Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 3 of 333
Found at i:605608 original size:21 final size:21
Alignment explanation
Indices: 605570--605609 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
605560 AATTAACTTA
*
605570 ATTTAATTTTTTTGAATTATT
1 ATTTAATTTTTGTGAATTATT
605591 ATTTAATTTATTGT-AATTA
1 ATTTAATTT-TTGTGAATTA
605610 GATAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTAATTTTTGTGAATTATT
Found at i:611303 original size:15 final size:15
Alignment explanation
Indices: 611279--611308 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
611269 TTTTATTTAA
*
611279 TTTAATAAAAATTAT
1 TTTAAAAAAAATTAT
611294 TTTAAAAAAAATTAT
1 TTTAAAAAAAATTAT
611309 GATTTTCAAT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAAAAAAATTAT
Found at i:613759 original size:28 final size:28
Alignment explanation
Indices: 613715--613777 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
613705 CGTCAAAAAA
* * *
613715 TGGAA-GTCCGCCGAGGACTATGTTAAG
1 TGGAATGTACGCCAAGGACTATCTTAAG
*
613742 TGGAATGTACGCCAAGGACTATCTTAGG
1 TGGAATGTACGCCAAGGACTATCTTAAG
613770 TGGAATGT
1 TGGAATGT
613778 CCACCAGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (28 bp):
TGGAATGTACGCCAAGGACTATCTTAAG
Found at i:615365 original size:52 final size:52
Alignment explanation
Indices: 615289--615487 Score: 248
Period size: 52 Copynumber: 3.9 Consensus size: 52
615279 CCATGGCAGC
* *
615289 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
615342 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * *
615394 ATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * *
615442 -TGTGATATGTG-ATCCGTATAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
615488 TATGTGATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
46 26 0.20
47 11 0.09
50 2 0.02
52 79 0.62
53 10 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:618736 original size:15 final size:15
Alignment explanation
Indices: 618716--618784 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
618706 GTATCTTGGG
618716 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
618731 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
618746 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
618761 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
618776 TTTCTTTAT
1 TTTCTTTAT
618785 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:618785 original size:30 final size:30
Alignment explanation
Indices: 618707--618794 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
618697 CATAGTATCG
* * * *
618707 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
618737 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
618767 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
618795 TCTTATCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:621394 original size:52 final size:52
Alignment explanation
Indices: 621318--621511 Score: 238
Period size: 52 Copynumber: 3.8 Consensus size: 52
621308 CCATGGCAGC
* *
621318 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
621371 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * * *
621423 ATATGATATGTGCTACTGTATAAGACCATATCTGGGTTATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* *
621471 -TGTGATATGTG-ATCCGTATAAGACCATGGCTGGGCTATGGC
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGC
621512 CTCTGTATGT
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
46 24 0.19
47 10 0.08
50 2 0.02
52 78 0.63
53 10 0.08
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:625407 original size:20 final size:20
Alignment explanation
Indices: 625370--625407 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
625360 TGATGGGGAG
*
625370 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
625390 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
625408 GGAGAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:627306 original size:46 final size:46
Alignment explanation
Indices: 627254--627480 Score: 314
Period size: 46 Copynumber: 4.9 Consensus size: 46
627244 GTGTGCTCTC
*
627254 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCT
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
*
627300 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
*
627346 TGATATGAAATGTGTAAGCCCATGGTTGAAAGATACCATGGCAA-T
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
*** *
627391 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 -TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
* * * * *
627438 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
627481 TCATGTCAAA
Statistics
Matches: 163, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 162 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
Found at i:637722 original size:88 final size:88
Alignment explanation
Indices: 637475--638780 Score: 1993
Period size: 88 Copynumber: 14.9 Consensus size: 88
637465 TGTAACCTTT
* ** * * *
637475 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* ** *
637537 CAAGAAGGCAAGATCTGCT-TCTTT
64 CAGGAAGGCAAGATCTTTTGTCTTC
* * * ** * * *
637561 AACTAGCTCCA-CTGCAATCGATGGACGCAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTTAATG
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
*
637623 TAGGAAGGCAAGATCTTTTGTCTTC
64 CAGGAAGGCAAGATCTTTTGTCTTC
*
637648 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
* *
637713 GAAAAGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
*
637736 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
637801 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* * *
637824 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
637889 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
*
637912 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
637977 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* * *
638000 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
638065 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
*
638088 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
638153 GGAAGGCAAGATC-TTT-TCTTT
66 GGAAGGCAAGATCTTTTGTCTTC
* * * *
638174 AACCAGCTCCA-CTACAACCGAGAGTGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGC
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC
638238 AGGAAGGCAAGATCTTTTGTCTTC
65 AGGAAGGCAAGATCTTTTGTCTTC
* * *
638262 AACCAGTTCTATCACAACCGAAAGAGGCAAAGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
638327 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
*
638350 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
638415 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* * *
638438 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
638503 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
*
638526 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
638591 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* * *
638614 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
638679 GAAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTTTTGTCTTC
* * * *
638702 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
638767 GGAAGGCAAGATCT
66 GGAAGGCAAGATCT
638781 GTAACTTCAT
Statistics
Matches: 1124, Mismatches: 86, Indels: 18
0.92 0.07 0.01
Matches are distributed among these distances:
85 2 0.00
86 148 0.13
87 34 0.03
88 939 0.84
89 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GGAAGGCAAGATCTTTTGTCTTC
Found at i:638684 original size:614 final size:614
Alignment explanation
Indices: 637475--638781 Score: 2293
Period size: 614 Copynumber: 2.1 Consensus size: 614
637465 TGTAACCTTT
* ** * * *
637475 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* * * *
637537 CAAGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGCAATCGATGGACGCAAGGCTTTGTTTT
64 CAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGACGCAAGGCTTTGTTTT
* * * *
637602 CAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACC
129 CAACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACC
*
637667 GAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTGT
194 GAAAGAGGCAAAGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTGT
637732 CTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAA
259 CTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAA
637797 TGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATG
324 TGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATG
637862 TCTTCGACCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
389 TCTTCGACCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
637927 AACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTT
454 AACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTT
637992 TTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCTG
519 TTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCTG
638057 TCAATGCAGAAAGGCAAGATCTTTTGTCTTC
584 TCAATGCAGAAAGGCAAGATCTTTTGTCTTC
*
638088 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
* **
638153 GGAAGGCAAGATCT-TTTCTTTAACCAGCTCCACTACAACCGA-GAGTGGCAAGG-TTTGTGTCT
66 GGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATG-GACGCAAGGCTTTGT-T-T
* *
638215 TCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGTTCTATCACAAC
128 TCAACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAAC
*
638280 CGAAAGAGGCAAAGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTG
193 CGAAAGAGGCAAAGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTG
638345 TCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
258 TCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
638410 ATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTAT
323 ATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTAT
638475 GTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCA
388 GTCTTCGACCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCA
638540 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
453 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
638605 TTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCT
518 TTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCT
638670 GTCAATGCAGAAAGGCAAGATCTTTTGTCTTC
583 GTCAATGCAGAAAGGCAAGATCTTTTGTCTTC
* * * *
638702 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCACTATCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
638767 GGAAGGCAAGATCTG
66 GGAAGGCAAGATCTG
638782 TAACTTCATT
Statistics
Matches: 660, Mismatches: 27, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
612 13 0.02
613 59 0.09
614 588 0.89
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (614 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGACGCAAGGCTTTGTTTTCA
ACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGA
AAGAGGCAAAGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTGTCT
TCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATG
TAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTC
TTCGACCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAA
CCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTT
GTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTATGTCTTCGACCTGCTTCGCTGTC
AATGCAGAAAGGCAAGATCTTTTGTCTTC
Found at i:640470 original size:7 final size:8
Alignment explanation
Indices: 640445--640474 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
640435 TTATTTTGAC
640445 TTTGATTTT
1 TTTGA-TTT
640454 TTTGATTT
1 TTTGATTT
640462 TTTGATTT
1 TTTGATTT
640470 TTTGA
1 TTTGA
640475 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:643057 original size:19 final size:20
Alignment explanation
Indices: 643028--643076 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
643018 CACTTCGTGA
* *
643028 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
643047 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
643067 AAATG-AATGC
1 AAATGTAATGC
643077 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:650486 original size:24 final size:24
Alignment explanation
Indices: 650459--650514 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
650449 AAATTTGGTG
*
650459 TAATTAAAAGATTAAAATATTAAA
1 TAATTAAAAGAATAAAATATTAAA
* * * *
650483 TAATAAAAATAATAAAATTTTATA
1 TAATTAAAAGAATAAAATATTAAA
650507 T-ATTAAAA
1 TAATTAAAA
650515 ATTTATTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATTAAAAGAATAAAATATTAAA
Found at i:650515 original size:24 final size:24
Alignment explanation
Indices: 650471--650516 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
650461 ATTAAAAGAT
650471 TAAAATATTAAATAATAAAAATAA
1 TAAAATATTAAATAATAAAAATAA
* * *
650495 TAAAATTTTATATATTAAAAAT
1 TAAAATATTAAATAATAAAAAT
650517 TTATTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAAATATTAAATAATAAAAATAA
Found at i:653673 original size:15 final size:15
Alignment explanation
Indices: 653649--653682 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
653639 AACAATTACG
* *
653649 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
653664 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
653679 ATAA
1 ATAA
653683 CAAAATAAAT
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:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:655660 original size:43 final size:43
Alignment explanation
Indices: 655559--656226 Score: 246
Period size: 43 Copynumber: 15.4 Consensus size: 43
655549 AATGTTGTTT
* * *
655559 TCTTCGATCTATTCCACTGTTG-TCCAGGGAGATAGAACTAC-CAG
1 TCTTCGATCTACTCCACTG-TGCT-CAGGGAGATA-AAATCCGCAG
* * ** * *
655603 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCG
1 TCTTCGATCTACTCCACTGTGCTCAGGGAGATAAAATCCGCAG
* * * * * * * *
655645 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCGATCTACTCCACT-GTGCTCAGGGAGATAAAATCCGCAG
* * * *
655689 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTAC-CAG
1 TCTTCGATCTACTCCACTG-TGCTCAGGGAGATA-AAATCCGCAG
* * ** * *
655733 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCG
1 TCTTCGATCTACTCCACTGTGCTCAGGGAGATAAAATCCGCAG
* * * * * * * *
655775 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAATATCTGTAA
1 TCTTCGATCTACTCCACT-GTGCTCAGGGAGATAAAATCCGCAG
* * * *
655819 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTAC-CAG
1 TCTTCGATCTACTCCACTG-TGCTCAGGGAGATA-AAATCCGCAG
* * ** * *
655863 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCG
1 TCTTCGATCTACTCCACTGTGCTCAGGGAGATAAAATCCGCAG
* * * * * * * * *
655905 TCTTCGACCTGCTCCACTATTGCTTAGGGAAATAAGATCTGTAA
1 TCTTCGATCTACTCCACT-GTGCTCAGGGAGATAAAATCCGCAG
* * * * *
655949 TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAACTAC-CAG
1 TCTTCGATCTACTCCACTG-TGCTCAGGGAGATA-AAATCCGCAG
* * ** *
655993 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCG-ACG
1 TCTTCGATCTACTCCACTGTGCTCAGGGAGATAAAATCCGCA-G
* * * * * * *** *
656035 TCTTCAACCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAA
1 TCTTCGATCTACTCCACT-GTGCTCAGGGAGATAAAATCCGCAG
* * * *
656078 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTAC-CAG
1 TCTTCGATCTACTCCACTG-TGCTCAGGGAGATA-AAATCCGCAG
* * ** * *
656122 -CTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCG
1 TCTTCGATCTACTCCACTGTGCTCAGGGAGATAAAATCCGCAG
* * * * * * * *
656164 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCGATCTACTCCACT-GTGCTCAGGGAGATAAAATCCGCAG
* *
656208 TCTTCAATCTATTCCACTG
1 TCTTCGATCTACTCCACTG
656227 CCAAATACAG
Statistics
Matches: 426, Mismatches: 171, Indels: 55
0.65 0.26 0.08
Matches are distributed among these distances:
41 21 0.05
42 59 0.14
43 172 0.40
44 166 0.39
45 8 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
TCTTCGATCTACTCCACTGTGCTCAGGGAGATAAAATCCGCAG
Found at i:655717 original size:130 final size:130
Alignment explanation
Indices: 655559--656302 Score: 1283
Period size: 130 Copynumber: 5.7 Consensus size: 130
655549 AATGTTGTTT
*
655559 TCTTCGATCTATTCCACTGTTGTCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
655624 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
655689 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
*
655754 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAATATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
655819 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
*
655884 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAAATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
*
655949 TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
* * *
656014 TCAGGGAGGTAAAATCCGACGTCTTCAACCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
656078 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
656143 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
* ***** ** * *
656208 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
1 TCTTCGATCTATTCCACTG--TTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGT
* * *
656273 AGTCAGGGAGGTAAAATCTGCCATCTTCGA
64 AATCAGGGAGGTAAAATCCGCCGTCTTCGA
656303 TCTTCAATCT
Statistics
Matches: 585, Mismatches: 26, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
129 125 0.21
130 398 0.68
132 62 0.11
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (130 bp):
TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
Found at i:656168 original size:86 final size:86
Alignment explanation
Indices: 655559--656197 Score: 319
Period size: 86 Copynumber: 7.4 Consensus size: 86
655549 AATGTTGTTT
* * *
655559 TCTTCGATCTATTCCACTGTTG-TCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTA
1 TCTTCGATCTACTCCACTGTTGCT-CAGGGAGATAGAACTACCAGCTTCAATCTACTCCACTGTG
* * *
655623 ATCAGGGAGGTAAAATCCGCCG
65 CTCAGGGAGATAAAATCCGCAG
* * * * * *** * * *
655645 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTT
1 TCTTCGATCTACTCCACTGTTGCTCAGGGAGAT-AGAACTACCAGCTTCAATCTACTCCACTG-T
* * *
655710 GCCCAGGGAGATAGAACTAC-CAG
64 GCTCAGGGAGATA-AAATCCGCAG
* * ** * * * * * * * *
655733 -CTTCAATGTACTCCACTG-TAATCAGGGAGGTA-AAATCCGCCGTCTTCGACCTGCTCCACTAT
1 TCTTCGATCTACTCCACTGTTGCTCAGGGAGATAGAACTAC-CAG-CTTCAATCTACTCCACT-G
* * * * *
655795 TGCTTAGGGAGATAATATCTGTAA
63 TGCTCAGGGAGATAAAATCCGCAG
* * * **
655819 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTACTCCACTGTTGCTCAGGGAGATAGAACTACCAGCTTCAATCTACTCCACTGTGC
* *
655884 TCAGGGAGGTAAAATCCGCCG
66 TCAGGGAGATAAAATCCGCAG
* * * * * * *** * *
655905 TCTTCGACCTGCTCCACTATTGCTTAGGGAAATAAGATCTGTAATCTTCAATCTATTCCACTGTT
1 TCTTCGATCTACTCCACTGTTGCTCAGGGAGAT-AGAACTACCAGCTTCAATCTACTCCACTG-T
* * *
655970 GCCCAGGGAGATAGAACTAC-CAG
64 GCTCAGGGAGATA-AAATCCGCAG
* * ** * * * *
655993 -CTTCAATGTACTCCACTG-TAATCAGGGAGGTA-AAAT-CCGACGTCTTCAACCTGCTCCACTA
1 TCTTCGATCTACTCCACTGTTGCTCAGGGAGATAGAACTACC-A-G-CTTCAATCTACTCCACT-
* * * *** *
656054 TTGCTTAGGGAGAT-AGATCTATAA
62 GTGCTCAGGGAGATAAAATCCGCAG
* * * **
656078 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTACTCCACTGTTGCTCAGGGAGATAGAACTACCAGCTTCAATCTACTCCACTGTGC
* *
656143 TCAGGGAGGTAAAATCCGCCG
66 TCAGGGAGATAAAATCCGCAG
* * * *
656164 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATA
1 TCTTCGATCTACTCCACTGTTGCTCAGGGAGATA
656198 AGATCTGTAA
Statistics
Matches: 381, Mismatches: 148, Indels: 48
0.66 0.26 0.08
Matches are distributed among these distances:
84 7 0.02
85 14 0.04
86 197 0.52
87 109 0.29
88 40 0.10
89 14 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (86 bp):
TCTTCGATCTACTCCACTGTTGCTCAGGGAGATAGAACTACCAGCTTCAATCTACTCCACTGTGC
TCAGGGAGATAAAATCCGCAG
Found at i:656318 original size:95 final size:96
Alignment explanation
Indices: 656207--656402 Score: 358
Period size: 95 Copynumber: 2.0 Consensus size: 96
656197 AAGATCTGTA
656207 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
656272 TAGT-CAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTACAGGGAGGTAAAATCTGCCATCTTCG
656302 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
656367 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT-ACAGGGAGGTAAAATCTGCCATCTTCG
656399 ATCT
1 ATCT
656403 GCTTCGCTGC
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 69 0.71
97 28 0.29
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (96 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTACAGGGAGGTAAAATCTGCCATCTTCG
Found at i:656907 original size:95 final size:95
Alignment explanation
Indices: 656670--656961 Score: 539
Period size: 95 Copynumber: 3.0 Consensus size: 95
656660 AAGATCTGCA
656670 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
656735 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
656767 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
656832 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
656862 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
656927 TAGTCAGGGAGGTAAAATCTGCCATCATTTG
66 TAGTCAGGGAGGTAAAATCTGCCATC-TTTG
656958 ATCT
1 ATCT
656962 GCTTCGCTGC
Statistics
Matches: 192, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
95 115 0.60
96 8 0.04
97 69 0.36
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:656921 original size:327 final size:327
Alignment explanation
Indices: 656438--657096 Score: 1187
Period size: 327 Copynumber: 2.0 Consensus size: 327
656428 AAGATTTGCA
656438 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
656503 TAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGA
66 TAGT-ACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGA
* * *
656568 GATAGAGTTATCGGCTTCAGTGTACTCCACTATGGTCAGGGAGGTAAAATCTGCCATCTTTTGAT
130 GATAGAGTTATCGGCTTCAATGTACTCCACTATAGTCAGGGAGGTAAAATCTGCCATCATTTGAT
656633 CTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATAC
195 CTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATAC
*
656698 AGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATC
260 AGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATC
656763 -TTTG
323 TTTTG
656767 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
656832 TAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATGCAGGGAG
66 TAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAG
*
656896 ATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATTTGATC
131 ATAGAGTTATCGGCTTCAATGTACTCCACTATAGTCAGGGAGGTAAAATCTGCCATCATTTGATC
656961 TGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA
196 TGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA
* *
657026 GGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
261 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
657091 TG
326 TG
657093 ATCT
1 ATCT
657097 GCTTCGCTGC
Statistics
Matches: 319, Mismatches: 10, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
325 21 0.07
326 8 0.03
327 221 0.69
329 69 0.22
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (327 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAG
ATAGAGTTATCGGCTTCAATGTACTCCACTATAGTCAGGGAGGTAAAATCTGCCATCATTTGATC
TGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACA
GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
TG
Found at i:657020 original size:46 final size:46
Alignment explanation
Indices: 656968--657300 Score: 150
Period size: 46 Copynumber: 7.4 Consensus size: 46
656958 ATCTGCTTCG
* *
656968 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * * *
657014 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAGTGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCA
*** * * ** * *
657059 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTT-CG
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATC-TTCAATCT-ATTCCA
* * *
657103 CTGCCAAATATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * * *
657149 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAGTGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCA
*** * * ** * *
657194 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTT-CG
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATC-TTCAATCT-ATTCCA
** *
657238 CTGCCAAATACAGAAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCA
657284 CTGCCAAATACAGGGAG
1 CTGCCAAATACAGGGAG
657301 ATAGAGTTAT
Statistics
Matches: 190, Mismatches: 79, Indels: 36
0.62 0.26 0.12
Matches are distributed among these distances:
41 6 0.03
42 20 0.11
43 4 0.02
44 16 0.08
45 36 0.19
46 66 0.35
47 42 0.22
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCA
Found at i:657020 original size:135 final size:135
Alignment explanation
Indices: 656862--657367 Score: 897
Period size: 135 Copynumber: 3.7 Consensus size: 135
656852 GCCATCTTTG
*
656862 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
656927 TAGTCAGGGAGGTAAAATCTGCCATCATTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
656992 CTGCA
131 CTGCA
*
656997 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
657062 TGGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATATAGGAAGGCAAGAT
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
657127 CTGCA
131 CTGCA
*
657132 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAGTGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
657197 TGGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGAAAGGCAAGAT
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
657262 CTGCA
131 CTGCA
657267 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
**
657332 TAGTCACATAGAGGTAAAATCTGCCATC-TTTGATCT
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTTGATCT
657368 TCAATCTATT
Statistics
Matches: 358, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
135 330 0.92
136 8 0.02
137 20 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (135 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGAT
CTGCA
Found at i:657510 original size:95 final size:95
Alignment explanation
Indices: 657267--657749 Score: 840
Period size: 95 Copynumber: 5.0 Consensus size: 95
657257 AAGATCTGCA
657267 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
**
657332 TAGTCACATAGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
657364 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
657429 TAGTCAGGGAGGTAAAATATGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
* *
657459 ATCTTCAATCTATTCCACTGCCAAATATAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
657524 TAGTCAGGGAGGTAAACTCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
657554 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
657619 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
657649 ATCTTCAATCTATTCCACTACCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
657714 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
657746 ATCT
1 ATCT
657750 GCTTCGCTGC
Statistics
Matches: 370, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
95 273 0.74
97 97 0.26
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:657812 original size:231 final size:230
Alignment explanation
Indices: 657554--658023 Score: 852
Period size: 231 Copynumber: 2.0 Consensus size: 230
657544 GCCATCTTCG
*
657554 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
657619 TAGT-CAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTACCAAATACAGGGAG
66 TAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTACCAAATACAGGGAG
*
657683 ATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTGAT
131 ATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTTGAT
*
657748 CTGCTTCGCTGCCAAATATAGGAAGGCAAGATCTGCA
194 CTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
657785 ATCTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
657850 TAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGA
66 TAGT-ACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTACCAAATACAGGGA
657915 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATC
130 GATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATC
*
657980 TGCTTCGCTGCCAAATACAGGAATGCAAGATCTGCA
195 TGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
658016 ATCTTCAA
1 ATCTTCAA
658024 CCTGCTCTGC
Statistics
Matches: 231, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
231 138 0.60
233 93 0.40
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (230 bp):
ATCTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTACAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTACCAAATACAGGGAG
ATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
GCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCA
Found at i:657847 original size:45 final size:45
Alignment explanation
Indices: 657787--657946 Score: 117
Period size: 45 Copynumber: 3.4 Consensus size: 45
657777 GATCTGCAAT
*
657787 CTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACACGGAGATAGAGTTATCGG
* * * * * * * *
657832 CTTCAATGTACTCCACTG--TAGTCACATGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAAT-ACACGGAGATAGAGT-T---A---TCG-G
* *
657884 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACACGGAGATAGAGTTATCGG
*
657929 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
657947 TAGTCAGGGA
Statistics
Matches: 84, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
43 2 0.02
44 11 0.13
45 33 0.39
46 3 0.04
48 1 0.01
49 1 0.01
51 3 0.04
52 17 0.20
53 11 0.13
54 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACACGGAGATAGAGTTATCGG
Found at i:657937 original size:97 final size:95
Alignment explanation
Indices: 657785--657980 Score: 347
Period size: 97 Copynumber: 2.0 Consensus size: 95
657775 AAGATCTGCA
657785 ATCTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
657850 TAGTCACATGGAGGTAAAATCTGCCATCTTCG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTCG
*
657882 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
657947 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
657977 ATCT
1 ATCT
657981 GCTTCGCTGC
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 28 0.29
97 68 0.71
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACACGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:658106 original size:86 final size:87
Alignment explanation
Indices: 657971--658147 Score: 284
Period size: 86 Copynumber: 2.0 Consensus size: 87
657961 AAATCTGCCA
* * *
657971 TCTTTGATCTGCTTCGCTGCCAAATACAGGAATGCAAGATCTGCAATCTTCAACCTGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTA
658036 CAAACGAGAGAGGCAAGGTTTG
66 CAAACGAGAGAGGCAAGGTTTG
* * * *
658058 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTA
658122 CAAACGAGAGAGGCAAGGTTTG
66 CAAACGAGAGAGGCAAGGTTTG
658144 TCTT
1 TCTT
658148 TGATTTTTAC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 64 0.77
87 19 0.23
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (87 bp):
TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTA
CAAACGAGAGAGGCAAGGTTTG
Found at i:658138 original size:44 final size:43
Alignment explanation
Indices: 658004--658143 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
657994 ATACAGGAAT
*
658004 GCAAGATCTGCAATCTTCAACCTGCTCTGCTACAAACGAGAGAG
1 GCAAGATTTGC-ATCTTCAACCTGCTCTGCTACAAACGAGAGAG
* * * * *
658048 GCAAGGTTTG--TCTTCGATCTGCT-TCGCTGTC-AATGCAG-GAAG
1 GCAAGATTTGCATCTTCAACCTGCTCT-GCT-ACAAACG-AGAG-AG
*
658090 GCAAGATTTGCTATCTTCAACCAGCTCTGCTACAAACGAGAGAG
1 GCAAGATTTGC-ATCTTCAACCTGCTCTGCTACAAACGAGAGAG
*
658134 GCAAGGTTTG
1 GCAAGATTTG
658144 TCTTTGATTT
Statistics
Matches: 73, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
40 1 0.01
41 18 0.25
42 14 0.19
44 22 0.30
45 17 0.23
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (43 bp):
GCAAGATTTGCATCTTCAACCTGCTCTGCTACAAACGAGAGAG
Found at i:664013 original size:18 final size:17
Alignment explanation
Indices: 663967--664016 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
663957 ATGAAGTTGC
*
663967 AAAAATAAAAAGATAAAA
1 AAAAATAAAATGA-AAAA
*
663985 AAAAATAAAATGAAAAT
1 AAAAATAAAATGAAAAA
664002 AAAAATGAAAATGAA
1 AAAAAT-AAAATGAA
664017 TAGAGACCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (17 bp):
AAAAATAAAATGAAAAA
Found at i:674459 original size:18 final size:18
Alignment explanation
Indices: 674436--674477 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
674426 GATAATTAGA
674436 TTTTTTATTATTTGGT-TT
1 TTTTTTA-TATTTGGTATT
*
674454 TTTTTTATATTTTGTATT
1 TTTTTTATATTTGGTATT
674472 TTTTTT
1 TTTTTT
674478 CTTCTTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (18 bp):
TTTTTTATATTTGGTATT
Found at i:680521 original size:21 final size:21
Alignment explanation
Indices: 680472--680521 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
680462 TACTTCATGC
680472 TATTTTTT-TAATTTTTTATG
1 TATTTTTTATAATTTTTTATG
* * * *
680492 AACTCTTTATAATTTTTTATT
1 TATTTTTTATAATTTTTTATG
680513 TATTTTTTA
1 TATTTTTTA
680522 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (21 bp):
TATTTTTTATAATTTTTTATG
Found at i:680974 original size:84 final size:85
Alignment explanation
Indices: 680833--681001 Score: 295
Period size: 84 Copynumber: 2.0 Consensus size: 85
680823 TTAGAGGGAG
* *
680833 TAGATAGGTTGGCCCTCTCTTAAATAAAAAATTATGTTGTGGTCCCTTAATAAATTAT-AGAAAA
1 TAGATAGGTTGGCCCTCTCTTAAATAAAAAATTATGTTGTGGTCACTTAATAAATTATAAAAAAA
680897 TAAAAGTTATAGTGAAAAAA
66 TAAAAGTTATAGTGAAAAAA
680917 TAGATAGGTTGGCCCTCTCTTAAATAAAAAATTATGTTGTGGTCACTTAATAAATTATAAAAAAA
1 TAGATAGGTTGGCCCTCTCTTAAATAAAAAATTATGTTGTGGTCACTTAATAAATTATAAAAAAA
* *
680982 TAAAAGTTGTTGTGAAAAAA
66 TAAAAGTTATAGTGAAAAAA
681002 AAATGCATTT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
84 57 0.71
85 23 0.29
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (85 bp):
TAGATAGGTTGGCCCTCTCTTAAATAAAAAATTATGTTGTGGTCACTTAATAAATTATAAAAAAA
TAAAAGTTATAGTGAAAAAA
Found at i:683569 original size:41 final size:41
Alignment explanation
Indices: 683524--683635 Score: 197
Period size: 41 Copynumber: 2.7 Consensus size: 41
683514 CACAAGGCAA
*
683524 TAGCGGCGCTTTTGATAAAACGCCGCTAAAGACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
*
683565 TAGCGGCGCTTTTGGTGAAACGCCGCTAAAGACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
*
683606 TAGCGACGCTTTTGGTAAAACGCCGCTAAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAA
683636 AGTCATGTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCAGAGCAT
Found at i:684225 original size:24 final size:24
Alignment explanation
Indices: 684198--684246 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
684188 CATATATTTA
684198 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
684222 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
684246 T
1 T
684247 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:685303 original size:25 final size:24
Alignment explanation
Indices: 685256--685303 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
685246 CGGTTTTATC
*
685256 CCTAAATTTTCCCCCTCTGAAACG
1 CCTAAATTTTCCCCCTCTAAAACG
* *
685280 CCTAATTTTTTCCCCTCTCAAAAC
1 CCTAAATTTTCCCCCTCT-AAAAC
685304 ACCCCCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.25, C:0.38, G:0.04, T:0.33
Consensus pattern (24 bp):
CCTAAATTTTCCCCCTCTAAAACG
Found at i:687831 original size:18 final size:18
Alignment explanation
Indices: 687810--687896 Score: 120
Period size: 18 Copynumber: 4.8 Consensus size: 18
687800 CGTTTATGGT
* *
687810 ACTATTTACGTATATGGC
1 ACTATTCACGTATACGGC
687828 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
687846 ACTATTCATGTATACGGC
1 ACTATTCACGTATACGGC
* *
687864 ACTATTCACATATACGGT
1 ACTATTCACGTATACGGC
*
687882 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
687897 AGTAGTTGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:689948 original size:47 final size:47
Alignment explanation
Indices: 689885--690376 Score: 701
Period size: 47 Copynumber: 10.4 Consensus size: 47
689875 CCCTTCGGGA
* * *
689885 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
689932 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
689979 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
690026 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
690073 CTTATCACACATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
690120 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
690167 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
690216 CTTATCTC--ATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
690261 CTTATCACACATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
690308 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
690357 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
690377 GTACATCAAT
Statistics
Matches: 414, Mismatches: 21, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
44 1 0.00
45 40 0.10
46 1 0.00
47 288 0.70
49 82 0.20
50 2 0.00
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:699369 original size:43 final size:43
Alignment explanation
Indices: 699321--699503 Score: 260
Period size: 43 Copynumber: 4.3 Consensus size: 43
699311 AATCATTATT
* * * * * *
699321 TTTAGCGGCGTTTGTGAGAAAAGTGCCGTTAAATGTTATGATC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
699364 TTTAGCGGCGTTTGTG-AAAAACCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
699406 TTTAGCGGCGTTTGAGAAAAAAGCACCGCTAAAGGTTATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
699449 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
699492 TTTAGCGGCGTT
1 TTTAGCGGCGTT
699504 GCATATAGCG
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 34 0.27
43 91 0.73
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:699468 original size:85 final size:86
Alignment explanation
Indices: 699321--699503 Score: 278
Period size: 85 Copynumber: 2.1 Consensus size: 86
699311 AATCATTATT
* * ** * * *
699321 TTTAGCGGCGTTTGTGAGAAAAGTGCCGTTAAATGTTATGATCTTTAGCGGCGTTTGTG-AAAAA
1 TTTAGCGGCGTTTGAGAAAAAAGCACCGCTAAAGGTTATGATCTTTAGCGGCGTTTGCGAAAAAA
699385 CCGCCGCTAAAGGTCATGGTC
66 CCGCCGCTAAAGGTCATGGTC
*
699406 TTTAGCGGCGTTTGAGAAAAAAGCACCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGCGAAAAAA
1 TTTAGCGGCGTTTGAGAAAAAAGCACCGCTAAAGGTTATGATCTTTAGCGGCGTTTGCGAAAAAA
*
699471 GCGCCGCTAAAGGTCATGGTC
66 CCGCCGCTAAAGGTCATGGTC
699492 TTTAGCGGCGTT
1 TTTAGCGGCGTT
699504 GCATATAGCG
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 51 0.58
86 37 0.42
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (86 bp):
TTTAGCGGCGTTTGAGAAAAAAGCACCGCTAAAGGTTATGATCTTTAGCGGCGTTTGCGAAAAAA
CCGCCGCTAAAGGTCATGGTC
Found at i:703400 original size:30 final size:30
Alignment explanation
Indices: 703364--703423 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
703354 TATCGGTGTT
* *
703364 AGTTTTATATGTGGGGACAAAAATAGCTAA
1 AGTTTTATATGAGGGGACAAAAATAACTAA
703394 AGTTTTATATGAGGGGACAAAAATAACTAA
1 AGTTTTATATGAGGGGACAAAAATAACTAA
703424 TGTATGACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (30 bp):
AGTTTTATATGAGGGGACAAAAATAACTAA
Found at i:703964 original size:153 final size:155
Alignment explanation
Indices: 703800--704100 Score: 389
Period size: 153 Copynumber: 1.9 Consensus size: 155
703790 TCACATGAAT
* **
703800 GAGGAGTACTTGCTTTGCAAACTGAAATTAT-GGCTAAAATAGTGTTTGAAACTGA-CATCATAA
1 GAGGAGTACTTGCTTTGCAAACAGAAACGATCGG-TAAAATAGTGTTTGAAACT-ATCATCATAA
* * *
703863 TTTTAACCACGAAA-AAAAAAACA-TGAACA-ATAGTAAAAATGAACCCCAAGATTGA-ATATGC
64 TTTTAACAACGAAATAAAAAAAAAGTGAACAGA-AGTAAAAATGAACACCAAGATT-ATATATGC
703924 AGTTCAACCTCAGTCTATGTCAACGGAAC
127 AGTTCAACCTCAGTCTATGTCAACGGAAC
* * * *
703953 GAGGGGTACTTGCTTTGCAAACAGAAACGGTCGGTAAAATAGTGTTTGGAACTATCATCATAGTT
1 GAGGAGTACTTGCTTTGCAAACAGAAACGATCGGTAAAATAGTGTTTGAAACTATCATCATAATT
* * * *
704018 TTAACAATGAAATTAAAAAAAAAGTGCACAGAAGTTAAAATGAACACCAAGATTATTTATGCAGT
66 TTAACAACGAAA-TAAAAAAAAAGTGAACAGAAGTAAAAATGAACACCAAGATTATATATGCAGT
704083 TCAACCTCAGTCTATGTC
130 TCAACCTCAGTCTATGTC
704101 TGCAACGCCT
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
152 1 0.01
153 63 0.50
154 2 0.02
155 9 0.07
156 51 0.40
157 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (155 bp):
GAGGAGTACTTGCTTTGCAAACAGAAACGATCGGTAAAATAGTGTTTGAAACTATCATCATAATT
TTAACAACGAAATAAAAAAAAAGTGAACAGAAGTAAAAATGAACACCAAGATTATATATGCAGTT
CAACCTCAGTCTATGTCAACGGAAC
Found at i:704165 original size:27 final size:27
Alignment explanation
Indices: 704135--704189 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
704125 ACACATATCT
* *
704135 TTCTCAGAGTACAACCAATTATTTAAG
1 TTCTCAGAGTACAACCAATGAATTAAG
704162 TTCTCAGAGTACAACCAATGAATTAAG
1 TTCTCAGAGTACAACCAATGAATTAAG
704189 T
1 T
704190 CCTAATACCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (27 bp):
TTCTCAGAGTACAACCAATGAATTAAG
Found at i:705516 original size:24 final size:24
Alignment explanation
Indices: 705465--705518 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
705455 TTACTTTATT
** * *
705465 ATATTTTATAAGGGAAACGTGCAT
1 ATATTTTATAAGAAAAACGTACAC
*
705489 ATATTTTATAAGAAAAATGTACAC
1 ATATTTTATAAGAAAAACGTACAC
705513 ATATTT
1 ATATTT
705519 ACTTTATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (24 bp):
ATATTTTATAAGAAAAACGTACAC
Found at i:712181 original size:17 final size:17
Alignment explanation
Indices: 712159--712192 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
712149 ATCCACTAAT
*
712159 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
712176 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
712193 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:716820 original size:17 final size:17
Alignment explanation
Indices: 716798--716831 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
716788 ATCCACTAAT
*
716798 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
716815 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
716832 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:721469 original size:25 final size:28
Alignment explanation
Indices: 721426--721476 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
721416 TTATTAAAAC
721426 TCTTCTAAAAGAAAACTC-AAGAGAAAT
1 TCTTCTAAAAGAAAACTCAAAGAGAAAT
721453 TCTT-TAAAA-AAAACTCAAAGAGAA
1 TCTTCTAAAAGAAAACTCAAAGAGAA
721477 TTTTATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.30
26 12 0.52
27 4 0.17
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (28 bp):
TCTTCTAAAAGAAAACTCAAAGAGAAAT
Found at i:723216 original size:5 final size:5
Alignment explanation
Indices: 723206--723292 Score: 174
Period size: 5 Copynumber: 17.4 Consensus size: 5
723196 CATTGGTTGT
723206 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
723256 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TT
723293 TCAGCTATTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 82 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:725064 original size:20 final size:18
Alignment explanation
Indices: 725036--725074 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
725026 TGCTTATTAT
*
725036 TTAAGAAATAATAATTATAA
1 TTAAAAAAT-ATAA-TATAA
725056 TTAAAAAATATAATATAA
1 TTAAAAAATATAATATAA
725074 T
1 T
725075 AATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAAAATATAATATAA
Found at i:726083 original size:6 final size:6
Alignment explanation
Indices: 726072--726097 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
726062 TGTGTACCGC
726072 TACTGT TACTGT TACTGT TACTGT TA
1 TACTGT TACTGT TACTGT TACTGT TA
726098 TCATTACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:727793 original size:47 final size:49
Alignment explanation
Indices: 727683--727861 Score: 234
Period size: 47 Copynumber: 3.8 Consensus size: 49
727673 TGTAACCCGC
727683 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG--GC-GTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCAGTTCACAT
*
727729 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
727779 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
727823 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
727862 TTCAACCATC
Statistics
Matches: 116, Mismatches: 5, Indels: 21
0.82 0.04 0.15
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 3 0.03
46 34 0.29
47 59 0.51
48 3 0.03
49 2 0.02
50 4 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (49 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:727850 original size:94 final size:93
Alignment explanation
Indices: 727690--727861 Score: 292
Period size: 94 Copynumber: 1.8 Consensus size: 93
727680 CGCCCATAAG
* *
727690 TGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCACATCCATAAGTGAACTCGGACTTAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTTGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
727755 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
727783 TGAACTCGGACTCAACTCAACGAG-TTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACT
1 TGAACTCGGACTCAACTCAACGAGCTT-GGAC-GTTCACATCCATAAGTGAACTCGGACTCAACT
727847 CAACGAGTTCGGATG
64 CAACGAGTTCGGATG
727862 TTCAACCATC
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
92 2 0.03
93 27 0.36
94 45 0.61
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTTGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:728315 original size:30 final size:30
Alignment explanation
Indices: 728281--728340 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
728271 CCTTAATACG
728281 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
728311 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
728341 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:735358 original size:67 final size:67
Alignment explanation
Indices: 735250--735383 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
735240 TGTAGCCAAG
735250 CTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACAAGCTTGGGCGTTCGCATCCA
1 CTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACAAGCTTGGGCGTTCGCATCCA
735315 TA
66 TA
* *
735317 CTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAATAAGCTTGGGTGTTCGCATCCA
1 CTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACAAGCTTGGGCGTTCGCATCCA
735382 TA
66 TA
735384 AGTGAACTCG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (67 bp):
CTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACAAGCTTGGGCGTTCGCATCCA
TA
Found at i:735485 original size:47 final size:49
Alignment explanation
Indices: 735376--735507 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 49
735366 TGGGTGTTCG
*
735376 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GATGACTAGTTA
* * * *
735426 CAT-C-TCA-CGAACTCGGGCTCAACTCAACGAGTTC-A-GAC-ATTTCA
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATGACTAGTT-A
735470 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
735508 GATGTTCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
43 3 0.04
44 6 0.09
45 2 0.03
46 2 0.03
47 50 0.72
48 2 0.03
49 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (49 bp):
CATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATGACTAGTTA
Found at i:737323 original size:41 final size:42
Alignment explanation
Indices: 737249--737328 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 42
737239 ATTTTGAGTC
*
737249 CACACGGCTTGTCACACGGGCGTGTGATCAGACCATGTGAGA
1 CACACGGCTTGTCACACGGGCATGTGATCAGACCATGTGAGA
*
737291 CACACGGCTTG-CACACGGGCATGTTGAT-AGACCGTGTG
1 CACACGGCTTGTCACACGGGCATG-TGATCAGACCATGTG
737329 TCCCCTGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 20 0.57
42 15 0.43
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.20
Consensus pattern (42 bp):
CACACGGCTTGTCACACGGGCATGTGATCAGACCATGTGAGA
Found at i:751721 original size:41 final size:43
Alignment explanation
Indices: 751641--751724 Score: 127
Period size: 41 Copynumber: 2.0 Consensus size: 43
751631 ATATAAAAAA
* * *
751641 GTCATTATGGATTTAATGCTTGAGTGACTAAAATGAAAGCATT
1 GTCATTAGGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
751684 GTCATTAGGGATTT-ATACTTG-GTAACTAAAATGAAAGCATT
1 GTCATTAGGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
751725 CTTTAACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 19 0.50
42 6 0.16
43 13 0.34
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.35
Consensus pattern (43 bp):
GTCATTAGGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
Found at i:753544 original size:31 final size:32
Alignment explanation
Indices: 753468--753546 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
753458 AAATAATAAA
*
753468 AAATAA-AATAA-TATCTTATTAAAATATTAT
1 AAATAATAATAATTATCTAATTAAAATATTAT
*
753498 AAATAATAATTATTATCTAATT-AAATAATTAT
1 AAATAATAATAATTATCTAATTAAAAT-ATTAT
753530 AAAT-ATCAA-AATTATCT
1 AAATAAT-AATAATTATCT
753547 CTAGCATCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 6 0.14
31 17 0.40
32 19 0.45
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATAATAATAATTATCTAATTAAAATATTAT
Found at i:777715 original size:42 final size:43
Alignment explanation
Indices: 777632--777716 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
777622 ATATAAAAAA
* * *
777632 GTCATTATGGATTTAATGCTTGAGTGACTAAAATGAAAGCATT
1 GTCATTAGGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
777675 GTCATTAGGGATTTAATACTTG-GTAACTAAAATGAAAGCATT
1 GTCATTAGGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
777717 CTTTAACAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 19 0.49
43 20 0.51
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (43 bp):
GTCATTAGGGATTTAATACTTGAGTAACTAAAATGAAAGCATT
Found at i:779557 original size:11 final size:11
Alignment explanation
Indices: 779541--779596 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
779531 CTTTATATAC
779541 TAATAAAATAA
1 TAATAAAATAA
779552 TAATAAAATAA
1 TAATAAAATAA
* **
779563 TAA-AATATCT
1 TAATAAAATAA
* *
779573 TATTAAAATAT
1 TAATAAAATAA
779584 TAATAAAATAA
1 TAATAAAATAA
779595 TA
1 TA
779597 TTTATCTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 6 0.17
11 30 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:779612 original size:43 final size:41
Alignment explanation
Indices: 779541--779624 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 41
779531 CTTTATATAC
*
779541 TAATAAAATAATAATAAAATAATAAAATATCTTATTAAAATAT
1 TAATAAAATAATAATAAAATAATAAAATA-ATTA-TAAAATAT
* * ** *
779584 TAATAAAATAATATTTATCTAATTAAATAATTATAAAATAT
1 TAATAAAATAATAATAAAATAATAAAATAATTATAAAATAT
779625 CAAAATATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 8 0.23
42 3 0.09
43 24 0.69
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (41 bp):
TAATAAAATAATAATAAAATAATAAAATAATTATAAAATAT
Found at i:782848 original size:26 final size:26
Alignment explanation
Indices: 782811--782894 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
782801 TGATACAAAT
* *
782811 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
782837 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
782863 TGATAGTGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
782889 TGATAA
1 TGATAA
782895 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:784509 original size:27 final size:27
Alignment explanation
Indices: 784468--784607 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
784458 GAGGAAGCGT
*
784468 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
784495 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
784522 TCTGGTGGCTCTGCCACATATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
784548 TTCTGGTGGCTCTACCACGATTATCTGTA
1 -TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
784577 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
784603 TCTGG
1 TCTGG
784608 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.06
27 79 0.79
28 14 0.14
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:786435 original size:19 final size:19
Alignment explanation
Indices: 786411--786448 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
786401 AGTCTAATGA
*
786411 TAGGTTTAGATGGGTGGTG
1 TAGGTTTAGATGGATGGTG
786430 TAGGTTTAGATGGATGGTG
1 TAGGTTTAGATGGATGGTG
786449 CATTTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (19 bp):
TAGGTTTAGATGGATGGTG
Found at i:791492 original size:28 final size:27
Alignment explanation
Indices: 791431--791493 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
791421 AATTTTAAGG
*
791431 TTAAAATTTTCTATTAGTCCTTGTACT
1 TTAAAATTTTATATTAGTCCTTGTACT
791458 TTGAAAATTTTGATATTTAGTCCTTGTAC-
1 TT-AAAATTTT-ATA-TTAGTCCTTGTACT
791487 TTAAAAT
1 TTAAAAT
791494 GATAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.06
28 13 0.41
29 4 0.12
30 13 0.41
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (27 bp):
TTAAAATTTTATATTAGTCCTTGTACT
Found at i:793855 original size:4 final size:4
Alignment explanation
Indices: 793846--793880 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
793836 ATCAATGAAC
*
793846 CATA CATA CATA CATA CATA TATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CAT
793881 CTCCATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (4 bp):
CATA
Found at i:794009 original size:4 final size:4
Alignment explanation
Indices: 794000--794047 Score: 87
Period size: 4 Copynumber: 12.0 Consensus size: 4
793990 ATGAACTTTC
*
794000 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
794048 TTCCATTGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:794114 original size:167 final size:168
Alignment explanation
Indices: 793846--794166 Score: 477
Period size: 167 Copynumber: 1.9 Consensus size: 168
793836 ATCAATGAAC
* *
793846 CATACATACATACATACATATATACATACATACATCTCCATTGTTTCCTTCCCAATCAAAACCTG
1 CATACATACATACATACATACATACATACATACATCTCCATTGCTTCCTTCCCAATCAAAACCTG
* * *
793911 AAATTCAACACAAACCAATCTTTTGCACCCATATTTTTTTTCCTTCCCCTAATTCATCACATAAC
66 AAATTCAACACAAACCAATCCTTTACACCCATATTTTTTTCCCTTCCCCTAATTCATCACATAAC
* * *
793976 CATAGCATTGAATCAT-GAACTTTCACATACATACATA
131 AATAGAACTGAATCATGGAACTTTCACATACATACATA
* * *
794013 CATACATACATACATACATACATGCATACATACATTTCCATTGCTTCC-T-CCAATCAGAACCTG
1 CATACATACATACATACATACATACATACATACATCTCCATTGCTTCCTTCCCAATCAAAACCTG
* * *
794076 AAATTCAACACCACAACCAATCCTTTACACCTATATTTTTTTCCCTTCCCCTAGTTCATCATATA
66 AAATTCAACA-CA-AACCAATCCTTTACACCCATATTTTTTTCCCTTCCCCTAATTCATCACATA
794141 ACAATAGAACTGAATCATGGAACTTT
129 ACAATAGAACTGAATCATGGAACTTT
794167 GAACTTTCCC
Statistics
Matches: 137, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
165 23 0.17
166 3 0.02
167 104 0.76
168 7 0.05
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (168 bp):
CATACATACATACATACATACATACATACATACATCTCCATTGCTTCCTTCCCAATCAAAACCTG
AAATTCAACACAAACCAATCCTTTACACCCATATTTTTTTCCCTTCCCCTAATTCATCACATAAC
AATAGAACTGAATCATGGAACTTTCACATACATACATA
Found at i:794408 original size:13 final size:14
Alignment explanation
Indices: 794383--794411 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
794373 CAATCAAAAC
794383 AACCCACAAACAAA
1 AACCCACAAACAAA
794397 AACCCA-AAACAAA
1 AACCCACAAACAAA
794410 AA
1 AA
794412 AAATTCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (14 bp):
AACCCACAAACAAA
Found at i:798590 original size:69 final size:69
Alignment explanation
Indices: 798477--798640 Score: 229
Period size: 69 Copynumber: 2.4 Consensus size: 69
798467 GGGTACATCA
* * * * * * *
798477 GGTGAAAGATCCTATCTATAGTAAAGTTAAGCTCTTTCATCAAATGACTCAACCATCTAACAACA
1 GGTGAAAGGTCCTCTCTTTAATAAAGTCAAGCTCTGTCATCAAATGACTCAACCATCTAACAAAA
798542 ATTG
66 ATTG
* *
798546 GGTGAAAGGTCCTCTCTTTAATAGAGTCAAGCTCTGTCATCAAATGACTCAACCATCTAATAAAA
1 GGTGAAAGGTCCTCTCTTTAATAAAGTCAAGCTCTGTCATCAAATGACTCAACCATCTAACAAAA
798611 ATTG
66 ATTG
*
798615 GGTGAAAAGGTCCTCTCTTTAGTAAA
1 GGTG-AAAGGTCCTCTCTTTAATAAA
798641 TTATCCAACT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
69 64 0.77
70 19 0.23
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (69 bp):
GGTGAAAGGTCCTCTCTTTAATAAAGTCAAGCTCTGTCATCAAATGACTCAACCATCTAACAAAA
ATTG
Found at i:799793 original size:29 final size:30
Alignment explanation
Indices: 799741--799827 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
799731 TACGTGGTTC
* *
799741 TACTTTTTGTAATTTTAAAATTTAGTCTTA-A
1 TACTTTTTAT-ATTTTAAAATTTAAT-TTACA
*
799772 TAC-TTTTAT-TTTTAGAAATTTAATTTACT
1 TACTTTTTATATTTTA-AAATTTAATTTACA
799801 TACTTTTTATATTTTAAAATTTAATTT
1 TACTTTTTATATTTTAAAATTTAATTT
799828 TAACTATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 8 0.16
29 11 0.22
30 22 0.45
31 8 0.16
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (30 bp):
TACTTTTTATATTTTAAAATTTAATTTACA
Found at i:809834 original size:24 final size:21
Alignment explanation
Indices: 809778--809827 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
809768 AAGCAAATTA
809778 GGACCAAAATCATCATTTTTG
1 GGACCAAAATCATCATTTTTG
809799 GGACCAAAATCATCATTTTTG
1 GGACCAAAATCATCATTTTTG
809820 GGACCAAA
1 GGACCAAA
809828 CAAATCACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (21 bp):
GGACCAAAATCATCATTTTTG
Found at i:815947 original size:78 final size:79
Alignment explanation
Indices: 815813--815965 Score: 272
Period size: 78 Copynumber: 1.9 Consensus size: 79
815803 GAGTCACATC
*
815813 TCATGTAACTGTAGTGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCA
1 TCATGTAACTGTAGTGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
815878 TAATGAATCATATA
66 TAATGAATCATATA
*
815892 TCATGTAACTGTAGTGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTGCCA
1 TCATGTAACTGTAGTGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
815956 TAGTGAATCA
66 TAATGAATCA
815966 AGAATAAATC
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 44 0.62
79 27 0.38
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (79 bp):
TCATGTAACTGTAGTGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
TAATGAATCATATA
Found at i:815997 original size:40 final size:40
Alignment explanation
Indices: 815930--816071 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
815920 CTTTTCAGGT
* * * *
815930 CAAATCCTATCCACCTTAAGTTGCCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
815970 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* ** **
816010 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
*
816050 CGAATCCTATCCACTTTAAATT
1 CAAATCCTATCCACTTTAAATT
816072 CTCGAGAAGG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:822562 original size:15 final size:15
Alignment explanation
Indices: 822542--822649 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
822532 TTTATGGAAA
822542 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
822557 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
822571 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
822587 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
822601 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
822617 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
822631 AGTCAAAGATATGTGT
1 A-TCAAAGATATGGGT
822647 ATC
1 ATC
822650 GAGATATTGG
Statistics
Matches: 66, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.65
16 11 0.17
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:822579 original size:30 final size:30
Alignment explanation
Indices: 822536--822659 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
822526 TCCATATTTA
* *
822536 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
822566 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
822596 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
822626 TGGAAAGTCAAAGATATGTGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
822657 TGG
1 TGG
822660 CATAATAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 79 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:824721 original size:20 final size:20
Alignment explanation
Indices: 824698--824751 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
824688 AGTTTTTCCC
*
824698 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
824718 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
824738 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
824752 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:824742 original size:30 final size:30
Alignment explanation
Indices: 824698--824771 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
824688 AGTTTTTCCC
824698 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
824728 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
824758 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
824772 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:824761 original size:20 final size:20
Alignment explanation
Indices: 824698--824762 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
824688 AGTTTTTCCC
* * * *
824698 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
824718 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
824737 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
824758 AGCTC
1 AGCTC
824763 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:828894 original size:15 final size:15
Alignment explanation
Indices: 828874--828951 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
828864 TTTATGGAAA
828874 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
828889 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
828903 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
828919 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
828933 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
828949 ATC
1 ATC
828952 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:828911 original size:30 final size:30
Alignment explanation
Indices: 828870--828951 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
828860 CATATTTATG
*
828870 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
828900 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
828930 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
828952 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:834240 original size:6 final size:6
Alignment explanation
Indices: 834229--834253 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
834219 AAGAAAAGAG
834229 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
834254 GAACACACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:841312 original size:19 final size:20
Alignment explanation
Indices: 841285--841327 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
841275 TCTTTTTGCA
* *
841285 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
841305 TTCA-TCATATGCATTAAAT
1 TTCATTCATATGCATTAAAT
841324 TTCA
1 TTCA
841328 CGAAAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:848559 original size:27 final size:29
Alignment explanation
Indices: 848518--848571 Score: 94
Period size: 27 Copynumber: 1.9 Consensus size: 29
848508 CAGGCACGAC
848518 TTTTTTAATATTAAAATATTATTTTTTTG
1 TTTTTTAATATTAAAATATTATTTTTTTG
848547 TTTTTTAA-A-TAAAATATTATTTTTT
1 TTTTTTAATATTAAAATATTATTTTTT
848572 ATTTTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.64
28 1 0.04
29 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTTTTAATATTAAAATATTATTTTTTTG
Found at i:848585 original size:25 final size:25
Alignment explanation
Indices: 848526--848589 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 25
848516 ACTTTTTTAA
848526 TATT-AAAATATTATTTTTTTGTTT
1 TATTAAAAATATTATTTTTTTGTTT
848550 T-TTAAATAAAATATTATTTTTTAT-TTT
1 TATT--A-AAAATATTATTTTTT-TGTTT
848577 TATTAAAAATATT
1 TATTAAAAATATT
848590 TAAATTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
23 2 0.06
24 1 0.03
25 8 0.24
26 1 0.03
27 19 0.56
28 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TATTAAAAATATTATTTTTTTGTTT
Found at i:848883 original size:3 final size:3
Alignment explanation
Indices: 848875--848903 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
848865 ATAAGCATGA
848875 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
848904 AGAAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:850004 original size:60 final size:60
Alignment explanation
Indices: 849917--850035 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
849907 TTGTTTTTTA
* * * * * *
849917 TAATAATTTTAAAATTAATTTGCTAGTAATTTAGAATTATGTTATTAATTTTTGTGTTTG
1 TAATAATTTTAAAAATAATTTACTAGTAATTTAGAATTACGTTATAAATTATTGCGTTTG
* * *
849977 TAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTACGTTATAAATTATTGCGTTT
1 TAATAATTTTAAAAATAATTTACTAGTAATTTAGAATTACGTTATAAATTATTGCGTTT
850036 AATTTAGTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (60 bp):
TAATAATTTTAAAAATAATTTACTAGTAATTTAGAATTACGTTATAAATTATTGCGTTTG
Found at i:850161 original size:28 final size:28
Alignment explanation
Indices: 850122--850199 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
850112 GGACAGATGT
*
850122 TTAAGCTCATTTAATTTTTTTAGGTTGTTG
1 TTAA-CTCATTTAATTTTTTTA-GTTGCTG
* * **
850152 TTAAGT-ATTTATATGTTAATAGTTGCTG
1 TTAACTCATTTA-ATTTTTTTAGTTGCTG
850180 TTAACTCATTTAATTTTTTT
1 TTAACTCATTTAATTTTTTT
850200 TTATGTCAAC
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
28 21 0.57
29 12 0.32
30 4 0.11
ACGTcount: A:0.24, C:0.06, G:0.13, T:0.56
Consensus pattern (28 bp):
TTAACTCATTTAATTTTTTTAGTTGCTG
Found at i:856094 original size:24 final size:23
Alignment explanation
Indices: 856062--856107 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
856052 TTTCCGTTCA
*
856062 ACTAAATTTTGTGTCTGTTGCTCT
1 ACTAAATTTTGTGTATG-TGCTCT
856086 ACTAAATTTTGTGTATGTGCTC
1 ACTAAATTTTGTGTATGTGCTC
856108 ATTTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (23 bp):
ACTAAATTTTGTGTATGTGCTCT
Found at i:856208 original size:27 final size:27
Alignment explanation
Indices: 856167--856246 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
856157 CCTGTGGGCC
856167 TTTGCGCCTCTGAGATAGGCACAACCA
1 TTTGCGCCTCTGAGATAGGCACAACCA
* * * *
856194 TTTGCGCCTCAGAGAAAGGCTCAACTA
1 TTTGCGCCTCTGAGATAGGCACAACCA
* * *
856221 GTCGCGCCTCTGAGATAGGCGCAACC
1 TTTGCGCCTCTGAGATAGGCACAACC
856247 TATATTCGTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (27 bp):
TTTGCGCCTCTGAGATAGGCACAACCA
Found at i:856318 original size:27 final size:27
Alignment explanation
Indices: 856282--856339 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
856272 TACTGATCCG
* *
856282 AAAATAAAAAAATAATATTTT-ATTTAA
1 AAAACAAAAAAA-AATATTTTAATATAA
856309 AAAACAAAAAAAAATATTTTAATATAA
1 AAAACAAAAAAAAATATTTTAATATAA
856336 AAAA
1 AAAA
856340 AGAGTCGCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAACAAAAAAAAATATTTTAATATAA
Found at i:857210 original size:479 final size:477
Alignment explanation
Indices: 856315--857272 Score: 1817
Period size: 479 Copynumber: 2.0 Consensus size: 477
856305 TTAAAAAACA
* *
856315 AAAAAAAATATTTTAATATAAAAAAAGAGTCGCGCCTATCAGATAGGCACGAATGAAAAAAATAA
1 AAAAAAAATATTTTAATATAAAAAAAGAGTCGCGCCTATCAGATAGACACGAATGAAAAAAACAA
856380 CCCATTTTGGTAAATAATCGGGCTGACAACTTATTTTGGTAAATAATTTTTTTAATTTATTTCAG
66 CCCATTTTGGTAAATAATCGGGCTGACAACTTATTTTGGTAAATAATTTTTTTAATTTATTTCAG
856445 TAAAAAACCCTCGTCGAGCCCATTGTCAGGGCCAATAGTGACGATACTCAAGGCATCTTTAACAG
131 TAAAAAACCCTCGTCGAGCCCATTGTCAGGGCCAATAGTGACGATACTCAAGGCATCTTTAACAG
*
856510 GGGTAAGCATTCAATCAAATCAAGTTGAATTGAGTGAAAATTTTTGAATTAATCGAGTTGATTAG
196 GGGTAAGCATTCAATCAAATCAAGTTGAATTGAGTAAAAATTTTTGAATTAATCGAGTTGATTAG
* *
856575 TCTTATTTTATCATCTTAACTTGATTTGAAATTTTTTCAAATCGAGTCGAGTGAATGAATTTTGA
261 TCTTATTTTATCATCCTAACTCGATTTGAAATTTTTTCAAATCGAGTCGAGTGAATGAATTTTGA
*
856640 GTTAAGTCAAATTAAGTGAAATTGTTCAAGTTAAATTAAAAAAATTAATCATTTCAAATTAAAAT
326 GTTAAGTCAAATTAAGTGAAATTGTTCAAGTTAAATTAAAAAAATTAATCATGTCAAATTAAAAT
856705 CTTGTTACATTATAACTAATTCCATGTTAGAGCACATAAATTTGAAAGCATATATGTAATTGAAA
391 CTTGTTACATTATAACTAATTCCATGTTAGAGCACATAAATTTGAAAGCATATATGTAATTGAAA
856770 ACTTTTTAGTATGATAAACTTG
456 ACTTTTTAGTATGATAAACTTG
856792 AAAAAAAATATTTTAATATAAAAAAAGAGTCGCGCCTATCAGATAGACACGAATGAAAAAAACAA
1 AAAAAAAATATTTTAATATAAAAAAAGAGTCGCGCCTATCAGATAGACACGAATGAAAAAAACAA
856857 CCCATTTTGGTAAATAATCGGGCTGACAACTTATTTTGGTAAATAATTTTTTTTAAATTTATTTC
66 CCCATTTTGGTAAATAATCGGGCTGACAACTTATTTTGGTAAATAA-TTTTTTT-AATTTATTTC
*
856922 AGTAAAAAACCCTCGTCGAGCCCATTGTTAGGGCCAATAGTGACGATACTCAAGGCATCTTTAAC
129 AGTAAAAAACCCTCGTCGAGCCCATTGTCAGGGCCAATAGTGACGATACTCAAGGCATCTTTAAC
*
856987 AGGGGTAAGCATTCAATCAAATTAAGTTGAATTGAGTAAAAATTTTTGAATTAATCGAGTTGATT
194 AGGGGTAAGCATTCAATCAAATCAAGTTGAATTGAGTAAAAATTTTTGAATTAATCGAGTTGATT
857052 AGTCTTATTTTATCATCCTAACTCGATTTGAAATTTTTTCAAATCGAGTCGAGTGAATGAATTTT
259 AGTCTTATTTTATCATCCTAACTCGATTTGAAATTTTTTCAAATCGAGTCGAGTGAATGAATTTT
857117 GAGTTAAGTCAAATTAAGTGAAATTGTTCAAGTTAAATTAAAAAAATTAATCATGTCAAATTAAA
324 GAGTTAAGTCAAATTAAGTGAAATTGTTCAAGTTAAATTAAAAAAATTAATCATGTCAAATTAAA
*
857182 ATCTTGTTACATTATAACTAATTCCATGTTAGAGCACATAAATTTGAAAGCATTTATGTAATTGA
389 ATCTTGTTACATTATAACTAATTCCATGTTAGAGCACATAAATTTGAAAGCATATATGTAATTGA
857247 AAACTTTTTAGTATGATAAACTTG
454 AAACTTTTTAGTATGATAAACTTG
857271 AA
1 AA
857273 TCATTAATTA
Statistics
Matches: 470, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
477 109 0.23
478 7 0.01
479 354 0.75
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (477 bp):
AAAAAAAATATTTTAATATAAAAAAAGAGTCGCGCCTATCAGATAGACACGAATGAAAAAAACAA
CCCATTTTGGTAAATAATCGGGCTGACAACTTATTTTGGTAAATAATTTTTTTAATTTATTTCAG
TAAAAAACCCTCGTCGAGCCCATTGTCAGGGCCAATAGTGACGATACTCAAGGCATCTTTAACAG
GGGTAAGCATTCAATCAAATCAAGTTGAATTGAGTAAAAATTTTTGAATTAATCGAGTTGATTAG
TCTTATTTTATCATCCTAACTCGATTTGAAATTTTTTCAAATCGAGTCGAGTGAATGAATTTTGA
GTTAAGTCAAATTAAGTGAAATTGTTCAAGTTAAATTAAAAAAATTAATCATGTCAAATTAAAAT
CTTGTTACATTATAACTAATTCCATGTTAGAGCACATAAATTTGAAAGCATATATGTAATTGAAA
ACTTTTTAGTATGATAAACTTG
Found at i:857958 original size:17 final size:18
Alignment explanation
Indices: 857936--857993 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
857926 ATTTAATTAC
857936 ATAAAA-TATAAAATATT
1 ATAAAACTATAAAATATT
*
857953 ATAAAATTATAAAATTATT
1 ATAAAACTATAAAA-TATT
* *
857972 AAAAAACTAATAAAATTTT
1 ATAAAACT-ATAAAATATT
857991 ATA
1 ATA
857994 CAACACAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 7 0.21
19 15 0.44
20 6 0.18
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAACTATAAAATATT
Found at i:858662 original size:9 final size:9
Alignment explanation
Indices: 858632--858663 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
858622 TTGATTGTGC
858632 TCAGATTTG
1 TCAGATTTG
*
858641 TCAAATTTG
1 TCAGATTTG
858650 TCAGATTTG
1 TCAGATTTG
858659 TCAGA
1 TCAGA
858664 CTTTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (9 bp):
TCAGATTTG
Found at i:864093 original size:73 final size:73
Alignment explanation
Indices: 864011--864196 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
864001 ACAACTTGAC
864011 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
864076 CACTAACA
66 CACTAACA
864084 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
864149 CACTAACA
66 CACTAACA
*
864157 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
864197 AATAATAATA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:864205 original size:3 final size:3
Alignment explanation
Indices: 864197--864222 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
864187 ATTACATCCA
864197 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
864223 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:868560 original size:3 final size:3
Alignment explanation
Indices: 868552--868592 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
868542 ATTACATCCA
868552 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
868593 AACATGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:871658 original size:68 final size:68
Alignment explanation
Indices: 871547--871840 Score: 374
Period size: 68 Copynumber: 4.3 Consensus size: 68
871537 AATCTACTCT
* *** * * * *
871547 GTTGAAACTTAAAGGAGATCCATTGTGGCTT-TGAGCCGATCCAATGTCGTTTCAGGGAGAAGAG
1 GTTGAAACTTCAAGGAGATCTGCTGTGGCTTCT-AGCCGCTCCAACGCCATTTCAGGGAGAAGAG
871611 ATCC
65 ATCC
* * **
871615 GTTGAAACTTTAAGGAGATCTGCTGTGGCTTCTAGCTGCTCCAACGCCATTTCAGACAGAAGAGA
1 GTTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGA
871680 TCC
66 TCC
* * *
871683 GTTGAAACTTTAAGGAGATCTACTGTGGCTTCTAGCCGCTCCAACTCCATTTCAGGGAGAAGAGA
1 GTTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGA
871748 TCC
66 TCC
* * * *
871751 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGGGA
1 GTTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGA
871816 TCC
66 TCC
* * *
871819 GCTAAAACTTCAAGAAGATCTG
1 GTTGAAACTTCAAGGAGATCTG
871841 ACTTGTAATT
Statistics
Matches: 200, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 199 1.00
69 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (68 bp):
GTTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGA
TCC
Found at i:872048 original size:78 final size:75
Alignment explanation
Indices: 871966--872388 Score: 326
Period size: 78 Copynumber: 5.4 Consensus size: 75
871956 AAACTGACGT
* * * * * *
871966 TCAACTCATCTCTCGTATTATGAGTTAATTTTTGAAAAAAGTGAAAAATTGAAAACATCTCAGTA
1 TCAACTCACCTCTCGTAATATGAGTTAATTTTTG-AAAAA-T-AAAAACTAAAAACACCTCAGCA
872031 TGTGACCTGAGGC
63 TGTGACCTGAGGC
* * * *
872044 TCAACTCACCTCTTGTAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAACACCTCAGCGT
1 TCAACTCACCTCTCGTAATATGAGTT-A-ATTTTTGAAAAATAAAAACTAAAAACACCTCAGCAT
872109 GTGACCTGAGGC
64 GTGACCTGAGGC
* * * * *
872121 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAATAGAAACTAAAGATACCTCAGC
1 TCAACTCACCTCTCGTAATATGAGTT-A---ATTTTTGAAAAATAAAAACTAAAAACACCTCAGC
* *
872186 GTGTGA-CTCGAGGT
62 ATGTGACCT-GAGGC
* * **** * * * * * **
872200 TCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTTTGAATCAGAAATTGAAAATACCTTAGTG
1 TCAACTCACCTCTCGTAATATGAGTT-AA-TTTTTGAAAAAT-AAAAACTAAAAACACCTCAGCA
* **
872265 CGTGATTTGAGGC
63 TGTGACCTGAGGC
* * * * * *
872278 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAATAAGAACTAAAGATACCTCAGCG
1 TCAACTCACCTCTCGTAATATGAGTT-A-ATTTTTG-AAAAATAAAAACTAAAAACACCTCAGCA
*
872343 TGTGACCCGAGGC
63 TGTGACCTGAGGC
*
872356 TCAACTCACCTCTCGCAATATGAGTTAATTTTT
1 TCAACTCACCTCTCGTAATATGAGTTAATTTTT
872389 TTTAAAACAG
Statistics
Matches: 288, Mismatches: 47, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
76 5 0.02
77 64 0.22
78 133 0.46
79 80 0.28
80 6 0.02
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
TCAACTCACCTCTCGTAATATGAGTTAATTTTTGAAAAATAAAAACTAAAAACACCTCAGCATGT
GACCTGAGGC
Found at i:872204 original size:79 final size:78
Alignment explanation
Indices: 872031--872391 Score: 452
Period size: 78 Copynumber: 4.6 Consensus size: 78
872021 CATCTCAGTA
* *
872031 TGTGACCTGAGGCTCAACTCACCTCTTGTAATATGAGTTGA--TTTTTTTGAAAAATAGAAACTA
1 TGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAATAGAAACTA
* *
872094 AAAACACCTCAGCG
65 AAGATACCTCAGCG
872108 TGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAATAGAAACTA
1 TGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAATAGAAACTA
872173 AAGATACCTCAGCG
65 AAGATACCTCAGCG
* * *
872187 TGTGACTCGAGGTTCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTTTG---AATCAGAAAT
1 TGTGAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTTTGAAAAAT-AGAAAC
* *
872249 TGAAA-ATACCTTAGTG
63 T-AAAGATACCTCAGCG
* **
872265 CGTGATTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAAATA-AGAAC
1 TGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTG-AAAAATAGA-AAC
872327 TAAAGATACCTCAGCG
63 TAAAGATACCTCAGCG
*
872343 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTT
1 TGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
872392 AAAACAGAAA
Statistics
Matches: 247, Mismatches: 22, Indels: 27
0.83 0.07 0.09
Matches are distributed among these distances:
75 8 0.03
77 47 0.19
78 98 0.40
79 76 0.31
80 18 0.07
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (78 bp):
TGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAATAGAAACTAA
AGATACCTCAGCG
Found at i:882754 original size:17 final size:17
Alignment explanation
Indices: 882732--882819 Score: 65
Period size: 18 Copynumber: 4.8 Consensus size: 17
882722 TATAGTACCT
882732 AAAATATAATAATAATG
1 AAAATATAATAATAATG
882749 AAAATATAAATAGATAA-G
1 AAAATAT-AATA-ATAATG
*
882767 AAATATAATAGATGAGTAATAAG
1 AAA-AT-ATA-AT-AATAAT--G
882790 AAAATA-AAT-ATAGATG
1 AAAATATAATAATA-ATG
882806 AAAATATAATAATA
1 AAAATATAATAATA
882820 GTCATAATAC
Statistics
Matches: 57, Mismatches: 2, Indels: 23
0.70 0.02 0.28
Matches are distributed among these distances:
16 7 0.12
17 12 0.21
18 13 0.23
19 9 0.16
20 8 0.14
21 2 0.04
22 2 0.04
23 4 0.07
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (17 bp):
AAAATATAATAATAATG
Found at i:882787 original size:16 final size:17
Alignment explanation
Indices: 882733--882779 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
882723 ATAGTACCTA
882733 AAATAT-AATA-ATAATG
1 AAATATAAATAGATAA-G
882749 AAAATATAAATAGATAAG
1 -AAATATAAATAGATAAG
882767 AAATAT-AATAGAT
1 AAATATAAATAGAT
882780 GAGTAATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.25
17 12 0.43
18 5 0.18
19 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (17 bp):
AAATATAAATAGATAAG
Found at i:882819 original size:3 final size:3
Alignment explanation
Indices: 882811--883300 Score: 118
Period size: 3 Copynumber: 165.7 Consensus size: 3
882801 AGATGAAAAT
* * * * * * * *
882811 ATA ATA ATA GTC ATA AT- ACA ATA GTA ATA GTA ATT ACA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** *
882858 ATA GTA ATA AAA ATA A-G ATA ATA ATA ATA ACA ATA ATA ATA ACC GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
882905 GTA GTG ATA AAA AT- ATA ATA GTA ATA ATA ATG ATA ATAA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * ** ** * **
882949 GTA ATT ATA ATA ATA GTA A-A A-A AGG ATA ATA AGG ATA GTA GCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** * * *
882995 ATA ATG GTA AGA ACG ATA ATAA ATA ATA GTA GTAA ATA ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA
* * *
883042 ATA ATA ATA GTA ATA ATA ATA ATGA A-A ATA GTGA A-A ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT-A ATA ATA ATA ATA
* * * * * *
883087 GTA AT- ATA ATA GTA ATA ATA ACA ATA ATG GTA ATA AAA ATA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
883132 ATA AAA ATA ATG GTA ACA A-A ATA A-A ATTA ATG AT- GTA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * *
883174 GTA ATA ATTA ACA ATA ATA A-A ATA AGT- ATGA AGA GAAA AT- ATA ATC
1 ATA ATA A-TA ATA ATA ATA ATA ATA A-TA AT-A ATA -ATA ATA ATA ATA
* * * * * * * *
883220 ATA ATA ATA ATA GTT GTA GTA ATA ATA ATA ATA AGA AGA AGA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
883268 ATA ATA ATGA AT- ATAA ATA ATA GTA AAA ATA AT
1 ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA AT
883301 GAAATTAACT
Statistics
Matches: 342, Mismatches: 116, Indels: 58
0.66 0.22 0.11
Matches are distributed among these distances:
2 32 0.09
3 285 0.83
4 25 0.07
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:882828 original size:41 final size:41
Alignment explanation
Indices: 882740--882816 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
882730 CTAAAATATA
*
882740 ATAATAATGAAAATATAAATAGATAAGAAATATAATAGATG
1 ATAATAATGAAAATATAAATAGATAAGAAATATAATAGATC
*
882781 AGTAATAA-GAAAATA-AATATAGATGA-AAATATAATA
1 A-TAATAATGAAAATATAA-ATAGATAAGAAATATAATA
882817 ATAGTCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
40 12 0.36
41 15 0.45
42 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (41 bp):
ATAATAATGAAAATATAAATAGATAAGAAATATAATAGATC
Found at i:882856 original size:41 final size:41
Alignment explanation
Indices: 882806--882899 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
882796 AATATAGATG
* * *
882806 AAAATATAATAATAGTCATAATACAAT-AG-TAATAGTAATTAC
1 AAAA-ATAATAATAGTAATAA-A-AATAAGATAATAATAATAAC
882848 AAAAATAATAATAGTAATAAAAATAAGATAATAATAATAAC
1 AAAAATAATAATAGTAATAAAAATAAGATAATAATAATAAC
*
882889 AATAATAATAA
1 AAAAATAATAA
882900 CCGTAGTAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 3 0.07
40 3 0.07
41 36 0.78
42 4 0.09
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (41 bp):
AAAAATAATAATAGTAATAAAAATAAGATAATAATAATAAC
Found at i:882880 original size:20 final size:20
Alignment explanation
Indices: 882855--882893 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
882845 TACAAAAATA
*
882855 ATAATAGTAATAAAAATAAG
1 ATAATAATAATAAAAATAAG
*
882875 ATAATAATAATAACAATAA
1 ATAATAATAATAAAAATAA
882894 TAATAACCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAATAATAATAAAAATAAG
Found at i:883143 original size:28 final size:27
Alignment explanation
Indices: 883080--883157 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
883070 TAGTGAAAAT
* * *
883080 AATAATGGTAATATAATAGTAATAATAAC
1 AATAATGGTAATAAAATA--AAAAATAAA
883109 AATAATGGTAATAAAAATAAAAAATAAA
1 AATAATGGTAAT-AAAATAAAAAATAAA
*
883137 AATAATGGTAACAAAATAAAA
1 AATAATGGTAATAAAATAAAA
883158 TTAATGATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.20
28 18 0.41
29 12 0.27
30 5 0.11
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (27 bp):
AATAATGGTAATAAAATAAAAAATAAA
Found at i:888244 original size:46 final size:46
Alignment explanation
Indices: 888177--888281 Score: 165
Period size: 46 Copynumber: 2.3 Consensus size: 46
888167 ACAAATAGGG
* * *
888177 AGAAAGAACAATGCCTTAAGTAGAGAATGGTAAATGTGGGATGATT
1 AGAAAGAACAATGCCTTAAGTAGAGAATAGCAAATGTGAGATGATT
888223 AGAAAGAACAATGCCTTAAGTAGAGAATAGCAAATGTGAGATGATT
1 AGAAAGAACAATGCCTTAAGTAGAGAATAGCAAATGTGAGATGATT
* *
888269 AGAATGAGCAATG
1 AGAAAGAACAATG
888282 GTTAGGCCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.44, C:0.08, G:0.27, T:0.22
Consensus pattern (46 bp):
AGAAAGAACAATGCCTTAAGTAGAGAATAGCAAATGTGAGATGATT
Found at i:891674 original size:12 final size:12
Alignment explanation
Indices: 891657--891681 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
891647 CTTTTTCATC
891657 TATTTTCTTTAT
1 TATTTTCTTTAT
891669 TATTTTCTTTAT
1 TATTTTCTTTAT
891681 T
1 T
891682 GTTCTAATAT
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTCTTTAT
Found at i:891715 original size:17 final size:17
Alignment explanation
Indices: 891669--891718 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
891659 TTTTCTTTAT
* *
891669 TATTTTCTTTATTGTTC
1 TATTTTATTTATTATTC
891686 TAATATTTAATTTATTATTC
1 T-AT-TTT-ATTTATTATTC
891706 TATTTTATTTATT
1 TATTTTATTTATT
891719 TTAATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 8 0.29
18 5 0.18
19 5 0.18
20 10 0.36
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (17 bp):
TATTTTATTTATTATTC
Found at i:894018 original size:23 final size:23
Alignment explanation
Indices: 893990--894083 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
893980 ATGTGTGTAT
* *
893990 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
894013 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
894036 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
894059 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
894082 CT
1 CT
894084 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:898524 original size:23 final size:23
Alignment explanation
Indices: 898496--898589 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
898486 ATGTGTGTAT
* *
898496 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
898519 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
898542 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
898565 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
898588 CT
1 CT
898590 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:902059 original size:43 final size:43
Alignment explanation
Indices: 901980--902217 Score: 223
Period size: 43 Copynumber: 5.6 Consensus size: 43
901970 TTATTCGAAA
* * * * * *
901980 AAACACCGCTATAGAACATGATCTTTAGCGGGGCTTTACCCAA
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
* * * *
902023 AAATGCCACAATAGAACATGACATTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
* * **
902066 AAACGCCGCTATAAAACATGACCTATAGTGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
* * *
902109 AAACGCCGTTATAGAACATAACCTTTAATGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
* * * * * *
902152 AAACACCGCTATAGAACGTGACC--T--CGACGCTTTTACTAA
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
* *
902191 AAACGCCGCTATAGAACGTGAGCTTTA
1 AAACGCCGCTATAGAACATGACCTTTA
902218 GTGGCTCTTT
Statistics
Matches: 158, Mismatches: 34, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
39 31 0.20
41 2 0.01
43 125 0.79
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
Found at i:904617 original size:22 final size:23
Alignment explanation
Indices: 904572--904619 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
904562 ACAACGTACT
*
904572 AACCATTAAACCATAAACCCTAA
1 AACCATTAAACCAGAAACCCTAA
* *
904595 AACCA-TAAACCAGAGACCTTAA
1 AACCATTAAACCAGAAACCCTAA
904617 AAC
1 AAC
904620 TTAAACATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.52, C:0.29, G:0.04, T:0.15
Consensus pattern (23 bp):
AACCATTAAACCAGAAACCCTAA
Found at i:908341 original size:19 final size:19
Alignment explanation
Indices: 908295--908349 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
908285 CCACTAAATT
*
908295 AACAG-CCCACTAACCCATC
1 AACAGACCCACT-ACCCAAC
908314 AA-A-ACCCACTACCCAAC
1 AACAGACCCACTACCCAAC
908331 AACAGACCCACTACCCAAC
1 AACAGACCCACTACCCAAC
908350 TGACTCTAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 8 0.25
18 8 0.25
19 16 0.50
ACGTcount: A:0.42, C:0.47, G:0.04, T:0.07
Consensus pattern (19 bp):
AACAGACCCACTACCCAAC
Found at i:909514 original size:14 final size:14
Alignment explanation
Indices: 909476--909517 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
909466 TTTAGTTATT
*
909476 TTATTATTTAAGT-
1 TTATTATTTTAGTA
* *
909489 TAATTATCTTAGTA
1 TTATTATTTTAGTA
909503 TTATTATTTTAGTA
1 TTATTATTTTAGTA
909517 T
1 T
909518 CTAATATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (14 bp):
TTATTATTTTAGTA
Found at i:909730 original size:21 final size:22
Alignment explanation
Indices: 909700--909741 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
909690 GTTAACTTTC
*
909700 TATAGCATATTTTACTATTATA
1 TATAGCATATATTACTATTATA
*
909722 TATA-CATATATTATTATTAT
1 TATAGCATATATTACTATTAT
909742 GTACATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAGCATATATTACTATTATA
Found at i:924027 original size:19 final size:20
Alignment explanation
Indices: 924005--924045 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
923995 ATAGGTTAAT
*
924005 AATAAAATAAA-GAAAATGA
1 AATAAAATAAATGAAAAAGA
924024 AATAAAATAAATGAAAAAGA
1 AATAAAATAAATGAAAAAGA
924044 AA
1 AA
924046 AACAAAGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (20 bp):
AATAAAATAAATGAAAAAGA
Found at i:924093 original size:4 final size:4
Alignment explanation
Indices: 924084--924117 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
924074 AGAACAGGGG
*
924084 AGAA AGAA AGGAA AGAA AGAA AGAA AGAG AGAA A
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA A
924118 AGGAAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Done.