Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013355.1 Kokia drynarioides strain JFW-HI SEQ_128378, 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: 398338
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 106 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--31 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1 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 T
32 GTTTTGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2241 original size:22 final size:23
Alignment explanation
Indices: 2205--2252 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2195 ACATTAACTG
*
2205 ATAAAAACCCTTTTTGTATTCCC
1 ATAAAAACCCTTTTTGTATCCCC
2228 ATAAAAACCCTTTTTGTATCCCC
1 ATAAAAACCCTTTTTGTATCCCC
2251 AT
1 AT
2253 TTTCATCGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAAAACCCTTTTTGTATCCCC
Found at i:5072 original size:86 final size:86
Alignment explanation
Indices: 4925--5181 Score: 265
Period size: 86 Copynumber: 2.9 Consensus size: 86
4915 TTTAAAAGTG
* *
4925 TAAAAAG-TCCTCAAAATTTTTTTCAAAAAAAGC-AATTAAGCATTTTTTTTTTGCACTCAATT-
1 TAAAAAGATCCTC-AAACTTTTTT-AAAAAAAGCAAATTAAACATTTTTTTTTTGCACTCAATTA
* * *
4987 GGATATTTGAACTTTTAAAATTCA
64 GG-TACTTGAACTTTCAAAATACA
5011 TCAAAAAGATCCTCAAACTTTTTTAAAAAAAGCAAATTAAAC-TCTTTTTTTTT-CACTCAATTA
1 T-AAAAAGATCCTCAAACTTTTTTAAAAAAAGCAAATTAAACAT-TTTTTTTTTGCACTCAATTA
5074 GGTACTTGAACTTTCAAAATACA
64 GGTACTTGAACTTTCAAAATACA
* * * * *
5097 TAAAAAAAGCTCTCAAACTTTTTCAAAAAAAG-AAATTAAGCCCCTGATTTTTTTTTTACACTCA
1 TAAAAAGATC-CTCAAACTTTTTTAAAAAAAGCAAATTAA---AC--ATTTTTTTTTTGCACTCA
* *
5161 ATTGGGTACTTGAACTGTCAA
60 ATTAGGTACTTGAACTTTCAA
5182 TTGTGTCAAA
Statistics
Matches: 147, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
85 14 0.10
86 59 0.40
87 33 0.22
88 6 0.04
90 9 0.06
91 26 0.18
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (86 bp):
TAAAAAGATCCTCAAACTTTTTTAAAAAAAGCAAATTAAACATTTTTTTTTTGCACTCAATTAGG
TACTTGAACTTTCAAAATACA
Found at i:5311 original size:10 final size:10
Alignment explanation
Indices: 5296--5477 Score: 69
Period size: 10 Copynumber: 18.5 Consensus size: 10
5286 TGACATGTAG
5296 TAAAAAATTA
1 TAAAAAATTA
5306 TAAAAAA-TA
1 TAAAAAATTA
**
5315 -AAAATAAAAA
1 TAAAA-AATTA
5325 T-AAAAA-TA
1 TAAAAAATTA
5333 -AATAAAAGTTA
1 TAA-AAAA-TTA
5344 T-AAAAATTA
1 TAAAAAATTA
* * **
5353 TTAGATTTTAA
1 TAAAAAATT-A
*
5364 TAAAAATATTT
1 TAAAAA-ATTA
*
5375 TAAAATATT-
1 TAAAAAATTA
*
5384 T-AAAATTTA
1 TAAAAAATTA
*
5393 TTAAAAATTA
1 TAAAAAATTA
* *
5403 GAAAAAAATGA
1 -TAAAAAATTA
*
5414 T-AAAAATCA
1 TAAAAAATTA
5423 TAATAAAATTA
1 TAA-AAAATTA
* *
5434 TAAAATATTG
1 TAAAAAATTA
**
5444 TAAAATTTTA
1 TAAAAAATTA
*
5454 T-AAAAATAA
1 TAAAAAATTA
5463 TAAAAAATTA
1 TAAAAAATTA
5473 TAAAA
1 TAAAA
5478 TGCATAAAAA
Statistics
Matches: 127, Mismatches: 28, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
8 11 0.09
9 30 0.24
10 56 0.44
11 28 0.22
12 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:5319 original size:6 final size:6
Alignment explanation
Indices: 5308--5334 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5298 AAAAATTATA
5308 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
5335 TAAAAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:5438 original size:59 final size:59
Alignment explanation
Indices: 5363--5490 Score: 156
Period size: 59 Copynumber: 2.2 Consensus size: 59
5353 TTAGATTTTA
* *
5363 ATAAAAATATTTTAAAATATT-TAAAA-TTTATTAAAAATTAGA-AAAAAATGATAAAAAT-C
1 ATAAAAAAATTATAAAATATTGTAAAATTTTA-TAAAAA-TA-ATAAAAAATGAT-AAAATGC
* *
5422 ATAATAAAATTATAAAATATTGTAAAATTTTATAAAAATAATAAAAAATTATAAAATGC
1 ATAAAAAAATTATAAAATATTGTAAAATTTTATAAAAATAATAAAAAATGATAAAATGC
5481 ATAAAAAAAT
1 ATAAAAAAAT
5491 CTCTTTAACT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
58 6 0.10
59 39 0.65
60 11 0.18
61 4 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (59 bp):
ATAAAAAAATTATAAAATATTGTAAAATTTTATAAAAATAATAAAAAATGATAAAATGC
Found at i:5484 original size:19 final size:19
Alignment explanation
Indices: 5405--5488 Score: 80
Period size: 19 Copynumber: 4.3 Consensus size: 19
5395 AAAAATTAGA
*
5405 AAAAAATGATAAAAATCAT
1 AAAAAATTATAAAAATCAT
**
5424 AATAAAATTATAAAATATTGT
1 AA-AAAATTATAAAA-ATCAT
** *
5445 AAAATTTTATAAAAATAAT
1 AAAAAATTATAAAAATCAT
5464 AAAAAATTAT-AAAATGCAT
1 AAAAAATTATAAAAAT-CAT
5483 AAAAAA
1 AAAAAA
5489 ATCTCTTTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
18 5 0.10
19 21 0.40
20 21 0.40
21 5 0.10
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:5487 original size:29 final size:28
Alignment explanation
Indices: 5405--5488 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
5395 AAAAATTAGA
* *
5405 AAAAAATGATAAAAATCATAATAAAATTAT
1 AAAAAATTAT-AAAATCATAA-AAAATAAT
* * **
5435 AAAATATTGTAAAATTTTATAAAAATAAT
1 AAAAAATTATAAAATCATA-AAAAATAAT
5464 AAAAAATTATAAAATGCATAAAAAA
1 AAAAAATTATAAAAT-CATAAAAAA
5489 ATCTCTTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
29 32 0.76
30 10 0.24
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (28 bp):
AAAAAATTATAAAATCATAAAAAATAAT
Found at i:5602 original size:7 final size:7
Alignment explanation
Indices: 5586--5615 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5576 GGCGAAAAAT
*
5586 AATAAAA
1 AATAATA
5593 AATAATA
1 AATAATA
5600 AATAATA
1 AATAATA
5607 AATAATA
1 AATAATA
5614 AA
1 AA
5616 AGTTATAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AATAATA
Found at i:5721 original size:29 final size:29
Alignment explanation
Indices: 5689--5796 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 29
5679 GGATATATTT
5689 CTTTATAAAATTTTATAATTTTCTTATGA
1 CTTTATAAAATTTTATAATTTTCTTATGA
* *
5718 CTTTATAAAATTTTATAATTTTTTTACGA
1 CTTTATAAAATTTTATAATTTTCTTATGA
* * * **
5747 -TTTTTATAATTTT-TAATATTCTATATTT
1 CTTTATAAAATTTTATAATTTTCT-TATGA
* *
5775 TTTTATTAAAATTTAATAATTT
1 CTTTA-TAAAATTTTATAATTT
5797 ATAAATTTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
27 7 0.11
28 13 0.21
29 30 0.48
30 7 0.11
31 5 0.08
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (29 bp):
CTTTATAAAATTTTATAATTTTCTTATGA
Found at i:15443 original size:74 final size:73
Alignment explanation
Indices: 15291--15485 Score: 180
Period size: 74 Copynumber: 2.6 Consensus size: 73
15281 CAAACTTTTA
* *
15291 AAAAAAATTGAGATAAATCTTGTCTAAGGCAACCTTTTAAAAAAAATTAGAATAAACCCATTTAA
1 AAAAAAATTGAGATAAACCTTGTCTAAGACAACC-TTTAAAAAAAATTAGAATAAACCCATTTAA
* *
15356 GGCAACCTC
65 GACAAACTC
* * * * *
15365 AAAAATATTGAGATAAACCTTGTCTAAAACAACCTTTAAAAAATATT-GAGATAAA-TCTTGTCT
1 AAAAAAATTGAGATAAACCTTGTCTAAGACAACCTTTAAAAAAAATTAGA-ATAAACCCAT-T-T
*
15428 AAGACAAACTT
63 AAGACAAACTC
** * * * *
15439 AAAAAGGTT-AGAATATAGCTTATCTAAGACAACCTTTAAAAACAATT
1 AAAAAAATTGAG-ATAAACCTTGTCTAAGACAACCTTTAAAAAAAATT
15486 GGTATAACCA
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
72 4 0.04
73 20 0.20
74 75 0.76
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (73 bp):
AAAAAAATTGAGATAAACCTTGTCTAAGACAACCTTTAAAAAAAATTAGAATAAACCCATTTAAG
ACAAACTC
Found at i:15623 original size:77 final size:74
Alignment explanation
Indices: 15366--15637 Score: 221
Period size: 73 Copynumber: 3.6 Consensus size: 74
15356 GGCAACCTCA
* * * * * * * * * * *
15366 AAAATATTGAGATAAACCTTGTCTAAAACAACCTTTAAAAAATATTGAGATAAATCTTGTCTAAG
1 AAAAGATTAAGATAAACTTTATCTAAGACAACCTTTTAAAAAGATTGGGATAAACCTTATCTAAA
*
15431 ACAA-ACTTA
66 ACAACA-TTT
* * * * ***
15440 AAAAGGTT-AGAATATAGC-TTATCTAAGACAACC-TTTAAAAACAATTGGTAT-AACCACGTCT
1 AAAAGATTAAG-ATA-AACTTTATCTAAGACAACCTTTTAAAAA-GATTGGGATAAACCTTATCT
15501 AAAACAACATTT
63 AAAACAACATTT
* * *
15513 AAAAGGTTAAGATAAATTTTGTCTAAGACAACCTTTTTAAAAAGATTGGGATAAACCTTATCTAA
1 AAAAGATTAAGATAAACTTTATCTAAGACAACC-TTTTAAAAAGATTGGGATAAACCTTATCTAA
*
15578 AGCAACATTTT
65 AACAACA-TTT
* *
15589 AAAAAGATTGAGATAAACTTTATCTAAGATAACCTTTTAAAAAGATTGG
1 -AAAAGATTAAGATAAACTTTATCTAAGACAACCTTTTAAAAAGATTGG
15638 AATAGACAAA
Statistics
Matches: 159, Mismatches: 28, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
72 1 0.01
73 49 0.31
74 38 0.24
75 25 0.16
76 18 0.11
77 28 0.18
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (74 bp):
AAAAGATTAAGATAAACTTTATCTAAGACAACCTTTTAAAAAGATTGGGATAAACCTTATCTAAA
ACAACATTT
Found at i:15632 original size:38 final size:38
Alignment explanation
Indices: 15285--15636 Score: 187
Period size: 38 Copynumber: 9.4 Consensus size: 38
15275 TAAAAGCAAA
* * *
15285 CTTTTAAAAAAAATTGAGATAAA-TCTTGTCTAAGGCAAC
1 CTTTT-AAAAAGATTGAGATAAACT-TTATCTAAGACAAC
* ** * *
15324 CTTTTAAAAAAAATT-AGAATAAAC-CCATTTAAGGCAAC
1 CTTTT-AAAAAGATTGAG-ATAAACTTTATCTAAGACAAC
* * * * *
15362 C--TCAAAAATATTGAGATAAACCTTGTCTAAAACAAC
1 CTTTTAAAAAGATTGAGATAAACTTTATCTAAGACAAC
* * * *
15398 CTTTAAAAAATATTGAGATAAA-TCTTGTCTAAGACAAA
1 CTTTTAAAAAGATTGAGATAAACT-TTATCTAAGACAAC
* *
15436 C--TTAAAAAGGTT-AGAATATAGC-TTATCTAAGACAAC
1 CTTTTAAAAAGATTGAG-ATA-AACTTTATCTAAGACAAC
* **** *
15472 C-TTTAAAAACAATTG-G-TATAACCACGTCTAAAACAA-
1 CTTTTAAAAA-GATTGAGATA-AACTTTATCTAAGACAAC
* * * * *
15508 CATTT-AAAAGGTTAAGATAAATTTTGTCTAAGACAAC
1 CTTTTAAAAAGATTGAGATAAACTTTATCTAAGACAAC
* *
15545 CTTTTTAAAAAGATTGGGATAAACCTTATCTAA-AGCAAC
1 C-TTTTAAAAAGATTGAGATAAACTTTATCTAAGA-CAAC
* *
15584 ATTTTAAAAAGATTGAGATAAACTTTATCTAAGATAAC
1 CTTTTAAAAAGATTGAGATAAACTTTATCTAAGACAAC
15622 CTTTTAAAAAGATTG
1 CTTTTAAAAAGATTG
15637 GAATAGACAA
Statistics
Matches: 242, Mismatches: 49, Indels: 45
0.72 0.15 0.13
Matches are distributed among these distances:
35 18 0.07
36 59 0.24
37 23 0.10
38 97 0.40
39 45 0.19
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (38 bp):
CTTTTAAAAAGATTGAGATAAACTTTATCTAAGACAAC
Found at i:15810 original size:17 final size:18
Alignment explanation
Indices: 15781--15814 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15771 ATACAACTAA
15781 AAAATATAAAATTAAATT
1 AAAATATAAAATTAAATT
15799 AAAATA-AAAATTAAAT
1 AAAATATAAAATTAAAT
15815 ATTCACTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATATAAAATTAAATT
Found at i:18910 original size:7 final size:7
Alignment explanation
Indices: 18890--18929 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
18880 AATTAATATG
*
18890 AACCTTG
1 AACCTTA
*
18897 AATCTTA
1 AACCTTA
18904 AACCTTA
1 AACCTTA
18911 AACCTTA
1 AACCTTA
18918 AACCTTA
1 AACCTTA
18925 AACCT
1 AACCT
18930 CGAATCTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.40, C:0.28, G:0.03, T:0.30
Consensus pattern (7 bp):
AACCTTA
Found at i:19631 original size:38 final size:38
Alignment explanation
Indices: 19561--19918 Score: 414
Period size: 38 Copynumber: 9.7 Consensus size: 38
19551 GATAAACTCA
* *
19561 TCTAAGGCAA-CTTTAAAAAATGTTGGGGTAGACCTTG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
* **
19598 TCTAAGGCAACCTTTAAAAAAGATTAAGATAGA-CTTG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
* **
19635 TCTAAGGCAACTTTTAAAAAAAATTGGGATAGACC-TG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
* *
19672 TTTAAGGCAACC-TT-AAAAAGGTTGGGATAGACATTG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
* *
19708 TCTAAGGCAA-CTTT-AAAAAGGTTGGAATAGACATTG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
* * *
19744 TTTCAGGCAACCTTTAAAAAAGGTTGGAATAGACCTTG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
* *
19782 TTTGAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
* * * *
19820 TCTAAGACAACCTTTTAAAAAGATTGAGATAGACCTTG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
* * *
19858 TCTAAGGCAACC-TT-AAAAAGGTTGAGACAAACCTTG
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
*
19894 TCTAAAGCAACC-TT-AAAAAGGTTGG
1 TCTAAGGCAACCTTTAAAAAAGGTTGG
19919 CATAATGTTG
Statistics
Matches: 282, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
35 17 0.06
36 86 0.30
37 61 0.22
38 118 0.42
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (38 bp):
TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTG
Found at i:19641 original size:74 final size:75
Alignment explanation
Indices: 19561--19912 Score: 414
Period size: 74 Copynumber: 4.8 Consensus size: 75
19551 GATAAACTCA
* * *
19561 TCTAAGGCAACTTTAAAAAATGTTGGGGTAGACCTTGTCTAAGGCAACCTTTAAAAAAGATTAAG
1 TCTAAGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGATTGAG
19626 ATAGA-CTTG
66 ATAGACCTTG
** * * *
19635 TCTAAGGCAACTTTTAAAAAAAATTGGGATAGACC-TGTTTAAGGCAACC-TT-AAAAAGGTTGG
1 TCTAAGGCAAC-TTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGATTGA
*
19697 GATAGACATTG
65 GATAGACCTTG
* * * * *
19708 TCTAAGGCAACTTT-AAAAAGGTTGGAATAGACATTGTTTCAGGCAACCTTTAAAAAAGGTTG-G
1 TCTAAGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGATTGAG
19771 AATAGACCTTG
66 -ATAGACCTTG
* * * *
19782 TTTGAGGCAACCTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTTTAAAAAGATTGA
1 TCTAAGGCAA-CTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGATTGA
19847 GATAGACCTTG
65 GATAGACCTTG
* * * * *
19858 TCTAAGGCAACCTT-AAAAAGGTTGAGACAAACCTTGTCTAAAGCAACC-TTAAAAA
1 TCTAAGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAA
19913 GGTTGGCATA
Statistics
Matches: 237, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
71 15 0.06
72 30 0.13
73 25 0.11
74 80 0.34
75 27 0.11
76 59 0.25
77 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (75 bp):
TCTAAGGCAACTTTAAAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGATTGAG
ATAGACCTTG
Found at i:20207 original size:141 final size:140
Alignment explanation
Indices: 19909--20242 Score: 467
Period size: 141 Copynumber: 2.4 Consensus size: 140
19899 AGCAACCTTA
* * *
19909 AAAAG-GTTGGCATAATGTTGGATAAAGCCAACTCTTATTTAAGCGTTGCCTTACGCATGCATAT
1 AAAAGTGTTGGCATAGTGTTGGACAAAGCCAATTCTTATTTAAGCGTTGCCTTACGCATGCATAT
* * *
19973 CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATCCTGACAAGTGTATCCCAATACTTAGGAAA
66 CCCAACCCTTATACAAAGAGTTGGCAAAAGCGTATCCTGACAAGTCTATCCCAACACTTAGGAAA
*
20038 GTGTCGGCCC
131 GTGTCGCCCC
* * ** *
20048 AAAAGTGTCGCCATAGTGTTGGACAAAGCTGATTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
1 AAAAGTGTTGGCATAGTGTTGGACAAAGCCAATTCTTATTTAAGCGTTGCCTTACGCATGCATAT
* * *
20113 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTAT-GTAGGCAAGTCTATGCCAACACTTAGGA
66 CCCAACCCTTATAC-AAAGAGTTGGCAAAAGCGTATCCT-GACAAGTCTATCCCAACACTTAGGA
20177 AAGTGTCGCCCC
129 AAGTGTCGCCCC
* *
20189 AAAAGTGTTGGCATAGTGTTGAACAAAGCCAACTT-TTATTTAAGCGTTGTCTTA
1 AAAAGTGTTGGCATAGTGTTGGACAAAGCCAA-TTCTTATTTAAGCGTTGCCTTA
20243 AAACCCGAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
139 5 0.03
140 66 0.39
141 97 0.57
142 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (140 bp):
AAAAGTGTTGGCATAGTGTTGGACAAAGCCAATTCTTATTTAAGCGTTGCCTTACGCATGCATAT
CCCAACCCTTATACAAAGAGTTGGCAAAAGCGTATCCTGACAAGTCTATCCCAACACTTAGGAAA
GTGTCGCCCC
Found at i:25856 original size:39 final size:39
Alignment explanation
Indices: 25802--25879 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
25792 ATAAGACGAA
*
25802 TTACTCGAAGTCGATGATAATGACACCACCCAAGGCTAT
1 TTACTCAAAGTCGATGATAATGACACCACCCAAGGCTAT
25841 TTACTCAAAGTCGATGATAATGACACCACCCAAGGCTAT
1 TTACTCAAAGTCGATGATAATGACACCACCCAAGGCTAT
25880 AATAAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (39 bp):
TTACTCAAAGTCGATGATAATGACACCACCCAAGGCTAT
Found at i:32206 original size:16 final size:16
Alignment explanation
Indices: 32185--32217 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32175 CAAATGTCTA
32185 CCATTTTCAATTTTTT
1 CCATTTTCAATTTTTT
*
32201 CCATTTTTAATTTTTT
1 CCATTTTCAATTTTTT
32217 C
1 C
32218 TTTCATTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (16 bp):
CCATTTTCAATTTTTT
Found at i:32890 original size:39 final size:39
Alignment explanation
Indices: 32824--33121 Score: 244
Period size: 39 Copynumber: 7.5 Consensus size: 39
32814 CGCGAAGCTA
* * *
32824 CCATCTAATCTCTTA-CCTCGACCATGGGGTAGATTGAAG
1 CCATCCAATCTTTTACCCT-GACCATGGGGCAGATTGAAG
* * *
32863 TCATCCAATTTTTTACCCTGACCATGGGGCAGATTGAAA
1 CCATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAG
* * *
32902 TCATCTAATCTTTTACCCTAACCA-GAGGGCAGATTGAAG
1 CCATCCAATCTTTTACCCTGACCATG-GGGCAGATTGAAG
* * * *
32941 ACACTATCTAATCTCTTACCCCGACCATGGGGTAGATTGAAG
1 -C-C-ATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAG
* * * *
32983 CCATCCAATATTTCACCCTAACCA-GAGGGTAGATTGAAG
1 CCATCCAATCTTTTACCCTGACCATG-GGGCAGATTGAAG
* **
33022 ACACCATCCAATCTCTTACCCTGACCATGGGGCAGATCAAAG
1 ---CCATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAG
* * *
33064 TCATCCAATCTTTTACCCTAACTA-GAGGGCAGATTGAAG
1 CCATCCAATCTTTTACCCTGACCATG-GGGCAGATTGAAG
* *
33103 ACCAGCCAATTTTTTACCC
1 -CCATCCAATCTTTTACCC
33122 ATTCAGACGA
Statistics
Matches: 209, Mismatches: 37, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
38 3 0.01
39 122 0.58
40 19 0.09
41 2 0.01
42 61 0.29
43 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (39 bp):
CCATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAG
Found at i:32981 original size:81 final size:81
Alignment explanation
Indices: 32864--33104 Score: 340
Period size: 81 Copynumber: 3.0 Consensus size: 81
32854 AGATTGAAGT
* * *
32864 CATCCAATTTTTTACCCTGACCATGGGGCAGATTGAAATCATCTAATCTTTTACCCTAACCAGAG
1 CATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAATCATCCAATCTTTTACCCTAACCAGAG
32929 GGCAGATTGAAGACAC
66 GGCAGATTGAAGACAC
* * * * ** * *
32945 TATCTAATCTCTTACCCCGACCATGGGGTAGATTGAAGCCATCCAATATTTCACCCTAACCAGAG
1 CATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAATCATCCAATCTTTTACCCTAACCAGAG
*
33010 GGTAGATTGAAGACAC
66 GGCAGATTGAAGACAC
* *
33026 CATCCAATCTCTTACCCTGACCATGGGGCAGA-TCAAAGTCATCCAATCTTTTACCCTAACTAGA
1 CATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAA-TCATCCAATCTTTTACCCTAACCAGA
33090 GGGCAGATTGAAGAC
65 GGGCAGATTGAAGAC
33105 CAGCCAATTT
Statistics
Matches: 136, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
80 3 0.02
81 133 0.98
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (81 bp):
CATCCAATCTCTTACCCTGACCATGGGGCAGATTGAAATCATCCAATCTTTTACCCTAACCAGAG
GGCAGATTGAAGACAC
Found at i:33081 original size:120 final size:119
Alignment explanation
Indices: 32825--33058 Score: 301
Period size: 120 Copynumber: 1.9 Consensus size: 119
32815 GCGAAGCTAC
* * * * *
32825 CATCTAATCTCTTACCTCGACCATGGGGTAGATTGAAGTCATCCAATTTTTTACCCTGACCATGG
1 CATCTAATCTCTTACCCCGACCATGGGGTAGATTGAAGCCATCCAATATTTCACCCTAACCATGG
* * * *
32890 GGCAGATTGAAATCATCTAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACA
66 GGCAGATTGAAACCATCCAATCTCTTACCCTAACCAGAGGGCAGATTCAAGACA
32944 CTATCTAATCTCTTACCCCGACCATGGGGTAGATTGAAGCCATCCAATATTTCACCCTAACCA-G
1 C-ATCTAATCTCTTACCCCGACCATGGGGTAGATTGAAGCCATCCAATATTTCACCCTAACCATG
* *
33008 AGGGTAGATTGAAGACACCATCCAATCTCTTACCCTGACCATG-GGGCAGAT
65 -GGGCAGATTG-A-A-ACCATCCAATCTCTTACCCTAACCA-GAGGGCAGAT
33059 CAAAGTCATC
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
119 2 0.02
120 65 0.66
121 1 0.01
122 1 0.01
123 29 0.29
124 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (119 bp):
CATCTAATCTCTTACCCCGACCATGGGGTAGATTGAAGCCATCCAATATTTCACCCTAACCATGG
GGCAGATTGAAACCATCCAATCTCTTACCCTAACCAGAGGGCAGATTCAAGACA
Found at i:41030 original size:21 final size:21
Alignment explanation
Indices: 41005--41047 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
40995 GCATAAGTAG
41005 GGCTAGCTTGTATGGCTTGTA
1 GGCTAGCTTGTATGGCTTGTA
41026 GGCTAGCTTGTATGGCTTGTA
1 GGCTAGCTTGTATGGCTTGTA
41047 G
1 G
41048 AACAGCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.35, T:0.37
Consensus pattern (21 bp):
GGCTAGCTTGTATGGCTTGTA
Found at i:53418 original size:31 final size:30
Alignment explanation
Indices: 53383--53453 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
53373 CGGCACAAAA
*
53383 TTCTCTTCATTCTCTTTT-TCCTTCTCTTTTC
1 TTCTCTTCATTC-CTTTTCT-CTTCTCTCTTC
* *
53414 TTCTCTTCCTTCCTTTTCTCTTTTCTCTTC
1 TTCTCTTCATTCCTTTTCTCTTCTCTCTTC
53444 TTCCTCTTCA
1 TT-CTCTTCA
53454 ACACCTGTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (30 bp):
TTCTCTTCATTCCTTTTCTCTTCTCTCTTC
Found at i:59507 original size:18 final size:18
Alignment explanation
Indices: 59486--59538 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
59476 GCATTCGAGC
*
59486 ATGTTATTGCATCTGATT
1 ATGTAATTGCATCTGATT
* * *
59504 ATGTGACTGCATCT-AGGT
1 ATGTAATTGCATCTGA-TT
59522 ATGTAATTGCATCTGAT
1 ATGTAATTGCATCTGAT
59539 CAAGCTGTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (18 bp):
ATGTAATTGCATCTGATT
Found at i:63270 original size:80 final size:79
Alignment explanation
Indices: 63133--63292 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 79
63123 TACCATCAAC
** * * *
63133 CAAATTCGTCAATTCATGGCACCTGGTGCCTAGCGGATAAACCGCGATAAGTGAGCCCAGCTCTA
1 CAAATTCGTCAATTCATGGCACCCAGTGCCTAGCGGATAAACCACAATAAATGAGCCCAGCTCTA
*
63198 GTTTGATTAACCAA
66 GTTGGATTAACCAA
* *
63212 CAAATTTCGTCAATTCATGGCACCCAGTGCCTAGTGGATAAACCACAATAAATGAGCCCAGCTTT
1 CAAA-TTCGTCAATTCATGGCACCCAGTGCCTAGCGGATAAACCACAATAAATGAGCCCAGCTCT
63277 AGTTGGATTAACCAA
65 AGTTGGATTAACCAA
63292 C
1 C
63293 GATTTGCGCC
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 4 0.06
80 68 0.94
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (79 bp):
CAAATTCGTCAATTCATGGCACCCAGTGCCTAGCGGATAAACCACAATAAATGAGCCCAGCTCTA
GTTGGATTAACCAA
Found at i:65579 original size:13 final size:12
Alignment explanation
Indices: 65561--65603 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
65551 TATATATATA
65561 TTTTTCTTTTCT
1 TTTTTCTTTTCT
*
65573 CTTTTTCTTTTAT
1 -TTTTTCTTTTCT
*
65586 TTTTTTTTTTCT
1 TTTTTCTTTTCT
65598 ATTTTT
1 -TTTTT
65604 ATATATTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:66427 original size:13 final size:13
Alignment explanation
Indices: 66409--66433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66399 AATTATATTG
66409 AAAATTAAAAATT
1 AAAATTAAAAATT
66422 AAAATTAAAAAT
1 AAAATTAAAAAT
66434 GAATTTGGTG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:67448 original size:15 final size:15
Alignment explanation
Indices: 67428--67461 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
67418 TCGGTTGGAG
67428 CCTTTGAATCGAGTT
1 CCTTTGAATCGAGTT
* *
67443 CCTTTGAATTGGGTT
1 CCTTTGAATCGAGTT
67458 CCTT
1 CCTT
67462 CTCTTCGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.44
Consensus pattern (15 bp):
CCTTTGAATCGAGTT
Found at i:74624 original size:19 final size:18
Alignment explanation
Indices: 74591--74634 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
74581 AATACTATAT
74591 ATAAATATAAAATAAAAA
1 ATAAATATAAAATAAAAA
** *
74609 AGTAAATATACGATAAATA
1 A-TAAATATAAAATAAAAA
74628 ATAAATA
1 ATAAATA
74635 AAAGGCTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (18 bp):
ATAAATATAAAATAAAAA
Found at i:82706 original size:39 final size:40
Alignment explanation
Indices: 82658--82733 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
82648 CCACATCAAC
82658 AAATGATTTTAAAATT-A-TTAAAATTATTTTTTAAAAAAT
1 AAATGATTTTAAAATTAATTTAAAA-TATTTTTTAAAAAAT
*
82697 AAATTATTTTAAAATTAATTTAAAATATTTTTTAAAA
1 AAATGATTTTAAAATTAATTTAAAATATTTTTTAAAA
82734 TACAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 15 0.44
40 13 0.38
41 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (40 bp):
AAATGATTTTAAAATTAATTTAAAATATTTTTTAAAAAAT
Found at i:82748 original size:39 final size:38
Alignment explanation
Indices: 82665--82750 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 38
82655 AACAAATGAT
82665 TTTAAAATTATTAAAATTATTTTTTAAAAAATAAATTA
1 TTTAAAATTATTAAAATTATTTTTTAAAAAATAAATTA
82703 TTTTAAAATTAATTTAAAA-TATTTTTTAAAATACA-AAATTA
1 -TTTAAAATT-A-TTAAAATTATTTTTTAAAA-A-ATAAATTA
82744 -TTAAAAT
1 TTTAAAAT
82751 CATCATCTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
39 16 0.37
40 13 0.30
41 13 0.30
42 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (38 bp):
TTTAAAATTATTAAAATTATTTTTTAAAAAATAAATTA
Found at i:82803 original size:6 final size:6
Alignment explanation
Indices: 82785--82837 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
82775 GTTTTTTTTG
* *
82785 TTCCCC TTTCCC TTCCCC TTCCCC TTCCCC TTCCCCCC TTCCCC TTTCCC
1 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC TT--CCCC TTCCCC TTCCCC
82835 TTC
1 TTC
82838 TTCTTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 35 0.85
8 6 0.15
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TTCCCC
Found at i:91905 original size:431 final size:431
Alignment explanation
Indices: 91089--91962 Score: 1464
Period size: 431 Copynumber: 2.0 Consensus size: 431
91079 AGACTCAAGC
91089 ACTCACAAGTAACCACACCTCTCAGTGCTGGCATTGCTTCACACCTAAGAACAAGTGACAGAATC
1 ACTCA-AAGT-ACCACACCTCTCAGTGCTGGCATTGCTTCACACCTAAGAACAAGTGACAGAATC
* *
91154 CCTTCTAGTCTCAAGCAACTCTCACTGACTTGCTTGTTAATTCAACTTGTCACTATACCTCTCAG
64 CCTTCTAGTCTCAAGCAACTCTCACTGACTTGCTTGTTAATTCAACTTGTCACCACACCTCTCAG
* * *
91219 TGTCGGTAGACTGCAATTACACTTTCATGGTCAAATAGTTGAATCCAAGAATAAATAGATGAGAA
129 TGTCGGTAGACTGCAATTACACTCTCATGGTCAAACAGTTGAATCCAAGAATAAACAGATGAGAA
91284 GAATTAAGTATGAATCAAAGTAATCTAACATTGAAAGATATTCTCAAATACAATCAACTATCAAT
194 GAATTAAGTATGAATCAAAGTAATCTAACATTGAAAGATATTCTCAAATACAATCAACTATCAAT
*
91349 AATAATTCATCAGCATTCAAAGAGGGATTAACAAATAAATCGAAGCATACTATCCCTAAGCTACT
259 AATAATTCATCAGCATTCAAAGAGGGATTAACAAATAAATCGAAGCATACTATCCCTAAGCTACA
*
91414 AGGATTATCTCTTAACCACTCCTCCTGTATCGTACCAAGCACTTCTCGTCAGAAGTTGTTGCTC-
324 AGGATTATCTCTTAACCACTCCTCCTGTATCGCACCAAGCACTTCTCGTCAGAAGTTGTTGCTCA
* ** *
91478 GCCTGATCGATCAGCTCGCCGGACTCCAGCATAAATCTTCAAAA
389 G-CTGATCGATCAGCTCACCCAACTCCAGCATAAAGCTTCAAAA
* * * *
91522 ACTCAAAGTACCACACCTCTCAGTGTTGGCATTTCTTCACACCTAAGCACAAGTGATAGAATCCC
1 ACTCAAAGTACCACACCTCTCAGTGCTGGCATTGCTTCACACCTAAGAACAAGTGACAGAATCCC
* *
91587 TTCTAGTCTCAAGCAACTCTCGCTGACTTGCTTGTTAATTCAACTTGTCACCGCACCTCTCAGTG
66 TTCTAGTCTCAAGCAACTCTCACTGACTTGCTTGTTAATTCAACTTGTCACCACACCTCTCAGTG
* *
91652 TCGGTAGATTGCAATTACACTCTCGTGGTCAAACAGTTGAATCCAAGAATAAACAGATGAGAAGA
131 TCGGTAGACTGCAATTACACTCTCATGGTCAAACAGTTGAATCCAAGAATAAACAGATGAGAAGA
* *
91717 ATTAAGTATGAATCAAAGTAATCTAACATTGAAAGATATTCTCATATACAATCAACT-GCTAATA
196 ATTAAGTATGAATCAAAGTAATCTAACATTGAAAGATATTCTCAAATACAATCAACTATC-AATA
*
91781 ATAATTCATCAGCATTCAAAGAGGGATTAACAAATAAATCGAAGCATACTATCCCTAGGCTACAA
260 ATAATTCATCAGCATTCAAAGAGGGATTAACAAATAAATCGAAGCATACTATCCCTAAGCTACAA
* * * *
91846 GGATTATCTCTTAATCACTCCTCTTGTATCGCACCAAGCACTTCTTGTCAGATGTTGTTGCTCAG
325 GGATTATCTCTTAACCACTCCTCCTGTATCGCACCAAGCACTTCTCGTCAGAAGTTGTTGCTCAG
91911 CTGATCGATCAGCTCACCCAACTCCAGCATAAAGCTTCAAAA
390 CTGATCGATCAGCTCACCCAACTCCAGCATAAAGCTTCAAAA
91953 ACTCAAAGTA
1 ACTCAAAGTA
91963 TTTGCAGAAT
Statistics
Matches: 413, Mismatches: 26, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
430 1 0.00
431 402 0.97
432 5 0.01
433 5 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (431 bp):
ACTCAAAGTACCACACCTCTCAGTGCTGGCATTGCTTCACACCTAAGAACAAGTGACAGAATCCC
TTCTAGTCTCAAGCAACTCTCACTGACTTGCTTGTTAATTCAACTTGTCACCACACCTCTCAGTG
TCGGTAGACTGCAATTACACTCTCATGGTCAAACAGTTGAATCCAAGAATAAACAGATGAGAAGA
ATTAAGTATGAATCAAAGTAATCTAACATTGAAAGATATTCTCAAATACAATCAACTATCAATAA
TAATTCATCAGCATTCAAAGAGGGATTAACAAATAAATCGAAGCATACTATCCCTAAGCTACAAG
GATTATCTCTTAACCACTCCTCCTGTATCGCACCAAGCACTTCTCGTCAGAAGTTGTTGCTCAGC
TGATCGATCAGCTCACCCAACTCCAGCATAAAGCTTCAAAA
Found at i:92744 original size:81 final size:81
Alignment explanation
Indices: 92622--92808 Score: 293
Period size: 81 Copynumber: 2.3 Consensus size: 81
92612 GGCTGAGATT
* * * *
92622 TCGCATATGTTGCGGATTCTCATCAGCTTGTGTGAGTAGCATTGTGAGCGGGTGATATAGACCGT
1 TCGCATATGTTGCGGATTCTCATCAACTTGTGTAAGTAGCATCGTGAGCAGGTGATATAGACCGT
92687 AGCGATGGCCGAGGTC
66 AGCGATGGCCGAGGTC
*
92703 TCGCATATGTTGCGGATTCTCATCAACTTGTGTAAGTAGCATCGTGAGCAGGTGATATTGACCGT
1 TCGCATATGTTGCGGATTCTCATCAACTTGTGTAAGTAGCATCGTGAGCAGGTGATATAGACCGT
* *
92768 AGTGATGGCTGAGGTC
66 AGCGATGGCCGAGGTC
**
92784 TTTCATATGTTGCGGATTCTCATCA
1 TCGCATATGTTGCGGATTCTCATCA
92809 GCTTTTGCCA
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (81 bp):
TCGCATATGTTGCGGATTCTCATCAACTTGTGTAAGTAGCATCGTGAGCAGGTGATATAGACCGT
AGCGATGGCCGAGGTC
Found at i:105633 original size:25 final size:25
Alignment explanation
Indices: 105605--105656 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
105595 AATCATTTCC
105605 TTCTTATAATTTAGG-TTTAGTTGCT
1 TTCTT-TAATTTAGGTTTTAGTTGCT
**
105630 TTCTTTTCTTTAGGTTTTAGTTGCT
1 TTCTTTAATTTAGGTTTTAGTTGCT
105655 TT
1 TT
105657 TATTCTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.13, C:0.10, G:0.15, T:0.62
Consensus pattern (25 bp):
TTCTTTAATTTAGGTTTTAGTTGCT
Found at i:105662 original size:24 final size:24
Alignment explanation
Indices: 105614--105663 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
105604 CTTCTTATAA
*
105614 TTTAGGTTTAGTTGCTTTCTTTTC
1 TTTAGGTTTAGTTGCTTTCTATTC
105638 TTTAGGTTTTAGTTGCTTT-TATTC
1 TTTAGG-TTTAGTTGCTTTCTATTC
105662 TT
1 TT
105664 GTTTTACGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.10, C:0.10, G:0.16, T:0.64
Consensus pattern (24 bp):
TTTAGGTTTAGTTGCTTTCTATTC
Found at i:105669 original size:21 final size:24
Alignment explanation
Indices: 105614--105663 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
105604 CTTCTTATAA
* *
105614 TTTAGGTTTAGTTGCTTTCTTTTC
1 TTTAGTTTTAGTTGCTTTCTATTC
105638 TTTAGGTTTTAGTTGCTTT-TATTC
1 TTTA-GTTTTAGTTGCTTTCTATTC
105662 TT
1 TT
105664 GTTTTACGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.10, C:0.10, G:0.16, T:0.64
Consensus pattern (24 bp):
TTTAGTTTTAGTTGCTTTCTATTC
Found at i:109911 original size:23 final size:23
Alignment explanation
Indices: 109881--109926 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
109871 GCTGCACCAG
109881 AACTCATCTTACTATAATTCTTC
1 AACTCATCTTACTATAATTCTTC
109904 AACTCATCTTACTATAATTCTTC
1 AACTCATCTTACTATAATTCTTC
109927 CTTTGTGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.43
Consensus pattern (23 bp):
AACTCATCTTACTATAATTCTTC
Found at i:112398 original size:50 final size:50
Alignment explanation
Indices: 112323--112418 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
112313 ATTTCATCAT
*
112323 AAATCTAAACAAGATTTCATGAACAT-TAGCAGAAAACTCAGAATCAGGAA
1 AAATCTAAACAAGATTTCATAAACATATA-CAGAAAACTCAGAATCAGGAA
*
112373 AAATCTAAACAAGATTTCATAAACATATACAGAAAACTCAGCATCA
1 AAATCTAAACAAGATTTCATAAACATATACAGAAAACTCAGAATCA
112419 AGAAGTTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 41 0.95
51 2 0.05
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (50 bp):
AAATCTAAACAAGATTTCATAAACATATACAGAAAACTCAGAATCAGGAA
Found at i:115968 original size:14 final size:14
Alignment explanation
Indices: 115916--115968 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
115906 AAATAAAAAA
115916 ATTCGAATTTCGAGTT
1 ATTCGAA-TT-GAGTT
* *
115932 AATCGAATCGAGTT
1 ATTCGAATTGAGTT
115946 ATTCGAATTGAGTT
1 ATTCGAATTGAGTT
115960 ATTCGAATT
1 ATTCGAATT
115969 ATTTCGGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 26 0.79
15 1 0.03
16 6 0.18
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (14 bp):
ATTCGAATTGAGTT
Found at i:116058 original size:19 final size:19
Alignment explanation
Indices: 115998--116076 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 19
115988 AGTCGAGTTG
115998 AATTTTCAAAATAATCAAAAT
1 AATTTTCAAAAT--TCAAAAT
*
116019 AATTTTCAAAACTTGAAAAT
1 AATTTTCAAAA-TTCAAAAT
*
116039 AATTTTTAAAATTCAAAAT
1 AATTTTCAAAATTCAAAAT
116058 -ATTTAT-AAAATTCTAAAAT
1 AATTT-TCAAAATTC-AAAAT
116077 TTGTATTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
18 11 0.21
19 13 0.25
20 16 0.31
21 11 0.21
22 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (19 bp):
AATTTTCAAAATTCAAAAT
Found at i:116066 original size:18 final size:18
Alignment explanation
Indices: 115998--116076 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 18
115988 AGTCGAGTTG
115998 AATTTTCAAAATAATCAAAAT
1 AATTTT-AAAAT--TCAAAAT
*
116019 AATTTTCAAAACTTGAAAAT
1 AATTTT-AAAA-TTCAAAAT
116039 AATTTTTAAAATTCAAAAT
1 AA-TTTTAAAATTCAAAAT
116058 -ATTTATAAAATTCTAAAAT
1 AATTT-TAAAATTC-AAAAT
116077 TTGTATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.06
18 9 0.17
19 12 0.23
20 12 0.23
21 15 0.29
22 1 0.02
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (18 bp):
AATTTTAAAATTCAAAAT
Found at i:118683 original size:12 final size:12
Alignment explanation
Indices: 118666--118690 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118656 AGTGAATACG
118666 TATATAAGTATT
1 TATATAAGTATT
118678 TATATAAGTATT
1 TATATAAGTATT
118690 T
1 T
118691 TTTTAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATAAGTATT
Found at i:129877 original size:32 final size:32
Alignment explanation
Indices: 129836--129899 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
129826 GAAGATGCTA
*
129836 AACTTCCCATCGAGTATGTCATTTCTATCCAG
1 AACTTCCCATCGAGTATGTCATTTCTAGCCAG
129868 AACTTCCCATCGAGTATGTCATTTCTAGCCAG
1 AACTTCCCATCGAGTATGTCATTTCTAGCCAG
129900 TAAGCTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (32 bp):
AACTTCCCATCGAGTATGTCATTTCTAGCCAG
Found at i:133639 original size:43 final size:43
Alignment explanation
Indices: 133586--134013 Score: 337
Period size: 43 Copynumber: 10.0 Consensus size: 43
133576 AAAAGCACCA
* * *
133586 CTATAAAACATGATCTTTAGCGGCGCTTTTCCCTCAAACACCG
1 CTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * * *
133629 CTATAGAACATGGTCTTTAGTGGC-CTTTTTCCCA-AAACACCA
1 CTATAGAACATGATCTTTAGCGGCGC-TTTTCCCACAAACGCCG
* * * *
133671 CTATAGAGCATGGTCTTTAACGGCGCTTTTCCCACAAATGCCG
1 CTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * * **
133714 CTATAGAACATGGTCTTTAGCGACTCTTTTCCCGTAAACGCCG
1 CTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG
** * * * * *
133757 CTATAGAGGATGATCTTTAACGGTGTTTTTACCACAAATGCCG
1 CTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG
** * *
133800 CTATAGAACATGATCTTTAGCGATGC-TTTCCCTACAAATGCCA
1 CTATAGAACATGATCTTTAGCGGCGCTTTTCCC-ACAAACGCCG
* * * * *
133843 CTGTAGAGCATGATATTTAGTGGC-CTTTTTACCACAAATC-CCG
1 CTATAGAACATGATCTTTAGCGGCGC-TTTTCCCACAAA-CGCCG
* ** * * * *
133886 CTATAGTACATGATCTTTAGCAACACTTTTCCCATAAATGCAG
1 CTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * *
133929 CTATAGAACATG-TCTTTAGCGGTGTTTTTACCACAAACGCCG
1 CTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * * * * **
133971 CTATAAAACATGTTATTTAACGACATTTTTCCCACAAACGCCG
1 CTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG
134014 ATAATATTGA
Statistics
Matches: 301, Mismatches: 74, Indels: 20
0.76 0.19 0.05
Matches are distributed among these distances:
42 75 0.25
43 220 0.73
44 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (43 bp):
CTATAGAACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCG
Found at i:133794 original size:86 final size:85
Alignment explanation
Indices: 133594--134013 Score: 373
Period size: 86 Copynumber: 4.9 Consensus size: 85
133584 CACTATAAAA
* * * * ** * * *
133594 CATGATCTTTAGCGGCGCTTTTCCCTCAAACACCGCTATAGAACATGGTCTTTAGTGGC-CTTTT
1 CATGATCTTTAACGGCGTTTTTACCACAAATGCCGCTATAGAACATGATCTTTAGCGACTC-TTT
* * *
133658 TCCCAAAACACCACTATAGAG
65 TCCCTAAACGCCGCTATAGAG
* * * *
133679 CATGGTCTTTAACGGCGCTTTTCCCACAAATGCCGCTATAGAACATGGTCTTTAGCGACTCTTTT
1 CATGATCTTTAACGGCGTTTTTACCACAAATGCCGCTATAGAACATGATCTTTAGCGACTCTTTT
133744 CCCGTAAACGCCGCTATAGAG
66 CCC-TAAACGCCGCTATAGAG
* *
133765 GATGATCTTTAACGGTGTTTTTACCACAAATGCCGCTATAGAACATGATCTTTAGCGA-TGC-TT
1 CATGATCTTTAACGGCGTTTTTACCACAAATGCCGCTATAGAACATGATCTTTAGCGACT-CTTT
* * *
133828 TCCCTACAAATGCCACTGTAGAG
65 TCCCT--AAACGCCGCTATAGAG
* ** * * * * *
133851 CATGATATTTAGTGGCCTTTTTACCACAAATCCCGCTATAGTACATGATCTTTAGCAACACTTTT
1 CATGATCTTTAACGGCGTTTTTACCACAAATGCCGCTATAGAACATGATCTTTAGCGACTCTTTT
* * *
133916 CCCATAAATGCAGCTATAGAA
66 CCC-TAAACGCCGCTATAGAG
* * * * * * *
133937 CATG-TCTTTAGCGGTGTTTTTACCACAAACGCCGCTATAAAACATGTTATTTAACGACAT-TTT
1 CATGATCTTTAACGGCGTTTTTACCACAAATGCCGCTATAGAACATGATCTTTAGCGAC-TCTTT
*
134000 TCCCACAAACGCCG
65 TCCC-TAAACGCCG
134014 ATAATATTGA
Statistics
Matches: 277, Mismatches: 49, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
84 1 0.00
85 122 0.44
86 147 0.53
87 6 0.02
88 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (85 bp):
CATGATCTTTAACGGCGTTTTTACCACAAATGCCGCTATAGAACATGATCTTTAGCGACTCTTTT
CCCTAAACGCCGCTATAGAG
Found at i:134415 original size:65 final size:66
Alignment explanation
Indices: 134283--134415 Score: 155
Period size: 65 Copynumber: 2.0 Consensus size: 66
134273 ATTTTGAAGC
* * *
134283 TGTAGCTGCAGTTCGTCATACTTTCTTTGAGACTCTGCTTTCCTCGCTACTGCCTTGGCTTCAAG
1 TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTGCTTTCCTCGCTACTGCCTTCGCTTCAAG
134348 T
66 T
* * * * *
134349 TGTAGCTGAAGTTCATCATATTTTC-TTGAGCCTTTGC-TTCTCTCGCTGCTG-CTTCCGCTTTA
1 TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTGCTTTC-CTCGCTACTGCCTT-CGCTTCA
134411 AGT
64 AGT
134414 TG
1 TG
134416 AGCAATTTGC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
64 6 0.11
65 29 0.51
66 22 0.39
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.41
Consensus pattern (66 bp):
TGTAGCTGAAGTTCATCATACTTTCTTTGAGACTCTGCTTTCCTCGCTACTGCCTTCGCTTCAAG
T
Found at i:135315 original size:16 final size:17
Alignment explanation
Indices: 135290--135324 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
135280 GAAGCTTATA
135290 TTTTTCTTAAAATATTC
1 TTTTTCTTAAAATATTC
*
135307 TTTTT-TTAAAGTATTC
1 TTTTTCTTAAAATATTC
135323 TT
1 TT
135325 ATGGTCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTTTCTTAAAATATTC
Found at i:140078 original size:26 final size:26
Alignment explanation
Indices: 140044--140115 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
140034 TATATTTAAA
* *
140044 TTTAGATAATTAAATATTTAGGTTCT
1 TTTAAATAATTAAATAATTAGGTTCT
*
140070 TTTAAATAATTAAATAATTAGGTTGT
1 TTTAAATAATTAAATAATTAGGTTCT
*
140096 TTTTAATAATTAAATAATTA
1 TTTAAATAATTAAATAATTA
140116 AATATTTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (26 bp):
TTTAAATAATTAAATAATTAGGTTCT
Found at i:140129 original size:26 final size:25
Alignment explanation
Indices: 140069--140270 Score: 101
Period size: 26 Copynumber: 8.1 Consensus size: 25
140059 ATTTAGGTTC
** *
140069 TTTTAAATAATTAAATAATTAGGTTG
1 TTTTAAATAATTAAATAATTA-AATA
*
140095 TTTTTAATAATTAAATAATTAAATA
1 TTTTAAATAATTAAATAATTAAATA
* * *** *
140120 TTTT-GA-AA-TAAATATTTGGGTTG
1 TTTTAAATAATTAAATAATT-AAATA
*
140143 TTTTTAATAATTAAATAATTAAATA
1 TTTTAAATAATTAAATAATTAAATA
* * ***
140168 TTTT-GA-AA-TAAATATTTGGGTTA
1 TTTTAAATAATTAAATAATT-AAATA
*
140191 TTTTTAATAATTAAATAATTAAATA
1 TTTTAAATAATTAAATAATTAAATA
* * ** * *
140216 TATGAGTTATTTTTAATAATTAAATA
1 TTTTAAATA-ATTAAATAATTAAATA
*
140242 TAATTAAATAATTAAATAATTAAATA
1 T-TTTAAATAATTAAATAATTAAATA
140268 TTT
1 TTT
140271 GGGTTGTTTT
Statistics
Matches: 127, Mismatches: 39, Indels: 21
0.68 0.21 0.11
Matches are distributed among these distances:
22 16 0.13
23 15 0.12
24 4 0.03
25 21 0.17
26 66 0.52
27 5 0.04
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (25 bp):
TTTTAAATAATTAAATAATTAAATA
Found at i:140131 original size:22 final size:22
Alignment explanation
Indices: 140106--140181 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
140096 TTTTAATAAT
140106 TAAATAATTAAATATTTTGAAA
1 TAAATAATTAAATATTTTGAAA
* *** * *
140128 TAAATATTTGGGTTGTTTTTAATAA
1 TAAATAATT-AAAT-ATTTTGA-AA
140153 TTAAATAATTAAATATTTTGAAA
1 -TAAATAATTAAATATTTTGAAA
140176 TAAATA
1 TAAATA
140182 TTTGGGTTAT
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
24 10 0.26
25 3 0.08
26 8 0.21
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (22 bp):
TAAATAATTAAATATTTTGAAA
Found at i:140148 original size:48 final size:48
Alignment explanation
Indices: 140080--140216 Score: 247
Period size: 48 Copynumber: 2.9 Consensus size: 48
140070 TTTAAATAAT
* *
140080 TAAATAATTAGGTTGTTTTTAATAATTAAATAATTAAATATTTTGAAA
1 TAAATATTTGGGTTGTTTTTAATAATTAAATAATTAAATATTTTGAAA
140128 TAAATATTTGGGTTGTTTTTAATAATTAAATAATTAAATATTTTGAAA
1 TAAATATTTGGGTTGTTTTTAATAATTAAATAATTAAATATTTTGAAA
*
140176 TAAATATTTGGGTTATTTTTAATAATTAAATAATTAAATAT
1 TAAATATTTGGGTTGTTTTTAATAATTAAATAATTAAATAT
140217 ATGAGTTATT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (48 bp):
TAAATATTTGGGTTGTTTTTAATAATTAAATAATTAAATATTTTGAAA
Found at i:140209 original size:8 final size:8
Alignment explanation
Indices: 140196--140267 Score: 63
Period size: 8 Copynumber: 8.5 Consensus size: 8
140186 GGTTATTTTT
140196 AATAATTA
1 AATAATTA
140204 AATAATTA
1 AATAATTA
*
140212 AATATATGA
1 AATA-ATTA
** * *
140221 GTTATTTTT
1 AATA-ATTA
140230 AATAATTAA
1 AATAATT-A
140239 ATATAATTA
1 A-ATAATTA
140248 AATAATTA
1 AATAATTA
140256 AATAATTA
1 AATAATTA
140264 AATA
1 AATA
140268 TTTGGGTTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
8 33 0.65
9 12 0.24
10 6 0.12
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (8 bp):
AATAATTA
Found at i:140215 original size:34 final size:36
Alignment explanation
Indices: 140176--140251 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 36
140166 TATTTTGAAA
* *
140176 TAAATATTTGGGTTATTTTTAATAATT-AA-ATAAT
1 TAAATATATGAGTTATTTTTAATAATTAAATATAAT
140210 TAAATATATGAGTTATTTTTAATAATTAAATATAAT
1 TAAATATATGAGTTATTTTTAATAATTAAATATAAT
140246 TAAATA
1 TAAATA
140252 ATTAAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 25 0.66
35 2 0.05
36 11 0.29
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (36 bp):
TAAATATATGAGTTATTTTTAATAATTAAATATAAT
Found at i:140264 original size:52 final size:51
Alignment explanation
Indices: 140196--140293 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 51
140186 GGTTATTTTT
*
140196 AATAATTAAATAATTAAATATATGAGTTATTTTTAATAATTAAATATAATTA
1 AATAATTAAATAATTAAATATATGAGTT-GTTTTAATAATTAAATATAATTA
* *
140248 AATAATTAAATAATTAAATATTTGGGTTGTTTTAATAATTAAATAT
1 AATAATTAAATAATTAAATATATGAGTTGTTTTAATAATTAAATAT
140294 TTTGATTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 17 0.40
52 26 0.60
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (51 bp):
AATAATTAAATAATTAAATATATGAGTTGTTTTAATAATTAAATATAATTA
Found at i:141817 original size:57 final size:56
Alignment explanation
Indices: 141645--141817 Score: 150
Period size: 57 Copynumber: 3.0 Consensus size: 56
141635 CAATATCCAA
* ** * *
141645 ATGGATAGCTTGAATAACCTTAATTTGGACAGTATTTTGACTCAGTTAAACAACAAT
1 ATGGACAGCTTGAATAACCTT-ATTTGGACAACATTTTGACTCAATTAAACATCAAT
** * * * * *
141702 ATAAACAGCTTCAACAACCTTATTTTGGACAAC-TATATGACTCAATTTATCATCAAT
1 ATGGACAGCTTGAATAACCTTA-TTTGGACAACAT-TTTGACTCAATTAAACATCAAT
* * * * *
141759 ATGGACAGCTTGATTAACCTTGATTTGGACAACATTTTAACTCACTTAAGCATTAAT
1 ATGGACAGCTTGAATAACCTT-ATTTGGACAACATTTTGACTCAATTAAACATCAAT
141816 AT
1 AT
141818 AAACATTTAT
Statistics
Matches: 89, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
56 2 0.02
57 85 0.96
58 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (56 bp):
ATGGACAGCTTGAATAACCTTATTTGGACAACATTTTGACTCAATTAAACATCAAT
Found at i:143473 original size:19 final size:19
Alignment explanation
Indices: 143449--143487 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
143439 GTCTTTTCGG
143449 AAAGAATCTGTAACCTCGA
1 AAAGAATCTGTAACCTCGA
143468 AAAGAATCTGTAACCTCGA
1 AAAGAATCTGTAACCTCGA
143487 A
1 A
143488 TTTCCACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (19 bp):
AAAGAATCTGTAACCTCGA
Found at i:144600 original size:40 final size:40
Alignment explanation
Indices: 144462--144658 Score: 173
Period size: 40 Copynumber: 4.9 Consensus size: 40
144452 CATTTCTCCA
* * *
144462 AAAACGCCACTATTGCTTTAGCTTTTGCGACGTTTATAGG
1 AAAACGCCGCTATTGCTTTACCTTTTGCGACGTTTATGGG
* *
144502 -AAACGCCGCTATTGCTCTTTACCTTTGGC-AGCGTTTTTGGGG
1 AAAACGCCGCTATTG--CTTTACCTTTTGCGA-CGTTTAT-GGG
* *
144544 AAAACGTCGCTATTGCTTTACCTTTTGCGACATTTATGGG
1 AAAACGCCGCTATTGCTTTACCTTTTGCGACGTTTATGGG
* ** * ** **
144584 AAAACGCCGCTGTTGCTTTATATTTTACGGTGTTTATGAA
1 AAAACGCCGCTATTGCTTTACCTTTTGCGACGTTTATGGG
* * * *
144624 AAAATGCCACTATTGCTTTATCTTTTACGACGTTT
1 AAAACGCCGCTATTGCTTTACCTTTTGCGACGTTT
144659 TCGGTCCAAA
Statistics
Matches: 126, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
39 13 0.10
40 63 0.50
41 34 0.27
42 3 0.02
43 13 0.10
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (40 bp):
AAAACGCCGCTATTGCTTTACCTTTTGCGACGTTTATGGG
Found at i:148865 original size:24 final size:23
Alignment explanation
Indices: 148837--148881 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
148827 AGTAAAAAAT
148837 AAATGTCA-ATGCAAATATAATATA
1 AAATGTCAGA-GCAAAT-TAATATA
148861 AAATGTCAGAGCAAATTAATA
1 AAATGTCAGAGCAAATTAATA
148882 AAAGATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 14 0.70
25 1 0.05
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (23 bp):
AAATGTCAGAGCAAATTAATATA
Found at i:151118 original size:19 final size:20
Alignment explanation
Indices: 151094--151141 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
151084 TAGAAGAAAT
151094 AAAATGCAGA-GACAA-TAAA
1 AAAATGCA-ATGACAATTAAA
151113 AAAATGCAATGACAATTAAA
1 AAAATGCAATGACAATTAAA
151133 AGAAATGCA
1 A-AAATGCA
151142 TGCAACTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.04
19 13 0.50
20 5 0.19
21 7 0.27
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATGCAATGACAATTAAA
Found at i:151575 original size:9 final size:9
Alignment explanation
Indices: 151531--151574 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
151521 CAACATCTTT
151531 TTCTTTTTC
1 TTCTTTTTC
* *
151540 TTCCTTCTC
1 TTCTTTTTC
151549 TTCTTTTTC
1 TTCTTTTTC
*
151558 TTCTTTTTT
1 TTCTTTTTC
151567 TTCTTTTT
1 TTCTTTTT
151575 TCTTATTCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:157539 original size:18 final size:18
Alignment explanation
Indices: 157499--157540 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
157489 GCATTCTAAC
*
157499 CTGTGACTACATTTGAGT
1 CTGTGACTACATCTGAGT
*
157517 ATGTGACTACATCTG-GTT
1 CTGTGACTACATCTGAG-T
157535 CTGTGA
1 CTGTGA
157541 TCGCATTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (18 bp):
CTGTGACTACATCTGAGT
Found at i:162785 original size:17 final size:18
Alignment explanation
Indices: 162742--162782 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
162732 AAGTCGTAAG
162742 AAAAATATAAAAAAAGTA
1 AAAAATATAAAAAAAGTA
* *
162760 AAGAAATATAAAATACGTA
1 AA-AAATATAAAAAAAGTA
162779 AAAA
1 AAAA
162783 TATTACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAAATATAAAAAAAGTA
Found at i:162991 original size:10 final size:10
Alignment explanation
Indices: 162978--163091 Score: 62
Period size: 10 Copynumber: 11.6 Consensus size: 10
162968 TTTTGATGGA
162978 TTTTATAATT
1 TTTTATAATT
*
162988 TTTTATGA-T
1 TTTTATAATT
**
162997 TTTTATAAAA
1 TTTTATAATT
163007 TTTTAT-ATAT
1 TTTTATAAT-T
163017 TTTTAT-ATT
1 TTTTATAATT
*
163026 TTTTA-CATT
1 TTTTATAATT
*
163035 TTATATAATT
1 TTTTATAATT
*
163045 ATTTTTTCAATT
1 -TTTTAT-AATT
*
163057 TTTTCA-AAAT
1 TTTT-ATAATT
*
163067 TTTAAT-ATT
1 TTTTATAATT
163076 TTTTA-ATATT
1 TTTTATA-ATT
163086 TTTTAT
1 TTTTAT
163092 TAAAATTCAA
Statistics
Matches: 79, Mismatches: 14, Indels: 21
0.69 0.12 0.18
Matches are distributed among these distances:
9 29 0.37
10 38 0.48
11 8 0.10
12 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:163000 original size:19 final size:18
Alignment explanation
Indices: 162978--163049 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 18
162968 TTTTGATGGA
162978 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTAT-AT
*
162997 TTTTATAAAATTTTATATAT
1 TTTTAT--AATTTTTTATAT
*
163017 TTTTAT-ATTTTTTACAT
1 TTTTATAATTTTTTATAT
163034 TTTATATAATTATTTT
1 TTT-TATAATT-TTTT
163050 TTCAATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
17 12 0.27
18 3 0.07
19 9 0.20
20 12 0.27
21 9 0.20
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTTATAT
Found at i:163029 original size:9 final size:9
Alignment explanation
Indices: 162978--163091 Score: 61
Period size: 9 Copynumber: 11.7 Consensus size: 9
162968 TTTTGATGGA
162978 TTTTATAATT
1 TTTTAT-ATT
162988 TTTTATGA-T
1 TTTTAT-ATT
**
162997 TTTTATAAAA
1 TTTTAT-ATT
163007 TTTTATATAT
1 TTTTATAT-T
163017 TTTTATATT
1 TTTTATATT
*
163026 TTTTACATT
1 TTTTATATT
163035 TTATATAATTATT
1 TT-T-T-A-TATT
163048 TTTTCA-ATT
1 TTTT-ATATT
* *
163057 TTTTCAAAAT
1 TTTT-ATATT
*
163067 TTTAATATT
1 TTTTATATT
163076 TTTTAATATT
1 TTTT-ATATT
163086 TTTTAT
1 TTTTAT
163092 TAAAATTCAA
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
9 37 0.45
10 36 0.43
11 3 0.04
12 2 0.02
13 5 0.06
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATATT
Found at i:166855 original size:15 final size:16
Alignment explanation
Indices: 166835--166868 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
166825 AGAAAACTAA
166835 ATTTTATAT-TAAACT
1 ATTTTATATGTAAACT
*
166850 ATTTTATATGTAAATT
1 ATTTTATATGTAAACT
166866 ATT
1 ATT
166869 ATGTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTTTATATGTAAACT
Found at i:173376 original size:71 final size:71
Alignment explanation
Indices: 173295--173455 Score: 277
Period size: 71 Copynumber: 2.3 Consensus size: 71
173285 ACAAGATCCG
173295 TGTCGCGACATAGAAGACACTCCACTCCTTTTGGTAAATCTTCCAGGTGTTGTTATGACACACCA
1 TGTCGCGACATAGAAGACACTCCACTCCTTTTGGTAAATCTTCCAGGTGTTGTTATGACACACCA
173360 TGCCCA
66 TGCCCA
* * *
173366 TGTCGTGACATAGAAGACACTCCACTCCTTTTGGTAAATCTTCTAGGTGTTGTTGTGACACACCA
1 TGTCGCGACATAGAAGACACTCCACTCCTTTTGGTAAATCTTCCAGGTGTTGTTATGACACACCA
*
173431 TGCCCG
66 TGCCCA
*
173437 TGTCGCGACATAAAAGACA
1 TGTCGCGACATAGAAGACA
173456 GTCTTGACAT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 84 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (71 bp):
TGTCGCGACATAGAAGACACTCCACTCCTTTTGGTAAATCTTCCAGGTGTTGTTATGACACACCA
TGCCCA
Found at i:189211 original size:17 final size:17
Alignment explanation
Indices: 189189--189222 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
189179 CACTAACACT
* *
189189 AAAATGTAATGACAATG
1 AAAATGCAACGACAATG
189206 AAAATGCAACGACAATG
1 AAAATGCAACGACAATG
189223 CTTACTAACA
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:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAATGCAACGACAATG
Found at i:193174 original size:14 final size:12
Alignment explanation
Indices: 193155--193192 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
193145 CTAAAAAAAT
193155 ATTTTTCTTTTAAC
1 ATTTTTCTTTT--C
193169 ATTTTTCTTTTC
1 ATTTTTCTTTTC
193181 -TTTTTCTTTTC
1 ATTTTTCTTTTC
193192 A
1 A
193193 GCACTCATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.48
12 1 0.04
14 11 0.48
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (12 bp):
ATTTTTCTTTTC
Found at i:199398 original size:7 final size:7
Alignment explanation
Indices: 199386--199412 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
199376 CCTATAAATA
199386 GAAGAAT
1 GAAGAAT
199393 GAAGAAT
1 GAAGAAT
199400 GAAGAAT
1 GAAGAAT
199407 GAAGAA
1 GAAGAA
199413 AGCATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.30, T:0.11
Consensus pattern (7 bp):
GAAGAAT
Found at i:213335 original size:21 final size:24
Alignment explanation
Indices: 213311--213353 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
213301 TGTAAGTATT
213311 AAGGAAG-AG-AAA-GAAGAAGAG
1 AAGGAAGTAGAAAAGGAAGAAGAG
213332 AAGGAAGTAGAAAAGGAAGAAG
1 AAGGAAGTAGAAAAGGAAGAAG
213354 GAGGGGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 3 0.16
24 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.02
Consensus pattern (24 bp):
AAGGAAGTAGAAAAGGAAGAAGAG
Found at i:225427 original size:17 final size:16
Alignment explanation
Indices: 225407--225448 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
225397 TCTTTGTCAC
225407 TGCATTTCATTTGTTAG-
1 TGCATTTCA-TTG-TAGT
225424 TGCATTTGCATTGTAGT
1 TGCATTT-CATTGTAGT
225441 TGCATTTC
1 TGCATTTC
225449 CCTTCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 17 0.74
18 2 0.09
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (16 bp):
TGCATTTCATTGTAGT
Found at i:227982 original size:17 final size:17
Alignment explanation
Indices: 227960--227992 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
227950 AGTCACATAA
227960 AAAAAGAGAAAAGAAAG
1 AAAAAGAGAAAAGAAAG
*
227977 AAAAAGATAAAAGAAA
1 AAAAAGAGAAAAGAAA
227993 TTATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAAGAGAAAAGAAAG
Found at i:229200 original size:15 final size:15
Alignment explanation
Indices: 229180--229209 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
229170 ATAGTTTAGC
*
229180 TTAGCTTATATTAAT
1 TTAGCTTAGATTAAT
229195 TTAGCTTAGATTAAT
1 TTAGCTTAGATTAAT
229210 ATCATCCACC
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:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (15 bp):
TTAGCTTAGATTAAT
Found at i:229268 original size:11 final size:11
Alignment explanation
Indices: 229252--229279 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
229242 ATTTGTTGAT
229252 TAAATATTTCA
1 TAAATATTTCA
229263 TAAATATTTCA
1 TAAATATTTCA
229274 TAAATA
1 TAAATA
229280 CTTTTTATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAATATTTCA
Found at i:232761 original size:56 final size:56
Alignment explanation
Indices: 232672--232779 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
232662 CCAAACTTTA
232672 ACAACTATTTGATTTACTTTCATTTGCTCTGACAATTAACTTTATTAATTACATTG
1 ACAACTATTTGATTTACTTTCATTTGCTCTGACAATTAACTTTATTAATTACATTG
* *
232728 ACAACTTTTTGATTTACTTTCAGTTT-CTTTGACAATTAACTTTATTAATTAC
1 ACAACTATTTGATTTACTTTCA-TTTGCTCTGACAATTAACTTTATTAATTAC
232780 TATTTGATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
56 46 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.48
Consensus pattern (56 bp):
ACAACTATTTGATTTACTTTCATTTGCTCTGACAATTAACTTTATTAATTACATTG
Found at i:235900 original size:29 final size:30
Alignment explanation
Indices: 235851--235908 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
235841 TATTTTTTTG
*
235851 TAAAATTTAGTTGTTAATTTTTTTAAATAC
1 TAAAATTTAGTTGTTAATTTTTGTAAATAC
*
235881 TAAAA-TTAGTTGTCT-TTTTTTGTAAATA
1 TAAAATTTAGTTGT-TAATTTTTGTAAATA
235909 TTTTTAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (30 bp):
TAAAATTTAGTTGTTAATTTTTGTAAATAC
Found at i:237628 original size:3 final size:3
Alignment explanation
Indices: 237620--237660 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
237610 ACAGCAAGTT
* * *
237620 GAA GAA GAA GAA GAA GAA GAA GAA GAT CAT GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
237661 GGATCCTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.61, C:0.02, G:0.32, T:0.05
Consensus pattern (3 bp):
GAA
Found at i:237665 original size:18 final size:18
Alignment explanation
Indices: 237620--237687 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
237610 ACAGCAAGTT
237620 GAAGAAGAAGA--A-GAA
1 GAAGAAGAAGATCATGAA
237635 GAAGAAGAAGATCATGAA
1 GAAGAAGAAGATCATGAA
* *
237653 GAAGAAGAGGATCCTG-A
1 GAAGAAGAAGATCATGAA
*
237670 GAAAGAATAAGATCATGA
1 G-AAGAAGAAGATCATGA
237688 GGATGATCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 11 0.26
17 3 0.07
18 29 0.67
ACGTcount: A:0.54, C:0.06, G:0.29, T:0.10
Consensus pattern (18 bp):
GAAGAAGAAGATCATGAA
Found at i:261966 original size:25 final size:25
Alignment explanation
Indices: 261929--261988 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
261919 TTTTTTTAAT
** *
261929 TTTTATTGAATTTATTATTATTTTA
1 TTTTATTTTATTTATTATTATTCTA
* *
261954 TTTTATTTTATTTGTTATTGTTCTA
1 TTTTATTTTATTTATTATTATTCTA
*
261979 GTTTATTTTA
1 TTTTATTTTA
261989 CTTCTTGCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.70
Consensus pattern (25 bp):
TTTTATTTTATTTATTATTATTCTA
Found at i:263514 original size:19 final size:19
Alignment explanation
Indices: 263490--263529 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
263480 TGCGTCAGAG
263490 AACACTGACTTAGGGGACC
1 AACACTGACTTAGGGGACC
263509 AACACTGACTTAGGGGACC
1 AACACTGACTTAGGGGACC
263528 AA
1 AA
263530 GATAGATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (19 bp):
AACACTGACTTAGGGGACC
Found at i:282036 original size:40 final size:40
Alignment explanation
Indices: 281992--282070 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
281982 GTACTATCAC
*
281992 CGGTGAATAAATTCAAGCTTCAGCTTAGTAGGTTATGAGT
1 CGGTGAATAAATTCAAGCTTCAGCTTAGTAGGCTATGAGT
* *
282032 CGGTGAATAAATTCGAGCTTCGGCTTAGTAGGCTATGAG
1 CGGTGAATAAATTCAAGCTTCAGCTTAGTAGGCTATGAG
282071 CCGATAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (40 bp):
CGGTGAATAAATTCAAGCTTCAGCTTAGTAGGCTATGAGT
Found at i:283969 original size:33 final size:33
Alignment explanation
Indices: 283932--283996 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
283922 TTGAATCACT
*
283932 TTTTCAGTCTCAATTTATTTTCTCTCACACTCC
1 TTTTCAGTCTCAATTTAGTTTCTCTCACACTCC
** * * *
283965 TTTTCTTTTTCAATTTCGTTTCTCTCGCACTC
1 TTTTCAGTCTCAATTTAGTTTCTCTCACACTC
283997 TTGTTTTTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.14, C:0.29, G:0.05, T:0.52
Consensus pattern (33 bp):
TTTTCAGTCTCAATTTAGTTTCTCTCACACTCC
Found at i:284032 original size:15 final size:16
Alignment explanation
Indices: 284000--284034 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
283990 CGCACTCTTG
284000 TTTTTCACAAATTCCT
1 TTTTTCACAAATTCCT
284016 TTTTTCACAAATT-CT
1 TTTTTCACAAATTCCT
284031 TTTT
1 TTTT
284035 CTTTTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTCACAAATTCCT
Found at i:289476 original size:25 final size:26
Alignment explanation
Indices: 289432--289485 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
289422 AAATATTTCA
*
289432 TTAATAATTTGGGCTTATTTAATTGT
1 TTAATAATTTGGGCTTATTTAATTCT
*
289458 TTAATAA-TTGGG-TTAATTTTATTCT
1 TTAATAATTTGGGCTT-ATTTAATTCT
289483 TTA
1 TTA
289486 GTCTCTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 16 0.64
26 7 0.28
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.56
Consensus pattern (26 bp):
TTAATAATTTGGGCTTATTTAATTCT
Found at i:290555 original size:23 final size:23
Alignment explanation
Indices: 290528--290573 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
290518 CTAGGAAACC
*
290528 CTTAGTAAATAAGGATCAGTAAA
1 CTTAGAAAATAAGGATCAGTAAA
290551 CTTAGAAAATAAGGATCAGTAAA
1 CTTAGAAAATAAGGATCAGTAAA
290574 ATTTGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.17, T:0.24
Consensus pattern (23 bp):
CTTAGAAAATAAGGATCAGTAAA
Found at i:291396 original size:12 final size:12
Alignment explanation
Indices: 291381--291405 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
291371 ATTAAATAAT
291381 TAATAGCATTCA
1 TAATAGCATTCA
291393 TAATAGCATTCA
1 TAATAGCATTCA
291405 T
1 T
291406 CATGATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGCATTCA
Found at i:292878 original size:16 final size:15
Alignment explanation
Indices: 292857--292893 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
292847 GCTCATGCTC
*
292857 TTTTTTTCTTTTTCTT
1 TTTTTTTC-GTTTCTT
292873 TTTTTTTCGTTTCTT
1 TTTTTTTCGTTTCTT
292888 TTTTTT
1 TTTTTT
292894 AGCATCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (15 bp):
TTTTTTTCGTTTCTT
Found at i:294182 original size:18 final size:18
Alignment explanation
Indices: 294161--294223 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
294151 CTCCATGGGA
*
294161 TCTTCTTTAAGATCTTCT
1 TCTTCTTTAGGATCTTCT
* **
294179 TCTTCCTCGGGATCCTCTCT
1 TCTTCTTTAGGAT-CT-TCT
294199 TCTTCTTTAGGATCTTCT
1 TCTTCTTTAGGATCTTCT
294217 TCTTCTT
1 TCTTCTT
294224 CTTCAGCCTG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 19 0.53
19 4 0.11
20 13 0.36
ACGTcount: A:0.10, C:0.29, G:0.10, T:0.52
Consensus pattern (18 bp):
TCTTCTTTAGGATCTTCT
Found at i:300320 original size:58 final size:59
Alignment explanation
Indices: 300179--300552 Score: 286
Period size: 59 Copynumber: 6.4 Consensus size: 59
300169 ATAGGTCCTC
** * *
300179 AAACTTTTCCAAAATTACATATTGTCTCCC-AAATTTTTCCAAAATTACAGTTT-GCCCTCT
1 AAACTTTTCCAAAATTACAT-TT-TAACCCTAAATTTTTCCAAAATTACATTTTAACCCT-T
** *
300239 AAACTTTTTTAAAATTACA-TTTAACCCGTAAATTTTTCTAAAATTACATTTTAACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCC-TAAATTTTTCCAAAATTACATTTTAACCCTT
* * *
300298 AAA-TTTTTCAAAATTATA-TTTAACCCCTAAACTTTTCCAAAATTACATTTTAA-CCTT
1 AAACTTTTCCAAAATTACATTTTAA-CCCTAAATTTTTCCAAAATTACATTTTAACCCTT
** * * * *
300355 GTACTTTTCCAAAATTACATTTTAACCTTAAACTTTTT-TAAAATTATATTTTGACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCTAAA-TTTTTCCAAAATTACATTTTAACCCTT
** * * *
300414 AAACTTTTCCAAAATTTTATTTTAACCCTAAACTTCTT-CAAAA-CACGTTTTAACTCC--
1 AAACTTTTCCAAAATTACATTTTAACCCTAAA-TTTTTCCAAAATTACATTTTAAC-CCTT
** ** ** * * *
300471 AAACTTCACCAAAATTGTATTTTAACCCCTAAACCTTTCCAAAATCACGTTATAACCC-T
1 AAACTTTTCCAAAATTACATTTTAA-CCCTAAATTTTTCCAAAATTACATTTTAACCCTT
* * *
300530 AAACTTCTCTAAAATCACATTTT
1 AAACTTTTCCAAAATTACATTTT
300553 GACCTCGAGG
Statistics
Matches: 258, Mismatches: 43, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
57 33 0.13
58 97 0.38
59 107 0.41
60 21 0.08
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (59 bp):
AAACTTTTCCAAAATTACATTTTAACCCTAAATTTTTCCAAAATTACATTTTAACCCTT
Found at i:300446 original size:29 final size:29
Alignment explanation
Indices: 300179--300552 Score: 294
Period size: 29 Copynumber: 12.8 Consensus size: 29
300169 ATAGGTCCTC
**
300179 AAACTTTTCCAAAATTACATATTGTCTCCC-
1 AAACTTTTCCAAAATTACAT-TT-TAACCCT
* * **
300209 AAATTTTTCCAAAATTACAGTTTGCCCTCT
1 AAACTTTTCCAAAATTACATTTTAACC-CT
**
300239 AAACTTTTTTAAAATTACA-TTTAACCCGT
1 AAACTTTTCCAAAATTACATTTTAACCC-T
* *
300268 AAATTTTTCTAAAATTACATTTTAACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCC-T
* *
300298 AAA-TTTTTCAAAATTATA-TTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAA-CCCT
*
300326 AAACTTTTCCAAAATTACATTTTAACCTT
1 AAACTTTTCCAAAATTACATTTTAACCCT
** *
300355 GTACTTTTCCAAAATTACATTTTAACCTT
1 AAACTTTTCCAAAATTACATTTTAACCCT
** * *
300384 AAACTTTTTTAAAATTATATTTTGACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCC-T
**
300414 AAACTTTTCCAAAATTTTATTTTAACCCT
1 AAACTTTTCCAAAATTACATTTTAACCCT
* *
300443 AAACTTCTT-CAAAA-CACGTTTTAACTCC-
1 AAACTT-TTCCAAAATTACATTTTAAC-CCT
** **
300471 AAACTTCACCAAAATTGTATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAA-CCCT
* * * *
300501 AAACCTTTCCAAAATCACGTTATAACCCT
1 AAACTTTTCCAAAATTACATTTTAACCCT
* * *
300530 AAACTTCTCTAAAATCACATTTT
1 AAACTTTTCCAAAATTACATTTT
300553 GACCTCGAGG
Statistics
Matches: 276, Mismatches: 54, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
28 31 0.11
29 149 0.54
30 96 0.35
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (29 bp):
AAACTTTTCCAAAATTACATTTTAACCCT
Found at i:306004 original size:7 final size:7
Alignment explanation
Indices: 305988--306088 Score: 66
Period size: 7 Copynumber: 14.1 Consensus size: 7
305978 TACAATGAAG
305988 AAAGAAA
1 AAAGAAA
*
305995 AAAGAGA
1 AAAGAAA
306002 AAA-AAA
1 AAAGAAA
*
306008 GAAG-AA
1 AAAGAAA
306014 AAAGCAAA
1 AAAG-AAA
*
306022 ATAAAAAA
1 A-AAGAAA
306030 AAAGAAA
1 AAAGAAA
306037 AAAGAAGA
1 AAAGAA-A
306045 AAA-ACAA
1 AAAGA-AA
*
306052 TAAGAAA
1 AAAGAAA
306059 AACA-AAA
1 AA-AGAAA
*
306066 AAGAGTAA
1 AA-AGAAA
*
306074 AAAGGAA
1 AAAGAAA
306081 AAAGAAA
1 AAAGAAA
306088 A
1 A
306089 GGAGAGGTCG
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
6 9 0.12
7 44 0.60
8 18 0.25
9 2 0.03
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:306004 original size:9 final size:8
Alignment explanation
Indices: 305988--306083 Score: 68
Period size: 9 Copynumber: 11.1 Consensus size: 8
305978 TACAATGAAG
305988 AAAGAAAA
1 AAAGAAAA
305996 AAGAGAAAA
1 AA-AGAAAA
306005 AAAGAAGAA
1 AAAGAA-AA
306014 AAAGCAAAA
1 AAAG-AAAA
*
306023 TAA-AAAA
1 AAAGAAAA
306030 AAAGAAAAA
1 AAAG-AAAA
306039 AGAAGAAAA
1 A-AAGAAAA
*
306048 ACAATAAGAA
1 A-AAGAA-AA
*
306058 AAACAAAA
1 AAAGAAAA
*
306066 AAGAGTAAA
1 AA-AGAAAA
*
306075 AAGGAAAA
1 AAAGAAAA
306083 A
1 A
306084 GAAAAGGAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
7 6 0.08
8 15 0.21
9 42 0.59
10 8 0.11
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAGAAAA
Found at i:306038 original size:32 final size:33
Alignment explanation
Indices: 305992--306065 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 33
305982 ATGAAGAAAG
* *
305992 AAAAAAGAGAAAAAAAGAAGAAAAAGCAA-AATA
1 AAAAAAAAGAAAAAAAGAAGAAAAA-CAATAAGA
306025 AAAAAAAAG-AAAAAAGAAGAAAAACAATAAGA
1 AAAAAAAAGAAAAAAAGAAGAAAAACAATAAGA
306057 AAAACAAAA
1 AAAA-AAAA
306066 AAGAGTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 3 0.08
32 22 0.59
33 12 0.32
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.03
Consensus pattern (33 bp):
AAAAAAAAGAAAAAAAGAAGAAAAACAATAAGA
Found at i:306056 original size:22 final size:21
Alignment explanation
Indices: 305988--306060 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 21
305978 TACAATGAAG
305988 AAAGAAAAAAG-AGAAAAAAA
1 AAAGAAAAAAGAAGAAAAAAA
* *
306008 GAAG-AAAAAGCAAAATAAAAAA
1 AAAGAAAAAAG-AAGA-AAAAAA
306030 AAAGAAAAAAGAAGAAAAACAA
1 AAAGAAAAAAGAAGAAAAA-AA
*
306052 TAAGAAAAA
1 AAAGAAAAA
306061 CAAAAAAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 6 0.14
20 3 0.07
21 6 0.14
22 22 0.51
23 6 0.14
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (21 bp):
AAAGAAAAAAGAAGAAAAAAA
Found at i:306061 original size:12 final size:10
Alignment explanation
Indices: 305988--306065 Score: 68
Period size: 10 Copynumber: 7.3 Consensus size: 10
305978 TACAATGAAG
305988 AAAG-AAAAA
1 AAAGAAAAAA
*
305997 AGAGAAAAAA
1 AAAGAAAAAA
306007 AGAAGAAAAAGCA
1 A-AAGAAAAA--A
*
306020 AAATAAAAAA
1 AAAGAAAAAA
306030 AAAGAAAAAA
1 AAAGAAAAAA
*
306040 GAAGAAAAACA
1 AAAGAAAAA-A
306051 ATAAGAAAAACA
1 A-AAGAAAAA-A
306063 AAA
1 AAA
306066 AAGAGTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
9 3 0.05
10 24 0.42
11 10 0.18
12 18 0.32
13 2 0.04
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:306554 original size:27 final size:27
Alignment explanation
Indices: 306524--306577 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
306514 CATACGACCT
306524 TTGTTTGCGATCAAATTCAATTTCATC
1 TTGTTTGCGATCAAATTCAATTTCATC
306551 TTGTTTGCGATCAAATTCAATTTCATC
1 TTGTTTGCGATCAAATTCAATTTCATC
306578 CACCTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (27 bp):
TTGTTTGCGATCAAATTCAATTTCATC
Found at i:307116 original size:50 final size:50
Alignment explanation
Indices: 307052--307179 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 50
307042 CGGTACCATG
* * * * * *
307052 AAGATTTGAAGGGAAATGTTGAGGCCGTAATGACAAA-CTCGGTACCTTAA
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGACAAACCT-GATACCTCAA
* * * *
307102 AAGATGTGATGGGAAAGGTTGAGGCCACAATGGCGAACCTGATACCTCAG
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAATGACAAACCTGATACCTCAA
307152 AAGATGTGATGGGAAAGGTTGAGGCCGC
1 AAGATGTGATGGGAAAGGTTGAGGCCGC
307180 GACGGTGAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 64 0.97
51 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (50 bp):
AAGATGTGATGGGAAAGGTTGAGGCCGCAATGACAAACCTGATACCTCAA
Found at i:307295 original size:50 final size:49
Alignment explanation
Indices: 307102--307330 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 49
307092 GGTACCTTAA
* *
307102 AAGATGTGATGGGAAAGGTTGAGGCCACAATGGCGAACCT-GATACCTCAG
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTAG-TA-CTCAG
* * * *
307152 AAGATGTGATGGGAAAGGTTGAGGCCGCGACGGTGAACCTTGCAC-CATG
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACTCA-G
* * * * *
307201 AAGATTTGAAGGGAAATGTTAAGGCCGCAACGGTGAACCTAGTACTTCAG
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTAGTAC-TCAG
* * *
307251 AAGATGTGATGGGAAAGATTGAGGCTGCAATGGCGAATCC-AGTAC-CATG
1 AAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAA-CCTAGTACTCA-G
* * *
307300 ATATAT-T-AAGGGAAAGGTTGAGGCCACAACG
1 A-AGATGTGATGGGAAAGGTTGAGGCCGCAACG
307331 ATGAACTTGG
Statistics
Matches: 146, Mismatches: 26, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
48 23 0.16
49 43 0.29
50 75 0.51
51 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (49 bp):
AAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACTCAG
Found at i:307298 original size:99 final size:99
Alignment explanation
Indices: 307102--307386 Score: 276
Period size: 99 Copynumber: 2.9 Consensus size: 99
307092 GGTACCTTAA
* * * * *
307102 AAGATGTGATGGGAAAGGTTGAGGCCACAATGGCGAACCTGATACCTCAGAAGATGTGATGGGAA
1 AAGATTTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCTG-TACTTCAGAAGATGTGATGGGAA
* * * * *
307167 AGGTTGAGGCCGCGACGGTGAA-CCTTGCACCATG
65 AGATTGAGGCCGCAATGGCGAATCCTAGCACCATG
* * *
307201 AAGATTTGAAGGGAAATGTTAAGGCCGCAACGGTGAACCTAGTACTTCAGAAGATGTGATGGGAA
1 AAGATTTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCT-GTACTTCAGAAGATGTGATGGGAA
* *
307266 AGATTGAGGCTGCAATGGCGAATCC-AGTACCATG
65 AGATTGAGGCCGCAATGGCGAATCCTAGCACCATG
* * * ** * *
307300 -ATATATT-AAGGGAAAGGTTGAGGCCACAACGATGAACTTGGTACCTT-AGAA-ACATGACGAG
1 AAGAT-TTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCT-GTA-CTTCAGAAGATGTGATGGG
*
307361 AAAGATTGAGGCCGCAATGACGAATC
63 AAAGATTGAGGCCGCAATGGCGAATC
307387 TTATACCGTA
Statistics
Matches: 154, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
97 30 0.19
98 37 0.24
99 84 0.55
100 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (99 bp):
AAGATTTGAAGGGAAAGGTTGAGGCCACAACGGTGAACCTGTACTTCAGAAGATGTGATGGGAAA
GATTGAGGCCGCAATGGCGAATCCTAGCACCATG
Found at i:307778 original size:72 final size:71
Alignment explanation
Indices: 307663--307802 Score: 174
Period size: 72 Copynumber: 1.9 Consensus size: 71
307653 TAGCCATCCG
* ** *
307663 ATCTCTTACCCCGAGCCTGAAGCAAATCATCATCAGTCAATCTCTTACCCTGAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGAAGCAAATCA-CACCAGTCAATCTCTTACCCCAAGCCTAGGGCAGA
307728 TCAGCCA
65 TCAGCCA
* * * *
307735 ATCTCTTACCCCGAGCCTGAAGTAGATTGCA-ACCATTCGATCTCTTACCCCAAGCCTAGGGCAG
1 ATCTCTTACCCCGAGCCTGAAGCA-AAT-CACACCAGTCAATCTCTTACCCCAAGCCTAGGGCAG
307799 ATCA
64 ATCA
307803 CCATCGGCCA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 54 0.93
73 2 0.03
74 2 0.03
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (71 bp):
ATCTCTTACCCCGAGCCTGAAGCAAATCACACCAGTCAATCTCTTACCCCAAGCCTAGGGCAGAT
CAGCCA
Found at i:307819 original size:39 final size:38
Alignment explanation
Indices: 307776--307988 Score: 156
Period size: 39 Copynumber: 5.6 Consensus size: 38
307766 ACCATTCGAT
*
307776 CTCTTACCCCAAGCCTAGGGCAGATCACCATCGGCCAAC
1 CTCTTACCCCGAGCCTAGGGCAGATCACCATC-GCCAAC
* * *
307815 CTCTTACCTCGAGCCTAAGGCAGATTA-CA--GCC-A-
1 CTCTTACCCCGAGCCTAGGGCAGATCACCATCGCCAAC
* * *
307848 TTC-TATCCCCGAGCCTGGGGTAGATCACCATCGACCAAC
1 CTCTTA-CCCCGAGCCTAGGGCAGATCACCATCG-CCAAC
* * * *
307887 CTCTTACCCCGAGCTTGGGGAAGATTGCATCCATTCG---AT
1 CTCTTACCCCGAGCCTAGGGCAGA-T-CA-CCA-TCGCCAAC
* * * *
307926 CTTTTACCCTGAGCCTAAGGCAGATCACCATCAGCCAAT
1 CTCTTACCCCGAGCCTAGGGCAGATCACCATC-GCCAAC
307965 CTCTTACCCCGAGCCTAGGGCAGA
1 CTCTTACCCCGAGCCTAGGGCAGA
307989 CTATAACTAT
Statistics
Matches: 135, Mismatches: 23, Indels: 32
0.71 0.12 0.17
Matches are distributed among these distances:
32 2 0.01
33 18 0.13
34 3 0.02
35 5 0.04
36 5 0.04
37 4 0.03
38 4 0.03
39 83 0.61
40 3 0.02
41 2 0.01
42 3 0.02
43 3 0.02
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (38 bp):
CTCTTACCCCGAGCCTAGGGCAGATCACCATCGCCAAC
Found at i:307849 original size:78 final size:78
Alignment explanation
Indices: 307731--308187 Score: 315
Period size: 78 Copynumber: 5.9 Consensus size: 78
307721 GGGCAGATCA
* * * * *
307731 GCCAATCTCTTACCCCGAGCCTGAA-GTAGATTGCAACCATTCGATCTCTTACCCCAAGCCTAGG
1 GCCAACCTCTTACCCCGAGCCT-AAGGCAGATTACAACCATTCGATCTTTTACCCCGAGCCTAGG
307795 GCAGATCACCATCG
65 GCAGATCACCATCG
* * * *
307809 GCCAACCTCTTACCTCGAGCCTAAGGCAGATTACAGCCA-T---TC-TAT-CCCCGAGCCTGGGG
1 GCCAACCTCTTACCCCGAGCCTAAGGCAGATTACAACCATTCGATCTTTTACCCCGAGCCTAGGG
*
307868 TAGATCACCATCG
66 CAGATCACCATCG
* * ** * * * * *
307881 ACCAACCTCTTACCCCGAGCTTGGGGAAGATTGCATCCATTCGATCTTTTACCCTGAGCCTAAGG
1 GCCAACCTCTTACCCCGAGCCTAAGGCAGATTACAACCATTCGATCTTTTACCCCGAGCCTAGGG
*
307946 CAGATCACCATCA
66 CAGATCACCATCG
* * * * * *
307959 GCCAATCTCTTACCCCGAGCCTAGGGCAGACTATAACTATTCGATCTTTTACCCCG-G-TTATGG
1 GCCAACCTCTTACCCCGAGCCTAAGGCAGATTACAACCATTCGATCTTTTACCCCGAGCCTA-GG
* *
308022 AGCAGATCACCGTCA
65 -GCAGATCACCATCG
* * * * * * * * * * * * *
308037 GTCAATCTCTTACCTCGCGAC-AGGGGCAGATTGCAACCATTTGATCTTTTAACCTGATCATGGG
1 GCCAACCTCTTACCCCGAGCCTA-AGGCAGATTACAACCATTCGATCTTTTACCCCGAGCCTAGG
*
308101 GCAGATCACCATCA
65 GCAGATCACCATCG
* * * ** * * * * * *
308115 GCCAATCTCTTATCCTGAGCCTGGGGCAGATTGCAACCA-TCTAATCTTTTACCCAGATCATGGG
1 GCCAACCTCTTACCCCGAGCCTAAGGCAGATTACAACCATTC-GATCTTTTACCCCGAGCCTAGG
308179 GCAGATCAC
65 GCAGATCAC
308188 AGTCACCCGA
Statistics
Matches: 301, Mismatches: 64, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
72 55 0.18
73 2 0.01
74 2 0.01
76 4 0.01
77 9 0.03
78 226 0.75
79 2 0.01
80 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (78 bp):
GCCAACCTCTTACCCCGAGCCTAAGGCAGATTACAACCATTCGATCTTTTACCCCGAGCCTAGGG
CAGATCACCATCG
Found at i:307871 original size:111 final size:111
Alignment explanation
Indices: 307624--307872 Score: 274
Period size: 111 Copynumber: 2.2 Consensus size: 111
307614 GAAGATTCCG
* * * * *
307624 ATCTCTTACCTCGAGCCAGGGGTAGATTGTAGCCATCCGATCTCTTACCCCGAGCCTGAAGCAAA
1 ATCTCTTACCCCGAGCCTGGGGTAGATTGCAACCATCCGATCTCTTACCCCAAGCCTGAAGCAAA
* * * **
307689 TCATCATCAGTCAATCTCTTACCCTGAGCCTGGGGCAGATCAGCCA
66 TCACCATCAGCCAACCTCTTACCCTGAGCCTAAGGCAGATCAGCCA
** * * *
307735 ATCTCTTACCCCGAGCCTGAAGTAGATTGCAACCATTCGATCTCTTACCCCAAGCCT-AGGGCAG
1 ATCTCTTACCCCGAGCCTGGGGTAGATTGCAACCATCCGATCTCTTACCCCAAGCCTGA-AGCAA
*
307799 ATCACCATCGGCCAACCTCTTA-CCTCGAGCCTAAGGCAGATTACAGCC-
65 ATCACCATCAGCCAACCTCTTACCCT-GAGCCTAAGGCAGA-T-CAGCCA
307847 AT-TC-TATCCCCGAGCCTGGGGTAGAT
1 ATCTCTTA-CCCCGAGCCTGGGGTAGAT
307873 CACCATCGAC
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
110 6 0.05
111 101 0.88
112 3 0.03
113 5 0.04
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (111 bp):
ATCTCTTACCCCGAGCCTGGGGTAGATTGCAACCATCCGATCTCTTACCCCAAGCCTGAAGCAAA
TCACCATCAGCCAACCTCTTACCCTGAGCCTAAGGCAGATCAGCCA
Found at i:307912 original size:72 final size:72
Alignment explanation
Indices: 307782--307981 Score: 195
Period size: 72 Copynumber: 2.7 Consensus size: 72
307772 CGATCTCTTA
* * *
307782 CCCCAAGCCTAGGGCAGATCACCATCGGCCAACCTCTTACCTCGAGCCTAAGGCAGATTACAGCC
1 CCCCAAGCCTAGGGCAGATCACCATCGACCAACCTCTTACCCCGAGCCTAAGGAAGATTACAGCC
307847 ATTCTAT
66 ATTCTAT
* * * * ** * *
307854 CCCCGAGCCTGGGGTAGATCACCATCGACCAACCTCTTACCCCGAGCTTGGGGAAGATTGCATCC
1 CCCCAAGCCTAGGGCAGATCACCATCGACCAACCTCTTACCCCGAGCCTAAGGAAGATTACAGCC
*
307919 ATTCGAT
66 ATTCTAT
* * *
307926 CTTTTACCCTGAGCCTAAGGCAGATCACCATC-AGCCAATCTCTTACCCCGAGCCTA
1 C-----CCC-AAGCCTAGGGCAGATCACCATCGA-CCAACCTCTTACCCCGAGCCTA
307982 GGGCAGACTA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
72 61 0.59
77 4 0.04
78 38 0.37
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.21
Consensus pattern (72 bp):
CCCCAAGCCTAGGGCAGATCACCATCGACCAACCTCTTACCCCGAGCCTAAGGAAGATTACAGCC
ATTCTAT
Found at i:308102 original size:39 final size:39
Alignment explanation
Indices: 308059--308184 Score: 123
Period size: 39 Copynumber: 3.2 Consensus size: 39
308049 CCTCGCGACA
*
308059 GGGGCAGATTGCAACCATTTGATCTTTTAACCTGATCAT
1 GGGGCAGATTGCAACCATCTGATCTTTTAACCTGATCAT
* * * * *
308098 GGGGCAGA-T-C-ACCATCAGCCAATCTCTTATCCTGAGCCT
1 GGGGCAGATTGCAACCATCTG---ATCTTTTAACCTGATCAT
* * *
308137 GGGGCAGATTGCAACCATCTAATCTTTTACCCAGATCAT
1 GGGGCAGATTGCAACCATCTGATCTTTTAACCTGATCAT
308176 GGGGCAGAT
1 GGGGCAGAT
308185 CACAGTCACC
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
36 6 0.09
37 1 0.01
38 1 0.01
39 52 0.76
40 1 0.01
41 1 0.01
42 6 0.09
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
GGGGCAGATTGCAACCATCTGATCTTTTAACCTGATCAT
Found at i:308221 original size:78 final size:78
Alignment explanation
Indices: 307863--308254 Score: 289
Period size: 78 Copynumber: 5.0 Consensus size: 78
307853 TCCCCGAGCC
* * * * * * *
307863 TGGGGTAGATCACCATCGA-CCAACCTCTTACCCCGAGCTTGGGGAAGATTGCATCCAT-TCGAT
1 TGGGGCAGATCACCATC-ACCCAATCTCTTACCCTGAGCCTGGGGCAGATTGCAACCATCT-AAT
* *
307926 CTTTTACCCTGAGCC
64 CTTTTACCCTGATCA
** * * * * ** * *
307941 TAAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGACTATAACTAT-TCGATC
1 TGGGGCAGATCACCATCACCCAATCTCTTACCCTGAGCCTGGGGCAGATTGCAACCATCT-AATC
* * *
308005 TTTTACCCCGGTTA
65 TTTTACCCTGATCA
* * ** * * * * *
308019 TGGAGCAGATCACCGTCAGTCAATCTCTTA-CCTCGCGACAGGGGCAGATTGCAACCATTTGATC
1 TGGGGCAGATCACCATCACCCAATCTCTTACCCT-GAGCCTGGGGCAGATTGCAACCATCTAATC
*
308083 TTTTAACCTGATCA
65 TTTTACCCTGATCA
* *
308097 TGGGGCAGATCACCATCAGCCAATCTCTTATCCTGAGCCTGGGGCAGATTGCAACCATCTAATCT
1 TGGGGCAGATCACCATCACCCAATCTCTTACCCTGAGCCTGGGGCAGATTGCAACCATCTAATCT
*
308162 TTTACCCAGATCA
66 TTTACCCTGATCA
* * * *
308175 TGGGGCAGATCA-CAGTCACCCGATCTCTTACCCCT-A-CCATGTGGCAGA-T-CATATCTATCC
1 TGGGGCAGATCACCA-TCACCCAATCTCTTA-CCCTGAGCC-TGGGGCAGATTGCA-A-CCATCT
308235 AATCTTTTACCCTGATCA
61 AATCTTTTACCCTGATCA
308253 TG
1 TG
308255 AAGTAGATTG
Statistics
Matches: 253, Mismatches: 52, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
76 2 0.01
77 9 0.04
78 235 0.93
79 7 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (78 bp):
TGGGGCAGATCACCATCACCCAATCTCTTACCCTGAGCCTGGGGCAGATTGCAACCATCTAATCT
TTTACCCTGATCA
Found at i:308223 original size:156 final size:156
Alignment explanation
Indices: 307758--308206 Score: 389
Period size: 156 Copynumber: 2.9 Consensus size: 156
307748 AGCCTGAAGT
* * ** * * * *
307758 AGATTGCAACCATTCGATCTCTTACCCCAAGCCTAGGGCAGATCACCATCGGCCAACCTCTTACC
1 AGATTGCAACCATTCGATCTTTTAACCTGAGCATAAGGCAGATCACCATCAGCCAATCTCTTACC
* * * * * * * * *
307823 TCGAGCCTAAGGCAGATTACAGCCATTCTATC-----CCC-GAGCCTGGGGTAGATCACCA-TCG
66 CCGAGCCTAGGGCAGACTACAACCATTCAATCTTTTACCCAGATCATGGAGCAGATCA-CAGTC-
* * *
307881 A-CCAACCTCTTACC-C-CGAGCTTGGGGA
129 ACCCAATCTCTTACCTCGCGA-C-AGGGGC
* * *
307908 AGATTGCATCCATTCGATCTTTTACCCTGAGCCTAAGGCAGATCACCATCAGCCAATCTCTTACC
1 AGATTGCAACCATTCGATCTTTTAACCTGAGCATAAGGCAGATCACCATCAGCCAATCTCTTACC
* * * * * * * *
307973 CCGAGCCTAGGGCAGACTATAACTATTCGATCTTTTACCCCGGTTATGGAGCAGATCACCGTCAG
66 CCGAGCCTAGGGCAGACTACAACCATTCAATCTTTTACCCAGATCATGGAGCAGATCACAGTCAC
*
308038 TCAATCTCTTACCTCGCGACAGGGGC
131 CCAATCTCTTACCTCGCGACAGGGGC
* * ** *
308064 AGATTGCAACCATTTGATCTTTTAACCTGATCATGGGGCAGATCACCATCAGCCAATCTCTTATC
1 AGATTGCAACCATTCGATCTTTTAACCTGAGCATAAGGCAGATCACCATCAGCCAATCTCTTACC
* * * * *
308129 CTGAGCCTGGGGCAGATTGCAACCA-TCTAATCTTTTACCCAGATCATGGGGCAGATCACAGTCA
66 CCGAGCCTAGGGCAGACTACAACCATTC-AATCTTTTACCCAGATCATGGAGCAGATCACAGTCA
*
308193 CCCGATCTCTTACC
130 CCCAATCTCTTACC
308207 CCTACCATGT
Statistics
Matches: 240, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
150 83 0.35
155 7 0.03
156 145 0.60
157 2 0.01
158 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (156 bp):
AGATTGCAACCATTCGATCTTTTAACCTGAGCATAAGGCAGATCACCATCAGCCAATCTCTTACC
CCGAGCCTAGGGCAGACTACAACCATTCAATCTTTTACCCAGATCATGGAGCAGATCACAGTCAC
CCAATCTCTTACCTCGCGACAGGGGC
Found at i:308245 original size:39 final size:39
Alignment explanation
Indices: 308080--308246 Score: 97
Period size: 39 Copynumber: 4.3 Consensus size: 39
308070 CAACCATTTG
* * * *
308080 ATCTTTTAACCTGATCATGGGGCAGATCACCA-TCAGCCA
1 ATCTTTTACCCAGACCATGGGGCAGATCA-CAGTCACCCA
* * * ** ** * *
308119 ATCTCTTATCCTGAGCC-TGGGGCAGATTGCAACCATCTA
1 ATCTTTTACCCAGA-CCATGGGGCAGATCACAGTCACCCA
* *
308158 ATCTTTTACCCAGATCATGGGGCAGATCACAGTCACCCG
1 ATCTTTTACCCAGACCATGGGGCAGATCACAGTCACCCA
* ** * * *
308197 ATCTCTTACCCCTACCATGTGGCAGATCATA-TCTATCCA
1 ATCTTTTACCCAGACCATGGGGCAGATCACAGTC-ACCCA
308236 ATCTTTTACCC
1 ATCTTTTACCC
308247 TGATCATGAA
Statistics
Matches: 96, Mismatches: 28, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
38 5 0.05
39 90 0.94
40 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (39 bp):
ATCTTTTACCCAGACCATGGGGCAGATCACAGTCACCCA
Found at i:309861 original size:32 final size:32
Alignment explanation
Indices: 309820--309887 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
309810 TCCTTCATAT
309820 TTTAATTATTTTTCAAATTGGTCTCCCGACAG
1 TTTAATTATTTTTCAAATTGGTCTCCCGACAG
309852 TTTAATTATTTTTCAAATTGGTCTCCCGACAG
1 TTTAATTATTTTTCAAATTGGTCTCCCGACAG
309884 TTTA
1 TTTA
309888 GTCCTTCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (32 bp):
TTTAATTATTTTTCAAATTGGTCTCCCGACAG
Found at i:312041 original size:27 final size:27
Alignment explanation
Indices: 312002--312054 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
311992 ATGAAACTGG
*
312002 TTCTAGTTTTGGCAAAATTGGTTTTGA
1 TTCTAGTTCTGGCAAAATTGGTTTTGA
* *
312029 TTCTGGTTCTGGCAAAATTTGTTTTG
1 TTCTAGTTCTGGCAAAATTGGTTTTG
312055 GTTTTGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.09, G:0.23, T:0.49
Consensus pattern (27 bp):
TTCTAGTTCTGGCAAAATTGGTTTTGA
Found at i:342272 original size:20 final size:21
Alignment explanation
Indices: 342247--342295 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
342237 ATATATATAC
342247 TAATAA-A-AAGAATAAAAATA
1 TAATAAGATAAGAA-AAAAATA
342267 TAATAAGTATAAGAAAAAAATA
1 TAATAAG-ATAAGAAAAAAATA
342289 TAATAAG
1 TAATAAG
342296 TAAAAGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.23
22 15 0.58
23 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (21 bp):
TAATAAGATAAGAAAAAAATA
Found at i:342288 original size:22 final size:23
Alignment explanation
Indices: 342252--342304 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
342242 TATACTAATA
342252 AAAAGAATAAAAATATAATAAGT
1 AAAAGAATAAAAATATAATAAGT
*
342275 ATAAGAA-AAAAATATAATAAGT
1 AAAAGAATAAAAATATAATAAGT
342297 AAAAGAAT
1 AAAAGAAT
342305 TAATAATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (23 bp):
AAAAGAATAAAAATATAATAAGT
Found at i:343264 original size:29 final size:29
Alignment explanation
Indices: 343226--343284 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
343216 TGAGGGATCA
*
343226 TTCTAGTGCCTTAGATAGCTAGTTGATTC
1 TTCTAGTGCCTTAGACAGCTAGTTGATTC
* * *
343255 TTCTTGTGCCTTAGACAGTTGGTTGATTC
1 TTCTAGTGCCTTAGACAGCTAGTTGATTC
343284 T
1 T
343285 AGAACAATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (29 bp):
TTCTAGTGCCTTAGACAGCTAGTTGATTC
Found at i:357518 original size:2 final size:2
Alignment explanation
Indices: 357511--357538 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
357501 CTCCACACCC
357511 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
357539 GTTCTATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:362015 original size:158 final size:149
Alignment explanation
Indices: 361691--362149 Score: 658
Period size: 151 Copynumber: 3.0 Consensus size: 149
361681 AATTCAACTG
* * *
361691 TGCATCTTAAATGGTAGCAAAGGTTTAATTTTAAATTTTAAAATCTTTTTAGCCTAGAGAGGAGC
1 TGCATCTTAAATGGTAGCAAAGGTTTAATTTTAAATTTTAAAATCATTTTAGCCAAGAAAGGAGC
* * *
361756 ATTGCAAGGTTGGAATTCTCTCTCCCCTCTTAGACTTCC--A-TGTATTTAGGAAAGGATAACAA
66 AATGCAAGGTTGGAATCCTCTCTCCCCTCTTAGACTTCCTTATTGTATTTAGG-AAGGATAACAG
361818 GCATCTATCATCAGTACATA
130 GCATCTATCATCAGTACATA
361838 TGCATCTTAAATGGTAGCAAAGGTTTAATTTTAAATTATAAATTTTAAAATCATTTTAGCCAAGA
1 TGCATCTTAAATGGTAGCAAAGGTTTAA---T---TT-TAAATTTTAAAATCATTTTAGCCAAGA
*
361903 AAGGAGCAATGCAAGGTTGGAATCCTCTCTCCCCTCTTAGAATTCCTTATGTGTATTTAGGCAAG
59 AAGGAGCAATGCAAGGTTGGAATCCTCTCTCCCCTCTTAGACTTCCTTAT-TGTATTTAGG-AAG
361968 GATAACAGGCATCTATCATCAGTACATA
122 GATAACAGGCATCTATCATCAGTACATA
361996 TGCATCTTAAATGGTAGCAAAGGTTTAATTTTAAATTTTAAAATCATTTTAG-CATAGAGAA-GA
1 TGCATCTTAAATGGTAGCAAAGGTTTAATTTTAAATTTTAAAATCATTTTAGCCA-AGA-AAGGA
* * * *
362059 GCAATGAAAGGTTGGAATCCTCTCTCCCCTCTTAGACTTCCTTATAAGTATTTAGGATGGGATAC
64 GCAATGCAAGGTTGGAATCCTCTCTCCCCTCTTAGACTTCCTTAT-TGTATTTAGGA-AGGATAA
362124 CAGGCATCTATCATCAGTACATA
127 CAGGCATCTATCATCAGTACATA
362147 TGC
1 TGC
362150 TTCATAATTC
Statistics
Matches: 284, Mismatches: 14, Indels: 24
0.88 0.04 0.07
Matches are distributed among these distances:
147 28 0.10
150 4 0.01
151 109 0.38
152 4 0.01
153 2 0.01
154 67 0.24
155 1 0.00
156 1 0.00
158 68 0.24
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (149 bp):
TGCATCTTAAATGGTAGCAAAGGTTTAATTTTAAATTTTAAAATCATTTTAGCCAAGAAAGGAGC
AATGCAAGGTTGGAATCCTCTCTCCCCTCTTAGACTTCCTTATTGTATTTAGGAAGGATAACAGG
CATCTATCATCAGTACATA
Found at i:382775 original size:21 final size:21
Alignment explanation
Indices: 382726--382776 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
382716 GCGTTGCAAA
382726 TTGTTGTGGCAGCATTCGATT
1 TTGTTGTGGCAGCATTCGATT
* *
382747 TTAG-TGTGGCTGCA-TCTGGTT
1 TT-GTTGTGGCAGCATTC-GATT
382768 TTGTTGTGG
1 TTGTTGTGG
382777 ATAAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 21 0.84
22 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.33, T:0.45
Consensus pattern (21 bp):
TTGTTGTGGCAGCATTCGATT
Done.