAGCC TGAGCC TGAGCC TGAGC
6782893 GGCGACGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (6 bp):
TGAGCC
Found at i:6806690 original size:30 final size:30
Alignment explanation
Indices: 6806656--6806719 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
6806646 TTGGACTTAT
** * *
6806656 TTGATTCTTTTTAATAGTATAGGGACTAAA
1 TTGATTCCATTTAATAATAGAGGGACTAAA
*
6806686 TTGA-TCCATTTAATAATAGAGGGACTAAT
1 TTGATTCCATTTAATAATAGAGGGACTAAA
6806715 TTGAT
1 TTGAT
6806720 CCACACCCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (30 bp):
TTGATTCCATTTAATAATAGAGGGACTAAA
Found at i:6806708 original size:29 final size:29
Alignment explanation
Indices: 6806665--6806722 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
6806655 TTTGATTCTT
* *
6806665 TTTAATAGTATAGGGACTAAATTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
*
6806694 TTTAATAATAGAGGGACTAATTTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
6806723 CACCCTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (29 bp):
TTTAATAATAGAGGGACTAAATTGATCCA
Found at i:6808421 original size:16 final size:16
Alignment explanation
Indices: 6808373--6808421 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
6808363 TTCGCTGTAT
6808373 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* * *
6808389 CGGATTAAAGGCGTAA
1 TGGAATAGAGGCGTAA
6808405 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
6808421 T
1 T
6808422 AGCAAATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:6809051 original size:26 final size:28
Alignment explanation
Indices: 6809022--6809082 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6809012 TATGAATTTG
*
6809022 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
6809048 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
6809076 TAAAATT
1 TATAATT
6809083 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:6809092 original size:91 final size:91
Alignment explanation
Indices: 6808997--6809173 Score: 266
Period size: 91 Copynumber: 1.9 Consensus size: 91
6808987 TAATTATAAC
* * * *
6808997 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATTATTA-TTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTTA-ATATAATTTAATAA
6809061 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTGA
* * *
6809088 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTTAATTTAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTTAATATAATTTAATAAT
*
6809153 GATATATAATTTCATAAAATT
66 AATATATAATTTCATAAAATT
6809174 ACTCAAATCA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 74 0.96
92 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTTAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:6809164 original size:44 final size:42
Alignment explanation
Indices: 6809022--6809164 Score: 101
Period size: 44 Copynumber: 3.2 Consensus size: 42
6809012 TATGAATTTG
* *
6809022 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTA-ATTTAATTTAATAAT-ATA
** * * *
6809066 TATAATTTCATAAAATTCTTGATAATAAATTT--TCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAAT-ATTAATTTAAT-TTA-AT-AATATA
*
6809113 TACAATTTAAAATAATTAATATTTAATTTAATTTAATAATGATA
1 TATAATTTAAAATAATTAATA-TTAATTTAATTTAATAAT-ATA
6809157 TATAATTT
1 TATAATTT
6809165 CATAAAATTA
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
43 4 0.05
44 32 0.43
45 6 0.08
46 6 0.08
47 20 0.27
48 6 0.08
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (42 bp):
TATAATTTAAAATAATTAATATTAATTTAATTTAATAATATA
Found at i:6813489 original size:50 final size:50
Alignment explanation
Indices: 6813411--6813650 Score: 453
Period size: 50 Copynumber: 4.8 Consensus size: 50
6813401 CATGGAACTT
*
6813411 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATGG
1 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATAG
* *
6813461 AACTTAACAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATAG
1 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATAG
6813511 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATAG
1 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATAG
6813561 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATAG
1 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATAG
6813611 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATT
1 AACATATCAACCCAATACCTAAGCATGGTAACTGCATATT
6813651 NNNNNNNNNN
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 185 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (50 bp):
AACATATCAACCCAATACCTAAGCATGGTAACTGCATATTCTAAACATAG
Found at i:6820064 original size:18 final size:18
Alignment explanation
Indices: 6820041--6820075 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6820031 AAGTTAATTT
6820041 TTAAAAATATTT-TTTAAA
1 TTAAAAAT-TTTATTTAAA
6820059 TTAAAAATTTTATTTAA
1 TTAAAAATTTTATTTAA
6820076 TATATATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAAATTTTATTTAAA
Found at i:6824329 original size:12 final size:11
Alignment explanation
Indices: 6824306--6824332 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6824296 TCCTTTCTTT
6824306 AAAACTAAAAA
1 AAAACTAAAAA
6824317 AAAACTAAAAA
1 AAAACTAAAAA
6824328 AAAAC
1 AAAAC
6824333 CTCCCAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.11, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAACTAAAAA
Found at i:6827047 original size:13 final size:13
Alignment explanation
Indices: 6827031--6827060 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6827021 AACTATTTTT
6827031 AAAAATTTGTTTC
1 AAAAATTTGTTTC
6827044 AAAAATTTGTTTC
1 AAAAATTTGTTTC
6827057 AAAA
1 AAAA
6827061 CTTTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (13 bp):
AAAAATTTGTTTC
Found at i:6827760 original size:35 final size:36
Alignment explanation
Indices: 6827709--6827799 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 36
6827699 TAATTTTTAA
* *
6827709 AATAATTATTATAATAATAAA-TTTC-ATGTAAAAGAT
1 AATAA-TATTTTAATAATAAAGTTCCTAT-TAAAAGAT
* *
6827745 AATAATATTTTAATAAAAAAGTTCCTATTAAAATAT
1 AATAATATTTTAATAATAAAGTTCCTATTAAAAGAT
*
6827781 ACTAATATTTTAAGTAATA
1 AATAATATTTTAA-TAATA
6827800 TTTGTCTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
35 13 0.28
36 27 0.59
37 6 0.13
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (36 bp):
AATAATATTTTAATAATAAAGTTCCTATTAAAAGAT
Found at i:6840743 original size:30 final size:31
Alignment explanation
Indices: 6840698--6840758 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
6840688 TAAAATTGAA
*
6840698 TTTAAAATCTAAAAAATAGAGA-AATTAAATT
1 TTTAAAATATAAAAAATAGA-ATAATTAAATT
*
6840729 TTTAAAA-ATAAAAAATATAATAATTAAATT
1 TTTAAAATATAAAAAATAGAATAATTAAATT
6840759 CCAAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 1 0.04
30 19 0.70
31 7 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
TTTAAAATATAAAAAATAGAATAATTAAATT
Found at i:6850723 original size:30 final size:31
Alignment explanation
Indices: 6850678--6850738 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
6850668 TAAAATTGAA
*
6850678 TTTAAAATCTAAAAAATAGAGA-AATTAAATT
1 TTTAAAATATAAAAAATAGA-ATAATTAAATT
*
6850709 TTTAAAA-ATAAAAAATATAATAATTAAATT
1 TTTAAAATATAAAAAATAGAATAATTAAATT
6850739 CCAAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 1 0.04
30 19 0.70
31 7 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
TTTAAAATATAAAAAATAGAATAATTAAATT
Found at i:6860734 original size:9 final size:9
Alignment explanation
Indices: 6860720--6860750 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6860710 GTTAAACGAA
6860720 TCGAGTTAT
1 TCGAGTTAT
*
6860729 TCGAGTTAA
1 TCGAGTTAT
6860738 TCGAGTTAT
1 TCGAGTTAT
6860747 TCGA
1 TCGA
6860751 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:6861961 original size:5 final size:5
Alignment explanation
Indices: 6861951--6861976 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6861941 GAACAAATAT
6861951 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
6861977 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:6862076 original size:5 final size:5
Alignment explanation
Indices: 6862066--6862091 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6862056 CTCGAAAATT
6862066 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
6862092 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:6869711 original size:16 final size:16
Alignment explanation
Indices: 6869690--6869746 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
6869680 AAGTTTCTAA
6869690 TTTGGATTTATGATTT
1 TTTGGATTTATGATTT
* **
6869706 TTTGGATTTAGAGAGAT
1 TTTGGATTTA-TGATTT
* *
6869723 TTAGG-TTTATTATTT
1 TTTGGATTTATGATTT
6869738 TTTGGATTT
1 TTTGGATTT
6869747 TTTTTGTTAA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
15 6 0.20
16 17 0.57
17 7 0.23
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (16 bp):
TTTGGATTTATGATTT
Found at i:6870214 original size:15 final size:16
Alignment explanation
Indices: 6870194--6870223 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6870184 TCAATAGGAG
6870194 TGTATTGTGT-ATGTT
1 TGTATTGTGTGATGTT
6870209 TGTATTGTGTGATGT
1 TGTATTGTGTGATGT
6870224 CCTTTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (16 bp):
TGTATTGTGTGATGTT
Found at i:6871424 original size:45 final size:45
Alignment explanation
Indices: 6871375--6871478 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
6871365 CCAAATGATT
* * *
6871375 CCATTTCTCTTTTTCAGAGAAAACAATAATTATTTCTGAATGTTC
1 CCATTTCTCTTTTTCAAAGAAAACAATAATCATTCCTGAATGTTC
**
6871420 CCATTTCTCCATTTCAAAGAAAACAATAATCATTCCTGAATGTTC
1 CCATTTCTCTTTTTCAAAGAAAACAATAATCATTCCTGAATGTTC
6871465 CCTATTTCTTCTTT
1 CC-ATTTC-TCTTT
6871479 CCTATTCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 42 0.84
46 5 0.10
47 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (45 bp):
CCATTTCTCTTTTTCAAAGAAAACAATAATCATTCCTGAATGTTC
Found at i:6880995 original size:272 final size:275
Alignment explanation
Indices: 6880488--6881037 Score: 788
Period size: 272 Copynumber: 2.0 Consensus size: 275
6880478 TGGTATAGCG
* * *
6880488 AGGAGCAAAGGAATAAAAAATAGCTTTAAAGAGGAAAAAAATAGTAGATGGCCATGTGAGCCACA
1 AGGAACAAAAGAATAAAAAATAGCTTTAAAGAGGAAAAAAATAGTACATGGCCATGTGAGCCACA
* *
6880553 CGACCATGTGGAATTAGTCAGGCCGTGTGTGATAAAAAATAGGTAAAAATAAGCCTAGTATCCAT
66 CGACCATGTGGAATCAGTCAGACCGTGTGTGATAAAAAATAGGTAAAAATAAGCCTAGTATCCAT
* ** * **
6880618 ACAGCCTAGGACATGCCCGTGTGTCAAACACGATCGTGTGAAATCATTGTTCGCTTCTCCCACGC
131 ACAGCCTAGGACACGCCAATGTGTCAAACACGACCGTGTGAAATCATCATTCGCTTCTCCCACGC
* * *
6880683 CCGTGTGTGAGGGCATGTGGGTCACACGGTCTATCACATGCCCGTGTTCTAGGCCGTGTGTCTCA
196 CCGTGTGTGAGGGCACGTGGGTCACACGGTCTACCACATGCCCGTGTTCTAGGCCGTATGTCTCA
6880748 CACGACCATGTCTCT
261 CACGACCATGTCTCT
6880763 AGGAACAAAAGAATAAAAAATAGCTTTAAAGAGGAAAAAAA-AGTACATGGCCATGTGAGCCACA
1 AGGAACAAAAGAATAAAAAATAGCTTTAAAGAGGAAAAAAATAGTACATGGCCATGTGAGCCACA
* *
6880827 CGACCCTGTGGAATCAGTCAGATCGTGTGTGAT-AAAAATAGGTAAAAATAAGCC-AGTATCCAT
66 CGACCATGTGGAATCAGTCAGACCGTGTGTGATAAAAAATAGGTAAAAATAAGCCTAGTATCCAT
* * * * ** *
6880890 ACTGCTTAGGGCACGCCAATGTGTTACATACA-G-CCGTGTGCGATGATCATTCGCTTCTCCCAC
131 ACAGCCTAGGACACGCCAATGTG-T-CAAACACGACCGTGTGAAATCATCATTCGCTTCTCCCAC
* * *
6880953 GCTCGTGTGTGAGGGCGCGTGGGTCACACGGTGC-ACCACATGCCCGTGTTCTAGGCTGTATGTC
194 GCCCGTGTGTGAGGGCACGTGGGTCACACGGT-CTACCACATGCCCGTGTTCTAGGCCGTATGTC
*
6881017 TCACACGGCCATGTCTCT
258 TCACACGACCATGTCTCT
6881035 AGG
1 AGG
6881038 GCGTGTAACT
Statistics
Matches: 245, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
272 126 0.51
273 24 0.10
274 56 0.23
275 39 0.16
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (275 bp):
AGGAACAAAAGAATAAAAAATAGCTTTAAAGAGGAAAAAAATAGTACATGGCCATGTGAGCCACA
CGACCATGTGGAATCAGTCAGACCGTGTGTGATAAAAAATAGGTAAAAATAAGCCTAGTATCCAT
ACAGCCTAGGACACGCCAATGTGTCAAACACGACCGTGTGAAATCATCATTCGCTTCTCCCACGC
CCGTGTGTGAGGGCACGTGGGTCACACGGTCTACCACATGCCCGTGTTCTAGGCCGTATGTCTCA
CACGACCATGTCTCT
Found at i:6881208 original size:27 final size:28
Alignment explanation
Indices: 6881169--6881246 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
6881159 AAAATTAATT
* *
6881169 TTTTTCTTTTTTTAATTTTTTTT-CAAGA-
1 TTTTT-TTCTTTT-ATTTTTTTTCCAAAAG
*
6881197 TTTTTTTCTTTTCTTTTTTTTCCAAAAG
1 TTTTTTTCTTTTATTTTTTTTCCAAAAG
* *
6881225 GTTTTTTCTTTTCTTTTCTTTT
1 TTTTTTTCTTTTATTTT-TTTT
6881247 TTTTTCAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 8 0.19
27 10 0.23
28 21 0.49
29 4 0.09
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.73
Consensus pattern (28 bp):
TTTTTTTCTTTTATTTTTTTTCCAAAAG
Found at i:6881215 original size:28 final size:28
Alignment explanation
Indices: 6881165--6881248 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 28
6881155 AAAAAAAATT
*
6881165 AATTTTTTTCTTTTTTTAATTTTTTTTCAA
1 AATTTTTTTCTTTTCTT--TTTTTTTTCAA
* *
6881195 GATTTTTTTCTTTTC-TTTTTTTTCCAA
1 AATTTTTTTCTTTTCTTTTTTTTTTCAA
*
6881222 AAGGTTTTTTCTTTTCTTTTCTTTTTT
1 AA-TTTTTTTCTTTTCTTTT-TTTTTT
6881249 TTTCAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
27 11 0.24
28 12 0.27
29 4 0.09
30 18 0.40
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.73
Consensus pattern (28 bp):
AATTTTTTTCTTTTCTTTTTTTTTTCAA
Found at i:6885953 original size:25 final size:25
Alignment explanation
Indices: 6885918--6886004 Score: 113
Period size: 25 Copynumber: 3.5 Consensus size: 25
6885908 GACACACCAT
6885918 AGCTCGTATGAGCTTCCCGTTATAC
1 AGCTCGTATGAGCTTCCCGTTATAC
* *
6885943 AGCTCGCATGAGCTTCCCGTTATTC
1 AGCTCGTATGAGCTTCCCGTTATAC
* * * *
6885968 AGCTAGGAGGAGCTTCCTGTT-TAC
1 AGCTCGTATGAGCTTCCCGTTATAC
6885992 AGCTCGTATGAGC
1 AGCTCGTATGAGC
6886005 ATACATGAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
24 12 0.23
25 40 0.77
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCTTCCCGTTATAC
Found at i:6889262 original size:20 final size:20
Alignment explanation
Indices: 6889237--6889285 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6889227 AATAGAAACC
*
6889237 AATATAAATTTTAT-TTTGGA
1 AATATAAATTTAATATTT-GA
*
6889257 AATATATATTTAATATTTGA
1 AATATAAATTTAATATTTGA
6889277 AA-ATAAATT
1 AATATAAATT
6889286 ATATCTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 16 0.64
21 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (20 bp):
AATATAAATTTAATATTTGA
Found at i:6891417 original size:43 final size:43
Alignment explanation
Indices: 6891356--6891441 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
6891346 ACCGAATTGG
*
6891356 GTCGGTGGATAGTGTGAGTGATC-TCTGCCAAATTTCCAACCCA
1 GTCGGTGGATAGTGTGAGTGATCTTC-ACCAAATTTCCAACCCA
6891399 GTCGGTGGATAGTGTGAGTGATCTTCACCAAATTTCCAACCCA
1 GTCGGTGGATAGTGTGAGTGATCTTCACCAAATTTCCAACCCA
6891442 ACGAGCCTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 39 0.95
44 2 0.05
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (43 bp):
GTCGGTGGATAGTGTGAGTGATCTTCACCAAATTTCCAACCCA
Found at i:6891981 original size:24 final size:24
Alignment explanation
Indices: 6891951--6892001 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
6891941 AAAGAATCTA
6891951 TAACGGGTAGCTCC-AGAGAGCAAT
1 TAACGGGTAGCTCCGA-AGAGCAAT
6891975 TAACGGGTAGCTCCGAAGAGCAAT
1 TAACGGGTAGCTCCGAAGAGCAAT
6891999 TAA
1 TAA
6892002 TCAGAAGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (24 bp):
TAACGGGTAGCTCCGAAGAGCAAT
Found at i:6892074 original size:25 final size:27
Alignment explanation
Indices: 6892046--6892100 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
6892036 CAAGCGAGCA
*
6892046 ATAAT-GGGAAGCTCACAGAGAGCC-T
1 ATAATCGGGAAGCTCACAAAGAGCCAT
6892071 ATAATCGGGAAGCTCACAAAGAGCCAT
1 ATAATCGGGAAGCTCACAAAGAGCCAT
6892098 ATA
1 ATA
6892101 CGAGATACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 5 0.19
26 18 0.67
27 4 0.15
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (27 bp):
ATAATCGGGAAGCTCACAAAGAGCCAT
Found at i:6895488 original size:36 final size:36
Alignment explanation
Indices: 6895447--6895520 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
6895437 GACTTACTAG
* * * *
6895447 CTAGATGTAGTGTGTAGCGATATCATTAGGGCTTTT
1 CTAGATGTAGTGTGTAACAATACCATTAGGACTTTT
*
6895483 CTAGATGTTGTGTGTAACAATACCATTAGGACTTTT
1 CTAGATGTAGTGTGTAACAATACCATTAGGACTTTT
6895519 CT
1 CT
6895521 TGGTAGAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (36 bp):
CTAGATGTAGTGTGTAACAATACCATTAGGACTTTT
Found at i:6895555 original size:16 final size:16
Alignment explanation
Indices: 6895536--6895570 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6895526 GAGTGGAAAC
6895536 AAATTAGAAAAATGGA
1 AAATTAGAAAAATGGA
* *
6895552 AAATTATAAAGATGGA
1 AAATTAGAAAAATGGA
6895568 AAA
1 AAA
6895571 ATAAAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATTAGAAAAATGGA
Found at i:6895578 original size:16 final size:16
Alignment explanation
Indices: 6895543--6895580 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6895533 AACAAATTAG
*
6895543 AAAA-ATGGAAAATTA
1 AAAAGATGGAAAAATA
*
6895558 TAAAGATGGAAAAATA
1 AAAAGATGGAAAAATA
6895574 AAAAGAT
1 AAAAGAT
6895581 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (16 bp):
AAAAGATGGAAAAATA
Found at i:6904575 original size:14 final size:14
Alignment explanation
Indices: 6904556--6904586 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6904546 GTTGTCATAT
6904556 ATATATACACACGG
1 ATATATACACACGG
*
6904570 ATATATATACACGG
1 ATATATACACACGG
6904584 ATA
1 ATA
6904587 ATGTGAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (14 bp):
ATATATACACACGG
Found at i:6906597 original size:21 final size:22
Alignment explanation
Indices: 6906573--6906622 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
6906563 AAAAATGATG
6906573 ATATTTATAATATATA-TATAT
1 ATATTTATAATATATAGTATAT
* * *
6906594 ATATATATAATTTTTAGTTATAT
1 ATATTTATAATATATAG-TATAT
6906617 ATATTT
1 ATATTT
6906623 GTACTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTTATAATATATAGTATAT
Found at i:6912827 original size:5 final size:5
Alignment explanation
Indices: 6912819--6912847 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6912809 TTAGTTTTGA
6912819 TCTAC TCTAC TCTAC TCTAC TCTAC TCTA
1 TCTAC TCTAC TCTAC TCTAC TCTAC TCTA
6912848 ATATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (5 bp):
TCTAC
Found at i:6914982 original size:22 final size:23
Alignment explanation
Indices: 6914920--6914984 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
6914910 TTCAATATAA
6914920 AACTAATAATTTAATAATCAAGT
1 AACTAATAATTTAATAATCAAGT
* * * * *
6914943 TA-TAACAAATAAAAAATCAA-T
1 AACTAATAATTTAATAATCAAGT
6914964 AACTAATAATTTAATAATCAA
1 AACTAATAATTTAATAATCAA
6914985 AGTTTTGTAA
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
21 2 0.06
22 28 0.90
23 1 0.03
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (23 bp):
AACTAATAATTTAATAATCAAGT
Found at i:6915380 original size:21 final size:20
Alignment explanation
Indices: 6915356--6915413 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 20
6915346 GGCCAATCAC
6915356 ATTGGCGGCACCAAAGGTGAG
1 ATTGGCGGCACCAAAGGTG-G
*
6915377 ATTGGTGGCACCAAA-GT-G
1 ATTGGCGGCACCAAAGGTGG
* *
6915395 ATTGGCAGCACCAATGGTG
1 ATTGGCGGCACCAAAGGTG
6915414 CCAAAGGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 13 0.42
19 2 0.06
20 2 0.06
21 14 0.45
ACGTcount: A:0.28, C:0.19, G:0.34, T:0.19
Consensus pattern (20 bp):
ATTGGCGGCACCAAAGGTGG
Found at i:6915528 original size:18 final size:19
Alignment explanation
Indices: 6915491--6915529 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6915481 TCAACTCATT
* *
6915491 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
6915510 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
6915528 TT
1 TT
6915530 CTCATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:6915536 original size:18 final size:19
Alignment explanation
Indices: 6915496--6915538 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
6915486 TCATTTTTTT
* *
6915496 ATTTAATAACTCTATTTTA
1 ATTTAATAACACTATTCTA
*
6915515 ATTTAATAA-ACTATTCTC
1 ATTTAATAACACTATTCTA
6915533 ATTTAA
1 ATTTAA
6915539 ATTAAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAATAACACTATTCTA
Found at i:6915601 original size:19 final size:19
Alignment explanation
Indices: 6915535--6915600 Score: 91
Period size: 18 Copynumber: 3.6 Consensus size: 19
6915525 CTATTCTCAT
6915535 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
6915554 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
6915572 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
6915591 TTAAA-TAAAA
1 TTAAATTAAAA
6915601 AATGAGTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 20 0.50
19 20 0.50
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:6915608 original size:19 final size:19
Alignment explanation
Indices: 6915535--6915601 Score: 82
Period size: 19 Copynumber: 3.6 Consensus size: 19
6915525 CTATTCTCAT
*
6915535 TTAAATTAAAATAGAGTTA
1 TTAAATAAAAATAGAGTTA
* * *
6915554 TTAAATGAGAATAG-TTTA
1 TTAAATAAAAATAGAGTTA
*
6915572 TTAAATTAAAATAGAGTTA
1 TTAAATAAAAATAGAGTTA
6915591 TTAAATAAAAA
1 TTAAATAAAAA
6915602 ATGAGTTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 15 0.38
19 25 0.62
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (19 bp):
TTAAATAAAAATAGAGTTA
Found at i:6915707 original size:27 final size:26
Alignment explanation
Indices: 6915670--6915752 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
6915660 GCCTAATTTT
6915670 AATCCTTTGGCACCATTGGTGCCGCC
1 AATCCTTTGGCACCATTGGTGCCGCC
*
6915696 AATCACTTTGGCACCATTGGTGCCACC
1 AATC-CTTTGGCACCATTGGTGCCGCC
* ** *
6915723 AATCTCTTTGCCACTTTTGGTACCGCC
1 AATC-CTTTGGCACCATTGGTGCCGCC
6915750 AAT
1 AAT
6915753 GTGATTGGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.19, C:0.33, G:0.18, T:0.30
Consensus pattern (26 bp):
AATCCTTTGGCACCATTGGTGCCGCC
Found at i:6915857 original size:24 final size:25
Alignment explanation
Indices: 6915825--6915874 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
6915815 TTTCGTAAAT
6915825 AATAAAAAAAG-TAATATTTTGGTA
1 AATAAAAAAAGTTAATATTTTGGTA
6915849 AATAAAAAAAGTTATAATATTTTGGT
1 AATAAAAAAAG-T-TAATATTTTGGT
6915875 TAATTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.48
27 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (25 bp):
AATAAAAAAAGTTAATATTTTGGTA
Found at i:6917167 original size:18 final size:18
Alignment explanation
Indices: 6917131--6917167 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6917121 TAAGTTTTCG
* *
6917131 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCAAAT
6917149 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
6917167 A
1 A
6917168 TCAAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:6917260 original size:30 final size:30
Alignment explanation
Indices: 6917226--6917307 Score: 146
Period size: 30 Copynumber: 2.7 Consensus size: 30
6917216 ATTTTTTCCT
6917226 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCTTCCCACTTTCCCCC
*
6917256 CAAAACTTTTACTCCTTCCCACTTTTCCCC
1 CAAAACTTTTACTCCTTCCCACTTTCCCCC
6917286 CAAAACTTTTACTCCCTTCCCA
1 CAAAACTTTTACT-CCTTCCCA
6917308 TCCCAACCCA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 42 0.84
31 8 0.16
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.34
Consensus pattern (30 bp):
CAAAACTTTTACTCCTTCCCACTTTCCCCC
Found at i:6917459 original size:30 final size:30
Alignment explanation
Indices: 6917410--6917468 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6917400 AACTTTTTAT
*
6917410 TTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
6917439 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCTTCCCA
6917469 TCTCACCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 14 0.52
31 5 0.19
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:6929267 original size:64 final size:64
Alignment explanation
Indices: 6929166--6929294 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
6929156 TGAGCATCCC
* * * *
6929166 GATCGGTAGTGATTCTACATGTGTTGTGGACATACCGCAGCTCTTTGTGAGCGTCCTGTTATAT
1 GATCGGTAGTGATCCTACATGTGTTGCGGACATACCGCAACTCTTTATGAGCGTCCTGTTATAT
* *
6929230 GATCGGTAGTGATCCTGCATGTGTTGCGGACATACCGCAACTCTTTATTAGCGTCCTGTTATAT
1 GATCGGTAGTGATCCTACATGTGTTGCGGACATACCGCAACTCTTTATGAGCGTCCTGTTATAT
6929294 G
1 G
6929295 GCTCTTTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (64 bp):
GATCGGTAGTGATCCTACATGTGTTGCGGACATACCGCAACTCTTTATGAGCGTCCTGTTATAT
Found at i:6929388 original size:26 final size:25
Alignment explanation
Indices: 6929358--6929433 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
6929348 CCGGAGCTCT
6929358 TGATTAAAGGCTCTTCGTGAGCTTCC
1 TGATTAAAGGCTCTT-GTGAGCTTCC
* * *
6929384 TGATTAAAAGTTCTTTGTGAACTTCC
1 TGATTAAAGGCTC-TTGTGAGCTTCC
* *
6929410 TGATT-ATGGCTCTTATGAGCTTCC
1 TGATTAAAGGCTCTTGTGAGCTTCC
6929434 CGTTATATAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 10 0.24
25 4 0.10
26 25 0.61
27 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (25 bp):
TGATTAAAGGCTCTTGTGAGCTTCC
Found at i:6929479 original size:23 final size:22
Alignment explanation
Indices: 6929450--6929503 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
6929440 ATAGCCTGGA
6929450 TAAGCTTCCTGATAGGCTCTTTG
1 TAAGCTTCC-GATAGGCTCTTTG
*
6929473 TAAGCTTTCCGATATGCTCTTTG
1 TAAGC-TTCCGATAGGCTCTTTG
*
6929496 TGAGCTTC
1 TAAGCTTC
6929504 TTAATTAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 21 0.75
24 4 0.14
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (22 bp):
TAAGCTTCCGATAGGCTCTTTG
Found at i:6929540 original size:26 final size:26
Alignment explanation
Indices: 6929464--6929542 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
6929454 CTTCCTGATA
*
6929464 GGCTCTTTGTAAGCTTTCC-G--ATAT
1 GGCTCTTTGTGAG-TTTCCTGTTATAT
* * *
6929488 -GCTCTTTGTGAGCTTCTTAATTA-AT
1 GGCTCTTTGTGAGTTTCCT-GTTATAT
6929513 GGCTCTTTGTGAGTTTCCTGTTATAT
1 GGCTCTTTGTGAGTTTCCTGTTATAT
6929539 GGCT
1 GGCT
6929543 TGAGAGAGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 3 0.07
23 11 0.26
25 5 0.12
26 23 0.55
ACGTcount: A:0.15, C:0.18, G:0.22, T:0.46
Consensus pattern (26 bp):
GGCTCTTTGTGAGTTTCCTGTTATAT
Found at i:6930763 original size:79 final size:79
Alignment explanation
Indices: 6930632--6930789 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
6930622 TGTTTAAGTG
*
6930632 TTGGTATAGGTGGAAGACAAATTGGGTGAGAAATGTGGCTTGGAAAATAGCCTATTATCGTTCAC
1 TTGGTATAGGTGGAAGACAAATTAGGTGAGAAATGTGGCTTGGAAAATAGCCTATTATCGTTCAC
6930697 ACGGGCAAAGACAC
66 ACGGGCAAAGACAC
6930711 TTGGTATAGGTGGAAGACAAATTAGGTGAGAAATGTGGCTTGGAAAATAGCCTATTATCGTTCAC
1 TTGGTATAGGTGGAAGACAAATTAGGTGAGAAATGTGGCTTGGAAAATAGCCTATTATCGTTCAC
6930776 ACGGGCAAAGACAC
66 ACGGGCAAAGACAC
6930790 GGGTGTGTGT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (79 bp):
TTGGTATAGGTGGAAGACAAATTAGGTGAGAAATGTGGCTTGGAAAATAGCCTATTATCGTTCAC
ACGGGCAAAGACAC
Found at i:6936243 original size:13 final size:12
Alignment explanation
Indices: 6936227--6936323 Score: 65
Period size: 12 Copynumber: 7.9 Consensus size: 12
6936217 AGATAAAAGG
6936227 TTAATTGAAAAAC
1 TTAA-TGAAAAAC
*
6936240 TTAATATTAAAAAC
1 TT-A-ATGAAAAAC
* *
6936254 TTGATGGAAAAC
1 TTAATGAAAAAC
*
6936266 TTTATGAAAAGAC
1 TTAATGAAAA-AC
*
6936279 TTGATGAAAAAC
1 TTAATGAAAAAC
6936291 TTAA--AAAGAAC
1 TTAATGAAA-AAC
* *
6936302 TTGATGCAAAAC
1 TTAATGAAAAAC
6936314 TTAAT-AAAAA
1 TTAATGAAAAA
6936324 AAAACCTTGA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
10 3 0.05
11 10 0.15
12 27 0.41
13 15 0.23
14 10 0.15
15 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (12 bp):
TTAATGAAAAAC
Found at i:6936283 original size:25 final size:23
Alignment explanation
Indices: 6936248--6936315 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
6936238 ACTTAATATT
*
6936248 AAAA-ACTTGATGGAAAACTTTA
1 AAAAGACTTGATGAAAAACTTTA
6936270 TGAAAAGACTTGATGAAAAAC-TTA
1 --AAAAGACTTGATGAAAAACTTTA
*
6936294 AAAAGAACTTGATGCAAAACTT
1 AAAAG-ACTTGATGAAAAACTT
6936316 AATAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.13
23 13 0.33
24 8 0.21
25 13 0.33
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (23 bp):
AAAAGACTTGATGAAAAACTTTA
Found at i:6936322 original size:25 final size:25
Alignment explanation
Indices: 6936232--6936369 Score: 113
Period size: 25 Copynumber: 5.3 Consensus size: 25
6936222 AAAGGTTAAT
6936232 TGAAAAACTTAATATTAAA-AACTTGA
1 TGAAAAACTTAATA--AAAGAACTTGA
* *
6936258 TGGAAAACTTTATGAAAAG-ACTTGA
1 TGAAAAACTTAAT-AAAAGAACTTGA
6936283 TGAAAAACTT-A-AAAAGAACTTGA
1 TGAAAAACTTAATAAAAGAACTTGA
* *
6936306 TGCAAAACTTAATAAAAAAAAACCTTGATAA
1 TGAAAAACTTAAT--AAAAGAA-CTTG---A
* *
6936337 TTAAAAACTTGATAAAAGAACTTGA
1 TGAAAAACTTAATAAAAGAACTTGA
6936362 TGAAAAAC
1 TGAAAAAC
6936370 ACTTGAAGAA
Statistics
Matches: 91, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
22 5 0.05
23 15 0.16
24 2 0.02
25 26 0.29
26 11 0.12
27 7 0.08
28 8 0.09
29 6 0.07
31 11 0.12
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (25 bp):
TGAAAAACTTAATAAAAGAACTTGA
Found at i:6936327 original size:15 final size:15
Alignment explanation
Indices: 6936309--6936353 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6936299 AACTTGATGC
*
6936309 AAAACTTAATAAAAA
1 AAAACTTGATAAAAA
**
6936324 AAAACCTTGATAATTA
1 AAAA-CTTGATAAAAA
6936340 AAAACTTGATAAAA
1 AAAACTTGATAAAA
6936354 GAACTTGATG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.24
Consensus pattern (15 bp):
AAAACTTGATAAAAA
Found at i:6936373 original size:14 final size:13
Alignment explanation
Indices: 6936248--6936380 Score: 73
Period size: 12 Copynumber: 10.2 Consensus size: 13
6936238 ACTTAATATT
6936248 AAAAACTTGATG-
1 AAAAACTTGATGA
* *
6936260 GAAAACTTTATGA
1 AAAAACTTGATGA
*
6936273 AAAGACTTGATG-
1 AAAAACTTGATGA
6936285 AAAAACTT-A--A
1 AAAAACTTGATGA
6936295 AAAGAACTTGATG-
1 AAA-AACTTGATGA
* * *
6936308 CAAAACTTAATAAAA
1 AAAAACTTGAT--GA
*
6936323 AAAAACCTTGATAA
1 AAAAA-CTTGATGA
6936337 TTAAAAACTTGAT-A
1 --AAAAACTTGATGA
6936351 AAAGAACTTGATGA
1 AAA-AACTTGATGA
*
6936365 AAAACACTTGAAGA
1 AAAA-ACTTGATGA
6936379 AA
1 AA
6936381 GAAAATACTT
Statistics
Matches: 94, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
10 3 0.03
11 6 0.06
12 28 0.30
13 20 0.21
14 17 0.18
15 10 0.11
16 10 0.11
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (13 bp):
AAAAACTTGATGA
Found at i:6939319 original size:23 final size:24
Alignment explanation
Indices: 6939292--6939339 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
6939282 AGGTCAAAAA
6939292 TAGGATGTGATAGGTG-AAATTTT
1 TAGGATGTGATAGGTGAAAATTTT
* *
6939315 TAGGATTTGATGGGTGAAAATTTT
1 TAGGATGTGATAGGTGAAAATTTT
6939339 T
1 T
6939340 TAGAAGAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (24 bp):
TAGGATGTGATAGGTGAAAATTTT
Found at i:6939735 original size:6 final size:6
Alignment explanation
Indices: 6939720--6939776 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
6939710 GTTTCTCTGC
6939720 AAAAAT -AAAAT AAAAAT AAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT
*
6939769 AATAAT AA
1 AAAAAT AA
6939777 TAGGAAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
5 10 0.22
6 23 0.51
7 7 0.16
8 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:6939736 original size:11 final size:11
Alignment explanation
Indices: 6939720--6939753 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6939710 GTTTCTCTGC
6939720 AAAAATAAAAT
1 AAAAATAAAAT
6939731 AAAAATAAAA-
1 AAAAATAAAAT
6939741 ATAAAATAAAAT
1 A-AAAATAAAAT
6939753 A
1 A
6939754 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 19 0.90
12 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:6939749 original size:22 final size:25
Alignment explanation
Indices: 6939721--6939797 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
6939711 TTTCTCTGCA
6939721 AAAATAAA-A-TAAAAATAAA-AAT
1 AAAATAAATAGTAAAAATAAATAAT
6939743 AAAATAAAATAGTAAAAATAAATAAT
1 AAAAT-AAATAGTAAAAATAAATAAT
* * *
6939769 AATAAT-AATAGGAAAATTAAA-ATT
1 AA-AATAAATAGTAAAAATAAATAAT
6939793 AAAAT
1 AAAAT
6939798 GTTTTTTCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 5 0.11
23 6 0.13
24 5 0.11
25 23 0.49
26 5 0.11
27 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAATAAATAGTAAAAATAAATAAT
Found at i:6939764 original size:25 final size:26
Alignment explanation
Indices: 6939730--6939797 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
6939720 AAAAATAAAA
6939730 TAAAAATAAAAATAAAATAA-AATAG
1 TAAAAATAAAAATAAAATAATAATAG
6939755 TAAAAAT--AAATAATAATAATAATAG
1 TAAAAATAAAAATAA-AATAATAATAG
* * *
6939780 GAAAATTAAAATTAAAAT
1 TAAAAATAAAAATAAAAT
6939798 GTTTTTTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
23 6 0.17
24 5 0.14
25 17 0.47
26 3 0.08
27 5 0.14
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (26 bp):
TAAAAATAAAAATAAAATAATAATAG
Found at i:6946589 original size:23 final size:23
Alignment explanation
Indices: 6946536--6946601 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 23
6946526 AATGATTAAA
*
6946536 AACTTGATGGAAAACTTTATGAAAAG
1 AACTTGATGAAAAAC-TTA--AAAAG
6946562 -A-TTGATGAAAAACTTAAAAAG
1 AACTTGATGAAAAACTTAAAAAG
*
6946583 AACTTGATGCAAAACTTAA
1 AACTTGATGAAAAACTTAA
6946602 TAAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 5 0.14
22 1 0.03
23 18 0.50
24 11 0.31
25 1 0.03
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (23 bp):
AACTTGATGAAAAACTTAAAAAG
Found at i:6949511 original size:21 final size:22
Alignment explanation
Indices: 6949487--6949527 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6949477 TTTCATGTTA
*
6949487 AATTTAT-GTTAATTATTTTTT
1 AATTTATGGATAATTATTTTTT
6949508 AATTTATGGATAATTATTTT
1 AATTTATGGATAATTATTTT
6949528 AATACATACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
AATTTATGGATAATTATTTTTT
Found at i:6952253 original size:4 final size:4
Alignment explanation
Indices: 6952244--6952281 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
6952234 TTGAAAAAGG
6952244 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
6952282 TAAGCATGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:6953249 original size:40 final size:40
Alignment explanation
Indices: 6953204--6953304 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
6953194 CAAATGCCAT
*
6953204 TATAGATCGAGCATTAACGGTGCTT-TTGGAAAAACACCGC
1 TATAGATCGAGCATTAACGGCGCTTCTT-GAAAAACACCGC
* *
6953244 TATAGATAGAGCATTAGCGGCGCTTCTTGAAAAACACCGC
1 TATAGATCGAGCATTAACGGCGCTTCTTGAAAAACACCGC
* * *
6953284 TATAGGTCAACCATTAACGGC
1 TATAGATCGAGCATTAACGGC
6953305 ATTTTTCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 50 0.96
41 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (40 bp):
TATAGATCGAGCATTAACGGCGCTTCTTGAAAAACACCGC
Found at i:6953493 original size:118 final size:118
Alignment explanation
Indices: 6953325--6953542 Score: 323
Period size: 118 Copynumber: 1.8 Consensus size: 118
6953315 AAACGCCGCG
* * * *
6953325 AAAAAGTTAAGCACAACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGGGGCTTTTTGAA
1 AAAAAGTTAAGCAAAACGACGTCGTTTTACGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTT-AA
* * *
6953390 -AAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTGGATAAACACCGCAAAA
65 TAAACGCCGCAATAGATCGAGAATTAGCAGCGCTTTTGGATAAACACCGCAAAA
*
6953443 AAAAAGTTGAGCAAAACGACGTCGTTTGT-CGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAA
1 AAAAAGTTAAGCAAAACGACGTCGTTT-TACGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAA
*
6953507 TAAATGCCGCAATAGATCGAGAATTAGCAGCGCTTT
65 TAAACGCCGCAATAGATCGAGAATTAGCAGCGCTTT
6953543 GTCGAAAACG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
117 2 0.02
118 86 0.97
119 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (118 bp):
AAAAAGTTAAGCAAAACGACGTCGTTTTACGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAT
AAACGCCGCAATAGATCGAGAATTAGCAGCGCTTTTGGATAAACACCGCAAAA
Found at i:6953918 original size:7 final size:7
Alignment explanation
Indices: 6953908--6954178 Score: 118
Period size: 7 Copynumber: 38.7 Consensus size: 7
6953898 TGTAATAATA
6953908 TTTAGGG
1 TTTAGGG
6953915 TTTAGGG
1 TTTAGGG
* *
6953922 TATA-GA
1 TTTAGGG
*
6953928 TTTATGG
1 TTTAGGG
*
6953935 TTTGGGG
1 TTTAGGG
*
6953942 TTTAAGG
1 TTTAGGG
6953949 TTTAGGG
1 TTTAGGG
****
6953956 TTTCTAA
1 TTTAGGG
*
6953963 TTTAGTG
1 TTTAGGG
* *
6953970 TTAAGAG
1 TTTAGGG
*
6953977 TTTAGTG
1 TTTAGGG
* *
6953984 TTTATGT
1 TTTAGGG
6953991 TTTAGGG
1 TTTAGGG
*
6953998 TGTA-GG
1 TTTAGGG
*
6954004 TTTATGG
1 TTTAGGG
*
6954011 TTTATGG
1 TTTAGGG
*
6954018 TTTATGG
1 TTTAGGG
*
6954025 TTTAGTG
1 TTTAGGG
**
6954032 TTTATAG
1 TTTAGGG
6954039 TTTAGGG
1 TTTAGGG
6954046 TTTAGGG
1 TTTAGGG
* *
6954053 GTTATGAG
1 TTTA-GGG
*
6954061 CTTAGGG
1 TTTAGGG
6954068 TTTAAGGG
1 TTT-AGGG
6954076 -TTAGGGG
1 TTTA-GGG
*
6954083 CTTAGGG
1 TTTAGGG
*
6954090 TTTAAGG
1 TTTAGGG
**
6954097 TTTAAAG
1 TTTAGGG
* ***
6954104 TCTATAT
1 TTTAGGG
6954111 TTTAGGG
1 TTTAGGG
*
6954118 TTTAAAGG
1 TTT-AGGG
* *
6954126 CTTAGAG
1 TTTAGGG
6954133 TTTAGGG
1 TTTAGGG
*
6954140 TTTATGG
1 TTTAGGG
*
6954147 TTTA-GT
1 TTTAGGG
6954153 TTTAGGG
1 TTTAGGG
*
6954160 TTTAGTG
1 TTTAGGG
*
6954167 TTTATGG
1 TTTAGGG
6954174 TTTAG
1 TTTAG
6954179 CTAAAAACAT
Statistics
Matches: 194, Mismatches: 62, Indels: 16
0.71 0.23 0.06
Matches are distributed among these distances:
6 15 0.08
7 162 0.84
8 17 0.09
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:6954068 original size:22 final size:22
Alignment explanation
Indices: 6954040--6954096 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
6954030 TGTTTATAGT
* *
6954040 TTAGGGTTTAGGGGTTATGAGC
1 TTAGGGTTTAAGGGTTAGGAGC
*
6954062 TTAGGGTTTAAGGGTTAGGGGC
1 TTAGGGTTTAAGGGTTAGGAGC
6954084 TTAGGGTTTAAGG
1 TTAGGGTTTAAGG
6954097 TTTAAAGTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.19, C:0.04, G:0.42, T:0.35
Consensus pattern (22 bp):
TTAGGGTTTAAGGGTTAGGAGC
Done.