Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 43 of 109
Found at i:7109951 original size:27 final size:26
Alignment explanation
Indices: 7109897--7109951 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
7109887 TATTATTTTT
* *
7109897 AATTAAATTTTAATTAATTATATTAA
1 AATTAAATTTTAATGAATTATATCAA
7109923 AATTAAATTTTTAATCGAATTA-ATCAA
1 AATTAAA-TTTTAAT-GAATTATATCAA
7109950 AA
1 AA
7109952 ATCAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 13 0.52
28 5 0.20
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTAAATTTTAATGAATTATATCAA
Found at i:7109952 original size:28 final size:27
Alignment explanation
Indices: 7109897--7109963 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
7109887 TATTATTTTT
* *
7109897 AATTAAA-TTTTAATTAATTATATTAA
1 AATTAAATTTTTAATGAATTATATAAA
7109923 AATTAAATTTTTAATCGAATTA-ATCAAA
1 AATTAAATTTTTAAT-GAATTATAT-AAA
*
7109951 AATCAAAATTTTT
1 AAT-TAAATTTTT
7109964 GAAAAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 7 0.21
27 9 0.26
28 10 0.29
29 8 0.24
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (27 bp):
AATTAAATTTTTAATGAATTATATAAA
Found at i:7110031 original size:14 final size:15
Alignment explanation
Indices: 7110012--7110045 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7110002 TAATTAATTG
7110012 ATTAA-TCAAGTAAA
1 ATTAATTCAAGTAAA
*
7110026 ATTAATTCAATTAAA
1 ATTAATTCAAGTAAA
7110041 ATTAA
1 ATTAA
7110046 ATTTTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (15 bp):
ATTAATTCAAGTAAA
Found at i:7124166 original size:2 final size:2
Alignment explanation
Indices: 7124159--7124186 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7124149 TTAACATAAT
7124159 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7124187 AACTTAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7124472 original size:2 final size:2
Alignment explanation
Indices: 7124460--7124489 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7124450 GTATTAAAAC
7124460 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7124490 ACAACTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7127298 original size:7 final size:6
Alignment explanation
Indices: 7127275--7127317 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
7127265 AAAGTTTTGG
* * *
7127275 TTTAAT TTTAAT TTTAATT TTTAAT TTAAAT TTAAAA TTTAAT
1 TTTAAT TTTAAT TTTAA-T TTTAAT TTTAAT TTTAAT TTTAAT
7127318 AATCAAGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
TTTAAT
Found at i:7127298 original size:13 final size:13
Alignment explanation
Indices: 7127275--7127307 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7127265 AAAGTTTTGG
7127275 TTTAA-TTTTAAT
1 TTTAATTTTTAAT
7127287 TTTAATTTTTAAT
1 TTTAATTTTTAAT
*
7127300 TTAAATTT
1 TTTAATTT
7127308 AAAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTAATTTTTAAT
Found at i:7129569 original size:24 final size:24
Alignment explanation
Indices: 7129519--7129578 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
7129509 TGATTATTCG
* * * * *
7129519 CATATTTTTACTTTGATTTTTTTA
1 CATAATTTTATTTTGATATTATCA
*
7129543 CATGATTTTATTTTGATATTATCA
1 CATAATTTTATTTTGATATTATCA
*
7129567 CATAATATTATT
1 CATAATTTTATT
7129579 ATTATAAAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.58
Consensus pattern (24 bp):
CATAATTTTATTTTGATATTATCA
Found at i:7132684 original size:4 final size:4
Alignment explanation
Indices: 7132667--7132727 Score: 63
Period size: 4 Copynumber: 15.0 Consensus size: 4
7132657 TGTTGGTATT
*
7132667 TTTA TTT- TTT- TTTA TTTA TTTA TTTA TTTTA TTTA TGTTTA TTAA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA --TTTA TTTA TTTA
*
7132716 TTTA TCTA TTTA
1 TTTA TTTA TTTA
7132728 GTTGTTTTCC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
3 6 0.12
4 35 0.71
5 4 0.08
6 4 0.08
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:7132698 original size:27 final size:27
Alignment explanation
Indices: 7132666--7132720 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
7132656 TTGTTGGTAT
* * *
7132666 TTTTATTTTTTTTTATTTATTTATTTA
1 TTTTATTTATGTTTATTAATTTATTTA
7132693 TTTTATTTATGTTTATTAATTTATTTA
1 TTTTATTTATGTTTATTAATTTATTTA
7132720 T
1 T
7132721 CTATTTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (27 bp):
TTTTATTTATGTTTATTAATTTATTTA
Found at i:7132715 original size:31 final size:27
Alignment explanation
Indices: 7132666--7132726 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 27
7132656 TTGTTGGTAT
*
7132666 TTTTATTTTTTTTTATTTATTTATTTA
1 TTTTATTTTTTTTTATTTATTTATCTA
7132693 TTTTATTTATGTTTATTAATTTATTTATCTA
1 TTTTATTT-T-TTT-TT-ATTTATTTATCTA
7132724 TTT
1 TTT
7132727 AGTTGTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 8 0.28
28 1 0.03
29 3 0.10
30 2 0.07
31 15 0.52
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTTATTTTTTTTTATTTATTTATCTA
Found at i:7132810 original size:23 final size:25
Alignment explanation
Indices: 7132783--7132836 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
7132773 TCATTTATCT
*
7132783 AAAAATA-TTTTTAAAA-AAAGAGA
1 AAAAATATTTTTTAAAATAAAAAGA
*
7132806 AAAAATATTTTTTAAAATAAAAATA
1 AAAAATATTTTTTAAAATAAAAAGA
7132831 AAAAAT
1 AAAAAT
7132837 CTTACCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 7 0.26
24 9 0.33
25 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAAATATTTTTTAAAATAAAAAGA
Found at i:7134493 original size:116 final size:117
Alignment explanation
Indices: 7134354--7134564 Score: 286
Period size: 116 Copynumber: 1.8 Consensus size: 117
7134344 TATTTCTTTC
* * * *
7134354 TAAAAATTAATTTTTATTTAAAAA-TCATAAGATTTTCTAATATGTTGGTAA-AACGTTATCTT-
1 TAAAAATTAATTTTTATTAAAAAATTAATAAG-GTTTCTAATATGTTAGTAAGAAC-TTATCTTA
*
7134416 AAAAATCAAATTGTCTTTCAATATATTGGTAAGTCTTTATTAAAAACTATTTTT
64 AAAAATCAAATTGTCTTCCAATATATTGGTAAGTCTTTATTAAAAACTATTTTT
* * *
7134470 TAAAAATTTATTTTT-TATAAAAAATTAATAAGGTTTCTAATATGTTAGTAAGATCTTATTTTAA
1 TAAAAATTAATTTTTAT-TAAAAAATTAATAAGGTTTCTAATATGTTAGTAAGAACTTATCTTAA
*
7134534 AAAATCAAATTGTCTTCCAATATGTTGGTAA
65 AAAATCAAATTGTCTTCCAATATATTGGTAA
7134565 AGTTTTTTGT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
115 1 0.01
116 43 0.52
117 38 0.46
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (117 bp):
TAAAAATTAATTTTTATTAAAAAATTAATAAGGTTTCTAATATGTTAGTAAGAACTTATCTTAAA
AAATCAAATTGTCTTCCAATATATTGGTAAGTCTTTATTAAAAACTATTTTT
Found at i:7134697 original size:14 final size:15
Alignment explanation
Indices: 7134669--7134702 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7134659 AAAAATGTTT
7134669 ACAAATAAATGAATA
1 ACAAATAAATGAATA
7134684 ACAAATAAAT-AATA
1 ACAAATAAATGAATA
7134698 ACAAA
1 ACAAA
7134703 AACATAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (15 bp):
ACAAATAAATGAATA
Found at i:7135897 original size:19 final size:17
Alignment explanation
Indices: 7135869--7135904 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
7135859 TTACACGATC
7135869 AAATTTAAAAAATTAAAA
1 AAATTTAAAAAA-TAAAA
7135887 AAATATTAAAAAATAAAA
1 AAAT-TTAAAAAATAAAA
7135905 TATTTTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATTTAAAAAATAAAA
Found at i:7136333 original size:51 final size:51
Alignment explanation
Indices: 7136288--7136385 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
7136278 AAAAAAAGAG
*
7136288 AAATAAAAATAATTTCTAAA-A-AACCAAATGGTGAATAATTTAAAAATAAA
1 AAATAAAAA-AATTTCTAAATAGAACCAAATGGTGAAAAATTTAAAAATAAA
*
7136338 AAATAAAAAAATTTCTAAATAGATCCAAATGGTGAAAAATTTAAAAAT
1 AAATAAAAAAATTTCTAAATAGAACCAAATGGTGAAAAATTTAAAAAT
7136386 TCAAAAGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
49 10 0.23
50 10 0.23
51 24 0.55
ACGTcount: A:0.60, C:0.06, G:0.07, T:0.27
Consensus pattern (51 bp):
AAATAAAAAAATTTCTAAATAGAACCAAATGGTGAAAAATTTAAAAATAAA
Found at i:7141469 original size:18 final size:18
Alignment explanation
Indices: 7141446--7141482 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7141436 TATCCACCAC
7141446 AACCTTACTCCCCATATT
1 AACCTTACTCCCCATATT
7141464 AACCTTACTCCCCATATT
1 AACCTTACTCCCCATATT
7141482 A
1 A
7141483 TCTTGCAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.38, G:0.00, T:0.32
Consensus pattern (18 bp):
AACCTTACTCCCCATATT
Found at i:7143075 original size:10 final size:10
Alignment explanation
Indices: 7143060--7143086 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
7143050 ATAATGGATG
7143060 AAAAAAATGA
1 AAAAAAATGA
7143070 AAAAAAATGA
1 AAAAAAATGA
7143080 AAAAAAA
1 AAAAAAA
7143087 GTGGAAAAAT
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:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (10 bp):
AAAAAAATGA
Found at i:7144556 original size:45 final size:45
Alignment explanation
Indices: 7144440--7144581 Score: 139
Period size: 45 Copynumber: 3.2 Consensus size: 45
7144430 GGTTGTCGAT
* ** * ** *
7144440 GAGCCTTATTTA-TTTTTT-AAAGTCATTGAGCCTCTGCTTAGAG
1 GAGCTTTATTTATTTTTTTCAAAGTTGTTGAGCATCTATTTAGAA
** *
7144483 GAG-TTTATTT-TACTTTTCAAAGTTGTTGAGCATTTATTTAGAA
1 GAGCTTTATTTATTTTTTTCAAAGTTGTTGAGCATCTATTTAGAA
* * *
7144526 GAGTTTTATTTATTTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
1 GAGCTTTATTTATTTTTTTCAAAGTTGTTGAGCATCTATTTAGAA
7144571 GAGCTTTATTT
1 GAGCTTTATTT
7144582 TTTCAAAGTT
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 10 0.13
43 24 0.30
44 7 0.09
45 38 0.48
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.48
Consensus pattern (45 bp):
GAGCTTTATTTATTTTTTTCAAAGTTGTTGAGCATCTATTTAGAA
Found at i:7144608 original size:40 final size:41
Alignment explanation
Indices: 7144496--7144618 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 41
7144486 TTTATTTTAC
* *
7144496 TTTTCAAAGTTGTTGAG-CATTTATTTAGAAGAGTTTTATTTATTT
1 TTTTCAAAGTTGTTGAGAC-TCTATTTAGAAGAG----CTTTATTT
* *
7144541 TTTTCAAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTA-TT
1 TTTTCAAAGTTGTTGAGACTCTATTTAGAAGAGCTTTATTT
* *
7144581 TTTTCAAAGTTGTTGA-ACTGCTGTTTAGAAGAGTTTTA
1 TTTTCAAAGTTGTTGAGACT-CTATTTAGAAGAGCTTTA
7144619 ATGGAGTTTG
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.03
40 33 0.48
41 4 0.06
45 29 0.42
46 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (41 bp):
TTTTCAAAGTTGTTGAGACTCTATTTAGAAGAGCTTTATTT
Found at i:7144611 original size:85 final size:84
Alignment explanation
Indices: 7144445--7144618 Score: 210
Period size: 85 Copynumber: 2.0 Consensus size: 84
7144435 TCGATGAGCC
*
7144445 TTATTTATTTTTTAAAGTCATTGAGCCTCTGCTTAGAGGAGTTTATTTTACTTTTCAAAGTTGTT
1 TTATTTATTTTTTAAAGTCATTGAGCCTCTACTTAGAGGAGTTTA-TTTA-TTTTCAAAGTTGTT
* *
7144510 GAGCATTTATTTAGAAGAGTT
64 GAACATCTATTTAGAAGAGTT
** *
7144531 TTATTTATTTTTTTCAAAGTTGTTGAGCCTCTATTTAGAGGAGCTTTA-TT-TTTTCAAAGTTGT
1 TTATTTA-TTTTTT-AAAGTCATTGAGCCTCTACTTAGAGGAG-TTTATTTATTTTCAAAGTTGT
*
7144594 TGAAC-TGCTGTTTAGAAGAGTT
63 TGAACAT-CTATTTAGAAGAGTT
7144616 TTA
1 TTA
7144619 ATGGAGTTTG
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
84 1 0.01
85 33 0.43
86 7 0.09
87 8 0.10
88 24 0.31
89 4 0.05
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (84 bp):
TTATTTATTTTTTAAAGTCATTGAGCCTCTACTTAGAGGAGTTTATTTATTTTCAAAGTTGTTGA
ACATCTATTTAGAAGAGTT
Found at i:7146115 original size:9 final size:10
Alignment explanation
Indices: 7146090--7146114 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7146080 TCGAAAGATT
7146090 AAAAAATAAA
1 AAAAAATAAA
7146100 AAAAAATAAA
1 AAAAAATAAA
7146110 AAAAA
1 AAAAA
7146115 TTTCTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:7147844 original size:42 final size:40
Alignment explanation
Indices: 7147738--7147848 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 40
7147728 AGGGGCACAC
*
7147738 AAAATATAAAAAGTATCTCTCAACAGAAGCTCAACAAAATATA
1 AAAATA-AAAAACT-TCTCTCAACA-AAGCTCAACAAAATATA
* *
7147781 AAAATAAAAAACTCCTTTCAACAAAGACTCAACAAAATATAA
1 AAAATAAAAAACTTCTCTCAACAAAG-CTCAACAAAATAT-A
**
7147823 AAAATAAAAGGCTTCTCTCAACAAAG
1 AAAATAAAAAACTTCTCTCAACAAAG
7147849 GCACACCATT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
40 3 0.05
41 21 0.36
42 29 0.49
43 6 0.10
ACGTcount: A:0.56, C:0.18, G:0.06, T:0.20
Consensus pattern (40 bp):
AAAATAAAAAACTTCTCTCAACAAAGCTCAACAAAATATA
Found at i:7147892 original size:38 final size:39
Alignment explanation
Indices: 7147822--7148066 Score: 227
Period size: 38 Copynumber: 6.4 Consensus size: 39
7147812 ACAAAATATA
* * * * *
7147822 AAAAATAAAAGGCTTCTCT-CAACAAAGGCACACCATTTT
1 AAAAAT-AAAGGCTCCTCTATAACAAAGACACACAACTTT
*
7147861 AAAAATAAAGGCTCCTCT-TAACAGAGACACACAACTTT
1 AAAAATAAAGGCTCCTCTATAACAAAGACACACAACTTT
* * * *
7147899 AAAAACAAAAGCTCCT-TATAATAAAGGCACACAACTTT
1 AAAAATAAAGGCTCCTCTATAACAAAGACACACAACTTT
* *
7147937 AAAACT-AAGGCTCCT-TATAATAGAAG-CACACAACTTT
1 AAAAATAAAGGCTCCTCTATAACA-AAGACACACAACTTT
* * * ** **
7147974 AAAAATAAAAGCTCATC-ATAATAAAGGTACATGACTTT
1 AAAAATAAAGGCTCCTCTATAACAAAGACACACAACTTT
*
7148012 AAAAATAAAGGCTCCT-TATAACAAAAACACACAACTTT
1 AAAAATAAAGGCTCCTCTATAACAAAGACACACAACTTT
*
7148050 AAAAATAAAAGCTCCTC
1 AAAAATAAAGGCTCCTC
7148067 CCAATATAGG
Statistics
Matches: 170, Mismatches: 29, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
37 35 0.21
38 129 0.76
39 6 0.04
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.22
Consensus pattern (39 bp):
AAAAATAAAGGCTCCTCTATAACAAAGACACACAACTTT
Found at i:7147947 original size:113 final size:113
Alignment explanation
Indices: 7147841--7148053 Score: 248
Period size: 113 Copynumber: 1.9 Consensus size: 113
7147831 AGGCTTCTCT
* * * * * *
7147841 CAACA-AAGGCACACCATTTTAAAAATAAAGGCTCCTCTTAACAGAGACACACAACTTTAAAAAC
1 CAACAGAA-GCACACAACTTTAAAAATAAAAGCTCATCATAACAAAGACACACAACTTTAAAAAC
* **
7147905 AAAAGCTCCTTATAATAAAGGCACACAACTTTAAAACTAAGGCTCCTTA
65 AAAAGCTCCTTATAACAAAAACACACAACTTTAAAACTAAGGCTCCTTA
* * * ** ** *
7147954 TAATAGAAGCACACAACTTTAAAAATAAAAGCTCATCATAATAAAGGTACATGACTTTAAAAATA
1 CAACAGAAGCACACAACTTTAAAAATAAAAGCTCATCATAACAAAGACACACAACTTTAAAAACA
*
7148019 AAGGCTCCTTATAACAAAAACACACAACTTTAAAA
66 AAAGCTCCTTATAACAAAAACACACAACTTTAAAA
7148054 ATAAAAGCTC
Statistics
Matches: 81, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
113 79 0.98
114 2 0.02
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.22
Consensus pattern (113 bp):
CAACAGAAGCACACAACTTTAAAAATAAAAGCTCATCATAACAAAGACACACAACTTTAAAAACA
AAAGCTCCTTATAACAAAAACACACAACTTTAAAACTAAGGCTCCTTA
Found at i:7147970 original size:75 final size:76
Alignment explanation
Indices: 7147822--7148066 Score: 300
Period size: 76 Copynumber: 3.2 Consensus size: 76
7147812 ACAAAATATA
* * * *
7147822 AAAAATAAAAGGCTTCTC-TCAACAAAGGCACACCATTTTAAAAATAAAGGCTCCTCT-TAACAG
1 AAAAATAAAA-GCTCCTCAT-AATAAAGGCACACAACTTTAAAAATAAAGGCTCCT-TATAACAG
7147885 -AGACACACAACTTT
63 AAG-CACACAACTTT
* * * *
7147899 AAAAACAAAAGCTCCTTATAATAAAGGCACACAACTTTAAAACT-AAGGCTCCTTATAATAGAAG
1 AAAAATAAAAGCTCCTCATAATAAAGGCACACAACTTTAAAAATAAAGGCTCCTTATAACAGAAG
7147963 CACACAACTTT
66 CACACAACTTT
* * ** * *
7147974 AAAAATAAAAGCTCATCATAATAAAGGTACATGACTTTAAAAATAAAGGCTCCTTATAACAAAAA
1 AAAAATAAAAGCTCCTCATAATAAAGGCACACAACTTTAAAAATAAAGGCTCCTTATAACAGAAG
7148039 CACACAACTTT
66 CACACAACTTT
7148050 AAAAATAAAAGCTCCTC
1 AAAAATAAAAGCTCCTC
7148067 CCAATATAGG
Statistics
Matches: 145, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
74 1 0.01
75 62 0.43
76 72 0.50
77 10 0.07
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.22
Consensus pattern (76 bp):
AAAAATAAAAGCTCCTCATAATAAAGGCACACAACTTTAAAAATAAAGGCTCCTTATAACAGAAG
CACACAACTTT
Found at i:7148086 original size:76 final size:75
Alignment explanation
Indices: 7147858--7148090 Score: 283
Period size: 76 Copynumber: 3.1 Consensus size: 75
7147848 GGCACACCAT
* * *
7147858 TTTAAAAATAAAGGCTCCTCT-TAACAGAGACACACAACTTTAAAAACAAAAGCTCCTTATAATA
1 TTTAAAAATAAAGGCTCCT-TATAACAGAAACACACAACTTTAAAAATAAAAGCTCCTCATAATA
* *
7147922 AAGGCACACAAC
65 AAGGCA-TCGAC
* * * *
7147934 TTTAAAACT-AAGGCTCCTTATAATAGAAGCACACAACTTTAAAAATAAAAGCTCATCATAATAA
1 TTTAAAAATAAAGGCTCCTTATAACAGAAACACACAACTTTAAAAATAAAAGCTCCTCATAATAA
7147998 AGGTACAT-GAC
66 AGG--CATCGAC
* ** *
7148009 TTTAAAAATAAAGGCTCCTTATAACAAAAACACACAACTTTAAAAATAAAAGCTCCTCCCAATAT
1 TTTAAAAATAAAGGCTCCTTATAACAGAAACACACAACTTTAAAAATAAAAGCTCCTCATAATAA
7148074 AGGCATTCGAC
66 AGGCA-TCGAC
7148085 TTTAAA
1 TTTAAA
7148091 TAAACACCCA
Statistics
Matches: 134, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
74 3 0.02
75 61 0.46
76 68 0.51
77 2 0.01
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.24
Consensus pattern (75 bp):
TTTAAAAATAAAGGCTCCTTATAACAGAAACACACAACTTTAAAAATAAAAGCTCCTCATAATAA
AGGCATCGAC
Found at i:7152710 original size:18 final size:18
Alignment explanation
Indices: 7152689--7152736 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
7152679 ATGTGTTGGT
7152689 TGAATGAAAATGAAAAAA
1 TGAATGAAAATGAAAAAA
7152707 TGAA--AACAATAGAAAAAA
1 TGAATGAA-AAT-GAAAAAA
7152725 TGAATGAAAATG
1 TGAATGAAAATG
7152737 CATCATTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 16 0.62
19 3 0.12
20 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.17, T:0.17
Consensus pattern (18 bp):
TGAATGAAAATGAAAAAA
Found at i:7152736 original size:10 final size:8
Alignment explanation
Indices: 7152695--7152728 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
7152685 TGGTTGAATG
7152695 AAAATGAA
1 AAAATGAA
7152703 AAAATGAA
1 AAAATGAA
7152711 AACAATAGAA
1 AA-AAT-GAA
7152721 AAAATGAA
1 AAAATGAA
7152729 TGAAAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 13 0.54
9 6 0.25
10 5 0.21
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:7159933 original size:17 final size:18
Alignment explanation
Indices: 7159913--7159952 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7159903 AGATTTTATG
7159913 AAAATT-ATTTTT-TTCTA
1 AAAATTAATTTTTATT-TA
7159930 AAAATTAATTTTTATTTA
1 AAAATTAATTTTTATTTA
7159948 AAAAT
1 AAAAT
7159953 CATAAGGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATTAATTTTTATTTA
Found at i:7177294 original size:6 final size:6
Alignment explanation
Indices: 7177283--7177318 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
7177273 CCCAATTGAC
7177283 TTTTAT TTTTATTT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTA--T TTTTAT TTTTAT TTTTAT TTTT
7177319 CTTTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 22 0.79
8 6 0.21
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:7177302 original size:14 final size:14
Alignment explanation
Indices: 7177283--7177332 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
7177273 CCCAATTGAC
7177283 TTTTATTTTTATTT
1 TTTTATTTTTATTT
7177297 TTTTATTTTTATTT
1 TTTTATTTTTATTT
*
7177311 TTATTTTTCTTTAATTT
1 TT-TTATT-TTT-ATTT
7177328 TTTTA
1 TTTTA
7177333 GTTGATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 16 0.52
15 4 0.13
16 5 0.16
17 6 0.19
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:7177772 original size:24 final size:24
Alignment explanation
Indices: 7177722--7177787 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
7177712 TCGTGCCATG
* *
7177722 AGCACCCCTACCTTTGGTTCCACA
1 AGCACCCCTGCCTTTGGTGCCACA
* *
7177746 AGCACCCCTGCCTTTGGTGCTATA
1 AGCACCCCTGCCTTTGGTGCCACA
* *
7177770 AGCACCTCTGCATTTGGT
1 AGCACCCCTGCCTTTGGT
7177788 TCAACTGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.18, C:0.35, G:0.18, T:0.29
Consensus pattern (24 bp):
AGCACCCCTGCCTTTGGTGCCACA
Found at i:7179385 original size:58 final size:58
Alignment explanation
Indices: 7179301--7179484 Score: 246
Period size: 58 Copynumber: 3.2 Consensus size: 58
7179291 CTAAGTTGCC
* * *
7179301 TATCAATTTTCTTTGAAAATACGTTTTCTAAAAA-ATATTTTTGGAGAAAAGTTGAAAG
1 TATCAATTTTCCTTGAAAATAAGTTTTC-AAAAATAAATTTTTGGAGAAAAGTTGAAAG
* *
7179359 TACCAATTTTCCTTAAAAATAAGTTTTCAAAAATAAATTTTT-GAGGAAAAGTTGAAAG
1 TATCAATTTTCCTTGAAAATAAGTTTTCAAAAATAAATTTTTGGA-GAAAAGTTGAAAG
* * ** *
7179417 TATCAATTTTCCTCGAAATTAAAATTTCAAAAATAGATTTTTGGAGAAAAGTTGAAAG
1 TATCAATTTTCCTTGAAAATAAGTTTTCAAAAATAAATTTTTGGAGAAAAGTTGAAAG
7179475 TATCAATTTT
1 TATCAATTTT
7179485 TCATGTACAG
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
57 7 0.06
58 102 0.92
59 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (58 bp):
TATCAATTTTCCTTGAAAATAAGTTTTCAAAAATAAATTTTTGGAGAAAAGTTGAAAG
Found at i:7179527 original size:14 final size:14
Alignment explanation
Indices: 7179505--7179534 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7179495 AAGCAATCAT
*
7179505 TTTTTTTTTTTTTC
1 TTTTCTTTTTTTTC
7179519 TTTTCTTTTTTTTC
1 TTTTCTTTTTTTTC
7179533 TT
1 TT
7179535 GAATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:7183237 original size:22 final size:23
Alignment explanation
Indices: 7183194--7183237 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
7183184 TATAGATTTA
** *
7183194 AATTTCAACAAAAATTATATATG
1 AATTTCAACAAAAAAAAAATATG
7183217 AATTT-AACAAAAAAAAAATAT
1 AATTTCAACAAAAAAAAAATAT
7183238 TTCATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
AATTTCAACAAAAAAAAAATATG
Found at i:7183281 original size:31 final size:31
Alignment explanation
Indices: 7183246--7183309 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
7183236 ATTTCATATT
* *
7183246 TTTTATATCAACATA-AAT-TATAATATATAAA
1 TTTTATAT-AAAATATAATATA-AATACATAAA
7183277 TTTTATATAAAATATAATATAAATACATAAA
1 TTTTATATAAAATATAATATAAATACATAAA
7183308 TT
1 TT
7183310 ATTAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 5 0.17
31 22 0.76
32 2 0.07
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTATATAAAATATAATATAAATACATAAA
Found at i:7185554 original size:3 final size:3
Alignment explanation
Indices: 7185546--7185578 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7185536 GTGCCAAAGG
7185546 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
7185579 GCTGACCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7187254 original size:15 final size:15
Alignment explanation
Indices: 7187234--7187263 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7187224 GCTTAAAGCA
7187234 TGGAGGAAAACATGG
1 TGGAGGAAAACATGG
*
7187249 TGGAGGAAATCATGG
1 TGGAGGAAAACATGG
7187264 AAAGCATTTG
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:0.37, C:0.07, G:0.40, T:0.17
Consensus pattern (15 bp):
TGGAGGAAAACATGG
Found at i:7187716 original size:2 final size:2
Alignment explanation
Indices: 7187709--7187735 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7187699 TCAATACTTT
7187709 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7187736 TTTTTGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7188526 original size:17 final size:18
Alignment explanation
Indices: 7188504--7188539 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7188494 TTCAAAGTGA
*
7188504 ATGGAGAGGAAGA-AGAG
1 ATGGAGAGAAAGAGAGAG
7188521 ATGGAGAGAAAGAGAGAG
1 ATGGAGAGAAAGAGAGAG
7188539 A
1 A
7188540 AAGAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (18 bp):
ATGGAGAGAAAGAGAGAG
Found at i:7188966 original size:10 final size:10
Alignment explanation
Indices: 7188947--7188981 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
7188937 CGAGGCAAGG
*
7188947 GCACAAGCAC
1 GCACAGGCAC
7188957 GCACAGGCAC
1 GCACAGGCAC
7188967 GCACAGGCAC
1 GCACAGGCAC
7188977 GCACA
1 GCACA
7188982 CATCAAGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.34, C:0.40, G:0.26, T:0.00
Consensus pattern (10 bp):
GCACAGGCAC
Found at i:7195350 original size:21 final size:22
Alignment explanation
Indices: 7195305--7195351 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
7195295 ATAAAAATTT
* * *
7195305 AATTGAATTTATAAATTATTCG
1 AATTGAATATATAAAATACTCG
7195327 AATTGAATATA-AAAATACTCG
1 AATTGAATATATAAAATACTCG
7195348 AATT
1 AATT
7195352 CGATTTGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (22 bp):
AATTGAATATATAAAATACTCG
Found at i:7197682 original size:13 final size:13
Alignment explanation
Indices: 7197664--7197688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7197654 AAATTTATTT
7197664 TTTATTTATAAAA
1 TTTATTTATAAAA
7197677 TTTATTTATAAA
1 TTTATTTATAAA
7197689 TGTTAAAAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTATTTATAAAA
Found at i:7212802 original size:34 final size:34
Alignment explanation
Indices: 7212748--7212851 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
7212738 TTGCATCTGA
* * * *
7212748 ATAATTATGTTTGTACAAATAAATACT-TATTTGG
1 ATAATTATATTTATACAAATAAATA-TACATTTAG
*
7212782 ATAATTATATTTATAGAAATAAATATACATTTAG
1 ATAATTATATTTATACAAATAAATATACATTTAG
* *
7212816 ATAATTATGTCTATACAAA-AATATATTA-ATTTAG
1 ATAATTATATTTATACAAATAA-ATA-TACATTTAG
7212850 AT
1 AT
7212852 TGTCATGTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 3 0.05
34 54 0.92
35 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (34 bp):
ATAATTATATTTATACAAATAAATATACATTTAG
Found at i:7223077 original size:12 final size:12
Alignment explanation
Indices: 7223060--7223089 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7223050 TTCATACATA
*
7223060 ATTGTTTTTTTT
1 ATTGTTTTTATT
7223072 ATTGTTTTTATT
1 ATTGTTTTTATT
7223084 ATTGTT
1 ATTGTT
7223090 GCTACTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (12 bp):
ATTGTTTTTATT
Found at i:7224715 original size:172 final size:173
Alignment explanation
Indices: 7224531--7224858 Score: 577
Period size: 172 Copynumber: 1.9 Consensus size: 173
7224521 ATATTTTATA
* *
7224531 TTTTTATATCAACAAAAATTATAATATATAATTTTTATATAAATTATGACATAAATATATAAATT
1 TTTTTATATCAACAAAAATTATAATACATAATTTTTATATAAATTATGACATAAATATATAAAAT
*
7224596 TTTAATATTTATATAATAATAAAATAAAAAATTTCAAACCTAATCCCACGATCTAATTTATCTTA
66 TTTAATATTTATATAATAATAAAATAAAAAATTTCAAACCTAATCCCACGATCTAAGTTATCTTA
*
7224661 AATAAGTTTATTATTATTATT-TTTTCAACAAGAAAAGATACT
131 AATAAGTGTATTATTATTATTATTTTCAACAAGAAAAGATACT
7224703 TTTTTATATCAACAAAAATTATAATACATAATTTTTATATAAATTATGACATAAATATATAAAAT
1 TTTTTATATCAACAAAAATTATAATACATAATTTTTATATAAATTATGACATAAATATATAAAAT
* * * *
7224768 TTTAATATTTATATAATACTAAAATAAAAAATTTTAAACCTAATGCCATGATCTAAGTTATCTTA
66 TTTAATATTTATATAATAATAAAATAAAAAATTTCAAACCTAATCCCACGATCTAAGTTATCTTA
7224833 AATAAGTGTATTATTATTATTATTTT
131 AATAAGTGTATTATTATTATTATTTT
7224859 TTTTTCAACA
Statistics
Matches: 147, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
172 143 0.97
173 4 0.03
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (173 bp):
TTTTTATATCAACAAAAATTATAATACATAATTTTTATATAAATTATGACATAAATATATAAAAT
TTTAATATTTATATAATAATAAAATAAAAAATTTCAAACCTAATCCCACGATCTAAGTTATCTTA
AATAAGTGTATTATTATTATTATTTTCAACAAGAAAAGATACT
Found at i:7226038 original size:11 final size:12
Alignment explanation
Indices: 7226023--7226064 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
7226013 TTAAAATTTA
7226023 AAATTTTTTAA-
1 AAATTTTTTAAT
7226034 AAATTATTTTAAT
1 AAATT-TTTTAAT
7226047 AAGA-TTTTTAAT
1 AA-ATTTTTTAAT
7226059 AAATTT
1 AAATTT
7226065 AAATATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 6 0.22
12 17 0.63
13 3 0.11
14 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
AAATTTTTTAAT
Found at i:7228378 original size:30 final size:30
Alignment explanation
Indices: 7228342--7228438 Score: 96
Period size: 30 Copynumber: 3.3 Consensus size: 30
7228332 AAAGCCAAAT
* *
7228342 TTTATTTGAATATAAATTAAAAATTT-AAGA
1 TTTATTTAAATACAAATT-AAAATTTAAAGA
7228372 TTTATTTAAATACAAATTAAAATTTAAAAGA
1 TTTATTTAAATACAAATTAAAATTT-AAAGA
*
7228403 TTTATCTAAATA-AAATAATAAAA-TTAAA-A
1 TTTATTTAAATACAAAT--TAAAATTTAAAGA
7228432 TTT-TTTA
1 TTTATTTA
7228439 TGTTTTAGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.05
29 11 0.19
30 23 0.39
31 17 0.29
32 5 0.08
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTATTTAAATACAAATTAAAATTTAAAGA
Found at i:7228406 original size:31 final size:30
Alignment explanation
Indices: 7228342--7228431 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
7228332 AAAGCCAAAT
*
7228342 TTTATTTGAATATAAATTAAAAATTT--AAGA
1 TTTATTTAAATA-AAATT-AAAATTTAAAAGA
7228372 TTTATTTAAATACAAATTAAAATTTAAAAGA
1 TTTATTTAAATA-AAATTAAAATTTAAAAGA
*
7228403 TTTATCTAAATAAAATAATAAAA-TTAAAA
1 TTTATTTAAATAAAAT--TAAAATTTAAAA
7228432 TTTTTTATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.13
30 20 0.38
31 21 0.40
32 5 0.09
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTATTTAAATAAAATTAAAATTTAAAAGA
Found at i:7229720 original size:19 final size:19
Alignment explanation
Indices: 7229693--7229730 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7229683 GCTGGTAGGC
*
7229693 AGGCGGCTAACAGCCATGT
1 AGGCAGCTAACAGCCATGT
*
7229712 AGGCAGCTAGCAGCCATGT
1 AGGCAGCTAACAGCCATGT
7229731 GGTGGTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.16
Consensus pattern (19 bp):
AGGCAGCTAACAGCCATGT
Found at i:7232075 original size:16 final size:16
Alignment explanation
Indices: 7232029--7232080 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
7232019 CCGTATAATT
*
7232029 TATCTTTCCTTC-AAT
1 TATCTTTCCTTCAAAG
7232044 TAATCTTTCCTTCAAAG
1 T-ATCTTTCCTTCAAAG
7232061 TATCTTTCCTTCAAAG
1 TATCTTTCCTTCAAAG
7232077 TATC
1 TATC
7232081 ACAAATACGC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 1 0.03
16 30 0.88
17 3 0.09
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.46
Consensus pattern (16 bp):
TATCTTTCCTTCAAAG
Found at i:7233366 original size:19 final size:22
Alignment explanation
Indices: 7233325--7233369 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7233315 GATATAGTTT
7233325 AAAATTTTAATAAAAATTATAA
1 AAAATTTTAATAAAAATTATAA
*
7233347 ATAATTTTAAT-AAAATTA-AA
1 AAAATTTTAATAAAAATTATAA
7233367 AAA
1 AAA
7233370 TTATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTTTAATAAAAATTATAA
Found at i:7233370 original size:22 final size:23
Alignment explanation
Indices: 7233327--7233379 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
7233317 TATAGTTTAA
*
7233327 AATTTTAATAAAAATTATAAA-T
1 AATTTTAATAAAAATTAAAAATT
7233349 AATTTTAAT-AAAATTAAAAAATT
1 AATTTTAATAAAAATT-AAAAATT
7233372 ATATTTTA
1 A-ATTTTA
7233380 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 6 0.22
22 13 0.48
23 2 0.07
24 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTTAATAAAAATTAAAAATT
Found at i:7233371 original size:19 final size:21
Alignment explanation
Indices: 7233325--7233371 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7233315 GATATAGTTT
7233325 AAAATTTTAATAAAAATTATA
1 AAAATTTTAATAAAAATTATA
7233346 AATAATTTTAAT-AAAATTA-A
1 AA-AATTTTAATAAAAATTATA
7233366 AAAATT
1 AAAATT
7233372 ATATTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 9 0.36
22 9 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATTTTAATAAAAATTATA
Found at i:7233717 original size:15 final size:15
Alignment explanation
Indices: 7233694--7233734 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
7233684 AAATTTAAAA
*
7233694 TAAAATTGATAATAT
1 TAAATTTGATAATAT
*
7233709 TAAATTTGATAATTT
1 TAAATTTGATAATAT
*
7233724 TAAATATGATA
1 TAAATTTGATA
7233735 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (15 bp):
TAAATTTGATAATAT
Found at i:7234764 original size:10 final size:10
Alignment explanation
Indices: 7234749--7234786 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
7234739 AAATTGTATC
7234749 ATTTTTATAT
1 ATTTTTATAT
7234759 ATTTTT-TATT
1 ATTTTTATA-T
7234769 ATTTTTATAT
1 ATTTTTATAT
7234779 CATTTTTA
1 -ATTTTTA
7234787 AAATTAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 2 0.08
10 14 0.56
11 9 0.36
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:7234786 original size:11 final size:11
Alignment explanation
Indices: 7234745--7234786 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
7234735 ATTTAAATTG
7234745 TATCATTTTTA
1 TATCATTTTTA
7234756 TAT-ATTTTT-
1 TATCATTTTTA
*
7234765 TATTATTTTTA
1 TATCATTTTTA
7234776 TATCATTTTTA
1 TATCATTTTTA
7234787 AAATTAGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 12 0.43
11 13 0.46
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (11 bp):
TATCATTTTTA
Found at i:7237946 original size:18 final size:18
Alignment explanation
Indices: 7237925--7237965 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7237915 ATTAAGTTTG
7237925 AATTT-AAATTTAATTTAA
1 AATTTAAAATTTAA-TTAA
7237943 AATTTAAAATTTAATTAA
1 AATTTAAAATTTAATTAA
7237961 AATTT
1 AATTT
7237966 GATTGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTAAAATTTAATTAA
Found at i:7238090 original size:24 final size:25
Alignment explanation
Indices: 7238059--7238105 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7238049 AAATAAAAAT
7238059 AAATTTAATT-TTTATATTTAATAA
1 AAATTTAATTATTTATATTTAATAA
*
7238083 AAATTTAATTATTTGTATTTAAT
1 AAATTTAATTATTTATATTTAAT
7238106 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
AAATTTAATTATTTATATTTAATAA
Found at i:7238182 original size:18 final size:18
Alignment explanation
Indices: 7238137--7238215 Score: 61
Period size: 18 Copynumber: 4.0 Consensus size: 18
7238127 GATATATTTA
7238137 TTAATTAAAATAATAAAAA-
1 TTAATT-AAAT-ATAAAAAT
*
7238156 TAAATTTAAATATAAAAAT
1 TTAA-TTAAATATAAAAAT
*
7238175 TTAATTAAATTTATAAATTATT
1 TTAATTAAA--TATAAA--AAT
7238197 TTGAATTAAATATAAAAAT
1 TT-AATTAAATATAAAAAT
7238216 ATTTAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
18 12 0.24
19 12 0.24
20 8 0.16
21 6 0.12
22 4 0.08
23 7 0.14
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (18 bp):
TTAATTAAATATAAAAAT
Found at i:7238215 original size:23 final size:22
Alignment explanation
Indices: 7238161--7238219 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
7238151 AAAAATAAAT
7238161 TTAAATAT-AAAA-A-TTT-AA
1 TTAAATATAAAAATATTTTGAA
* *
7238179 TTAAATTTATAAATTATTTTGAA
1 TTAAATATA-AAAATATTTTGAA
7238202 TTAAATATAAAAATATTT
1 TTAAATATAAAAATATTT
7238220 AAATTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 7 0.22
20 3 0.09
21 1 0.03
22 11 0.34
23 10 0.31
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAATATAAAAATATTTTGAA
Found at i:7242018 original size:6 final size:6
Alignment explanation
Indices: 7242007--7242034 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7241997 AAAGACATGA
7242007 AGAGTC AGAGTC AGAGTC AGAGTC AGAG
1 AGAGTC AGAGTC AGAGTC AGAGTC AGAG
7242035 AGTGTCAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (6 bp):
AGAGTC
Found at i:7264033 original size:20 final size:21
Alignment explanation
Indices: 7263996--7264035 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
7263986 TCATTAATAA
*
7263996 AATAATATCATTAAATTTATT
1 AATAATATCATAAAATTTATT
7264017 AATAATAT-ATAAAATTTAT
1 AATAATATCATAAAATTTAT
7264036 ATAACAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AATAATATCATAAAATTTATT
Found at i:7264038 original size:11 final size:12
Alignment explanation
Indices: 7264022--7264050 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7264012 TTATTAATAA
7264022 TATATAA-AATT
1 TATATAACAATT
7264033 TATATAACAATT
1 TATATAACAATT
7264045 TATATA
1 TATATA
7264051 CATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATAACAATT
Found at i:7267646 original size:7 final size:8
Alignment explanation
Indices: 7267627--7267651 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7267617 AGTCTATAAA
7267627 AAAAAATC
1 AAAAAATC
7267635 AAAAAATC
1 AAAAAATC
7267643 AAAAAATC
1 AAAAAATC
7267651 A
1 A
7267652 CTTTGATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:7268321 original size:13 final size:13
Alignment explanation
Indices: 7268303--7268332 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7268293 TTATTATTTT
*
7268303 ATAATAATAATTA
1 ATAATAATAAATA
7268316 ATAATAATAAATA
1 ATAATAATAAATA
7268329 ATAA
1 ATAA
7268333 AACTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:7271598 original size:16 final size:17
Alignment explanation
Indices: 7271577--7271608 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7271567 ATGCCAGTCT
7271577 ATAAAAAATTA-AAAAA
1 ATAAAAAATTAGAAAAA
7271593 ATAAAAAATTAGAAAA
1 ATAAAAAATTAGAAAA
7271609 GCCACTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
ATAAAAAATTAGAAAAA
Found at i:7271769 original size:17 final size:17
Alignment explanation
Indices: 7271728--7271769 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
7271718 TAAATTTTTT
7271728 TGACGACAAACAGACAG
1 TGACGACAAACAGACAG
*
7271745 TAACCGACAAAC-GACAG
1 TGA-CGACAAACAGACAG
7271762 TCGACGAC
1 T-GACGAC
7271770 TACTGACGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.43, C:0.29, G:0.21, T:0.07
Consensus pattern (17 bp):
TGACGACAAACAGACAG
Found at i:7272294 original size:13 final size:13
Alignment explanation
Indices: 7272276--7272305 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7272266 TTATTGTTTT
*
7272276 ATAATAATAATTA
1 ATAATAATAAATA
7272289 ATAATAATAAATA
1 ATAATAATAAATA
7272302 ATAA
1 ATAA
7272306 ATTTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:7272378 original size:21 final size:21
Alignment explanation
Indices: 7272335--7272378 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7272325 TGATAAGTAT
* *
7272335 AATTAAATAAAAATAATACAA
1 AATTAAATAAAAATAAGAAAA
7272356 AATT-AATAAAAAATAAGAAAA
1 AATTAAAT-AAAAATAAGAAAA
7272377 AA
1 AA
7272379 AAATTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTAAATAAAAATAAGAAAA
Found at i:7281852 original size:20 final size:20
Alignment explanation
Indices: 7281816--7281853 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7281806 GCCACCAAGC
*
7281816 AATCTTTTCTCTGTTCCATT
1 AATCTTTTCTCTCTTCCATT
7281836 AATCTCTTTCTC-CTTCCA
1 AATCT-TTTCTCTCTTCCA
7281854 ATGGCTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.16, C:0.32, G:0.03, T:0.50
Consensus pattern (20 bp):
AATCTTTTCTCTCTTCCATT
Found at i:7285407 original size:25 final size:25
Alignment explanation
Indices: 7285379--7285430 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
7285369 TTTAATTTTT
7285379 TTTTCAATCATAATTAAAATAAAAA
1 TTTTCAATCATAATTAAAATAAAAA
* *
7285404 TTTTTAATCATAATTAAAATAATAA
1 TTTTCAATCATAATTAAAATAAAAA
7285429 TT
1 TT
7285431 ATTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTCAATCATAATTAAAATAAAAA
Found at i:7285407 original size:28 final size:27
Alignment explanation
Indices: 7285376--7285437 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 27
7285366 TTTTTTAATT
7285376 TTTTTTTCAATCATAATTAAAATAAAAA
1 TTTTTTT-AATCATAATTAAAATAAAAA
*
7285404 --TTTTTAATCATAATTAAAATAATAA
1 TTTTTTTAATCATAATTAAAATAAAAA
7285429 TTATTTTTA
1 TT-TTTTTA
7285438 TTTTTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 19 0.63
26 5 0.17
28 6 0.20
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTTTTTAATCATAATTAAAATAAAAA
Found at i:7285650 original size:12 final size:12
Alignment explanation
Indices: 7285633--7285663 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7285623 GATTAGCATC
7285633 ATCGTCATCATA
1 ATCGTCATCATA
*
7285645 ATCGTCATCATC
1 ATCGTCATCATA
7285657 ATCGTCA
1 ATCGTCA
7285664 ATCGTGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (12 bp):
ATCGTCATCATA
Found at i:7289032 original size:3 final size:3
Alignment explanation
Indices: 7289024--7289050 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7289014 AGATAGTCGG
7289024 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
7289051 TCATTGTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7290526 original size:15 final size:15
Alignment explanation
Indices: 7290506--7290540 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
7290496 TTTATGTTGT
7290506 ATTTTT-GAAAATGAG
1 ATTTTTCGAAAAT-AG
7290521 ATTTTTCGAAAATAG
1 ATTTTTCGAAAATAG
7290536 ATTTT
1 ATTTT
7290541 CAAGAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (15 bp):
ATTTTTCGAAAATAG
Found at i:7290564 original size:34 final size:34
Alignment explanation
Indices: 7290529--7290648 Score: 114
Period size: 34 Copynumber: 3.4 Consensus size: 34
7290519 AGATTTTTCG
*
7290529 AAAATAGATTTTCAAGAACTTTAAAGGTTTATCG
1 AAAATAGATTTTCAAGAACTTTAAAGGTTTATCA
* * * *
7290563 AAAATGGATTTTCAAGAGCCTTAAAGGTTTTTTGGAAACA
1 AAAATAGATTTTCAAGAACTTTAAAGG---TTT---ATCA
* * *
7290603 AAAATAGATTTTGAAAAACTTTAAAGGTTTCTCA
1 AAAATAGATTTTCAAGAACTTTAAAGGTTTATCA
7290637 AAAATAGATTTT
1 AAAATAGATTTT
7290649 TGAGAGTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
34 38 0.56
37 6 0.09
40 24 0.35
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (34 bp):
AAAATAGATTTTCAAGAACTTTAAAGGTTTATCA
Found at i:7295223 original size:2 final size:2
Alignment explanation
Indices: 7295216--7295245 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7295206 TTGTAATGAA
*
7295216 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7295246 CTGGCAGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7295732 original size:24 final size:24
Alignment explanation
Indices: 7295681--7295734 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
7295671 TTTTTTATTA
* *
7295681 AAATTTTTAAATTATAATTATAAT
1 AAATTTTTAAATAATAATTACAAT
*
7295705 -AATTTTTTAATAATAATTACAAT
1 AAATTTTTAAATAATAATTACAAT
7295728 AAATTTT
1 AAATTTT
7295735 ATTATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
AAATTTTTAAATAATAATTACAAT
Found at i:7295899 original size:23 final size:24
Alignment explanation
Indices: 7295868--7295931 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
7295858 ATTTTTTTAT
*
7295868 TAAACTTTTTTAATTATAATTATAA
1 TAAA-TTTTTTAATTATAATTACAA
*
7295893 T-AATTTTTTAATAATAATTACAA
1 TAAATTTTTTAATTATAATTACAA
7295916 TAAATTTTATT-ATTAT
1 TAAATTTT-TTAATTAT
7295932 TTTTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 19 0.56
24 12 0.35
25 3 0.09
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAATTTTTTAATTATAATTACAA
Found at i:7295946 original size:189 final size:189
Alignment explanation
Indices: 7295626--7295990 Score: 676
Period size: 189 Copynumber: 1.9 Consensus size: 189
7295616 TATTTTTAAT
7295626 TAAATTTAAATGTTAATTTTAATCAAATTAATAAATTTATCATATTTTTTTATTAAAATTTTTAA
1 TAAATTTAAATGTTAATTTTAATCAAATTAATAAATTTATCATATTTTTTTATTAAAATTTTTAA
7295691 ATTATAATTATAATAATTTTTTAATAATAATTACAATAAATTTTATTATTATTTTTTAATTTTAT
66 ATTATAATTATAATAATTTTTTAATAATAATTACAATAAATTTTATTATTATTTTTTAATTTTAT
* *
7295756 CACAATCAATCTCATTATTATTCTGAATATAATTTTAATGATATATTTAGATTTAATGA
131 CACAATCAATCTCATTATTAATCTGAATATAACTTTAATGATATATTTAGATTTAATGA
* *
7295815 TAAATTTAAATGTTAATTTTAATCAAATTAATAAATTTATCATATTTTTTTATTAAACTTTTTTA
1 TAAATTTAAATGTTAATTTTAATCAAATTAATAAATTTATCATATTTTTTTATTAAAATTTTTAA
7295880 ATTATAATTATAATAATTTTTTAATAATAATTACAATAAATTTTATTATTATTTTTTAATTTTAT
66 ATTATAATTATAATAATTTTTTAATAATAATTACAATAAATTTTATTATTATTTTTTAATTTTAT
* *
7295945 CATAATCAATCTCATTATTAATCTGAATATAGCTTTAATGATATAT
131 CACAATCAATCTCATTATTAATCTGAATATAACTTTAATGATATAT
7295991 GTATCTTTGG
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
189 170 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (189 bp):
TAAATTTAAATGTTAATTTTAATCAAATTAATAAATTTATCATATTTTTTTATTAAAATTTTTAA
ATTATAATTATAATAATTTTTTAATAATAATTACAATAAATTTTATTATTATTTTTTAATTTTAT
CACAATCAATCTCATTATTAATCTGAATATAACTTTAATGATATATTTAGATTTAATGA
Found at i:7307752 original size:36 final size:36
Alignment explanation
Indices: 7307712--7307781 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
7307702 TATAAAAAAT
*
7307712 TATTTTTAATTAATTATTTAATTTTATATTTATAAA
1 TATTTATAATTAATTATTTAATTTTATATTTATAAA
* *
7307748 TATTTATAATTATTTATTTTATTTTATATTTATA
1 TATTTATAATTAATTATTTAATTTTATATTTATA
7307782 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (36 bp):
TATTTATAATTAATTATTTAATTTTATATTTATAAA
Found at i:7307793 original size:36 final size:36
Alignment explanation
Indices: 7307718--7307806 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 36
7307708 AAATTATTTT
* ***
7307718 TAATTAATTATTTAATTTTATATTTATAAATATTTA
1 TAATTATTTATTTAATTTTATATTTATAAATAAAAA
* **
7307754 TAATTATTTATTTTATTTTATATTTATATTTAAAAA
1 TAATTATTTATTTAATTTTATATTTATAAATAAAAA
7307790 TAA-TATTT-TATTAATTT
1 TAATTATTTAT-TTAATTT
7307807 CGAATCAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 1 0.02
35 11 0.25
36 32 0.73
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (36 bp):
TAATTATTTATTTAATTTTATATTTATAAATAAAAA
Found at i:7307892 original size:32 final size:33
Alignment explanation
Indices: 7307856--7307934 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 33
7307846 ATAGAGTTTA
7307856 AATATAAAAAAAATTAAACCAAATAAAATT-AT
1 AATATAAAAAAAATTAAACCAAATAAAATTCAT
* * * * *
7307888 AATATTAAAAATATAAAATCAAATTAAATTCAT
1 AATATAAAAAAAATTAAACCAAATAAAATTCAT
*
7307921 AATA-AATAAAAATT
1 AATATAAAAAAAATT
7307935 CGTTCTCATC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
32 31 0.84
33 6 0.16
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (33 bp):
AATATAAAAAAAATTAAACCAAATAAAATTCAT
Found at i:7308735 original size:48 final size:48
Alignment explanation
Indices: 7308663--7308757 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
7308653 TAACTTATCC
** *
7308663 TTACTCATGATCGCCCACTGAAACAC-AAGAATCTTTACCTATTTGATA
1 TTACTCATGATCGCCCACCAAAACACGAA-AATCTTTACCTACTTGATA
* *
7308711 TTACTCGTGATCGTCCACCAAAACACGAAAATCTTTACCTACTTGAT
1 TTACTCATGATCGCCCACCAAAACACGAAAATCTTTACCTACTTGAT
7308758 GCTGCACCCG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
48 39 0.95
49 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (48 bp):
TTACTCATGATCGCCCACCAAAACACGAAAATCTTTACCTACTTGATA
Found at i:7320646 original size:17 final size:17
Alignment explanation
Indices: 7320614--7320648 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7320604 TAGAATTAAA
7320614 TAAATATAAATCAATTT
1 TAAATATAAATCAATTT
7320631 TAAATTATAAAT-AATTT
1 TAAA-TATAAATCAATTT
7320648 T
1 T
7320649 TTAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATATAAATCAATTT
Found at i:7320649 original size:18 final size:19
Alignment explanation
Indices: 7320614--7320655 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7320604 TAGAATTAAA
7320614 TAAA-TATAAATCAA-TTT
1 TAAATTATAAATCAATTTT
7320631 TAAATTATAAAT-AATTTTT
1 TAAATTATAAATCAA-TTTT
7320650 TAAATT
1 TAAATT
7320656 TTTTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 7 0.32
19 9 0.41
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAATTATAAATCAATTTT
Found at i:7320745 original size:12 final size:12
Alignment explanation
Indices: 7320710--7320738 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7320700 ATTTATCAGT
7320710 TTAAAATTTTTA
1 TTAAAATTTTTA
7320722 TTAAAATTTTTA
1 TTAAAATTTTTA
7320734 TTAAA
1 TTAAA
7320739 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:7322125 original size:15 final size:15
Alignment explanation
Indices: 7322098--7322132 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
7322088 ATTTTATTAC
7322098 ATTAATAATTTATTT
1 ATTAATAATTTATTT
7322113 ATTATATAA-TTATTT
1 ATTA-ATAATTTATTT
7322128 ATTAA
1 ATTAA
7322133 ATTTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 14 0.74
16 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTAATAATTTATTT
Found at i:7326608 original size:22 final size:23
Alignment explanation
Indices: 7326583--7326641 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
7326573 ATCTTATGTA
**
7326583 TTTTATTTATAAAATATT-ATCT
1 TTTTATTTATAAAATATTCATAG
* *
7326605 TTTTAATT-TAAAATTTTCATAG
1 TTTTATTTATAAAATATTCATAG
7326627 TTTTATTTTATAAAA
1 TTTTA-TTTATAAAA
7326642 AAATCTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 8 0.28
22 14 0.48
23 2 0.07
24 5 0.17
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTATTTATAAAATATTCATAG
Found at i:7332126 original size:16 final size:15
Alignment explanation
Indices: 7332080--7332147 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 15
7332070 TTATTTAAAT
**
7332080 AAATATTATTCGTTA
1 AAATATTATTTATTA
7332095 AAATATCTAAATTTATTA
1 AAATAT-T--ATTTATTA
7332113 AAATATTCATTTATTA
1 AAATATT-ATTTATTA
*
7332129 AAA-AAT-TTTATTA
1 AAATATTATTTATTA
7332142 AAATAT
1 AAATAT
7332148 AAAATAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
13 10 0.23
14 1 0.02
15 8 0.18
16 12 0.27
17 1 0.02
18 12 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATATTATTTATTA
Found at i:7333400 original size:28 final size:29
Alignment explanation
Indices: 7333347--7333409 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
7333337 TAGTAAAATA
* *
7333347 TTTAATATAATATTTAAATTTTAAAATTT
1 TTTAATATAATACTTAAATTTAAAAATTT
*
7333376 TTTAATGTAATACTTAAA-TTAAAAATTT
1 TTTAATATAATACTTAAATTTAAAAATTT
*
7333404 ATTAAT
1 TTTAAT
7333410 TAACATTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
TTTAATATAATACTTAAATTTAAAAATTT
Found at i:7333583 original size:19 final size:19
Alignment explanation
Indices: 7333513--7333584 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
7333503 GTTTACAAAT
* *
7333513 TTATAATTCAAATATTATA
1 TTATAATTTAAATATTTTA
7333532 TTATATATTTTTAAA-ATTTTGA
1 TTATA-A--TTTAAATATTTT-A
*
7333554 -TATCATATTAAATATTTTA
1 TTATAAT-TTAAATATTTTA
7333573 TTATAATTTAAA
1 TTATAATTTAAA
7333585 GATAATTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
18 1 0.02
19 16 0.38
20 12 0.29
21 7 0.17
22 6 0.14
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (19 bp):
TTATAATTTAAATATTTTA
Found at i:7338839 original size:6 final size:6
Alignment explanation
Indices: 7338828--7338854 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7338818 ACTTTTCATC
7338828 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
7338855 TTATTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:7338864 original size:18 final size:18
Alignment explanation
Indices: 7338820--7338866 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
7338810 GGGATAGTAC
*
7338820 TTTTCATCTTTATTTTTA
1 TTTTCATTTTTATTTTTA
*
7338838 TTTTTATTTTTATTTTT-
1 TTTTCATTTTTATTTTTA
7338855 TTATTCATTTTT
1 TT-TTCATTTTT
7338867 TAGAAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCATTTTTATTTTTA
Found at i:7339213 original size:23 final size:24
Alignment explanation
Indices: 7339166--7339215 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
7339156 AAATTTTTAA
* *
7339166 AATTTTTTAAATTATAATTACAAT
1 AATTTTTTAAATTACAAATACAAT
*
7339190 AATTTTTT-AATTACAAATATAAT
1 AATTTTTTAAATTACAAATACAAT
7339213 AAT
1 AAT
7339216 AATTATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTTTTTAAATTACAAATACAAT
Found at i:7343063 original size:15 final size:15
Alignment explanation
Indices: 7343043--7343146 Score: 86
Period size: 15 Copynumber: 6.9 Consensus size: 15
7343033 AGCAGCTTAA
*
7343043 ACATGAATTGCAGTT
1 ACATGAACTGCAGTT
*
7343058 ACATGAA-TAGCATTT
1 ACATGAACT-GCAGTT
*
7343073 ACATGAACTGCAGTC
1 ACATGAACTGCAGTT
*
7343088 ACAT-AAGCTGCATTT
1 ACATGAA-CTGCAGTT
* *
7343103 GCATGAACTGTAGTT
1 ACATGAACTGCAGTT
* *
7343118 ACATGAGCTGCATTT
1 ACATGAACTGCAGTT
* *
7343133 GCATGAAATGCAGT
1 ACATGAACTGCAGT
7343147 CCGATGAGCT
Statistics
Matches: 69, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.04
15 63 0.91
16 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (15 bp):
ACATGAACTGCAGTT
Found at i:7343079 original size:30 final size:29
Alignment explanation
Indices: 7343043--7343146 Score: 102
Period size: 30 Copynumber: 3.5 Consensus size: 29
7343033 AGCAGCTTAA
*
7343043 ACATGAATTGCAGTTACATGAATAGCATTT
1 ACATGAACTGCAGTTACATGAAT-GCATTT
*
7343073 ACATGAACTGCAGTCACAT-AAGCTGCATTT
1 ACATGAACTGCAGTTACATGAA--TGCATTT
* * *
7343103 GCATGAACTGTAGTTACATGAGCTGCATTT
1 ACATGAACTGCAGTTACATGA-ATGCATTT
* *
7343133 GCATGAAATGCAGT
1 ACATGAACTGCAGT
7343147 CCGATGAGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
29 2 0.03
30 58 0.94
31 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (29 bp):
ACATGAACTGCAGTTACATGAATGCATTT
Found at i:7343138 original size:60 final size:60
Alignment explanation
Indices: 7343044--7343165 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
7343034 GCAGCTTAAA
* * *
7343044 CATGAATTGCAGTTACATGAATAGCATTTACATGAACTGCAGTCAC-ATAAGCTGCATTTG
1 CATGAACTGCAGTTACATGAATAGCATTTACATGAAATGCAGTC-CGATAAGCTGCAGTTG
* * * *
7343104 CATGAACTGTAGTTACATGAGCT-GCATTTGCATGAAATGCAGTCCGATGAGCTGCAGTTG
1 CATGAACTGCAGTTACATGA-ATAGCATTTACATGAAATGCAGTCCGATAAGCTGCAGTTG
7343164 CA
1 CA
7343166 AAGATTACAG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 1 0.02
60 51 0.96
61 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (60 bp):
CATGAACTGCAGTTACATGAATAGCATTTACATGAAATGCAGTCCGATAAGCTGCAGTTG
Found at i:7343154 original size:30 final size:29
Alignment explanation
Indices: 7343067--7343165 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 29
7343057 TACATGAATA
* *
7343067 GCATTTACATGAACTGCAGTCACATAAGCT
1 GCATTTGCATGAACTGCAGTC-CATGAGCT
* *
7343097 GCATTTGCATGAACTGTAGTTACATGAGCT
1 GCATTTGCATGAACTGCAG-TCCATGAGCT
*
7343127 GCATTTGCATGAAATGCAGTCCGATGAGCT
1 GCATTTGCATGAACTGCAGTCC-ATGAGCT
*
7343157 GCAGTTGCA
1 GCATTTGCA
7343166 AAGATTACAG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.03
30 56 0.95
31 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (29 bp):
GCATTTGCATGAACTGCAGTCCATGAGCT
Found at i:7349671 original size:12 final size:11
Alignment explanation
Indices: 7349640--7349674 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
7349630 CCAAAGACAG
7349640 AAAAAAAAA-A
1 AAAAAAAAAGA
7349650 AAAAAAAAAGA
1 AAAAAAAAAGA
7349661 AAAAGAAAAAGA
1 AAAA-AAAAAGA
7349673 AA
1 AA
7349675 GAGGAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.39
11 5 0.22
12 9 0.39
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:7350196 original size:34 final size:34
Alignment explanation
Indices: 7350158--7350227 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
7350148 AAGAGTCATA
*
7350158 AATTTTAGAACGATTATGTATTAAAATTAATCTT
1 AATTTTAGAACGATTATATATTAAAATTAATCTT
* **
7350192 AATTTTATATTGATTATATATTAAAATTAATCTT
1 AATTTTAGAACGATTATATATTAAAATTAATCTT
7350226 AA
1 AA
7350228 AATATAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (34 bp):
AATTTTAGAACGATTATATATTAAAATTAATCTT
Found at i:7356856 original size:23 final size:23
Alignment explanation
Indices: 7356825--7356875 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
7356815 AATGGACAAT
* *
7356825 AAAATTTATTATAATTATGATTA
1 AAAAATTATTATAATTATAATTA
7356848 AAAAATTATTATAATTATAATTA
1 AAAAATTATTATAATTATAATTA
7356871 AAAAA
1 AAAAA
7356876 ATATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAAATTATTATAATTATAATTA
Found at i:7356892 original size:23 final size:23
Alignment explanation
Indices: 7356844--7356892 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
7356834 TATAATTATG
* * *
7356844 ATTAAAAAATTATTATAATTATA
1 ATTAAAAAAATATTATAATGAAA
7356867 ATTAAAAAAATA-TATTAATGAAA
1 ATTAAAAAAATATTA-TAATGAAA
7356890 ATT
1 ATT
7356893 TTATATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAAAAAAATATTATAATGAAA
Found at i:7363431 original size:23 final size:21
Alignment explanation
Indices: 7363387--7363434 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
7363377 AATTAAATAT
7363387 ATAAAATTTGAAAAAATTTTA
1 ATAAAATTTGAAAAAATTTTA
*
7363408 ATAAATTTTGATAAATAATTTTA
1 ATAAAATTTGA-AAA-AATTTTA
7363431 ATAA
1 ATAA
7363435 GTATGTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 10 0.42
22 3 0.12
23 11 0.46
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
ATAAAATTTGAAAAAATTTTA
Found at i:7374759 original size:2 final size:2
Alignment explanation
Indices: 7374748--7374777 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7374738 CCAGCCAAAA
7374748 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7374778 AAACCTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7376627 original size:2 final size:2
Alignment explanation
Indices: 7376620--7376644 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7376610 TTATTATACT
7376620 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7376645 TATCTCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7379660 original size:19 final size:19
Alignment explanation
Indices: 7379627--7379682 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
7379617 AATAAAAATT
*
7379627 TTAAATTATTTAATATTTA
1 TTAAATTATTAAATATTTA
* *
7379646 TTAAATTAATAAATACTTA
1 TTAAATTATTAAATATTTA
*
7379665 -AAAATTATTAAATTATTT
1 TTAAATTATTAAA-TATTT
7379683 TTATGTCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAATTATTAAATATTTA
Found at i:7384270 original size:4 final size:4
Alignment explanation
Indices: 7384261--7384293 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
7384251 TAATTAAAGC
7384261 AATT AATT AATT AATT AATT -ATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AA
7384294 AGATTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:7384299 original size:15 final size:15
Alignment explanation
Indices: 7384266--7384300 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7384256 AAAGCAATTA
**
7384266 ATTAATTAATTAATT
1 ATTAATTAATTAAAG
7384281 ATTAATTAATTAAAG
1 ATTAATTAATTAAAG
7384296 ATTAA
1 ATTAA
7384301 AAAAAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
ATTAATTAATTAAAG
Found at i:7385659 original size:19 final size:19
Alignment explanation
Indices: 7385635--7385678 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7385625 TTATTCCTTA
*
7385635 TCTTTT-CTGCTTTCTTTTT
1 TCTTTTACT-CTTTCTTCTT
*
7385654 TCTTTTACTTTTTCTTCTT
1 TCTTTTACTCTTTCTTCTT
7385673 TCTTTT
1 TCTTTT
7385679 GTTCTGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.75
Consensus pattern (19 bp):
TCTTTTACTCTTTCTTCTT
Found at i:7393246 original size:94 final size:96
Alignment explanation
Indices: 7393082--7393260 Score: 281
Period size: 94 Copynumber: 1.9 Consensus size: 96
7393072 ACTACAACAA
* * * * **
7393082 AACTAAAGATTTCATATAGCTACTTTAGCCCCTCTATTGGTTTGTAAGTTACTCCTGGGACTGAA
1 AACTAAAGATTTCAAATAGCTACTTTAGCCCATCTATTGGTTTATAAGCTACTCCCCGGACTGAA
7393147 AGAAAAGAAAT-AAA-AAAAGACAACAAGAG
66 AGAAAAGAAATCAAAGAAAAGACAACAAGAG
7393176 AACTAAAGATTTCAAATAGCTACTTTAGCCCATCTATTGGTTTATAAGCTACTCCCCGGACTGAA
1 AACTAAAGATTTCAAATAGCTACTTTAGCCCATCTATTGGTTTATAAGCTACTCCCCGGACTGAA
*
7393241 GGAAAAGAAATCAAAGAAAA
66 AGAAAAGAAATCAAAGAAAA
7393261 CATGCGTTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 69 0.91
95 3 0.04
96 4 0.05
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (96 bp):
AACTAAAGATTTCAAATAGCTACTTTAGCCCATCTATTGGTTTATAAGCTACTCCCCGGACTGAA
AGAAAAGAAATCAAAGAAAAGACAACAAGAG
Found at i:7406367 original size:19 final size:20
Alignment explanation
Indices: 7406336--7406379 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
7406326 TTAAAATTAA
7406336 TTAATTATAAATAAAAAATT
1 TTAATTATAAATAAAAAATT
*
7406356 TTAATT-TAAATATAAAATT
1 TTAATTATAAATAAAAAATT
*
7406375 ATAAT
1 TTAAT
7406380 AAATTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAATTATAAATAAAAAATT
Found at i:7407829 original size:33 final size:33
Alignment explanation
Indices: 7407792--7407854 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
7407782 ATTTAATTAA
* * *
7407792 TTTTTTT-AAAATTTTTTTTATGTATTTTATGG
1 TTTTTTTAAAAATATATTTTATGAATTTTATGG
7407824 TTTTTTTAAAAATATATTTTATGAATTTTAT
1 TTTTTTTAAAAATATATTTTATGAATTTTAT
7407855 TACTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (33 bp):
TTTTTTTAAAAATATATTTTATGAATTTTATGG
Found at i:7408021 original size:21 final size:21
Alignment explanation
Indices: 7407996--7408041 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
7407986 TTTGCATTTG
7407996 TAATTATTAAAATTTGAATTA
1 TAATTATTAAAATTTGAATTA
* *
7408017 TAATTATTAAAATTTTAATTT
1 TAATTATTAAAATTTGAATTA
7408038 TAAT
1 TAAT
7408042 ATTTTATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TAATTATTAAAATTTGAATTA
Found at i:7414326 original size:18 final size:18
Alignment explanation
Indices: 7414303--7414337 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7414293 GTGACTAACT
7414303 GATTAATTAAGTTGATTC
1 GATTAATTAAGTTGATTC
*
7414321 GATTAATTAATTTGATT
1 GATTAATTAAGTTGATT
7414338 GAATCGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (18 bp):
GATTAATTAAGTTGATTC
Found at i:7414874 original size:16 final size:15
Alignment explanation
Indices: 7414853--7414886 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
7414843 CAAATACGAT
7414853 AAAATAATATAATATA
1 AAAATAATATAA-ATA
7414869 AAAATAATATAAATA
1 AAAATAATATAAATA
7414884 AAA
1 AAA
7414887 GATATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATAATATAAATA
Found at i:7418452 original size:60 final size:61
Alignment explanation
Indices: 7418319--7418453 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 61
7418309 TATTTAAATA
* ** * *
7418319 AAACGCC--AATTGAGGGGTTTTATATTTTTATAGGTTCAATTATGGCATAATGTGTAATT
1 AAACGCCGTAATTGAGGGGTTGTATATTTTTATAGACTCAATTACGACATAATGTGTAATT
* * * *
7418378 AAATGTCGTAATTGAGGGGTTGTATATTTTTTTATACTCAA-TACGACATAATGTGTAATT
1 AAACGCCGTAATTGAGGGGTTGTATATTTTTATAGACTCAATTACGACATAATGTGTAATT
7418438 AAACGCCGTAATTGAG
1 AAACGCCGTAATTGAG
7418454 TATGTTTAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
59 5 0.08
60 31 0.49
61 27 0.43
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (61 bp):
AAACGCCGTAATTGAGGGGTTGTATATTTTTATAGACTCAATTACGACATAATGTGTAATT
Found at i:7419685 original size:2 final size:2
Alignment explanation
Indices: 7419678--7419711 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7419668 TTCTGTTTCT
* *
7419678 TC TC TC TC TC TC TC TC TC TC TC GC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7419712 GCCATTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.53, G:0.03, T:0.44
Consensus pattern (2 bp):
TC
Done.