Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 132 of 160
Found at i:24823243 original size:15 final size:15
Alignment explanation
Indices: 24823198--24823248 Score: 65
Period size: 13 Copynumber: 3.7 Consensus size: 15
24823188 ATATAATATT
24823198 TATACTTTAATATAA
1 TATACTTTAATATAA
*
24823213 TAT--TTTTATAT-A
1 TATACTTTAATATAA
24823225 -ATACTTTAATATAA
1 TATACTTTAATATAA
24823239 TATACTTTAA
1 TATACTTTAA
24823249 GTTAAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 2 0.07
12 1 0.03
13 14 0.47
14 1 0.03
15 12 0.40
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (15 bp):
TATACTTTAATATAA
Found at i:24824007 original size:20 final size:20
Alignment explanation
Indices: 24823982--24824020 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24823972 ATTTTTAAAC
24823982 AAAAATCAAATTAAAAGAGA
1 AAAAATCAAATTAAAAGAGA
* *
24824002 AAAAATTAAATTATAAGAG
1 AAAAATCAAATTAAAAGAG
24824021 TGATTTTGTA
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:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (20 bp):
AAAAATCAAATTAAAAGAGA
Found at i:24824696 original size:11 final size:11
Alignment explanation
Indices: 24824680--24824704 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24824670 TATTGATAAA
24824680 ATTAATAAATT
1 ATTAATAAATT
24824691 ATTAATAAATT
1 ATTAATAAATT
24824702 ATT
1 ATT
24824705 TTTATGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTAATAAATT
Found at i:24825402 original size:19 final size:19
Alignment explanation
Indices: 24825378--24825422 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24825368 AATTCACAAA
*
24825378 TTTAATTTAATTTTTA-TAT
1 TTTAATTT-ATTTTAATTAT
*
24825397 TTTAATATATTTTAATTAT
1 TTTAATTTATTTTAATTAT
24825416 TTTAATT
1 TTTAATT
24825423 AATAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTAATTTATTTTAATTAT
Found at i:24825405 original size:10 final size:10
Alignment explanation
Indices: 24825392--24825421 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24825382 ATTTAATTTT
24825392 TATATTTTAA
1 TATATTTTAA
24825402 TATATTTTAA
1 TATATTTTAA
24825412 T-TATTTTAA
1 TATATTTTAA
24825421 T
1 T
24825422 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:24825418 original size:9 final size:9
Alignment explanation
Indices: 24825394--24825423 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
24825384 TTAATTTTTA
24825394 TATTTTAAT
1 TATTTTAAT
24825403 ATATTTTAAT
1 -TATTTTAAT
24825413 TATTTTAAT
1 TATTTTAAT
24825422 TA
1 TA
24825424 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:24825628 original size:12 final size:12
Alignment explanation
Indices: 24825583--24825642 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
24825573 ATAAAAATTT
24825583 AATC-AATTT-A
1 AATCAAATTTAA
24825593 AATCAAATTTTGAA
1 AATCAAA-TTT-AA
* *
24825607 ACTTAAATTTAA
1 AATCAAATTTAA
24825619 AATCAAATTTAA
1 AATCAAATTTAA
* *
24825631 ACTTAAATTTAA
1 AATCAAATTTAA
24825643 TATTATATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
10 4 0.10
11 2 0.05
12 25 0.62
13 3 0.08
14 6 0.15
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (12 bp):
AATCAAATTTAA
Found at i:24825637 original size:24 final size:26
Alignment explanation
Indices: 24825587--24825642 Score: 91
Period size: 24 Copynumber: 2.3 Consensus size: 26
24825577 AAATTTAATC
24825587 AATTT-AAATCAAATTTTGAAACTTA
1 AATTTAAAATCAAATTTTGAAACTTA
24825612 AATTTAAAATCAAA-TTT-AAACTTA
1 AATTTAAAATCAAATTTTGAAACTTA
24825636 AATTTAA
1 AATTTAA
24825643 TATTATATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 14 0.47
25 8 0.27
26 8 0.27
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (26 bp):
AATTTAAAATCAAATTTTGAAACTTA
Found at i:24827235 original size:21 final size:21
Alignment explanation
Indices: 24827211--24827269 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
24827201 ACATGGCAAT
*
24827211 TGACAACGTTTTAGATGGAGC
1 TGACAACGTTTTAGATGGAAC
24827232 TGACAACGTTTTAGATGGAAC
1 TGACAACGTTTTAGATGGAAC
24827253 TGACAACGTTTTAGATG
1 TGACAACGTTTTAGATG
24827270 TAGAGAACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (21 bp):
TGACAACGTTTTAGATGGAAC
Found at i:24832438 original size:124 final size:124
Alignment explanation
Indices: 24832206--24832447 Score: 362
Period size: 124 Copynumber: 2.0 Consensus size: 124
24832196 AAGTCTCTAT
* * *
24832206 TTGAAGTCCGAACATAGACGTTTTCATATTGTTGTTTTTTTCTTTTCAAACCAACTGAAATTTCG
1 TTGAAGTCCAAACATAGACGTCTTCAAATTGTTGTTTTTTTCTTTTCAAACCAACTGAAATTTCG
* *
24832271 AGAGAAAGAAGGTAACAACGGAAAGCACGATAAGGGTCCATCTAAGAGTCTCTATGAAG
66 AGAGAAAGAAGGTAACAACGGAAAGCACCATAAGGGTCCATCTAAAAGTCTCTATGAAG
* *
24832330 TTGAAGTCCAAACATAGAGGTCTTCAAATTATT-TGTTTTTTCTTTTCAAACCAACTGAAATTTC
1 TTGAAGTCCAAACATAGACGTCTTCAAATTGTTGT-TTTTTTCTTTTCAAACCAACTGAAATTTC
* * *
24832394 GAGAGAAAGAAGTTAGCAAC-GAAAGCACCATAAGGTGTCTATCTAAAAGTCTCT
65 GAGAGAAAGAAGGTAACAACGGAAAGCACCATAAGG-GTCCATCTAAAAGTCTCT
24832448 GAAGAAATTT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
123 15 0.14
124 91 0.86
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (124 bp):
TTGAAGTCCAAACATAGACGTCTTCAAATTGTTGTTTTTTTCTTTTCAAACCAACTGAAATTTCG
AGAGAAAGAAGGTAACAACGGAAAGCACCATAAGGGTCCATCTAAAAGTCTCTATGAAG
Found at i:24838609 original size:13 final size:12
Alignment explanation
Indices: 24838593--24838630 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
24838583 TTAATAAAAA
*
24838593 TTTTTAATAATT
1 TTTTTTATAATT
24838605 TTTTTTAT-ATT
1 TTTTTTATAATT
24838616 TTTTCTTATAATT
1 TTTT-TTATAATT
24838629 TT
1 TT
24838631 AATTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 7 0.30
12 11 0.48
13 5 0.22
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:24838616 original size:11 final size:13
Alignment explanation
Indices: 24838599--24838630 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
24838589 AAAATTTTTA
24838599 ATAATTTTTT-TT
1 ATAATTTTTTCTT
24838611 AT-ATTTTTTCTT
1 ATAATTTTTTCTT
24838623 ATAATTTT
1 ATAATTTT
24838631 AATTTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.39
12 6 0.33
13 5 0.28
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
ATAATTTTTTCTT
Found at i:24838763 original size:34 final size:34
Alignment explanation
Indices: 24838697--24838777 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 34
24838687 TCATTTATGG
* * * *
24838697 TAAGTTATAAATTTTATAAAAATATATTTTCG-A
1 TAAGTTATAAAATTTACAAAAATACATATTCGAA
*
24838730 TAAGTTATAAAATTTACCAAAAATCCATATTCGAA
1 TAAGTTATAAAATTTA-CAAAAATACATATTCGAA
*
24838765 TATAGATATAAAA
1 TA-AGTTATAAAA
24838778 AATTCGTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
33 15 0.38
34 12 0.31
35 3 0.08
36 9 0.23
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.37
Consensus pattern (34 bp):
TAAGTTATAAAATTTACAAAAATACATATTCGAA
Found at i:24839112 original size:9 final size:9
Alignment explanation
Indices: 24839032--24839125 Score: 55
Period size: 9 Copynumber: 10.0 Consensus size: 9
24839022 ACAAAACTTC
*
24839032 AAAAAAAAT
1 AAAAAAATT
24839041 AAAAAAATT
1 AAAAAAATT
* *
24839050 CTAAAAATTT
1 -AAAAAAATT
**
24839060 TTAAAAATT
1 AAAAAAATT
24839069 ATAAAAGAATTT
1 A-AAAA-AA-TT
24839081 AAAAAAA-T
1 AAAAAAATT
*
24839089 AACAAAAGTT
1 AA-AAAAATT
*
24839099 CAAAAAATT
1 AAAAAAATT
*
24839108 AAAAAATTT
1 AAAAAAATT
*
24839117 AAAGAAATT
1 AAAAAAATT
24839126 CTAAAATTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
8 3 0.05
9 39 0.60
10 14 0.22
11 6 0.09
12 3 0.05
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAAAAATT
Found at i:24839125 original size:18 final size:17
Alignment explanation
Indices: 24839059--24839125 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 17
24839049 TCTAAAAATT
*
24839059 TTTAAAAATTATAAAAGAA
1 TTTAAAAAAT-TAAAA-AA
*
24839078 TTTAAAAAAATAACAAAA
1 TTTAAAAAATTAA-AAAA
*
24839096 GTTCAAAAAATTAAAAAA
1 -TTTAAAAAATTAAAAAA
24839114 TTTAAAGAAATT
1 TTTAAA-AAATT
24839126 CTAAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.12
18 14 0.35
19 21 0.52
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (17 bp):
TTTAAAAAATTAAAAAA
Found at i:24839153 original size:11 final size:10
Alignment explanation
Indices: 24839042--24839153 Score: 53
Period size: 10 Copynumber: 11.6 Consensus size: 10
24839032 AAAAAAAATA
24839042 AAAAAATTCT
1 AAAAAATTCT
*
24839052 -AAAAATTTT
1 AAAAAATTCT
* *
24839061 TAAAAATTAT
1 AAAAAATTCT
24839071 AAAAGAATT-T
1 AAAA-AATTCT
*
24839081 AAAAAA--AT
1 AAAAAATTCT
24839089 AACAAAAGTTC-
1 AA-AAAA-TTCT
24839100 AAAAAA-T-T
1 AAAAAATTCT
24839108 AAAAAATT-T
1 AAAAAATTCT
24839117 AAAGAAATTCT
1 AAA-AAATTCT
**
24839128 AAAATTTTTCT
1 AAAA-AATTCT
*
24839139 -AAAATTTCT
1 AAAAAATTCT
24839148 AAAAAA
1 AAAAAA
24839154 CTTTTTTAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
8 10 0.12
9 24 0.30
10 33 0.41
11 14 0.17
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:24839185 original size:19 final size:19
Alignment explanation
Indices: 24839161--24839205 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
24839151 AAACTTTTTT
24839161 AAAAAAATT-AAAAATTCA
1 AAAAAAATTGAAAAATTCA
*
24839179 AAAAAAATTGAAAACTTCA
1 AAAAAAATTGAAAAATTCA
24839198 AATAAAAA
1 AA-AAAAA
24839206 GTCTAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.38
19 10 0.42
20 5 0.21
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAAAATTGAAAAATTCA
Found at i:24839374 original size:17 final size:17
Alignment explanation
Indices: 24839341--24839388 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
24839331 CAAAAATAAT
*
24839341 TTTAAAAAACTTATAAAA
1 TTTAAAAAAATTA-AAAA
*
24839359 TTTTCAAAAAATTAAAAA
1 -TTTAAAAAAATTAAAAA
24839377 TTTAAAAAAATT
1 TTTAAAAAAATT
24839389 TCAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 11 0.42
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTAAAAAAATTAAAAA
Found at i:24839376 original size:40 final size:40
Alignment explanation
Indices: 24839300--24839377 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
24839290 TTATGAAATT
* * *
24839300 TTTTTAAAAATTCTAACAATTTTCAAATATTCAAAAATAA
1 TTTTAAAAAATTATAACAATTTTCAAAAATTCAAAAATAA
24839340 TTTTAAAAAACTTATAA-AATTTTCAAAAAATT-AAAAAT
1 TTTTAAAAAA-TTATAACAATTTTC-AAAAATTCAAAAAT
24839378 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 22 0.67
41 11 0.33
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (40 bp):
TTTTAAAAAATTATAACAATTTTCAAAAATTCAAAAATAA
Found at i:24839394 original size:18 final size:18
Alignment explanation
Indices: 24839338--24839394 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
24839328 ATTCAAAAAT
*
24839338 AATTTTAAAAAACTTATAA
1 AATTTTAAAAAAATT-TAA
*
24839357 AATTTTCAAAAAA-TTAA
1 AATTTTAAAAAAATTTAA
*
24839374 AAATTTAAAAAAATTTCAA
1 AATTTTAAAAAAATTT-AA
24839393 AA
1 AA
24839395 AAATTTAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 14 0.44
18 3 0.09
19 15 0.47
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTTTAAAAAAATTTAA
Found at i:24839396 original size:10 final size:9
Alignment explanation
Indices: 24839341--24839554 Score: 82
Period size: 9 Copynumber: 23.1 Consensus size: 9
24839331 CAAAAATAAT
24839341 TTTAAAAAA
1 TTTAAAAAA
* *
24839350 CTTATAAAAT
1 TTTA-AAAAA
24839360 TTTCAAAAAA
1 TTT-AAAAAA
24839370 -TT-AAAAA
1 TTTAAAAAA
24839377 TTTAAAAAAA
1 TTT-AAAAAA
24839387 TTTCAAAAAAA
1 TTT--AAAAAA
*
24839398 TTTAACAAA
1 TTTAAAAAA
* **
24839407 TTCTATAACT
1 TT-TAAAAAA
*
24839417 TTTAAAAAT
1 TTTAAAAAA
24839426 TTTAAAAAA
1 TTTAAAAAA
24839435 -TT--AAAA
1 TTTAAAAAA
*
24839441 TATAAAAAA
1 TTTAAAAAA
*
24839450 -TTATAAAA
1 TTTAAAAAA
24839458 TTATAAAAAA
1 TT-TAAAAAA
*
24839468 TTCAACAAAA
1 TTTAA-AAAA
*
24839478 TTCTAGAAAAT
1 TT-TA-AAAAA
*
24839489 TTTTAAAAA
1 TTTAAAAAA
*
24839498 TTCAAAAAGA
1 TTTAAAAA-A
* *
24839508 ATTAAGGAAA
1 TTTAA-AAAA
* **
24839518 CTTAAAATT
1 TTTAAAAAA
24839527 TTTCAAAAAA
1 TTT-AAAAAA
* *
24839537 -TTACAAAT
1 TTTAAAAAA
24839545 TTTAAAAAA
1 TTTAAAAAA
24839554 T
1 T
24839555 CCAAAAATTT
Statistics
Matches: 149, Mismatches: 37, Indels: 38
0.67 0.17 0.17
Matches are distributed among these distances:
6 4 0.03
7 6 0.04
8 14 0.09
9 54 0.36
10 51 0.34
11 19 0.13
12 1 0.01
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:24839430 original size:9 final size:9
Alignment explanation
Indices: 24839301--24839499 Score: 64
Period size: 10 Copynumber: 21.2 Consensus size: 9
24839291 TATGAAATTT
24839301 TTTTAAAAA
1 TTTTAAAAA
* *
24839310 TTCTAACAA
1 TTTTAAAAA
*
24839319 TTTTCAAATA
1 TTTT-AAAAA
**
24839329 TTCAAAAATAA
1 TT-TTAAA-AA
24839340 TTTTAAAAA
1 TTTTAAAAA
**
24839349 ACTTATAAAA
1 TTTTA-AAAA
24839359 TTTTCAAAAA
1 TTTT-AAAAA
*
24839369 -ATTAAAAA
1 TTTTAAAAA
*
24839377 TTTAAAAAAA
1 TTT-TAAAAA
*
24839387 TTTCAAAAAA
1 TTT-TAAAAA
*
24839397 ATTTAACAAA
1 TTTTAA-AAA
* * *
24839407 TTCTATAAC
1 TTTTAAAAA
24839416 TTTTAAAAA
1 TTTTAAAAA
24839425 TTTTAAAAA
1 TTTTAAAAA
*
24839434 -ATT-AAAA
1 TTTTAAAAA
* *
24839441 TATAAAAAA
1 TTTTAAAAA
*
24839450 TTAT-AAAA
1 TTTTAAAAA
*
24839458 TTATAAAAAA
1 TT-TTAAAAA
**
24839468 TTCAACAAAA
1 TTTTA-AAAA
*
24839478 TTCTAGAAAA
1 TTTTA-AAAA
24839488 TTTTTAAAAA
1 -TTTTAAAAA
24839498 TT
1 TT
24839500 CAAAAAGAAT
Statistics
Matches: 138, Mismatches: 38, Indels: 28
0.68 0.19 0.14
Matches are distributed among these distances:
7 4 0.03
8 15 0.11
9 46 0.33
10 65 0.47
11 8 0.06
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.36
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:24839759 original size:19 final size:19
Alignment explanation
Indices: 24839737--24839781 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
24839727 AACTTTTTGG
24839737 AATTCTTTTCT-ATTTTTAA
1 AATT-TTTTCTAATTTTTAA
*
24839756 AATTTTTTTTAATTTTTAA
1 AATTTTTTCTAATTTTTAA
24839775 AATTTTT
1 AATTTTT
24839782 AAAATTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTTCTAATTTTTAA
Found at i:24839762 original size:9 final size:9
Alignment explanation
Indices: 24839748--24839787 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
24839738 ATTCTTTTCT
24839748 ATTTTTAAA
1 ATTTTTAAA
**
24839757 ATTTTTTTTA
1 A-TTTTTAAA
24839767 ATTTTTAAA
1 ATTTTTAAA
24839776 ATTTTTAAA
1 ATTTTTAAA
24839785 ATT
1 ATT
24839788 ATGATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:24840062 original size:10 final size:10
Alignment explanation
Indices: 24840049--24840086 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
24840039 AGTTTTTAAG
24840049 ATTTTTTTGA
1 ATTTTTTTGA
24840059 ATTTTTTTGA
1 ATTTTTTTGA
*
24840069 ATTTTTTTAA
1 ATTTTTTTGA
24840079 ATTTTTTT
1 ATTTTTTT
24840087 TAGAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (10 bp):
ATTTTTTTGA
Found at i:24840086 original size:20 final size:20
Alignment explanation
Indices: 24840014--24840086 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
24840004 TTTTCAAAAC
24840014 TTTAGAATTATTTTT-AATTTT
1 TTTA-AATT-TTTTTGAATTTT
* * **
24840035 TATAAGTTTTTAAG-ATTTT
1 TTTAAATTTTTTTGAATTTT
*
24840054 TTTGAATTTTTTTGAATTTT
1 TTTAAATTTTTTTGAATTTT
24840074 TTTAAATTTTTTT
1 TTTAAATTTTTTT
24840087 TAGAAATTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
19 17 0.43
20 20 0.50
21 3 0.08
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTAAATTTTTTTGAATTTT
Found at i:24840389 original size:26 final size:26
Alignment explanation
Indices: 24840337--24840390 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 26
24840327 TAACAATTTG
24840337 AAAATTTAGGTATCAATGTGATAAAA
1 AAAATTTAGGTATCAATGTGATAAAA
24840363 AAAATTTTAGGTATCAATGTGATAAAA
1 AAAA-TTTAGGTATCAATGTGATAAAA
24840390 A
1 A
24840391 TTATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (26 bp):
AAAATTTAGGTATCAATGTGATAAAA
Found at i:24840695 original size:45 final size:44
Alignment explanation
Indices: 24840639--24840727 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
24840629 TCATATAAAA
*
24840639 TATTCAAATTTGTGTATTATTG-TCATATTTCACAAAAAAAATTGT
1 TATTCAAATTTGTGAATTATTGTTC-TATTTCAC-AAAAAAATTGT
* *
24840684 TATTCAAATTTGTGAATTATTGTTCTATTTTACAGAAAAATTGT
1 TATTCAAATTTGTGAATTATTGTTCTATTTCACAAAAAAATTGT
24840728 GTATCACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 10 0.25
45 28 0.70
46 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (44 bp):
TATTCAAATTTGTGAATTATTGTTCTATTTCACAAAAAAATTGT
Found at i:24841026 original size:20 final size:21
Alignment explanation
Indices: 24840992--24841031 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
24840982 CATTTATAAG
24840992 TGATAGTTTTATATAAAATTT
1 TGATAGTTTTATATAAAATTT
* *
24841013 TGAT-GTTTTTTATATAATT
1 TGATAGTTTTATATAAAATT
24841032 CTGAATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TGATAGTTTTATATAAAATTT
Found at i:24841776 original size:24 final size:25
Alignment explanation
Indices: 24841729--24841777 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
24841719 AAATAAACCT
* *
24841729 AAAATCATTCTAATTTGATGATAAA
1 AAAATCATGCTAATTTAATGATAAA
24841754 AAAATCATGCTAATTTAAT-ATAAA
1 AAAATCATGCTAATTTAATGATAAA
24841778 TATATAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (25 bp):
AAAATCATGCTAATTTAATGATAAA
Found at i:24843813 original size:5 final size:5
Alignment explanation
Indices: 24843803--24843828 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24843793 AGCTTGATAA
24843803 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
24843829 GAGATAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:24844569 original size:19 final size:19
Alignment explanation
Indices: 24844545--24844585 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
24844535 ATATCATTAT
24844545 TTGTTGTTGGATCGATTTC
1 TTGTTGTTGGATCGATTTC
*
24844564 TTGTTGTTGGATCGGTTTC
1 TTGTTGTTGGATCGATTTC
24844583 TTG
1 TTG
24844586 CTACGATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.07, C:0.10, G:0.29, T:0.54
Consensus pattern (19 bp):
TTGTTGTTGGATCGATTTC
Found at i:24844695 original size:16 final size:16
Alignment explanation
Indices: 24844674--24844711 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
24844664 CTCAGCAAGT
*
24844674 AAGTTTATTGTAGTTG
1 AAGTTTATTCTAGTTG
24844690 AAGTTTATTCTAGTTG
1 AAGTTTATTCTAGTTG
24844706 AAGTTT
1 AAGTTT
24844712 TTGCTTCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (16 bp):
AAGTTTATTCTAGTTG
Found at i:24846874 original size:35 final size:35
Alignment explanation
Indices: 24846806--24846888 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 35
24846796 TCATTTATGG
* * *
24846806 TAAGTTATAAAATTTTATAAAAATATATTTTCG-A
1 TAAGTTATAAAATTTTACAAAAATACATATTCGAA
*
24846840 TAAGTTATAAAATTTTACCAAAAATCCATATTCGAA
1 TAAGTTATAAAATTTTA-CAAAAATACATATTCGAA
*
24846876 TATAGATATAAAA
1 TA-AGTTATAAAA
24846889 AAATCGTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 17 0.41
35 12 0.29
36 3 0.07
37 9 0.22
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.37
Consensus pattern (35 bp):
TAAGTTATAAAATTTTACAAAAATACATATTCGAA
Found at i:24847227 original size:19 final size:19
Alignment explanation
Indices: 24847174--24847227 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
24847164 AAAATTTTTT
*
24847174 AAAAATTATAAAAGAATTTCA
1 AAAAATTA-AAAA-AAGTTCA
* *
24847195 AAAAAATAACAAAAGTTCA
1 AAAAATTAAAAAAAGTTCA
24847214 AAAAATTAAAAAAA
1 AAAAATTAAAAAAA
24847228 TTTAAAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 18 0.64
20 3 0.11
21 7 0.25
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (19 bp):
AAAAATTAAAAAAAGTTCA
Found at i:24847238 original size:19 final size:18
Alignment explanation
Indices: 24847174--24847239 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
24847164 AAAATTTTTT
24847174 AAAAATTATAAAAGAATTTCA
1 AAAAATTA-AAAA-AATTT-A
* * *
24847195 AAAAAATAACAAAAGTTCA
1 AAAAATTAA-AAAAATTTA
24847214 AAAAATTAAAAAAATTTA
1 AAAAATTAAAAAAATTTA
24847232 AAGAAATT
1 AA-AAATT
24847240 CTAAAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 9 0.24
19 14 0.38
20 4 0.11
21 10 0.27
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAAATTAAAAAAATTTA
Found at i:24847244 original size:11 final size:10
Alignment explanation
Indices: 24847174--24847245 Score: 51
Period size: 10 Copynumber: 7.2 Consensus size: 10
24847164 AAAATTTTTT
24847174 AAAAATTATAA
1 AAAAATT-TAA
*
24847185 AAGAATTTCAA
1 AAAAATTT-AA
24847196 AAAAA--TAA
1 AAAAATTTAA
* * *
24847204 CAAAAGTTCA
1 AAAAATTTAA
24847214 AAAAA-TTAA
1 AAAAATTTAA
24847223 AAAAATTTAA
1 AAAAATTTAA
*
24847233 AGAAATTCTAA
1 AAAAATT-TAA
24847244 AA
1 AA
24847246 TTTTTCTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 6 0.12
9 9 0.19
10 17 0.35
11 16 0.33
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:24847298 original size:18 final size:18
Alignment explanation
Indices: 24847277--24847340 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
24847267 AACTTTTTTT
24847277 AAAAAAATTAAAAATTCA
1 AAAAAAATTAAAAATTCA
*
24847295 AAAAAAATTGAAAACTTCA
1 AAAAAAATT-AAAAATTCA
*
24847314 AATAAAAAGTCTAAGAAATTCT
1 AA-AAAAA-T-TAA-AAATTCA
24847336 AAAAA
1 AAAAA
24847341 TTTTTCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.24
19 10 0.26
20 5 0.13
21 6 0.16
22 8 0.21
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAAAATTAAAAATTCA
Found at i:24847301 original size:19 final size:19
Alignment explanation
Indices: 24847277--24847340 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 19
24847267 AACTTTTTTT
24847277 AAAAAAATTAAAAATTC-A
1 AAAAAAATTAAAAATTCAA
*
24847295 AAAAAAATTGAAAACTTCAA
1 AAAAAAATT-AAAAATTCAA
*
24847315 ATAAAAAGTCTAAGAAATTCTAA
1 A-AAAAAAT-TAA-AAATTC-AA
24847338 AAA
1 AAA
24847341 TTTTTCAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 9 0.24
19 7 0.19
20 2 0.05
21 8 0.22
22 8 0.22
23 3 0.08
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAAAATTAAAAATTCAA
Found at i:24847478 original size:19 final size:17
Alignment explanation
Indices: 24847454--24847683 Score: 79
Period size: 18 Copynumber: 12.5 Consensus size: 17
24847444 AGTCAAAAAT
24847454 AATTTTAAAAAACTTATAA
1 AATTTTAAAAAA-TTA-AA
24847473 AATTTTCAAAAAATTAAA
1 AATTTT-AAAAAATTAAA
24847491 AA-TTTAAAAAATTTTGAAAA
1 AATTTTAAAAAA--TT--AAA
* * *
24847511 AAATTTAACAAATTCTATA
1 AATTTTAA-AAAAT-TAAA
* *
24847530 ACTTTTAAAAATTTTAAA
1 AATTTTAAAAA-ATTAAA
* * *
24847548 AA-ATTAAAATATAAAA
1 AATTTTAAAAAATTAAA
* *
24847564 AATTAT-AAAATTATAAA
1 AATTTTAAAAAAT-TAAA
* *
24847581 AAATTCAACAAAATTCTAGAA
1 AATTTTAA-AAAA-T-TA-AA
*
24847602 AATTTTTAAAAATTCAAA
1 AATTTTAAAAAATT-AAA
** *
24847620 AAGAATTAAGGAAACTTAAA
1 AA-TTTTAA--AAAATTAAA
* *
24847640 ATTTTTCAAAAAATTACA
1 AATTTT-AAAAAATTAAA
*
24847658 AATTTTAAAAAATCCAAA
1 AATTTTAAAAAAT-TAAA
24847676 AATTTTAA
1 AATTTTAA
24847684 GAGTTTTTTT
Statistics
Matches: 155, Mismatches: 35, Indels: 43
0.67 0.15 0.18
Matches are distributed among these distances:
16 16 0.10
17 23 0.15
18 41 0.26
19 29 0.19
20 25 0.16
21 18 0.12
22 3 0.02
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (17 bp):
AATTTTAAAAAATTAAA
Found at i:24847492 original size:40 final size:40
Alignment explanation
Indices: 24847416--24847493 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
24847406 TTATGAAAAT
* * * *
24847416 TTTTTAAAAATTCTAACAATTTTCAAATAGTCAAAAATAA
1 TTTTAAAAAATTATAACAATTTTCAAAAAATCAAAAATAA
*
24847456 TTTTAAAAAACTTATAA-AATTTTCAAAAAATTAAAAAT
1 TTTTAAAAAA-TTATAACAATTTTCAAAAAATCAAAAAT
24847494 TTAAAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 27 0.84
41 5 0.16
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (40 bp):
TTTTAAAAAATTATAACAATTTTCAAAAAATCAAAAATAA
Found at i:24847546 original size:9 final size:9
Alignment explanation
Indices: 24847454--24847615 Score: 71
Period size: 9 Copynumber: 17.4 Consensus size: 9
24847444 AGTCAAAAAT
24847454 AATTTTAAA
1 AATTTTAAA
**
24847463 AAACTTATAA
1 AATTTTA-AA
24847473 AATTTTCAAA
1 AATTTT-AAA
*
24847483 AA-ATTAAA
1 AATTTTAAA
*
24847491 AATTTAAAA
1 AATTTTAAA
24847500 AATTTTGAAAA
1 AATTTT--AAA
*
24847511 AAATTTAACA
1 AATTTTAA-A
* *
24847521 AATTCTATA
1 AATTTTAAA
*
24847530 ACTTTTAAA
1 AATTTTAAA
24847539 AATTTTAAA
1 AATTTTAAA
*
24847548 AA-ATT-AA
1 AATTTTAAA
* *
24847555 AATATAAAA
1 AATTTTAAA
*
24847564 AATTAT-AA
1 AATTTTAAA
*
24847572 AATTATAAAA
1 AATT-TTAAA
**
24847582 AATTCAACAA
1 AATTTTA-AA
*
24847592 AATTCTAGAA
1 AATTTTA-AA
24847602 AATTTTTAAA
1 AA-TTTTAAA
24847612 AATT
1 AATT
24847616 CAAAAAGAAT
Statistics
Matches: 114, Mismatches: 27, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
7 4 0.04
8 15 0.13
9 44 0.39
10 38 0.33
11 13 0.11
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (9 bp):
AATTTTAAA
Found at i:24847593 original size:20 final size:18
Alignment explanation
Indices: 24847537--24847605 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 18
24847527 ATAACTTTTA
*
24847537 AAAATTTTAAAAAATT--
1 AAAATTATAAAAAATTAC
*
24847553 AAAA-TATAAAAAATTAT
1 AAAATTATAAAAAATTAC
24847570 AAAATTATAAAAAATTCAAC
1 AAAATTATAAAAAATT--AC
* *
24847590 AAAATTCTAGAAAATT
1 AAAATTATAAAAAATT
24847606 TTTAAAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
15 10 0.23
16 4 0.09
17 4 0.09
18 11 0.25
20 15 0.34
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAATTATAAAAAATTAC
Found at i:24847980 original size:9 final size:9
Alignment explanation
Indices: 24847940--24847980 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
24847930 AATATTTCTT
24847940 ATTTTT-AA
1 ATTTTTAAA
*
24847948 TTTTTTATAA
1 ATTTTTA-AA
24847958 A-TTTTAAA
1 ATTTTTAAA
24847966 ATTTTTAAA
1 ATTTTTAAA
24847975 ATTTTT
1 ATTTTT
24847981 TGTATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 8 0.29
9 18 0.64
10 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:24848179 original size:9 final size:10
Alignment explanation
Indices: 24848129--24848193 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
24848119 TTTTCAAAAC
24848129 TTTAGAATTATT
1 TTTA-AATT-TT
24848141 TTT-AATTTT
1 TTTAAATTTT
* *
24848150 TAT-AAGTTT
1 TTTAAATTTT
*
24848159 TTAAAGATTTT
1 TTTAA-ATTTT
*
24848170 TTTGAATTTT
1 TTTAAATTTT
24848180 TTTAAATTTT
1 TTTAAATTTT
24848190 TTTA
1 TTTA
24848194 GAAAATTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 10 0.23
10 23 0.53
11 7 0.16
12 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:24848202 original size:22 final size:21
Alignment explanation
Indices: 24848156--24848205 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
24848146 TTTTTATAAG
*
24848156 TTTTTAAAGATTTTTTTGAAT
1 TTTTTAAAGATTTTTTTGAAA
*
24848177 TTTTTTAA-ATTTTTTTAGAAA
1 TTTTTAAAGATTTTTTT-GAAA
*
24848198 ATTTTAAA
1 TTTTTAAA
24848206 ATGTTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (21 bp):
TTTTTAAAGATTTTTTTGAAA
Found at i:24848252 original size:20 final size:18
Alignment explanation
Indices: 24848227--24848266 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
24848217 TGTTAAAAAA
24848227 TTAAAATAATATATAATATT
1 TTAAAAT-AT-TATAATATT
*
24848247 TTAAAATATTTTAATATT
1 TTAAAATATTATAATATT
24848265 TT
1 TT
24848267 TGAGAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 2 0.11
20 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAAATATTATAATATT
Found at i:24848478 original size:26 final size:27
Alignment explanation
Indices: 24848449--24848503 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
24848439 TAACAATTTG
24848449 AAAAA-TTAGGTATCAATGTGATAAAA
1 AAAAATTTAGGTATCAATGTGATAAAA
24848475 AAAAATTTTAGGTATCAATGTGATAAAA
1 AAAAA-TTTAGGTATCAATGTGATAAAA
24848503 A
1 A
24848504 TTATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 5 0.19
28 22 0.81
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.29
Consensus pattern (27 bp):
AAAAATTTAGGTATCAATGTGATAAAA
Found at i:24851510 original size:12 final size:12
Alignment explanation
Indices: 24851490--24851533 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
24851480 AGTATTTTAC
24851490 TTATAATAATAA
1 TTATAATAATAA
*
24851502 TTATTATAAT-A
1 TTATAATAATAA
24851513 TTATAATTAATCAA
1 TTATAA-TAAT-AA
24851527 TTATAAT
1 TTATAAT
24851534 TAAAAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 6 0.22
12 13 0.48
13 1 0.04
14 7 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
TTATAATAATAA
Found at i:24853238 original size:30 final size:30
Alignment explanation
Indices: 24853193--24853263 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
24853183 TAGTCTTTTT
*
24853193 AAAAAA-TTTACGTAAGACATTAAAAATTC
1 AAAAAATTTTATGTAAGACATTAAAAATTC
** ** *
24853222 AAGTAATTTTATGTAAGATTTTGAAAATTC
1 AAAAAATTTTATGTAAGACATTAAAAATTC
24853252 AAAAAATTTTAT
1 AAAAAATTTTAT
24853264 CTTAAATCTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (30 bp):
AAAAAATTTTATGTAAGACATTAAAAATTC
Found at i:24856156 original size:14 final size:14
Alignment explanation
Indices: 24856137--24856163 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24856127 TGCAGGCACG
24856137 TGGTAATTTACAAT
1 TGGTAATTTACAAT
24856151 TGGTAATTTACAA
1 TGGTAATTTACAA
24856164 ATTCAGTGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (14 bp):
TGGTAATTTACAAT
Found at i:24859520 original size:21 final size:21
Alignment explanation
Indices: 24859496--24859537 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24859486 AGCATTTCAC
*
24859496 TTATAACTTTTT-ATTGTAATA
1 TTATAA-TTTTTAATTATAATA
24859517 TTATAATTTTTAATTATAATA
1 TTATAATTTTTAATTATAATA
24859538 AAGAATCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATAATTTTTAATTATAATA
Found at i:24865414 original size:2 final size:2
Alignment explanation
Indices: 24865407--24865446 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
24865397 AAGAACAACA
*
24865407 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24865447 ATTTGATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24868773 original size:19 final size:19
Alignment explanation
Indices: 24868745--24868786 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24868735 ACCAGCCATG
*
24868745 ATAACCTAATATGCATTTA
1 ATAACCTAATATACATTTA
* *
24868764 ATAACTTAATATACATTTG
1 ATAACCTAATATACATTTA
24868783 ATAA
1 ATAA
24868787 TTCCTTCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (19 bp):
ATAACCTAATATACATTTA
Found at i:24869512 original size:28 final size:28
Alignment explanation
Indices: 24869449--24869512 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
24869439 TCAATAGAAC
24869449 CCTCAAACATCTACTTTAATCCAATTAAT
1 CCTCAAACATCTAC-TTAATCCAATTAAT
*
24869478 CTCTCAAACATCTA-TTCA-CCTAATTGAAT
1 C-CTCAAACATCTACTTAATCC-AATT-AAT
24869507 CCTCAA
1 CCTCAA
24869513 TTGAACAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
27 2 0.06
28 12 0.39
29 5 0.16
30 12 0.39
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.33
Consensus pattern (28 bp):
CCTCAAACATCTACTTAATCCAATTAAT
Found at i:24871866 original size:2 final size:2
Alignment explanation
Indices: 24871849--24871887 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
24871839 TAAGAAAACA
* *
24871849 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24871888 ATAAATACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:24875588 original size:30 final size:32
Alignment explanation
Indices: 24875552--24875621 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
24875542 CAAAATTAAT
* * *
24875552 AAAATATTATTTTTTAAATATA-A-ATATTTA
1 AAAATATTATTATATAAATATATATATAATTA
*
24875582 AAAATATCATTATATAAATATATATATAATTA
1 AAAATATTATTATATAAATATATATATAATTA
24875614 AAAA-ATTA
1 AAAATATTA
24875622 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 19 0.58
31 4 0.12
32 10 0.30
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AAAATATTATTATATAAATATATATATAATTA
Found at i:24875634 original size:12 final size:12
Alignment explanation
Indices: 24875617--24875641 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24875607 ATAATTAAAA
24875617 AATTAAAAAATT
1 AATTAAAAAATT
24875629 AATTAAAAAATT
1 AATTAAAAAATT
24875641 A
1 A
24875642 TTTTTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAAAAAATT
Found at i:24880961 original size:37 final size:35
Alignment explanation
Indices: 24880911--24881018 Score: 110
Period size: 37 Copynumber: 3.0 Consensus size: 35
24880901 AATGTGGAAT
* *
24880911 GAGATATGAATACAAATTACTTATCCATATTAGAGAA-
1 GAGATATGAATACAAATTA-TTATCCA-AATA-AAAAG
* *
24880948 GAGATATAAATACAAATGATTATCCAAATAAAAAG
1 GAGATATGAATACAAATTATTATCCAAATAAAAAG
* *
24880983 GAGATATGAATATAAATTAGTTATCCGAAAAAAAAA
1 GAGATATGAATACAAATTA-TTATCC-AAATAAAAA
24881019 TGAATACAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
34 3 0.05
35 19 0.32
36 13 0.22
37 25 0.42
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (35 bp):
GAGATATGAATACAAATTATTATCCAAATAAAAAG
Found at i:24882757 original size:19 final size:19
Alignment explanation
Indices: 24882733--24882771 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24882723 AACTAAATCT
24882733 AACCAAG-TCAAGCCAAGCC
1 AACCAAGCT-AAGCCAAGCC
*
24882752 AACCAAGCTAAGTCAAGCC
1 AACCAAGCTAAGCCAAGCC
24882771 A
1 A
24882772 TTGATTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.44, C:0.33, G:0.15, T:0.08
Consensus pattern (19 bp):
AACCAAGCTAAGCCAAGCC
Found at i:24883754 original size:47 final size:47
Alignment explanation
Indices: 24883685--24883778 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
24883675 CCGTTTATAG
24883685 CAAATCCGAGGTATCATATGAATTGAAAAGTATATATGTGCATTCAT
1 CAAATCCGAGGTATCATATGAATTGAAAAGTATATATGTGCATTCAT
24883732 CAAATCCGAGGTATCATATGAATTGAAAAGTATATATGTGCATTCAT
1 CAAATCCGAGGTATCATATGAATTGAAAAGTATATATGTGCATTCAT
24883779 TTTAGTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (47 bp):
CAAATCCGAGGTATCATATGAATTGAAAAGTATATATGTGCATTCAT
Found at i:24884468 original size:8 final size:8
Alignment explanation
Indices: 24884452--24884490 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
24884442 AATTAATCAG
24884452 AAATCATAT
1 AAAT-ATAT
24884461 AAATATAT
1 AAATATAT
24884469 AAATATAT
1 AAATATAT
*
24884477 ATATATAT
1 AAATATAT
*
24884485 ATATAT
1 AAATAT
24884491 TACAATGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 25 0.86
9 4 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (8 bp):
AAATATAT
Found at i:24884476 original size:2 final size:2
Alignment explanation
Indices: 24884457--24884490 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
24884447 ATCAGAAATC
* *
24884457 AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24884491 TACAATGTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:24885332 original size:20 final size:20
Alignment explanation
Indices: 24885307--24885346 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24885297 TATATTTATA
24885307 TATTTAATAA-ATTAATTTTT
1 TATTTAATAACA-TAATTTTT
24885327 TATTTAATAACATAATTTTT
1 TATTTAATAACATAATTTTT
24885347 AAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTAATAACATAATTTTT
Found at i:24885687 original size:20 final size:20
Alignment explanation
Indices: 24885642--24885688 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
24885632 GTTTTTGTTT
24885642 AATAAAAAGTAAATGAAAAA
1 AATAAAAAGTAAATGAAAAA
* *
24885662 GAA-AAAGATTAAAT-AAAAA
1 -AATAAAAAGTAAATGAAAAA
24885681 AATAAAAA
1 AATAAAAA
24885689 TTTGTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.09
19 9 0.41
20 9 0.41
21 2 0.09
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.15
Consensus pattern (20 bp):
AATAAAAAGTAAATGAAAAA
Found at i:24886705 original size:23 final size:23
Alignment explanation
Indices: 24886661--24886705 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
24886651 CTAAAATTTA
* * * *
24886661 AAAATGTCTTAAAATTTCAAAAG
1 AAAATATCTAAAAAATTAAAAAG
24886684 AAAATATCTAAAAAATTAAAAA
1 AAAATATCTAAAAAATTAAAAA
24886706 ATAATCCAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (23 bp):
AAAATATCTAAAAAATTAAAAAG
Found at i:24887055 original size:40 final size:41
Alignment explanation
Indices: 24886968--24887069 Score: 111
Period size: 40 Copynumber: 2.5 Consensus size: 41
24886958 ATAAAATTTC
* *
24886968 TAAATTTCTAAAATATTAAATTTAATTTTTTTTCAAACACTT
1 TAAATTTCTAAAATATTAAATTTAATATTTTTTCAAA-AATT
*
24887010 T-AATTT-TAGAATATTAAATTTAATATTTTTT-AAAAATT
1 TAAATTTCTAAAATATTAAATTTAATATTTTTTCAAAAATT
* *
24887048 TAAAATTTACAAAAAAATTAAA
1 T-AAATTT-CTAAAATATTAAA
24887070 ATATTTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
38 4 0.08
39 3 0.06
40 28 0.56
41 5 0.10
42 10 0.20
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (41 bp):
TAAATTTCTAAAATATTAAATTTAATATTTTTTCAAAAATT
Found at i:24892123 original size:64 final size:63
Alignment explanation
Indices: 24891968--24892170 Score: 198
Period size: 64 Copynumber: 3.3 Consensus size: 63
24891958 TTTTTTTCCT
* * * * * *
24891968 AAAACGCCTTCAATAATCCCTTATAAAAAATTAAAAGGGATTACTGAAGGTGTTTTTTG-CAG
1 AAAACGCCTTCAATAATCTCTTTTAAAAAATTGAAAGGGATTATTGAAGGTATTTTTTGTCAA
** * ** * * *
24892030 AAAATACCTTCAATAATTTTCTCTAAAAAAAATTGAAAGGGATTATTGAATGCATTTTTGGTCAA
1 AAAACGCCTTCAATAA-TCTCT-TTTAAAAAATTGAAAGGGATTATTGAAGGTATTTTTTGTCAA
* * *
24892095 AAAACGCCATCAATAATCTCTTTTAAAAAATTG-GA-GGATTATTGAAGGTATTTTTTGTC-C
1 AAAACGCCTTCAATAATCTCTTTTAAAAAATTGAAAGGGATTATTGAAGGTATTTTTTGTCAA
*
24892155 AAAACACCTTCAATAA
1 AAAACGCCTTCAATAA
24892171 ATATCTTTGT
Statistics
Matches: 113, Mismatches: 25, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
60 14 0.12
61 21 0.19
62 15 0.13
63 13 0.12
64 35 0.31
65 15 0.13
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (63 bp):
AAAACGCCTTCAATAATCTCTTTTAAAAAATTGAAAGGGATTATTGAAGGTATTTTTTGTCAA
Found at i:24892713 original size:64 final size:63
Alignment explanation
Indices: 24892594--24892714 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
24892584 TATTCAAGGC
* * * **
24892594 ATTTTTTTACCTGAAATGCCTTCAATAATCCCTTATAAAAATTTGGAAGGGATTATTAAATGT
1 ATTTTTTTACCAGAAATACCTTCAATAATCCCTTATAAAAAATTACAAGGGATTATTAAATGT
24892657 ATTTTTTTA-CAGAAAATACCTTCAATAATCTCCTCTA-AAAAAATTACAAGGGATTATT
1 ATTTTTTTACCAG-AAATACCTTCAATAATC-CCT-TATAAAAAATTACAAGGGATTATT
24892715 GAAGGCGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
62 2 0.04
63 25 0.50
64 21 0.42
65 2 0.04
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (63 bp):
ATTTTTTTACCAGAAATACCTTCAATAATCCCTTATAAAAAATTACAAGGGATTATTAAATGT
Found at i:24892726 original size:64 final size:64
Alignment explanation
Indices: 24892581--24892751 Score: 181
Period size: 64 Copynumber: 2.7 Consensus size: 64
24892571 TTTATGAATA
* * * **
24892581 GATTATTCAAGGCATTTTTTTACCTG-AAATGCCTTCAATAATC-CCTTATAAAAATTTGGAAGG
1 GATTATTAAAGGCATTTTTTTA-CAGAAAATGCCTTCAATAATCTCCTTATAAAAAATTACAAGG
* * *
24892644 GATTATTAAATGTATTTTTTTACAGAAAATACCTTCAATAATCTCCTCTA-AAAAAATTACAAGG
1 GATTATTAAAGGCATTTTTTTACAGAAAATGCCTTCAATAATCTCCT-TATAAAAAATTACAAGG
* *
24892708 GATTATTGAAGGCGTTTTTTGGT-CA-AAAATGCCTTCAATAATCT
1 GATTATTAAAGGCATTTTTT--TACAGAAAATGCCTTCAATAATCT
24892752 TCTCATATAA
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
62 2 0.02
63 35 0.39
64 48 0.53
65 4 0.04
66 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (64 bp):
GATTATTAAAGGCATTTTTTTACAGAAAATGCCTTCAATAATCTCCTTATAAAAAATTACAAGG
Found at i:24892947 original size:24 final size:23
Alignment explanation
Indices: 24892892--24892945 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
24892882 TTTTCTTTTG
24892892 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
24892915 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
24892941 TATTT
1 TATTT
24892946 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:24893004 original size:3 final size:3
Alignment explanation
Indices: 24892996--24893021 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24892986 AGTTATATAT
24892996 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
24893022 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24893616 original size:20 final size:20
Alignment explanation
Indices: 24893593--24893636 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
24893583 TGCCCAGTTT
*
24893593 CCGGCGAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
24893613 CCGGCAAAGAATCCCAGAAA
1 CCGGCAAAGAATCCCAGAAA
24893633 CCGG
1 CCGG
24893637 TGAATTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.32, G:0.25, T:0.05
Consensus pattern (20 bp):
CCGGCAAAGAATCCCAGAAA
Found at i:24893671 original size:62 final size:63
Alignment explanation
Indices: 24893591--24893708 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 63
24893581 ACTGCCCAGT
* *
24893591 TTCCGGCGAAGAATCCCAGAAACCGGC-AAAGAATCCCAGAAACCGGTGAAT-TTCCGGCCAAC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAA-AATCCCAGAAACCGGTGAATCTTCCGGCCAAC
** * * *
24893653 TTCCGGCGAAAAAACCCAGATTCCGGCGAAAATTTCCAGAATCCGGTGAATCTTCC
1 TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCC
24893709 ACCGGAGTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
62 40 0.85
63 7 0.15
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (63 bp):
TTCCGGCGAAAAAACCCAGAAACCGGCGAAAAATCCCAGAAACCGGTGAATCTTCCGGCCAAC
Found at i:24893697 original size:20 final size:20
Alignment explanation
Indices: 24893654--24893698 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
24893644 CCGGCCAACT
*
24893654 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
24893674 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
24893694 TCCGG
1 TCCGG
24893699 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:24893964 original size:14 final size:15
Alignment explanation
Indices: 24893945--24893986 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
24893935 CCGAGCCGAG
24893945 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
24893959 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
24893972 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
24893986 C
1 C
24893987 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:24893977 original size:13 final size:14
Alignment explanation
Indices: 24893945--24893981 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
24893935 CCGAGCCGAG
24893945 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
24893959 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
24893971 TCCGAGCCGTT
1 -CCGAGCCGTT
24893982 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:24894063 original size:13 final size:13
Alignment explanation
Indices: 24894047--24894080 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
24894037 TTTTTTTTTT
24894047 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
24894060 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
24894073 TTTTTTTT
1 TTTTTTTT
24894081 ATTTGACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:24894398 original size:152 final size:152
Alignment explanation
Indices: 24894110--24894559 Score: 812
Period size: 152 Copynumber: 3.0 Consensus size: 152
24894100 CTTGATTTTT
* * *
24894110 TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
24894175 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
24894240 TTTCCAATAATTAATTGGATGA
131 TTTCCAATAATTAATTGGATGA
24894262 TTTTGTATTTTT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGT-TTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
*
24894326 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATA
65 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
24894391 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAATAATTAATTGGATGA
*
24894414 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
24894479 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
24894544 TTTCCAACAACTAATT
131 TTTCCAATAATTAATT
24894560 ACTTGGTAAA
Statistics
Matches: 287, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
151 5 0.02
152 277 0.97
153 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (152 bp):
TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAATAATTAATTGGATGA
Found at i:24898240 original size:9 final size:9
Alignment explanation
Indices: 24898226--24898260 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
24898216 AAGATGATGA
24898226 AAAAAAAAG
1 AAAAAAAAG
24898235 AAAAAAAAAG
1 -AAAAAAAAG
24898245 AAAAAAAAG
1 AAAAAAAAG
*
24898254 GAAAAAA
1 AAAAAAA
24898261 TGAGAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:24898266 original size:20 final size:20
Alignment explanation
Indices: 24898219--24898268 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
24898209 AAAAAAGAAG
24898219 ATGATGAAAAAAAAAGAAAAA
1 ATGA-GAAAAAAAAAGAAAAA
** *
24898240 AAAAGAAAAAAAAGGAAAAA
1 ATGAGAAAAAAAAAGAAAAA
24898260 ATGAGAAAA
1 ATGAGAAAA
24898269 TGAAAAAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (20 bp):
ATGAGAAAAAAAAAGAAAAA
Found at i:24898268 original size:10 final size:10
Alignment explanation
Indices: 24898224--24898260 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
24898214 AGAAGATGAT
24898224 GAAAAAAAAA
1 GAAAAAAAAA
24898234 GAAAAAAAAA
1 GAAAAAAAAA
*
24898244 GAAAAAAAAG
1 GAAAAAAAAA
24898254 GAAAAAA
1 GAAAAAA
24898261 TGAGAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:24898268 original size:19 final size:18
Alignment explanation
Indices: 24898199--24898268 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
24898189 ACAATGGATG
*
24898199 AAAAGTGAGAAAAAAAGA
1 AAAAATGAGAAAAAAAGA
** *
24898217 AGATGATGAAAAAAAAAGA
1 A-AAAATGAGAAAAAAAGA
**
24898236 AAAAAAAAGAAAAAAAAGGA
1 AAAAATGAG-AAAAAAA-GA
24898256 AAAAATGAGAAAA
1 AAAAATGAGAAAA
24898269 TGAAAAAAAG
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
18 4 0.11
19 25 0.66
20 9 0.24
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAAATGAGAAAAAAAGA
Found at i:24898281 original size:16 final size:16
Alignment explanation
Indices: 24898207--24898281 Score: 57
Period size: 16 Copynumber: 4.8 Consensus size: 16
24898197 TGAAAAGTGA
**
24898207 GAAAAAAAGAAGATGAT
1 GAAAAAAAG-AGAAAAT
*
24898224 GAAAAAAAAAGAAAA-
1 GAAAAAAAGAGAAAAT
* *
24898239 -AAAAAGAA-AAAAAAG
1 GAAAAA-AAGAGAAAAT
*
24898254 GAAAAAATGAGAAAAT
1 GAAAAAAAGAGAAAAT
24898270 GAAAAAAAGAGA
1 GAAAAAAAGAGA
24898282 TTCAAATTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
14 10 0.22
15 3 0.07
16 25 0.54
17 8 0.17
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (16 bp):
GAAAAAAAGAGAAAAT
Found at i:24899595 original size:41 final size:41
Alignment explanation
Indices: 24899512--24900354 Score: 1363
Period size: 41 Copynumber: 20.5 Consensus size: 41
24899502 AAAGTTCCGT
*
24899512 TGCCTCTGTTTAGAGGAGCAATTTATCTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
24899554 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
24899595 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
24899636 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
24899677 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
24899718 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
24899759 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
24899800 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
24899841 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
24899882 TACCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
*
24899924 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
24899965 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
24900006 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTTCCGT--
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-T-CGTGG
*
24900047 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
24900088 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTTCCGT--
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-T-CGTGG
* * *
24900129 TGCCTCTATTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
*
24900171 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
24900212 TGCCTCTGTTGAAGAGGAGCAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTG-AGAGGAGCAATTTACTTTTCAAAGTCGTGG
24900254 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
24900295 TACCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAAGTCGTTG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* * *
24900336 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGC
24900355 TTCGGCAAAA
Statistics
Matches: 751, Mismatches: 38, Indels: 25
0.92 0.05 0.03
Matches are distributed among these distances:
39 3 0.00
40 8 0.01
41 598 0.80
42 136 0.18
43 6 0.01
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:24900367 original size:1 final size:1
Alignment explanation
Indices: 24900361--24900485 Score: 79
Period size: 1 Copynumber: 125.0 Consensus size: 1
24900351 GAGCTTCGGC
* * ** ** **
24900361 AAAAAAAAAAAAAAAAACAAAAAAAAACAAAAAAAATCAAAAAAAAATCAAAAAAAAAAATCAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * ** * * * ** *
24900426 AAAATCAGAAAAAAATCAAAAAAATAAAAAACAAAAATAAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24900486 TGTTGAGTTG
Statistics
Matches: 92, Mismatches: 32, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 92 1.00
ACGTcount: A:0.85, C:0.07, G:0.01, T:0.07
Consensus pattern (1 bp):
A
Found at i:24900710 original size:24 final size:23
Alignment explanation
Indices: 24900655--24900708 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
24900645 TTTTCTTTTG
24900655 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
24900678 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
24900704 TATTT
1 TATTT
24900709 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:24900767 original size:3 final size:3
Alignment explanation
Indices: 24900759--24900784 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24900749 AGTTATATAT
24900759 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
24900785 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24901389 original size:20 final size:20
Alignment explanation
Indices: 24901366--24901403 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24901356 GTTTCCGACG
24901366 AAGAATCCCAGAAACCGGCA
1 AAGAATCCCAGAAACCGGCA
24901386 AAGAATCCCAGAAACCGG
1 AAGAATCCCAGAAACCGG
24901404 TGAATTTCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.29, G:0.21, T:0.05
Consensus pattern (20 bp):
AAGAATCCCAGAAACCGGCA
Found at i:24901464 original size:20 final size:20
Alignment explanation
Indices: 24901421--24901465 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
24901411 CCGGCCAACT
*
24901421 TCCGGCGAAAAAACCCAGAT
1 TCCGGCGAAAAAACCCAGAA
***
24901441 TCCGGCGAAAATTTCCAGAA
1 TCCGGCGAAAAAACCCAGAA
24901461 TCCGG
1 TCCGG
24901466 TGAATCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (20 bp):
TCCGGCGAAAAAACCCAGAA
Found at i:24901731 original size:14 final size:15
Alignment explanation
Indices: 24901712--24901753 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
24901702 CCGAGCCGAG
24901712 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
24901726 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
24901739 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
24901753 C
1 C
24901754 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:24901744 original size:13 final size:14
Alignment explanation
Indices: 24901712--24901748 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
24901702 CCGAGCCGAG
24901712 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
24901726 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
24901738 TCCGAGCCGTT
1 -CCGAGCCGTT
24901749 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:24901836 original size:16 final size:15
Alignment explanation
Indices: 24901788--24901875 Score: 70
Period size: 15 Copynumber: 5.7 Consensus size: 15
24901778 CCGCTCCAGG
*
24901788 TTTTTTTTTTTTT-T
1 TTTTTTTTTTTTTGA
**
24901802 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTGA
24901817 TTTTTTTTTTTTTGAA
1 TTTTTTTTTTTTTG-A
*
24901833 TTTTTTTTTATTTGA
1 TTTTTTTTTTTTTGA
** *
24901848 CTTTGATTTTGATCTTGA
1 -TTT--TTTTTTTTTTGA
24901866 TTTTTTTTTT
1 TTTTTTTTTT
24901876 CTTTTTTCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
14 13 0.22
15 20 0.33
16 16 0.27
17 3 0.05
18 8 0.13
ACGTcount: A:0.08, C:0.02, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTTTTTGA
Found at i:24901841 original size:1 final size:1
Alignment explanation
Indices: 24901788--24901829 Score: 84
Period size: 1 Copynumber: 42.0 Consensus size: 1
24901778 CCGCTCCAGG
24901788 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24901830 GAATTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:24902160 original size:152 final size:152
Alignment explanation
Indices: 24901872--24902321 Score: 812
Period size: 152 Copynumber: 3.0 Consensus size: 152
24901862 TTGATTTTTT
* * *
24901872 TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
24901937 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
24902002 TTTCCAATAATTAATTGGATGA
131 TTTCCAATAATTAATTGGATGA
24902024 TTTTGTATTTTT-TTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
1 TTTTGT-TTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTG
*
24902088 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATA
65 CATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATA
24902153 ATTTCCAATAATTAATTGGATGA
130 ATTTCCAATAATTAATTGGATGA
*
24902176 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGC
1 TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
*
24902241 ATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
66 ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* *
24902306 TTTCCAACAACTAATT
131 TTTCCAATAATTAATT
24902322 ACTTGGTAAA
Statistics
Matches: 287, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
151 5 0.02
152 277 0.97
153 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (152 bp):
TTTTGTTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGC
ATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
TTTCCAATAATTAATTGGATGA
Found at i:24904880 original size:41 final size:40
Alignment explanation
Indices: 24904797--24904881 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
24904787 AAAAAAGTTA
* * * *
24904797 AAATTTTGATTTAGTGACGTTTGTATTTAAAAATGCTATT
1 AAATATTGATTTAGTGACGTTTGTATTCAAAAATACCATT
*
24904837 AAATATTGAATTTAGTGACGTTTGTA-TCAGAAAATACCGTT
1 AAATATTG-ATTTAGTGACGTTTGTATTCA-AAAATACCATT
24904878 AAAT
1 AAAT
24904882 TTAATGGCGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
40 9 0.24
41 29 0.76
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.41
Consensus pattern (40 bp):
AAATATTGATTTAGTGACGTTTGTATTCAAAAATACCATT
Found at i:24904999 original size:34 final size:34
Alignment explanation
Indices: 24904953--24905047 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
24904943 CTAAATTCAT
* * ** * *
24904953 AATTTAGCGGCATTTTTAAGTACAAACGCCACTA
1 AATTTAGTGGCATTTGTAACAAAAAACACCACTA
* *
24904987 AATTTAGTGGCATTTGTATCAAAAAACACCGCTA
1 AATTTAGTGGCATTTGTAACAAAAAACACCACTA
*
24905021 AATTTAGTGGCATTTGTATCAAAAAAC
1 AATTTAGTGGCATTTGTAACAAAAAAC
24905048 GTCGCTAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (34 bp):
AATTTAGTGGCATTTGTAACAAAAAACACCACTA
Found at i:24905062 original size:35 final size:34
Alignment explanation
Indices: 24904984--24905059 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
24904974 ACAAACGCCA
24904984 CTAAATTTAGTGGCATTTGTATCAAAAAACACCG
1 CTAAATTTAGTGGCATTTGTATCAAAAAACACCG
**
24905018 CTAAATTTAGTGGCATTTGTATCAAAAAACGTCG
1 CTAAATTTAGTGGCATTTGTATCAAAAAACACCG
24905052 CTAAATTT
1 CTAAATTT
24905060 TAGAGACGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (34 bp):
CTAAATTTAGTGGCATTTGTATCAAAAAACACCG
Found at i:24905072 original size:35 final size:34
Alignment explanation
Indices: 24904984--24905072 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
24904974 ACAAACGCCA
* *
24904984 CTAAATTTAGTGGCATTTGTATCAAAAAACACCG
1 CTAAATTTAGAGACATTTGTATCAAAAAACACCG
* * **
24905018 CTAAATTTAGTGGCATTTGTATCAAAAAACGTCG
1 CTAAATTTAGAGACATTTGTATCAAAAAACACCG
*
24905052 CTAAATTTTAGAGACGTTTGT
1 CTAAA-TTTAGAGACATTTGT
24905073 GCTTAAAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 37 0.76
35 12 0.24
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (34 bp):
CTAAATTTAGAGACATTTGTATCAAAAAACACCG
Found at i:24908503 original size:33 final size:30
Alignment explanation
Indices: 24908466--24908564 Score: 87
Period size: 33 Copynumber: 3.2 Consensus size: 30
24908456 AAAATTTTTT
* *
24908466 AACAAATATATAATCAAAACCTAAACAAATTTC
1 AACAAACATA-AAACAAAACC-AAA-AAATTTC
*
24908499 AACAAACATAAAAC-CAA-C-AAAAATTTC
1 AACAAACATAAAACAAAACCAAAAAATTTC
24908526 AACAAACATAAAACCAAAACCCAAATAAATTTC
1 AACAAACATAAAA-CAAAA-CCAAA-AAATTTC
*
24908559 ATCAAA
1 AACAAA
24908565 TAATTAACTC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
27 20 0.36
28 3 0.05
29 2 0.04
30 1 0.02
31 3 0.05
32 5 0.09
33 21 0.38
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (30 bp):
AACAAACATAAAACAAAACCAAAAAATTTC
Found at i:24908556 original size:60 final size:59
Alignment explanation
Indices: 24908466--24908623 Score: 169
Period size: 60 Copynumber: 2.7 Consensus size: 59
24908456 AAAATTTTTT
* *
24908466 AACAAATATATAATCAAAACCTAAACAAATTTCAACAAACATAA-AAC-CAACAAAAATTTC
1 AACAAATATATAACCAAAACCCAAACAAATTTCAACAAA-ATAATAACTC-ACAAAAA-TTC
* * * *
24908526 AACAAACATAAAACCAAAACCCAAATAAATTTCATC-AAATAATTAACTCACAAAAATTC
1 AACAAATATATAACCAAAACCCAAACAAATTTCAACAAAATAA-TAACTCACAAAAATTC
* * * *
24908585 AATACATTTGTAACCAAAACCCAAACAAATTTCAACAAA
1 AACAAATATATAACCAAAACCCAAACAAATTTCAACAAA
24908624 TTTACAACAA
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
58 4 0.05
59 33 0.41
60 42 0.52
61 1 0.01
ACGTcount: A:0.58, C:0.22, G:0.01, T:0.20
Consensus pattern (59 bp):
AACAAATATATAACCAAAACCCAAACAAATTTCAACAAAATAATAACTCACAAAAATTC
Found at i:24908815 original size:5 final size:5
Alignment explanation
Indices: 24908805--24908837 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
24908795 GAGAGTATGA
24908805 GAGGG GAGGG GAGGG GAGGG GAGGG GATGGG GA
1 GAGGG GAGGG GAGGG GAGGG GAGGG GA-GGG GA
24908838 AAGGGGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.76, T:0.03
Consensus pattern (5 bp):
GAGGG
Found at i:24909409 original size:22 final size:23
Alignment explanation
Indices: 24909382--24909435 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
24909372 AGTAATCATC
*
24909382 AATAATTTAGA-AATAAATTAAT
1 AATAATTTAGATAATAAATAAAT
*
24909404 AATAATTTA-ATAGTAAATAAAT
1 AATAATTTAGATAATAAATAAAT
*
24909426 GATAATTTAG
1 AATAATTTAG
24909436 TATTCAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (23 bp):
AATAATTTAGATAATAAATAAAT
Found at i:24909485 original size:22 final size:22
Alignment explanation
Indices: 24909460--24909530 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
24909450 AACCTTTTAG
24909460 TAAATTAATAATAATATAATAA
1 TAAATTAATAATAATATAATAA
* * * **
24909482 TAAATGT-GTAATACTTTAATGG
1 TAAAT-TAATAATAATATAATAA
* * *
24909504 TAAATCAATTATAATATAATTA
1 TAAATTAATAATAATATAATAA
24909526 TAAAT
1 TAAAT
24909531 GCATAACAGC
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (22 bp):
TAAATTAATAATAATATAATAA
Found at i:24909620 original size:22 final size:22
Alignment explanation
Indices: 24909579--24909632 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
24909569 AAAAAATAAG
* *
24909579 TAATAACTTAGTACTTAATTAT
1 TAATAACTTAGTAATAAATTAT
* *
24909601 TAATAATTTAGTAATAAATTAA
1 TAATAACTTAGTAATAAATTAT
*
24909623 TGATAACTTA
1 TAATAACTTA
24909633 AAATTTAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (22 bp):
TAATAACTTAGTAATAAATTAT
Found at i:24909743 original size:43 final size:45
Alignment explanation
Indices: 24909695--24909789 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 45
24909685 TAAATTACAG
*
24909695 TAGTAAATA-ATTGAAAACT-TAAAAACAAATTAGT-ATAACTTAA
1 TAGTAAATACATTGAAAA-TATAAAAACAAATTAATGATAACTTAA
* * **
24909738 TAGTAAA-ACATTGATAATATAATAATTAATTAATGATAACTTAA
1 TAGTAAATACATTGAAAATATAAAAACAAATTAATGATAACTTAA
24909782 TAGTAAAT
1 TAGTAAAT
24909790 CATGCATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.05
43 25 0.58
44 16 0.37
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (45 bp):
TAGTAAATACATTGAAAATATAAAAACAAATTAATGATAACTTAA
Found at i:24909851 original size:11 final size:11
Alignment explanation
Indices: 24909795--24909874 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 11
24909785 TAAATCATGC
*
24909795 ATAATTTAAT-
1 ATAATTTAGTG
* *
24909805 ATAAATTAGTA
1 ATAATTTAGTG
24909816 ATAATTTA-TG
1 ATAATTTAGTG
*
24909826 AGTAAATTA-TAG
1 A-TAATTTAGT-G
24909838 ATAATTTAGTG
1 ATAATTTAGTG
*
24909849 AT-ATATCAGTG
1 ATAAT-TTAGTG
*
24909860 ATAATTTTGTG
1 ATAATTTAGTG
24909871 ATAA
1 ATAA
24909875 ATAATTAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
10 12 0.22
11 38 0.69
12 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.42
Consensus pattern (11 bp):
ATAATTTAGTG
Found at i:24910033 original size:22 final size:22
Alignment explanation
Indices: 24909721--24910033 Score: 94
Period size: 22 Copynumber: 14.4 Consensus size: 22
24909711 ACTTAAAAAC
*
24909721 AAATTAGT-ATAACTTAATAGT
1 AAATTAGTGATAATTTAATAGT
** * * *
24909742 AAAACATTGATAATATAATAAT
1 AAATTAGTGATAATTTAATAGT
* * *
24909764 TAATTAATGATAACTTAATAGT
1 AAATTAGTGATAATTTAATAGT
*
24909786 AAATCA-TGCATAATTTAATA-T
1 AAATTAGTG-ATAATTTAATAGT
*
24909807 AAATTAGTAATAATTT-ATGAGT
1 AAATTAGTGATAATTTAAT-AGT
*
24909829 AAATTA-TAGATAATTTAGT-GAT
1 AAATTAGT-GATAATTTAATAG-T
* * **
24909851 ATATCAGTGATAATTTTGT-GAT
1 AAATTAGTGATAATTTAATAG-T
* * * * *
24909873 AAA-TAATTAAAAATAAAGTAGT
1 AAATTAGTGATAATTTAA-TAGT
* * * *
24909895 AAATCAATGATAACTTAATAAT
1 AAATTAGTGATAATTTAATAGT
* *
24909917 AAATATA-T-AAAGATATAATAGT
1 AAAT-TAGTGATA-ATTTAATAGT
* * *
24909939 AAGTTATTTGATAATTTAGTAGT
1 AAATTA-GTGATAATTTAATAGT
* * *
24909962 AAATTACTAATAA--TAATACT
1 AAATTAGTGATAATTTAATAGT
* * * *
24909982 AAATTACT-ATTAATTTAGTTGC
1 AAATTAGTGA-TAATTTAATAGT
* *
24910004 AAAGTAGTGATAATTTAGTAGT
1 AAATTAGTGATAATTTAATAGT
24910026 AAATTAGT
1 AAATTAGT
24910034 TAATCATTGA
Statistics
Matches: 210, Mismatches: 61, Indels: 41
0.67 0.20 0.13
Matches are distributed among these distances:
19 1 0.00
20 18 0.09
21 33 0.16
22 128 0.61
23 28 0.13
24 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.38
Consensus pattern (22 bp):
AAATTAGTGATAATTTAATAGT
Found at i:24910121 original size:22 final size:22
Alignment explanation
Indices: 24910095--24910143 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24910085 TTATAACTTT
*
24910095 ATCATCAACAATTTAGTAATAA
1 ATCATCAACAATTTAATAATAA
* *
24910117 ATCATCAATAATTTAATGATAA
1 ATCATCAACAATTTAATAATAA
24910139 ATCAT
1 ATCAT
24910144 TCATAACATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (22 bp):
ATCATCAACAATTTAATAATAA
Found at i:24910149 original size:22 final size:22
Alignment explanation
Indices: 24910104--24910171 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
24910094 TATCATCAAC
* *
24910104 AATTTAGTAATAAATCA-TCAAT
1 AATTTAATGATAAATCATTC-AT
24910126 AATTTAATGATAAATCATTCAT
1 AATTTAATGATAAATCATTCAT
** *
24910148 AACATAATGGTAAATCATTCAT
1 AATTTAATGATAAATCATTCAT
24910170 AA
1 AA
24910172 ATTAGTAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 38 0.95
23 2 0.05
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (22 bp):
AATTTAATGATAAATCATTCAT
Found at i:24910210 original size:22 final size:22
Alignment explanation
Indices: 24910137--24910201 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
24910127 ATTTAATGAT
* * *
24910137 AAATCATTCATAACA-TAATGGT
1 AAATCATTCATAA-ATTAGTAGC
24910159 AAATCATTCATAAATTAGTAGC
1 AAATCATTCATAAATTAGTAGC
*
24910181 AAATCATTTATAAATTAGTAG
1 AAATCATTCATAAATTAGTAG
24910202 TCTATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
AAATCATTCATAAATTAGTAGC
Found at i:24910559 original size:11 final size:11
Alignment explanation
Indices: 24910524--24910578 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
24910514 TTAATAATTG
24910524 ATAACTTAATA
1 ATAACTTAATA
* *
24910535 ATAAATCAATA
1 ATAACTTAATA
*
24910546 ATAACTTAACA
1 ATAACTTAATA
* * *
24910557 ATAAATTAGTG
1 ATAACTTAATA
24910568 ATAACTTAATA
1 ATAACTTAATA
24910579 GAAAATTAAT
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.33
Consensus pattern (11 bp):
ATAACTTAATA
Found at i:24910584 original size:22 final size:22
Alignment explanation
Indices: 24910522--24910588 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
24910512 AGTTAATAAT
*
24910522 TGATAACTTAATAATAAATCAA
1 TGATAACTTAATAATAAATTAA
* * *
24910544 TAATAACTTAACAATAAATTAG
1 TGATAACTTAATAATAAATTAA
24910566 TGATAACTTAATAGA-AAATTAA
1 TGATAACTTAATA-ATAAATTAA
24910588 T
1 T
24910589 TTCAATTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
22 36 0.97
23 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (22 bp):
TGATAACTTAATAATAAATTAA
Found at i:24910809 original size:20 final size:22
Alignment explanation
Indices: 24910772--24910812 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
24910762 TCAATGAAAA
*
24910772 TTAATATAAATTAGTATAATTC
1 TTAATATAAATCAGTATAATTC
24910794 TTAATA-AAATCA-TATAATT
1 TTAATATAAATCAGTATAATT
24910813 GAAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAATATAAATCAGTATAATTC
Found at i:24911082 original size:22 final size:22
Alignment explanation
Indices: 24911056--24911189 Score: 103
Period size: 22 Copynumber: 6.2 Consensus size: 22
24911046 ATACAATATA
* *
24911056 AAATCATTAATAATTTTATAGC
1 AAATCATTAATAATTTAATAGT
***
24911078 AAATCAACCATAATTTAATAGT
1 AAATCATTAATAATTTAATAGT
* * *
24911100 AAATCA-T-GTAATTTAGTAGA
1 AAATCATTAATAATTTAATAGT
*
24911120 AAATCATTGATAATTTAATAGT
1 AAATCATTAATAATTTAATAGT
* *
24911142 ATATCATTAATAGA-TTATTAGT
1 AAATCATTAATA-ATTTAATAGT
* * * *
24911164 AAATCGTTGATAATATAATAAT
1 AAATCATTAATAATTTAATAGT
24911186 AAAT
1 AAAT
24911190 AAATGATAAC
Statistics
Matches: 87, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.18
21 2 0.02
22 68 0.78
23 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (22 bp):
AAATCATTAATAATTTAATAGT
Found at i:24911113 original size:20 final size:20
Alignment explanation
Indices: 24911088--24911152 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
24911078 AAATCAACCA
24911088 TAATTTAATAGTAAATCATG
1 TAATTTAATAGTAAATCATG
* *
24911108 TAATTTAGTAGAAAATCATTG
1 TAATTTAATAGTAAATCA-TG
*
24911129 ATAATTTAATAGTATATCAT-
1 -TAATTTAATAGTAAATCATG
24911149 TAAT
1 TAAT
24911153 AGATTATTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 4 0.11
20 16 0.42
21 3 0.08
22 15 0.39
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (20 bp):
TAATTTAATAGTAAATCATG
Found at i:24911124 original size:42 final size:40
Alignment explanation
Indices: 24911070--24911152 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 40
24911060 CATTAATAAT
*
24911070 TTTATAGCAAATCAACCATAATTTAATAGTAAATCATGTAA
1 TTTATAGAAAATCAACCATAATTTAATAGTAAATCAT-TAA
*** *
24911111 TTTAGTAGAAAATCATTGATAATTTAATAGTATATCATTAA
1 TTTA-TAGAAAATCAACCATAATTTAATAGTAAATCATTAA
24911152 T
1 T
24911153 AGATTATTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 8 0.22
42 28 0.78
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (40 bp):
TTTATAGAAAATCAACCATAATTTAATAGTAAATCATTAA
Found at i:24911183 original size:44 final size:42
Alignment explanation
Indices: 24911087--24911189 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
24911077 CAAATCAACC
24911087 ATAATTTAATAGTAAATCATGTAATTTAGTAGAAAATCATTG
1 ATAATTTAATAGTAAATCATGTAATTTAGTAGAAAATCATTG
* * * *
24911129 ATAATTTAATAGTATATCAT-TAATAGATTATTAGTAAATCGTTG
1 ATAATTTAATAGTAAATCATGTAAT---TTAGTAGAAAATCATTG
* *
24911173 ATAATATAATAATAAAT
1 ATAATTTAATAGTAAAT
24911190 AAATGATAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
41 4 0.08
42 19 0.37
44 28 0.55
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.40
Consensus pattern (42 bp):
ATAATTTAATAGTAAATCATGTAATTTAGTAGAAAATCATTG
Found at i:24911557 original size:30 final size:30
Alignment explanation
Indices: 24911497--24911561 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
24911487 ATATTATAAG
* *
24911497 ATAATTTAGTAGTAAATTAGTTAATCATTA
1 ATAATTTAGTAGTAAACTAGTTAATAATTA
* *
24911527 ATAATTTTGTAGTAAACTA-TTGATAAATTA
1 ATAATTTAGTAGTAAACTAGTTAAT-AATTA
24911557 ATAAT
1 ATAAT
24911562 AAATCAGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (30 bp):
ATAATTTAGTAGTAAACTAGTTAATAATTA
Found at i:24911664 original size:22 final size:22
Alignment explanation
Indices: 24911539--24911758 Score: 106
Period size: 22 Copynumber: 9.9 Consensus size: 22
24911529 AATTTTGTAG
* *
24911539 TAAACTATTGATAAATTAATAA
1 TAAATTATTGATAACTTAATAA
* * *
24911561 TAAATCAGTT-ATAATTTTATAA
1 TAAATTA-TTGATAACTTAATAA
* **
24911583 CAAATATCATCAATAACTTAATAA
1 TAAAT-T-ATTGATAACTTAATAA
* * ** * * *
24911607 CAAATCATAAATAATTTAGTAG
1 TAAATTATTGATAACTTAATAA
24911629 TAAATTAGTT-ATAACTTAATAA
1 TAAATTA-TTGATAACTTAATAA
* * *
24911651 TAAATTATTGATAATTTAACAG
1 TAAATTATTGATAACTTAATAA
* * *
24911673 TAAATCATTGATAATTTAATAG
1 TAAATTATTGATAACTTAATAA
* * * *
24911695 TATATTATTGATAGCTTAGTAG
1 TAAATTATTGATAACTTAATAA
* *
24911717 TAAATTATAGATAA-TATAATAT
1 TAAATTATTGATAACT-TAATAA
*
24911739 TAAATCAATT-ATAACTTAAT
1 TAAAT-TATTGATAACTTAAT
24911759 TGTTAATCAT
Statistics
Matches: 152, Mismatches: 37, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
21 3 0.02
22 126 0.83
23 7 0.05
24 16 0.11
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (22 bp):
TAAATTATTGATAACTTAATAA
Done.