Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 93 of 206
Found at i:26967179 original size:59 final size:60
Alignment explanation
Indices: 26967013--26967181 Score: 157
Period size: 59 Copynumber: 2.8 Consensus size: 60
26967003 ATAATTTAGC
* *
26967013 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TCATAATAATCA
* * * * * * * * *
26967074 AT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAAT-ATAAT-TTCAA
1 ATAATTATTAT-TAAATATATTATAATTAAAATATATGAT-TTAATAAAATCATAATAATC-A
* *
26967133 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAAT
26967182 TTAAAGTAAT
Statistics
Matches: 82, Mismatches: 21, Indels: 12
0.71 0.18 0.10
Matches are distributed among these distances:
58 3 0.04
59 35 0.43
60 14 0.17
61 29 0.35
62 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (60 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATCATAATAATCA
Found at i:26967274 original size:91 final size:90
Alignment explanation
Indices: 26967189--26967368 Score: 261
Period size: 91 Copynumber: 2.0 Consensus size: 90
26967179 AATTTAAAGT
* * * *
26967189 AATTATACCTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTCAATAAAA
1 AATTATACATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAA
*
26967254 TTTAATAATAATCTATAATTTCATAA
66 TTTAATAATAATATATAATTT-ATAA
* ** *
26967280 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTATACATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAA
*
26967345 TTTAATAATGATATATAATTTATA
66 TTTAATAATAATATATAATTTATA
26967369 CGTTTAACCA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 3 0.04
91 76 0.96
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
AATTATACATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATAAAA
TTTAATAATAATATATAATTTATAA
Found at i:26967282 original size:28 final size:26
Alignment explanation
Indices: 26967226--26967283 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
26967216 GAATTTGTAT
*
26967226 AATTTAAAATAATTATTATTCAATAA
1 AATTTAAAATAATTATAATTCAATAA
26967252 AATTTAATAATAATCTATAATTTC-ATAA
1 AATTTAA-AATAAT-TATAA-TTCAATAA
26967280 AATT
1 AATT
26967284 CTTGATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.25
27 6 0.21
28 12 0.43
29 3 0.11
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTAAAATAATTATAATTCAATAA
Found at i:26967360 original size:44 final size:43
Alignment explanation
Indices: 26967223--26967366 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
26967213 TATGAATTTG
* * * *
26967223 TATAATTTAAAATAATTATTATTCAATAAAATTTAATAATAATC
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
26967267 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
26967314 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
26967358 TATAATTTA
1 TATAATTTA
26967367 TACGTTTAAC
Statistics
Matches: 75, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 34 0.45
45 7 0.09
46 6 0.08
47 22 0.29
48 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:26968387 original size:17 final size:17
Alignment explanation
Indices: 26968361--26968396 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26968351 GCACCTAATA
*
26968361 TAACTCATATTTTAAAT
1 TAACTCATATTTCAAAT
*
26968378 TAACTTATATTTCAAAT
1 TAACTCATATTTCAAAT
26968395 TA
1 TA
26968397 CAGCAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
TAACTCATATTTCAAAT
Found at i:26969984 original size:27 final size:27
Alignment explanation
Indices: 26969931--26969991 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
26969921 CCACTGCTGT
* **
26969931 TGATGTTGTTGCTGTTGCAGATGATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
**
26969958 TGATGATGTTGCTGTTGTTGAAAATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
26969985 TGATGAT
1 TGATGAT
26969992 TCTGCACCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.31, T:0.41
Consensus pattern (27 bp):
TGATGATGTTGCTGTTGCAGAAAATGA
Found at i:26973609 original size:25 final size:25
Alignment explanation
Indices: 26973565--26973613 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
26973555 TATAGTCTAT
*
26973565 CTATAGTAGTCTCAATATATACTAC
1 CTATAGTAGTCTCAAGATATACTAC
* *
26973590 CTATAGTAGTTTCAGGATATACTA
1 CTATAGTAGTCTCAAGATATACTA
26973614 TTAAAGACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (25 bp):
CTATAGTAGTCTCAAGATATACTAC
Found at i:26977188 original size:32 final size:31
Alignment explanation
Indices: 26977152--26977276 Score: 96
Period size: 32 Copynumber: 3.8 Consensus size: 31
26977142 TTAATATATT
26977152 TAATATTAAATTTAATTTAATACTTATCTTGA
1 TAATATTAAATTTAATTTAATA-TTATCTTGA
26977184 TAATATTTTATTAATTTAATGTTAAAGTGATTATC-T--
1 TAATA--TTA--AATTTAAT-TT-AA-T-ATTATCTTGA
*
26977220 TAATATTAAATTTAATCTAATATTTATCTTGA
1 TAATATTAAATTTAATTTAATA-TTATCTTGA
* *
26977252 TAAGTATTATA-TTAACTTAATATTA
1 TAA-TATTAAATTTAATTTAATATTA
26977277 AAGTGATTAA
Statistics
Matches: 76, Mismatches: 4, Indels: 27
0.71 0.04 0.25
Matches are distributed among these distances:
28 1 0.01
29 6 0.08
30 3 0.04
31 4 0.05
32 25 0.33
33 6 0.08
34 6 0.08
36 13 0.17
37 2 0.03
38 3 0.04
39 6 0.08
40 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (31 bp):
TAATATTAAATTTAATTTAATATTATCTTGA
Found at i:26983971 original size:28 final size:27
Alignment explanation
Indices: 26983920--26983973 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
26983910 AATTATGTGC
26983920 ATTTGATTTTTATTATTCTATAATTAT
1 ATTTGATTTTTATTATTCTATAATTAT
*
26983947 ATTTGATTATTT-TGTATTCTTTAATTA
1 ATTTGATT-TTTAT-TATTCTATAATTA
26983974 AATATTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (27 bp):
ATTTGATTTTTATTATTCTATAATTAT
Found at i:26985426 original size:19 final size:19
Alignment explanation
Indices: 26985402--26985446 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
26985392 AGTGTCTCTC
26985402 AAAACTTAG-ACTTGTTGAT
1 AAAACTT-GTACTTGTTGAT
*
26985421 AAAACTTGTTTCTTGTTGAT
1 AAAACTTG-TACTTGTTGAT
26985441 AAAACT
1 AAAACT
26985447 CGTTTCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 7 0.30
20 15 0.65
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (19 bp):
AAAACTTGTACTTGTTGAT
Found at i:26985437 original size:20 final size:20
Alignment explanation
Indices: 26985412--26985452 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
26985402 AAAACTTAGA
*
26985412 CTTGTTGATAAAACTTGTTT
1 CTTGTTGATAAAACTCGTTT
26985432 CTTGTTGATAAAACTCGTTT
1 CTTGTTGATAAAACTCGTTT
26985452 C
1 C
26985453 ATAAGTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
CTTGTTGATAAAACTCGTTT
Found at i:26986151 original size:26 final size:26
Alignment explanation
Indices: 26986097--26986173 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
26986087 ACATCAATAT
* * * *
26986097 CGCAGCAAAGCTACCAGTAATAATGA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
** * *
26986123 CGCAGCTTAGTTGCTAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
26986149 CGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
26986174 TATAGGGCAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.18
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:26986333 original size:27 final size:27
Alignment explanation
Indices: 26986303--26986362 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
26986293 CAACTCCTAG
*
26986303 GGGTATAACAGTCATTTTACCCTTTGA
1 GGGTATAACAGTCATTTTACCCTTTAA
**
26986330 GGGTATTTCAGTCATTTTACCCTTTAA
1 GGGTATAACAGTCATTTTACCCTTTAA
26986357 GGGTAT
1 GGGTAT
26986363 TTCGATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATAACAGTCATTTTACCCTTTAA
Found at i:26986428 original size:81 final size:82
Alignment explanation
Indices: 26986316--26986660 Score: 318
Period size: 81 Copynumber: 4.3 Consensus size: 82
26986306 TATAACAGTC
* * * * *
26986316 ATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTTAAGGGTATTTCGATTATTTTACCCTT
1 ATTTTACCCATTGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTCGATAATTTTA-CCTT
*
26986381 TCG-GGGTATTTTGA-TC
65 TCGAGGGTATTTTGAGTA
* * * * *
26986397 ATTTTACCCATTAAGGGTATTTCAATTATTTTA-CCTATCGAGGGTATTTCGGTAATTTTACCTA
1 ATTTTACCCATTGAGGGTATTTCAATAATTTTACCCT-TCAAGGGTATTTCGATAATTTTACCTT
*
26986461 TCGAGGGTA-TTTCAGTA
65 TCGAGGGTATTTTGAGTA
* * * *
26986478 ATTTTACCCATCGAAGGTATTTCGATAATTTTACCCTTCAA-GGTATTTCAATAATTTTACCCTT
1 ATTTTACCCATTGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTCGATAATTTTA-CCTT
26986542 T-GAGGGTATTTT-AGTA
65 TCGAGGGTATTTTGAGTA
* ** * * * *
26986558 ATTTTA-CCTTTCGAGGGTATTTCGGTAATTTTACCCTTTAAGGGTATTTTGGTTATTTTA-CTT
1 ATTTTACCCATT-GAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTCGATAATTTTACCTT
* *
26986621 ATC-AGGGGTGTTTCGA-TA
65 -TCGA-GGGTATTTTGAGTA
26986639 ATTTTACCC-TTCGAGGGTATTT
1 ATTTTACCCATT-GAGGGTATTT
26986661 TGGTCTTTTA
Statistics
Matches: 220, Mismatches: 31, Indels: 26
0.79 0.11 0.09
Matches are distributed among these distances:
79 6 0.03
80 74 0.34
81 134 0.61
82 6 0.03
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (82 bp):
ATTTTACCCATTGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTCGATAATTTTACCTTT
CGAGGGTATTTTGAGTA
Found at i:26986615 original size:27 final size:27
Alignment explanation
Indices: 26986316--26986660 Score: 263
Period size: 27 Copynumber: 12.8 Consensus size: 27
26986306 TATAACAGTC
* * *
26986316 ATTTTACCCTTTGAGGGTATTTCAGTC
1 ATTTTACCCTTTAAGGGTATTTCGGTA
* *
26986343 ATTTTACCCTTTAAGGGTATTTCGATT
1 ATTTTACCCTTTAAGGGTATTTCGGTA
** * * *
26986370 ATTTTACCCTTTCGGGGTATTTTGATC
1 ATTTTACCCTTTAAGGGTATTTCGGTA
* ** *
26986397 ATTTTACCCATTAAGGGTATTTCAATT
1 ATTTTACCCTTTAAGGGTATTTCGGTA
**
26986424 ATTTTA-CCTATCGAGGGTATTTCGGTA
1 ATTTTACCCT-TTAAGGGTATTTCGGTA
** *
26986451 ATTTTA-CCTATCGAGGGTATTTCAGTA
1 ATTTTACCCT-TTAAGGGTATTTCGGTA
** *
26986478 ATTTTACCCATCGAA-GGTATTTCGATA
1 ATTTTACCC-TTTAAGGGTATTTCGGTA
* **
26986505 ATTTTACCCTTCAA-GGTATTTCAATA
1 ATTTTACCCTTTAAGGGTATTTCGGTA
* **
26986531 ATTTTACCCTTTGAGGGTATTTTAGTA
1 ATTTTACCCTTTAAGGGTATTTCGGTA
*
26986558 ATTTTA-CCTTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTT-AAGGGTATTTCGGTA
* *
26986585 ATTTTACCCTTTAAGGGTATTTTGGTT
1 ATTTTACCCTTTAAGGGTATTTCGGTA
* * *
26986612 ATTTTA--CTTATCAGGGGTGTTTCGATA
1 ATTTTACCCTT-T-AAGGGTATTTCGGTA
**
26986639 ATTTTACCCTTCGAGGGTATTT
1 ATTTTACCCTTTAAGGGTATTT
26986661 TGGTCTTTTA
Statistics
Matches: 261, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
25 3 0.01
26 34 0.13
27 212 0.81
28 8 0.03
29 4 0.02
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTTAAGGGTATTTCGGTA
Found at i:26986661 original size:54 final size:54
Alignment explanation
Indices: 26986316--26986664 Score: 311
Period size: 54 Copynumber: 6.5 Consensus size: 54
26986306 TATAACAGTC
* ** * * * *
26986316 ATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTTAAGGGTATTTCGATT
1 ATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCCTTCAGGGGTATTTCGATA
* * * * *
26986370 ATTTTACCCTTTCG-GGGTATTTTGATCATTTTACCCATT-AAGGGTATTTCAATT
1 ATTTTACCC-TTCGAGGGTATTTTGGTAATTTTACCC-TTCAGGGGTATTTCGATA
*
26986424 ATTTTA-CCTATCGAGGGTATTTCGGTAATTTTA-CCTATC-GAGGGTATTTC-AGTA
1 ATTTTACCCT-TCGAGGGTATTTTGGTAATTTTACCCT-TCAG-GGGTATTTCGA-TA
* * * * * *
26986478 ATTTTACCCATCGAAGGTATTTCGATAATTTTACCCTTCA-AGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCCTTCAGGGGTATTTCGATA
* * * *
26986531 ATTTTACCCTTTGAGGGTATTTTAGTAATTTTACCTTTC-GAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCCTTCAG-GGGTATTTCGATA
** * * *
26986585 ATTTTACCCTTTAAGGGTATTTTGGTTATTTTA-CTTATCAGGGGTGTTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCCT-TCAGGGGTATTTCGATA
26986639 ATTTTACCCTTCGAGGGTATTTTGGT
1 ATTTTACCCTTCGAGGGTATTTTGGT
26986665 CTTTTAACCA
Statistics
Matches: 248, Mismatches: 31, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.01
53 54 0.22
54 181 0.73
55 11 0.04
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCCTTCAGGGGTATTTCGATA
Found at i:26993158 original size:20 final size:20
Alignment explanation
Indices: 26993133--26993173 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
26993123 AAAACTTAGA
26993133 CTTGTTGATAAAACTCATTT
1 CTTGTTGATAAAACTCATTT
*
26993153 CTTGTTGATAAAACTCGTTT
1 CTTGTTGATAAAACTCATTT
26993173 C
1 C
26993174 ATAAGTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (20 bp):
CTTGTTGATAAAACTCATTT
Found at i:26993699 original size:27 final size:27
Alignment explanation
Indices: 26993644--26993702 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
26993634 TATATAGTAT
**
26993644 CAGTACAGTGTGGGCCTTAGCCCGTTA
1 CAGTACAGTGTGGGCCTTAGCCCAATA
*
26993671 CAGTAGCAGTGT-GGCCTTAGCCTAATA
1 CAGTA-CAGTGTGGGCCTTAGCCCAATA
26993698 CAGTA
1 CAGTA
26993703 ATCAATTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (27 bp):
CAGTACAGTGTGGGCCTTAGCCCAATA
Found at i:26993853 original size:26 final size:26
Alignment explanation
Indices: 26993820--26993891 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
26993810 AATATCGCAG
* **
26993820 CAAAATTGCCAGTAATAGTGATGCAA
1 CAAAATTGCCAGTAATAGTAACCCAA
*
26993846 CAAAATTGCCAGTAACAGTAACCCAA
1 CAAAATTGCCAGTAATAGTAACCCAA
26993872 C-AAATCTGCCAGTAATAGTA
1 CAAAAT-TGCCAGTAATAGTA
26993892 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.10
26 36 0.90
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (26 bp):
CAAAATTGCCAGTAATAGTAACCCAA
Found at i:26994062 original size:27 final size:27
Alignment explanation
Indices: 26994039--26994342 Score: 302
Period size: 27 Copynumber: 11.3 Consensus size: 27
26994029 AGAGGTATAA
*
26994039 CAGTCATTTTACCCTTTGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
* * *
26994066 CGGTCATTTTACCTTTTGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
** * * *
26994093 TGGTCATTTTACCATTCGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
*
26994120 CAGTCATTTTA-CCTATTGAGGGTATTT
1 CAGTAATTTTACCCT-TTGAGGGTATTT
* *
26994147 CAGTAATTTTA-CATTTCAGGGGTATTT
1 CAGTAATTTTACCCTTTGA-GGGTATTT
**
26994174 TGGTAATTTTA-CCTATT-A-GGTATTT
1 CAGTAATTTTACCCT-TTGAGGGTATTT
*
26994199 C-GATAATTTTACCCTTCGAGGGTATTT
1 CAG-TAATTTTACCCTTTGAGGGTATTT
*
26994226 CAGTATTTTTACCCTTTGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
26994253 C-GATAATTTTACCCTTTGAGGGTATTT
1 CAG-TAATTTTACCCTTTGAGGGTATTT
* * *
26994280 TAGTTATTTTACCCATT-AGAGGTATTT
1 CAGTAATTTTACCCTTTGAG-GGTATTT
*
26994307 CAGTAATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
26994334 C-GATAATTT
1 CAG-TAATTT
26994343 GTCCACGAAT
Statistics
Matches: 237, Mismatches: 27, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.00
25 16 0.07
26 13 0.05
27 201 0.85
28 6 0.03
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.45
Consensus pattern (27 bp):
CAGTAATTTTACCCTTTGAGGGTATTT
Found at i:26994114 original size:54 final size:54
Alignment explanation
Indices: 26994044--26994334 Score: 333
Period size: 54 Copynumber: 5.4 Consensus size: 54
26994034 TATAACAGTC
* * * * *
26994044 ATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTTGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCTATTGAGGGTATTTCGGTA
* *
26994098 ATTTTACCATTCGAGGGTATTTCAGTCATTTTACCTATTGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCTATTGAGGGTATTTCGGTA
** ** * *
26994152 ATTTTACATTTC-AGGGGTATTTTGGTAATTTTACCTATT-A-GGTATTTCGATA
1 ATTTTACCCTTCGA-GGGTATTTCAGTCATTTTACCTATTGAGGGTATTTCGGTA
*
26994204 ATTTTACCCTTCGAGGGTATTTCAGT-ATTTTTACCCT-TTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCAGTCA-TTTTA-CCTATTGAGGGTATTTCGGTA
* * * * *
26994258 ATTTTACCCTTTGAGGGTATTTTAGTTATTTTACCCATT-AGAGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCTATTGAG-GGTATTTCGGTA
26994312 ATTTTACCCTTCGAGGGTATTTC
1 ATTTTACCCTTCGAGGGTATTTC
26994335 GATAATTTGT
Statistics
Matches: 203, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
51 1 0.00
52 37 0.18
53 11 0.05
54 153 0.75
55 1 0.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCTATTGAGGGTATTTCGGTA
Found at i:26994332 original size:160 final size:160
Alignment explanation
Indices: 26994044--26994342 Score: 415
Period size: 160 Copynumber: 1.9 Consensus size: 160
26994034 TATAACAGTC
* * * * * *
26994044 ATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTTGAGGGTATTTTGGTCATTTTACCATT
1 ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTCGATAATTTTACCATT
* *
26994109 CGAGGGTATTTCAGTCATTTTACCTATTGAGGGTATTTCAGTAATTTTACATTTCAGGGGTATTT
66 CGAGGGTATTTCAGTCATTTTACCCATTGAGGGTATTTCAGTAATTTTACACTTCAGGGGTATTT
* *
26994174 TGGTAATTTTACCTATTAGGTATTTCGATA
131 CGATAATTTTACCTATTAGGTATTTCGATA
*
26994204 ATTTTACCCTTCGAGGGTATTTCAGT-ATTTTTACCCTTTGAGGGTATTTCGATAATTTTACCCT
1 ATTTTACCCTTCGAGGGTATTTCAGTCA-TTTTACCCTTTGAGGGTATTTCGATAATTTTACCAT
* * * *
26994268 TTGAGGGTATTTTAGTTATTTTACCCATT-AGAGGTATTTCAGTAATTTTACCCTTC-GAGGGTA
65 TCGAGGGTATTTCAGTCATTTTACCCATTGAG-GGTATTTCAGTAATTTTACACTTCAG-GGGTA
26994331 TTTCGATAATTT
128 TTTCGATAATTT
26994343 GTCCACGAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
159 4 0.03
160 117 0.97
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.46
Consensus pattern (160 bp):
ATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTCGATAATTTTACCATT
CGAGGGTATTTCAGTCATTTTACCCATTGAGGGTATTTCAGTAATTTTACACTTCAGGGGTATTT
CGATAATTTTACCTATTAGGTATTTCGATA
Found at i:26998327 original size:23 final size:22
Alignment explanation
Indices: 26998285--26998339 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
26998275 TTATTAGGAT
26998285 TTTTAGGGTTTATTAATTAGGG
1 TTTTAGGGTTTATTAATTAGGG
*
26998307 TTTTA-GGTTTTTTAGAGTTAGGG
1 TTTTAGGGTTTATTA-A-TTAGGG
*
26998330 TTTTATGGTT
1 TTTTAGGGTT
26998340 ATAATTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 8 0.28
22 6 0.21
23 11 0.38
24 4 0.14
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (22 bp):
TTTTAGGGTTTATTAATTAGGG
Found at i:26998493 original size:29 final size:29
Alignment explanation
Indices: 26998443--26998576 Score: 160
Period size: 29 Copynumber: 4.6 Consensus size: 29
26998433 AAAAATCGAA
* * *
26998443 ATGGGTTCTGAGAAAATTATTTTGATGAG
1 ATGGGTTCTGAAAAAATAATTTTGACGAG
* * * * *
26998472 ATAGGTTTTGAAAATATGATTTTGACGAT
1 ATGGGTTCTGAAAAAATAATTTTGACGAG
* *
26998501 ATGAGTTCTGAAAAAATAATTTTGGCGAG
1 ATGGGTTCTGAAAAAATAATTTTGACGAG
* *
26998530 ATGGGTTTTGAAAAAATAATTTTGACAAG
1 ATGGGTTCTGAAAAAATAATTTTGACGAG
26998559 ATGGGTTCTGAAAAAATA
1 ATGGGTTCTGAAAAAATA
26998577 TCCTAGGATT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.35
Consensus pattern (29 bp):
ATGGGTTCTGAAAAAATAATTTTGACGAG
Found at i:27002066 original size:20 final size:20
Alignment explanation
Indices: 27002039--27002094 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
27002029 TTTTTGATGT
*
27002039 GTTAAAATGATTTTAACTTG
1 GTTAAAATCATTTTAACTTG
* *
27002059 GTTGAAATCATTTTGACTTG
1 GTTAAAATCATTTTAACTTG
*
27002079 GTTAAAATCAATTTAA
1 GTTAAAATCATTTTAA
27002095 ATTTATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (20 bp):
GTTAAAATCATTTTAACTTG
Found at i:27004895 original size:15 final size:15
Alignment explanation
Indices: 27004875--27004904 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27004865 TACCTTTTTG
27004875 GAAATGATCTCTAAT
1 GAAATGATCTCTAAT
*
27004890 GAAATGATGTCTAAT
1 GAAATGATCTCTAAT
27004905 TTCAATGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (15 bp):
GAAATGATCTCTAAT
Found at i:27007058 original size:330 final size:331
Alignment explanation
Indices: 27006449--27007088 Score: 1120
Period size: 330 Copynumber: 1.9 Consensus size: 331
27006439 AACACCGTTG
27006449 ACATATAAGACATTCTCAATAATAATTAAAGAGTTTTTACCAATAGAGTTTATTCCTTCAATTTG
1 ACATATAAGACATTCTCAATAATAATTAAAGAGTTTTTACCAATAGAGTTTATTCCTTCAATTTG
** *
27006514 TTTTGTAGAGTTGTCACAAAATGTAACCTCTCTTCCACCTTTTGGCTTCAAATTGATAAAGTGAC
66 TTAAGTAGAGCTGTCACAAAATGTAACCTCTCTTCCACCTTTTGGCTTCAAATTGATAAAGTGAC
* **
27006579 TCTTGTCACCGGTCATGTGTCTTGAGTATCCACTATTGAGGTACCATAAGCTTTTCCTTGAATAA
131 TCTTGTCACCGGTCATGTGTCTTGAGCATCCACTATCAAGGTACCATAAGCTTTTCCTTGAATAA
* **
27006644 TCCACCTCAAATTAATGCCCATTTCCCTACAAATATAGAATTAAAGTTTTATTTTTGGTACCCAA
196 TCCAACTCAAAACAATGCCCATTTCCCTACAAATATAGAATTAAAGTTTTATTTTTGGTACCCAA
* * *
27006709 ATTATTTTGGGTTCATAAGCATTAGTTCTTATAATTTTAATCCCTTTAGGGTTTTTACCAATAGA
261 ATTATTTTGGGTCCATAAGCATAAATTCTTATAATTTTAATCCCTTTAGGGTTTTTACCAATAGA
27006774 GTTTTT
326 GTTTTT
27006780 ACATATAAGACATTCTCAATAATAATTAAAGAG-TTTTACCAATAGAGTTTATTCCTTCAATTTG
1 ACATATAAGACATTCTCAATAATAATTAAAGAGTTTTTACCAATAGAGTTTATTCCTTCAATTTG
*
27006844 TTAAGTAGAGCTGTCACCAAATGTAACCTCTCTTCCACCTTTTGGCTTCAAATTGATAAAGTGAC
66 TTAAGTAGAGCTGTCACAAAATGTAACCTCTCTTCCACCTTTTGGCTTCAAATTGATAAAGTGAC
*
27006909 TCTTGTCACCGGTCATGTGTCTTGAGCATCCACTATCAAGGTACCATAAGCTTTTCCTTTAATAA
131 TCTTGTCACCGGTCATGTGTCTTGAGCATCCACTATCAAGGTACCATAAGCTTTTCCTTGAATAA
* *
27006974 TCCAACTCAAAACAATGCCCGTTTCCTTACAAATATAGAATTAAAGTTTTATTTTTGGTACCCAA
196 TCCAACTCAAAACAATGCCCATTTCCCTACAAATATAGAATTAAAGTTTTATTTTTGGTACCCAA
*
27007039 ATTCTTTTGGGTCCATAAGCATAAATTCTTATAATTTTAATCCCTTTAGG
261 ATTATTTTGGGTCCATAAGCATAAATTCTTATAATTTTAATCCCTTTAGG
27007089 TATCCATTTT
Statistics
Matches: 292, Mismatches: 17, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
330 259 0.89
331 33 0.11
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (331 bp):
ACATATAAGACATTCTCAATAATAATTAAAGAGTTTTTACCAATAGAGTTTATTCCTTCAATTTG
TTAAGTAGAGCTGTCACAAAATGTAACCTCTCTTCCACCTTTTGGCTTCAAATTGATAAAGTGAC
TCTTGTCACCGGTCATGTGTCTTGAGCATCCACTATCAAGGTACCATAAGCTTTTCCTTGAATAA
TCCAACTCAAAACAATGCCCATTTCCCTACAAATATAGAATTAAAGTTTTATTTTTGGTACCCAA
ATTATTTTGGGTCCATAAGCATAAATTCTTATAATTTTAATCCCTTTAGGGTTTTTACCAATAGA
GTTTTT
Found at i:27010217 original size:15 final size:14
Alignment explanation
Indices: 27010186--27010223 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
27010176 TAGAACATAG
*
27010186 AAAAAATTTTAATA
1 AAAAAATATTAATA
27010200 AAAAAATATTAATA
1 AAAAAATATTAATA
27010214 AAAAATATAT
1 AAAAA-ATAT
27010224 AATTTAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAAATATTAATA
Found at i:27010327 original size:31 final size:31
Alignment explanation
Indices: 27010261--27010333 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
27010251 AAAAATTTAA
** **
27010261 GAGAGAATTTGAGAGATTTTTTAGAGTTGATT
1 GAGA-AATTTGAGAGATTTAATAGAGTAAATT
27010293 GAGAAATTTGAGAGATTTAATAGAG-AAATGT
1 GAGAAATTTGAGAGATTTAATAGAGTAAAT-T
27010324 GAGAAATTTG
1 GAGAAATTTG
27010334 TAGGTTGGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.06
31 30 0.83
32 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.34
Consensus pattern (31 bp):
GAGAAATTTGAGAGATTTAATAGAGTAAATT
Found at i:27013742 original size:17 final size:18
Alignment explanation
Indices: 27013715--27013751 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
27013705 TTTATAAAAA
*
27013715 TATTGAAAAATATATAAT
1 TATTGAAAAATAAATAAT
27013733 TATT-AAAAATAAATAAT
1 TATTGAAAAATAAATAAT
27013750 TA
1 TA
27013752 AAAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TATTGAAAAATAAATAAT
Found at i:27014640 original size:78 final size:78
Alignment explanation
Indices: 27014511--27014660 Score: 300
Period size: 78 Copynumber: 1.9 Consensus size: 78
27014501 TGAATATTCA
27014511 CCAAAATGGAGAGAATCATTCGAAAATTAAGGGCCAAGATACTCGTACTAGAGGTGCTCATTGGC
1 CCAAAATGGAGAGAATCATTCGAAAATTAAGGGCCAAGATACTCGTACTAGAGGTGCTCATTGGC
27014576 CGGGCGGGCCGTC
66 CGGGCGGGCCGTC
27014589 CCAAAATGGAGAGAATCATTCGAAAATTAAGGGCCAAGATACTCGTACTAGAGGTGCTCATTGGC
1 CCAAAATGGAGAGAATCATTCGAAAATTAAGGGCCAAGATACTCGTACTAGAGGTGCTCATTGGC
27014654 CGGGCGG
66 CGGGCGG
27014661 CCCGGCCCGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (78 bp):
CCAAAATGGAGAGAATCATTCGAAAATTAAGGGCCAAGATACTCGTACTAGAGGTGCTCATTGGC
CGGGCGGGCCGTC
Found at i:27014858 original size:29 final size:31
Alignment explanation
Indices: 27014825--27014926 Score: 131
Period size: 29 Copynumber: 3.4 Consensus size: 31
27014815 AATATATTTA
*
27014825 TTTTTTTAATTTTAAAATATTTTT-ACATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
27014855 -TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
** *
27014885 TTTTTTTAATTTT--TTTAATTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
*
27014914 TTTTTTTATTTTT
1 TTTTTTTAATTTT
27014927 TTTAATTTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
29 48 0.74
30 5 0.08
31 12 0.18
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:27014878 original size:40 final size:39
Alignment explanation
Indices: 27014834--27014994 Score: 123
Period size: 40 Copynumber: 4.3 Consensus size: 39
27014824 ATTTTTTTAA
27014834 TTTTAAAATATTTTTACATACTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTA-ATACTTTTTTAATTTTAAAATAT
27014874 TTTTAAAATACTTTTTTTAAT--TTTTTTAATTTTAAAATA-
1 TTTTAAAATA---TTTTTAATACTTTTTTAATTTTAAAATAT
* *
27014913 --CT----T-TTTTT-AT-TTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAATACTTTTTTAATTTTAAAATAT
* *
27014943 TTTTAAAATATTTTAAAAATACTTTTTTTAATTTTTTAAA-AT
1 TTTTAAAATATTTT--TAATAC-TTTTTTAA-TTTTAAAATAT
27014985 TTTTAAAATA
1 TTTTAAAATA
27014995 AAAATGGGTC
Statistics
Matches: 98, Mismatches: 5, Indels: 34
0.72 0.04 0.25
Matches are distributed among these distances:
28 2 0.02
29 23 0.23
32 1 0.01
33 1 0.01
36 1 0.01
37 5 0.05
40 30 0.31
42 22 0.22
43 13 0.13
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (39 bp):
TTTTAAAATATTTTTAATACTTTTTTAATTTTAAAATAT
Found at i:27014902 original size:69 final size:68
Alignment explanation
Indices: 27014824--27014956 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 68
27014814 AAATATATTT
27014824 ATTTTTTTAATTTTAAAATA-TTTTTACATACTTTTTTAATTTTAAAATATTTTTAAAATACTTT
1 ATTTTTTTAATTTTAAAATACTTTTTACAT-CTTTTTTAATTTTAAAATATTTTTAAAATA-TTT
27014888 TTTTA
64 TTTTA
** *
27014893 ATTTTTTTAATTTTAAAATACTTTTTTTATTTTTTTTAATTTTAAAATATTTTTAAAATATTTT
1 ATTTTTTTAATTTTAAAATACTTTTTACATCTTTTTTAATTTTAAAATATTTTTAAAATATTTT
27014957 AAAAATACTT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
68 4 0.07
69 49 0.82
70 7 0.12
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (68 bp):
ATTTTTTTAATTTTAAAATACTTTTTACATCTTTTTTAATTTTAAAATATTTTTAAAATATTTTT
TTA
Found at i:27014927 original size:29 final size:29
Alignment explanation
Indices: 27014874--27014994 Score: 130
Period size: 29 Copynumber: 4.3 Consensus size: 29
27014864 TTTAAAATAT
27014874 TTTTAAAATACTTTTTTTAATTTTTTTAA
1 TTTTAAAATACTTTTTTTAATTTTTTTAA
*
27014903 TTTTAAAATACTTTTTTTATTTTTTTTAA
1 TTTTAAAATACTTTTTTTAATTTTTTTAA
* * *
27014932 TTTTAAAATA--TTTTTAAAATATTTT-A
1 TTTTAAAATACTTTTTTTAATTTTTTTAA
*
27014958 ----AAAATACTTTTTTTAATTTTTTAAAA
1 TTTTAAAATACTTTTTTTAATTTTTT-TAA
27014984 TTTTTAAAATA
1 -TTTTAAAATA
27014995 AAAATGGGTC
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
22 6 0.08
24 11 0.15
26 2 0.03
27 11 0.15
29 38 0.51
31 6 0.08
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTAAAATACTTTTTTTAATTTTTTTAA
Found at i:27014946 original size:11 final size:11
Alignment explanation
Indices: 27014932--27014994 Score: 69
Period size: 11 Copynumber: 5.9 Consensus size: 11
27014922 TTTTTTTTAA
27014932 TTTTAAAATAT
1 TTTTAAAATAT
27014943 TTTTAAAATAT
1 TTTTAAAATAT
*
27014954 TTTAAAAATACT
1 TTTTAAAATA-T
**
27014966 TTTTTTAAT-T
1 TTTTAAAATAT
27014976 TTTT-AAA-AT
1 TTTTAAAATAT
27014985 TTTTAAAATA
1 TTTTAAAATA
27014995 AAAATGGGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 7 0.16
10 8 0.19
11 21 0.49
12 7 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:27014988 original size:69 final size:68
Alignment explanation
Indices: 27014824--27014988 Score: 183
Period size: 69 Copynumber: 2.4 Consensus size: 68
27014814 AAATATATTT
27014824 ATTTTTTTAA-TTTTAAAATATTTTTACATACTTTTTTAATTTTAAAATATTTTTAAAATACTTT
1 ATTTTTTTAATTTTTAAAAT-TTTTTA-ATACTTTTTTAATTTTAAAATATTTTTAAAATACTTT
**
27014888 TTTTA
64 TAATA
* * *
27014893 ATTTTTTTAATTTTAAAATACTTTTTTTAT-TTTTTTTAATTTTAAAATATTTTTAAAATA-TTT
1 ATTTTTTTAATTTTTAAA-A-TTTTTTAATACTTTTTTAATTTTAAAATATTTTTAAAATACTTT
27014956 TAAAAATA
64 T---AATA
*
27014964 CTTTTTTTAATTTTTTAAAATTTTT
1 ATTTTTTTAA-TTTTTAAAATTTTT
27014989 AAAATAAAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
68 4 0.05
69 39 0.48
70 13 0.16
71 18 0.22
72 8 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (68 bp):
ATTTTTTTAATTTTTAAAATTTTTTAATACTTTTTTAATTTTAAAATATTTTTAAAATACTTTTA
ATA
Found at i:27016794 original size:18 final size:17
Alignment explanation
Indices: 27016771--27016821 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 17
27016761 GTATTAAGAA
27016771 TATTATTAAATTATATAT
1 TATTATTAAATTATAT-T
27016789 TATTATTAAATTATATT
1 TATTATTAAATTATATT
* *
27016806 TAATAATAAATT-TATT
1 TATTATTAAATTATATT
27016822 AAAAAAGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.13
17 11 0.35
18 16 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTAAATTATATT
Found at i:27017055 original size:16 final size:16
Alignment explanation
Indices: 27017002--27017056 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
27016992 ACAAGAATAT
*
27017002 TATTACAGTTCTATTC
1 TATTACAGCTCTATTC
* *
27017018 TGTTACAACTCTATTC
1 TATTACAGCTCTATTC
*
27017034 TTTTACAGCTCTATTC
1 TATTACAGCTCTATTC
*
27017050 CATTACA
1 TATTACA
27017057 CTGAACCAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.45
Consensus pattern (16 bp):
TATTACAGCTCTATTC
Found at i:27018707 original size:17 final size:19
Alignment explanation
Indices: 27018680--27018714 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27018670 TTATATTAAG
27018680 TTTTTATTTTTA-AAAATA
1 TTTTTATTTTTACAAAATA
27018698 TTTTTA-TTTTACAAAAT
1 TTTTTATTTTTACAAAAT
27018715 TTTAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATTTTTACAAAATA
Found at i:27019014 original size:51 final size:52
Alignment explanation
Indices: 27018905--27019014 Score: 134
Period size: 53 Copynumber: 2.1 Consensus size: 52
27018895 ATTCAATTTG
* *
27018905 TTTTTAAATATATATTTAGTAGTGTTTGCTTATATATTATTTAAAAAAAATTA
1 TTTTTAAATATACATTTAGTAGTATTTGCTTATATATTATTT-AAAAAAATTA
* * * *
27018958 CTTTTAAATATCCATTTA-TAAGTATTTGTTTATATCTTATTT-AAAAAATTA
1 TTTTTAAATATACATTTAGT-AGTATTTGCTTATATATTATTTAAAAAAATTA
27019009 TTTTTA
1 TTTTTA
27019015 TAACACAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
51 14 0.29
52 1 0.02
53 34 0.69
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (52 bp):
TTTTTAAATATACATTTAGTAGTATTTGCTTATATATTATTTAAAAAAATTA
Found at i:27019416 original size:17 final size:16
Alignment explanation
Indices: 27019390--27019426 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
27019380 AGTAAATTTG
*
27019390 TTTATAAAAATTGTAA
1 TTTATAAAAATTATAA
27019406 TTTATTAAAAATTATAA
1 TTTA-TAAAAATTATAA
27019423 TTTA
1 TTTA
27019427 AATGATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TTTATAAAAATTATAA
Found at i:27019581 original size:5 final size:5
Alignment explanation
Indices: 27019571--27019609 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
27019561 CTTAATATTA
*
27019571 AAAAT AAAAT AAAAT AAAAC AAAAT ATAAAT ATAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT A-AAAT AA
27019610 TGATAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 20 0.65
6 11 0.35
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:27019748 original size:27 final size:26
Alignment explanation
Indices: 27019718--27019776 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
27019708 AATTAGATTA
27019718 AAATAATTTA-AAATAAATTT-AAATTT
1 AAATAATTTAGAAAT--ATTTAAAATTT
27019744 CAAATAA-TTAGAAATATTTAAAATTT
1 -AAATAATTTAGAAATATTTAAAATTT
27019770 AAATAAT
1 AAATAAT
27019777 AATTGAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 10 0.34
26 9 0.31
27 10 0.34
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
AAATAATTTAGAAATATTTAAAATTT
Found at i:27022312 original size:18 final size:18
Alignment explanation
Indices: 27022289--27022332 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
27022279 ATGCCAAGTG
* *
27022289 TGTATCCTAGCCCTTTTA
1 TGTATCCTAACCCTTATA
27022307 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
27022325 TGTTTCCT
1 TGTATCCT
27022333 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:27022788 original size:49 final size:49
Alignment explanation
Indices: 27022731--27022851 Score: 215
Period size: 49 Copynumber: 2.5 Consensus size: 49
27022721 GTTTACATTA
*
27022731 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
*
27022780 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
*
27022829 ATTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
27022852 AATATTCTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
Found at i:27023377 original size:124 final size:124
Alignment explanation
Indices: 27023148--27023422 Score: 451
Period size: 125 Copynumber: 2.2 Consensus size: 124
27023138 TAAAAGGAGC
**
27023148 AAGCGCGTCCACGTGGGAGCGATTGAAAAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTATT
1 AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTATT
* *
27023213 TATACTATTTGCTCAGAAACGTCAACTTGAAATTATTTTTTCAGGACCTACTGTAGCAA
66 TATACTATTGGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAA
* *
27023272 AAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTGTT
1 AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGT-AT
* *
27023337 TTATATTATTGGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTATCAA
65 TTATACTATTGGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAA
**
27023397 AAATGCGTCCACGTGGGAGCGATTTC
1 AAGCGCGTCCACGTGGGAGCGATTTC
27023423 CTTAATAAAT
Statistics
Matches: 140, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
124 59 0.42
125 81 0.58
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (124 bp):
AAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTATT
TATACTATTGGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAA
Found at i:27026615 original size:92 final size:91
Alignment explanation
Indices: 27026357--27026618 Score: 318
Period size: 92 Copynumber: 2.9 Consensus size: 91
27026347 CCAGTCTTCA
* * * *
27026357 ATCTGCTCTACTGTAACTTCAGAGAGATAAGAT-TG--ATTTAT-TTTTAACCTGTTCCATTGCA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATACTTTAATCTGTTCCACTGCA
* * **
27026418 ACTTCAGGGAGACAAGGTTTGATATG
66 ACTTCAGGGAAATAAGACTTGATATG
* * * *
27026444 ATCTGCACTACTGCAACTTCAGAGAGATAATG-TCCGTAATTTATAGCTTCAATCTGTTCCACTA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAA-GATCTGTAATTTATA-CTTTAATCTGTTCCACTG
** *
27026508 TGACTTCAGGAAAATAAGACTTGATATG
64 CAACTTCAGGGAAATAAGACTTGATATG
27026536 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGACTTTAATCTGTTCCACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAT-ACTTTAATCTGTTCCACTGC
*
27026601 AACTTTAGGGAAATAAGA
65 AACTTCAGGGAAATAAGA
27026619 TTCGTTATCT
Statistics
Matches: 144, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
87 29 0.20
88 2 0.01
90 6 0.04
91 1 0.01
92 105 0.73
93 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (91 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATACTTTAATCTGTTCCACTGCA
ACTTCAGGGAAATAAGACTTGATATG
Found at i:27026695 original size:44 final size:45
Alignment explanation
Indices: 27026588--27026709 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 45
27026578 ATGACTTTAA
* * *
27026588 TCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGTTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTAACTTCAG
* * *
27026633 TTTGCTCCACTGTAACTTCAGGGAAATAAGACTT-G-TAACTTTA-
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTCGTTAACTTCAG
*
27026676 TCCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 T-CTGCTCCACTGCAACTTCAGGGAAATAAGATT
27026710 AGTGGCTCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
43 3 0.05
44 33 0.50
45 28 0.42
46 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTAACTTCAG
Found at i:27026727 original size:44 final size:42
Alignment explanation
Indices: 27026593--27026753 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 42
27026583 TTTAATCTGT
* * *
27026593 TCCACTGCAACTTTAGGGAAATAAGATTCGTTATCTTCAGTTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATT-G-TAAC-TCAATTTGC
* ** *
27026638 TCCACTGTAACTTCAGGGAAATAAGACTTGTAACTTTATCCTGC
1 TCCACTGCAACTTCAGGGAAATAAGA-TTGTAACTCAAT-TTGC
* **
27026682 TCCACTGCAACTTCAGGGAGATAAGATTAGTGGCTCCAATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATT-GTAACT-CAATTTGC
* * **
27026726 TCCGCTGCAACTTTAGGGAGGTAAGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
27026754 CGCCGTGATG
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.04
44 62 0.65
45 27 0.28
46 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
TCCACTGCAACTTCAGGGAAATAAGATTGTAACTCAATTTGC
Found at i:27034834 original size:19 final size:20
Alignment explanation
Indices: 27034810--27034856 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
27034800 TTGTGAAACT
* *
27034810 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
27034829 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
27034849 -AATGCAAA
1 TAATGCAAA
27034857 AGAGGTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:27038394 original size:13 final size:13
Alignment explanation
Indices: 27038357--27038398 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
27038347 CATATCACTT
*
27038357 TAAT-ATCAATAT
1 TAATAATCAATAA
*
27038369 TAACAATCAAATAA
1 TAATAATC-AATAA
27038383 TAATAATCAATAA
1 TAATAATCAATAA
27038396 TAA
1 TAA
27038399 AATAAATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 11 0.44
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAATCAATAA
Found at i:27038615 original size:12 final size:12
Alignment explanation
Indices: 27038589--27038623 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
27038579 AAAATACATA
27038589 AATAGATAGTAAT
1 AATAGATA-TAAT
27038602 AATAGATATAAT
1 AATAGATATAAT
*
27038614 AATAAATATA
1 AATAGATATA
27038624 GTAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (12 bp):
AATAGATATAAT
Found at i:27040595 original size:21 final size:21
Alignment explanation
Indices: 27040569--27040614 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
27040559 TTCCACTAAC
27040569 TTTGGCTATTTGTGATTATGA
1 TTTGGCTATTTGTGATTATGA
*
27040590 TTTGGCTATTTGTGATTATGG
1 TTTGGCTATTTGTGATTATGA
27040611 TTTG
1 TTTG
27040615 ATTAGTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.04, G:0.26, T:0.54
Consensus pattern (21 bp):
TTTGGCTATTTGTGATTATGA
Found at i:27042173 original size:17 final size:18
Alignment explanation
Indices: 27042140--27042175 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27042130 TAATGAATAC
*
27042140 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
27042158 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
27042175 A
1 A
27042176 AAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:27044217 original size:57 final size:58
Alignment explanation
Indices: 27044156--27044273 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 58
27044146 TATTTCCAAG
* * * *
27044156 TCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGA-TTCT-ATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCACAATAATTTCCAAAT-ATTTCTCATTTCTCCATTT
* *
27044213 TCATTTTCGTTTAGGAGAAAACCATAATAATTTCCAAATATTTCTCATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCACAATAATTTCCAAATATTTCTCATTTCTCCATTT
27044271 TCA
1 TCA
27044274 CCATTCCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 1 0.02
57 37 0.70
58 15 0.28
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (58 bp):
TCATTTTCATTTAGGAGAAAACCACAATAATTTCCAAATATTTCTCATTTCTCCATTT
Found at i:27049283 original size:15 final size:16
Alignment explanation
Indices: 27049253--27049285 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27049243 AATTAAATAG
27049253 ATGTGAGATCAAGAAA
1 ATGTGAGATCAAGAAA
27049269 ATGTGAGAT-AAGAAA
1 ATGTGAGATCAAGAAA
27049284 AT
1 AT
27049286 CTCACAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.52, C:0.03, G:0.24, T:0.21
Consensus pattern (16 bp):
ATGTGAGATCAAGAAA
Found at i:27050430 original size:56 final size:54
Alignment explanation
Indices: 27050355--27050462 Score: 171
Period size: 56 Copynumber: 2.0 Consensus size: 54
27050345 AACAATTTTT
27050355 AACACCCTTTTTGACAGCTTAATTCCAATAATAAAGAACAATGGACAATAAACTA
1 AACACCCTTTTTGACAGCTTAATTCCAATAATAAAGAACAATGGACAA-AAACTA
* * *
27050410 AACACCCCTTTTTGATAGCTTAATTCCAATAGTAAATAACAATGGACAAAAAC
1 AACA-CCCTTTTTGACAGCTTAATTCCAATAATAAAGAACAATGGACAAAAAC
27050463 AATTAGACCT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
55 8 0.16
56 41 0.84
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.26
Consensus pattern (54 bp):
AACACCCTTTTTGACAGCTTAATTCCAATAATAAAGAACAATGGACAAAAACTA
Found at i:27050665 original size:69 final size:68
Alignment explanation
Indices: 27050542--27050796 Score: 366
Period size: 69 Copynumber: 3.7 Consensus size: 68
27050532 CATTGCAACC
* *
27050542 TCAATTGAAACATGTATTTTATACCAACGAAATGACATGATAATGTCCTAAAATGGATAACATTA
1 TCAATTGAAACATATATTTTATA-CAACGAAATGACATGATAATGTCCTAAAATGGACAACATTA
27050607 AACT
65 AACT
* * * * * * *
27050611 TCTATTGAAACGTACATTTTATACAATCGAAATGACATGATGATATCTTCAAATGGACAACATTA
1 TCAATTGAAACATATATTTTATACAA-CGAAATGACATGATAATGTCCTAAAATGGACAACATTA
27050676 AACT
65 AACT
*
27050680 TCAATTGAAACATATATTTTATACCACCGAAATGACATGATAATGTCCTAAAATGGACAACATTA
1 TCAATTGAAACATATATTTTATA-CAACGAAATGACATGATAATGTCCTAAAATGGACAACATTA
27050745 AACT
65 AACT
* *
27050749 TCAATTGAAACATATATTTTATACAACAAAAATGACATGAGAATGTCC
1 TCAATTGAAACATATATTTTATACAAC-GAAATGACATGATAATGTCC
27050797 AACTGTTACA
Statistics
Matches: 163, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
68 6 0.04
69 155 0.95
70 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (68 bp):
TCAATTGAAACATATATTTTATACAACGAAATGACATGATAATGTCCTAAAATGGACAACATTAA
ACT
Found at i:27054450 original size:25 final size:25
Alignment explanation
Indices: 27054394--27054450 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
27054384 TTTGGTCTTC
*
27054394 AGAGATTTCGCCAAAAAGGCTTTCT
1 AGAGATTTCGACAAAAAGGCTTTCT
* * *
27054419 AGGGATTTCGATAGAAAGGCTTT-T
1 AGAGATTTCGACAAAAAGGCTTTCT
27054443 AAGAGATT
1 -AGAGATT
27054451 CCTTGAGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (25 bp):
AGAGATTTCGACAAAAAGGCTTTCT
Found at i:27056063 original size:105 final size:105
Alignment explanation
Indices: 27055881--27056092 Score: 424
Period size: 105 Copynumber: 2.0 Consensus size: 105
27055871 ATCGTACTAT
27055881 CACAGTACACCAAAACAATTATTGGCCATACTTTACTCTCAAATCAGGTCCCCAAATTTTGGGGT
1 CACAGTACACCAAAACAATTATTGGCCATACTTTACTCTCAAATCAGGTCCCCAAATTTTGGGGT
27055946 GTGACACTCTAAATGTCTTTATGAAGCATATTAAACTTGG
66 GTGACACTCTAAATGTCTTTATGAAGCATATTAAACTTGG
27055986 CACAGTACACCAAAACAATTATTGGCCATACTTTACTCTCAAATCAGGTCCCCAAATTTTGGGGT
1 CACAGTACACCAAAACAATTATTGGCCATACTTTACTCTCAAATCAGGTCCCCAAATTTTGGGGT
27056051 GTGACACTCTAAATGTCTTTATGAAGCATATTAAACTTGG
66 GTGACACTCTAAATGTCTTTATGAAGCATATTAAACTTGG
27056091 CA
1 CA
27056093 TGTTACTTTG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (105 bp):
CACAGTACACCAAAACAATTATTGGCCATACTTTACTCTCAAATCAGGTCCCCAAATTTTGGGGT
GTGACACTCTAAATGTCTTTATGAAGCATATTAAACTTGG
Found at i:27060047 original size:18 final size:18
Alignment explanation
Indices: 27060024--27060064 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
27060014 TAATTGATAT
* *
27060024 GGAGGATATATTAGAGGA
1 GGAGGATACATGAGAGGA
*
27060042 GGAGGATACATGAGAGGT
1 GGAGGATACATGAGAGGA
27060060 GGAGG
1 GGAGG
27060065 TGGTGATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.46, T:0.17
Consensus pattern (18 bp):
GGAGGATACATGAGAGGA
Found at i:27061029 original size:14 final size:14
Alignment explanation
Indices: 27060991--27061033 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
27060981 TAAAATGTAC
27060991 AATATAATTAAA-T
1 AATATAATTAAATT
27061004 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
27061019 AA-ATAATTTAATT
1 AATATAATTAAATT
27061032 AA
1 AA
27061034 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:27063915 original size:53 final size:54
Alignment explanation
Indices: 27063774--27063937 Score: 276
Period size: 53 Copynumber: 3.0 Consensus size: 54
27063764 CTAATATGAG
* *
27063774 TTTATAAATATTTGGGTCAATACAAGATTCTTCTTTAGATTTTTGGGCTCTTTCA
1 TTTATAAATATTTGGGTC-ATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
*
27063829 TTTATAAATATTTGGGTCATGCAAGATTTTTCTTTAAATTTTTGGGCTCTTTCA
1 TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
*
27063883 TTTAT-AATATTTGGGTCATGCAATATTCTTCTTTAAATTTTTGGGCTCTTTCA
1 TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
27063936 TT
1 TT
27063938 ATTGTTTCTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
53 48 0.46
54 38 0.37
55 18 0.17
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (54 bp):
TTTATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCA
Found at i:27064096 original size:24 final size:23
Alignment explanation
Indices: 27064069--27064144 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 23
27064059 TTCATTGGAA
27064069 ATTTAACTATAAAGTACATGTCAT
1 ATTTAACTATAAAGTACAT-TCAT
* * * * *
27064093 ATTTAACTATAAATTTCGTTGGAA
1 ATTTAACTATAAAGTACATT-CAT
*
27064117 ATTTAACTATAAAGTACATTTAT
1 ATTTAACTATAAAGTACATTCAT
27064140 ATTTA
1 ATTTA
27064145 CTCAAGGGAC
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
23 7 0.17
24 34 0.83
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (23 bp):
ATTTAACTATAAAGTACATTCAT
Found at i:27064929 original size:19 final size:20
Alignment explanation
Indices: 27064907--27064946 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
27064897 AAACTTTTGA
27064907 TTACTT-TTTTCT-GTTTTTT
1 TTACTTCTTTT-TAGTTTTTT
27064926 TTACTTCTTTTTAGTTTTTT
1 TTACTTCTTTTTAGTTTTTT
27064946 T
1 T
27064947 GATTGAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (20 bp):
TTACTTCTTTTTAGTTTTTT
Found at i:27067746 original size:2 final size:2
Alignment explanation
Indices: 27067695--27067733 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
27067685 ATTATACTTG
27067695 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27067734 AAAATGATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27068107 original size:27 final size:28
Alignment explanation
Indices: 27068040--27068116 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 28
27068030 ATGTATAAAC
*
27068040 ATATATAGATTATAAAATATGGACAATGT
1 ATATATATATTATAAAATAT-GACAATGT
*
27068069 ATA-A-CTATTATAAAATAT-A-AATGT
1 ATATATATATTATAAAATATGACAATGT
27068093 ATATATATATATATAAAACTATGA
1 ATATATATAT-TATAAAA-TATGA
27068117 AAATAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 8 0.20
25 2 0.05
26 3 0.08
27 19 0.47
28 4 0.10
29 4 0.10
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (28 bp):
ATATATATATTATAAAATATGACAATGT
Found at i:27068227 original size:3 final size:3
Alignment explanation
Indices: 27068219--27068276 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
27068209 ATCTATAGGT
27068219 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27068267 ATA ATA ATA A
1 ATA ATA ATA A
27068277 AATGACAGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27077523 original size:19 final size:19
Alignment explanation
Indices: 27077496--27077535 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
27077486 AGCCATTTGG
*
27077496 CCTTGAACATTTGTTTCTT
1 CCTTGAACATATGTTTCTT
*
27077515 CCTTTAACATATGTTTCTT
1 CCTTGAACATATGTTTCTT
27077534 CC
1 CC
27077536 ATTATTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.07, T:0.50
Consensus pattern (19 bp):
CCTTGAACATATGTTTCTT
Found at i:27083078 original size:45 final size:45
Alignment explanation
Indices: 27082982--27083102 Score: 116
Period size: 45 Copynumber: 2.7 Consensus size: 45
27082972 TCAAAGGATG
* * * * *
27082982 CCATAACATCTTTTAGCTATGGTCTTAGTCTTGTTTACCATAATG
1 CCATAGCATCTTTTAGCTATGGTCTTACTCATATTTACCATAATA
* * * *
27083027 CCATAGCATCTTTTAGCCATGGTCTTACTCATATTTATCTTGATA
1 CCATAGCATCTTTTAGCTATGGTCTTACTCATATTTACCATAATA
* * * * *
27083072 CTATAGCGTCTTTCAACTATTGTCTTACTCA
1 CCATAGCATCTTTTAGCTATGGTCTTACTCA
27083103 GTTTAGGCGT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (45 bp):
CCATAGCATCTTTTAGCTATGGTCTTACTCATATTTACCATAATA
Found at i:27108160 original size:51 final size:51
Alignment explanation
Indices: 27107985--27108321 Score: 382
Period size: 51 Copynumber: 6.7 Consensus size: 51
27107975 TCATTCGATA
* * *
27107985 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATCTTTTCGGTT
* * *
27108035 CACGTAGTAGCCTTCACATAGTACTACA-ACGTGATCAAGT-TTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATCTTTTCGGTT
*
27108084 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATCTTTTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATCTTTTCGGTT
* * * * *
27108135 CACATAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATAGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATC-TTT-TCGGTT
* * * * *
27108186 CACGTAGTAGCCTTCACACAGTACTACACACGTGACTAAAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATCTTTTCGGTT
* * * * *
27108237 CACATTGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATC-TTT-TCGGTT
*
27108288 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
27108322 TTCATCGATA
Statistics
Matches: 244, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
49 54 0.22
50 43 0.18
51 143 0.59
52 2 0.01
53 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (51 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATCTTTTCGGTT
Found at i:27108217 original size:102 final size:102
Alignment explanation
Indices: 27107985--27108321 Score: 477
Period size: 102 Copynumber: 3.3 Consensus size: 102
27107975 TCATTCGATA
* * * * * *
27107985 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTACGGTTCACGTAGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTTTTCGGTACACATAGTAGCCTT
* * * *
27108049 CACATAGTACTACA-ACGTGATCA--AGTTT-TACGGTT
66 CACTTAGTACTACACATGTGACCATCA-TTTATA-GATT
*
27108084 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATCTTTTCGGTACACATAGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTTTTCGGTACACATAGTAGCCTT
27108149 CACTTAGTACTACACATGTGACCATCATTTATAGATT
66 CACTTAGTACTACACATGTGACCATCATTTATAGATT
* * * *
27108186 CACGTAGTAGCCTTCACACAGTACTACACACGTGACTAAAGCTTCTCGGTACACATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTTTTCGGTACACATAGTAGCCTT
*
27108251 CACTTAGTACTACACATGTGACCATCATTTATCGATT
66 CACTTAGTACTACACATGTGACCATCATTTATAGATT
27108288 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACACAGTACTACACACGTG
27108322 TTCATCGATA
Statistics
Matches: 218, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
99 39 0.18
100 33 0.15
101 7 0.03
102 136 0.62
103 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAATCTTTTCGGTACACATAGTAGCCTT
CACTTAGTACTACACATGTGACCATCATTTATAGATT
Found at i:27108274 original size:153 final size:149
Alignment explanation
Indices: 27107978--27108321 Score: 435
Period size: 153 Copynumber: 2.3 Consensus size: 149
27107968 ACTTTTATCA
* *
27107978 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGATTCACGTAGT
* * * * *
27108043 AGCCTTCACATAGTACTACAACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACATAGTAC
66 AGCCTTCACACAGTACTACAACGTGATAAAGTTCTACGGTACACATAGTAGCCTTCACATAGTAC
27108108 TACACACGTGACCAAATC-TT
131 TACACACGTGACC--ATCATT
* * * *
27108128 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TTTATA-GATTCACGT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA--AGTTT-TACGATTCACGT
* *
27108191 AGTAGCCTTCACACAGTACTACACACGTGACTAAAGCTTCT-CGGTACACATTGTAGCCTTCACT
63 AGTAGCCTTCACACAGTACTACA-ACGTGA-TAAAG-TTCTACGGTACACATAGTAGCCTTCACA
*
27108255 TAGTACTACACATGTGACCATCATT
125 TAGTACTACACACGTGACCATCATT
* *
27108280 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
27108322 TTCATCGATA
Statistics
Matches: 166, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
150 40 0.24
151 36 0.22
152 12 0.07
153 75 0.45
154 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (149 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACGATTCACGTAGT
AGCCTTCACACAGTACTACAACGTGATAAAGTTCTACGGTACACATAGTAGCCTTCACATAGTAC
TACACACGTGACCATCATT
Found at i:27108843 original size:30 final size:31
Alignment explanation
Indices: 27108789--27108847 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
27108779 GCTTCGACTC
27108789 AACTTTTGTCAAAATTACGATTTTGTCCCTA
1 AACTTTTGTCAAAATTACGATTTTGTCCCTA
*
27108820 AACTTTTG-CATAATTAC-ATTTTTGTCCC
1 AACTTTTGTCAAAATTACGA-TTTTGTCCC
27108848 CAAGCTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 17 0.65
31 8 0.31
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTTTTGTCAAAATTACGATTTTGTCCCTA
Found at i:27109706 original size:24 final size:24
Alignment explanation
Indices: 27109679--27109745 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
27109669 TCAGAATCAA
* ** *
27109679 ATACAAATGCATATTCAGATTTAG
1 ATACAAATGCAGACACAGACTTAG
*
27109703 ATACAAATGCAGACACAGGCTTAG
1 ATACAAATGCAGACACAGACTTAG
27109727 ATACAAATGCAGACACAGA
1 ATACAAATGCAGACACAGA
27109746 TCCTACCCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (24 bp):
ATACAAATGCAGACACAGACTTAG
Found at i:27113453 original size:18 final size:18
Alignment explanation
Indices: 27113414--27113457 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
27113404 CTTTGCATGT
*
27113414 TATTGATTTATTTTTATT
1 TATTGATTTATTTTTATA
27113432 TATTGATTTATTTGTT-TA
1 TATTGATTTATTT-TTATA
27113450 TATT-ATTT
1 TATTGATTT
27113458 CTATGCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 18 0.75
19 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
TATTGATTTATTTTTATA
Found at i:27125092 original size:37 final size:39
Alignment explanation
Indices: 27125050--27125583 Score: 197
Period size: 44 Copynumber: 12.6 Consensus size: 39
27125040 TTGAAAATAG
*
27125050 CAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATC-GA
1 CAGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCAGA
* * *
27125088 -AGATCTTGTCTTCCCATATTGGTGGCGAAGTTGATCAAAGAAA
1 CAGATCTTGTCTTCCTATATTGGTAG-GAAGTGGATC--AG--A
* * * * *
27125131 GCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATA
1 -CAGATCTTGTCTTCCTATATTGGTAGGAAGTGGATC--AG--A
* * *
27125175 GCATATCCTGTCTTCCTATATTGGTAGGGAGTGGATC-GA
1 -CAGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCAGA
* * * *
27125214 -AGATCTTGTCTTCCCATATTGGTGGTGAACTAGATCAAAGAAA
1 CAGATCTTGTCTTCCTATATTGGTAG-GAAGTGGATC--AG--A
* * * *
27125257 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATA
1 -CAGATCTTGTCTTCCTATATTGGTAG-GAAGTGGATC--AG--A
27125301 GCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGA
1 -CAGATCTTGTCTTCCTATATTGGTAG-GAAGTGGATC--AGA
* * * *
27125344 TGTAGATCTTGTCTTTCC-ATACTGGTGGCGAAGTAGATCGAAGAAA
1 --CAGATCTTGTC-TTCCTATATTGGTAG-GAAGTGGATC--AG--A
*
27125390 GCAGATCTTG-CATTCATATATTGGTAGGAAGTGGATC-GA
1 -CAGATCTTGTC-TTCCTATATTGGTAGGAAGTGGATCAGA
* * * *
27125429 -AGATTTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAA
1 CAGATCTTGTCTTCCTATATTGGTAG-GAAGTGGATC--AG--A
* * * *
27125472 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATA
1 -CAGATCTTGTCTTCCTATATTGGTAG-GAAGTGGATC--AG--A
*
27125516 GCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGA
1 -CAGATCTTGTCTTCCTATATTGGTAG-GAAGTGGATC--AGA
* *
27125559 TGCAGATCTTGTCTTCATGTATTGG
1 --CAGATCTTGTCTTCCTATATTGG
27125584 CGTGAAATAG
Statistics
Matches: 391, Mismatches: 72, Indels: 60
0.75 0.14 0.11
Matches are distributed among these distances:
37 62 0.16
38 26 0.07
39 2 0.01
41 5 0.01
43 5 0.01
44 185 0.47
45 105 0.27
46 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (39 bp):
CAGATCTTGTCTTCCTATATTGGTAGGAAGTGGATCAGA
Found at i:27125187 original size:126 final size:128
Alignment explanation
Indices: 27125046--27125833 Score: 692
Period size: 126 Copynumber: 6.1 Consensus size: 128
27125036 TAGGTTGAAA
27125046 ATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGA-AGATCTTGTCTTCCCATATTG
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGATAGATCTTGTCTTCCCATATTG
* *
27125109 GTGGCGAAGTTGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAG
66 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAG
* *
27125172 ATAGCATATCCTGTCTTCCTATATTGGTAG-GGAGTGGATCGA-AGATCTTGTCTTCCCATATTG
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGATAGATCTTGTCTTCCCATATTG
* * * *
27125235 GTGGTGAACTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
66 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAG
* *
27125298 ATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGTAGATCTTGTCTTTCCA
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATC---GA--TAGATCTTGTCTTCCCA
* * * * *
27125363 TACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTG-CATTCATATATTGGTAGGAAGTGGATC
61 TATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC-TTCATGTATTGGCATGAAGTAGATC
27125427 GAAG
125 GAAG
* * * * * **
27125431 AT------T-TTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATC---G--A-TAGATCTTGTCTTCCC
* * * * * * * * * *
27125489 GTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGAT
60 ATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGAT
27125553 CGAAG
124 CGAAG
* * * * * * * * *
27125558 AT-GCAGATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGA-AGAAATCAAATCCTATCTTTC
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGATAG--ATC---T--TGTCTTCC
* * * * * *
27125620 TATATTGGTAGCGAAGTGGATTGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
59 CATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGAT
27125685 CGAAG
124 CGAAG
* * * *
27125690 AAAGCAAATCCTGTCTTCCTATATTGGTAGCGAAGTGGATTGAAGATAGCAAATCTTATCTTCCC
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGA-T--CGATAG---ATCTTGTCTTCCC
* * ** * *
27125755 ATACTAGTGGCGAAGTAGATCGAAGAAAATAGATCTTATCTTCATGTATTGGCATGAAGTATATC
60 ATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
27125820 -AATG
125 GAA-G
*
27125824 ATAACAGATC
1 ATAGCAGATC
27125834 TTACCTACCT
Statistics
Matches: 546, Mismatches: 82, Indels: 60
0.79 0.12 0.09
Matches are distributed among these distances:
125 2 0.00
126 218 0.40
127 49 0.09
128 1 0.00
129 1 0.00
130 3 0.01
132 38 0.07
133 147 0.27
134 76 0.14
135 1 0.00
136 1 0.00
137 2 0.00
138 2 0.00
139 5 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (128 bp):
ATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGATAGATCTTGTCTTCCCATATTG
GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAG
Found at i:27125189 original size:44 final size:44
Alignment explanation
Indices: 27125114--27125878 Score: 460
Period size: 44 Copynumber: 17.5 Consensus size: 44
27125104 TATTGGTGGC
* * * *
27125114 GAAGTTGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCAT
* * *
27125158 GAAGTAGATCGAAGATAGCATATCCTGTCTTCCTATATTGG--T
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCAT
* * * * ** **
27125200 -AGGGAG-T-G--GATCGAAGATCTTGTCTTCCCATATTGGTGGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-CAT
* * * * *
27125240 GAACTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCAT
* * *
27125284 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCA-T
* * **
27125329 GAAGTGGATCGAAGAT-GTAGATCTTGTCTTTCCATACTGGTGGC--
1 GAAGTAGATCGAAGATAGCAGATCTTGTC-TT-CATA-TATTGGCAT
* * *
27125373 GAAGTAGATCGAAGAAAGCAGATCTTG-CATTCATATATTGGTAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTC-TTCATATATTGGCAT
* ** ***
27125417 GAAGTGGATCGAAGAT------T-TTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-CAT
* * * *
27125455 GAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCAT
* * * *
27125499 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCA-T
* * *
27125544 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCAT
* * * * * * * *
27125587 GAAATAGATCGAAGAAATCAAATCCTATCTTTC-TATATTGGTAGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTC-TTCATATATTGGCA-T
* * * *
27125632 GAAGTGGATTGAAGATAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCAT
* * * * * *
27125676 GAAGTAGATCGAAGAAAGCAAATCCTGTCTTCCTATATTGGTAGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCA-T
* * * * *
27125721 GAAGTGGATTGAAGATAGCAAATCTTATCTTCCCATACTAGTGGC--
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CATA-TATTGGCAT
* ** * *
27125766 GAAGTAGATCGAAGAAAATAGATCTTATCTTCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCAT
* * ** * * * *
27125810 GAAGTATATC-AATGATAACAGATCTTACCTACCTGTACTGGCAGT
1 GAAGTAGATCGAA-GATAGCAGATCTTGTCTTCATATATTGGCA-T
* *
27125855 GAAGTAGATCAAAAATAGCAGATC
1 GAAGTAGATCGAAGATAGCAGATC
27125879 ATATCCAGTC
Statistics
Matches: 548, Mismatches: 135, Indels: 75
0.72 0.18 0.10
Matches are distributed among these distances:
37 36 0.07
38 15 0.03
39 1 0.00
40 2 0.00
41 7 0.01
42 12 0.02
43 22 0.04
44 258 0.47
45 178 0.32
46 5 0.01
47 7 0.01
48 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCAT
Found at i:27125377 original size:89 final size:88
Alignment explanation
Indices: 27125284--27125781 Score: 491
Period size: 89 Copynumber: 5.7 Consensus size: 88
27125274 GTATTGGCGT
* * * * * *
27125284 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGTAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGAAGTAA
* * *
27125349 ATCTTGTCTTTCCATACTGGTGGC
65 ATCCTGTCTTTCCATATTGGTAGC
* * *
27125373 GAAGTAGATCGAAGAAAGCAGATCTTG-CATTCATATATTGGTAG-GAAGTGGATCGAAG-A-T-
1 GAAGTAGATCGAAGATAGCAGATCTTGTC-TTCATATATTGG-CGTGAAGTAGATCGAAGAAGTA
* * *
27125433 --T-TTGTCTTCCCATATTGGTGGC
64 AATCCTGTCTTTCCATATTGGTAGC
* * * * *
27125455 GAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGA-AGTAA
27125520 ATCCTGTC-TTCCTATATTGGTAGC
65 ATCCTGTCTTTCC-ATATTGGTAGC
* * * *
27125544 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAAATCAA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAGT-AA
* *
27125608 ATCCTATCTTTCTATATTGGTAGC
65 ATCCTGTCTTTCCATATTGGTAGC
* * * *
27125632 GAAGTGGATTGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAG-AAGTAA
27125697 ATCCTGTC-TTCCTATATTGGTAGC
65 ATCCTGTCTTTCC-ATATTGGTAGC
* * * * *
27125721 GAAGTGGATTGAAGATAGCAAATCTTATCTTCCCATACTAGTGGC--GAAGTAGATCGAAGAA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTT--CATA-TATTGGCGTGAAGTAGATCGAAGAA
27125782 AATAGATCTT
Statistics
Matches: 358, Mismatches: 32, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
81 1 0.00
82 69 0.19
83 2 0.01
84 1 0.00
86 1 0.00
87 1 0.00
88 97 0.27
89 161 0.45
90 16 0.04
91 3 0.01
92 6 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (88 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGAAGTAAA
TCCTGTCTTTCCATATTGGTAGC
Found at i:27125412 original size:215 final size:214
Alignment explanation
Indices: 27125088--27125647 Score: 779
Period size: 215 Copynumber: 2.6 Consensus size: 214
27125078 AGTGGATCGA
* * * * * * *
27125088 AGATCTTGTCTTCCCATATTGGTGGCGAAGTTGATCAAAGAAAGCAGATCTTGTC-TTCATGTAT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTTCATCTAG
* * * *
27125152 TGGCATGAAGTAGATCGAAGATAGCATATCCTGTCTTCCTATATTGGTAGGGAGTGGATCGAAGA
65 TGGCA-GAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATATTGGTAGGAAGTGGATCGAAGA
*
27125217 TCTTGTCTTCCCATATTGGTGGTGAACTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGC
129 TCTTGTCTTCCCATATTGGTGGCGAACTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGC
27125282 GTGAAGTAGATCGAAGATAGC
194 GTGAAGTAGATCGAAGATAGC
* *
27125303 AGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGTAGATCTTGTCTTTCCATACTG
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTT-CAT-CTA
*
27125368 GTGGC-GAAGTAGATCGAAGAAAGCAGATCTTG-CATTCATATATTGGTAGGAAGTGGATCGAAG
64 GTGGCAGAAGTAGATCGAAGAAAGCAGATCCTGTC-TTCATATATTGGTAGGAAGTGGATCGAAG
* *
27125431 ATTTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
128 ATCTTGTCTTCCCATATTGGTGGCGAACTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGG
27125496 CGTGAAGTAGATCGAAGATAGC
193 CGTGAAGTAGATCGAAGATAGC
* * *
27125518 AGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTC-TTCATGTATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTTCATCTAGT
* * * * * *
27125582 GGCGTGAAATAGATCGAAGAAATCAAATCCTATCTTTC-TATATTGGTAGCGAAGTGGATTGAAG
66 GGC-AGAAGTAGATCGAAGAAAGCAGATCCTGTC-TTCATATATTGGTAG-GAAGTGGATCGAAG
27125646 AT
128 AT
27125648 AGCAGATCTT
Statistics
Matches: 308, Mismatches: 29, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
212 5 0.02
213 3 0.01
214 48 0.16
215 244 0.79
216 3 0.01
217 5 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (214 bp):
AGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTTCATCTAGT
GGCAGAAGTAGATCGAAGAAAGCAGATCCTGTCTTCATATATTGGTAGGAAGTGGATCGAAGATC
TTGTCTTCCCATATTGGTGGCGAACTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
GAAGTAGATCGAAGATAGC
Found at i:27128082 original size:14 final size:14
Alignment explanation
Indices: 27128063--27128090 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27128053 GCTTTGCATG
27128063 TTATTGATTTATTT
1 TTATTGATTTATTT
27128077 TTATTGATTTATTT
1 TTATTGATTTATTT
27128091 ATTTGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
TTATTGATTTATTT
Found at i:27149483 original size:2 final size:2
Alignment explanation
Indices: 27149476--27149501 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27149466 CAGAATCAAG
27149476 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
27149502 GGAATGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27155752 original size:95 final size:95
Alignment explanation
Indices: 27155589--27156381 Score: 948
Period size: 95 Copynumber: 8.4 Consensus size: 95
27155579 TTAGTTTATT
* * * * *
27155589 TATCATGAAAAATCTTCTCTAAGTTAGCTGATTGAATATCACTGCTCCAAACAGCTCGCTAATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCGCTAATTT
*
27155654 AAGATCACAAGTTAAGTTCATTTGATTTAC
66 AAGATCACAAGCTAAGTTCATTTGATTTAC
* * * * * **
27155684 TATCATGAACAATCTTCTCTAAGTTAGCTTACTTAATATCACTGCTCCAAGCAACTCGCTAATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCGCTAATTT
* *
27155749 AAGATCAC-AGCTTAAGTTTATTTGATTTTC
66 AAGATCACAAGC-TAAGTTCATTTGATTTAC
* * * * * * *
27155779 TATTATAAACAATCATCTCTAAGTTAGCTGATTTAATATTGCTGCTCCAAACGGTTCGCTGATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCGCTAATTT
* * *
27155844 AAGATCACAACCGAAGTTCATTTAATTTAC
66 AAGATCACAAGCTAAGTTCATTTGATTTAC
* *
27155874 TATCATGAACAATCTTCTCTGAGTTAACTGATTTAATATCGCTGCTCCAAACGGCTCACTAATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCGCTAATTT
* *
27155939 AAGATCA-TAGCTTGAGTTCATTTGATTTAC
66 AAGATCACAAGC-TAAGTTCATTTGATTTAC
* * * * * *
27155969 TATCATGAACAATCTTCTTTGAGTTAACTGATTTAATATCGCTACTCCAAATGGCTCACTCATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCGCTAATTT
**
27156034 AAGATC-GTAGCCTAAGTTCATTTGATTTAC
66 AAGATCACAAG-CTAAGTTCATTTGATTTAC
* * * * *
27156064 TATCATGAACAATCTTCTTTGAGTTAGTTTATTTAATATTGTTGCTCCAAACGGCTCGCTAATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCGCTAATTT
* *
27156129 AAGATCACAATCTAAGTTCATTTGATATAC
66 AAGATCACAAGCTAAGTTCATTTGATTTAC
* *
27156159 TATCATGACCAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGACTCGCTAATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCGCTAATTT
* * *
27156224 AAGATCGCAACCTAATTTCATTTGATTTAC
66 AAGATCACAAGCTAAGTTCATTTGATTTAC
* * * * * **
27156254 TATCATGAATAGTCTTCTCTGAGTTA-CTTGAATTAATATCTCTGCTTCAAACAACTCGCTAATT
1 TATCATGAACAATCTTCTCTGAGTTAGC-TGATTTAATATCGCTGCTCCAAACGGCTCGCTAATT
** * *
27156318 TAAGATTGCAA-CTAAGTTCATTTTATTTAT
65 TAAGATCACAAGCTAAGTTCATTTGATTTAC
* * *
27156348 TATCATGAAAAATCTTATCTGAGTTAGTTGATTT
1 TATCATGAACAATCTTCTCTGAGTTAGCTGATTT
27156382 CCAAACCACC
Statistics
Matches: 605, Mismatches: 85, Indels: 17
0.86 0.12 0.02
Matches are distributed among these distances:
94 49 0.08
95 552 0.91
96 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (95 bp):
TATCATGAACAATCTTCTCTGAGTTAGCTGATTTAATATCGCTGCTCCAAACGGCTCGCTAATTT
AAGATCACAAGCTAAGTTCATTTGATTTAC
Found at i:27158171 original size:6 final size:6
Alignment explanation
Indices: 27158155--27158185 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
27158145 TATGTTTCCA
*
27158155 AAAATG GAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG A
27158186 TCCGTTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:27158391 original size:27 final size:26
Alignment explanation
Indices: 27158332--27158404 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
27158322 TATTTTCTTG
* * *
27158332 AAATTTTA-CAAGGGGAAAAATTGTTA
1 AAATTTTACCAA-GGGTAAAATCGTAA
27158358 AAATTTTACCAAGGGTAAAATCGTAA
1 AAATTTTACCAAGGGTAAAATCGTAA
* *
27158384 AAATTTTTCTAAGGGTAAAAT
1 AAATTTTACCAAGGGTAAAAT
27158405 AGGGATGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 38 0.93
27 3 0.07
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCGTAA
Found at i:27159570 original size:8 final size:8
Alignment explanation
Indices: 27159557--27159588 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
27159547 AAGGTATGAG
27159557 TATGTATA
1 TATGTATA
27159565 TATG--TA
1 TATGTATA
27159571 TATGTATA
1 TATGTATA
27159579 TATGTATA
1 TATGTATA
27159587 TA
1 TA
27159589 ATGCTCGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
TATGTATA
Found at i:27159574 original size:14 final size:14
Alignment explanation
Indices: 27159557--27159587 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
27159547 AAGGTATGAG
27159557 TATGTATATATGTA
1 TATGTATATATGTA
27159571 TATGTATATATGTA
1 TATGTATATATGTA
27159585 TAT
1 TAT
27159588 AATGCTCGAA
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:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (14 bp):
TATGTATATATGTA
Found at i:27159839 original size:75 final size:75
Alignment explanation
Indices: 27159707--27159847 Score: 178
Period size: 75 Copynumber: 1.9 Consensus size: 75
27159697 GCTTACATAT
* * * * *
27159707 ATGTATATGTTCTTTTATTGAATTTAGGAAGGACATTTATATAATTTTATATGAGATTCAATTAT
1 ATGTATATGTTCTTGTAATGAATTTAAGAAGGAAATTTATATAATTGTATATGAGATTCAATTAT
27159772 GCAGGTATAC
66 GCAGGTATAC
* * *
27159782 ATGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATAT-A-TGTATATGGAAGATTCGATT
1 ATGTATATGTTCTTGTAATGAATTTAAGAAGGAAATTTATATAATTGTATAT-G-AGATTCAATT
27159845 ATG
64 ATG
27159848 TATATATATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
73 6 0.11
74 2 0.04
75 48 0.86
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (75 bp):
ATGTATATGTTCTTGTAATGAATTTAAGAAGGAAATTTATATAATTGTATATGAGATTCAATTAT
GCAGGTATAC
Found at i:27159977 original size:41 final size:41
Alignment explanation
Indices: 27159929--27160035 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
27159919 TGATCGAATG
* * * * *
27159929 TTTCAGACTTTACGTCTAGCAGGTTTGATGCCGGTGAAATA
1 TTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGATGAAACA
* *
27159970 TTTCAGACTTTATGTCTAGCTGGCTTAATGCCGATGAAACA
1 TTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGATGAAACA
* * *
27160011 ATTCGGACTATAAGTCTAGCAGGCT
1 TTTCAGACTTTAAGTCTAGCAGGCT
27160036 AAAAGCTGGT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGATGAAACA
Found at i:27160240 original size:69 final size:67
Alignment explanation
Indices: 27160160--27160379 Score: 259
Period size: 63 Copynumber: 3.2 Consensus size: 67
27160150 TTGAAGAACA
* *
27160160 TGTATATACATTCGGTGATAATACTTGTTAGGCATATGTATATATGCATTCAGCTATTCATGTTT
1 TGTATATACATTCGGTGATAATATTTGTTA-GCATATGTATATA-GCATTCGGCTATTCATGTTT
27160225 AAAG
64 AAAG
* * *
27160229 TGTATATACATTCGGTGATAAAATTTGTT---ATGTGTATA-AGCATTCGGCTATTTATGTTTAA
1 TGTATATACATTCGGTGATAATATTTGTTAGCATATGTATATAGCATTCGGCTATTCATGTTTAA
27160290 AG
66 AG
* * *
27160292 TGTATATACATTCGATGATAATATTTGTTAAGCATATATGTATATACACATTCGGCTATTCAAGT
1 TGTATATACATTCGGTGATAATATTTGTT-AGC--ATATGTATATA-GCATTCGGCTATTCATG-
*
27160357 TTTAAAT
61 TTTAAAG
*
27160364 TGTATATGCATTCGGT
1 TGTATATACATTCGGT
27160380 TTTAAGTGTT
Statistics
Matches: 128, Mismatches: 14, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
63 49 0.38
64 1 0.01
65 8 0.06
69 35 0.27
70 1 0.01
71 14 0.11
72 20 0.16
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (67 bp):
TGTATATACATTCGGTGATAATATTTGTTAGCATATGTATATAGCATTCGGCTATTCATGTTTAA
AG
Found at i:27160241 original size:31 final size:30
Alignment explanation
Indices: 27160200--27160305 Score: 81
Period size: 31 Copynumber: 3.4 Consensus size: 30
27160190 GGCATATGTA
* *
27160200 TATATGCATTCAGCTATTCATGTTTAAAGTG
1 TATATACATTC-GCTATTAATGTTTAAAGTG
* * * *
27160231 TATATACATTCGGTGATAAAAT-TTGTTATGTG
1 TATATACATTCGCT-AT-TAATGTT-TAAAGTG
*
27160263 TATA-AGCATTCGGCTATTTATGTTTAAAGTG
1 TATATA-CATTC-GCTATTAATGTTTAAAGTG
27160294 TATATACATTCG
1 TATATACATTCG
27160306 ATGATAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
30 3 0.05
31 31 0.54
32 21 0.37
33 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (30 bp):
TATATACATTCGCTATTAATGTTTAAAGTG
Found at i:27160501 original size:2 final size:2
Alignment explanation
Indices: 27160494--27160534 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
27160484 GCATGTTGTT
27160494 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27160535 GTACTCATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27166909 original size:45 final size:45
Alignment explanation
Indices: 27166858--27166944 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
27166848 TTAAACAAAA
* * *
27166858 CTAACTTCATATATTTAAATATTCCACAAGTTTGTTTGATTAGTC
1 CTAACTTCATAAACTTAAATATTCCACAAGCTTGTTTGATTAGTC
27166903 CTAACTTCATAAACTTAAATATTCCACAAGCTTGTTTGATTA
1 CTAACTTCATAAACTTAAATATTCCACAAGCTTGTTTGATTA
27166945 CTCTTATGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.41
Consensus pattern (45 bp):
CTAACTTCATAAACTTAAATATTCCACAAGCTTGTTTGATTAGTC
Found at i:27172894 original size:38 final size:38
Alignment explanation
Indices: 27172843--27172920 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
27172833 CGAATCCAAA
27172843 AGTTCACCACATACGCCTCCCCAATCAACAAAGTGAAC
1 AGTTCACCACATACGCCTCCCCAATCAACAAAGTGAAC
27172881 AGTTCACCACATACGCCTCCCCAATCAACAAAGTGAAC
1 AGTTCACCACATACGCCTCCCCAATCAACAAAGTGAAC
27172919 AG
1 AG
27172921 ACCCGATGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.36, G:0.12, T:0.15
Consensus pattern (38 bp):
AGTTCACCACATACGCCTCCCCAATCAACAAAGTGAAC
Found at i:27174527 original size:8 final size:8
Alignment explanation
Indices: 27174508--27174548 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
27174498 TTTCATATAT
27174508 ATTATT-A
1 ATTATTAA
27174515 ATTATTAA
1 ATTATTAA
27174523 ATTATTATA
1 ATTATTA-A
27174532 A-TATTAAA
1 ATTATT-AA
27174540 ATTATTAA
1 ATTATTAA
27174548 A
1 A
27174549 ATTAATTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 6 0.20
8 17 0.57
9 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
ATTATTAA
Found at i:27174541 original size:17 final size:15
Alignment explanation
Indices: 27174508--27174557 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
27174498 TTTCATATAT
*
27174508 ATTATTAATTATTAA
1 ATTATTAAATATTAA
27174523 ATTATTATAATATTAAA
1 ATTATTA-AATATT-AA
27174540 ATTATTAAA-ATT-A
1 ATTATTAAATATTAA
27174553 ATTAT
1 ATTAT
27174558 ATATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.19
15 10 0.31
16 7 0.22
17 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATTAAATATTAA
Found at i:27176351 original size:11 final size:11
Alignment explanation
Indices: 27176323--27176358 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
27176313 AAAACTAATA
27176323 TTTATTTTCAT
1 TTTATTTTCAT
*
27176334 TTT-TTTTTAT
1 TTTATTTTCAT
27176344 TTTATTTTCAT
1 TTTATTTTCAT
27176355 TTTA
1 TTTA
27176359 GTGCTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTTTCAT
Found at i:27185471 original size:21 final size:21
Alignment explanation
Indices: 27185445--27185484 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
27185435 ACCAATCATG
27185445 AGATGATTGTAATTACATATA
1 AGATGATTGTAATTACATATA
27185466 AGATGATTGTAATTACATA
1 AGATGATTGTAATTACATA
27185485 CTCGTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (21 bp):
AGATGATTGTAATTACATATA
Found at i:27188700 original size:25 final size:25
Alignment explanation
Indices: 27188665--27188716 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
27188655 AAGGTTATCA
* *
27188665 ATTTATGGCTCGTGAGAGCATACCG
1 ATTTATAGCTCATGAGAGCATACCG
27188690 ATTTATAGCTCATGAGAGCATACCG
1 ATTTATAGCTCATGAGAGCATACCG
27188715 AT
1 AT
27188717 CTTCAGCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (25 bp):
ATTTATAGCTCATGAGAGCATACCG
Found at i:27188724 original size:25 final size:25
Alignment explanation
Indices: 27188672--27188726 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
27188662 TCAATTTATG
* *
27188672 GCTCGTGAGAGCATACCGATTTATA
1 GCTCATGAGAGCATACCGATTTACA
27188697 GCTCATGAGAGCATACCGATCTT-CA
1 GCTCATGAGAGCATACCGAT-TTACA
27188722 GCTCA
1 GCTCA
27188727 AATGACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCATGAGAGCATACCGATTTACA
Found at i:27192203 original size:16 final size:17
Alignment explanation
Indices: 27192170--27192212 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
27192160 TATTTCTTAA
*
27192170 TTTTTACTTTATTACCT
1 TTTTTAATTTATTACCT
27192187 TTTTTAATTTATT-CCT
1 TTTTTAATTTATTACCT
*
27192203 TATTT-ATTTA
1 TTTTTAATTTA
27192213 ATTATAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 12 0.50
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAATTTATTACCT
Found at i:27192458 original size:29 final size:28
Alignment explanation
Indices: 27192399--27192467 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
27192389 TAATAACAGT
* *
27192399 TTTAAATTAAAACAAAAAAGGAAATGAC
1 TTTAAATTAAAAAAAAAAAGGAAAAGAC
* *
27192427 TTTAATTTCAAAAAAAAAAAGGAAAAGGC
1 TTTAAATT-AAAAAAAAAAAGGAAAAGAC
27192456 TTTCAAA-TAAAA
1 TTT-AAATTAAAA
27192468 TAAGTAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 11 0.32
29 21 0.62
30 2 0.06
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.23
Consensus pattern (28 bp):
TTTAAATTAAAAAAAAAAAGGAAAAGAC
Found at i:27196946 original size:42 final size:42
Alignment explanation
Indices: 27196898--27196995 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
27196888 TCTCGGTATT
*
27196898 GCACACTTAGTGCCCGTTATACAACATCATCATTTTAATTTC
1 GCACACTTAGTGCCCATTATACAACATCATCATTTTAATTTC
* *
27196940 GCACACTTAGTGCCCATTATCCAACATCATTATTTTAATTTC
1 GCACACTTAGTGCCCATTATACAACATCATCATTTTAATTTC
27196982 GCACACTTAGTGCC
1 GCACACTTAGTGCC
27196996 ATTCATATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (42 bp):
GCACACTTAGTGCCCATTATACAACATCATCATTTTAATTTC
Found at i:27197900 original size:16 final size:17
Alignment explanation
Indices: 27197867--27197900 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27197857 TATAAAGTTA
*
27197867 ATATTTACCTTATTACT
1 ATATTAACCTTATTACT
27197884 ATATTAACCTT-TTACT
1 ATATTAACCTTATTACT
27197900 A
1 A
27197901 ATAATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAACCTTATTACT
Found at i:27203063 original size:2 final size:2
Alignment explanation
Indices: 27203026--27203052 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27203016 GAAAAGAATG
27203026 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 A
27203053 AAATGATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27206739 original size:23 final size:22
Alignment explanation
Indices: 27206713--27206768 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
27206703 ATAACCTTTA
27206713 TTTTATAAATTTTGTTCA-TAATT
1 TTTTATAAATTTT-TTCATTAA-T
* *
27206736 TTTTATAACTTTTTTTATTAAT
1 TTTTATAAATTTTTTCATTAAT
27206758 TTTTA-AAATTT
1 TTTTATAAATTT
27206769 AAAAGGGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 9 0.31
23 15 0.52
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTATAAATTTTTTCATTAAT
Found at i:27206761 original size:13 final size:12
Alignment explanation
Indices: 27206698--27206753 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
27206688 AAATTTTAAA
27206698 TTTTTATAACCTT
1 TTTTTATAA-CTT
*
27206711 TATTTTATAAATT
1 T-TTTTATAACTT
*
27206724 TTGTTCATAA--T
1 TT-TTTATAACTT
27206735 TTTTTATAACTT
1 TTTTTATAACTT
27206747 TTTTTAT
1 TTTTTAT
27206754 TAATTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 9 0.25
13 10 0.28
14 8 0.22
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (12 bp):
TTTTTATAACTT
Found at i:27207467 original size:17 final size:18
Alignment explanation
Indices: 27207445--27207487 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
27207435 ATAAAATTAC
27207445 ATAAAAAAATT-TAAAAT
1 ATAAAAAAATTATAAAAT
*
27207462 ATAAAAGAAATTATAAATT
1 ATAAAA-AAATTATAAAAT
27207481 ATAAAAA
1 ATAAAAA
27207488 TATATGTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAAAATTATAAAAT
Found at i:27207479 original size:18 final size:18
Alignment explanation
Indices: 27207445--27207487 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
27207435 ATAAAATTAC
27207445 ATAAAAAAATTTAAAA-T
1 ATAAAAAAATTTAAAATT
27207462 ATAAAAGAAA-TTATAAATT
1 ATAAAA-AAATTTA-AAATT
27207481 ATAAAAA
1 ATAAAAA
27207488 TATATGTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.39
18 7 0.30
19 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
ATAAAAAAATTTAAAATT
Found at i:27211429 original size:16 final size:16
Alignment explanation
Indices: 27211408--27211438 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27211398 TTCACTATTA
*
27211408 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
27211424 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
27211439 GCATGCATAG
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:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:27213964 original size:12 final size:14
Alignment explanation
Indices: 27213947--27214013 Score: 93
Period size: 14 Copynumber: 4.9 Consensus size: 14
27213937 ATTAAAAATT
27213947 TAAATA-AT-TATA
1 TAAATATATATATA
27213959 TAAATATATATATA
1 TAAATATATATATA
*
27213973 TATATATATATATA
1 TAAATATATATATA
*
27213987 TATATATATATATA
1 TAAATATATATATA
*
27214001 TATATATATATAT
1 TAAATATATATAT
27214014 GTAAGATGTC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
12 6 0.12
13 2 0.04
14 44 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:27213967 original size:2 final size:2
Alignment explanation
Indices: 27213955--27214013 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
27213945 TTTAAATAAT
*
27213955 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27213997 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
27214014 GTAAGATGTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27218176 original size:14 final size:14
Alignment explanation
Indices: 27218157--27218183 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27218147 AAAGAACTCA
27218157 GATATTTCTATCAT
1 GATATTTCTATCAT
27218171 GATATTTCTATCA
1 GATATTTCTATCA
27218184 GATTTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (14 bp):
GATATTTCTATCAT
Found at i:27218355 original size:15 final size:15
Alignment explanation
Indices: 27218335--27218368 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
27218325 TTTTGACAGA
27218335 AGAAAGATGAAGTGT
1 AGAAAGATGAAGTGT
27218350 AGAAAGATGAAGTGT
1 AGAAAGATGAAGTGT
27218365 AGAA
1 AGAA
27218369 GCAAGGTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.32, T:0.18
Consensus pattern (15 bp):
AGAAAGATGAAGTGT
Found at i:27222126 original size:50 final size:49
Alignment explanation
Indices: 27222061--27222637 Score: 271
Period size: 50 Copynumber: 11.5 Consensus size: 49
27222051 TTTGGAAAGT
* *
27222061 AAGATTCGCCATTGTGG-TTTCAATCTTTTTAACTGCAATGTCAGGGAAGC
1 AAGATTCACCGTTGTGGCTTT-AATCTTTTTAACTGCAATGTC-GGGAAGC
* * ** ** *
27222111 AAGATCCACCGTTGTGGCTTTAATCTATTCCACTGCACCGTCTGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGC
*** *
27222161 AAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGAAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGG-AAGC
* * *** ** * * *
27222211 AAGATTCACCGATGTGGCTTTAATCTGTTCCTCTGCACCGCTTGGGGAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATG-TCGGGAAGC
* * * * * *
27222261 AAGATTCACTGCTGTAGCTTTAATCTTTTTAACTGTAATTTCGGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGC
* * * * ** *** *
27222311 GAGATTCACCGATGTGACTTTAAT-TTGCTCCACTGCACCA-CAAGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTT-TTTAACTGCA--ATGTCGGGAAGC
* * * *
27222361 AGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTACAATGTCAGGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGC
* * * ** *** ** * *
27222411 GAGATTCACTGATGTGGCTTTAATCTGCTCCGCTGCACCGCCAGGGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTC-GGGAAGC
* * ** * *
27222461 AGGATTCGCCACTGTGGCTTTAATCTTTTTAACTGAAATGTTGAGGAAGC
1 AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG-GGAAGC
* * * * * * ** * ** *
27222511 GAGATTCTCTGATGTGGCTTTAATCTGCTCT-ACTGCACCGCCAAAGAAGT
1 AAGATTCACCGTTGTGGCTTTAATCT-TTTTAACTGCAATGTC-GGGAAGC
* * * *
27222561 AGGATTCACCGCTGTGGCTTTAATCTTTTTTAACTACAATGTCGGGGAAAC
1 AAGATTCACCGTTGTGGCTTTAATC-TTTTTAACTGCAATGTC-GGGAAGC
* *
27222612 GAGATTCACCGATGTGGCTTTAATCT
1 AAGATTCACCGTTGTGGCTTTAATCT
27222638 GCTCTACTGC
Statistics
Matches: 372, Mismatches: 140, Indels: 30
0.69 0.26 0.06
Matches are distributed among these distances:
48 1 0.00
49 7 0.02
50 319 0.86
51 44 0.12
52 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (49 bp):
AAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGAAGC
Found at i:27222230 original size:100 final size:100
Alignment explanation
Indices: 27222057--27222666 Score: 704
Period size: 100 Copynumber: 6.1 Consensus size: 100
27222047 AACTTTTGGA
* ** * *
27222057 AAGTAAGATTCGCCATTGTGG-TTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATCCACC
1 AAGTAGGATTCGCCGCTGTGGCTTT-AATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACC
* ** * *
27222121 GTTGTGGCTTTAATCTATTCCACTGCACCGTCTGGG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* ** * * *
27222157 AAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC-GGGAAAGCAAGATTCACC
1 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGG-AAGCGAGATTCACC
* * **
27222221 GATGTGGCTTTAATCTGTTCCTCTGCACCGCTTGGG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* * * * * * * * *
27222257 GAGTAAGATTCACTGCTGTAGCTTTAATCTTTTTAACTGTAATTTCGGGGAAGTGAGATTCACCG
1 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCG
* * * *
27222322 ATGTGACTTTAATTTGCTCCACTGCACCACAAGGG
66 ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* *
27222357 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTACAATGTCAGGGAAGCGAGATTCACTG
1 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCG
*
27222422 ATGTGGCTTTAATCTGCTCCGCTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* * * * *
27222457 AAGTAGGATTCGCCACTGTGGCTTTAATCTTTTTAACTGAAATGT-TGAGGAAGCGAGATTCTCT
1 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAG-GGAAGCGAGATTCACC
* **
27222521 GATGTGGCTTTAATCTGCTCTACTGCACCGCCAAAG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* * * *
27222557 AAGTAGGATTCACCGCTGTGGCTTTAATCTTTTTTAACTACAATGTCGGGGAAACGAGATTCACC
1 AAGTAGGATTCGCCGCTGTGGCTTTAATC-TTTTTAACTGCAATGTCAGGGAAGCGAGATTCACC
* * *
27222622 GATGTGGCTTTAATCTGCTCTACTGCACCACCAAGG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
27222658 AAGTAGGAT
1 AAGTAGGAT
27222667 CTGTAATTCT
Statistics
Matches: 444, Mismatches: 60, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
99 4 0.01
100 363 0.82
101 76 0.17
102 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCGAGATTCACCG
ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
Found at i:27224064 original size:8 final size:7
Alignment explanation
Indices: 27224053--27224093 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
27224043 CTATTTTTAC
27224053 TTTTTCA
1 TTTTTCA
27224060 TTTTTTCA
1 -TTTTTCA
27224068 TTTTTCA
1 TTTTTCA
27224075 -TTTTCA
1 TTTTTCA
27224081 TTTTTCA
1 TTTTTCA
27224088 TCTTTT
1 T-TTTT
27224094 TTTTTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 14 0.45
8 11 0.35
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:27224078 original size:13 final size:13
Alignment explanation
Indices: 27224062--27224088 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27224052 CTTTTTCATT
27224062 TTTTCATTTTTCA
1 TTTTCATTTTTCA
27224075 TTTTCATTTTTCA
1 TTTTCATTTTTCA
27224088 T
1 T
27224089 CTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Done.