Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold440
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: 783396
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:407 original size:24 final size:23
Alignment explanation
Indices: 378--457 Score: 90
Period size: 24 Copynumber: 3.4 Consensus size: 23
368 TATTTTTTAT
*
378 AAAATAAAAAATAAAAATAATTAA
1 AAAATAAAAATTAAAAAT-ATTAA
*
402 AAAATAAAAATTTTAAAATA-TAA
1 AAAATAAAAA-TTAAAAATATTAA
**
425 ATAAATAAATTTTAAAAATATTAA
1 A-AAATAAAAATTAAAAATATTAA
449 AAAATAAAA
1 AAAATAAAA
458 TAGAAAGCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 19 0.40
24 22 0.47
25 6 0.13
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAATAAAAATTAAAAATATTAA
Found at i:412 original size:23 final size:22
Alignment explanation
Indices: 378--457 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 22
368 TATTTTTTAT
378 AAAATAAAAAATAAAAATAATTAA
1 AAAAT-AAAAATAAAAAT-ATTAA
*
402 AAAATAAAAATTTTAAAATA-TAA
1 AAAATAAAAA--TAAAAATATTAA
**
425 ATAAATAAATTTTAAAAATATTAA
1 A-AAATAAA-AATAAAAATATTAA
449 AAAATAAAA
1 AAAATAAAA
458 TAGAAAGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
23 23 0.50
24 17 0.37
25 6 0.13
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAATAAAAATAAAAATATTAA
Found at i:437 original size:22 final size:23
Alignment explanation
Indices: 389--456 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
379 AAATAAAAAA
389 TAAAAATAATTAAAAAATAAAAATTT
1 TAAAAAT-ATTAAAAAAT--AAATTT
415 T-AAAATA-TAAATAAATAAATTT
1 TAAAAATATTAAA-AAATAAATTT
437 TAAAAATATTAAAAAATAAA
1 TAAAAATATTAAAAAATAAA
457 ATAGAAAGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
22 7 0.18
23 17 0.44
24 9 0.23
25 5 0.13
26 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
TAAAAATATTAAAAAATAAATTT
Found at i:9620 original size:11 final size:11
Alignment explanation
Indices: 9593--9633 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
9583 TAAAATATTT
*
9593 TAAATATTATA
1 TAAATATAATA
9604 -ATAATATAATA
1 TA-AATATAATA
9615 TAAATATAATA
1 TAAATATAATA
9626 TAAATATA
1 TAAATATA
9634 TATTATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 1 0.04
11 25 0.93
12 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAATATAATA
Found at i:10239 original size:17 final size:20
Alignment explanation
Indices: 10213--10251 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
10203 AGCAGAAAGT
10213 AAAAGTGC-TTTTA-AAAAA
1 AAAAGTGCTTTTTATAAAAA
10231 AAAAG-GCTTTTTATAAAAA
1 AAAAGTGCTTTTTATAAAAA
10250 AA
1 AA
10252 TAAATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 10 0.53
19 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.28
Consensus pattern (20 bp):
AAAAGTGCTTTTTATAAAAA
Found at i:10394 original size:32 final size:34
Alignment explanation
Indices: 10338--10425 Score: 99
Period size: 32 Copynumber: 2.6 Consensus size: 34
10328 ATATGATTAT
* *
10338 AATAAAAATATATAAATATTTTAAAATTTATAT-
1 AATATAAATATATAAATATATTAAAATTTATATA
* *
10371 GATATAAAT-TATTAATATATTAAAATTTATATA
1 AATATAAATATATAAATATATTAAAATTTATATA
*
10404 AATATAAAATAATTTAAATATA
1 AATAT-AAAT-ATATAAATATA
10426 ATTATTTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 21 0.48
33 11 0.25
34 4 0.09
36 8 0.18
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (34 bp):
AATATAAATATATAAATATATTAAAATTTATATA
Found at i:10678 original size:32 final size:31
Alignment explanation
Indices: 10627--10712 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
10617 GGATTAAATT
10627 AATTAAATT-TTTTAATTTTAAAATATTTTA
1 AATTAAATTATTTTAATTTTAAAATATTTTA
* **
10657 AATTAAAATTATTTTATTTTTAAGTTATTTTGA
1 AATT-AAATTATTTTAATTTTAAAATATTTT-A
* * *
10690 ATTTAAGTAATTTTAATTTTAAA
1 AATTAAATTATTTTAATTTTAAA
10713 TAATTAAACT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 4 0.09
31 5 0.11
32 32 0.71
33 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
AATTAAATTATTTTAATTTTAAAATATTTTA
Found at i:10716 original size:16 final size:16
Alignment explanation
Indices: 10636--10717 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 16
10626 TAATTAAATT
10636 TTTTAATTTTAAA-ATA
1 TTTTAATTTTAAATA-A
* * *
10652 TTTTAAATTAAAATTA
1 TTTTAATTTTAAATAA
* * *
10668 TTTTATTTTTAAGTTA
1 TTTTAATTTTAAATAA
*
10684 TTTTGAA-TTTAAGTAA
1 TTTT-AATTTTAAATAA
10700 TTTTAATTTTAAATAA
1 TTTTAATTTTAAATAA
10716 TT
1 TT
10718 AAACTTAATA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
15 2 0.04
16 50 0.94
17 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (16 bp):
TTTTAATTTTAAATAA
Found at i:11314 original size:18 final size:19
Alignment explanation
Indices: 11291--11406 Score: 102
Period size: 18 Copynumber: 6.1 Consensus size: 19
11281 ATAATTTGAG
11291 TATTTATATAATATTTAT-
1 TATTTATATAATATTTATA
*
11309 TATTTATATTATATTTATA
1 TATTTATATAATATTTATA
*
11328 TATTT-TATTATA-TTATA
1 TATTTATATAATATTTATA
11345 -ATTATATATAAAATATTTATA
1 TATT-TATAT--AATATTTATA
11366 TATTTATATAA-ATTT-TAA
1 TATTTATATAATATTTAT-A
11384 TATTT-TAATAATTATATTATA
1 TATTTAT-ATAA-TAT-TTATA
11405 TA
1 TA
11407 AATTTTAAAA
Statistics
Matches: 83, Mismatches: 2, Indels: 23
0.77 0.02 0.21
Matches are distributed among these distances:
16 3 0.04
17 8 0.10
18 41 0.49
19 7 0.08
20 5 0.06
21 15 0.18
22 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTATATAATATTTATA
Found at i:11320 original size:23 final size:23
Alignment explanation
Indices: 11294--11411 Score: 67
Period size: 29 Copynumber: 4.6 Consensus size: 23
11284 ATTTGAGTAT
11294 TTATATAATATTTATTATTTATA
1 TTATATAATATTTATTATTTATA
11317 TTATATTTATATATTTTATTATATTATAA
1 TTATA--TA-ATA-TTTATTAT-TTAT-A
11346 TTATATATAAAATATTTATATATTTATA
1 TTAT--AT--AATATTTAT-TATTTATA
* * * *
11374 TAAATTTTAATATTTTAATAATTATA
1 T-TA-TATAATA-TTTATTATTTATA
11400 TTATATAA-ATTT
1 TTATATAATATTT
11412 TAAAAAATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 29
0.68 0.05 0.26
Matches are distributed among these distances:
22 3 0.04
23 6 0.08
24 4 0.05
25 3 0.04
26 15 0.20
27 12 0.16
28 7 0.09
29 16 0.21
30 7 0.09
31 2 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATATAATATTTATTATTTATA
Found at i:11324 original size:29 final size:29
Alignment explanation
Indices: 11291--11374 Score: 104
Period size: 29 Copynumber: 2.9 Consensus size: 29
11281 ATAATTTGAG
11291 TATTTATATAATATTTATTATTTATATTA
1 TATTTATATAATATTTATTATTTATATTA
11320 TATTTATAT-AT-TTTATTATATTATAATTA
1 TATTTATATAATATTTATTAT-TTAT-ATTA
*
11349 TA--TATAAAATATTTATATATTTATAT
1 TATTTATATAATATTTAT-TATTTATAT
11375 AAATTTTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
27 12 0.24
28 10 0.20
29 24 0.49
30 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TATTTATATAATATTTATTATTTATATTA
Found at i:11331 original size:8 final size:8
Alignment explanation
Indices: 11318--11375 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
11308 TTATTTATAT
11318 TATATTTA
1 TATATTTA
11326 TATATTT-
1 TATATTTA
11333 TATTATATTA
1 TA-TAT-TTA
11343 TA-A-TTA
1 TATATTTA
*
11349 TATA-TAA
1 TATATTTA
*
11356 AATATTTA
1 TATATTTA
11364 TATATTTA
1 TATATTTA
11372 TATA
1 TATA
11376 AATTTTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 5 0.12
7 8 0.20
8 24 0.59
9 2 0.05
10 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATTTA
Found at i:11349 original size:38 final size:37
Alignment explanation
Indices: 11291--11413 Score: 99
Period size: 38 Copynumber: 3.2 Consensus size: 37
11281 ATAATTTGAG
*
11291 TATTTATATAATATTT-ATTATTTATATTATATTTATA
1 TATTT-TATTATATTTAATTATTTATATTATATTTATA
* **
11328 TATTTTATTATATTATAATTATATATAAAATATTTATA
1 TATTTTATTATATT-TAATTATTTATATTATATTTATA
*
11366 TA-TTTATATAAATTTTAA-TATTTTAATAATTATATTATATA
1 TATTTTAT-TATA-TTTAATTA-TTT-AT-ATTATATT-TATA
*
11407 AATTTTA
1 TATTTTA
11414 AAAAATTATT
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
36 8 0.12
37 13 0.19
38 28 0.41
39 4 0.06
40 6 0.09
41 5 0.07
42 4 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (37 bp):
TATTTTATTATATTTAATTATTTATATTATATTTATA
Found at i:11362 original size:56 final size:54
Alignment explanation
Indices: 11295--11406 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 54
11285 TTTGAGTATT
* * *
11295 TATATAATATTTAT-TATTTATAT-TATATTTATATATTTTATTATATTATAATTATA
1 TATAAAATATTTATATATTTATATAAAT-TTTA-ATATTTTAATA-ATTAT-ATTATA
11351 TATAAAATATTTATATATTTATATAAATTTTAATATTTTAATAATTATATTATA
1 TATAAAATATTTATATATTTATATAAATTTTAATATTTTAATAATTATATTATA
11405 TA
1 TA
11407 AATTTTAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
54 8 0.16
55 5 0.10
56 23 0.45
57 13 0.25
58 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (54 bp):
TATAAAATATTTATATATTTATATAAATTTTAATATTTTAATAATTATATTATA
Found at i:12288 original size:20 final size:19
Alignment explanation
Indices: 12240--12295 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
12230 ATTAATTATT
12240 TTTTAATTAATATTAAAAA
1 TTTTAATTAATATTAAAAA
*
12259 TTTTATATTAATATTTAATTAA
1 TTTTA-ATTAATA-TTAA-AAA
12281 -TTTAATTAAT-TTAAA
1 TTTTAATTAATATTAAA
12296 TATAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 4 0.12
19 5 0.16
20 13 0.41
21 8 0.25
22 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATTAATATTAAAAA
Found at i:12312 original size:32 final size:33
Alignment explanation
Indices: 12263--12330 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
12253 TAAAAATTTT
* *
12263 ATATTAATATTTAATTAATTTAAT-TAATTTAA
1 ATATAAATATTTAATTAATTAAATATAATTTAA
*
12295 ATATAAATATTTTATTAATTAAATAATAATTTAA
1 ATATAAATATTTAATTAATTAAAT-ATAATTTAA
12329 AT
1 AT
12331 CTATTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 21 0.68
34 10 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (33 bp):
ATATAAATATTTAATTAATTAAATATAATTTAA
Found at i:12351 original size:36 final size:37
Alignment explanation
Indices: 12311--12387 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 37
12301 ATATTTTATT
12311 AATTAAATAAT-AATTTAAATCT-ATTTAAATAAAATA
1 AATTAAATAATAAATTT-AATCTAATTTAAATAAAATA
* * *
12347 AATT-ATTATTAAATTTAATCTAATTTAAATTAAATA
1 AATTAAATAATAAATTTAATCTAATTTAAATAAAATA
12383 AATTA
1 AATTA
12388 CTTAATTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 9 0.26
36 26 0.74
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (37 bp):
AATTAAATAATAAATTTAATCTAATTTAAATAAAATA
Found at i:13025 original size:44 final size:44
Alignment explanation
Indices: 12962--13052 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
12952 GTGTAAGATC
* *
12962 TATTATTTAATTAATAAAATCATATTTGTAAAATATAATAAAAA
1 TATTATTTAATTAAGAAAATCATATTTATAAAATATAATAAAAA
* * * *
13006 TATTATTTAATTAGGAAAATTATATTTATAAATTATAATAAAGA
1 TATTATTTAATTAAGAAAATCATATTTATAAAATATAATAAAAA
13050 TAT
1 TAT
13053 ATTAAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (44 bp):
TATTATTTAATTAAGAAAATCATATTTATAAAATATAATAAAAA
Found at i:16043 original size:17 final size:17
Alignment explanation
Indices: 16021--16053 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16011 TTTATCTCCC
16021 GAAAATATAATACGAAT
1 GAAAATATAATACGAAT
*
16038 GAAAATATCATACGAA
1 GAAAATATAATACGAA
16054 CATATCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
GAAAATATAATACGAAT
Found at i:16153 original size:19 final size:19
Alignment explanation
Indices: 16129--16166 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16119 AATTTTGACA
16129 TATTTAATAATATA-TATTG
1 TATTT-ATAATATACTATTG
*
16148 TATTTATATTATACTATTG
1 TATTTATAATATACTATTG
16167 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
TATTTATAATATACTATTG
Found at i:16865 original size:21 final size:21
Alignment explanation
Indices: 16840--16880 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16830 ATTTAAATTT
16840 AAATTATTATTTAT-TTATTAA
1 AAATTATT-TTTATATTATTAA
16861 AAATTATTTTTATATTATTA
1 AAATTATTTTTATATTATTA
16881 TTTTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AAATTATTTTTATATTATTAA
Found at i:16880 original size:14 final size:14
Alignment explanation
Indices: 16863--16889 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16853 TTTATTAAAA
16863 ATTATTTTTATATT
1 ATTATTTTTATATT
16877 ATTATTTTTATAT
1 ATTATTTTTATAT
16890 ATTTTATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTATTTTTATATT
Found at i:16913 original size:32 final size:32
Alignment explanation
Indices: 16832--16913 Score: 83
Period size: 35 Copynumber: 2.5 Consensus size: 32
16822 ACATGTTCAT
*
16832 TTAAATTTAAATTATTATTTATTTATTAAAAA
1 TTAAATTTAAATTATTATTTATATATTAAAAA
** * * *
16864 TTATTTTTATATTATTATTTTTATATATTTTATAA
1 TTAAATTTAAATTATTA--TTTATATA-TTAAAAA
16899 TTAAATTTAAATTAT
1 TTAAATTTAAATTAT
16914 ATTATTTTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 14 0.37
34 7 0.18
35 17 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TTAAATTTAAATTATTATTTATATATTAAAAA
Found at i:20612 original size:2 final size:2
Alignment explanation
Indices: 20605--20640 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
20595 TTTATGTTTG
*
20605 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20641 TATTTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:21974 original size:20 final size:21
Alignment explanation
Indices: 21951--21989 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
21941 CTATATTTAA
21951 TATTTATTTAATA-TTAAAAT
1 TATTTATTTAATAGTTAAAAT
21971 TATTTATTTAATAGTTAAA
1 TATTTATTTAATAGTTAAA
21990 TTCTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTATTTAATAGTTAAAAT
Found at i:22207 original size:2 final size:2
Alignment explanation
Indices: 22200--22227 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22190 AGTAATAGAA
22200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22228 GATGTACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26976 original size:79 final size:70
Alignment explanation
Indices: 26880--27047 Score: 174
Period size: 70 Copynumber: 2.3 Consensus size: 70
26870 TCGTAACTAG
* *
26880 AATATTATTATTTAAATTTTAAAACACGAAATTTATAAAAAAATTTAAAAAAAAAGTAAATAAGA
1 AATATCATAATTTAAATTTTAAAACACG-AA-TT-TAAAAAAA-TT-AAAAAAAA-T-AAT-A-A
26945 AAAAATTTTATTAA
57 AAAAATTTTATTAA
* * * * * *
26959 AATATCATAATTTAAATTTTAAAATACGTATTTAATAAAATTAATAAAAATAATATAAATATTTT
1 AATATCATAATTTAAATTTTAAAACACGAATTTAAAAAAATTAAAAAAAATAATAAAAAAATTTT
27024 ATTAA
66 ATTAA
*
27029 AATATCGTAATTTAAATTT
1 AATATCATAATTTAAATTT
27048 CGAGACAAGT
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
70 31 0.39
71 1 0.01
72 3 0.04
73 1 0.01
74 7 0.09
75 2 0.03
76 7 0.09
77 2 0.03
78 1 0.01
79 25 0.31
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (70 bp):
AATATCATAATTTAAATTTTAAAACACGAATTTAAAAAAATTAAAAAAAATAATAAAAAAATTTT
ATTAA
Found at i:29068 original size:2 final size:2
Alignment explanation
Indices: 29061--29103 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
29051 ATTTGTAAAC
29061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29103 A
1 A
29104 AAAGTGGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30351 original size:3 final size:3
Alignment explanation
Indices: 30337--30388 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
30327 ATATTACACT
* *
30337 ATA ATA ACA ATA ATA ATA ATA ATA AT- ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
30384 ATA AT
1 ATA AT
30389 TTATTATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:30395 original size:3 final size:3
Alignment explanation
Indices: 30389--30434 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
30379 TAATAATAAT
30389 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30435 AGGATATGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38974 original size:17 final size:18
Alignment explanation
Indices: 38933--39049 Score: 67
Period size: 16 Copynumber: 6.8 Consensus size: 18
38923 TATATTATAA
38933 TTATATTTA-A-AATATT
1 TTATATTTATATAATATT
38949 TT-TATTTATATAA-ATT
1 TTATATTTATATAATATT
*
38965 TTATATTTATATACTACTAT
1 TTATATTTATATAATA-T-T
* *
38985 ATAAATTT-TA-AA-A-T
1 TTATATTTATATAATATT
*
38999 ATATATTTATATCATATATT
1 TTATATTTATAT-A-ATATT
39019 TTATAATTTATA-AATA--
1 TTAT-ATTTATATAATATT
*
39035 TTATATTTATTTAAT
1 TTATATTTATATAAT
39050 TATATTTAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
14 8 0.10
15 14 0.17
16 15 0.19
17 14 0.17
18 6 0.08
19 5 0.06
20 11 0.14
21 7 0.09
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATTTATATAATATT
Found at i:38975 original size:15 final size:16
Alignment explanation
Indices: 38933--39044 Score: 54
Period size: 15 Copynumber: 6.6 Consensus size: 16
38923 TATATTATAA
38933 TTATATTTA-AAATAT
1 TTATATTTATAAATAT
*
38948 TTTTATTTATATAA-ATT
1 TTATATTTATA-AATA-T
38965 TTATATTTATATACTACTAT
1 TTATATTTATA-A--A-TAT
* *
38985 ATAAATTT-TAAA-AT
1 TTATATTTATAAATAT
*
38999 ATATATTTATATCATATATT
1 TTATATTTATA--A-ATA-T
39019 TTATAATTTATAAATA-
1 TTAT-ATTTATAAATAT
39035 TTATATTTAT
1 TTATATTTAT
39045 TTAATTATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 28
0.69 0.05 0.25
Matches are distributed among these distances:
14 9 0.12
15 16 0.21
16 7 0.09
17 16 0.21
18 5 0.06
19 5 0.06
20 11 0.14
21 8 0.10
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATATTTATAAATAT
Found at i:39057 original size:29 final size:31
Alignment explanation
Indices: 39019--39091 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
39009 ATCATATATT
* *
39019 TTATAATTTATAAA-TATTATATTT-ATTTAA
1 TTAT-ATTTATAAATTATCAAATTTAATTTAA
39049 TTATATTTA-AAATTATCAAATTTAATTTAA
1 TTATATTTATAAATTATCAAATTTAATTTAA
39079 TATATTATTTATA
1 T-TA-TATTTATA
39092 CATGTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 3 0.08
29 13 0.36
30 11 0.31
31 2 0.06
32 6 0.17
33 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (31 bp):
TTATATTTATAAATTATCAAATTTAATTTAA
Found at i:39378 original size:2 final size:2
Alignment explanation
Indices: 39373--39398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39363 TATGTATTAA
39373 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
39399 GATTTTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40099 original size:91 final size:91
Alignment explanation
Indices: 39941--40124 Score: 314
Period size: 91 Copynumber: 2.0 Consensus size: 91
39931 AACAGTTCAG
* * * *
39941 ATTATCTTGCATAAGATTTTACTATAAAGGATCGTTCCCTATGATAAAAAATACTCACTTTTTTT
1 ATTATCTTGCATAAGATTTTACCATAAAGCATCGTTCCCTATGATAAAAAACACTCACTTTTCTT
*
40006 AAAAATTAAAATTTTAATTGGTAAGA
66 AAAAATTAAAAATTTAATTGGTAAGA
*
40032 ATTATCTTGTATAAGATTTTACCATAAAGCATCGTTCCCTATGATAAAAAACACTCACTTTTCTT
1 ATTATCTTGCATAAGATTTTACCATAAAGCATCGTTCCCTATGATAAAAAACACTCACTTTTCTT
40097 AAAAATTAAAAATTTAATTGGTAAGA
66 AAAAATTAAAAATTTAATTGGTAAGA
40123 AT
1 AT
40125 CCGATTCTCA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (91 bp):
ATTATCTTGCATAAGATTTTACCATAAAGCATCGTTCCCTATGATAAAAAACACTCACTTTTCTT
AAAAATTAAAAATTTAATTGGTAAGA
Found at i:40188 original size:70 final size:70
Alignment explanation
Indices: 40079--40242 Score: 238
Period size: 70 Copynumber: 2.3 Consensus size: 70
40069 CCTATGATAA
* * *
40079 AAAACACTCACTTTTCTTAAAAATTAAAAATTTAATTGGTAAGAATCCGATTCTCATGTTTGTTA
1 AAAATACTCAC-TTTCTTGAAAATTAAAAATTTAATTGGTAAGAATACGATTCTCATGTTTGTTA
40144 TACCGG
65 TACCGG
* * * * *
40150 AAAATACTCACTCTCTTGAAAATTGAAATTTTAGTTGGTAAGAATATGATTCTCATGTTTGTTAT
1 AAAATACTCACTTTCTTGAAAATTAAAAATTTAATTGGTAAGAATACGATTCTCATGTTTGTTAT
40215 ACCGG
66 ACCGG
*
40220 AAAGTACTCACTTTCTTGAAAAT
1 AAAATACTCACTTTCTTGAAAAT
40243 GTCACATTCC
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
70 73 0.88
71 10 0.12
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (70 bp):
AAAATACTCACTTTCTTGAAAATTAAAAATTTAATTGGTAAGAATACGATTCTCATGTTTGTTAT
ACCGG
Found at i:45920 original size:2 final size:2
Alignment explanation
Indices: 45901--45938 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
45891 ATAAATAACT
* *
45901 TA TA TG TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45939 AGATTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:46108 original size:25 final size:25
Alignment explanation
Indices: 46080--46135 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
46070 TAAAGCAGTT
* *
46080 TATTCTCAT-GCTGCCTTTAACATGG
1 TATTCTC-TCGCTACCTTTAACATGA
*
46105 TATTCTCTCTCTACCTTTAACATGA
1 TATTCTCTCGCTACCTTTAACATGA
46130 TATTCT
1 TATTCT
46136 TTTTTCACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.45
Consensus pattern (25 bp):
TATTCTCTCGCTACCTTTAACATGA
Found at i:49032 original size:17 final size:16
Alignment explanation
Indices: 49010--49058 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
49000 TTTAAAGAAG
49010 TTTAATTTGAATTATTA
1 TTTAATTT-AATTATTA
* *
49027 TTTAATAATAATTTTTA
1 TTTAAT-TTAATTATTA
49044 TTTAAATTTAATTAT
1 TTT-AATTTAATTAT
49059 AAATATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTAATTTAATTATTA
Found at i:49337 original size:47 final size:47
Alignment explanation
Indices: 49278--49381 Score: 124
Period size: 47 Copynumber: 2.2 Consensus size: 47
49268 ATAGTAATTA
*
49278 AATAAT-TAAAAATATTTTTATTTAA-ATTTAATTATGAATATATAA-AT
1 AATAATAT-AAAATATTTTTATTTAATA-TTAATTATAAATA-ATAATAT
* **
49325 ATTAATATAAAATATTTTTATTTTTTATTAATTATAAATAATAATAT
1 AATAATATAAAATATTTTTATTTAATATTAATTATAAATAATAATAT
49372 AATAATATAA
1 AATAATATAA
49382 GTGAGCCGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
46 4 0.08
47 43 0.88
48 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (47 bp):
AATAATATAAAATATTTTTATTTAATATTAATTATAAATAATAATAT
Found at i:49917 original size:11 final size:11
Alignment explanation
Indices: 49901--49925 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49891 CGAAACAAAT
49901 AAAAAAATTAA
1 AAAAAAATTAA
49912 AAAAAAATTAA
1 AAAAAAATTAA
49923 AAA
1 AAA
49926 TTCTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAATTAA
Found at i:51413 original size:32 final size:33
Alignment explanation
Indices: 51370--51433 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
51360 TAGCCAAACT
* **
51370 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCAATACACAAAAAATTGTATCGATACAA
51402 TGTATCAATACACAAAAAATTGTATCGATACA
1 TGTATCAATACACAAAAAATTGTATCGATACA
51434 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCAATACACAAAAAATTGTATCGATACAA
Found at i:55500 original size:15 final size:15
Alignment explanation
Indices: 55480--55510 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55470 TAAAAATGTC
*
55480 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
55495 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
55510 C
1 C
55511 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:57607 original size:13 final size:13
Alignment explanation
Indices: 57589--57626 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
57579 CATTTTTCTT
57589 TGTATCGATACAA
1 TGTATCGATACAA
*
57602 TGTATCGATACAC
1 TGTATCGATACAA
57615 TGTATCGATACA
1 TGTATCGATACA
57627 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:57781 original size:20 final size:20
Alignment explanation
Indices: 57738--57783 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
57728 AAATCTTTTG
57738 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
57759 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
57779 CAAAA
1 CAAAA
57784 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:60191 original size:19 final size:18
Alignment explanation
Indices: 60167--60229 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
60157 TAGCCAAACT
60167 TGTATCGATACACAGAGTA
1 TGTATCGATACACA-AGTA
60186 TGTATCGAT--AC-A--A
1 TGTATCGATACACAAGTA
60199 TGTATCGATACACAAAGTA
1 TGTATCGATACAC-AAGTA
60218 TGTATCGATACA
1 TGTATCGATACA
60230 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (18 bp):
TGTATCGATACACAAGTA
Found at i:60203 original size:13 final size:13
Alignment explanation
Indices: 60185--60242 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
60175 TACACAGAGT
60185 ATGTATCGATACA
1 ATGTATCGATACA
60198 ATGTATCGATACACAAA
1 ATGTATCGAT--AC--A
60215 GTATGTATCGATACA
1 --ATGTATCGATACA
60230 ATGTATCGATACA
1 ATGTATCGATACA
60243 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 3 0.08
17 3 0.08
19 10 0.26
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:60208 original size:32 final size:32
Alignment explanation
Indices: 60167--60262 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
60157 TAGCCAAACT
*
60167 TGTATCGATACACAGAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
60199 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
**
60231 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAGTA-TGTATCGATACA
60263 TTGGCTTGTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 48 0.80
33 12 0.20
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:61769 original size:2 final size:2
Alignment explanation
Indices: 61764--61788 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61754 TGTATGTGTG
61764 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
61789 TACTAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62132 original size:16 final size:18
Alignment explanation
Indices: 62106--62141 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
62096 TTATTTAAAT
62106 TTAATTATAAAAAT-ATA
1 TTAATTATAAAAATAATA
62123 TTAA-TATAAAAATAATA
1 TTAATTATAAAAATAATA
62140 TT
1 TT
62142 TAAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATTATAAAAATAATA
Found at i:64138 original size:28 final size:27
Alignment explanation
Indices: 64107--64197 Score: 80
Period size: 28 Copynumber: 3.4 Consensus size: 27
64097 ATTTATTATT
64107 TACTTAAAAAGAAAACAACAAATTTTTA
1 TACTTAAAAAGAAAACAAC-AATTTTTA
** * * * *
64135 TACTTAAAAA-TTATC-TC-TTTTTTT
1 TACTTAAAAAGAAAACAACAATTTTTA
64159 TACTTAAAAAAGAAAACAACACATTTTTA
1 TACTT-AAAAAGAAAACAACA-ATTTTTA
64188 TACTTAAAAA
1 TACTTAAAAA
64198 TTATCTCTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
24 10 0.22
25 5 0.11
26 3 0.07
27 3 0.07
28 15 0.33
29 10 0.22
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.36
Consensus pattern (27 bp):
TACTTAAAAAGAAAACAACAATTTTTA
Found at i:64185 original size:53 final size:52
Alignment explanation
Indices: 64086--64210 Score: 200
Period size: 53 Copynumber: 2.4 Consensus size: 52
64076 ATCACTTTTC
* *
64086 ACTTAAAAATTAT-T-TATTATTTACTTAAAAAGAAAACAACAAATTTTTAT
1 ACTTAAAAATTATCTCTTTTTTTTACTTAAAAAGAAAACAACAAATTTTTAT
*
64136 ACTTAAAAATTATCTCTTTTTTTTACTTAAAAAAGAAAACAACACATTTTTAT
1 ACTTAAAAATTATCTCTTTTTTTTACTT-AAAAAGAAAACAACAAATTTTTAT
64189 ACTTAAAAATTATCTCTTTTTT
1 ACTTAAAAATTATCTCTTTTTT
64211 CAAATATATT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
50 13 0.19
51 1 0.01
52 10 0.14
53 45 0.65
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (52 bp):
ACTTAAAAATTATCTCTTTTTTTTACTTAAAAAGAAAACAACAAATTTTTAT
Found at i:64658 original size:18 final size:18
Alignment explanation
Indices: 64637--64681 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
64627 TATAACATAA
* * *
64637 ATAATATATTTAATAGAT
1 ATAATATAATAAATAAAT
*
64655 ATAAAATAATAAATAAAT
1 ATAATATAATAAATAAAT
64673 ATAATATAA
1 ATAATATAA
64682 AACATTTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAATATAATAAATAAAT
Found at i:64669 original size:27 final size:27
Alignment explanation
Indices: 64626--64678 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
64616 ACTATAAAAA
* * *
64626 ATATAACATAAATAATATATTTAATAG
1 ATATAAAATAAATAATAAATATAATAG
64653 ATATAAAAT-AATAAATAAATATAATA
1 ATATAAAATAAAT-AATAAATATAATA
64679 TAAAACATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (27 bp):
ATATAAAATAAATAATAAATATAATAG
Found at i:64679 original size:23 final size:23
Alignment explanation
Indices: 64619--64683 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
64609 TTTAAATACT
*
64619 ATAAA-AAATATAACAT-AAATA
1 ATAAATAAATATAATATAAAATA
* * *
64640 ATATATTTAATA-GATATAAAATA
1 ATA-AATAAATATAATATAAAATA
64663 ATAAATAAATATAATATAAAA
1 ATAAATAAATATAATATAAAA
64684 CATTTAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 3 0.09
22 10 0.30
23 20 0.61
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
ATAAATAAATATAATATAAAATA
Found at i:65078 original size:11 final size:12
Alignment explanation
Indices: 65039--65090 Score: 83
Period size: 11 Copynumber: 4.6 Consensus size: 12
65029 TTTTCTTATC
65039 ATATTATATTTT
1 ATATTATATTTT
65051 ATATTATATTTT
1 ATATTATATTTT
65063 A-ATTAT-TTTT
1 ATATTATATTTT
65073 ATATTATA-TTT
1 ATATTATATTTT
65084 ATATTAT
1 ATATTAT
65091 CATTAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.13
11 20 0.53
12 13 0.34
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTATATTTT
Found at i:65095 original size:17 final size:16
Alignment explanation
Indices: 65039--65100 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
65029 TTTTCTTATC
65039 ATATTATATTTTATATT
1 ATATTATA-TTTATATT
* * *
65056 ATATTTTAATTATTTTT
1 ATATTATATTTA-TATT
65073 ATATTATATTTATATT
1 ATATTATATTTATATT
65089 ATCATTAATATT
1 AT-ATT-ATATT
65101 ATTGTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
16 8 0.22
17 23 0.64
18 5 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTATATTTATATT
Found at i:65535 original size:19 final size:19
Alignment explanation
Indices: 65511--65550 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
65501 TTAAATTGAA
65511 TTAATTAAAA-AATTAATAT
1 TTAATTAAAACAA-TAATAT
65530 TTAATTAAAACAATAATAT
1 TTAATTAAAACAATAATAT
65549 TT
1 TT
65551 TTATAAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAATTAAAACAATAATAT
Found at i:65877 original size:16 final size:16
Alignment explanation
Indices: 65856--65907 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
65846 TAAACTCGAT
65856 TAATCAAAAATTAAAA
1 TAATCAAAAATTAAAA
*
65872 TAATCAAAATTTAAAA
1 TAATCAAAAATTAAAA
*
65888 TAATTC-AAAATAAAAA
1 TAA-TCAAAAATTAAAA
65904 TAAT
1 TAAT
65908 TTTAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 1 0.03
16 29 0.91
17 2 0.06
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATCAAAAATTAAAA
Found at i:66305 original size:21 final size:21
Alignment explanation
Indices: 66281--66321 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
66271 ATATAAAATA
66281 TTATATATATAAATTTTAATT
1 TTATATATATAAATTTTAATT
*
66302 TTATGTATATAAATTTTAAT
1 TTATATATATAAATTTTAAT
66322 ATATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTATATATATAAATTTTAATT
Found at i:66679 original size:23 final size:22
Alignment explanation
Indices: 66653--66711 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
66643 ATTATATATT
66653 TATATATTTAATAATATT-AAA
1 TATATATTTAATAATATTAAAA
**
66674 TATATATAAAAATAATAATTAAAA
1 TATATAT-TTAATAAT-ATTAAAA
66698 TAT-TATTTAA-AATA
1 TATATATTTAATAATA
66712 AAAAATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 1 0.03
21 10 0.32
22 8 0.26
23 6 0.19
24 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATATTTAATAATATTAAAA
Found at i:66689 original size:25 final size:25
Alignment explanation
Indices: 66662--66709 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
66652 TTATATATTT
66662 AATAAT-ATT-AAATA-TATATAAA
1 AATAATAATTAAAATATTATATAAA
*
66684 AATAATAATTAAAATATTATTTAAA
1 AATAATAATTAAAATATTATATAAA
66709 A
1 A
66710 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
24 5 0.23
25 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAATAATTAAAATATTATATAAA
Found at i:66793 original size:25 final size:24
Alignment explanation
Indices: 66765--66826 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 24
66755 TTTATATAAT
66765 ATAAATTAATAAAATATTAATTTTA
1 ATAAATTAATAAAATATT-ATTTTA
*
66790 ATAAA--AATATAA-ATTATTTTA
1 ATAAATTAATAAAATATTATTTTA
*
66811 ATAAATT-ATAATATAT
1 ATAAATTAATAAAATAT
66827 AAAAATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 11 0.35
22 7 0.23
23 8 0.26
25 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAAATTAATAAAATATTATTTTA
Found at i:66798 original size:18 final size:17
Alignment explanation
Indices: 66750--66804 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 17
66740 TTAAATTTTT
*
66750 TAAATTTT-ATATAATA
1 TAAATTTTAATAAAATA
66766 TAAA--TTAATAAAATA
1 TAAATTTTAATAAAATA
*
66781 TTAATTTTAATAAAAATA
1 TAAATTTTAAT-AAAATA
66799 TAAATT
1 TAAATT
66805 ATTTTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.06
15 10 0.31
16 4 0.12
17 5 0.16
18 11 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTTAATAAAATA
Found at i:66981 original size:2 final size:2
Alignment explanation
Indices: 66974--67020 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
66964 CACTCTTTCT
* * *
66974 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TG TC TC TG
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
67016 TC TC T
1 TC TC T
67021 TTCGTTTGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.43, G:0.04, T:0.53
Consensus pattern (2 bp):
TC
Found at i:67716 original size:21 final size:20
Alignment explanation
Indices: 67686--67726 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
67676 AGAAATACTG
* *
67686 TGTTAGGCCCAACATTGGCAT
1 TGTTAAGCCCAA-ATCGGCAT
67707 TGTTAAGCCCAAATCGGCAT
1 TGTTAAGCCCAAATCGGCAT
67727 CTGAAGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (20 bp):
TGTTAAGCCCAAATCGGCAT
Found at i:68206 original size:21 final size:21
Alignment explanation
Indices: 68188--68229 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
68178 AAAAATATTT
68188 TTTAT-ATTAATATTTATATAA
1 TTTATAATTAA-ATTTATATAA
*
68209 TTTATAATTAAATTTAAATAA
1 TTTATAATTAAATTTATATAA
68230 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATAATTAAATTTATATAA
Found at i:74864 original size:29 final size:30
Alignment explanation
Indices: 74804--74875 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 30
74794 TTTTTATTTG
* *
74804 ATATAAAAATTTATTTAGATATAAATCAAA
1 ATATAAAAACTTATTTAGATATAAATAAAA
74834 ATATAAAAACTTATTT-GA-ATATAATAAAA
1 ATATAAAAACTTATTTAGATATA-AATAAAA
74863 ATATAAAAACTTA
1 ATATAAAAACTTA
74876 CGTAAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 3 0.08
29 21 0.54
30 15 0.38
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (30 bp):
ATATAAAAACTTATTTAGATATAAATAAAA
Found at i:76367 original size:30 final size:31
Alignment explanation
Indices: 76333--76390 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
76323 AAACCTCATG
76333 AGATAAATAAAATTATTT-TTAA-ATTTAAAA
1 AGAT-AATAAAATTATTTCTTAATATTTAAAA
* *
76363 AGATAATAATATTTTTTCTTAATATTTA
1 AGATAATAAAATTATTTCTTAATATTTA
76391 GTAACAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.46
30 8 0.33
31 5 0.21
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
AGATAATAAAATTATTTCTTAATATTTAAAA
Found at i:77126 original size:19 final size:19
Alignment explanation
Indices: 77088--77127 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
77078 TAAATTTAAA
** *
77088 TATTTTTTAATTTAATATT
1 TATTTTTTAAAATAAAATT
77107 TATTTTTTAAAATAAAATT
1 TATTTTTTAAAATAAAATT
77126 TA
1 TA
77128 AATTGAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTTTTAAAATAAAATT
Found at i:77147 original size:48 final size:48
Alignment explanation
Indices: 77054--77147 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
77044 CAAACGATTG
* ***
77054 ATATTTATTTTTTAAATAAAATCTTAAATTTAAATATTTTTTAATTTA
1 ATATTTATTTTTTAAATAAAATCTTAAATTGAAATATTACGTAATTTA
*
77102 ATATTTATTTTTTAAAATAAAAT-TTAAATTGAAATGTTACGTAATT
1 ATATTTATTTTTT-AAATAAAATCTTAAATTGAAATATTACGTAATT
77148 ATAAGTACAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 31 0.77
49 9 0.22
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (48 bp):
ATATTTATTTTTTAAATAAAATCTTAAATTGAAATATTACGTAATTTA
Found at i:77665 original size:68 final size:68
Alignment explanation
Indices: 77530--77666 Score: 166
Period size: 68 Copynumber: 2.0 Consensus size: 68
77520 GGACATCCGA
* * * * ***
77530 ACCCAAGTTCATGTAATATAAATTGTTGATATATTTTAGATTGTGTCGCATTTATTATGATTGTG
1 ACCCAAATTCATATAACATAAATTGTTGATATATTTTAAATTGTGTCGCATTTATTATGACCATG
77595 AAT
66 AAT
* * * * *
77598 ACCCAAATTCATATAACATAAATTGTTGATCTGTTTTAAATTGTGTTGCGTTTATTGTGACCATG
1 ACCCAAATTCATATAACATAAATTGTTGATATATTTTAAATTGTGTCGCATTTATTATGACCATG
77663 AAT
66 AAT
77666 A
1 A
77667 TTAACAGTTA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.42
Consensus pattern (68 bp):
ACCCAAATTCATATAACATAAATTGTTGATATATTTTAAATTGTGTCGCATTTATTATGACCATG
AAT
Found at i:77939 original size:2 final size:2
Alignment explanation
Indices: 77932--77976 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
77922 ATCATTACAG
77932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77974 TA T
1 TA T
77977 TGACAGGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79926 original size:12 final size:12
Alignment explanation
Indices: 79909--79942 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
79899 TGCATGCATG
*
79909 CATACATACACA
1 CATACACACACA
79921 CATACACACACA
1 CATACACACACA
*
79933 CACACACACA
1 CATACACACA
79943 GATACATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.41, G:0.00, T:0.09
Consensus pattern (12 bp):
CATACACACACA
Found at i:86901 original size:18 final size:18
Alignment explanation
Indices: 86888--86931 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 18
86878 CATAAAATGC
86888 TTATTT-ATATTAAATAT
1 TTATTTAATATTAAATAT
86905 TTATTTAATATT-AAT-T
1 TTATTTAATATTAAATAT
86921 TT-TTTAATATT
1 TTATTTAATATT
86932 TTAATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.35
16 3 0.12
17 9 0.35
18 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTTAATATTAAATAT
Found at i:87455 original size:10 final size:10
Alignment explanation
Indices: 87420--87459 Score: 57
Period size: 9 Copynumber: 4.1 Consensus size: 10
87410 TAATTATTTG
87420 ATATAAATATA
1 ATATAAA-ATA
87431 ATA-AAAATA
1 ATATAAAATA
87440 AT-TAAAATA
1 ATATAAAATA
87449 ATATAAAATA
1 ATATAAAATA
87459 A
1 A
87460 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 13 0.48
10 11 0.41
11 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATATAAAATA
Found at i:87488 original size:23 final size:23
Alignment explanation
Indices: 87425--87478 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
87415 ATTTGATATA
* *
87425 AATATAATAA-AAATAATTAAAAT
1 AATATAA-AATAAAAAATAAAAAT
87448 AATATAAAATAAAAAATAAAAAT
1 AATATAAAATAAAAAATAAAAAT
*
87471 AATTTAAA
1 AATATAAA
87479 TATATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AATATAAAATAAAAAATAAAAAT
Found at i:87545 original size:17 final size:17
Alignment explanation
Indices: 87505--87558 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
87495 AATCTATTTA
*
87505 ATATAAATTATTAATAT
1 ATATAATTTATTAATAT
87522 ATCATAATTTATATAAT-T
1 AT-ATAATTTAT-TAATAT
*
87540 ATATAATGTATTAA-AT
1 ATATAATTTATTAATAT
87556 ATA
1 ATA
87559 ATTATAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 7 0.22
17 10 0.31
18 11 0.34
19 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
ATATAATTTATTAATAT
Found at i:87812 original size:31 final size:33
Alignment explanation
Indices: 87768--87848 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 33
87758 AAAAAAATTC
*
87768 AAATATATAAATATATCAAAACTTAT-TAA-CAT
1 AAAT-TATTAATATATCAAAACTTATATAATCAT
* * *
87800 AAATTATTAATATATCATAATTTATATAATTAT
1 AAATTATTAATATATCAAAACTTATATAATCAT
87833 ATAATTATATAATATA
1 A-AATTAT-TAATATA
87849 CTAAATATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 18 0.44
32 7 0.17
33 3 0.07
34 6 0.15
35 7 0.17
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (33 bp):
AAATTATTAATATATCAAAACTTATATAATCAT
Found at i:87834 original size:8 final size:8
Alignment explanation
Indices: 87801--87865 Score: 66
Period size: 8 Copynumber: 8.1 Consensus size: 8
87791 TATTAACATA
87801 AATTAT-T
1 AATTATAT
87808 AATATATCAT
1 AAT-TAT-AT
87818 AATTTATAT
1 AA-TTATAT
87827 AATTATAT
1 AATTATAT
87835 AATTATAT
1 AATTATAT
87843 AA-TATACT
1 AATTATA-T
87851 AA--ATAT
1 AATTATAT
87857 AATTATAT
1 AATTATAT
87865 A
1 A
87866 CGAAAAGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
6 3 0.06
7 10 0.20
8 27 0.53
9 4 0.08
10 6 0.12
11 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTATAT
Found at i:88192 original size:8 final size:8
Alignment explanation
Indices: 88181--88261 Score: 61
Period size: 8 Copynumber: 10.9 Consensus size: 8
88171 TATAAAAATA
88181 ATATTAAT
1 ATATTAAT
88189 ATATTAAT
1 ATATTAAT
88197 ATATTAA-
1 ATATTAAT
88204 AT-TT-AT
1 ATATTAAT
88210 ATAATATAAT
1 AT-AT-TAAT
*
88220 TTATTAAT
1 ATATTAAT
88228 ATATTAA-
1 ATATTAAT
88235 A-ATT--T
1 ATATTAAT
*
88240 ATATAAAT
1 ATATTAAT
88248 ATA-TAAT
1 ATATTAAT
*
88255 ATTTTAA
1 ATATTAA
88262 AAATAATTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
5 2 0.03
6 9 0.16
7 8 0.14
8 33 0.57
9 3 0.05
10 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
ATATTAAT
Found at i:88216 original size:18 final size:18
Alignment explanation
Indices: 88188--88251 Score: 66
Period size: 14 Copynumber: 3.7 Consensus size: 18
88178 ATAATATTAA
88188 TATATTAATATATTAAATT
1 TATA-TAATATATTAAATT
88207 TATAT-A-ATA-T-AATT
1 TATATAATATATTAAATT
88221 TAT-TAATATATTAAAATT
1 TATATAATATATT-AAATT
88239 TATATAAATATAT
1 TATAT-AATATAT
88252 AATATTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 8 0.21
15 4 0.11
16 4 0.11
17 1 0.03
18 8 0.21
19 5 0.13
20 7 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATAATATATTAAATT
Found at i:88227 original size:13 final size:14
Alignment explanation
Indices: 88185--88230 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
88175 AAAATAATAT
*
88185 TAATAT-ATTAATA
1 TAATATAATTTATA
*
88198 TATTA-AATTTATA
1 TAATATAATTTATA
88211 TAATATAATTTAT-
1 TAATATAATTTATA
88224 TAATATA
1 TAATATA
88231 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATAATTTATA
Found at i:88227 original size:31 final size:32
Alignment explanation
Indices: 88178--88250 Score: 112
Period size: 31 Copynumber: 2.2 Consensus size: 32
88168 TAATATAAAA
88178 ATAATATTAATATATTAATATATT-AAATTTAT
1 ATAATA-TAATATATTAATATATTAAAATTTAT
*
88210 ATAATATAATTTATTAATATATTAAAATTTAT
1 ATAATATAATATATTAATATATTAAAATTTAT
88242 ATAAATATA
1 AT-AATATA
88251 TAATATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
31 16 0.42
32 16 0.42
33 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTAATATATTAAAATTTAT
Found at i:88248 original size:20 final size:19
Alignment explanation
Indices: 88219--88287 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 19
88209 TATAATATAA
*
88219 TTTATTAATATATTAAAAT
1 TTTATAAATATATTAAAAT
*
88238 TTATATAAATATA-TAATAT
1 TT-TATAAATATATTAAAAT
* *
88257 TTTAAAAATA-ATTATAAT
1 TTTATAAATATATTAAAAT
88275 ATTTA-AAATATAT
1 -TTTATAAATATAT
88288 AAATATATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.02
18 16 0.39
19 15 0.37
20 9 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTATAAATATATTAAAAT
Found at i:88265 original size:18 final size:18
Alignment explanation
Indices: 88186--88289 Score: 68
Period size: 20 Copynumber: 5.5 Consensus size: 18
88176 AAATAATATT
*
88186 AATATATTAATATATTAAA
1 AATATA-TAATATTTTAAA
** **
88205 TTTATATAATATAATTTATT
1 AATATATAATAT--TTTAAA
* *
88225 AATATATTAAAATTTATATA
1 AATATA-TAATATTT-TAAA
88245 AATATATAATATTTTAAA
1 AATATATAATATTTTAAA
88263 AATAATTATAATA-TTT-AA
1 AAT-A-TATAATATTTTAAA
88281 AATATATAA
1 AATATATAA
88290 ATATATAATT
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
16 5 0.07
17 1 0.01
18 17 0.25
19 17 0.25
20 23 0.34
21 5 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATATAATATTTTAAA
Found at i:88267 original size:22 final size:24
Alignment explanation
Indices: 88239--88304 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 24
88229 TATTAAAATT
88239 TATATAAATATATAATATTTTAAA
1 TATATAAATATATAATATTTTAAA
*
88263 -A-AT-AAT-TATAATATTTAAAA
1 TATATAAATATATAATATTTTAAA
*
88283 TATATAAATATATAATTTTTTA
1 TATATAAATATATAATATTTTA
88305 TTCGAACATG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
20 13 0.37
21 4 0.11
22 4 0.11
23 4 0.11
24 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATAAATATATAATATTTTAAA
Found at i:88275 original size:27 final size:27
Alignment explanation
Indices: 88165--88298 Score: 107
Period size: 27 Copynumber: 4.9 Consensus size: 27
88155 AAATTTTGAA
88165 TAATA-ATATAAAAATAATATTAATATAT
1 TAATATAT-TAAAAATAATA-TAATATAT
*
88193 TAATATATTAAATTTATATAATATAATTTAT
1 TAATATATTAAA---A-ATAATATAATATAT
* *
88224 TAATATATTAAAATTTATATAA-ATAT
1 TAATATATTAAAAATAATATAATATAT
*
88250 ATAATATTTTAAAAATAATTATAATAT-T
1 -TAATATATTAAAAATAA-TATAATATAT
* *
88278 TAAAATA-TATAAAT-ATATAAT
1 TAATATATTAAAAATAATATAAT
88299 TTTTTATTCG
Statistics
Matches: 88, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
24 6 0.07
25 1 0.01
26 9 0.10
27 26 0.30
28 16 0.18
29 4 0.05
31 20 0.23
32 6 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATATATTAAAAATAATATAATATAT
Found at i:88592 original size:9 final size:9
Alignment explanation
Indices: 88536--88592 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
88526 ATGATAATTT
88536 TAAATATAATA
1 TAAATAT-A-A
88547 TAAATATAA
1 TAAATATAA
** *
88556 TACGTTTAA
1 TAAATATAA
88565 TAAATATAA
1 TAAATATAA
*
88574 AAAATATAA
1 TAAATATAA
88583 TAAATATAA
1 TAAATATAA
88592 T
1 T
88593 GTGTTATGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
9 30 0.79
10 1 0.03
11 7 0.18
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAATATAA
Found at i:89021 original size:7 final size:7
Alignment explanation
Indices: 89009--89053 Score: 54
Period size: 7 Copynumber: 6.0 Consensus size: 7
88999 GCATAAATTT
89009 TTTTTAA
1 TTTTTAA
89016 TTTTTAAAA
1 TTTTT--AA
89025 TTTTTAA
1 TTTTTAA
89032 TTTTTTAA
1 -TTTTTAA
*
89040 TTTTTTA
1 TTTTTAA
89047 TTTTTAA
1 TTTTTAA
89054 ATATTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 19 0.58
8 7 0.21
9 7 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:89035 original size:15 final size:16
Alignment explanation
Indices: 89009--89066 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
88999 GCATAAATTT
89009 TTTTTAATTTTTAAAA
1 TTTTTAATTTTTAAAA
*
89025 TTTTTAATTTTT-TAA
1 TTTTTAATTTTTAAAA
*
89040 TTTTTTATTTTTAAATA
1 TTTTTAATTTTTAAA-A
89057 TTTTT-ATTTT
1 TTTTTAATTTT
89067 CACAATAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 13 0.35
16 18 0.49
17 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTAATTTTTAAAA
Found at i:89037 original size:9 final size:8
Alignment explanation
Indices: 89008--89066 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
88998 AGCATAAATT
89008 TTTTTTAA
1 TTTTTTAA
*
89016 TTTTTAAA
1 TTTTTTAA
*
89024 ATTTTTAA
1 TTTTTTAA
89032 TTTTTTAA
1 TTTTTTAA
89040 TTTTTT-A
1 TTTTTTAA
*
89047 TTTTTAAA
1 TTTTTTAA
89055 TATTTTT-A
1 T-TTTTTAA
89063 TTTT
1 TTTT
89067 CACAATAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
7 9 0.21
8 30 0.70
9 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTTAA
Found at i:89073 original size:17 final size:16
Alignment explanation
Indices: 89009--89073 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
88999 GCATAAATTT
*
89009 TTTTTAATTTTTAAA-A
1 TTTTT-ATTTTCAAATA
**
89025 TTTTTAATTTTTTAAT-
1 TTTTT-ATTTTCAAATA
*
89041 TTTTTATTTTTAAATA
1 TTTTTATTTTCAAATA
89057 TTTTTATTTTCACAATA
1 TTTTTATTTTCA-AATA
89074 ATGTGACACT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.21
16 30 0.70
17 4 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTATTTTCAAATA
Found at i:90324 original size:177 final size:177
Alignment explanation
Indices: 90043--90370 Score: 586
Period size: 177 Copynumber: 1.9 Consensus size: 177
90033 TTAAAATTTT
*
90043 TTTTATGATTTTCTTACCAATTTTGCTATGCCAAATTGCATTTCCGCCATTGCAGCTGTTTCCTT
1 TTTTATGATTTTCTTACCAATTTTGCTATGCCAAATTGCATTTCCGCCATTGCAGCTCTTTCCTT
90108 TACCTTCACCGACCGTTAGTTTCACTCACATTGCATCGGTATCGGCGCATTGTTTTGCGAACTAA
66 TACCTTCACCGACCGTTAGTTTCACTCACATTGCATCGGTATCGGCGCATTGTTTTGCGAACTAA
90173 TTCGAATTCTTAAATTTGGTCGGCTTGCTTTTTTTTTTTTTTTTTAA
131 TTCGAATTCTTAAATTTGGTCGGCTTGCTTTTTTTTTTTTTTTTTAA
* *
90220 TTTTATGATTTTCTTCCCAATTTTGCTCTGCCAAATTGCATTTCCGCCATTGCAGCTCTTTCCTT
1 TTTTATGATTTTCTTACCAATTTTGCTATGCCAAATTGCATTTCCGCCATTGCAGCTCTTTCCTT
90285 TACCTTCACCGACC-TTAGTTTTCACTCACATTGCATCGGTATCGGCGCATTGTTTTGCGAACTA
66 TACCTTCACCGACCGTTAG-TTTCACTCACATTGCATCGGTATCGGCGCATTGTTTTGCGAACTA
* * *
90349 ATTCGATTTGTTCAATTTGGTC
130 ATTCGAATTCTTAAATTTGGTC
90371 CACATTTTTA
Statistics
Matches: 144, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
176 4 0.03
177 140 0.97
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (177 bp):
TTTTATGATTTTCTTACCAATTTTGCTATGCCAAATTGCATTTCCGCCATTGCAGCTCTTTCCTT
TACCTTCACCGACCGTTAGTTTCACTCACATTGCATCGGTATCGGCGCATTGTTTTGCGAACTAA
TTCGAATTCTTAAATTTGGTCGGCTTGCTTTTTTTTTTTTTTTTTAA
Found at i:91674 original size:2 final size:2
Alignment explanation
Indices: 91667--91693 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
91657 TTATTCTTAT
91667 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
91694 TGGAACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:98143 original size:17 final size:17
Alignment explanation
Indices: 98109--98144 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
98099 TTACTTATAA
**
98109 ATATTAAATATATGTAT
1 ATATTAAATATAAATAT
98126 ATATTAAATATAAATAT
1 ATATTAAATATAAATAT
98143 AT
1 AT
98145 TTATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATTAAATATAAATAT
Found at i:98143 original size:23 final size:24
Alignment explanation
Indices: 98106--98150 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
98096 ATGTTACTTA
98106 TAAATATTAAATATATGTATATAT
1 TAAATATTAAATATATGTATATAT
*
98130 TAAATA-TAAATATATTTATAT
1 TAAATATTAAATATATGTATAT
98151 TTTTATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAAATATTAAATATATGTATATAT
Found at i:98648 original size:19 final size:18
Alignment explanation
Indices: 98624--98662 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
98614 AGATTTAATA
98624 ATTTATATATTTGTATTAT
1 ATTTATATATTT-TATTAT
*
98643 ATTTATTTATTTTATTAT
1 ATTTATATATTTTATTAT
98661 AT
1 AT
98663 CATAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:99154 original size:27 final size:27
Alignment explanation
Indices: 99110--99162 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
99100 AAAATATATT
99110 AAAATATTTTTATAATTAATTTAAATAA
1 AAAATATTTTTATAATTAA-TTAAATAA
99138 AAAATAATTTTT-T-ATTAATTAAATA
1 AAAAT-ATTTTTATAATTAATTAAATA
99163 GTAATTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.29
27 5 0.21
28 6 0.25
29 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAATATTTTTATAATTAATTAAATAA
Found at i:100038 original size:23 final size:22
Alignment explanation
Indices: 100010--100076 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
100000 AAAAAATAAA
100010 AAATATTTTTAATATTAATATTT
1 AAATATTTTTAATATTAA-ATTT
*
100033 ATATA-TTTT-ATAATTAAATTT
1 AAATATTTTTAAT-ATTAAATTT
*
100054 AAAAATTTTTAATTATTAAATTT
1 AAATATTTTTAA-TATTAAATTT
100077 TAATTCGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 9 0.24
22 13 0.35
23 14 0.38
24 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATATTTTTAATATTAAATTT
Found at i:101255 original size:17 final size:18
Alignment explanation
Indices: 101198--101254 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
101188 TATATGAATG
101198 TATTAAAATTTATAT-AA
1 TATTAAAATTTATATAAA
*
101215 TA-T-AAA-TTAT-TAATT
1 TATTAAAATTTATATAA-A
101230 TATTAAAATTTATATAAA
1 TATTAAAATTTATATAAA
101248 TATTAAA
1 TATTAAA
101255 TAATTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 5 0.16
16 2 0.06
17 5 0.16
18 11 0.34
19 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAAATTTATATAAA
Found at i:101264 original size:26 final size:27
Alignment explanation
Indices: 101214--101264 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
101204 AATTTATATA
* *
101214 ATATAAATTATTAATTTATTAAAATTT
1 ATATAAATTATTAAATAATTAAAATTT
*
101241 ATATAAA-TATTAAATAATTTAAAT
1 ATATAAATTATTAAATAATTAAAAT
101265 ACGATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATAAATTATTAAATAATTAAAATTT
Found at i:101448 original size:11 final size:12
Alignment explanation
Indices: 101423--101450 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
101413 ATGTTCCCAT
101423 AAATAATTAAAA
1 AAATAATTAAAA
101435 AAATAATTAAAA
1 AAATAATTAAAA
101447 AAAT
1 AAAT
101451 TAAAATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAATAATTAAAA
Found at i:101507 original size:4 final size:4
Alignment explanation
Indices: 101498--101525 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
101488 ATTGTGACCT
101498 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
101526 GTTCTTATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:101837 original size:29 final size:29
Alignment explanation
Indices: 101736--101839 Score: 72
Period size: 29 Copynumber: 3.5 Consensus size: 29
101726 ATGAAAATTT
*
101736 TTAAAATATTTTTACTTA-TTATTTTATTA
1 TTAAAATATTTTTA-TTATTTATTATATTA
** *
101765 TTTAAAA-ATTTTTAAAATTT-TTAAATTCGA
1 -TTAAAATATTTTTATTATTTATTATATT--A
* *
101795 -AAAAAAATTATTTTATTATTTATTATATTA
1 TTAAAATA-T-TTTTATTATTTATTATATTA
101825 TTAAAATATTTTTAT
1 TTAAAATATTTTTAT
101840 ATTAATATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 17
0.67 0.12 0.20
Matches are distributed among these distances:
28 10 0.18
29 16 0.29
30 10 0.18
31 14 0.25
32 6 0.11
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (29 bp):
TTAAAATATTTTTATTATTTATTATATTA
Found at i:101846 original size:14 final size:14
Alignment explanation
Indices: 101829--101856 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101819 ATATTATTAA
101829 AATATTTTTATATT
1 AATATTTTTATATT
101843 AATATTTTTATATT
1 AATATTTTTATATT
101857 TATAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:102769 original size:2 final size:2
Alignment explanation
Indices: 102762--102803 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
102752 CATCTCACAA
102762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102804 TAATAGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103608 original size:21 final size:22
Alignment explanation
Indices: 103570--103615 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
103560 AAACCATTTT
*
103570 ATATTTTAATTATTTTTAAAAAA
1 ATATTTT-ATTATATTTAAAAAA
*
103593 ATATTTT-TTATATTTAATAAA
1 ATATTTTATTATATTTAAAAAA
103614 AT
1 AT
103616 TTAAATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
23 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTTTATTATATTTAAAAAA
Found at i:105595 original size:14 final size:13
Alignment explanation
Indices: 105576--105605 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
105566 CAAAATCGAT
105576 TTAATTAATAAAAA
1 TTAATTAA-AAAAA
105590 TTAATTAAAAAAA
1 TTAATTAAAAAAA
105603 TTA
1 TTA
105606 GATTGAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TTAATTAAAAAAA
Found at i:105956 original size:2 final size:2
Alignment explanation
Indices: 105949--105990 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
105939 AATAAGATTC
105949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
105990 A
1 A
105991 AAGACAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106186 original size:10 final size:10
Alignment explanation
Indices: 106155--106227 Score: 58
Period size: 10 Copynumber: 6.7 Consensus size: 10
106145 ATTATACTAA
106155 AAAAAATAATT
1 AAAAAATAA-T
106166 AAAAAATTAAT
1 AAAAAA-TAAT
*
106177 ATAAAATAAT
1 AAAAAATAAT
106187 AAAAAAT-AT
1 AAAAAATAAT
106196 AAATAGCATATGAAT
1 AAA-A--A-AT-AAT
*
106211 AAAAAATTAT
1 AAAAAATAAT
106221 AAAAAAT
1 AAAAAAT
106228 TATATATCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
9 5 0.10
10 20 0.38
11 14 0.27
12 5 0.10
13 2 0.04
14 1 0.02
15 5 0.10
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:107632 original size:22 final size:23
Alignment explanation
Indices: 107607--107660 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
107597 AATATAATAA
*
107607 AATATTAAAATTATTTT-TAATT
1 AATATTTAAATTATTTTATAATT
*
107629 AATATTTATA-TATTTTATAATT
1 AATATTTAAATTATTTTATAATT
107651 AA-ATTTAAAT
1 AATATTTAAAT
107661 AAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTAAATTATTTTATAATT
Found at i:107644 original size:21 final size:21
Alignment explanation
Indices: 107618--107657 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
107608 ATATTAAAAT
107618 TATTTT-TAATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
107639 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
107658 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:108630 original size:22 final size:21
Alignment explanation
Indices: 108591--108631 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
108581 TTAAAAAAAT
* *
108591 TATTTTTAATTTATATTTATA
1 TATTTTTAAATTAAATTTATA
108612 TATTTTTATAATTAAATTTA
1 TATTTTTA-AATTAAATTTA
108632 AATAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTTTTAAATTAAATTTATA
Found at i:114652 original size:22 final size:22
Alignment explanation
Indices: 114600--114652 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
114590 ATAATATTTT
114600 TATTTAAAT-TTAATTATAAAA
1 TATTTAAATATTAATTATAAAA
*
114621 TATATAAATATTAATGTA-AAAA
1 TATTTAAATATTAAT-TATAAAA
*
114643 TATTTTAATA
1 TATTTAAATA
114653 AATATAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 17 0.63
23 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTTAAATATTAATTATAAAA
Found at i:115629 original size:36 final size:36
Alignment explanation
Indices: 115575--115857 Score: 315
Period size: 36 Copynumber: 7.9 Consensus size: 36
115565 TATGTACTCC
*
115575 TTGGCCTTGCTACTTTGTGCCCTAGCGGAAT-GATCA
1 TTGGCCTTGCTACCTTGTGCCCTAGCGG-ATGGATCA
* *
115611 TTGGCCTTGCTGCCTTGTGCTCC-AGCAGATGGATCA
1 TTGGCCTTGCTACCTTGTGC-CCTAGCGGATGGATCA
* * *
115647 TTGGCCTTGCTACCTTGTGCTCTGGCGGATGGATCT
1 TTGGCCTTGCTACCTTGTGCCCTAGCGGATGGATCA
* *
115683 TTGGCCTTGCTGCCTTGTGCTCC-AGCAGATGGATCA
1 TTGGCCTTGCTACCTTGTGC-CCTAGCGGATGGATCA
* * *
115719 TTGGCCTTGCTACCTTGTGCTCTGGCGGATGGATCT
1 TTGGCCTTGCTACCTTGTGCCCTAGCGGATGGATCA
* *
115755 TTGGCCATGCTACCTTGTG-CTTGAGCGGATGGATCA
1 TTGGCCTTGCTACCTTGTGCCCT-AGCGGATGGATCA
* * * *
115791 TTGGCATTGCTACCTTGTG-CTTGAGCGGATGAATCT
1 TTGGCCTTGCTACCTTGTGCCCT-AGCGGATGGATCA
* *
115827 TTGGCCTTGCTACCTTGTGCCCCAGGGGATG
1 TTGGCCTTGCTACCTTGTGCCCTAGCGGATG
115858 AATCTGTTTT
Statistics
Matches: 209, Mismatches: 31, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
35 5 0.02
36 200 0.96
37 4 0.02
ACGTcount: A:0.13, C:0.25, G:0.29, T:0.33
Consensus pattern (36 bp):
TTGGCCTTGCTACCTTGTGCCCTAGCGGATGGATCA
Found at i:115766 original size:108 final size:108
Alignment explanation
Indices: 115575--115851 Score: 362
Period size: 108 Copynumber: 2.6 Consensus size: 108
115565 TATGTACTCC
* *
115575 TTGGCCTTGCTACTTTGTGC-CCTAGCGGAAT-GATCATTGGCCTTGCTGCCTTGTGCTCCAGCA
1 TTGGCCTTGCTACCTTGTGCTCC-AGCGG-ATGGATCATTGGCCTTGCTACCTTGTGCTCCAGCA
* *
115638 GATGGATCATTGGCCTTGCTACCTTGTGCTCTG-GCGGATGGATCT
64 GATGGATCATTGGCCATGCTACCTTGTGCT-TGAGCGGATGGATCA
* * ** *
115683 TTGGCCTTGCTGCCTTGTGCTCCAGCAGATGGATCATTGGCCTTGCTACCTTGTGCTCTGGCGGA
1 TTGGCCTTGCTACCTTGTGCTCCAGCGGATGGATCATTGGCCTTGCTACCTTGTGCTCCAGCAGA
*
115748 TGGATCTTTGGCCATGCTACCTTGTGCTTGAGCGGATGGATCA
66 TGGATCATTGGCCATGCTACCTTGTGCTTGAGCGGATGGATCA
* ** * * *
115791 TTGGCATTGCTACCTTGTGCTTGAGCGGATGAATCTTTGGCCTTGCTACCTTGTGCCCCAG
1 TTGGCCTTGCTACCTTGTGCTCCAGCGGATGGATCATTGGCCTTGCTACCTTGTGCTCCAG
115852 GGGATGAATC
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
107 4 0.03
108 140 0.96
109 2 0.01
ACGTcount: A:0.13, C:0.26, G:0.28, T:0.33
Consensus pattern (108 bp):
TTGGCCTTGCTACCTTGTGCTCCAGCGGATGGATCATTGGCCTTGCTACCTTGTGCTCCAGCAGA
TGGATCATTGGCCATGCTACCTTGTGCTTGAGCGGATGGATCA
Found at i:115857 original size:72 final size:72
Alignment explanation
Indices: 115575--115851 Score: 405
Period size: 72 Copynumber: 3.8 Consensus size: 72
115565 TATGTACTCC
* * * * *
115575 TTGGCCTTGCTACTTTGTGCCCTAGCGGAAT-GATCATTGGCCTTGCTGCCTTGTGCTCCAGCAG
1 TTGGCCTTGCTACCTTGTGCTCTGGCGG-ATGGATCTTTGGCCTTGCTACCTTGTGCTCCAGCAG
115639 ATGGATCA
65 ATGGATCA
*
115647 TTGGCCTTGCTACCTTGTGCTCTGGCGGATGGATCTTTGGCCTTGCTGCCTTGTGCTCCAGCAGA
1 TTGGCCTTGCTACCTTGTGCTCTGGCGGATGGATCTTTGGCCTTGCTACCTTGTGCTCCAGCAGA
115712 TGGATCA
66 TGGATCA
* ** *
115719 TTGGCCTTGCTACCTTGTGCTCTGGCGGATGGATCTTTGGCCATGCTACCTTGTGCTTGAGCGGA
1 TTGGCCTTGCTACCTTGTGCTCTGGCGGATGGATCTTTGGCCTTGCTACCTTGTGCTCCAGCAGA
115784 TGGATCA
66 TGGATCA
* * *
115791 TTGGCATTGCTACCTTGTGCT-TGAGCGGATGAATCTTTGGCCTTGCTACCTTGTGCCCCAG
1 TTGGCCTTGCTACCTTGTGCTCTG-GCGGATGGATCTTTGGCCTTGCTACCTTGTGCTCCAG
115852 GGGATGAATC
Statistics
Matches: 188, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
71 4 0.02
72 184 0.98
ACGTcount: A:0.13, C:0.26, G:0.28, T:0.33
Consensus pattern (72 bp):
TTGGCCTTGCTACCTTGTGCTCTGGCGGATGGATCTTTGGCCTTGCTACCTTGTGCTCCAGCAGA
TGGATCA
Found at i:118670 original size:24 final size:23
Alignment explanation
Indices: 118621--118670 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
118611 CTTCTTTATC
* * *
118621 TTATTCCTTCCTCTCTTTTCTGT
1 TTATTCCTTCCTCTCTATCCTCT
*
118644 TTATTCTTTGCCTCTCTATCCTCT
1 TTATTCCTT-CCTCTCTATCCTCT
118668 TTA
1 TTA
118671 CGTAATCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.08, C:0.30, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTCCTTCCTCTCTATCCTCT
Found at i:119852 original size:32 final size:33
Alignment explanation
Indices: 119811--119881 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
119801 AGATATGTGT
**
119811 TTATATAAATTTTGACATATTAATA-ATTTATA
1 TTATATAAATTTCAACATATTAATATATTTATA
* * *
119843 TTATATAAATTTCAATATATTTATATATTTTTA
1 TTATATAAATTTCAACATATTAATATATTTATA
119876 TTATAT
1 TTATAT
119882 CATATTTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 21 0.64
33 12 0.36
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (33 bp):
TTATATAAATTTCAACATATTAATATATTTATA
Done.