Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold185
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: 1073966
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 182459 characters in sequence are not A, C, G, or T
File 2 of 7
Found at i:101995 original size:14 final size:14
Alignment explanation
Indices: 101976--102004 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
101966 AGACTTATAT
101976 AATTTAATAATTTA
1 AATTTAATAATTTA
101990 AATTTAATAATTTA
1 AATTTAATAATTTA
102004 A
1 A
102005 TAATTCGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTAATAATTTA
Found at i:102133 original size:22 final size:21
Alignment explanation
Indices: 102110--102150 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
102100 TAATTTTTTA
102110 AAAT-TTAATTATAATTAATAT
1 AAATATTAATTATAA-TAATAT
*
102131 AAATATTATTTATAATAATA
1 AAATATTAATTATAATAATA
102151 AATCTCCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTAATTATAATAATAT
Found at i:102318 original size:18 final size:19
Alignment explanation
Indices: 102295--102396 Score: 66
Period size: 19 Copynumber: 4.9 Consensus size: 19
102285 TATACTATTA
102295 TATATTTATATTAT-TTTT
1 TATATTTATATTATATTTT
102313 TATA-TTATAATTATATTTT
1 TATATTTAT-ATTATATTTT
*
102332 AATATTTTATATTTATATAATTTTT
1 TATA-TTTATA--T-TAT-A-TTTT
*
102357 TATATATTAATATTATATATAT
1 TATAT-TT-ATATTATAT-TTT
102379 TATA-TTATAATTATATTT
1 TATATTTAT-ATTATATTT
102397 ATATGATTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 25
0.70 0.04 0.26
Matches are distributed among these distances:
17 4 0.06
18 9 0.13
19 10 0.15
20 10 0.15
21 5 0.07
22 8 0.12
23 6 0.09
24 3 0.04
25 9 0.13
26 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTTATATTATATTTT
Found at i:102328 original size:11 final size:11
Alignment explanation
Indices: 102312--102395 Score: 61
Period size: 11 Copynumber: 7.6 Consensus size: 11
102302 ATATTATTTT
102312 TTATATTATAA
1 TTATATTATAA
*
102323 TTATATTTTAA
1 TTATATTATAA
*
102334 -TATTTTAT-A
1 TTATATTATAA
102343 TT-TA-TATAA
1 TTATATTATAA
*
102352 TT-TTTTATATA
1 TTATATTATA-A
102363 TTAATATTATATATA
1 TT-ATA-T-TATA-A
102378 TTATATTATAA
1 TTATATTATAA
102389 TTATATT
1 TTATATT
102396 TATATGATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
8 3 0.05
9 6 0.10
10 11 0.19
11 21 0.36
12 4 0.07
13 2 0.03
14 4 0.07
15 8 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATATTATAA
Found at i:102343 original size:15 final size:15
Alignment explanation
Indices: 102323--102376 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
102313 TATATTATAA
102323 TTATATTTTAATATT
1 TTATATTTTAATATT
*
102338 TTATATTTATATAATTTT
1 TTATA-TT-T-TAATATT
*
102356 TTATATATTAATATT
1 TTATATTTTAATATT
*
102371 ATATAT
1 TTATAT
102377 ATTATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 16 0.50
16 3 0.09
17 2 0.06
18 11 0.34
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATATTTTAATATT
Found at i:102347 original size:21 final size:22
Alignment explanation
Indices: 102290--102405 Score: 63
Period size: 25 Copynumber: 4.9 Consensus size: 22
102280 CCATGTATAC
* **
102290 TATTATATATTTATATTATTTTT
1 TATTTTATATTTATA-TATTTAA
* *
102313 TATATTATAATTATAT-TTTAA
1 TATTTTATATTTATATATTTAA
*
102334 TATTTTATATTTATATAATTTTTTA
1 TATTTTATATTTATAT-A--TTTAA
* *
102359 TATATTAATATTATATATATTATAT
1 TAT-TTTATATT-TATATATT-TAA
*
102384 TATAATTATATTTATATGATTT
1 TAT-TTTATATTTATAT-ATTT
102406 TTACCAATCT
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
21 17 0.24
22 1 0.01
23 12 0.17
24 8 0.11
25 21 0.29
26 8 0.11
27 5 0.07
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (22 bp):
TATTTTATATTTATATATTTAA
Found at i:102357 original size:26 final size:25
Alignment explanation
Indices: 102328--102407 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
102318 TATAATTATA
* *
102328 TTTTAATATTTTATATTTATATAAT
1 TTTTTATATATTATATTTATATAAT
102353 TTTTTATATATTA-ATATTATATATAT
1 TTTTTATATATTATAT-TTATATA-AT
* *
102379 TATATTATA-ATTATATTTATATGAT
1 T-TTTTATATATTATATTTATATAAT
102404 TTTT
1 TTTT
102408 ACCAATCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 4 0.09
25 21 0.46
26 13 0.28
27 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (25 bp):
TTTTTATATATTATATTTATATAAT
Found at i:102382 original size:20 final size:20
Alignment explanation
Indices: 102290--102394 Score: 66
Period size: 20 Copynumber: 5.4 Consensus size: 20
102280 CCATGTATAC
*
102290 TATTATATAT-TTATATTATT
1 TATTATATATATTATATTA-A
*
102310 TTTTATATTATAATTATATTTTAA
1 TATTATA-TAT-ATTATA--TTAA
*
102334 TATTTTATAT-TTATA-TAA
1 TATTATATATATTATATTAA
102352 T-TT-T-T-TA-TATATTAA
1 TATTATATATATTATATTAA
102367 TATTATATATATTATATT-A
1 TATTATATATATTATATTAA
102386 TAATTATAT
1 T-ATTATAT
102395 TTATATGATT
Statistics
Matches: 68, Mismatches: 4, Indels: 26
0.69 0.04 0.27
Matches are distributed among these distances:
14 5 0.07
15 5 0.07
16 3 0.04
17 3 0.04
18 5 0.07
19 4 0.06
20 19 0.28
21 8 0.12
23 8 0.12
24 5 0.07
25 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATATATATTATATTAA
Found at i:102687 original size:22 final size:22
Alignment explanation
Indices: 102657--102698 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
102647 CTTGACTCTT
102657 TAAACAAAA-ATAAATAAATAAA
1 TAAACAAAATA-AAATAAATAAA
*
102679 TAAATAAAATAAAATAAATA
1 TAAACAAAATAAAATAAATA
102699 TACAACATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACAAAATAAAATAAATAAA
Found at i:102690 original size:5 final size:4
Alignment explanation
Indices: 102664--102698 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
102654 CTTTAAACAA
102664 AAAT AAAT AAAT AAAT AAAT AAAAT AAAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT A
102699 TACAACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 21 0.70
5 9 0.30
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:102968 original size:33 final size:33
Alignment explanation
Indices: 102928--102996 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
102918 TAGGAATGAA
102928 AAATAAGAGCAT-TCTTAAAAATAATATAAATAT
1 AAATAAGAGCATCT-TTAAAAATAATATAAATAT
*
102961 AAATAAGAGCATCTTTAGAAATAATATAAATAT
1 AAATAAGAGCATCTTTAAAAATAATATAAATAT
102994 AAA
1 AAA
102997 AAATTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.07, T:0.29
Consensus pattern (33 bp):
AAATAAGAGCATCTTTAAAAATAATATAAATAT
Found at i:103361 original size:7 final size:6
Alignment explanation
Indices: 103345--103543 Score: 52
Period size: 6 Copynumber: 34.0 Consensus size: 6
103335 TTTTAATTAA
103345 TTAAAT TTAATAT TTAAAT TT--A- TTAAAT TTAATTATT TTAAAT TTAAA-
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAA--A-T TTAAAT TTAAAT
* * * * *
103393 TT-ATT TTAAA- TTCAAT TT-ATT TTAATT TTAATTATT TTAAA- TTCAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA--A-T TTAAAT TTAAAT
* * * * *
103440 TT-ATT TTAATT TTAATTAT TTTAAT TTTAA- TT-ATT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAA--AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
** * * *
103486 TT-AA- TTATTT TTCAAT TATTAAT ATAAAT ATTAAA- TTAAA- TTAAAT
1 TTAAAT TTAAAT TTAAAT T-TAAAT TTAAAT -TTAAAT TTAAAT TTAAAT
103532 TTAAAT TTAAAT
1 TTAAAT TTAAAT
103544 AAATTAATCA
Statistics
Matches: 148, Mismatches: 20, Indels: 50
0.68 0.09 0.23
Matches are distributed among these distances:
3 2 0.01
4 7 0.05
5 37 0.25
6 71 0.48
7 16 0.11
8 5 0.03
9 10 0.07
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:103369 original size:22 final size:24
Alignment explanation
Indices: 103335--103390 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 24
103325 GATAATTGAG
*
103335 TTTT-AATTAATTAAATTTAA-TA
1 TTTTAAATTTATTAAATTTAATTA
103357 -TTTAAATTTATTAAATTTAATTA
1 TTTTAAATTTATTAAATTTAATTA
103380 TTTTAAATTTA
1 TTTTAAATTTA
103391 AATTATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 3 0.10
22 15 0.50
23 2 0.07
24 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTAAATTTATTAAATTTAATTA
Found at i:103376 original size:15 final size:15
Alignment explanation
Indices: 103351--103540 Score: 73
Period size: 15 Copynumber: 12.0 Consensus size: 15
103341 TTAATTAAAT
103351 TTAATATTTAAATTTA
1 TTAA-ATTTAAATTTA
*
103367 TTAAATTT-AATTATT
1 TTAAATTTAAATT-TA
*
103382 TTAAATTTAAATTATT
1 TTAAATTTAAATT-TA
*
103398 TTAAA-TTCAATTTA
1 TTAAATTTAAATTTA
* * *
103412 TTTTAATTTTAATTATT
1 -TTAAATTTAAATT-TA
*
103429 TTAAA-TTCAATTTA
1 TTAAATTTAAATTTA
* *
103443 TTTTAATTTTAA-TTA
1 -TTAAATTTAAATTTA
* * *
103458 TTTTAATTTTAATTATT
1 -TTAAATTTAAATT-TA
*
103475 TTAAATTTAAATTAA
1 TTAAATTTAAATTTA
** *
103490 TTATTTTTCAATTATTAA
1 TTAAATTT-AA--ATTTA
*
103508 TATAAATATTAAATTAAA
1 T-TAAAT-TTAAATT-TA
103526 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
103541 AATAAATTAA
Statistics
Matches: 138, Mismatches: 21, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
14 6 0.04
15 55 0.40
16 51 0.37
17 10 0.07
18 9 0.07
19 5 0.04
20 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAAATTTAAATTTA
Found at i:103402 original size:31 final size:31
Alignment explanation
Indices: 103341--103488 Score: 176
Period size: 31 Copynumber: 4.7 Consensus size: 31
103331 TGAGTTTTAA
* *
103341 TTAATTAAATTTAATATTTAAATT-TATTAAAT
1 TTAATT-ATTTTAA-ATTTAAATTATTTTAAAT
103373 TTAATTATTTTAAATTTAAATTATTTTAAAT
1 TTAATTATTTTAAATTTAAATTATTTTAAAT
* *
103404 TCAATTTATTTT-AATTTTAATTATTTTAAAT
1 TTAA-TTATTTTAAATTTAAATTATTTTAAAT
* * *
103435 TCAATTTATTTT-AATTTTAATTATTTTAATT
1 TTAA-TTATTTTAAATTTAAATTATTTTAAAT
103466 TTAATTATTTTAAATTTAAATTA
1 TTAATTATTTTAAATTTAAATTA
103489 ATTATTTTTC
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
30 16 0.15
31 77 0.73
32 13 0.12
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (31 bp):
TTAATTATTTTAAATTTAAATTATTTTAAAT
Found at i:103503 original size:46 final size:46
Alignment explanation
Indices: 103367--103505 Score: 167
Period size: 46 Copynumber: 3.0 Consensus size: 46
103357 TTTAAATTTA
* *
103367 TTAAATTTAATTATTTTAAATTTAAATT-ATT-TTAAATTCAATTTATT
1 TTAATTTTAATTATTTTAAATTTAAATTAATTATT--TTTCAA-TTATT
* * * *
103414 TTAATTTTAATTATTTTAAATTCAATTTATTTTAATTTT-AATTATT
1 TTAATTTTAATTATTTTAAATTTAAATTA-ATTATTTTTCAATTATT
103460 TTAATTTTAATTATTTTAAATTTAAATTAATTATTTTTCAATTATT
1 TTAATTTTAATTATTTTAAATTTAAATTAATTATTTTTCAATTATT
103506 AATATAAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
45 7 0.09
46 39 0.50
47 27 0.35
48 2 0.03
49 2 0.03
50 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (46 bp):
TTAATTTTAATTATTTTAAATTTAAATTAATTATTTTTCAATTATT
Found at i:103921 original size:13 final size:13
Alignment explanation
Indices: 103880--103946 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
103870 ATAATAATAA
*
103880 TATTATTATTT-T
1 TATTAATATTTAT
* *
103892 TAATTTATATTTTT
1 T-ATTAATATTTAT
103906 TATTAATATTTAT
1 TATTAATATTTAT
*
103919 TA-TAATTAATTA-
1 TATTAA-TATTTAT
*
103931 TAATAATATTTAT
1 TATTAATATTTAT
103944 TAT
1 TAT
103947 ATTTATAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
12 11 0.26
13 30 0.70
14 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTAATATTTAT
Found at i:104034 original size:20 final size:22
Alignment explanation
Indices: 104009--104072 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 22
103999 AATACGTGAT
104009 AAAATTTAA-TAAAAAT-TAAA
1 AAAATTTAATTAAAAATATAAA
104029 AAAATTTAATTAAAAATATAAA
1 AAAATTTAATTAAAAATATAAA
*
104051 AATAATTATAAAATAAAAATAT
1 AA-AATT-T-AATTAAAAATAT
104073 TTTAGTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
20 9 0.24
21 7 0.18
22 6 0.16
23 4 0.11
24 1 0.03
25 11 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATTTAATTAAAAATATAAA
Found at i:104058 original size:18 final size:17
Alignment explanation
Indices: 104035--104071 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
104025 TAAAAAAATT
104035 TAATTAAAAATATAAAAA
1 TAATTAAAAA-ATAAAAA
*
104053 TAATTATAAAATAAAAA
1 TAATTAAAAAATAAAAA
104070 TA
1 TA
104072 TTTTAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAATTAAAAAATAAAAA
Found at i:104470 original size:15 final size:15
Alignment explanation
Indices: 104452--104504 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
104442 TTATTATAAA
104452 AAATAATAAAAATTT
1 AAATAATAAAAATTT
*
104467 AAATATAAAAAATATATTT
1 -AA-ATAATAAA-A-ATTT
104486 AAATTAATAAAAATTT
1 AAA-TAATAAAAATTT
104502 AAA
1 AAA
104505 AGATATGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 9 0.29
17 9 0.29
18 9 0.29
19 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATAATAAAAATTT
Found at i:104492 original size:24 final size:24
Alignment explanation
Indices: 104433--104492 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
104423 AAATTTTAAG
*
104433 TATTTAATATT-ATTATAAAAAATA
1 TATTTAA-ATTAAATATAAAAAATA
**
104457 -ATAAAAATTTAAATATAAAAAATA
1 TATTTAAA-TTAAATATAAAAAATA
104481 TATTTAAATTAA
1 TATTTAAATTAA
104493 TAAAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
22 1 0.04
23 6 0.21
24 16 0.57
25 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TATTTAAATTAAATATAAAAAATA
Found at i:105121 original size:27 final size:30
Alignment explanation
Indices: 105069--105135 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 30
105059 AAATTAAGAT
* *
105069 TTAAATTATGATTATATATATATATT-TAA
1 TTAAATTATAAATATATATATATATTATAA
*
105098 TTAAATTATAAATATA-ATAT-TATTATCA
1 TTAAATTATAAATATATATATATATTATAA
105126 -TAAATTATAA
1 TTAAATTATAA
105136 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.41
28 6 0.18
29 14 0.41
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TTAAATTATAAATATATATATATATTATAA
Found at i:105957 original size:22 final size:21
Alignment explanation
Indices: 105923--105963 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
105913 ATTAAAAATT
* *
105923 TATTTTTATATTAATATTTATA
1 TATTTTAAAATTAA-ATTTATA
105945 TATTTTAAAATTAAATTTA
1 TATTTTAAAATTAAATTTA
105964 AATAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTAAAATTAAATTTATA
Found at i:106005 original size:24 final size:24
Alignment explanation
Indices: 105959--106007 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
105949 TTAAAATTAA
**
105959 ATTTAAATAAAAATATATTTTATT
1 ATTTAAATAAAAATATAAATTATT
* *
105983 ATTTAAATAATAATTTAAATTATT
1 ATTTAAATAAAAATATAAATTATT
106007 A
1 A
106008 AAAATTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTAAATAAAAATATAAATTATT
Found at i:106389 original size:17 final size:18
Alignment explanation
Indices: 106369--106454 Score: 61
Period size: 19 Copynumber: 4.6 Consensus size: 18
106359 TCAAATAAAT
106369 AAATTAAAAAAATTTT-A
1 AAATTAAAAAAATTTTAA
*
106386 AAA-TAGCAAAAATTTTAA
1 AAATTA-AAAAAATTTTAA
106404 AAAGTTAAATTAAAATTTTCAA
1 AAA-TTAAA--AAAATTTT-AA
*
106426 AAA-AAATAAAAATTTATAA
1 AAATTAA-AAAAATTT-TAA
*
106445 AAAATAAAAA
1 AAATTAAAAA
106455 GAAAATTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
16 2 0.04
17 12 0.22
18 4 0.07
19 16 0.29
20 7 0.13
21 9 0.16
22 5 0.09
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATTAAAAAAATTTTAA
Found at i:106437 original size:19 final size:17
Alignment explanation
Indices: 106414--106454 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
106404 AAAGTTAAAT
*
106414 TAAAATTTTCAAAAAAAA
1 TAAAAATTT-AAAAAAAA
*
106432 TAAAAATTTATAAAAAA
1 TAAAAATTTAAAAAAAA
106449 TAAAAA
1 TAAAAA
106455 GAAAATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAAATTTAAAAAAAA
Found at i:106524 original size:22 final size:22
Alignment explanation
Indices: 106489--106533 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
106479 AATTAAAAAA
* *
106489 TATGAAAATTTAAATATGATTTT
1 TATGAAAATATAAA-ATAATTTT
106512 TATGAAAA-ATAAAATAATTTT
1 TATGAAAATATAAAATAATTTT
106533 T
1 T
106534 TTAAAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
TATGAAAATATAAAATAATTTT
Found at i:106526 original size:37 final size:36
Alignment explanation
Indices: 106438--106527 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 36
106428 AAAATAAAAA
106438 TTTATAAAAAATAAAA-AGAAAATTTTAAAGATGATT
1 TTTAT-AAAAATAAAATAGAAAATTTTAAAGATGATT
*
106474 TTTA-AAATTAA-AAAATATGAAAA-TTTAAATATGATT
1 TTTATAAA--AATAAAATA-GAAAATTTTAAAGATGATT
106510 TTTATGAAAAATAAAATA
1 TTTAT-AAAAATAAAATA
106528 ATTTTTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
34 3 0.07
35 4 0.09
36 25 0.54
37 11 0.24
38 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (36 bp):
TTTATAAAAATAAAATAGAAAATTTTAAAGATGATT
Found at i:106659 original size:20 final size:18
Alignment explanation
Indices: 106634--106682 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
106624 TTTTTAAATT
106634 AAAATTTCTAATATTTTTTA
1 AAAATTT-T-ATATTTTTTA
106654 AAAATTTTATA-TTTTTA
1 AAAATTTTATATTTTTTA
**
106671 AATTTTTTATAT
1 AAAATTTTATAT
106683 AACTTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 15 0.58
18 3 0.12
19 1 0.04
20 7 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
AAAATTTTATATTTTTTA
Found at i:107710 original size:220 final size:220
Alignment explanation
Indices: 107328--107768 Score: 864
Period size: 220 Copynumber: 2.0 Consensus size: 220
107318 ATTACTTAAG
107328 CTTTCCAAGCATCTGTTAAAATTTAAGATTTCAATCACTGCAGAAATATGTGTATAATTAGTTTC
1 CTTTCCAAGCATCTGTTAAAATTTAAGATTTCAATCACTGCAGAAATATGTGTATAATTAGTTTC
107393 AGATATTTTCTTTTAAAAATAATATCTCATTCATCGTAATTAAACTTTTAAATTTCATAAATAAA
66 AGATATTTTCTTTTAAAAATAATATCTCATTCATCGTAATTAAACTTTTAAATTTCATAAATAAA
107458 GTTAATAGTAAAAATATTTATAAGTTAAATATTTTCTTATTCAGAATTGATCTATAAATCTATTT
131 GTTAATAGTAAAAATATTTATAAGTTAAATATTTTCTTATTCAGAATTGATCTATAAATCTATTT
107523 TATTATTTTAAAAAAGAGATAGTGT
196 TATTATTTTAAAAAAGAGATAGTGT
*
107548 CTTTCCAAGCATCTGTTAGAATTTAAGATTTCAATCACTGCAGAAATATGTGTATAATTAGTTTC
1 CTTTCCAAGCATCTGTTAAAATTTAAGATTTCAATCACTGCAGAAATATGTGTATAATTAGTTTC
107613 AGATATTTTCTTTTAAAAATAATATCTCATTCATCGTAATTAAACTTTTAAATTTCATAAATAAA
66 AGATATTTTCTTTTAAAAATAATATCTCATTCATCGTAATTAAACTTTTAAATTTCATAAATAAA
*
107678 GTTAATAGTAAAAATATTTATAAGTTAAATATTTTCTTATTCATAATTGATCTATAAATCTATTT
131 GTTAATAGTAAAAATATTTATAAGTTAAATATTTTCTTATTCAGAATTGATCTATAAATCTATTT
107743 TATTATTTTAAAAAAGAGATAGTGT
196 TATTATTTTAAAAAAGAGATAGTGT
107768 C
1 C
107769 ACCAATAGCC
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 219 1.00
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (220 bp):
CTTTCCAAGCATCTGTTAAAATTTAAGATTTCAATCACTGCAGAAATATGTGTATAATTAGTTTC
AGATATTTTCTTTTAAAAATAATATCTCATTCATCGTAATTAAACTTTTAAATTTCATAAATAAA
GTTAATAGTAAAAATATTTATAAGTTAAATATTTTCTTATTCAGAATTGATCTATAAATCTATTT
TATTATTTTAAAAAAGAGATAGTGT
Found at i:108077 original size:21 final size:22
Alignment explanation
Indices: 108038--108084 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
108028 ACTATTTTTT
* * *
108038 ATAAATATTTTTAATAAATTTA
1 ATAAATATTTTAAAAAAATTAA
108060 ATAAATA-TTTAAAAAAATTAA
1 ATAAATATTTTAAAAAAATTAA
108081 ATAA
1 ATAA
108085 TTAATTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATATTTTAAAAAAATTAA
Found at i:108472 original size:17 final size:18
Alignment explanation
Indices: 108442--108481 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
108432 GTATTTTTTA
108442 ATAAAATATATTAAAATT
1 ATAAAATATATTAAAATT
*
108460 ATAAAA-ATTTTAAAATT
1 ATAAAATATATTAAAATT
108477 ATAAA
1 ATAAA
108482 TATTAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAATATATTAAAATT
Found at i:109289 original size:54 final size:54
Alignment explanation
Indices: 109207--109314 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
109197 CCTTGAATGC
*
109207 ATGAATTTTGTATAAAAATAAATCTAGGTTTTGATAAAAATTTTAATCTTATAT
1 ATGAATTTTGTATAAAAATAAATCTAGGTTTTGATAAAAATTTTAATCTCATAT
*
109261 ATGAATTTTGTATAAAAATAAATTTAGGTTTTGATAAAAATTTTAATCTCATAT
1 ATGAATTTTGTATAAAAATAAATCTAGGTTTTGATAAAAATTTTAATCTCATAT
109315 GCGCCCTAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (54 bp):
ATGAATTTTGTATAAAAATAAATCTAGGTTTTGATAAAAATTTTAATCTCATAT
Found at i:111587 original size:78 final size:78
Alignment explanation
Indices: 111453--111654 Score: 244
Period size: 78 Copynumber: 2.6 Consensus size: 78
111443 GAGATAATAA
* * * * ** * *
111453 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
*
111518 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAG
*
111531 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
* ** *
111596 TTTGGGAATAAAG
66 TTAGAAAAAAAAG
* *
111609 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
111655 GATGAAATAA
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
77 1 0.01
78 105 0.99
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
TTAGAAAAAAAAG
Found at i:111665 original size:28 final size:28
Alignment explanation
Indices: 111609--111680 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
111599 GGGAATAAAG
** *
111609 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
111637 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
**
111665 CAAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
111681 TCGACTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:111733 original size:52 final size:51
Alignment explanation
Indices: 111669--111797 Score: 140
Period size: 51 Copynumber: 2.5 Consensus size: 51
111659 AAATAACAAG
*
111669 GTTGGAGTATCCTCGACTGTGAA-AAATTGGTAT-TTTTGGAAA-TAAAATCGGA
1 GTTGGAGTATCCTCGA-TGTGAAGAAATT--AATGTTTT-GAAAGTAAAATCGGA
*
111721 GTTGGAGTATCCTCGAT-TAAAGGAAATTAATGTTTTGAAAGTAAAATCGGA
1 GTTGGAGTATCCTCGATGTGAA-GAAATTAATGTTTTGAAAGTAAAATCGGA
* *
111772 GTTGGAATATCCTCGATTGTGGAGAA
1 GTTGGAGTATCCTCGA-TGTGAAGAA
111798 TTGAGCAACT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
50 9 0.14
51 30 0.45
52 25 0.38
53 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCTCGATGTGAAGAAATTAATGTTTTGAAAGTAAAATCGGA
Found at i:114175 original size:13 final size:13
Alignment explanation
Indices: 114157--114182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114147 ACAAAGATCC
114157 ATGTATCGATACA
1 ATGTATCGATACA
114170 ATGTATCGATACA
1 ATGTATCGATACA
114183 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:114178 original size:33 final size:33
Alignment explanation
Indices: 114136--114202 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
114126 AAAATTTCCA
***
114136 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
114169 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
114202 A
1 A
114203 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:114246 original size:19 final size:18
Alignment explanation
Indices: 114222--114289 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
114212 CAGTAGCTAA
114222 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
114241 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
114256 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
114273 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
114290 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:114262 original size:13 final size:13
Alignment explanation
Indices: 114244--114268 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114234 ACAATACTTA
114244 TGTATCGATACAT
1 TGTATCGATACAT
114257 TGTATCGATACA
1 TGTATCGATACA
114269 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:114266 original size:32 final size:32
Alignment explanation
Indices: 114225--114287 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
114215 TAGCTAATTA
*
114225 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
114257 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
114288 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:116611 original size:2 final size:2
Alignment explanation
Indices: 116604--116638 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
116594 GTCTATATGA
116604 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116639 CACATTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117014 original size:2 final size:2
Alignment explanation
Indices: 117009--117035 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
116999 AAAATACATT
117009 TA 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 TA T
117036 TTTTCATAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117269 original size:16 final size:17
Alignment explanation
Indices: 117238--117272 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
117228 TATGAATCAT
117238 TAAAATTTTTACTTTTA
1 TAAAATTTTTACTTTTA
117255 TAAAATTTTTA-TTTTA
1 TAAAATTTTTACTTTTA
117271 TA
1 TA
117273 TTAAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TAAAATTTTTACTTTTA
Found at i:122018 original size:20 final size:20
Alignment explanation
Indices: 121993--122119 Score: 87
Period size: 20 Copynumber: 5.8 Consensus size: 20
121983 GTAAAAAAAC
121993 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
122013 AGAATGTATCGATATATTCA
1 AGAATGTATCGATACATTGA
* *
122033 TA-CATGTTTCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
122053 A-AATGCATCGATACATCTAGATAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
122082 CAGAATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
122103 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
122120 CTAATTAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
19 12 0.14
20 49 0.58
21 4 0.05
24 1 0.01
26 1 0.01
29 3 0.04
30 1 0.01
31 13 0.15
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:122021 original size:51 final size:49
Alignment explanation
Indices: 121945--122121 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 49
121935 TTTTAACTAG
*
121945 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGTAAAAAAACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCT--GTAAAAAAACAGA
* * *
121996 ATGTATCGATACATTGAAGAATGTATCGAT--ATAT-T---CATAC---
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGTAAAAAAACAGA
* * *
122036 ATGTTTCGATACATTGAA-AATGCATCGATACATCTAGATAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCT-G-TAAAAAAACAGA
122086 ATGTATCGATACATTGAAGAATGTATCGATACATCT
1 ATGTATCGATACATTGAAGAATGTATCGATACATCT
122122 AATTAAAAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
39 10 0.10
40 17 0.17
41 3 0.03
43 3 0.03
44 1 0.01
46 1 0.01
47 3 0.03
49 3 0.03
50 17 0.17
51 45 0.44
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (49 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCTGTAAAAAAACAGA
Found at i:122104 original size:90 final size:91
Alignment explanation
Indices: 121945--122116 Score: 292
Period size: 90 Copynumber: 1.9 Consensus size: 91
121935 TTTTAACTAG
* * *
121945 ATGTATCGATACATTGAATAATGTATCGATACATCTGGGTAAAAAAACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAATAATGCATCGATACATCTAGATAAAAAAACAGAATGTATCGATACAT
122010 TGAAGAATGTATCGATATATTCATAC
66 TGAAGAATGTATCGATATATTCATAC
* *
122036 ATGTTTCGATACATTGAA-AATGCATCGATACATCTAGATAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAATAATGCATCGATACATCTAGATAAAAAAACAGAATGTATCGATACAT
122100 TGAAGAATGTATCGATA
66 TGAAGAATGTATCGATA
122117 CATCTAATTA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 59 0.78
91 17 0.22
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATTGAATAATGCATCGATACATCTAGATAAAAAAACAGAATGTATCGATACAT
TGAAGAATGTATCGATATATTCATAC
Found at i:124489 original size:20 final size:19
Alignment explanation
Indices: 124459--124520 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
124449 AAAAGTAAAA
124459 TAAAA-TAAAATAAAAATT
1 TAAAATTAAAATAAAAATT
124477 CTAAAATTAAAAT-AAAATT
1 -TAAAATTAAAATAAAAATT
* *
124496 AAAAATTAGAATTAAAAATT
1 TAAAATTA-AAATAAAAATT
124516 ATAAA
1 -TAAA
124521 CAAAATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.19
19 14 0.39
20 12 0.33
21 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAATTAAAATAAAAATT
Found at i:124510 original size:13 final size:13
Alignment explanation
Indices: 124492--124516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124482 ATTAAAATAA
124492 AATTAAAAATTAG
1 AATTAAAAATTAG
124505 AATTAAAAATTA
1 AATTAAAAATTA
124517 TAAACAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATTAAAAATTAG
Found at i:124514 original size:25 final size:25
Alignment explanation
Indices: 124454--124502 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
124444 AGTTAAAAAG
124454 TAAAA-TAAAATAAAATAAAAATTC
1 TAAAATTAAAATAAAATAAAAATTC
124478 TAAAATTAAAATAAAATTAAAAATT
1 TAAAATTAAAATAAAA-TAAAAATT
124503 AGAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.22
25 10 0.43
26 8 0.35
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAAATTAAAATAAAATAAAAATTC
Found at i:125866 original size:62 final size:64
Alignment explanation
Indices: 125738--125871 Score: 157
Period size: 62 Copynumber: 2.1 Consensus size: 64
125728 GAACTAATGT
* *** * *
125738 AGTCAAACAAAAATGATAGAGATATATCTTAAGCTTAAAAGGTTAACTTGGGCAAAATTGATAC
1 AGTCAAACAAAAATGATAGAGATATATCGTAAGCTTAAAAGGTTAACAAAGGCAAAACTGAAAC
** *
125802 AGTCAAACAATGATGACTAG-GATATATCGTAA-C-TAAAAGGTTGACAAAGGCAAAACTGAAAC
1 AGTCAAACAAAAATGA-TAGAGATATATCGTAAGCTTAAAAGGTTAACAAAGGCAAAACTGAAAC
125864 AGTCAAAC
1 AGTCAAAC
125872 TAGGATAACC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
62 31 0.52
63 1 0.02
64 25 0.42
65 3 0.05
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.22
Consensus pattern (64 bp):
AGTCAAACAAAAATGATAGAGATATATCGTAAGCTTAAAAGGTTAACAAAGGCAAAACTGAAAC
Found at i:126173 original size:65 final size:64
Alignment explanation
Indices: 125994--126434 Score: 245
Period size: 65 Copynumber: 6.8 Consensus size: 64
125984 GGCAAAATCG
* * * *** * * *
125994 ATAAAGTTAACTAAAAGTGACTAGGATGAAAACT-AAG-TCCTAAAGGATTGACTAGGGTGAAAT
1 ATAAAGTCAACTAAAGGTGACTAAGATG-AAACTAAAGTTGAAAAAGG-TTGACCAAGGTGAAAC
126057 T
64 T
* * * * *
126058 AATAATGTCAACTAAAAGTGATTAAGATGAAACCT-AAG-TAAAAAAGGGTTGACCAGGGTGAAA
1 -ATAAAGTCAACTAAAGGTGACTAAGATGAAA-CTAAAGTTGAAAAA-GGTTGACCAAGGTGAAA
126121 CT
63 CT
* ** * *
126123 ACTACAA-TCAACTAAAGGTGACTAAGACGAAACTAAAGTTGAAAAAGGTTGAATAAGGCGAAAT
1 A-TA-AAGTCAACTAAAGGTGACTAAGATGAAACTAAAGTTGAAAAAGGTTGACCAAGGTGAAAC
126187 T
64 T
** * * * * * *
126188 GATAAAGTCAACTAAAATTGACTAGGATAAAAATAAAGTTGAAAAAGAGTTAACCAGGGTAAAAC
1 -ATAAAGTCAACTAAAGGTGACTAAGATGAAACTAAAGTTGAAAAAG-GTTGACCAAGGTGAAA-
*
126253 CA
63 CT
* * * * * * *
126255 ATAAAGTCAATTAAAGGTAACT-AGAATGAAACTTAAG-TCAAAACA-GTTTACCAAGATGAAAT
1 ATAAAGTCAACTAAAGGTGACTAAG-ATGAAACTAAAGTTGAAAA-AGGTTGACCAAGGTGAAAC
126317 T
64 T
** * * * * * **
126318 GATGTAGTCAACTAAAGGTAACTAAGACGAAACTAAAGTCGAAAAATGTTGACTAAGGCAAAATC
1 -ATAAAGTCAACTAAAGGTGACTAAGATGAAACTAAAGTTGAAAAAGGTTGACCAAGGTGAAA-C
*
126383 G
64 T
* *
126384 A-AAACGTCAACTGAAA-GTGACTAGGATGAAACCAAAGTTGAAAAAGGTTGA
1 ATAAA-GTCAACT-AAAGGTGACTAAGATGAAACTAAAGTTGAAAAAGGTTGA
126435 TCAGGACAAA
Statistics
Matches: 287, Mismatches: 70, Indels: 38
0.73 0.18 0.10
Matches are distributed among these distances:
64 51 0.18
65 185 0.64
66 51 0.18
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (64 bp):
ATAAAGTCAACTAAAGGTGACTAAGATGAAACTAAAGTTGAAAAAGGTTGACCAAGGTGAAACT
Found at i:126212 original size:195 final size:196
Alignment explanation
Indices: 125961--126414 Score: 472
Period size: 195 Copynumber: 2.3 Consensus size: 196
125951 GGTGAAACCT
* * * *
125961 AAGTTGAAAAGGGTGTTGGATAGGGCAAAATCGATAAAGTTAACTAAAAGTGACTAGGATGAAAA
1 AAGTTGAAAA-AG-GTTGAATAAGGCAAAATCGATAAAGTCAACTAAAAGTGACTAGGATGAAAA
* * * * * * ** * * *
126026 CT-AAGTCCTAAAGGA-TTGACTAGGGTGAAATTAATAATGTCAACTAAAAGTGATTA-AGATGA
64 ATAAAGTCCAAAAAGAGTTAACCAGGGTAAAACCAATAAAGTCAACTAAAAGTAACTAGA-ATGA
* * *
126088 AACCTAAGT-AAAAAAGGGTTGACCAGGGTGAAACT-ACTACAATCAACTAAAGGTGACTAAGAC
128 AACCTAAGTCAAAAAA--GTTGACCAAGATGAAACTGA-TACAATCAACTAAAGGTAACTAAGAC
126151 GAAACTA
190 GAAACTA
* * *
126158 AAGTTGAAAAAGGTTGAATAAGGCGAAATTGATAAAGTCAACTAAAATTGACTAGGAT-AAAAAT
1 AAGTTGAAAAAGGTTGAATAAGGCAAAATCGATAAAGTCAACTAAAAGTGACTAGGATGAAAAAT
** * *
126222 AAAGTTGAAAAAGAGTTAACCAGGGTAAAACCAATAAAGTCAATTAAAGGTAACTAGAATGAAAC
66 AAAGTCCAAAAAGAGTTAACCAGGGTAAAACCAATAAAGTCAACTAAAAGTAACTAGAATGAAAC
* * * * ** *
126287 TTAAGTCAAAACAGTTTACCAAGATGAAATTGATGTAGTCAACTAAAGGTAACTAAGACGAAACT
131 CTAAGTCAAAAAAGTTGACCAAGATGAAACTGATACAATCAACTAAAGGTAACTAAGACGAAACT
126352 A
196 A
* * * *
126353 AAGTCGAAAAATGTTGACTAAGGCAAAATCGA-AAACGTCAACTGAAAGTGACTAGGATGAAA
1 AAGTTGAAAAAGGTTGAATAAGGCAAAATCGATAAA-GTCAACTAAAAGTGACTAGGATGAAA
126415 CCAAAGTTGA
Statistics
Matches: 211, Mismatches: 39, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
194 8 0.04
195 139 0.66
196 48 0.23
197 16 0.08
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (196 bp):
AAGTTGAAAAAGGTTGAATAAGGCAAAATCGATAAAGTCAACTAAAAGTGACTAGGATGAAAAAT
AAAGTCCAAAAAGAGTTAACCAGGGTAAAACCAATAAAGTCAACTAAAAGTAACTAGAATGAAAC
CTAAGTCAAAAAAGTTGACCAAGATGAAACTGATACAATCAACTAAAGGTAACTAAGACGAAACT
A
Found at i:130817 original size:77 final size:76
Alignment explanation
Indices: 130714--130914 Score: 176
Period size: 76 Copynumber: 2.6 Consensus size: 76
130704 GTCAACAACA
* * *
130714 GAAATAAACTGATAATAAGCTGAAGTAGAAGAACA-AGAT-AGGGAATATATAGTTTCTAAAATT
1 GAAATAAACTAATAATAAGCTAAAGTAAAAGAACATA-ATGA-GGAATATATAGTTTCTAAAA-T
130777 TTCCATTAATAGCC
63 TTCCATTAATAGCC
* * * * *
130791 GAAATAAACTAATAA-AGAGTTAAAGTAAAAGAGCATAATGAGGAATATGTGGTTTTTAAAATTT
1 GAAATAAACTAATAATA-AGCTAAAGTAAAAGAACATAATGAGGAATATATAGTTTCTAAAATTT
130855 CCATT-ATCAGCC
65 CCATTAAT-AGCC
* * * * * * * * *
130867 AAAACAAATTGATAACAAGCTAAAGAAAAAGAATATGATGGGGAATAT
1 GAAATAAACTAATAATAAGCTAAAGTAAAAGAACATAATGAGGAATAT
130915 GTGATTTCTC
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
75 2 0.02
76 49 0.49
77 48 0.48
78 2 0.02
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (76 bp):
GAAATAAACTAATAATAAGCTAAAGTAAAAGAACATAATGAGGAATATATAGTTTCTAAAATTTC
CATTAATAGCC
Found at i:131186 original size:30 final size:29
Alignment explanation
Indices: 131092--131188 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 29
131082 TAGCGTGGAT
* *
131092 AAAACC-AGAATCTAATAATGACTTGGAGC
1 AAAACCAAAAATCAAATAATGACTT-GAGC
* * * *
131121 AAAACTAAAACTCAAGAAAATGGCCTTGATG-
1 AAAACCAAAAATCAA-ATAAT-GACTTGA-GC
131152 -AAACCAAAAATCCAAATAATGACTTGAGC
1 AAAACCAAAAAT-CAAATAATGACTTGAGC
131181 AAAACCAA
1 AAAACCAA
131189 GACTCAACGA
Statistics
Matches: 51, Mismatches: 10, Indels: 13
0.69 0.14 0.18
Matches are distributed among these distances:
28 1 0.02
29 11 0.22
30 25 0.49
31 9 0.18
32 5 0.10
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.18
Consensus pattern (29 bp):
AAAACCAAAAATCAAATAATGACTTGAGC
Found at i:131194 original size:60 final size:60
Alignment explanation
Indices: 131009--131464 Score: 299
Period size: 60 Copynumber: 7.7 Consensus size: 60
130999 TGGACGGAAT
* * * * * * ** **
131009 CAAGACTCAA-AAAGTGGCCTAGATTAAACCAGAAACCT-AACAATGATTTGGGCTTATT
1 CAAGACTCAAGAAAATGGCCTTGATGAAACCAAAAACCTAAACAATGACTTGAGCAAAAC
* * * * * * *
131067 CAAGACTCAATG-AAATAGCGTGGATAAAACC-AGAATCT-AATAATGACTTGGAGCAAAAC
1 CAAGACTCAA-GAAAATGGCCTTGATGAAACCAAAAACCTAAACAATGACTT-GAGCAAAAC
* * *
131126 TAAAACTCAAGAAAATGGCCTTGATGAAACCAAAAATCC-AAATAATGACTTGAGCAAAAC
1 CAAGACTCAAGAAAATGGCCTTGATGAAACCAAAAA-CCTAAACAATGACTTGAGCAAAAC
* ** * * *
131186 CAAGACTCAACGAAACT-GCC-TGTATGAAAGTAGAAACCCAAACAATGACTTGGGCAAAAC
1 CAAGACTCAA-GAAAATGGCCTTG-ATGAAACCAAAAACCTAAACAATGACTTGAGCAAAAC
* * * * *
131246 CAAGACTCAACATAATGG-CTTGGATGTAACTAAAAACCTAAACAATGACTT-AGATAAAAC
1 CAAGACTCAAGAAAATGGCCTT-GATGAAACCAAAAACCTAAACAATGACTTGAG-CAAAAC
* * * *
131306 CAAGACTCAAGGAAATGGCCTAGAT-AAACCAAAAACCTAAACAATGACTTGGGTAAAAC
1 CAAGACTCAAGAAAATGGCCTTGATGAAACCAAAAACCTAAACAATGACTTGAGCAAAAC
* * * * ** * *
131365 CAAGACTCAAGGAAATGG-GTTGGATAAAACCAAACACCTCTACAATGACTTGGGTAAAAC
1 CAAGACTCAAGAAAATGGCCTT-GATGAAACCAAAAACCTAAACAATGACTTGAGCAAAAC
* * * * * *
131425 TAAAACTTAA-AGAAATAGCCTAGATAAAACCAAAAACCTA
1 CAAGACTCAAGA-AAATGGCCTTGATGAAACCAAAAACCTA
131465 GCATTGGCTA
Statistics
Matches: 317, Mismatches: 61, Indels: 38
0.76 0.15 0.09
Matches are distributed among these distances:
58 25 0.08
59 100 0.32
60 171 0.54
61 21 0.07
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (60 bp):
CAAGACTCAAGAAAATGGCCTTGATGAAACCAAAAACCTAAACAATGACTTGAGCAAAAC
Found at i:131332 original size:30 final size:30
Alignment explanation
Indices: 131289--131397 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 30
131279 AAACCTAAAC
*
131289 AATGACTTAGATAAAACCAAGACTCAAGGA
1 AATGGCTTAGATAAAACCAAGACTCAAGGA
* *
131319 AATGGCCTAGAT-AAACCAAAAAC-CTAA--A
1 AATGGCTTAGATAAAACC-AAGACTC-AAGGA
* * *
131347 CAATGACTTGGGTAAAACCAAGACTCAAGGA
1 -AATGGCTTAGATAAAACCAAGACTCAAGGA
* *
131378 AATGGGTTGGATAAAACCAA
1 AATGGCTTAGATAAAACCAA
131398 ACACCTCTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
28 1 0.02
29 20 0.33
30 39 0.64
31 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (30 bp):
AATGGCTTAGATAAAACCAAGACTCAAGGA
Found at i:131351 original size:29 final size:30
Alignment explanation
Indices: 131277--131367 Score: 73
Period size: 30 Copynumber: 3.1 Consensus size: 30
131267 GGATGTAACT
*
131277 AAAAACCTAAACAATGACTTAGATAAAACC
1 AAAAACCTAAACAATGACCTAGATAAAACC
* *
131307 -AAGA-CTCAAGGA-AATGGCCTAGAT-AAACC
1 AAAAACCT-AA--ACAATGACCTAGATAAAACC
* * *
131336 AAAAACCTAAACAATGACTTGGGTAAAACC
1 AAAAACCTAAACAATGACCTAGATAAAACC
131366 AA
1 AA
131368 GACTCAAGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
28 3 0.07
29 18 0.39
30 22 0.48
31 3 0.07
ACGTcount: A:0.52, C:0.20, G:0.13, T:0.15
Consensus pattern (30 bp):
AAAAACCTAAACAATGACCTAGATAAAACC
Found at i:131382 original size:119 final size:118
Alignment explanation
Indices: 131067--131464 Score: 367
Period size: 119 Copynumber: 3.3 Consensus size: 118
131057 TGGGCTTATT
* * * * * * * *
131067 CAAGACTCAATGAAATAGCGTGGATAAAACC-AGAATCT-AATAATGACTTGGAGCAAAACTAAA
1 CAAGACTCAAAGAAAT-GCCTAGATAAAACCAAAAACCTAAACAATGACTTGG-GCAAAACCAAG
* *
131130 ACTCAAGAAAATGGCCTT-GATGAAACCAAAAATCC-AAATAATGACTTGAGCAAAAC
64 ACTCAAGAAAATGG-CTTGGATGAAACCAAAAA-CCTAAACAATGACTTGA-TAAAAC
* * ** * *
131186 CAAGACTCAACGAAACTGCCT-GTATGAAAGTAGAAACCCAAACAATGACTTGGGCAAAACCAAG
1 CAAGACTCAAAGAAA-TGCCTAG-ATAAAACCAAAAACCTAAACAATGACTTGGGCAAAACCAAG
* * * *
131250 ACTCAACATAATGGCTTGGATGTAACTAAAAACCTAAACAATGACTTAGATAAAAC
64 ACTCAAGAAAATGGCTTGGATGAAACCAAAAACCTAAACAATGACTT-GATAAAAC
* *
131306 CAAGACTCAAGGAAATGGCCTAGAT-AAACCAAAAACCTAAACAATGACTTGGGTAAAACCAAGA
1 CAAGACTCAAAGAAAT-GCCTAGATAAAACCAAAAACCTAAACAATGACTTGGGCAAAACCAAGA
* * * * ** *
131370 CTCAAGGAAATGGGTTGGATAAAACCAAACACCTCTACAATGACTTGGGTAAAAC
65 CTCAAGAAAATGGCTTGGATGAAACCAAAAACCTAAACAATGACTT-GATAAAAC
* * *
131425 TAAAACTTAAAGAAATAGCCTAGATAAAACCAAAAACCTA
1 CAAGACTCAAAGAAAT-GCCTAGATAAAACCAAAAACCTA
131465 GCATTGGCTA
Statistics
Matches: 228, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
118 1 0.00
119 125 0.55
120 87 0.38
121 15 0.07
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (118 bp):
CAAGACTCAAAGAAATGCCTAGATAAAACCAAAAACCTAAACAATGACTTGGGCAAAACCAAGAC
TCAAGAAAATGGCTTGGATGAAACCAAAAACCTAAACAATGACTTGATAAAAC
Found at i:131423 original size:30 final size:30
Alignment explanation
Indices: 131331--131429 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 30
131321 TGGCCTAGAT
*
131331 AAACCAAAAACCTAAACAATGACTTGGGTA
1 AAACCAAAAACCTCAACAATGACTTGGGTA
* * ** *
131361 AAACC-AAGA-CTCAAGGAAATGGGTTGGATA
1 AAACCAAAAACCTCAA--CAATGACTTGGGTA
* *
131391 AAACCAAACACCTCTACAATGACTTGGGTA
1 AAACCAAAAACCTCAACAATGACTTGGGTA
*
131421 AAACTAAAA
1 AAACCAAAA
131430 CTTAAAGAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
28 4 0.08
29 3 0.06
30 37 0.73
31 3 0.06
32 4 0.08
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.17
Consensus pattern (30 bp):
AAACCAAAAACCTCAACAATGACTTGGGTA
Found at i:132386 original size:20 final size:20
Alignment explanation
Indices: 132363--132417 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
132353 TACAATTCAT
132363 CATGTATCGATACAATATGC
1 CATGTATCGATACAATATGC
132383 CATGTATCGATACAATATGC
1 CATGTATCGATACAATATGC
132403 CATGTATCGATACAA
1 CATGTATCGATACAA
132418 ACAGTGGTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATATGC
Found at i:132475 original size:20 final size:20
Alignment explanation
Indices: 132450--132503 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
132440 TAGTTTCATA
*
132450 TATCGATACAATTGTCCATG
1 TATCGATACAATTGTACATG
*
132470 TATCGATACAA-TGAACATG
1 TATCGATACAATTGTACATG
132489 TATCGATAC-ATTGTA
1 TATCGATACAATTGTA
132504 TCGATACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.60
20 11 0.37
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
TATCGATACAATTGTACATG
Found at i:132505 original size:13 final size:13
Alignment explanation
Indices: 132487--132511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132477 ACAATGAACA
132487 TGTATCGATACAT
1 TGTATCGATACAT
132500 TGTATCGATACA
1 TGTATCGATACA
132512 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:132528 original size:33 final size:32
Alignment explanation
Indices: 132468--132532 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
132458 CAATTGTCCA
*
132468 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
132500 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
132533 CTGGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:133115 original size:22 final size:23
Alignment explanation
Indices: 133086--133132 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
133076 AGGCTCTCGT
133086 TAAAAAAAAATT-TCCC-TTTGA
1 TAAAAAAAAATTCTCCCTTTTGA
*
133107 TAAAAAAAATTTCTCCCTTTTGA
1 TAAAAAAAAATTCTCCCTTTTGA
133130 TAA
1 TAA
133133 TCGGTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
22 4 0.17
23 8 0.35
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (23 bp):
TAAAAAAAAATTCTCCCTTTTGA
Found at i:134914 original size:21 final size:22
Alignment explanation
Indices: 134875--134917 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
134865 ATGATTTCGA
* *
134875 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
134897 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
134918 ACGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:141195 original size:20 final size:20
Alignment explanation
Indices: 141162--141219 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
141152 CTGCTAGTTT
* *
141162 CATATATTGATACAATTGTC
1 CATATATCGATACAATTGTA
* *
141182 CATGTATCGATACAA-TGAA
1 CATATATCGATACAATTGTA
141201 CATATATCGATAC-ATTGTA
1 CATATATCGATACAATTGTA
141220 TCGATACAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.55
20 13 0.42
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (20 bp):
CATATATCGATACAATTGTA
Found at i:141225 original size:32 final size:33
Alignment explanation
Indices: 141184--141249 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
141174 CAATTGTCCA
*
141184 TGTATCGATACAATG-A-ACATATATCGATACAT
1 TGTATCGATACAAAGCATA-ATATATCGATACAT
141216 TGTATCGATACAAAGCATAATATATCGATACAT
1 TGTATCGATACAAAGCATAATATATCGATACAT
141249 T
1 T
141250 TGGGTGTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 14 0.45
33 16 0.52
34 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAGCATAATATATCGATACAT
Found at i:141971 original size:44 final size:44
Alignment explanation
Indices: 141852--142002 Score: 114
Period size: 44 Copynumber: 3.5 Consensus size: 44
141842 CTTAAGGTAT
* * * *
141852 ATGAAATAATGC-AATACCAATGTCATCTAAAATGCAAATGCAC
1 ATGAAATGATGCAAATAGCAATGTCATCAAAAAAGCAAATGCAC
* * *
141895 ATGAAATGATACAAAT-GGAA-G-CATCAATAAAAAGATAAATGCAC
1 ATGAAATGATGCAAATAGCAATGTCATC-A-AAAAAG-CAAATGCAC
* * * **
141939 ATGATATGATGCAAATAGCAATGTCATCAAAAATGTAAATATAC
1 ATGAAATGATGCAAATAGCAATGTCATCAAAAAAGCAAATGCAC
* *
141983 GTGAAACGATGCAAAT-GCAA
1 ATGAAATGATGCAAATAGCAA
142003 ACATCAATAA
Statistics
Matches: 85, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 21 0.25
44 45 0.53
45 8 0.09
46 2 0.02
47 4 0.05
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.22
Consensus pattern (44 bp):
ATGAAATGATGCAAATAGCAATGTCATCAAAAAAGCAAATGCAC
Found at i:142043 original size:88 final size:88
Alignment explanation
Indices: 141859--142044 Score: 212
Period size: 88 Copynumber: 2.1 Consensus size: 88
141849 TATATGAAAT
* * * * *
141859 AATGC-AATACCAATGTCATCTAAAATGCAAATGCACATGAAATGATACAAATGGAAGCATCAAT
1 AATGCAAATACCAATGTCATCAAAAATGCAAATACACATGAAACGATACAAATGCAAACATCAAT
* * *
141923 AAAAAGATAAATGCACATGATAT
66 AAAAAGACAAATACACATGATAC
* * * * * *
141946 GATGCAAATAGCAATGTCATCAAAAATGTAAATATACGTGAAACGATGCAAATGCAAACATCAAT
1 AATGCAAATACCAATGTCATCAAAAATGCAAATACACATGAAACGATACAAATGCAAACATCAAT
* *
142011 AAAGAGGCAAATACACATGATAC
66 AAAAAGACAAATACACATGATAC
*
142034 AATGGAAATAC
1 AATGCAAATAC
142045 AGATGATAGC
Statistics
Matches: 79, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
87 4 0.05
88 75 0.95
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (88 bp):
AATGCAAATACCAATGTCATCAAAAATGCAAATACACATGAAACGATACAAATGCAAACATCAAT
AAAAAGACAAATACACATGATAC
Found at i:142710 original size:115 final size:114
Alignment explanation
Indices: 142574--142784 Score: 289
Period size: 114 Copynumber: 1.8 Consensus size: 114
142564 AAAATCTGAC
* * * *
142574 AAATTTGATGTTGTTGGATCAAAATTTTCAAAATTGATAGAATATATATCCT-ATTTTTCTAGGC
1 AAATTCGATGTTGTTGGATCAAAATTTTCAAAACTGATA-AA-ATAAATCCTCATTTTCCTAGGC
* ** *
142638 ACGAATGGATCAGGTTGTATAAAATATGAATTTTTTTTTTGAAAATAAAAA
64 ACAAACAGATCAGGTTGTATAAAACATGAATTTTTTTTTTGAAAATAAAAA
* * *
142689 AAATTCGATGTTGTTGGATCAAAATTTTCAAAACTGATAAAATAAATGCTCATTTTCCTATGTAC
1 AAATTCGATGTTGTTGGATCAAAATTTTCAAAACTGATAAAATAAATCCTCATTTTCCTAGGCAC
*
142754 AAACAGATCGGGTTGTATAAAACATGAATTT
66 AAACAGATCAGGTTGTATAAAACATGAATTT
142785 CTTTAAAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
113 7 0.08
114 39 0.47
115 37 0.45
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.37
Consensus pattern (114 bp):
AAATTCGATGTTGTTGGATCAAAATTTTCAAAACTGATAAAATAAATCCTCATTTTCCTAGGCAC
AAACAGATCAGGTTGTATAAAACATGAATTTTTTTTTTGAAAATAAAAA
Found at i:145741 original size:79 final size:79
Alignment explanation
Indices: 145610--145812 Score: 316
Period size: 79 Copynumber: 2.6 Consensus size: 79
145600 TTAATCATCG
* * * *
145610 GGGATACTCCAACCCCGTCACTTCTGAGGGGATACTCCAACCCTGGCTTTATTCCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
145675 ATTTCTCACAATCA
66 ATTTCTCACAATCA
* *
145689 GGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
* *
145754 ATTTCTCGCAATCG
66 ATTTCTCACAATCA
* *
145768 GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
145813 TTATTATCTC
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 112 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTG
ATTTCTCACAATCA
Found at i:145828 original size:79 final size:78
Alignment explanation
Indices: 145606--145841 Score: 305
Period size: 79 Copynumber: 3.0 Consensus size: 78
145596 CCTGTTAATC
* * *
145606 ATCGGGGATACTCCAACCCCGTCA-CTTCTGAGGGGATACTCCAACCCTGGCTTTATTCCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCC-CGCTTTATTCCTAAAA
*
145670 TATTGATTTCTCACA
64 TATTGATTTCTCGCA
* * * *
145685 ATCAGGGATACTCCAACCCCATTATTTCCGAAGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GCTTTATTCCTAAAAT
145750 ATTGATTTCTCGCA
65 ATTGATTTCTCGCA
* *
145764 ATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGTTATTATCTCC-AAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGCT-TTAT-TCCTAAAA
*
145828 TATTAAATTTCTCG
64 TATT-GATTTCTCG
145842 TCAGAAGATG
Statistics
Matches: 137, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.01
79 122 0.89
80 13 0.09
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGCTTTATTCCTAAAATA
TTGATTTCTCGCA
Found at i:147718 original size:12 final size:13
Alignment explanation
Indices: 147701--147733 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
147691 TGCATCTGAA
147701 TTTTCTTTT-TTC
1 TTTTCTTTTCTTC
147713 TTTTCTTTTCTTC
1 TTTTCTTTTCTTC
147726 TTTT-TTTT
1 TTTTCTTTT
147734 GGTGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTTTTCTTC
Found at i:147723 original size:17 final size:17
Alignment explanation
Indices: 147701--147733 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
147691 TGCATCTGAA
147701 TTTTCTT-TTTTCTTTTC
1 TTTTCTTCTTTT-TTTTC
147718 TTTTCTTCTTTTTTTT
1 TTTTCTTCTTTTTTTT
147734 GGTGAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTTCTTTTTTTTC
Found at i:153010 original size:26 final size:27
Alignment explanation
Indices: 152967--153028 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
152957 TGATAATAAA
152967 ATTTTTT-ATTTTAATTAAAATTTCAA-T
1 ATTTTTTAATTTT-ATT-AAATTTCAATT
* *
152994 ATTTTTTAATTTT-TTAATTTTTAATT
1 ATTTTTTAATTTTATTAAATTTCAATT
153020 ATTTTTTAA
1 ATTTTTTAA
153029 AATTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.23
26 12 0.39
27 7 0.23
28 5 0.16
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTTTTTAATTTTATTAAATTTCAATT
Found at i:153034 original size:19 final size:18
Alignment explanation
Indices: 153002--153037 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
152992 ATATTTTTTA
*
153002 ATTTTTTAATTTTTAATT
1 ATTTTTTAAATTTTAATT
153020 ATTTTTTAAAATTTTAAT
1 ATTTTTT-AAATTTTAAT
153038 ATAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTAAATTTTAATT
Found at i:153514 original size:21 final size:22
Alignment explanation
Indices: 153485--153535 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
153475 GTACAATGTA
153485 GATATATT-AAAAAAATAAATTT
1 GATA-ATTAAAAAAAATAAATTT
153507 GATAATTAAAAAAAATAAATTT
1 GATAATTAAAAAAAATAAATTT
153529 GATAATT
1 GATAATT
153536 TATATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 3 0.11
22 25 0.89
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (22 bp):
GATAATTAAAAAAAATAAATTT
Found at i:153600 original size:19 final size:20
Alignment explanation
Indices: 153555--153601 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
153545 TATTTTTTAT
*
153555 TAATTATGTAAATATAAATA
1 TAATTATATAAATATAAATA
153575 TAA-TATAT-AATATTAAATA
1 TAATTATATAAATA-TAAATA
153594 -AATTATAT
1 TAATTATAT
153602 TAATTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.25
19 15 0.62
20 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAATTATATAAATATAAATA
Found at i:155385 original size:40 final size:40
Alignment explanation
Indices: 155341--155425 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
155331 AATATAATAG
155341 GAAATGAAGAAAAAAATTAATAAATTTTAAATTTTTTGAT
1 GAAATGAAGAAAAAAATTAATAAATTTTAAATTTTTTGAT
****
155381 GAAATTTTTAAAAAAATTAATAAATTTTAAATTTTTTGAT
1 GAAATGAAGAAAAAAATTAATAAATTTTAAATTTTTTGAT
155421 GAAAT
1 GAAAT
155426 TTTTAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (40 bp):
GAAATGAAGAAAAAAATTAATAAATTTTAAATTTTTTGAT
Found at i:155387 original size:20 final size:20
Alignment explanation
Indices: 155362--155428 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
155352 AAAAATTAAT
155362 AAATTTTAAATTTTTTGATG
1 AAATTTTAAATTTTTTGATG
**** *
155382 AAATTTTTAAAAAAATTAAT-
1 AAA-TTTTAAATTTTTTGATG
155402 AAATTTTAAATTTTTTGATG
1 AAATTTTAAATTTTTTGATG
155422 AAATTTT
1 AAATTTT
155429 TAAAAAAATT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
19 11 0.31
20 13 0.37
21 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (20 bp):
AAATTTTAAATTTTTTGATG
Found at i:155391 original size:21 final size:21
Alignment explanation
Indices: 155365--155432 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
155355 AATTAATAAA
155365 TTTTAAATTTTTTGATGAAAT
1 TTTTAAATTTTTTGATGAAAT
**** *
155386 TTTTAAAAAAATTAAT-AAA-
1 TTTTAAATTTTTTGATGAAAT
155405 TTTTAAATTTTTTGATGAAAT
1 TTTTAAATTTTTTGATGAAAT
155426 TTTTAAA
1 TTTTAAA
155433 AAAATTATAA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
19 11 0.31
20 6 0.17
21 18 0.51
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTAAATTTTTTGATGAAAT
Found at i:155454 original size:40 final size:40
Alignment explanation
Indices: 155350--155450 Score: 186
Period size: 40 Copynumber: 2.5 Consensus size: 40
155340 GGAAATGAAG
155350 AAAAAAATTAATAAATTTTAAATTTTTTGATGAAATTTTT
1 AAAAAAATTAATAAATTTTAAATTTTTTGATGAAATTTTT
155390 AAAAAAATTAATAAATTTTAAATTTTTTGATGAAATTTTT
1 AAAAAAATTAATAAATTTTAAATTTTTTGATGAAATTTTT
*
155430 AAAAAAATT-ATAAATATTAAA
1 AAAAAAATTAATAAATTTTAAA
155451 ATTTAAATAT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
39 11 0.18
40 49 0.82
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (40 bp):
AAAAAAATTAATAAATTTTAAATTTTTTGATGAAATTTTT
Found at i:155459 original size:14 final size:14
Alignment explanation
Indices: 155433--155468 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
155423 AATTTTTAAA
155433 AAAATTATAAATATT
1 AAAATT-TAAATATT
155448 AAAATTTAAATATT
1 AAAATTTAAATATT
155462 -AAATTTA
1 AAAATTTA
155469 TTAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:155466 original size:40 final size:40
Alignment explanation
Indices: 155350--155480 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 40
155340 GGAAATGAAG
* **
155350 AAAAAAATTAATAAATTTTAAATTTTTTGATGAAATTTTT
1 AAAAAAATTAATAAATTTAAAATTTAATGATGAAATTTTT
* **
155390 AAAAAAATTAATAAATTTTAAATTTTTTGATGAAATTTTT
1 AAAAAAATTAATAAATTTAAAATTTAATGATGAAATTTTT
*
155430 AAAAAAATT-ATAAATATTAAAATTTAAAT-ATTAAATTTATT
1 AAAAAAATTAATAAAT-TTAAAATTT-AATGATGAAATTT-TT
155471 AAATAAAATT
1 AAA-AAAATT
155481 TATTAAAAGT
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
39 6 0.07
40 65 0.78
41 6 0.07
42 6 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (40 bp):
AAAAAAATTAATAAATTTAAAATTTAATGATGAAATTTTT
Found at i:155547 original size:27 final size:26
Alignment explanation
Indices: 155517--155570 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
155507 TTTTTAGTTT
*
155517 TTTAAAATT-TATATTTAATATAAATAA
1 TTTAAAATTAT-TATTAAAT-TAAATAA
*
155544 TTTATAATTATTATTAAATTAAATAA
1 TTTAAAATTATTATTAAATTAAATAA
155570 T
1 T
155571 ATTATCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 15 0.62
28 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTAAAATTATTATTAAATTAAATAA
Found at i:156131 original size:21 final size:21
Alignment explanation
Indices: 156101--156144 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
156091 TAGTGATGGG
156101 CATCAACTCCACCACCACCAC
1 CATCAACTCCACCACCACCAC
* * *
156122 CATCACCTCCATCATCACCAC
1 CATCAACTCCACCACCACCAC
156143 CA
1 CA
156145 ACATCACCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.55, G:0.00, T:0.14
Consensus pattern (21 bp):
CATCAACTCCACCACCACCAC
Found at i:156137 original size:12 final size:12
Alignment explanation
Indices: 156113--156155 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
156103 TCAACTCCAC
*
156113 CACCACCACCAT
1 CACCACCAACAT
* *
156125 CACCTCCATCAT
1 CACCACCAACAT
156137 CACCACCAACAT
1 CACCACCAACAT
156149 CACCACC
1 CACCACC
156156 GCCCTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.33, C:0.56, G:0.00, T:0.12
Consensus pattern (12 bp):
CACCACCAACAT
Found at i:157124 original size:15 final size:15
Alignment explanation
Indices: 157104--157134 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
157094 AGTATTACTA
*
157104 GTGGTGGCGATGGTG
1 GTGGTGGCAATGGTG
157119 GTGGTGGCAATGGTG
1 GTGGTGGCAATGGTG
157134 G
1 G
157135 AAGTAGTGGC
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:0.10, C:0.06, G:0.58, T:0.26
Consensus pattern (15 bp):
GTGGTGGCAATGGTG
Found at i:157934 original size:30 final size:28
Alignment explanation
Indices: 157862--157936 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
157852 ATTTTTATTT
157862 TTTTAAATTTTTAAATAAAAATTTATAA
1 TTTTAAATTTTTAAATAAAAATTTATAA
** **
157890 TTAAAAAAATTTAAATAACATAATTTA-AA
1 TTTTAAATTTTTAAATAA-A-AATTTATAA
157919 TTTTAAATTTATTAAATA
1 TTTTAAATTT-TTAAATA
157937 TTAATTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 14 0.39
29 9 0.25
30 13 0.36
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTTAAATTTTTAAATAAAAATTTATAA
Found at i:157995 original size:24 final size:24
Alignment explanation
Indices: 157967--158014 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
157957 ATTTTACTTG
157967 GAGTAAATTAGAAATTCTTTCTCT
1 GAGTAAATTAGAAATTCTTTCTCT
157991 GAGTAAATTAGAAATTCTTTCTCT
1 GAGTAAATTAGAAATTCTTTCTCT
158015 ATCTTTTCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
GAGTAAATTAGAAATTCTTTCTCT
Found at i:158868 original size:7 final size:7
Alignment explanation
Indices: 158856--158889 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
158846 AACATTCAAT
158856 AAATTTA
1 AAATTTA
158863 AAATTTA
1 AAATTTA
158870 AAATTTA
1 AAATTTA
158877 AAATTTA
1 AAATTTA
*
158884 ATATTT
1 AAATTT
158890 TTAACTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
AAATTTA
Found at i:163075 original size:33 final size:33
Alignment explanation
Indices: 163033--163097 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
163023 TTTGGGATAA
163033 TGTATCAATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCAATACAATGTGC--CATGTATCGATACAT
*
163066 TGTATCAATATAATGTGCCATGTATCGATACA
1 TGTATCAATACAATGTGCCATGTATCGATACA
163098 AACAGTGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (33 bp):
TGTATCAATACAATGTGCCATGTATCGATACAT
Found at i:163159 original size:20 final size:20
Alignment explanation
Indices: 163131--163181 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
163121 CAATTTCATA
**
163131 TATCAATACAATTGTGCATG
1 TATCAATACAATTGAACATG
*
163151 TATCGATACAA-TGAACATG
1 TATCAATACAATTGAACATG
163170 TATCAATACAAT
1 TATCAATACAAT
163182 GTATCGATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (20 bp):
TATCAATACAATTGAACATG
Found at i:170193 original size:15 final size:15
Alignment explanation
Indices: 170160--170194 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
170150 CGAGTCAACT
*
170160 TCATCATTATCATCG
1 TCATCATTATCATCA
*
170175 TCATCATTATCTTCA
1 TCATCATTATCATCA
170190 TCATC
1 TCATC
170195 TTTGATGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:171832 original size:13 final size:13
Alignment explanation
Indices: 171814--171838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171804 CAATTCTTCA
171814 TGTATCGATACAT
1 TGTATCGATACAT
171827 TGTATCGATACA
1 TGTATCGATACA
171839 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171838 original size:33 final size:33
Alignment explanation
Indices: 171796--171858 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
171786 TGAGACAATT
171796 TATCGATACAAT-T-CTTCATGTATCGATACATTG
1 TATCGATACAATGTGC--CATGTATCGATACATTG
171829 TATCGATACAATGTGCCATGTATCGATACA
1 TATCGATACAATGTGCCATGTATCGATACA
171859 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (33 bp):
TATCGATACAATGTGCCATGTATCGATACATTG
Found at i:176695 original size:23 final size:23
Alignment explanation
Indices: 176669--176747 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
176659 ACTTTTTTGT
*
176669 TTTAATTGGGCTTTTAGTTTAGG
1 TTTAATTGGGCTTTTAGTTTAAG
176692 TTTAGA-TGGGCTTTTAGTTTAAG
1 TTTA-ATTGGGCTTTTAGTTTAAG
*
176715 TTT-ATATGGGCTTTTAGTTTAAA
1 TTTAAT-TGGGCTTTTAGTTTAAG
*
176738 TTTAAATGGG
1 TTTAATTGGG
176748 TTCAAATTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.02
23 46 0.94
24 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.24, T:0.49
Consensus pattern (23 bp):
TTTAATTGGGCTTTTAGTTTAAG
Found at i:179419 original size:22 final size:23
Alignment explanation
Indices: 179377--179419 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
179367 AATATACTTA
* *
179377 TAATCTTATCATCTTGTATAATG
1 TAATCTTATCATCTAGAATAATG
179400 TAATCTTA-CATCTAGAATAA
1 TAATCTTATCATCTAGAATAA
179420 ATAGAGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (23 bp):
TAATCTTATCATCTAGAATAATG
Found at i:180164 original size:21 final size:21
Alignment explanation
Indices: 180115--180164 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
180105 TTTAATGATT
*
180115 AAAATA-TTAAATTTTAAATA
1 AAAATATTTAAAATTTAAATA
*
180135 AAAAAATTTAAAATTTAAATA
1 AAAATATTTAAAATTTAAATA
*
180156 ATAATATTT
1 AAAATATTT
180165 TCGTCTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATATTTAAAATTTAAATA
Found at i:181151 original size:32 final size:32
Alignment explanation
Indices: 181060--181155 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 32
181050 GATAATAATT
* *
181060 TTTTTTAATTTTTATAACTAAAATTAAAAAGTTA
1 TTTTTTAATTTTTATTA-TAAAATTAAAAA-ATA
* * * *
181094 TTATTT-ATTTTTAATATATATTTAAAAAATA
1 TTTTTTAATTTTTATTATAAAATTAAAAAATA
*
181125 TTTTTTAATTTTTATTGTAAAATTAAAAAAT
1 TTTTTTAATTTTTATTATAAAATTAAAAAAT
181156 TTTATTATTG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
31 7 0.14
32 30 0.60
33 8 0.16
34 5 0.10
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (32 bp):
TTTTTTAATTTTTATTATAAAATTAAAAAATA
Found at i:181164 original size:66 final size:66
Alignment explanation
Indices: 181029--181161 Score: 166
Period size: 65 Copynumber: 2.1 Consensus size: 66
181019 CATATAGCCC
* * *
181029 TATTTATTTTATTGATATATTGATAATAATTTTTTTTAATTTTTATAACTAAAATTAAAAAGTTA
1 TATTTATTTTAATGATATATTGATAAAAATATTTTTTAATTTTTATAACTAAAATTAAAAAGTTA
181094 T
66 T
* ** *
181095 TATTTATTTTTAAT-ATATATTTA-AAAAATATTTTTTAATTTTTAT-TGTAAAATTAAAAAATT
1 TATTTA-TTTTAATGATATATTGATAAAAATATTTTTTAATTTTTATAACTAAAATTAAAAAGTT
181157 -T
65 AT
181158 TATT
1 TATT
181162 ATTGATTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
63 5 0.08
64 14 0.24
65 20 0.34
66 14 0.24
67 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (66 bp):
TATTTATTTTAATGATATATTGATAAAAATATTTTTTAATTTTTATAACTAAAATTAAAAAGTTA
T
Found at i:182283 original size:13 final size:13
Alignment explanation
Indices: 182265--182295 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
182255 ACTTTTTACT
182265 ATGTATCGATACA
1 ATGTATCGATACA
182278 ATGTATCGATACA
1 ATGTATCGATACA
182291 ATGTA
1 ATGTA
182296 CTTTGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:182286 original size:33 final size:33
Alignment explanation
Indices: 182244--182311 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
182234 CGTTAGGCAT
** *
182244 AATGTATCGATACTTTTTACTATGTATCGATAC
1 AATGTATCGATACAATGTACTATGTATCGATAC
*
182277 AATGTATCGATACAATGTACTTTGTATCGATAC
1 AATGTATCGATACAATGTACTATGTATCGATAC
182310 AA
1 AA
182312 ACAATGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (33 bp):
AATGTATCGATACAATGTACTATGTATCGATAC
Found at i:185074 original size:20 final size:21
Alignment explanation
Indices: 185046--185084 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
185036 TCTGGGTTTT
185046 TTCAGATATATCGATACATCA
1 TTCAGATATATCGATACATCA
185067 TTCA-ATATATCGATACAT
1 TTCAGATATATCGATACAT
185085 TTTGAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (21 bp):
TTCAGATATATCGATACATCA
Found at i:186942 original size:27 final size:28
Alignment explanation
Indices: 186879--186945 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
186869 GTTTAGTTCT
186879 TCTTGTATGGCCATAATCCAATTTTTCA
1 TCTTGTATGGCCATAATCCAATTTTTCA
186907 TCTTGTATGGCCATAATCCAA-TTTTCA
1 TCTTGTATGGCCATAATCCAATTTTTCA
*
186934 TCTTATATGGCC
1 TCTTGTATGGCC
186946 TCATCAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 17 0.45
28 21 0.55
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (28 bp):
TCTTGTATGGCCATAATCCAATTTTTCA
Found at i:189139 original size:15 final size:15
Alignment explanation
Indices: 189115--189156 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
189105 CCTTTTCTAA
* *
189115 TTCAATAATTTTCTT
1 TTCAACAATTTTATT
*
189130 TTCAAGAATTTTATT
1 TTCAACAATTTTATT
189145 TTCAACAATTTT
1 TTCAACAATTTT
189157 TTATTTATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (15 bp):
TTCAACAATTTTATT
Found at i:191338 original size:13 final size:13
Alignment explanation
Indices: 191320--191344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
191310 ACCAAGATCA
191320 TGTATCGATACAG
1 TGTATCGATACAG
191333 TGTATCGATACA
1 TGTATCGATACA
191345 AAGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:194282 original size:13 final size:14
Alignment explanation
Indices: 194264--194303 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
194254 AACCTAATTA
194264 TTTATATATTTATT
1 TTTATATATTTATT
*
194278 TTATATTTATATTATT
1 TT-TATATAT-TTATT
194294 TTTATATATT
1 TTTATATATT
194304 ATAATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.14
15 12 0.55
16 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATATATTTATT
Found at i:194286 original size:19 final size:19
Alignment explanation
Indices: 194262--194315 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
194252 TAAACCTAAT
194262 TATTTATATATTTATTTTA
1 TATTTATATATTTATTTTA
*
194281 TATTTATAT-TAT-TTTTA
1 TATTTATATATTTATTTTA
194298 TATATTATA-ATTATATTT
1 TAT-TTATATATT-TATTT
194316 AAAAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 10 0.34
20 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTATATATTTATTTTA
Found at i:194288 original size:6 final size:6
Alignment explanation
Indices: 194268--194316 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
194258 TAATTATTTA
* *
194268 TATATT TAT-TT TATATT TATA-T TATTTT TATATAT TATAAT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATAT-T TATATT TATATT
194315 TA
1 TA
194317 AAAATATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 9 0.25
6 22 0.61
7 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATATT
Found at i:194299 original size:11 final size:11
Alignment explanation
Indices: 194268--194316 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
194258 TAATTATTTA
*
194268 TATATTTATTT
1 TATATTTATAT
194279 TATATTTATAT
1 TATATTTATAT
194290 TAT-TTT-TA-
1 TATATTTATAT
194298 TATA-TTATAAT
1 TATATTTAT-AT
194309 TATATTTA
1 TATATTTA
194317 AAAATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
8 5 0.16
9 3 0.09
10 4 0.12
11 17 0.53
12 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTTATAT
Found at i:194375 original size:32 final size:34
Alignment explanation
Indices: 194314--194377 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 34
194304 ATAATTATAT
194314 TTAAAAATATTATATATATATAAATTTTAATAGG
1 TTAAAAATATTATATATATATAAATTTTAATAGG
*
194348 TTAATAAT-TTATAT-TATA-AATATTTTAATA
1 TTAAAAATATTATATATATATAA-ATTTTAATA
194378 AATTTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 2 0.07
32 13 0.46
33 6 0.21
34 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (34 bp):
TTAAAAATATTATATATATATAAATTTTAATAGG
Found at i:194674 original size:11 final size:12
Alignment explanation
Indices: 194650--194694 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 12
194640 ATTTTTTATA
194650 TTATATTATATT
1 TTATATTATATT
*
194662 TTA-ATTATTTT
1 TTATATTATATT
194673 TTATATTATA-T
1 TTATATTATATT
*
194684 TTATATAATAT
1 TTATATTATAT
194695 AATTAATTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATATTATATT
Found at i:195789 original size:28 final size:30
Alignment explanation
Indices: 195758--195820 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
195748 TATAAACACG
* *
195758 ATAT-AAAAAA-ATTAAAATATTATATAAA
1 ATATGAAAAAATATAAAAATATAATATAAA
195786 ATATGAAAAAATATAAAAATATAATAT-AA
1 ATATGAAAAAATATAAAAATATAATATAAA
195815 ATATGA
1 ATATGA
195821 TACATCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 4 0.13
29 14 0.45
30 13 0.42
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (30 bp):
ATATGAAAAAATATAAAAATATAATATAAA
Found at i:195803 original size:29 final size:28
Alignment explanation
Indices: 195758--195820 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
195748 TATAAACACG
* *
195758 ATATAAAAAAATT-AAAATATTATATAAA
1 ATATGAAAAAATTAAAAATATAATAT-AA
195786 ATATGAAAAAATATAAAAATATAATATAA
1 ATATGAAAAAAT-TAAAAATATAATATAA
195815 ATATGA
1 ATATGA
195821 TACATCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 11 0.35
29 9 0.29
30 11 0.35
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (28 bp):
ATATGAAAAAATTAAAAATATAATATAA
Found at i:197264 original size:18 final size:16
Alignment explanation
Indices: 197232--197275 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
197222 TAGTTTAAAA
197232 AATTATTTTATTAATT
1 AATTATTTTATTAATT
197248 AATTA-TTT-TTAATT
1 AATTATTTTATTAATT
*
197262 AATT-TTTTAATAAT
1 AATTATTTTATTAAT
197276 ATACTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 13 0.52
15 7 0.28
16 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTATTTTATTAATT
Found at i:197627 original size:16 final size:16
Alignment explanation
Indices: 197578--197627 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
197568 AATTTTAAAA
197578 ATTTTATTTATTATATT
1 ATTTTATTT-TTATATT
* *
197595 A-ATTATTTTTATTTT
1 ATTTTATTTTTATATT
*
197610 ATTTTATTTTTAAATT
1 ATTTTATTTTTATATT
197626 AT
1 AT
197628 GTATTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 7 0.26
16 19 0.70
17 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTTTTATATT
Found at i:199290 original size:20 final size:20
Alignment explanation
Indices: 199246--199284 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
199236 AGAAGGAAAT
* *
199246 TGTATCGATATATTTTTCAA
1 TGTATCGATACATTTCTCAA
199266 TGTATCGATACATTTCTCA
1 TGTATCGATACATTTCTCA
199285 TCGTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAA
Found at i:202442 original size:50 final size:50
Alignment explanation
Indices: 202329--202442 Score: 183
Period size: 50 Copynumber: 2.3 Consensus size: 50
202319 TTTCACAATT
*
202329 TGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTACCCAGA
* * *
202379 TGTATCGACACATTCTTCATTGCATTGATACATTTTGGGTTTTACCCAGA
1 TGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTACCCAGA
*
202429 TGTATCGGTACATT
1 TGTATCGATACATT
202443 TCTCAATCTA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGCATCGATACATTCTGGGTTTTACCCAGA
Done.