Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 105 of 218
Found at i:30459551 original size:23 final size:22
Alignment explanation
Indices: 30459500--30459565 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
30459490 TCTTTTAAAT
*
30459500 AGAAATTTGAGAGGAATTTGAG
1 AGAAATTTGAGAAGAATTTGAG
*
30459522 AGGAATTTGA-AAGAATATTAGAG
1 AGAAATTTGAGAAGAAT-TT-GAG
*
30459545 AGAAATTGAGAGAAAGAATTT
1 AGAAATT-TGAG-AAGAATTT
30459566 AGTTGTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 5 0.14
22 11 0.31
23 9 0.26
24 2 0.06
25 2 0.06
26 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.26
Consensus pattern (22 bp):
AGAAATTTGAGAAGAATTTGAG
Found at i:30460821 original size:23 final size:23
Alignment explanation
Indices: 30460790--30460845 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
30460780 AAAAAATTAA
*
30460790 AATTTGAGTTAATT-GAATCAAGT
1 AATTCGAGTTAATTCGAAT-AAGT
* *
30460813 TATTCGAGTTGATTCGAATAAGT
1 AATTCGAGTTAATTCGAATAAGT
30460836 AATTCGAGTT
1 AATTCGAGTT
30460846 TCGAGTTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (23 bp):
AATTCGAGTTAATTCGAATAAGT
Found at i:30481726 original size:21 final size:19
Alignment explanation
Indices: 30481706--30481764 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
30481696 TTTAAATAAT
30481706 TATAATTAGAATGAAATTAA
1 TATAATTAGAAT-AAATTAA
* *
30481726 TATAAAGTATAATCAAATTAA
1 TAT-AATTAGAAT-AAATTAA
*
30481747 TATATATTTGAATAAATT
1 TATA-ATTAGAATAAATT
30481765 TAAAATATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (19 bp):
TATAATTAGAATAAATTAA
Found at i:30482485 original size:15 final size:15
Alignment explanation
Indices: 30482465--30482495 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30482455 CTATCATCTT
30482465 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
30482480 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
30482495 T
1 T
30482496 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:30482529 original size:20 final size:20
Alignment explanation
Indices: 30482504--30482545 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30482494 CTTACAACGG
*
30482504 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
30482524 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
30482544 TA
1 TA
30482546 ACTCTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:30485946 original size:18 final size:18
Alignment explanation
Indices: 30485913--30485947 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30485903 ACCAGCAGAT
* *
30485913 GGCATACTGACTTGTTGG
1 GGCATACTAACCTGTTGG
30485931 GGCATACTAACCTGTTG
1 GGCATACTAACCTGTTG
30485948 TGGAGAGCTA
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:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
GGCATACTAACCTGTTGG
Found at i:30487203 original size:15 final size:15
Alignment explanation
Indices: 30487183--30487213 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30487173 CTATCATCTT
30487183 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
30487198 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
30487213 T
1 T
30487214 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:30487247 original size:20 final size:20
Alignment explanation
Indices: 30487222--30487263 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
30487212 CTTACAACGG
*
30487222 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
30487242 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
30487262 TA
1 TA
30487264 ACTCTAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:30492122 original size:44 final size:44
Alignment explanation
Indices: 30492026--30492267 Score: 194
Period size: 43 Copynumber: 5.6 Consensus size: 44
30492016 ATTACATGAT
* * * ** *
30492026 TTCGTATAAGACCATAACTGGGCTA-TGAAATTGATATATGTGA
1 TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
** * *
30492069 CTTTTTGTAAGACCATATCTGGGATA-TGACATCGATATATGCGA
1 -TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
30492113 TTACGTGTAAGACCATGTCTAGGACATTGGCATCG-T-TATGTGA
1 TT-CGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
30492156 TTTCGTGTAAGACCATGTTTGGGACATTGGCATCGATATA--TGA
1 -TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
30492199 TTCGTGTAAGACCATAGCTGGGCTATTGGCATCG--ATATGTAA
1 TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
* * *
30492241 TAACATGTAAGACCATATTTGGGATAT
1 T-TCGTGTAAGACCATATCTGGGATAT
30492268 AGCATTGTAT
Statistics
Matches: 162, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
40 3 0.02
42 32 0.20
43 61 0.38
44 57 0.35
45 9 0.06
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.33
Consensus pattern (44 bp):
TTCGTGTAAGACCATATCTGGGATATTGGCATCGATATATGTGA
Found at i:30492227 original size:42 final size:43
Alignment explanation
Indices: 30492021--30492236 Score: 169
Period size: 44 Copynumber: 5.0 Consensus size: 43
30492011 ATGGCATTAC
* * ** *
30492021 ATGATTTCGTATAAGACCATAACTGGGCTA-TGAAATTGATAT
1 ATGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
* * * *
30492063 ATGTGACTTT-TTGTAAGACCATATCTGGGATA-TGACATCGATAT
1 A--TGA-TTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
* * *
30492107 ATGCGATTACGTGTAAGACCAT-GTCTAGGAC-ATTGGCATCGTTAT
1 AT--GATTTCGTGTAAGACCATAG-CT-GGGCTATTGGCATCGATAT
* *
30492152 GTGATTTCGTGTAAGACCAT-GTTTGGGAC-ATTGGCATCGATAT
1 ATGATTTCGTGTAAGACCATAG-CTGGG-CTATTGGCATCGATAT
30492195 ATGA-TTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
1 ATGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
30492237 GTAATAACAT
Statistics
Matches: 142, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
41 1 0.01
42 37 0.26
43 40 0.28
44 48 0.34
45 16 0.11
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAT
Found at i:30492232 original size:85 final size:84
Alignment explanation
Indices: 30492021--30492264 Score: 226
Period size: 85 Copynumber: 2.8 Consensus size: 84
30492011 ATGGCATTAC
* * ** * *
30492021 ATGATTTCGTATAAGACCATAACTGGGCTA-TGAAATTGATATATGTGACTTT-TTGTAAGACCA
1 ATGA-TTCGTGTAAGACCATAGCTGGGCTATTGGCATCG-T-TATGTGA-TTTCATGTAAGACCA
* *
30492084 TATCTGGGATATGACATCGATAT
62 TATTTGGGACATGACATCGATAT
* *
30492107 ATGCGATTACGTGTAAGACCAT-GTCTAGGAC-ATTGGCATCGTTATGTGATTTCGTGTAAGACC
1 AT--GATT-CGTGTAAGACCATAG-CT-GGGCTATTGGCATCGTTATGTGATTTCATGTAAGACC
* *
30492170 ATGTTTGGGACATTGGCATCGATAT
61 ATATTTGGGACA-TGACATCGATAT
* * **
30492195 ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGTAATAACATGTAAGACCATATT
1 ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGTTATGTGATTTCATGTAAGACCATATT
30492260 TGGGA
66 TGGGA
30492265 TATAGCATTG
Statistics
Matches: 130, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
84 3 0.02
85 51 0.39
86 10 0.08
87 27 0.21
88 31 0.24
89 8 0.06
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (84 bp):
ATGATTCGTGTAAGACCATAGCTGGGCTATTGGCATCGTTATGTGATTTCATGTAAGACCATATT
TGGGACATGACATCGATAT
Found at i:30502301 original size:19 final size:20
Alignment explanation
Indices: 30502250--30502305 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
30502240 CAAGACACTA
30502250 ACCCAAACCTCAGCCC-AAT
1 ACCCAAACCTCAGCCCAAAT
* * *
30502269 AACC-TACCTGAGCCCAAAT
1 ACCCAAACCTCAGCCCAAAT
30502288 ACCCAAACCT-AGCCCAAA
1 ACCCAAACCTCAGCCCAAA
30502306 ACACCCCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 17 0.57
20 4 0.13
ACGTcount: A:0.39, C:0.43, G:0.07, T:0.11
Consensus pattern (20 bp):
ACCCAAACCTCAGCCCAAAT
Found at i:30502311 original size:20 final size:20
Alignment explanation
Indices: 30502274--30502316 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
30502264 CCAATAACCT
*
30502274 ACCTGAGCCCAAATACCCAA
1 ACCTGAGCCCAAACACCCAA
*
30502294 ACCT-AGCCCAAAACACCCCA
1 ACCTGAGCCC-AAACACCCAA
30502314 ACC
1 ACC
30502317 CATCTTCAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.40, C:0.47, G:0.07, T:0.07
Consensus pattern (20 bp):
ACCTGAGCCCAAACACCCAA
Found at i:30503360 original size:9 final size:9
Alignment explanation
Indices: 30503348--30503372 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30503338 TAATAAATTA
30503348 TTATTATTG
1 TTATTATTG
30503357 TTATTATTG
1 TTATTATTG
30503366 TTATTAT
1 TTATTAT
30503373 CTTTTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:30506043 original size:14 final size:15
Alignment explanation
Indices: 30506024--30506052 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30506014 TAAAAATTAG
30506024 AAAAAAATT-TTAAA
1 AAAAAAATTATTAAA
30506038 AAAAAAATTATTAAA
1 AAAAAAATTATTAAA
30506053 TTTTAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAAATTATTAAA
Found at i:30506053 original size:22 final size:22
Alignment explanation
Indices: 30506028--30506069 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30506018 AATTAGAAAA
30506028 AAATTTTAAAAAAAAAATTATT
1 AAATTTTAAAAAAAAAATTATT
*
30506050 AAATTTTAATAAAAAAATTA
1 AAATTTTAAAAAAAAAATTA
30506070 AATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATTTTAAAAAAAAAATTATT
Found at i:30506077 original size:18 final size:19
Alignment explanation
Indices: 30506028--30506082 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
30506018 AATTAGAAAA
*
30506028 AAATTTTAAAAAAAAAATTATT
1 AAATTTT-AATAAAAAA--ATT
30506050 AAATTTTAATAAAAAAATT
1 AAATTTTAATAAAAAAATT
30506069 AAA-TTTAATAAAAA
1 AAATTTTAATAAAAA
30506083 TTAGAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 11 0.34
19 6 0.19
21 8 0.25
22 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTTTAATAAAAAAATT
Found at i:30506146 original size:19 final size:19
Alignment explanation
Indices: 30506040--30506147 Score: 60
Period size: 19 Copynumber: 5.7 Consensus size: 19
30506030 ATTTTAAAAA
*
30506040 AAAAATTATTAAATTTTAAT
1 AAAAATTATAAAATTTT-AT
* * *
30506060 AAAAA-AATTAAATTTAAT
1 AAAAATTATAAAATTTTAT
* **
30506078 AAAAATTAGAATTTTTTAT
1 AAAAATTATAAAATTTTAT
***
30506097 AAAAATCGTA-AAAAAAATA-
1 AAAAAT--TATAAAATTTTAT
*
30506116 AAAAATTGTAAAATTTTAT
1 AAAAATTATAAAATTTTAT
*
30506135 AAAAATCATAAAA
1 AAAAATTATAAAA
30506148 AATTAACGAC
Statistics
Matches: 64, Mismatches: 19, Indels: 11
0.68 0.20 0.12
Matches are distributed among these distances:
17 1 0.02
18 13 0.20
19 39 0.61
20 9 0.14
21 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAAATTATAAAATTTTAT
Found at i:30506316 original size:20 final size:19
Alignment explanation
Indices: 30506291--30506355 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
30506281 TATAATAATT
30506291 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTAC-AAA
* **
30506311 TTTAT-ATTTCTTTACATT
1 TTTATAATTTTTTTACAAA
* *
30506329 TTGTATAATTTTCTTACAAC
1 TT-TATAATTTTTTTACAAA
30506349 TTTATAA
1 TTTATAA
30506356 AAACTTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 3 0.08
19 17 0.47
20 16 0.44
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTTTTACAAA
Found at i:30506373 original size:8 final size:8
Alignment explanation
Indices: 30506360--30506404 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
30506350 TTATAAAAAC
30506360 TTATAATT
1 TTATAATT
30506368 TTATAATT
1 TTATAATT
*
30506376 TTTTATATT
1 TTATA-ATT
30506385 TCTATATATT
1 T-TATA-ATT
30506395 TTATAATT
1 TTATAATT
30506403 TT
1 TT
30506405 TTTACAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 17 0.52
9 8 0.24
10 8 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
TTATAATT
Found at i:30506401 original size:27 final size:26
Alignment explanation
Indices: 30506360--30506470 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 26
30506350 TTATAAAAAC
30506360 TTATA-ATTTTATAATTTTTTATATT
1 TTATATATTTTATAATTTTTTATATT
*
30506385 TCTATATATTTTATAATTTTTTTACAATT
1 T-TATATATTTTATAA-TTTTTTA-TATT
30506414 TT-TATATTTT-TACGATTTTTATATATT
1 TTATATATTTTATA--ATTTTT-TATATT
* * *
30506441 TTTTAAATTTT-TAAATTTTTAATATT
1 TTATATATTTTAT-AATTTTTTATATT
30506467 TTAT
1 TTAT
30506471 TAAAATTTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
25 1 0.01
26 14 0.19
27 33 0.46
28 19 0.26
29 5 0.07
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (26 bp):
TTATATATTTTATAATTTTTTATATT
Found at i:30506407 original size:28 final size:27
Alignment explanation
Indices: 30506360--30506470 Score: 97
Period size: 28 Copynumber: 4.1 Consensus size: 27
30506350 TTATAAAAAC
30506360 TTATA-ATTTTATAA-TTTTTTATATT
1 TTATATATTTTATAATTTTTTTATATT
*
30506385 TCTATATATTTTATAATTTTTTTACAATT
1 T-TATATATTTTATAATTTTTTTA-TATT
*
30506414 TT-TATATTTT-TACGATTTTTATATATT
1 TTATATATTTTATA--ATTTTTTTATATT
* * * *
30506441 TTTTAAATTTT-TAAATTTTTAATATT
1 TTATATATTTTATAATTTTTTTATATT
30506467 TTAT
1 TTAT
30506471 TAAAATTTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.01
26 19 0.27
27 22 0.31
28 25 0.35
29 4 0.06
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTATATATTTTATAATTTTTTTATATT
Found at i:30506422 original size:8 final size:8
Alignment explanation
Indices: 30506360--30506468 Score: 56
Period size: 10 Copynumber: 12.1 Consensus size: 8
30506350 TTATAAAAAC
*
30506360 TTATAATT
1 TTATATTT
30506368 TTATAATTTT
1 TTAT-A-TTT
30506378 TTATATTT
1 TTATATTT
30506386 CTATATATTT
1 -T-TATATTT
*
30506396 TATAATTTTT
1 T-T-ATATTT
*
30506406 TTACAATTT
1 TTA-TATTT
30506415 TTATATTT
1 TTATATTT
*
30506423 TTACGATTTT
1 TTA-TA-TTT
30506433 TATATATTTT
1 T-TATA-TTT
*
30506443 TTAAATTT
1 TTATATTT
*
30506451 TTAAATTT
1 TTATATTT
30506459 TTAATATTT
1 TT-ATATTT
30506468 T
1 T
30506469 ATTAAAATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
8 28 0.34
9 23 0.28
10 29 0.35
11 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (8 bp):
TTATATTT
Found at i:30506459 original size:7 final size:8
Alignment explanation
Indices: 30506403--30506468 Score: 60
Period size: 8 Copynumber: 7.5 Consensus size: 8
30506393 TTTTATAATT
30506403 TTTTTACAA
1 TTTTTA-AA
*
30506412 TTTTTATA
1 TTTTTAAA
*
30506420 TTTTTACGA
1 TTTTTA-AA
30506429 TTTTTATATA
1 TTTTTA-A-A
30506439 TTTTTTAAA
1 -TTTTTAAA
30506448 TTTTTAAA
1 TTTTTAAA
30506456 TTTTTAATA
1 TTTTTAA-A
30506465 TTTT
1 TTTT
30506469 ATTAAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
8 22 0.45
9 19 0.39
10 2 0.04
11 6 0.12
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (8 bp):
TTTTTAAA
Found at i:30506522 original size:9 final size:9
Alignment explanation
Indices: 30506360--30506524 Score: 78
Period size: 9 Copynumber: 18.3 Consensus size: 9
30506350 TTATAAAAAC
30506360 TTATAA-TT
1 TTATAATTT
30506368 TTATAATTT
1 TTATAATTT
30506377 TT-TATATTT
1 TTATA-ATTT
*
30506386 CTAT-ATATT
1 TTATAAT-TT
30506395 TTATAATTTTT
1 TTATAA--TTT
*
30506406 TTACAATTT
1 TTATAATTT
30506415 TTAT-ATTT
1 TTATAATTT
**
30506423 TTACGATTT
1 TTATAATTT
30506432 TTATATATTT
1 TTATA-ATTT
30506442 TT-TAAATTT
1 TTAT-AATTT
30506451 TTA-AATTT
1 TTATAATTT
*
30506459 TTAATATTTT
1 TT-ATAATTT
*
30506469 ATTA-AAATT
1 -TTATAATTT
* *
30506478 TAATAATAT
1 TTATAATTT
**
30506487 TTATAGCTT
1 TTATAATTT
*
30506496 TTATTGA-TT
1 TTA-TAATTT
*
30506505 TTAT-TTTT
1 TTATAATTT
30506513 TTATAATTT
1 TTATAATTT
30506522 TTA
1 TTA
30506525 ATAAAAACAG
Statistics
Matches: 118, Mismatches: 21, Indels: 35
0.68 0.12 0.20
Matches are distributed among these distances:
8 33 0.28
9 60 0.51
10 15 0.13
11 9 0.08
12 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:30506682 original size:93 final size:93
Alignment explanation
Indices: 30506533--30506714 Score: 253
Period size: 93 Copynumber: 2.0 Consensus size: 93
30506523 TAATAAAAAC
*
30506533 AGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGGTCTTTTGATGCATTTTGAAAG-CTCAAGT
1 AGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGGTCTTTTGATGCATTTTGAAAGTC-CAAAT
*
30506597 ACCCAATTGAATGCAAAAAAATAAAACAGT
65 ACCCAAATGAATGCAAAAAAA-AAAACAGT
* * * *
30506627 AGGGGCTTAATTG-TTTTTTTTAAAAGGTTTGAGGG-CTTTTTTATGCATTTTGAAAGTCCAAAT
1 AGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGGTC-TTTTGATGCATTTTGAAAGTCCAAAT
*
30506690 ACCCAAATGAGTGCAAAAAAAAAAA
65 ACCCAAATGAATGCAAAAAAAAAAA
30506715 GAGCATAATT
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
92 5 0.06
93 60 0.76
94 14 0.18
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (93 bp):
AGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGGTCTTTTGATGCATTTTGAAAGTCCAAATA
CCCAAATGAATGCAAAAAAAAAAACAGT
Found at i:30506876 original size:12 final size:12
Alignment explanation
Indices: 30506853--30506884 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
30506843 ATGAAATGAA
30506853 ATTATCATTTACC
1 ATTAT-ATTTACC
30506866 ATTATATTTACC
1 ATTATATTTACC
30506878 ATTATAT
1 ATTATAT
30506885 CACTCAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTATATTTACC
Found at i:30509802 original size:34 final size:33
Alignment explanation
Indices: 30509763--30509871 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 33
30509753 GGACTTAGAA
*
30509763 AATATAAAATATTTGAAATATTTTAATATAACTT
1 AATATAAAATATTT-AAATATTTTAATATAATTT
**
30509797 AATATAAAATATTT-AAT-TTCAAAATATAATTT
1 AATATAAAATATTTAAATATT-TTAATATAATTT
* *
30509829 AAAATAAAATATTTTAAATAATTTAATATAATTT
1 AATATAAAATA-TTTAAATATTTTAATATAATTT
30509863 AATATAAAA
1 AATATAAAA
30509872 ATAATTATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
31 2 0.03
32 22 0.35
33 3 0.05
34 35 0.56
35 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (33 bp):
AATATAAAATATTTAAATATTTTAATATAATTT
Found at i:30509853 original size:9 final size:10
Alignment explanation
Indices: 30509841--30509869 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
30509831 AATAAAATAT
30509841 TTTAA-ATAA
1 TTTAATATAA
30509850 TTTAATATAA
1 TTTAATATAA
30509860 TTTAATATAA
1 TTTAATATAA
30509870 AAATAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTAATATAA
Found at i:30509922 original size:11 final size:11
Alignment explanation
Indices: 30509874--30509923 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
30509864 ATATAAAAAT
30509874 AATTA-TATTA
1 AATTATTATTA
* *
30509884 AAATATGATTA
1 AATTATTATTA
30509895 AATTATTTATT-
1 AATTA-TTATTA
*
30509906 ATTTATTATTA
1 AATTATTATTA
30509917 AATTATT
1 AATTATT
30509924 TGTAACACCC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 9 0.29
11 18 0.58
12 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
AATTATTATTA
Found at i:30510531 original size:13 final size:14
Alignment explanation
Indices: 30510515--30510555 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
30510505 TTTACAGATA
30510515 CAGATA-ACAGAAT
1 CAGATATACAGAAT
*
30510528 CAGATATGCAGAA-
1 CAGATATACAGAAT
30510541 CAGATATACAGAAT
1 CAGATATACAGAAT
30510555 C
1 C
30510556 CTACCCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:30515002 original size:16 final size:16
Alignment explanation
Indices: 30514981--30515019 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
30514971 TAAATTACTA
**
30514981 ATTACAGCTCTATTTC
1 ATTACAGCTCTATACC
*
30514997 ATTACAACTCTATACC
1 ATTACAGCTCTATACC
30515013 ATTACAG
1 ATTACAG
30515020 AGAGTTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATACC
Found at i:30524278 original size:51 final size:50
Alignment explanation
Indices: 30524107--30524295 Score: 215
Period size: 51 Copynumber: 3.7 Consensus size: 50
30524097 AAAGTGAAAG
* *
30524107 TGATGGTCACATGTGTAGTACTATGTGCAAGCTACTACATGTACCAGA-A
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA
* * *
30524156 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA
* * *
30524207 -GAT--TCGATCATGTGTATAGTACTATATGCAGGCTACTACGTGTATCGGATA
1 TGATGGTC-A-CATGTG--TAGTACTATGTGCAGGCTACTACGTGTACCAGATA
*
30524258 GTGATGGTCCCATGTGTAGTACTATGTGCAGGCTACTA
1 -TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
30524296 TGTGAACCGG
Statistics
Matches: 117, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
47 2 0.02
49 10 0.09
50 42 0.36
51 52 0.44
53 9 0.08
55 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA
Found at i:30524544 original size:16 final size:16
Alignment explanation
Indices: 30524523--30524554 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30524513 TGATTGAAAG
*
30524523 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
30524539 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
30524555 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:30525626 original size:31 final size:31
Alignment explanation
Indices: 30525588--30525650 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
30525578 ATTTTGAGAT
30525588 TAATTTTCTAGTCAAATAAACGACAAATGAA
1 TAATTTTCTAGTCAAATAAACGACAAATGAA
*
30525619 TAATTTTCTAGTCAAATAAATGACAAATGAA
1 TAATTTTCTAGTCAAATAAACGACAAATGAA
30525650 T
1 T
30525651 TGATTACGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (31 bp):
TAATTTTCTAGTCAAATAAACGACAAATGAA
Found at i:30530884 original size:18 final size:18
Alignment explanation
Indices: 30530863--30530897 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30530853 GGGGTTTTTT
*
30530863 TTTTTAACCTTATTTTCC
1 TTTTTAAACTTATTTTCC
*
30530881 TTTTTAAACTTTTTTTC
1 TTTTTAAACTTATTTTC
30530898 TTAATTTTAC
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:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAAACTTATTTTCC
Found at i:30533558 original size:29 final size:27
Alignment explanation
Indices: 30533492--30533558 Score: 64
Period size: 31 Copynumber: 2.3 Consensus size: 27
30533482 AAATTTCATG
30533492 TGTATAATTGCACCAAATTAAAGCTCA
1 TGTATAATTGCACCAAATTAAAGCTCA
* *
30533519 CGTATACAATTGCA-CATTGAATTAAAGTTCA
1 TGTAT--AATTGCACCA---AATTAAAGCTCA
30533550 TGTATAATT
1 TGTATAATT
30533559 TTGAGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
27 4 0.12
28 2 0.06
29 11 0.34
31 15 0.47
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (27 bp):
TGTATAATTGCACCAAATTAAAGCTCA
Found at i:30534510 original size:23 final size:23
Alignment explanation
Indices: 30534484--30534534 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
30534474 TGAATTTTAA
*
30534484 ATTTTAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
30534507 ATTTAAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
30534530 ATTTA
1 ATTTA
30534535 GGAAAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (23 bp):
ATTTAAAATTATTTAGTGATAAT
Found at i:30535352 original size:15 final size:15
Alignment explanation
Indices: 30535332--30535363 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30535322 ACCTCAATCA
30535332 CAGATACAGAAATAT
1 CAGATACAGAAATAT
*
30535347 CAGATACAGTAATAT
1 CAGATACAGAAATAT
30535362 CA
1 CA
30535364 TGCATAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (15 bp):
CAGATACAGAAATAT
Found at i:30536918 original size:13 final size:13
Alignment explanation
Indices: 30536900--30536949 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
30536890 AATATTTTTT
30536900 AATTAAAATTATA
1 AATTAAAATTATA
*
30536913 AATTAAAATAATA
1 AATTAAAATTATA
* *
30536926 ATTTTAAAAATTATC
1 A-ATT-AAAATTATA
30536941 AATTAAAAT
1 AATTAAAAT
30536950 ATTATTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 18 0.60
14 4 0.13
15 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:30537914 original size:6 final size:6
Alignment explanation
Indices: 30537903--30537929 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30537893 CATAAAGCAA
30537903 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
30537930 CTTGTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:30538787 original size:85 final size:85
Alignment explanation
Indices: 30538693--30538867 Score: 287
Period size: 85 Copynumber: 2.1 Consensus size: 85
30538683 GTAAAAAACC
*
30538693 CATTTTTTTCACACTGGATTAATATAATCACCTGTGTATGCAATATCTCAATGTAAAATGGTGTT
1 CATTTTTTTCACACTGGATTAATATAATCACCTGTGTATGCAATATATCAATGTAAAATGGTGTT
30538758 AACTCAATAATATTGTTAGT
66 AACTCAATAATATTGTTAGT
* * * *
30538778 CATTTTTTTCATATTGGATTAATATAATTATCTGTGTATGCAATATATCAATGTAAAATGGTGTT
1 CATTTTTTTCACACTGGATTAATATAATCACCTGTGTATGCAATATATCAATGTAAAATGGTGTT
*
30538843 AACTCGATAATATTGTTAGT
66 AACTCAATAATATTGTTAGT
*
30538863 GATTT
1 CATTT
30538868 GTGAAATTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.43
Consensus pattern (85 bp):
CATTTTTTTCACACTGGATTAATATAATCACCTGTGTATGCAATATATCAATGTAAAATGGTGTT
AACTCAATAATATTGTTAGT
Found at i:30548232 original size:163 final size:163
Alignment explanation
Indices: 30547957--30548277 Score: 579
Period size: 163 Copynumber: 2.0 Consensus size: 163
30547947 AGTATTTGTT
* * *
30547957 GCATGATGCCTAGGAACCATTTTGGAATGAGCTAATTGTATATGTATTCTGTATTTTTATGCCCA
1 GCATGATGCCTAGGAACCATTTTGGAACGAGCTAATTGCAAATGTATTCTGTATTTTTATGCCCA
*
30548022 GTGGCAGAGGTATCAATATTTCGGGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
66 GTGGCAGAGGTATCAATATTTCGAGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
*
30548087 TCAGAATAGAGGTTTGGTATCGATACTCGGGAA
131 TCAGAATAGAGATTTGGTATCGATACTCGGGAA
*
30548120 GCATTATGCCTAGGAACCATTTTGGAACGAGCTAATTGCAAATGTATTCTGTATTTTTATGCCCA
1 GCATGATGCCTAGGAACCATTTTGGAACGAGCTAATTGCAAATGTATTCTGTATTTTTATGCCCA
*
30548185 GTGGTAGAGGTATCAATATTTCGAGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
66 GTGGCAGAGGTATCAATATTTCGAGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
30548250 TCAGAATAGAGATTTGGTATCGATACTC
131 TCAGAATAGAGATTTGGTATCGATACTC
30548278 TTTCCCGAGT
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
163 151 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (163 bp):
GCATGATGCCTAGGAACCATTTTGGAACGAGCTAATTGCAAATGTATTCTGTATTTTTATGCCCA
GTGGCAGAGGTATCAATATTTCGAGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
TCAGAATAGAGATTTGGTATCGATACTCGGGAA
Found at i:30550270 original size:21 final size:21
Alignment explanation
Indices: 30550245--30550288 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30550235 TCGAGTAGTC
30550245 AATCTATTTG-AAATCTTGCCA
1 AATCT-TTTGCAAATCTTGCCA
30550266 AATCTTTTGCAAATCTTGCCA
1 AATCTTTTGCAAATCTTGCCA
30550287 AA
1 AA
30550289 ACTTGATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (21 bp):
AATCTTTTGCAAATCTTGCCA
Found at i:30550883 original size:38 final size:38
Alignment explanation
Indices: 30550841--30550931 Score: 164
Period size: 38 Copynumber: 2.4 Consensus size: 38
30550831 CTCTATTGAG
* *
30550841 TACATGTTAAGCATGTCTACTGCTAGTGTTGAACTAAA
1 TACATGTTAAGCATGTCTACTGCTACTGTTAAACTAAA
30550879 TACATGTTAAGCATGTCTACTGCTACTGTTAAACTAAA
1 TACATGTTAAGCATGTCTACTGCTACTGTTAAACTAAA
30550917 TACATGTTAAGCATG
1 TACATGTTAAGCATG
30550932 CTTATTGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (38 bp):
TACATGTTAAGCATGTCTACTGCTACTGTTAAACTAAA
Found at i:30551338 original size:18 final size:18
Alignment explanation
Indices: 30551315--30551352 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30551305 TTTAAGAGAT
*
30551315 TTTTTTGTACAATTATGA
1 TTTTTTGTACAACTATGA
*
30551333 TTTTTTTTACAACTATGA
1 TTTTTTGTACAACTATGA
30551351 TT
1 TT
30551353 CAAACCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (18 bp):
TTTTTTGTACAACTATGA
Found at i:30556749 original size:12 final size:12
Alignment explanation
Indices: 30556732--30556757 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30556722 GATAATATGA
30556732 TTGATTGGTTGG
1 TTGATTGGTTGG
30556744 TTGATTGGTTGG
1 TTGATTGGTTGG
30556756 TT
1 TT
30556758 TGAGCAGGTG
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:0.08, C:0.00, G:0.38, T:0.54
Consensus pattern (12 bp):
TTGATTGGTTGG
Found at i:30562203 original size:20 final size:20
Alignment explanation
Indices: 30562178--30562220 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
30562168 TGGTTCAAAG
30562178 GGTAAGAAAATGAATGGAAT
1 GGTAAGAAAATGAATGGAAT
* *
30562198 GGTAAGTAAATTAATGGAAT
1 GGTAAGAAAATGAATGGAAT
30562218 GGT
1 GGT
30562221 TCATGATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (20 bp):
GGTAAGAAAATGAATGGAAT
Found at i:30563607 original size:18 final size:18
Alignment explanation
Indices: 30563570--30563605 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
30563560 TTAATTTGGT
30563570 TAAAACGGGTTTTAAAAA
1 TAAAACGGGTTTTAAAAA
*
30563588 TAAAATCGGGTTTGAAAA
1 TAAAA-CGGGTTTTAAAA
30563606 TATTTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (18 bp):
TAAAACGGGTTTTAAAAA
Found at i:30570124 original size:8 final size:8
Alignment explanation
Indices: 30570107--30570138 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
30570097 AATATTAATT
30570107 TTAA-AAA
1 TTAATAAA
30570114 TTAATAAA
1 TTAATAAA
30570122 TTAATAAA
1 TTAATAAA
30570130 TTAATAAA
1 TTAATAAA
30570138 T
1 T
30570139 ACTGAACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTAATAAA
Found at i:30573305 original size:14 final size:14
Alignment explanation
Indices: 30573286--30573316 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
30573276 AATGAGGAGG
30573286 AGCTCCTCTGTTAC
1 AGCTCCTCTGTTAC
30573300 AGCTCCTCTGTTAC
1 AGCTCCTCTGTTAC
30573314 AGC
1 AGC
30573317 CCGTTTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.35, G:0.16, T:0.32
Consensus pattern (14 bp):
AGCTCCTCTGTTAC
Found at i:30575394 original size:43 final size:43
Alignment explanation
Indices: 30575333--30575440 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
30575323 ACTTTCAAGG
* *
30575333 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGTATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
*
30575376 TGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
* *
30575419 CGAGATTTCCATGTAAGACCAT
1 TGAGATTT-CGTGTAAGACCAT
30575441 GTCTAGGACA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 47 0.81
44 11 0.19
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
Found at i:30577733 original size:25 final size:25
Alignment explanation
Indices: 30577703--30577786 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
30577693 CAGCTCTTAT
*
30577703 GAGCTTACCGTTACTCAACTCGGAG
1 GAGCTTACCGTTATTCAACTCGGAG
* *
30577728 GAGCTTACCGTTATTCATCTCAGAG
1 GAGCTTACCGTTATTCAACTCGGAG
* * * *
30577753 GAGCTTACAGTTATTCAGCTCGAAT
1 GAGCTTACCGTTATTCAACTCGGAG
30577778 GAGCTTACC
1 GAGCTTACC
30577787 ATCTACAGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAACTCGGAG
Found at i:30583725 original size:17 final size:17
Alignment explanation
Indices: 30583700--30583734 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30583690 AATATTAATT
*
30583700 TATCAATAAACTAATAA
1 TATCAATAAAATAATAA
*
30583717 TATCGATAAAATAATAA
1 TATCAATAAAATAATAA
30583734 T
1 T
30583735 TTTTTTAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (17 bp):
TATCAATAAAATAATAA
Found at i:30586413 original size:2 final size:2
Alignment explanation
Indices: 30586408--30586446 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
30586398 TTAGTATATA
30586408 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
30586447 CTGTAGTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:30587266 original size:2 final size:2
Alignment explanation
Indices: 30587261--30587288 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30587251 CATATATGAG
30587261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30587289 TACAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30597756 original size:21 final size:22
Alignment explanation
Indices: 30597730--30597772 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
30597720 ATGTAAGAGG
*
30597730 AGGCACACGCCTGTGT-AGCTA
1 AGGCACACGCCCGTGTGAGCTA
*
30597751 AGGCACATGCCCGTGTGAGCTA
1 AGGCACACGCCCGTGTGAGCTA
30597773 GGGACATGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.19
Consensus pattern (22 bp):
AGGCACACGCCCGTGTGAGCTA
Found at i:30603035 original size:2 final size:2
Alignment explanation
Indices: 30603028--30603056 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30603018 ACTTACATGA
30603028 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30603057 ATACATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30603473 original size:19 final size:18
Alignment explanation
Indices: 30603441--30603477 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
30603431 TTTTCTTATT
*
30603441 TTTAAAAATTAAAATAAA
1 TTTAAAAATAAAAATAAA
30603459 TTTAATAAATAAAAATAAA
1 TTTAA-AAATAAAAATAAA
30603478 AATATTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TTTAAAAATAAAAATAAA
Found at i:30606828 original size:20 final size:20
Alignment explanation
Indices: 30606803--30606849 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
30606793 AGTGCTTAAG
30606803 TCGTGTGGGGG-CTTACACGC
1 TCGTGTGGGGGTC-TACACGC
*
30606823 TCGTGTGGTGGTCTACACGC
1 TCGTGTGGGGGTCTACACGC
*
30606843 CCGTGTG
1 TCGTGTG
30606850 CAAGCTACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.09, C:0.26, G:0.38, T:0.28
Consensus pattern (20 bp):
TCGTGTGGGGGTCTACACGC
Found at i:30608424 original size:14 final size:14
Alignment explanation
Indices: 30608405--30608451 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
30608395 CAGTGTTGCG
30608405 AACCCCTATAGGCA
1 AACCCCTATAGGCA
* * *
30608419 AGCCCCTTTATGCA
1 AACCCCTATAGGCA
*
30608433 AACACCTATAGGCA
1 AACCCCTATAGGCA
30608447 AACCC
1 AACCC
30608452 ATATGTCAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.34, C:0.36, G:0.13, T:0.17
Consensus pattern (14 bp):
AACCCCTATAGGCA
Found at i:30611706 original size:11 final size:10
Alignment explanation
Indices: 30611682--30611718 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
30611672 AAAACTGAAC
30611682 ATTTTATT-T
1 ATTTTATTAT
30611691 ATTTTATATAT
1 ATTTTAT-TAT
30611702 ATTTT-TTAT
1 ATTTTATTAT
30611711 ATTTTATT
1 ATTTTATT
30611719 TTTAACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 15 0.60
10 4 0.16
11 6 0.24
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTATTAT
Found at i:30611984 original size:44 final size:43
Alignment explanation
Indices: 30611919--30612077 Score: 158
Period size: 44 Copynumber: 3.6 Consensus size: 43
30611909 CTTCGATCCA
* * * ** *
30611919 CTCCACCGCAACGTCGGGGAGATAAGATTATCGACTTCAATCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATT-TCTTCTTCAGTCTG
* *
30611963 CTCCACTGCAACCTCAAGGAGATAAGATTTGCTTCTTCGGTCTG
1 CTCCACTGCAACCTCAGGGAGATAAGATTT-CTTCTTCAGTCTG
* * * *
30612007 CCCCACTGCAACTTCAGGGGGATAAGACTTGTTTTC-TCAGTCTG
1 CTCCACTGCAACCTCAGGGAGATAAGA-TT-TCTTCTTCAGTCTG
*
30612051 CTCCGCTGCAACCTCAGGGAGATAAGA
1 CTCCACTGCAACCTCAGGGAGATAAGA
30612078 CCTAATGCAA
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
43 1 0.01
44 87 0.93
45 5 0.05
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (43 bp):
CTCCACTGCAACCTCAGGGAGATAAGATTTCTTCTTCAGTCTG
Found at i:30612318 original size:44 final size:44
Alignment explanation
Indices: 30611935--30612355 Score: 197
Period size: 44 Copynumber: 9.6 Consensus size: 44
30611925 CGCAACGTCG
* *
30611935 GGGAGATAAGATTATCGACTTCAATCTGCTCCACTGCAACCTCA
1 GGGAGATAAGATTATCGACTTCAATCTGCTCCACTGTAACTTCA
* ** ** * *
30611979 AGGAGATAAGATT-TGCTTCTTCGGTCTGCCCCACTGCAACTTCA
1 GGGAGATAAGATTAT-CGACTTCAATCTGCTCCACTGTAACTTCA
* * *** * * * *
30612023 GGGGGATAAGACTTGTTTTC-TCAGTCTGCTCCGCTGCAACCTCA
1 GGGAGATAAGA-TTATCGACTTCAATCTGCTCCACTGTAACTTCA
* * * *
30612067 GGGAGATAAGACCTA---A-TGCAATCTACTCTACTGTAACTTCA
1 GGGAGATAAGA-TTATCGACTTCAATCTGCTCCACTGTAACTTCA
* * * * *
30612108 GAGAGATAAGATATAT-TACTTTAATCCGTTCCACTGTAACTTCA
1 GGGAGATAAGAT-TATCGACTTCAATCTGCTCCACTGTAACTTCA
* * * *
30612152 GGGAGATAGGA-TAGT-GTCTTCGATCTGCTCCGCTGTAA-TCTCA
1 GGGAGATAAGATTA-TCGACTTCAATCTGCTCCACTGTAACT-TCA
* * * * * * *
30612195 GGGAGATAAGA-TCTCTATCTTCAATCGGATGCGATCTATTCT-GCTTAA
1 GGGAGATAAGATTATCGA-CTTCAATC---TGC--TCCACTGTAACTTCA
* * * * * *
30612243 GAGAGATAAGGTCATTTG--TTTAATCCGCTCCACTGTAACTTCA
1 GGGAGATAAGATTA-TCGACTTCAATCTGCTCCACTGTAACTTCA
*
30612286 GGGAGATAGGATTATCGACTTCAATCTGCTCCACTGTAACTTCA
1 GGGAGATAAGATTATCGACTTCAATCTGCTCCACTGTAACTTCA
*
30612330 GGGAGATAAGATT-TCTGGCTTCAATC
1 GGGAGATAAGATTATC-GACTTCAATC
30612356 GGATGTGATA
Statistics
Matches: 278, Mismatches: 75, Indels: 48
0.69 0.19 0.12
Matches are distributed among these distances:
41 29 0.10
42 11 0.04
43 49 0.18
44 157 0.56
45 5 0.02
46 1 0.00
47 9 0.03
48 11 0.04
49 5 0.02
50 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
GGGAGATAAGATTATCGACTTCAATCTGCTCCACTGTAACTTCA
Found at i:30614932 original size:6 final size:6
Alignment explanation
Indices: 30614906--30614987 Score: 50
Period size: 6 Copynumber: 14.7 Consensus size: 6
30614896 AGATTTCTCT
* * * *
30614906 TTTTCA TTTTGA TCTTAA TTTTGA TTTT-- TTTT-A -TTT-- TTTTCA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* * * *
30614948 TTTTTA TTTTTA TTTTTA TTTTGA CTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
30614988 TCTTTTTCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
4 10 0.16
6 53 0.84
ACGTcount: A:0.16, C:0.05, G:0.06, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:30614943 original size:54 final size:54
Alignment explanation
Indices: 30614885--30614988 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
30614875 TTCATTATGA
*
30614885 TTTTTTCATCTAGATTTCTCTTTTTCATTTTGA-TCTTAATTTTGATTTTTTTTAT
1 TTTTTTCATCTAGATTTCTATTTTT-ATTTTGACT-TTAATTTTGATTTTTTTTAT
* ** * *
30614940 TTTTTTCATTTTTATTTTTATTTTTATTTTGACTTTGATTTTGATTTTT
1 TTTTTTCATCTAGATTTCTATTTTTATTTTGACTTTAATTTTGATTTTT
30614989 CTTTTTCTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
54 21 0.50
55 21 0.50
ACGTcount: A:0.15, C:0.08, G:0.06, T:0.71
Consensus pattern (54 bp):
TTTTTTCATCTAGATTTCTATTTTTATTTTGACTTTAATTTTGATTTTTTTTAT
Found at i:30614945 original size:18 final size:18
Alignment explanation
Indices: 30614923--30614994 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 18
30614913 TTTGATCTTA
*
30614923 ATTTTGATTTTT-TTTATT
1 ATTTTTATTTTTATTT-TT
30614941 -TTTTTCATTTTTATTTTT
1 ATTTTT-ATTTTTATTTTT
* * *
30614959 ATTTTTATTTTGACTTTG
1 ATTTTTATTTTTATTTTT
* *
30614977 ATTTTGATTTTTCTTTTT
1 ATTTTTATTTTTATTTTT
30614995 CTTCCCTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
17 4 0.10
18 30 0.71
19 8 0.19
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTTATTTTT
Found at i:30614993 original size:12 final size:12
Alignment explanation
Indices: 30614905--30614993 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 12
30614895 TAGATTTCTC
30614905 TTTTTCATTTTGA
1 TTTTT-ATTTTGA
* *
30614918 TCTTAATTTTGA
1 TTTTTATTTTGA
30614930 -TTTT-TTTT-A
1 TTTTTATTTTGA
*
30614939 --TTT-TTTTCA
1 TTTTTATTTTGA
*
30614948 TTTTTATTTTTA
1 TTTTTATTTTGA
30614960 TTTTTATTTTGA
1 TTTTTATTTTGA
* *
30614972 CTTTGATTTTGA
1 TTTTTATTTTGA
*
30614984 TTTTTCTTTT
1 TTTTTATTTT
30614994 TCTTCCCTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
8 7 0.11
9 2 0.03
10 4 0.07
11 5 0.08
12 40 0.66
13 3 0.05
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:30622376 original size:27 final size:27
Alignment explanation
Indices: 30622335--30622426 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
30622325 ATTAGAATAC
* * *
30622335 GCCACAAATGTGATCCATTCAGAGTAT
1 GCCACAAAGGCGATCCATTCAAAGTAT
* *
30622362 GCCACATAGGCGATCCATTCAAAGTAC
1 GCCACAAAGGCGATCCATTCAAAGTAT
* * *
30622389 ACCATAAAGGTGATCCATTCAAAGTAT
1 GCCACAAAGGCGATCCATTCAAAGTAT
30622416 GCCACAAAGGC
1 GCCACAAAGGC
30622427 TAACAGGATG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (27 bp):
GCCACAAAGGCGATCCATTCAAAGTAT
Found at i:30632480 original size:17 final size:17
Alignment explanation
Indices: 30632458--30632490 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30632448 TGGGATGGGC
30632458 CACACGGGCGTGTGGCT
1 CACACGGGCGTGTGGCT
30632475 CACACGGGCGTGTGGC
1 CACACGGGCGTGTGGC
30632491 CCATACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.15
Consensus pattern (17 bp):
CACACGGGCGTGTGGCT
Found at i:30633077 original size:13 final size:13
Alignment explanation
Indices: 30633044--30633085 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
30633034 GGGGGTAGGA
30633044 GTATATCTGTTCT
1 GTATATCTGTTCT
*
30633057 GTACATCTGATTCT
1 GTATATCTG-TTCT
30633071 G-ATATCTGTTTCT
1 GTATATCTG-TTCT
30633084 GT
1 GT
30633086 TATAAACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (13 bp):
GTATATCTGTTCT
Found at i:30639471 original size:30 final size:30
Alignment explanation
Indices: 30639382--30639471 Score: 85
Period size: 30 Copynumber: 2.9 Consensus size: 30
30639372 TGCTCAATAC
*
30639382 TTACATATTCTATCAATTTGA-TTCAAATT
1 TTACAAATTCTATCAATTTGACTTCAAATT
* * * *
30639411 TTAAATAATTCAATAAATTTAACCCTTCAAA-T
1 TTACA-AATTCTATCAATTTGA--CTTCAAATT
30639443 TTACAAATTCTATCAATTTGATCTTCAAA
1 TTACAAATTCTATCAATTTGA-CTTCAAA
30639472 GTTCCTAACC
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
29 4 0.09
30 19 0.40
31 13 0.28
32 5 0.11
33 6 0.13
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (30 bp):
TTACAAATTCTATCAATTTGACTTCAAATT
Found at i:30640203 original size:31 final size:30
Alignment explanation
Indices: 30640168--30640260 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 30
30640158 TTTGAAGATC
30640168 AAATTGATAGAATTTGTAAATATGAAGGGTT
1 AAATTGATAGAATTTGTAAATATGAA-GGTT
* * * * *
30640199 AAATTTATTGAATTATTTAGAAT-T-AAGATC
1 AAATTGATAGAATT-TGTA-AATATGAAGGTT
*
30640229 AAATTGGTAGAATTTGTAAATATGAAAGGTT
1 AAATTGATAGAATTTGTAAATATG-AAGGTT
30640260 A
1 A
30640261 CGTTTATTGA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
28 3 0.07
29 4 0.09
30 13 0.28
31 19 0.41
32 4 0.09
33 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.18, T:0.38
Consensus pattern (30 bp):
AAATTGATAGAATTTGTAAATATGAAGGTT
Found at i:30640308 original size:61 final size:61
Alignment explanation
Indices: 30640162--30640300 Score: 217
Period size: 61 Copynumber: 2.3 Consensus size: 61
30640152 AGGAAGTTTG
* *
30640162 AAGATCAAATTGATAGAATTTGTAAATATGAAGGGTTAAATTTATTGAATTATTTAGAATT
1 AAGATCAAATTGATAGAATTTGTAAATATGAAAGGTTAAATTTATTGAATTATTTAGAACT
* **
30640223 AAGATCAAATTGGTAGAATTTGTAAATATGAAAGGTTACGTTTATTGAATTATTTAGAACT
1 AAGATCAAATTGATAGAATTTGTAAATATGAAAGGTTAAATTTATTGAATTATTTAGAACT
30640284 -AGAATCAAATTGATAGA
1 AAG-ATCAAATTGATAGA
30640301 TCATGTAAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
60 2 0.03
61 69 0.97
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (61 bp):
AAGATCAAATTGATAGAATTTGTAAATATGAAAGGTTAAATTTATTGAATTATTTAGAACT
Found at i:30640659 original size:18 final size:18
Alignment explanation
Indices: 30640636--30640674 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
30640626 GTAGGACACT
30640636 TGTCATCACAACCCTGCA
1 TGTCATCACAACCCTGCA
30640654 TGTCATCACAACCCTGCA
1 TGTCATCACAACCCTGCA
30640672 TGT
1 TGT
30640675 GTGGTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.36, G:0.13, T:0.26
Consensus pattern (18 bp):
TGTCATCACAACCCTGCA
Found at i:30641274 original size:17 final size:17
Alignment explanation
Indices: 30641252--30641284 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30641242 ATTTATAAAA
*
30641252 AAAATTACAAAAATATG
1 AAAATTAAAAAAATATG
30641269 AAAATTAAAAAAATAT
1 AAAATTAAAAAAATAT
30641285 AGGAAGGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAATTAAAAAAATATG
Found at i:30641623 original size:20 final size:19
Alignment explanation
Indices: 30641598--30641656 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 19
30641588 AATGGTTTCA
30641598 TAATTTTTTTCATATATTTT
1 TAATTTTTTT-ATATATTTT
*
30641618 TAA-TTTTTTAAATAATTTT
1 TAATTTTTTTATAT-ATTTT
30641637 T-ATGTTTTTTATAATATTTT
1 TAAT-TTTTTTAT-ATATTTT
30641657 GTAAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 4 0.12
19 12 0.36
20 15 0.45
21 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TAATTTTTTTATATATTTT
Found at i:30641650 original size:18 final size:18
Alignment explanation
Indices: 30641598--30641656 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
30641588 AATGGTTTCA
30641598 TAATTTTTTTCATATATTTT
1 TAATTTTTTT-ATA-ATTTT
*
30641618 TAATTTTTTAAATAATTTT
1 TAATTTTTT-TATAATTTT
30641637 T-ATGTTTTTTATAATATTT
1 TAAT-TTTTTTATAAT-TTT
30641656 T
1 T
30641657 GTAAATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 7 0.21
19 15 0.44
20 12 0.35
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
TAATTTTTTTATAATTTT
Found at i:30641797 original size:17 final size:17
Alignment explanation
Indices: 30641777--30641828 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
30641767 TTCTTTTCAT
30641777 TTTTTATTTTTTATATA
1 TTTTTATTTTTTATATA
*
30641794 TTTTTATCTTTTATA-A
1 TTTTTATTTTTTATATA
*
30641810 TTTTCTATGTTTTTTTATA
1 TTTT-TAT-TTTTTATATA
30641829 AATTTTTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 5 0.17
17 17 0.59
18 6 0.21
19 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTATTTTTTATATA
Found at i:30641797 original size:24 final size:24
Alignment explanation
Indices: 30641734--30641807 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
30641724 AATTTGTATA
**
30641734 ATTTTTTATA-ATTTAGATATTTTT
1 ATTTTTTATATATTTTCAT-TTTTT
* *
30641758 A-TTTTGATATTCTTTTCATTTTTT
1 ATTTTTTATA-TATTTTCATTTTTT
* *
30641782 ATTTTTTATATATTTTTATCTTTT
1 ATTTTTTATATATTTTCATTTTTT
30641806 AT
1 AT
30641808 AATTTTCTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
23 7 0.18
24 20 0.51
25 12 0.31
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.70
Consensus pattern (24 bp):
ATTTTTTATATATTTTCATTTTTT
Found at i:30642586 original size:3 final size:3
Alignment explanation
Indices: 30642580--30642608 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30642570 GTTTTTGTTG
30642580 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30642609 TGTTGTCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30643488 original size:37 final size:36
Alignment explanation
Indices: 30643446--30643515 Score: 113
Period size: 37 Copynumber: 1.9 Consensus size: 36
30643436 GTTACTAGTT
30643446 TACTGAATGCATGCTAAGCATACCACTGATATTGTTA
1 TACTGAATGCATGCTAAGCATACCACTG-TATTGTTA
* *
30643483 TACTGAATGCATGTTAAGCATGCCACTGTATTG
1 TACTGAATGCATGCTAAGCATACCACTGTATTG
30643516 AAAGTGATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 5 0.16
37 26 0.84
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (36 bp):
TACTGAATGCATGCTAAGCATACCACTGTATTGTTA
Found at i:30651239 original size:73 final size:73
Alignment explanation
Indices: 30651149--30651295 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
30651139 ATGAAGGCAA
30651149 AGAAGGCTTGGAACACTGTTGTTTACAGCTAAATTACAAGTGAAATAACTATTTTCTCACAGTTC
1 AGAAGGCTTGGAACACTGTTGTTTACAGCTAAATTACAAGTGAAATAACTATTTTCTCACAGTTC
30651214 CCCATCTC
66 CCCATCTC
*
30651222 AGAAGGCTTGGAGCACTGTTGTTTACAGCTAAATTACAAGTGAAATAACTATTTTCTCACAGTTC
1 AGAAGGCTTGGAACACTGTTGTTTACAGCTAAATTACAAGTGAAATAACTATTTTCTCACAGTTC
30651287 CCCATCTC
66 CCCATCTC
30651295 A
1 A
30651296 CAACTTGCAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (73 bp):
AGAAGGCTTGGAACACTGTTGTTTACAGCTAAATTACAAGTGAAATAACTATTTTCTCACAGTTC
CCCATCTC
Found at i:30653277 original size:9 final size:9
Alignment explanation
Indices: 30653260--30653382 Score: 148
Period size: 9 Copynumber: 14.1 Consensus size: 9
30653250 GTAGTGATTC
*
30653260 AATTTGGTT
1 AATTCGGTT
30653269 AATTCGGTT
1 AATTCGGTT
30653278 AATTCGG--
1 AATTCGGTT
30653285 --TTCGGTT
1 AATTCGGTT
30653292 AATTCGGTT
1 AATTCGGTT
30653301 AATTCAGG-T
1 AATTC-GGTT
30653310 AATTCGGTT
1 AATTCGGTT
*
30653319 AATTCGGGT
1 AATTCGGTT
*
30653328 AATTTGGTT
1 AATTCGGTT
30653337 AATTCGGTT
1 AATTCGGTT
*
30653346 AATTCAGTT
1 AATTCGGTT
*
30653355 AATTCAGTT
1 AATTCGGTT
30653364 AATTCGGTT
1 AATTCGGTT
*
30653373 AATTTGGTT
1 AATTCGGTT
30653382 A
1 A
30653383 TTTTTAACCA
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
5 5 0.05
8 2 0.02
9 91 0.91
10 2 0.02
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:30653288 original size:14 final size:14
Alignment explanation
Indices: 30653271--30653300 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30653261 ATTTGGTTAA
30653271 TTCGGTTAATTCGG
1 TTCGGTTAATTCGG
30653285 TTCGGTTAATTCGG
1 TTCGGTTAATTCGG
30653299 TT
1 TT
30653301 AATTCAGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (14 bp):
TTCGGTTAATTCGG
Found at i:30658356 original size:37 final size:37
Alignment explanation
Indices: 30658313--30658401 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
30658303 ATCATAAATA
*
30658313 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
30658350 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
30658387 AATGAACTAATCAAT
1 AATAAACTAATCAAT
30658402 ATATTTATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:30658481 original size:33 final size:33
Alignment explanation
Indices: 30658444--30658519 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
30658434 TTAAAACTTG
*
30658444 AATTATACATATACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
30658477 AATTATACATACACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
30658510 AATTATACAT
1 AATTATACAT
30658520 GCTTTATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (33 bp):
AATTATACATACACCAACAATTAATTTTAGGTC
Found at i:30662077 original size:16 final size:17
Alignment explanation
Indices: 30662056--30662087 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
30662046 AAATATGCAA
30662056 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
30662072 TCACATAACTTCATAT
1 TCACATAACTTCATAT
30662088 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:30662314 original size:43 final size:43
Alignment explanation
Indices: 30662248--30662418 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
30662238 GACTCGTACA
* * *
30662248 ATGCCAATGTCCCAGAC-GTGGTCTTATATGTAATCACATATTG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTAATCACATATCG
* *
30662291 ATGCCACTGTCCCAGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACATATCG
* * *
30662332 ATGCCAATGTCCCAAACATGGTCTTACACGTAAACACA-AGTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACATA-TCG
* * *
30662375 ATGCCAACGTCCCAGAC-GTAGTCTTACACGATAA-CATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACG-TAATCACATATCG
30662418 A
1 A
30662419 AAATCCTATG
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
41 29 0.27
42 13 0.12
43 59 0.56
44 5 0.05
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCACATATCG
Found at i:30662389 original size:84 final size:84
Alignment explanation
Indices: 30662248--30662405 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
30662238 GACTCGTACA
* * * * * * *
30662248 ATGCCAATGTCCCAGACGTGGTCTTATATGTAATCACATATTGATGCCACTGTCCCAGACAG-GG
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGAC-GTAG
30662312 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
30662332 ATGCCAATGTCCCAAACATGGTCTTACACGTAAACACA-AGTCGATGCCAAC-GTCCCAGACGTA
1 ATGCCAATGTCCCAAACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGACGTA
30662395 GTCTTACACGA
64 GTCTTACACGA
30662406 TAACATATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.03
84 60 0.94
85 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (84 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACGTAGT
CTTACACGAATCAAATACG
Found at i:30665318 original size:92 final size:91
Alignment explanation
Indices: 30665161--30665369 Score: 280
Period size: 92 Copynumber: 2.3 Consensus size: 91
30665151 TTGATTTTAG
*
30665161 TAAATTCATATAAGAACAATTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
30665226 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
30665253 TAAATTCATATAAGAAAATTTATTATCT-AGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAAAATTTATTAT-TAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATT
30665316 ATATGTAATAATTATTATTTTAAATTATA
63 ATATGTAATAATTATTATTTTAAATTATA
* * * *
30665345 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30665370 GTTATAATTA
Statistics
Matches: 105, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 72 0.69
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:30665332 original size:24 final size:25
Alignment explanation
Indices: 30665297--30665344 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
30665287 TTATGAAATT
30665297 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
30665321 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
30665345 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:30665540 original size:16 final size:16
Alignment explanation
Indices: 30665519--30665560 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30665509 TTATTAAATT
*
30665519 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30665535 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30665550 AT-TATGTTTAA
1 ATATAT-TTTAA
30665561 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30665545 original size:15 final size:15
Alignment explanation
Indices: 30665510--30665551 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30665500 TTAAGAATTT
*
30665510 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30665524 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30665538 TATTTAATAATAAT
1 TATTTAATTATAAT
30665552 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30665691 original size:18 final size:17
Alignment explanation
Indices: 30665663--30665697 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30665653 ATTATTAAGA
*
30665663 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30665680 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30665698 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30665809 original size:157 final size:157
Alignment explanation
Indices: 30665494--30665810 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
30665484 ATAAGAATAT
*
30665494 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
30665559 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATAATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
30665624 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
30665651 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
30665716 AAATATAATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAATAATAACAA
66 AAATATAATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
30665781 TAATCATTTACCAAAACAGATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
30665808 TAA
1 TAA
30665811 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATAATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:30666922 original size:27 final size:28
Alignment explanation
Indices: 30666863--30666936 Score: 125
Period size: 27 Copynumber: 2.7 Consensus size: 28
30666853 AAAAATAAAA
30666863 ATTTACCAAAATAT-TACAACTTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTTT
30666891 ATTTACCAAAATATATAAAC-TTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTTT
30666918 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
30666937 AAAAACCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
27 26 0.58
28 17 0.38
29 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTACCAAAATATATAAACTTTTTTTT
Found at i:30667033 original size:27 final size:27
Alignment explanation
Indices: 30666994--30667069 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
30666984 TACTGGTCAC
*
30666994 GCCAATGGAATTGGCGGCACCAAAGGT
1 GCCAATGCAATTGGCGGCACCAAAGGT
* **
30667021 GCCAATGCCATTGGCGGCACCAATTGT
1 GCCAATGCAATTGGCGGCACCAAAGGT
*
30667048 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
30667070 CTCGTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (27 bp):
GCCAATGCAATTGGCGGCACCAAAGGT
Found at i:30667238 original size:19 final size:21
Alignment explanation
Indices: 30667200--30667238 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30667190 AATAATTGAT
*
30667200 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
30667221 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
30667239 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:30667311 original size:3 final size:3
Alignment explanation
Indices: 30667305--30667330 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30667295 ATTATTATTA
30667305 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
30667331 AGTATGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:30667540 original size:26 final size:26
Alignment explanation
Indices: 30667511--30667563 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
30667501 TTTTAGTGTG
*
30667511 TATTATT-TTGAGTATAAAATTATTAA
1 TATTATTCTT-AGTATAAAATTAATAA
30667537 TATTATTCTTAGTATAAAATTAATAA
1 TATTATTCTTAGTATAAAATTAATAA
30667563 T
1 T
30667564 TTTAGTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
TATTATTCTTAGTATAAAATTAATAA
Found at i:30667586 original size:12 final size:12
Alignment explanation
Indices: 30667569--30667605 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
30667559 ATAATTTTAG
30667569 TGTGTATTATTT
1 TGTGTATTATTT
30667581 TGTGTATTATTT
1 TGTGTATTATTT
* *
30667593 TGAGTATAATTT
1 TGTGTATTATTT
30667605 T
1 T
30667606 TTTTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:30668193 original size:18 final size:18
Alignment explanation
Indices: 30668150--30668194 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
30668140 TTGACATGGT
*
30668150 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
30668168 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
30668186 TGGTGGCGA
1 TGGTGGCGA
30668195 GCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:30673881 original size:19 final size:19
Alignment explanation
Indices: 30673846--30673883 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30673836 TTTAAACACA
30673846 CAAATATTACAAAAAAATT
1 CAAATATTACAAAAAAATT
*
30673865 CAAAT-TTATAAATAAAATT
1 CAAATATTACAAA-AAAATT
30673884 ACCTTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
CAAATATTACAAAAAAATT
Found at i:30673938 original size:26 final size:28
Alignment explanation
Indices: 30673909--30674026 Score: 81
Period size: 26 Copynumber: 4.3 Consensus size: 28
30673899 TTTTTCCCTT
*
30673909 TCTTC-CCTCTTCTTCTTT-TTTTTTTC
1 TCTTCTCCTCTTCTTCTTTCTTTTCTTC
* *
30673935 TCTTCTCCT-TTC-CCTTTCTTTCCTTC
1 TCTTCTCCTCTTCTTCTTTCTTTTCTTC
*
30673961 T-TTC-CTTC-T-TTCTTTCTTTTTTCTTC
1 TCTTCTCCTCTTCTTCTTTC--TTTTCTTC
* *
30673987 TCTTCTCCTTTTCTTTTTCTTTCTTTTTTTC
1 TCTTCTCC---TCTTCTTCTTTCTTTTCTTC
30674018 TCTTCTCCT
1 TCTTCTCCT
30674027 TTCCCTCTCC
Statistics
Matches: 71, Mismatches: 8, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
24 8 0.11
25 7 0.10
26 23 0.32
27 6 0.08
28 2 0.03
31 17 0.24
32 1 0.01
33 7 0.10
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (28 bp):
TCTTCTCCTCTTCTTCTTTCTTTTCTTC
Found at i:30673973 original size:4 final size:4
Alignment explanation
Indices: 30673948--30674069 Score: 101
Period size: 4 Copynumber: 30.5 Consensus size: 4
30673938 TCTCCTTTCC
* *
30673948 CTTT CTTT CCTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT
* * ** *
30673998 -TCTT -TTT CTTT CTTT TTTT CTCTT C-TC CTTT CCCT C-TC CTTT CTTT
1 CT-TT CTTT CTTT CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT CTTT
30674044 CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CT
30674070 ATCCCTCCTT
Statistics
Matches: 97, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
3 9 0.09
4 75 0.77
5 10 0.10
6 3 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:30673984 original size:31 final size:31
Alignment explanation
Indices: 30673949--30674069 Score: 104
Period size: 31 Copynumber: 3.8 Consensus size: 31
30673939 CTCCTTTCCC
*
30673949 TTTCTTTCCTTCTTTCCTTCTTTCTTTCTTT
1 TTTCTTTCCTCCTTTCCTTCTTTCTTTCTTT
*
30673980 TTTCTTCTCTTCTCCTTTTCTT-TTTCTTTCTTTT
1 TTTCTT-TC--CTCCTTTCCTTCTTTCTTTC-TTT
* *
30674014 TTTCTCTT-CTCCTTTCCCTC-TCCTTTCTTT
1 TTTCT-TTCCTCCTTTCCTTCTTTCTTTCTTT
* * *
30674044 CTTTCTTTCTTTCTTTCTTTCTTTCT
1 -TTTCTTTCCTCCTTTCCTTCTTTCT
30674070 ATCCCTCCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
30 5 0.07
31 34 0.48
32 5 0.07
33 8 0.11
34 18 0.25
35 1 0.01
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (31 bp):
TTTCTTTCCTCCTTTCCTTCTTTCTTTCTTT
Found at i:30674150 original size:27 final size:27
Alignment explanation
Indices: 30674113--30674188 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
30674103 TAATACCAAC
*
30674113 TGGTGCTGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
30674140 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
30674167 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
30674189 GTGACCAGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:30674278 original size:26 final size:27
Alignment explanation
Indices: 30674248--30674320 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
30674238 TTTGGTTTTT
30674248 TTTATATATTTTGGTAAAT-AAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAG
30674274 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAAT-AAAAAAAG
*
30674302 TTGTA-ATATTTTGATAAAT
1 TT-TATATATTTTGGTAAAT
30674321 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 19 0.44
28 22 0.51
29 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.44
Consensus pattern (27 bp):
TTTATATATTTTGGTAAATAAAAAAAG
Found at i:30675428 original size:20 final size:19
Alignment explanation
Indices: 30675388--30675428 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30675378 TAGTTTTTAT
*
30675388 TTTTTTTATCTTATAGTTA
1 TTTTTTTATCTTATAATTA
*
30675407 TTTTTTTATCTTTTAATATA
1 TTTTTTTATCTTATAAT-TA
30675427 TT
1 TT
30675429 GCAGTTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTTATCTTATAATTA
Found at i:30685909 original size:19 final size:19
Alignment explanation
Indices: 30685885--30685922 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30685875 TTATAATTAT
30685885 TAATTAATAAATTTTTCTA
1 TAATTAATAAATTTTTCTA
30685904 TAATTAATAAATTTTTCTA
1 TAATTAATAAATTTTTCTA
30685923 ACTTTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATTAATAAATTTTTCTA
Found at i:30696029 original size:27 final size:27
Alignment explanation
Indices: 30695999--30696052 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30695989 TACAATGCCA
30695999 AAAGTTCACATATCAGTTTAGAATTTT
1 AAAGTTCACATATCAGTTTAGAATTTT
30696026 AAAGTTCACATATCAGTTTAGAATTTT
1 AAAGTTCACATATCAGTTTAGAATTTT
30696053 CATCAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (27 bp):
AAAGTTCACATATCAGTTTAGAATTTT
Found at i:30699617 original size:24 final size:23
Alignment explanation
Indices: 30699512--30699664 Score: 111
Period size: 24 Copynumber: 6.7 Consensus size: 23
30699502 ACAATATATA
*
30699512 ATAAATTTGAAATAATAATACAT-
1 ATAAATTTTAAATAAT-ATACATG
* * **
30699535 ATAAAATTTAAA-AATTTTGATG
1 ATAAATTTTAAATAATATACATG
* *
30699557 AT-AATTCTAGAATAATCATACGTG
1 ATAAATTTTA-AATAAT-ATACATG
*** *
30699581 ATAAATCCAAAATAATAGTACATA
1 ATAAATTTTAAATAATA-TACATG
30699605 ATAAATTTTAAAT-AT-TA-ATG
1 ATAAATTTTAAATAATATACATG
30699625 ATAAATTTTAAATAAATATACATG
1 ATAAATTTTAAAT-AATATACATG
*
30699649 ATAAATTTAAAATAAT
1 ATAAATTTTAAATAAT
30699665 GTTACGATGA
Statistics
Matches: 100, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
20 15 0.15
21 10 0.10
22 9 0.09
23 21 0.21
24 40 0.40
25 5 0.05
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (23 bp):
ATAAATTTTAAATAATATACATG
Found at i:30699627 original size:44 final size:44
Alignment explanation
Indices: 30699579--30699662 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
30699569 TAATCATACG
*
30699579 TGATAAATCCAAAAT-AATAGTACATAATAAATTTTAAATATTAA
1 TGATAAATCCAAAATAAATA-TACATAATAAATTTAAAATATTAA
*** *
30699623 TGATAAATTTTAAATAAATATACATGATAAATTTAAAATA
1 TGATAAATCCAAAATAAATATACATAATAAATTTAAAATA
30699663 ATGTTACGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 30 0.88
45 4 0.12
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (44 bp):
TGATAAATCCAAAATAAATATACATAATAAATTTAAAATATTAA
Found at i:30699661 original size:68 final size:69
Alignment explanation
Indices: 30699512--30699664 Score: 170
Period size: 68 Copynumber: 2.2 Consensus size: 69
30699502 ACAATATATA
* *
30699512 ATAAATTTGAAATAATAATACATATAAAATTTAAAAATTTTGATGATAATTCTAGAATAATCATA
1 ATAAATTTAAAATAATAATACATATAAAATTTAAAAATTATGATGATAATTCTAGAATAATCATA
*
30699577 CGTG
66 CATG
** * * * *
30699581 ATAAATCCAAAATAATAGTACATAATAAATTTTAAATATTA--ATGATAAATTTTA-AATAAAT-
1 ATAAATTTAAAATAATAATACAT-ATAAAATTTAAAAATTATGATGAT-AATTCTAGAAT-AATC
30699642 ATACATG
63 ATACATG
30699649 ATAAATTTAAAATAAT
1 ATAAATTTAAAATAAT
30699665 GTTACGATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
68 28 0.40
69 28 0.40
70 14 0.20
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (69 bp):
ATAAATTTAAAATAATAATACATATAAAATTTAAAAATTATGATGATAATTCTAGAATAATCATA
CATG
Found at i:30700534 original size:24 final size:25
Alignment explanation
Indices: 30700476--30700537 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
30700466 CTCAATGAGT
30700476 AAACAAACAAAGAAAAGAATTAAAAA
1 AAACAAA-AAAGAAAAGAATTAAAAA
* * *
30700502 AAACGAAAAAGAAAATAATAAAAAA
1 AAACAAAAAAGAAAAGAATTAAAAA
*
30700527 AGAAAAAAAAA
1 A-AACAAAAAA
30700538 CTCAGATCAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.81, C:0.05, G:0.08, T:0.06
Consensus pattern (25 bp):
AAACAAAAAAGAAAAGAATTAAAAA
Found at i:30703629 original size:26 final size:24
Alignment explanation
Indices: 30703587--30703655 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
30703577 TTTTTCTGAT
* *
30703587 TTAAAACAAAATAAAATGTTATTAA
1 TTAAAACAAACTAAATTG-TATTAA
30703612 TTAAAAGCAAACTCAAATTGTATTAA
1 TTAAAA-CAAACT-AAATTGTATTAA
* *
30703638 ATATAATCAAACTAAATT
1 TTA-AAACAAACTAAATT
30703656 TAATGAATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 11 0.30
26 19 0.51
27 7 0.19
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
TTAAAACAAACTAAATTGTATTAA
Found at i:30707467 original size:21 final size:18
Alignment explanation
Indices: 30707412--30707455 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
30707402 TGGTCTCGGC
*
30707412 GGTTTAGGTGGGGCAGGA
1 GGTTTAGGTGGAGCAGGA
*
30707430 GGTTTAGGTGGACCAGGA
1 GGTTTAGGTGGAGCAGGA
30707448 GGTTTAGG
1 GGTTTAGG
30707456 CGGTGGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.07, G:0.50, T:0.25
Consensus pattern (18 bp):
GGTTTAGGTGGAGCAGGA
Found at i:30709993 original size:33 final size:33
Alignment explanation
Indices: 30709954--30710027 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
30709944 TTTAATTTAT
30709954 ATTATTAAATATTTATATTTAGTCATATAAAAA
1 ATTATTAAATATTTATATTTAGTCATATAAAAA
* *
30709987 ATTATTAATTATTTATATTTAGTCATATAATAA
1 ATTATTAAATATTTATATTTAGTCATATAAAAA
*
30710020 ACTATTAA
1 ATTATTAA
30710028 TATAATTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (33 bp):
ATTATTAAATATTTATATTTAGTCATATAAAAA
Found at i:30710104 original size:15 final size:13
Alignment explanation
Indices: 30710079--30710118 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
30710069 TTTCAATTTT
*
30710079 ATTTTAATAATAA
1 ATTTAAATAATAA
30710092 ATTTTAAAATAATAA
1 A-TTT-AAATAATAA
30710107 ATTTAAATAATA
1 ATTTAAATAATA
30710119 TTCTTCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTAAATAATAA
Done.