Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 3 of 77
Found at i:387535 original size:84 final size:83
Alignment explanation
Indices: 387125--387610 Score: 732
Period size: 84 Copynumber: 5.8 Consensus size: 83
387115 AAGGCTCAAA
*
387125 GACTTTGAAAAACATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGAGTAAATTGC
1 GACTTTGAAAAA-GTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG-AA-AGTAAATTGC
*
387190 TCCTCTAAATAGAGGCACCAC
63 TCCTCTAAACAGAGGCACCAC
* *
387211 GACTTTGGAAAGAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAGTAAATTGCTC
1 GACTTT-GAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTC
387276 CTCTAAACAGAGGCACCAC
65 CTCTAAACAGAGGCACCAC
*
387295 GACTTTGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAAT
1 GACTTTGA------AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
*
387360 TGCTCCTCTAAACAAAGGCACCAC
60 TGCTCCTCTAAACAGAGGCACCAC
*
387384 GACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCC
1 GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCC
387448 TCTAAACAGAGGCACCAC
66 TCTAAACAGAGGCACCAC
* *
387466 GACTTTGAAAAGAGTAAATTGCTCCTCTAAACAGAGGTACCACAACTTTGGAAAGTAAATTGCTC
1 GACTTTGAAAA-AGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTC
387531 CTCTAAACAGAGGCACCAC
65 CTCTAAACAGAGGCACCAC
387550 GACTTTTG--AAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAGTAAATTGCT
1 GAC-TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAGTAAATTGCT
387610 C
64 C
387611 TTTGACAATC
Statistics
Matches: 375, Mismatches: 14, Indels: 28
0.90 0.03 0.07
Matches are distributed among these distances:
80 20 0.05
81 2 0.01
82 107 0.29
83 7 0.02
84 108 0.29
85 6 0.02
86 42 0.11
87 5 0.01
89 78 0.21
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (83 bp):
GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCC
TCTAAACAGAGGCACCAC
Found at i:388886 original size:31 final size:33
Alignment explanation
Indices: 388834--388894 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
388824 ATTTGAATCT
*
388834 CCTTTTTTATTTTTTCATTTTCTCATTTTTTTC
1 CCTTTTTTATTTTCTCATTTTCTCATTTTTTTC
388867 CCTTTTTT-TTTTCTC-TTTTCTCATTTTT
1 CCTTTTTTATTTTCTCATTTTCTCATTTTT
388895 CATCCATATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 13 0.48
32 6 0.22
33 8 0.30
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (33 bp):
CCTTTTTTATTTTCTCATTTTCTCATTTTTTTC
Found at i:392670 original size:12 final size:12
Alignment explanation
Indices: 392635--392673 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
392625 AGTTAAAGAA
*
392635 AAATCAAAATAA
1 AAATCAAAATAG
392647 AAATCAAAATAG
1 AAATCAAAATAG
*
392659 AAATCAGAATAG
1 AAATCAAAATAG
392671 AAA
1 AAA
392674 GGAAGGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AAATCAAAATAG
Found at i:392970 original size:59 final size:57
Alignment explanation
Indices: 392705--393207 Score: 578
Period size: 59 Copynumber: 8.7 Consensus size: 57
392695 TTGTGTAGGA
* * * * *
392705 AAAATTGATACTTTCAATTTTTTCTCAAAAATATTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAATTTATTTCTAAGG
* * *
392762 AAAATTGATACTTTTAACTTTTCC-CTAAAAATATTTTTTGGAAATTTA-TTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATTTTTTTTTGAAATTTATTTC-TAAGG
* *
392819 AAAATTGATACTTTCAAC-TTTCC-C-AAAA--TATTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTG-AAATTTATTTCTAAGG
* *
392872 AAAATTGGATACTTTCAACCTTTTCCTCAAAAATATTTTTTTTGAAACTTGATTTCCAAGG
1 AAAATT-GATACTTTCAA-CTTTTCCTCAAAAAT-TTTTTTTTGAAA-TTTATTTCTAAGG
* *
392933 AAAATTGATACTTTCAAGC-TTTCCTCAAAAATCTTTTTTTTGAAAATTCATTTTTAAGG
1 AAAATTGATACTTTCAA-CTTTTCCTCAAAAAT-TTTTTTTTG-AAATTTATTTCTAAGG
* * * *
392992 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTGGAAATTTATTTCTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAATTTATTTCTAAGG
*
393048 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAACTTTGATCT-TAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATTTTTTTTTGAAA-TTT-ATTTCTAAGG
* * *
393107 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATGTATTTCTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTG-AAATTTATTTCTAAGG
393166 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TTTTTTTTG
393208 GAAAATTTGA
Statistics
Matches: 389, Mismatches: 34, Indels: 44
0.83 0.07 0.09
Matches are distributed among these distances:
52 6 0.02
53 18 0.05
54 17 0.04
55 1 0.00
56 56 0.14
57 74 0.19
58 21 0.05
59 149 0.38
60 24 0.06
61 23 0.06
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAATTTATTTCTAAGG
Found at i:393122 original size:174 final size:171
Alignment explanation
Indices: 392703--393203 Score: 671
Period size: 174 Copynumber: 2.9 Consensus size: 171
392693 TTTTGTGTAG
* * * *
392703 GAAAAATTGATACTTTCAATTTTTTCTCAAAAATATTTTTTGGAAA-TTT-ATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAACTTTGA--TTTAAGGAAAA
* * *
392766 TTGATACTTTTAACTTTTCC-CTAAAAA--TATTTTTTGGAAATTTATTCTTAAGGAAAATTGAT
64 TTGATACTTTCAACTTTTCCTC-AAAAATCTATTTTTT-GAAAATTATTTTTAAGGAAAATTGAT
*
392828 ACTTTCAAC-TTT-CCC-AAAATATTTTTGAAAATTTATTTTTAA
127 ACTTTCAACTTTTCCCCAAAAATATTTTTGAAAATTTATTTCTAA
*
392870 GGAAAATTGGATACTTTCAACCTTTTCCTCAAAAATATTTTTTTTGAAAC-TTGATTTCCAAGGA
1 GAAAAATT-GATACTTTCAA-CTTTTCCTCAAAAAT-TTTTTTTTGAAACTTTGATTT--AAGGA
*
392934 AAATTGATACTTTCAAGC-TTTCCTCAAAAATCTTTTTTTTGAAAATTCATTTTTAAGGAAAATT
61 AAATTGATACTTTCAA-CTTTTCCTCAAAAATCTATTTTTTGAAAATT-ATTTTTAAGGAAAATT
*
392998 GATACTTTCAACTTTTCCCCAAAAATATTTTTGGAAATTTATTTCTAA
124 GATACTTTCAACTTTTCCCCAAAAATATTTTTGAAAATTTATTTCTAA
393046 GAAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTGAAACTTTGATCTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATTTTTTTTTGAAACTTTGAT-TTAAGGAAAA
* * *
393111 TTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATGTATTTCTAAGAAAAATTGATA
64 TTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAAT-TATTTTTAAGGAAAATTGATA
*
393176 CTTTCAACTTTTCCCTAAAAATATTTTT
128 CTTTCAACTTTTCCCCAAAAATATTTTT
393204 TTTGGAAAAT
Statistics
Matches: 298, Mismatches: 16, Indels: 33
0.86 0.05 0.10
Matches are distributed among these distances:
167 7 0.02
168 11 0.04
169 16 0.05
170 12 0.04
171 31 0.10
172 8 0.03
173 35 0.12
174 122 0.41
175 22 0.07
176 34 0.11
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (171 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAACTTTGATTTAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAATTATTTTTAAGGAAAATTGATACTT
TCAACTTTTCCCCAAAAATATTTTTGAAAATTTATTTCTAA
Found at i:393138 original size:27 final size:27
Alignment explanation
Indices: 393047--393138 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
393037 TATTTCTAAG
393047 AAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATTGATACTTTCAACTTTTCCTC
* ** * * *
393074 AAAATATT-TTTTTTTGAAACTTTGATCTTA
1 AAAA-ATTGATACTTT-CAACTTT--TCCTC
393104 AGGAAAATTGATACTTTCAACTTTTCCTC
1 A--AAAATTGATACTTTCAACTTTTCCTC
393133 AAAAAT
1 AAAAAT
393139 CTCTTTTTTG
Statistics
Matches: 46, Mismatches: 12, Indels: 14
0.64 0.17 0.19
Matches are distributed among these distances:
27 13 0.28
28 9 0.20
29 4 0.09
30 4 0.09
31 9 0.20
32 7 0.15
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTCCTC
Found at i:393260 original size:10 final size:10
Alignment explanation
Indices: 393238--393272 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
393228 AAGAAAATAG
393238 AATAATAAAA
1 AATAATAAAA
393248 AAT-ATAAATA
1 AATAATAAA-A
393258 AATAATAAAA
1 AATAATAAAA
393268 AATAA
1 AATAA
393273 AGAAAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 13 0.57
11 5 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AATAATAAAA
Found at i:393263 original size:20 final size:21
Alignment explanation
Indices: 393232--393271 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
393222 TATTTGAAGA
393232 AAATAGAATAATAAAAAATAT
1 AAATAGAATAATAAAAAATAT
393253 AAATA-AATAATAAAAAATA
1 AAATAGAATAATAAAAAATA
393272 AAGAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (21 bp):
AAATAGAATAATAAAAAATAT
Found at i:393290 original size:6 final size:6
Alignment explanation
Indices: 393231--393301 Score: 56
Period size: 6 Copynumber: 11.5 Consensus size: 6
393221 TTATTTGAAG
* * * *
393231 AAAATA GAATAATAA AAAATA TAAATA AATAATA AAAA-A TAAAGA AAAGT-
1 AAAATA -AA-AAT-A AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA
393281 AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
393302 CTAAGATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
5 8 0.15
6 27 0.52
7 11 0.21
8 5 0.10
9 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:393350 original size:11 final size:11
Alignment explanation
Indices: 393231--393370 Score: 53
Period size: 11 Copynumber: 12.4 Consensus size: 11
393221 TTATTTGAAG
393231 AAAATAGAATAA
1 AAAATA-AATAA
393243 TAAAA-AATATAA
1 -AAAATAA-ATAA
393255 ATAAAT-AATAA
1 A-AAATAAATAA
*
393266 AAAATAAA-GA
1 AAAATAAATAA
*
393276 AAAGTAAA-ATA
1 AAAATAAATA-A
393287 AAAATAAA-AA
1 AAAATAAATAA
393297 TAAAACTAAGAT-A
1 -AAAA-TAA-ATAA
* *
393310 AAAA-GAATAT
1 AAAATAAATAA
*
393320 TAAATAAAGCTAA
1 AAAATAAA--TAA
*
393333 TATAATAAATAA
1 -AAAATAAATAA
393345 AAAATAAATAA
1 AAAATAAATAA
*
393356 ATAAACAAA-AA
1 A-AAATAAATAA
393367 AAAA
1 AAAA
393371 ACCTGAAGCG
Statistics
Matches: 99, Mismatches: 13, Indels: 33
0.68 0.09 0.23
Matches are distributed among these distances:
9 2 0.02
10 20 0.20
11 38 0.38
12 25 0.25
13 8 0.08
14 6 0.06
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:393898 original size:26 final size:25
Alignment explanation
Indices: 393865--393913 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
393855 GGAAATTTCT
393865 CAAAAATTTCCAAAAAATTTTTTCGC
1 CAAAAATTT-CAAAAAATTTTTTCGC
*
393891 CAAAAATTTCTAAAAATTTTTTC
1 CAAAAATTTCAAAAAATTTTTTC
393914 TCACTCCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (25 bp):
CAAAAATTTCAAAAAATTTTTTCGC
Found at i:394222 original size:28 final size:27
Alignment explanation
Indices: 394183--394235 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
394173 CAAATAAAAT
* * *
394183 AAAAAGATAGATAATTAGAAAAGATAA
1 AAAAAAATAGATAATAAAAAAAGATAA
394210 AAAAAAATCAGATAATAAAAAAAGAT
1 AAAAAAAT-AGATAATAAAAAAAGAT
394236 CAGATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (27 bp):
AAAAAAATAGATAATAAAAAAAGATAA
Found at i:394224 original size:15 final size:16
Alignment explanation
Indices: 394204--394244 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
394194 TAATTAGAAA
394204 AGATAAAAAAAA-ATC
1 AGATAAAAAAAAGATC
394219 AGATAATAAAAAAAGATC
1 AGAT-A-AAAAAAAGATC
394237 AGATAAAA
1 AGATAAAA
394245 TTAACAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.17
16 4 0.17
17 8 0.35
18 7 0.30
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (16 bp):
AGATAAAAAAAAGATC
Found at i:394229 original size:18 final size:18
Alignment explanation
Indices: 394206--394242 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
394196 ATTAGAAAAG
394206 ATAAAAAAAAATCAGATA
1 ATAAAAAAAAATCAGATA
*
394224 ATAAAAAAAGATCAGATA
1 ATAAAAAAAAATCAGATA
394242 A
1 A
394243 AATTAACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.70, C:0.05, G:0.08, T:0.16
Consensus pattern (18 bp):
ATAAAAAAAAATCAGATA
Found at i:394312 original size:7 final size:7
Alignment explanation
Indices: 394300--394340 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
394290 ATTATAAAAA
394300 AAATAAT
1 AAATAAT
*
394307 AAATAAA
1 AAATAAT
394314 AAATAAT
1 AAATAAT
394321 AAATAAT
1 AAATAAT
394328 -AATAAT
1 AAATAAT
394334 -AATAAT
1 AAATAAT
394340 A
1 A
394341 TAACTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:394314 original size:14 final size:14
Alignment explanation
Indices: 394297--394343 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 14
394287 TATATTATAA
394297 AAAAAATAATAAAT
1 AAAAAATAATAAAT
394311 AAAAAATAATAAAT
1 AAAAAATAATAAAT
394325 AATAATAATAATAATAT
1 AA-AA-AATAATAA-AT
394342 AA
1 AA
394344 CTATATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 16 0.53
15 2 0.07
16 8 0.27
17 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAATAATAAAT
Found at i:394420 original size:10 final size:10
Alignment explanation
Indices: 394405--394449 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
394395 ACAGATATAC
394405 AAAAAGAAAA
1 AAAAAGAAAA
*
394415 AAAAAGAGAA
1 AAAAAGAAAA
394425 AAAAAGAAAA
1 AAAAAGAAAA
394435 AAGAAAGAAAA
1 AA-AAAGAAAA
394446 AAAA
1 AAAA
394450 CATACAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 22 0.69
11 10 0.31
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:394434 original size:19 final size:20
Alignment explanation
Indices: 394405--394448 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
394395 ACAGATATAC
394405 AAAAAGAAAAAAA-AAGAGAA
1 AAAAAGAAAAAAAGAA-AGAA
394425 AAAAAG-AAAAAAGAAAGAA
1 AAAAAGAAAAAAAGAAAGAA
394444 AAAAA
1 AAAAA
394449 ACATACAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAGAAAGAA
Found at i:395711 original size:45 final size:44
Alignment explanation
Indices: 395380--395720 Score: 258
Period size: 43 Copynumber: 7.9 Consensus size: 44
395370 GTCGATGAGT
* * * *
395380 TTATTTA-TTTTTCAAAGTTGTTGAG-CTTCTGCTTAGAAGAGTC
1 TTATTTATTTTTTAAAAGTTGTTGAGTC-TCTGTTTAGAGGAGCC
* * * * *
395423 TTATTTATTTTTT-AAAGTCGTTGAG-CT-TTTACTTAGAGAAACT
1 TTATTTATTTTTTAAAAGTTGTTGAGTCTCTGT--TTAGAGGAGCC
* * * * *
395466 TTATTTACTTTTT-AAAGTTGTTGAATCTCTGCTTAAAGGAGTC
1 TTATTTATTTTTTAAAAGTTGTTGAGTCTCTGTTTAGAGGAGCC
*
395509 TTATTTATTTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAGGAGCC
1 TTATTTATTTTTT-AAAAGTTGTTGAGTCTCTGTTTAGAGGAGCC
* * * * * *
395554 TTATTCA-TTTTTCAAAGTCGTTGAG-CATCTATTTAGAGAAGTC
1 TTATTTATTTTTTAAAAGTTGTTGAGTC-TCTGTTTAGAGGAGCC
* * * * *
395597 ATATTTATTTTTCAAAAGTTATTGAGCCTTTGTTTAGAGGAG-C
1 TTATTTATTTTTTAAAAGTTGTTGAGTCTCTGTTTAGAGGAGCC
* * *
395640 TT-TGTT-TTTTCT-AAAGTCGTTGAGTCTCTATTTAGAGGAGCC
1 TTAT-TTATTTTTTAAAAGTTGTTGAGTCTCTGTTTAGAGGAGCC
395682 TTATTTATTTTTATAAAAGTTG-TGAAGTCTCTGTTTAGA
1 TTATTTATTTTT-TAAAAGTTGTTG-AGTCTCTGTTTAGA
395721 AGAGTTTTTA
Statistics
Matches: 231, Mismatches: 50, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
41 24 0.10
42 12 0.05
43 103 0.45
44 40 0.17
45 52 0.23
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (44 bp):
TTATTTATTTTTTAAAAGTTGTTGAGTCTCTGTTTAGAGGAGCC
Found at i:395931 original size:11 final size:10
Alignment explanation
Indices: 395910--395940 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
395900 ATTTGCTAAT
*
395910 AAAAAATAAA
1 AAAAAAGAAA
395920 AAAAAAGAAA
1 AAAAAAGAAA
395930 AAAAAAGAAA
1 AAAAAAGAAA
395940 A
1 A
395941 TCTGGCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.06, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:396211 original size:11 final size:11
Alignment explanation
Indices: 396195--396219 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
396185 AGTAGATTTT
396195 TTTTTGGAAAA
1 TTTTTGGAAAA
396206 TTTTTGGAAAA
1 TTTTTGGAAAA
396217 TTT
1 TTT
396220 ATAGTTTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTTTGGAAAA
Found at i:397087 original size:46 final size:47
Alignment explanation
Indices: 397023--397114 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
397013 AAATAATTTT
* *
397023 TTTTTTTAAATAGACTC-AAATAGTGAAAAATTTAGAAATAAAAAAA
1 TTTTTCTAAATAGACTCAAAATAGTGAAAAATTTAAAAATAAAAAAA
* *
397069 TTTTTCTAAATA-AGCTCAAAATGGTGAAAAATTTAAAAATTAAAAA
1 TTTTTCTAAATAGA-CTCAAAATAGTGAAAAATTTAAAAATAAAAAA
397115 GAGAATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.03
46 14 0.35
47 25 0.62
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (47 bp):
TTTTTCTAAATAGACTCAAAATAGTGAAAAATTTAAAAATAAAAAAA
Found at i:398764 original size:22 final size:24
Alignment explanation
Indices: 398725--398772 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
398715 TCAAATTATT
398725 TTCTATTTTTTTAATA-TTTAAAA
1 TTCTATTTTTTTAATATTTTAAAA
**
398748 TTCTA-TTTTTTGGTATTTTAAAA
1 TTCTATTTTTTTAATATTTTAAAA
398771 TT
1 TT
398773 GTTTGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (24 bp):
TTCTATTTTTTTAATATTTTAAAA
Found at i:401523 original size:12 final size:12
Alignment explanation
Indices: 401488--401526 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
401478 AGTTAAAGAA
*
401488 AAATCAAAATAA
1 AAATCAAAATAG
401500 AAATCAAAATAG
1 AAATCAAAATAG
*
401512 AAATCAGAATAG
1 AAATCAAAATAG
401524 AAA
1 AAA
401527 GAAGGAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AAATCAAAATAG
Found at i:401656 original size:57 final size:57
Alignment explanation
Indices: 401556--402081 Score: 605
Period size: 57 Copynumber: 8.9 Consensus size: 57
401546 TTGTGTAGGA
**
401556 AAAATTGATACTTTCAA-TTTTTTCTCAAAAATA-TTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTGGAAATTTATTTTTAAGG
* *
401612 AAAATTGATACTTTTAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAGG
* *
401669 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAGG
* * **
401726 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAACTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCC-CTAAAAATA-TTTTTTGGAAA-TTT-ATTTTTAAGG
* * *
401787 AAAATTGATACTTTCAACCTTT-CCTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTGGAAATTTATTTTTAAGG
* * *
401847 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAAGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAGG
* *
401904 AAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTTTTGAAACTTTGA-TCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATA---TTTTTTGGAAA-TTT-ATTTTTAAGG
* * * * *
401965 AAAATTGATACTTTCAACTTTT-CCTCAAAAATCTCTTTTTTGAAAATGTATTTCTAAGA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA--TATTTTTTGGAAATTTATTTTTAAGG
402024 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAAATTTGATTTTTA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGG-AAATTT-ATTTTTA
402082 TTTGAAGAAA
Statistics
Matches: 403, Mismatches: 42, Indels: 45
0.82 0.09 0.09
Matches are distributed among these distances:
56 25 0.06
57 157 0.39
58 9 0.02
59 51 0.13
60 70 0.17
61 79 0.20
62 10 0.02
63 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAGG
Found at i:401849 original size:178 final size:175
Alignment explanation
Indices: 401554--402081 Score: 739
Period size: 178 Copynumber: 3.0 Consensus size: 175
401544 TTTTGTGTAG
* * *
401554 GAAAAATTGATACTTTCAATTTTTTCTC-AAAAATA--TTTTTGGAAA-TTT-ATTTTTAAGGAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAACTTTGA--TTTAAGGAA
* * *
401614 AATTGATACTTTTAACTTTTCC-CTAAAAA--TATTTTTTGGAAATTTATTCTTAAGGAAAATTG
64 AATTGATACTTTCAACTTTTCCTC-AAAAATCTATTTTTTGAAAATTTATTTTTAAGGAAAATTG
401676 ATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
128 ATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
*
401724 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAACTTTGATTTCCAAGGAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAACTTTGATTT--AAGGAA
* *
401789 AATTGATACTTTCAACCTTTCCTCAAAAATCTTTTTTTTTGAAAATTTATTTTTAAGGAAAATTG
64 AATTGATACTTTCAACTTTTCCTCAAAAATC-TATTTTTTGAAAATTTATTTTTAAGGAAAATTG
* *
401854 ATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
128 ATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
*
401902 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAACTTTGATCTTAAGGAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATATTTTTTTTGAAACTTTGAT-TTAAGGAA
* * * *
401967 AATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATGTATTTCTAAGAAAAATTGA
64 AATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAATTTATTTTTAAGGAAAATTGA
*
402032 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAAATTTGATTTTTA
129 TACTTTCAACTTTTCCCCAAAAATA--TTTTTT-GAAAATTT-ATTTTTA
402082 TTTGAAGAAA
Statistics
Matches: 320, Mismatches: 21, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
170 25 0.08
171 7 0.02
173 12 0.04
174 3 0.01
175 32 0.10
176 1 0.00
177 54 0.17
178 144 0.45
179 27 0.08
180 9 0.03
181 6 0.02
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (175 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTTGAAACTTTGATTTAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTTGAAAATTTATTTTTAAGGAAAATTGATA
CTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAA
Found at i:402118 original size:10 final size:10
Alignment explanation
Indices: 402096--402130 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
402086 AAGAAAATAG
402096 AATAATAAAA
1 AATAATAAAA
402106 AAT-ATAAATA
1 AATAATAAA-A
402116 AATAATAAAA
1 AATAATAAAA
402126 AATAA
1 AATAA
402131 AGAAAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 5 0.22
10 13 0.57
11 5 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AATAATAAAA
Found at i:402121 original size:20 final size:21
Alignment explanation
Indices: 402090--402129 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
402080 TATTTGAAGA
402090 AAATAGAATAATAAAAAATAT
1 AAATAGAATAATAAAAAATAT
402111 AAATA-AATAATAAAAAATA
1 AAATAGAATAATAAAAAATA
402130 AAGAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (21 bp):
AAATAGAATAATAAAAAATAT
Found at i:402148 original size:6 final size:6
Alignment explanation
Indices: 402089--402159 Score: 56
Period size: 6 Copynumber: 11.5 Consensus size: 6
402079 TTATTTGAAG
* * * *
402089 AAAATA GAATAATAA AAAATA TAAATA AATAATA AAAA-A TAAAGA AAAGT-
1 AAAATA -AA-AAT-A AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA
402139 AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
402160 CTAAGATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
5 8 0.15
6 27 0.52
7 11 0.21
8 5 0.10
9 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:402208 original size:11 final size:11
Alignment explanation
Indices: 402089--402228 Score: 53
Period size: 11 Copynumber: 12.4 Consensus size: 11
402079 TTATTTGAAG
402089 AAAATAGAATAA
1 AAAATA-AATAA
402101 TAAAA-AATATAA
1 -AAAATAA-ATAA
402113 ATAAAT-AATAA
1 A-AAATAAATAA
*
402124 AAAATAAA-GA
1 AAAATAAATAA
*
402134 AAAGTAAA-ATA
1 AAAATAAATA-A
402145 AAAATAAA-AA
1 AAAATAAATAA
402155 TAAAACTAAGAT-A
1 -AAAA-TAA-ATAA
* *
402168 AAAA-GAATAT
1 AAAATAAATAA
*
402178 TAAATAAACCTAA
1 AAAATAAA--TAA
*
402191 TATAATAAATAA
1 -AAAATAAATAA
402203 AAAATAAATAA
1 AAAATAAATAA
*
402214 ATAAACAAA-AA
1 A-AAATAAATAA
402225 AAAA
1 AAAA
402229 ACCTGAAGCG
Statistics
Matches: 99, Mismatches: 13, Indels: 33
0.68 0.09 0.23
Matches are distributed among these distances:
9 2 0.02
10 20 0.20
11 38 0.38
12 25 0.25
13 8 0.08
14 6 0.06
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:402755 original size:26 final size:25
Alignment explanation
Indices: 402722--402770 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
402712 GGAAATTTCT
402722 CAAAAATTTCCAAAAAATTTTTTCGC
1 CAAAAATTT-CAAAAAATTTTTTCGC
**
402748 CAAAAATTTTTAAAAATTTTTTC
1 CAAAAATTTCAAAAAATTTTTTC
402771 TCACTCCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (25 bp):
CAAAAATTTCAAAAAATTTTTTCGC
Found at i:403082 original size:16 final size:17
Alignment explanation
Indices: 403061--403102 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
403051 TAATTAGAAA
403061 AGATAAAAAAAAA-ATC
1 AGATAAAAAAAAAGATC
403077 AGATAATAAAAAAAGATC
1 AGATAA-AAAAAAAGATC
403095 AGATAAAA
1 AGATAAAA
403103 TTAACAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 9 0.38
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (17 bp):
AGATAAAAAAAAAGATC
Found at i:403082 original size:29 final size:30
Alignment explanation
Indices: 403033--403102 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
403023 CCAAAATCAA
* *
403033 ATAAAATAAAAAGATAGATAATTAGAAAAG
1 ATAAAATAAAAAGATAGATAATAAAAAAAG
403063 ATAAAA-AAAAA-ATCAGATAATAAAAAAAG
1 ATAAAATAAAAAGAT-AGATAATAAAAAAAG
* *
403092 ATCAGATAAAA
1 ATAAAATAAAA
403103 TTAACAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 22 0.65
30 10 0.29
ACGTcount: A:0.70, C:0.03, G:0.10, T:0.17
Consensus pattern (30 bp):
ATAAAATAAAAAGATAGATAATAAAAAAAG
Found at i:403089 original size:18 final size:18
Alignment explanation
Indices: 403066--403100 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
403056 AGAAAAGATA
403066 AAAAAAAAATCAGATAAT
1 AAAAAAAAATCAGATAAT
*
403084 AAAAAAAGATCAGATAA
1 AAAAAAAAATCAGATAA
403101 AATTAACAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAAAAAATCAGATAAT
Found at i:403170 original size:7 final size:7
Alignment explanation
Indices: 403158--403198 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
403148 ATTATAAAAA
403158 AAATAAT
1 AAATAAT
*
403165 AAATAAA
1 AAATAAT
403172 AAATAAT
1 AAATAAT
403179 AAATAAT
1 AAATAAT
403186 -AATAAT
1 AAATAAT
403192 AATATAA
1 AA-ATAA
403199 CTATATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 6 0.20
7 20 0.67
8 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:403172 original size:14 final size:14
Alignment explanation
Indices: 403155--403195 Score: 64
Period size: 14 Copynumber: 2.8 Consensus size: 14
403145 TATATTATAA
403155 AAAAAATAATAAAT
1 AAAAAATAATAAAT
403169 AAAAAATAATAAAT
1 AAAAAATAATAAAT
403183 AATAATAATAATA
1 AA-AA-AATAATA
403196 TAACTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 16 0.64
15 2 0.08
16 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAAATAATAAAT
Found at i:403198 original size:14 final size:13
Alignment explanation
Indices: 403151--403198 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
403141 AAAATATATT
403151 ATAAA-AAAAATA
1 ATAAATAAAAATA
403163 ATAAATAAAAAATA
1 ATAAAT-AAAAATA
*
403177 ATAAATAATAATA
1 ATAAATAAAAATA
403190 ATAATATAA
1 ATAA-ATAA
403199 CTATATATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 5 0.16
13 10 0.31
14 17 0.53
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
ATAAATAAAAATA
Found at i:403275 original size:10 final size:10
Alignment explanation
Indices: 403260--403306 Score: 76
Period size: 10 Copynumber: 4.6 Consensus size: 10
403250 ACAGATATAC
403260 AAAAAAGAAA
1 AAAAAAGAAA
*
403270 AAAAAAGAGA
1 AAAAAAGAAA
403280 AAAAAAGAAA
1 AAAAAAGAAA
403290 AAAGAAAGAAA
1 AAA-AAAGAAA
403301 AAAAAA
1 AAAAAA
403307 CATACAGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 24 0.71
11 10 0.29
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:404305 original size:44 final size:44
Alignment explanation
Indices: 404234--404584 Score: 235
Period size: 44 Copynumber: 8.1 Consensus size: 44
404224 GATTGTCGAT
* *
404234 GAGT-TTATTTA-TTTTTCAAAGTTGTTGAGCTTCTGCTTAGAA
1 GAGTCTTATTTATTTTTTTAAAGTTGTTGAGCTTCTGTTTAGAA
* * **
404276 GAGTCTTATTTATTTTTTTAAAGTCGTTGAGCTTTTACTTAG-A
1 GAGTCTTATTTATTTTTTTAAAGTTGTTGAGCTTCTGTTTAGAA
** * * *
404319 GAAACTTTATTTACTTTTTTAAAGTTGTTGA-ATCTCTGCTTA-AA
1 GAGTC-TTATTTATTTTTTTAAAGTTGTTGAGCT-TCTGTTTAGAA
* * *
404363 GGAGTCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAG
1 -GAGTCTTATTTATTTTTTTAAAGTTGTTGAGCTTCTGTTTAGAA
* * * * * *
404408 GAGCCTTATTCA-TTTTTCAAAGTCGTTGAGCATCTATTTAG-A
1 GAGTCTTATTTATTTTTTTAAAGTTGTTGAGCTTCTGTTTAGAA
* ** * *
404450 GAAGTCATATTTATTTTTCAAAAGTTATTGAGCCTT-TGTTTAGAG
1 G-AGTCTTATTTATTTTTTTAAAGTTGTTGAG-CTTCTGTTTAGAA
* * * * *
404495 GAG-CTT-TGT-TTTTTCTAAAGTCGTTGAG-TCTCTATTTAGAG
1 GAGTCTTATTTATTTTTTTAAAGTTGTTGAGCT-TCTGTTTAGAA
* *
404536 GAGCCTTATTTATTTTTATAAAAGTTG-TGAAG-TCTCTGTTTAGAA
1 GAGTCTTATTTATTTTT-TTAAAGTTGTTG-AGCT-TCTGTTTAGAA
404581 GAGT
1 GAGT
404585 TTTTATGTTA
Statistics
Matches: 242, Mismatches: 48, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 27 0.11
42 10 0.04
43 50 0.21
44 124 0.51
45 29 0.12
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (44 bp):
GAGTCTTATTTATTTTTTTAAAGTTGTTGAGCTTCTGTTTAGAA
Found at i:404467 original size:87 final size:87
Alignment explanation
Indices: 404238--404579 Score: 297
Period size: 88 Copynumber: 3.9 Consensus size: 87
404228 GTCGATGAGT
* * ** * *
404238 TTATTTATTTTTCAAAGTTGTTGAGCTTCTGCTTAGA-AGAGTCTTATTTATTTTTTTAAAGTCG
1 TTATTTATTTTTCAAAGTCGTTGAGCATCTATTTAGAGA-AGTCTTATTTATTTTTTCAAAGTTG
* * ** * * *
404302 TTGAGCTTTTACTTAGAGAAACT
65 TTGAGCCTCTGTTTAGAGGAGCC
* * * * *
404325 TTATTTACTTTTTTAAAGTTGTTGA--ATCTCTGCTTAAAGGAGTCTTATTTATTTTTTCAAAGT
1 TTATTTA-TTTTTCAAAGTCGTTGAGCATCTAT--TTAGAGAAGTCTTATTTATTTTTTCAAAGT
404388 TGTTGAGCCTCTGTTTAGAGGAGCC
63 TGTTGAGCCTCTGTTTAGAGGAGCC
* * *
404413 TTATTCATTTTTCAAAGTCGTTGAGCATCTATTTAGAGAAGTCATATTTA-TTTTTCAAAAGTTA
1 TTATTTATTTTTCAAAGTCGTTGAGCATCTATTTAGAGAAGTCTTATTTATTTTTTC-AAAGTTG
*
404477 TTGAGCCTTTGTTTAGAGGAG-C
65 TTGAGCCTCTGTTTAGAGGAGCC
* * * *
404499 TT-TGT-TTTTTCTAAAGTCGTTGAGTC-TCTATTTAGAGGAGCCTTATTTATTTTTATAAAAGT
1 TTATTTATTTTTC-AAAGTCGTTGAG-CATCTATTTAGAGAAGTCTTATTTATTTTT-TCAAAGT
*
404561 TG-TGAAGTCTCTGTTTAGA
63 TGTTG-AGCCTCTGTTTAGA
404580 AGAGTTTTTA
Statistics
Matches: 210, Mismatches: 33, Indels: 25
0.78 0.12 0.09
Matches are distributed among these distances:
84 6 0.03
85 35 0.17
86 35 0.17
87 64 0.30
88 65 0.31
89 5 0.02
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (87 bp):
TTATTTATTTTTCAAAGTCGTTGAGCATCTATTTAGAGAAGTCTTATTTATTTTTTCAAAGTTGT
TGAGCCTCTGTTTAGAGGAGCC
Found at i:404474 original size:131 final size:131
Alignment explanation
Indices: 404234--404552 Score: 348
Period size: 131 Copynumber: 2.5 Consensus size: 131
404224 GATTGTCGAT
* * * * *
404234 GAGT-TTATTTA-TTTTTCAAAGTTGTTGAGCTTCTGCTTAGAAGAGTCTTATTTATTTTTTTAA
1 GAGTCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTATTTA-TTTTTCAA
* * * * * *
404297 AGTCGTTGAGCTTTTACTTAGAGAAACTTTATTTACTTTTTTAAAGTTGTTGAATCTCTGCTTAA
65 AGTCGTTGAGCATCTACTTAGAGAAACTATATTTACTTTTTAAAAGTTATTGAACCTCTGCTTAA
404362 AG
130 AG
*
404364 GAGTCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTATTCATTTTTCAAA
1 GAGTCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAA
* * * * *
404429 GTCGTTGAGCATCTATTTAGAG-AAGTCATATTTA-TTTTTCAAAAGTTATTGAGCCTTTGTTTA
66 GTCGTTGAGCATCTACTTAGAGAAACT-ATATTTACTTTTT-AAAAGTTATTGAACCTCTGCTTA
*
404492 GAG
129 AAG
* * * *
404495 GAG-C---TTTGTTTTTTCTAAAGTCGTTGAGTCTCTATTTAGAGGAGCCTTATTTATTTTT
1 GAGTCTTATTTATTTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTT
404553 ATAAAAGTTG
Statistics
Matches: 161, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
127 10 0.06
128 38 0.24
130 13 0.08
131 62 0.39
132 38 0.24
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (131 bp):
GAGTCTTATTTATTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGCCTTATTTATTTTTCAAA
GTCGTTGAGCATCTACTTAGAGAAACTATATTTACTTTTTAAAAGTTATTGAACCTCTGCTTAAA
G
Found at i:405070 original size:11 final size:11
Alignment explanation
Indices: 405054--405078 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
405044 AGTAGATTTT
405054 TTTTTGGAAAA
1 TTTTTGGAAAA
405065 TTTTTGGAAAA
1 TTTTTGGAAAA
405076 TTT
1 TTT
405079 ATAGTTTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTTTGGAAAA
Found at i:405952 original size:46 final size:46
Alignment explanation
Indices: 405888--405978 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
405878 AAATAATTTT
* *
405888 TTTTTTTAAATAGACTCAAATAGTGAAAAATTTAGAAATAAAAAAA
1 TTTTTCTAAATAGACTCAAATAGTGAAAAATTTAAAAATAAAAAAA
* *
405934 TTTTTCTAAATA-AGCTCAAATGGTGAAAAATTTAAAAATTAAAAA
1 TTTTTCTAAATAGA-CTCAAATAGTGAAAAATTTAAAAATAAAAAA
405979 GAGAATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 1 0.03
46 39 0.98
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (46 bp):
TTTTTCTAAATAGACTCAAATAGTGAAAAATTTAAAAATAAAAAAA
Found at i:406767 original size:21 final size:21
Alignment explanation
Indices: 406724--406768 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
406714 AACACCATAA
406724 TTGATATCATTTAAGGTATTT
1 TTGATATCATTTAAGGTATTT
* *
406745 TTGATGATTATTTAATGTATTT
1 TTGAT-ATCATTTAAGGTATTT
406767 TT
1 TT
406769 TAATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (21 bp):
TTGATATCATTTAAGGTATTT
Found at i:407632 original size:24 final size:23
Alignment explanation
Indices: 407604--407648 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
407594 AATTATTTTC
407604 TATTTTTT-TAATATTTAAAATTCT
1 TATTTTTTGT-AT-TTTAAAATTCT
407628 TATTTTTTGTATTTTAAAATT
1 TATTTTTTGTATTTTAAAATT
407649 GTTTTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 10 0.50
25 1 0.05
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTTTTTGTATTTTAAAATTCT
Found at i:409602 original size:15 final size:16
Alignment explanation
Indices: 409578--409607 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
409568 TGAGCTATTT
409578 TTTTTCTCATTTTTTG
1 TTTTTCTCATTTTTTG
409594 TTTTT-TCATTTTTT
1 TTTTTCTCATTTTTT
409608 TCCTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTTCTCATTTTTTG
Found at i:419947 original size:17 final size:18
Alignment explanation
Indices: 419925--419965 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
419915 AAAACAAAAA
*
419925 AAAAAAAAATCAAC-CAC
1 AAAAAAAAATAAACACAC
419942 AAAAAAAAATAAACACAC
1 AAAAAAAAATAAACACAC
419960 AAAAAA
1 AAAAAA
419966 TCACAAACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.78, C:0.17, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAAAAATAAACACAC
Found at i:421002 original size:17 final size:16
Alignment explanation
Indices: 420975--421203 Score: 87
Period size: 14 Copynumber: 14.9 Consensus size: 16
420965 GTTCGCGTTT
420975 TCTTTAAACCCTAAAA
1 TCTTTAAACCCTAAAA
420991 TCTTTCAAACCCTAAAA
1 TCTTT-AAACCCTAAAA
* *
421008 -C-TAAAACCCTAAAC
1 TCTTTAAACCCTAAAA
* *
421022 CCTTTAAATCCTAAAA
1 TCTTTAAACCCTAAAA
421038 TC---AAAGCCCTAAAA
1 TCTTTAAA-CCCTAAAA
* *
421052 CCCTTAAAACCCTAAAA
1 -TCTTTAAACCCTAAAA
*
421069 TC---AAAGCCTTAAAA
1 TCTTTAAA-CCCTAAAA
** **
421083 -CCCTAAAATC-AAAA
1 TCTTTAAACCCTAAAA
* *
421097 CCTTAAAACCCTAAAA
1 TCTTTAAACCCTAAAA
* *
421113 -C-TAAAACCCTAAAC
1 TCTTTAAACCCTAAAA
*
421127 CCTTTAAACCCTAAAA
1 TCTTTAAACCCTAAAA
*
421143 TC--AAAACCC-AAAA
1 TCTTTAAACCCTAAAA
* **
421156 CCCTCCAAAACCCTAAAA
1 -TCT-TTAAACCCTAAAA
*
421174 TC--TAAATCCTAAAA
1 TCTTTAAACCCTAAAA
421188 CTCTTTAAACCCTAAA
1 -TCTTTAAACCCTAAA
421204 TTTCAAAACC
Statistics
Matches: 161, Mismatches: 28, Indels: 47
0.68 0.12 0.20
Matches are distributed among these distances:
13 11 0.07
14 57 0.35
15 12 0.07
16 37 0.23
17 37 0.23
18 7 0.04
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.21
Consensus pattern (16 bp):
TCTTTAAACCCTAAAA
Found at i:421079 original size:22 final size:22
Alignment explanation
Indices: 421048--421129 Score: 114
Period size: 22 Copynumber: 3.7 Consensus size: 22
421038 TCAAAGCCCT
421048 AAAACCCTTAAAACCCTAAAATC
1 AAAA-CCTTAAAACCCTAAAATC
*
421071 AAAGCCTTAAAACCCTAAAATC
1 AAAACCTTAAAACCCTAAAATC
421093 AAAACCTTAAAACCCTAAAA-C
1 AAAACCTTAAAACCCTAAAATC
*
421114 TAAAACCCT-AAACCCT
1 -AAAACCTTAAAACCCT
421130 TTAAACCCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
21 8 0.15
22 44 0.80
23 3 0.05
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (22 bp):
AAAACCTTAAAACCCTAAAATC
Found at i:421085 original size:31 final size:31
Alignment explanation
Indices: 420983--421090 Score: 123
Period size: 31 Copynumber: 3.5 Consensus size: 31
420973 TTTCTTTAAA
* * * *
420983 CCCTAAAATCTTTCAAACCCTAAAA-CTAAAA
1 CCCTAAAACCCTTAAAACCCTAAAATC-AAAG
* *
421014 CCCT-AAACCCTTTAAATCCTAAAATCAAAG
1 CCCTAAAACCCTTAAAACCCTAAAATCAAAG
421044 CCCTAAAACCCTTAAAACCCTAAAATCAAAG
1 CCCTAAAACCCTTAAAACCCTAAAATCAAAG
*
421075 CCTTAAAACCC-TAAAA
1 CCCTAAAACCCTTAAAA
421091 TCAAAACCTT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
30 28 0.42
31 39 0.58
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (31 bp):
CCCTAAAACCCTTAAAACCCTAAAATCAAAG
Found at i:421114 original size:105 final size:105
Alignment explanation
Indices: 420997--421188 Score: 316
Period size: 105 Copynumber: 1.8 Consensus size: 105
420987 AAAATCTTTC
* * *
420997 AAACCCTAAAACTAAAACCCTAAACCCTTTAAATCCTAAAATCAAAGCCCTAAAACCCT-TAAAA
1 AAACCCTAAAACTAAAACCCTAAACCCTTTAAACCCTAAAATCAAAACCC-AAAACCCTCCAAAA
421061 CCCTAAAATC-AAAGCCTTAAAACCCTAAAATCAAAACCTTA
65 CCCTAAAATCTAAAGCC-TAAAACCCTAAAATCAAAACCTTA
421102 AAACCCTAAAACTAAAACCCTAAACCCTTTAAACCCTAAAATCAAAACCCAAAACCCTCCAAAAC
1 AAACCCTAAAACTAAAACCCTAAACCCTTTAAACCCTAAAATCAAAACCCAAAACCCTCCAAAAC
*
421167 CCTAAAATCTAAATCCTAAAAC
66 CCTAAAATCTAAAGCCTAAAAC
421189 TCTTTAAACC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
104 8 0.10
105 68 0.84
106 5 0.06
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (105 bp):
AAACCCTAAAACTAAAACCCTAAACCCTTTAAACCCTAAAATCAAAACCCAAAACCCTCCAAAAC
CCTAAAATCTAAAGCCTAAAACCCTAAAATCAAAACCTTA
Found at i:421136 original size:30 final size:31
Alignment explanation
Indices: 421097--421218 Score: 124
Period size: 31 Copynumber: 4.0 Consensus size: 31
421087 AAAATCAAAA
421097 CCTTAAAACCCTAAAACT-AAAACCCTAAAC
1 CCTTAAAACCCTAAAACTCAAAACCCTAAAC
* *
421127 CCTTTAAACCCTAAAA-TCAAAACCCAAAAC
1 CCTTAAAACCCTAAAACTCAAAACCCTAAAC
* * *
421157 CCTCCAAAACCCTAAAA-TCTAAATCCTAAAAC
1 CCT-TAAAACCCTAAAACTCAAAACCCT-AAAC
* * **
421189 TCTTTAAACCCTAAATTTCAAAACCCTAAA
1 CCTTAAAACCCTAAAACTCAAAACCCTAAA
421219 GTCAATGTCT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
29 1 0.01
30 29 0.39
31 31 0.41
32 14 0.19
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (31 bp):
CCTTAAAACCCTAAAACTCAAAACCCTAAAC
Found at i:421170 original size:31 final size:31
Alignment explanation
Indices: 421092--421203 Score: 113
Period size: 30 Copynumber: 3.7 Consensus size: 31
421082 ACCCTAAAAT
*
421092 CAAAA-CCTTAAAACCCTAAAA-CTAAAACC
1 CAAAACCCTCAAAACCCTAAAATCTAAAACC
* **
421121 CTAAACCCTTTAAACCCTAAAATC-AAAACC
1 CAAAACCCTCAAAACCCTAAAATCTAAAACC
*
421151 CAAAACCCTCCAAAACCCTAAAATCTAAATCC
1 CAAAACCCT-CAAAACCCTAAAATCTAAAACC
* * **
421183 TAAAACTCTTTAAACCCTAAA
1 CAAAACCCTCAAAACCCTAAA
421204 TTTCAAAACC
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
29 4 0.06
30 29 0.42
31 24 0.35
32 12 0.17
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (31 bp):
CAAAACCCTCAAAACCCTAAAATCTAAAACC
Found at i:421404 original size:22 final size:23
Alignment explanation
Indices: 421379--421430 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
421369 AAAATCTTTC
*
421379 AAACATTAAAATTCAAAA-CCTT
1 AAACATTAAAATTCAAAATCCTA
* *
421401 AAACCTTAAATTTCAAAATCCTA
1 AAACATTAAAATTCAAAATCCTA
421424 AAACATT
1 AAACATT
421431 GAAACCCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (23 bp):
AAACATTAAAATTCAAAATCCTA
Found at i:421475 original size:51 final size:52
Alignment explanation
Indices: 421391--421527 Score: 134
Period size: 51 Copynumber: 2.6 Consensus size: 52
421381 ACATTAAAAT
* * * *** *
421391 TCAAAACCTTAAACCTTAAATTTCAAAATCCTAAAACATTGAAACCCTAAA-CC
1 TCAAAACCCT-AACCTTAAA-ATCAAAACCCTAAAACACCAAAACCATAAACCC
* * *
421444 TCTAAACCCTAACCTTAAAATCAAAACCCT-AAACCCCAAAACTATAAACCC
1 TCAAAACCCTAACCTTAAAATCAAAACCCTAAAACACCAAAACCATAAACCC
* *
421495 TCAAAACTCTAACCTTAAAATCAAAAGCCTAAA
1 TCAAAACCCTAACCTTAAAATCAAAACCCTAAA
421528 CCCTCAAAAC
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
50 12 0.17
51 38 0.55
52 11 0.16
53 8 0.12
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.21
Consensus pattern (52 bp):
TCAAAACCCTAACCTTAAAATCAAAACCCTAAAACACCAAAACCATAAACCC
Found at i:421508 original size:15 final size:16
Alignment explanation
Indices: 421464--421506 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
421454 AACCTTAAAA
*
421464 TCAAAACCCTAAACCC
1 TCAAAACTCTAAACCC
*
421480 -CAAAACTATAAACCC
1 TCAAAACTCTAAACCC
421495 TCAAAACTCTAA
1 TCAAAACTCTAA
421507 CCTTAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (16 bp):
TCAAAACTCTAAACCC
Found at i:421528 original size:51 final size:51
Alignment explanation
Indices: 421438--421537 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
421428 ATTGAAACCC
*
421438 TAAACCTCTAAACCCTAACCTTAAAATCAAAACCCTAAACCC-CAAAACTA
1 TAAACCTCAAAACCCTAACCTTAAAATCAAAACCCTAAACCCTCAAAACTA
* *
421488 TAAACCCTCAAAACTCTAACCTTAAAATCAAAAGCCTAAACCCTCAAAAC
1 TAAA-CCTCAAAACCCTAACCTTAAAATCAAAACCCTAAACCCTCAAAAC
421538 CCTAAAATCC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 4 0.09
51 35 0.78
52 6 0.13
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (51 bp):
TAAACCTCAAAACCCTAACCTTAAAATCAAAACCCTAAACCCTCAAAACTA
Found at i:421544 original size:30 final size:30
Alignment explanation
Indices: 421505--421566 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
421495 TCAAAACTCT
* *
421505 AACCTTAAAAT-CAAAAGCCTAAACCCTCAA
1 AACCCTAAAATCCAAAAGCCCAAACCCT-AA
*
421535 AACCCTAAAATCCAAAATCCCAAACCCTAA
1 AACCCTAAAATCCAAAAGCCCAAACCCTAA
421565 AA
1 AA
421567 TCTGAAACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.52, C:0.32, G:0.02, T:0.15
Consensus pattern (30 bp):
AACCCTAAAATCCAAAAGCCCAAACCCTAA
Found at i:421551 original size:51 final size:51
Alignment explanation
Indices: 421439--421568 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 51
421429 TTGAAACCCT
* *
421439 AAACCTCTAAACCCTAACCTTAAAATCAAAACCCTAAACCCCAAAACTATA
1 AAACCTCAAAACCCTAACCTTAAAATCAAAACCCTAAACCCCAAAACCATA
* * * *
421490 AACCCTCAAAACTCTAACCTTAAAATCAAAAGCCTAAACCCTCAAAACCCTA
1 AAACCTCAAAACCCTAACCTTAAAATCAAAACCCTAAACCC-CAAAACCATA
* * *
421542 AAATC-CAAAATCCCAAACCCTAAAATC
1 AAACCTCAAAA-CCCTAACCTTAAAATC
421569 TGAAACCCAA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 42 0.64
52 24 0.36
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (51 bp):
AAACCTCAAAACCCTAACCTTAAAATCAAAACCCTAAACCCCAAAACCATA
Found at i:421639 original size:16 final size:16
Alignment explanation
Indices: 421620--421662 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
421610 CAAAAAACCT
* *
421620 AAACCTTAAAATCTCG
1 AAACCTTAAAACCTCA
*
421636 AAACTTTAAAACCTCA
1 AAACCTTAAAACCTCA
*
421652 AAACCCTAAAA
1 AAACCTTAAAA
421663 ATCCACCAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (16 bp):
AAACCTTAAAACCTCA
Found at i:423712 original size:17 final size:17
Alignment explanation
Indices: 423668--423732 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
423658 TTACACATAA
423668 ATTATAATTTAATATTTTT
1 ATTATAATTT-AT-TTTTT
423687 A--ATAA-TTATTTTTT
1 ATTATAATTTATTTTTT
*
423701 ATTATAATTTATTTTATC
1 ATTATAATTTATTTT-TT
*
423719 ATTATCATTTATTT
1 ATTATAATTTATTT
423733 ACATTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 6 0.15
15 2 0.05
16 6 0.15
17 11 0.28
18 14 0.35
19 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATAATTTATTTTTT
Found at i:423794 original size:21 final size:21
Alignment explanation
Indices: 423770--423838 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
423760 ATTAATAATT
423770 TTAATTTTATTATTATAATAA
1 TTAATTTTATTATTATAATAA
* *
423791 TTAATTTAATTATTAT--TAT
1 TTAATTTTATTATTATAATAA
**
423810 TTTTTTTTATT-TTATCAA-AA
1 TTAATTTTATTATTAT-AATAA
423830 TTAATTTTA
1 TTAATTTTA
423839 CCGCTACTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
18 4 0.11
19 10 0.27
20 8 0.22
21 15 0.41
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAATTTTATTATTATAATAA
Found at i:423801 original size:39 final size:38
Alignment explanation
Indices: 423758--423836 Score: 90
Period size: 39 Copynumber: 2.0 Consensus size: 38
423748 ATTTATATCC
423758 TAATTA-ATAATTTTAATTTTATTATTAT-AATAATTAATT
1 TAATTATATAATTTT-ATTTTATT-TTATCAA-AATTAATT
* *
423797 TAATTATTATTATTTTTTTTTATTTTATCAAAATTAATT
1 TAATTA-TATAATTTTATTTTATTTTATCAAAATTAATT
423836 T
1 T
423837 TACCGCTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
39 19 0.54
40 9 0.26
41 7 0.20
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (38 bp):
TAATTATATAATTTTATTTTATTTTATCAAAATTAATT
Found at i:429189 original size:3 final size:3
Alignment explanation
Indices: 429181--429214 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
429171 TCTATGCATC
429181 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
429215 TTACAAGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:434877 original size:28 final size:28
Alignment explanation
Indices: 434845--434922 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
434835 ATTCAGAAAC
* *
434845 ACCATTTAGCAAACCAATATCATACAAT
1 ACCATTCAGCAAAACAATATCATACAAT
* *
434873 ACCATTCAGTAAAATAATATCATACAAT
1 ACCATTCAGCAAAACAATATCATACAAT
*
434901 ACCATTCAACAAATCACAATAT
1 ACCATTCAGCAAA--ACAATAT
434923 TTAAAGAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 35 0.85
30 6 0.15
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (28 bp):
ACCATTCAGCAAAACAATATCATACAAT
Found at i:435623 original size:13 final size:13
Alignment explanation
Indices: 435598--435632 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
435588 GTGTATTATG
*
435598 CAAAAAATGTCTT
1 CAAAAAATTTCTT
*
435611 CAATAAATTTCTT
1 CAAAAAATTTCTT
435624 CAAAAAATT
1 CAAAAAATT
435633 AGAACGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (13 bp):
CAAAAAATTTCTT
Found at i:435802 original size:61 final size:62
Alignment explanation
Indices: 435730--435863 Score: 157
Period size: 63 Copynumber: 2.2 Consensus size: 62
435720 TCAAAAAACA
* ** *
435730 CCTTCACTAATTTGCTCTAATTTTT-GATGAAATTTATTGAAGGCA-TTTTTTGG-ATAATATG
1 CCTTCAATAATTCACTCTAATTTTTAGA-GAAAATTATTGAAGGCATTTTTTTGGAATAA-ATG
* *
435791 CCTTCAATAATTCATTCTAATTTTTAAGAGAAAATTATTGAAGGTATTTTTTTGGAATAAATG
1 CCTTCAATAATTCACTCTAATTTTT-AGAGAAAATTATTGAAGGCATTTTTTTGGAATAAATG
*
435854 CTTTCAATAA
1 CCTTCAATAA
435864 CCCCCTTAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
61 21 0.34
62 15 0.24
63 22 0.35
64 4 0.06
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (62 bp):
CCTTCAATAATTCACTCTAATTTTTAGAGAAAATTATTGAAGGCATTTTTTTGGAATAAATG
Found at i:435861 original size:63 final size:61
Alignment explanation
Indices: 435745--435863 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 61
435735 ACTAATTTGC
*
435745 TCTAATTTTTGATGAAATTTATTGAAGGCATTTTTTGGATAATATGCCTTCAATAATTCAT
1 TCTAATTTTTGATGAAAATTATTGAAGGCATTTTTTGGATAATATGCCTTCAATAATTCAT
* *
435806 TCTAATTTTTAAGA-GAAAATTATTGAAGGTATTTTTTTGGAATAA-ATGCTTTCAATAA
1 TCTAATTTTT--GATGAAAATTATTGAAGGCA-TTTTTTGG-ATAATATGCCTTCAATAA
435864 CCCCCTTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
61 10 0.20
62 15 0.29
63 22 0.43
64 4 0.08
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (61 bp):
TCTAATTTTTGATGAAAATTATTGAAGGCATTTTTTGGATAATATGCCTTCAATAATTCAT
Found at i:435990 original size:64 final size:63
Alignment explanation
Indices: 435914--436117 Score: 173
Period size: 63 Copynumber: 3.2 Consensus size: 63
435904 CTATTAAAAG
435914 ATGCCTTTAATAATCTCAAATAATTTTTAAAAGAAAATTATTGAATGTGTTTTTTTTTAATAAA
1 ATGCCTTTAATAATCTCAAATAATTTTTAAAAGAAAATTATTGAA-GTGTTTTTTTTTAATAAA
* * * * * ** * * **
435978 ATGCCTTCAATAA-CGCCATTAAAATTTTAGTAGTAGAA-TATTAAAAGTGTTTTTTACTAA-AA
1 ATGCCTTTAATAATCTCAAAT-AATTTTTAAAAG-AAAATTATT-GAAGTGTTTTTTTTTAATAA
436040 A
63 A
* * * * * * *
436041 ACGCATTTAATAATCTTAAATAATTTTTAAAAGGAAATTATTGAAGACGTGTTTTTTCAAT-AA
1 ATGCCTTTAATAATCTCAAATAATTTTTAAAAGAAAATTATTGAAG-TGTTTTTTTTTAATAAA
436104 ATGCCTTTAATAAT
1 ATGCCTTTAATAAT
436118 TCTGTACAAA
Statistics
Matches: 102, Mismatches: 31, Indels: 15
0.69 0.21 0.10
Matches are distributed among these distances:
62 5 0.05
63 52 0.51
64 40 0.39
65 5 0.05
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.41
Consensus pattern (63 bp):
ATGCCTTTAATAATCTCAAATAATTTTTAAAAGAAAATTATTGAAGTGTTTTTTTTTAATAAA
Found at i:436039 original size:127 final size:125
Alignment explanation
Indices: 435808--436116 Score: 386
Period size: 127 Copynumber: 2.4 Consensus size: 125
435798 TAATTCATTC
* * * *
435808 TAATTTTTAAGAGAAAATTATTGAAG-GTATTTTTTTGGAATAAATGCTTTCAATAACCCCCTTA
1 TAATTTTTAAAAGAAAATTATTGAAGTGT-TTTTTTT-CAATAAATGCCTTCAATAACCCCATTA
* * * * * *
435872 AAATTTTAGTAGTATAATATTGAAAGCATTTTCTATTAAAAGATGCCTTTAATAATCTCAAA
64 AAATTTTAGTAGTAGAATATTAAAAGCATTTTCTACTAAAAAACGCATTTAATAATCTCAAA
* *
435934 TAATTTTTAAAAGAAAATTATTGAATGTGTTTTTTTTTAATAAAATGCCTTCAATAACGCCATTA
1 TAATTTTTAAAAGAAAATTATTGAA-GTGTTTTTTTTCAAT-AAATGCCTTCAATAACCCCATTA
** * *
435999 AAATTTTAGTAGTAGAATATTAAAAGTGTTTTTTACTAAAAAACGCATTTAATAATCTTAAA
64 AAATTTTAGTAGTAGAATATTAAAAGCATTTTCTACTAAAAAACGCATTTAATAATCTCAAA
* * * *
436061 TAATTTTTAAAAGGAAATTATTGAAGACGTGTTTTTTCAATAAATGCCTTTAATAA
1 TAATTTTTAAAAGAAAATTATTGAAG-TGTTTTTTTTCAATAAATGCCTTCAATAA
436117 TTCTGTACAA
Statistics
Matches: 159, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
126 42 0.26
127 115 0.72
128 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (125 bp):
TAATTTTTAAAAGAAAATTATTGAAGTGTTTTTTTTCAATAAATGCCTTCAATAACCCCATTAAA
ATTTTAGTAGTAGAATATTAAAAGCATTTTCTACTAAAAAACGCATTTAATAATCTCAAA
Found at i:436664 original size:64 final size:63
Alignment explanation
Indices: 436493--436664 Score: 147
Period size: 64 Copynumber: 2.7 Consensus size: 63
436483 TTTTGTACAA
** * * * * *
436493 AAATTATTGAAGGTGTATAATACAAAAAATGTCTTCAATAAAT-TTCTCTTAAAAATTGGAGT
1 AAATTATTGAAGGCATATTATGCAAAAAACGCCTTCAATAAATATTCACTTAAAAATTGGAGT
* * * * * *
436555 AAATTATTAAAAGCAT-TTTTAGTAAAAAATCGCCTTCACT-GATATTCACTGATAAAAA-TGGA
1 AAATTATTGAAGGCATATTAT-GCAAAAAA-CGCCTTCAATAAATATTCACT--TAAAAATTGGA
436617 G-
62 GT
436618 AGAATTATTGAAGGCATATTATGCAAAAAACGCCTTCAATAAATATT
1 A-AATTATTGAAGGCATATTATGCAAAAAACGCCTTCAATAAATATT
436665 TTTAAAATTT
Statistics
Matches: 83, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
61 2 0.02
62 20 0.24
63 22 0.27
64 30 0.36
65 9 0.11
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (63 bp):
AAATTATTGAAGGCATATTATGCAAAAAACGCCTTCAATAAATATTCACTTAAAAATTGGAGT
Found at i:437085 original size:13 final size:13
Alignment explanation
Indices: 437067--437091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
437057 TGATATTCTT
437067 TTTATTTTAAAAA
1 TTTATTTTAAAAA
437080 TTTATTTTAAAA
1 TTTATTTTAAAA
437092 TCCATCTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTATTTTAAAAA
Found at i:442679 original size:140 final size:140
Alignment explanation
Indices: 442522--442780 Score: 337
Period size: 140 Copynumber: 1.9 Consensus size: 140
442512 TAAATTAACA
*
442522 GTTATTGTTCTATTTTAATAGTTTTG-ATAG-TTTCAAAAC-ATGATATTAAACTTAT-TGAAAG
1 GTTATTGTTCTATTTTAACAG-TTTGAATAGCTTT-AAAACTA-GATATTAAACTTATCTG-AAG
* *
442583 TATTAAACTTAGTTGCCATGGTTGATATGTATGAAAAAGTTATTGTTTACGTCTATTTAGGTAAA
62 TATTAAACTTAGTTGCCATGGTTGATATGTATGAAAAAATTATCGTTTACGTCTATTTAGGTAAA
442648 AATACAAAATTGTT
127 AATACAAAATTGTT
* * **
442662 GTTATTGTTCTATTTTAACAGTTTGAATAGCTTTAATACTAGATATTAAACTTGTCTGATTTATT
1 GTTATTGTTCTATTTTAACAGTTTGAATAGCTTTAAAACTAGATATTAAACTTATCTGAAGTATT
* *** * *
442727 AAACTTGGTTTTTATGGTTGATATGTATGAAAAAATTATCGTTTATGTTTATTT
66 AAACTTAGTTGCCATGGTTGATATGTATGAAAAAATTATCGTTTACGTCTATTT
442781 GGGACTATTT
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
139 4 0.04
140 92 0.90
141 6 0.06
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (140 bp):
GTTATTGTTCTATTTTAACAGTTTGAATAGCTTTAAAACTAGATATTAAACTTATCTGAAGTATT
AAACTTAGTTGCCATGGTTGATATGTATGAAAAAATTATCGTTTACGTCTATTTAGGTAAAAATA
CAAAATTGTT
Found at i:444335 original size:34 final size:34
Alignment explanation
Indices: 444291--444388 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 34
444281 AATTAGCGGT
*
444291 ATTTTTTAGATACAAATACCGTTAAAATAGCAGC
1 ATTTTTTAGATACAAATACCGTTAAAATAGCAAC
* * * *
444325 GTTTTTTAGATACAAATGCCGCTAAAATAACAAC
1 ATTTTTTAGATACAAATACCGTTAAAATAGCAAC
* *
444359 ATTTTTAAGATAAAAATACC-TATAAAATAG
1 ATTTTTTAGATACAAATACCGT-TAAAATAG
444389 AGGTGTTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (34 bp):
ATTTTTTAGATACAAATACCGTTAAAATAGCAAC
Found at i:444891 original size:28 final size:29
Alignment explanation
Indices: 444848--444907 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
444838 CACTTGAAAC
* *
444848 AAAGATTACTCGAAAAAG-AAAAAATAAT
1 AAAGACTACTCAAAAAAGAAAAAAATAAT
444876 AAAGACTACTCAAAAAAGAAAAAAATAAT
1 AAAGACTACTCAAAAAAGAAAAAAATAAT
444905 AAA
1 AAA
444908 AGTAGACTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.15
Consensus pattern (29 bp):
AAAGACTACTCAAAAAAGAAAAAAATAAT
Found at i:446417 original size:2 final size:2
Alignment explanation
Indices: 446410--446442 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
446400 CTAAGAAGTC
446410 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 T
446443 TGTTTTGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:447480 original size:2 final size:2
Alignment explanation
Indices: 447475--447511 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
447465 TGTGTGTGTT
447475 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 T
447512 TTTTTAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:448267 original size:19 final size:19
Alignment explanation
Indices: 448216--448267 Score: 79
Period size: 18 Copynumber: 2.8 Consensus size: 19
448206 GAAAAATCCA
*
448216 AAAAAATTCTAAAACTTTT
1 AAAAAATTCTAAAAATTTT
*
448235 AAAAAA-TCTTAAAATTTT
1 AAAAAATTCTAAAAATTTT
448253 AAAAAATTCTAAAAA
1 AAAAAATTCTAAAAA
448268 CATTCAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATTCTAAAAATTTT
Found at i:448322 original size:19 final size:20
Alignment explanation
Indices: 448300--448337 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
448290 CTCAAAATAT
*
448300 TTAAAATTTA-AAAAATTTA
1 TTAAAAGTTATAAAAATTTA
448319 TTAAAAGTTATAAAAATTT
1 TTAAAAGTTATAAAAATTT
448338 CTAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TTAAAAGTTATAAAAATTTA
Found at i:448334 original size:10 final size:10
Alignment explanation
Indices: 448302--448354 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
448292 CAAAATATTT
448302 AAAATTTA-A
1 AAAATTTATA
*
448311 AAAATTTATT
1 AAAATTTATA
*
448321 AAAAGTTATA
1 AAAATTTATA
*
448331 AAAATTTCTAA
1 AAAATTTAT-A
448342 AAAATTT-TA
1 AAAATTTATA
448351 AAAA
1 AAAA
448355 CTTAAAAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 13 0.35
10 16 0.43
11 8 0.22
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAATTTATA
Found at i:448342 original size:19 final size:19
Alignment explanation
Indices: 448301--448343 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
448291 TCAAAATATT
* *
448301 TAAAATTTAAAAAATTTAT
1 TAAAAGTTAAAAAATTTAC
448320 TAAAAGTTATAAAAATTT-C
1 TAAAAGTTA-AAAAATTTAC
448339 TAAAA
1 TAAAA
448344 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAGTTAAAAAATTTAC
Found at i:448344 original size:20 final size:20
Alignment explanation
Indices: 448310--448367 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
448300 TTAAAATTTA
* *
448310 AAAAATTTATTAAAAGTTAT
1 AAAAATTTATAAAAAATTAT
* *
448330 AAAAATTTCTAAAAAATTTT
1 AAAAATTTATAAAAAATTAT
*
448350 AAAAACTTA-AAAACAATT
1 AAAAATTTATAAAA-AATT
448368 CAAAACAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATTTATAAAAAATTAT
Found at i:448434 original size:9 final size:9
Alignment explanation
Indices: 448430--448463 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
448420 AAAAAAGTTT
448430 TAAAATTTA
1 TAAAATTTA
*
448439 TAAAATTTT
1 TAAAATTTA
448448 TAAAATTTA
1 TAAAATTTA
448457 TAAAATT
1 TAAAATT
448464 ATTTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TAAAATTTA
Found at i:448448 original size:18 final size:18
Alignment explanation
Indices: 448422--448463 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
448412 AATTAAAAAA
*
448422 AAAAGTTTTAAAATTTAT
1 AAAATTTTTAAAATTTAT
448440 AAAATTTTTAAAATTTAT
1 AAAATTTTTAAAATTTAT
448458 AAAATT
1 AAAATT
448464 ATTTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AAAATTTTTAAAATTTAT
Found at i:448575 original size:10 final size:10
Alignment explanation
Indices: 448549--448587 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
448539 AAATTTTAAT
448549 TTCTCAAAAAA
1 TTCT-AAAAAA
448560 TT-TAAAAAA
1 TTCTAAAAAA
*
448569 TTCTAAACAA
1 TTCTAAAAAA
448579 TTCTAAAAA
1 TTCTAAAAA
448588 TTTTTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 15 0.60
11 2 0.08
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (10 bp):
TTCTAAAAAA
Found at i:448615 original size:10 final size:10
Alignment explanation
Indices: 448554--448616 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
448544 TTAATTTCTC
448554 AAAAAA-TTT
1 AAAAAATTTT
*
448563 AAAAAATTCT
1 AAAAAATTTT
* *
448573 AAACAATTCT
1 AAAAAATTTT
*
448583 AAAAATTTTT
1 AAAAAATTTT
*
448593 GAAAAAATATT
1 -AAAAAATTTT
*
448604 AAAAATTTTT
1 AAAAAATTTT
448614 AAA
1 AAA
448617 CTTTATAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
9 6 0.14
10 29 0.67
11 8 0.19
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:448648 original size:36 final size:35
Alignment explanation
Indices: 448595--448666 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 35
448585 AAATTTTTGA
* *
448595 AAAAATATTAAAAATTTTTA-AACTTTATAAAAGATT
1 AAAAATATGAAAAATTTTTATAA-ATTATAAAA-ATT
*
448631 AAAAATATGAAATATTTTTATAAATTATAAAAATT
1 AAAAATATGAAAAATTTTTATAAATTATAAAAATT
448666 A
1 A
448667 TCATAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.12
36 26 0.81
37 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (35 bp):
AAAAATATGAAAAATTTTTATAAATTATAAAAATT
Found at i:448744 original size:16 final size:17
Alignment explanation
Indices: 448716--448751 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
448706 AAACTCTGAA
*
448716 AAAATTAAAATTTTTTT
1 AAAATTAAAATTTTCTT
448733 AAAATT-AAATTTTCTT
1 AAAATTAAAATTTTCTT
448749 AAA
1 AAA
448752 GTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTAAAATTTTCTT
Found at i:448777 original size:18 final size:17
Alignment explanation
Indices: 448754--448807 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
448744 TTCTTAAAGT
448754 TTAAAAAATCATAAAAAC
1 TTAAAAAATC-TAAAAAC
448772 TTAAAAAA-CTAAAAA-
1 TTAAAAAATCTAAAAAC
*
448787 TAAGAAAAAGTCTAAAAAC
1 TTA-AAAAA-TCTAAAAAC
448806 TT
1 TT
448808 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 2 0.07
16 11 0.37
17 1 0.03
18 15 0.50
19 1 0.03
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.22
Consensus pattern (17 bp):
TTAAAAAATCTAAAAAC
Found at i:448968 original size:8 final size:8
Alignment explanation
Indices: 448926--448955 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
448916 AATATAAAAA
448926 AATTTTAG
1 AATTTTAG
448934 AATTTTAG
1 AATTTTAG
448942 AATTTTAG
1 AATTTTAG
448950 AATTTT
1 AATTTT
448956 TTTTTAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (8 bp):
AATTTTAG
Found at i:448968 original size:12 final size:13
Alignment explanation
Indices: 448944--448968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
448934 AATTTTAGAA
448944 TTTTAGAATTTTT
1 TTTTAGAATTTTT
448957 TTTTAGAATTTT
1 TTTTAGAATTTT
448969 GTAAAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
TTTTAGAATTTTT
Found at i:449216 original size:10 final size:10
Alignment explanation
Indices: 449203--449242 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
449193 ATTATAATTC
449203 TTTAAATTTT
1 TTTAAATTTT
449213 TTTACAATTTT
1 TTTA-AATTTT
*
449224 TTTGAATTTT
1 TTTAAATTTT
449234 TTTAAATTT
1 TTTAAATTT
449243 GTAAAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:449221 original size:20 final size:19
Alignment explanation
Indices: 449183--449241 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
449173 TTTTCAAAAA
* *
449183 TTTAAAATTTATTATAATTC
1 TTTAAATTTTTTTA-AATTC
*
449203 TTTAAATTTTTTTACAATTTT
1 TTTAAATTTTTTTA-AA-TTC
*
449224 TTTGAATTTTTTTAAATT
1 TTTAAATTTTTTTAAATT
449242 TGTAAAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 2 0.06
20 16 0.48
21 15 0.45
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAATTTTTTTAAATTC
Found at i:449334 original size:20 final size:20
Alignment explanation
Indices: 449311--449364 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
449301 CTAAAAGTGA
*
449311 TTTGAAATTATTTTAAAATT
1 TTTGAAAATATTTTAAAATT
*
449331 TTTGAAGAATA-TTTAGAATT
1 TTTGAA-AATATTTTAAAATT
449351 TTT-AAAATATTTTA
1 TTTGAAAATATTTTA
449365 TAGATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 4 0.13
19 6 0.20
20 17 0.57
21 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
TTTGAAAATATTTTAAAATT
Found at i:449379 original size:29 final size:27
Alignment explanation
Indices: 449342--449409 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
449332 TTGAAGAATA
*
449342 TTTAGAATTTTTAAAATATTTTATAGATTT
1 TTTA-AATTTTTAAAATATTTT-TA-AATT
* * *
449372 TTTTAATTTCTATAATATTTTTAAATT
1 TTTAAATTTTTAAAATATTTTTAAATT
449399 TTTAAATTTTT
1 TTTAAATTTTT
449410 TTTTGAAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 12 0.38
28 2 0.06
29 15 0.47
30 3 0.09
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTAAATTTTTAAAATATTTTTAAATT
Found at i:449380 original size:18 final size:17
Alignment explanation
Indices: 449359--449411 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
449349 TTTTTAAAAT
449359 ATTTTATAGATTTTTTTA
1 ATTTTATA-ATTTTTTTA
*
449377 ATTTCTATAATATTTTTAA
1 ATTT-TATAAT-TTTTTTA
449396 ATTTT-TAAATTTTTTT
1 ATTTTAT-AATTTTTTT
449412 TTGAAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 6 0.20
18 10 0.33
19 14 0.47
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
ATTTTATAATTTTTTTA
Found at i:449385 original size:19 final size:17
Alignment explanation
Indices: 449359--449409 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
449349 TTTTTAAAAT
*
449359 ATTTTATAGATTTTTTTA
1 ATTTTATA-ATATTTTTA
449377 ATTTCTATAATATTTTTAA
1 ATTT-TATAATATTTTT-A
449396 ATTTT-TAA-ATTTTT
1 ATTTTATAATATTTTT
449410 TTTTGAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.20
17 3 0.10
18 12 0.40
19 9 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTATAATATTTTTA
Found at i:449578 original size:20 final size:20
Alignment explanation
Indices: 449514--449584 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
449504 ATTATCTAAA
449514 AATTTTTTAAAAATTATTTTAG
1 AATTTTTT-AAAATTATTTT-G
* * * * *
449536 ACTTTTTGAAAAATGTTTAG
1 AATTTTTTAAAATTATTTTG
449556 AATTTTTTAAAATTATTTTG
1 AATTTTTTAAAATTATTTTG
449576 AATTTTTTA
1 AATTTTTTA
449585 GATTTAAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 25 0.64
21 8 0.21
22 6 0.15
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (20 bp):
AATTTTTTAAAATTATTTTG
Found at i:452961 original size:23 final size:23
Alignment explanation
Indices: 452933--452989 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
452923 TTTAATTATG
* *
452933 ATTAATTTATTATTCATAAATAT
1 ATTAATTTAATATTCATAAATAA
*
452956 ATTAATTTAATATTTATAAATAA
1 ATTAATTTAATATTCATAAATAA
*
452979 ATTTATTTAAT
1 ATTAATTTAAT
452990 TGAATTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTAATTTAATATTCATAAATAA
Found at i:456883 original size:19 final size:17
Alignment explanation
Indices: 456848--456887 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
456838 TTTATTTCAT
456848 AAAA-ATTAATATTTAA
1 AAAATATTAATATTTAA
456864 AAAATATTATATATTTTAA
1 AAAATATTA-ATA-TTTAA
456883 AAAAT
1 AAAAT
456888 TAAAAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 4 0.19
18 3 0.14
19 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATTAATATTTAA
Found at i:456889 original size:17 final size:16
Alignment explanation
Indices: 456848--456890 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
456838 TTTATTTCAT
456848 AAAAATTAATATTTAA
1 AAAAATTAATATTTAA
*
456864 AAAATATTATATATTTTA
1 AAAA-ATTA-ATATTTAA
456882 AAAAATTAA
1 AAAAATTAA
456891 AAATTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 8 0.33
18 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAAATTAATATTTAA
Found at i:456896 original size:17 final size:17
Alignment explanation
Indices: 456848--456896 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
456838 TTTATTTCAT
456848 AAAAATT-AATATTTAA
1 AAAAATTAAATATTTAA
* *
456864 AAAATATTATATATTTTA
1 AAAA-ATTAAATATTTAA
*
456882 AAAAATTAAAAATTT
1 AAAAATTAAATATTT
456897 CTATTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 4 0.15
17 12 0.44
18 11 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAATTAAATATTTAA
Found at i:456968 original size:14 final size:15
Alignment explanation
Indices: 456941--456969 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
456931 TATTGTTTGA
456941 TTATTTTTTAAAAAT
1 TTATTTTTTAAAAAT
456956 TTATTTTTTAAAAA
1 TTATTTTTTAAAAA
456970 ATATTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTTTTTAAAAAT
Found at i:456974 original size:14 final size:15
Alignment explanation
Indices: 456942--456974 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
456932 ATTGTTTGAT
*
456942 TATTTTTTAAAAATT
1 TATTTTTTAAAAATA
456957 TATTTTTTAAAAA-A
1 TATTTTTTAAAAATA
456971 TATT
1 TATT
456975 ATTATAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTTTAAAAATA
Found at i:457031 original size:26 final size:26
Alignment explanation
Indices: 456985--457053 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
456975 ATTATAATTG
* *
456985 TTAAAATAT-TAAAAATTATTTTTTA
1 TTAAAATATATTAAAATTATTTATTA
*
457010 TTAAAGTATATTAAAATTATTTATTA
1 TTAAAATATATTAAAATTATTTATTA
*
457036 TTAAAAT-TATTAATATTA
1 TTAAAATATATTAAAATTA
457054 AACAACAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
TTAAAATATATTAAAATTATTTATTA
Found at i:457037 original size:16 final size:15
Alignment explanation
Indices: 457017--457055 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
457007 TTATTAAAGT
457017 ATATTAAAATTATTTA
1 ATATTAAAATTA-TTA
*
457033 TTATTAAAATTATTA
1 ATATTAAAATTATTA
457048 ATATTAAA
1 ATATTAAA
457056 CAACAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:457102 original size:19 final size:19
Alignment explanation
Indices: 457078--457115 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
457068 TTAATCGTGT
*
457078 TTAATATTAAAATAATTTA
1 TTAATATAAAAATAATTTA
*
457097 TTAATATAAAAATGATTTA
1 TTAATATAAAAATAATTTA
457116 AATAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TTAATATAAAAATAATTTA
Found at i:457177 original size:21 final size:21
Alignment explanation
Indices: 457151--457205 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
457141 TATTTAAAAA
457151 TATTTAAAATAATATTACTAT
1 TATTTAAAATAATATTACTAT
* **
457172 TATTTAAAATATTATTTTTAT
1 TATTTAAAATAATATTACTAT
457193 TAATATTAAAATA
1 T-AT-TTAAAATA
457206 TTCATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 19 0.66
22 2 0.07
23 8 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTAAAATAATATTACTAT
Found at i:457218 original size:23 final size:23
Alignment explanation
Indices: 457134--457218 Score: 63
Period size: 23 Copynumber: 3.7 Consensus size: 23
457124 TTTTATTTTT
**
457134 ATATTAATATTTAAAAATATTTAAA
1 ATATT-ATATTTATTAATA-TTAAA
457159 ATA--ATATTACTATT-AT-TTAAA
1 ATATTATATT--TATTAATATTAAA
*
457180 ATATTATTTTTATTAATATTAAA
1 ATATTATATTTATTAATATTAAA
457203 ATATTCATATTT-TTAA
1 ATATT-ATATTTATTAA
457219 AAGTATCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
21 12 0.24
22 7 0.14
23 20 0.41
24 7 0.14
25 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATTATATTTATTAATATTAAA
Found at i:457410 original size:32 final size:30
Alignment explanation
Indices: 457363--457426 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
457353 TTATTTTATT
457363 ATTTAAAATTAATTATTAAATAATAAAATA
1 ATTTAAAATTAATTATTAAATAATAAAATA
* * *
457393 ATTTAAATATTATATTATTTATTATTAAAATA
1 ATTTAAA-ATTA-ATTATTAAATAATAAAATA
457425 AT
1 AT
457427 AATATAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.24
31 4 0.14
32 18 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTAAAATTAATTATTAAATAATAAAATA
Found at i:457995 original size:13 final size:14
Alignment explanation
Indices: 457977--458005 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
457967 TTTATTTGAA
457977 TAAAATA-TATAAT
1 TAAAATATTATAAT
457990 TAAAATATTATAAT
1 TAAAATATTATAAT
458004 TA
1 TA
458006 TATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:458054 original size:12 final size:11
Alignment explanation
Indices: 458035--458064 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
458025 ATTTTTTATT
458035 ATTTTTAAAAA
1 ATTTTTAAAAA
458046 ATATTTTAAAAA
1 AT-TTTTAAAAA
458058 ATTTTTA
1 ATTTTTA
458065 TTATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTTTAAAAA
Found at i:464078 original size:16 final size:16
Alignment explanation
Indices: 464068--464114 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
464058 ATTATTTATA
464068 TATATATTTATATAAT
1 TATATATTTATATAAT
* *
464084 TATATATTTAAAAAAT
1 TATATATTTATATAAT
*
464100 AATAT-TTTAT-TAAT
1 TATATATTTATATAAT
464114 T
1 T
464115 TCGAGTCGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 3 0.12
15 4 0.16
16 18 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATATTTATATAAT
Found at i:466460 original size:17 final size:18
Alignment explanation
Indices: 466434--466474 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
466424 TTTTTTTTAG
466434 AAAT-AATTTT-ACAAAA
1 AAATAAATTTTCACAAAA
* *
466450 TAATAAATTTTCTCAAAA
1 AAATAAATTTTCACAAAA
466468 AAATAAA
1 AAATAAA
466475 ACCAGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 3 0.15
17 6 0.30
18 11 0.55
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAAATTTTCACAAAA
Found at i:466511 original size:23 final size:22
Alignment explanation
Indices: 466481--466568 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 22
466471 TAAAACCAGA
466481 AAAAATAATAATGA-TAAAAAACT
1 AAAAATAA-AATGAGTAAAAAA-T
*
466504 AAAAATAAAATGAGTTAAAAAT
1 AAAAATAAAATGAGTAAAAAAT
* *
466526 -AAAAGAAAATAGAAATCAAAAAAT
1 AAAAATAAAAT-G-AGT-AAAAAAT
466550 AAAAATAAAAT-AG-AAAAAA
1 AAAAATAAAATGAGTAAAAAA
466569 GAAACCTTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
20 6 0.11
21 9 0.17
22 8 0.15
23 16 0.30
24 6 0.11
25 9 0.17
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAATAAAATGAGTAAAAAAT
Found at i:467350 original size:3 final size:3
Alignment explanation
Indices: 467342--467389 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
467332 AAAGGAAAGC
**
467342 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ACG ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
467388 AT
1 AT
467390 GTACTAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:467399 original size:17 final size:17
Alignment explanation
Indices: 467379--467412 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
467369 ATAAAACGAT
467379 AATAATATAATGTACTA
1 AATAATATAATGTACTA
* *
467396 AATATTATACTGTACTA
1 AATAATATAATGTACTA
467413 CCATAACACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (17 bp):
AATAATATAATGTACTA
Found at i:468175 original size:119 final size:118
Alignment explanation
Indices: 467874--468168 Score: 310
Period size: 119 Copynumber: 2.5 Consensus size: 118
467864 TTGAGTTGAG
** * * * *
467874 GTAAAAAATAAATGACCAAGATGAAACCACGAGTCATAAAAAATAATCTAGATTGAGACAAGATC
1 GTAAAAAATAAATGACTGAGATGAAACCACGAATCATAAGAAATGATCTGGATTGAGACAAGATC
* * * ** * *
467939 AAGTGATTGGAACGAAATCACGGATCAAAATGAAGAGACTAAGACCGAGTCGA
66 AAGTAACTGGAACAAAATCACAAATAAAAATGAAGAGACTAAGACCAAGTCGA
* * * * * * *
467992 GATAAAAAATAAATGA-TCGAGATGAAATCATGAATCGTAAGAAATGATATGAACTGAGCCAAGA
1 G-TAAAAAATAAATGACT-GAGATGAAACCACGAATCATAAGAAATGATCTGGATTGAGACAAGA
* *
468056 TC-AGATAACT-GAGACAAAATCACAAATAAAAAATGAAGTGACTAAGACCAAGTTGGA
64 TCAAG-TAACTGGA-ACAAAATCACAAAT-AAAAATGAAGAGACTAAGACCAAG-TCGA
468113 GTAAAAAA-AAATGACTGAGATGAAACCACGAATCATAAGAAATGATCTGGATTGAG
1 GTAAAAAATAAATGACTGAGATGAAACCACGAATCATAAGAAATGATCTGGATTGAG
468169 TTAAGATTAG
Statistics
Matches: 142, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
118 5 0.04
119 104 0.73
120 29 0.20
121 4 0.03
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.18
Consensus pattern (118 bp):
GTAAAAAATAAATGACTGAGATGAAACCACGAATCATAAGAAATGATCTGGATTGAGACAAGATC
AAGTAACTGGAACAAAATCACAAATAAAAATGAAGAGACTAAGACCAAGTCGA
Found at i:468670 original size:38 final size:38
Alignment explanation
Indices: 468616--468693 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
468606 GATGGTATAA
* *
468616 AAACAAAAAGAGAGTGTATATGGATGGCTATTTAAGGT
1 AAACAAAAAGAAAGTGTATAAGGATGGCTATTTAAGGT
*
468654 AAACAAAAAGAAAGTGTATAAGGATGGCTATTTGAGGT
1 AAACAAAAAGAAAGTGTATAAGGATGGCTATTTAAGGT
468692 AA
1 AA
468694 TAATGCCCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24
Consensus pattern (38 bp):
AAACAAAAAGAAAGTGTATAAGGATGGCTATTTAAGGT
Found at i:477946 original size:3 final size:3
Alignment explanation
Indices: 477940--477969 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
477930 TTTTGAAAAG
*
477940 ATT ATT ATT ATT ATT ATT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
477970 GAAAACTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Done.