Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 89 of 91
Found at i:15142487 original size:85 final size:86
Alignment explanation
Indices: 15142386--15142609 Score: 230
Period size: 85 Copynumber: 2.6 Consensus size: 86
15142376 TTTTTTTTTT
*
15142386 TTTGAAAAAA-ATAACAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAA-ATA-CT
1 TTTGAAAAAATA-AACAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAACAAAGCT
*
15142448 ACTCTAAA-TAGAGGTTTCATA-AC
65 ACTCTAAACT-GAGG-CTCA-ACAC
* * ** **
15142471 TTTGAAAAAATAAACAAAGCTCATCTAAATAGAGGTTCAATGACTTTGGAAAAATAAACAAAGCT
1 TTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGCACAACAACTTT-GAAAAATAAACAAAGCT
*
15142536 CCTCTAAACTGAGGCTCAACGAC
65 ACTCTAAACTGAGGCTCAAC-AC
* * *
15142559 TTTG-AAAAAT-AA-AATGCTCCTCTAACCAGAGGCACCACAACTTTGAAAAAT
1 TTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAAT
15142610 GTTATTTGAT
Statistics
Matches: 114, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
84 7 0.06
85 62 0.54
86 14 0.12
87 11 0.10
88 19 0.17
89 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (86 bp):
TTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGGCACAACAACTTTGAAAAATAAACAAAGCTA
CTCTAAACTGAGGCTCAACAC
Found at i:15143003 original size:113 final size:114
Alignment explanation
Indices: 15142870--15143140 Score: 384
Period size: 113 Copynumber: 2.4 Consensus size: 114
15142860 ACATCCCAAA
** * * * *
15142870 AGTTCAAAGTTTTTCATTTAAATTTTGAAGGTTCACATTCAAGAAATCTTAAAGTTTCACATTTA
1 AGTTCAAAGTTTTTTGTTTAAATTTTGAAGATTCACATCCAAAAAATCTTAAAGTTTCACATCTA
*
15142935 AGTTCAAAGGTACTCACTC-AAAATTTAGAGATTCGCATGCAAAAGTTG
66 AGTTCAAAGGTACTCACTCAAAAATTTAGAGATTCGCATCCAAAAGTTG
* *
15142983 AGTTCAAAGTTTTTTGTTTAAATTTTGGAGATTCACATCCAAAAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAGTTTTTTGTTTAAATTTTGAAGATTCACATCCAAAAAATCTTAAAGTTTCACATCTA
* *
15143048 AGTTCAAAGGTTCTCACTCAAAAATTTAGAGATTTGCATCCAAAAGTTG
66 AGTTCAAAGGTACTCACTCAAAAATTTAGAGATTCGCATCCAAAAGTTG
* * * *
15143097 AGTTTAAAGCTTTTTGTTTGAATTTT-AGAGATTCATATCCAAAA
1 AGTTCAAAGTTTTTTGTTTAAATTTTGA-AGATTCACATCCAAAA
15143141 GTTCAAAATT
Statistics
Matches: 140, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
113 75 0.54
114 65 0.46
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (114 bp):
AGTTCAAAGTTTTTTGTTTAAATTTTGAAGATTCACATCCAAAAAATCTTAAAGTTTCACATCTA
AGTTCAAAGGTACTCACTCAAAAATTTAGAGATTCGCATCCAAAAGTTG
Found at i:15143130 original size:114 final size:113
Alignment explanation
Indices: 15142870--15143140 Score: 375
Period size: 114 Copynumber: 2.4 Consensus size: 113
15142860 ACATCCCAAA
* * * * *
15142870 AGTTCAAAG-TTTTTCATTTAAATTTT-GAAGGTTCACATTCAAGAAATCTTAAAGTTTCACATT
1 AGTTCAAAGCTTTTT-GTTTAAATTTTAG-AGATTCACATCCAAAAAATCTTAAAGTTTCACATC
*
15142933 TAAGTTCAAAGGTACTCACTCAAAATTTAGAGATTCGCATGCAAAAGTTG
64 TAAGTTCAAAGGTACTCACTCAAAATTTAGAGATTCGCATCCAAAAGTTG
* * *
15142983 AGTTCAAAGTTTTTTGTTTAAATTTTGGAGATTCACATCCAAAAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAGCTTTTTGTTTAAATTTTAGAGATTCACATCCAAAAAATCTTAAAGTTTCACATCTA
* *
15143048 AGTTCAAAGGTTCTCACTCAAAAATTTAGAGATTTGCATCCAAAAGTTG
66 AGTTCAAAGGTACTCACTC-AAAATTTAGAGATTCGCATCCAAAAGTTG
* * *
15143097 AGTTTAAAGCTTTTTGTTTGAATTTTAGAGATTCATATCCAAAA
1 AGTTCAAAGCTTTTTGTTTAAATTTTAGAGATTCACATCCAAAA
15143141 GTTCAAAATT
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 69 0.49
114 72 0.51
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (113 bp):
AGTTCAAAGCTTTTTGTTTAAATTTTAGAGATTCACATCCAAAAAATCTTAAAGTTTCACATCTA
AGTTCAAAGGTACTCACTCAAAATTTAGAGATTCGCATCCAAAAGTTG
Found at i:15143302 original size:79 final size:79
Alignment explanation
Indices: 15143200--15143450 Score: 364
Period size: 79 Copynumber: 3.2 Consensus size: 79
15143190 GTTTCACATC
*
15143200 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGGTTTCACACCTCT-AAG
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGAAAAATTTTGGGTTTCACACCT-TAAAG
15143264 ATTCTCATTTGAAAT
65 ATTCTCATTTGAAAT
* * *
15143279 TCAAAGATTCTCGTTTGAGTTCGAAGATTC-CTATTCGAAAAATTTTGGGTTTCAGACCTTAAAG
1 TCAAAGATTCTCATTTGAATTCGAAGATTCAC-ATTCGAAAAATTTTGGGTTTCACACCTTAAAG
*
15143343 ATTGTCATTTGAAAT
65 ATTCTCATTTGAAAT
* * *
15143358 TCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTTAACACCTTAAAGA
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGAAAAATTTTGGGTTTCACACCTTAAAGA
*
15143423 TTCTCATTTG-AGT
66 TTCTCATTTGAAAT
* *
15143436 TCAAAAATTCACATT
1 TCAAAGATTCTCATT
15143451 CGATAAATTT
Statistics
Matches: 155, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
78 18 0.12
79 136 0.88
80 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (79 bp):
TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGAAAAATTTTGGGTTTCACACCTTAAAGA
TTCTCATTTGAAAT
Found at i:15143387 original size:20 final size:21
Alignment explanation
Indices: 15143339--15143392 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
15143329 TTCAGACCTT
*
15143339 AAAGATTGTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
*
15143360 AAAAATTCTCATTTG-AATTC
1 AAAGATTCTCATTTGAAATTC
* *
15143380 GAAGATTCACATT
1 AAAGATTCTCATT
15143393 CGACAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:15143427 original size:137 final size:137
Alignment explanation
Indices: 15143281--15143570 Score: 375
Period size: 137 Copynumber: 2.1 Consensus size: 137
15143271 TTTGAAATTC
* * * * * *
15143281 AAAGATTCTCGTTTGAGTTCGAAGATTC-CTATTCGAAAAATTTTGGGTTTCAGACCTTAAAGAT
1 AAAGATTCTCATTTGAGTTCAAAAATTCAC-ATTCGAAAAATTTTGAGTTTCACACCTCAAAGAT
* *
15143345 TGTCATTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTT
65 TCTCATTTGAAATTCAAAAATTCTCATTTGAATCCGAAGATTCACATTCGACAAATTTTGGGTTT
15143410 AACACCTT
130 AACACCTT
* *
15143418 AAAGATTCTCATTTGAGTTCAAAAATTCACATTCGATAAATTTTGAGTTTCACACCTCAAATATT
1 AAAGATTCTCATTTGAGTTCAAAAATTCACATTCGAAAAATTTTGAGTTTCACACCTCAAAGATT
* * * * * ** **
15143483 CTCATTTGAAATTCAAAGATTCTTATTTGAGTCCGAAGATTGACATTCGATAAATTTTGAATTGC
66 CTCATTTGAAATTCAAAAATTCTCATTTGAATCCGAAGATTCACATTCGACAAATTTTGGGTTTA
*
15143548 ACACCTC
131 ACACCTT
*
15143555 AAAGATTTTCATTTGA
1 AAAGATTCTCATTTGA
15143571 CAATGTCTTA
Statistics
Matches: 131, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
137 130 0.99
138 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (137 bp):
AAAGATTCTCATTTGAGTTCAAAAATTCACATTCGAAAAATTTTGAGTTTCACACCTCAAAGATT
CTCATTTGAAATTCAAAAATTCTCATTTGAATCCGAAGATTCACATTCGACAAATTTTGGGTTTA
ACACCTT
Found at i:15143459 original size:58 final size:58
Alignment explanation
Indices: 15143358--15143504 Score: 195
Period size: 58 Copynumber: 2.5 Consensus size: 58
15143348 CATTTGAAAT
* * * *
15143358 TCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGGGTTTAACACC
1 TCAAAGATTCTCATTTGAATTCAAAAATTCACATTCGACAAATTTTGAGTTTAACACC
* * * *
15143416 TTAAAGATTCTCATTTGAGTTCAAAAATTCACATTCGATAAATTTTGAGTTTCACACC
1 TCAAAGATTCTCATTTGAATTCAAAAATTCACATTCGACAAATTTTGAGTTTAACACC
* *
15143474 TCAAATATTCTCATTTGAAATTCAAAGATTC
1 TCAAAGATTCTCATTTG-AATTCAAAAATTC
15143505 TTATTTGAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
58 65 0.86
59 11 0.14
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (58 bp):
TCAAAGATTCTCATTTGAATTCAAAAATTCACATTCGACAAATTTTGAGTTTAACACC
Found at i:15143479 original size:79 final size:78
Alignment explanation
Indices: 15143318--15143557 Score: 179
Period size: 79 Copynumber: 3.0 Consensus size: 78
15143308 CCTATTCGAA
* * * * *
15143318 AAATTTTGGGTTTCAGACCTTAAAGATTGTCATTTGAAATTCAAAAATTCTCATT---TGAA-TT
1 AAATTTTGGGTTT-AAACCTTAAAGATTCTCATTTG-AGTTCAAAAATTCACATTCGATAAATTT
* * **
15143379 CGAAGATTCACATTCGAC
64 TG-AGTTTCACA--CCTC
15143397 AAATTTTGGGTTTAACACCTTAAAGATTCTCATTTGAGTTCAAAAATTCACATTCGATAAATTTT
1 AAATTTTGGGTTTAA-ACCTTAAAGATTCTCATTTGAGTTCAAAAATTCACATTCGATAAATTTT
15143462 GAGTTTCACACCTC
65 GAGTTTCACACCTC
** * * * * *
15143476 AAATATTCT-CATTTGAAA--TTCAAAGATTCTTATTTGAGTCCGAAGATTGACATTCGATAAAT
1 AAAT-TT-TGGGTTT-AAACCTT-AAAGATTCTCATTTGAGTTCAAAAATTCACATTCGATAAAT
* *
15143538 TTTGAATTGCACACCTC
62 TTTGAGTTTCACACCTC
15143555 AAA
1 AAA
15143558 GATTTTCATT
Statistics
Matches: 134, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
78 19 0.14
79 92 0.69
80 6 0.04
81 14 0.10
82 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (78 bp):
AAATTTTGGGTTTAAACCTTAAAGATTCTCATTTGAGTTCAAAAATTCACATTCGATAAATTTTG
AGTTTCACACCTC
Found at i:15143567 original size:79 final size:82
Alignment explanation
Indices: 15143417--15143593 Score: 243
Period size: 79 Copynumber: 2.2 Consensus size: 82
15143407 TTTAACACCT
* * * * *
15143417 TAAAGATTCTCATTTGAGTTCAAAAATTCACATTCGATAAATTTTGAGTTTCACACCTCAAATAT
1 TAAAGATTCTTATTTGAGTCCAAAAATTCACATTCGATAAATTTTGAATTGCACACCTCAAAGAT
15143482 TCTCATTTGA-AAT-TC
66 TCTCATTTGACAATGTC
* * *
15143497 -AAAGATTCTTATTTGAGTCCGAAGATTGACATTCGATAAATTTTGAATTGCACACCTCAAAGAT
1 TAAAGATTCTTATTTGAGTCCAAAAATTCACATTCGATAAATTTTGAATTGCACACCTCAAAGAT
*
15143561 TTTCATTTGACAATGTC
66 TCTCATTTGACAATGTC
15143578 TTAAAGATTCTTATTT
1 -TAAAGATTCTTATTT
15143594 AAGACTCAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 65 0.77
80 3 0.04
81 2 0.02
83 14 0.17
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (82 bp):
TAAAGATTCTTATTTGAGTCCAAAAATTCACATTCGATAAATTTTGAATTGCACACCTCAAAGAT
TCTCATTTGACAATGTC
Found at i:15143604 original size:46 final size:46
Alignment explanation
Indices: 15143552--15143776 Score: 278
Period size: 46 Copynumber: 4.9 Consensus size: 46
15143542 AATTGCACAC
*
15143552 CTCAAAGATTTTCATTTGACAATGTCTTAAAGATTCTTATTTAAGA
1 CTCAAAGATTTTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGA
* * *
15143598 CTCAAAGATTCTT-ATTTGGAAATGTCTTAAAGATTCTCATTTAATA
1 CTCAAAGATT-TTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGA
* * *
15143644 CTTAAAGATTCTCATTTGAAAACGTCTTAAAGATT-TTCATTTAAGA
1 CTCAAAGATTTTCATTTGAAAATGTCTTAAAGATTCTT-ATTTAAGA
* ** * *
15143690 CTCAAAGATTCTCATTTGAAAACATCTTAAAGGTTCTCATTTAAGA
1 CTCAAAGATTTTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGA
*
15143736 CTCAAAGATTCTT-ATTTGAAAATGTCTTAAA-ACTCTTATTT
1 CTCAAAGATT-TTCATTTGAAAATGTCTTAAAGATTCTTATTT
15143777 GAAAATGTCT
Statistics
Matches: 154, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
45 9 0.06
46 141 0.92
47 4 0.03
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (46 bp):
CTCAAAGATTTTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGA
Found at i:15143606 original size:21 final size:21
Alignment explanation
Indices: 15143580--15143752 Score: 139
Period size: 21 Copynumber: 7.7 Consensus size: 21
15143570 ACAATGTCTT
*
15143580 AAAGATTCTTATTTAAGACTC
1 AAAGATTCTCATTTAAGACTC
* * *
15143601 AAAGATTCTTATTTGGAAATGTCTT
1 AAAGATTCTCATTT---AA-GACTC
* *
15143626 AAAGATTCTCATTTAATACTT
1 AAAGATTCTCATTTAAGACTC
*
15143647 AAAGATTCTCATTTGAAAACGTC
1 AAAGATTCTCATTT-AAGAC-TC
*
15143670 TTAAAGATTTTCATTTAAGACTC
1 --AAAGATTCTCATTTAAGACTC
*
15143693 AAAGATTCTCATTTGAAAACATC
1 AAAGATTCTCATTT-AAGAC-TC
*
15143716 TTAAAGGTTCTCATTTAAGACTC
1 --AAAGATTCTCATTTAAGACTC
*
15143739 AAAGATTCTTATTT
1 AAAGATTCTCATTT
15143753 GAAAATGTCT
Statistics
Matches: 125, Mismatches: 15, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
21 56 0.45
22 10 0.08
23 7 0.06
24 10 0.08
25 42 0.34
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (21 bp):
AAAGATTCTCATTTAAGACTC
Found at i:15143718 original size:92 final size:92
Alignment explanation
Indices: 15143552--15143776 Score: 319
Period size: 92 Copynumber: 2.5 Consensus size: 92
15143542 AATTGCACAC
* * * *
15143552 CTCAAAGATTTTCATTTGACAATGTCTTAAAGATTCTTATTTAAGACTCAAAGATTCTTATTTGG
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGACTCAAAGATTCTCATTTGA
** *
15143617 AAATGTCTTAAAGATTCTCATTTAATA
66 AAACATCTTAAAGATTCTCATTTAAGA
* *
15143644 CTTAAAGATTCTCATTTGAAAACGTCTTAAAGATT-TTCATTTAAGACTCAAAGATTCTCATTTG
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTT-ATTTAAGACTCAAAGATTCTCATTTG
*
15143708 AAAACATCTTAAAGGTTCTCATTTAAGA
65 AAAACATCTTAAAGATTCTCATTTAAGA
* *
15143736 CTCAAAGATTCTTATTTGAAAATGTCTTAAA-ACTCTTATTT
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTTATTT
15143777 GAAAATGTCT
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 8 0.07
92 109 0.93
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (92 bp):
CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTTATTTAAGACTCAAAGATTCTCATTTGA
AAACATCTTAAAGATTCTCATTTAAGA
Found at i:15143772 original size:24 final size:24
Alignment explanation
Indices: 15143745--15143790 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
15143735 ACTCAAAGAT
15143745 TCTTATTTGAAAATGTCTTAAAAC
1 TCTTATTTGAAAATGTCTTAAAAC
15143769 TCTTATTTGAAAATGTCTTAAA
1 TCTTATTTGAAAATGTCTTAAA
15143791 GATTTTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (24 bp):
TCTTATTTGAAAATGTCTTAAAAC
Found at i:15143834 original size:70 final size:70
Alignment explanation
Indices: 15143576--15143824 Score: 226
Period size: 70 Copynumber: 3.6 Consensus size: 70
15143566 TTTGACAATG
* * * * *
15143576 TCTTAAAGATTCTTATTTAAGACTCAAAGATTCTTATTTGGAAATGTCTTAAAGATTCTCATTT-
1 TCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAA-ACTCTTATTTG
*
15143640 --AATA
65 AAAACA
* * * * * *
15143644 -CTTAAAGATTCTCATTTGAAAACGTCTTAAAGATTTTCATTT---AA-GACTCAAAGATTCTCA
1 TCTTAAAGATTCTCATTT-AAGAC-TC--AAAGATTCTCATTTGAAAATGTCTTAAA-ACTCTTA
15143704 TTTGAAAACA
61 TTTGAAAACA
* *
15143714 TCTTAAAGGTTCTCATTTAAGACTCAAAGATTCTTATTTGAAAATGTCTTAAAACTCTTATTTGA
1 TCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAACTCTTATTTGA
**
15143779 AAATG
66 AAACA
* *
15143784 TCTTAAAGATTTTCATTTAAGATTCAAAGATTCTCATTTGA
1 TCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGA
15143825 GGATTTCTTA
Statistics
Matches: 148, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
67 45 0.30
68 6 0.04
69 4 0.03
70 59 0.40
71 34 0.23
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (70 bp):
TCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAAATGTCTTAAAACTCTTATTTGA
AAACA
Found at i:15143838 original size:36 final size:36
Alignment explanation
Indices: 15143798--15143870 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
15143788 AAAGATTTTC
* *
15143798 ATTTAAGATTCAAAGATTCTCATTTGAGGATTTCTT
1 ATTTAAAACTCAAAGATTCTCATTTGAGGATTTCTT
*
15143834 ATTTAAAACTCAAAGATTTTCATTTGAGGATTTCTT
1 ATTTAAAACTCAAAGATTCTCATTTGAGGATTTCTT
15143870 A
1 A
15143871 AAGATTCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (36 bp):
ATTTAAAACTCAAAGATTCTCATTTGAGGATTTCTT
Found at i:15145013 original size:49 final size:49
Alignment explanation
Indices: 15144960--15145057 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
15144950 ACCCTTTTGG
15144960 ATTTTTAATTTGAGTCTTTCTTTTCTCTCTTTTTCATCTTTTTTTTTCA
1 ATTTTTAATTTGAGTCTTTCTTTTCTCTCTTTTTCATCTTTTTTTTTCA
15145009 ATTTTTAATTTGAGTCTTTCTTTTCTCTCTTTTTCATCTTTTTTTTTCA
1 ATTTTTAATTTGAGTCTTTCTTTTCTCTCTTTTTCATCTTTTTTTTTCA
15145058 TTCTTTCATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.12, C:0.16, G:0.04, T:0.67
Consensus pattern (49 bp):
ATTTTTAATTTGAGTCTTTCTTTTCTCTCTTTTTCATCTTTTTTTTTCA
Found at i:15145070 original size:20 final size:20
Alignment explanation
Indices: 15145040--15145101 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
15145030 TTTCTCTCTT
15145040 TTTCATCTTTTTTTTTCATTC
1 TTTCAT-TTTTTTTTTCATTC
15145061 TTTCATTTTTTTTTTCATT-
1 TTTCATTTTTTTTTTCATTC
*
15145080 TTATCCTTTTTTATTTTC-TTC
1 TT-TCATTTTTT-TTTTCATTC
15145101 T
1 T
15145102 CTTTTCATCC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 2 0.05
20 23 0.62
21 12 0.32
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCATTTTTTTTTTCATTC
Found at i:15149127 original size:55 final size:55
Alignment explanation
Indices: 15149068--15149213 Score: 197
Period size: 55 Copynumber: 2.6 Consensus size: 55
15149058 GCTTTTGCAC
* * **
15149068 AAAGAAAATTGATACTTTCAAATTTTCCTTAAAATGTTTTTT-TTTTTGTATTTTT
1 AAAGAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTAAATTT-TATTTTT
*
15149123 AAAGAAAATTGGTACTTTCAACTTTTCCTCAAAATGTTTTTTACAAATTTTATTTTT
1 AAAGAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTT--AAATTTTATTTTT
15149180 -AAGAAAAATTGATACTTTCAACTTTTCCTCAAAA
1 AAAG-AAAATTGATACTTTCAACTTTTCCTCAAAA
15149214 ATATATATAT
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
55 39 0.48
56 3 0.04
57 36 0.44
58 3 0.04
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (55 bp):
AAAGAAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTAAATTTTATTTTT
Found at i:15149198 original size:57 final size:56
Alignment explanation
Indices: 15149072--15149302 Score: 198
Period size: 64 Copynumber: 3.9 Consensus size: 56
15149062 TTGCACAAAG
* * **
15149072 AAAATTGATACTTTCAAATTTTCCTTAAAATGTTTTTT--TTTTTGTATTTTTAA-A
1 AAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTAAAATTT-TATTTTTAAGA
*
15149126 GAAAATTGGTACTTTCAACTTTTCCTCAAAATGTTTTTTACAAATTTTATTTTTAAGA
1 -AAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTA-AAATTTTATTTTTAAGA
* ** *
15149184 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATATATTTTTTTAAAAAATTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTC----A-A-A-AT-GTTTTTTAAAATTTTATTTTTAAGA
* * *
15149248 AAAATTGATACTTTTAACTTTTCTTCAAAATTATATTTTTAAAAATGTTTATTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-TGT-TTTTT-AAAAT-TTTATTTT
15149303 AAATAGATCA
Statistics
Matches: 145, Mismatches: 15, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
55 35 0.24
57 36 0.25
58 11 0.08
59 5 0.03
60 8 0.06
61 1 0.01
62 1 0.01
63 1 0.01
64 40 0.28
65 7 0.05
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTAAAATTTTATTTTTAAGA
Found at i:15150079 original size:20 final size:19
Alignment explanation
Indices: 15150035--15150080 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
15150025 TTCTGCTTCC
*
15150035 TTCTTTTTGTTTTTGATTT
1 TTCTTTCTGTTTTTGATTT
*
15150054 TCTCTTTCTGTTTTTGCGTTT
1 T-TCTTTCTGTTTTTG-ATTT
15150075 TTCTTT
1 TTCTTT
15150081 TTTGTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 4 0.17
ACGTcount: A:0.02, C:0.13, G:0.11, T:0.74
Consensus pattern (19 bp):
TTCTTTCTGTTTTTGATTT
Found at i:15150432 original size:5 final size:5
Alignment explanation
Indices: 15150422--15150446 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15150412 TTCAAGCGTT
15150422 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
15150447 ATGATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:15153055 original size:28 final size:31
Alignment explanation
Indices: 15153004--15153067 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 31
15152994 TTAGCCGAAA
** *
15153004 AAAAATTTCATAAAAGCTACACTACT-A-GT
1 AAAAATTTCATAAAAAATAAACTACTAAGGT
15153033 AAAAA-TTCATAAAAAATAAACTACTAAGGT
1 AAAAATTTCATAAAAAATAAACTACTAAGGT
15153063 AAAAA
1 AAAAA
15153068 AGTTGTTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 17 0.57
29 6 0.20
30 7 0.23
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.23
Consensus pattern (31 bp):
AAAAATTTCATAAAAAATAAACTACTAAGGT
Found at i:15154593 original size:15 final size:16
Alignment explanation
Indices: 15154564--15154604 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
15154554 ATTTATTTTC
15154564 AATAAAAAA-ACTAAA
1 AATAAAAAATACTAAA
15154579 AATAAAAAATA-TAAA
1 AATAAAAAATACTAAA
* *
15154594 ATTAATAAATA
1 AATAAAAAATA
15154605 GTTTGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAAAAATACTAAA
Found at i:15154675 original size:25 final size:26
Alignment explanation
Indices: 15154630--15154681 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
15154620 CAAATTATCC
*
15154630 AATGATGAGATTGTTAGAAAT-TTTA
1 AATGATGAGATTGTTAAAAATCTTTA
*
15154655 AATGATGA-ATTTTTAAAAAATCTTTA
1 AATGATGAGATTGTT-AAAAATCTTTA
15154681 A
1 A
15154682 GTGAGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 13 0.57
26 5 0.22
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (26 bp):
AATGATGAGATTGTTAAAAATCTTTA
Found at i:15154738 original size:199 final size:198
Alignment explanation
Indices: 15154407--15154770 Score: 428
Period size: 199 Copynumber: 1.8 Consensus size: 198
15154397 AAAATAATTT
* *
15154407 TTTGAGAATAAATAATAATTATCCAATGATAGAATTTTTAAAAGTTTTAAATGATAAATTTCTAT
1 TTTGAGAATAAATAATAATTATCCAATGATAGAATTGTTAAAAGTTTTAAATGATAAATTTCTAA
* * *
15154472 AAATTTCCTAGGTGAAAAAGTTTTTCTAGATTTGTCCCAAATGTGAAATAATTTAGAAAAGATTT
66 AAATTT-CTAAGTGAAAAAGTTCTTCTAGATTTGTCCCAAAAGTGAAATAATTTAGAAAAGATTT
15154537 CAATAATAA-TAATTAATATT-TATTTTC-AATAAAAAAACTAAAAATAAAAAATATAAAATTAA
130 CAATAA-AAGTAATT-ATATTCT-TTTTCAAATAAAAAAACTAAAAATAAAAAATATAAAATTAA
15154599 TAAATAG
192 TAAATAG
*
15154606 TTTGA-AATTAAATACA-AATTATCCAATGAT-GAGATTGTTAGAAA-TTTTAAATGATGAATTT
1 TTTGAGAA-TAAATA-ATAATTATCCAATGATAGA-ATTGTTA-AAAGTTTTAAATGATAAATTT
* * *
15154667 TTAAAAAATCTT-TAAGTGAGAAAA-TTCTT-TAGATTTGTCCCAAAAGATGGAATATTTTA-AA
62 CT-AAAAAT-TTCTAAGTGA-AAAAGTTCTTCTAGATTTGTCCCAAAAG-TGAAATAATTTAGAA
*
15154728 TGAA-ATTTCAATAAAAGTAATTGTATTCTTTTTCAAATAAAAA
123 --AAGATTTCAATAAAAGTAATTATATTCTTTTTCAAATAAAAA
15154771 TTGTGGTTGA
Statistics
Matches: 142, Mismatches: 10, Indels: 26
0.80 0.06 0.15
Matches are distributed among these distances:
198 33 0.23
199 92 0.65
200 15 0.11
201 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.37
Consensus pattern (198 bp):
TTTGAGAATAAATAATAATTATCCAATGATAGAATTGTTAAAAGTTTTAAATGATAAATTTCTAA
AAATTTCTAAGTGAAAAAGTTCTTCTAGATTTGTCCCAAAAGTGAAATAATTTAGAAAAGATTTC
AATAAAAGTAATTATATTCTTTTTCAAATAAAAAAACTAAAAATAAAAAATATAAAATTAATAAA
TAG
Found at i:15167269 original size:29 final size:29
Alignment explanation
Indices: 15167206--15167273 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
15167196 ATATGTTACG
*
15167206 ATAATATA-ATAAAAATATGATATTAAATT
1 ATAATATATA-AAAAATATAATATTAAATT
*
15167235 AAAATATATAAAAAATATAAT-TTAAAATT
1 ATAATATATAAAAAATATAATATT-AAATT
*
15167264 TTAATA-ATAA
1 ATAATATATAA
15167274 TTATTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 6 0.18
29 26 0.79
30 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (29 bp):
ATAATATATAAAAAATATAATATTAAATT
Found at i:15167288 original size:22 final size:21
Alignment explanation
Indices: 15167233--15167297 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
15167223 TGATATTAAA
* *
15167233 TTAAAATATATAAAAAATATAAT
1 TTAAAAT-TTTAAAAAA-ATTAT
*
15167256 TTAAAATTTTAATAATAATTAT
1 TTAAAATTTTAA-AAAAATTAT
15167278 TTATAAA-TTTAAAAAAATTA
1 TTA-AAATTTTAAAAAAATTA
15167298 AAAAATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 7 0.19
22 16 0.44
23 13 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAATTTTAAAAAAATTAT
Found at i:15168068 original size:19 final size:19
Alignment explanation
Indices: 15168029--15168069 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
15168019 ACATGTTTTA
*
15168029 TTTATATTTTTAATTATTT
1 TTTATATTTTTAAATATTT
*
15168048 TTTAT-TTTTTAAATATGT
1 TTTATATTTTTAAATATTT
15168066 TTTA
1 TTTA
15168070 AAAATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATATTTTTAAATATTT
Found at i:15168747 original size:23 final size:20
Alignment explanation
Indices: 15168698--15168747 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 20
15168688 ATAATTATTT
15168698 TTAATTAGTAAAAATAAAAAA
1 TTAA-TAGTAAAAATAAAAAA
*
15168719 TAAATAGTTAAAAATATATAAAA
1 TTAATAG-TAAAAATA-A-AAAA
15168742 TTAATA
1 TTAATA
15168748 TAATTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.12
21 11 0.46
22 1 0.04
23 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
TTAATAGTAAAAATAAAAAA
Found at i:15168754 original size:25 final size:23
Alignment explanation
Indices: 15168706--15168762 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 23
15168696 TTTTAATTAG
*
15168706 TAAAAATA-A-AAAATAAATAGT
1 TAAAAATATATAAAATAAATAAT
15168727 TAAAAATATATAAAATTAATATAAT
1 TAAAAATATATAAAA-TAA-ATAAT
*
15168752 TAAATATATAT
1 TAAAAATATAT
15168763 TTTAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 8 0.27
22 1 0.03
23 4 0.13
24 3 0.10
25 14 0.47
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TAAAAATATATAAAATAAATAAT
Found at i:15168914 original size:16 final size:17
Alignment explanation
Indices: 15168893--15168925 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15168883 AAATAAAACT
15168893 ATTAAAAA-TTTAATGA
1 ATTAAAAATTTTAATGA
15168909 ATTAAAAATTTTAATGA
1 ATTAAAAATTTTAATGA
15168926 TTTATCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTAAAAATTTTAATGA
Found at i:15181913 original size:22 final size:22
Alignment explanation
Indices: 15181888--15181930 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15181878 AGCAACAGTA
15181888 AAACACAATCCCAAAGACCAGG
1 AAACACAATCCCAAAGACCAGG
* *
15181910 AAACATAGTCCCAAAGACCAG
1 AAACACAATCCCAAAGACCAG
15181931 TACCATCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.30, G:0.14, T:0.07
Consensus pattern (22 bp):
AAACACAATCCCAAAGACCAGG
Found at i:15184641 original size:1 final size:1
Alignment explanation
Indices: 15184635--15184666 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
15184625 GTTTGTTAAG
15184635 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15184667 CAAATGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15193291 original size:34 final size:34
Alignment explanation
Indices: 15193238--15193313 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 34
15193228 AAAACATTTG
* * * *
15193238 TTTATAATAGCTAACAATGAAATAGTTATAATTA
1 TTTATAATAACTAACAATGAAAGAATTATAACTA
* *
15193272 TTTATAATAATTAATAATGAAAGAATTATAACTA
1 TTTATAATAACTAACAATGAAAGAATTATAACTA
15193306 TTTA-AATA
1 TTTATAATA
15193314 TTCTTAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 4 0.11
34 32 0.89
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (34 bp):
TTTATAATAACTAACAATGAAAGAATTATAACTA
Found at i:15194740 original size:2 final size:2
Alignment explanation
Indices: 15194733--15194765 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15194723 AGTTGTGACC
15194733 AT AT AT AT 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 AT A
15194766 AGCAACTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15195869 original size:14 final size:14
Alignment explanation
Indices: 15195850--15195887 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
15195840 AATAAATAAA
* *
15195850 TTAATAACATAATT
1 TTAATAAAATAACT
15195864 TTAATAAAATAACT
1 TTAATAAAATAACT
15195878 TTAATAAAAT
1 TTAATAAAAT
15195888 GGATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (14 bp):
TTAATAAAATAACT
Found at i:15196444 original size:34 final size:34
Alignment explanation
Indices: 15196396--15196467 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
15196386 AAAATGTTTG
* *
15196396 TTTATAATAGTTAATACTAAAAGAGTTATAACTA
1 TTTATAATAATTAATAATAAAAGAGTTATAACTA
*
15196430 TTTATAATAATTAATAATGAAAGAGTTATAACTA
1 TTTATAATAATTAATAATAAAAGAGTTATAACTA
15196464 TTTA
1 TTTA
15196468 ATATGTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.40
Consensus pattern (34 bp):
TTTATAATAATTAATAATAAAAGAGTTATAACTA
Found at i:15199027 original size:14 final size:14
Alignment explanation
Indices: 15199010--15199045 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
15199000 TACCAACAAA
*
15199010 TTAATAAATTAATT
1 TTAATAAATTAACT
15199024 TTAATAAATTAACT
1 TTAATAAATTAACT
15199038 TTAATAAA
1 TTAATAAA
15199046 GTGAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATAAATTAACT
Found at i:15199063 original size:38 final size:37
Alignment explanation
Indices: 15199012--15199083 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
15199002 CCAACAAATT
*
15199012 AATAAATTAATTTTAATAAATTAACTTTAATAAAGTG
1 AATAAATTAATTTTAATAAAATAACTTTAATAAAGTG
* * *
15199049 AATAGAATTTATTTTATTAAAATAATTTTAATAAA
1 AATA-AATTAATTTTAATAAAATAACTTTAATAAA
15199084 ATTGACATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.13
38 26 0.87
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (37 bp):
AATAAATTAATTTTAATAAAATAACTTTAATAAAGTG
Found at i:15199219 original size:2 final size:2
Alignment explanation
Indices: 15199212--15199241 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15199202 AGCATACATA
15199212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15199242 TTTAGATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15203210 original size:13 final size:12
Alignment explanation
Indices: 15203162--15203201 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
15203152 GAAAGGTTTG
15203162 ATAAA-TTTATA
1 ATAAATTTTATA
15203173 ATAAATTTTATA
1 ATAAATTTTATA
15203185 CAT-AATTTTATA
1 -ATAAATTTTATA
15203197 ATAAA
1 ATAAA
15203202 ATCTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 17 0.65
13 2 0.08
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
ATAAATTTTATA
Found at i:15205969 original size:13 final size:12
Alignment explanation
Indices: 15205951--15205997 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
15205941 TTCAGTAATT
15205951 TTATAAGATTTTA
1 TTATAA-ATTTTA
*
15205964 TTATAAA-ATTA
1 TTATAAATTTTA
*
15205975 TGTATAAAATTTA
1 T-TATAAATTTTA
15205988 TTATAAATTT
1 TTATAAATTT
15205998 ATCAAACCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 4 0.14
12 15 0.52
13 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (12 bp):
TTATAAATTTTA
Found at i:15205997 original size:11 final size:11
Alignment explanation
Indices: 15205960--15205999 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
15205950 TTTATAAGAT
15205960 TTTATTATAAA
1 TTTATTATAAA
*
15205971 ATTATGTATAAAA
1 TTTAT-TAT-AAA
15205984 TTTATTATAAA
1 TTTATTATAAA
15205995 TTTAT
1 TTTAT
15206000 CAAACCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 12 0.48
12 6 0.24
13 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
TTTATTATAAA
Found at i:15209680 original size:38 final size:37
Alignment explanation
Indices: 15209638--15209709 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
15209628 CTATGTCAAT
*
15209638 TTTATTAAAATTATTTTAATAAAATAAATTCTATTCAC
1 TTTATTAAAATTAATTTAATAAAATAAATT-TATTCAC
* * *
15209676 TTTATTAAAGTTAATTTATTAAAATTAATTTATT
1 TTTATTAAAATTAATTTAATAAAATAAATTTATT
15209710 AATTTGTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.13
38 26 0.87
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (37 bp):
TTTATTAAAATTAATTTAATAAAATAAATTTATTCAC
Found at i:15209695 original size:14 final size:14
Alignment explanation
Indices: 15209676--15209711 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
15209666 TTCTATTCAC
*
15209676 TTTATTAAAGTTAA
1 TTTATTAAAATTAA
15209690 TTTATTAAAATTAA
1 TTTATTAAAATTAA
15209704 TTTATTAA
1 TTTATTAA
15209712 TTTGTTGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTATTAAAATTAA
Found at i:15212298 original size:34 final size:34
Alignment explanation
Indices: 15212251--15212326 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
15212241 CATTTAAACA
* *
15212251 TATT-TAAATAGTTATAACTCTTTCATTATTAAT
1 TATTATAAATAGTTATAACTCTTTCAGTATTAAC
*
15212284 TATTATAAATAGTTATAACTCTTTTAGTATTAAC
1 TATTATAAATAGTTATAACTCTTTCAGTATTAAC
15212318 TATTATAAA
1 TATTATAAA
15212327 CAAACATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (34 bp):
TATTATAAATAGTTATAACTCTTTCAGTATTAAC
Found at i:15212855 original size:14 final size:14
Alignment explanation
Indices: 15212836--15212873 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
15212826 AATTTTATCC
*
15212836 ATTTTATTAAAGTT
1 ATTTTATTAAAATT
15212850 ATTTTATTAAAATT
1 ATTTTATTAAAATT
15212864 ATTTTATTAA
1 ATTTTATTAA
15212874 TTTATTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
ATTTTATTAAAATT
Found at i:15212861 original size:38 final size:37
Alignment explanation
Indices: 15212798--15212870 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
15212788 TTTTATGTCA
15212798 ATTTTATTAAAATTACTTTGATAAAATAAATTTTATCC
1 ATTTTATTAAAATTACTTTGATAAAAT-AATTTTATCC
* * *
15212836 ATTTTATTAAAGTTA-TTTTATTAAAATTATTTTAT
1 ATTTTATTAAAATTACTTTGA-TAAAATAATTTTAT
15212871 TAATTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 11 0.35
38 20 0.65
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (37 bp):
ATTTTATTAAAATTACTTTGATAAAATAATTTTATCC
Found at i:15213974 original size:2 final size:2
Alignment explanation
Indices: 15213967--15214008 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15213957 AATAGTTGCT
15213967 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
15214009 AGGTCACAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15215478 original size:34 final size:34
Alignment explanation
Indices: 15215429--15215504 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
15215419 TGTTTAAGCA
* * * *
15215429 TATT-TAAATAGTTATAATTCTTTCATTATTAAT
1 TATTATAAATAATTATAACTATTTCATTATTAAC
*
15215462 TATTATAAATAATTATAACTATTTCATTATTAGC
1 TATTATAAATAATTATAACTATTTCATTATTAAC
15215496 TATTATAAA
1 TATTATAAA
15215505 CAGATGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 4 0.11
34 33 0.89
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.50
Consensus pattern (34 bp):
TATTATAAATAATTATAACTATTTCATTATTAAC
Found at i:15223985 original size:22 final size:23
Alignment explanation
Indices: 15223954--15224003 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
15223944 GGTGTGTGTT
* *
15223954 GAAAACCAAGCAGAA-AAAGA-A
1 GAAAACCAAGAAAAACAAAGAGA
15223975 GAAAAGCCAAGAAAAACAAAGAGA
1 GAAAA-CCAAGAAAAACAAAGAGA
15223999 GAAAA
1 GAAAA
15224004 AGGAGAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 5 0.21
24 6 0.25
ACGTcount: A:0.68, C:0.12, G:0.20, T:0.00
Consensus pattern (23 bp):
GAAAACCAAGAAAAACAAAGAGA
Found at i:15226334 original size:11 final size:11
Alignment explanation
Indices: 15226318--15226359 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
15226308 AATCCCATAA
15226318 GAGATTTGTTT
1 GAGATTTGTTT
*
15226329 GAGATTTGTTA
1 GAGATTTGTTT
*
15226340 GAGATTTATTT
1 GAGATTTGTTT
*
15226351 GGGATTTGT
1 GAGATTTGT
15226360 CAGATATTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:15226345 original size:22 final size:22
Alignment explanation
Indices: 15226317--15226359 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15226307 AAATCCCATA
*
15226317 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
*
15226339 AGAGATTTATTTGGGATTTGT
1 AGAGATTTATTTGAGATTTGT
15226360 CAGATATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:15226472 original size:52 final size:52
Alignment explanation
Indices: 15226416--15226540 Score: 180
Period size: 52 Copynumber: 2.4 Consensus size: 52
15226406 AGAGAAAGAA
* * *
15226416 GATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAGAATTCTAAAAGGAAAGG
1 GATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAAG
* * *
15226468 GATTCTTAATAGGCAAGTTTGACTTATAGGAGAAGAATTCTAAGAGGAAAAG
1 GATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAAG
15226520 GATTCTTAAT-GGACAAGTTTG
1 GATTCTTAATAGG-CAAGTTTG
15226541 TATGGTTATA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 2 0.03
52 64 0.97
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (52 bp):
GATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAAG
Found at i:15236703 original size:29 final size:28
Alignment explanation
Indices: 15236662--15236716 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
15236652 AAAAATTTTC
15236662 TTTTTTTATATTTTACTATTTTTATTAA
1 TTTTTTTATATTTTACTATTTTTATTAA
* *
15236690 TTTTTTTGTTATTTTTCTATTTTTATT
1 TTTTTTT-ATATTTTACTATTTTTATT
15236717 CTAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (28 bp):
TTTTTTTATATTTTACTATTTTTATTAA
Found at i:15236883 original size:13 final size:13
Alignment explanation
Indices: 15236857--15236892 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
15236847 TAACTATGTA
*
15236857 TTTCATTATTTAT
1 TTTCATTTTTTAT
*
15236870 TTTTATTTTTTAT
1 TTTCATTTTTTAT
15236883 TTTCATTTTT
1 TTTCATTTTT
15236893 ACTAACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCATTTTTTAT
Found at i:15237005 original size:28 final size:29
Alignment explanation
Indices: 15236929--15237005 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 29
15236919 AGATTTATTC
* * *
15236929 TAATAAATA-AAT-TTAAACATTTTAACA
1 TAATAAAAATAATATTAAAAATTCTAACA
*
15236956 TACATAAAAATTAATAAT-AAAATTCTAA-A
1 TA-ATAAAAA-TAATATTAAAAATTCTAACA
15236985 TAATAAAAATAATATTAAAAA
1 TAATAAAAATAATATTAAAAA
15237006 AAAAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 8 0.20
28 17 0.43
29 3 0.08
30 11 0.28
31 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
TAATAAAAATAATATTAAAAATTCTAACA
Found at i:15237734 original size:32 final size:32
Alignment explanation
Indices: 15237667--15237734 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 32
15237657 AGAACCTTTT
*
15237667 TTTTCTTTTTTCTTTTTTGGCAAGGTTTCTTC
1 TTTTCTTTTTTCTTTTTTGGCAAGGTTTCTAC
15237699 TTTTCTTTTTT-TTTTTTGGTCAAGGTTT-TCAC
1 TTTTCTTTTTTCTTTTTTGG-CAAGGTTTCT-AC
15237731 TTTT
1 TTTT
15237735 TTGTTTGTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.07, C:0.13, G:0.12, T:0.68
Consensus pattern (32 bp):
TTTTCTTTTTTCTTTTTTGGCAAGGTTTCTAC
Found at i:15243371 original size:34 final size:34
Alignment explanation
Indices: 15243324--15243399 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 34
15243314 CATTTAAACA
15243324 TATT-TAAATAGTTATAACT-TTTCCATTATTAAC
1 TATTATAAATAGTTATAACTCTTT-CATTATTAAC
*
15243357 TATTATAAATAGTTATAACTCTTTTATTATTAAC
1 TATTATAAATAGTTATAACTCTTTCATTATTAAC
15243391 TATTATAAA
1 TATTATAAA
15243400 CAAACATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 4 0.10
34 33 0.82
35 3 0.08
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (34 bp):
TATTATAAATAGTTATAACTCTTTCATTATTAAC
Found at i:15244007 original size:109 final size:108
Alignment explanation
Indices: 15243815--15244035 Score: 318
Period size: 109 Copynumber: 2.0 Consensus size: 108
15243805 CGAGCCTCTT
* * * * * * *
15243815 CATCAACACCAACTCCAATGTCAAGACAAGCTTATCATTTCTAGTTAATTTTGTGTCAGCATTAA
1 CATCAACACCAACTCCAATATCAAAACAAGCTTACCATTCCAAGTTAATTTTATGACAGCATTAA
*
15243880 CTTTATGTTGACTTTATTAAAGTTACTTTAATAAAGTAAATGTA
66 CTTTATGTTGAATTTATTAAAGTTACTTTAATAAAGTAAAT-TA
* *
15243924 CATCAATACCAACTCCAATATCAAAACAAGTTTACCATTCCAAGTTAATTTTATGACAGCATTAA
1 CATCAACACCAACTCCAATATCAAAACAAGCTTACCATTCCAAGTTAATTTTATGACAGCATTAA
*
15243989 CTTTATGTT-AATTGTATTAAAGTTACTTTAATAAAGTAGATTA
66 CTTTATGTTGAATT-TATTAAAGTTACTTTAATAAAGTAAATTA
15244032 CATC
1 CATC
15244036 CACTTAGATT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
108 9 0.09
109 91 0.91
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (108 bp):
CATCAACACCAACTCCAATATCAAAACAAGCTTACCATTCCAAGTTAATTTTATGACAGCATTAA
CTTTATGTTGAATTTATTAAAGTTACTTTAATAAAGTAAATTA
Found at i:15244045 original size:15 final size:15
Alignment explanation
Indices: 15244025--15244055 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15244015 TTTAATAAAG
15244025 TAGATTACATCCACT
1 TAGATTACATCCACT
15244040 TAGATTACATCCACT
1 TAGATTACATCCACT
15244055 T
1 T
15244056 TATTAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (15 bp):
TAGATTACATCCACT
Found at i:15244070 original size:13 final size:13
Alignment explanation
Indices: 15244052--15244077 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15244042 GATTACATCC
15244052 ACTTTATTAAAGT
1 ACTTTATTAAAGT
15244065 ACTTTATTAAAGT
1 ACTTTATTAAAGT
15244078 TATTTTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ACTTTATTAAAGT
Found at i:15244349 original size:23 final size:22
Alignment explanation
Indices: 15244323--15244365 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15244313 TTTTCCTAAA
15244323 ACTTTATCTTGCTATTTTCTTTT
1 ACTTTAT-TTGCTATTTTCTTTT
**
15244346 ACTTTATTTTTTATTTTCTT
1 ACTTTATTTGCTATTTTCTT
15244366 ATCATCTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (22 bp):
ACTTTATTTGCTATTTTCTTTT
Found at i:15246354 original size:22 final size:22
Alignment explanation
Indices: 15246329--15246439 Score: 84
Period size: 22 Copynumber: 5.0 Consensus size: 22
15246319 ATCAAAATTA
15246329 TAATAATATAGTAGTAAATCAT
1 TAATAATATAGTAGTAAATCAT
* *
15246351 TAATAATTTTA-TAGTAAATAAT
1 TAATAA-TATAGTAGTAAATCAT
* * *
15246373 TAAAAAT-TAAGTAGTAAATTAA
1 TAATAATAT-AGTAGTAAATCAT
* *
15246395 TGATAATATAGTAGTAAAAACA-
1 TAATAATATAGTAGT-AAATCAT
* * *
15246417 TAATAATTTATTGGTAAATCAT
1 TAATAATATAGTAGTAAATCAT
15246439 T
1 T
15246440 GACAATTTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
20 1 0.01
21 7 0.10
22 53 0.77
23 8 0.12
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (22 bp):
TAATAATATAGTAGTAAATCAT
Found at i:15246407 original size:66 final size:65
Alignment explanation
Indices: 15246323--15246489 Score: 171
Period size: 66 Copynumber: 2.5 Consensus size: 65
15246313 ATTAGTATCA
*
15246323 AAATTATAATAATATAGTAGTAAATCATTAATAATTTTA-TAGTAAATAATT-AAAAATTAAGTA
1 AAATTATGATAATATAGTAGTAAATCA-TAATAATTTTATTAGTAAATAATTGAAAAATTAAG-A
15246386 GT
64 GT
* * * * *
15246388 AAATTAATGATAATATAGTAGTAAAAACATAATAA-TTTATTGGTAAATCATTGACAATTTAAGA
1 AAATT-ATGATAATATAGTAGT-AAATCATAATAATTTTATTAGTAAATAATTGAAAAATTAAGA
15246452 GT
64 GT
* *
15246454 AAATTGTTGATAACT-TAGTAATAAATCACTAATAAT
1 AAATT-ATGATAA-TATAGTAGTAAATCA-TAATAAT
15246490 CCATTAATAA
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
65 14 0.16
66 57 0.67
67 14 0.16
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (65 bp):
AAATTATGATAATATAGTAGTAAATCATAATAATTTTATTAGTAAATAATTGAAAAATTAAGAGT
Found at i:15246488 original size:22 final size:22
Alignment explanation
Indices: 15246463--15246513 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
15246453 TAAATTGTTG
15246463 ATAACTTAGTAATAAATCACTA
1 ATAACTTAGTAATAAATCACTA
* * *
15246485 ATAA-TCCATTAATAAATTACTA
1 ATAACT-TAGTAATAAATCACTA
15246507 ATAACTT
1 ATAACTT
15246514 TTTTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
21 1 0.04
22 21 0.91
23 1 0.04
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAATAAATCACTA
Found at i:15246672 original size:22 final size:22
Alignment explanation
Indices: 15246647--15246820 Score: 78
Period size: 22 Copynumber: 8.2 Consensus size: 22
15246637 TAAATTATCA
*
15246647 ATAATTTAATTGTAAATCATTC
1 ATAATTTAATTGTAAATCATTG
**
15246669 ATAACGTAA-TGT-AA-C-TT-
1 ATAATTTAATTGTAAATCATTG
* *
15246686 AT--TTTAATGGTAAATCATTC
1 ATAATTTAATTGTAAATCATTG
* *
15246706 ATAAATTAGA-TGTAAGT-ATTTG
1 ATAATTTA-ATTGTAAATCA-TTG
* *
15246728 ATAATTTAATAGTAAATTATTG
1 ATAATTTAATTGTAAATCATTG
** * *
15246750 ATAATTTAACAGTAAATCACTA
1 ATAATTTAATTGTAAATCATTG
** ** * * *
15246772 ATAACATAATAATAATTCAATA
1 ATAATTTAATTGTAAATCATTG
15246794 ATAATTTAATTGTCAAATCATTG
1 ATAATTTAATTGT-AAATCATTG
15246817 ATAA
1 ATAA
15246821 CTTTTTTATA
Statistics
Matches: 111, Mismatches: 29, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
15 3 0.03
16 2 0.02
17 4 0.04
18 3 0.03
19 3 0.03
20 4 0.04
21 5 0.05
22 75 0.68
23 12 0.11
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (22 bp):
ATAATTTAATTGTAAATCATTG
Found at i:15246726 original size:37 final size:37
Alignment explanation
Indices: 15246651--15246726 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
15246641 TTATCAATAA
* * *
15246651 TTTAATTGTAAATCATTCATAACGTAATGTAACTTAT
1 TTTAATGGTAAATCATTCATAAAGTAATGTAACGTAT
*
15246688 TTTAATGGTAAATCATTCATAAATTAGATGTAA-GTAT
1 TTTAATGGTAAATCATTCATAAAGTA-ATGTAACGTAT
15246725 TT
1 TT
15246727 GATAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 28 0.82
38 6 0.18
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTAATGGTAAATCATTCATAAAGTAATGTAACGTAT
Found at i:15247168 original size:22 final size:22
Alignment explanation
Indices: 15247077--15247178 Score: 98
Period size: 22 Copynumber: 4.6 Consensus size: 22
15247067 CAAGAATAGT
*
15247077 TTAATAA-AAATTAAGTGATAAT
1 TTAATAATAAATTAA-TGATAAC
* * * *
15247099 TTAGTAATTAATCATTGATAAC
1 TTAATAATAAATTAATGATAAC
* ** *
15247121 TTAGTAATAGGTCAATGATAAC
1 TTAATAATAAATTAATGATAAC
15247143 TTAATAATAAATTAATGATAAC
1 TTAATAATAAATTAATGATAAC
*
15247165 TTAATAAAAAATTA
1 TTAATAATAAATTA
15247179 GTTTTAGTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
22 61 0.94
23 4 0.06
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
TTAATAATAAATTAATGATAAC
Found at i:15247261 original size:22 final size:22
Alignment explanation
Indices: 15247092--15247572 Score: 107
Period size: 22 Copynumber: 21.9 Consensus size: 22
15247082 AAAAATTAAG
* * *
15247092 TGATAATTTAGTAATTAATCAT
1 TGATAATTTAGTAGTAAATCAA
* * **
15247114 TGATAACTTAGTAATAGGTCAA
1 TGATAATTTAGTAGTAAATCAA
* * * *
15247136 TGATAACTTAATAATAAATTAA
1 TGATAATTTAGTAGTAAATCAA
* * ** * *
15247158 TGATAACTTAATAAAAAATTAG
1 TGATAATTTAGTAGTAAATCAA
** * * *
15247180 TTTTAGTTTAATAGT-AATTAA
1 TGATAATTTAGTAGTAAATCAA
* *
15247201 TTGATAAATTTAGTAGAAAACCACA
1 -TGAT-AATTTAGTAGTAAATCA-A
* * *
15247226 -AATAACTTAATAGTAAATCAA
1 TGATAATTTAGTAGTAAATCAA
* * *
15247247 TGATAATTTAGTAGTTAATTAT
1 TGATAATTTAGTAGTAAATCAA
* * * ** *
15247269 TAAAAACTTAAAAGTAAATTAA
1 TGATAATTTAGTAGTAAATCAA
* *
15247291 T-ATAAGTTAATAGTAAATC-A
1 TGATAATTTAGTAGTAAATCAA
* * *
15247311 TGGATAATTTAATA-TAAATTAG
1 T-GATAATTTAGTAGTAAATCAA
* * * * *
15247333 TAATAACTTGGTAATTAATC-A
1 TGATAATTTAGTAGTAAATCAA
* * ***
15247354 TAGATAATCTAGTAATAAATTTT
1 T-GATAATTTAGTAGTAAATCAA
*
15247377 TGATAATTTTGTAGTAAAT-AA
1 TGATAATTTAGTAGTAAATCAA
* * *
15247398 TTGAGAAATTAAATAGTAAATCAA
1 -TGA-TAATTTAGTAGTAAATCAA
** *
15247422 TGATAACATAGTAATAAATGC-A
1 TGATAATTTAGTAGTAAAT-CAA
* ** * * *
15247444 TAATAACATAATAGTAAATTAT
1 TGATAATTTAGTAGTAAATCAA
* * * * *
15247466 TAATAATTTACTACTAAATTAT
1 TGATAATTTAGTAGTAAATCAA
* * * *
15247488 TAATAACTTAATAGTAAATCAC
1 TGATAATTTAGTAGTAAATCAA
* * * *
15247510 TAAAAATATAGTAGTAAA-CTAC
1 TGATAATTTAGTAGTAAATC-AA
* *
15247532 TAATAATTTAGTTGTAAATCAA
1 TGATAATTTAGTAGTAAATCAA
15247554 TGATAATTTAGTAGTAAAT
1 TGATAATTTAGTAGTAAAT
15247573 TAGTTAATCA
Statistics
Matches: 338, Mismatches: 103, Indels: 36
0.71 0.22 0.08
Matches are distributed among these distances:
20 2 0.01
21 35 0.10
22 267 0.79
23 28 0.08
24 5 0.01
25 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (22 bp):
TGATAATTTAGTAGTAAATCAA
Found at i:15247277 original size:44 final size:44
Alignment explanation
Indices: 15247138--15247580 Score: 207
Period size: 44 Copynumber: 10.0 Consensus size: 44
15247128 TAGGTCAATG
* * * * **
15247138 ATAACTTAATAATAAATTAATGATAACTTAATAAAAAATTAGTT-
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAGTAAATTA-TTA
* ** * * ** **
15247182 TTAGTTTAATAGT-AATTAATTGATAAATTTAGTAGAAAACCACAA
1 ATAACTTAATAGTAAATCAA-TGAT-AATTTAGTAGTAAATTATTA
*
15247227 ATAACTTAATAGTAAATCAATGATAATTTAGTAGTTAATTATTA
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAGTAAATTATTA
* * * * * * **
15247271 AAAACTTAAAAGTAAATTAAT-ATAAGTTAATAGTAAATCATGG
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAGTAAATTATTA
* * * * * * * * *
15247314 ATAATTTAATA-TAAATTAGTAATAACTTGGTAATTAATCA-TA
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAGTAAATTATTA
* * *** * * *
15247356 GATAA-TCTAGTAATAAATTTTTGATAATTTTGTAGTAAATAATTG
1 -ATAACT-TAATAGTAAATCAATGATAATTTAGTAGTAAATTATTA
* * ** * *
15247401 AGAAATTAAATAGTAAATCAATGATAACATAGTAATAAATGCA-TA
1 ATAACTT-AATAGTAAATCAATGATAATTTAGTAGTAAAT-TATTA
* * * * * *
15247446 ATAACATAATAGTAAATTATTAATAATTTACTACTAAATTATTA
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAGTAAATTATTA
* * * * * *
15247490 ATAACTTAATAGTAAATCACTAAAAATATAGTAGTAAACTACTA
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAGTAAATTATTA
* * *
15247534 ATAATTTAGTTGTAAATCAATGATAATTTAGTAGTAAATTAGTTA
1 ATAACTTAATAGTAAATCAATGATAATTTAGTAGTAAATTA-TTA
15247579 AT
1 AT
15247581 CATTGATAAT
Statistics
Matches: 293, Mismatches: 92, Indels: 27
0.71 0.22 0.07
Matches are distributed among these distances:
42 9 0.03
43 53 0.18
44 165 0.56
45 60 0.20
46 6 0.02
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (44 bp):
ATAACTTAATAGTAAATCAATGATAATTTAGTAGTAAATTATTA
Found at i:15247569 original size:66 final size:66
Alignment explanation
Indices: 15247411--15247572 Score: 173
Period size: 66 Copynumber: 2.5 Consensus size: 66
15247401 AGAAATTAAA
* * * * *
15247411 TAGTAAATCAATGATAACATAGTAATAAATGCATAATAACATAATAGTAAATTATTAATAATTTA
1 TAGTAAATCAATGATAACTTAGTAGTAAATGCATAAAAACATAATAGTAAACTACTAATAATTTA
15247476 C
66 C
* * * * * * *
15247477 TACTAAATTATTAATAACTTAATAGTAAAT-CACTAAAAATATAGTAGTAAACTACTAATAATTT
1 TAGTAAATCAATGATAACTTAGTAGTAAATGCA-TAAAAACATAATAGTAAACTACTAATAATTT
*
15247541 AG
65 AC
* *
15247543 TTGTAAATCAATGATAATTTAGTAGTAAAT
1 TAGTAAATCAATGATAACTTAGTAGTAAAT
15247573 TAGTTAATCA
Statistics
Matches: 75, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
65 2 0.03
66 73 0.97
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.35
Consensus pattern (66 bp):
TAGTAAATCAATGATAACTTAGTAGTAAATGCATAAAAACATAATAGTAAACTACTAATAATTTA
C
Found at i:15247643 original size:11 final size:11
Alignment explanation
Indices: 15247595--15247688 Score: 59
Period size: 11 Copynumber: 8.7 Consensus size: 11
15247585 GATAATTTTA
*
15247595 TAATAAATAAG
1 TAATAAATTAG
*
15247606 TAATAATTTA-
1 TAATAAATTAG
15247616 TAAT-AATTA-
1 TAATAAATTAG
*
15247625 TCAGTAAATTAG
1 T-AATAAATTAG
* *
15247637 TAATAAATCAT
1 TAATAAATTAG
* *
15247648 TAATAATTTAA
1 TAATAAATTAG
* *
15247659 TAATAAATCAT
1 TAATAAATTAG
*
15247670 TTATAAATTAG
1 TAATAAATTAG
*
15247681 TAGTAAAT
1 TAATAAAT
15247689 CGATTATAAT
Statistics
Matches: 62, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
9 5 0.08
10 6 0.10
11 50 0.81
12 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (11 bp):
TAATAAATTAG
Found at i:15247665 original size:22 final size:22
Alignment explanation
Indices: 15247578--15247790 Score: 110
Period size: 22 Copynumber: 9.6 Consensus size: 22
15247568 TAAATTAGTT
* *
15247578 AATCATTGATAATTTTATAATA
1 AATCATTAATAATTTAATAATA
* *
15247600 AATAAGTAATAATTT-ATAAT-
1 AATCATTAATAATTTAATAATA
* * * * *
15247620 AATTATCAGTAAATTAGTAATA
1 AATCATTAATAATTTAATAATA
15247642 AATCATTAATAATTTAATAATA
1 AATCATTAATAATTTAATAATA
* * * *
15247664 AATCATTTATAAATTAGTAGTA
1 AATCATTAATAATTTAATAATA
*
15247686 AATCGATT-ATAATTT-ATGAGTA
1 AATC-ATTAATAATTTAAT-AATA
* * * *
15247708 AATCATTAAGAGTATAGTACTTATA
1 AATCATTAATA--AT-TTAATAATA
* * * *
15247733 AATTACTAATAATATAGTAATA
1 AATCATTAATAATTTAATAATA
* * * * *
15247755 AATTAATAATAACTTAATTATC
1 AATCATTAATAATTTAATAATA
15247777 AATCATTAATAATT
1 AATCATTAATAATT
15247791 GTTTTTGTAC
Statistics
Matches: 142, Mismatches: 40, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
20 10 0.07
21 13 0.09
22 100 0.70
23 5 0.04
24 2 0.01
25 11 0.08
26 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (22 bp):
AATCATTAATAATTTAATAATA
Found at i:15247688 original size:44 final size:44
Alignment explanation
Indices: 15247629--15247714 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
15247619 TAATTATCAG
15247629 TAAATTAGTAATAAATC-ATTAATAATTTAAT-AATAAATCATTTA
1 TAAATTAGTAATAAATCGATT-ATAATTT-ATGAATAAATCATTTA
* *
15247673 TAAATTAGTAGTAAATCGATTATAATTTATGAGTAAATCATT
1 TAAATTAGTAATAAATCGATTATAATTTATGAATAAATCATT
15247715 AAGAGTATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 2 0.05
44 33 0.87
45 3 0.08
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (44 bp):
TAAATTAGTAATAAATCGATTATAATTTATGAATAAATCATTTA
Found at i:15248096 original size:22 final size:22
Alignment explanation
Indices: 15248071--15248113 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15248061 CATAAGTTAC
*
15248071 CAAAATTACATCAAAAGATTAA
1 CAAAATTACATCAAAAAATTAA
**
15248093 CAAAATTTTATCAAAAAATTA
1 CAAAATTACATCAAAAAATTA
15248114 TTAAAGTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (22 bp):
CAAAATTACATCAAAAAATTAA
Found at i:15248205 original size:20 final size:21
Alignment explanation
Indices: 15248171--15248246 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
15248161 AAACTAATAT
*
15248171 AAAAGGTTACTAAAA-TTTATC
1 AAAA-GTTACCAAAATTTTATC
*
15248192 GAAAGTTACCAAAATTTTATC
1 AAAAGTTACCAAAATTTTATC
* *
15248213 AAAAGTTATCAAATTTTTAAT-
1 AAAAGTTACCAAAATTTT-ATC
*
15248234 AAAAGTTATCAAA
1 AAAAGTTACCAAA
15248247 GCATATAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 9 0.19
21 37 0.77
22 2 0.04
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (21 bp):
AAAAGTTACCAAAATTTTATC
Found at i:15248237 original size:21 final size:21
Alignment explanation
Indices: 15248182--15248246 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
15248172 AAAGGTTACT
* *
15248182 AAAA-TTTATCGAAAGTTACC
1 AAAATTTTATCAAAAGTTATC
15248202 AAAATTTTATCAAAAGTTATC
1 AAAATTTTATCAAAAGTTATC
*
15248223 AAATTTTTAAT-AAAAGTTATC
1 AAAATTTT-ATCAAAAGTTATC
15248244 AAA
1 AAA
15248247 GCATATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 4 0.10
21 34 0.85
22 2 0.05
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (21 bp):
AAAATTTTATCAAAAGTTATC
Found at i:15248966 original size:52 final size:51
Alignment explanation
Indices: 15248879--15249033 Score: 177
Period size: 52 Copynumber: 3.0 Consensus size: 51
15248869 GAACAAGAAT
* * * * * * *
15248879 ACTTGCAAAAGAAGAATTTTAAGAGAAAGAAGATTCTTAATAGGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAAAGAAA-AGGATTCTTAATAGGCAAGTTTA
15248931 ACTTACAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTTA
1 ACTTACAAGAGAAGAATTCTAAAA-GAAAAGGATTCTTAATAGGCAAGTTTA
* * *
15248983 ACTTACAGGAGAAGAATTCTAAGAAGAGAGGGATTCTTAAT-GGACAAGTTT
1 ACTTACAAGAGAAGAATTCTAA-AAGAAAAGGATTCTTAATAGG-CAAGTTT
15249034 GTATGGTTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 2 0.02
52 82 0.91
53 6 0.07
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.26
Consensus pattern (51 bp):
ACTTACAAGAGAAGAATTCTAAAAGAAAAGGATTCTTAATAGGCAAGTTTA
Found at i:15249994 original size:52 final size:52
Alignment explanation
Indices: 15249901--15250057 Score: 138
Period size: 52 Copynumber: 3.0 Consensus size: 52
15249891 TGGACAAAAA
* * * *
15249901 GACTTTCAAAAGAAGAATTCTAAAA-GAAAGGAA-ATTTTTAATAAATAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAGGAAA--AAGATTCTTAATAAACAAGTTT
* * *
15249953 GACTTGCAAGAGAAGAATTCCAAAAGGAAAAAGATTCTTAATAAGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAGGAAAAAGATTCTTAATAAACAAGTTT
* * * * * ** **
15250005 AACTTATAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAGGAAAAAGATTCTTAATAAACAAGTTT
15250057 G
1 G
15250058 TATGGTTATA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.93
53 4 0.05
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAAAGGAAAAAGATTCTTAATAAACAAGTTT
Found at i:15250651 original size:25 final size:24
Alignment explanation
Indices: 15250595--15250679 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
15250585 TATAAAAACA
15250595 GAAGGTTCGAGACGTGAAAGAGCT
1 GAAGGTTCGAGACGTGAAAGAGCT
* * * *
15250619 AAAAGTTCGAGATGTGAAAAGAGCC
1 GAAGGTTCGAGACGTG-AAAGAGCT
15250644 GAAGGTTCGAGACGTGAAAGAGCT
1 GAAGGTTCGAGACGTGAAAGAGCT
15250668 GAAGGTTCGAGA
1 GAAGGTTCGAGA
15250680 TATAGGAAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 32 0.62
25 20 0.38
ACGTcount: A:0.36, C:0.12, G:0.35, T:0.16
Consensus pattern (24 bp):
GAAGGTTCGAGACGTGAAAGAGCT
Found at i:15251098 original size:51 final size:52
Alignment explanation
Indices: 15250982--15251133 Score: 173
Period size: 51 Copynumber: 2.9 Consensus size: 52
15250972 TGGACAAGAA
* * * * ** *
15250982 AACTTTCAAAAGAAAAATTCTAAGA-GAAAGGGGATTCTCAATAGTTAAGTTT
1 AACTTACAAGAGAAAAATTCTAAAAGGAAA-GGGATTCTTAATAGGCAAGCTT
* *
15251034 AACTTACAAGAGAAGAATTCTAAAAGGAAATGGATTCTT-ATAGGCAAGCTT
1 AACTTACAAGAGAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGCTT
* * *
15251085 AACTTACAGGAGAAAAATTCTAAGAGGAGAGGGATTCTTAATAGGCAAG
1 AACTTACAAGAGAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAG
15251134 TTTGTATGGT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
51 43 0.51
52 37 0.44
53 4 0.05
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (52 bp):
AACTTACAAGAGAAAAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGCTT
Found at i:15254425 original size:12 final size:12
Alignment explanation
Indices: 15254408--15254434 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15254398 CCTTAAATTA
15254408 TAATAAAATATT
1 TAATAAAATATT
15254420 TAATAAAATATT
1 TAATAAAATATT
15254432 TAA
1 TAA
15254435 ATTTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAAAATATT
Found at i:15254493 original size:29 final size:29
Alignment explanation
Indices: 15254432--15254495 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
15254422 ATAAAATATT
* **
15254432 TAAATTTTAATAATTTATAATATTATATT
1 TAAATTTTAATAATTTATAATATAATACA
*
15254461 TAAATTTTAATAATTTATAATGTAATACA
1 TAAATTTTAATAATTTATAATATAATACA
15254490 TAAATT
1 TAAATT
15254496 ATAAATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TAAATTTTAATAATTTATAATATAATACA
Found at i:15254652 original size:40 final size:44
Alignment explanation
Indices: 15254586--15254672 Score: 119
Period size: 40 Copynumber: 2.1 Consensus size: 44
15254576 TAATTACTCT
15254586 AAAAATAAATAAATTTATAATATAAATATCATATTAAAATTTTA
1 AAAAATAAATAAATTTATAATATAAATATCATATTAAAATTTTA
** *
15254630 AAAAATAAA-AAA-TTAT-AT-TAAATATTTTATTATAATTTTA
1 AAAAATAAATAAATTTATAATATAAATATCATATTAAAATTTTA
15254670 AAA
1 AAA
15254673 TTATTTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 22 0.55
41 2 0.05
42 4 0.10
43 3 0.08
44 9 0.22
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (44 bp):
AAAAATAAATAAATTTATAATATAAATATCATATTAAAATTTTA
Found at i:15255257 original size:19 final size:20
Alignment explanation
Indices: 15255214--15255257 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
15255204 TCTTAAATCT
*
15255214 AAATTAACCTTAAATCTATC
1 AAATTAACCTAAAATCTATC
15255234 AAATTAATCCTAAAAT-TA-C
1 AAATTAA-CCTAAAATCTATC
15255253 AAATT
1 AAATT
15255258 TTAATAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATTAACCTAAAATCTATC
Found at i:15255596 original size:29 final size:29
Alignment explanation
Indices: 15255541--15255606 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
15255531 TTTAATTTTA
*
15255541 ATAATAAT-ATTATTAATGATAATAATAT
1 ATAAAAATAATTATTAATGATAATAATAT
* *
15255569 TTAAAAATAATTATTAATTAT-ATAAATAT
1 ATAAAAATAATTATTAATGATAAT-AATAT
15255598 ATAAAAATA
1 ATAAAAATA
15255607 TAAAAAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
ATAAAAATAATTATTAATGATAATAATAT
Found at i:15255839 original size:24 final size:24
Alignment explanation
Indices: 15255791--15255857 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
15255781 AAAAAAAAAA
* * *
15255791 CTCTCTCAAATCCCC-TTCAATCT
1 CTCTCTCGAACCCCCTTTCAACCT
15255814 CTCTCTCGAACCCCCTTTCAACCT
1 CTCTCTCGAACCCCCTTTCAACCT
* *
15255838 CTTTCTCAGACCCCCCTTTC
1 CTCTCTC-GAACCCCCTTTC
15255858 TGGAAGTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 13 0.35
24 13 0.35
25 11 0.30
ACGTcount: A:0.16, C:0.48, G:0.03, T:0.33
Consensus pattern (24 bp):
CTCTCTCGAACCCCCTTTCAACCT
Found at i:15257253 original size:9 final size:9
Alignment explanation
Indices: 15257230--15257262 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
15257220 AAATTTCAAT
15257230 TAAAATTAA
1 TAAAATTAA
15257239 -AAAATTAA
1 TAAAATTAA
15257247 TAAAATTAA
1 TAAAATTAA
15257256 TAAAATT
1 TAAAATT
15257263 TTTTAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAATTAA
Found at i:15261072 original size:16 final size:17
Alignment explanation
Indices: 15261045--15261077 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15261035 AAGTATATTT
15261045 TTAAAAATTAAAAATAA
1 TTAAAAATTAAAAATAA
15261062 TTAAAAA-TAAAAATAA
1 TTAAAAATTAAAAATAA
15261078 AGACATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAAATTAAAAATAA
Found at i:15266981 original size:22 final size:22
Alignment explanation
Indices: 15266956--15266998 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15266946 GCAACAGTAA
15266956 AAACACAATCCCAAAGACCAGG
1 AAACACAATCCCAAAGACCAGG
* *
15266978 AAACATAGTCCCAAAGACCAG
1 AAACACAATCCCAAAGACCAG
15266999 TACCATCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.30, G:0.14, T:0.07
Consensus pattern (22 bp):
AAACACAATCCCAAAGACCAGG
Found at i:15267902 original size:52 final size:52
Alignment explanation
Indices: 15267841--15267944 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
15267831 AGAAAGGAAG
*
15267841 AATTGCTATGGTTGGTCATAGGCAATGACAAGCAAACAAGGTTTGGTTATAT
1 AATTGCTATGGTTGGTCATAGGCAAAGACAAGCAAACAAGGTTTGGTTATAT
*
15267893 AATTGCTATGGTTGGTCATAGGCAAAGACGAGCAAACAAGGTTTGGTTATAT
1 AATTGCTATGGTTGGTCATAGGCAAAGACAAGCAAACAAGGTTTGGTTATAT
15267945 GCTTTGCTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
AATTGCTATGGTTGGTCATAGGCAAAGACAAGCAAACAAGGTTTGGTTATAT
Found at i:15273408 original size:22 final size:22
Alignment explanation
Indices: 15273366--15273408 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15273356 AGTTTTCTCT
* *
15273366 AAATTTAATTTAAATGGTAAAA
1 AAATTTAAATTAAATGATAAAA
*
15273388 AAATTTAAATTAAATTATAAA
1 AAATTTAAATTAAATGATAAA
15273409 CTTTAAGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
AAATTTAAATTAAATGATAAAA
Found at i:15273673 original size:18 final size:18
Alignment explanation
Indices: 15273650--15273684 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15273640 GTTGATTTTT
15273650 AAAAAAAAATTTTAAATG
1 AAAAAAAAATTTTAAATG
* *
15273668 AAAAAATATTTTTAAAT
1 AAAAAAAAATTTTAAAT
15273685 TTGGGTCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAAAAAAATTTTAAATG
Found at i:15274928 original size:116 final size:115
Alignment explanation
Indices: 15274719--15274946 Score: 386
Period size: 116 Copynumber: 2.0 Consensus size: 115
15274709 TTTCCTCTAT
*
15274719 CAAAAGAAAATGAATTATCCCATCAACTTCATCAAAATTTCCATGGTTTCAGATGACTCTACTGA
1 CAAAAGAAAATGAATTATCCCATCAACTTCATCAAAATTTCCATGGCTTCAGATGACTCTACTGA
15274784 ACCAAATCTAACATTTTAAGCAATGATTTGGTGGTAATAGTTGATAAAGC
66 ACCAAATCTAACATTTTAAGCAATGATTTGGTGGTAATAGTTGATAAAGC
* * *
15274834 CAAAATGAAAATAGAATTATCTCATCAGCTTCATCAAAATTTCCATGGCTTC-GATGACTCTCCT
1 CAAAA-GAAAAT-GAATTATCCCATCAACTTCATCAAAATTTCCATGGCTTCAGATGACTCTACT
*
15274898 GAACCAAATCTAACTTTTTAAGCAATGATTTGGTGGTAATAGTTGATAA
64 GAACCAAATCTAACATTTTAAGCAATGATTTGGTGGTAATAGTTGATAA
15274947 TGACAAGAGA
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
115 5 0.05
116 65 0.61
117 36 0.34
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (115 bp):
CAAAAGAAAATGAATTATCCCATCAACTTCATCAAAATTTCCATGGCTTCAGATGACTCTACTGA
ACCAAATCTAACATTTTAAGCAATGATTTGGTGGTAATAGTTGATAAAGC
Found at i:15280699 original size:28 final size:29
Alignment explanation
Indices: 15280641--15280699 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
15280631 AAATTATAAT
* *
15280641 AAAATATTTAATATAATTTTTTATTTTTA
1 AAAATATTTAATATAATTTTATATTTATA
*
15280670 AAAAT-TTTAATATGATATTTATA-TTATA
1 AAAATATTTAATATAAT-TTTATATTTATA
15280698 AA
1 AA
15280700 TTATTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
AAAATATTTAATATAATTTTATATTTATA
Found at i:15280836 original size:36 final size:29
Alignment explanation
Indices: 15280814--15280870 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
15280804 TTTATGTATT
15280814 ACATTATAAATTATTAAAATTTAAATATA
1 ACATTATAAATTATTAAAATTTAAATATA
*
15280843 ATATTATAAATTATTAAAATTTAAATAT
1 ACATTATAAATTATTAAAATTTAAATAT
15280871 TTTATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
ACATTATAAATTATTAAAATTTAAATATA
Found at i:15284237 original size:52 final size:52
Alignment explanation
Indices: 15284156--15284312 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
15284146 TATAATCATA
* *
15284156 CAAACTTGCCCATTAAGAATCCCTCTCCTTTTAGAATTCTTCTCCTGTC-AGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTG-CAAGT
* * *
15284208 TAAACTTGCCTATTACGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
* * **
15284260 CAAACTTACCTATTAAGAATCCCCTTT-CTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAAT-CCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
15284312 C
1 C
15284313 TTCTTGTCCA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 1 0.01
52 86 0.92
53 6 0.06
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
Found at i:15284641 original size:24 final size:24
Alignment explanation
Indices: 15284605--15284701 Score: 97
Period size: 24 Copynumber: 4.0 Consensus size: 24
15284595 CAAACCATGT
15284605 TCTTCCCACATCTCGAACCTTCAGC
1 TCTT-CCACATCTCGAACCTTCAGC
*
15284630 TCTTCCACATCTCGAACTTTC-GAC
1 TCTTCCACATCTCGAACCTTCAG-C
* * * *
15284654 TCTTTTCACATCTTGAACTTTTAGC
1 TC-TTCCACATCTCGAACCTTCAGC
* *
15284679 TCTTCCACGTCTCGTACCTTCAG
1 TCTTCCACATCTCGAACCTTCAG
15284702 TTCTGATATC
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 1 0.02
24 34 0.58
25 23 0.39
26 1 0.02
ACGTcount: A:0.19, C:0.36, G:0.09, T:0.36
Consensus pattern (24 bp):
TCTTCCACATCTCGAACCTTCAGC
Found at i:15285308 original size:52 final size:53
Alignment explanation
Indices: 15285237--15285393 Score: 196
Period size: 52 Copynumber: 3.0 Consensus size: 53
15285227 TATAACCATA
* *
15285237 CAAACTTGCCCATTAAGAATCCCTCTTCTATTAAAATTCTTCTTC-TATAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTTCTATTAGAATTCTTCTTCTTATAAGT
* * * *
15285289 TAAACTTGCCTATTAAGAATCCCTTTTCTTTTAGAATTCTTC-TCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTTCTATTAGAATTCTTCTTCTTATAAGT
* * *
15285341 CAAACTTACCTATTAAGAAT-CCTCTTTCTCTTAGAATTCTTCTT-TTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTC-TTCTATTAGAATTCTTCTTCTTATAAGT
15285393 C
1 C
15285394 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 5 0.05
52 86 0.93
53 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCCCTCTTCTATTAGAATTCTTCTTCTTATAAGT
Found at i:15285738 original size:24 final size:24
Alignment explanation
Indices: 15285692--15285781 Score: 92
Period size: 24 Copynumber: 3.7 Consensus size: 24
15285682 CATGTTTTTC
* *
15285692 TCACATCTCGAACCTTCAGCTCTT
1 TCACGTCTTGAACCTTCAGCTCTT
*
15285716 CCACGTCTTGAACCTTC-GACTCTTT
1 TCACGTCTTGAACCTTCAG-CTC-TT
* **
15285741 TCACATCTTGAATTTTCAGCTCTT
1 TCACGTCTTGAACCTTCAGCTCTT
*
15285765 TCACGTCTCGAACCTTC
1 TCACGTCTTGAACCTTC
15285782 GGTTCTGATA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.02
24 32 0.62
25 18 0.35
26 1 0.02
ACGTcount: A:0.19, C:0.34, G:0.10, T:0.37
Consensus pattern (24 bp):
TCACGTCTTGAACCTTCAGCTCTT
Found at i:15286374 original size:52 final size:52
Alignment explanation
Indices: 15286289--15286443 Score: 222
Period size: 52 Copynumber: 3.0 Consensus size: 52
15286279 ATAACCATAC
* * * *
15286289 AAACTTGCCCATTAACAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTT
1 AAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTT
* *
15286341 AAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGTT
1 AAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTT
* *
15286393 AAACTTACCTATTAAGAATCCCATTT-CTCTTAGAATTCTTCTTTTGTAAGT
1 AAACTTGCCTATTAAGAATCCC-TTTCCTCTTAGAATTCTTCTCTTGTAAGT
15286444 CTTCTTGTCC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 89 0.97
53 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.41
Consensus pattern (52 bp):
AAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTT
Found at i:15287106 original size:21 final size:21
Alignment explanation
Indices: 15287080--15287140 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
15287070 TTTTATATGC
15287080 TTTGATAACTTTT-ATTAAAAA
1 TTTGATAACTTTTGA-TAAAAA
*
15287101 TTTGATAACTTTTGATAAAAT
1 TTTGATAACTTTTGATAAAAA
* *
15287122 TTTGGTAACTTTCGATAAA
1 TTTGATAACTTTTGATAAA
15287141 TTTTAGTAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTGATAACTTTTGATAAAAA
Found at i:15287141 original size:20 final size:21
Alignment explanation
Indices: 15287095--15287150 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
15287085 TAACTTTTAT
* * *
15287095 TAAAAATTTGATAACTTTTGA
1 TAAAATTTTGGTAACTTTCGA
15287116 TAAAATTTTGGTAACTTTCGA
1 TAAAATTTTGGTAACTTTCGA
*
15287137 T-AAATTTTAGTAAC
1 TAAAATTTTGGTAAC
15287151 CTTTTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (21 bp):
TAAAATTTTGGTAACTTTCGA
Found at i:15287154 original size:21 final size:21
Alignment explanation
Indices: 15287097--15287150 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
15287087 ACTTTTATTA
* *
15287097 AAAATTTGA-TAACTTTTGAT
1 AAAATTTTAGTAACTTTCGAT
*
15287117 AAAATTTTGGTAACTTTCGAT
1 AAAATTTTAGTAACTTTCGAT
15287138 -AAATTTTAGTAAC
1 AAAATTTTAGTAAC
15287151 CTTTTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (21 bp):
AAAATTTTAGTAACTTTCGAT
Found at i:15287239 original size:22 final size:22
Alignment explanation
Indices: 15287214--15287269 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
15287204 GCAACTTTAA
*
15287214 TAATTTTTTGATAAAATTTTGC
1 TAATCTTTTGATAAAATTTTGC
** *
15287236 TAATCTTTTGATGTAATTTTGG
1 TAATCTTTTGATAAAATTTTGC
*
15287258 TAA-CTTATGATA
1 TAATCTTTTGATA
15287270 TATTTTTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.52
Consensus pattern (22 bp):
TAATCTTTTGATAAAATTTTGC
Found at i:15287639 original size:22 final size:21
Alignment explanation
Indices: 15287610--15287684 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 21
15287600 CTATACTCTC
15287610 AATGATTTACT-CATAAATTAT
1 AATGATTTACTAC-TAAATTAT
*
15287631 AATCGATTTACTACTAATTTAT
1 AAT-GATTTACTACTAAATTAT
*
15287653 AAATGATTTACTATTAAATTATT
1 -AATGATTTACTACTAAATTA-T
15287676 AATGATTTA
1 AATGATTTA
15287685 TTGCTAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 3 0.06
22 39 0.83
23 5 0.11
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (21 bp):
AATGATTTACTACTAAATTAT
Found at i:15287658 original size:44 final size:44
Alignment explanation
Indices: 15287610--15287695 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
15287600 CTATACTCTC
15287610 AATGATTTACTCA-TAAATTA-TAATCGATTTACTACTAATTTATA
1 AATGATTTACT-ATTAAATTATTAAT-GATTTACTACTAATTTATA
* *
15287654 AATGATTTACTATTAAATTATTAATGATTTATTGCTAATTTA
1 AATGATTTACTATTAAATTATTAATGATTTACTACTAATTTA
15287696 CTGATAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 1 0.03
44 33 0.87
45 4 0.11
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (44 bp):
AATGATTTACTATTAAATTATTAATGATTTACTACTAATTTATA
Found at i:15287758 original size:30 final size:29
Alignment explanation
Indices: 15287705--15287776 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
15287695 ACTGATAATT
* * *
15287705 ATTATAAATTATTACTTATTTATTA-TAAA
1 ATTATCAATGATTACTAATTTATTACT-AA
15287734 ATTATCAATGATTAACTAATTTATTACTAA
1 ATTATCAATGATT-ACTAATTTATTACTAA
*
15287764 ATTATCATTGATT
1 ATTATCAATGATT
15287777 TACAACTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 11 0.30
30 25 0.68
31 1 0.03
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.49
Consensus pattern (29 bp):
ATTATCAATGATTACTAATTTATTACTAA
Found at i:15287835 original size:44 final size:43
Alignment explanation
Indices: 15287752--15287915 Score: 130
Period size: 44 Copynumber: 3.7 Consensus size: 43
15287742 TGATTAACTA
* * * * * * *
15287752 ATTTATTACTAAATTATCATTGATTTACAACTAAATTATTAGC
1 ATTTACTACTATATTATTAATGATTTACTATTAAGTTATTAGC
* * **
15287795 AGTTTACTACTATATTTTTAGTGATTTACTATTAAGTTATTAATA
1 A-TTTACTACTATATTATTAATGATTTACTATTAAGTTATT-AGC
* * * *
15287840 ATTTAGTACTAAATTATTAATAATTTACTATTATGTTATTATGC
1 ATTTACTACTATATTATTAATGATTTACTATTAAGTTATTA-GC
* * * *
15287884 ATTTATTACTATGTTATCATTGATTTACTATT
1 ATTTACTACTATATTATTAATGATTTACTATT
15287916 TAATTTCTCA
Statistics
Matches: 94, Mismatches: 24, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
43 2 0.02
44 90 0.96
45 2 0.02
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (43 bp):
ATTTACTACTATATTATTAATGATTTACTATTAAGTTATTAGC
Found at i:15287843 original size:22 final size:22
Alignment explanation
Indices: 15287818--15288186 Score: 106
Period size: 22 Copynumber: 16.8 Consensus size: 22
15287808 ATTTTTAGTG
15287818 ATTTACTATTAAGTTATTAATA
1 ATTTACTATTAAGTTATTAATA
* * *
15287840 ATTTAGTACTAAATTATTAATA
1 ATTTACTATTAAGTTATTAATA
* *
15287862 ATTTACTATTATGTTATT-ATGC
1 ATTTACTATTAAGTTATTAAT-A
* * * * * *
15287884 ATTTATTACTATGTTATCATTG
1 ATTTACTATTAAGTTATTAATA
* * * *
15287906 ATTTACTATTTAATTTCTCAATT
1 ATTTACTA-TTAAGTTATTAATA
** * *
15287929 ATTTACTACAAAATTATCAA-A
1 ATTTACTATTAAGTTATTAATA
* * *
15287950 AGTTTATTACT-AGATTATCT-ATG
1 A-TTTACTATTAAG-TTAT-TAATA
* * ** *
15287973 ATTAATTACCAAGTTATTATTA
1 ATTTACTATTAAGTTATTAATA
* ** *
15287995 ATTTA-TATTAAATTATCCATG
1 ATTTACTATTAAGTTATTAATA
* *
15288016 ATTTACTATTAACTTA-TATTA
1 ATTTACTATTAAGTTATTAATA
* *
15288037 ATTTACTTTTAAGTTTTTAATA
1 ATTTACTATTAAGTTATTAATA
* * * * * *
15288059 ATTAACTACTAAATTATCATTG
1 ATTTACTATTAAGTTATTAATA
* *
15288081 ATTTACTATTAAGTTATTTATG
1 ATTTACTATTAAGTTATTAATA
* * * * *
15288103 GTTTCCTACTAAATTTATCAATTA
1 ATTTACTA-TTAAGTTATTAA-TA
** *
15288127 A-TTACTATTAAACTA-AAACTA
1 ATTTACTATTAAGTTATTAA-TA
** * *
15288148 ATTTTTTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATTAATA
*
15288170 ATTTATTATTAAGTTAT
1 ATTTACTATTAAGTTAT
15288187 CATTGACCTA
Statistics
Matches: 246, Mismatches: 86, Indels: 30
0.68 0.24 0.08
Matches are distributed among these distances:
21 38 0.15
22 173 0.70
23 34 0.14
24 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTACTATTAAGTTATTAATA
Found at i:15287910 original size:66 final size:66
Alignment explanation
Indices: 15287752--15287911 Score: 169
Period size: 66 Copynumber: 2.4 Consensus size: 66
15287742 TGATTAACTA
* * * *
15287752 ATTTATTACTAAATTATCATTGATTTACAACTAAATTATTAGCAGTTTACTACTATATTTTTAGT
1 ATTTATTACTAAGTTATCATTGATTTACAACTAAATTATTAACAATTTACTACTATATTATTAGT
15287817 G
66 G
* * * * * ** * * *
15287818 ATTTACTATTAAGTTATTAATAATTTAGTACTAAATTATTAATAATTTACTATTATGTTATTA-T
1 ATTTATTACTAAGTTATCATTGATTTACAACTAAATTATTAACAATTTACTACTATATTATTAGT
15287882 G
66 G
*
15287883 CATTTATTACTATGTTATCATTGATTTAC
1 -ATTTATTACTAAGTTATCATTGATTTAC
15287912 TATTTAATTT
Statistics
Matches: 72, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
65 2 0.03
66 70 0.97
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (66 bp):
ATTTATTACTAAGTTATCATTGATTTACAACTAAATTATTAACAATTTACTACTATATTATTAGT
G
Found at i:15288175 original size:11 final size:11
Alignment explanation
Indices: 15288155--15288190 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
15288145 CTAATTTTTT
15288155 ATTAAGTTATC
1 ATTAAGTTATC
* *
15288166 ATTAATTTATT
1 ATTAAGTTATC
15288177 ATTAAGTTATC
1 ATTAAGTTATC
15288188 ATT
1 ATT
15288191 GACCTATTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (11 bp):
ATTAAGTTATC
Found at i:15288187 original size:22 final size:22
Alignment explanation
Indices: 15288146--15288247 Score: 98
Period size: 22 Copynumber: 4.6 Consensus size: 22
15288136 AAACTAAAAC
*
15288146 TAATTTTTTATTAAGTTATCAT
1 TAATTTATTATTAAGTTATCAT
15288168 TAATTTATTATTAAGTTATCAT
1 TAATTTATTATTAAGTTATCAT
* ** * *
15288190 TGACCTATTACTAAGTTATCAA
1 TAATTTATTATTAAGTTATCAT
* * * *
15288212 TGATTAATTACTAAATTATCACT
1 TAATTTATTATTAAGTTATCA-T
15288235 TAATTT-TTATTAA
1 TAATTTATTATTAA
15288248 ACTATTCTTG
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
22 61 0.94
23 4 0.06
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATTTATTATTAAGTTATCAT
Found at i:15288546 original size:22 final size:22
Alignment explanation
Indices: 15288521--15288596 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
15288511 TGATTTGACA
* *
15288521 ATTAAATTATTATTGAATTATT
1 ATTAAATTATTAATGAATTACT
** * *
15288543 ATTATGTTATTAGTGATTTACT
1 ATTAAATTATTAATGAATTACT
* *
15288565 GTTAAATTATCAAT-AATTTACT
1 ATTAAATTATTAATGAA-TTACT
15288587 ATTAAATTAT
1 ATTAAATTAT
15288597 CAAATACTTA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
21 1 0.02
22 40 0.98
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTAAATTATTAATGAATTACT
Found at i:15288597 original size:22 final size:22
Alignment explanation
Indices: 15288558--15288599 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15288548 GTTATTAGTG
*
15288558 ATTTACTGTTAAATTATCAATA
1 ATTTACTATTAAATTATCAATA
15288580 ATTTACTATTAAATTATCAA
1 ATTTACTATTAAATTATCAA
15288600 ATACTTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATA
Found at i:15288607 original size:22 final size:22
Alignment explanation
Indices: 15288560--15288607 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15288550 TATTAGTGAT
* *
15288560 TTACTGTTAAATTATCAATAAT
1 TTACTATTAAATTATCAATAAC
15288582 TTACTATTAAATTATCAA-ATAC
1 TTACTATTAAATTATCAATA-AC
15288604 TTAC
1 TTAC
15288608 ATATAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (22 bp):
TTACTATTAAATTATCAATAAC
Found at i:15288861 original size:22 final size:23
Alignment explanation
Indices: 15288812--15288871 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
15288802 TTTATAACAT
*
15288812 AGTTATTAGTAATTTATTACTGC
1 AGTTATTAGTAATTTATTACTGA
*
15288835 A-TTATTAGTGATTTATTACT-A
1 AGTTATTAGTAATTTATTACTGA
* *
15288856 AGTTATCAATAATTTA
1 AGTTATTAGTAATTTA
15288872 CTCTTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (23 bp):
AGTTATTAGTAATTTATTACTGA
Found at i:15288905 original size:66 final size:65
Alignment explanation
Indices: 15288835--15289001 Score: 180
Period size: 66 Copynumber: 2.5 Consensus size: 65
15288825 TTATTACTGC
*
15288835 ATTATTAGTGATTTATTACTA-AGTTATCAATAATTTACT-CTTAAATTGTCAATGATTTACCAA
1 ATTATTA-TGATTTACTACTATA-TTATCAATAATTTACTACTT-AATTGTCAATGATTTA-CAA
15288898 T-AA
62 TAAA
* * * * * *
15288901 ATTATTATGTTTTTACTACTATATTATCATTAATTTACTACTTAATTTTTAATTATTTACTATAA
1 ATTATTATG-ATTTACTACTATATTATCAATAATTTACTACTTAATTGTCAATGATTTACAATAA
15288966 A
65 A
*
15288967 ATTATTAATGATTTACTACTATATTAT-TATAATTT
1 ATTATT-ATGATTTACTACTATATTATCAATAATTT
15289002 TGATACTAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
65 11 0.13
66 68 0.79
67 7 0.08
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (65 bp):
ATTATTATGATTTACTACTATATTATCAATAATTTACTACTTAATTGTCAATGATTTACAATAAA
Found at i:15288926 original size:22 final size:21
Alignment explanation
Indices: 15288901--15289001 Score: 80
Period size: 22 Copynumber: 4.6 Consensus size: 21
15288891 TTACCAATAA
*
15288901 ATTATTATGTTTTTACTACTAT
1 ATTATTAT-TATTTACTACTAT
*
15288923 ATTATCATTAATTTACTACT-T
1 ATTATTATT-ATTTACTACTAT
* *
15288944 AATTTTTAATTATTTACTA-TAAA
1 -ATTATT-ATTATTTACTACT-AT
*
15288967 ATTATTAATGATTTACTACTAT
1 ATTATT-ATTATTTACTACTAT
*
15288989 ATTATTATAATTT
1 ATTATTATTATTT
15289002 TGATACTAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
21 9 0.14
22 51 0.80
23 4 0.06
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTATTATTATTTACTACTAT
Done.