Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 14 of 109
Found at i:2336161 original size:26 final size:26
Alignment explanation
Indices: 2336131--2336189 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
2336121 CTAATTTTTT
*
2336131 AATAAAAGAAAT-CTGATTTTTTAAAA
1 AATAAAAGAAATAAT-ATTTTTTAAAA
* *
2336157 AATAAAAGCAATAATATTTTTTGAAA
1 AATAAAAGAAATAATATTTTTTAAAA
2336183 AATAAAA
1 AATAAAA
2336190 TTTTGGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (26 bp):
AATAAAAGAAATAATATTTTTTAAAA
Found at i:2337052 original size:10 final size:10
Alignment explanation
Indices: 2337026--2337059 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2337016 TGGCTATAAA
2337026 TATATTTAATT
1 TATATTT-ATT
*
2337037 TTTATTTATT
1 TATATTTATT
2337047 TATATTTATT
1 TATATTTATT
2337057 TAT
1 TAT
2337060 TAAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATATTTATT
Found at i:2337173 original size:11 final size:11
Alignment explanation
Indices: 2337157--2337209 Score: 61
Period size: 11 Copynumber: 4.5 Consensus size: 11
2337147 ATCTATGAAT
2337157 AAATTTATTTA
1 AAATTTATTTA
2337168 AAATTTATTTAA
1 AAATTTATTT-A
*
2337180 AATTAGTTTATTAA
1 AA--A-TTTATTTA
2337194 AAATTTATTTA
1 AAATTTATTTA
2337205 AAATT
1 AAATT
2337210 AGTTTGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 22 0.61
12 4 0.11
14 4 0.11
15 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (11 bp):
AAATTTATTTA
Found at i:2337189 original size:15 final size:15
Alignment explanation
Indices: 2337171--2337219 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
2337161 TTATTTAAAA
2337171 TTTATTTAAAATTAG
1 TTTATTTAAAATTAG
2337186 TTTA-TTAAAA--A-
1 TTTATTTAAAATTAG
2337197 TTTATTTAAAATTAG
1 TTTATTTAAAATTAG
*
2337212 TTTGTTTA
1 TTTATTTA
2337220 CAATAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
11 4 0.14
12 7 0.24
14 7 0.24
15 11 0.38
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTATTTAAAATTAG
Found at i:2337189 original size:26 final size:26
Alignment explanation
Indices: 2337160--2337219 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
2337150 TATGAATAAA
2337160 TTTATTTAAAATTTATTTAAAATTAG
1 TTTATTTAAAATTTATTTAAAATTAG
*
2337186 TTTATTAAAAATTTATTTAAAATTAG
1 TTTATTTAAAATTTATTTAAAATTAG
*
2337212 TTTGTTTA
1 TTTATTTA
2337220 CAATAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (26 bp):
TTTATTTAAAATTTATTTAAAATTAG
Found at i:2337320 original size:21 final size:21
Alignment explanation
Indices: 2337281--2337321 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2337271 TATTTTTTTT
*
2337281 AGTTTATTTATATTCATTTAG
1 AGTTTATTTATATTAATTTAG
2337302 AGTTTATTTAT-TTAAATTTA
1 AGTTTATTTATATT-AATTTA
2337322 TTTTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (21 bp):
AGTTTATTTATATTAATTTAG
Found at i:2357250 original size:6 final size:6
Alignment explanation
Indices: 2357239--2357273 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
2357229 ATATTTTGAA
*
2357239 AAAAAT AAAAAT AAAAAT AAAAAT AATAA- AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
2357274 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:2357624 original size:41 final size:42
Alignment explanation
Indices: 2357522--2357634 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
2357512 TTTAGTAGAA
* * **
2357522 CTTTTTAAATTTTTAAAAGTTGTCAAGCTTCTGTTTAGAGGAG
1 CTTTTTAAA-TTTTAAAAGTTATCAAGCCTCTGCGTAGAGGAG
* * *
2357565 CCTTTTAATTTTTAAAAGTTATCAAGCCTCTGCGTAGATGAG
1 CTTTTTAAATTTTAAAAGTTATCAAGCCTCTGCGTAGAGGAG
*
2357607 CTTTTTAAATTTT-AAAGTTATTAAGCCT
1 CTTTTTAAATTTTAAAAGTTATCAAGCCT
2357635 TTGCTTAAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 14 0.23
42 39 0.65
43 7 0.12
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.43
Consensus pattern (42 bp):
CTTTTTAAATTTTAAAAGTTATCAAGCCTCTGCGTAGAGGAG
Found at i:2357653 original size:41 final size:42
Alignment explanation
Indices: 2357519--2357653 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
2357509 TCTTTTAGTA
* * ** *
2357519 GAACTTTTTAAATTTTTAAAAGTTGTCAAGCTTCTGTTTAGAG
1 GAACTTTTTAAA-TTTTAAAAGTTATCAAGCCTCTGCGTAAAG
* * * * *
2357562 GAGCCTTTTAATTTTTAAAAGTTATCAAGCCTCTGCGTAGAT
1 GAACTTTTTAAATTTTAAAAGTTATCAAGCCTCTGCGTAAAG
* * * *
2357604 GAGCTTTTTAAATTTT-AAAGTTATTAAGCCTTTGCTTAAAG
1 GAACTTTTTAAATTTTAAAAGTTATCAAGCCTCTGCGTAAAG
*
2357645 GAATTTTTT
1 GAACTTTTT
2357654 TTTTTAAATT
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 27 0.36
42 39 0.52
43 9 0.12
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.44
Consensus pattern (42 bp):
GAACTTTTTAAATTTTAAAAGTTATCAAGCCTCTGCGTAAAG
Found at i:2357874 original size:3 final size:3
Alignment explanation
Indices: 2357866--2357912 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2357856 TAACCTAAAT
2357866 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2357913 TTATTTGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2361701 original size:18 final size:18
Alignment explanation
Indices: 2361675--2361710 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2361665 AAACCTTAAA
* *
2361675 TTTATTTTTTTCAAATAT
1 TTTAATTTTTTAAAATAT
2361693 TTTAATTTTTTAAAATAT
1 TTTAATTTTTTAAAATAT
2361711 CATATTTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTAATTTTTTAAAATAT
Found at i:2362152 original size:26 final size:26
Alignment explanation
Indices: 2362122--2362180 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
2362112 CTAATTTTTT
*
2362122 AATAAAAGAAAT-TTAATTTTTTAAAA
1 AATAAAAGAAATAAT-ATTTTTTAAAA
*
2362148 AATAAAAGAAATAATATTTTTTGAAA
1 AATAAAAGAAATAATATTTTTTAAAA
2362174 AATAAAA
1 AATAAAA
2362181 TTTTGGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (26 bp):
AATAAAAGAAATAATATTTTTTAAAA
Found at i:2362979 original size:2 final size:2
Alignment explanation
Indices: 2362972--2363008 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2362962 ACTTTGCTCC
*
2362972 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2363009 TGTAAAAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2363273 original size:20 final size:21
Alignment explanation
Indices: 2363250--2363295 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2363240 TTAAGATTCG
* *
2363250 TTTATATT-TTTTTGAGTTTA
1 TTTATATTCATTTAGAGTTTA
2363270 TTTATATTCATTTAGAGTTTA
1 TTTATATTCATTTAGAGTTTA
2363291 TTTAT
1 TTTAT
2363296 TTAAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.24, C:0.02, G:0.09, T:0.65
Consensus pattern (21 bp):
TTTATATTCATTTAGAGTTTA
Found at i:2363294 original size:25 final size:25
Alignment explanation
Indices: 2363266--2363320 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
2363256 TTTTTTTGAG
*
2363266 TTTATTTATATTCATTTAGAGT-TTA
1 TTTATTTAAATTCATTT-GAGTATTA
* *
2363291 TTTATTTAAATTTATTTGATTATTA
1 TTTATTTAAATTCATTTGAGTATTA
2363316 TTTAT
1 TTTAT
2363321 GAACATATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (25 bp):
TTTATTTAAATTCATTTGAGTATTA
Found at i:2363303 original size:21 final size:21
Alignment explanation
Indices: 2363250--2363304 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
2363240 TTAAGATTCG
* *
2363250 TTTATATT-TTTTTGAGTTTA
1 TTTATATTAATTTAGAGTTTA
*
2363270 TTTATATTCATTTAGAGTTTA
1 TTTATATTAATTTAGAGTTTA
2363291 TTTAT-TTAAATTTA
1 TTTATATT-AATTTA
2363305 TTTGATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTATATTAATTTAGAGTTTA
Found at i:2363383 original size:23 final size:23
Alignment explanation
Indices: 2363314--2363389 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
2363304 ATTTGATTAT
*
2363314 TATTTATGAACATATTCATTTATA
1 TATTTATAAACATATTCATTTA-A
* * *
2363338 TATTTGTAAATATATTCGTTTAA
1 TATTTATAAACATATTCATTTAA
* *
2363361 TATTTATAAACAAACTCATTTAA
1 TATTTATAAACATATTCATTTAA
2363384 T-TTTAT
1 TATTTAT
2363390 TGAATAAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
22 5 0.12
23 20 0.47
24 18 0.42
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (23 bp):
TATTTATAAACATATTCATTTAA
Found at i:2373334 original size:22 final size:22
Alignment explanation
Indices: 2373309--2373354 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
2373299 TCTTTAATAA
2373309 TAATATTAAGACTAATAAGAAT
1 TAATATTAAGACTAATAAGAAT
2373331 TAATATTAAGACTAATAAGAAT
1 TAATATTAAGACTAATAAGAAT
2373353 TA
1 TA
2373355 TTGGCCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (22 bp):
TAATATTAAGACTAATAAGAAT
Found at i:2377393 original size:102 final size:103
Alignment explanation
Indices: 2377216--2377422 Score: 362
Period size: 102 Copynumber: 2.0 Consensus size: 103
2377206 TCAATGATTG
*
2377216 GTTGTGCTCTCATCAGCAAACCATGGTTGTTTGCAAATAACTGATAAGTAAAAGAGGTGGAGCGA
1 GTTGTGCTCTCATCAGCAAACCATGGTTGTTTGAAAATAACTGATAAGTAAAAGAGGTGGAGCGA
* *
2377281 GACAGGGACAGAC-AGAGATTGCAATCTTTTGATCTTT
66 GAAAGAGACAGACAAGAGATTGCAATCTTTTGATCTTT
*
2377318 GTTGTGCTCTCATCAGCAAACCATGGTTGTTTGAAAATAACTGATGAGTAAAAGAGGTGGAGCGA
1 GTTGTGCTCTCATCAGCAAACCATGGTTGTTTGAAAATAACTGATAAGTAAAAGAGGTGGAGCGA
*
2377383 GAAAGAGACAGGCAAGAGATTGCAATCTTTTGATCTTT
66 GAAAGAGACAGACAAGAGATTGCAATCTTTTGATCTTT
2377421 GT
1 GT
2377423 AGATTTTGAA
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 73 0.74
103 26 0.26
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (103 bp):
GTTGTGCTCTCATCAGCAAACCATGGTTGTTTGAAAATAACTGATAAGTAAAAGAGGTGGAGCGA
GAAAGAGACAGACAAGAGATTGCAATCTTTTGATCTTT
Found at i:2382869 original size:1 final size:1
Alignment explanation
Indices: 2382863--2382889 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
2382853 GCTTTTCTTT
2382863 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
2382890 CTAGGGGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2383541 original size:18 final size:17
Alignment explanation
Indices: 2383514--2383552 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2383504 CCAAACCTTA
2383514 TTCTTCTTCTTTCTTGTT
1 TTCTTCTTCTTT-TTGTT
* *
2383532 TTCTTTTTCTTTTTTTT
1 TTCTTCTTCTTTTTGTT
2383549 TTCT
1 TTCT
2383553 CCTTTTATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
TTCTTCTTCTTTTTGTT
Found at i:2384528 original size:14 final size:13
Alignment explanation
Indices: 2384502--2384526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2384492 ACTTGAGTCT
2384502 CTTTATTTTTTTA
1 CTTTATTTTTTTA
2384515 CTTTATTTTTTT
1 CTTTATTTTTTT
2384527 TAAAAAAACC
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTATTTTTTTA
Found at i:2393213 original size:12 final size:13
Alignment explanation
Indices: 2393185--2393212 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2393175 GTAGGATTGG
2393185 AAATATTTTTTTA
1 AAATATTTTTTTA
2393198 AAATATTTTTTTA
1 AAATATTTTTTTA
2393211 AA
1 AA
2393213 TTTGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
AAATATTTTTTTA
Found at i:2393334 original size:20 final size:20
Alignment explanation
Indices: 2393273--2393345 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
2393263 ACCATGCAAT
* *
2393273 AATAATATAAAATATTATGT
1 AATAATATAAAATATCATGC
* *
2393293 AATAATAATAAACTATCCTGC
1 AATAAT-ATAAAATATCATGC
* *
2393314 AATAATATTAATTATCATGC
1 AATAATATAAAATATCATGC
2393334 AACTAAATATAA
1 AA-T-AATATAA
2393346 TCATTTAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 19 0.45
21 17 0.40
22 6 0.14
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (20 bp):
AATAATATAAAATATCATGC
Found at i:2393451 original size:16 final size:16
Alignment explanation
Indices: 2393413--2393456 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
2393403 ATTAAATATT
2393413 AAAAAAA-ATCATGTA
1 AAAAAAATATCATGTA
2393428 ATTCAAAAAATATCATGTA
1 A---AAAAAATATCATGTA
2393447 AAAAAAATAT
1 AAAAAAATAT
2393457 TTTTTATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
18 6 0.24
19 9 0.36
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (16 bp):
AAAAAAATATCATGTA
Found at i:2393515 original size:15 final size:14
Alignment explanation
Indices: 2393506--2393552 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
2393496 TATAATAAAT
* *
2393506 ATAAAAATAA-TAT
1 ATAAAAATAAGAAA
2393519 ATAAAAA-AAGAAA
1 ATAAAAATAAGAAA
2393532 A-AAAAATAAGAAA
1 ATAAAAATAAGAAA
2393545 ATAAAAAT
1 ATAAAAAT
2393553 CAAACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 7 0.24
13 16 0.55
14 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (14 bp):
ATAAAAATAAGAAA
Found at i:2393574 original size:14 final size:13
Alignment explanation
Indices: 2393547--2393587 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2393537 ATAAGAAAAT
2393547 AAAAATCAAACAA
1 AAAAATCAAACAA
*
2393560 AAAAATCAATGC-A
1 AAAAATCAA-ACAA
2393573 AAAAAT-AAACAA
1 AAAAATCAAACAA
2393585 AAA
1 AAA
2393588 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 1 0.04
12 6 0.25
13 16 0.67
14 1 0.04
ACGTcount: A:0.76, C:0.12, G:0.02, T:0.10
Consensus pattern (13 bp):
AAAAATCAAACAA
Found at i:2394638 original size:11 final size:12
Alignment explanation
Indices: 2394622--2394654 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2394612 ATATTAATAT
2394622 TAAAATCAAAA-
1 TAAAATCAAAAC
*
2394633 TAAAATTAAAAC
1 TAAAATCAAAAC
2394645 TAAAATCAAA
1 TAAAATCAAA
2394655 TTACAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAATCAAAAC
Found at i:2394640 original size:23 final size:23
Alignment explanation
Indices: 2394622--2394666 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2394612 ATATTAATAT
2394622 TAAAATCAAAATAAAATTAAAAC
1 TAAAATCAAAATAAAATTAAAAC
* *
2394645 TAAAATCAAATTACAATTAAAA
1 TAAAATCAAAATAAAATTAAAA
2394667 ATTTTTGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAATCAAAATAAAATTAAAAC
Found at i:2394666 original size:17 final size:17
Alignment explanation
Indices: 2394620--2394657 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2394610 TAATATTAAT
2394620 ATTAAAA-TCAAAATAAA
1 ATTAAAACT-AAAATAAA
*
2394637 ATTAAAACTAAAATCAA
1 ATTAAAACTAAAATAAA
2394654 ATTA
1 ATTA
2394658 CAATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (17 bp):
ATTAAAACTAAAATAAA
Found at i:2396947 original size:39 final size:41
Alignment explanation
Indices: 2396904--2396984 Score: 112
Period size: 39 Copynumber: 2.0 Consensus size: 41
2396894 GTTAATGGAT
*
2396904 TTAATATCAAATGTAAAAGAAAGTGAACTTAAT-A-ATGTG
1 TTAATATCAAATATAAAAGAAAGTGAACTTAATGATATGTG
* * *
2396943 TTAATGTCAAATATAAAGGAAAGTGGACTTAATGATATGTG
1 TTAATATCAAATATAAAAGAAAGTGAACTTAATGATATGTG
2396984 T
1 T
2396985 AAGTTACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 29 0.81
40 1 0.03
41 6 0.17
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (41 bp):
TTAATATCAAATATAAAAGAAAGTGAACTTAATGATATGTG
Found at i:2400494 original size:2 final size:2
Alignment explanation
Indices: 2400487--2400523 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2400477 CCATTTTGCT
2400487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2400524 CTGGAAGCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2401522 original size:17 final size:17
Alignment explanation
Indices: 2401489--2401527 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2401479 TCATTACAAG
2401489 AAAAAAATTCATCAACA
1 AAAAAAATTCATCAACA
*
2401506 ATAAAAAATT-ATTAACA
1 A-AAAAAATTCATCAACA
2401523 AAAAA
1 AAAAA
2401528 TTTTCTTCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 8 0.40
18 8 0.40
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAAATTCATCAACA
Found at i:2402389 original size:34 final size:34
Alignment explanation
Indices: 2402318--2402392 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
2402308 ATTTACTTGA
* *
2402318 TTTTTAAATGTAATAATTTATTAAATATTTATGT
1 TTTTTAAATGTAATAATTTATGAAATATTTATAT
* * *
2402352 TTTTTAAATTTAGTAATTTATGAAGTATTT-TAAT
1 TTTTTAAATGTAATAATTTATGAAATATTTAT-AT
2402386 TTTTTAA
1 TTTTTAA
2402393 CACATTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 34 0.97
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (34 bp):
TTTTTAAATGTAATAATTTATGAAATATTTATAT
Found at i:2406502 original size:30 final size:30
Alignment explanation
Indices: 2406423--2406524 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
2406413 AATCTTCCAT
* * * *
2406423 ATGCAATAGCTCATAAGTGAGGCCCATTAC
1 ATGCAAAAGCCCATAAGTAAGGCTCATTAC
* *
2406453 ATAC-AAAGCCCATAAGTAAGGCTTATTAC
1 ATGCAAAAGCCCATAAGTAAGGCTCATTAC
* * *
2406482 ATGCAAAAACCCATATGTAAGGCTCATGAC
1 ATGCAAAAGCCCATAAGTAAGGCTCATTAC
2406512 ATGCAAAAGCCCA
1 ATGCAAAAGCCCA
2406525 ATTTAGTTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 23 0.39
30 36 0.61
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (30 bp):
ATGCAAAAGCCCATAAGTAAGGCTCATTAC
Found at i:2407836 original size:29 final size:29
Alignment explanation
Indices: 2407780--2407836 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
2407770 CAAGCAACAA
* ***
2407780 CCTATAAGTAAGGCCCATTACGTGCAAAG
1 CCTACAAGTAAGGCCCATTACACACAAAG
2407809 CCTACAAGTAAGGCCCATTACACACAAA
1 CCTACAAGTAAGGCCCATTACACACAAA
2407837 AACCCATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.18
Consensus pattern (29 bp):
CCTACAAGTAAGGCCCATTACACACAAAG
Found at i:2407873 original size:28 final size:28
Alignment explanation
Indices: 2407833--2407888 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2407823 CCATTACACA
2407833 CAAAAACCCATATTTAAGTCCAATTTAG
1 CAAAAACCCATATTTAAGTCCAATTTAG
2407861 CAAAAACCCATATTTAAGTCCAATTTAG
1 CAAAAACCCATATTTAAGTCCAATTTAG
2407889 TTCACTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (28 bp):
CAAAAACCCATATTTAAGTCCAATTTAG
Found at i:2409095 original size:161 final size:162
Alignment explanation
Indices: 2408797--2409169 Score: 378
Period size: 161 Copynumber: 2.3 Consensus size: 162
2408787 TGTATTTGAG
* * * * * * * **
2408797 CTAAGTTGTTAAAATAGAATTATAGCGATAAATTTAC-ATTTTTGCATTTTTACAGC--ACTAAA
1 CTAAATTGTTAAAATAGAAATATAACAAAAAATTTACAATTTTTTC-CTTTTACAGCGTAAAAAA
* * *
2408859 GTTCTAAAAACACATAAACCATAATTTTTTTATGCATATCAAGCATGGCAACCAAACTCAAACAT
65 GTACTAAAAACACATAAACCATAATTTGTTCATGCATATCAAGCATGGCAACCAAACTCAAACAT
* * * *
2408924 TTGGATAAGTTTACTA-CTATGCACTCTAGCTAT
130 TTGAATAAGTTTAATATC-ATGCACTCGAACTAT
* *
2408957 CTAAATTGTTAAAATATAAATATAACAAAAAATTTA-TATTTTTTCCTTTTACAGCGTAAAAAAG
1 CTAAATTGTTAAAATAGAAATATAACAAAAAATTTACAATTTTTTCCTTTTACAGCGTAAAAAAG
* * * * * * * * * *
2409021 TACTAAAAGCATATAAACCGTAATTTGTTCATGTATATCAAGCGTGGCAGCTAAGCTTAATCATT
66 TACTAAAAACACATAAACCATAATTTGTTCATGCATATCAAGCATGGCAACCAAACTCAAACATT
* * *
2409086 TGAATAAGTTTAATATCATGTATTGGAACTAT
131 TGAATAAGTTTAATATCATGCACTCGAACTAT
* ** *
2409118 CTAAATTGTTAATATAGAAATATAGTAAAAAATTTACAATTTTTTTCTTTTA
1 CTAAATTGTTAAAATAGAAATATAACAAAAAATTTACAATTTTTTCCTTTTA
2409170 TGCTACAAAA
Statistics
Matches: 172, Mismatches: 36, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
159 9 0.05
160 37 0.22
161 112 0.65
162 14 0.08
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (162 bp):
CTAAATTGTTAAAATAGAAATATAACAAAAAATTTACAATTTTTTCCTTTTACAGCGTAAAAAAG
TACTAAAAACACATAAACCATAATTTGTTCATGCATATCAAGCATGGCAACCAAACTCAAACATT
TGAATAAGTTTAATATCATGCACTCGAACTAT
Found at i:2415598 original size:3 final size:3
Alignment explanation
Indices: 2415592--2415638 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2415582 ATAATAGTAA
*
2415592 ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
2415639 AATAATAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:2415787 original size:3 final size:3
Alignment explanation
Indices: 2415781--2415825 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2415771 GGAATTATTA
2415781 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2415826 TAGTGTTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2415934 original size:13 final size:13
Alignment explanation
Indices: 2415913--2416008 Score: 99
Period size: 13 Copynumber: 7.5 Consensus size: 13
2415903 TAAAATTTTA
2415913 AAACCCTAAAATG
1 AAACCCTAAAATG
*
2415926 AAACTCTAAAAT-
1 AAACCCTAAAATG
**
2415938 AGAACCCTAAAACA
1 A-AACCCTAAAATG
*
2415952 AAACCCTAAAGTG
1 AAACCCTAAAATG
2415965 AAACCCTAAAATG
1 AAACCCTAAAATG
*
2415978 AAA-CTTCAAAATG
1 AAACCCT-AAAATG
*
2415991 AAACCCT-AAGTG
1 AAACCCTAAAATG
2416003 AAACCC
1 AAACCC
2416009 GAAGCCTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
12 13 0.19
13 53 0.77
14 3 0.04
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (13 bp):
AAACCCTAAAATG
Found at i:2415995 original size:39 final size:39
Alignment explanation
Indices: 2415912--2416008 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
2415902 ATAAAATTTT
* * *
2415912 AAAACCCTAAAATGAAACTCTAAAATAGAACCCTAAAAC
1 AAAACCCTAAAGTGAAACCCTAAAATAGAAACCTAAAAC
* *
2415951 AAAACCCTAAAGTGAAACCCTAAAAT-GAAACTTCAAAAT
1 AAAACCCTAAAGTGAAACCCTAAAATAGAAACCT-AAAAC
*
2415990 GAAACCCT-AAGTGAAACCC
1 AAAACCCTAAAGTGAAACCC
2416009 GAAGCCTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 16 0.31
39 35 0.69
ACGTcount: A:0.53, C:0.24, G:0.08, T:0.15
Consensus pattern (39 bp):
AAAACCCTAAAGTGAAACCCTAAAATAGAAACCTAAAAC
Found at i:2416042 original size:19 final size:18
Alignment explanation
Indices: 2415992--2416044 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
2415982 TTCAAAATGA
*
2415992 AACCCTAAGTGAAACCCG
1 AACCCTAAGTGAAACCCC
*
2416010 AAGCCTTAAGTGAAACCCTC
1 AA-CCCTAAGTGAAACCC-C
*
2416030 AACCCTAAATGAAAC
1 AACCCTAAGTGAAAC
2416045 TTTAAATGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 2 0.07
19 25 0.86
20 2 0.07
ACGTcount: A:0.42, C:0.30, G:0.13, T:0.15
Consensus pattern (18 bp):
AACCCTAAGTGAAACCCC
Found at i:2416265 original size:20 final size:20
Alignment explanation
Indices: 2416242--2416281 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2416232 GTATAATTTT
*
2416242 TTAATTTAAA-AATAATAAAA
1 TTAA-TTAAAGAAAAATAAAA
2416262 TTAATTAAAGAAAAATAAAA
1 TTAATTAAAGAAAAATAAAA
2416282 GTGAGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (20 bp):
TTAATTAAAGAAAAATAAAA
Found at i:2420819 original size:9 final size:9
Alignment explanation
Indices: 2420805--2420833 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
2420795 CGGCGTAATG
2420805 GGCAATAAC
1 GGCAATAAC
2420814 GGCAATAAC
1 GGCAATAAC
2420823 GGCAATAAC
1 GGCAATAAC
2420832 GG
1 GG
2420834 ATCGTTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.10
Consensus pattern (9 bp):
GGCAATAAC
Found at i:2421809 original size:20 final size:20
Alignment explanation
Indices: 2421771--2421808 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2421761 GATTGTGTTA
*
2421771 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
2421791 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
2421809 TTTTTGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:2422056 original size:26 final size:26
Alignment explanation
Indices: 2422028--2422076 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
2422018 TAAAAAATAA
*
2422028 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
2422053 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
2422077 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:2425493 original size:6 final size:6
Alignment explanation
Indices: 2425484--2425523 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
2425474 TTTAAGTCCA
* *
2425484 GATGAT GATGGT GATGGA GATGGT GATGGT GATGGT GATG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATG
2425524 ATGCGAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (6 bp):
GATGGT
Found at i:2425510 original size:18 final size:18
Alignment explanation
Indices: 2425483--2425526 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
2425473 GTTTAAGTCC
2425483 AGATGATGATGGTGATGG
1 AGATGATGATGGTGATGG
*
2425501 AGATGGTGATGGTGATGG
1 AGATGATGATGGTGATGG
*
2425519 TGATGATG
1 AGATGATG
2425527 CGAATTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.45, T:0.30
Consensus pattern (18 bp):
AGATGATGATGGTGATGG
Found at i:2425893 original size:18 final size:18
Alignment explanation
Indices: 2425870--2425994 Score: 105
Period size: 18 Copynumber: 6.9 Consensus size: 18
2425860 ATGGTTATTA
2425870 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
2425888 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
*
2425909 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
2425928 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* *
2425945 TCCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
*
2425963 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
*
2425978 TCCACCTAAAATGTATC
1 TCCACCTCAAATGTATC
2425995 AAGAACAAAG
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 53 0.63
19 1 0.01
21 17 0.20
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.27
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:2425900 original size:21 final size:21
Alignment explanation
Indices: 2425874--2425916 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2425864 TTATTATCCA
*
2425874 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
2425895 CCTCAAATATATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
2425916 C
1 C
2425917 AAATGTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.28
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:2425938 original size:36 final size:33
Alignment explanation
Indices: 2425898--2425995 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 33
2425888 TCCACCTCCT
2425898 CAAATATATCCTCCACCTCAAATGTATCAGTTACCA
1 CAAATATATCCTCCACCTCAAATGTATCA--T-CCA
* * * *
2425934 CAAATGTACCCTCCACCACAAATGTATCATCCT
1 CAAATATATCCTCCACCTCAAATGTATCATCCA
*
2425967 CAAATATATCCTCCACCTAAAATGTATCA
1 CAAATATATCCTCCACCTCAAATGTATCA
2425996 AGAACAAAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 27 0.50
34 1 0.02
36 26 0.48
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.27
Consensus pattern (33 bp):
CAAATATATCCTCCACCTCAAATGTATCATCCA
Found at i:2428352 original size:16 final size:17
Alignment explanation
Indices: 2428331--2428363 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2428321 TTTTACATGG
2428331 CAAAGAT-ATTAGATCA
1 CAAAGATGATTAGATCA
2428347 CAAAGATGATTAGATCA
1 CAAAGATGATTAGATCA
2428364 TTGCTTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (17 bp):
CAAAGATGATTAGATCA
Found at i:2428991 original size:15 final size:17
Alignment explanation
Indices: 2428949--2428994 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
2428939 TCAAAATAGG
2428949 ATGATAAAATCATCATA
1 ATGATAAAATCATCATA
* *
2428966 ATAATTTAAATCA-CA-A
1 ATGA-TAAAATCATCATA
2428982 ATGATAAAATCAT
1 ATGATAAAATCAT
2428995 GGACAATTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 5 0.22
18 7 0.30
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (17 bp):
ATGATAAAATCATCATA
Found at i:2433691 original size:20 final size:19
Alignment explanation
Indices: 2433666--2433811 Score: 118
Period size: 20 Copynumber: 7.3 Consensus size: 19
2433656 ATCTCCCATC
2433666 AAACCCTAAGCCTTAAACCT
1 AAACCCTAA-CCTTAAACCT
2433686 AAACCCTAACC-TAAACCTT
1 AAACCCTAACCTTAAACC-T
* **
2433705 TAACTTTAACCCTTAAACCAT
1 AAACCCTAA-CCTTAAACC-T
*
2433726 AAAACCCTAA-ATATAAACCCT
1 -AAACCCTAACCT-TAAA-CCT
*
2433747 AAACCCTAACCTTAAAGCTT
1 AAACCCTAACCTTAAA-CCT
*
2433767 AAACTCTAACCTTAAAACCT
1 AAACCCTAACCTT-AAACCT
2433787 AAACCCTAATCC-TAAACCT
1 AAACCCTAA-CCTTAAACCT
*
2433806 AGACCC
1 AAACCC
2433812 CAAAAGAACC
Statistics
Matches: 102, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
18 6 0.06
19 20 0.20
20 50 0.49
21 18 0.18
22 8 0.08
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (19 bp):
AAACCCTAACCTTAAACCT
Found at i:2433752 original size:7 final size:7
Alignment explanation
Indices: 2433666--2433804 Score: 60
Period size: 7 Copynumber: 20.7 Consensus size: 7
2433656 ATCTCCCATC
2433666 AAACCCT
1 AAACCCT
* *
2433673 AAGCCTT
1 AAACCCT
2433680 AAA-CCT
1 AAACCCT
2433686 AAACCCT
1 AAACCCT
2433693 -AA-CCT
1 AAACCCT
*
2433698 AAACCTT
1 AAACCCT
* *
2433705 TAA-CTT
1 AAACCCT
*
2433711 TAACCCTT
1 AAACCC-T
*
2433719 AAACCAT
1 AAACCCT
2433726 AAAACCCT
1 -AAACCCT
**
2433734 AAA-TAT
1 AAACCCT
2433740 AAACCCT
1 AAACCCT
2433747 AAACCCT
1 AAACCCT
*
2433754 -AACCTT
1 AAACCCT
* *
2433760 AAAGCTT
1 AAACCCT
*
2433767 AAACTCT
1 AAACCCT
*
2433774 -AACCTT
1 AAACCCT
*
2433780 AAAACCT
1 AAACCCT
2433787 AAACCCT
1 AAACCCT
*
2433794 -AATCCT
1 AAACCCT
2433800 AAACC
1 AAACC
2433805 TAGACCCCAA
Statistics
Matches: 96, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
5 3 0.03
6 33 0.34
7 49 0.51
8 11 0.11
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.23
Consensus pattern (7 bp):
AAACCCT
Found at i:2433757 original size:13 final size:14
Alignment explanation
Indices: 2433666--2433804 Score: 60
Period size: 13 Copynumber: 10.4 Consensus size: 14
2433656 ATCTCCCATC
* *
2433666 AAACCCTAAGCCTT
1 AAACCCTAAACCCT
2433680 AAA-CCTAAACCCT
1 AAACCCTAAACCCT
*
2433693 -AA-CCTAAACCTT
1 AAACCCTAAACCCT
* * *
2433705 TAA-CTTTAACCCTT
1 AAACCCTAAACCC-T
*
2433719 AAACCATAAAACCCT
1 AAACCCT-AAACCCT
**
2433734 AAA-TATAAACCCT
1 AAACCCTAAACCCT
*
2433747 AAACCCT-AACCTT
1 AAACCCTAAACCCT
* * *
2433760 AAAGCTTAAACTCT
1 AAACCCTAAACCCT
* *
2433774 -AACCTTAAAACCT
1 AAACCCTAAACCCT
*
2433787 AAACCCT-AATCCT
1 AAACCCTAAACCCT
2433800 AAACC
1 AAACC
2433805 TAGACCCCAA
Statistics
Matches: 96, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
12 11 0.11
13 56 0.58
14 18 0.19
15 6 0.06
16 5 0.05
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.23
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:2433956 original size:27 final size:26
Alignment explanation
Indices: 2433907--2433963 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
2433897 TCATACTTTG
2433907 TCATTCATATTTTATTGTTATGCAT-
1 TCATTCATATTTTATTGTTATGCATC
2433932 TCATT-ATATTTTATTATGTTTATGCATC
1 TCATTCATATTTTA-T-TG-TTATGCATC
2433960 TCAT
1 TCAT
2433964 GCATTTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.29
25 6 0.21
26 2 0.07
27 8 0.29
28 4 0.14
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (26 bp):
TCATTCATATTTTATTGTTATGCATC
Found at i:2434294 original size:20 final size:22
Alignment explanation
Indices: 2434257--2434306 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
2434247 TTTTTTGTTT
* **
2434257 AAAAAAATGAGAAGAAAATGAG
1 AAAAAAAAGAGAAGAAAAAAAG
*
2434279 AAAAAAAAGAGAA-AAAAAAGG
1 AAAAAAAAGAGAAGAAAAAAAG
2434300 AAAAAAA
1 AAAAAAA
2434307 GAAAAGGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (22 bp):
AAAAAAAAGAGAAGAAAAAAAG
Found at i:2434296 original size:11 final size:11
Alignment explanation
Indices: 2434257--2434306 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
2434247 TTTTTTGTTT
*
2434257 AAAAAAATGAG
1 AAAAAAAAGAG
* *
2434268 AAGAAAATGAG
1 AAAAAAAAGAG
2434279 AAAAAAAAGAG
1 AAAAAAAAGAG
2434290 AAAAAAAAG-G
1 AAAAAAAAGAG
2434300 AAAAAAA
1 AAAAAAA
2434307 GAAAAGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
10 8 0.22
11 28 0.78
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:2437502 original size:109 final size:108
Alignment explanation
Indices: 2437368--2437577 Score: 255
Period size: 109 Copynumber: 1.9 Consensus size: 108
2437358 TAAAATCTTG
* *
2437368 AAATTATTTTTTATTTAAGGGAAAATTGATATTTCA-ATTTCTTCATCAATTTTT-AAATTATTT
1 AAATTATTTTTTATTTAAGGAAAAATTAATATTTCAGATTTCTTC-TCAATTTTTGAAATTATTT
* *
2437431 TTGTTCAATGAAAAAATTGATATTTTAACTCTTTCCTCATTTATTA
65 TCGTTCAA-GAAAAAATTAATA-TTTAACTCTTTCCTCATTTATTA
* * * * *
2437477 AAATTA-TTTTTATTTTTAGGAAAAATTAATATTTCAGCTTTTTTCTCATTTTTTGAAGTTATTT
1 AAATTATTTTTTA-TTTAAGGAAAAATTAATATTTCAGATTTCTTCTCAATTTTTGAAATTATTT
* * *
2437541 TCGTTTAAGGAAAAATTAATATTTAACTTTTTCCTCA
65 TCGTTCAAGAAAAAATTAATATTTAACTCTTTCCTCA
2437578 AATTTTTGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
108 21 0.24
109 45 0.52
110 20 0.23
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (108 bp):
AAATTATTTTTTATTTAAGGAAAAATTAATATTTCAGATTTCTTCTCAATTTTTGAAATTATTTT
CGTTCAAGAAAAAATTAATATTTAACTCTTTCCTCATTTATTA
Found at i:2437584 original size:54 final size:52
Alignment explanation
Indices: 2437376--2437660 Score: 186
Period size: 54 Copynumber: 5.3 Consensus size: 52
2437366 TGAAATTATT
* * *
2437376 TTTTA-TTTAAGGGAAAATTGATATTTCAA-TTTCTTCATCAATTTTTAAATTA
1 TTTTAGTTTAAGGAAAAATTAATATTT-AACTTT-TTCCTCAATTTTTAAATTA
* * * * *
2437428 TTTTTGTTCAATGAAAAAATTGATATTTTAACTCTTTCCTC-ATTTATTAAAATTA
1 TTTTAGTTTAA-GGAAAAATTAATA-TTTAACTTTTTCCTCAATTT-TT-AAATTA
* * * * * *
2437483 TTTTTATTTTTAGGAAAAATTAATATTTCAGCTTTTTTCTCATTTTTTGAAGTTA
1 -TTTTAGTTTAAGGAAAAATTAATATTT-AACTTTTTCCTCAATTTTT-AAATTA
* * *
2437538 TTTTCGTTTAAGGAAAAATTAATATTTAACTTTTTCCTCAAATTTTT--GTTT
1 TTTTAGTTTAAGGAAAAATTAATATTTAACTTTTTCCTC-AATTTTTAAATTA
* * * *
2437589 TTTTATTTTAA-GAAAAATTTATATTTTAACTTTTTCTTTATAATTTTTGAAATTA
1 TTTTAGTTTAAGGAAAAATTAATA-TTTAACTTTTTC-CT-CAATTTTT-AAATTA
* *
2437644 TTATTATTTTAGGGAAA
1 TT-TTAGTTTAAGGAAA
2437661 TAAAAAAACT
Statistics
Matches: 182, Mismatches: 33, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
50 11 0.06
51 24 0.13
52 12 0.07
53 18 0.10
54 53 0.29
55 42 0.23
56 18 0.10
57 4 0.02
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.53
Consensus pattern (52 bp):
TTTTAGTTTAAGGAAAAATTAATATTTAACTTTTTCCTCAATTTTTAAATTA
Found at i:2440713 original size:71 final size:69
Alignment explanation
Indices: 2440497--2440741 Score: 269
Period size: 70 Copynumber: 3.5 Consensus size: 69
2440487 TTTAGGGCAA
2440497 ATAGAATCATTGTTTTGAATATTACA-TTGCATTGTTATTTGAATCATGCATTTGCAT-TATTTG
1 ATAG-ATCATTGTTTTGAATATTACATTTGCATTGTTATTTGAA-CATGCATTTGCATAT-TTTG
2440560 CTGAGTAT
63 -TGAGTAT
* * * * ** * * *
2440568 ATAGATCATTTTTTTAAATGTTGCATTTATATTATTGTTTGAACATGCATTTGCATTTTTTGGTG
1 ATAGATCATTGTTTTGAATATTACATTTGCATTGTTATTTGAACATGCATTTGCATATTTT-GTG
2440633 AGTAT
65 AGTAT
* * * * *
2440638 ATAGATGATTGTTTTGAATGTTGCATTTGCATTGTCATTTGAACCATGCATTTGCACAATTTTGT
1 ATAGATCATTGTTTTGAATATTACATTTGCATTGTTATTTGAA-CATGCATTTGCA-TATTTTGT
2440703 GAGTAT
64 GAGTAT
* *
2440709 ATAGATCATTATTTTGAGTATTACATTTGCATT
1 ATAGATCATTGTTTTGAATATTACATTTGCATT
2440742 AATGTTGGAC
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
70 75 0.51
71 67 0.46
72 4 0.03
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.47
Consensus pattern (69 bp):
ATAGATCATTGTTTTGAATATTACATTTGCATTGTTATTTGAACATGCATTTGCATATTTTGTGA
GTAT
Found at i:2440791 original size:141 final size:141
Alignment explanation
Indices: 2440500--2440809 Score: 335
Period size: 141 Copynumber: 2.2 Consensus size: 141
2440490 AGGGCAAATA
* * * **
2440500 GAATCATTGTTTTGAATATTACA-TTGCATTGTTATTTGAATCATGCATTTGCATTATTTGCTGA
1 GAATCATTGTTTTGAATATTGCATTTGCATTGTCATTTGAACCATGCATTTGCACAATTTGCTGA
* * * * * * * *
2440564 GTATATAGATCATTTTTTTAAATGTTGCATTTATATTATTGTTTGAACATGCATTTGCATTTTTT
66 GTATATAGATCATTATTTTAAATATTACATTTACATTAATGTTTGAACAAGCATTTACATTATTT
*
2440629 GGTGAGTATAT
131 GGTGAATATAT
* *
2440640 -AGATGATTGTTTTGAATGTTGCATTTGCATTGTCATTTGAACCATGCATTTGCACAATTTTG-T
1 GA-ATCATTGTTTTGAATATTGCATTTGCATTGTCATTTGAACCATGCATTTGCACAA-TTTGCT
* * * * *
2440703 GAGTATATAGATCATTATTTTGAGTATTACATTTGCATTAATG-TTGGACTAAGCATTTATATTA
64 GAGTATATAGATCATTATTTTAAATATTACATTTACATTAATGTTTGAAC-AAGCATTTACATTA
*
2440767 TTTGGTGAATATTT
128 TTTGGTGAATATAT
*
2440781 GAATCTTTG-TTTG-ATAATTGCATTTGCAT
1 GAATCATTGTTTTGAAT-ATTGCATTTGCAT
2440810 CTTGGTTTGG
Statistics
Matches: 139, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
139 3 0.02
140 39 0.28
141 92 0.66
142 5 0.04
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.47
Consensus pattern (141 bp):
GAATCATTGTTTTGAATATTGCATTTGCATTGTCATTTGAACCATGCATTTGCACAATTTGCTGA
GTATATAGATCATTATTTTAAATATTACATTTACATTAATGTTTGAACAAGCATTTACATTATTT
GGTGAATATAT
Found at i:2441330 original size:46 final size:45
Alignment explanation
Indices: 2441280--2441374 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 45
2441270 AATCTTTGGG
*
2441280 ATTTTAGATGTAAATCTCTAAAATTTTTTTAATGAGAACCTTTGAA
1 ATTTTAGATGTAAAACTCTAAAATTTTTTTAATGAGAACCTTT-AA
* * ** *
2441326 ATTTTGGATGTAAAACTCTGATTTTTTTTTAATGTGAACCTTTAA
1 ATTTTAGATGTAAAACTCTAAAATTTTTTTAATGAGAACCTTTAA
2441371 ATTT
1 ATTT
2441375 AGAAGTGAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 6 0.14
46 37 0.86
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (45 bp):
ATTTTAGATGTAAAACTCTAAAATTTTTTTAATGAGAACCTTTAA
Found at i:2441500 original size:22 final size:23
Alignment explanation
Indices: 2441445--2441512 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
2441435 TTGAATCTTG
* * *
2441445 GATGTAAATTCTTAAGATTTTTCA
1 GATGTAAATTTTTAAAAATTTT-A
* * *
2441469 AATGTGAATTTTT-GAAATTTTA
1 GATGTAAATTTTTAAAAATTTTA
2441491 GATGTAAATTTTTAAAAATTTT
1 GATGTAAATTTTTAAAAATTTT
2441513 CAAATGCTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
22 12 0.35
23 12 0.35
24 10 0.29
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.49
Consensus pattern (23 bp):
GATGTAAATTTTTAAAAATTTTA
Found at i:2441513 original size:46 final size:45
Alignment explanation
Indices: 2441416--2441558 Score: 155
Period size: 45 Copynumber: 3.2 Consensus size: 45
2441406 AATCTCTAAG
* * * *
2441416 ATTTTTAAAATGTCAATCTTTG-AATCTTGGATGTAAATTCTTAAG
1 ATTTTTCAAATGT-AATCTTTGAAATTTTGGATGTAAATTTTTAAA
* *
2441461 ATTTTTCAAATGTGAATTTTTGAAATTTTAGATGTAAATTTTTAAA
1 ATTTTTCAAATGT-AATCTTTGAAATTTTGGATGTAAATTTTTAAA
* * * *
2441507 AATTTTCAAATGCTAATCTTT-AAAATTTGGATGTATATCTTTAAA
1 ATTTTTCAAATG-TAATCTTTGAAATTTTGGATGTAAATTTTTAAA
2441552 ATTTTTC
1 ATTTTTC
2441559 GAATAAAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
45 45 0.55
46 36 0.44
47 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (45 bp):
ATTTTTCAAATGTAATCTTTGAAATTTTGGATGTAAATTTTTAAA
Found at i:2441531 original size:23 final size:23
Alignment explanation
Indices: 2441446--2441534 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 23
2441436 TGAATCTTGG
* *
2441446 ATGTAAATTCTTAAGATTTTTCAA
1 ATGTAAATTTTTAA-AATTTTCAA
* * *
2441470 ATGTGAATTTTTGAAATTTT-AG
1 ATGTAAATTTTTAAAATTTTCAA
2441492 ATGTAAATTTTTAAAAATTTTCAA
1 ATGTAAATTTTT-AAAATTTTCAA
*
2441516 ATGCT-AATCTTTAAAATTT
1 ATG-TAAATTTTTAAAATTT
2441535 GGATGTATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 12 0.23
23 19 0.36
24 21 0.40
25 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (23 bp):
ATGTAAATTTTTAAAATTTTCAA
Found at i:2441676 original size:21 final size:21
Alignment explanation
Indices: 2441652--2441691 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2441642 AACCCTCGAT
* *
2441652 TGTGAATCCTTAAGCTTTTAA
1 TGTGAATCATTAAGATTTTAA
2441673 TGTGAATCATTAAGATTTT
1 TGTGAATCATTAAGATTTT
2441692 TCAAATATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (21 bp):
TGTGAATCATTAAGATTTTAA
Found at i:2441993 original size:16 final size:16
Alignment explanation
Indices: 2441964--2442003 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
2441954 AATTTTGCTT
2441964 TTATTTTGTATTTTATA
1 TTATTTT-TATTTTATA
2441981 TTATTTTTATTTTATA
1 TTATTTTTATTTTATA
2441997 TT-TTTTT
1 TTATTTTT
2442004 CCTTTGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTATTTTTATTTTATA
Found at i:2442090 original size:32 final size:32
Alignment explanation
Indices: 2442053--2442148 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 32
2442043 TTACTATGTA
* *
2442053 TTAATATATGTATATCTTTATTTT-TTTTTCT-G
1 TTAATATAT-TATAT-TGTATTTTATTTATCTAG
2442085 TTAATAT-TTATATTGTATTTTATTTATCTAG
1 TTAATATATTATATTGTATTTTATTTATCTAG
* *
2442116 TT-ATATATTTATTATTATATTATAATTTATCTA
1 TTAATATA-TTA-TATTGTATT-TTATTTATCTA
2442149 TTATTATTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 7 0.13
30 15 0.28
31 4 0.07
32 10 0.19
33 8 0.15
34 10 0.19
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (32 bp):
TTAATATATTATATTGTATTTTATTTATCTAG
Found at i:2442097 original size:30 final size:31
Alignment explanation
Indices: 2442053--2442156 Score: 88
Period size: 32 Copynumber: 3.3 Consensus size: 31
2442043 TTACTATGTA
* *
2442053 TTAATATATGTATATCTTTATTTT-TTTTTCT-G
1 TTAATAT-T-TATAT-TGTATTTTATTTATCTAG
2442085 TTAATATTTATATTGTATTTTATTTATCTAG
1 TTAATATTTATATTGTATTTTATTTATCTAG
* *
2442116 TTATATATTTATTATTATATTATAATTTATCTA-
1 TTA-ATATTTA-TATTGTATT-TTATTTATCTAG
*
2442149 TTATTATT
1 TTAATATT
2442157 ATTTTTTATT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
29 7 0.11
30 11 0.18
31 5 0.08
32 18 0.29
33 11 0.18
34 10 0.16
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (31 bp):
TTAATATTTATATTGTATTTTATTTATCTAG
Found at i:2442134 original size:38 final size:36
Alignment explanation
Indices: 2442089--2442177 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 36
2442079 TTTCTGTTAA
* *
2442089 TATTTATATTGTATTTTATTTATCTAGTTATATATTTAT
1 TATTTATATTGTAATTTATCTAT-TA-TTAT-TATTTAT
* *
2442128 TA-TTATATTATAATTTATCTATTATTATTATTTTT
1 TATTTATATTGTAATTTATCTATTATTATTATTTAT
*
2442163 TATTTATCTTGTAAT
1 TATTTATATTGTAAT
2442178 ATTTTTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
35 8 0.19
36 14 0.33
37 2 0.05
38 17 0.40
39 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (36 bp):
TATTTATATTGTAATTTATCTATTATTATTATTTAT
Found at i:2442152 original size:25 final size:24
Alignment explanation
Indices: 2442124--2442199 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
2442114 AGTTATATAT
2442124 TTATTATTATATTATAATTTATCTA
1 TTATTATTAT-TTATAATTTATCTA
* *
2442149 TTATTATTATTTTTTATTTATCT-
1 TTATTATTATTTATAATTTATCTA
*
2442172 TGTAATATT-TTT-T-ATTTATCTTA
1 T-TATTATTATTTATAATTTATC-TA
2442195 TTATT
1 TTATT
2442200 TTTTTAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
21 7 0.16
22 5 0.11
23 5 0.11
24 17 0.39
25 10 0.23
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (24 bp):
TTATTATTATTTATAATTTATCTA
Found at i:2442182 original size:21 final size:21
Alignment explanation
Indices: 2442156--2442228 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
2442146 CTATTATTAT
2442156 TATTTTTTATTTATCTTGTAA
1 TATTTTTTATTTATCTTGTAA
* *
2442177 TATTTTTTATTTATCTTATTA
1 TATTTTTTATTTATCTTGTAA
*
2442198 T-TTTTTTAATTATC-TGTTAA
1 TATTTTTTATTTATCTTG-TAA
*
2442218 TTTTTTTTATT
1 TATTTTTTATT
2442229 CGTTTATCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 15 0.34
21 28 0.64
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (21 bp):
TATTTTTTATTTATCTTGTAA
Found at i:2442203 original size:41 final size:40
Alignment explanation
Indices: 2442152--2442228 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
2442142 TTATCTATTA
*
2442152 TTATTATTTTTTATTTATCT-TGTAATATTTTTTATTTATC
1 TTATTATTTTTTAATTATCTGT-TAATATTTTTTATTTATC
*
2442192 TTATTATTTTTTTAATTATCTGTTAATTTTTTTTATT
1 TTATTA-TTTTTTAATTATCTGTTAATATTTTTTATT
2442229 CGTTTATCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 6 0.18
41 26 0.79
42 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (40 bp):
TTATTATTTTTTAATTATCTGTTAATATTTTTTATTTATC
Found at i:2442210 original size:58 final size:59
Alignment explanation
Indices: 2442102--2442227 Score: 134
Period size: 58 Copynumber: 2.2 Consensus size: 59
2442092 TTATATTGTA
*
2442102 TTTTATTTATCTAGTTATATATTTATTATTATATTATAATTTATCTATTAT-TATTATT
1 TTTTATTTATCTAGTTATATATTTATTATTATATTATAATTTATCTATTATCTATTAAT
* * * * * * *
2442160 TTTTATTTATCTTG-TA-ATATTTTTTATTTATCTTATTATTTTTTTAATTATCTGTTAAT
1 TTTTATTTATCTAGTTATATATTTATTA-TTATATTATAATTTATCT-ATTATCTATTAAT
2442219 TTTT-TTTAT
1 TTTTATTTAT
2442228 TCGTTTATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
56 9 0.16
57 16 0.28
58 23 0.40
59 9 0.16
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (59 bp):
TTTTATTTATCTAGTTATATATTTATTATTATATTATAATTTATCTATTATCTATTAAT
Found at i:2442220 original size:20 final size:20
Alignment explanation
Indices: 2442158--2442224 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
2442148 ATTATTATTA
*
2442158 TTTTTTATTTATCTTGTAAT
1 TTTTTTATTTATCTTATAAT
*
2442178 ATTTTTTATTTATCTTATTAT
1 -TTTTTTATTTATCTTATAAT
*
2442199 TTTTTTAATTATCTGT-TAAT
1 TTTTTTATTTATCT-TATAAT
2442219 TTTTTT
1 TTTTTT
2442225 TATTCGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
20 22 0.54
21 19 0.46
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTTATTTATCTTATAAT
Found at i:2443120 original size:6 final size:5
Alignment explanation
Indices: 2443084--2443189 Score: 58
Period size: 5 Copynumber: 20.6 Consensus size: 5
2443074 TTAGATTAGG
* * * *
2443084 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTAT TGTTATT TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT T-TTA-T TTTAT TTTA-T
* * *
2443133 TTT-C TTTAT TTT-T TTATTT TTTAT TTTCACT TTTAT TTTGT TTTA-
1 TTTAT TTTAT TTTAT TT-TAT TTTAT TTT-A-T TTTAT TTTAT TTTAT
2443178 -TTAT TTTAT TTT
1 TTTAT TTTAT TTT
2443190 CTTTAAATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 22
0.69 0.12 0.20
Matches are distributed among these distances:
3 3 0.04
4 6 0.08
5 43 0.56
6 19 0.25
7 6 0.08
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:2443184 original size:32 final size:31
Alignment explanation
Indices: 2443097--2443184 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 31
2443087 ATTTAATATT
* *
2443097 CTTTTATCTTTATTTTATTGTTATTTTTGTTTTA
1 CTTTTAT-TTT-TTTTATTATT-TTTTTGTTTCA
*
2443131 CTTTTCTTTATTTTT-TTATTTTTTAT-TTTCA
1 CTTTTATTT-TTTTTATTATTTTTT-TGTTTCA
2443162 CTTTTATTTTGTTTTATTATTTT
1 CTTTTATTTT-TTTTATTATTTT
2443185 ATTTTCTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
30 1 0.02
31 20 0.43
32 12 0.26
33 6 0.13
34 7 0.15
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (31 bp):
CTTTTATTTTTTTTATTATTTTTTTGTTTCA
Found at i:2443253 original size:57 final size:57
Alignment explanation
Indices: 2443185--2443433 Score: 245
Period size: 58 Copynumber: 4.3 Consensus size: 57
2443175 TTATTATTTT
* * *
2443185 ATTTTCTTTAAATAAAATTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAATAAAATTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * * *
2443242 ATTTTCCTTAAAAATAAATTTTCAAAAAAAGT-TTTTTG-GAAAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAATA-AAATTCT-AAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCA
* * * * *
2443300 ATTTTCCTTAAAAAATAAATTTTCAAAAAAA-GTTTTTAAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTT-AAATA-AAATTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* ** *
2443358 ATTTTCCTTAAAAATAAATT-TTTAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAATA-AAATTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
*
2443415 ATTTTTCTTTAAATTAAAA
1 A-TTTTCCTTAAA-TAAAA
2443434 GTTTTGAATT
Statistics
Matches: 167, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
56 7 0.04
57 50 0.30
58 87 0.52
59 23 0.14
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (57 bp):
ATTTTCCTTAAATAAAATTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:2443427 original size:58 final size:57
Alignment explanation
Indices: 2443207--2443419 Score: 322
Period size: 58 Copynumber: 3.7 Consensus size: 57
2443197 TAAAATTCAA
* *
2443207 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *
2443264 CAAAAAAAGTTTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTT
1 -AAAAAAAGATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTT
*
2443323 CAAAAAAAG-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 -AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
*
2443380 TAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
2443420 TCTTTAAATT
Statistics
Matches: 144, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
56 7 0.05
57 44 0.31
58 70 0.49
59 23 0.16
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:2443443 original size:26 final size:26
Alignment explanation
Indices: 2443414--2443463 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
2443404 TGAAAGTATC
*
2443414 AATTTTTCTTTAAATTAAAAGTTTTG
1 AATTTTTCTTGAAATTAAAAGTTTTG
2443440 AATTTTTCTTGAAATTAAAAGTTT
1 AATTTTTCTTGAAATTAAAAGTTT
2443464 CCAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (26 bp):
AATTTTTCTTGAAATTAAAAGTTTTG
Found at i:2443470 original size:142 final size:142
Alignment explanation
Indices: 2443323--2443579 Score: 419
Period size: 142 Copynumber: 1.8 Consensus size: 142
2443313 AATAAATTTT
*
2443323 CAAAAAA-AGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAA
1 CAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* **
2443387 G-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTTAAATTAAAAGTTTTGAATTTTTCTTG
65 GAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTTGAATTTTTCTTG
2443451 AAATTAAAAGTTTC
129 AAATTAAAAGTTTC
** *
2443465 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAATG
1 CAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAG
2443530 AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
66 AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT
2443580 CAAAAGAATA
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
142 66 0.62
143 40 0.38
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (142 bp):
CAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAG
AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTGAATTTTTCTTGAA
ATTAAAAGTTTC
Found at i:2443505 original size:58 final size:57
Alignment explanation
Indices: 2443440--2443620 Score: 256
Period size: 58 Copynumber: 3.1 Consensus size: 57
2443430 AAAAGTTTTG
* *
2443440 AATTTTTCTTGAAATTAAAAGTTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATC
1 AATTTTCCTTGAAATT-AAAGTTT-CAAAAAATATTTTTGAGGAAAAGTTGAAAGTATC
* * *
2443499 AATTTTCCTTAAAAATAAATTTTC-AAAAATGAATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTCCTTGAAATTAAAGTTTCAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATC
*
2443557 AATTTTCCTCGAAATTAAAGTTTCAAAAGAATATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTCCTTGAAATTAAAGTTTCAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATC
2443615 AATTTT
1 AATTTT
2443621 TCCTGCACAA
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
56 6 0.06
57 1 0.01
58 83 0.76
59 16 0.15
60 3 0.03
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (57 bp):
AATTTTCCTTGAAATTAAAGTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATC
Found at i:2443619 original size:27 final size:27
Alignment explanation
Indices: 2443530--2443621 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 27
2443520 TTCAAAAATG
2443530 AATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTGAGGAAAAGTTGAAAGTATC
* * *
2443557 AATTTTCCTCGA-AATTAAAGTTTCAAAAGAAT-
1 AATTTT--T-GAGGA--AAAG-TT-GAAAGTATC
2443589 -ATTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTGAGGAAAAGTTGAAAGTATC
2443615 AATTTTT
1 AATTTTT
2443622 CCTGCACAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 20
0.65 0.08 0.27
Matches are distributed among these distances:
25 6 0.12
26 2 0.04
27 16 0.33
28 2 0.04
29 4 0.08
30 2 0.04
31 9 0.18
32 2 0.04
33 6 0.12
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (27 bp):
AATTTTTGAGGAAAAGTTGAAAGTATC
Found at i:2454024 original size:8 final size:8
Alignment explanation
Indices: 2454011--2454105 Score: 118
Period size: 8 Copynumber: 11.2 Consensus size: 8
2454001 ACTATGCTTA
2454011 AAAAAATG
1 AAAAAATG
2454019 AAAAAATG
1 AAAAAATG
2454027 AAAAAATG
1 AAAAAATG
2454035 AAAAAAATG
1 -AAAAAATG
2454044 AAAAAATG
1 AAAAAATG
2454052 AAAAAAATG
1 -AAAAAATG
*
2454061 AAAAAATAA
1 AAAAAAT-G
*
2454070 AAAAAATA
1 AAAAAATG
2454078 AAAAAATG
1 AAAAAATG
*
2454086 AAAAAAAAGG
1 --AAAAAATG
2454096 AAAAAATG
1 AAAAAATG
2454104 AA
1 AA
2454106 TGAAAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
8 48 0.62
9 23 0.29
10 7 0.09
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:2454030 original size:17 final size:17
Alignment explanation
Indices: 2454011--2454105 Score: 147
Period size: 17 Copynumber: 5.6 Consensus size: 17
2454001 ACTATGCTTA
2454011 AAAAAATG-AAAAAATG
1 AAAAAATGAAAAAAATG
2454027 AAAAAATGAAAAAAATG
1 AAAAAATGAAAAAAATG
2454044 AAAAAATGAAAAAAATG
1 AAAAAATGAAAAAAATG
* *
2454061 AAAAAATAAAAAAAATA
1 AAAAAATGAAAAAAATG
*
2454078 AAAAAATGAAAAAAAAGG
1 AAAAAATG-AAAAAAATG
2454096 AAAAAATGAA
1 AAAAAATGAA
2454106 TGAAAAAAGA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
16 8 0.11
17 49 0.68
18 15 0.21
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAAAAAATG
Found at i:2454038 original size:25 final size:25
Alignment explanation
Indices: 2454010--2454105 Score: 131
Period size: 25 Copynumber: 3.8 Consensus size: 25
2454000 TACTATGCTT
2454010 AAAAAAATGAAAAAATGAAAAAATG
1 AAAAAAATGAAAAAATGAAAAAATG
2454035 AAAAAAATGAAAAAATGAAAAAAATG
1 AAAAAAATGAAAAAATG-AAAAAATG
* *
2454061 -AAAAAATAAAAAAAATAAAAAAATG
1 AAAAAAAT-GAAAAAATGAAAAAATG
*
2454086 AAAAAAAAGGAAAAAATGAA
1 -AAAAAAATGAAAAAATGAA
2454106 TGAAAAAAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
25 32 0.52
26 24 0.39
27 6 0.10
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (25 bp):
AAAAAAATGAAAAAATGAAAAAATG
Found at i:2455483 original size:12 final size:12
Alignment explanation
Indices: 2455466--2455517 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
2455456 CCAATTTTGC
2455466 TTTTATTTTATA
1 TTTTATTTTATA
* *
2455478 TTTTATATTATT
1 TTTTATTTTATA
2455490 TTTTATATTTAT-
1 TTTTAT-TTTATA
2455502 TTTTATTTTATA
1 TTTTATTTTATA
2455514 TTTT
1 TTTT
2455518 TTTCCTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.14
12 26 0.74
13 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:2455495 original size:19 final size:18
Alignment explanation
Indices: 2455466--2455517 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
2455456 CCAATTTTGC
2455466 TTTTATTTTATATTTTAT
1 TTTTATTTTATATTTTAT
2455484 ATTATT-TTTTATA-TTTAT
1 -TT-TTATTTTATATTTTAT
2455502 TTTTATTTTATATTTT
1 TTTTATTTTATATTTT
2455518 TTTCCTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 9 0.30
18 8 0.27
19 9 0.30
20 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATTTTATATTTTAT
Found at i:2455549 original size:4 final size:4
Alignment explanation
Indices: 2455531--2455756 Score: 53
Period size: 4 Copynumber: 56.5 Consensus size: 4
2455521 CCTTTGTATC
* * * *
2455531 TTAT GTAT TTA- TTAT TTAT TTAT TTA- TTAT TACTAT GTAT TAAT ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT TTAT TTAT
* * * * *
2455579 GTAT ATCT TT-T TT-T TT-T TCTAT TAATAT TTAT ATAT GTATT TTAT
1 TTAT TTAT TTAT TTAT TTAT T-TAT T--TAT TTAT TTAT TTA-T TTAT
* * * *
2455624 TTAT CTAG TTAT ATAT TTA- TTAT TATAT TATAAT TTAT CTA- TTA- TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT T-TAT T-T-AT TTAT TTAT TTAT TTAT
* * * *
2455672 TATTT TTAT TTAT TT-T GTA- ATAT TT-T TTAT TTAT CTTA- TTAT TTTT
1 T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT
* * * * * *
2455718 TTAA TTAT CTGT TAAT TTTT TTAT TCAT TTAT TTGAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TT
2455757 TTTTCTCTTT
Statistics
Matches: 161, Mismatches: 42, Indels: 37
0.67 0.17 0.15
Matches are distributed among these distances:
3 32 0.20
4 97 0.60
5 22 0.14
6 10 0.06
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:2455663 original size:34 final size:33
Alignment explanation
Indices: 2455622--2455685 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
2455612 TATGTATTTT
2455622 ATTTATCTAGTTA-TA-TATTTATTATTATATTATA
1 ATTTATCTA-TTATTATTATTT-TTATT-TATTATA
2455656 ATTTATCTATTATTATTATTTTTATTTATT
1 ATTTATCTATTATTATTATTTTTATTTATT
2455686 TTGTAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
33 7 0.25
34 16 0.57
35 5 0.18
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (33 bp):
ATTTATCTATTATTATTATTTTTATTTATTATA
Found at i:2455700 original size:21 final size:20
Alignment explanation
Indices: 2455674--2455747 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
2455664 ATTATTATTA
2455674 TTTTTATTTATTTTGTAATAT
1 TTTTTATTTATTTTGTAAT-T
* * *
2455695 TTTTTATTTATCTTATTATT
1 TTTTTATTTATTTTGTAATT
* *
2455715 TTTTTAATTA-TCTGTTAATT
1 TTTTTATTTATTTTG-TAATT
*
2455735 TTTTTATTCATTT
1 TTTTTATTTATTT
2455748 ATTTGATTTT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.03
20 22 0.55
21 17 0.43
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATTTATTTTGTAATT
Found at i:2455713 original size:12 final size:11
Alignment explanation
Indices: 2455531--2455725 Score: 59
Period size: 11 Copynumber: 17.4 Consensus size: 11
2455521 CCTTTGTATC
*
2455531 TTATGTATTTA
1 TTATTTATTTA
2455542 TTATTTATTTA
1 TTATTTATTTA
2455553 TT-TATTA-TTA
1 TTAT-TTATTTA
* * *
2455563 CTATGTATTAA
1 TTATTTATTTA
2455574 TATATGTATATCTT-
1 T-TAT-T-TAT-TTA
* *
2455588 TTTTTTTTTCTA
1 TTATTTATT-TA
*
2455600 TTA-ATATTTA
1 TTATTTATTTA
*
2455610 TATATGTA-TT-
1 T-TATTTATTTA
*
2455620 TTATTTATCTA
1 TTATTTATTTA
*
2455631 GTTATATATTTA
1 -TTATTTATTTA
2455643 TTA-TTATATTA
1 TTATTTAT-TTA
* *
2455654 TAATTTATCTA
1 TTATTTATTTA
2455665 TTATTATTATTT-
1 TTA-T-TTATTTA
2455677 TTATTTATTT-
1 TTATTTATTTA
* *
2455687 TGTA-ATATTTT
1 T-TATTTATTTA
2455698 TTATTTATCTTA
1 TTATTTAT-TTA
*
2455710 TTATTTTTTTAA
1 TTATTTATTT-A
2455722 TTAT
1 TTAT
2455726 CTGTTAATTT
Statistics
Matches: 135, Mismatches: 26, Indels: 45
0.66 0.13 0.22
Matches are distributed among these distances:
9 5 0.04
10 30 0.22
11 49 0.36
12 39 0.29
13 7 0.05
14 4 0.03
15 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:2455717 original size:20 final size:20
Alignment explanation
Indices: 2455665--2455760 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
2455655 AATTTATCTA
*
2455665 TTATTATTATTTTTATTTATT
1 TTATTATT-TTTTTATTTATC
* *
2455686 TTGTAATATTTTTTATTTATC
1 TTATTAT-TTTTTTATTTATC
*
2455707 TTATTATTTTTTTAATTATC
1 TTATTATTTTTTTATTTATC
* *
2455727 TGT-TAATTTTTTTATTCAT-
1 T-TATTATTTTTTTATTTATC
2455746 TTATTTGATTTTTTT
1 TTA-TT-ATTTTTTT
2455761 CTCTTTTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 27 0.45
21 30 0.50
22 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (20 bp):
TTATTATTTTTTTATTTATC
Found at i:2455738 original size:40 final size:41
Alignment explanation
Indices: 2455656--2455760 Score: 108
Period size: 41 Copynumber: 2.5 Consensus size: 41
2455646 TTATATTATA
* *
2455656 ATTTATCTATTATTATTATTTTTATTTATTTTGTAATATTTTTT
1 ATTTATC--TTATTATT-TTTTTAATTATTGTGTAATATTTTTT
2455700 ATTTATCTTATTATTTTTTTAATTATCTGT-TAAT-TTTTTT
1 ATTTATCTTATTATTTTTTTAATTAT-TGTGTAATATTTTTT
*
2455740 ATTCAT-TTATTTGATTTTTTT
1 ATTTATCTTA-TT-ATTTTTTT
2455761 CTCTTTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
39 3 0.05
40 13 0.24
41 22 0.40
42 10 0.18
44 7 0.13
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.70
Consensus pattern (41 bp):
ATTTATCTTATTATTTTTTTAATTATTGTGTAATATTTTTT
Found at i:2456662 original size:5 final size:5
Alignment explanation
Indices: 2456631--2456749 Score: 66
Period size: 5 Copynumber: 22.6 Consensus size: 5
2456621 TTAGATTAGG
* * *
2456631 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTATT TTTATT TTTATT TTTATT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTA-T TTTA-T TTTA-T TTTA-T
* *
2456681 TTTGT TTTACT TTT-C TTTAT TTT-T TTTATTT TTTAT TTTCACT TTTAT
1 TTTAT TTTA-T TTTAT TTTAT TTTAT TTTA--T TTTAT TTT-A-T TTTAT
*
2456729 TTTGT TTTA- -TTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTT
2456750 CTTTAAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 22
0.73 0.10 0.18
Matches are distributed among these distances:
3 3 0.03
4 7 0.08
5 39 0.43
6 33 0.36
7 9 0.10
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:2456665 original size:6 final size:6
Alignment explanation
Indices: 2456645--2456749 Score: 83
Period size: 6 Copynumber: 17.5 Consensus size: 6
2456635 TTTAATATTC
* * *
2456645 TTTTAT CTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTT-G TTTTAC
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * *
2456691 TTTTCT TTATTTT TTTTATT TTTTAT TTTCAC TTTTAT TTTGT-T TTATTA-
1 TTTTAT TT-TTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT
2456741 TTTTAT TTT
1 TTTTAT TTT
2456750 CTTTAAATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
5 11 0.14
6 55 0.70
7 13 0.16
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:2456754 original size:17 final size:16
Alignment explanation
Indices: 2456647--2456754 Score: 56
Period size: 17 Copynumber: 6.0 Consensus size: 16
2456637 TAATATTCTT
2456647 TTATCTTTATTTTATTT-
1 TTAT-TTTATTTT-TTTA
*
2456664 TTATTTTTATTTTTATTT
1 TTA-TTTTATTTTT-TTA
*
2456682 TTGTTTTACTTTTCTTTA
1 TTATTTTA-TTTT-TTTA
* *
2456700 TTTTTTTTATTTTTTATT
1 -TTATTTTATTTTTT-TA
2456718 TTCACTTTTATTTTGTTTTA
1 TT-A-TTTTA-TTT-TTTTA
2456738 TTATTTTATTTTCTTTA
1 TTATTTTATTTT-TTTA
2456755 AATAAAATCT
Statistics
Matches: 73, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
16 2 0.03
17 29 0.40
18 19 0.26
19 14 0.19
20 6 0.08
21 3 0.04
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.78
Consensus pattern (16 bp):
TTATTTTATTTTTTTA
Found at i:2456902 original size:59 final size:58
Alignment explanation
Indices: 2456767--2457097 Score: 393
Period size: 59 Copynumber: 5.7 Consensus size: 58
2456757 TAAAATCTAA
* * ** *
2456767 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
** * * *
2456824 AAAAAAGGTTTTTAAGG-AAAAGTTAAAAGTATTAATTTTCCTCGAAATTAAAAGTTTTC
1 AAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTTC
* *
2456883 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCC
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTTC
* * ** *
2456942 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
* *
2456999 -AAAAATGAATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAG-TTTC
1 AAAAAAT--ATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
*
2457057 AAAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
1 AAAA-AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTC
2457098 TTGCACAAAA
Statistics
Matches: 234, Mismatches: 31, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
56 6 0.03
57 42 0.18
58 82 0.35
59 101 0.43
60 3 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
Found at i:2457068 original size:175 final size:175
Alignment explanation
Indices: 2456767--2457097 Score: 551
Period size: 175 Copynumber: 1.9 Consensus size: 175
2456757 TAAAATCTAA
* * *
2456767 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
1 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGA
* *
2456832 TTTTTAAGGAAAAGTTAAAAGTATTAATTTTCCTCGAAATTAAAAGTTTTCAAAAAATATTTTTG
66 TTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTCAAAAAATATTTTTG
2456897 GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCC
131 GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCC
*
2456942 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAATGA
1 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAG-
*
2457007 ATTTTTGAGAAAAAGTTGAAAA-TATCAATTTTCCTCGAAATT-AAAG-TTTCAAAAGAATATTT
65 ATTTTTAAGAAAAAGTT-AAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTCAAAA-AATATTT
2457069 TTGGGGAAAAGTTGAAAGTATCAATTTTC
128 TTGGGGAAAAGTTGAAAGTATCAATTTTC
2457098 TTGCACAAAA
Statistics
Matches: 146, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
174 8 0.05
175 101 0.69
176 33 0.23
177 4 0.03
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (175 bp):
AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGA
TTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTCAAAAAATATTTTTG
GGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCC
Found at i:2457677 original size:18 final size:17
Alignment explanation
Indices: 2457654--2457696 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2457644 AGAAATTCAA
2457654 AAATCTTGTGAATCTTTG
1 AAATCTTG-GAATCTTTG
*
2457672 AAATCTCAGGAATCTTTG
1 AAATCT-TGGAATCTTTG
*
2457690 AATTCTT
1 AAATCTT
2457697 ATAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (17 bp):
AAATCTTGGAATCTTTG
Found at i:2457696 original size:27 final size:26
Alignment explanation
Indices: 2457629--2457697 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
2457619 AAAATTTTGT
*
2457629 AAATCTTT-AGTTCTTAGAAATTCAA
1 AAATCTTTGAATTCTTAGAAATTCAA
* *
2457654 AAATCTTGTGAA-TCTTTGAAATCTCAG
1 AAATCTT-TGAATTCTTAGAAAT-TCAA
*
2457681 GAATCTTTGAATTCTTA
1 AAATCTTTGAATTCTTA
2457698 TAAAATTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 7 0.20
26 14 0.40
27 14 0.40
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (26 bp):
AAATCTTTGAATTCTTAGAAATTCAA
Found at i:2457814 original size:22 final size:22
Alignment explanation
Indices: 2457789--2457840 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
2457779 CAAGTCATTG
* *
2457789 AATTTCAATTTGTAAAC-CTTTA
1 AATTTCAAGTTGAAAACTC-TTA
*
2457811 AATTTCAAGTTGAAAATTCTTA
1 AATTTCAAGTTGAAAACTCTTA
2457833 AATTTCAA
1 AATTTCAA
2457841 ATTTCAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (22 bp):
AATTTCAAGTTGAAAACTCTTA
Found at i:2460288 original size:20 final size:20
Alignment explanation
Indices: 2460260--2460298 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2460250 AAAAAATCAT
2460260 AAACGAACATAAACAAACCA
1 AAACGAACATAAACAAACCA
* *
2460280 AAACTAACATAAATAAACC
1 AAACGAACATAAACAAACC
2460299 TTAAAATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.23, G:0.03, T:0.10
Consensus pattern (20 bp):
AAACGAACATAAACAAACCA
Found at i:2461043 original size:21 final size:21
Alignment explanation
Indices: 2461013--2461054 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2461003 TATTTGTATC
2461013 CGAGGCCAATCAAACCGTGTT
1 CGAGGCCAATCAAACCGTGTT
* * *
2461034 CGAGGTCAATCAGATCGTGTT
1 CGAGGCCAATCAAACCGTGTT
2461055 TTATTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
CGAGGCCAATCAAACCGTGTT
Found at i:2461070 original size:3 final size:3
Alignment explanation
Indices: 2461055--2461140 Score: 81
Period size: 3 Copynumber: 29.7 Consensus size: 3
2461045 AGATCGTGTT
* * *
2461055 TTA TTA TTT TTA TTA -TA TTA -TA GTA TTA TTA TCA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
2461100 GTA -TA TTG TATA GTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2461141 GTCATCATCA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
2 7 0.10
3 60 0.88
4 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2461105 original size:33 final size:36
Alignment explanation
Indices: 2461055--2461142 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 36
2461045 AGATCGTGTT
* *
2461055 TTATTATTTTTATTATA-T-TATAGTATTATTATCA
1 TTATTATTATTAGTATATTGTATAGTATTATTATCA
*
2461089 -TATTATTATTAGTATATTGTATAGTATTATTATTA
1 TTATTATTATTAGTATATTGTATAGTATTATTATCA
2461124 TTATTATTATTA-T-TATTGT
1 TTATTATTATTAGTATATTGT
2461143 CATCATCATC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 14 0.29
34 7 0.15
35 16 0.33
36 11 0.23
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (36 bp):
TTATTATTATTAGTATATTGTATAGTATTATTATCA
Found at i:2461123 original size:30 final size:31
Alignment explanation
Indices: 2461055--2461139 Score: 91
Period size: 33 Copynumber: 2.7 Consensus size: 31
2461045 AGATCGTGTT
* * *
2461055 TTATTATTTTTATTATATTATAGTATTATTA
1 TTATTATTATTAGTATATTATAGTAGTATTA
*
2461086 TCATATTATTATTAGTATATTGTA-TAGTATTA
1 T--TATTATTATTAGTATATTATAGTAGTATTA
*
2461118 TTATTATTATTATTATTATTAT
1 TTATTATTATTAGTA-TATTAT
2461140 TGTCATCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 13 0.29
31 6 0.13
32 8 0.18
33 18 0.40
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (31 bp):
TTATTATTATTAGTATATTATAGTAGTATTA
Found at i:2462083 original size:18 final size:18
Alignment explanation
Indices: 2462060--2462099 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
2462050 ATGGCAATTT
*
2462060 TTTTTC-ATTTCCATTTTA
1 TTTTTCAATTT-CATTTCA
2462078 TTTTTCAATTTCATTTCA
1 TTTTTCAATTTCATTTCA
2462096 TTTT
1 TTTT
2462100 ATTTTGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTCAATTTCATTTCA
Found at i:2462132 original size:19 final size:18
Alignment explanation
Indices: 2462095--2462137 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2462085 ATTTCATTTC
*
2462095 ATTTTATTTTGTTTATTA
1 ATTTTAATTTGTTTATTA
2462113 AGTTTTAATTT-TTTATTTA
1 A-TTTTAATTTGTTTA-TTA
2462132 ATTTTA
1 ATTTTA
2462138 CTAGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
ATTTTAATTTGTTTATTA
Found at i:2467577 original size:21 final size:22
Alignment explanation
Indices: 2467536--2467577 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2467526 AAAAACCAAA
* *
2467536 AAGAAAGAAAAGTCAACAAAAT
1 AAGAAAGAAAAGTAAAAAAAAT
2467558 AAGAAA-AAAAGTAAAAAAAA
1 AAGAAAGAAAAGTAAAAAAAA
2467578 GGTAAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.76, C:0.05, G:0.12, T:0.07
Consensus pattern (22 bp):
AAGAAAGAAAAGTAAAAAAAAT
Found at i:2467940 original size:13 final size:13
Alignment explanation
Indices: 2467918--2467957 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
2467908 AATGAGAATC
*
2467918 ATCACCAAAAAAA
1 ATCACAAAAAAAA
2467931 ATCACAAAAAAAAA
1 ATCAC-AAAAAAAA
2467945 ATCA-AAAAAAAA
1 ATCACAAAAAAAA
2467957 A
1 A
2467958 CTTGAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 9 0.36
13 5 0.20
14 11 0.44
ACGTcount: A:0.78, C:0.15, G:0.00, T:0.07
Consensus pattern (13 bp):
ATCACAAAAAAAA
Found at i:2467943 original size:14 final size:13
Alignment explanation
Indices: 2467924--2467957 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
2467914 AATCATCACC
2467924 AAAAAAAATCACAA
1 AAAAAAAATCA-AA
2467938 AAAAAAAATCAAA
1 AAAAAAAATCAAA
2467951 AAAAAAA
1 AAAAAAA
2467958 CTTGAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (13 bp):
AAAAAAAATCAAA
Found at i:2467957 original size:12 final size:13
Alignment explanation
Indices: 2467924--2467957 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
2467914 AATCATCACC
2467924 AAAAAAAATCACAA
1 AAAAAAAAT-ACAA
2467938 AAAAAAAAT-CAA
1 AAAAAAAATACAA
2467950 AAAAAAAA
1 AAAAAAAA
2467958 CTTGAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (13 bp):
AAAAAAAATACAA
Found at i:2468434 original size:8 final size:7
Alignment explanation
Indices: 2468417--2468465 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
2468407 TAAGTTTTGC
2468417 TTTTTAT
1 TTTTTAT
2468424 TTTTTAT
1 TTTTTAT
2468431 TTTTTATT
1 TTTTTA-T
*
2468439 TTTTTAG
1 TTTTTAT
* *
2468446 GTTTTAC
1 TTTTTAT
*
2468453 TTTTAAT
1 TTTTTAT
2468460 TTTTTA
1 TTTTTA
2468466 AAAAATTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:2469318 original size:26 final size:26
Alignment explanation
Indices: 2469288--2469337 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
2469278 TTTTGTTATG
** *
2469288 ATTAATTATGTTATTTTTATATTGCT
1 ATTAATTATGAAATATTTATATTGCT
2469314 ATTAATTATGAAATATTTATATTG
1 ATTAATTATGAAATATTTATATTG
2469338 TTGATTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (26 bp):
ATTAATTATGAAATATTTATATTGCT
Found at i:2473595 original size:9 final size:9
Alignment explanation
Indices: 2473581--2473628 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
2473571 AGCTTGAATT
2473581 TTTTTTTCA
1 TTTTTTTCA
2473590 TTTTTTTCAA
1 TTTTTTTC-A
**
2473600 TTTTTTCTTT
1 TTTTTT-TCA
2473610 TTGTTTTTCA
1 TT-TTTTTCA
2473620 TTTTTTTCA
1 TTTTTTTCA
2473629 AGCTCCAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 15 0.47
10 12 0.38
11 5 0.16
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:2473601 original size:21 final size:20
Alignment explanation
Indices: 2473577--2473626 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
2473567 ACCTAGCTTG
2473577 AATTTTTTTTTCATT-TTTTTC
1 AATTTTTTTTT--TTGTTTTTC
2473598 AATTTTTTCTTTTTGTTTTTC
1 AATTTTTT-TTTTTGTTTTTC
2473619 -ATTTTTTT
1 AATTTTTTT
2473627 CAAGCTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
21 14 0.52
22 3 0.11
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (20 bp):
AATTTTTTTTTTTGTTTTTC
Done.