Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 198 of 310
Found at i:64630203 original size:38 final size:38
Alignment explanation
Indices: 64630161--64630273 Score: 93
Period size: 38 Copynumber: 3.2 Consensus size: 38
64630151 TTTGCTTCTA
64630161 TCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAAC
1 TCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAAC
* ** *
64630199 TCTTGAAGCAGTTCATG-G-TAGT-TTG-GT-T--C-T-A-
1 TCTTG-A--TGTTCATGAGTTCTTCTTGATTCTACCTTAAC
64630230 TCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAAC
1 TCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAAC
64630268 TCTTGA
1 TCTTGA
64630274 AGCATATTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 26
0.61 0.09 0.30
Matches are distributed among these distances:
28 7 0.13
29 1 0.02
30 3 0.06
31 8 0.15
32 2 0.04
33 2 0.04
34 1 0.02
35 1 0.02
36 2 0.04
37 2 0.04
38 14 0.26
39 3 0.06
40 1 0.02
41 7 0.13
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (38 bp):
TCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAAC
Found at i:64630250 original size:69 final size:69
Alignment explanation
Indices: 64630139--64630277 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
64630129 ATTGAAGGTA
64630139 AGTTCATGGTAGTTTGCTTCTATCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAACTCTTG
1 AGTTCATGGTAGTTTGCTTCTATCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAACTCTTG
64630204 AAGC
66 AAGC
*
64630208 AGTTCATGGTAGTTTGGTTCTATCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAACTCTTG
1 AGTTCATGGTAGTTTGCTTCTATCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAACTCTTG
64630273 AAGC
66 AAGC
64630277 A
1 A
64630278 TATTTTGGTT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (69 bp):
AGTTCATGGTAGTTTGCTTCTATCTTGATGTTCATGAGTTCTTCTTGATTCTACCTTAACTCTTG
AAGC
Found at i:64630763 original size:78 final size:78
Alignment explanation
Indices: 64630634--64630787 Score: 229
Period size: 78 Copynumber: 2.0 Consensus size: 78
64630624 GTGAGAGATG
*
64630634 AGTTAGAAGGTGAATAAATTATGTAATTAAAGCTTAATGAGTCTAGTTTCAAAT-AGAATAAACG
1 AGTTAGAAGCTGAATAAATTATGTAATTAAAGCTTAATGAGTCTAGTTTCAAATGA-AATAAACG
64630698 AGAACATATTTTTA
65 AGAACATATTTTTA
* ** ** *
64630712 AGTTAGAAGCTGCATAAATTATGTAATTAATTCTTGTTGAGTCTAGTTTCAAATGAAATAAAGGA
1 AGTTAGAAGCTGAATAAATTATGTAATTAAAGCTTAATGAGTCTAGTTTCAAATGAAATAAACGA
64630777 GAACATATTTT
66 GAACATATTTT
64630788 GAATTCTGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 67 0.99
79 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (78 bp):
AGTTAGAAGCTGAATAAATTATGTAATTAAAGCTTAATGAGTCTAGTTTCAAATGAAATAAACGA
GAACATATTTTTA
Found at i:64630983 original size:57 final size:57
Alignment explanation
Indices: 64630895--64631010 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
64630885 TGGCCATACC
*
64630895 AAAAATTTTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATT
1 AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATT
*
64630952 AAAAATTCTGAAAATTTTATGGATATAAGATATATGAGTCTATTTTCAGGGAAAATT
1 AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATT
64631009 AA
1 AA
64631011 CGGCACTTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.36
Consensus pattern (57 bp):
AAAAATTCTGAAAATTTTATGGATAGAAGATATATGAGTCTATTTTCAGGGAAAATT
Found at i:64637154 original size:62 final size:62
Alignment explanation
Indices: 64637081--64637205 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
64637071 GACAAACCTC
64637081 CTATTTTACATGAAGTGGTCAGCCATCATGTTGTTGTAGACAATATGAGCACTTGATATCCA
1 CTATTTTACATGAAGTGGTCAGCCATCATGTTGTTGTAGACAATATGAGCACTTGATATCCA
64637143 CTATTTTACATGAAGTGGTCAGCCATCATGTTGTTGTAGACAATATGAGCACTTGATATCCA
1 CTATTTTACATGAAGTGGTCAGCCATCATGTTGTTGTAGACAATATGAGCACTTGATATCCA
64637205 C
1 C
64637206 AATTCATGGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (62 bp):
CTATTTTACATGAAGTGGTCAGCCATCATGTTGTTGTAGACAATATGAGCACTTGATATCCA
Found at i:64637251 original size:26 final size:26
Alignment explanation
Indices: 64637222--64637325 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
64637212 TGGTACAAAT
64637222 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64637248 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64637274 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64637300 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64637326 CGATGGGCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64641354 original size:78 final size:77
Alignment explanation
Indices: 64641249--64641413 Score: 278
Period size: 77 Copynumber: 2.1 Consensus size: 77
64641239 TATAATGATT
*
64641249 TTTTAAAA-AAAGGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACGATTTAAGATA
1 TTTTAAAATAAAAGGGACAACACAAAACAATTTAAAATAAATACTATGT-AAACGATTTAAGATA
64641313 AAGTAATACAAAA
65 AAGTAATACAAAA
* *
64641326 TTTTAAAATAAAAGGGACAACACAAAACAGTTTAAAATAAATACTATGTAAATGATTTAAGATAA
1 TTTTAAAATAAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAACGATTTAAGATAA
*
64641391 AGTAATACGAAA
66 AGTAATACAAAA
64641403 TTTTAAAATAA
1 TTTTAAAATAA
64641414 TAATATATGG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
77 45 0.54
78 38 0.46
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (77 bp):
TTTTAAAATAAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAACGATTTAAGATAA
AGTAATACAAAA
Found at i:64643465 original size:44 final size:44
Alignment explanation
Indices: 64643415--64643610 Score: 157
Period size: 44 Copynumber: 4.4 Consensus size: 44
64643405 GCTCTACTGC
*
64643415 AACTTCAGAGAGATAAGGATGGTGGCTTTGATCTGCTCCACTAT
1 AACTTCAGGGAGATAAGGATGGTGGCTTTGATCTGCTCCACTAT
* * *
64643459 AACTTCAGGGAGATAA-GAT-CT-GCTATCTGCAGTCTACTCCACTAC
1 AACTTCAGGGAGATAAGGATGGTGGCT-T-TG-A-TCTGCTCCACTAT
* * * ** * * *
64643504 GACTTCAGGGATATAA-GACTTGTGTATTTTTATCCTGCTCTACTGT
1 AACTTCAGGGAGATAAGGA-TGGTG-GCTTTGAT-CTGCTCCACTAT
** * *
64643550 AACTTCAAAGAGATAAGGATGGTGGCTTCGATCTGCTCCACTGT
1 AACTTCAGGGAGATAAGGATGGTGGCTTTGATCTGCTCCACTAT
64643594 AACTTCAGGGAGATAAG
1 AACTTCAGGGAGATAAG
64643611 ATCTGCTATC
Statistics
Matches: 116, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 5 0.04
44 42 0.36
45 32 0.28
46 26 0.22
47 4 0.03
48 1 0.01
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGGATGGTGGCTTTGATCTGCTCCACTAT
Found at i:64643554 original size:135 final size:135
Alignment explanation
Indices: 64643360--64643659 Score: 460
Period size: 135 Copynumber: 2.2 Consensus size: 135
64643350 TTTCAACTTG
** *
64643360 CTCCACTGA-AACTTTAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGA
1 CTCCACT-ACAACTTTAGGGAGATAAGACTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAAA
*
64643424 GAGATAAGGATGGTGGCTTTGATCTGCTCCACTATAACTTCAGGGAGATAAGATCTGCTATC-TG
65 GAGATAAGGATGGTGGCTTCGATCTGCTCCACTATAACTTCAGGGAGATAAGATCTGCTATCGT-
64643488 CAGTCTA
129 CAGTCTA
* * * *
64643495 CTCCACTACGACTTCAGGGATATAAGACTTGTGTATTTTTATCCTGCTCTACTGTAACTTCAAAG
1 CTCCACTACAACTTTAGGGAGATAAGACTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAAAG
* *
64643560 AGATAAGGATGGTGGCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTGCTATCGTTA
66 AGATAAGGATGGTGGCTTCGATCTGCTCCACTATAACTTCAGGGAGATAAGATCTGCTATCGTCA
*
64643625 GTCTG
131 GTCTA
*
64643630 CTCTACTACAACTTTAGGGAGATAAGACTT
1 CTCCACTACAACTTTAGGGAGATAAGACTT
64643660 TAACTTCAAC
Statistics
Matches: 148, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
134 1 0.01
135 146 0.99
136 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (135 bp):
CTCCACTACAACTTTAGGGAGATAAGACTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAAAG
AGATAAGGATGGTGGCTTCGATCTGCTCCACTATAACTTCAGGGAGATAAGATCTGCTATCGTCA
GTCTA
Found at i:64643864 original size:44 final size:45
Alignment explanation
Indices: 64643753--64643883 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
64643743 TGTTTATTTA
*** *
64643753 TAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGC
1 TAGCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
* * * * *
64643798 TATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAATACTT-G-
1 TAGCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGC
* *
64643842 TGGCTTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATT
1 TAGCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT
64643884 TGCCATGATG
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
43 2 0.03
44 33 0.46
45 34 0.48
46 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (45 bp):
TAGCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
Found at i:64644333 original size:46 final size:46
Alignment explanation
Indices: 64644282--64644387 Score: 151
Period size: 46 Copynumber: 2.3 Consensus size: 46
64644272 AATTTGTGGT
*
64644282 TTCTTCCATCCATCCCAATGCAACTCAGGGGTATAGGATTTGTA-C
1 TTCTTCAATCCATCCCAATGCAACTCAGGGGTATAGGATTTGTATC
* * * *
64644327 TATCTTCAATCGATCCCACTGCAGCTCAGGGTTATAGGATTTGTATC
1 T-TCTTCAATCCATCCCAATGCAACTCAGGGGTATAGGATTTGTATC
64644374 TTCTTCAATCCATC
1 TTCTTCAATCCATC
64644388 AATCTAGGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 1 0.02
46 50 0.94
47 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (46 bp):
TTCTTCAATCCATCCCAATGCAACTCAGGGGTATAGGATTTGTATC
Found at i:64656490 original size:78 final size:77
Alignment explanation
Indices: 64656402--64656558 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 77
64656392 TTTTTTTTAA
64656402 AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACAATTTAAAATAAAGTAATAC
1 AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACAATTTAAAATAAAGTAATAC
64656467 GAAATTTTAAAAT
66 GAAA-TTTAAAAT
** *
64656480 AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAATGATTTAAGATAAAGTAATAC
1 AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACAATTTAAAATAAAGTAATAC
64656545 GAAATTTAAAAT
66 GAAATTTAAAAT
64656557 AA
1 AA
64656559 TAATATATGG
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 10 0.13
78 66 0.87
ACGTcount: A:0.59, C:0.08, G:0.09, T:0.24
Consensus pattern (77 bp):
AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACAATTTAAAATAAAGTAATAC
GAAATTTAAAAT
Found at i:64656816 original size:25 final size:25
Alignment explanation
Indices: 64656785--64656834 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
64656775 AAAAGAGGAA
*
64656785 GTATAATAATAATAACAATCACATC
1 GTATAATAATAACAACAATCACATC
64656810 GTATAATAATAACAACAATCACATC
1 GTATAATAATAACAACAATCACATC
64656835 CACATTTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.18, G:0.04, T:0.26
Consensus pattern (25 bp):
GTATAATAATAACAACAATCACATC
Found at i:64658179 original size:15 final size:16
Alignment explanation
Indices: 64658152--64658181 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
64658142 TAATTGGGCT
64658152 ATTTGGTTTGGGTTTA
1 ATTTGGTTTGGGTTTA
64658168 ATTTGG-TTGGGTTT
1 ATTTGGTTTGGGTTT
64658182 GGGGTGTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (16 bp):
ATTTGGTTTGGGTTTA
Found at i:64662166 original size:18 final size:18
Alignment explanation
Indices: 64662145--64662184 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
64662135 ATAATTTTTT
64662145 TAAAAAAATCTAAAAATA
1 TAAAAAAATCTAAAAATA
*
64662163 TAAAAAAATTTAAAAATA
1 TAAAAAAATCTAAAAATA
64662181 -AAAA
1 TAAAA
64662185 TAATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAAAAATCTAAAAATA
Found at i:64666241 original size:18 final size:19
Alignment explanation
Indices: 64666218--64666255 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
64666208 CCCACCCATA
*
64666218 TTATTTTTT-TATATTTTT
1 TTATTTTTTACATATTTTT
64666236 TTATTTTTTACATATTTTT
1 TTATTTTTTACATATTTTT
64666255 T
1 T
64666256 AAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTATTTTTTACATATTTTT
Found at i:64666465 original size:22 final size:22
Alignment explanation
Indices: 64666439--64666487 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
64666429 ATATCCAAAC
64666439 AATAATAATAAAATAGTAGCAA
1 AATAATAATAAAATAGTAGCAA
* * * *
64666461 CATAATAGTGAAATGGTAGCAA
1 AATAATAATAAAATAGTAGCAA
64666483 AATAA
1 AATAA
64666488 GCAGAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.22
Consensus pattern (22 bp):
AATAATAATAAAATAGTAGCAA
Found at i:64671567 original size:11 final size:11
Alignment explanation
Indices: 64671553--64671666 Score: 51
Period size: 11 Copynumber: 10.9 Consensus size: 11
64671543 AAAAACAAAG
64671553 TAAAATTAATT
1 TAAAATTAATT
64671564 TAAAATTAA--
1 TAAAATTAATT
* ** **
64671573 AAAAAACAAAG
1 TAAAATTAATT
64671584 TAAAATTAATT
1 TAAAATTAATT
64671595 TAAAATTAA--
1 TAAAATTAATT
* ** **
64671604 AAAAAACAAAG
1 TAAAATTAATT
64671615 TAAAATTAATT
1 TAAAATTAATT
64671626 TAAAATTAA--
1 TAAAATTAATT
* ** **
64671635 GAAAAACAAAG
1 TAAAATTAATT
64671646 TAAAATTAATT
1 TAAAATTAATT
64671657 TAAAATTAAT
1 TAAAATTAAT
64671667 AATTGAATAT
Statistics
Matches: 73, Mismatches: 24, Indels: 12
0.67 0.22 0.11
Matches are distributed among these distances:
9 18 0.25
11 55 0.75
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (11 bp):
TAAAATTAATT
Found at i:64671578 original size:31 final size:31
Alignment explanation
Indices: 64671543--64671665 Score: 237
Period size: 31 Copynumber: 4.0 Consensus size: 31
64671533 CAAAATTTTG
64671543 AAAAACAAAGTAAAATTAATTTAAAATTAAA
1 AAAAACAAAGTAAAATTAATTTAAAATTAAA
64671574 AAAAACAAAGTAAAATTAATTTAAAATTAAA
1 AAAAACAAAGTAAAATTAATTTAAAATTAAA
*
64671605 AAAAACAAAGTAAAATTAATTTAAAATTAAG
1 AAAAACAAAGTAAAATTAATTTAAAATTAAA
64671636 AAAAACAAAGTAAAATTAATTTAAAATTAA
1 AAAAACAAAGTAAAATTAATTTAAAATTAA
64671666 TAATTGAATA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 91 1.00
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (31 bp):
AAAAACAAAGTAAAATTAATTTAAAATTAAA
Found at i:64673222 original size:14 final size:14
Alignment explanation
Indices: 64673180--64673225 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
64673170 CATATTATAA
64673180 AATAATTCATAA-T
1 AATAATTCATAATT
* *
64673193 AGTAATTTA-AAGTT
1 AATAATTCATAA-TT
64673207 AATAATTCATAATT
1 AATAATTCATAATT
64673221 AATAA
1 AATAA
64673226 AACCGTTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
12 2 0.08
13 7 0.27
14 15 0.58
15 2 0.08
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (14 bp):
AATAATTCATAATT
Found at i:64680388 original size:26 final size:26
Alignment explanation
Indices: 64680359--64680440 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
64680349 TGATACGAAT
64680359 TGATAATGGGTTAGGTAGATGTTCCA
1 TGATAATGGGTTAGGTAGATGTTCCA
64680385 TGATAATGGGTTAGGTAGATGTTCCA
1 TGATAATGGGTTAGGTAGATGTTCCA
* *
64680411 TGATAATGGGTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAGATGTTCCA
64680437 TGAT
1 TGAT
64680441 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAGATGTTCCA
Found at i:64685638 original size:110 final size:110
Alignment explanation
Indices: 64685469--64685688 Score: 404
Period size: 110 Copynumber: 2.0 Consensus size: 110
64685459 ATTTAGTTTC
* * *
64685469 CTGTTGTCAATACAAACTCTCCATTCTATGACTGTCCTTATTGGGATTGATTCATTCTTCTCGTC
1 CTGTAGTCAATACAAACTCTCCATCCTATGACTGTCCTTATTGGGATTAATTCATTCTTCTCGTC
*
64685534 GGTCACAACCGTCATGCGTCCTTTCTTAGGGACAACCTGTACTGG
66 GGTCACAACCGTCATGCCTCCTTTCTTAGGGACAACCTGTACTGG
64685579 CTGTAGTCAATACAAACTCTCCATCCTATGACTGTCCTTATTGGGATTAATTCATTCTTCTCGTC
1 CTGTAGTCAATACAAACTCTCCATCCTATGACTGTCCTTATTGGGATTAATTCATTCTTCTCGTC
64685644 GGTCACAACCGTCATGCCTCCTTTCTTAGGGACAACCTGTACTGG
66 GGTCACAACCGTCATGCCTCCTTTCTTAGGGACAACCTGTACTGG
64685689 ACTTACCCAA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (110 bp):
CTGTAGTCAATACAAACTCTCCATCCTATGACTGTCCTTATTGGGATTAATTCATTCTTCTCGTC
GGTCACAACCGTCATGCCTCCTTTCTTAGGGACAACCTGTACTGG
Found at i:64704600 original size:55 final size:54
Alignment explanation
Indices: 64704462--64704600 Score: 154
Period size: 55 Copynumber: 2.5 Consensus size: 54
64704452 TGGCCGTGAG
* *
64704462 CGAACCTACCAAAACAACACAGGCGTGCGACACGCCCGTGCCTTAAAACCATGGC
1 CGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCC-TAAAACCATGGC
* ** * *
64704517 CGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCC-AAGCAACCGTGGG
1 CGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCTAA--AACCATGGC
* * *
64704572 TGAACCTGCCAAAACAACATGGGTGTGCG
1 CGAACCTGCCAAAACAACACGGGCGTGCG
64704601 CCTTTCTACA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.03
55 67 0.97
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.13
Consensus pattern (54 bp):
CGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCTAAAACCATGGC
Found at i:64708509 original size:12 final size:12
Alignment explanation
Indices: 64708492--64708524 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
64708482 CCAATTCCAT
64708492 TTACCAAAATCA
1 TTACCAAAATCA
64708504 TTACCAAAA-CA
1 TTACCAAAATCA
*
64708515 TAACCAAAAT
1 TTACCAAAAT
64708525 GACCAAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (12 bp):
TTACCAAAATCA
Found at i:64713802 original size:18 final size:18
Alignment explanation
Indices: 64713779--64713816 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
64713769 ACACAGTGTG
*
64713779 TAATCCTCACAGAAAACA
1 TAATCCCCACAGAAAACA
64713797 TAATCCCCACAGAAAACA
1 TAATCCCCACAGAAAACA
64713815 TA
1 TA
64713817 CATACAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.29, G:0.05, T:0.16
Consensus pattern (18 bp):
TAATCCCCACAGAAAACA
Found at i:64715946 original size:25 final size:25
Alignment explanation
Indices: 64715912--64715962 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
64715902 TGTAGCAATT
64715912 AAGTGCAAATGAAATGAAGAATAAG
1 AAGTGCAAATGAAATGAAGAATAAG
*
64715937 AAGTGTAAATGAAATGAAGAATAAG
1 AAGTGCAAATGAAATGAAGAATAAG
64715962 A
1 A
64715963 TAGAGAGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.18
Consensus pattern (25 bp):
AAGTGCAAATGAAATGAAGAATAAG
Found at i:64716923 original size:21 final size:21
Alignment explanation
Indices: 64716889--64716929 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64716879 GTCAGAATGG
* *
64716889 CCACACGGGCGTGTTGCCCTT
1 CCACACGAGCGTGTGGCCCTT
*
64716910 CCACACGAGTGTGTGGCCCT
1 CCACACGAGCGTGTGGCCCT
64716930 ATTTTATGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.37, G:0.29, T:0.22
Consensus pattern (21 bp):
CCACACGAGCGTGTGGCCCTT
Found at i:64718137 original size:9 final size:9
Alignment explanation
Indices: 64718123--64718155 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
64718113 TTCGCATCAT
64718123 TTTCTCTTA
1 TTTCTCTTA
64718132 TTTCTCTTA
1 TTTCTCTTA
64718141 TTTCTCTTA
1 TTTCTCTTA
64718150 TTTCTC
1 TTTCTC
64718156 GACAGTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:64729027 original size:49 final size:49
Alignment explanation
Indices: 64728973--64729106 Score: 127
Period size: 50 Copynumber: 2.8 Consensus size: 49
64728963 TTAAATTTTT
64728973 TTATTTATTATTTATCTCTTATTATTTTAATTAATTAGAGATAAAATAA
1 TTATTTATTATTTATCTCTTATTATTTTAATTAATTAGAGATAAAATAA
* * *
64729022 TTATTTAATA-TTATCAT-TTAATTGA-TTTAATTAAATTAGTGATAATATAA
1 TTATTTATTATTTATC-TCTT-ATT-ATTTTAATT-AATTAGAGATAAAATAA
* * *
64729072 -AATTTTATTATTTATCACTTA--ATTTAAATTAATTA
1 TTA-TTTATTATTTATCTCTTATTATTTTAATTAATTA
64729107 AAGAAAACCA
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
47 6 0.09
48 13 0.19
49 21 0.30
50 23 0.33
51 7 0.10
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (49 bp):
TTATTTATTATTTATCTCTTATTATTTTAATTAATTAGAGATAAAATAA
Found at i:64731076 original size:28 final size:30
Alignment explanation
Indices: 64731020--64731082 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
64731010 TTCTTATGCA
*
64731020 ATTAAATTTTACCACTAAACTTTAAATTTT
1 ATTAAAATTTACCACTAAACTTTAAATTTT
* *
64731050 ATTAAAATTTGCCAC-AAA-TTTAGATTTT
1 ATTAAAATTTACCACTAAACTTTAAATTTT
*
64731078 TTTAA
1 ATTAA
64731083 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 13 0.45
29 3 0.10
30 13 0.45
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (30 bp):
ATTAAAATTTACCACTAAACTTTAAATTTT
Found at i:64738204 original size:19 final size:18
Alignment explanation
Indices: 64738165--64738210 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
64738155 CTTTGATTAA
**
64738165 TAACTAATTAATTATAAT
1 TAACTAATTAAACATAAT
*
64738183 TAACCTAATTAAACATAGT
1 TAA-CTAATTAAACATAAT
64738202 TAACTAATT
1 TAACTAATT
64738211 TTAAGCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (18 bp):
TAACTAATTAAACATAAT
Found at i:64743651 original size:17 final size:17
Alignment explanation
Indices: 64743618--64743651 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64743608 GTCTATTCAA
*
64743618 TGAATTCAGGTTGCTAT
1 TGAATTCAGATTGCTAT
*
64743635 TGAATTCAGATTTCTAT
1 TGAATTCAGATTGCTAT
64743652 AAATAGCTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (17 bp):
TGAATTCAGATTGCTAT
Found at i:64743752 original size:18 final size:18
Alignment explanation
Indices: 64743729--64743765 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
64743719 AAATATAGAT
64743729 ATTTCAGAAATTGCTGCC
1 ATTTCAGAAATTGCTGCC
*
64743747 ATTTCATAAATTGCTGCC
1 ATTTCAGAAATTGCTGCC
64743765 A
1 A
64743766 CCCACAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (18 bp):
ATTTCAGAAATTGCTGCC
Found at i:64745092 original size:9 final size:8
Alignment explanation
Indices: 64745076--64745100 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
64745066 ACTTGCACTC
64745076 TCTTTTTT
1 TCTTTTTT
64745084 TCTTTTTT
1 TCTTTTTT
64745092 TCTTTTTT
1 TCTTTTTT
64745100 T
1 T
64745101 GAGGCCTGCA
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:64745395 original size:21 final size:21
Alignment explanation
Indices: 64745371--64745437 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
64745361 TTTTAAAATT
64745371 TTTTAATTAATAAATATATTA
1 TTTTAATTAATAAATATATTA
* *
64745392 TTTTTAATTTTATAATTGATA-T-
1 -TTTTAA-TTAATAAAT-ATATTA
*
64745414 TTTTAATTAATAAATATTTTA
1 TTTTAATTAATAAATATATTA
64745435 TTT
1 TTT
64745438 ATATAAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
19 2 0.06
20 8 0.22
21 9 0.25
22 6 0.17
23 8 0.22
24 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTTAATTAATAAATATATTA
Found at i:64745395 original size:22 final size:22
Alignment explanation
Indices: 64745370--64745437 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
64745360 TTTTTAAAAT
64745370 TTTTTAATTAATAAATATATTA
1 TTTTTAATTAATAAATATATTA
*
64745392 TTTTTAATT-TTATAAT-TGA-TA
1 TTTTTAATTAATA-AATAT-ATTA
*
64745413 TTTTTAATTAATAAATATTTTA
1 TTTTTAATTAATAAATATATTA
64745435 TTT
1 TTT
64745438 ATATAAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 17 0.45
22 21 0.55
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTTTAATTAATAAATATATTA
Found at i:64745430 original size:17 final size:17
Alignment explanation
Indices: 64745414--64745446 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
64745404 TAATTGATAT
64745414 TTTTAATTA-ATAAATA
1 TTTTAATTATATAAATA
*
64745430 TTTTATTTATATAAATA
1 TTTTAATTATATAAATA
64745447 AAATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAATTATATAAATA
Found at i:64745898 original size:53 final size:57
Alignment explanation
Indices: 64745788--64745899 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 57
64745778 AAAACACTTG
* *
64745788 AAAATAATATATTTATTAATTAAAAACATTAATTAGAAAATTTGAATAATTTTATTAT
1 AAAATAAAATATTTATTAATTAAAAACATTAA-TAGAAAATTTGAATAATTTCATTAT
64745846 AAAATAAAATATTTATTAATTAAAAA-ATTAA-A-AAAA-TTGAATAATTTCATTAT
1 AAAATAAAATATTTATTAATTAAAAACATTAATAGAAAATTTGAATAATTTCATTAT
64745899 A
1 A
64745900 GGTTCAACAC
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
53 17 0.33
54 4 0.08
55 1 0.02
57 5 0.10
58 25 0.48
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (57 bp):
AAAATAAAATATTTATTAATTAAAAACATTAATAGAAAATTTGAATAATTTCATTAT
Found at i:64746824 original size:16 final size:18
Alignment explanation
Indices: 64746803--64746838 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
64746793 ATTAAAATAG
64746803 AAATCTT-GTG-AGAAAA
1 AAATCTTAGTGAAGAAAA
64746819 AAATCTTAGTGAAGAAAA
1 AAATCTTAGTGAAGAAAA
64746837 AA
1 AA
64746839 GAGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.22
Consensus pattern (18 bp):
AAATCTTAGTGAAGAAAA
Found at i:64749371 original size:21 final size:21
Alignment explanation
Indices: 64749347--64749388 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
64749337 TTCCAAGAGA
64749347 ACTCTTCAAGCATCTCAAAAT
1 ACTCTTCAAGCATCTCAAAAT
64749368 ACTCTTCAAGCATCTCAAAAT
1 ACTCTTCAAGCATCTCAAAAT
64749389 TTGAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (21 bp):
ACTCTTCAAGCATCTCAAAAT
Found at i:64751952 original size:40 final size:40
Alignment explanation
Indices: 64751908--64751987 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
64751898 TTTTTTTCTT
64751908 TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
1 TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
64751948 TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
1 TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
64751988 GGCAAGCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (40 bp):
TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
Found at i:64752017 original size:19 final size:19
Alignment explanation
Indices: 64751993--64752032 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
64751983 AAGAAGGCAA
*
64751993 GCTTTGTTTGTTGATCACT
1 GCTTTGTTCGTTGATCACT
64752012 GCTTTGTTCGTTGATCACT
1 GCTTTGTTCGTTGATCACT
64752031 GC
1 GC
64752033 AGTTGTGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (19 bp):
GCTTTGTTCGTTGATCACT
Found at i:64752288 original size:20 final size:22
Alignment explanation
Indices: 64752246--64752291 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
64752236 TTAAATATAA
*
64752246 ATATAAATATTTATTTTATTTT
1 ATATAAATATTTAGTTTATTTT
64752268 ATATAAATATTT-GTTTA-TTT
1 ATATAAATATTTAGTTTATTTT
64752288 ATAT
1 ATAT
64752292 TCATATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 4 0.17
22 12 0.52
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATATAAATATTTAGTTTATTTT
Found at i:64756055 original size:93 final size:90
Alignment explanation
Indices: 64755866--64756055 Score: 211
Period size: 93 Copynumber: 2.1 Consensus size: 90
64755856 AGTTTAATAG
*
64755866 TATGCAAACACTAGTGGTTTATCCACAAACTTACTGGCAGCTCTTATTTGCAAATACGTTGTGTA
1 TATGCAAACACTAGTGGTTTATCCACAAACTTACTGGCAGCTCTTATCTGCAAATACGTTGTGTA
* *
64755931 ATCACAACTATTGGCAGCGTTTTAA
66 ATCACAACTACTGGCAGCGTATTAA
** * * ** * *
64755956 CCTGCAAGCACTAGTGGTTTATCCATAATTTTTTTACTGGCAGCTGTTATCTGCAAACT-TGTTG
1 TATGCAAACACTAGTGGTTTATCCACAA---ACTTACTGGCAGCTCTTATCTGCAAA-TACGTTG
** *
64756020 TGTAATCACAACTACTGGTGGTGTATTAA
62 TGTAATCACAACTACTGGCAGCGTATTAA
64756049 TATGCAA
1 TATGCAA
64756056 TACTGGTGGC
Statistics
Matches: 80, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
90 24 0.30
93 55 0.69
94 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (90 bp):
TATGCAAACACTAGTGGTTTATCCACAAACTTACTGGCAGCTCTTATCTGCAAATACGTTGTGTA
ATCACAACTACTGGCAGCGTATTAA
Found at i:64758184 original size:17 final size:19
Alignment explanation
Indices: 64758154--64758196 Score: 63
Period size: 17 Copynumber: 2.3 Consensus size: 19
64758144 TAATAGAAAT
64758154 TATTTTAAGCATATATTT-A
1 TATTTTAA-CATATATTTAA
64758173 TATTTTAA-ATATATTTAA
1 TATTTTAACATATATTTAA
64758191 TATTTT
1 TATTTT
64758197 CTTTTAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 8 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TATTTTAACATATATTTAA
Found at i:64758916 original size:23 final size:23
Alignment explanation
Indices: 64758890--64758934 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
64758880 AAAAAATATG
64758890 TTGTTTTCTCATTAATTTTAAAT
1 TTGTTTTCTCATTAATTTTAAAT
*
64758913 TTGTTTTGTCATTAATTTTAAA
1 TTGTTTTCTCATTAATTTTAAA
64758935 CACGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (23 bp):
TTGTTTTCTCATTAATTTTAAAT
Found at i:64759843 original size:23 final size:25
Alignment explanation
Indices: 64759817--64759863 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
64759807 TATCATTCAT
*
64759817 TTCATTATATC-A-ATATTTTATGC
1 TTCATCATATCTATATATTTTATGC
*
64759840 TTCATCATTTCTATATATTTTATG
1 TTCATCATATCTATATATTTTATG
64759864 AATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.55
Consensus pattern (25 bp):
TTCATCATATCTATATATTTTATGC
Found at i:64760184 original size:46 final size:47
Alignment explanation
Indices: 64760124--64760335 Score: 250
Period size: 46 Copynumber: 4.8 Consensus size: 47
64760114 TTTGACGTGA
* * * * *
64760124 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
**
64760170 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
* * *
64760216 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
64760262 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCA--T-A---
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
64760302 --CCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
64760336 CATATCAGAG
Statistics
Matches: 152, Mismatches: 11, Indels: 13
0.86 0.06 0.07
Matches are distributed among these distances:
38 31 0.20
39 2 0.01
43 1 0.01
44 1 0.01
45 5 0.03
46 112 0.74
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATGTCACGT
Found at i:64760283 original size:16 final size:16
Alignment explanation
Indices: 64760264--64760324 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 16
64760254 TATCAGGTTG
64760264 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
*
64760280 CCATGGTCTTACACATTTCATA
1 CCATGG---TA-TC-TTTCA-A
64760302 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
64760318 CCATGGT
1 CCATGGT
64760325 CTTACACATT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
16 14 0.38
17 5 0.14
18 1 0.03
19 4 0.11
20 1 0.03
21 5 0.14
22 7 0.19
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:64760315 original size:38 final size:38
Alignment explanation
Indices: 64760264--64760339 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
64760254 TATCAGGTTG
64760264 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
64760302 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
64760340 TCAGAGAGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (38 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
Found at i:64760336 original size:21 final size:21
Alignment explanation
Indices: 64760274--64760337 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
64760264 CCATGGTATC
64760274 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
*
64760295 TTTCATACCATGG---TA-TC-
1 TTTCA-ACCATGGTCTTACACA
64760312 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
64760333 TTTCA
1 TTTCA
64760338 TATCAGAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 7 0.20
17 5 0.14
18 1 0.03
19 4 0.11
20 1 0.03
21 10 0.29
22 7 0.20
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:64762538 original size:27 final size:27
Alignment explanation
Indices: 64762466--64762549 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
64762456 TTTCTTTCTT
*
64762466 TATTTA-CTAATAAAATAATAATAAAA
1 TATTTATCTAATTAAATAATAATAAAA
* *
64762492 TATCTTAT-TAAAGT-ATTAATAA-AATAA
1 TAT-TTATCT-AATTAAATAATAATAA-AA
*
64762519 TATTTATCTAATTAAATAATTATAAAA
1 TATTTATCTAATTAAATAATAATAAAA
64762546 TATT
1 TATT
64762550 AAAATATCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
26 12 0.27
27 29 0.64
28 4 0.09
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (27 bp):
TATTTATCTAATTAAATAATAATAAAA
Found at i:64762558 original size:31 final size:32
Alignment explanation
Indices: 64762482--64762558 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
64762472 CTAATAAAAT
*
64762482 AATAATAAAATATCTTATTAAAGTATTAATAA
1 AATAATAAAATATCTAATTAAAGTATTAATAA
**
64762514 AATAAT-ATTTATCTAATTAAA-TAATT-ATAA
1 AATAATAAAATATCTAATTAAAGT-ATTAATAA
*
64762544 AATATTAAAATATCT
1 AATAATAAAATATCT
64762559 CTAGCATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 10 0.27
31 21 0.57
32 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (32 bp):
AATAATAAAATATCTAATTAAAGTATTAATAA
Found at i:64768985 original size:21 final size:18
Alignment explanation
Indices: 64768942--64768986 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
64768932 NNNAAAGTAT
64768942 ATACATAATATATATGAA
1 ATACATAATATATATGAA
64768960 A-ACATAATATAGTATTAGAA
1 ATACATAATATA-TA-T-GAA
64768980 ATACATA
1 ATACATA
64768987 TTAGAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 3 0.13
19 1 0.04
20 4 0.17
21 5 0.22
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (18 bp):
ATACATAATATATATGAA
Found at i:64769339 original size:13 final size:13
Alignment explanation
Indices: 64769321--64769435 Score: 51
Period size: 13 Copynumber: 8.6 Consensus size: 13
64769311 TATATACATG
64769321 ATAATATATAAAA
1 ATAATATATAAAA
64769334 ATAATAATATTAGAAA
1 ATAAT-ATA-TA-AAA
* *
64769350 AT-ATATGTACATA
1 ATAATATATA-AAA
* *
64769363 AT-ATATATATAT
1 ATAATATATAAAA
* *
64769375 ATAAATATATATAC
1 AT-AATATATAAAA
**
64769389 ATAATATAGTATTA
1 ATAATATA-TAAAA
64769403 A-AATAT-TAAAA
1 ATAATATATAAAA
64769414 TATAATAT-TAAAA
1 -ATAATATATAAAA
64769427 ATACATATA
1 ATA-ATATA
64769436 ATATATATAA
Statistics
Matches: 80, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
11 3 0.04
12 6 0.08
13 42 0.52
14 20 0.25
15 4 0.05
16 5 0.06
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (13 bp):
ATAATATATAAAA
Found at i:64769339 original size:38 final size:41
Alignment explanation
Indices: 64769288--64769490 Score: 114
Period size: 38 Copynumber: 5.0 Consensus size: 41
64769278 AGTATAAAAA
* * *
64769288 ATATATAACTAATAATATT-AAAATATA-TACATGATA-AT
1 ATATAAAAATAATAATATTAAAAATATAGTACATAATATAT
64769326 ATATAAAAATAATAATATTAGAAAATATATGTACATAATATAT
1 ATATAAAAATAATAATATTA-AAAATATA-GTACATAATATAT
* *
64769369 ATATATATAAAT-AT-ATA-TACATAATATAGTA-TTAA-A-AT
1 ATATA-A-AAATAATAATATTA-AAAATATAGTACATAATATAT
64769407 AT-T-AAAAT-ATAATATTAAAAATACATA-TA-ATATATATAAAAT
1 ATATAAAAATAATAATATTAAAAAT--ATAGTACATA-ATAT---AT
* *
64769449 ATATACACAAT-ATAGTATTAAAATATATA-TACATAATATAT
1 ATATA-AAAATAATAATATTAAAA-ATATAGTACATAATATAT
64769490 A
1 A
64769491 CTTATTAGAT
Statistics
Matches: 133, Mismatches: 10, Indels: 41
0.72 0.05 0.22
Matches are distributed among these distances:
34 6 0.05
35 8 0.06
36 6 0.05
37 5 0.04
38 22 0.17
39 1 0.01
40 11 0.08
41 6 0.05
42 21 0.16
43 11 0.08
44 12 0.09
45 22 0.17
46 2 0.02
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (41 bp):
ATATAAAAATAATAATATTAAAAATATAGTACATAATATAT
Found at i:64769406 original size:71 final size:66
Alignment explanation
Indices: 64769297--64769473 Score: 180
Period size: 71 Copynumber: 2.6 Consensus size: 66
64769287 AATATATAAC
* * ** *
64769297 TAATA-ATATTAAAATATATACATGATAATA-TATAAAAATAATAATATTAGAAAATATATGTAC
1 TAATATATA-TAAAATATATACATAAT-ATAGTATTAAAATAATAA-A--AGAAAATAT-TAAAA
64769360 ATA-ATA
60 ATACATA
* * *
64769366 TATATATATATAAATATATATACATAATATAGTATTAAAATATTAAAATATAATATTAAAAATAC
1 TA-ATATATATAAA-ATATATACATAATATAGTATTAAAATAATAAAAGAAAATATTAAAAATAC
64769431 ATA
64 ATA
*
64769434 TAATATATATAAAATATATACACAATATAGTATTAAAATA
1 TAATATATATAAAATATATACATAATATAGTATTAAAATA
64769474 TATATACATA
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
66 26 0.28
67 16 0.17
68 12 0.13
69 2 0.02
70 11 0.12
71 27 0.29
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (66 bp):
TAATATATATAAAATATATACATAATATAGTATTAAAATAATAAAAGAAAATATTAAAAATACAT
A
Found at i:64769502 original size:26 final size:26
Alignment explanation
Indices: 64769347--64769514 Score: 75
Period size: 26 Copynumber: 6.9 Consensus size: 26
64769337 ATAATATTAG
* * *
64769347 AAAATATATGTACATAATATATATATAT
1 AAAAGATATATACATAATATATA-CT-T
*
64769375 ATAAATATATATACATAATATAGTA-TT
1 A-AAAGATATATACATAATATA-TACTT
64769402 -AAA-ATAT-TA-A-AATATAATA-TT
1 AAAAGATATATACATAATAT-ATACTT
*
64769423 AAAA-ATACAT--ATAATATATA--T
1 AAAAGATATATACATAATATATACTT
*
64769444 -AAA-ATATATACACAATATAGTA-TT
1 AAAAGATATATACATAATATA-TACTT
*
64769468 AAAATATATATACATAATATATACTT
1 AAAAGATATATACATAATATATACTT
**
64769494 ATTAGATATA-A-ATAA-ATATAC
1 AAAAGATATATACATAATATATAC
64769515 GTACATACAT
Statistics
Matches: 119, Mismatches: 8, Indels: 31
0.75 0.05 0.20
Matches are distributed among these distances:
20 8 0.07
21 10 0.08
22 19 0.16
23 16 0.13
24 9 0.08
25 9 0.08
26 24 0.20
27 1 0.01
28 2 0.02
29 19 0.16
30 2 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAAGATATATACATAATATATACTT
Found at i:64770124 original size:24 final size:24
Alignment explanation
Indices: 64770094--64770150 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
64770084 TCGGCGATCG
*
64770094 GACCGCCGTCCGTCCTTCGCCAGC
1 GACCGCCGTCCGTCCGTCGCCAGC
* *
64770118 GATCGCCATCCGTCCGTCGCCAGC
1 GACCGCCGTCCGTCCGTCGCCAGC
64770142 GACCGCCGT
1 GACCGCCGT
64770151 ATACGGCGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.11, C:0.47, G:0.26, T:0.16
Consensus pattern (24 bp):
GACCGCCGTCCGTCCGTCGCCAGC
Found at i:64771673 original size:14 final size:14
Alignment explanation
Indices: 64771654--64771702 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
64771644 GTTGATTTTT
*
64771654 TTGAAAAGTAGAAA
1 TTGAAAAGAAGAAA
*
64771668 TTGAAAAGAAAAAA
1 TTGAAAAGAAGAAA
*
64771682 TTGAAAAGCAGAAA
1 TTGAAAAGAAGAAA
64771696 TTGAAAA
1 TTGAAAA
64771703 TTCCTCAGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.61, C:0.02, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAAGAAGAAA
Found at i:64771744 original size:103 final size:94
Alignment explanation
Indices: 64771499--64771756 Score: 272
Period size: 93 Copynumber: 2.6 Consensus size: 94
64771489 AAGCAGATTT
* *
64771499 TGAAAATACCT-TGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
1 TGAAAATACCTCAG-CA-GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
64771561 GAAAAATATAAATTGAAAAAAAAAAAGAAAC
64 GAAAAATAGAAATTGAAAAAAAAAAAGAAAC
* * *
64771592 TGAAAATACCTCAGCATGTGAGCTGGGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTG
1 TGAAAATACCTCAGCA-GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* *
64771657 AAAAGTAGAAATTGAAAAGAAAAAATTGAAAAGCAGAAAT
65 AAAAATAGAAATT-----GAAAAAA---AAAA--AGAAAC
* * *
64771697 TGAAAATTCCTCAGC-GTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 TGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
64771757 GACAAACAGA
Statistics
Matches: 138, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
93 50 0.36
94 1 0.01
95 17 0.12
100 7 0.05
103 44 0.32
105 19 0.14
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (94 bp):
TGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
AAAATAGAAATTGAAAAAAAAAAAGAAAC
Found at i:64771813 original size:73 final size:73
Alignment explanation
Indices: 64771682--64771907 Score: 348
Period size: 73 Copynumber: 3.1 Consensus size: 73
64771672 AAAGAAAAAA
* * *
64771682 TTGAAAAGCAGAAATTGAAAATT-CCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATG
1 TTGAAAAACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
64771746 AGTTGATTT
65 AGTTGATTT
* *
64771755 TTGACAAACAG-AATTCGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATG
1 TTGAAAAACAGAAATT-GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
64771819 AGTCGATTT
65 AGTTGATTT
*
64771828 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
64771893 GTTGATTTT
66 GTTGA-TTT
64771902 TTGAAA
1 TTGAAA
64771908 CATAAATTAA
Statistics
Matches: 139, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
72 9 0.06
73 117 0.84
74 13 0.09
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:64771975 original size:159 final size:157
Alignment explanation
Indices: 64771776--64772077 Score: 514
Period size: 159 Copynumber: 1.9 Consensus size: 157
64771766 AATTCGAAAT
*
64771776 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTCGATTTTTGAAAAACAGAA
1 TACCTCAGCGTGCCCTGAGGCTCAACTCACCTATCGCAATATGAGTCGATTTTTGAAAAACAGAA
64771841 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
66 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA
*
64771906 AACATAAATTAAAAAACAAAAACTGAACA
130 AACAGAAA-TAAAAAACAAAAACTGAACA
* * * *
64771935 TACCTCAGCGTGCCCTGAGGCTTAGCTCACCTCTCGCAATATGAGTCGCTTTTTGAAAAACAGAA
1 TACCTCAGCGTGCCCTGAGGCTCAACTCACCTATCGCAATATGAGTCGATTTTTGAAAAACAGAA
* *
64772000 ATTGAAAATACCTTAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
66 ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
64772065 ACAGAAATAAAAA
131 ACAGAAATAAAAA
64772078 TATTAGAATA
Statistics
Matches: 135, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
157 6 0.04
158 14 0.10
159 115 0.85
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (157 bp):
TACCTCAGCGTGCCCTGAGGCTCAACTCACCTATCGCAATATGAGTCGATTTTTGAAAAACAGAA
ATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
ACAGAAATAAAAAACAAAAACTGAACA
Found at i:64771988 original size:86 final size:85
Alignment explanation
Indices: 64771831--64771992 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 85
64771821 TCGATTTTTG
* * * *
64771831 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAAAAACTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTC
64771896 GATTTTTTGAAACATAAATTA
66 GA-TTTTTGAAACATAAATTA
* * *
64771917 AAAAACAAAAACTGAACATACCTCAGCGTGCCCTGAGGCTTAGCTCACCTCTCGCAATATGAGTC
1 AAAAACAAAAACTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTC
*
64771982 GCTTTTTGAAA
66 GATTTTTGAAA
64771993 AACAGAAATT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
85 9 0.13
86 59 0.87
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (85 bp):
AAAAACAAAAACTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTC
GATTTTTGAAACATAAATTA
Found at i:64772037 original size:73 final size:73
Alignment explanation
Indices: 64771917--64772072 Score: 226
Period size: 73 Copynumber: 2.2 Consensus size: 73
64771907 ACATAAATTA
* * * *
64771917 AAAAACAAAAACTGAACATACCTCAGCGTGCCCTGAGGCTTAGCTCACCTCTCGCAATATGAGTC
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGAGTC
*
64771982 GCTTTTTG
66 GATTTTTG
* * *
64771990 AAAAACAGAAATTGAAAATACCTTAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGAGTC
64772055 GATTTTTG
66 GATTTTTG
64772063 --AAACAGAAAT
1 AAAAACAGAAAT
64772073 AAAAATATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
71 10 0.13
73 65 0.87
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (73 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGAGTC
GATTTTTG
Found at i:64780889 original size:29 final size:29
Alignment explanation
Indices: 64780847--64780905 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
64780837 TAGTCATAAG
64780847 TTCGACAGACATAATTTCATATTCGACGT
1 TTCGACAGACATAATTTCATATTCGACGT
*
64780876 TTCGACAGACATAATTTCATATTCGGCGT
1 TTCGACAGACATAATTTCATATTCGACGT
64780905 T
1 T
64780906 CTTCCTCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (29 bp):
TTCGACAGACATAATTTCATATTCGACGT
Found at i:64785856 original size:13 final size:13
Alignment explanation
Indices: 64785838--64785891 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
64785828 TGCAAGTATG
*
64785838 ATATGCGAGCTCA
1 ATATGCAAGCTCA
* *
64785851 ATATGCGAGCCCA
1 ATATGCAAGCTCA
* *
64785864 ATGTGCAAGCTCG
1 ATATGCAAGCTCA
*
64785877 ATATGTAAGCTCA
1 ATATGCAAGCTCA
64785890 AT
1 AT
64785892 GTGTGAACCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (13 bp):
ATATGCAAGCTCA
Found at i:64786700 original size:10 final size:10
Alignment explanation
Indices: 64786685--64786714 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
64786675 CTTCATTGTA
64786685 TGATGAAGTG
1 TGATGAAGTG
64786695 TGATGAAGTG
1 TGATGAAGTG
64786705 TGATGAAGTG
1 TGATGAAGTG
64786715 CCATTGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (10 bp):
TGATGAAGTG
Found at i:64788199 original size:9 final size:9
Alignment explanation
Indices: 64788185--64788214 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
64788175 ATGTGTTATA
64788185 TTAGGGTTT
1 TTAGGGTTT
*
64788194 TTAGGGTTG
1 TTAGGGTTT
64788203 TTAGGGTTT
1 TTAGGGTTT
64788212 TTA
1 TTA
64788215 TTGTGTTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (9 bp):
TTAGGGTTT
Found at i:64788221 original size:17 final size:18
Alignment explanation
Indices: 64788185--64788228 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
64788175 ATGTGTTATA
64788185 TTAGGGTTTTTAGGGTTG
1 TTAGGGTTTTTAGGGTTG
**
64788203 TTAGGGTTTTTATTG-TG
1 TTAGGGTTTTTAGGGTTG
64788220 TTAGGGTTT
1 TTAGGGTTT
64788229 AGGGTTATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (18 bp):
TTAGGGTTTTTAGGGTTG
Found at i:64791276 original size:32 final size:32
Alignment explanation
Indices: 64791240--64791315 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
64791230 TGTGGTTCTA
* *
64791240 TGAAATGATAACAAA-TATTAGCTTTC-ATTTTG
1 TGAAATGATAACAAATTA-CAAC-TTCAATTTTG
*
64791272 TGAAATGGTAACAAATTACAACTTCAATTTTG
1 TGAAATGATAACAAATTACAACTTCAATTTTG
64791304 TGAAATGATAAC
1 TGAAATGATAAC
64791316 GATAGGAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 3 0.08
32 33 0.87
33 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.36
Consensus pattern (32 bp):
TGAAATGATAACAAATTACAACTTCAATTTTG
Found at i:64791996 original size:36 final size:35
Alignment explanation
Indices: 64791924--64791996 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
64791914 TCAAAATTTC
*
64791924 ATTATTAACTTAACGATAAGATGACAAAAAATCAA
1 ATTATTAACTTAACGACAAGATGACAAAAAATCAA
* *
64791959 ATTATTAACTTTACGACAAGGTGACAAAAAAATCAA
1 ATTATTAACTTAACGACAAGATGAC-AAAAAATCAA
64791995 AT
1 AT
64791997 CTTAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 22 0.65
36 12 0.35
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (35 bp):
ATTATTAACTTAACGACAAGATGACAAAAAATCAA
Found at i:64796785 original size:40 final size:40
Alignment explanation
Indices: 64796731--64796806 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
64796721 TCATCCCCGG
*
64796731 AAATCTTACCAGTGAATAGGTTCGAGTATTGTTTTCCCTA
1 AAATATTACCAGTGAATAGGTTCGAGTATTGTTTTCCCTA
* * *
64796771 AAATATTACTAGTGAATAGGTTCGGGTATTTTTTTC
1 AAATATTACCAGTGAATAGGTTCGAGTATTGTTTTC
64796807 TCAAAGCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (40 bp):
AAATATTACCAGTGAATAGGTTCGAGTATTGTTTTCCCTA
Found at i:64802986 original size:48 final size:48
Alignment explanation
Indices: 64802929--64803061 Score: 176
Period size: 48 Copynumber: 2.8 Consensus size: 48
64802919 CTCACACGAT
* * *
64802929 AAGTACCTATACCATGGCCTGAAGCCAAATCAAGGTAACTTATCCCCG
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAAATTATCCCCA
* * * ***
64802977 GAGTACCTATACCATGTCCCGAAGCCAAATTAAGGTAAATTATCTTTA
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAAATTATCCCCA
*
64803025 AAATACCTATACCATGGCCCGAAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTA
64803062 TAACTCACAC
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAAATTATCCCCA
Found at i:64814926 original size:18 final size:18
Alignment explanation
Indices: 64814905--64814940 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
64814895 TCATATGTTC
64814905 GATAAAAATTGAATCATT
1 GATAAAAATTGAATCATT
64814923 GATAAAAATTGAATCATT
1 GATAAAAATTGAATCATT
64814941 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (18 bp):
GATAAAAATTGAATCATT
Found at i:64825907 original size:28 final size:28
Alignment explanation
Indices: 64825867--64825929 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 28
64825857 TGATTCTACT
*
64825867 ATTTATCTAACC-TGCAACATGTAAATCA
1 ATTTATCTAACCTTG-AACATGTAAACCA
64825895 ATTTATCTAACCTTGAACATGTAAACCA
1 ATTTATCTAACCTTGAACATGTAAACCA
64825923 ATTTATC
1 ATTTATC
64825930 ATTAATAGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 31 0.94
29 2 0.06
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (28 bp):
ATTTATCTAACCTTGAACATGTAAACCA
Found at i:64826210 original size:75 final size:75
Alignment explanation
Indices: 64826106--64826349 Score: 262
Period size: 75 Copynumber: 3.3 Consensus size: 75
64826096 TGCTCCTAGC
* *
64826106 GCTAGTCGAATTAACCGACAGTATTGAATGTGAGCCTAGCTCTATTTGGATAAACCAACGATATT
1 GCTAGTCGGATTAACCGACAATATTGAATGTGAGCCTAGCTCTATTTGGATAAACCAACGATATT
* *
64826171 TTCATCCAGT
66 TACACCCAGT
* * * * *
64826181 GCTACTCGGATTAATCGACAATATTGAATGTGAGCCCAGTTATAGTTT-GATAAACCAACGATAT
1 GCTAGTCGGATTAACCGACAATATTGAATGTGAGCCTAGCTCTA-TTTGGATAAACCAACGATAT
*
64826245 TTGCACCCAGT
65 TTACACCCAGT
* * * * * *
64826256 GCTAGTCGG-GTATACCGACGAT-TAT-AATTCTGAGCCTAGCTCTAGTTGGATAAACCAACAAA
1 GCTAGTCGGATTA-ACCGACAATAT-TGAA-TGTGAGCCTAGCTCTATTTGGATAAACCAACGAT
*
64826318 AATTACACCCAGT
63 ATTTACACCCAGT
*
64826331 GCTAGTCGGATAAACCGAC
1 GCTAGTCGGATTAACCGAC
64826350 GGGTGTGTGC
Statistics
Matches: 139, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
74 7 0.05
75 128 0.92
76 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (75 bp):
GCTAGTCGGATTAACCGACAATATTGAATGTGAGCCTAGCTCTATTTGGATAAACCAACGATATT
TACACCCAGT
Found at i:64829225 original size:22 final size:21
Alignment explanation
Indices: 64829195--64829241 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
64829185 TACAAATTAA
64829195 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
64829217 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
64829238 ATCT
1 ATCT
64829242 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:64829247 original size:19 final size:19
Alignment explanation
Indices: 64829212--64829290 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
64829202 AGATTACAAG
64829212 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
64829233 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
64829250 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
64829269 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
64829288 ATC
1 ATC
64829291 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:64829267 original size:36 final size:38
Alignment explanation
Indices: 64829212--64829284 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
64829202 AGATTACAAG
64829212 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
64829250 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
64829285 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:64829299 original size:36 final size:35
Alignment explanation
Indices: 64829213--64829300 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
64829203 GATTACAAGA
64829213 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
64829249 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
64829285 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
64829301 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:64831293 original size:13 final size:14
Alignment explanation
Indices: 64831268--64831296 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64831258 ATTTAAACCG
64831268 TTTTAAAACCCCTT
1 TTTTAAAACCCCTT
64831282 TTTTAAAA-CCCTT
1 TTTTAAAACCCCTT
64831295 TT
1 TT
64831297 ATCCTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTTAAAACCCCTT
Found at i:64831864 original size:21 final size:21
Alignment explanation
Indices: 64831847--64831888 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
64831837 TTCTTTGTAT
*
64831847 TTTGGGCTTGTACTTTTGTTA
1 TTTGGGCTTGTAATTTTGTTA
64831868 TTTGGGCTTGTAATTTTGTTA
1 TTTGGGCTTGTAATTTTGTTA
64831889 ATGGACTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.07, G:0.24, T:0.57
Consensus pattern (21 bp):
TTTGGGCTTGTAATTTTGTTA
Found at i:64833020 original size:15 final size:15
Alignment explanation
Indices: 64832992--64833046 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
64832982 AATACATGTT
*
64832992 AAATCAACTAAAATTA
1 AAATTAACT-AAATTA
64833008 AAATTAACTAAATATA
1 AAATTAACTAAAT-TA
64833024 AAATATAA-TAAATTAA
1 AAAT-TAACTAAATT-A
64833040 AAATTAA
1 AAATTAA
64833047 AATATATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 8 0.23
16 24 0.69
17 3 0.09
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAACTAAATTA
Found at i:64833047 original size:22 final size:24
Alignment explanation
Indices: 64833008--64833052 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
64832998 ACTAAAATTA
64833008 AAATTAACTAAATATAAAATATAAT
1 AAATTAAC-AAATATAAAATATAAT
64833033 AAATTAA-AAAT-TAAAATATA
1 AAATTAACAAATATAAAATATA
64833053 TTTAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
25 7 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATTAACAAATATAAAATATAAT
Found at i:64834677 original size:7 final size:7
Alignment explanation
Indices: 64834665--64834712 Score: 80
Period size: 7 Copynumber: 7.0 Consensus size: 7
64834655 TGATATAAGC
64834665 TCTTTTT
1 TCTTTTT
64834672 TCTTTTT
1 TCTTTTT
*
64834679 TCTTCTT
1 TCTTTTT
64834686 TCTTTTT
1 TCTTTTT
64834693 TCTTTTT
1 TCTTTTT
64834700 TCTTTTT
1 TCTTTTT
64834707 T-TTTTT
1 TCTTTTT
64834713 CACTTTCTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 5 0.13
7 34 0.87
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TCTTTTT
Found at i:64834718 original size:14 final size:14
Alignment explanation
Indices: 64834665--64834724 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
64834655 TGATATAAGC
*
64834665 TCTTTTTTCTTTTT
1 TCTTTTTACTTTTT
64834679 TCTTCTTT-CTTTTT
1 TCTT-TTTACTTTTT
*
64834693 TCTTTTTTCTTTTT
1 TCTTTTTACTTTTT
*
64834707 T-TTTTTCACTTTCT
1 TCTTTTT-ACTTTTT
64834721 TCTT
1 TCTT
64834725 GAAAACCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
13 8 0.20
14 27 0.68
15 5 0.12
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (14 bp):
TCTTTTTACTTTTT
Found at i:64834718 original size:21 final size:21
Alignment explanation
Indices: 64834667--64834724 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
64834657 ATATAAGCTC
*
64834667 TTTTTTCTTTTTTCTTCTTTC
1 TTTTTCCTTTTTTCTTCTTTC
* *
64834688 TTTTTTCTTTTTTCTT-TTTT
1 TTTTTCCTTTTTTCTTCTTTC
*
64834708 TTTTTCACTTTCTTCTT
1 TTTTTC-CTTTTTTCTT
64834725 GAAAACCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 8 0.24
21 25 0.76
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTCCTTTTTTCTTCTTTC
Found at i:64835736 original size:31 final size:31
Alignment explanation
Indices: 64835696--64835763 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
64835686 ATATCTACAG
64835696 TTTT-TTTAATCTTATATTATCTATAATATT
1 TTTTCTTTAATCTTATATTATCTATAATATT
64835726 TTTTCTTTAATCTTATATTATCTATAATATT
1 TTTTCTTTAATCTTATATTATCTATAATATT
64835757 TTTTCTT
1 TTTTCTT
64835764 ATATAATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTCTTTAATCTTATATTATCTATAATATT
Found at i:64845408 original size:26 final size:27
Alignment explanation
Indices: 64845345--64845408 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
64845335 ATATGAATGC
64845345 ATTTTAATTTTAATATTTTGAATTTCA
1 ATTTTAATTTTAATATTTTGAATTTCA
* * * *
64845372 A--TGAACTTTTTATATTTTTAATTTTA
1 ATTTTAA-TTTTAATATTTTGAATTTCA
64845398 ATTTTAATTTT
1 ATTTTAATTTT
64845409 TTATAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
25 3 0.10
26 18 0.62
27 5 0.17
28 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (27 bp):
ATTTTAATTTTAATATTTTGAATTTCA
Found at i:64845881 original size:65 final size:64
Alignment explanation
Indices: 64845804--64845932 Score: 231
Period size: 65 Copynumber: 2.0 Consensus size: 64
64845794 TTTATATTTA
* *
64845804 GTTTTAACGTTAAAATTTTTATAGAAAAATTAATTTACATAATATTTTTTATTTATCCTTAAAAG
1 GTTTTAAAGTTAAAATTTTTATAGAAAAATTAATTTAAATAATA-TTTTTATTTATCCTTAAAAG
64845869 GTTTTAAAGTTAAAATTTTTATAGAAAAATTAATTTAAATAATATTTTTATTTATCCTTAAAAG
1 GTTTTAAAGTTAAAATTTTTATAGAAAAATTAATTTAAATAATATTTTTATTTATCCTTAAAAG
64845933 TATATAGTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
64 20 0.32
65 42 0.68
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (64 bp):
GTTTTAAAGTTAAAATTTTTATAGAAAAATTAATTTAAATAATATTTTTATTTATCCTTAAAAG
Found at i:64846038 original size:20 final size:19
Alignment explanation
Indices: 64845989--64846038 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
64845979 TTTATCATAG
**
64845989 AAATAAATATTTTTTAATTA
1 AAAT-AATATTTTTTAAGGA
64846009 AAATAA-ATTTTTTAAAGGA
1 AAATAATATTTTTT-AAGGA
64846028 AAATAATATTT
1 AAATAATATTT
64846039 ATCTTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 7 0.27
19 11 0.42
20 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
AAATAATATTTTTTAAGGA
Found at i:64846313 original size:13 final size:13
Alignment explanation
Indices: 64846297--64846323 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64846287 TAATTAAAGG
64846297 GTTAAAATTTAAA
1 GTTAAAATTTAAA
64846310 GTTAAAATTTAAA
1 GTTAAAATTTAAA
64846323 G
1 G
64846324 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:64846420 original size:43 final size:42
Alignment explanation
Indices: 64846373--64846512 Score: 173
Period size: 43 Copynumber: 3.4 Consensus size: 42
64846363 AAAACTTTGG
* * * *
64846373 ATCATAACTTACATAATTTATATAATACAAAAATATGTATTAT
1 ATCATAACTTACATAACTTACATAATAC-AAAATATATATCAT
*
64846416 ATCATAAATTACATAACTTACATAGAT-----ATATATATCAT
1 ATCATAACTTACATAACTTACATA-ATACAAAATATATATCAT
64846454 ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAATACA-AAATATATATCAT
64846497 ATCATAACTTACATAA
1 ATCATAACTTACATAA
64846513 AATTTTGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
37 2 0.02
38 32 0.38
43 48 0.57
44 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.36
Consensus pattern (42 bp):
ATCATAACTTACATAACTTACATAATACAAAATATATATCAT
Found at i:64852543 original size:43 final size:43
Alignment explanation
Indices: 64852482--64852604 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
64852472 GTTTTTTCAC
* * * * *
64852482 AAACGCCGCCAAAGAACATAACTTTTAGCAGCGCTTTTACTAA
1 AAACGTCGCTAAAGAACATGACTTTTAGCGGCGCTTTTACGAA
* * *
64852525 AAACGTCGCTAAAGAACATGACTTTTAGCGGCGTTTTTAGGAC
1 AAACGTCGCTAAAGAACATGACTTTTAGCGGCGCTTTTACGAA
* *
64852568 AAAC-TCCGCTATAGAACATGACCTTTAGCGGCGCTTT
1 AAACGT-CGCTAAAGAACATGACTTTTAGCGGCGCTTT
64852605 CCCACAAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGTCGCTAAAGAACATGACTTTTAGCGGCGCTTTTACGAA
Found at i:64852953 original size:61 final size:61
Alignment explanation
Indices: 64852824--64852954 Score: 151
Period size: 61 Copynumber: 2.1 Consensus size: 61
64852814 CAATCTCAAT
* * *
64852824 TAGTTAGGTGACCAAATTAAAAAATTTGATAGTTAAGTAATCCAAAAAAGAAAAGAGGTAA
1 TAGTTGGGTGACCAAATTAAAAAATTTGATAGTCAAGTAATCCAAAAAAGAAAAGAGGCAA
** *
64852885 TAGTTGGGTGACCAAATTAAACAAA-TTGATAGTCGGGTGA-CCAAAAGAAGAAAATG-GGCAA
1 TAGTTGGGTGACCAAATTAAA-AAATTTGATAGTCAAGTAATCCAAAA-AAGAAAA-GAGGCAA
*
64852946 TATTTGGGT
1 TAGTTGGGT
64852955 AAATTGTGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 6 0.10
61 50 0.83
62 4 0.07
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.24
Consensus pattern (61 bp):
TAGTTGGGTGACCAAATTAAAAAATTTGATAGTCAAGTAATCCAAAAAAGAAAAGAGGCAA
Found at i:64856492 original size:47 final size:47
Alignment explanation
Indices: 64856423--64856516 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
64856413 GCGAGATATT
64856423 TTCTCAAAAAAAAAAAAAAAAAGAAGGGAGATATAAGTTGCTTTTGA
1 TTCTCAAAAAAAAAAAAAAAAAGAAGGGAGATATAAGTTGCTTTTGA
*
64856470 TTCTCAAAAAAAAAAAAAAAAAGAAGTGAGATATAAGTTGCTTTTGA
1 TTCTCAAAAAAAAAAAAAAAAAGAAGGGAGATATAAGTTGCTTTTGA
64856517 AAATCTTGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.24
Consensus pattern (47 bp):
TTCTCAAAAAAAAAAAAAAAAAGAAGGGAGATATAAGTTGCTTTTGA
Found at i:64860300 original size:50 final size:50
Alignment explanation
Indices: 64860244--64860344 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
64860234 AGTACAAAAT
64860244 TAGTCGAAAGCTCTAGAAGAGCTAATATATTAATATTTTGTAATGGTTAA
1 TAGTCGAAAGCTCTAGAAGAGCTAATATATTAATATTTTGTAATGGTTAA
*
64860294 TAGTCGAAAGCTCTAGAAGAGGTAATATATTAATATTTTGTAATGGTTAA
1 TAGTCGAAAGCTCTAGAAGAGCTAATATATTAATATTTTGTAATGGTTAA
64860344 T
1 T
64860345 CCATTGGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.37
Consensus pattern (50 bp):
TAGTCGAAAGCTCTAGAAGAGCTAATATATTAATATTTTGTAATGGTTAA
Found at i:64864053 original size:47 final size:47
Alignment explanation
Indices: 64863964--64864053 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
64863954 CTTGAGTATG
* **
64863964 GGTCCGTAAAGAGGTTGAATATAAGTATTTAATTATGTAGGGATATA
1 GGTCCGTAAAGAGGTTGAATATAAGCATTTAATTATACAGGGATATA
* *
64864011 GGTCCGT-AAGAAGGTTGTATATAAGCATTTAATTGTACAGGGA
1 GGTCCGTAAAG-AGGTTGAATATAAGCATTTAATTATACAGGGA
64864054 AATGACACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 3 0.08
47 34 0.92
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (47 bp):
GGTCCGTAAAGAGGTTGAATATAAGCATTTAATTATACAGGGATATA
Found at i:64865508 original size:22 final size:22
Alignment explanation
Indices: 64865473--64865515 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
64865463 CTGCGATATT
* *
64865473 TACGGCCTTTAGCCATCCTGTC
1 TACGGCATTGAGCCATCCTGTC
*
64865495 TACGGCATTGAGCCGTCCTGT
1 TACGGCATTGAGCCATCCTGT
64865516 TGACTTAGTG
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:0.14, C:0.33, G:0.23, T:0.30
Consensus pattern (22 bp):
TACGGCATTGAGCCATCCTGTC
Found at i:64865683 original size:27 final size:27
Alignment explanation
Indices: 64865635--64865687 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64865625 GCATCTGATA
*
64865635 CTGATTCTGTACTGAGCTTAGGCCCAC
1 CTGATTCTGTAATGAGCTTAGGCCCAC
*
64865662 CTGATTCTGTTAATGGGC-TAGGCCCA
1 CTGATTCTG-TAATGAGCTTAGGCCCA
64865688 ACTGTTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (27 bp):
CTGATTCTGTAATGAGCTTAGGCCCAC
Found at i:64876434 original size:6 final size:7
Alignment explanation
Indices: 64876423--64876449 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
64876413 AACTAAAACT
64876423 GAAAAAA
1 GAAAAAA
64876430 GAAAAAA
1 GAAAAAA
64876437 GAAAAAA
1 GAAAAAA
64876444 GAAAAA
1 GAAAAA
64876450 CTTATTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:64877802 original size:79 final size:77
Alignment explanation
Indices: 64877700--64877960 Score: 324
Period size: 79 Copynumber: 3.3 Consensus size: 77
64877690 ACAAAGTTGT
* * * * * *
64877700 GTTTCCAATAATATTTTTAGTATTTTGTTGCAAAATTGGTTTTCCAATAGGAATTATAGTAATAG
1 GTTTCCAATAAGAATTTTAGTATTTAGTTACAAAATTGATTTTCCAATAGGAATT-TATTAATAG
64877765 TTGAGAGATTATG
65 TTGAGAGATTATG
* * ** *
64877778 GTTTCCAATTAAGAATTTTAGTATTTGGTTACAAAATTGATTTTCCATTAAAAAATTTATTAGTA
1 GTTTCCAA-TAAGAATTTTAGTATTTAGTTACAAAATTGATTTTCCAAT-AGGAATTTATTAATA
64877843 GTTGAGAGATTATG
64 GTTGAGAGATTATG
* * *
64877857 ATTTCCAATTAAGAATTTTAGTATTTAGTTATAAAATTGATTTCCCAATAGGAATTTTATTAATA
1 GTTTCCAA-TAAGAATTTTAGTATTTAGTTACAAAATTGATTTTCCAATAGGAA-TTTATTAATA
*
64877922 GTTGAGAGATTATT
64 GTTGAGAGATTATG
* *
64877936 GTTTACAATAAGATTTTTAGTATTT
1 GTTTCCAATAAGAATTTTAGTATTT
64877961 GGATTTTTTA
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
78 27 0.17
79 126 0.80
80 5 0.03
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.44
Consensus pattern (77 bp):
GTTTCCAATAAGAATTTTAGTATTTAGTTACAAAATTGATTTTCCAATAGGAATTTATTAATAGT
TGAGAGATTATG
Found at i:64877874 original size:39 final size:38
Alignment explanation
Indices: 64877740--64877957 Score: 101
Period size: 39 Copynumber: 5.6 Consensus size: 38
64877730 CAAAATTGGT
* * * *
64877740 TTTCCAATAGGAATTATAGTAATAGTTGAGAGATTATGG
1 TTTCCAATAAGAATT-TATTAGTAGTTGAGAGATTATGA
* * **
64877779 TTTCCAATTAAGAA-TT-TTAGTATTTG-GTTACAAAATTGA
1 TTTCCAA-TAAGAATTTATTAGTAGTTGAG--AGATTA-TGA
* *
64877818 TTTTCCATTAAAAAATTTATTAGTAGTTGAGAGATTATGA
1 -TTTCCAAT-AAGAATTTATTAGTAGTTGAGAGATTATGA
* * * * *
64877858 TTTCCAATTAAGAATTTTAGTATTTAGTT-ATAAAAT-TGA
1 TTTCCAA-TAAGAA-TTTATTA-GTAGTTGAGAGATTATGA
* *
64877897 TTTCCCAATAGGAATTTTATTAATAGTTGAGAGATTATTG-
1 TTT-CCAATAAGAA-TTTATTAGTAGTTGAGAGATTA-TGA
*
64877937 TTTACAATAAG-ATTT-TTAGTA
1 TTTCCAATAAGAATTTATTAGTA
64877958 TTTGGATTTT
Statistics
Matches: 133, Mismatches: 30, Indels: 35
0.67 0.15 0.18
Matches are distributed among these distances:
36 6 0.05
37 10 0.08
38 10 0.08
39 49 0.37
40 36 0.27
41 12 0.09
42 9 0.07
43 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (38 bp):
TTTCCAATAAGAATTTATTAGTAGTTGAGAGATTATGA
Found at i:64879029 original size:15 final size:16
Alignment explanation
Indices: 64879009--64879039 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64878999 TAACTTGAAA
64879009 ATAATAA-GATAAAAT
1 ATAATAATGATAAAAT
64879024 ATAATAATGATAAAAT
1 ATAATAATGATAAAAT
64879040 GAGATCCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
ATAATAATGATAAAAT
Found at i:64892466 original size:15 final size:15
Alignment explanation
Indices: 64892446--64892484 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
64892436 GATGAGGTTA
*
64892446 TCGTGGTGG-TCTGTG
1 TCGTGGTGGCTATG-G
64892461 TCGTGGTGGCTATGG
1 TCGTGGTGGCTATGG
64892476 TCGTGGTGG
1 TCGTGGTGG
64892485 AGCAAGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.03, C:0.13, G:0.49, T:0.36
Consensus pattern (15 bp):
TCGTGGTGGCTATGG
Found at i:64892723 original size:17 final size:16
Alignment explanation
Indices: 64892692--64892745 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
64892682 AATAAAGTAA
*
64892692 AAAATAAATGCAAAAAT
1 AAAATAAAAG-AAAAAT
*
64892709 AAAATAAAAGAAAAAGA
1 AAAATAAAAGAAAAA-T
*
64892726 AAAACAAATAGAAAAAT
1 AAAATAAA-AGAAAAAT
64892743 AAA
1 AAA
64892746 TGGACTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 5 0.16
17 19 0.61
18 7 0.23
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (16 bp):
AAAATAAAAGAAAAAT
Found at i:64910412 original size:10 final size:10
Alignment explanation
Indices: 64910397--64910439 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
64910387 GCTATTAATT
64910397 CATACCAAAA
1 CATACCAAAA
64910407 CATACCAAAA
1 CATACCAAAA
*
64910417 CATGAGCCAAAGT
1 CAT-A-CCAAA-A
64910430 CATACCAAAA
1 CATACCAAAA
64910440 ATAAGATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 13 0.46
11 6 0.21
12 6 0.21
13 3 0.11
ACGTcount: A:0.53, C:0.28, G:0.07, T:0.12
Consensus pattern (10 bp):
CATACCAAAA
Found at i:64913751 original size:40 final size:40
Alignment explanation
Indices: 64913696--64913777 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
64913686 CCCACTTCGA
64913696 GACATAGTCAACAGCTATTAATATATAAAGATTTCCAAAT
1 GACATAGTCAACAGCTATTAATATATAAAGATTTCCAAAT
64913736 GACATAGTCAACAGCTATTAATATATAAAGATTTCCAAAT
1 GACATAGTCAACAGCTATTAATATATAAAGATTTCCAAAT
64913776 GA
1 GA
64913778 ACTTTGTAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (40 bp):
GACATAGTCAACAGCTATTAATATATAAAGATTTCCAAAT
Found at i:64919007 original size:21 final size:22
Alignment explanation
Indices: 64918959--64919017 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
64918949 CATTGAAGAG
*
64918959 TGTTGTGGCTGCATCT-GATTC
1 TGTTGTGGATGCATCTGGATTC
* *
64918980 TGGTGTGGATGCATCTGGCTT-
1 TGTTGTGGATGCATCTGGATTC
64919001 TGTTGTGGATGCATCTG
1 TGTTGTGGATGCATCTG
64919018 TGTATGCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.10, C:0.15, G:0.34, T:0.41
Consensus pattern (22 bp):
TGTTGTGGATGCATCTGGATTC
Found at i:64922180 original size:24 final size:24
Alignment explanation
Indices: 64922147--64922197 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
64922137 AGCTAGAGGG
64922147 GAAGAGAGAAA-AGAGAA-GAAGAAA
1 GAAGAGAGAAACA-A-AATGAAGAAA
*
64922171 GAAGATAGAAACAAAATGAAGAAA
1 GAAGAGAGAAACAAAATGAAGAAA
64922195 GAA
1 GAA
64922198 AGAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.08
24 21 0.88
25 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.27, T:0.04
Consensus pattern (24 bp):
GAAGAGAGAAACAAAATGAAGAAA
Found at i:64925745 original size:21 final size:22
Alignment explanation
Indices: 64925721--64925767 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
64925711 ACTAAATACT
*
64925721 TTGTAAAAATTCTTAA-AAAAA
1 TTGTAAAAATTATTAATAAAAA
*
64925742 TTGTAAAAGTTATTAATTAAAAA
1 TTGTAAAAATTATTAA-TAAAAA
64925765 TTG
1 TTG
64925768 CAAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
23 8 0.36
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TTGTAAAAATTATTAATAAAAA
Found at i:64933446 original size:43 final size:43
Alignment explanation
Indices: 64933276--64933446 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 43
64933266 ACATAAACTC
* * * *
64933276 ATACAATGCC-ATATCCCAGATATGTTCTTACATGTTATCAC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* ** * * * * * *
64933317 ATATCGATGCCTCTGTCCAAGATAGGGTCTTACACGAAATC-GA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
*
64933360 ATA-ATGATGCCAATGTCCCAGACATGGTCTTAC-TCGTATTCACA
1 ATACA--ATGCCAATGTCCCAGACATGGTCTTACAT-GTAATCACA
64933404 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
64933447 TCTCGATAAC
Statistics
Matches: 100, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 3 0.03
42 6 0.06
43 85 0.85
44 5 0.05
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
Found at i:64950348 original size:63 final size:63
Alignment explanation
Indices: 64950249--64950369 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
64950239 ATAAATCTAT
*
64950249 TCAACCAATATTCCATTTAGGCACCTCAATCACAACCAAGCATTCATACTTACATTTGTTCAG
1 TCAACCAATATTCCATTTAGACACCTCAATCACAACCAAGCATTCATACTTACATTTGTTCAG
* *
64950312 TCAACCAATATGT-CATTTCGACACCTCAATCACAACCAAGCATTCATGCTTACATTTG
1 TCAACCAATAT-TCCATTTAGACACCTCAATCACAACCAAGCATTCATACTTACATTTG
64950370 CCTCAAAATG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 53 0.98
64 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.30
Consensus pattern (63 bp):
TCAACCAATATTCCATTTAGACACCTCAATCACAACCAAGCATTCATACTTACATTTGTTCAG
Found at i:64951923 original size:39 final size:40
Alignment explanation
Indices: 64951810--64952001 Score: 186
Period size: 39 Copynumber: 4.9 Consensus size: 40
64951800 ACAAAATTTT
*
64951810 ATAAGAGCTGATCCAACTGAAACACGCCAAACAGAAGCTC
1 ATAAGAGCTGATCCAACCGAAACACGCCAAACAGAAGCTC
* * *
64951850 ATAAGAGC--ATCCAACCGAAATATGCCAAATAGAAGCTC
1 ATAAGAGCTGATCCAACCGAAACACGCCAAACAGAAGCTC
*
64951888 ATAAGAGCTGGTCC-ACCGAAAACACGCCAAA-AGAAGCTC
1 ATAAGAGCTGATCCAACCG-AAACACGCCAAACAGAAGCTC
*
64951927 ATAAGAGCT-AGTCC-ACTCGAAA-ATTGCC-AACAGAAGCTC
1 ATAAGAGCTGA-TCCAAC-CGAAACA-CGCCAAACAGAAGCTC
* * * *
64951966 ATAAGAGCTTATCC-GCCTGAATCATGCCAAACAGAA
1 ATAAGAGCTGATCCAACC-GAAACACGCCAAACAGAA
64952002 AGTATAAAAC
Statistics
Matches: 130, Mismatches: 11, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
38 38 0.29
39 60 0.46
40 32 0.25
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (40 bp):
ATAAGAGCTGATCCAACCGAAACACGCCAAACAGAAGCTC
Found at i:64951995 original size:78 final size:78
Alignment explanation
Indices: 64951810--64952001 Score: 241
Period size: 78 Copynumber: 2.5 Consensus size: 78
64951800 ACAAAATTTT
*
64951810 ATAAGAGCTGATCCAACTGAAACACGCCAAACAGAAGCTCATAAGAGCATCCAACCGAAATATGC
1 ATAAGAGCTGATCCACCTGAAACACGCCAAACAGAAGCTCATAAGAGCATCCAACCGAAATATGC
*
64951875 CAAATAGAAGCTC
66 CAAACAGAAGCTC
*
64951888 ATAAGAGCTGGTCCACC-GAAAACACGCCAAA-AGAAGCTCATAAGAGCTAGTCC-ACTCGAAA-
1 ATAAGAGCTGATCCACCTG-AAACACGCCAAACAGAAGCTCATAAGAGC-A-TCCAAC-CGAAAT
64951949 ATTGCC-AACAGAAGCTC
62 A-TGCCAAACAGAAGCTC
* * * *
64951966 ATAAGAGCTTATCCGCCTGAATCATGCCAAACAGAA
1 ATAAGAGCTGATCCACCTGAAACACGCCAAACAGAA
64952002 AGTATAAAAC
Statistics
Matches: 99, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
77 17 0.17
78 65 0.66
79 17 0.17
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (78 bp):
ATAAGAGCTGATCCACCTGAAACACGCCAAACAGAAGCTCATAAGAGCATCCAACCGAAATATGC
CAAACAGAAGCTC
Found at i:64954259 original size:43 final size:43
Alignment explanation
Indices: 64954209--64954348 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
64954199 TATCCTAGAT
* * *
64954209 ATGGTCTTACAGGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
* * * *
64954252 AGGGTCTTACACGAAATTGA-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAA-TCACATATCGATGCCAATGTCCCAGAC
*
64954295 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACATAT-CGATGCCAATGTCCCAGAC
*
64954338 ATGGACTTACA
1 ATGGTCTTACA
64954349 TGCCAATGTC
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.04
43 76 0.94
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:64963787 original size:153 final size:153
Alignment explanation
Indices: 64963509--64963814 Score: 612
Period size: 153 Copynumber: 2.0 Consensus size: 153
64963499 GTAGTGCGAA
64963509 GTAAGTAGAGGTGGAACAAACCATTCGGAATACCAACCTTATGCCCACAACATGGATAACGAGCA
1 GTAAGTAGAGGTGGAACAAACCATTCGGAATACCAACCTTATGCCCACAACATGGATAACGAGCA
64963574 ATTAAATTACATGGGTAATAATCTTTGACCTCAGAACAATCCATATAGTAACACTTACAATGCAG
66 ATTAAATTACATGGGTAATAATCTTTGACCTCAGAACAATCCATATAGTAACACTTACAATGCAG
64963639 GTTGGAGGAACCACCCAAATTTC
131 GTTGGAGGAACCACCCAAATTTC
64963662 GTAAGTAGAGGTGGAACAAACCATTCGGAATACCAACCTTATGCCCACAACATGGATAACGAGCA
1 GTAAGTAGAGGTGGAACAAACCATTCGGAATACCAACCTTATGCCCACAACATGGATAACGAGCA
64963727 ATTAAATTACATGGGTAATAATCTTTGACCTCAGAACAATCCATATAGTAACACTTACAATGCAG
66 ATTAAATTACATGGGTAATAATCTTTGACCTCAGAACAATCCATATAGTAACACTTACAATGCAG
64963792 GTTGGAGGAACCACCCAAATTTC
131 GTTGGAGGAACCACCCAAATTTC
64963815 TCGTGGGACG
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (153 bp):
GTAAGTAGAGGTGGAACAAACCATTCGGAATACCAACCTTATGCCCACAACATGGATAACGAGCA
ATTAAATTACATGGGTAATAATCTTTGACCTCAGAACAATCCATATAGTAACACTTACAATGCAG
GTTGGAGGAACCACCCAAATTTC
Found at i:64964215 original size:12 final size:12
Alignment explanation
Indices: 64964198--64964223 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64964188 GTGACAAACT
64964198 AGTTCCATACCC
1 AGTTCCATACCC
64964210 AGTTCCATACCC
1 AGTTCCATACCC
64964222 AG
1 AG
64964224 CAAAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.38, G:0.12, T:0.23
Consensus pattern (12 bp):
AGTTCCATACCC
Found at i:64968194 original size:13 final size:13
Alignment explanation
Indices: 64968176--64968200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64968166 GGATGGAAAC
64968176 ACGGCCGTGCGAT
1 ACGGCCGTGCGAT
64968189 ACGGCCGTGCGA
1 ACGGCCGTGCGA
64968201 AAAAAGGGTA
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:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (13 bp):
ACGGCCGTGCGAT
Done.