Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 56 of 126
Found at i:16386575 original size:40 final size:39
Alignment explanation
Indices: 16386500--16386575 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
16386490 GTGCTTTTTG
* *
16386500 AAAAACGCCGCTAATGCTCATTTTTAGCGGCGTTTTCCC
1 AAAAACGCCGCTAATACTCATCTTTAGCGGCGTTTTCCC
* *
16386539 AAAAGCGCCGCTAATACTCAATCTTTAGCGGTGTTTT
1 AAAAACGCCGCTAATACTC-ATCTTTAGCGGCGTTTT
16386576 TTTTAAAGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 17 0.53
40 15 0.47
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (39 bp):
AAAAACGCCGCTAATACTCATCTTTAGCGGCGTTTTCCC
Found at i:16386584 original size:40 final size:39
Alignment explanation
Indices: 16386494--16386617 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 39
16386484 TTTGCGGTGC
* *
16386494 TTTTTGAAAAACGCCGCTAATGCTCATTTTTAGCGGCGT
1 TTTTTCAAAAGCGCCGCTAATGCTCATTTTTAGCGGCGT
** * * *
16386533 TTTCCCAAAAGCGCCGCTAATACTCAATCTTTAGCGGTGT
1 TTTTTCAAAAGCGCCGCTAATGCTC-ATTTTTAGCGGCGT
** * *
16386573 TTTTTTTAAAGCGTCGCTAATGCTTGATTTTTAGCGGCGT
1 TTTTTCAAAAGCGCCGCTAATGC-TCATTTTTAGCGGCGT
16386613 TTTTT
1 TTTTT
16386618 ATCCAAACGC
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
39 20 0.30
40 46 0.69
41 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (39 bp):
TTTTTCAAAAGCGCCGCTAATGCTCATTTTTAGCGGCGT
Found at i:16388159 original size:27 final size:27
Alignment explanation
Indices: 16388138--16388515 Score: 391
Period size: 27 Copynumber: 14.0 Consensus size: 27
16388128 CGATATCTGC
*
16388138 ACCGAAATACCCTCATAGGATAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* *
16388165 ACCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * *
16388192 ATCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* ** *
16388219 ATCGAAATACCCTTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * * *
16388246 ACCAAAATAACCCTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* *
16388273 ACCAAAATA-CCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * *
16388299 ATCGAAATATCCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* *
16388326 ACCAAAATACCCCCATACGATAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
*
16388353 ACCGAAATACCCCTATATGG-TAAAATG
1 ACCGAAATACCCCCATA-GGATAAAATG
* * *
16388380 ACCAAAATACCCCCAAAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * *
16388407 ATCGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * * * *
16388434 ATCGAAATATCTCCATAAGATAGAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* ** *
16388461 ACCAAAATACCCTTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
*
16388488 ACCGAAATACCCCAATAGGATAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
16388515 A
1 A
16388516 TTGTTTTACC
Statistics
Matches: 300, Mismatches: 48, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
26 25 0.08
27 274 0.91
28 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
ACCGAAATACCCCCATAGGATAAAATG
Found at i:16388225 original size:54 final size:54
Alignment explanation
Indices: 16388140--16388516 Score: 454
Period size: 54 Copynumber: 7.0 Consensus size: 54
16388130 ATATCTGCAC
* *
16388140 CGAAATA-CCCTCATAGGATAAAATGACCGAAATACCCCCATAGGGTAGAATGAT
1 CGAAATACCCCT-ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * * ** *
16388194 CGAAATACCCCCATAGGGTAGAATGATCGAAATACCCTTATAGGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * *
16388248 CAAAATAACCCTATAGGGTAAAATGACCAAAATA-CCCCATAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * * *
16388301 CGAAATATCCCC-ATAGGGTAAAATGACCAAAATACCCCCATACGATAAAATGAC
1 CGAAATA-CCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * *
16388355 CGAAATACCCCTATATGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * * * * * *
16388409 CGAAATACCCCTATAGGGTAAAATGATCGAAATATCTCCATAAGATAGAATGAC
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * * *
16388463 CAAAATACCCTTATAGGGTAAAATGACCGAAATACCCCAATAGGATAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
16388517 TGTTTTACCC
Statistics
Matches: 273, Mismatches: 46, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
53 48 0.18
54 222 0.81
55 3 0.01
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (54 bp):
CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
Found at i:16388281 original size:81 final size:81
Alignment explanation
Indices: 16388138--16388515 Score: 454
Period size: 81 Copynumber: 4.7 Consensus size: 81
16388128 CGATATCTGC
* * *
16388138 ACCGAAATACCCTCATAGGATAAAATGACCGAAATACCCCCATAGGGTAGAATGATCGAAATACC
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
*
16388203 CCCATAGGGTAGAATG
66 CCCATAGGGTAAAATG
* * * * * *
16388219 ATCGAAATACCCTTATAGGGTAAAATGACCAAAATAACCCTATAGGGTAAAATGACCAAAATA-C
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
16388283 CCCATAGGGTAAAATG
66 CCCATAGGGTAAAATG
* * * *
16388299 ATCGAAATATCCC-CATAGGGTAAAATGACCAAAATACCCCCATACGATAAAATGACCGAAATAC
1 ACCGAAATA-CCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATAC
* *
16388363 CCCTATATGGTAAAATG
65 CCCCATAGGGTAAAATG
* * * * * * *
16388380 ACCAAAATACCCCCAAAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGATCGAAATATC
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
* * * *
16388445 TCCATAAGATAGAATG
66 CCCATAGGGTAAAATG
* * * *
16388461 ACCAAAATACCCTTATAGGGTAAAATGACCGAAATACCCCAATAGGATAAAATGA
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGA
16388516 TTGTTTTACC
Statistics
Matches: 255, Mismatches: 39, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
80 72 0.28
81 183 0.72
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (81 bp):
ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
CCCATAGGGTAAAATG
Found at i:16395642 original size:36 final size:36
Alignment explanation
Indices: 16395595--16395664 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
16395585 ACAATTGGCT
16395595 AATTCAGGTCTCAAAAACGAGTAAAATAAGGCAACC
1 AATTCAGGTCTCAAAAACGAGTAAAATAAGGCAACC
* * *
16395631 AATTCGGGTCTCAAAAATGAGTAAAATGAGGCAA
1 AATTCAGGTCTCAAAAACGAGTAAAATAAGGCAA
16395665 TTTTCACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.19
Consensus pattern (36 bp):
AATTCAGGTCTCAAAAACGAGTAAAATAAGGCAACC
Found at i:16397392 original size:11 final size:13
Alignment explanation
Indices: 16397375--16397406 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
16397365 TAGCTTACAT
16397375 TATAAAAA-TAAA
1 TATAAAAATTAAA
16397387 -ATAAAAATTAAA
1 TATAAAAATTAAA
16397399 TATAAAAA
1 TATAAAAA
16397407 ACATTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.39
12 4 0.22
13 7 0.39
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
TATAAAAATTAAA
Found at i:16404302 original size:17 final size:17
Alignment explanation
Indices: 16404268--16404305 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
16404258 TTTTAGACTC
*
16404268 AATTATCAATTAAATAA
1 AATTATCAAATAAATAA
*
16404285 AATT-TCAAATAAATTA
1 AATTATCAAATAAATAA
16404301 AATTA
1 AATTA
16404306 ATCTTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTATCAAATAAATAA
Found at i:16406513 original size:22 final size:23
Alignment explanation
Indices: 16406471--16406513 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16406461 TATTTTCACG
*
16406471 TTTATATATTTGATAAAAGAACT
1 TTTATATATTTGAAAAAAGAACT
*
16406494 TTTATAT-TTTTAAAAAAGAA
1 TTTATATATTTGAAAAAAGAA
16406514 AGCCACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (23 bp):
TTTATATATTTGAAAAAAGAACT
Found at i:16406799 original size:57 final size:57
Alignment explanation
Indices: 16406709--16406821 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
16406699 AAAACAAACT
**
16406709 CTCAAAAATAATTAATTACTTAAATGGCCTATTTTTTGATAAAATATGAAATTAACA
1 CTCAAAAATAATTAATTACTTAAATAACCTATTTTTTGATAAAATATGAAATTAACA
*
16406766 CTCAAAAATAATTAATTACTTAAATAACTTATTTTTTGATAAAATATGAAATTAAC
1 CTCAAAAATAATTAATTACTTAAATAACCTATTTTTTGATAAAATATGAAATTAAC
16406822 CTAACATCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (57 bp):
CTCAAAAATAATTAATTACTTAAATAACCTATTTTTTGATAAAATATGAAATTAACA
Found at i:16407276 original size:31 final size:32
Alignment explanation
Indices: 16407238--16407315 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 32
16407228 TCTAATGTAT
*
16407238 ATTTTAAATGTTTT-ATAA-TATTATTTTTTAA
1 ATTTTAAATATTTTGA-AATTATTATTTTTTAA
16407269 ATTTTAAATATATTTGAAATTATTATTTTTTAA
1 ATTTTAAATAT-TTTGAAATTATTATTTTTTAA
*
16407302 AATTTAAATATTTT
1 ATTTTAAATATTTT
16407316 TTAAAATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 10 0.24
32 8 0.19
33 24 0.57
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (32 bp):
ATTTTAAATATTTTGAAATTATTATTTTTTAA
Found at i:16407315 original size:18 final size:18
Alignment explanation
Indices: 16407259--16407330 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
16407249 TTTATAATAT
*
16407259 TATTTTTTAAATTTTAAA
1 TATTTTTTAAAATTTAAA
* * *
16407277 TA-TATTTGAAA-TT-AT
1 TATTTTTTAAAATTTAAA
16407292 TATTTTTTAAAATTTAAA
1 TATTTTTTAAAATTTAAA
16407310 TATTTTTTAAAATTTAAA
1 TATTTTTTAAAATTTAAA
16407328 TAT
1 TAT
16407331 AATTTTTTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 8 0.18
18 24 0.55
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
TATTTTTTAAAATTTAAA
Found at i:16407436 original size:22 final size:21
Alignment explanation
Indices: 16407400--16407500 Score: 87
Period size: 23 Copynumber: 4.5 Consensus size: 21
16407390 ATTTATTATT
*
16407400 TATTTTATAATATTTTAAATGTA
1 TATTTTA-AAAATTTTAAAT-TA
16407423 TATTTTAAAAATTTTAAAAATTA
1 TATTTTAAAAATTTT--AAATTA
*
16407446 TTTTTTAAAAATTTTAAAAATTA
1 TATTTTAAAAATTTT--AAATTA
*
16407469 T-TTTTTAAAATTTTGAATATTA
1 TATTTTAAAAATTTT-AA-ATTA
*
16407491 TTTTTTAAAA
1 TATTTTAAAA
16407501 TTATTATTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.03
22 24 0.35
23 39 0.57
24 4 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTAAAAATTTTAAATTA
Found at i:16407451 original size:23 final size:23
Alignment explanation
Indices: 16407416--16407500 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
16407406 ATAATATTTT
*
16407416 AAATGTATATTTTAAAAATTTTAA
1 AAAT-TATTTTTTAAAAATTTTAA
16407440 AAATTATTTTTTAAAAATTTTAA
1 AAATTATTTTTTAAAAATTTTAA
*
16407463 AAATTATTTTTT-AAAATTTTGA
1 AAATTATTTTTTAAAAATTTTAA
*
16407485 ATATTATTTTTTAAAA
1 AAATTATTTTTTAAAA
16407501 TTATTATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
22 20 0.35
23 33 0.58
24 4 0.07
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATTATTTTTTAAAAATTTTAA
Found at i:16407501 original size:22 final size:22
Alignment explanation
Indices: 16407399--16407502 Score: 122
Period size: 22 Copynumber: 4.7 Consensus size: 22
16407389 AATTTATTAT
* *
16407399 TTATTTTATAATATTTT--AAA
1 TTATTTTTTAAAATTTTAAAAA
*
16407419 TGTATATTTTAAAAATTTTAAAAA
1 T-TAT-TTTTTAAAATTTTAAAAA
16407443 TTATTTTTTAAAAATTTTAAAAA
1 TTATTTTTT-AAAATTTTAAAAA
* *
16407466 TTATTTTTTAAAATTTTGAATA
1 TTATTTTTTAAAATTTTAAAAA
16407488 TTATTTTTTAAAATT
1 TTATTTTTTAAAATT
16407503 ATTATTTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
20 1 0.01
21 3 0.04
22 40 0.55
23 25 0.34
24 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTTTTTAAAATTTTAAAAA
Found at i:16407507 original size:16 final size:16
Alignment explanation
Indices: 16407486--16407521 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
16407476 AAATTTTGAA
16407486 TATTATTTTTTAAAAT
1 TATTATTTTTTAAAAT
16407502 TATTATTTTTTAAAAT
1 TATTATTTTTTAAAAT
16407518 TATT
1 TATT
16407522 TTAAAGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATTTTTTAAAAT
Found at i:16407596 original size:11 final size:10
Alignment explanation
Indices: 16407580--16407625 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 10
16407570 TAATACTTTA
16407580 TTTATTTGTCT
1 TTTATTTGT-T
16407591 TTTATTTGTT
1 TTTATTTGTT
16407601 TATTATTTGTT
1 T-TTATTTGTT
16407612 TATTAATTTGTT
1 T-TT-ATTTGTT
16407624 TT
1 TT
16407626 ACAATATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 2 0.06
11 23 0.70
12 8 0.24
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTATTTGTT
Found at i:16407904 original size:18 final size:19
Alignment explanation
Indices: 16407881--16407924 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
16407871 AATGAAAAAA
16407881 TAAAAAAT-ATTTATTTAT
1 TAAAAAATGATTTATTTAT
*
16407899 TAAAAAATGATTTATTTGT
1 TAAAAAATGATTTATTTAT
16407918 TAAAAAA
1 TAAAAAA
16407925 CTACGACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
TAAAAAATGATTTATTTAT
Found at i:16412118 original size:14 final size:14
Alignment explanation
Indices: 16412099--16412135 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
16412089 CAGTAAGTTA
16412099 TTTATAGTTTGTAT
1 TTTATAGTTTGTAT
16412113 TTTATAGTTTGTAT
1 TTTATAGTTTGTAT
16412127 TTTATAGTT
1 TTTATAGTT
16412136 ATTGTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.65
Consensus pattern (14 bp):
TTTATAGTTTGTAT
Found at i:16415685 original size:145 final size:145
Alignment explanation
Indices: 16415422--16415691 Score: 459
Period size: 145 Copynumber: 1.9 Consensus size: 145
16415412 AACCAACATC
16415422 ACCTTCTACAATTTCACCATAAAAAAGAATATACACAAAAAAAACCTTATTATTCATCTTCAACA
1 ACCTTCTACAATTTCACCATAAAAAAGAATATACACAAAAAAAACCTTATTATTCATCTTCAACA
*
16415487 GAAATTTTGAACTCTCCTACTAAACACAACAACTTCATCATTCTATATATGCTAGAGAACTAAGA
66 GAAATTTTGAACTCTCCTACTAAACACAACAACTTCACCATTCTATATATGCTAGAGAACTAAGA
16415552 GGTGGAGCCATTCTT
131 GGTGGAGCCATTCTT
* ** * *
16415567 ACCTTCTACAATTTCACCATAAAAAAGAATATACACCAAAAGTACCTTGTTATTTATCTTCAACA
1 ACCTTCTACAATTTCACCATAAAAAAGAATATACACAAAAAAAACCTTATTATTCATCTTCAACA
* * *
16415632 GAATTTTTGAACTCTCTTACTAAACACAACAACTTCCCCATTCTATATATGCTAGAGAAC
66 GAAATTTTGAACTCTCCTACTAAACACAACAACTTCACCATTCTATATATGCTAGAGAAC
16415692 AATGGCTCCA
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
145 116 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (145 bp):
ACCTTCTACAATTTCACCATAAAAAAGAATATACACAAAAAAAACCTTATTATTCATCTTCAACA
GAAATTTTGAACTCTCCTACTAAACACAACAACTTCACCATTCTATATATGCTAGAGAACTAAGA
GGTGGAGCCATTCTT
Found at i:16415911 original size:21 final size:22
Alignment explanation
Indices: 16415870--16415948 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 22
16415860 TAAAAATAAT
16415870 AATTTT-AAA-AAATATTT-AA
1 AATTTTAAAACAAATATTTAAA
16415889 AATTTTAAAA-AAATATTTAAA
1 AATTTTAAAACAAATATTTAAA
* * *
16415910 AATTTTAAAATATACATTTAAA
1 AATTTTAAAACAAATATTTAAA
*
16415932 ATATTATAAAACAAATA
1 A-ATTTTAAAACAAATA
16415949 ATAAATTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.12
20 11 0.22
21 12 0.24
22 10 0.20
23 11 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTTTAAAACAAATATTTAAA
Found at i:16416063 original size:17 final size:18
Alignment explanation
Indices: 16416029--16416068 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
16416019 TAAAATTTTA
*
16416029 AAAATAATATTTAAATTT
1 AAAATAATATATAAATTT
*
16416047 AAAA-AATATATATATTT
1 AAAATAATATATAAATTT
16416064 AAAAT
1 AAAAT
16416069 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATATATAAATTT
Found at i:16416096 original size:24 final size:21
Alignment explanation
Indices: 16415995--16416099 Score: 104
Period size: 21 Copynumber: 4.7 Consensus size: 21
16415985 TTTTAAATGT
* *
16415995 TTTATAATATTAAAAAATTATA
1 TTTAAAAT-TTAAAAAATAATA
*
16416017 TTTAAAATTTTAAAAATAATA
1 TTTAAAATTTAAAAAATAATA
16416038 TTT-AAATTTAAAAAATATATATA
1 TTTAAAATTT-AAAAA-ATA-ATA
16416061 TTTAAAATTTTAAAAAATAATA
1 TTTAAAA-TTTAAAAAATAATA
16416083 TTATAGAACATTTAAAA
1 TT-TA-AA-ATTTAAAA
16416100 TATACATTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
20 6 0.08
21 18 0.25
22 15 0.21
23 11 0.15
24 17 0.24
25 4 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (21 bp):
TTTAAAATTTAAAAAATAATA
Found at i:16416148 original size:13 final size:13
Alignment explanation
Indices: 16416116--16416153 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
16416106 TTAAAATATT
*
16416116 ATAAAACCAAT-A
1 ATAAAACAAATAA
16416128 AT-AAACAAATAA
1 ATAAAACAAATAA
16416140 ATAAAACAAATAA
1 ATAAAACAAATAA
16416153 A
1 A
16416154 GGACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAACAAATAA
Found at i:16426427 original size:47 final size:47
Alignment explanation
Indices: 16426375--16426468 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
16426365 TTGTCTAAAA
16426375 AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
1 AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
16426422 AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
1 AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
16426469 TTGTATATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (47 bp):
AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
Found at i:16426691 original size:16 final size:16
Alignment explanation
Indices: 16426670--16426700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16426660 ATATTTTATC
16426670 TATTTTTTAGATTTTT
1 TATTTTTTAGATTTTT
*
16426686 TATTTTTTTGATTTT
1 TATTTTTTAGATTTT
16426701 CTTACAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (16 bp):
TATTTTTTAGATTTTT
Found at i:16428309 original size:21 final size:21
Alignment explanation
Indices: 16428244--16428314 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
16428234 AATCAAGCTT
*
16428244 AATATTATTATATTGATAATAA
1 AATATTATTATATTAAT-ATAA
* *
16428266 AAT-TTATTTTTATTATTA-AA
1 AATATTA-TTATATTAATATAA
*
16428286 AATATTAATATATTAATATAA
1 AATATTATTATATTAATATAA
16428307 AATATTAT
1 AATATTAT
16428315 ATTTTTTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 13 0.33
21 16 0.41
22 10 0.26
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
AATATTATTATATTAATATAA
Found at i:16428323 original size:22 final size:22
Alignment explanation
Indices: 16428262--16428326 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 22
16428252 TATATTGATA
*
16428262 ATAAAAT-TTAT-TTTTATTATT
1 ATAAAATATTATATTTT-TTAAT
* *
16428283 A-AAAATATTA-ATATATTAAT
1 ATAAAATATTATATTTTTTAAT
16428303 ATAAAATATTATATTTTTTAAT
1 ATAAAATATTATATTTTTTAAT
16428325 AT
1 AT
16428327 TATTAAACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 10 0.29
21 15 0.43
22 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAAAATATTATATTTTTTAAT
Found at i:16428471 original size:16 final size:17
Alignment explanation
Indices: 16428435--16428471 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
16428425 AATTTTATTT
*
16428435 TAATAATAAATTTTAAA
1 TAATAATAAATTTGAAA
16428452 -AATAAT-AATTTGAAA
1 TAATAATAAATTTGAAA
16428467 TAATA
1 TAATA
16428472 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTGAAA
Found at i:16428646 original size:29 final size:30
Alignment explanation
Indices: 16428613--16428674 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
16428603 ATGAATTTAC
16428613 AATTTAGT-CTCTTTACTTTT-AT-TTTCAAG
1 AATTTAGTCCT-TTTACTTTTCATATTT-AAG
16428642 AATTTAGTCCTTTTACTTTTCATATTTAAG
1 AATTTAGTCCTTTTACTTTTCATATTTAAG
16428672 AAT
1 AAT
16428675 CAAGTCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 17 0.57
30 10 0.33
31 3 0.10
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.53
Consensus pattern (30 bp):
AATTTAGTCCTTTTACTTTTCATATTTAAG
Found at i:16428681 original size:30 final size:29
Alignment explanation
Indices: 16428624--16428681 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
16428614 ATTTAGTCTC
**
16428624 TTTACTTTTATTTTCAAGAATTTAGTCCT
1 TTTACTTTTATTTTCAAGAATCAAGTCCT
16428653 TTTACTTTTCATATTT-AAGAATCAAGTCC
1 TTTACTTTT-AT-TTTCAAGAATCAAGTCC
16428682 AATTATTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 13 0.52
31 3 0.12
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.50
Consensus pattern (29 bp):
TTTACTTTTATTTTCAAGAATCAAGTCCT
Found at i:16433554 original size:55 final size:55
Alignment explanation
Indices: 16433470--16433573 Score: 181
Period size: 55 Copynumber: 1.9 Consensus size: 55
16433460 TCCCTGCACA
* *
16433470 TTCTTAGGTTATTCGCGTCTACATAAGGGTTATCGATGTCAAGATGCTATACACG
1 TTCTTAGGTTATTCACCTCTACATAAGGGTTATCGATGTCAAGATGCTATACACG
*
16433525 TTCTTAGGTTATTCACCTCTACATAAGGGTTATCGGTGTCAAGATGCTA
1 TTCTTAGGTTATTCACCTCTACATAAGGGTTATCGATGTCAAGATGCTA
16433574 ATGGAAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (55 bp):
TTCTTAGGTTATTCACCTCTACATAAGGGTTATCGATGTCAAGATGCTATACACG
Found at i:16439137 original size:20 final size:21
Alignment explanation
Indices: 16439112--16439150 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16439102 ATTCAATCGA
16439112 AGATAATTA-ATTATTTAACT
1 AGATAATTAGATTATTTAACT
*
16439132 AGATAATTAGTTTATTTAA
1 AGATAATTAGATTATTTAA
16439151 TCGATTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (21 bp):
AGATAATTAGATTATTTAACT
Found at i:16447248 original size:32 final size:32
Alignment explanation
Indices: 16447207--16447272 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
16447197 ATTTTGGGAC
16447207 ATAGAAAAACAAATATCGAGTTGGATCAAACT
1 ATAGAAAAACAAATATCGAGTTGGATCAAACT
16447239 ATAGAAAAACAAATATCGAGTTGGATCAAACT
1 ATAGAAAAACAAATATCGAGTTGGATCAAACT
16447271 AT
1 AT
16447273 TAATGTTCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (32 bp):
ATAGAAAAACAAATATCGAGTTGGATCAAACT
Found at i:16453470 original size:29 final size:29
Alignment explanation
Indices: 16453410--16453484 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 29
16453400 TTTGTGAATT
*
16453410 ATTTTTATTTTATATAA--AAATTTACTT
1 ATTTTTATTTTATATAATTAAATTTACTA
*
16453437 ATTTTTATTTTATATAATTGATATTTA-TA
1 ATTTTTATTTTATATAATT-AAATTTACTA
* * *
16453466 ATTTTAAATTTATAAAATT
1 ATTTTTATTTTATATAATT
16453485 TGTGATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 17 0.43
29 17 0.43
30 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (29 bp):
ATTTTTATTTTATATAATTAAATTTACTA
Found at i:16453578 original size:24 final size:25
Alignment explanation
Indices: 16453533--16453593 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
16453523 TTTAGAGAAT
* *
16453533 TTTTATATTCTTTTTAAATTTATATA
1 TTTTATA-TATTTTTAAATTTAGATA
*
16453559 TTTTATATATTTTT-ATTTTAGATA
1 TTTTATATATTTTTAAATTTAGATA
*
16453583 ATTTATATATT
1 TTTTATATATT
16453594 ATAAAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 18 0.58
25 6 0.19
26 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTTATATATTTTTAAATTTAGATA
Found at i:16453648 original size:20 final size:20
Alignment explanation
Indices: 16453625--16453666 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
16453615 AATATAATAA
16453625 TTTTTATAATTATATATCTT
1 TTTTTATAATTATATATCTT
* * *
16453645 TTTTTTTAATTTTATATGTT
1 TTTTTATAATTATATATCTT
16453665 TT
1 TT
16453667 AAATTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTTATAATTATATATCTT
Found at i:16453668 original size:15 final size:15
Alignment explanation
Indices: 16453647--16453685 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
16453637 TATATCTTTT
16453647 TTTTTAATTTT-ATA
1 TTTTTAATTTTAATA
16453661 TGTTTTAAATTTTAATA
1 T-TTTT-AATTTTAATA
16453678 TTTTTAAT
1 TTTTTAAT
16453686 AAATGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 7 0.32
16 10 0.45
17 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTAATTTTAATA
Found at i:16459444 original size:19 final size:19
Alignment explanation
Indices: 16459398--16459445 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
16459388 TTTTATTTAT
* *
16459398 TTTATAAAATTTTATGTAC
1 TTTATAAAATTTTAGGAAC
16459417 TTCTATAAAATTTT-GGAATC
1 TT-TATAAAATTTTAGGAA-C
16459437 TTTATAAAA
1 TTTATAAAA
16459446 ATATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (19 bp):
TTTATAAAATTTTAGGAAC
Found at i:16459751 original size:30 final size:30
Alignment explanation
Indices: 16459715--16459802 Score: 108
Period size: 29 Copynumber: 3.0 Consensus size: 30
16459705 TTAGAATAAT
16459715 GACTAAATTGATAGAATGTGTAAATATTGG
1 GACTAAATTGATAGAATGTGTAAATATTGG
* * * * *
16459745 GCCTAAATTTGTTAAAAT-TTTAAA-ATTAG
1 GACTAAA-TTGATAGAATGTGTAAATATTGG
16459774 GACTAAATTGATAGAATGTGTAAATATTG
1 GACTAAATTGATAGAATGTGTAAATATTG
16459803 AAAAACTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
28 8 0.18
29 15 0.33
30 14 0.31
31 8 0.18
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (30 bp):
GACTAAATTGATAGAATGTGTAAATATTGG
Found at i:16464457 original size:68 final size:68
Alignment explanation
Indices: 16464211--16464461 Score: 277
Period size: 68 Copynumber: 3.7 Consensus size: 68
16464201 AGTACGTCAA
* * * * **
16464211 GACATTAAACATGGGTTCATAATGTGTACGACCATATCTCGACTATGGCAACATATGGAGTCCGT
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGACAACATATGGAGTCCAC
16464276 TAG
66 TAG
*** * ** ***
16464279 GACATTAAACATCAATTCATAATATGTAAGACCATAGCTCATCTATGACAACATAAAAAGTCCAC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGACAACATATGGAGTCCAC
* *
16464344 CAA
66 TAG
* * *
16464347 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTTGGCTATGACAACATATGGTGTCCAC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGACAACATATGGAGTCCAC
16464412 TAG
66 TAG
* * * * *
16464415 GACATTAAATAGGGGTTCATATTGTGTAAGACCACAGCTTGGCTATG
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATG
16464462 CCAGTATGTG
Statistics
Matches: 148, Mismatches: 35, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 148 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (68 bp):
GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGACAACATATGGAGTCCAC
TAG
Found at i:16464477 original size:136 final size:136
Alignment explanation
Indices: 16464208--16464453 Score: 332
Period size: 136 Copynumber: 1.8 Consensus size: 136
16464198 AGAAGTACGT
* *
16464208 CAAGACATTAAACATGGGTTCATAATGTGTACGACCATATCTCGACTATGGCAACATATGGAGTC
1 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATATCTCGACTATGACAACATATGGAGTC
** * * *
16464273 CGTTAGGACATTAAACATCAATTCATAATATGTAAGACCATAGCTCATCTATGACAACATAAAAA
66 CACTAGGACATTAAACAGCAATTCATAATATGTAAGACCACAGCTCAGCTATGACAACATAAAAA
16464338 GTCCAC
131 GTCCAC
* * *
16464344 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATAGT-TTGGCTATGACAACATATGGTGT
1 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATA-TCTCGACTATGACAACATATGGAGT
* *** * *
16464408 CCACTAGGACATTAAATAGGGGTTCATATTGTGTAAGACCACAGCT
65 CCACTAGGACATTAAACAGCAATTCATAATATGTAAGACCACAGCT
16464454 TGGCTATGCC
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
136 93 0.99
137 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (136 bp):
CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATATCTCGACTATGACAACATATGGAGTC
CACTAGGACATTAAACAGCAATTCATAATATGTAAGACCACAGCTCAGCTATGACAACATAAAAA
GTCCAC
Found at i:16472554 original size:68 final size:68
Alignment explanation
Indices: 16472463--16472631 Score: 214
Period size: 68 Copynumber: 2.5 Consensus size: 68
16472453 TAAATCTGAA
* **
16472463 TTCATAATGTGTAAGACCATAGCTCGACTAT-TACAACATATAGAGTCCGTCAGGACATTAAACA
1 TTCATAATGTGTAAGACCATAGCTCGACTATGGA-AACATATAGAGTCCACCAGGACATTAAACA
*
16472527 TGGG
65 TGGC
** * ** *
16472531 TTGTTAATATGTAAGACCATAGCTCGGTTATGGAAACATATGGAGTCCACCAGGACATTAAACAT
1 TTCATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCACCAGGACATTAAACAT
16472596 GGC
66 GGC
* *
16472599 TTCATATTGTGTAAGACCATAGCTCGATTATGG
1 TTCATAATGTGTAAGACCATAGCTCGACTATGG
16472632 TAGCATGTGA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
68 84 0.99
69 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (68 bp):
TTCATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCACCAGGACATTAAACAT
GGC
Found at i:16475823 original size:42 final size:43
Alignment explanation
Indices: 16475714--16475827 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 43
16475704 AAAGTCCGTA
16475714 CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATAT
* ** **
16475757 CAAT--TATATGTCCCAGACAAGGTCTTACATG-AATCACA-AGT
1 CAATGCCA-ACATCCCAGACGTGGTCTTACATGTAATCACATA-T
* *
16475798 CGATGCCAACATCCCAGATGTGGTCTTACA
1 CAATGCCAACATCCCAGACGTGGTCTTACA
16475828 CAAAAACACA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
40 1 0.02
41 12 0.22
42 37 0.67
43 5 0.09
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATAT
Found at i:16476594 original size:10 final size:10
Alignment explanation
Indices: 16476579--16476604 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16476569 CAAAAACATA
16476579 AAAATCGAAC
1 AAAATCGAAC
16476589 AAAATCGAAC
1 AAAATCGAAC
16476599 AAAATC
1 AAAATC
16476605 CATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAATCGAAC
Found at i:16478485 original size:19 final size:19
Alignment explanation
Indices: 16478443--16478488 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
16478433 TTTTATTTAG
*
16478443 GTTTAAATGAAAATTTGAC
1 GTTTAAATGAAAATTTAAC
16478462 GTTTAAATGAAAATTTAATC
1 GTTTAAATGAAAATTTAA-C
16478482 -TTTAAAT
1 GTTTAAAT
16478489 TATAGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 24 0.96
20 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.41
Consensus pattern (19 bp):
GTTTAAATGAAAATTTAAC
Found at i:16479139 original size:17 final size:16
Alignment explanation
Indices: 16479115--16479170 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 16
16479105 TTAGGTTTGC
16479115 TTTTAATTTGTTTTTT
1 TTTTAATTTGTTTTTT
*
16479131 TTTTCAATTTTGTTTTGT
1 TTTT-AA-TTTGTTTTTT
*
16479149 TTATAATTCTGTTTGTTT
1 TTTTAATT-TGTTT-TTT
16479167 TTTT
1 TTTT
16479171 TACTCTCGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 6 0.19
17 9 0.28
18 17 0.53
ACGTcount: A:0.12, C:0.04, G:0.09, T:0.75
Consensus pattern (16 bp):
TTTTAATTTGTTTTTT
Found at i:16479140 original size:34 final size:36
Alignment explanation
Indices: 16479102--16479170 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 36
16479092 CATTTTACTA
16479102 AATTTAGGTTTGCTTT-TAATT-TGTTT-TTTTTTTC
1 AATTTAGGTTTG-TTTATAATTCTGTTTGTTTTTTTC
* *
16479136 AATTTTGTTTTGTTTATAATTCTGTTTGTTTTTTT
1 AATTTAGGTTTGTTTATAATTCTGTTTGTTTTTTT
16479171 TACTCTCGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.10
34 15 0.50
35 5 0.17
36 7 0.23
ACGTcount: A:0.14, C:0.04, G:0.12, T:0.70
Consensus pattern (36 bp):
AATTTAGGTTTGTTTATAATTCTGTTTGTTTTTTTC
Found at i:16482293 original size:31 final size:29
Alignment explanation
Indices: 16482232--16482294 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
16482222 CCTCTCAATT
***
16482232 TTTTTGAAAATTTTAAATCTCACTTCAAA
1 TTTTTGAAAATTTTAAATCTCACAAAAAA
*
16482261 TTTTTGAAAATCTTATTAATCTCACAAAAAA
1 TTTTTGAAAAT-TT-TAAATCTCACAAAAAA
16482292 TTT
1 TTT
16482295 AAATATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.39
30 2 0.07
31 15 0.54
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTTGAAAATTTTAAATCTCACAAAAAA
Found at i:16482903 original size:11 final size:11
Alignment explanation
Indices: 16482887--16482913 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
16482877 CATTAAAACA
16482887 GAAAAGTTTGG
1 GAAAAGTTTGG
16482898 GAAAAGTTTGG
1 GAAAAGTTTGG
16482909 GAAAA
1 GAAAA
16482914 TTCGCTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (11 bp):
GAAAAGTTTGG
Found at i:16483448 original size:7 final size:8
Alignment explanation
Indices: 16483429--16483479 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
16483419 ATGGAGATTT
16483429 TTTTTTAA
1 TTTTTTAA
16483437 TTTTTTAA
1 TTTTTTAA
16483445 TTTTTTATA
1 TTTTTTA-A
16483454 TATTCTTTATA
1 T-TT-TTTA-A
*
16483465 ATTTTT-A
1 TTTTTTAA
16483472 TTTTTTAA
1 TTTTTTAA
16483480 GTTATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 6 0.16
8 16 0.43
9 5 0.14
10 4 0.11
11 6 0.16
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTTAA
Found at i:16490331 original size:29 final size:30
Alignment explanation
Indices: 16490298--16490358 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
16490288 GTAACATGGT
* *
16490298 TGCTTAAATTGTAAACTTTTTAT-TTTGAG
1 TGCTTAAATTGAAAACTTTTTATAGTTGAG
* *
16490327 TGCTTACATTGAAAATTTTTTATAGTTGAG
1 TGCTTAAATTGAAAACTTTTTATAGTTGAG
16490357 TG
1 TG
16490359 ACTATCTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (30 bp):
TGCTTAAATTGAAAACTTTTTATAGTTGAG
Found at i:16496153 original size:40 final size:42
Alignment explanation
Indices: 16496057--16496153 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 42
16496047 CCTTTTCCGG
* *
16496057 CAAATCGCGTCCACGTCAGCGCGATGTCAGGGGACGTGCCAG
1 CAAATCGCGTCCACGTCAGCGCGATGTCAGCGGACGTGCCAA
* * * * *
16496099 GAAATCGCAG-CCACGTCAGCGCGCT-T-TGCTGACGTGGCAA
1 CAAATCGC-GTCCACGTCAGCGCGATGTCAGCGGACGTGCCAA
16496139 CAAATCGCGTCCACG
1 CAAATCGCGTCCACG
16496154 AGGGGGCGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
39 1 0.02
40 21 0.47
41 1 0.02
42 21 0.47
43 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.30, T:0.15
Consensus pattern (42 bp):
CAAATCGCGTCCACGTCAGCGCGATGTCAGCGGACGTGCCAA
Found at i:16496335 original size:11 final size:11
Alignment explanation
Indices: 16496313--16496348 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
16496303 AACTAATCCT
16496313 CTCTCAAATTTC
1 CTCTC-AATTTC
16496325 CTCTCAATTTC
1 CTCTCAATTTC
16496336 CTCTCAATTTC
1 CTCTCAATTTC
16496347 CT
1 CT
16496349 TCCATATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:16496347 original size:22 final size:22
Alignment explanation
Indices: 16496312--16496364 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
16496302 AAACTAATCC
16496312 TCTCTCAAATTTCC-TCTCA-ATT
1 TCTCTC-AATTTCCTTC-CATATT
16496334 TCCTCTCAATTTCCTTCCATATT
1 T-CTCTCAATTTCCTTCCATATT
16496357 TCTCTCAA
1 TCTCTCAA
16496365 ATCCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (22 bp):
TCTCTCAATTTCCTTCCATATT
Found at i:16496382 original size:18 final size:17
Alignment explanation
Indices: 16496349--16496382 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16496339 TCAATTTCCT
*
16496349 TCCATATTTCTCTCAAA
1 TCCATATTTATCTCAAA
16496366 TCCATATTTAATCTCAA
1 TCCATATTT-ATCTCAA
16496383 TTTGCTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (17 bp):
TCCATATTTATCTCAAA
Found at i:16498257 original size:18 final size:18
Alignment explanation
Indices: 16498234--16498273 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16498224 TAGGTGCGTT
*
16498234 TCCTAACCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
16498252 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
16498270 TCCT
1 TCCT
16498274 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:16498869 original size:21 final size:21
Alignment explanation
Indices: 16498845--16499819 Score: 1039
Period size: 21 Copynumber: 45.2 Consensus size: 21
16498835 CAAAAACCCT
*
16498845 AACCCTAACCCTTAAAATAAA
1 AACCCTAACCCTTAAATTAAA
*
16498866 AACCCTAACCCTTAAATTAAT
1 AACCCTAACCCTTAAATTAAA
*
16498887 AACCCTAACCCTTAAATTAAT
1 AACCCTAACCCTTAAATTAAA
*
16498908 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
* * *
16498930 AACCATAAACCTTTAACTTAAAAACCA
1 AACCCT-AACCCTTAAATT---AA--A
*
16498957 TAACCCTAACCATTAAATTAAA
1 -AACCCTAACCCTTAAATTAAA
* **
16498979 AACCTTAACCCTTAGCTTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499000 AACCTTAACCCTT-AATTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499020 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
* * *
16499042 AACCATAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
16499064 AACCCTAACCCTAACCATTAAATTAAA
1 AACCCTAA--C---CC-TTAAATTAAA
*
16499091 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499112 AACCCAAACCCTTAAATT-AA
1 AACCCTAACCCTTAAATTAAA
* * *
16499132 AACCCATAAACCTTAACTTAAT
1 AACCC-TAACCCTTAAATTAAA
*
16499154 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
* *
16499175 AACCCTAAACCCTTGACTTAAA
1 AACCCT-AACCCTTAAATTAAA
*
16499197 AATCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499218 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499239 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
16499260 AACCCTAACCCTT-AATTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499280 AACCTTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499301 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499322 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499343 AACCCTAACCTTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
* * *
16499364 AACCCTAAACCTTAACTGAAA
1 AACCCTAACCCTTAAATTAAA
* * *
16499385 AACCATAAACCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
* *
16499406 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
16499428 AACCCTAACCCTT-AATTAAA
1 AACCCTAACCCTTAAATTAAA
16499448 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
16499469 AACCCTAAACCCTT-AA-TACAA
1 AACCCT-AACCCTTAAATTA-AA
* *
16499490 CTATACCCTAAACCTTTAACTTAAAAA
1 --A-ACCCT-AACCCTTAAATT--AAA
*
16499517 TCCTAACCCTAACCATTAAATTAAA
1 ----AACCCTAACCCTTAAATTAAA
*
16499542 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
* *
16499563 AACCCTAACCATAAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499584 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
* *
16499605 AACCCTAACCTTTAACTT-AA
1 AACCCTAACCCTTAAATTAAA
*
16499625 AACCCTAACCATTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
*
16499646 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
16499667 AACCCTAACCCTTAACA-TAAA
1 AACCCTAACCCTTAA-ATTAAA
*
16499688 AACCCTAACCCTTAAATTGAA
1 AACCCTAACCCTTAAATTAAA
*
16499709 AACCTTAACCCTTAAATTAAA
1 AACCCTAACCCTTAAATTAAA
* * *
16499730 AACCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAAATTAAA
* *
16499751 AACCTTAACCCTTAACTTAAA
1 AACCCTAACCCTTAAATTAAA
* * *
16499772 AACCTTAAAACCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
*
16499794 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAAATTAAA
16499816 AACC
1 AACC
16499820 TTGAGGTTTT
Statistics
Matches: 830, Mismatches: 88, Indels: 71
0.84 0.09 0.07
Matches are distributed among these distances:
20 75 0.09
21 522 0.63
22 154 0.19
23 2 0.00
24 14 0.02
25 7 0.01
26 2 0.00
27 40 0.05
28 11 0.01
29 3 0.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTAAATTAAA
Found at i:16498896 original size:27 final size:24
Alignment explanation
Indices: 16498826--16498923 Score: 79
Period size: 21 Copynumber: 4.4 Consensus size: 24
16498816 ACAAACCTTA
*
16498826 AACCCTTAACAAAAACCCTAACCCT
1 AACCCTTAA-AATAACCCTAACCCT
*
16498851 AACCCTTAAAATAA---AAACCCT
1 AACCCTTAAAATAACCCTAACCCT
*
16498872 AACCCTTAAATTAA---TAACCCT
1 AACCCTTAAAATAACCCTAACCCT
*
16498893 AACCCTTAAATTAA---TAACCCT
1 AACCCTTAAAATAACCCTAACCCT
16498914 AAACCCTTAA
1 -AACCCTTAA
16498924 CTTAAAAACC
Statistics
Matches: 68, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
21 46 0.68
22 9 0.13
24 4 0.06
25 9 0.13
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (24 bp):
AACCCTTAAAATAACCCTAACCCT
Found at i:16498967 original size:27 final size:27
Alignment explanation
Indices: 16498906--16498990 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
16498896 CCTTAAATTA
*
16498906 ATAACCCTAAACCCTTAACTTAAAAACC
1 ATAACCCT-AACCATTAACTTAAAAACC
*
16498934 AT-A----AACCTTTAACTTAAAAACC
1 ATAACCCTAACCATTAACTTAAAAACC
*
16498956 ATAACCCTAACCATTAAATTAAAAACC
1 ATAACCCTAACCATTAACTTAAAAACC
*
16498983 TTAACCCT
1 ATAACCCT
16498991 TAGCTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
22 20 0.42
23 1 0.02
27 25 0.52
28 2 0.04
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (27 bp):
ATAACCCTAACCATTAACTTAAAAACC
Found at i:16499079 original size:27 final size:27
Alignment explanation
Indices: 16499049--16499102 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
16499039 AAAAACCATA
* *
16499049 AACCTTTAACTTAAAAACCCTAACCCT
1 AACCATTAAATTAAAAACCCTAACCCT
16499076 AACCATTAAATTAAAAACCCTAACCCT
1 AACCATTAAATTAAAAACCCTAACCCT
16499103 TAACTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.24
Consensus pattern (27 bp):
AACCATTAAATTAAAAACCCTAACCCT
Found at i:16499572 original size:27 final size:28
Alignment explanation
Indices: 16499494--16499553 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
16499484 ATACAACTAT
* * *
16499494 ACCCTAAACCTTTAACTTAAAAATCCTA
1 ACCCTAAACCATTAAATTAAAAACCCTA
16499522 ACCCT-AACCATTAAATTAAAAACCCTA
1 ACCCTAAACCATTAAATTAAAAACCCTA
16499549 ACCCT
1 ACCCT
16499554 TAACTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (28 bp):
ACCCTAAACCATTAAATTAAAAACCCTA
Found at i:16500027 original size:114 final size:114
Alignment explanation
Indices: 16499827--16500097 Score: 515
Period size: 114 Copynumber: 2.4 Consensus size: 114
16499817 ACCTTGAGGT
16499827 TTTTACTAACCATTAATGCAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATGCAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
16499892 AAATGTTTTCACTGGTACCAACAATTAATAATTTGATATAATTTGATAA
66 AAATGTTTTCACTGGTACCAACAATTAATAATTTGATATAATTTGATAA
16499941 TTTTACTAACCATTAATGCAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATGCAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
16500006 AAATGTTTTCACTGGTACCAACAATTAATAATTTGATATAATTTGATAA
66 AAATGTTTTCACTGGTACCAACAATTAATAATTTGATATAATTTGATAA
* *
16500055 TTTTACTAACCATTAATACAATTTATCAATTAATAATTTTACA
1 TTTTACTAACCATTAATGCAA-TTATCAGTTAATAATTTTACA
16500098 AATATAAATT
Statistics
Matches: 154, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
114 134 0.87
115 20 0.13
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (114 bp):
TTTTACTAACCATTAATGCAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
AAATGTTTTCACTGGTACCAACAATTAATAATTTGATATAATTTGATAA
Found at i:16503272 original size:124 final size:125
Alignment explanation
Indices: 16503101--16503613 Score: 805
Period size: 125 Copynumber: 4.1 Consensus size: 125
16503091 CCCAAACATG
*
16503101 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
16503166 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCAAAATTATTT-TTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * *
16503225 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCAATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
16503290 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTTGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * * * *
16503350 CTACTGTAGAAAAAGCGCGTCCACTAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* **
16503415 TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
* * * * *
16503475 CTACTGTAGCAAAAGCACGTCCACGAAGGCGTGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
16503540 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
16503599 CTACTGTAGCAAAAG
1 CTACTGTAGCAAAAG
16503614 TGCATACACA
Statistics
Matches: 354, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
124 131 0.37
125 223 0.63
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
Found at i:16503599 original size:249 final size:249
Alignment explanation
Indices: 16503101--16503613 Score: 812
Period size: 249 Copynumber: 2.1 Consensus size: 249
16503091 CCCAAACATG
* * *
16503101 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
* **
16503166 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAAGTCAAAATTATTTTTCCAAGACCTACTG
66 TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCAAAATTATTTTTCCAAGACCTACTG
* * * * * *
16503231 TAGCAAAAGCGCGTCCATGAGGGCGCAATTTCATAAATTCTTCTCAAATAGCATCCTGCTAGAAG
131 TAGCAAAAGCACGTCCACGAAGGCGCAATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
* *
16503296 CGATTTTATACTATTTGCTCAGAAACGTCAAGTTGAAATTATTTCTTCCAGGAC
196 CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * *
16503350 CTACTGTAGAAAAAGCGCGTCCACTAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
* *
16503415 TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCGAAATTATTTCTTCCAGGACCTACT
66 TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCAAAATTATTT-TTCCAAGACCTACT
**
16503480 GTAGCAAAAGCACGTCCACGAAGGCGTGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
130 GTAGCAAAAGCACGTCCACGAAGGCGCAATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
*
16503545 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTTCAGGAC
195 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
16503599 CTACTGTAGCAAAAG
1 CTACTGTAGCAAAAG
16503614 TGCATACACA
Statistics
Matches: 240, Mismatches: 23, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
249 127 0.53
250 113 0.47
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAAAAAAATCAAGTCAAAATTATTTTTCCAAGACCTACTG
TAGCAAAAGCACGTCCACGAAGGCGCAATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:16503692 original size:16 final size:16
Alignment explanation
Indices: 16503654--16503696 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16503644 CTTTTTTTCT
16503654 CAAAAACCCTAAAAATC
1 CAAAAA-CCTAAAAATC
* *
16503671 C-TAAACCTTAAAATC
1 CAAAAACCTAAAAATC
16503686 CAAAAACCTAA
1 CAAAAACCTAA
16503697 CGTGGGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
15 10 0.48
16 10 0.48
17 1 0.05
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (16 bp):
CAAAAACCTAAAAATC
Found at i:16504448 original size:15 final size:16
Alignment explanation
Indices: 16504428--16504458 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16504418 TAGCTAAATC
16504428 GAAAAGAA-AAAAAAA
1 GAAAAGAATAAAAAAA
16504443 GAAAAGAATAAAAAAA
1 GAAAAGAATAAAAAAA
16504459 TAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
GAAAAGAATAAAAAAA
Found at i:16515603 original size:19 final size:19
Alignment explanation
Indices: 16515556--16515606 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
16515546 TCAAAAACAA
*
16515556 TTAATTAATTTTATGAATTT
1 TTAA-TAATTTTTTGAATTT
*
16515576 TTAAGAATTTTTTGATATTT
1 TTAATAATTTTTTGA-ATTT
16515596 TT-ATAATTTTT
1 TTAATAATTTTT
16515607 AAAAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TTAATAATTTTTTGAATTT
Found at i:16515606 original size:9 final size:10
Alignment explanation
Indices: 16515564--16515607 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
16515554 AATTAATTAA
16515564 TTTTATGAAT
1 TTTTATGAAT
*
16515574 TTTTAAGAAT
1 TTTTATGAAT
16515584 TTTT-TGATAT
1 TTTTATGA-AT
16515594 TTTTAT-AAT
1 TTTTATGAAT
16515603 TTTTA
1 TTTTA
16515608 AAAATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.30
10 20 0.67
11 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (10 bp):
TTTTATGAAT
Found at i:16522887 original size:26 final size:26
Alignment explanation
Indices: 16522857--16522918 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
16522847 TACCTACAGT
16522857 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
16522883 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
*
16522909 AGTTTTAGAA
1 AGTTTCAGAA
16522919 CACTTACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:16526534 original size:17 final size:18
Alignment explanation
Indices: 16526514--16526547 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16526504 TTATTTAGAT
16526514 TAATT-AGAGTTTTATTA
1 TAATTGAGAGTTTTATTA
16526531 TAATTGAGAGTTTTATT
1 TAATTGAGAGTTTTATT
16526548 TGGATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
TAATTGAGAGTTTTATTA
Found at i:16534608 original size:67 final size:67
Alignment explanation
Indices: 16534529--16534662 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
16534519 TATTATTACG
16534529 AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
1 AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
16534594 CT
66 CT
16534596 AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
1 AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
16534661 CT
66 CT
16534663 CTTCTCGAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (67 bp):
AACACTCCCAAAACTTGCTACAAAAGTAGCCTGAGGTCTAGAACTTGAATGTTGCTTCCTTTTAT
CT
Found at i:16545083 original size:19 final size:19
Alignment explanation
Indices: 16545044--16545080 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
16545034 TTATGGATAG
*
16545044 TTAATTAAAGTTTAATTAA
1 TTAATTAAAGCTTAATTAA
16545063 TTAATT-AAGCTTAATTAA
1 TTAATTAAAGCTTAATTAA
16545081 ATTTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAATTAAAGCTTAATTAA
Found at i:16558960 original size:13 final size:13
Alignment explanation
Indices: 16558942--16558967 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16558932 GAGTTACACA
16558942 GTCTAGCACACGG
1 GTCTAGCACACGG
16558955 GTCTAGCACACGG
1 GTCTAGCACACGG
16558968 CCGTGTGTGG
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
GTCTAGCACACGG
Found at i:16559729 original size:22 final size:22
Alignment explanation
Indices: 16559704--16559748 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
16559694 TTTAACGAAG
16559704 TGGAAGAAGT-AGCGCCACGACA
1 TGGAAGAAGTGA-CGCCACGACA
*
16559726 TGGAAGAAGTGACGCCATGACA
1 TGGAAGAAGTGACGCCACGACA
16559748 T
1 T
16559749 CGACCTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.13
Consensus pattern (22 bp):
TGGAAGAAGTGACGCCACGACA
Found at i:16562550 original size:26 final size:26
Alignment explanation
Indices: 16562514--16562563 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
16562504 CTCTAAGAAG
16562514 ATTAACATGAAATACAAGAACAAAAT
1 ATTAACATGAAATACAAGAACAAAAT
16562540 ATTAACATGAAATACAAGAACAAA
1 ATTAACATGAAATACAAGAACAAA
16562564 GAAAATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.18
Consensus pattern (26 bp):
ATTAACATGAAATACAAGAACAAAAT
Found at i:16566639 original size:26 final size:26
Alignment explanation
Indices: 16566603--16566655 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
16566593 GTATACGAGT
*
16566603 CAAATTGTAATATAATAATTTTACAG
1 CAAATTGTAATATAATAAGTTTACAG
16566629 CAAATTGTAATATAATAAGTTTACAG
1 CAAATTGTAATATAATAAGTTTACAG
16566655 C
1 C
16566656 GATATACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (26 bp):
CAAATTGTAATATAATAAGTTTACAG
Found at i:16577673 original size:27 final size:27
Alignment explanation
Indices: 16577643--16577820 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16577633 ATATTGAGTC
* * * *
16577643 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16577670 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16577697 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16577725 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16577752 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16577779 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16577806 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16577821 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16577782 original size:82 final size:81
Alignment explanation
Indices: 16577664--16577819 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16577654 TGCTATATAA
* *
16577664 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16577729 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16577746 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16577810 CACTTAGTGC
65 CACTTAGTGC
16577820 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16585863 original size:27 final size:27
Alignment explanation
Indices: 16585833--16586010 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16585823 ATATTGAGTC
* * * *
16585833 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16585860 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16585887 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16585915 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16585942 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16585969 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16585996 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16586011 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16585972 original size:82 final size:81
Alignment explanation
Indices: 16585854--16586009 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16585844 TGCTATATAA
* *
16585854 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16585919 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16585936 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16586000 CACTTAGTGC
65 CACTTAGTGC
16586010 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16587995 original size:35 final size:35
Alignment explanation
Indices: 16587895--16587997 Score: 104
Period size: 35 Copynumber: 3.0 Consensus size: 35
16587885 CTCTAATTGA
* * *
16587895 ATAAACCAAC-AATGCTTGCGCCTAGCGCTAGTCGG
1 ATAAACCAACGAAAG-TTGCGCCCAGCGCTAGTCAG
* * *
16587930 ATAAACCAACGAATG-TGTGCCCAGCACTAGTCAG
1 ATAAACCAACGAAAGTTGCGCCCAGCGCTAGTCAG
*
16587964 ATGAACTC-ACGAAAGTTGCGCCCAGCGCTAGTCA
1 ATAAAC-CAACGAAAGTTGCGCCCAGCGCTAGTCA
16587998 AACAAATCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
34 26 0.46
35 27 0.47
36 4 0.07
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.18
Consensus pattern (35 bp):
ATAAACCAACGAAAGTTGCGCCCAGCGCTAGTCAG
Found at i:16593076 original size:12 final size:12
Alignment explanation
Indices: 16593059--16593084 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16593049 ATAGCCCATA
16593059 TTGATATGCTAT
1 TTGATATGCTAT
16593071 TTGATATGCTAT
1 TTGATATGCTAT
16593083 TT
1 TT
16593085 TTAACAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGATATGCTAT
Found at i:16595837 original size:30 final size:31
Alignment explanation
Indices: 16595797--16595863 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 31
16595787 CTATACTCAT
*
16595797 ATATAGTTA-TTTGTTGTTGCATAGTCATTA
1 ATATAATTATTTTGTTGTTGCATAGTCATTA
16595827 ATATAATTATTTTTTGTTGTTGCATAGTCATTA
1 ATATAATTA--TTTTGTTGTTGCATAGTCATTA
16595860 ATAT
1 ATAT
16595864 GCATTTCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.24
33 25 0.76
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.52
Consensus pattern (31 bp):
ATATAATTATTTTGTTGTTGCATAGTCATTA
Found at i:16598379 original size:14 final size:14
Alignment explanation
Indices: 16598360--16598390 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16598350 CATAAAATTG
16598360 TAATTCAAGCTATT
1 TAATTCAAGCTATT
*
16598374 TAATTCAAGTTATT
1 TAATTCAAGCTATT
16598388 TAA
1 TAA
16598391 AGAGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (14 bp):
TAATTCAAGCTATT
Found at i:16598859 original size:24 final size:25
Alignment explanation
Indices: 16598802--16598868 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
16598792 TGTGCTTTTC
*
16598802 CCCAATGGT-AATTTTTTGAATGTTG
1 CCCAATGGTAAATTTTTTTAATG-TG
* *
16598827 -GCAACGGTAAATTTTTTTAATG-G
1 CCCAATGGTAAATTTTTTTAATGTG
*
16598850 CCCAATGGTAAGTTTTTTT
1 CCCAATGGTAAATTTTTTT
16598869 TCCTACAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 1 0.03
24 21 0.62
25 12 0.35
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (25 bp):
CCCAATGGTAAATTTTTTTAATGTG
Found at i:16598945 original size:27 final size:28
Alignment explanation
Indices: 16598906--16598966 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
16598896 TTTTTTTTCA
*
16598906 CTAAA-CCCCAACCCTCTCAATTGTT-T
1 CTAAATCCCCAACCCTCTCAAGTGTTGT
*
16598932 CTAAATCCTCAACCCTCTCAAGTGTTGGT
1 CTAAATCCCCAACCCTCTCAAGTGTT-GT
16598961 CTAAAT
1 CTAAAT
16598967 TTTCTGATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 5 0.17
27 18 0.60
29 7 0.23
ACGTcount: A:0.28, C:0.33, G:0.08, T:0.31
Consensus pattern (28 bp):
CTAAATCCCCAACCCTCTCAAGTGTTGT
Found at i:16601185 original size:18 final size:18
Alignment explanation
Indices: 16601159--16601193 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16601149 AGATGAAGAC
*
16601159 GAAGTCGAAGGTAGAGAT
1 GAAGACGAAGGTAGAGAT
16601177 GAAGACGAAGGTAGAGA
1 GAAGACGAAGGTAGAGA
16601194 CGAATATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.40, T:0.11
Consensus pattern (18 bp):
GAAGACGAAGGTAGAGAT
Found at i:16607226 original size:24 final size:25
Alignment explanation
Indices: 16607199--16607247 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
16607189 GGTTAATCGG
* * *
16607199 AGTTTAAGTGAGA-AAGTAAATCAA
1 AGTTTAACTAAGAGAAGAAAATCAA
16607223 AGTTTAACTAAGAGAAGAAAATCAA
1 AGTTTAACTAAGAGAAGAAAATCAA
16607248 GAACCTTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.22
Consensus pattern (25 bp):
AGTTTAACTAAGAGAAGAAAATCAA
Found at i:16618725 original size:10 final size:10
Alignment explanation
Indices: 16618712--16618742 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16618702 GCTTAAGGTT
16618712 AGTTTAATTA
1 AGTTTAATTA
16618722 AGTTTAATTA
1 AGTTTAATTA
*
16618732 AGATTAATTA
1 AGTTTAATTA
16618742 A
1 A
16618743 AAGTTAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (10 bp):
AGTTTAATTA
Found at i:16623105 original size:29 final size:27
Alignment explanation
Indices: 16623043--16623106 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
16623033 CATGTGTCAT
16623043 TTTTATAACTACATTAATCAAAAAAAA
1 TTTTATAACTACATTAATCAAAAAAAA
* * *
16623070 TTATATAACTTACTAATTAAT-TAAAAATA
1 TTTTATAAC-TAC--ATTAATCAAAAAAAA
16623099 TTTTATAA
1 TTTTATAA
16623107 ATATAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 8 0.27
28 3 0.10
29 13 0.43
30 6 0.20
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.41
Consensus pattern (27 bp):
TTTTATAACTACATTAATCAAAAAAAA
Found at i:16623707 original size:244 final size:245
Alignment explanation
Indices: 16623396--16623857 Score: 657
Period size: 244 Copynumber: 1.9 Consensus size: 245
16623386 ATGGTATTGT
*
16623396 AAAATATTTAAAAAACAGATATTTAAGTACGGTTAAGGGATTGACAAGTGTCTTATAGGGGTATG
1 AAAATATTTAAAAAACAGATATTTAAGCACGGTTAAGGGATTGACAAGTGTCTTATAGGGGTATG
*
16623461 ATAAACTATTGAAAAATAGATA-TTTAAAAAAGTAGAGACAAATGTCATTTTTTTAATGTTGCTT
66 ATAAACTATTG-AAAATAGATATTTTAAAAAAATAGAGACAAATGTCATTTTTTTAATGTTGCTT
** *
16623525 ATGAAATG-AAAAAATATATTG-CAAATACTCACCCATATAGGGAAAATATTTGGTACACTGTCA
130 ATGAAATGAAAAAAATATATTGTCAAATACTCACCCATATAGAAAAAATATTTGGTACACTATCA
*
16623588 GTGGAATTTTTAGACTTCAAAAGTAGAGTTAATAGTCTATAAGGGTATAAC
195 GTGAAATTTTTAGACTTCAAAAGTAGAGTTAATAGTCTATAAGGGTATAAC
* * **
16623639 AAAATATTTATAAAAAGTAGATATTTAAGCAGGGTT-AGGGATTTTCCAAGTGTGC-T-TAGGGG
1 AAAATATTTA-AAAAA-CAGATATTTAAGCACGGTTAAGGGA-TTGACAAGTGT-CTTATAGGGG
*
16623701 TATGATAAACTATTGAAAATAGATATTTTAAAAAAATTGAGACAAATGTCATTTTTTTAATGTTG
62 TATGATAAACTATTGAAAATAGATATTTTAAAAAAATAGAGACAAATGTCATTTTTTTAATGTTG
*
16623766 CTTGTGAAATGAAAAAAATATATTGTCAATTTACCAAATACTCACCCATATAGAAAAAATATTTG
127 CTTATGAAATGAAAAAAATATATTG------T--CAAATACTCACCCATATAGAAAAAATATTTG
16623831 GTACACTATCAGTGAAATTTTTAGACT
184 GTACACTATCAGTGAAATTTTTAGACT
16623858 CTACAAGCAG
Statistics
Matches: 192, Mismatches: 12, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
243 20 0.10
244 78 0.41
245 39 0.20
246 1 0.01
254 54 0.28
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (245 bp):
AAAATATTTAAAAAACAGATATTTAAGCACGGTTAAGGGATTGACAAGTGTCTTATAGGGGTATG
ATAAACTATTGAAAATAGATATTTTAAAAAAATAGAGACAAATGTCATTTTTTTAATGTTGCTTA
TGAAATGAAAAAAATATATTGTCAAATACTCACCCATATAGAAAAAATATTTGGTACACTATCAG
TGAAATTTTTAGACTTCAAAAGTAGAGTTAATAGTCTATAAGGGTATAAC
Found at i:16630845 original size:16 final size:16
Alignment explanation
Indices: 16630821--16630851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16630811 TCGGGCTATA
16630821 ACTAAGCATGTCAAAC
1 ACTAAGCATGTCAAAC
*
16630837 ACTATGCATGTCAAA
1 ACTAAGCATGTCAAA
16630852 AATAGCATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (16 bp):
ACTAAGCATGTCAAAC
Found at i:16633159 original size:90 final size:90
Alignment explanation
Indices: 16633048--16633328 Score: 501
Period size: 90 Copynumber: 3.1 Consensus size: 90
16633038 AAAAATAATA
* *
16633048 AAATT-ATAAATTAATTTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
1 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
16633112 ATTTCTTCAATAATAATGGAATTTT
66 ATTTCTTCAATAATAATGGAATTTT
16633137 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
1 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
* * *
16633202 ATTTCATCAATAATCATGGAATTCT
66 ATTTCTTCAATAATAATGGAATTTT
*
16633227 AAATTCATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
1 AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
16633292 ATTTCTTCAATAATAATGGAATTTT
66 ATTTCTTCAATAATAATGGAATTTT
16633317 AAATTAATACAT
1 AAATTAATACAT
16633329 GATAAAATTA
Statistics
Matches: 181, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 5 0.03
90 176 0.97
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (90 bp):
AAATTAATACATTAATCTATAGTAAAATTATACTTTGATCCCCTAAATAAGAAAAATTATATTTA
ATTTCTTCAATAATAATGGAATTTT
Found at i:16639449 original size:33 final size:34
Alignment explanation
Indices: 16639391--16639458 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
16639381 TTACAATTCA
* *
16639391 AATTAGTTTTTTTTCATTGTCTTTATTTTTTATT
1 AATTAGTTTTTTTTCATTGTCTTTATATTTAATT
*
16639425 AATTAGTTTTTTATTC-TT-TTTTTATATTTAATT
1 AATTAGTTTTTT-TTCATTGTCTTTATATTTAATT
16639458 A
1 A
16639459 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 13 0.43
34 14 0.47
35 3 0.10
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (34 bp):
AATTAGTTTTTTTTCATTGTCTTTATATTTAATT
Found at i:16639455 original size:29 final size:28
Alignment explanation
Indices: 16639410--16639465 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
16639400 TTTTTCATTG
*
16639410 TCTTTATTTTTTATTAATTAGTTTTTTAT
1 TCTTTATTTTATATTAATTA-TTTTTTAT
16639439 TCTTT-TTTTATATTTAATTATTTTTTA
1 TCTTTATTTTATA-TTAATTATTTTTTA
16639466 AAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (28 bp):
TCTTTATTTTATATTAATTATTTTTTAT
Found at i:16639487 original size:27 final size:27
Alignment explanation
Indices: 16639457--16639513 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
16639447 TATATTTAAT
* *
16639457 TATTTTTTAAAAAAATATATGTATATA
1 TATTTTTCAAAAAAATATATGTATACA
* * *
16639484 TATTTTTCATATATATATATGTATACA
1 TATTTTTCAAAAAAATATATGTATACA
16639511 TAT
1 TAT
16639514 AAATATTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (27 bp):
TATTTTTCAAAAAAATATATGTATACA
Found at i:16639816 original size:9 final size:8
Alignment explanation
Indices: 16639800--16639838 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
16639790 GGATTATTGT
16639800 TTTTTTTA
1 TTTTTTTA
16639808 TTTTGTTTA
1 TTTT-TTTA
*
16639817 TTTATTTA
1 TTTTTTTA
16639825 TTTTTATTA
1 TTTTT-TTA
16639834 TTTTT
1 TTTTT
16639839 ATGCCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:16640265 original size:98 final size:98
Alignment explanation
Indices: 16640154--16640350 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
16640144 TTAAAAATAA
* * * *
16640154 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTTATTTC
1 TAAAGGAAATATTCCAAGTTTGAGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
16640219 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
*
16640252 TAAAGGAAGTATTCCAAGTTTGAGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGAGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
16640317 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
16640350 T
1 T
16640351 TTTATCGCAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGAGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
Found at i:16652117 original size:44 final size:44
Alignment explanation
Indices: 16652068--16652252 Score: 128
Period size: 44 Copynumber: 4.2 Consensus size: 44
16652058 AAGGTTATAG
16652068 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
** * ** ****
16652112 ATCTTATCT-TTTCAAG-A-TAATAGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCT-AAGCAGTAGT-GG-AGCAGATCGAAGACGGTGA
* * * * * * * * *
16652155 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATGGT-A
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
16652199 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
16652244 ATCTTATCT
1 ATCTTATCT
16652253 TTCCAAGATA
Statistics
Matches: 98, Mismatches: 33, Indels: 20
0.65 0.22 0.13
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 81 0.83
45 6 0.06
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA
Found at i:16652250 original size:132 final size:132
Alignment explanation
Indices: 16651706--16653248 Score: 2349
Period size: 132 Copynumber: 11.8 Consensus size: 132
16651696 CTGAAGTTAC
* *
16651706 AGTGGAGCATATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
16651771 CAAGCCTTGTCTCCTTGAGTAGCAGCGGAGAAGGTTGAAGATTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16651836 GT
131 GT
16651838 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
16651903 CAAACCTTGTCTCTCTGAGCAGCAACGGA-AA--A-G--G-TTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16651961 GT
131 GT
16651963 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
16652028 CAAACCTTGTCTCTCTGAGCAGCAACGGA-AA--A-G--G-TTATAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16652086 GT
131 GT
* * * *
16652088 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTTCAAGATAATAGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
16652153 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATGGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16652218 GT
131 GT
* *
16652220 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAGGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
** *
16652285 CAAGCCTTGTCTCATTGAGCAGCAGCGGAGAAGGAAGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
*
16652350 AT
131 GT
* * * * * ** *
16652352 AGTAGAGGAGATCGAAGACGGTGAATCTTATCTTTCTACGATAGTAAGAAGCAGATTTAGGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
16652417 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGACGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16652482 GT
131 GT
* * *
16652484 AGGGGAGCAGATCGAACACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAGGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
16652549 CAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGAAGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16652614 GT
131 GT
* *
16652616 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAGGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * **
16652681 CAAGCCTTGTCTCCTTGAGCAACAGCGGAGAAGGAAAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16652746 GT
131 GT
* *
16652748 AGGGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAGGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
16652813 CAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGAAGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16652878 GT
131 GT
* *
16652880 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAGGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * **
16652945 CAAGCCTTGTCTCCTTGAGCAACAGCGGAGAAGGAAAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
*
16653010 AT
131 GT
* * * *
16653012 AGGGGAGCAGATTGAAGACGGCGAATCTTATCTTTCCAATATAGTGGGAAGTAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
16653077 CAAGCCTTGTCTCCCTGAGCAGCAGCGGGGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
16653142 GT
131 GT
* * * *
16653144 AGTGGAGCAGATAGAAGACGGCGAATTTTATCTTTCTAAGATAGTGGGAAGCAGATTAAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
16653209 CAAGCCTTGTCTCCTTGAGCAGCAACGGAGAAGGTTGAAG
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAG
16653249 CTACAAGTCT
Statistics
Matches: 1311, Mismatches: 93, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
125 238 0.18
126 3 0.00
128 1 0.00
129 1 0.00
131 3 0.00
132 1065 0.81
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGATGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:16653549 original size:17 final size:17
Alignment explanation
Indices: 16653508--16653552 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
16653498 GCCGAAACCT
16653508 ATGTGGCCCAAACCCAA
1 ATGTGGCCCAAACCCAA
* *
16653525 CTGAGGCCCAAA-CCAA
1 ATGTGGCCCAAACCCAA
16653541 ATAGTGGCCCAA
1 AT-GTGGCCCAA
16653553 GACTGATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.36, C:0.33, G:0.20, T:0.11
Consensus pattern (17 bp):
ATGTGGCCCAAACCCAA
Found at i:16654715 original size:34 final size:34
Alignment explanation
Indices: 16654656--16654724 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
16654646 TTACAATTCA
* *
16654656 AATTAGTTTTTTTTCATTGTCTTTATTTTTTATT
1 AATTAGTTTTTTTTCATTGTCTTTATATTTAATT
*
16654690 AATTAGTTTTTTTATTC-TT-TTTTTATATTTAATT
1 AATTAG-TTTTTT-TTCATTGTCTTTATATTTAATT
16654724 A
1 A
16654725 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 19 0.63
35 8 0.27
36 3 0.10
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (34 bp):
AATTAGTTTTTTTTCATTGTCTTTATATTTAATT
Found at i:16654722 original size:30 final size:33
Alignment explanation
Indices: 16654656--16654729 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 33
16654646 TTACAATTCA
*
16654656 AATTAGTTTTTTTTCATTGTCTTTATTTTTTATT
1 AATTAG-TTTTTTTCATTGTCTTTATTTTATATT
16654690 AATTAGTTTTTTT-A-T-TCTTT-TTTTATATTT
1 AATTAGTTTTTTTCATTGTCTTTATTTTATA-TT
16654720 AATTA-TTTTT
1 AATTAGTTTTT
16654730 AAAAAAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 11 0.29
30 12 0.32
31 1 0.03
32 1 0.03
33 7 0.18
34 6 0.16
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (33 bp):
AATTAGTTTTTTTCATTGTCTTTATTTTATATT
Found at i:16655531 original size:98 final size:98
Alignment explanation
Indices: 16655420--16655616 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 98
16655410 TTAAAAATAA
* * * *
16655420 TAAAGGAAATATTCAGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGAAATTTC
1 TAAAGGAAATATTCAGAGTTTGAGATTTTAAAAGAATCGTGCCCTAACATATTGGGTGAAATTTC
16655485 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
* * **
16655518 TAAAGGAAGTATTCCGAGTTTGAGATTTTAAAAGAATCGTGCCCTAACATATTGGGTGTGATTTC
1 TAAAGGAAATATTCAGAGTTTGAGATTTTAAAAGAATCGTGCCCTAACATATTGGGTGAAATTTC
*
16655583 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
16655616 T
1 T
16655617 TTTATCGCAC
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.36
Consensus pattern (98 bp):
TAAAGGAAATATTCAGAGTTTGAGATTTTAAAAGAATCGTGCCCTAACATATTGGGTGAAATTTC
TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
Found at i:16656963 original size:22 final size:22
Alignment explanation
Indices: 16656936--16656982 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
16656926 CTCTCTAATC
16656936 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
16656958 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
16656980 CTC
1 CTC
16656983 CCAAACTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:16657069 original size:29 final size:32
Alignment explanation
Indices: 16657032--16657095 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
16657022 CTCAAATCCA
*
16657032 TTTTTTAAACTAA-TTAT-AATTTTT-TATAT
1 TTTTTTAAAATAATTTATAAATTTTTCTATAT
*
16657061 TTTTTTAAAATAATTTTTAAATTTTTCTATAT
1 TTTTTTAAAATAATTTATAAATTTTTCTATAT
16657093 TTT
1 TTT
16657096 CATCAATGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 12 0.40
30 3 0.10
31 7 0.23
32 8 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (32 bp):
TTTTTTAAAATAATTTATAAATTTTTCTATAT
Found at i:16657086 original size:30 final size:29
Alignment explanation
Indices: 16657032--16657095 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
16657022 CTCAAATCCA
* *
16657032 TTTTTTAAACTAATTATAATTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTATAT
* *
16657061 TTTTTTAAAATAATTTTTAAATTTTTCTAT
1 TTTTTTAAAATAA-TTATAAATTTTTATAT
*
16657091 ATTTT
1 TTTTT
16657096 CATCAATGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTTTAAAATAATTATAAATTTTTATAT
Found at i:16658187 original size:7 final size:7
Alignment explanation
Indices: 16658175--16658199 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16658165 AGTCGATTGA
16658175 TATTTAG
1 TATTTAG
16658182 TATTTAG
1 TATTTAG
16658189 TATTTAG
1 TATTTAG
16658196 TATT
1 TATT
16658200 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:16658877 original size:18 final size:18
Alignment explanation
Indices: 16658851--16658885 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16658841 AGGTGTGTTT
* *
16658851 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
16658869 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
16658886 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:16659177 original size:24 final size:24
Alignment explanation
Indices: 16659144--16659199 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
16659134 ATGCGGAACC
16659144 GGAAGAACCACAACCACCACCAGA
1 GGAAGAACCACAACCACCACCAGA
* *
16659168 GGAAGGACCACAATCACCACCAGA
1 GGAAGAACCACAACCACCACCAGA
16659192 GGAAGAAC
1 GGAAGAAC
16659200 AACCGCCGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.45, C:0.32, G:0.21, T:0.02
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCAGA
Found at i:16659467 original size:28 final size:28
Alignment explanation
Indices: 16659436--16660162 Score: 974
Period size: 28 Copynumber: 25.4 Consensus size: 28
16659426 TAACCTGACC
*
16659436 CTAACGTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
16659464 CTAACCTAAATTAAATT-AAAACCCTAACT
1 CTAACCTAAATT-AATTAAAAACCCTAA-T
16659493 CTAACCTAAATTAAATT-AAAACCCTAACT
1 CTAACCTAAATT-AATTAAAAACCCTAA-T
*
16659522 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16659550 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
16659578 CTAACCTAAATTAAATT-AAAACCCTAACT
1 CTAACCTAAATT-AATTAAAAACCCTAA-T
*
16659607 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * * *
16659635 CTAACTTAAATAAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16659664 CTAACATAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16659692 CTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * * *
16659720 CTAACCTAAATTAATTTATAACCATAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
*
16659749 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16659777 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
16659806 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16659834 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16659862 CTAGCCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
16659890 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
*
16659919 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16659947 CTAACCTAAATTAACTAAAAACCCTAACCT
1 CTAACCTAAATTAATTAAAAACCCTAA--T
16659977 AACCCTAACCTAAATTAATTAAAAACCCTAAT
1 ----CTAACCTAAATTAATTAAAAACCCTAAT
*
16660009 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
16660037 CTAACTTAAATTAATTCAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
*
16660066 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
16660094 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
16660123 CTAACCTAAATTAATTAAAAACCCAAAA
1 CTAACCTAAATTAATTAAAAACCCTAAT
16660151 CTAACCTAAATT
1 CTAACCTAAATT
16660163 TTTTTGGCTT
Statistics
Matches: 628, Mismatches: 53, Indels: 36
0.88 0.07 0.05
Matches are distributed among these distances:
28 370 0.59
29 230 0.37
30 1 0.00
32 1 0.00
34 26 0.04
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (28 bp):
CTAACCTAAATTAATTAAAAACCCTAAT
Found at i:16659504 original size:57 final size:56
Alignment explanation
Indices: 16659436--16660162 Score: 910
Period size: 57 Copynumber: 12.7 Consensus size: 56
16659426 TAACCTGACC
*
16659436 CTAACGTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATTAAAACCCTAACT
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATTAAAACCCTAA-T
* *
16659493 CTAACCTAAATTAAATT-AAAACCCTAACTCTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATT-AATTAAAAACCCTAA-TCTAACCTAAATTAAATTAAAACCCTAAT
*
16659550 CTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAAATTAAAACCCTAACT
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATTAAAACCCTAA-T
* * * *
16659607 CTAACCTAAATTAATTAAAAAACCTAATCTAACTTAAA-TAAACTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAA-TTAAAACCCT-AAT
* * *
16659664 CTAACATAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATTAAAACCCTAAT
* * * * * *
16659720 CTAACCTAAATTAATTTATAACCATAAACCTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAAATTAAAACCCTAAT
* *
16659777 CTAACCTAAATTAATTTAAAACCCTAACCCTAACCTAAATT-AATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAA-TCTAACCTAAATTAAATT-AAAACCCTAAT
* * *
16659834 CTAACCTAAATTAACTAAAAACCCTAATCTAGCCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATTAAAACCCTAAT
* * *
16659890 CTAACCTAAATTAATTTAAAACCCTAACCCTAACCTAAATT-AATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAA-TCTAACCTAAATTAAATT-AAAACCCTAAT
*
16659947 CTAACCTAAATTAACTAAAAACCCTAACCTAACCCTAACCTAAATT-AATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAA--T----CTAACCTAAATTAAATT-AAAACCCTAAT
* * *
16660009 CTAACCTAAATTAACTAAAAACCCTAATCTAACTTAAATT-AATTCAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATT-AAAACCCTAA-T
* *
16660066 CTAACCTAAATTAATTAAAAAACCTAATCTAACCTAAATT-AATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATT-AAAACCCT-AAT
* *
16660123 CTAACCTAAATTAATTAAAAACCCAAAACTAACCTAAATT
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATT
16660163 TTTTTGGCTT
Statistics
Matches: 595, Mismatches: 55, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
56 134 0.23
57 368 0.62
58 38 0.06
60 1 0.00
62 54 0.09
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (56 bp):
CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATTAAAACCCTAAT
Found at i:16659616 original size:85 final size:84
Alignment explanation
Indices: 16659436--16660162 Score: 970
Period size: 85 Copynumber: 8.5 Consensus size: 84
16659426 TAACCTGACC
*
16659436 CTAACGTAAATTAATTAAAAACCCTAATCTAACCTAAATTAAATT-AAAACCCTAACTCTAACCT
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATT-AATTAAAAACCCTAA-TCTAACCT
*
16659500 AAATTAAATTAAAACCCTAACT
64 AAATTAAATAAAAACCCTAA-T
* *
16659522 CTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAA
*
16659587 ATTAAATTAAAACCCTAACT
66 ATTAAATAAAAACCCTAA-T
* * * * * *
16659607 CTAACCTAAATTAATTAAAAAACCTAATCTAACTTAAATAAACTAAAAACCCTAAACCTAACATA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTA
*
16659672 AATTAACTAAAAACCCTAAT
65 AATTAAATAAAAACCCTAAT
* * * * *
16659692 CTAACCTAAATTAATTTAAAACCCTAATCTAACCTAAATTAATTTATAACCATAAACCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTA
*
16659757 AATTAACTAAAAACCCTAAT
65 AATTAAATAAAAACCCTAAT
* *
16659777 CTAACCTAAATTAATTTAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAA-TCTAACCTAAATTAATTAAAAACCCTAATCTAACCTA
*
16659842 AATTAACTAAAAACCCTAAT
65 AATTAAATAAAAACCCTAAT
* * * *
16659862 CTAGCCTAAATTAATTTAAAACCCTAATCTAACCTAAATTAATTTAAAACCCTAACCCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAA-TCTAACCTA
* *
16659927 AATTAATTAAAAAACCTAAT
65 AATTAAATAAAAACCCTAAT
*
16659947 CTAACCTAAATTAACTAAAAACCCTAACCTAACCCTAACCTAAATTAATTAAAAACCCTAATCTA
1 CTAACCTAAATTAATTAAAAACCCTAA--T----CTAACCTAAATTAATTAAAAACCCTAATCTA
*
16660012 ACCTAAATTAACTAAAAACCCTAAT
60 ACCTAAATTAAATAAAAACCCTAAT
* * * *
16660037 CTAACTTAAATTAATTCAAAACCCTAACCCTAACCTAAATTAATTAAAAAACCTAATCTAACCTA
1 CTAACCTAAATTAATTAAAAACCCTAA-TCTAACCTAAATTAATTAAAAACCCTAATCTAACCTA
* *
16660102 AATTAATTAAAAACCCTAAAC
65 AATTAAATAAAAACCCT-AAT
* *
16660123 CTAACCTAAATTAATTAAAAACCCAAAACTAACCTAAATT
1 CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATT
16660163 TTTTTGGCTT
Statistics
Matches: 581, Mismatches: 49, Indels: 23
0.89 0.08 0.04
Matches are distributed among these distances:
84 26 0.04
85 355 0.61
86 122 0.21
87 1 0.00
89 1 0.00
90 50 0.09
91 26 0.04
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (84 bp):
CTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAA
ATTAAATAAAAACCCTAAT
Found at i:16660216 original size:25 final size:26
Alignment explanation
Indices: 16660160--16660216 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
16660150 ACTAACCTAA
*
16660160 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGCTTAATAATTCTACAT
16660186 ATTTTTTTGGCTTAATAATTCTACAT
1 ATTTTTTTGGCTTAATAATTCTACAT
16660212 ATTTT
1 ATTTT
16660217 GAACACTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.58
Consensus pattern (26 bp):
ATTTTTTTGGCTTAATAATTCTACAT
Found at i:16660327 original size:10 final size:10
Alignment explanation
Indices: 16660312--16660336 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16660302 TTTTGGCTTA
16660312 ATAATTTTAC
1 ATAATTTTAC
16660322 ATAATTTTAC
1 ATAATTTTAC
16660332 ATAAT
1 ATAAT
16660337 GTTAGATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:16664423 original size:12 final size:10
Alignment explanation
Indices: 16664393--16664417 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16664383 AAGTTTTTCA
16664393 TTTTTTTATT
1 TTTTTTTATT
16664403 TTTTTTTATT
1 TTTTTTTATT
16664413 TTTTT
1 TTTTT
16664418 GCTTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:16668915 original size:13 final size:13
Alignment explanation
Indices: 16668897--16668933 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16668887 CCAACCCAGC
*
16668897 CCAAACTCAATTA
1 CCAAACCCAATTA
16668910 CCAAACCCAATTA
1 CCAAACCCAATTA
*
16668923 CCCAACCCAAT
1 CCAAACCCAAT
16668934 AAAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (13 bp):
CCAAACCCAATTA
Found at i:16669093 original size:9 final size:9
Alignment explanation
Indices: 16669081--16669133 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
16669071 AAAAATTTTA
16669081 GGTAATTCG
1 GGTAATTCG
*
16669090 GGTATTTTTC-
1 GGTA--ATTCG
16669100 GGTAATTCG
1 GGTAATTCG
* *
16669109 GTTAATTCA
1 GGTAATTCG
16669118 GGTAATTCG
1 GGTAATTCG
16669127 GGTAATT
1 GGTAATT
16669134 TTTAAACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 3 0.09
9 25 0.71
10 4 0.11
11 3 0.09
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (9 bp):
GGTAATTCG
Found at i:16676980 original size:28 final size:27
Alignment explanation
Indices: 16676927--16676984 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
16676917 AAGCTCAATC
*
16676927 AATTTTTTTTCATTTTTTTTTATTTTT
1 AATTTTTTTTCATTTTTTTGTATTTTT
*
16676954 AATTTTTTTCTCATTTTTTCTGTTTTTTT
1 AATTTTTTT-TCATTTTTT-TGTATTTTT
16676983 AA
1 AA
16676985 GAGCAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 9 0.33
28 9 0.33
29 9 0.33
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (27 bp):
AATTTTTTTTCATTTTTTTGTATTTTT
Done.