Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 111 of 208
Found at i:33510560 original size:16 final size:16
Alignment explanation
Indices: 33510539--33510582 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
33510529 AGTCAAACAA
33510539 AAAAATGAAAAAAATG
1 AAAAATGAAAAAAATG
33510555 AAAAATGAAAAAAATG
1 AAAAATGAAAAAAATG
*
33510571 AAAAATTAAAAA
1 AAAAATGAAAAA
33510583 TGGAGAGGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAAATGAAAAAAATG
Found at i:33511939 original size:45 final size:45
Alignment explanation
Indices: 33511801--33511939 Score: 156
Period size: 45 Copynumber: 3.1 Consensus size: 45
33511791 ACAGATCAAT
* * * *
33511801 GAAGATAGCAGATCATGCCTTCCTGTACTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * ** *
33511846 GAAGACACCAG-CCTTGTTTTCCTGTACTGACAGCGGAGCAGAAT-
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG-ATC
*
33511890 GAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
33511935 GAAGA
1 GAAGA
33511940 AACCATAGTT
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
44 32 0.43
45 42 0.57
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
Found at i:33512024 original size:50 final size:50
Alignment explanation
Indices: 33511961--33513547 Score: 1623
Period size: 50 Copynumber: 31.9 Consensus size: 50
33511951 GCAATTAAAA
* *
33511961 AGATTGAAGCTACAATAGCGGATCTTACTTTCCT-AGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* ** *
33512011 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* * *
33512061 AGATTGAAGCTACAACAACGGATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * ** *
33512111 AGATTGAAGCTACAACAACGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* * * *
33512161 AGATTGAAGCTACAACAACGGATCTTACTTTCCT-AGCGTTACAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * * ** *
33512211 AGATAGAAGTTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* * * * *
33512261 AGATTGAAGCTACAACAGTGGATCTTACGTCCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * * *
33512311 AGATAGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAA-C
* *
33512361 AGATTGAAGCTAC-ACAGCGGATC-TACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * * *
33512409 AGA-TAAAGCTAC-ACAGCGGATC-TAC-TCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAA-C
* * ** * *
33512455 AGATTGAAGGTACAACAGTGGATCTTACTTTCCT-AGTGTTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * *
33512505 AGATTGAAGCAACAACAGCAGATCTTACTTTCCTGACATTGCAAT-TAA-
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* * * *
33512553 AAATATGAAGCTACAACAACGGATCTTACTTTCCT-AGCATTGCAGTAGAAC
1 AGAT-TGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * *
33512604 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAA-C
* * * *
33512654 AGATTGAAGCTACAACAACGGATCTTACTTT-CTTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * * ** *
33512704 AGATTAAAGCTACAAGAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* * * *
33512754 AGATTGAAGCTACAATAGCGGATCTTACTTTCCT-AGCGTTGCAGTAGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * *
33512804 AGATTGAAGCTACAACAGTGGATCTTACTTTCCTGACATTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAA-C
* *
33512854 AGATTGAAGCTACAACAGCGAATCTTACTTTCCT-AGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * *
33512904 AGATTGAAGCTACAACAGCGGATCTTA-TTTCCCTGACGTTGCAGTAGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTT-CCTGACATTGCAATGGAAC
* * *
33512954 AGATTGAAGCTACAACAGCGGATCTTA-TTTCCCTGACAGTGCAAT-TAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTT-CCTGACATTGCAATGGAA-C
* * *
33513004 AGATTGAAGCTACAACAGCGAATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* ** *
33513054 AGATTGAAGCTACAACAGCAGATCTTACTTTCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* *
33513104 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* ** *
33513154 AGATTGAAGCTACAACAGCAGATCTTACTTTCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* * *
33513204 AGATTGAAGCTACAATAGCGGATCTTACTTTCCT-AGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGA-CATTGCAATGGAAC
* * ** *
33513254 AGATTGAAGCTACAACAACGGATCTTACTTCCCTGACATTGCAATTAAAG
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
** * * ** *
33513304 AGATTGAAGCTACAACAATGGGTCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* * ** *
33513354 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGTAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
* * ** *
33513404 AGATTGAAGCTACAACAACGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
*
33513454 AGATTGAAGCTACAACAGCGGATCTTAC-TTCCTAGGCGA-TGCAATGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCT-GAC-ATTGCAATGGAAC
* * ** * * *
33513504 ATATTGAAGCTACAACGGCAAATCTCACTTCCCCGACATTGCAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAA
33513548 CTCAAAAGAT
Statistics
Matches: 1287, Mismatches: 202, Indels: 96
0.81 0.13 0.06
Matches are distributed among these distances:
45 2 0.00
46 14 0.01
47 30 0.02
48 31 0.02
49 80 0.06
50 1098 0.85
51 32 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCTGACATTGCAATGGAAC
Found at i:33512075 original size:100 final size:100
Alignment explanation
Indices: 33511949--33513762 Score: 2051
Period size: 100 Copynumber: 18.2 Consensus size: 100
33511939 AAACCATAGT
*
33511949 TTGCAATTAAAAAGATTGAAGCTACAATAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
33512014 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* *
33512049 TTGCAATTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
*
33512114 TTGAAGCTACAACAACGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
33512149 TTGCAATTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGCGTTACAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
* *
33512214 TAGAAGTTACAACAGCGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * *
33512249 TTGCAATTAAAAAGATTGAAGCTACAACAGTGGATCTTACGTCCCTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
*
33512314 TAGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* *
33512349 TTGCAATTAAGAAGATTGAAGCTAC-ACAGCGGATC-TACTTTCCTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
*
33512412 -TAAAGCTAC-ACAGCGGATC-TAC-TCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * ** *
33512443 TTGCAATTAAGAAGATTGAAGGTACAACAGTGGATCTTACTTTCCTAGTGTTGTAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
* * *
33512508 TTGAAGCAACAACAGCAGATCTTACTTTCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
33512543 TTGCAATTAAAAATA-TGAAGCTACAACAACGGATCTTACTTTCCTAGCATTGCAGTAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
33512607 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * *
33512642 TTGCAATTAAGAAGATTGAAGCTACAACAACGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
* *
33512707 TTAAAGCTACAAGAGCGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * *
33512742 TTGCAATTAAAAAGATTGAAGCTACAATAGCGGATCTTACTTTCCTAGCGTTGCAGTAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
* *
33512807 TTGAAGCTACAACAGTGGATCTTACTTTCCTGACA
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* *
33512842 TTGCAATTAAGAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
* *
33512907 TTGAAGCTACAACAGCGGATCTTATTTCCCTGACG
66 TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * *
33512942 TTGC-AGTAGAACAGATTGAAGCTACAACAGCGGATCTTA-TTTCCCT-GACAGTGCAAT-TAAG
1 TTGCAATTA-AAAAGATTGAAGCTACAACAGCGGATCTTACTTT-CCTAG-CATTGCAGTGGAA-
* * * *
33513003 AAGATTGAAGCTACAACAGCGAATCTTACTTTCCT-AGCG
62 CAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CA
* ** * * * ** *
33513042 TTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTTACTTTCCT-GACATTGCAATTAAAAAG
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAACAG
* *
33513106 ATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCG
65 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CA
* ** * * * ** *
33513142 TTGCAGTGGAACAGATTGAAGCTACAACAGCAGATCTTACTTTCCT-GACATTGCAATTAAAAAG
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAACAG
* * *
33513206 ATTGAAGCTACAATAGCGGATCTTACTTTCCT-AGCG
65 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGA-CA
* ** * * * * ** *
33513242 TTGCAGTGGAACAGATTGAAGCTACAACAACGGATCTTACTTCCCT-GACATTGCAATTAAAGAG
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAACAG
** *
33513306 ATTGAAGCTACAACAATGGGTCTTACTTCCCTGACA
65 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * ** *
33513342 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACATTGTAATTAAAAAG
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGGAACAG
*
33513406 ATTGAAGCTACAACAACGGATCTTACTTCCCTGACA
65 ATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
*
33513442 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTAC-TTCCTAGGCGA-TGCAATGGAACA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GC-ATTGCAGTGGAACA
* * ** * *
33513505 TATTGAAGCTACAACGGCAAATCTCACTTCCCCGACA
64 GATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* * * * ** ** * *
33513542 TTGCAACTCAAAAGATTAAAGCCACAATGGCAAATCTTAC-TTCCCAGGCGA-TGCAGCGGAACA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GC-ATTGCAGTGGAACA
* * *** **
33513605 GATTGAAGCTACGACGGTAAATCTCGCTT-CCTCGACA
64 GATTGAAGCTACAACAGCGGATCTTACTTCCCT-GACA
* * ** * * *
33513642 TTGCAACTCAAAAGATTGAAG-TCACAATGGCGAATCTTAC-TTCCCAGGCGA-TGCAGCGGAAC
1 TTGCAATTAAAAAGATTGAAGCT-ACAACAGCGGATCTTACTTTCCTA-GC-ATTGCAGTGGAAC
* * * * ** *
33513704 AGATTGAAGCTACGACGGTGAATCTCGCTTCCCCGACA
63 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
* *
33513742 TTGCAACTCAAAAGATTGAAG
1 TTGCAATTAAAAAGATTGAAG
33513763 TCACAATGGC
Statistics
Matches: 1555, Mismatches: 137, Indels: 44
0.90 0.08 0.03
Matches are distributed among these distances:
94 33 0.02
95 12 0.01
96 36 0.02
97 14 0.01
98 35 0.02
99 115 0.07
100 1300 0.84
101 10 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGA
TTGAAGCTACAACAGCGGATCTTACTTCCCTGACA
Found at i:33513574 original size:50 final size:50
Alignment explanation
Indices: 33513330--33513774 Score: 250
Period size: 50 Copynumber: 8.9 Consensus size: 50
33513320 AATGGGTCTT
* * * * * ** *
33513330 ACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTT
1 ACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAACGGCAAATCTC
* * * * * ** ** *
33513380 ACTTCCCTGACATTGTAATTAAAAAGATTGAAGCTACAACAACGGATCTT
1 ACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAACGGCAAATCTC
* * * * * ** *
33513430 ACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTT
1 ACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAACGGCAAATCTC
** * * * * *
33513480 ACTTCCTAGGCGA-TGCAA-TGGAACATATTGAAGCTACAACGGCAAATCTC
1 ACTTCCCCGAC-ATTGCAACT-CAAAAGATTGAAGCCACAACGGCAAATCTC
* * *
33513530 ACTTCCCCGACATTGCAACTCAAAAGATTAAAGCCACAATGGCAAATCTT
1 ACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAACGGCAAATCTC
* * * ** * * * *
33513580 ACTTCCCAGGCGA-TGCAGCGGAACAGATTGAAGCTACGACGGTAAATCTC
1 ACTTCCCCGAC-ATTGCAACTCAAAAGATTGAAGCCACAACGGCAAATCTC
* * * * * *
33513630 GCTTCCTCGACATTGCAACTCAAAAGATTGAAGTCACAATGGCGAATCTT
1 ACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAACGGCAAATCTC
* * * ** * * * **
33513680 ACTTCCCAGGCGA-TGCAGCGGAACAGATTGAAGCTACGACGGTGAATCTC
1 ACTTCCCCGAC-ATTGCAACTCAAAAGATTGAAGCCACAACGGCAAATCTC
* * *
33513730 GCTTCCCCGACATTGCAACTCAAAAGATTGAAGTCACAATGGCAA
1 ACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAACGGCAA
33513775 GTCCTACTTC
Statistics
Matches: 309, Mismatches: 78, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
49 4 0.01
50 301 0.97
51 4 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
ACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAACGGCAAATCTC
Found at i:33513763 original size:100 final size:100
Alignment explanation
Indices: 33513431--33513825 Score: 560
Period size: 100 Copynumber: 4.0 Consensus size: 100
33513421 ACGGATCTTA
* * * ** * *
33513431 CTTCCCTGACATTGCAATTAAAAAGATTGAAG-CTACAACAGCGGATCTTACTTCCTAGGCGATG
1 CTTCCCCGACATTGCAACTCAAAAGATTGAAGTC-ACAATGGCGAATCTTACTTCCCAGGCGATG
** * * * *
33513495 CAATGGAACATATTGAAGCTACAACGGCAAATCTCA
65 CAGCGGAACAGATTGAAGCTACGACGGTAAATCTCG
* * *
33513531 CTTCCCCGACATTGCAACTCAAAAGATTAAAGCCACAATGGCAAATCTTACTTCCCAGGCGATGC
1 CTTCCCCGACATTGCAACTCAAAAGATTGAAGTCACAATGGCGAATCTTACTTCCCAGGCGATGC
33513596 AGCGGAACAGATTGAAGCTACGACGGTAAATCTCG
66 AGCGGAACAGATTGAAGCTACGACGGTAAATCTCG
*
33513631 CTTCCTCGACATTGCAACTCAAAAGATTGAAGTCACAATGGCGAATCTTACTTCCCAGGCGATGC
1 CTTCCCCGACATTGCAACTCAAAAGATTGAAGTCACAATGGCGAATCTTACTTCCCAGGCGATGC
*
33513696 AGCGGAACAGATTGAAGCTACGACGGTGAATCTCG
66 AGCGGAACAGATTGAAGCTACGACGGTAAATCTCG
* *
33513731 CTTCCCCGACATTGCAACTCAAAAGATTGAAGTCACAATGGC-AAGTCCTACTTCCCAGGCAATG
1 CTTCCCCGACATTGCAACTCAAAAGATTGAAGTCACAATGGCGAA-TCTTACTTCCCAGGCGATG
* *
33513795 CAGCGGAACAGATTGAAACTACGACGTTAAA
65 CAGCGGAACAGATTGAAGCTACGACGGTAAA
33513826 CAGACAGAAA
Statistics
Matches: 267, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
99 2 0.01
100 264 0.99
101 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (100 bp):
CTTCCCCGACATTGCAACTCAAAAGATTGAAGTCACAATGGCGAATCTTACTTCCCAGGCGATGC
AGCGGAACAGATTGAAGCTACGACGGTAAATCTCG
Found at i:33513808 original size:50 final size:48
Alignment explanation
Indices: 33513554--33513811 Score: 144
Period size: 50 Copynumber: 5.2 Consensus size: 48
33513544 GCAACTCAAA
* * *
33513554 AGATTAAAGCCACAATGGCAAATCTTACTTCCCAGGCGATGCAGCGGAAC
1 AGATTGAAG-CACAATGGC-AATCCTACTTCCCAGGCAATGCAGCGGAAC
* * * * * * * ** *
33513604 AGATTGAAGCTACGACGGTAAAT-CTCGCTTCCTC-GACATTGCAACTCAAA
1 AGATTGAAGC-ACAATGG-CAATCCT-ACTTCC-CAGGCAATGCAGCGGAAC
* *
33513654 AGATTGAAGTCACAATGGCGAATCTTACTTCCCAGGCGATGCAGCGGAAC
1 AGATTGAAG-CACAATGGC-AATCCTACTTCCCAGGCAATGCAGCGGAAC
* * * * * * * * ** *
33513704 AGATTGAAGCTACGACGGTGAAT-CTCGCTTCCCCGACATTGCAACTCAAA
1 AGATTGAAGC-ACAATGG-CAATCCT-ACTTCCCAGGCAATGCAGCGGAAC
33513754 AGATTGAAGTCACAATGGCAAGTCCTACTTCCCAGGCAATGCAGCGGAAC
1 AGATTGAAG-CACAATGGCAA-TCCTACTTCCCAGGCAATGCAGCGGAAC
33513804 AGATTGAA
1 AGATTGAA
33513812 ACTACGACGT
Statistics
Matches: 145, Mismatches: 49, Indels: 28
0.65 0.22 0.13
Matches are distributed among these distances:
49 7 0.05
50 132 0.91
51 6 0.04
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (48 bp):
AGATTGAAGCACAATGGCAATCCTACTTCCCAGGCAATGCAGCGGAAC
Found at i:33514065 original size:89 final size:88
Alignment explanation
Indices: 33513838--33514118 Score: 258
Period size: 85 Copynumber: 3.2 Consensus size: 88
33513828 GACAGAAAAA
* *
33513838 ACCAATCCTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACCACAGATCTCATCTCTCTGAA
1 ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGGATTAAAACCACAAATCTTATCTCTCTGAA
* *
33513902 GTTGCAGTAGAGCAGATCATATT
66 GTTGCAGTAGAACAGATCATAAT
* * * * * ** * * *
33513925 A--AA-CTTCATCTGCCTGAAGTTGCAGTGGGGTATG-TTGAAATTACGAGTCTTAT-TCCCCTG
1 ACCAATCCT-ATCTCCCTGAAGTTGCAGTGGAGTAGGATTAAAACCACAAATCTTATCT-CTCTG
* *
33513985 AAGTTGCAGTGGAACAGACTGA-AGAT
64 AAGTTGCAGTAGAACAGA-TCATA-AT
33514011 AGCCAATCCTATCTCCCTGAAGTTGCAGTGGAGTA-GATTAAAACCACAAATCTTATCTCTCTGA
1 A-CCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGGATTAAAACCACAAATCTTATCTCTCTGA
* **
33514075 AGTTGCAGTAGAGCAGATC-GCAT
65 AGTTGCAGTAGAACAGATCATAAT
* *
33514098 -CCAGTCTTATCTCCCTGAAGT
1 ACCAATCCTATCTCCCTGAAGT
33514119 CACTGTGGAG
Statistics
Matches: 151, Mismatches: 31, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
84 3 0.02
85 75 0.50
86 6 0.04
87 3 0.02
88 2 0.01
89 59 0.39
90 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (88 bp):
ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGGATTAAAACCACAAATCTTATCTCTCTGAA
GTTGCAGTAGAACAGATCATAAT
Found at i:33514082 original size:44 final size:44
Alignment explanation
Indices: 33513841--33514190 Score: 186
Period size: 44 Copynumber: 8.1 Consensus size: 44
33513831 AGAAAAAACC
*
33513841 AATCCTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAACCACA
* * * * * * **
33513885 GATCTCATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATA--TTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * * * ** *
33513926 AA-CTTCATCTGCCTGAAGTTGCAGTGGGGTATG-TTGAAATTACG
1 AATCTT-ATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAACCACA
* * * *
33513970 AGTCTTAT-TCCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGC-C-
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-ACCACA
* *
33514015 AATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * *** *
33514059 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATC-C-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* ** * * *
33514100 AGTCTTATCTCCCTGAAGTCACTGTGGAGCAGGTTGAAA-CATCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
* * * * *
33514144 AGTCTTATCTCCCTGATGTTACAGTGGAGCAGACTAAAATCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
33514188 AAT
1 AAT
33514191 TTCGTCCCCC
Statistics
Matches: 225, Mismatches: 61, Indels: 40
0.69 0.19 0.12
Matches are distributed among these distances:
40 2 0.01
41 49 0.22
42 9 0.04
43 11 0.05
44 115 0.51
45 35 0.16
46 3 0.01
47 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
Found at i:33514138 original size:174 final size:174
Alignment explanation
Indices: 33513839--33514178 Score: 445
Period size: 174 Copynumber: 2.0 Consensus size: 174
33513829 ACAGAAAAAA
*
33513839 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCACAGATCTCATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCACAAATCTCATCTCTCTGAAGT
* * * ** * * * *
33513904 TGCAGTAGAGCAGATCATATTAAACTTCATCTGCCTGAAGTTGCAGTGGGGTATGTTGAAA-TTA
66 TGCAGTAGAGCAGATCACATCAAACTTCATCTCCCTGAAGTCACAGTGGAGCAGGTTGAAACAT-
* *
33513968 CGAGTCTTAT-TCCCCTGAAGTTGCAGTGGAACAGACTGAAGATAG
130 CAAGTCTTATCT-CCCTGAAGTTACAGTGGAACAGACTGAAGATAG
*
33514013 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGTA-GATTAAAACCACAAATCTTATCTCTCTGAAG
1 CCAATCCTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACCACAAATCTCATCTCTCTGAAG
* ** *
33514077 TTGCAGTAGAGCAGATCGCATCCAGTCTT-ATCTCCCTGAAGTCACTGTGGAGCAGGTTGAAACA
65 TTGCAGTAGAGCAGATCACAT-CAAACTTCATCTCCCTGAAGTCACAGTGGAGCAGGTTGAAACA
* *
33514141 TCAAGTCTTATCTCCCTGATGTTACAGTGGAGCAGACT
129 TCAAGTCTTATCTCCCTGAAGTTACAGTGGAACAGACT
33514179 AAAATCACAA
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
174 136 0.95
175 7 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (174 bp):
CCAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCACAAATCTCATCTCTCTGAAGT
TGCAGTAGAGCAGATCACATCAAACTTCATCTCCCTGAAGTCACAGTGGAGCAGGTTGAAACATC
AAGTCTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAGATAG
Found at i:33514150 original size:85 final size:85
Alignment explanation
Indices: 33514020--33514176 Score: 199
Period size: 85 Copynumber: 1.8 Consensus size: 85
33514010 TAGCCAATCC
** * * *
33514020 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTCACAGTGGAGCAGATTAAAACCACAAATCTTATCTCCCTGAAGTTACAGTA
33514085 GAGCAGATCGCATCCAGTCT
66 GAGCAGATCGCATCCAGTCT
* * * * *
33514105 TATCTCCCTGAAGTCACTGTGGAGCAGGTTGAAA-CATCAAGTCTTATCTCCCTGATGTTACAGT
1 TATCTCCCTGAAGTCACAGTGGAGCAGATTAAAACCA-CAAATCTTATCTCCCTGAAGTTACAGT
*
33514169 GGAGCAGA
65 AGAGCAGA
33514177 CTAAAATCAC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 2 0.03
85 58 0.97
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAAGTCACAGTGGAGCAGATTAAAACCACAAATCTTATCTCCCTGAAGTTACAGTA
GAGCAGATCGCATCCAGTCT
Found at i:33514617 original size:15 final size:14
Alignment explanation
Indices: 33514584--33514614 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33514574 CTACTCCTGC
33514584 AAAA-ACAGAAGCA
1 AAAAGACAGAAGCA
33514597 AAAAGACAGAAGCA
1 AAAAGACAGAAGCA
33514611 AAAA
1 AAAA
33514615 AGAGAGGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.71, C:0.13, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGACAGAAGCA
Found at i:33515916 original size:22 final size:22
Alignment explanation
Indices: 33515864--33515910 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
33515854 AATATTCTTT
*
33515864 CATTCTTTTGGACTTTCTTCCA
1 CATTCTTTTAGACTTTCTTCCA
33515886 CATTCTTTTAGACTTTCTTCCA
1 CATTCTTTTAGACTTTCTTCCA
33515908 CAT
1 CAT
33515911 CATTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.06, T:0.49
Consensus pattern (22 bp):
CATTCTTTTAGACTTTCTTCCA
Found at i:33516777 original size:6 final size:6
Alignment explanation
Indices: 33516670--33516777 Score: 67
Period size: 6 Copynumber: 17.8 Consensus size: 6
33516660 ATTCAATAAA
* * * * *
33516670 AAAAAT CAAAAT AAAAAT AAAAAT CAAAAA- CAAAA- AAGAAG AAAAAG
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT
* * * * * *
33516717 AAAAAG AAAAAT CAAAGT AAAAAGC AAAAAGG AAAAAT CAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAA-T AAAAA-T AAAAAT AAAAAT AAAAAT
*
33516767 GAAAAT AAAAA
1 AAAAAT AAAAA
33516778 AGGAGAGGCC
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
5 7 0.09
6 58 0.72
7 16 0.20
ACGTcount: A:0.77, C:0.06, G:0.08, T:0.09
Consensus pattern (6 bp):
AAAAAT
Found at i:33519009 original size:45 final size:45
Alignment explanation
Indices: 33518871--33519010 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 45
33518861 AACAGATCAG
* * *
33518871 TGAAGATAGCAGTTCTTGCCTTCCTGCATCGACAGCGAAGCAGAT
1 TGAAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGAT
* * * * * * *
33518916 TGAAAATA-AAGCT-TTGCC-TCC-ATCGGTT-ACAGTGGAGCAGGT
1 TGAAGATAGCAGATCTTGCCTTCCTA-C-ATTGACAGCGAAGCAGAT
*
33518958 TAAAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGAT
1 TGAAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGAT
*
33519003 CGAAGATA
1 TGAAGATA
33519011 CCAACCTTGC
Statistics
Matches: 69, Mismatches: 19, Indels: 14
0.68 0.19 0.14
Matches are distributed among these distances:
42 21 0.30
43 9 0.13
44 10 0.14
45 28 0.41
46 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (45 bp):
TGAAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGAT
Found at i:33519205 original size:132 final size:132
Alignment explanation
Indices: 33519047--33519838 Score: 1010
Period size: 132 Copynumber: 6.0 Consensus size: 132
33519037 GGAGCAGGTT
* *
33519047 GATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
33519112 GGTTGGTAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCG
66 GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
33519177 AA
131 AA
** * *
33519179 GATGATGGATTTTACCTACCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*
33519244 GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCG
66 GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
33519309 AA
131 AA
*
33519311 GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*
33519376 GGTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
33519441 AA
131 AA
* *
33519443 GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAGCCAATAATTCTATCTCCCT
1 GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
** * * * * * *
33519508 AGG-CAGAAGTGGAATATATTGAAGATTATAAATCTTATCTCCCTAAGCAATAGTGAAGCAGATC
66 -GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
33519572 AAA
130 GAA
* * * *
33519575 GATGGCAGATTTTACCTCCCTGAGGTTACGGTGGAGTACATTGAAGCCAATAATTCTATCT-CCT
1 GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
** * *
33519639 GGTCAGCAGTGGAATAGGTTGGAA-ATTACAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATC
66 GGTTGGCAGTGGAATAGATT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
33519703 GAA
130 GAA
* ** * * * * * * * *
33519706 GACGGCAAATCTTATCTTCCCCAG-GAG-T--AG-GGAAGCAGATTTAAGCCA-CAAGTCCTATC
1 GATGGCGGATTTTA-CCT-CCCTGTG-GTTACAGTGG-AGTACATTGAAGCCAGTAA-TTCTATC
** * * *
33519765 TCCCTGGTCAGCAGTGGAGTAGATTGGAA-ATTACAGATCTCATCTCCCTAAGCAGTAGTAGAGC
61 TCCCTGGTTGGCAGTGGAATAGATT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
*
33519829 AGATCAAA
125 AGATCGAA
33519837 GA
1 GA
33519839 CAGTGAATCT
Statistics
Matches: 597, Mismatches: 54, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
129 4 0.01
130 22 0.04
131 133 0.22
132 431 0.72
133 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AA
Found at i:33519415 original size:44 final size:44
Alignment explanation
Indices: 33519103--33519419 Score: 150
Period size: 44 Copynumber: 7.2 Consensus size: 44
33519093 CTAGTAATTC
* * * *
33519103 TATCTCCCTGGTTGGTAGTGGAATAGATTAAAGATTACAGATCT
1 TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
* ** * * * * *
33519147 TATCTCCCTAAG-CAGCAGTGGAGCAGATCGAAGATGATGGATTT
1 TATCTCCCT-GGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
* * * * *
33519191 TACCTACCTGTGGTT-ACAGTGGAGTACATTGAAG-CTAGTA-AT-T
1 TATCT-CC-CTGGTTGGCAGTGGAGTAGATTGAAGATTA-TAGATCT
* *
33519234 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCT
1 -TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
* * * * * **** *
33519279 TATCTCCCTAAG-TAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCT-GGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
* * * * **
33519323 TACCTCCCTGTGGTT-ACAGTGGAGTACATTAAAG-CCAGTA-AT-T
1 TATCTCCC--TGGTTGGCAGTGGAGTAGATTGAAGATTA-TAGATCT
*
33519366 CTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTATAGATCT
1 -TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
33519411 TATCTCCCT
1 TATCTCCCT
33519420 AAGCAGTAGT
Statistics
Matches: 193, Mismatches: 60, Indels: 40
0.66 0.20 0.14
Matches are distributed among these distances:
42 10 0.05
43 38 0.20
44 105 0.54
45 37 0.19
46 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
TATCTCCCTGGTTGGCAGTGGAGTAGATTGAAGATTATAGATCT
Found at i:33519431 original size:44 final size:44
Alignment explanation
Indices: 33519383--33519562 Score: 107
Period size: 44 Copynumber: 4.1 Consensus size: 44
33519373 CCTGGTTGGC
33519383 AGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
** * **** * * **
33519427 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCT--GTGGTT
1 AGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAG-T
* * *** * *
33519470 ACAGTGGAGTATATTGAAGCCAATA-AT-TCTATCTCCCTAGGCAGA
1 --AGTGGAATAGATTGAAGATTATAGATCT-TATCTCCCTAAGCAGT
* * *
33519515 AGTGGAATATATTGAAGATTATAAATCTTATCTCCCTAAGCAAT
1 AGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
33519559 AGTG
1 AGTG
33519563 AAGCAGATCA
Statistics
Matches: 97, Mismatches: 31, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
42 2 0.02
43 21 0.22
44 57 0.59
45 15 0.15
46 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGT
Found at i:33519870 original size:131 final size:131
Alignment explanation
Indices: 33519630--33519937 Score: 494
Period size: 131 Copynumber: 2.3 Consensus size: 131
33519620 GCCAATAATT
* *
33519630 CTATCT-CCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTCATCTCCCTAAGCAGTAGTG
1 CTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTCATCTCCCTAAGCAGTAGTA
* *
33519694 GAGCAGATCGAAGACGGCAAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
66 GAGCAGATCAAAGACAGCAAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
33519759 C
131 C
*
33519760 CTATCTCCCTGGTCAGCAGTGGAGTAGATTGGAAATTACAGATCTCATCTCCCTAAGCAGTAGTA
1 CTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTCATCTCCCTAAGCAGTAGTA
** *
33519825 GAGCAGATCAAAGACAGTGAATCTTATCTTCCCTAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
66 GAGCAGATCAAAGACAGCAAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
33519890 C
131 C
*
33519891 CTATTTCCCTGAG-CAGCAGTGGAGTAGGTTGGAAAAATTACAGATCT
1 CTATCTCCCTG-GTCAGCAGTGGAGTAGGTTGG--AAATTACAGATCT
33519938 TGTGTTCCTG
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
130 6 0.04
131 144 0.88
132 1 0.01
133 13 0.08
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (131 bp):
CTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTCATCTCCCTAAGCAGTAGTA
GAGCAGATCAAAGACAGCAAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
C
Found at i:33520101 original size:50 final size:50
Alignment explanation
Indices: 33520032--33520181 Score: 165
Period size: 50 Copynumber: 3.0 Consensus size: 50
33520022 TTCCAAGCGG
* * * *
33520032 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGACTAAAGCCACAACGGCGAGTCTTGCTTCCCCGACAT
* * * * **
33520082 TGCAGTTAAAAAGACTAAAGCCACAACGGCGAGTCTTACTTCTCAGACGG
1 TGCAGTGAAAAAGACTAAAGCCACAACGGCGAGTCTTGCTTCCCCGACAT
* * * * *
33520132 TGCAGTGGAACAGATTGAAGCCACAACGACGAGTCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGACTAAAGCCACAACGGCGAGTCTTGCTTCCCCGACAT
33520182 CACAGTCAAG
Statistics
Matches: 79, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.20
Consensus pattern (50 bp):
TGCAGTGAAAAAGACTAAAGCCACAACGGCGAGTCTTGCTTCCCCGACAT
Found at i:33520196 original size:50 final size:48
Alignment explanation
Indices: 33520040--33520201 Score: 162
Period size: 50 Copynumber: 3.2 Consensus size: 48
33520030 GGTGCAGTGG
* *
33520040 AACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTA
1 AACAGATTAAAGCCACAACGGCGAGTCTTGCTTCCCCGACA-TGCAG-TC
* * * * * * *
33520090 AAAAGACTAAAGCCACAACGGCGAGTCTTACTTCTCAGACGGTGCAGTGG
1 AACAGATTAAAGCCACAACGGCGAGTCTTGCTTCCCCGAC-ATGCAGT-C
* * *
33520140 AACAGATTGAAGCCACAACGACGAGTCTTGCTTCCCCGACATCACAGTC
1 AACAGATTAAAGCCACAACGGCGAGTCTTGCTTCCCCGACAT-GCAGTC
33520189 AAGCAGATTAAAG
1 AA-CAGATTAAAG
33520202 TTACGAGTTA
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
49 4 0.04
50 85 0.96
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (48 bp):
AACAGATTAAAGCCACAACGGCGAGTCTTGCTTCCCCGACATGCAGTC
Found at i:33521543 original size:3 final size:3
Alignment explanation
Indices: 33521535--33521591 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
33521525 CCAATTTCGT
33521535 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33521583 TTA TTA TTA
1 TTA TTA TTA
33521592 AGGTTTGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33522031 original size:18 final size:18
Alignment explanation
Indices: 33522004--33522050 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
33521994 AAATATATGT
* *
33522004 TATTTTATTTAATTATAA
1 TATTTAATTTAACTATAA
33522022 TATTTAATTTTAACTATAA
1 TATTTAA-TTTAACTATAA
*
33522041 T-TTTGATTTA
1 TATTTAATTTA
33522051 TTTCAAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 4 0.16
18 10 0.40
19 11 0.44
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTTAATTTAACTATAA
Found at i:33526021 original size:50 final size:50
Alignment explanation
Indices: 33525963--33526100 Score: 233
Period size: 50 Copynumber: 2.8 Consensus size: 50
33525953 TTCTGATCAA
33525963 TGACAAGTGATAAGTGGTAGCTTCA-CTACACTTATCTGATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAGTGACAAG
*
33526013 TGACAAGTGATAAGTGGTAGCTTAGCTACACTTATTTGATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
* *
33526063 TGATAAGTGATAAGTGGTAGCTTAGCTACAATTATCTG
1 TGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTG
33526101 GTTAGCGATA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
49 1 0.01
50 82 0.99
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (50 bp):
TGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAG
Found at i:33538335 original size:50 final size:50
Alignment explanation
Indices: 33538277--33538445 Score: 248
Period size: 50 Copynumber: 3.4 Consensus size: 50
33538267 ACTTTTGATC
*
33538277 AGTGACAAGTGATAAGTGGTAGCTTCGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* * *
33538327 AGTGACAAGTGATTAAATGGTAACCTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGA-TAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* *
33538378 AGTGATAAGTGATAAGTGGTAGCTTAGCAACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* * *
33538428 AGAGATAAATGATAAGTG
1 AGTGACAAGTGATAAGTG
33538446 ATTCCGTGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 62 0.58
51 45 0.42
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:33542635 original size:50 final size:50
Alignment explanation
Indices: 33542557--33542747 Score: 175
Period size: 50 Copynumber: 3.7 Consensus size: 50
33542547 TCTTGTACTA
** * **
33542557 CCAATGCCACATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * ** *
33542607 CCCATGCCTTGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * *
33542657 CCAACGCCATGTCCCAGACACGTTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTG
* *
33542713 CCAATGCCATGTTCCACACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
33542748 TCTCATCACC
Statistics
Matches: 109, Mismatches: 26, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
50 74 0.68
53 2 0.02
56 33 0.30
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:33544236 original size:21 final size:21
Alignment explanation
Indices: 33544207--33544247 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
33544197 AACAGAGTTA
*
33544207 CTCATTGATGTCGCGACATCC
1 CTCAGTGATGTCGCGACATCC
33544228 CTCAGTGATGTCGCGACATC
1 CTCAGTGATGTCGCGACATC
33544248 GAGAGCAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.27
Consensus pattern (21 bp):
CTCAGTGATGTCGCGACATCC
Found at i:33547527 original size:94 final size:94
Alignment explanation
Indices: 33547417--33547604 Score: 306
Period size: 94 Copynumber: 2.0 Consensus size: 94
33547407 AATATTTCCA
*
33547417 TAACTTCCTCCTGGGTTTTCGTCCAAATACTTCCCTTAGTCATAATGTCGAA-TTCCATCTATTT
1 TAACTTCCTCCTGGGTTTTAGTCCAAATACTTCCC-TAGTCATAATGTCGAATTTCCATCTATTT
33547481 TGATTGTCCAACCCATAATAGAAAATTTGT
65 TGATTGTCCAACCCATAATAGAAAATTTGT
* * *
33547511 TAACTTTCTCCTGGGTTTTAGTCCAAATACTTCCCTAGTCATAATGTCGAATTTTCGTCTATTTT
1 TAACTTCCTCCTGGGTTTTAGTCCAAATACTTCCCTAGTCATAATGTCGAATTTCCATCTATTTT
* *
33547576 GATTGTCTAACCCATAATAGAAATTTTGT
66 GATTGTCCAACCCATAATAGAAAATTTGT
33547605 ATATGAACTA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
93 16 0.18
94 71 0.82
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (94 bp):
TAACTTCCTCCTGGGTTTTAGTCCAAATACTTCCCTAGTCATAATGTCGAATTTCCATCTATTTT
GATTGTCCAACCCATAATAGAAAATTTGT
Found at i:33551288 original size:21 final size:19
Alignment explanation
Indices: 33551246--33551292 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
33551236 AAGACAAATG
*
33551246 ATTGAAAAACTAAAGATTA
1 ATTGAAAAAATAAAGATTA
*
33551265 ATTGAAGAAAATAAAGCTTGA
1 ATTGAA-AAAATAAAGATT-A
33551286 ATTGAAA
1 ATTGAAA
33551293 TCGGATCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 11 0.46
21 7 0.29
ACGTcount: A:0.55, C:0.04, G:0.15, T:0.26
Consensus pattern (19 bp):
ATTGAAAAAATAAAGATTA
Found at i:33553468 original size:18 final size:18
Alignment explanation
Indices: 33553425--33553469 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
33553415 CTCTTTATCT
33553425 TCTTCATCTTCACCTTGA
1 TCTTCATCTTCACCTTGA
* * * *
33553443 GCTCCATCTTGATCTTGA
1 TCTTCATCTTCACCTTGA
33553461 TCTTCATCT
1 TCTTCATCT
33553470 CGTTCCTTCG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.31, G:0.09, T:0.44
Consensus pattern (18 bp):
TCTTCATCTTCACCTTGA
Found at i:33559288 original size:24 final size:24
Alignment explanation
Indices: 33559261--33559306 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
33559251 TTTTCTATAT
33559261 CTTCGAACTTTT-ATTTTTTTTAGG
1 CTTC-AACTTTTCATTTTTTTTAGG
**
33559285 CTTCAGTTTTTCATTTTTTTTA
1 CTTCAACTTTTCATTTTTTTTA
33559307 CTTAGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.15, C:0.13, G:0.09, T:0.63
Consensus pattern (24 bp):
CTTCAACTTTTCATTTTTTTTAGG
Found at i:33569872 original size:30 final size:30
Alignment explanation
Indices: 33569836--33569894 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
33569826 TTCGAGCTTT
33569836 GGGGCAAAAGTGTAAATATGAAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGAAAAAGTTTA
* * * *
33569866 GGGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGGCAAAAGTGTAAATATGAAAAAGTTT
33569895 GAGTTAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGAAAAAGTTTA
Found at i:33570268 original size:26 final size:26
Alignment explanation
Indices: 33570232--33570284 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
33570222 TTGGATAAAA
*
33570232 AGGGGTCGCTAAGTGTAGATTCTCTG
1 AGGGGTCGCTAAGTGTAGATTCCCTG
* *
33570258 AGGGGTTGCTAAGTGTTGATTCCCTG
1 AGGGGTCGCTAAGTGTAGATTCCCTG
33570284 A
1 A
33570285 ATTATTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.15, G:0.34, T:0.32
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGTAGATTCCCTG
Found at i:33570308 original size:42 final size:42
Alignment explanation
Indices: 33570261--33570572 Score: 244
Period size: 43 Copynumber: 7.4 Consensus size: 42
33570251 TTCTCTGAGG
* * * *
33570261 GGTTGCTAAGTGTTGATTCCCTGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
*
33570303 GGTTGCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTAT-AAAGGT
* * * * *
33570346 GGTTGCTATGTGCTGAATCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
*
33570388 GGTTGCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTAT-AAAGGT
* * * * * * *
33570431 GGTTGTTATGTGCTGATTCCTCGTATCACTAAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
* * *
33570473 GGTTTCTAAGTGTTGATTCCACCGTATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTAT-AAAGGT
* * **
33570516 GGTTGCTATGTGCTGATTCCCCGTATCACTAAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTA-TTGATTATAAAGGT
*
33570557 GGTTGCCAAGTGCTGA
1 GGTTGCTAAGTGCTGA
33570573 ATCCACTGAG
Statistics
Matches: 212, Mismatches: 42, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
40 4 0.02
41 24 0.11
42 81 0.38
43 88 0.42
44 15 0.07
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
Found at i:33570401 original size:85 final size:85
Alignment explanation
Indices: 33570296--33570578 Score: 469
Period size: 85 Copynumber: 3.3 Consensus size: 85
33570286 TTATTGATTC
33570296 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
* *
33570361 AATCCCCGTATCACTGAATA
66 ATTCCCCGTATCACTAAATA
*
33570381 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGTTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
*
33570446 ATTCCTCGTATCACTAAATA
66 ATTCCCCGTATCACTAAATA
* * *
33570466 TAAAGGTGGTTTCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
33570531 ATTCCCCGTATCACTAAAT-
66 ATTCCCCGTATCACTAAATA
* * *
33570550 TTAAGGTGGTTGCCAAGTGCTGAATCCAC
1 TAAAGGTGGTTGCTAAGTGCTGATTCCAC
33570579 TGAGTAACGG
Statistics
Matches: 184, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 24 0.13
85 160 0.87
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (85 bp):
TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTG
ATTCCCCGTATCACTAAATA
Found at i:33577983 original size:11 final size:11
Alignment explanation
Indices: 33577967--33577996 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33577957 GTTAACATAA
*
33577967 TATATATAACT
1 TATATATAAAT
33577978 TATATATAAAT
1 TATATATAAAT
33577989 TATATATA
1 TATATATA
33577997 TCATGACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
TATATATAAAT
Found at i:33579780 original size:52 final size:50
Alignment explanation
Indices: 33579665--33579782 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
33579655 TAATAAAGTT
* *
33579665 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGATAGTTAAGTATGCATCATAAATAATGAC
* *
33579715 ATGCATTATGTAACTCCCATGATAGTTTAAGTCTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGATAG-TTAAGTATGCATCA-TAAA-TAATGAC
* *
33579767 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
33579783 ATTTGTCATT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 23 0.39
51 13 0.22
52 20 0.34
53 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGATAGTTAAGTATGCATCATAAATAATGAC
Found at i:33580083 original size:10 final size:10
Alignment explanation
Indices: 33580054--33580084 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
33580044 TTTATTTTTG
33580054 ATATGTTTAA
1 ATATGTTTAA
33580064 ATAGTGTTTAA
1 ATA-TGTTTAA
33580075 ATATGTTTAA
1 ATATGTTTAA
33580085 TAAGTTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (10 bp):
ATATGTTTAA
Found at i:33582777 original size:51 final size:49
Alignment explanation
Indices: 33582608--33582941 Score: 348
Period size: 51 Copynumber: 6.6 Consensus size: 49
33582598 TCGATACACA
*
33582608 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTT-CGGTTCACG
* * * *
33582658 CAGTAGCCTTCATATAGTACTACACACGAGATCAAGTTTTACGGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTT-CGGTTCACG
* *
33582708 TAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTGCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTCGGTTCACG
* * *
33582759 TAGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TTTATCGATTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCA--AGTTT-TCGGTTCACG
** * * * * *
33582810 TAAAAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCTCGGTACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTCGGTTCACG
* * * * *
33582861 TTGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGACCA--AGTTT-TCGGTTCACG
33582912 TAGTAGCCTTCACATAGTACTACACACGTG
1 TAGTAGCCTTCACATAGTACTACACACGTG
33582942 TTCATCGATA
Statistics
Matches: 240, Mismatches: 33, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
50 84 0.35
51 147 0.61
52 9 0.04
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (49 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTCGGTTCACG
Found at i:33582841 original size:102 final size:102
Alignment explanation
Indices: 33582598--33582941 Score: 444
Period size: 102 Copynumber: 3.4 Consensus size: 102
33582588 CTTTTATCAT
* * * * **
33582598 TCGATACACATAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGCAG
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAG
* * * ***
33582661 TAGCCTTCA-TATAGTACTACACACGAGATCAAGTTTTA
65 TAGCCTTCACT-TAGTACTACACATGTGACCATCATTTA
* *
33582699 -CGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTGCACATAGT
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
33582763 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
** * * * *
33582800 TCGATTCACGTAAAAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
*
33582865 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
*
33582902 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
1 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTG
33582942 TTCATCGATA
Statistics
Matches: 212, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
100 38 0.18
101 42 0.20
102 132 0.62
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:33583445 original size:31 final size:30
Alignment explanation
Indices: 33583410--33583468 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
33583400 GCTTCGACTC
*
33583410 AACTTTTGTCAAAATTACGA-TTTTGTCCCTA
1 AACTTTT-ACAAAATTAC-ATTTTTGTCCCTA
*
33583441 AACTTTTACATAATTACATTTTTGTCCC
1 AACTTTTACAAAATTACATTTTTGTCCC
33583469 CAAGCTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.04
30 17 0.68
31 7 0.28
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGTCCCTA
Found at i:33588548 original size:19 final size:19
Alignment explanation
Indices: 33588524--33588580 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
33588514 AATAATTGGA
33588524 TCAAAATAAAGCATCTGGT
1 TCAAAATAAAGCATCTGGT
33588543 TCAAAATCAAA--AT-T-GT
1 TCAAAAT-AAAGCATCTGGT
*
33588559 T-AAAATAAAGCATCTGGC
1 TCAAAATAAAGCATCTGGT
33588577 TCAA
1 TCAA
33588581 TATCAAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
14 3 0.10
15 5 0.16
16 5 0.16
17 2 0.06
18 4 0.13
19 9 0.29
20 3 0.10
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (19 bp):
TCAAAATAAAGCATCTGGT
Found at i:33596884 original size:45 final size:46
Alignment explanation
Indices: 33596830--33596940 Score: 188
Period size: 46 Copynumber: 2.4 Consensus size: 46
33596820 ATCACTTGTC
*
33596830 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
33596875 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
33596921 CTTGATCAAATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
33596941 CACTTATCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
45 21 0.34
46 41 0.66
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:33596923 original size:46 final size:45
Alignment explanation
Indices: 33596817--33597087 Score: 207
Period size: 37 Copynumber: 6.6 Consensus size: 45
33596807 CATATGACCT
* *
33596817 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
33596860 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
33596906 CTTATCACTTTATCACTTGATCAAATAA--GT-G-T-AG---CCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
33596943 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
33596980 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* ** *
33597017 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
33597063 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTATCACTTGATCAGA
33597088 AGTACTCAAA
Statistics
Matches: 204, Mismatches: 11, Indels: 23
0.86 0.05 0.10
Matches are distributed among these distances:
37 100 0.49
39 2 0.01
40 3 0.01
41 1 0.00
42 1 0.00
43 10 0.05
44 5 0.02
45 21 0.10
46 61 0.30
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:33596944 original size:37 final size:37
Alignment explanation
Indices: 33596902--33597049 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
33596892 AGCTGAAGCT
* ** *
33596902 ACCACTTATCACTTTATCACTTGATCAAATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
33596939 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
33596976 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
33597013 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
33597050 GCTAAAACTA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:33604094 original size:45 final size:46
Alignment explanation
Indices: 33604040--33604150 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
33604030 ATCACTTGTC
*
33604040 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
33604085 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
33604131 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
33604151 CACTTATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 21 0.33
46 42 0.67
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:33604133 original size:46 final size:45
Alignment explanation
Indices: 33604027--33604297 Score: 200
Period size: 37 Copynumber: 6.6 Consensus size: 45
33604017 CATATGACCT
* *
33604027 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
33604070 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
33604116 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
33604153 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* **
33604190 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
* ** *
33604227 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTA-CA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
33604272 CTTATCACTTTTGTCACTTGATCAGA
1 CTTATCAC-TTTATCACTTGATCAGA
33604298 AGTACTCNNN
Statistics
Matches: 205, Mismatches: 9, Indels: 25
0.86 0.04 0.10
Matches are distributed among these distances:
37 101 0.49
39 2 0.01
40 3 0.01
41 1 0.00
42 1 0.00
43 10 0.05
44 5 0.02
45 31 0.15
46 51 0.25
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:33604154 original size:37 final size:37
Alignment explanation
Indices: 33604112--33604259 Score: 260
Period size: 37 Copynumber: 4.0 Consensus size: 37
33604102 AGCTGAAGCT
* **
33604112 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
33604149 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
33604186 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
33604223 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
33604260 GCTAAAACTA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:33610963 original size:19 final size:19
Alignment explanation
Indices: 33610936--33610972 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33610926 TAAAATAAAC
*
33610936 AAAGTAAAAACTAAGAATG
1 AAAGAAAAAACTAAGAATG
*
33610955 AAAGAAAAACCTAAGAAT
1 AAAGAAAAAACTAAGAAT
33610973 CAAAACCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.14, T:0.14
Consensus pattern (19 bp):
AAAGAAAAAACTAAGAATG
Found at i:33616000 original size:34 final size:34
Alignment explanation
Indices: 33615947--33616014 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
33615937 GCACAGTTGA
* * *
33615947 ACAATCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAATCTTGGACCTAAGCCCATCTCAGTA-CAGTG
*
33615982 ACAAT-TTGGACCTTAGCCCATCTCAGTACAGTG
1 ACAATCTTGGACCTAAGCCCATCTCAGTACAGTG
33616015 TCAAAAATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (34 bp):
ACAATCTTGGACCTAAGCCCATCTCAGTACAGTG
Found at i:33624174 original size:21 final size:21
Alignment explanation
Indices: 33624148--33624196 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
33624138 TCCCTTTCGA
*
33624148 TCTTGAATTTCTAGATCGAAC
1 TCTTGAATTTCTAGATCAAAC
33624169 TCTTGAATTTCTAGATCAAAC
1 TCTTGAATTTCTAGATCAAAC
33624190 TCTTGAA
1 TCTTGAA
33624197 GTAGAAGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
TCTTGAATTTCTAGATCAAAC
Found at i:33628250 original size:26 final size:22
Alignment explanation
Indices: 33628222--33628266 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
33628212 AAAATAATCA
33628222 AAGAAAGATTAAGTAAGTAAAG
1 AAGAAAGATTAAGTAAGTAAAG
33628244 AAGAAAGATTAAGTAAGTAAAG
1 AAGAAAGATTAAGTAAGTAAAG
33628266 A
1 A
33628267 TTTAAACAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.22, T:0.18
Consensus pattern (22 bp):
AAGAAAGATTAAGTAAGTAAAG
Found at i:33635516 original size:25 final size:25
Alignment explanation
Indices: 33635458--33635517 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
33635448 CAAAATGGCA
33635458 ATAATAATAAAAAATTAAATAAATG
1 ATAATAATAAAAAATTAAATAAATG
* * *
33635483 A-AATAAATAAGACATTAACAT-GATG
1 ATAAT-AATAAAAAATTAA-ATAAATG
33635508 ATAATAATAA
1 ATAATAATAA
33635518 TAACAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 3 0.10
25 21 0.72
26 5 0.17
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (25 bp):
ATAATAATAAAAAATTAAATAAATG
Found at i:33636592 original size:32 final size:32
Alignment explanation
Indices: 33636541--33636740 Score: 251
Period size: 32 Copynumber: 6.3 Consensus size: 32
33636531 AAATGACTAC
* *
33636541 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACA
* *
33636572 AAGCCATCAGTAGTAGTAATATGATTAGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACA
* **
33636604 CAA-CCATCAGTAATAGTAGTATGATCAGCACA
1 -AAGCCATCAGTAATAGTAATATGATTGGCACA
* *
33636636 AAGCCATCAGCAGTAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACA
* * *
33636668 CAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACA
* *
33636700 TAGCCATCAGTAATGGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACA
33636732 AAGCCATCA
1 AAGCCATCA
33636741 ATAGCATCGC
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
31 12 0.08
32 132 0.90
33 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATTGGCACA
Found at i:33636819 original size:27 final size:26
Alignment explanation
Indices: 33636787--33636851 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
33636777 AACAAAGCTG
33636787 CCAGTAACAGTATATGTGGCCAAGCCA
1 CCAGTAACAGTAT-TGTGGCCAAGCCA
* **
33636814 CTAGTAACAGTGATTGTGGCGGAGCCA
1 CCAGTAACAGT-ATTGTGGCCAAGCCA
33636841 CCAGT-ACAGTA
1 CCAGTAACAGTA
33636852 CTTCCTCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 25 0.76
28 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (26 bp):
CCAGTAACAGTATTGTGGCCAAGCCA
Found at i:33636942 original size:24 final size:24
Alignment explanation
Indices: 33636915--33636996 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
33636905 CCATGCTCAG
33636915 AATCAGTCATTCAAACCACAGACA
1 AATCAGTCATTCAAACCACAGACA
* * * *
33636939 AATCAGTCATACCAAA-TAAAAACA
1 AATCAGTCAT-TCAAACCACAGACA
*
33636963 AATCAGTCATT-TAACCACAGACA
1 AATCAGTCATTCAAACCACAGACA
* *
33636986 AAACAATCATT
1 AATCAGTCATT
33636997 TGACCTCGAG
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
22 2 0.04
23 14 0.31
24 25 0.56
25 4 0.09
ACGTcount: A:0.50, C:0.24, G:0.06, T:0.20
Consensus pattern (24 bp):
AATCAGTCATTCAAACCACAGACA
Found at i:33637071 original size:27 final size:27
Alignment explanation
Indices: 33637035--33637296 Score: 287
Period size: 27 Copynumber: 9.7 Consensus size: 27
33637025 CCCACTAGGA
*
33637035 CATTATGGTCATTTTACCCTACAGGGG
1 CATTACGGTCATTTTACCCTACAGGGG
* * *
33637062 TATTAGGGTCATTTTATCCTACAGGGG
1 CATTACGGTCATTTTACCCTACAGGGG
* *
33637089 CATTACGGTCATTTTACCCTATAAGGG
1 CATTACGGTCATTTTACCCTACAGGGG
*
33637116 CATTACGATCATTTTACCCTACAGGGG
1 CATTACGGTCATTTTACCCTACAGGGG
*
33637143 CATTACAGTCATTTTACCCTACAGGGG
1 CATTACGGTCATTTTACCCTACAGGGG
* *
33637170 CATTACGCTCATTTTACTCTACAGGGG
1 CATTACGGTCATTTTACCCTACAGGGG
*
33637197 TATTACGGTCATTTTACCCTACAAGGGG
1 CATTACGGTCATTTTACCCTAC-AGGGG
* * **
33637225 -ATTACGATCATCTTACCCGTTGA-GGG
1 CATTACGGTCATTTTACCC-TACAGGGG
* * * *
33637251 TATTTCAGTTATTTTACCCTACAAGGGG
1 CATTACGGTCATTTTACCCTAC-AGGGG
* *
33637279 -ATTACGATCATCTTACCC
1 CATTACGGTCATTTTACCC
33637297 GTCGAGGCTA
Statistics
Matches: 195, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.02
27 182 0.93
28 9 0.05
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (27 bp):
CATTACGGTCATTTTACCCTACAGGGG
Found at i:33637296 original size:54 final size:53
Alignment explanation
Indices: 33637042--33637376 Score: 282
Period size: 54 Copynumber: 6.2 Consensus size: 53
33637032 GGACATTATG
* * * * * *
33637042 GTCATTTTACCCTAC-AGGGGTATTAGGGTCATTTTATCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGG-ATTACGATCATTTTACCCTAGA-GGGTATTACA
* * * *
33637096 GTCATTTTACCCTATAAGGGCATTACGATCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAAGGGGATTACGATCATTTTACCCTAGA-GGGTATTACA
* * * *
33637150 GTCATTTTACCCTAC-AGGGGCATTACGCTCATTTTACTCTACAGGGGTATTACG
1 GTCATTTTACCCTACAAGGGG-ATTACGATCATTTTACCCTAGA-GGGTATTACA
* * *
33637204 GTCATTTTACCCTACAAGGGGATTACGATCATCTTACCCGTTGAGGGTATTTCA
1 GTCATTTTACCCTACAAGGGGATTACGATCATTTTACCC-TAGAGGGTATTACA
* * * * **
33637258 GTTATTTTACCCTACAAGGGGATTACGATCATCTTACCCGTCGAGGCTATT-TT
1 GTCATTTTACCCTACAAGGGGATTACGATCATTTTACCC-TAGAGGGTATTACA
* * * * * *
33637311 GATCCTTTTACCCTA-TAGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTCCA
1 G-TCATTTTACCCTACAAG-GGGATTACGATCATTTTACCC-TAGAGGGTATTACA
*
33637366 GTAATTTTACC
1 GTCATTTTACC
33637377 TTTCGAGGGT
Statistics
Matches: 238, Mismatches: 36, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
53 7 0.03
54 219 0.92
55 12 0.05
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (53 bp):
GTCATTTTACCCTACAAGGGGATTACGATCATTTTACCCTAGAGGGTATTACA
Found at i:33637314 original size:27 final size:26
Alignment explanation
Indices: 33637283--33637444 Score: 94
Period size: 27 Copynumber: 6.0 Consensus size: 26
33637273 AAGGGGATTA
* *
33637283 CGATCATCTTACCCGTCGAGGCTATTT
1 CGATCATTTTACCCATCGAGG-TATTT
* * *
33637310 TGATCCTTTTACCCTATAGAGGTATTT
1 CGATCATTTTACCC-ATCGAGGTATTT
*
33637337 CGATCATTTTACCCTTCGAGGGTA-TT
1 CGATCATTTTACCCATCGA-GGTATTT
* * **
33637363 CCAGTAATTTTACCTTTCGAGGGTATTT
1 CGA-TCATTTTACCCATCGA-GGTATTT
* * *
33637391 -TAGTAATTTTACCCTTCGAGGGTATTT
1 CGA-TCATTTTACCCATCGA-GGTATTT
* * *
33637418 CGGTTATTTTAACCATCGAGGGTATTT
1 CGATCATTTTACCCATCGA-GGTATTT
33637445 TGGTCCAGAT
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
26 7 0.06
27 97 0.87
28 7 0.06
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (26 bp):
CGATCATTTTACCCATCGAGGTATTT
Found at i:33637376 original size:81 final size:81
Alignment explanation
Indices: 33637291--33637443 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 81
33637281 TACGATCATC
** * *
33637291 TTACCCGTCGAGGCTATTTT-GATCCTTTTACCCTATAGA-GGTATTTCGATCATTTTACCCTTC
1 TTACCCGTCGAGGCTATTTTAG-TAATTTTACCCT-TAGAGGGTATTTCGATCATTTTAACCATC
33637354 GAGGGTATTCCAGTAATT
64 GAGGGTATTCCAGTAATT
** * * * *
33637372 TTACCTTTCGAGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTTCGGTTATTTTAACCATCGA
1 TTACCCGTCGAGGCTATTTTAGTAATTTTACCCTTAGAGGGTATTTCGATCATTTTAACCATCGA
33637437 GGGTATT
66 GGGTATT
33637444 TTGGTCCAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 3 0.05
81 56 0.93
82 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (81 bp):
TTACCCGTCGAGGCTATTTTAGTAATTTTACCCTTAGAGGGTATTTCGATCATTTTAACCATCGA
GGGTATTCCAGTAATT
Found at i:33637388 original size:54 final size:54
Alignment explanation
Indices: 33637207--33637444 Score: 184
Period size: 54 Copynumber: 4.4 Consensus size: 54
33637197 TATTACGGTC
* * *
33637207 ATTTTACCCTA-CAAGGGGATTACGATCATCTTACCCGTT-GAGGGTATTTCAGTT
1 ATTTTA-CCTATCGAGGGTATTTCGATCATCTTACCC-TTCGAGGGTATTTCAGTT
* * * * * * *
33637261 ATTTTACCCTA-CAAGGGGATTACGATCATCTTACCCGTCGAGGCTATTT-TGATC
1 ATTTTA-CCTATCGAGGGTATTTCGATCATCTTACCCTTCGAGGGTATTTCAG-TT
* * * * *
33637315 CTTTTACCCTATAGA-GGTATTTCGATCATTTTACCCTTCGAGGGTATTCCAGTA
1 ATTTTA-CCTATCGAGGGTATTTCGATCATCTTACCCTTCGAGGGTATTTCAGTT
* * * * *
33637369 ATTTTACCTTTCGAGGGTATTT-TAGTAATTTTACCCTTCGAGGGTATTTCGGTT
1 ATTTTACCTATCGAGGGTATTTCGA-TCATCTTACCCTTCGAGGGTATTTCAGTT
33637423 ATTTTAACC-ATCGAGGGTATTT
1 ATTTT-ACCTATCGAGGGTATTT
33637445 TGGTCCAGAT
Statistics
Matches: 153, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
53 9 0.06
54 139 0.91
55 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (54 bp):
ATTTTACCTATCGAGGGTATTTCGATCATCTTACCCTTCGAGGGTATTTCAGTT
Found at i:33656934 original size:42 final size:42
Alignment explanation
Indices: 33656888--33657021 Score: 175
Period size: 41 Copynumber: 3.2 Consensus size: 42
33656878 GGCCCATTTT
*
33656888 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTTAAAA
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
* **
33656930 TA-TTTGAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
* * *
33656971 TATTTT-GAAATTTTAAAAAAATT-AAAAAAGTATGTAAAAAA
1 TATTTTAAAAATTTT-AAAAAATTAAAAAAAGTATTTTAAAAA
33657012 TATTTTAAAA
1 TATTTTAAAA
33657022 TTAAAAAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
41 64 0.81
42 15 0.19
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (42 bp):
TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:33656948 original size:41 final size:41
Alignment explanation
Indices: 33656903--33657032 Score: 190
Period size: 41 Copynumber: 3.2 Consensus size: 41
33656893 TAAAAATTTT
*
33656903 AAAAAATTAAAAAAAGTATTTTTAAAATATTTGAAAATTAA
1 AAAAAATTAAAAAAAGTATTTTAAAAATATTTGAAAATTAA
* *
33656944 AAAAAATTAAAAAAAGTATTTTAAAAATATTTTGAAATTTTA
1 AAAAAATTAAAAAAAGTATTTTAAAAATA-TTTGAAAATTAA
* * *
33656986 AAAAAATT-AAAAAAGTATGTAAAAAATATTTTAAAATTAA
1 AAAAAATTAAAAAAAGTATTTTAAAAATATTTGAAAATTAA
33657026 AAAAAAT
1 AAAAAAT
33657033 ATATATTTGT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 16 0.20
41 46 0.57
42 18 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (41 bp):
AAAAAATTAAAAAAAGTATTTTAAAAATATTTGAAAATTAA
Found at i:33656949 original size:32 final size:31
Alignment explanation
Indices: 33656888--33656948 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
33656878 GGCCCATTTT
33656888 TATTTTAAAAATTTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATTTTAAAAAATTAAAAAAAG
* *
33656919 TATTTTTAAAATATTT-GAAAATTAAAAAAA
1 TATTTTAAAAAT-TTTAAAAAATTAAAAAAA
33656949 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATTTTAAAAAATTAAAAAAAG
Found at i:33657839 original size:18 final size:18
Alignment explanation
Indices: 33657816--33657850 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33657806 GTACACATTT
33657816 ATATTTCTTA-TTGAATTA
1 ATATTT-TTAGTTGAATTA
33657834 ATATTTTTAGTTGAATT
1 ATATTTTTAGTTGAATT
33657851 TTTTTTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (18 bp):
ATATTTTTAGTTGAATTA
Found at i:33660396 original size:83 final size:83
Alignment explanation
Indices: 33660257--33660422 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
33660247 TTCTATTCGC
33660257 GGGATGAAAAGATAGGGGGAGAGGGGATCTCCCTGTCTTACACCTTTGGTCGAGATAAGCTTTCA
1 GGGATGAAAAGATAGGGGGAGAGGGGATCTCCCTGTCTTACACCTTTGGTCGAGATAAGCTTTCA
33660322 GAAAGTGAACCATTCCAT
66 GAAAGTGAACCATTCCAT
33660340 GGGATGAAAAGATAGGGGGAGAGGGGATCTCCCTGTCTTACACCTTTGGTCGAGATAAGCTTTCA
1 GGGATGAAAAGATAGGGGGAGAGGGGATCTCCCTGTCTTACACCTTTGGTCGAGATAAGCTTTCA
33660405 GAAAGTGAACCATTCCAT
66 GAAAGTGAACCATTCCAT
33660423 AGGAGTTACA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (83 bp):
GGGATGAAAAGATAGGGGGAGAGGGGATCTCCCTGTCTTACACCTTTGGTCGAGATAAGCTTTCA
GAAAGTGAACCATTCCAT
Found at i:33669334 original size:8 final size:8
Alignment explanation
Indices: 33669321--33669354 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
33669311 TCCTAGACTG
33669321 ATTGTCAA
1 ATTGTCAA
33669329 ATTGTCAA
1 ATTGTCAA
*
33669337 ATTGCCAA
1 ATTGTCAA
33669345 ATTGTCAA
1 ATTGTCAA
33669353 AT
1 AT
33669355 AGTTTTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (8 bp):
ATTGTCAA
Found at i:33676659 original size:21 final size:22
Alignment explanation
Indices: 33676635--33676683 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
33676625 GCAAGTAATA
**
33676635 TAAGTATTTAAAATATT-AAGG
1 TAAGTATGGAAAATATTCAAGG
* *
33676656 TAAGCATGGAAATTATTCAAGG
1 TAAGTATGGAAAATATTCAAGG
33676678 TAAGTA
1 TAAGTA
33676684 AGTTGGTAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (22 bp):
TAAGTATGGAAAATATTCAAGG
Found at i:33685944 original size:25 final size:26
Alignment explanation
Indices: 33685907--33685955 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33685897 CAAATAGACA
*
33685907 TTCTAGATGAC-TTGCCAC-AAGGGC
1 TTCTAGATAACTTTGCCACTAAGGGC
33685931 TTCTCAGATAACTTTGCCACTAAGG
1 TTCT-AGATAACTTTGCCACTAAGG
33685956 CTTTTTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 6 0.29
26 7 0.33
27 4 0.19
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (26 bp):
TTCTAGATAACTTTGCCACTAAGGGC
Found at i:33685981 original size:25 final size:25
Alignment explanation
Indices: 33685953--33686003 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
33685943 TTTGCCACTA
*
33685953 AGGCTTTTTGAATAATACGCCACAT
1 AGGCTTTTCGAATAATACGCCACAT
*
33685978 AGGCTTTTCGAATAATACGTCACAT
1 AGGCTTTTCGAATAATACGCCACAT
33686003 A
1 A
33686004 TGTCATATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (25 bp):
AGGCTTTTCGAATAATACGCCACAT
Found at i:33686050 original size:25 final size:25
Alignment explanation
Indices: 33686021--33686076 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
33686011 TAGGCTATTT
33686021 AGATAATACACCACAAGAGCTTTAC
1 AGATAATACACCACAAGAGCTTTAC
* * * * *
33686046 AGATAATTCGCCATAAGGGTTTTAC
1 AGATAATACACCACAAGAGCTTTAC
33686071 AGATAA
1 AGATAA
33686077 CTTGCCACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (25 bp):
AGATAATACACCACAAGAGCTTTAC
Found at i:33686083 original size:25 final size:25
Alignment explanation
Indices: 33686031--33686113 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
33686021 AGATAATACA
*
33686031 CCACAAGAGCTTTACAGATAA-TTCG
1 CCACAAGGGCTTTACAGATAACTT-G
* *
33686056 CCATAAGGGTTTTACAGATAACTTG
1 CCACAAGGGCTTTACAGATAACTTG
* * *
33686081 CCACAAAGGCTTTACAAATAACTCG
1 CCACAAGGGCTTTACAGATAACTTG
33686106 CCACAAGG
1 CCACAAGG
33686114 CCTAGGTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
25 46 0.96
26 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (25 bp):
CCACAAGGGCTTTACAGATAACTTG
Found at i:33690553 original size:66 final size:66
Alignment explanation
Indices: 33690447--33690579 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
33690437 CTAGCCACGC
33690447 GGCTATGTTAGTGCAGTTTGGAACCATACTGGCTCAGAGACTTACACGGCCTAGCCGCACAACCA
1 GGCTATGTTAGTGCAGTTTGGAACCATACTGGCTCAGAGACTTACACGGCCTAGCCGCACAACCA
33690512 T
66 T
33690513 GGCTATGTTAGTGCAGTTTGGAACCATACTGGCTCAGAGACTTACACGGCCTAGCCGCACAACCA
1 GGCTATGTTAGTGCAGTTTGGAACCATACTGGCTCAGAGACTTACACGGCCTAGCCGCACAACCA
33690578 T
66 T
33690579 G
1 G
33690580 TGCCCTGTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.23
Consensus pattern (66 bp):
GGCTATGTTAGTGCAGTTTGGAACCATACTGGCTCAGAGACTTACACGGCCTAGCCGCACAACCA
T
Found at i:33695690 original size:29 final size:30
Alignment explanation
Indices: 33695653--33695713 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
33695643 TATAATAAAA
*
33695653 ATTTATTTATACTTTT-CACTTA-ATTTTTT
1 ATTTATTTA-ACTTTTAAACTTACATTTTTT
* *
33695682 ATTTTTTTAATTTTTAAACTTACATTTTTT
1 ATTTATTTAACTTTTAAACTTACATTTTTT
33695712 AT
1 AT
33695714 CAAAATCGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 13 0.48
30 9 0.33
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (30 bp):
ATTTATTTAACTTTTAAACTTACATTTTTT
Found at i:33695854 original size:25 final size:24
Alignment explanation
Indices: 33695826--33695873 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
33695816 TTTTCATAAG
33695826 TTAAAAATGTTAAAAATATCTTTTT
1 TTAAAAATGTTAAAAA-ATCTTTTT
* * *
33695851 TTAATAATTTTAATAAATCTTTT
1 TTAAAAATGTTAAAAAATCTTTT
33695874 GAAGTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TTAAAAATGTTAAAAAATCTTTTT
Found at i:33697598 original size:31 final size:31
Alignment explanation
Indices: 33697563--33697623 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
33697553 CAACCTAGTG
33697563 ACTTAAATAAAAACTTTTGAATAATTCAGTA
1 ACTTAAATAAAAACTTTTGAATAATTCAGTA
* *
33697594 ACTTAAATGAAAACTTTTGAATATTTCAGT
1 ACTTAAATAAAAACTTTTGAATAATTCAGT
33697624 GACCAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTTGAATAATTCAGTA
Found at i:33698762 original size:13 final size:13
Alignment explanation
Indices: 33698753--33698788 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
33698743 TAAACTTTTT
33698753 AAAAGCACTTCTC
1 AAAAGCACTTCTC
33698766 AAAAGCACTTCTC
1 AAAAGCACTTCTC
33698779 AAAAGCACTT
1 AAAAGCACTT
33698789 TCCCACCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (13 bp):
AAAAGCACTTCTC
Found at i:33699842 original size:23 final size:23
Alignment explanation
Indices: 33699827--33699907 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
33699817 TTAATGTTCA
33699827 CGAACATGTTCATTTAATTTAAT
1 CGAACATGTTCATTTAATTTAAT
*** *
33699850 CGAACATGTTCACAAACATTAAAT
1 CGAACATGTTCATTTA-ATTTAAT
*
33699874 -GAACATGTTCATTTAACTTAAT
1 CGAACATGTTCATTTAATTTAAT
*
33699896 CCAACATGTTCA
1 CGAACATGTTCA
33699908 CGAACAATGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
22 5 0.11
23 35 0.76
24 6 0.13
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (23 bp):
CGAACATGTTCATTTAATTTAAT
Found at i:33699953 original size:4 final size:4
Alignment explanation
Indices: 33699946--33699978 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
33699936 CAAACAATAA
33699946 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
33699979 CACACATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:33712151 original size:6 final size:6
Alignment explanation
Indices: 33712140--33712165 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33712130 ATAAGAATAT
33712140 ATATAG ATATAG ATATAG ATATAG AT
1 ATATAG ATATAG ATATAG ATATAG AT
33712166 CAGTTATATG
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:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
ATATAG
Found at i:33721475 original size:30 final size:31
Alignment explanation
Indices: 33721436--33721495 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
33721426 GGAGGTGGGA
*
33721436 TGGGAAGGGAATAAAAGTTTTAGGGG-AAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGGCAAAAG
*
33721467 TGGG-AGGGAGTAAAAATTTTGGGGCAAAA
1 TGGGAAGGGAATAAAAATTTTGGGGCAAAA
33721496 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 18 0.69
31 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGGCAAAAG
Found at i:33721790 original size:9 final size:9
Alignment explanation
Indices: 33721773--33721803 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33721763 TCGAGTTGAT
33721773 TCGAATAAC
1 TCGAATAAC
*
33721782 TCGATTAAC
1 TCGAATAAC
33721791 TCGAATAAC
1 TCGAATAAC
33721800 TCGA
1 TCGA
33721804 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:33725990 original size:28 final size:28
Alignment explanation
Indices: 33725950--33726006 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
33725940 ATAAATACTT
33725950 AAGCATACATTAGACTCCCAGTTTTGAG
1 AAGCATACATTAGACTCCCAGTTTTGAG
33725978 AAGCATACATTAGACTCCCAGTTTTGAG
1 AAGCATACATTAGACTCCCAGTTTTGAG
33726006 A
1 A
33726007 CGTAGGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (28 bp):
AAGCATACATTAGACTCCCAGTTTTGAG
Found at i:33726550 original size:42 final size:42
Alignment explanation
Indices: 33726468--33726575 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
33726458 CGCTATAGAC
* * * *
33726468 AACGCCGCTAAAGATCATGACCTTTAGCGGCACTTCTACCACA
1 AACGCCACTAAAAATCATGA-CTTTAACGACACTTCTACCACA
* *
33726511 AACGCCACTAAAAATCATGACTTTAACGACACTTTTACCATA
1 AACGCCACTAAAAATCATGACTTTAACGACACTTCTACCACA
33726553 AACGCCACTAAAAA-CATGACTTT
1 AACGCCACTAAAAATCATGACTTT
33726576 TAAAAAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 9 0.15
42 32 0.54
43 18 0.31
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (42 bp):
AACGCCACTAAAAATCATGACTTTAACGACACTTCTACCACA
Found at i:33730080 original size:137 final size:134
Alignment explanation
Indices: 33729898--33730143 Score: 395
Period size: 137 Copynumber: 1.8 Consensus size: 134
33729888 TATGGAATGT
* * *
33729898 GTTACATTCAAAATATAAACAAAATATGGATATAACACTAGCTACAAAAGTAATTTAACAATATC
1 GTTACATTCAAAATAAAAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATC
* *
33729963 ATGTGGTAACAAGTTCACATGAAAGTG-AGATATGAAAGATATGCTAAAATGAAATCATTTACGG
66 ATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGACATGCTAAAATGAAATCATTTACGG
33730027 CAATA
130 CAATA
*
33730032 GTTACATTCAAAATAACAATAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAGT
1 GTTACATTCAAAAT-A-AA-AACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAAT
33730097 ATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATGC
63 ATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATGC
33730144 CATTTTCTGA
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
134 14 0.14
135 1 0.01
136 1 0.01
137 85 0.83
138 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.26
Consensus pattern (134 bp):
GTTACATTCAAAATAAAAACAAAAGATGGATATAACACTAACTACAAAAGTAATTTAACAATATC
ATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACATGCTAAAATGAAATCATTTACGGC
AATA
Found at i:33732185 original size:15 final size:15
Alignment explanation
Indices: 33732161--33732195 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
33732151 CAATAAACCG
*
33732161 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
33732175 TAAACCCATAATCCA
1 TAAACCCATAATCCA
33732190 TAAACC
1 TAAACC
33732196 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:33732222 original size:7 final size:7
Alignment explanation
Indices: 33732212--33732263 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
33732202 TAGTAACTCT
*
33732212 TAAACCT
1 TAAACCA
*
33732219 TAAACCC
1 TAAACCA
*
33732226 TACACCA
1 TAAACCA
*
33732233 TATACCA
1 TAAACCA
33732240 TAAACCA
1 TAAACCA
33732247 TAAACCA
1 TAAACCA
*
33732254 TAAACTA
1 TAAACCA
33732261 TAA
1 TAA
33732264 TCATAATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:33732248 original size:14 final size:14
Alignment explanation
Indices: 33732098--33732263 Score: 77
Period size: 14 Copynumber: 11.7 Consensus size: 14
33732088 CCCTATCCCC
* *
33732098 TAAAGCATAAATCA
1 TAAACCATAAACCA
* * *
33732112 TAAAACATAACCCC
1 TAAACCATAAACCA
*
33732126 TAAACCTTAAATCC-
1 TAAACCATAAA-CCA
* * * *
33732140 CAACCCTTAAACAA
1 TAAACCATAAACCA
*
33732154 TAAACCGTAAACCA
1 TAAACCATAAACCA
* *
33732168 TAATCCCTAAACCCA
1 TAAACCATAAA-CCA
* *
33732183 TAATCCATAAACCT
1 TAAACCATAAACCA
*
33732197 TAAA--ATAGTAACTCT
1 TAAACCATA--AAC-CA
* *
33732212 TAAACCTTAAACCC
1 TAAACCATAAACCA
* *
33732226 TACACCATATACCA
1 TAAACCATAAACCA
33732240 TAAACCATAAACCA
1 TAAACCATAAACCA
*
33732254 TAAACTATAA
1 TAAACCATAA
33732264 TCATAATTAA
Statistics
Matches: 116, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
12 3 0.03
13 1 0.01
14 86 0.74
15 24 0.21
17 2 0.02
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:33732263 original size:21 final size:21
Alignment explanation
Indices: 33732098--33732263 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 21
33732088 CCCTATCCCC
* * *
33732098 TAAAGCATAAATCATAAAACA
1 TAAACCATAAACCATAAACCA
* * *
33732119 TAACCCCTAAACCTTAAATCC-
1 TAAACCATAAACCATAAA-CCA
* * * * *
33732140 CAACCCTTAAACAATAAACCG
1 TAAACCATAAACCATAAACCA
* *
33732161 TAAACCATAATCCCTAAACCCA
1 TAAACCATAAACCATAAA-CCA
* *
33732183 TAATCCATAAACCTTAAA--A
1 TAAACCATAAACCATAAACCA
* * *
33732202 TAGTAACTCTTAAACCTTAAACCC
1 TA--AAC-CATAAACCATAAACCA
* *
33732226 TACACCATATACCATAAACCA
1 TAAACCATAAACCATAAACCA
*
33732247 TAAACCATAAACTATAA
1 TAAACCATAAACCATAA
33732264 TCATAATTAA
Statistics
Matches: 106, Mismatches: 31, Indels: 16
0.69 0.20 0.10
Matches are distributed among these distances:
19 3 0.03
20 2 0.02
21 67 0.63
22 32 0.30
24 2 0.02
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCA
Found at i:33732456 original size:21 final size:21
Alignment explanation
Indices: 33732430--33732473 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
33732420 AATGTCTAAC
33732430 CCTTAAACCCCCAAC-CTTAAA
1 CCTTAAA-CCCCAACACTTAAA
*
33732451 CCTTAAATCCCAACACTTAAA
1 CCTTAAACCCCAACACTTAAA
33732472 CC
1 CC
33732474 ATAATCCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTTAAACCCCAACACTTAAA
Found at i:33732479 original size:20 final size:20
Alignment explanation
Indices: 33732439--33732481 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
33732429 CCCTTAAACC
*
33732439 CCCAACCTTAAACCTTAAAT
1 CCCAACCTTAAACCATAAAT
33732459 CCCAACACTTAAACCAT-AAT
1 CCCAAC-CTTAAACCATAAAT
33732479 CCC
1 CCC
33732482 TAATTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (20 bp):
CCCAACCTTAAACCATAAAT
Found at i:33732503 original size:15 final size:15
Alignment explanation
Indices: 33732473--33732515 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
33732463 ACACTTAAAC
33732473 CATAATCCCT-AATT
1 CATAATCCCTAAATT
*
33732487 CATAATCCATAAATT
1 CATAATCCCTAAATT
*
33732502 CATACTCCCTAAAT
1 CATAATCCCTAAAT
33732516 CGGCCTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.33
Consensus pattern (15 bp):
CATAATCCCTAAATT
Found at i:33732980 original size:76 final size:76
Alignment explanation
Indices: 33732845--33732994 Score: 205
Period size: 76 Copynumber: 2.0 Consensus size: 76
33732835 AATGTTTTTT
*
33732845 AGCGACGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTGTTAAAAACT-CT
1 AGCGACGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTGTTAAAAA-TGCC
33732909 GCTAAAGCCCAG
65 GCTAAAGCCCAG
* * * * * *
33732921 AGCGGCGCTTTTTCAAAAATGCCGTTAAAGCCCCGAGCATTAGCGGCGCTTT-TTCAAAAATGCC
1 AGCGACGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTGTT-AAAAATGCC
33732985 GCTAAAGCCC
65 GCTAAAGCCC
33732995 CGAAAGGTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
75 3 0.05
76 62 0.95
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (76 bp):
AGCGACGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTGTTAAAAATGCCG
CTAAAGCCCAG
Found at i:33732995 original size:41 final size:41
Alignment explanation
Indices: 33732843--33732997 Score: 173
Period size: 41 Copynumber: 3.9 Consensus size: 41
33732833 AAAATGTTTT
* * * * *
33732843 TTAGCGACGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCGAGCA
*
33732884 TTAGCGGCGCTTTGTT-AAAAACT-CTGCTAAAG-CCC-AG--
1 TTAGCGGCGCTTT-TTCAAAAA-TGCCGCTAAAGCCCCGAGCA
*
33732921 --AGCGGCGCTTTTTCAAAAATGCCGTTAAAGCCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCGAGCA
33732960 TTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCGA
1 TTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCGA
33732998 AAGGTCAGAA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
34 3 0.03
35 23 0.24
36 3 0.03
37 2 0.02
39 2 0.02
40 2 0.02
41 59 0.61
42 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCGAGCA
Found at i:33733109 original size:41 final size:39
Alignment explanation
Indices: 33733040--33733129 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 39
33733030 TTTTGCGGTG
* * *
33733040 GCTAACGCTCATTTTTAGCGGCGTTTTCCAAAAAAACGCC
1 GCTAATGCTCATCTTTAGCGGCGATTTCC-AAAAAACGCC
* * **
33733080 GCTAATGCTCAATCTTTAGTGGCGATTTCCATAAAGTGCC
1 GCTAATGCTC-ATCTTTAGCGGCGATTTCCAAAAAACGCC
33733120 GCTAATGCTC
1 GCTAATGCTC
33733130 GATTTTTGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 26 0.62
41 16 0.38
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (39 bp):
GCTAATGCTCATCTTTAGCGGCGATTTCCAAAAAACGCC
Found at i:33736649 original size:18 final size:18
Alignment explanation
Indices: 33736610--33736656 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
33736600 AAGTCTTGAC
* *
33736610 AGCTTGCAGCTTCCAATG
1 AGCTTGCAACTTCCAATA
33736628 AGCTTGCAACTT-CAAGTA
1 AGCTTGCAACTTCCAA-TA
*
33736646 AGCTCGCAACT
1 AGCTTGCAACT
33736657 CACAATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (18 bp):
AGCTTGCAACTTCCAATA
Found at i:33738786 original size:12 final size:12
Alignment explanation
Indices: 33738769--33738793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33738759 TTCAGCCCAC
33738769 AGCTTGTTTGGT
1 AGCTTGTTTGGT
33738781 AGCTTGTTTGGT
1 AGCTTGTTTGGT
33738793 A
1 A
33738794 ACTTCTTCTC
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:0.12, C:0.08, G:0.32, T:0.48
Consensus pattern (12 bp):
AGCTTGTTTGGT
Found at i:33740913 original size:20 final size:20
Alignment explanation
Indices: 33740888--33740928 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33740878 TGACTGTTTA
33740888 TCTGCGATTTTGGTAGCTTG
1 TCTGCGATTTTGGTAGCTTG
33740908 TCTGCGATTTTGGTAGCTTG
1 TCTGCGATTTTGGTAGCTTG
33740928 T
1 T
33740929 TCGCAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.15, G:0.29, T:0.46
Consensus pattern (20 bp):
TCTGCGATTTTGGTAGCTTG
Found at i:33744159 original size:12 final size:12
Alignment explanation
Indices: 33744142--33744167 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33744132 CATGCGAACC
33744142 CATCTTGCACTT
1 CATCTTGCACTT
33744154 CATCTTGCACTT
1 CATCTTGCACTT
33744166 CA
1 CA
33744168 CCAAAAGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.38
Consensus pattern (12 bp):
CATCTTGCACTT
Found at i:33745619 original size:19 final size:18
Alignment explanation
Indices: 33745590--33745633 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
33745580 CATAATCTAA
*
33745590 AAAATATATTTAAAATTAAT
1 AAAA-ATATTTAAAA-AAAT
33745610 AAAAATATTTAAAAAAAT
1 AAAAATATTTAAAAAAAT
33745628 AAAAAT
1 AAAAAT
33745634 CTAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 10 0.43
20 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATATTTAAAAAAAT
Found at i:33746480 original size:18 final size:19
Alignment explanation
Indices: 33746457--33746505 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
33746447 GGAAATCTTT
*
33746457 TTTTTTTTAGAT-TTTTTA
1 TTTTTTTTAAATATTTTTA
*
33746475 -TTTTTTAAAATATTTTTA
1 TTTTTTTTAAATATTTTTA
33746493 TTTATTTTTAAAT
1 TTT-TTTTTAAAT
33746506 CCTATTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 9 0.36
18 6 0.24
19 2 0.08
20 8 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTTTAAATATTTTTA
Found at i:33747292 original size:24 final size:23
Alignment explanation
Indices: 33747239--33747318 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 23
33747229 GGATACAATG
*
33747239 AGATGAAAGGTGAAGAGTTAAGA
1 AGATGAAAGGTAAAGAGTTAAGA
33747262 AGATGAAAGGTAAAGAGTTAAGGA
1 AGATGAAAGGTAAAGAGTTAA-GA
33747286 AGATGAAAGGTGAAAG-GTTAAAGA
1 AGATGAAAGGT-AAAGAGTT-AAGA
33747310 AGATGAAAG
1 AGATGAAAG
33747319 ACTAATGGAG
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
23 20 0.38
24 27 0.51
25 6 0.11
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (23 bp):
AGATGAAAGGTAAAGAGTTAAGA
Found at i:33749462 original size:34 final size:34
Alignment explanation
Indices: 33749394--33749473 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 34
33749384 TATAGTGTAT
*
33749394 TCTAGTGTGTTGGTTGGTCTGGCTCATACGAGCA
1 TCTAGTGTGTTGGTTGGTCTGGCTCATACAAGCA
* * * *
33749428 TCTGGTGTGTTGGTTGGTTTGGCTTATTCAAGCA
1 TCTAGTGTGTTGGTTGGTCTGGCTCATACAAGCA
*
33749462 TCTAGTGGGTTG
1 TCTAGTGTGTTG
33749474 AATGGTTAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.12, C:0.14, G:0.34, T:0.40
Consensus pattern (34 bp):
TCTAGTGTGTTGGTTGGTCTGGCTCATACAAGCA
Found at i:33750542 original size:21 final size:21
Alignment explanation
Indices: 33750497--33750543 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
33750487 TCCACGGGCT
* *
33750497 ACACGGGCGTGTGGAGTAGCT
1 ACACGGGCGTGTGGAATAGCC
* *
33750518 ACACTGGCGTGTGGAATGGCC
1 ACACGGGCGTGTGGAATAGCC
33750539 ACACG
1 ACACG
33750544 ACCATGTTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.17
Consensus pattern (21 bp):
ACACGGGCGTGTGGAATAGCC
Found at i:33755946 original size:23 final size:24
Alignment explanation
Indices: 33755911--33755982 Score: 87
Period size: 23 Copynumber: 3.1 Consensus size: 24
33755901 AAGGGATTAC
*
33755911 AAGG-AGATGAAAGGTGAAGAG-TT
1 AAGGAAGATCAAAGGTGAA-AGTTT
33755934 AAGGAAGA-CAAAGGTGAAAGTTT
1 AAGGAAGATCAAAGGTGAAAGTTT
* *
33755957 AAGGAAGATGAAAGGTGAAAGGTT
1 AAGGAAGATCAAAGGTGAAAGTTT
33755981 AA
1 AA
33755983 ACATCCACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 2 0.05
23 23 0.53
24 18 0.42
ACGTcount: A:0.47, C:0.01, G:0.35, T:0.17
Consensus pattern (24 bp):
AAGGAAGATCAAAGGTGAAAGTTT
Found at i:33764872 original size:13 final size:13
Alignment explanation
Indices: 33764854--33764878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33764844 ACCAAACTTT
33764854 TCAAAAGTATTTC
1 TCAAAAGTATTTC
33764867 TCAAAAGTATTT
1 TCAAAAGTATTT
33764879 TTTCACAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
TCAAAAGTATTTC
Found at i:33768317 original size:19 final size:19
Alignment explanation
Indices: 33768287--33768336 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
33768277 TAAACACTTT
*
33768287 AAAATTCAAAAA-ATAAAA
1 AAAATTTAAAAATATAAAA
33768305 AATAATTTTAAAAATATAAAA
1 AA-AA-TTTAAAAATATAAAA
33768326 AAAATTTAAAA
1 AAAATTTAAAA
33768337 TTCTGACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 9 0.32
20 9 0.32
21 8 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATTTAAAAATATAAAA
Found at i:33774053 original size:15 final size:17
Alignment explanation
Indices: 33774018--33774055 Score: 53
Period size: 15 Copynumber: 2.3 Consensus size: 17
33774008 CAGCCTCTGC
33774018 CCTCGCACGCGCACAACG
1 CCTC-CACGCGCACAACG
33774036 CCTCCACGC-CAC-ACG
1 CCTCCACGCGCACAACG
33774051 CCTCC
1 CCTCC
33774056 GTACACTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 3 0.15
17 5 0.25
18 4 0.20
ACGTcount: A:0.18, C:0.58, G:0.16, T:0.08
Consensus pattern (17 bp):
CCTCCACGCGCACAACG
Found at i:33775169 original size:3 final size:3
Alignment explanation
Indices: 33775157--33775247 Score: 62
Period size: 3 Copynumber: 30.3 Consensus size: 3
33775147 TCCCTTTCAT
* * * * * *
33775157 TTA TTA -TA TTA TTA CTA CTA CTA TTA CTA TTA TTA GTA TTA -TA TTTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
33775204 TTA TTA TTA CTTA CTTA CT- TTA TTA TTA TTA TTA TTA TAA TTA T
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33775248 CTACTCATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.07
3 58 0.82
4 8 0.11
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:33775595 original size:30 final size:32
Alignment explanation
Indices: 33775520--33775605 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 32
33775510 TAATACATAC
*
33775520 ATATATATATACATACGTATATTATTTTTATA
1 ATATATATATACATACGTATATTATTTTGATA
*
33775552 ATATATCTATATACATAC-T-T-TTATTTTCGCTA
1 ATATA--TATATACATACGTATATTATTTT-GATA
33775584 ATATATATATACTTATACGTAT
1 ATATATATATAC--ATACGTAT
33775606 TTCTTATCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
30 7 0.16
31 7 0.16
32 17 0.38
33 2 0.04
34 12 0.27
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.49
Consensus pattern (32 bp):
ATATATATATACATACGTATATTATTTTGATA
Found at i:33793974 original size:13 final size:13
Alignment explanation
Indices: 33793937--33793986 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
33793927 CCAAAGTGCC
*
33793937 TAAAAACACACTT
1 TAAAAACATACTT
33793950 TACAAAACCATACTT
1 TA-AAAA-CATACTT
33793965 TAAAAACATA-TCT
1 TAAAAACATACT-T
33793978 T-AAAACATA
1 TAAAAACATA
33793987 TGCTCGCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 9 0.27
13 8 0.24
14 8 0.24
15 8 0.24
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAACATACTT
Found at i:33794038 original size:14 final size:13
Alignment explanation
Indices: 33794008--33794053 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
33793998 GAGCAGGCGT
33794008 AAAACATATATTTA
1 AAAACATATA-TTA
* *
33794022 AAATCATATCTTA
1 AAAACATATATTA
*
33794035 AAAACATATATTG
1 AAAACATATATTA
33794048 AAAACA
1 AAAACA
33794054 AAGTTTCAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 19 0.70
14 8 0.30
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (13 bp):
AAAACATATATTA
Found at i:33794871 original size:27 final size:27
Alignment explanation
Indices: 33794841--33794904 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
33794831 GATATTCATT
33794841 TGGCGAACACCC-AGTTCGCCGAAGCAC
1 TGGCGAAC-CCCTAGTTCGCCGAAGCAC
**
33794868 TGGCGAACCCCTAGTTCGGTGAAGCAC
1 TGGCGAACCCCTAGTTCGCCGAAGCAC
* *
33794895 TAGTGAACCC
1 TGGCGAACCC
33794905 TCACTTGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.25, C:0.33, G:0.27, T:0.16
Consensus pattern (27 bp):
TGGCGAACCCCTAGTTCGCCGAAGCAC
Found at i:33798424 original size:61 final size:62
Alignment explanation
Indices: 33798355--33798473 Score: 152
Period size: 61 Copynumber: 1.9 Consensus size: 62
33798345 AGTGATTATC
* * * *
33798355 TTAATATTAAATTCAATTTAATGTTTATCTACA-AGATAAACAT-ATATTATTTTAATAAGAT
1 TTAATATTAAAAT-AATATAATATTTATCTACATAGATAAACATAATATTAATTTAATAAGAT
** *
33798416 TTAATATTAAAATAATATAATATTTATCTTGATAGATAAATATAATATTAATTTAATA
1 TTAATATTAAAATAATATAATATTTATCTACATAGATAAACATAATATTAATTTAATA
33798474 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 15 0.31
61 21 0.43
62 13 0.27
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (62 bp):
TTAATATTAAAATAATATAATATTTATCTACATAGATAAACATAATATTAATTTAATAAGAT
Found at i:33798632 original size:24 final size:25
Alignment explanation
Indices: 33798585--33798632 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33798575 TTATTGAGAG
* *
33798585 AAAATTTTCTGAAGAGATTATTTCA
1 AAAAATTTCTAAAGAGATTATTTCA
*
33798610 AAAAATTTCTAAAGATATT-TTTC
1 AAAAATTTCTAAAGAGATTATTTC
33798633 TAATTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (25 bp):
AAAAATTTCTAAAGAGATTATTTCA
Found at i:33801202 original size:30 final size:30
Alignment explanation
Indices: 33801157--33801213 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33801147 AATATGATTT
* *
33801157 AATATAAATAATATTTTTAAT-TTTTAGAA
1 AATATAAAAAATATTTTAAATATTTTAGAA
33801186 AATATAAAAAAATATTTTAAATATTTTA
1 AATAT-AAAAAATATTTTAAATATTTTA
33801214 ATATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 14 0.58
31 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
AATATAAAAAATATTTTAAATATTTTAGAA
Found at i:33802327 original size:16 final size:18
Alignment explanation
Indices: 33802275--33802320 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
33802265 ATTAGTTTAC
*
33802275 ATTTTTGTATTATCAAAT
1 ATTTTTGTAATATCAAAT
33802293 ATTTTTGTAATATCAAAT
1 ATTTTTGTAATATCAAAT
33802311 ATTTTTGTAA
1 ATTTTTGTAA
33802321 ACAAATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (18 bp):
ATTTTTGTAATATCAAAT
Found at i:33802457 original size:16 final size:16
Alignment explanation
Indices: 33802436--33802469 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33802426 TATATATTTT
33802436 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
33802452 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
33802468 AA
1 AA
33802470 CTAGTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:33805540 original size:18 final size:19
Alignment explanation
Indices: 33805508--33805550 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
33805498 TTAGAAACTG
33805508 TTTTTATCATACATTCAA-A
1 TTTTTATCATACATT-AATA
33805527 TTTTTATCAT-CATTAATA
1 TTTTTATCATACATTAATA
33805545 TTTTTA
1 TTTTTA
33805551 AAAATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.09
18 11 0.48
19 10 0.43
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTATCATACATTAATA
Found at i:33808457 original size:2 final size:2
Alignment explanation
Indices: 33808450--33808474 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33808440 TAAGGTTCTT
33808450 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
33808475 AGCAAAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Done.