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 62 of 160
Found at i:12926129 original size:9 final size:9
Alignment explanation
Indices: 12926104--12926177 Score: 59
Period size: 9 Copynumber: 8.3 Consensus size: 9
12926094 TATTTAAAGA
*
12926104 AAATAGAAT
1 AAATAAAAT
12926113 -AATAAAAAT
1 AAAT-AAAAT
12926122 AAATAAAAAT
1 AAAT-AAAAT
*
12926132 AAAATAAAAA
1 -AAATAAAAT
12926142 AAATAAAA-
1 AAATAAAAT
12926150 AAAGTAAAA-
1 AAA-TAAAAT
12926159 AAAT-AAA-
1 AAATAAAAT
12926166 AAATAAAAT
1 AAATAAAAT
12926175 AAA
1 AAA
12926178 GATAAAAAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
7 7 0.12
8 10 0.18
9 23 0.40
10 13 0.23
11 4 0.07
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (9 bp):
AAATAAAAT
Found at i:12926137 original size:24 final size:24
Alignment explanation
Indices: 12926103--12926184 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
12926093 TTATTTAAAG
*
12926103 AAAATAGAATAATAAAAATAAATA
1 AAAATAAAATAATAAAAATAAATA
*
12926127 AAAATAAAATAAAAAAAATAAA-A
1 AAAATAAAATAATAAAAATAAATA
* *
12926150 AAAGTAAAAAAATAAAAAATAAAATA
1 AAAATAAAATAAT-AAAAAT-AAATA
*
12926176 AAGATAAAA
1 AAAATAAAA
12926185 AGAATATTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 11 0.23
24 26 0.54
25 3 0.06
26 8 0.17
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (24 bp):
AAAATAAAATAATAAAAATAAATA
Found at i:12926145 original size:38 final size:38
Alignment explanation
Indices: 12926098--12926195 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
12926088 TATTTTTATT
*
12926098 TAAAGAAAATAGAATAATAAAAATAAAT-AAAAATAAAA
1 TAAAAAAAATAGAATAATAAAAA-AAATAAAAAATAAAA
* *
12926136 TAAAAAAAATAAAAAAAGT-AAAAAAATAAAAAATAAAA
1 TAAAAAAAATAGAATAA-TAAAAAAAATAAAAAATAAAA
*
12926174 TAAAGATAAAA-AGAATATTAAA
1 TAAA-A-AAAATAGAATAATAAA
12926196 TAAACCTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
37 4 0.08
38 33 0.67
39 8 0.16
40 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (38 bp):
TAAAAAAAATAGAATAATAAAAAAAATAAAAAATAAAA
Found at i:12926169 original size:33 final size:33
Alignment explanation
Indices: 12926103--12926190 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 33
12926093 TTATTTAAAG
* *
12926103 AAAATAGAATAATAAAAATAAATAAAAATAAAAT
1 AAAATAAAATAA-AAAAATAAATAAAAAAAAAAT
12926137 AAAA-AAAATAAAAAAAGTAAA-AAAATAAAAAAT
1 AAAATAAAATAAAAAAA-TAAATAAAA-AAAAAAT
12926170 AAAATAAAGATAAAAAGAATA
1 AAAATAAA-ATAAAAA-AATA
12926191 TTAAATAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
32 9 0.19
33 20 0.43
34 7 0.15
35 9 0.19
36 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (33 bp):
AAAATAAAATAAAAAAATAAATAAAAAAAAAAT
Found at i:12926187 original size:8 final size:8
Alignment explanation
Indices: 12926110--12926173 Score: 69
Period size: 9 Copynumber: 7.9 Consensus size: 8
12926100 AAGAAAATAG
12926110 AATAATAAA
1 AATAA-AAA
*
12926119 AATAAATA
1 AATAAAAA
*
12926127 AA-AATAA
1 AATAAAAA
12926134 AATAAAAAA
1 AAT-AAAAA
12926143 AATAAAAA
1 AATAAAAA
12926151 AAGTAAAAA
1 AA-TAAAAA
12926160 AAT-AAAA
1 AATAAAAA
12926167 AATAAAA
1 AATAAAA
12926174 TAAAGATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
7 12 0.26
8 15 0.32
9 20 0.43
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (8 bp):
AATAAAAA
Found at i:12927067 original size:3 final size:3
Alignment explanation
Indices: 12927059--12927084 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12927049 AGAAAACAAA
12927059 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
12927085 AAAAATCAGA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12927220 original size:14 final size:16
Alignment explanation
Indices: 12927201--12927232 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12927191 AAATATTATA
12927201 ATATAA-TA-ATAAAT
1 ATATAACTATATAAAT
12927215 ATATAACTATATAAAT
1 ATATAACTATATAAAT
12927231 AT
1 AT
12927233 TTTACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAACTATATAAAT
Found at i:12927354 original size:17 final size:17
Alignment explanation
Indices: 12927341--12927376 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
12927331 CGTAAAATAC
12927341 AAAAG-AAGAAAAAAGA
1 AAAAGAAAGAAAAAAGA
12927357 AAAAGAAAGAAAAAA-A
1 AAAAGAAAGAAAAAAGA
12927373 AAAA
1 AAAA
12927377 CACAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAAAAGA
Found at i:12927383 original size:17 final size:17
Alignment explanation
Indices: 12927346--12927383 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
12927336 AATACAAAAG
*
12927346 AAGAAAAAAGAAAAAGA
1 AAGAAAAAAGAAAAACA
12927363 AAGAAAAAA-AAAAACA
1 AAGAAAAAAGAAAAACA
12927379 CAAGA
1 -AAGA
12927384 TAAGAATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAAAACA
Found at i:12927435 original size:20 final size:21
Alignment explanation
Indices: 12927410--12927448 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12927400 CTTACCCATT
12927410 TGGGCTAGG-CCCAATTGGTC
1 TGGGCTAGGACCCAATTGGTC
*
12927430 TGGGCTTGGACCCAATTGG
1 TGGGCTAGGACCCAATTGG
12927449 GTGTCTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.23, G:0.36, T:0.26
Consensus pattern (21 bp):
TGGGCTAGGACCCAATTGGTC
Found at i:12931016 original size:14 final size:14
Alignment explanation
Indices: 12930999--12931027 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12930989 AAAAAAAAGT
12930999 TAACAAAATTTTAA
1 TAACAAAATTTTAA
12931013 TAACAAAATTTTAA
1 TAACAAAATTTTAA
12931027 T
1 T
12931028 TTTTACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
TAACAAAATTTTAA
Found at i:12931528 original size:19 final size:19
Alignment explanation
Indices: 12931504--12931544 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
12931494 CCTCAGATAA
*
12931504 AAGAAC-AAATTGATGAGTT
1 AAGAACTAAACTGA-GAGTT
12931523 AAGAACTAAACTGAGAGTT
1 AAGAACTAAACTGAGAGTT
12931542 AAG
1 AAG
12931545 CTTAGGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.22
Consensus pattern (19 bp):
AAGAACTAAACTGAGAGTT
Found at i:12931811 original size:43 final size:41
Alignment explanation
Indices: 12931734--12931813 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
12931724 TGGATGGATA
* *
12931734 TTTTATGATGTTTTATGGATATTATGGATGTTTGATAGATG
1 TTTTATGATGTTTTATGGATATTATCGATATTTGATAGATG
*
12931775 TTTTATGATGTATTTGATGGATGA-TATCTATATTTGATA
1 TTTTATGATGT-TTT-ATGGAT-ATTATCGATATTTGATA
12931814 CTTTAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 11 0.33
42 3 0.09
43 18 0.55
44 1 0.03
ACGTcount: A:0.26, C:0.01, G:0.21, T:0.51
Consensus pattern (41 bp):
TTTTATGATGTTTTATGGATATTATCGATATTTGATAGATG
Found at i:12931917 original size:19 final size:19
Alignment explanation
Indices: 12931881--12931919 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12931871 CAGGTTTCAA
*
12931881 AAATAATTATAGATTTTTT
1 AAATAATTATAAATTTTTT
12931900 AAATAATT-TAAATATTTTT
1 AAATAATTATAAAT-TTTTT
12931919 A
1 A
12931920 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AAATAATTATAAATTTTTT
Found at i:12932689 original size:17 final size:17
Alignment explanation
Indices: 12932669--12932714 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
12932659 TATTTGAATA
12932669 TTTTATATAATAAAAAT
1 TTTTATATAATAAAAAT
*
12932686 TTTTGTATAAT--AAAT
1 TTTTATATAATAAAAAT
12932701 TTTTA-A-AATAAAAA
1 TTTTATATAATAAAAA
12932715 AAAATTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.12
14 1 0.04
15 11 0.44
17 10 0.40
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TTTTATATAATAAAAAT
Found at i:12934454 original size:148 final size:150
Alignment explanation
Indices: 12934184--12934477 Score: 367
Period size: 148 Copynumber: 2.0 Consensus size: 150
12934174 GACCTTTTAT
* * * * *
12934184 AATATTATTTACTCTTTCCAAATGGAGAGGTTGATTGGTATTAAAATATAAAAAAAAAGTCATTT
1 AATATTATTTACTCTTTCCAAATAGAAAAGTTGATTGATATCAAAATAT-AAAAAAAAGTCATTT
* * * * * * * *
12934249 TGAATGATGATTATAAAAATGAAGTAACAATTAAAAATATACTATTTTTTCATTTAGTAGAAA-A
65 TGAATAAAGATAATAAAAATGAAGCAACAATTAAAAAAACACCATGTTTTCATTTAGTAGAAATA
*
12934313 TTTTTTTTATGGAGAAAGTGA
130 TTTTTTTTATAGAGAAAGTGA
* * * * *
12934334 AATATTTTTTACTCTTTTCAAATAGAAAAGTTGATTGATATCAAAATAT-CAAAAAATTTATTTT
1 AATATTATTTACTCTTTCCAAATAGAAAAGTTGATTGATATCAAAATATAAAAAAAAGTCATTTT
* * *
12934398 GAATAAAGATAATGAAAATGAAGCAACAATTAAAAAAACACCATGTTTTCGTTTAGTAGAAATTT
66 GAATAAAGATAATAAAAATGAAGCAACAATTAAAAAAACACCATGTTTTCATTTAGTAGAAATAT
12934463 TTTTTTTATAGAGAA
131 TTTTTTTATAGAGAA
12934478 TGCAAAGGTA
Statistics
Matches: 121, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
148 64 0.53
149 15 0.12
150 42 0.35
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (150 bp):
AATATTATTTACTCTTTCCAAATAGAAAAGTTGATTGATATCAAAATATAAAAAAAAGTCATTTT
GAATAAAGATAATAAAAATGAAGCAACAATTAAAAAAACACCATGTTTTCATTTAGTAGAAATAT
TTTTTTTATAGAGAAAGTGA
Found at i:12935242 original size:11 final size:11
Alignment explanation
Indices: 12935198--12935250 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
12935188 CATAGTAGTT
*
12935198 AATTATTAATA
1 AATTAATAATA
* *
12935209 ACTTAGTAATA
1 AATTAATAATA
* *
12935220 AATCAATGATA
1 AATTAATAATA
*
12935231 ACTTAATAATA
1 AATTAATAATA
12935242 AATTAATAA
1 AATTAATAA
12935251 AAGTTTAATA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.36
Consensus pattern (11 bp):
AATTAATAATA
Found at i:12935345 original size:22 final size:22
Alignment explanation
Indices: 12935320--12935460 Score: 78
Period size: 22 Copynumber: 6.5 Consensus size: 22
12935310 AATTACTTAG
12935320 TAGTAAATCAATAATAAATTAA
1 TAGTAAATCAATAATAAATTAA
* *
12935342 TAGTAAAT-AATTGATAATTTAA
1 TAGTAAATCAA-TAATAAATTAA
* *
12935364 TAGTTAATCATTAA-AAACTTAA
1 TAGTAAATCAATAATAAA-TTAA
* * * *
12935386 -ACATAAATCAGT-ATAATTTAG
1 TA-GTAAATCAATAATAAATTAA
*
12935407 TAGTAAATC-AT-CTATAATATAA
1 TAGTAAATCAATAATA-AAT-TAA
* * * *
12935429 TAGTTAGTTAGTAATAAATTAA
1 TAGTAAATCAATAATAAATTAA
12935451 TAGTAAATCA
1 TAGTAAATCA
12935461 TGCATAATTT
Statistics
Matches: 85, Mismatches: 24, Indels: 20
0.66 0.19 0.16
Matches are distributed among these distances:
20 3 0.04
21 17 0.20
22 58 0.68
23 5 0.06
24 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (22 bp):
TAGTAAATCAATAATAAATTAA
Found at i:12935345 original size:25 final size:24
Alignment explanation
Indices: 12935285--12935367 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 24
12935275 ATTTAATAGT
* *
12935285 AATTAATTGATAGTAATAAATCATA
1 AATTAATAG-TAGTAATAAATAATA
* *
12935310 AATTACTTAGTAGTAAATCAATAATA
1 AATTA-ATAGTAGT-AATAAATAATA
* *
12935336 AATTAATAGTA--AATAATTGATA
1 AATTAATAGTAGTAATAAATAATA
*
12935358 ATTTAATAGT
1 AATTAATAGT
12935368 TAATCATTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
22 17 0.36
25 14 0.30
26 16 0.34
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (24 bp):
AATTAATAGTAGTAATAAATAATA
Found at i:12935458 original size:65 final size:65
Alignment explanation
Indices: 12935314--12935474 Score: 157
Period size: 65 Copynumber: 2.4 Consensus size: 65
12935304 ATCATAAATT
* * * * *
12935314 ACTTAGTAGTAAATCAATAATAAATTAATAGTAAATAATTGATAATTTAATAGTTAATCATTAAA
1 ACTTAATAGTAAATCAGT-ATAATTTAATAGTAAATAATTGATAATATAATAGTTAATCAGTAAA
12935379 A
65 A
* * * * *
12935380 ACTTAA-ACATAAATCAGTATAATTTAGTAGTAAATCATCT-ATAATATAATAGTTAGTTAGTAA
1 ACTTAATA-GTAAATCAGTATAATTTAATAGTAAATAAT-TGATAATATAATAGTTAATCAGTAA
12935443 TAA
64 -AA
*
12935446 A-TTAATAGTAAATCATGCATAATTTAATA
1 ACTTAATAGTAAATCA-GTATAATTTAATA
12935475 TGAATTAATA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
65 48 0.62
66 29 0.38
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (65 bp):
ACTTAATAGTAAATCAGTATAATTTAATAGTAAATAATTGATAATATAATAGTTAATCAGTAAAA
Found at i:12935689 original size:22 final size:22
Alignment explanation
Indices: 12935634--12935689 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
12935624 AGTAGTAAAT
*
12935634 TAATAACTTAACAGTAAGTTAC
1 TAATAACTTAATAGTAAGTTAC
*
12935656 TAATAA-TATAATAGTTAA-TTGC
1 TAATAACT-TAATAG-TAAGTTAC
12935678 TAATAACTTAAT
1 TAATAACTTAAT
12935690 TATGAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 24 0.83
23 4 0.14
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (22 bp):
TAATAACTTAATAGTAAGTTAC
Found at i:12936345 original size:23 final size:23
Alignment explanation
Indices: 12936319--12936432 Score: 82
Period size: 22 Copynumber: 5.2 Consensus size: 23
12936309 TTCAGTTTAC
12936319 TAGT-AATTAATTGATAAACTTAA
1 TAGTAAATTAA-TGATAAACTTAA
*
12936342 TAGTAAATT-ATGA-ATAATTTAA
1 TAGTAAATTAATGATA-AACTTAA
* *
12936364 TAGTAAATTAATGAT-AATTTAG
1 TAGTAAATTAATGATAAACTTAA
* *
12936386 TAGTTAATTATTG--AAACTTAA
1 TAGTAAATTAATGATAAACTTAA
* * *
12936407 AAATAAATTAAT-AT-AACTTAG
1 TAGTAAATTAATGATAAACTTAA
12936428 TAGTA
1 TAGTA
12936433 GTTAATCATT
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
21 23 0.32
22 35 0.49
23 9 0.13
24 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (23 bp):
TAGTAAATTAATGATAAACTTAA
Found at i:12936366 original size:22 final size:22
Alignment explanation
Indices: 12936338--12936469 Score: 84
Period size: 22 Copynumber: 6.3 Consensus size: 22
12936328 ATTGATAAAC
12936338 TTAATAGTAAATTATGAATAAT
1 TTAATAGTAAATTATGAATAAT
12936360 TTAATAGTAAATTAATG-ATAAT
1 TTAATAGTAAATT-ATGAATAAT
* * *
12936382 TTAGTAGTTAATTATTG-A-AAC
1 TTAATAGTAAATTA-TGAATAAT
* * *
12936403 TTAAAAATAAATTA--ATATAAC
1 TTAATAGTAAATTATGA-ATAAT
* * *
12936424 TTAGTAGT--AGT-T-AATCAT
1 TTAATAGTAAATTATGAATAAT
*
12936442 TTAATAGTAAATTATGGATAAT
1 TTAATAGTAAATTATGAATAAT
12936464 TTAATA
1 TTAATA
12936470 CAAATTAGTG
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
18 10 0.12
19 3 0.04
20 3 0.04
21 22 0.27
22 42 0.51
23 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (22 bp):
TTAATAGTAAATTATGAATAAT
Found at i:12936671 original size:43 final size:45
Alignment explanation
Indices: 12936588--12936678 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 45
12936578 AATAAATGCA
*
12936588 TAATAACATAATAGTACACAATTAATAATTTATATATAAATTA-T
1 TAATAACATAATAGTAAACAATTAATAATTTATATATAAATTAGT
* * *
12936632 TAATAACTTAATAG-AAATAATTAATAATTTAGTA-GTAAATTAGT
1 TAATAACATAATAGTAAACAATTAATAATTTA-TATATAAATTAGT
12936676 TAA
1 TAA
12936679 ACACAAACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 22 0.54
44 19 0.46
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.38
Consensus pattern (45 bp):
TAATAACATAATAGTAAACAATTAATAATTTATATATAAATTAGT
Found at i:12936780 original size:22 final size:22
Alignment explanation
Indices: 12936753--12936821 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
12936743 CAAATCATCA
12936753 ATAATTTAATAATAAACCATT-
1 ATAATTTAATAATAAACCATTG
* *
12936774 ATCAATTTAATAGTAAATCATTG
1 AT-AATTTAATAATAAACCATTG
** * *
12936797 ATAATTTGGTAATATATCATTG
1 ATAATTTAATAATAAACCATTG
12936819 ATA
1 ATA
12936822 GCTTAGTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.05
22 36 0.90
23 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (22 bp):
ATAATTTAATAATAAACCATTG
Found at i:12936841 original size:30 final size:30
Alignment explanation
Indices: 12936805--12936861 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
12936795 TGATAATTTG
*
12936805 GTAATATATCATTGATAGCTTAGTAGTTTA
1 GTAATATATCATTGAGAGCTTAGTAGTTTA
12936835 GTAATATATCATTGAGAGCTTAGTAGT
1 GTAATATATCATTGAGAGCTTAGTAGT
12936862 AAATTACAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (30 bp):
GTAATATATCATTGAGAGCTTAGTAGTTTA
Found at i:12937809 original size:21 final size:22
Alignment explanation
Indices: 12937716--12937813 Score: 78
Period size: 21 Copynumber: 4.6 Consensus size: 22
12937706 CAAAAGACTA
* *
12937716 ATTACTAAAATTATATTAAGAG
1 ATTACTAAAATTATATCAAAAG
* *
12937738 ATTA-TCAAAATTTTATC-AATG
1 ATTACT-AAAATTATATCAAAAG
* *
12937759 ATTACCAAAATTATATCGAAA-
1 ATTACTAAAATTATATCAAAAG
* *
12937780 CTTACTAAAATTTTATCAAAAG
1 ATTACTAAAATTATATCAAAAG
*
12937802 -TTATTAAAATTA
1 ATTACTAAAATTA
12937814 AAATTATATA
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
21 44 0.75
22 15 0.25
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTACTAAAATTATATCAAAAG
Found at i:12939209 original size:3 final size:3
Alignment explanation
Indices: 12939203--12939236 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
12939193 ATTTTTTTTT
12939203 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12939237 CATATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12944923 original size:2 final size:2
Alignment explanation
Indices: 12944911--12944943 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
12944901 TTTATTTTTC
*
12944911 AT AT A- AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12944944 GCTTATGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12947390 original size:31 final size:30
Alignment explanation
Indices: 12947339--12947430 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
12947329 ATAAAAGTAA
* ** *
12947339 TTTTTATATTCGTACTAAATTGGAAATTTAT
1 TTTTTATATTCATA-TAAATTTAAAATTTAG
12947370 TTTTTATATTCATATGAAATTTAAAATTTAG
1 TTTTTATATTCATAT-AAATTTAAAATTTAG
*
12947401 TTTGTAT-TCTCATATAAAATTTAAAATTTA
1 TTTTTATAT-TCATAT-AAATTTAAAATTTA
12947431 ATCTCTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.04
31 51 0.96
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (30 bp):
TTTTTATATTCATATAAATTTAAAATTTAG
Found at i:12947597 original size:16 final size:14
Alignment explanation
Indices: 12947530--12947613 Score: 65
Period size: 14 Copynumber: 6.2 Consensus size: 14
12947520 TTTATTATAT
12947530 ATAA-TTAATTATTA
1 ATAATTTAA-TATTA
12947544 ATAATATT-ATATTA
1 ATAAT-TTAATATTA
*
12947558 ATAA--TATTATT-
1 ATAATTTAATATTA
*
12947569 ATCATTT-ATATTA
1 ATAATTTAATATTA
12947582 ATCAATTATAATATTA
1 AT-AATT-TAATATTA
12947598 ATAATTTAA-ATTA
1 ATAATTTAATATTA
12947611 ATA
1 ATA
12947614 TATCAAAGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
11 4 0.07
12 8 0.14
13 10 0.18
14 19 0.33
15 6 0.11
16 10 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
ATAATTTAATATTA
Found at i:12947604 original size:29 final size:25
Alignment explanation
Indices: 12947524--12947613 Score: 85
Period size: 26 Copynumber: 3.4 Consensus size: 25
12947514 TTAGTTTTTA
*
12947524 TTATATATAATTA-ATTATTAATAAT
1 TTATAT-TAATAATATTATTAATAAT
*
12947549 ATTATATTAATAATATTATT-ATCAT
1 -TTATATTAATAATATTATTAATAAT
12947574 TTATATTAATCAATTATAATATTAATAAT
1 TTATATTAAT-AA-TAT--TATTAATAAT
*
12947603 TTAAATTAATA
1 TTATATTAATA
12947614 TATCAAAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.19
25 11 0.20
26 15 0.28
28 5 0.09
29 13 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTATATTAATAATATTATTAATAAT
Found at i:12948535 original size:39 final size:39
Alignment explanation
Indices: 12948491--12948566 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
12948481 TGGTTGATTT
*
12948491 AGGTTTTAGAATTGGTTTAGGGTCTAGGTTAAGGTTTTA
1 AGGTTTTAGAATTGGTTTAGGATCTAGGTTAAGGTTTTA
*
12948530 AGGTTTTTGAATTGGTTTAGGATCTAGGTTAAGGTTT
1 AGGTTTTAGAATTGGTTTAGGATCTAGGTTAAGGTTT
12948567 AGGATTTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (39 bp):
AGGTTTTAGAATTGGTTTAGGATCTAGGTTAAGGTTTTA
Found at i:12948574 original size:7 final size:6
Alignment explanation
Indices: 12948543--12948721 Score: 69
Period size: 7 Copynumber: 28.0 Consensus size: 6
12948533 TTTTTGAATT
* * *
12948543 GGTTTA GGATCTA GGTTAA GGTTTA GGATTTA TGTTTTA GAGTTTAA GG-TTA
1 GGTTTA GG-TTTA GGTTTA GGTTTA GG-TTTA -GGTTTA G-GTTT-A GGTTTA
* * * *
12948595 GGATTT- GGTTAA GGTGTA GGGTTTA GGTTTA GATTTGG GGTTTA GAGTTT-
1 GG-TTTA GGTTTA GGTTTA -GGTTTA GGTTTA GGTTT-A GGTTTA G-GTTTA
* * * * *
12948645 GGTTTAA AGTTT- GGTTCA GGATTTA GGATTTA GATTTTA GGCTTAA AGTTTA
1 GGTTT-A GGTTTA GGTTTA GG-TTTA GG-TTTA G-GTTTA GG-TTTA GGTTTA
* *
12948697 GGTTTA GAGTTTG GGTTTT GGTTTA
1 GGTTTA G-GTTTA GGTTTA GGTTTA
12948722 AGAATTAGGA
Statistics
Matches: 128, Mismatches: 27, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
5 12 0.09
6 52 0.41
7 61 0.48
8 3 0.02
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (6 bp):
GGTTTA
Found at i:12948713 original size:13 final size:13
Alignment explanation
Indices: 12948615--12948838 Score: 87
Period size: 13 Copynumber: 17.5 Consensus size: 13
12948605 AAGGTGTAGG
12948615 GTTTAGGTTTAGA
1 GTTTAGGTTTAGA
*
12948628 -TTTGGGGTTTAGA
1 GTTT-AGGTTTAGA
*
12948641 GTTT-GGTTTAAA
1 GTTTAGGTTTAGA
*
12948653 GTTT-GGTTCAG-
1 GTTTAGGTTTAGA
12948664 GATTTAGGATTTAGA
1 G-TTTAGG-TTTAGA
* * *
12948679 TTTTAGGCTTAAA
1 GTTTAGGTTTAGA
12948692 GTTTAGGTTTAGA
1 GTTTAGGTTTAGA
* *
12948705 GTTTGGGTTTTG-
1 GTTTAGGTTTAGA
**
12948717 GTTTAAGAATTAG-
1 GTTT-AGGTTTAGA
*
12948730 GATTTA-GTTT-GG
1 G-TTTAGGTTTAGA
*
12948742 GTTTGGAGTTTA-A
1 GTTTAG-GTTTAGA
*
12948755 GCTTAAGGTTTA-A
1 G-TTTAGGTTTAGA
* *
12948768 GTTTTAGGTGTAAA
1 G-TTTAGGTTTAGA
* * *
12948782 TTTTATGTTTAAA
1 GTTTAGGTTTAGA
*
12948795 GTTTAGGTTT-TA
1 GTTTAGGTTTAGA
*
12948807 GTTTAAGGTTTACA
1 GTTT-AGGTTTAGA
12948821 G-TTAGGTTT-GA
1 GTTTAGGTTTAGA
12948832 GGTTTAG
1 -GTTTAG
12948839 AATTGGGATT
Statistics
Matches: 159, Mismatches: 34, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
11 6 0.04
12 41 0.26
13 90 0.57
14 22 0.14
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (13 bp):
GTTTAGGTTTAGA
Found at i:12948730 original size:32 final size:31
Alignment explanation
Indices: 12948694--12948771 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
12948684 GGCTTAAAGT
*
12948694 TTAGGTTTAGAGTTTGGGTTTTG-GTTTAAGAA
1 TTAGGTTTA-AGTTTGGGTTTGGAGTTTAAG-A
*
12948726 TTAGGATTT-AGTTTGGGTTTGGAGTTTAAGC
1 TTAGG-TTTAAGTTTGGGTTTGGAGTTTAAGA
12948757 TTAAGGTTTAAGTTT
1 TT-AGGTTTAAGTTT
12948772 TAGGTGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 17 0.43
32 20 0.50
33 3 0.08
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.47
Consensus pattern (31 bp):
TTAGGTTTAAGTTTGGGTTTGGAGTTTAAGA
Found at i:12950095 original size:9 final size:9
Alignment explanation
Indices: 12950081--12950111 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
12950071 TAAGACAGGA
12950081 AAAAAAAAG
1 AAAAAAAAG
12950090 AAAAAAAAG
1 AAAAAAAAG
12950099 AAAAAAAA-
1 AAAAAAAAG
12950107 AAAAA
1 AAAAA
12950112 CCCCACACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.23
9 17 0.77
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:12956950 original size:19 final size:19
Alignment explanation
Indices: 12956928--12957045 Score: 56
Period size: 19 Copynumber: 6.4 Consensus size: 19
12956918 TATTATTTAA
12956928 AATTTAAATTAAAAATATT
1 AATTTAAATTAAAAATATT
*
12956947 AATTT-AA-GAAAAATATT
1 AATTTAAATTAAAAATATT
12956964 ATATTTATGTATAATT-AAAATA-T
1 A-A--T-T-TA-AATTAAAAATATT
* *
12956987 AATTTATATTAAAAATAAT
1 AATTTAAATTAAAAATATT
*
12957006 -A-TT---TTATAAATATT
1 AATTTAAATTAAAAATATT
**
12957020 AAACTAAATTAAAAATATT
1 AATTTAAATTAAAAATATT
*
12957039 AAATTAA
1 AATTTAA
12957046 TTTTTGATTG
Statistics
Matches: 76, Mismatches: 8, Indels: 30
0.67 0.07 0.26
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 1 0.01
17 15 0.20
18 12 0.16
19 23 0.30
20 2 0.03
21 1 0.01
22 2 0.03
23 2 0.03
24 8 0.11
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.42
Consensus pattern (19 bp):
AATTTAAATTAAAAATATT
Found at i:12957001 original size:42 final size:41
Alignment explanation
Indices: 12956934--12957012 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
12956924 TTAAAATTTA
*
12956934 AATTAAAAATATTAATTTAAGAAAAATATTATATTTATGTAT
1 AATTAAAAATATTAATTTAAGAAAAATAATAT-TTTATGTAT
*
12956976 AATT-AAAATA-TAATTTATATTAAAAATAATATTTTAT
1 AATTAAAAATATTAATTTA-A-GAAAAATAATATTTTAT
12957013 AAATATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 7 0.21
41 12 0.36
42 14 0.42
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (41 bp):
AATTAAAAATATTAATTTAAGAAAAATAATATTTTATGTAT
Found at i:12957334 original size:31 final size:31
Alignment explanation
Indices: 12957293--12957368 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
12957283 AAAAATTAAC
* * *
12957293 AACTTGAATTT-GTTCAATTTAAATCCACAAT
1 AACTTGAATTTAATT-AATTCAAATCCAAAAT
*
12957324 AATTTGAATTTAATTAATTCAAATCCAAAAT
1 AACTTGAATTTAATTAATTCAAATCCAAAAT
*
12957355 AACTTGAATCTAAT
1 AACTTGAATTTAAT
12957369 AAATGAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (31 bp):
AACTTGAATTTAATTAATTCAAATCCAAAAT
Found at i:12962689 original size:17 final size:17
Alignment explanation
Indices: 12962669--12962702 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12962659 TAAATGTTAA
*
12962669 AATTTTTTAGTAAGTAG
1 AATTTTTTAATAAGTAG
12962686 AATTTTTTAATAAGTAG
1 AATTTTTTAATAAGTAG
12962703 CCTACTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (17 bp):
AATTTTTTAATAAGTAG
Found at i:12969839 original size:17 final size:18
Alignment explanation
Indices: 12969819--12969903 Score: 59
Period size: 21 Copynumber: 4.4 Consensus size: 18
12969809 TATGTAATAA
12969819 TTATCTTTATTTTATT-T
1 TTATCTTTATTTTATTAT
*
12969836 TTATCATTATTTACTATTTAT
1 TTATCTTTATTT--TA-TTAT
*
12969857 TTATCTTCATTTTATTACACTTT
1 TTATCTTTATTTTATT--A---T
12969880 TTAT-TTTA-TTTATTAT
1 TTATCTTTATTTTATTAT
12969896 TTATCTTT
1 TTATCTTT
12969904 TAGTAGAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
16 5 0.09
17 14 0.26
18 2 0.04
19 5 0.09
20 3 0.06
21 17 0.31
22 3 0.06
23 5 0.09
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATCTTTATTTTATTAT
Found at i:12971404 original size:21 final size:22
Alignment explanation
Indices: 12971370--12971410 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12971360 TACATTAATT
* *
12971370 TTCAATGTACTTTC-AGATTTC
1 TTCAATGAAATTTCAAGATTTC
12971391 TTCAATGAAATTTCAAGATT
1 TTCAATGAAATTTCAAGATT
12971411 CTTACATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (22 bp):
TTCAATGAAATTTCAAGATTTC
Found at i:12974599 original size:19 final size:17
Alignment explanation
Indices: 12974571--12974605 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
12974561 ATATTAAAAA
12974571 ACCTAAAAAAGCCCCAAG
1 ACCTAAAAAA-CCCCAAG
12974589 ACCTCAAAAAACCCCAA
1 ACCT-AAAAAACCCCAA
12974606 AAACCCTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.51, C:0.37, G:0.06, T:0.06
Consensus pattern (17 bp):
ACCTAAAAAACCCCAAG
Found at i:12979893 original size:15 final size:16
Alignment explanation
Indices: 12979848--12979893 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
12979838 TTAGGGTTTC
12979848 AAGG-TTTAGGATTTTA
1 AAGGTTTTA-GATTTTA
12979864 AAGGTTTT-GAGTTTT-
1 AAGGTTTTAGA-TTTTA
12979879 AAGGTTTTAGATTTT
1 AAGGTTTTAGATTTT
12979894 GGTTGAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 14 0.52
16 10 0.37
17 3 0.11
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (16 bp):
AAGGTTTTAGATTTTA
Found at i:12980178 original size:13 final size:13
Alignment explanation
Indices: 12980159--12980197 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
12980149 ATTTACTTAA
12980159 ATATATTAAAATT
1 ATATATTAAAATT
* *
12980172 TTATATTAAAATA
1 ATATATTAAAATT
*
12980185 ATATATAAAAATT
1 ATATATTAAAATT
12980198 GAAAAAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:12980442 original size:39 final size:38
Alignment explanation
Indices: 12980397--12980478 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
12980387 TGCAGTTTCG
* * * *
12980397 GGTTTTGGGGTTTAGGGTTTCAAAGTTTTAGGTTTTTAA
1 GGTTTTGGAGTTTAGAGTTTCAAAATTTT-GGATTTTAA
* *
12980436 GGTTTTGGATTTTAGAGTTTCAAAATTTTGGATTTTAG
1 GGTTTTGGAGTTTAGAGTTTCAAAATTTTGGATTTTAA
12980474 GGTTT
1 GGTTT
12980479 CAACGTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 12 0.32
39 25 0.68
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (38 bp):
GGTTTTGGAGTTTAGAGTTTCAAAATTTTGGATTTTAA
Found at i:12980464 original size:23 final size:23
Alignment explanation
Indices: 12980438--12980481 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
12980428 GTTTTTAAGG
12980438 TTTTGGATTTTAGAGTTTCAAAA
1 TTTTGGATTTTAGAGTTTCAAAA
*
12980461 TTTTGGATTTTAGGGTTTCAA
1 TTTTGGATTTTAGAGTTTCAA
12980482 CGTTTTAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (23 bp):
TTTTGGATTTTAGAGTTTCAAAA
Found at i:12980487 original size:23 final size:23
Alignment explanation
Indices: 12980422--12980487 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
12980412 GGTTTCAAAG
* * *
12980422 TTTTAGGTTTTTAAGGTTTTGGA
1 TTTTAGGGTTTCAAAGTTTTGGA
* *
12980445 TTTTAGAGTTTCAAAATTTTGGA
1 TTTTAGGGTTTCAAAGTTTTGGA
*
12980468 TTTTAGGGTTTCAACGTTTT
1 TTTTAGGGTTTCAAAGTTTT
12980488 AGGGTTCAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (23 bp):
TTTTAGGGTTTCAAAGTTTTGGA
Found at i:12980502 original size:15 final size:16
Alignment explanation
Indices: 12980467--12980519 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
12980457 AAAATTTTGG
*
12980467 ATTTTAGGGTTTCAAC
1 ATTTTAGGGTTTCAAA
*
12980483 GTTTTAGGG-TTCAAA
1 ATTTTAGGGTTTCAAA
*
12980498 ATTTTAGGGTTTCATA
1 ATTTTAGGGTTTCAAA
12980514 ATTTTA
1 ATTTTA
12980520 AGGTATCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTTTAGGGTTTCAAA
Found at i:12980519 original size:31 final size:32
Alignment explanation
Indices: 12980467--12980537 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
12980457 AAAATTTTGG
* *
12980467 ATTTTAGGGTTTCAACGTTTTAGGGT-TCAAA
1 ATTTTAGGGTTTCAACATTTTAAGGTATCAAA
*
12980498 ATTTTAGGGTTTCATA-ATTTTAAGGTATCAAG
1 ATTTTAGGGTTTCA-ACATTTTAAGGTATCAAA
*
12980530 GTTTTAGG
1 ATTTTAGG
12980538 TCTTAGGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.65
32 12 0.35
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.44
Consensus pattern (32 bp):
ATTTTAGGGTTTCAACATTTTAAGGTATCAAA
Found at i:12980897 original size:22 final size:22
Alignment explanation
Indices: 12980857--12980898 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12980847 TAAAGGAATT
**
12980857 TTTTATTTTTTAATTTATTTAA
1 TTTTATTTTTTAAAATATTTAA
12980879 TTTTATTTTTTAAAATATTT
1 TTTTATTTTTTAAAATATTT
12980899 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATTTTTTAAAATATTTAA
Found at i:12983736 original size:24 final size:24
Alignment explanation
Indices: 12983692--12983747 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
12983682 TGAAAGGCTG
*
12983692 AAAAAAAGAAAGAAACCAAACATG-T
1 AAAAAAAAAAAGAAA-CAAAC-TGCT
12983717 AAAAAAAAAAAGAAGA-AAACTGCT
1 AAAAAAAAAAAGAA-ACAAACTGCT
12983741 AAAAAAA
1 AAAAAAA
12983748 TTGAATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.07
24 12 0.43
25 13 0.46
26 1 0.04
ACGTcount: A:0.73, C:0.09, G:0.11, T:0.07
Consensus pattern (24 bp):
AAAAAAAAAAAGAAACAAACTGCT
Found at i:12987184 original size:77 final size:77
Alignment explanation
Indices: 12987057--12987212 Score: 294
Period size: 77 Copynumber: 2.0 Consensus size: 77
12987047 TTTCACACTT
*
12987057 TACACCAATTGATACGAATTTTATGTTTTCTCTCACATGTTTAAGTTACCAAAAAAATTTTATTG
1 TACACCAATTGATACGAATTTTACGTTTTCTCTCACATGTTTAAGTTACCAAAAAAATTTTATTG
12987122 TAATTTATTTGA
66 TAATTTATTTGA
*
12987134 TACACCAATTGATACGAATTTTACGTTTTCTCTCGCATGTTTAAGTTACCAAAAAAATTTTATTG
1 TACACCAATTGATACGAATTTTACGTTTTCTCTCACATGTTTAAGTTACCAAAAAAATTTTATTG
12987199 TAATTTATTTGA
66 TAATTTATTTGA
12987211 TA
1 TA
12987213 TTTTTGTTAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (77 bp):
TACACCAATTGATACGAATTTTACGTTTTCTCTCACATGTTTAAGTTACCAAAAAAATTTTATTG
TAATTTATTTGA
Found at i:12987769 original size:228 final size:228
Alignment explanation
Indices: 12987504--12987995 Score: 611
Period size: 227 Copynumber: 2.1 Consensus size: 228
12987494 ATTATTAACC
*
12987504 TAATCATTTATGTTACAATAATATTTTCTTACAGTTGTTCTTA-CCTCATTACATTTAGAATTGT
1 TAATTATTTATGTTACAATAATATTTTCTTACAGTTGTTCTTATCCTCATTACATTTAGAATTGT
*
12987568 TATAACTCTTTCTTAATGTATGTTACAACACT-TTTTA-CTCATTTTACGCCAAATGATACAAAT
66 TATAACTCTTT-TT-A-GTATGTTACAACA-TATTTTATC-CATTTTACACCAAATGATACAAAT
*
12987631 TTTACAATTTTCTCACTTGTTTACATTACCTATTTATTTTTTAATTTTTAACTA-TA-TATATA-
126 TTTACAATTTTCTCACTTGCTTACATTACCT-TTTATTTTTTAATTTTTAACTATTATTATATAT
* * * *
12987693 CA-AAAAATAATAATTAATTGAAATTTTATGCTACCTAGT
190 CATAAAAA-AATAATCAATTAAAAGTTTATGCTACCTACT
* ** **
12987732 TAATTATTTATATTACAATAATATTTTCTTACAGTTGTTCTTATTTTTCATTATGTTTAGAATTG
1 TAATTATTTATGTTACAATAATATTTTCTTACAGTTGTTCTTA-TCCTCATTACATTTAGAATTG
* ** **
12987797 TTATAACTCTTTTTAGTGTGTTATGACATATTTTATCCATTTTACATTAAATGATACAAATTTTA
65 TTATAACTCTTTTTAGTATGTTACAACATATTTTATCCATTTTACACCAAATGATACAAATTTTA
*** * * *
12987862 TGTTTTTTTCACTTGCTTACATTACCTTTTTTTTTTTAATTTTTAACTATTTTATTATATATTTA
130 CAATTTTCTCACTTGCTTACATTACCTTTTATTTTTTAATTTTTAACTA--TTATTATATA-TCA
* *
12987927 TAAAAAAATAATCAATTAAAAGTTTATGTTATCTACT
192 TAAAAAAATAATCAATTAAAAGTTTATGCTACCTACT
12987964 TAATTATTTATGTTACAATAATATTTTCTTAC
1 TAATTATTTATGTTACAATAATATTTTCTTAC
12987996 GTTTATTCTT
Statistics
Matches: 227, Mismatches: 26, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
226 22 0.10
227 62 0.27
228 43 0.19
229 4 0.02
230 34 0.15
232 57 0.25
233 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (228 bp):
TAATTATTTATGTTACAATAATATTTTCTTACAGTTGTTCTTATCCTCATTACATTTAGAATTGT
TATAACTCTTTTTAGTATGTTACAACATATTTTATCCATTTTACACCAAATGATACAAATTTTAC
AATTTTCTCACTTGCTTACATTACCTTTTATTTTTTAATTTTTAACTATTATTATATATCATAAA
AAAATAATCAATTAAAAGTTTATGCTACCTACT
Found at i:12988007 original size:232 final size:231
Alignment explanation
Indices: 12987234--12991134 Score: 1750
Period size: 232 Copynumber: 16.7 Consensus size: 231
12987224 CATTTACATG
** * *
12987234 AAAAATAATTAATTAAAATTTTACATTA-C-AGCTTAATTATTCA-GTTACAATAATATTTTCGT
1 AAAAATAATTAATTAAAATTTTATGTTATCTA-CTTAATTATTTATATTACAATAATATTTTC-T
* * * * * * * *
12987296 ATA-G-TTGTTCTTACATTAT-AATA-AGTTTATAATTGTCATAACTCTTTTTTATTATGTTATG
64 -TACGATTGTTCTTA-TTTTTCATTACA-TTTAGAATTATTATAACTC-TTTTTAGTGTGTTATG
* * * * * * * * **
12987357 ACACTTATTA-CTTATTTTACGTCAAATTATACAAATTTTATACTTTTTCTCACTTATTT-TGTT
125 ACA-TTTTTATC-CATTTTACATTAAATGATACTAATTTTAT-GTTTTTCTCACTTGTTTACATT
* * * *
12987420 AACTATTTGGTTTTTTTAAATTTTAGTTTTTTTCCTTATATATTTACTAA
187 ACCT-TTT--TTTTTTTAATTTTTAGCTATTTT-CTTATATATTTA-TAA
* * * ** * * *
12987470 GACAATAATTAATTTAAATTTTACATTAT-TAACCTAATCATTTATGTTACAATAATATTTTCTT
1 AAAAATAATTAATTAAAATTTTATGTTATCT-ACTTAATTATTTATATTACAATAATATTTTCTT
** * * **
12987534 AC-AGTTGTTCTTA--CCTCATTACATTTAGAATTGTTATAACTCTTTCTTAATGTATGTTACAA
65 ACGA-TTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTT-TT-A-GTGTGTTATGA
*** * ***
12987596 CACTTTTTA-CTCATTTTACGCCAAATGATACAAATTTTACAATTTTCTCACTTGTTTACATTAC
126 CA-TTTTTATC-CATTTTACATTAAATGATACTAATTTTATGTTTTTCTCACTTGTTTACATTAC
* * **
12987660 CTATTTATTTTTTAATTTTTAACTA------TATATATACA-AA
189 CT-TTTTTTTTTTAATTTTTAGCTATTTTCTTATATATTTATAA
* * * *
12987697 AAATAATAATTAATTGAAATTTTATGCTACCTAGTTAATTATTTATATTACAATAATATTTTCTT
1 AAA-AATAATTAATTAAAATTTTATGTTATCTACTTAATTATTTATATTACAATAATATTTTCTT
** *
12987762 AC-AGTTGTTCTTATTTTTCATTATGTTTAGAATTGTTATAACTCTTTTTAGTGTGTTATGACAT
65 ACGA-TTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTTTTAGTGTGTTATGACAT
* * *
12987826 ATTTTATCCATTTTACATTAAATGATACAAATTTTATGTTTTTTTCACTTGCTTACATTACCTTT
129 -TTTTATCCATTTTACATTAAATGATACTAATTTTATGTTTTTCTCACTTGTTTACATTACCTTT
* *
12987891 TTTTTTTTAATTTTTAACTATTTTATTATATATTTATAA
193 TTTTTTTTAATTTTTAGCTATTTTCTTATATATTTATAA
* * *
12987930 AAAAATAATCAATTAAAAGTTTATGTTATCTACTTAATTATTTATGTTACAATAATATTTTCTTA
1 AAAAATAATTAATTAAAATTTTATGTTATCTACTTAATTATTTATATTACAATAATATTTTCTTA
* * * *** * * *
12987995 CGTTTATTCTTATATTAT-ATTGTGTTTAGAATTATCT-TAACTC----T--T-TCTCAT--CAA
66 CGATTGTTCTTAT-TTTTCATTACATTTAGAATTAT-TATAACTCTTTTTAGTGTGTTATGACAT
* * * * * ** *
12988049 TTTTA--C--GTCA-AAT-AAT-ATA--AATTTTATATTTTTTCTTACTTGTTTATGTTATCTAT
129 TTTTATCCATTTTACATTAAATGATACTAATTTTAT-GTTTTTCTCACTTGTTTACATTACCT-T
* * * *
12988105 TTGTTTTGTAATTATTAGTTATTTTTCTTATATATTTATAA
192 TTTTTTTTTAATTTTTAGCTA-TTTTCTTATATATTTATAA
* * * * * *
12988146 AATCAATAATTAATTAAAATTTTATGTTGTTTACTTAAATATTTACATTACAATAATATATTCTT
1 AA-AAATAATTAATTAAAATTTTATGTTATCTACTTAATTATTTATATTACAATAATATTTTCTT
* * * * ** * *
12988211 A-TAGCTGTTCTTACTTTTT-ATTACGTTTAGAAGTACCATAACTCTTACTTAGTGTGTTACGAC
65 ACGA-TTGTTCTTA-TTTTTCATTACATTTAGAATTATTATAACTCTT-TTTAGTGTGTTATGAC
* **** * *
12988274 ACTTTTTTATCAATTTTATGGCAAATGATACTAATTTTATATTTCTTCTCATTTGTTTAGC-TTA
127 A--TTTTTATCCATTTTACATTAAATGATACTAATTTTATGTTT-TTCTCACTTGTTTA-CATTA
* * * * * * *
12988338 CCAATTTATCTTTAAATTTTTAGCTATTTTCTTACCATA--CA-AT
188 CC-TTTTTTTTTTTAATTTTTAGCTATTTTCTTA-TATATTTATAA
* * ** * * *
12988381 AACAATAATTAATTAAAACTTTACATTGTC-ATCATAATTATTTATATTACAATAATATATTTTT
1 AAAAATAATTAATTAAAATTTTATGTTATCTA-CTTAATTATTTATATTACAATAATAT-TTTCT
* * * * * * * * *
12988445 TATGATTGCTCTTACTTTTCAATACATTTAAAATTCTTATAA-TTTTTTTAGTGTGTTATAATAC
64 TACGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTTTTAGTGTGTTATGACA-
* * * * * * *
12988509 TTTTTACCCATTTTA-TTCTAAATGATATTACTTTTACGTTATTTCTCGCTTGTTTACATTATCA
128 TTTTTATCCATTTTACAT-TAAATGATACTAATTTTATGTT-TTTCTCACTTGTTTACATTA-CC
* * * * *
12988573 ATTTCTTTTCTAATTTTTAGCTATTTTCTTATATATTTACATG
190 TTTTTTTTTTTAATTTTTAGCTATTTTCTTATATATTTATA-A
* * * *
12988616 AACAATAATTAATTAAAACTTTATGTTATCAACATAATTATTTACT-TTACAATAATATTTTCTT
1 AAAAATAATTAATTAAAATTTTATGTTATCTACTTAATTATTTA-TATTACAATAATATTTTCTT
* * * * ** * * * * *
12988680 ATGGTTGTTTTTATTTTTTATTATGTTT-GAATTGTTATAACTTTTTTTAATGTGTCACGACACT
65 ACGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTTTTAGTGTGTTATGACA-T
* **** * * **
12988744 TTTTATTCATTTTATGCCAAATGATACTAATTTTATGTTAGTTT-TCACGTGTTTACGTTACCAA
129 TTTTATCCATTTTACATTAAATGATACTAATTTTATGTT--TTTCTCACTTGTTTACATTACCTT
* * * * * **
12988808 CTTATTTTT-ATTTCTAGTTATTTTCCTTAAATATTTGCAA
192 TTTTTTTTTAATTTTTAGCTATTTT-CTTATATATTTATAA
* * * * * *
12988848 AACAATAATTAATTAAAAATTTTCT-TTA-CTAATATAATTATTTACATTACAATAATATATTAT
1 AAAAATAATTAATT-AAAATTTTATGTTATCTACT-TAATTATTTATATTACAATAATATTTTCT
* * * * *
12988911 TACGATTGTTCTTA-ATTTCATTACATTTAGAATAATCATAACTTTTTTTAATGAAT-TAACTAT
64 TACGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTTTTAGTG--TGT---TA-
* * * * *
12988974 TAAGACAATTCTTA-CCTAGTTTACATTAAATGTTACT--TTTTACGTTTTTCTCACTTGTTTAT
123 T--GAC-ATTTTTATCC-ATTTTACATTAAATGATACTAATTTTATGTTTTTCTCACTTGTTTAC
* * * ** *
12989036 ATTACCAATATGTTTTTTAATTTTTAATTATTTTTCTTATATATTTA-CA
184 ATTACC-TTTTTTTTTTTAATTTTTAGCTA-TTTTCTTATATATTTATAA
* * *
12989085 AAAAATAATTAATTAAAATTTTATATT-TGTAACTTAATTATTTATGTTACAATAAT-TTCTT-T
1 AAAAATAATTAATTAAAATTTTATGTTATCT-ACTTAATTATTTATATTACAATAATATT-TTCT
** ** * * * * ** * * *
12989147 TCATAATTGTTCTTACCTTTAATTACGTTTGGAATCATCGTAACTTTTTTTTAGTGTATTGTGAC
64 T-ACGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAAC-TCTTTTTAGTGTGTTATGAC
* * * * * *
12989212 ACTTTTTAGCCATTTTACGTTAAATTATATTAATTTTGTGTTTTTCTCACTT-TTTACAGTACCT
127 A-TTTTTATCCATTTTACATTAAATGATACTAATTTTATGTTTTTCTCACTTGTTTACATTACCT
*
12989276 TTTTATTTTTCAATTTTTAGCTATTTTCTTTATATATTTA-AA
191 TTTT-TTTTTTAATTTTTAGCTATTTTC-TTATATATTTATAA
* ** * * * * *
12989318 AAATAATAATTAGTT-AAATTTTACATTA--TAATATAGTCATTTATGTTACAATAATATATTCT
1 AAA-AATAATTAATTAAAATTTTATGTTATCTACT-TAATTATTTATATTACAATAATATTTTCT
* * * * * * *
12989380 TA-GTATTATTCTTA-TTTTCATTACATTTAAAATTTTTATAACTCTTTCTTAATATGATATGAA
64 TACG-ATTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTT-TTAGTGTGTTATGAC
* **** * * * * *** *
12989443 ACTTTTA-CTCATTTTATGCCAAATAATATTACTTTTACGTTTTTCTCACTTGTTTATGGTATCA
127 ATTTTTATC-CATTTTACATTAAATGATACTAATTTTATGTTTTTCTCACTTGTTTACATTA-CC
* * * * *
12989507 ATTTATTTTTT-ATTTCTAACTATTTTCTTTATATATATATAA
190 TTTTTTTTTTTAATTTTTAGCTATTTTC-TTATATATTTATAA
* * * * * *
12989549 AAACAATAGTTAATTAAAATTTTGTATT-GCCA-TATAATTATTTATATTATAATAATATATTT-
1 AAA-AATAATTAATTAAAATTTTATGTTATCTACT-TAATTATTTATATTACAATAATAT-TTTC
* * * * * * *
12989611 TTATGATTGTTCTTATTTTCCATTACATTTAAAATT-TTCATAGCTTTTTCTTAGTATATTATGA
63 TTACGATTGTTCTTATTTTTCATTACATTTAGAATTATT-ATAACTCTTT-TTAGTGTGTTATGA
* * * ** *
12989675 CCCTTCTTATCCATTTTATATTAAATGATACTAATTTTA-CATTTT-TCACTTGTTTACATTA-T
126 -CATTTTTATCCATTTTACATTAAATGATACTAATTTTATGTTTTTCTCACTTGTTTACATTACC
**
12989737 TAATTTATTTTTTTAATTTTTAGCTATTTTTCTTGCATATTTATAA
190 T--TTT-TTTTTTTAATTTTTAGCTA-TTTTCTTATATATTTATAA
* * * * * **
12989783 GAATAATAATTAATTAAAATTTTATGATGTC-AATATAATTATTTACATTACAATAATGGTTTCT
1 -AAAAATAATTAATTAAAATTTTATGTTATCTACT-TAATTATTTATATTACAATAATATTTTCT
* * * * * * * * * *
12989847 TATGATTATTTTTACTTTTCATTATATTAAGAATTGTTATAATTTCTTCTTAATGTGTTATGACA
64 TACGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAA-CTCTTTTTAGTGTGTTATGACA
* * * ** * * *
12989912 CTTTTTA-CCTATTTTACTTTAAATGTTACAAATTTTACATTTGTGCTCTCTTGTTTATATTACC
128 -TTTTTATCC-ATTTTACATTAAATGATACTAATTTTATGTTT-TTCTCACTTGTTTACATTACC
* * * * *
12989976 AATTTATTTTTTAATTTCTCGCTATTTTCTTTAAATATTT-TCAA
190 -TTTTTTTTTTTAATTTTTAGCTATTTTC-TTATATATTTAT-AA
* * * *
12990020 AACAATAATTAATTAAAATTTTACT-TTA-CTAATATAATTATTTATGTTATAATAATATATGTT
1 AAAAATAATTAATTAAAATTTTA-TGTTATCTACT-TAATTATTTATATTACAATAATAT-T-TT
** ** * * * * * * * * **
12990083 GATA-G-TTGTTCTTCCTTTTAATTACGTTTAGAACTGTCATAACTCTTTTTGGTATATTACAAC
62 CTTACGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTTTTAGTGTGTTATGAC
** * * *** * *
12990146 AATTCATATACAATTTATGCTAAATGATACTAATATTATGTTTCTTCTAACTTGTTTA-AGTTAC
127 -ATTTTTATCCATTTTACATTAAATGATACTAATTTTATGTTT-TTCTCACTTGTTTACA-TTAC
* *
12990210 AAATATGTTTTTTTTTTTTTAATTTTTAGCTATTTTACTTTTATATTT-T-A
189 --------CTTTTTTTTTTTAATTTTTAGCTATTTT-CTTATATATTTATAA
* * * * ** * * *
12990260 AAAAATAATTAATTAAAAATTTAAGTT-TGTTATTTTGTTATTTATGTTACAATAATTTTTTTTT
1 AAAAATAATTAATTAAAATTTTATGTTAT-CTACTTAATTATTTATATTACAATAATATTTTCTT
* * * ** * * * *
12990324 ATCAATT-TTCTTATATTTAATTATGTTTAAAATTATAATAGCTCTTTCTTAGTGTGTTATGATA
65 A-CGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTT-TTAGTGTGTTATGACA
* * * * * * * * *
12990388 CTTTTTATCAATTTTATACTAAATCATACTCATTTTATGTGTTTTTTTACTTTTTTACATTACTT
128 -TTTTTATCCATTTTACATTAAATGATACTAATTTTATGT-TTTTCTCACTTGTTTACATTACCT
*
12990453 TTTTATTTTTTAATTTTTAGCTATTTTCTTTATATATTTTTAAA
191 TTTT-TTTTTTAATTTTTAGCTATTTTC-TTATATATTTAT-AA
* * * * * * * *
12990497 AAATAATAATTAGTTAAAATTTTATATTGTCAACATAATTATTTGTATTACAATATTATTTTTTT
1 AAA-AATAATTAATTAAAATTTTATGTTATCTACTTAATTATTTATATTACAATAATATTTTCTT
* * * * * * * * *
12990562 ACGATAG-GCTTTATCTTTCATTATATTTAGAATTGTCATAA-TCTTTTCTTAGTGTATTACGAT
65 ACGATTGTTC-TTATTTTTCATTACATTTAGAATTATTATAACTC-TTT-TTAGTGTGTTATGAC
* * * *
12990625 ATTTTT-TACTAATTTTAC-TTCAAATTATACTAATTTTATATTTCTT-TCCCCTTGTTTACATT
127 ATTTTTAT-C-CATTTTACATT-AAATGATACTAATTTTATGTTT-TTCT-CACTTGTTTACATT
* * * * *
12990687 A-GTAATTTATTTTTTAATTTATAGCTATTTTCATTGTATA--TACAA
187 ACCT--TTTTTTTTTTAATTTTTAGCTATTTTC-TTATATATTTATAA
* ** * * * *
12990732 AACAATAATTAATTAAAATTTTACATTGTC-ATCATAATTATTTATGTTATAATAATATATTT-T
1 AAAAATAATTAATTAAAATTTTATGTTATCTA-CTTAATTATTTATATTACAATAATAT-TTTCT
* * * * * * * *
12990795 TAC-ATTTGTTGTTACTTTTCAATACATTTAGAATTATCATAATTTCTTTTTAGTATATTATGAT
64 TACGA-TTGTTCTTATTTTTCATTACATTTAGAATTATTATAA-CTCTTTTTAGTGTGTTATGAC
* * * * * * * *
12990859 ACCTTTTATCCATTTTATATTAAATGATATTAATATTATATTTCTTTTCA-TCTATTT--A-TGC
127 A-TTTTTATCCATTTTACATTAAATGATACTAATTTTATGTTT-TTCTCACT-TGTTTACATTAC
* * * *
12990920 CATTTATATTTCTTTTAGTTATT-G-GATTTT-TTATATATTTATAGG
189 C-TTT-T-TTT-TTTTAATTTTTAGCTATTTTCTTATATATTTATA-A
* * * * *
12990965 AATAATAATTAATTAAAA-TTTAAGTTATCAACTTAATTATTTATATTTCAATAATATTTTTTTA
1 AAAAATAATTAATTAAAATTTTATGTTATCTACTTAATTATTTATATTACAATAATATTTTCTTA
** * * * * * * * **
12991029 TAATTATTTTTATATTTCATTACGTTTAGAATTTTTGTAA-TTTTTTTAAAGTGTTATGACACTT
66 CGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTTTTAGTGTGTTATGACA-TT
* ** *
12991093 TTAATATATTTTACAATAAATGATA-TAAATTTTATGATTTTT
130 TTTATCCATTTTACATTAAATGATACT-AATTTTATG-TTTTT
12991135 TTGTATTGCG
Statistics
Matches: 2827, Mismatches: 620, Indels: 442
0.73 0.16 0.11
Matches are distributed among these distances:
213 8 0.00
214 19 0.01
215 20 0.01
216 23 0.01
217 85 0.03
218 3 0.00
220 1 0.00
222 6 0.00
223 2 0.00
224 1 0.00
225 7 0.00
226 23 0.01
227 67 0.02
228 66 0.02
229 18 0.01
230 149 0.05
231 83 0.03
232 453 0.16
233 207 0.07
234 409 0.14
235 272 0.10
236 192 0.07
237 154 0.05
238 346 0.12
239 41 0.01
240 77 0.03
241 59 0.02
242 35 0.01
243 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (231 bp):
AAAAATAATTAATTAAAATTTTATGTTATCTACTTAATTATTTATATTACAATAATATTTTCTTA
CGATTGTTCTTATTTTTCATTACATTTAGAATTATTATAACTCTTTTTAGTGTGTTATGACATTT
TTATCCATTTTACATTAAATGATACTAATTTTATGTTTTTCTCACTTGTTTACATTACCTTTTTT
TTTTTAATTTTTAGCTATTTTCTTATATATTTATAA
Found at i:12988630 original size:235 final size:231
Alignment explanation
Indices: 12988078--12991094 Score: 1670
Period size: 234 Copynumber: 12.9 Consensus size: 231
12988068 AATTTTATAT
* ** * * * * * *
12988078 TTTTTCTTACTTGTTTATGTTATCTATTTGTTTTGTAATTATTAGTTATTTTTCTTATATATTTA
1 TTTTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTA-TTTTCTTATATATTTA
* ** * * *
12988143 TAAAATCAATAATTAATTAAAATTTTATGTTGT-TTACTTAAATATTTACATTACAATAATATA-
65 CAAAA-CAATAATTAATTAAAATTTTACATTGTCATA--TAATTATTTATATTACAATAATATAT
* * * * * *** ** *
12988206 TTCTTAT-AGCTGTTCTTACTTTTTATTACGTTTAGAAGTACCATAACTCTTACTTAGTGTGTTA
127 TTTTTATGA-TTGTTCTTA-TTTTCATTACATTTAGAATTGTTATAA-T-TTTTTTAGTGTATTA
* * * * **
12988270 CGACACTTTTTTATCAATTTTATGGC-AAATGATACTAATTTTATA
188 TGACAC-TTTTTACCCATTTTAT-TCTAAATGATACTAATTTTACG
* * * **
12988315 TTTCTTCTCATTTGTTTAGC-TTACCAATTTATCTTTAAATTTTTAGCTATTTTCTTA-CCA--T
1 TTT-TTCTCACTTGTTTA-CATTACCAATTTATTTTTTAATTTTTAGCTATTTTCTTATATATTT
*
12988376 ACAATAACAATAATTAATTAAAACTTTACATTGTCATCATAATTATTTATATTACAATAATATAT
64 ACAA-AACAATAATTAATTAAAATTTTACATTGTCAT-ATAATTATTTATATTACAATAATATAT
* * * * * *
12988441 TTTTTATGATTGCTCTTACTTTTCAATACATTTAAAATTCTTATAATTTTTTTAGTGTGTTATAA
127 TTTTTATGATTGTTCTTA-TTTTCATTACATTTAGAATTGTTATAATTTTTTTAGTGTATTATGA
* * *
12988506 TACTTTTTACCCATTTTATTCTAAATGATATTACTTTTACG
191 CACTTTTTACCCATTTTATTCTAAATGATACTAATTTTACG
* * * *
12988547 TTATTTCTCGCTTGTTTACATTATCAATTTCTTTTCTAATTTTTAGCTATTTTCTTATATATTTA
1 TT-TTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTCTTATATATTTA
* * ** * *
12988612 CATGAACAATAATTAATTAAAACTTTATGTTATCAACATAATTATTTACT-TTACAATAATAT-T
65 CA-AAACAATAATTAATTAAAATTTTACATTGTC-ATATAATTATTTA-TATTACAATAATATAT
* * * * ** * * * *
12988675 TTCTTATGGTTGTTTTTATTTTTTATTATGTTT-GAATTGTTATAACTTTTTTTAATGTGTCACG
127 TTTTTATGATTGTTCTTA-TTTTCATTACATTTAGAATTGTTATAA-TTTTTTTAGTGTATTATG
** * * *
12988739 ACACTTTTTATTCATTTTATGCCAAATGATACTAATTTTATG
190 ACACTTTTTACCCATTTTATTCTAAATGATACTAATTTTACG
* * * * * *
12988781 TTAGTTT-TCACGTGTTTACGTTACCAACTTA-TTTTT-ATTTCTAGTTATTTTCCTTAAATATT
1 TT--TTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTT-CTTATATATT
* * * * *
12988843 TGCAAAACAATAATTAATTAAAAATTTT-CTTTACTAATATAATTATTTACATTACAATAATATA
63 TACAAAACAATAATTAATT-AAAATTTTACATT-GTCATATAATTATTTATATTACAATAATATA
* * * ** * *
12988907 -TTATTACGATTGTTCTTAATTTCATTACATTTAGAATAATCATAACTTTTTTTAATGAATTAAC
126 TTTTTTATGATTGTTCTTATTTTCATTACATTTAGAATTGTTATAA-TTTTTTT-A-G---T--G
* * * * * * *
12988971 TATTAAGACAATTCTTACCTAGTTTACAT-TAAATGTTACT--TTTTACG
183 TATTATGACACTTTTTACCCATTTTA-TTCTAAATGATACTAATTTTACG
* * * **
12989018 TTTTTCTCACTTGTTTATATTACCAATATGTTTTTTAATTTTTAATTATTTTTCTTATATATTTA
1 TTTTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTA-TTTTCTTATATATTTA
* * *
12989083 CAAAA-AATAATTAATTAAAATTTTATATTTGTAACT-TAATTATTTATGTTACAATAAT-T-TC
65 CAAAACAATAATTAATTAAAATTTTACA-TTGTCA-TATAATTATTTATATTACAATAATATAT-
* * * * * * ** ** *
12989144 TTTTCATAATTGTTCTTACCTTTAATTACGTTTGGAATCATCGTAACTTTTTTTTAGTGTATTGT
127 TTTTTATGATTGTTCTTA-TTTTCATTACATTTAGAATTGTTATAA--TTTTTTTAGTGTATTAT
* * * * **
12989209 GACACTTTTTAGCCATTTTACGT-TAAATTATATTAATTTTGTG
189 GACACTTTTTACCCATTTTA-TTCTAAATGATACTAATTTTACG
* ** *
12989252 TTTTTCTCACTT-TTTACAGTACCTTTTTATTTTTCAATTTTTAGCTATTTTCTTTATATATTTA
1 TTTTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTC-TTATATATTTA
* * * * * * * * *
12989316 AAAAATAATAATTAGTT-AAATTTTACATTATAATATAGTCATTTATGTTACAATAATATA-TTC
65 CAAAACAATAATTAATTAAAATTTTACATTGTCATATAATTATTTATATTACAATAATATATTTT
* * * * * *
12989379 TTA-GTATTATTCTTATTTTCATTACATTTAAAATTTTTATAACTCTTTCTTAATATGA-TATGA
130 TTATG-ATTGTTCTTATTTTCATTACATTTAGAATTGTTATAA-T-TTTTTTAGTGT-ATTATGA
* * * * * * *
12989442 AAC-TTTTACTCATTTTATGCCAAATAATATTACTTTTACG
191 CACTTTTTACCCATTTTATTCTAAATGATACTAATTTTACG
*** * * *
12989482 TTTTTCTCACTTGTTTATGGTATCAATTTATTTTTT-ATTTCTAACTATTTTCTTTATATATATA
1 TTTTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTC-TTATATAT-T-
* ** * *
12989546 TA-AAAACAATAGTTAATTAAAATTTTGTATTGCCATATAATTATTTATATTATAATAATATA-T
63 TACAAAACAATAATTAATTAAAATTTTACATTGTCATATAATTATTTATATTACAATAATATATT
* * *
12989609 TTTTATGATTGTTCTTATTTTCCATTACATTTAAAATT-TTCATAGCTTTTTCTTAGTATATTAT
128 TTTTATGATTGTTCTTATTTT-CATTACATTTAGAATTGTT-ATA-ATTTTT-TTAGTGTATTAT
* * *
12989673 GACCCTTCTTATCCATTTTATAT-TAAATGATACTAATTTTAC-
189 GACACTTTTTACCCATTTTAT-TCTAAATGATACTAATTTTACG
* ** **
12989715 ATTTT-TCACTTGTTTACATTATTAATTTATTTTTTTAATTTTTAGCTATTTTTCTTGCATATTT
1 TTTTTCTCACTTGTTTACATTACCAATTTA-TTTTTTAATTTTTAGCTA-TTTTCTTATATATTT
* * * * **
12989779 ATAAGAATAATAATTAATTAAAATTTTATGA-TGTCAATATAATTATTTACATTACAATAAT-GG
64 ACAA-AACAATAATTAATTAAAATTTTA-CATTGTC-ATATAATTATTTATATTACAATAATATA
* * * * * * *
12989842 TTTCTTATGATTATTTTTACTTTTCATTATATTAAGAATTGTTATAATTTCTTCTTAATGTGTTA
126 TTTTTTATGATTGTTCTTA-TTTTCATTACATTTAGAATTGTTATAATTT-TT-TTAGTGTATTA
* * * *
12989907 TGACACTTTTTACCTATTTTACTT-TAAATGTTACAAATTTTACA
188 TGACACTTTTTACCCATTTTA-TTCTAAATGATACTAATTTTACG
* * * * * *
12989951 TTTGTGCTCTCTTGTTTATATTACCAATTTATTTTTTAATTTCTCGCTATTTTCTTTAAATATTT
1 TTT-TTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTC-TTATATATTT
* * * * * *
12990016 TCAAAACAATAATTAATTAAAATTTTACTTTACTAATATAATTATTTATGTTATAATAATATA-T
64 ACAAAACAATAATTAATTAAAATTTTACATT-GTCATATAATTATTTATATTACAATAATATATT
* * * * * * * * * * **
12990080 GTTGAT-AGTTGTTCTTCCTTTTAATTACGTTTAGAACTGTCATAACTCTTTTTGGTATATTACA
128 TTTTATGA-TTGTTCTT-ATTTTCATTACATTTAGAATTGTTATAA-TTTTTTTAGTGTATTATG
* ** ** * * * *
12990144 ACAATTCATATACAATTTATGCTAAATGATACTAATATTATG
190 ACACTTTTTACCCATTTTATTCTAAATGATACTAATTTTACG
* * *
12990186 TTTCTTCTAACTTGTTTA-AGTTACAAATATGTTTTTTTTTTTTTAATTTTTAGCTATTTTACTT
1 TTT-TTCTCACTTGTTTACA-TTAC-CA-A-----TTTATTTTTTAATTTTTAGCTATTTT-CTT
* * * * * ** *
12990250 TTATATTT-TAAAA-AATAATTAATTAAAAATTTA-AGTTTGTTATTTTGTTATTTATGTTACAA
56 ATATATTTACAAAACAATAATTAATTAAAATTTTACA--TTGTCATATAATTATTTATATTACAA
* * * ** * * * * *
12990312 TAAT-TTTTTTTTATCAATT-TTCTTATATTTAATTATGTTTAAAATTATAATAGCTCTTTCTTA
119 TAATATATTTTTTAT-GATTGTTCTTAT-TTTCATTACATTTAGAATTGTTATA-AT-TTTTTTA
* * * * * * * *
12990375 GTGTGTTATGATACTTTTTATCAATTTTATACTAAATCATACTCATTTTATG
180 GTGTATTATGACACTTTTTACCCATTTTATTCTAAATGATACTAATTTTACG
* * * ***
12990427 TGTTTTTTTACTTTTTTACATTACTTTTTTATTTTTTAATTTTTAGCTATTTTCTTTATATATTT
1 T-TTTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTC-TTATATA--T
* * * * * * *
12990492 TTAAAAAATAATAATTAGTTAAAATTTTATATTGTCAACATAATTATTTGTATTACAATATTAT-
62 TTACAAAACAATAATTAATTAAAATTTTACATTGTC-ATATAATTATTTATATTACAATAATATA
* * * * *
12990556 TTTTTTACGATAG-GCTTTATCTTTCATTATATTTAGAATTGTCATAATCTTTTCTTAGTGTATT
126 TTTTTTATGATTGTTC-TTAT-TTTCATTACATTTAGAATTGTTATAAT-TTTT-TTAGTGTATT
* * * ** * **
12990620 ACGATATTTTTTACTAATTTTACTTC-AAATTATACTAATTTTATA
187 ATGACACTTTTTACCCATTTTA-TTCTAAATGATACTAATTTTACG
* ** * *
12990665 TTTCTT-TCCCCTTGTTTACATTAGTAATTTATTTTTTAATTTATAGCTATTTTCATTGTATA--
1 TTT-TTCT-CACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTC-TTATATATT
* *
12990727 TACAAAACAATAATTAATTAAAATTTTACATTGTCATCATAATTATTTATGTTATAATAATATA-
63 TACAAAACAATAATTAATTAAAATTTTACATTGTCAT-ATAATTATTTATATTACAATAATATAT
* * * * * *
12990791 TTTTTA-CATTTGTTGTTACTTTTCAATACATTTAGAATTATCATAATTTCTTTTTAGTATATTA
127 TTTTTATGA-TTGTTCTTA-TTTTCATTACATTTAGAATTGTTATAA-TT-TTTTTAGTGTATTA
* * * * * **
12990855 TGATACCTTTTATCCATTTTATAT-TAAATGATATTAATATTATA
188 TGACACTTTTTACCCATTTTAT-TCTAAATGATACTAATTTTACG
* * * * * * *
12990899 TTTCTTTTCA-TCTATTT--A-TGCCATTTATATTTCTTTTAGTTATT-G-GATTTT-TTATATA
1 TTT-TTCTCACT-TGTTTACATTACCAATT-TA-TT-TTTTAATTTTTAGCTATTTTCTTATATA
* * * * *
12990957 TTTATAGGAATAATAATTAATTAAAA-TTTA-AGTTATCA-ACTTAATTATTTATATTTCAATAA
61 TTTACA-AAACAATAATTAATTAAAATTTTACA-TTGTCATA--TAATTATTTATATTACAATAA
* * * * * * ** *
12991019 TAT-TTTTTTATAATTATTTTTATATTTCATTACGTTTAGAATTTTTGTAATTTTTTTAAAGTGT
122 TATATTTTTTATGATTGTTCTTAT-TTTCATTACATTTAGAATTGTTATAATTTTTTTAGTGTAT
12991083 TATGACACTTTT
186 TATGACACTTTT
12991095 AATATATTTT
Statistics
Matches: 2148, Mismatches: 487, Indels: 297
0.73 0.17 0.10
Matches are distributed among these distances:
230 88 0.04
231 84 0.04
232 389 0.18
233 176 0.08
234 422 0.20
235 261 0.12
236 128 0.06
237 124 0.06
238 260 0.12
239 43 0.02
240 72 0.03
241 65 0.03
242 35 0.02
243 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (231 bp):
TTTTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTCTTATATATTTAC
AAAACAATAATTAATTAAAATTTTACATTGTCATATAATTATTTATATTACAATAATATATTTTT
TATGATTGTTCTTATTTTCATTACATTTAGAATTGTTATAATTTTTTTAGTGTATTATGACACTT
TTTACCCATTTTATTCTAAATGATACTAATTTTACG
Found at i:12989691 original size:464 final size:467
Alignment explanation
Indices: 12988078--12990112 Score: 1164
Period size: 469 Copynumber: 4.3 Consensus size: 467
12988068 AATTTTATAT
* * * * * * **
12988078 TTTTTCTTACTTGTTTATGTTATCTATTTGTTTTGTAATTAT-TAGTTATTTT-TCTTATATATT
1 TTTTTCTCACTTGTTTATATTACCAATTTATTTTTTAATT-TCTAACTATTTTCT-TTATATATT
* ** * ** *
12988141 TATAAAATCAATAATTAATTAAAATTTTATGTTG-TTTACTTAAATATTTACATTACAATAATAT
64 TA-AAAA-CAATAATTAATTAAAATTTTATATTGCAATA--TAATTATTTATGTTATAATAATAT
** * * * * * * * * *
12988205 ATTCTT-ATAGCTGTTCTTACTTTTTATTACGTTTAGAAGT-ACCATAACTCTTACTTAGTGTGT
125 ATT-TTCATAATTGTTCTTACCTTTAATTACATTTA-AAATCATCATAACTTTTTCTTAGTATAT
* * * * **** * *
12988268 TACGACACTTTTTTATCAATTTTATGGCAAATGATACTAATTTTATATTTCTTCTCATTTGTTTA
188 TATGACAC-TTCTTAGCCATTTTACATTAAATGATACTAATTTTACA-TT-TT-TCACTTGTTTA
* ** * * * * * *
12988333 GC-TTACCAATTTA-TCTTTAAATTTTTAGCTA-TTTTCTTAC-CA--TACAATAACAATAATTA
249 -CAGTA-TTATTTATTTTTTCAATTTTTAGCTATTTTTCTTACATATTTATAAAAATAATAATTA
* * * * * **
12988392 ATTAAAACTTTA-CATTGTC-ATCATAATTATTTATATTACAATAATATATTTTTTATGATTGCT
312 ATTAAAATTTTATCA-TGTCAAT-ATAATCATTTACATTACAATAAT-GATTTCTTATGATTATT
* * * * * *
12988455 CTTACTTTTCAATACATTTAA-AATTCTTATAAT-T-TTTTTAGTGTGTTAT-AATACTTTTTAC
374 CTTACTTTTCATTACA-TTAAGAATTGTTATAATCTCTTCTTAATATGATATGAA-ACTTTTTAC
* * * *
12988516 CCATTTTATTCTAAATGATATTACTTTTACG
437 CTATTTTACTCCAAATAATATTACTTTTACG
* * * * * * *
12988547 TTATTTCTCGCTTGTTTACATTATCAATTTCTTTTCTAATTTTTAGCTATTTTC-TTATATATTT
1 TT-TTTCTCACTTGTTTATATTACCAATTTATTTTTTAATTTCTAACTATTTTCTTTATATATTT
* * * * * *
12988611 ACATGAACAATAATTAATTAAAACTTTATGTTATCAACATAATTATTTACT-TTACAATAATAT-
65 A-A-AAACAATAATTAATTAAAATTTTATATT-GCAATATAATTATTTA-TGTTATAATAATATA
* ** * ** * ** * ** * * * * *
12988674 TTTCTTATGGTTGTTTTTATTTTTTATTATGTTT-GAATTGTTATAACTTTTT-TTAATGTGTCA
126 TTT-TCATAATTGTTCTTACCTTTAATTACATTTAAAATCATCATAACTTTTTCTTAGTATATTA
* * ** **** * * *
12988737 CGACACTTTTTATTCATTTTATGCCAAATGATACTAATTTTATGTTAGTTTTCACGTGTTTAC-G
190 TGACACTTCTTAGCCATTTTACATTAAATGATACTAATTTTA---CATTTTTCACTTGTTTACAG
** * * * * * ** *
12988801 TTACCAACTTA-TTTTT--ATTTCTAGTTATTTTCCTTAAATATTT-GCAAAACAATAATTAATT
252 -TA-TTATTTATTTTTTCAATTTTTAGCTATTTTTCTTACATATTTATAAAAATAATAATTAATT
* * * * * *
12988862 AAAAATTT-TC-TTTACTAATATAATTATTTACATTACAATAAT-ATATTATTACGATTGTTCTT
315 AAAATTTTATCATGT-C-AATATAATCATTTACATTACAATAATGAT-TTCTTATGATTATTCTT
* * ** * * * * * *
12988924 A-ATTTCATTACATTTAGAATAATCATAA-CTTTTTTTAATGAATTAACTATTAAGACAATTCTT
377 ACTTTTCATTACATTAAGAATTGTTATAATCTCTTCTTAAT--A-TGA-TATGAA-AC--TTTTT
* * *
12988987 ACCTAGTTTA---C-ATTAAATGTTACTTTTTACG
435 ACCTATTTTACTCCAAAT-AATATTAC-TTTTACG
* * * *
12989018 TTTTTCTCACTTGTTTATATTACCAATATGTTTTTTAATTTTTAATTATTTT-TCTTATATATTT
1 TTTTTCTCACTTGTTTATATTACCAATTTATTTTTTAATTTCTAACTATTTTCT-TTATATATTT
* * * *
12989082 ACAAAA-AATAATTAATTAAAATTTTATATTTGTAACT-TAATTATTTATGTTACAATAATTTCT
65 A-AAAACAATAATTAATTAAAATTTTATA-TTGCAA-TATAATTATTTATGTTATAATAATATAT
* ** * * * *
12989145 TTTCATAATTGTTCTTACCTTTAATTACGTTTGGAATCATCGTAACTTTTTTTTAGTGTATTGTG
127 TTTCATAATTGTTCTTACCTTTAATTACATTTAAAATCATCATAACTTTTTCTTAGTATATTATG
* * * * ***
12989210 ACACTTTTTAGCCATTTTACGTTAAATTATATTAATTTTGTGTTTTTCTCACTT-TTTACAGTAC
192 ACACTTCTTAGCCATTTTACATTAAATGATACTAATTTT-ACATTTT-TCACTTGTTTACAGTA-
* *
12989274 CTT-TTTA-TTTTTCAATTTTTAGCTA-TTTTCTTTATATATTTA-AAAAATAATAATTAGTT-A
254 -TTATTTATTTTTTCAATTTTTAGCTATTTTTC-TTACATATTTATAAAAATAATAATTAATTAA
* * **
12989334 AATTTTA-CAT-TATAATATAGTCATTTATGTTACAATAAT-ATATTCTTA-GTATTATTCTTA-
317 AATTTTATCATGT-CAATATAATCATTTACATTACAATAATGAT-TTCTTATG-ATTATTCTTAC
*
12989394 TTTTCATTACATTTAA-AATTTTTATAA-CTCTTTCTTAATATGATATGAAAC-TTTTA-CTCAT
379 TTTTCATTACA-TTAAGAATTGTTATAATCTC-TTCTTAATATGATATGAAACTTTTTACCT-AT
12989455 TTTA-TGCCAAATAATATTACTTTTACG
441 TTTACT-CCAAATAATATTACTTTTACG
** *
12989482 TTTTTCTCACTTGTTTATGGTATCAATTTATTTTTT-ATTTCTAACTATTTTCTTTATATATATA
1 TTTTTCTCACTTGTTTATATTACCAATTTATTTTTTAATTTCTAACTATTTTCTTTATATAT-T-
* * * *
12989546 TAAAAACAATAGTTAATTAAAATTTTGTATTGCCATATAATTATTTATATTATAATAATATATTT
64 TAAAAACAATAATTAATTAAAATTTTATATTGCAATATAATTATTTATGTTATAATAATATATTT
* * * * ** *
12989611 TTATGATTGTTCTTA-TTTTCCATTACATTTAAAATTTTCATAGCTTTTTCTTAGTATATTATGA
129 TCATAATTGTTCTTACCTTT-AATTACATTTAAAATCATCATAACTTTTTCTTAGTATATTATGA
* * * *
12989675 CCCTTCTTATCCATTTTATATTAAATGATACTAATTTTACATTTTTCACTTGTTTACATTATTAA
193 CACTTCTTAGCCATTTTACATTAAATGATACTAATTTTACATTTTTCACTTGTTTACAGTATT-A
* * *
12989740 TTTATTTTTTTAATTTTTAGCTATTTTTCTTGCATATTTATAAGAATAATAATTAATTAAAATTT
257 TTTATTTTTTCAATTTTTAGCTATTTTTCTTACATATTTATAAAAATAATAATTAATTAAAATTT
* * * *
12989805 TATGATGTCAATATAATTATTTACATTACAATAATGGTTTCTTATGATTATTTTTACTTTTCATT
322 TATCATGTCAATATAATCATTTACATTACAATAATGATTTCTTATGATTATTCTTACTTTTCATT
* * * * * **
12989870 ATATTAAGAATTGTTATAATTTCTTCTTAATGTGTTATGACACTTTTTACCTATTTTACTTTAAA
387 ACATTAAGAATTGTTATAATCTCTTCTTAATATGATATGAAACTTTTTACCTATTTTACTCCAAA
** ** * *
12989935 TGTTACAAATTTTACA
452 TAATATTACTTTTACG
* * ** *
12989951 TTTGTGCTCTCTTGTTTATATTACCAATTTATTTTTTAATTTCTCGCTATTTTCTTTAAATATTT
1 TTT-TTCTCACTTGTTTATATTACCAATTTATTTTTTAATTTCTAACTATTTTCTTTATATA-TT
* *
12990016 TCAAAACAATAATTAATTAAAATTTTACT-TTACTAATATAATTATTTATGTTATAATAATATAT
64 TAAAAACAATAATTAATTAAAATTTTA-TATTGC-AATATAATTATTTATGTTATAATAATATAT
* * * *
12990080 GTTGATAGTTGTTCTT-CCTTTTAATTACGTTTA
127 TTTCATAATTGTTCTTACC-TTTAATTACATTTA
12990113 GAACTGTCAT
Statistics
Matches: 1240, Mismatches: 235, Indels: 180
0.75 0.14 0.11
Matches are distributed among these distances:
461 4 0.00
462 15 0.01
463 41 0.03
464 187 0.15
465 82 0.07
466 94 0.08
467 110 0.09
468 58 0.05
469 259 0.21
470 202 0.16
471 172 0.14
472 4 0.00
473 12 0.01
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (467 bp):
TTTTTCTCACTTGTTTATATTACCAATTTATTTTTTAATTTCTAACTATTTTCTTTATATATTTA
AAAACAATAATTAATTAAAATTTTATATTGCAATATAATTATTTATGTTATAATAATATATTTTC
ATAATTGTTCTTACCTTTAATTACATTTAAAATCATCATAACTTTTTCTTAGTATATTATGACAC
TTCTTAGCCATTTTACATTAAATGATACTAATTTTACATTTTTCACTTGTTTACAGTATTATTTA
TTTTTTCAATTTTTAGCTATTTTTCTTACATATTTATAAAAATAATAATTAATTAAAATTTTATC
ATGTCAATATAATCATTTACATTACAATAATGATTTCTTATGATTATTCTTACTTTTCATTACAT
TAAGAATTGTTATAATCTCTTCTTAATATGATATGAAACTTTTTACCTATTTTACTCCAAATAAT
ATTACTTTTACG
Found at i:12990005 original size:701 final size:695
Alignment explanation
Indices: 12988319--12990079 Score: 1707
Period size: 701 Copynumber: 2.5 Consensus size: 695
12988309 TTTATATTTC
* * * * * * *
12988319 TTCTCATTTGTTTAGC-TTACCAATTTATCTTTAAATTTTTAGCTA-TTTTCTTAC-CA--TACA
1 TTCTCACTTGTTTA-CATTACCAATATGTTTTTTAATTTTTAACTATTTTTCTTACATATTTACA
* *
12988379 ATAACAATAATTAATTAAAACTTTACATTGTC-ATCATAATTATTTATATTACAATAATATATTT
65 A-AA-AATAATTAATTAAAATTTTATATTGTCAAT-ATAATTATTTATATTACAAT-A-AT-TTT
* * * * *
12988443 TTTATGATTGCTCTTACTTTTCAATACATTTAA-AATTCTTATAATTTTTTTAGTGTGTTATAAT
124 TTTATGATTGTTCTTACTTTTCATTACA-TTAAGAATTATTATAATTTTTTTAGTGTGTTATGAC
* * * *
12988507 ACTTTTTACCCATTTTA-TTCTAAATGATATTACTTTTACGTTATTTCTCGCTTGTTTACATTAT
188 ACTTTTTA-CCATTTTACTT-TAAATGTTATTAATTTTACGTT-TTTCTCACTTGTTTACATTAC
* * ** *
12988571 CAATTTCTTTTCTAATTTTTAGCTATTTTC-TTATATATTTACATGAACAATAATTAATTAAAAC
250 CAATTTATTTTTTAATTTTTAGCTATTTTCTTTATATATTTA-AAAAACAATAATTAATTAAAAT
** * * * * * *
12988635 TTTATGTTATCAACATAATTATTTACT-TTACAATAATATTTTCTTATGGTTGTTTTTATTTTTT
314 TTTACATTAT-AATATAATTATTTA-TGTTACAATAATATATTCTTATGATTATTCTTATTTTTC
** * * * * *
12988699 ATTATGTTTGAATTGTTATAACTTTTTTTAATGTGTCACGACACTTTTTATTCATTTTATGCCAA
377 ATTACATTTAAATTGTTATAACTTTTCTTAATATGTCACGAAACTTTTTACTCATTTTATGCCAA
* * * **
12988764 ATGATACTAATTTTATGTTAGTTTTCACGTGTTTACGTTACCAACTTATTTTTATTTCTAGTTAT
442 ATAATACTAATTTTACGTTA-TTTTCACGTGTTTACGGTACCAACTTATTTTTATTTCTAACTAT
* *
12988829 TTTCCTTAAATATTTGCAAAACAATAATTAATTAAAAATTTTCTTTACTAATATAATTATTTACA
506 TTTCCTTAAATATATGAAAAACAATAATTAATTAAAAATTTTCTTTACTAATATAATTATTTACA
*
12988894 TTACAATAATATATTATTACGATTGTTCTTAATTTCATTACATTTAGAATAATCATAACTTTTTT
571 TTACAATAATATATTATTACGATTGTTCTTAATTTCATTACATTTAAAATAATCATAACTTTTTT
* *
12988959 TAATGAATTAACTATTAAGACAATTCTTACCTAGTTTACATTAAATGTTACTTTTTACGTTT
636 TAATG-A-TAACTATTAAGACAATTCTTACCTAGTTTACATTAAATGATACTTTTTACGATT
* * *
12989021 TTCTCACTTGTTTATATTACCAATATGTTTTTTAATTTTTAATTATTTTTCTTATATATTTACAA
1 TTCTCACTTGTTTACATTACCAATATGTTTTTTAATTTTTAACTATTTTTCTTACATATTTACAA
*
12989086 AAAATAATTAATTAAAATTTTATATTTGT-AACT-TAATTATTTATGTTACAATAATTTCTTTTC
66 AAAATAATTAATTAAAATTTTATA-TTGTCAA-TATAATTATTTATATTACAATAATTT-TTTT-
* * * * ** * ** * *
12989149 ATAATTGTTCTTACCTTTAATTACGTTTGGAATCATCGTAACTTTTTTTTAGTGTATTGTGACAC
127 ATGATTGTTCTTACTTTTCATTACATTAAGAATTATTATAA--TTTTTTTAGTGTGTTATGACAC
* ** * **
12989214 TTTTTAGCCATTTTACGTTAAAT-TATATTAATTTTGTGTTTTTCTCACTT-TTTACAGTACCTT
190 TTTTTA-CCATTTTACTTTAAATGT-TATTAATTTTACGTTTTTCTCACTTGTTTACATTACCAA
* * *
12989277 TTTATTTTTCAATTTTTAGCTATTTTCTTTATATATTTAAAAAATAATAATTAGTT-AAATTTTA
253 TTTATTTTTTAATTTTTAGCTATTTTCTTTATATATTTAAAAAACAATAATTAATTAAAATTTTA
* *
12989341 CATTATAATATAGTCATTTATGTTACAATAATATATTCTTA-GTATTATTCTTA-TTTTCATTAC
318 CATTATAATATAATTATTTATGTTACAATAATATATTCTTATG-ATTATTCTTATTTTTCATTAC
* *
12989404 ATTTAAAATTTTTATAACTCTTTCTTAATATGAT-ATGAAAC-TTTTACTCATTTTATGCCAAAT
382 ATTT-AAATTGTTATAACT-TTTCTTAATATG-TCACGAAACTTTTTACTCATTTTATGCCAAAT
* * * * * *
12989467 AATATTACTTTTACGTT-TTTCTCACTTGTTTATGGTATCAATTTATTTTTTATTTCTAACTATT
444 AATACTAATTTTACGTTATTT-TCACGTGTTTACGGTACCAACTTA-TTTTTATTTCTAACTATT
* * * * *
12989531 TTCTTTATATATATAT-AAAAACAATAGTTAATT-AAAATTTTGTATTGC-CATATAATTATTTA
507 TTCCTTA-A-ATATATGAAAAACAATAATTAATTAAAAATTTTCT-TTACTAATATAATTATTTA
* * * * * ** *
12989593 TATTATAATAATATATTTTTATGATTGTTCTTATTTTCCATTACATTTAAAATTTTCATAGCTTT
569 CATTACAATAATATATTATTACGATTGTTCTTAATTT-CATTACATTTAAAATAATCATAACTTT
* ** * *
12989658 TTCTT-A-G-T-A-TATTATGACCCTTCTTATCC-ATTTTATATTAAATGATACTAATTTTAC-A
633 TT-TTAATGATAACTATTAAGACAATTCTTA-CCTAGTTTACATTAAATGATACT--TTTTACGA
12989716 TT
694 TT
** * * *
12989718 TT-TCACTTGTTTACATTATTAATTTAT-TTTTTTAATTTTTAGCTATTTTTCTTGCATATTTAT
1 TTCTCACTTGTTTACATTACCAA--TATGTTTTTTAATTTTTAACTATTTTTCTTACATATTTAC
*
12989781 AAGAATAATAATTAATTAAAATTTTATGA-TGTCAATATAATTATTTACATTACAATAATGGTTT
64 AA-AA-AATAATTAATTAAAATTTTAT-ATTGTCAATATAATTATTTATATTACAATAAT--TTT
* * * * * *
12989845 CTTATGATTATTTTTACTTTTCATTATATTAAGAATTGTTATAATTTCTTCTTAATGTGTTATGA
124 TTTATGATTGTTCTTACTTTTCATTACATTAAGAATTATTATAATTT-TT-TTAGTGTGTTATGA
** * * * *
12989910 CACTTTTTACCTATTTTACTTTAAATGTTACAAATTTTACATTTGTGCTCTCTTGTTTATATTAC
187 CACTTTTTACC-ATTTTACTTTAAATGTTATTAATTTTACGTTT-TTCTCACTTGTTTACATTAC
* * * **
12989975 CAATTTATTTTTTAATTTCTCGCTATTTTCTTTAAATATTTTCAAAACAATAATTAATTAAAATT
250 CAATTTATTTTTTAATTTTTAGCTATTTTCTTTATATATTTAAAAAACAATAATTAATTAAAATT
* *
12990040 TTACTTTACTAATATAATTATTTATGTTATAATAATATAT
315 TTACATTA-TAATATAATTATTTATGTTACAATAATATAT
12990080 GTTGATAGTT
Statistics
Matches: 859, Mismatches: 152, Indels: 95
0.78 0.14 0.09
Matches are distributed among these distances:
696 48 0.06
697 43 0.05
698 20 0.02
699 118 0.14
700 44 0.05
701 220 0.26
702 127 0.15
703 117 0.14
704 59 0.07
705 56 0.07
706 7 0.01
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.52
Consensus pattern (695 bp):
TTCTCACTTGTTTACATTACCAATATGTTTTTTAATTTTTAACTATTTTTCTTACATATTTACAA
AAAATAATTAATTAAAATTTTATATTGTCAATATAATTATTTATATTACAATAATTTTTTTATGA
TTGTTCTTACTTTTCATTACATTAAGAATTATTATAATTTTTTTAGTGTGTTATGACACTTTTTA
CCATTTTACTTTAAATGTTATTAATTTTACGTTTTTCTCACTTGTTTACATTACCAATTTATTTT
TTAATTTTTAGCTATTTTCTTTATATATTTAAAAAACAATAATTAATTAAAATTTTACATTATAA
TATAATTATTTATGTTACAATAATATATTCTTATGATTATTCTTATTTTTCATTACATTTAAATT
GTTATAACTTTTCTTAATATGTCACGAAACTTTTTACTCATTTTATGCCAAATAATACTAATTTT
ACGTTATTTTCACGTGTTTACGGTACCAACTTATTTTTATTTCTAACTATTTTCCTTAAATATAT
GAAAAACAATAATTAATTAAAAATTTTCTTTACTAATATAATTATTTACATTACAATAATATATT
ATTACGATTGTTCTTAATTTCATTACATTTAAAATAATCATAACTTTTTTTAATGATAACTATTA
AGACAATTCTTACCTAGTTTACATTAAATGATACTTTTTACGATT
Found at i:12998635 original size:81 final size:81
Alignment explanation
Indices: 12998500--12998661 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
12998490 TCCAAAGATA
*
12998500 GATCTGTCCTTGTCAGTCCTTCTAATTTGCTGTTTAACTTTTTGCTTTCTTCTAATATGTTGACG
1 GATCTGTCCTTGTCAGTCCTTCTAATTTGCTGTTTAACTTTTTGCTTTCTTCTAATATGTTAACG
12998565 TTCATCTTCAATCTTC
66 TTCATCTTCAATCTTC
12998581 GATCTGTCCTTGTCAGTCCTTCTAATTTGCTGTTTAACTTTTTGCTTTCTTCTAATATGTTAACG
1 GATCTGTCCTTGTCAGTCCTTCTAATTTGCTGTTTAACTTTTTGCTTTCTTCTAATATGTTAACG
12998646 TTCATCTTCAATCTTC
66 TTCATCTTCAATCTTC
12998662 TCAATCTCCT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.49
Consensus pattern (81 bp):
GATCTGTCCTTGTCAGTCCTTCTAATTTGCTGTTTAACTTTTTGCTTTCTTCTAATATGTTAACG
TTCATCTTCAATCTTC
Found at i:13002432 original size:10 final size:10
Alignment explanation
Indices: 13002414--13002454 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
13002404 TCGTGCGCTT
13002414 TATATATAAA
1 TATATATAAA
*
13002424 TAAATATAAA
1 TATATATAAA
*
13002434 TATATATATA
1 TATATATAAA
13002444 TATATATAAA
1 TATATATAAA
13002454 T
1 T
13002455 TAAACTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TATATATAAA
Found at i:13005029 original size:13 final size:13
Alignment explanation
Indices: 13005008--13005037 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13004998 ATGTAAAAAA
*
13005008 TAAAGTAAAATTT
1 TAAAATAAAATTT
13005021 TAAAATAAAATTT
1 TAAAATAAAATTT
13005034 TAAA
1 TAAA
13005038 GTGATGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TAAAATAAAATTT
Found at i:13007200 original size:23 final size:23
Alignment explanation
Indices: 13007161--13007204 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
13007151 TTGGAGAAGG
13007161 GAGAAAGAGAATGAAGGAAAAAT
1 GAGAAAGAGAATGAAGGAAAAAT
*
13007184 GAGAAAGGGAA-GCAAGGAAAA
1 GAGAAAGAGAATG-AAGGAAAA
13007205 CCAGGGGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.59, C:0.02, G:0.34, T:0.05
Consensus pattern (23 bp):
GAGAAAGAGAATGAAGGAAAAAT
Found at i:13007701 original size:17 final size:18
Alignment explanation
Indices: 13007681--13007718 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13007671 TGAAAACAAA
13007681 TAAAAAG-AAAAATTTTG
1 TAAAAAGTAAAAATTTTG
* *
13007698 TAAATAGTAAATATTTTG
1 TAAAAAGTAAAAATTTTG
13007716 TAA
1 TAA
13007719 TCATGAGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (18 bp):
TAAAAAGTAAAAATTTTG
Found at i:13009066 original size:29 final size:28
Alignment explanation
Indices: 13009034--13009117 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
13009024 TGATAAAATA
*
13009034 TTTAATATTATATTAAAATTTTAAAATTT
1 TTTAAT-TAATATTAAAATTTTAAAATTT
* *
13009063 TTTAATGTAATATTTAAA-TTAAAAATTT
1 TTTAAT-TAATATTAAAATTTTAAAATTT
* *
13009091 ATTAATTAATA-TAAATTTTTGAAAATT
1 TTTAATTAATATTAAAATTTT-AAAATT
13009118 ATTTGTACCT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
26 3 0.07
27 7 0.16
28 20 0.44
29 15 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TTTAATTAATATTAAAATTTTAAAATTT
Found at i:13013296 original size:56 final size:56
Alignment explanation
Indices: 13013234--13013346 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
13013224 CTATCAAATA
* * *
13013234 ACGGAATCTCAAACTTAGGCATAGGTATACCAGACATATCTTCTTCAAACATCTTC
1 ACGGAATCTCAAACTTAGGCATAGGCATACCAAACATACCTTCTTCAAACATCTTC
* * *
13013290 ACGGAATCTTAAACTTAGGCATAGGCATACCAAACATACCTTCTTCAGATATCTTC
1 ACGGAATCTCAAACTTAGGCATAGGCATACCAAACATACCTTCTTCAAACATCTTC
13013346 A
1 A
13013347 AACACTGCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (56 bp):
ACGGAATCTCAAACTTAGGCATAGGCATACCAAACATACCTTCTTCAAACATCTTC
Found at i:13016538 original size:25 final size:24
Alignment explanation
Indices: 13016501--13016580 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
13016491 AAATTAGGAT
13016501 ATTAAAAA-ATATTTAAATATTAA
1 ATTAAAAATATATTTAAATATTAA
13016524 TATTAAAAATATATTTTAAAT-TTAA
1 -ATTAAAAATATA-TTTAAATATTAA
* * *
13016549 ATATAAAATTAAAATTAAA-ATTAA
1 AT-TAAAAATATATTTAAATATTAA
13016573 A-TAAAAAT
1 ATTAAAAAT
13016581 GATTTTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
22 6 0.12
24 20 0.42
25 15 0.31
26 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATTAAAAATATATTTAAATATTAA
Found at i:13016560 original size:12 final size:12
Alignment explanation
Indices: 13016540--13016580 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
13016530 AAATATATTT
*
13016540 TAAATTTAAATA
1 TAAAATTAAATA
13016552 TAAAATTAAA-A
1 TAAAATTAAATA
13016563 TTAAAATTAAATA
1 -TAAAATTAAATA
13016576 -AAAAT
1 TAAAAT
13016581 GATTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 6 0.23
12 19 0.73
13 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAAATTAAATA
Found at i:13022206 original size:10 final size:10
Alignment explanation
Indices: 13022183--13022245 Score: 63
Period size: 10 Copynumber: 6.3 Consensus size: 10
13022173 ACATACATAC
**
13022183 ATATATATAC
1 ATATATATGT
13022193 ATATATATGT
1 ATATATATGT
**
13022203 ATATATGCGT
1 ATATATATGT
* *
13022213 ACACATATGT
1 ATATATATGT
*
13022223 ATACATATGT
1 ATATATATGT
13022233 ATATATATGT
1 ATATATATGT
13022243 ATA
1 ATA
13022246 CATCTATACA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (10 bp):
ATATATATGT
Found at i:13022240 original size:20 final size:20
Alignment explanation
Indices: 13022212--13022280 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
13022202 TATATATGCG
* *
13022212 TACACATATGTATACATATG
1 TACATATATGTATACATATA
* *
13022232 TATATATATGTATACATCTA
1 TACATATATGTATACATATA
* *
13022252 TACATATGTGTACACATATA
1 TACATATATGTATACATATA
13022272 TACATATAT
1 TACATATAT
13022281 ATATGTATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (20 bp):
TACATATATGTATACATATA
Found at i:13022244 original size:40 final size:38
Alignment explanation
Indices: 13022193--13022284 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
13022183 ATATATATAC
* *
13022193 ATATATATGTATATATGCGTACACATATGTATACATATGT
1 ATATATATGTATATAT-C-TACACATATGTATACACATAT
* * *
13022233 ATATATATGTATACATCTATACATATGTGTACACATAT
1 ATATATATGTATATATCTACACATATGTATACACATAT
* *
13022271 ATACATATATATAT
1 ATATATATGTATAT
13022285 GTATATCTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 28 0.64
39 1 0.02
40 15 0.34
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (38 bp):
ATATATATGTATATATCTACACATATGTATACACATAT
Found at i:13022281 original size:10 final size:10
Alignment explanation
Indices: 13022215--13022283 Score: 70
Period size: 10 Copynumber: 7.1 Consensus size: 10
13022205 ATATGCGTAC
13022215 ACATATGTAT
1 ACATATGTAT
13022225 ACATATGTAT
1 ACATATGTAT
*
13022235 ATATATGTAT
1 ACATATGTAT
*
13022245 AC--ATCTAT
1 ACATATGTAT
*
13022253 ACATATGTGT
1 ACATATGTAT
* *
13022263 ACACATATAT
1 ACATATGTAT
*
13022273 ACATATATAT
1 ACATATGTAT
13022283 A
1 A
13022284 TGTATATCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
8 7 0.15
10 41 0.85
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (10 bp):
ACATATGTAT
Found at i:13022290 original size:20 final size:20
Alignment explanation
Indices: 13022184--13022290 Score: 58
Period size: 20 Copynumber: 5.2 Consensus size: 20
13022174 CATACATACA
13022184 TATATATAC--ATATATATG
1 TATATATACATATATATATG
* * * *
13022202 TATATATGCGTACACATATG
1 TATATATACATATATATATG
* **
13022222 TATACATATGTATATATATG
1 TATATATACATATATATATG
* * *
13022242 TATACAT-CTATACATATGTG
1 TATATATAC-ATATATATATG
13022262 TACACATATATACATATATATATG
1 T----ATATATACATATATATATG
13022286 TATAT
1 TATAT
13022291 CTATGTATGT
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
18 8 0.12
20 42 0.64
24 15 0.23
25 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (20 bp):
TATATATACATATATATATG
Found at i:13022300 original size:40 final size:40
Alignment explanation
Indices: 13022173--13022300 Score: 103
Period size: 44 Copynumber: 2.9 Consensus size: 40
13022163 TGGAAAATAT
* * * *
13022173 ACATACATACATATATATACATATATATGTATATATGCGTAC
1 ACATATATACATATATAT--ATGTATATCTATATATGTGTAC
13022215 ACATATGTATACATATGTATATATATGTATACATCTATACATATGTGTAC
1 ACATA--TATAC--A--TATATATATGTAT--ATCTAT--ATATGTGTAC
*
13022265 ACATATATACATATATATATGTATATCTATGTATGT
1 ACATATATACATATATATATGTATATCTATATATGT
13022301 ATGTACTCTC
Statistics
Matches: 71, Mismatches: 5, Indels: 22
0.72 0.05 0.22
Matches are distributed among these distances:
40 5 0.07
42 11 0.15
44 17 0.24
46 7 0.10
48 17 0.24
50 14 0.20
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (40 bp):
ACATATATACATATATATATGTATATCTATATATGTGTAC
Found at i:13029691 original size:17 final size:19
Alignment explanation
Indices: 13029647--13029693 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
13029637 AAGAAATCAA
13029647 CAAAAATAAAAATCACATG
1 CAAAAATAAAAATCACATG
* *
13029666 C-CAACTAAAAAT-ACAT-
1 CAAAAATAAAAATCACATG
13029682 CAAAAATAAAAA
1 CAAAAATAAAAA
13029694 GCAATAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.04
17 12 0.52
18 9 0.39
19 1 0.04
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (19 bp):
CAAAAATAAAAATCACATG
Found at i:13034910 original size:36 final size:35
Alignment explanation
Indices: 13034870--13035029 Score: 116
Period size: 34 Copynumber: 4.6 Consensus size: 35
13034860 CAAGACATCG
*
13034870 CTATAAGTTAGAAAAATAAAGATGATCGGGATAATA
1 CTATAAGTTA-AAAAATAAAAATGATCGGGATAATA
* * * * *
13034906 CTAT-AGGTAAAAAA-AAATATGACCAGAATAATA
1 CTATAAGTTAAAAAATAAAAATGATCGGGATAATA
* *
13034939 -TCATGAA--TAAAAAATAAAAATGATTGAGATAATA
1 CT-AT-AAGTTAAAAAATAAAAATGATCGGGATAATA
* * *
13034973 CTATAGGTCAGAAAAATAAAAATGATCGGGATAACA
1 CTATAAGTTA-AAAAATAAAAATGATCGGGATAATA
* * *
13035009 CTA-ACGGTAAAAAATATAAAT
1 CTATAAGTTAAAAAATAAAAAT
13035030 ATGACCAGAA
Statistics
Matches: 96, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
32 1 0.01
33 25 0.26
34 31 0.32
35 10 0.10
36 29 0.30
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.23
Consensus pattern (35 bp):
CTATAAGTTAAAAAATAAAAATGATCGGGATAATA
Found at i:13035061 original size:66 final size:66
Alignment explanation
Indices: 13034987--13035130 Score: 252
Period size: 66 Copynumber: 2.2 Consensus size: 66
13034977 AGGTCAGAAA
* *
13034987 AATAAAAATGATCGGGATAACACTAACGGTAAAAAATATAAATATGACCAGAACAACACCGCAAG
1 AATAAAAATGATCGAGATAACACCAACGGTAAAAAATATAAATATGACCAGAACAACACCGCAAG
13035052 T
66 T
*
13035053 AATAAAAATGATCGAGATAACACCAACGGTAAAAAATATAAATATGACCAGAACAACATCGCAAG
1 AATAAAAATGATCGAGATAACACCAACGGTAAAAAATATAAATATGACCAGAACAACACCGCAAG
13035118 T
66 T
*
13035119 AAAAAAAATGAT
1 AATAAAAATGAT
13035131 TAGGACAATA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.54, C:0.15, G:0.14, T:0.17
Consensus pattern (66 bp):
AATAAAAATGATCGAGATAACACCAACGGTAAAAAATATAAATATGACCAGAACAACACCGCAAG
T
Found at i:13035121 original size:36 final size:35
Alignment explanation
Indices: 13035015--13035124 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 35
13035005 AACACTAACG
13035015 GTAAAAAATATAAATATGACCAGAACAACACCGCAA
1 GTAAAAAATATAAATATGACCAGAACAACA-CGCAA
* *
13035051 GT----AATA-AAA-ATGATC-GAGATAACAC-CAA
1 GTAAAAAATATAAATATGACCAGA-ACAACACGCAA
13035079 CGGTAAAAAATATAAATATGACCAGAACAACATCGCAA
1 --GTAAAAAATATAAATATGACCAGAACAACA-CGCAA
13035117 GTAAAAAA
1 GTAAAAAA
13035125 AATGATTAGG
Statistics
Matches: 58, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
28 3 0.05
29 3 0.05
30 12 0.21
31 3 0.05
32 4 0.07
34 4 0.07
35 3 0.05
36 20 0.34
37 3 0.05
38 3 0.05
ACGTcount: A:0.55, C:0.16, G:0.13, T:0.15
Consensus pattern (35 bp):
GTAAAAAATATAAATATGACCAGAACAACACGCAA
Found at i:13035273 original size:36 final size:36
Alignment explanation
Indices: 13035242--13035386 Score: 134
Period size: 36 Copynumber: 4.1 Consensus size: 36
13035232 TAACACTGTA
* * *
13035242 GGTAAGAAAAATAAAAATGACCGGGACAACACCAAT
1 GGTAAGAAAAATAAAAATGATCGGGACAACACTAAC
* * * ** * *
13035278 GGTCA-AAAAATGAATATGA-CAAGTCAACAATATA-
1 GGTAAGAAAAATAAAAATGATCGGGACAACACTA-AC
*
13035312 GGTAAGAAAAATAAAAATGATCGAGACAACACTAAC
1 GGTAAGAAAAATAAAAATGATCGGGACAACACTAAC
* * *
13035348 GGTAAAAAAAACAAATATGATCGGGACAACACTAAC
1 GGTAAGAAAAATAAAAATGATCGGGACAACACTAAC
13035384 GGT
1 GGT
13035387 CGAGAAGTAG
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
34 12 0.14
35 26 0.30
36 49 0.56
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.15
Consensus pattern (36 bp):
GGTAAGAAAAATAAAAATGATCGGGACAACACTAAC
Found at i:13035533 original size:35 final size:36
Alignment explanation
Indices: 13035465--13035839 Score: 164
Period size: 36 Copynumber: 10.6 Consensus size: 36
13035455 ATCGAGAAGG
* * * * *
13035465 TAAAGATGACTAGAACAATACCACAAGT-TAAAAAA
1 TAAAGATGACTAGGACAACACCATAGGTCAAAAAAA
* *
13035500 TAAAGATGACTAGGACAACACTATAGGTAAAAAAAAA
1 TAAAGATGACTAGGACAACACCATAGGT-CAAAAAAA
* * *
13035537 TAAAGATGA-TCGAGATAACACCA-ACTGTC-AAAAAA
1 TAAAGATGACTAG-GACAACACCATA-GGTCAAAAAAA
* * * * * * *
13035572 CAAATATAATTAGGATAACACTATAAGTCAAAAAAA
1 TAAAGATGACTAGGACAACACCATAGGTCAAAAAAA
* * * *
13035608 TAAATATGAAT-GGAACAATACCGTAGGTCAAAAAAA
1 TAAAGATGACTAGG-ACAACACCATAGGTCAAAAAAA
* * * * *
13035644 TAAAGAAGACTAAGACAACACCA-ATGGTCGATAAAC
1 TAAAGATGACTAGGACAACACCATA-GGTCAAAAAAA
* * * *
13035680 TAAATATGA-TCGAGATAACA-CAGCAGGTCAAAAAAA
1 TAAAGATGACTAG-GACAACACCA-TAGGTCAAAAAAA
* ** *
13035716 TAAAGATGAC-A-AACAACACTGTAGGTAAAAAAAA
1 TAAAGATGACTAGGACAACACCATAGGTCAAAAAAA
* * * *
13035750 TAAATATGA-TATAGACAACTCCATAAGTC-AAAAAA
1 TAAAGATGACTA-GGACAACACCATAGGTCAAAAAAA
* * * * * *
13035785 TAAAAATGAC-AAGATAATACCGTAGGTTAAAAAAA
1 TAAAGATGACTAGGACAACACCATAGGTCAAAAAAA
* * *
13035820 TAAAAATGATTAAGACAACA
1 TAAAGATGACTAGGACAACA
13035840 TCAATGATCG
Statistics
Matches: 252, Mismatches: 67, Indels: 41
0.70 0.19 0.11
Matches are distributed among these distances:
34 36 0.14
35 83 0.33
36 106 0.42
37 27 0.11
ACGTcount: A:0.55, C:0.13, G:0.14, T:0.18
Consensus pattern (36 bp):
TAAAGATGACTAGGACAACACCATAGGTCAAAAAAA
Found at i:13035571 original size:72 final size:71
Alignment explanation
Indices: 13035494--13035839 Score: 231
Period size: 72 Copynumber: 4.9 Consensus size: 71
13035484 ACCACAAGTT
* *
13035494 AAAAAATAAAGATGACTAGGACAACACTATAGGTAAAAAAAAATAAAGATGATCGAGATAACACC
1 AAAAAATAAAGATGACTAGGACAACACTATAGGT-AAAAAAAATAAATATGATCGAGACAACACC
*
13035559 AACTGTC-
65 AA-GGTCA
* * * * * * * * *
13035566 AAAAAACAAATATAATTAGGATAACACTATAAGTCAAAAAAATAAATATGAATGGA-ACAATACC
1 AAAAAATAAAGATGACTAGGACAACACTATAGGTAAAAAAAATAAATATG-ATCGAGACAACACC
*
13035630 GTAGGTCA
65 -AAGGTCA
* * * ** * * *
13035638 AAAAAATAAAGAAGACTAAGACAACACCA-ATGGTCGATAAACTAAATATGATCGAGATAACA-C
1 AAAAAATAAAGATGACTAGGACAACACTATA-GGTAAAAAAAATAAATATGATCGAGACAACACC
13035701 AGCAGGTCA
65 A--AGGTCA
* * ** *
13035710 AAAAAATAAAGATGAC-A-AACAACACTGTAGGTAAAAAAAATAAATATGATATAGACAACTCCA
1 AAAAAATAAAGATGACTAGGACAACACTATAGGTAAAAAAAATAAATATGATCGAGACAACACCA
*
13035773 TAAGTC-
66 -AGGTCA
* * * * ** * * **
13035779 AAAAAATAAAAATGAC-AAGATAATACCGTAGGTTAAAAAAATAAAAATGATTAAGACAACA
1 AAAAAATAAAGATGACTAGGACAACACTATAGGTAAAAAAAATAAATATGATCGAGACAACA
13035840 TCAATGATCG
Statistics
Matches: 211, Mismatches: 53, Indels: 22
0.74 0.19 0.08
Matches are distributed among these distances:
69 16 0.08
70 68 0.32
71 33 0.16
72 94 0.45
ACGTcount: A:0.56, C:0.13, G:0.14, T:0.18
Consensus pattern (71 bp):
AAAAAATAAAGATGACTAGGACAACACTATAGGTAAAAAAAATAAATATGATCGAGACAACACCA
AGGTCA
Found at i:13035607 original size:108 final size:109
Alignment explanation
Indices: 13035494--13035768 Score: 273
Period size: 108 Copynumber: 2.6 Consensus size: 109
13035484 ACCACAAGTT
* * *
13035494 AAAAAATAAAGATGACTAGGACAACACTATAGGTAAAAAAAAATAAAGATGATC-GAGATAACAC
1 AAAAAATAAAGATGACTAGGACAACACTGTAGGT-AAAAAAAATAAAGATGATCTAAGACAACAC
*
13035558 CAACT-GTCAAAAAAC-AAATATAATTAG-GATAACACTA-TAAGTCA
65 CAA-TGGTCAAAAAACTAAATATAA-TAGAGATAACAC-AGCAAGTCA
* * * * * *
13035602 AAAAAATAAATATGAAT-GGAACAATACCGTAGGTCAAAAAAATAAAGAAGA-CTAAGACAACAC
1 AAAAAATAAAGATGACTAGG-ACAACACTGTAGGTAAAAAAAATAAAGATGATCTAAGACAACAC
* * * * *
13035665 CAATGGTCGATAAACTAAATATGATCGAGATAACACAGCAGGTCA
65 CAATGGTCAAAAAACTAAATATAATAGAGATAACACAGCAAGTCA
* * *
13035710 AAAAAATAAAGATGAC-A-AACAACACTGTAGGTAAAAAAAATAAATATGATAT-AGACAAC
1 AAAAAATAAAGATGACTAGGACAACACTGTAGGTAAAAAAAATAAAGATGATCTAAGACAAC
13035769 TCCATAAGTC
Statistics
Matches: 135, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
106 35 0.26
107 40 0.30
108 60 0.44
ACGTcount: A:0.55, C:0.13, G:0.14, T:0.17
Consensus pattern (109 bp):
AAAAAATAAAGATGACTAGGACAACACTGTAGGTAAAAAAAATAAAGATGATCTAAGACAACACC
AATGGTCAAAAAACTAAATATAATAGAGATAACACAGCAAGTCA
Found at i:13036893 original size:77 final size:79
Alignment explanation
Indices: 13036704--13036916 Score: 227
Period size: 77 Copynumber: 2.7 Consensus size: 79
13036694 GCAAAGACTT
* * * * * * *
13036704 TTTTTTTAATTTTTGCAACATACAGATCAAATATATTTT-TGATGATGCACATATAAGTACAAGT
1 TTTTTTT-GTTTTTGCAACATGCAAATCAAATGT-TTTTCTTATGATGCACATGTAAGCACAAGT
13036768 GATGCGAATGCAAAGACA
64 GATGCGAATG--AAGACA
* * *
13036786 -TTTTTTGTTTTTGCAATATGCAAATTAAATGTTTTTCTTATGATGCACATGTAAGCGCAAGTGA
1 TTTTTTTGTTTTTGCAACATGCAAATCAAATGTTTTTCTTATGATGCACATGTAAGCACAAGTGA
* *
13036850 TGTGAATG-TG-CA
66 TGCGAATGAAGACA
* * *
13036862 TTTTTTTGTTTTTGCAACATGCAAATCAAATGTTTTTCTTCTGATGTAAATGTAA
1 TTTTTTTGTTTTTGCAACATGCAAATCAAATGTTTTTCTTATGATGCACATGTAA
13036917 TTGATGCAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
76 2 0.02
77 50 0.45
79 4 0.04
80 50 0.45
81 6 0.05
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.41
Consensus pattern (79 bp):
TTTTTTTGTTTTTGCAACATGCAAATCAAATGTTTTTCTTATGATGCACATGTAAGCACAAGTGA
TGCGAATGAAGACA
Found at i:13046590 original size:14 final size:14
Alignment explanation
Indices: 13046571--13046601 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13046561 GACTTAAAAT
13046571 TTATTTATTTATTA
1 TTATTTATTTATTA
13046585 TTATTTATTTATTA
1 TTATTTATTTATTA
13046599 TTA
1 TTA
13046602 AAATATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:13050679 original size:43 final size:43
Alignment explanation
Indices: 13050632--13050915 Score: 144
Period size: 44 Copynumber: 6.5 Consensus size: 43
13050622 ACTCATACTT
*
13050632 TTTGAACAACATAAAAGGCTCATTTAAACAGAGGCTCAACAAC
1 TTTGAAAAACATAAAAGGCTCATTTAAACAGAGGCTCAACAAC
* * * *
13050675 TTTGAAAAATATACAAGGCTCATTTAAACAGAGGTTCAATAAC
1 TTTGAAAAACATAAAAGGCTCATTTAAACAGAGGCTCAACAAC
* ** * * *
13050718 TTTTGAAAAATATCAAAAGTTTC-TCTT-AATAGAGGTTCAATAAC
1 -TTTGAAAAACAT-AAAAGGCTCAT-TTAAACAGAGGCTCAACAAC
* * * * * * * *
13050762 TCTTGAAAAATATAAAAAG-TTACTCTCAATAGAAGCTCAATAAC
1 T-TTGAAAAACATAAAAGGCTCA-TTTAAACAGAGGCTCAACAAC
* * ** * * * * * *
13050806 TCTTGATAAATATAAAAAAACTCCTCTCAACAAAGGCTTAATAAC
1 T-TTGAAAAACAT-AAAAGGCTCATTTAAACAGAGGCTCAACAAC
* * * *
13050851 TTTTGAAAAATATAAAA-GCTCATCTCAATAGAGGGCTCAACAAC
1 -TTTGAAAAACATAAAAGGCTCATTTAAACAGA-GGCTCAACAAC
*
13050895 TTTTGAAAAATATAAAAGGCT
1 -TTTGAAAAACATAAAAGGCT
13050916 AAATAGAGGT
Statistics
Matches: 199, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 55 0.28
44 98 0.49
45 43 0.22
46 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.28
Consensus pattern (43 bp):
TTTGAAAAACATAAAAGGCTCATTTAAACAGAGGCTCAACAAC
Found at i:13050752 original size:44 final size:43
Alignment explanation
Indices: 13050704--13050912 Score: 206
Period size: 44 Copynumber: 4.7 Consensus size: 43
13050694 TCATTTAAAC
*
13050704 AGAGGTTCAATAACTTTTGAAAAATATCAAAAGTTTCTCTTAAT
1 AGAGGTTCAATAACTTTTGAAAAATAT-AAAAGTTTCTCTCAAT
* *
13050748 AGAGGTTCAATAACTCTTGAAAAATATAAAAAGTTACTCTCAAT
1 AGAGGTTCAATAACTTTTGAAAAATAT-AAAAGTTTCTCTCAAT
* * * * ** * *
13050792 AGAAGCTCAATAACTCTTGATAAATATAAAAAAACTCCTCTCAAC
1 AGAGGTTCAATAACTTTTGA-AAA-ATATAAAAGTTTCTCTCAAT
* *
13050837 AAAGGCTT-AATAACTTTTGAAAAATATAAAAG-CTCATCTCAAT
1 AGAGG-TTCAATAACTTTTGAAAAATATAAAAGTTTC-TCTCAAT
* *
13050880 AGAGGGCTCAACAACTTTTGAAAAATATAAAAG
1 AGA-GGTTCAATAACTTTTGAAAAATATAAAAG
13050913 GCTAAATAGA
Statistics
Matches: 136, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 16 0.12
44 86 0.63
45 29 0.21
46 4 0.03
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (43 bp):
AGAGGTTCAATAACTTTTGAAAAATATAAAAGTTTCTCTCAAT
Found at i:13051596 original size:28 final size:28
Alignment explanation
Indices: 13051565--13051634 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
13051555 ACATGAGTGT
13051565 AATGTTGATGAATGTAATGCATGAA-AGC
1 AATGTTGATGAATGTAATGCATGAATA-C
* *
13051593 AATGTTTATTAATGTAATGCATGAATAC
1 AATGTTGATGAATGTAATGCATGAATAC
13051621 AATGTTTG-TGAATG
1 AATG-TTGATGAATG
13051635 CAAATCTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (28 bp):
AATGTTGATGAATGTAATGCATGAATAC
Found at i:13062531 original size:4 final size:4
Alignment explanation
Indices: 13062522--13062551 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13062512 AATGTATGAA
13062522 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
13062552 AAATAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:13062722 original size:43 final size:43
Alignment explanation
Indices: 13062657--13062745 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
13062647 AAAACCAAAC
* * * *
13062657 AACAAAGTTTTCTAACCCACTTACGTTGATAAAAGCA-TACGAA
1 AACAAAATTTCCTAACCCACTTACATTCATAAAAGCATTA-GAA
* *
13062700 AACAAAATTTCCTAACCTACTTACATTCATAATAGCATTAGAA
1 AACAAAATTTCCTAACCCACTTACATTCATAAAAGCATTAGAA
13062743 AAC
1 AAC
13062746 TTTCTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 37 0.95
44 2 0.05
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (43 bp):
AACAAAATTTCCTAACCCACTTACATTCATAAAAGCATTAGAA
Found at i:13066237 original size:15 final size:15
Alignment explanation
Indices: 13066203--13066243 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
13066193 AAAAAGAAAA
13066203 AATAAAAT-AAATGC
1 AATAAAATCAAATGC
13066217 AATAAAATCAAAT-C
1 AATAAAATCAAATGC
13066231 AAGTAAAATCAAA
1 AA-TAAAATCAAA
13066244 AGGAAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.20
Consensus pattern (15 bp):
AATAAAATCAAATGC
Found at i:13066975 original size:21 final size:20
Alignment explanation
Indices: 13066937--13066975 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13066927 TTTTTACTAA
* *
13066937 CTATTTTTTATTCTTTTTAC
1 CTATTTTTAATTCCTTTTAC
13066957 CTATTTCTTAATTCCTTTT
1 CTATTT-TTAATTCCTTTT
13066976 GATTGATCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (20 bp):
CTATTTTTAATTCCTTTTAC
Found at i:13081951 original size:21 final size:23
Alignment explanation
Indices: 13081926--13081974 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
13081916 TTGTATGATT
13081926 ATGAT-TTATTTAATATTT-TT-C
1 ATGATGTT-TTTAATATTTATTAC
*
13081947 ATGATGTTTTTTATATTTATTAC
1 ATGATGTTTTTAATATTTATTAC
13081970 ATGAT
1 ATGAT
13081975 ATCCTTACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.58
22 4 0.17
23 6 0.25
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (23 bp):
ATGATGTTTTTAATATTTATTAC
Found at i:13084832 original size:28 final size:26
Alignment explanation
Indices: 13084800--13084867 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
13084790 AAAATTTGTC
13084800 AAAAGTGAAAGCATGCA-AAAAAAAAAAA
1 AAAAGTGAAA--ATG-ATAAAAAAAAAAA
*
13084828 AAAAGAATGAAAATGATAAAAGAAAAAA
1 AAAAG--TGAAAATGATAAAAAAAAAAA
13084856 AAAA-TGAAAATG
1 AAAAGTGAAAATG
13084868 CATATTTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
25 8 0.22
27 1 0.03
28 22 0.61
30 5 0.14
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (26 bp):
AAAAGTGAAAATGATAAAAAAAAAAA
Found at i:13084848 original size:25 final size:25
Alignment explanation
Indices: 13084819--13084867 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
13084809 AGCATGCAAA
*
13084819 AAAAAAAAAAAAAGAATGAAAATGAT
1 AAAAGAAAAAAAA-AATGAAAATGAT
13084845 AAAAGAAAAAAAAAATGAAAATG
1 AAAAGAAAAAAAAAATGAAAATG
13084868 CATATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (25 bp):
AAAAGAAAAAAAAAATGAAAATGAT
Found at i:13085991 original size:50 final size:50
Alignment explanation
Indices: 13085898--13086032 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 50
13085888 TAATTGCAAC
* *
13085898 TGCATAATTATTTGGATCATGCATTTATATCATTTAAAAAATTTATGAAT
1 TGCATAATTATTTGGATCATGCATTTGTATCATTTAAAAAATTTATAAAT
* * * **** *
13085948 TGTATAATTGTTTGGATCATGCATTTGCATCATTTTGGTAATTTGTAAAT
1 TGCATAATTATTTGGATCATGCATTTGTATCATTTAAAAAATTTATAAAT
* * *
13085998 TGCATAATTAATTGGACCATGCATCTGTATCATTT
1 TGCATAATTATTTGGATCATGCATTTGTATCATTT
13086033 GGTGAGTATT
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (50 bp):
TGCATAATTATTTGGATCATGCATTTGTATCATTTAAAAAATTTATAAAT
Found at i:13086168 original size:70 final size:71
Alignment explanation
Indices: 13086013--13086185 Score: 258
Period size: 70 Copynumber: 2.5 Consensus size: 71
13086003 AATTAATTGG
* * *
13086013 ACCATGCATCTGTATCATTTGGTGAGTATTTAAATCATTGTTTTGAATATTGTATTTGTATCATT
1 ACCATGCATCTGCATCATTTGGTGAGTATTTAAATCATTGTTTTGAATATTGCATTTGTATCATA
* *
13086078 GTTTGT
66 GTTAGA
* *
13086084 ACCATGCATCTGCATCACTTGGTGAGTCTTTAAATCATTG-TTTGAATATTGCATTTGTATCATA
1 ACCATGCATCTGCATCATTTGGTGAGTATTTAAATCATTGTTTTGAATATTGCATTTGTATCATA
13086148 GTTAGA
66 GTTAGA
* *
13086154 ACCATGCATTTGCATCATTTGGTGAATATTTA
1 ACCATGCATCTGCATCATTTGGTGAGTATTTA
13086186 GATCTTTGAC
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
70 54 0.59
71 37 0.41
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (71 bp):
ACCATGCATCTGCATCATTTGGTGAGTATTTAAATCATTGTTTTGAATATTGCATTTGTATCATA
GTTAGA
Found at i:13086809 original size:22 final size:22
Alignment explanation
Indices: 13086737--13086815 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
13086727 ACCTCCAGAC
* * * *
13086737 ATGATTTGTAAGACCTTCGAAC
1 ATGATTTATAAGACTTTAGAAT
*
13086759 ATGATTTATAAGACTTTAGAGT
1 ATGATTTATAAGACTTTAGAAT
*
13086781 ATGATTTATAAGATTTTCA-AAT
1 ATGATTTATAAGACTTT-AGAAT
* *
13086803 ATTATTTACAAGA
1 ATGATTTATAAGA
13086816 ACTCCAAGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 46 0.98
23 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (22 bp):
ATGATTTATAAGACTTTAGAAT
Found at i:13087112 original size:20 final size:20
Alignment explanation
Indices: 13087087--13087161 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
13087077 AACTTTTTGG
13087087 TGTGAATCTTAAATCTTTAA
1 TGTGAATCTTAAATCTTTAA
* *
13087107 TGTGAATTTTGAGAACCTTTAA
1 TGTGAATCTT-A-AATCTTTAA
* * *
13087129 GTGTGAATATCAAATCTTTGA
1 -TGTGAATCTTAAATCTTTAA
*
13087150 TATGAATCTTAA
1 TGTGAATCTTAA
13087162 CGAATTATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 18 0.42
21 8 0.19
22 9 0.21
23 8 0.19
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (20 bp):
TGTGAATCTTAAATCTTTAA
Found at i:13087233 original size:76 final size:76
Alignment explanation
Indices: 13087139--13087279 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
13087129 GTGTGAATAT
* *
13087139 CAAATCTTTGATATGAATCTT-AACGAA-TTATGATATGAATCTCGATGTGAATCTAAAGAACTT
1 CAAATCTTTGATACGAATCTTGAA--AACTTATGATATGAATCTCAATGTGAATCTAAAGAACTT
13087202 TTCAATGTGATCC
64 TTCAATGTGATCC
**
13087215 CAAATCTTTGATACGAATCTTGAAAACTTATGATATGAATCTCAATGTGAATCTTGAGAACTTTT
1 CAAATCTTTGATACGAATCTTGAAAACTTATGATATGAATCTCAATGTGAATCTAAAGAACTTTT
13087280 TGATATGAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
75 2 0.03
76 55 0.93
77 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (76 bp):
CAAATCTTTGATACGAATCTTGAAAACTTATGATATGAATCTCAATGTGAATCTAAAGAACTTTT
CAATGTGATCC
Found at i:13087267 original size:34 final size:35
Alignment explanation
Indices: 13087229--13087303 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
13087219 TCTTTGATAC
13087229 GAATCTTGAAAAC-TTATGATATGAATCTCAATGT
1 GAATCTTGAAAACTTTATGATATGAATCTCAATGT
* *
13087263 GAATCTTGAGAACTTTTTGATATGAATCTCAATGT
1 GAATCTTGAAAACTTTATGATATGAATCTCAATGT
13087298 GAATCT
1 GAATCT
13087304 CGATGTGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 12 0.32
35 26 0.68
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (35 bp):
GAATCTTGAAAACTTTATGATATGAATCTCAATGT
Found at i:13087302 original size:12 final size:12
Alignment explanation
Indices: 13087285--13087317 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
13087275 CTTTTTGATA
13087285 TGAATCTCAATG
1 TGAATCTCAATG
*
13087297 TGAATCTCGATG
1 TGAATCTCAATG
13087309 TGAATCTCA
1 TGAATCTCA
13087318 TGACTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (12 bp):
TGAATCTCAATG
Found at i:13087627 original size:19 final size:20
Alignment explanation
Indices: 13087590--13087629 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
13087580 ATATGAGTCC
* *
13087590 TAAATCTTTGATGCGAATCT
1 TAAATATTTGATGCAAATCT
13087610 TAAATATTT-ATGCAAATCT
1 TAAATATTTGATGCAAATCT
13087629 T
1 T
13087630 GAGAACCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (20 bp):
TAAATATTTGATGCAAATCT
Found at i:13089182 original size:27 final size:27
Alignment explanation
Indices: 13089132--13089183 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
13089122 ATGAAAAAAG
*
13089132 AAATCAAAATGAAAATTTTATTTTAGA
1 AAATCAAAATGAAAATATTATTTTAGA
*
13089159 AAATGAAAATGAAATATATT-TTTTA
1 AAATCAAAATGAAA-ATATTATTTTA
13089184 AAACCAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (27 bp):
AAATCAAAATGAAAATATTATTTTAGA
Found at i:13090126 original size:103 final size:104
Alignment explanation
Indices: 13089917--13090128 Score: 399
Period size: 104 Copynumber: 2.0 Consensus size: 104
13089907 GCTATTGTTA
*
13089917 CAAAAAAAAAAAAAACATATTTACTTTGAAAATACTAAAACACATAAGAAAATAATTTAGGTTTG
1 CAAAAAAAAAAAAAACATATTTACTTTGAAAATACTAAAACACATAAGAAAATAATTTAAGTTTG
*
13089982 AACAATAATGGCATTCTTATTGCTATCTAAACTCAATAC
66 AACAATAATGGCATTCTTATTGCTATCTAAACTCAACAC
13090021 CAAAAAAAAAAAAAACATATTTACTTTGAAAATACTAAAACACATAAGAAAATAATTTAAGTTTG
1 CAAAAAAAAAAAAAACATATTTACTTTGAAAATACTAAAACACATAAGAAAATAATTTAAGTTTG
13090086 AACAATAAT-GCATTCTTATTGCTATCTAAACTCAACAC
66 AACAATAATGGCATTCTTATTGCTATCTAAACTCAACAC
13090124 CAAAA
1 CAAAA
13090129 GCCACAAGGC
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
103 33 0.31
104 73 0.69
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (104 bp):
CAAAAAAAAAAAAAACATATTTACTTTGAAAATACTAAAACACATAAGAAAATAATTTAAGTTTG
AACAATAATGGCATTCTTATTGCTATCTAAACTCAACAC
Found at i:13090154 original size:42 final size:42
Alignment explanation
Indices: 13090095--13090177 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
13090085 GAACAATAAT
*
13090095 GCATTCTTATTGCTATCTAAACTCAACACCAAAAGCCACAAG
1 GCATTCCTATTGCTATCTAAACTCAACACCAAAAGCCACAAG
*
13090137 GCATTCCTATTGTTATCTAAACTCAACACCAAAAGCCACAA
1 GCATTCCTATTGCTATCTAAACTCAACACCAAAAGCCACAA
13090178 AAGTACTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (42 bp):
GCATTCCTATTGCTATCTAAACTCAACACCAAAAGCCACAAG
Found at i:13093649 original size:2 final size:2
Alignment explanation
Indices: 13093642--13093675 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
13093632 TACACATCTG
13093642 TA TA TA TA TA TA TA TA TA TA TA TCA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
13093676 AATGGGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13096176 original size:21 final size:20
Alignment explanation
Indices: 13096141--13096185 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
13096131 TGTCAAAACC
*
13096141 TAATTGATTAATAAATGAAA
1 TAATTAATTAATAAATGAAA
*
13096161 TAATTAATTGAATAAATTAAA
1 TAATTAATT-AATAAATGAAA
13096182 TAAT
1 TAAT
13096186 AAAAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
TAATTAATTAATAAATGAAA
Found at i:13096835 original size:28 final size:28
Alignment explanation
Indices: 13096785--13096838 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
13096775 ATTAAGTTAT
*
13096785 AATTATAAAATAATTGGTAAAATTAATA
1 AATTATAAAATAATTGATAAAATTAATA
*
13096813 AATTATAACATAATTAGAT-AAATTAA
1 AATTATAAAATAATT-GATAAAATTAA
13096839 ATCCACACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (28 bp):
AATTATAAAATAATTGATAAAATTAATA
Found at i:13097680 original size:2 final size:2
Alignment explanation
Indices: 13097673--13097712 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13097663 TGTTTAACCC
13097673 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13097713 TTATGTATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13100552 original size:16 final size:16
Alignment explanation
Indices: 13100533--13100583 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
13100523 AACTTAATAA
13100533 TATAATAATTTAAAGG
1 TATAATAATTTAAAGG
*
13100549 TATAA-AACTTATAA--
1 TATAATAATTTA-AAGG
13100563 TATAATAATTTAAAGG
1 TATAATAATTTAAAGG
13100579 TATAA
1 TATAA
13100584 ATATGTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 7 0.24
15 10 0.34
16 12 0.41
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (16 bp):
TATAATAATTTAAAGG
Found at i:13100564 original size:30 final size:31
Alignment explanation
Indices: 13100523--13100584 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
13100513 TGGGGATATT
13100523 AACTTAATAATATAATAATTTAAAGGTATAA
1 AACTTAATAATATAATAATTTAAAGGTATAA
13100554 AACTT-ATAATATAATAATTTAAAGGTATAA
1 AACTTAATAATATAATAATTTAAAGGTATAA
13100584 A
1 A
13100585 TATGTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (31 bp):
AACTTAATAATATAATAATTTAAAGGTATAA
Found at i:13107079 original size:15 final size:16
Alignment explanation
Indices: 13107048--13107080 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13107038 GGGGTGTAGG
13107048 AAAATTTCATGGAAAA
1 AAAATTTCATGGAAAA
13107064 AAAATTT-ATAGGAAAA
1 AAAATTTCAT-GGAAAA
13107080 A
1 A
13107081 GTTAGACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (16 bp):
AAAATTTCATGGAAAA
Found at i:13110469 original size:20 final size:21
Alignment explanation
Indices: 13110440--13110478 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13110430 ATAATATTTA
*
13110440 GAAGAGAGAAA-AAAAAAAGG
1 GAAGAAAGAAAGAAAAAAAGG
13110460 GAAGAAAGAAAGAAAAAAA
1 GAAGAAAGAAAGAAAAAAA
13110479 ATAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
GAAGAAAGAAAGAAAAAAAGG
Found at i:13110495 original size:22 final size:23
Alignment explanation
Indices: 13110441--13110497 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
13110431 TAATATTTAG
13110441 AAGAGAGAAAAAAAAAAGGGAAGA
1 AAGAGAGAAAAAAAAAA-GGAAGA
* *
13110465 AAGAAAGAAAAAAAATA-GAA-A
1 AAGAGAGAAAAAAAAAAGGAAGA
13110486 AATGAGAGAAAA
1 AA-GAGAGAAAA
13110498 TAATATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 3 0.10
22 11 0.38
24 15 0.52
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (23 bp):
AAGAGAGAAAAAAAAAAGGAAGA
Found at i:13117322 original size:27 final size:27
Alignment explanation
Indices: 13117235--13117322 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
13117225 GCCTCTACTA
* *
13117235 GTGGTGGCTTTGCTGGTTTGGCTTCAG
1 GTGGTGGATTTGCTGGTCTGGCTTCAG
* *
13117262 GTGGTGGGGGATTTTCTGGTGTGGCTTCTA-
1 GTGGT---GGATTTGCTGGTCTGGCTTC-AG
*
13117292 GTGGTGGATTTGGTGGTCTGGCTTCAG
1 GTGGTGGATTTGCTGGTCTGGCTTCAG
13117319 GTGG
1 GTGG
13117323 CTGGGGTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
26 1 0.02
27 26 0.52
30 22 0.44
31 1 0.02
ACGTcount: A:0.06, C:0.11, G:0.44, T:0.39
Consensus pattern (27 bp):
GTGGTGGATTTGCTGGTCTGGCTTCAG
Found at i:13117396 original size:30 final size:30
Alignment explanation
Indices: 13117332--13117420 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 30
13117322 GCTGGGGTTT
* ** *
13117332 TGCTGCCTCAGTTAGTGGAGGATTCACAGG
1 TGCTGCCTCAGTTAGTGGTGGATTTGCAGC
*
13117362 TGCTGCCTCAGTTAGTGGTGGATTTGCTGC
1 TGCTGCCTCAGTTAGTGGTGGATTTGCAGC
* * *
13117392 TGCTGCCTCAGGTGGTGGTGGTTTTGCAG
1 TGCTGCCTCAGTTAGTGGTGGATTTGCAG
13117421 GAGCTGGCTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.12, C:0.19, G:0.36, T:0.33
Consensus pattern (30 bp):
TGCTGCCTCAGTTAGTGGTGGATTTGCAGC
Found at i:13120914 original size:19 final size:19
Alignment explanation
Indices: 13120885--13120921 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13120875 GTGAGATAAA
13120885 AAATTTAATTTA-ACTTTT
1 AAATTTAATTTACACTTTT
13120903 AAATTCTAATTTACACTTT
1 AAATT-TAATTTACACTTT
13120922 AAAGTCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTTAATTTACACTTTT
Found at i:13123143 original size:30 final size:30
Alignment explanation
Indices: 13123109--13123171 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
13123099 ATTACCCCAA
* *
13123109 AATAACAACAAATATATTAGATCCTAACTT
1 AATAACAACAAATATATTAAATCCTAACCT
** **
13123139 AATAATTATGAATATATTAAATCCTAACCT
1 AATAACAACAAATATATTAAATCCTAACCT
13123169 AAT
1 AAT
13123172 CATATTGCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (30 bp):
AATAACAACAAATATATTAAATCCTAACCT
Found at i:13125482 original size:19 final size:19
Alignment explanation
Indices: 13125448--13125486 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
13125438 TAGGATAAAT
*
13125448 TATAAATTCTATTAGAAGAA
1 TATAAATGCTATTAG-AGAA
13125468 TATAAATGC-ATTAGAGAA
1 TATAAATGCTATTAGAGAA
13125486 T
1 T
13125487 TTATTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (19 bp):
TATAAATGCTATTAGAGAA
Found at i:13133706 original size:10 final size:10
Alignment explanation
Indices: 13133693--13133725 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
13133683 CTTAAAGAGC
*
13133693 TTTTTTTTTG
1 TTTTTTTTTA
13133703 TTTTTTTTTA
1 TTTTTTTTTA
13133713 -TTTTTTTTA
1 TTTTTTTTTA
13133722 TTTT
1 TTTT
13133726 GTTTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (10 bp):
TTTTTTTTTA
Done.