Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 50 of 85
Found at i:17202550 original size:132 final size:131
Alignment explanation
Indices: 17202313--17206062 Score: 5171
Period size: 132 Copynumber: 28.4 Consensus size: 131
17202303 NNNNNNNNNN
* *
17202313 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCAATGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
** *
17202378 ACAGAACTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGGGC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17202443 AA
130 AG
* *
17202445 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATC
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * ** *
17202510 GTAGATTTTACCTCCCTAAGGTTACAGTACAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17202575 AC
130 AG
17202577 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATC
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * ** *
17202642 GTAGATTTTACCTCCCTAAGGTTACAGTATAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17202707 AC
130 AG
* *
17202709 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCAATGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
** * * *
17202774 ACAGAACTTCCCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGCGC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17202839 AA
130 AG
* * *
17202841 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAGGGGAGCAGATCAAAGATC
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * ** *
17202906 GTAGATTTTACCTCCCTAAGGTTACAGTATAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17202971 AC
130 AG
* *
17202973 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCAATGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
** * * *
17203038 ACAGAACTTCCCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGCGC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17203103 AA
130 AG
* * *
17203105 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAGGGGAGCAGATCAAAGATC
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * ** *
17203170 GTAGATTTTACCTCCCTAAGGTTACAGTATAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17203235 AC
130 AG
* *
17203237 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCAATGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
** * * *
17203302 ACAGAACTTCCCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGCGC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17203367 AA
130 AG
* * *
17203369 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAGGGGAGCAGATCAAAGATC
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * ** *
17203434 GTAGATTTTACCTCCCTAAGGTTACAGTATAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17203499 AC
130 AG
* *
17203501 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCAATGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
** * * *
17203566 ACAGAACTTCCCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGCGC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17203631 AA
130 AG
* * *
17203633 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAGGGGAGCAGATCAAAGATC
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * ** *
17203698 GTAGATTTTACCTCCCTAAGGTTACAGTATAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17203763 AC
130 AG
* * *
17203765 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * * *
17203830 GCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGATGCCAGTAATTCTATCTCCCTAGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17203895 AA
130 AG
* * * *
17203897 CAGTGGAATAGATTGAAGATTACAAATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTAATGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * * *
17203962 GCAGATTTTACCTACTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATGTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17204027 AG
130 AG
*
17204029 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * * * * *
17204094 GTAGATTTTACCACCTTGAGGTTACAGTGGAGTACAATGAAGCCAATAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17204159 AG
130 AG
** *
17204161 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAAAAGTAGTGGAGCAGATCAAGGTTG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA---AG
* * *** *
17204226 ATGGCCGATTTTACCTCCCTGAGGTTACAGTTGAGTACATTGAAGTTTGTAATTCTATCTCCCTA
63 AT-GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
*
17204291 GGAAG
127 GGCAG
* * *
17204296 CAGTGGAATAGATTTAAGATTACAGATCTTATCTCCCTAAGCAGTGGTGGAGTAGATCAAAGATA
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
** * *
17204361 GTGGATTTTAGCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAATCTATCTCCCTGGGC
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17204426 AG
130 AG
* ** *
17204428 CAGTGTAATAGAGCGAAGATTACAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATA
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * *
17204493 GTAGATTTTACCTCCCT-ATGGTTACAGTGGAGTACCTTGAAGCCAGTAATTCTATCTCCCTGAG
65 GCAGATTTTACCTCCCTGA-GGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
17204557 CAG
129 CAG
* *
17204560 CAGTTGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAATGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * * * * *
17204625 GCAGATTTTACCTGCCTGATGTGACAGTGGAGTATAATGAAGCCAGTAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17204690 AG
130 AG
**
17204692 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCATGGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* * * * *
17204757 ATAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAATCCAATAATTCTATCTCCCTAGCC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
*
17204822 TG
130 AG
* * *
17204824 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGCGGAGCAGATCAAGGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
*
17204889 ACAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGGGC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17204954 AG
130 AG
* * *
17204956 CAGTGTAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAGTAGTGGAGCAGATCAAGGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* *
17205021 ACAGATTTTACCTCCCTTAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGGGC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17205086 AG
130 AG
* * * * *
17205088 CAGTGTAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGCGGAGCAGATTAAGGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* *
17205153 ACAGATTTTACCTCCCTTAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCTCTGGGC
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17205218 AG
130 AG
* * * * *
17205220 CAGTGTAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAGTAGCGGAGCAGATTAAGGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* * * *
17205285 ACAGATTTTACCTCCCTTAGGTTACAGTGGAGTACATTGAAGCGAGTAATTCTATCTCTCTGGGT
66 -CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17205350 AG
130 AG
* *
17205352 CAGTGTAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * * * * *
17205417 GTAGTTTTTACCTCCATAAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTGGGT
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17205482 AG
130 AG
* * * *
17205484 CAGTGGAATAGATTGAAGATTACAAATCTTATCTCCGTAAACAGTAGTGGAGCAGATCAAGGTTG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA---AG
* * * *
17205549 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTCAGTAAATCTATCTCCCCG
63 AT-GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
17205614 GGCAG
127 GGCAG
*
17205619 CAGTGGAATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
** * * * *
17205684 GTGGATTTTAGCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAATAAATCTATCTCCCTGGGC
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17205749 AG
130 AG
* * * * * * * * *
17205751 CAGTGTAGTATATCGAAAACTACAAATCTTATCTCCCTAAGCTGTAGTGGAGCAGATCAAATATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * * * * *
17205816 GTAGATTTTACCTCCCTAACGTTACAGTGCAGTACATTGAAGCCAGTAATTCTGTCTCCCAGGGC
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17205881 AG
130 AG
* * *
17205883 CAGTGGAATAGATTGAAGATTACAGATCCTATCTCCCAAAGCAGTAGTGGAGCAGATCAAGGATG
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT-
* * * *
17205948 GTAGATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAGGCCAATAATTCTATCTCCCTGGGC
65 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
17206013 AG
130 AG
* *
17206015 CAGTGGAATAGATTGAAGATTACAGATCTGATCTCCCTAAGCCGTAGT
1 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
17206063 NNNNNNNNNN
Statistics
Matches: 3244, Mismatches: 355, Indels: 38
0.89 0.10 0.01
Matches are distributed among these distances:
131 6 0.00
132 3001 0.93
133 7 0.00
135 230 0.07
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (131 bp):
CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
G
Found at i:17203798 original size:44 final size:44
Alignment explanation
Indices: 17202313--17205656 Score: 417
Period size: 44 Copynumber: 75.9 Consensus size: 44
17202303 NNNNNNNNNN
* * ** *
17202313 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * *
17202357 TAGTGGAGCAGA-TCAATGATGACAGAACTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GG-TAG
* * * * * *
17202402 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCTCTGGGCAA
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * * ** *
17202445 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * ** *** * * *
17202489 TAGTGGAGCAGATCAAAGATCGTAGATTTTACCTCCCTAAGGTTA-
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT--GGGTAG
** * * * *
17202534 CAGTACAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAC
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* ** *
17202577 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * ** *** * * *
17202621 TAGTGGAGCAGATCAAAGATCGTAGATTTTACCTCCCTAAGGTTA-
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT--GGGTAG
** * * * *
17202666 CAGTATAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAC
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * ** *
17202709 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * **
17202753 TAGTGGAGCAGA-TCAATGATGACAGAACTTCCCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GG-TAG
* * * * * * *
17202798 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCTCTGCGCAA
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * * ** *
17202841 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * ** *** * * *
17202885 TAGGGGAGCAGATCAAAGATCGTAGATTTTACCTCCCTAAGGTTA-
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT--GGGTAG
** * * * *
17202930 CAGTATAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAC
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * ** *
17202973 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * **
17203017 TAGTGGAGCAGA-TCAATGATGACAGAACTTCCCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GG-TAG
* * * * * * *
17203062 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCTCTGCGCAA
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * * ** *
17203105 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * ** *** * * *
17203149 TAGGGGAGCAGATCAAAGATCGTAGATTTTACCTCCCTAAGGTTA-
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT--GGGTAG
** * * * *
17203194 CAGTATAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAC
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * ** *
17203237 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * **
17203281 TAGTGGAGCAGA-TCAATGATGACAGAACTTCCCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GG-TAG
* * * * * * *
17203326 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCTCTGCGCAA
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * * ** *
17203369 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * ** *** * * *
17203413 TAGGGGAGCAGATCAAAGATCGTAGATTTTACCTCCCTAAGGTTA-
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT--GGGTAG
** * * * *
17203458 CAGTATAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAC
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * ** *
17203501 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * **
17203545 TAGTGGAGCAGA-TCAATGATGACAGAACTTCCCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GG-TAG
* * * * * * *
17203590 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCTCTGCGCAA
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * * ** *
17203633 CAGTGTAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * ** *** * * *
17203677 TAGGGGAGCAGATCAAAGATCGTAGATTTTACCTCCCTAAGGTTA-
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT--GGGTAG
** * * * *
17203722 CAGTATAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAC
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * *
17203765 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * ** * * *
17203809 TAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTG-GG-TAG
* * * * * *
17203854 CAGTGGAGTACATTGATGCCAGTA-A-TTC-TATCTCCCTAGGTAA
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * * ** *
17203897 CAGTGGAATAGATTGAAGATTACAAATCTTATCTCCTTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * ** * * * *
17203941 TAGTGGAGCAGATT-AATGATGGCAGATTTTACCTACTTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GG-TAG
* * * *
17203986 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATGTCCCTGGGTAG
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* ** *
17204029 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * *** * * * *
17204073 TAGTGGAGCAGA-TCAAGGATGGTAGATTTTACCACCTTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GG-TAG
* * * *
17204118 CAGTGGAGTACAATGAAGCCAATA-A-TTC-TATCTCCCTGGGTAG
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* ****
17204161 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAAAAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * * *
17204205 TAGTGGAGCAGA-TCAAGGTTGATGGCCGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGATT-A---CAGATCTTATCTCCCTG-GG-TAG
* * * ** * *
17204253 CAGTTGAGTACATTGAAGTTTGTA-AT-TCTATCTCCCTAGGAAG
1 CAGTGGAGTAGATTGAAGATTACAGATCT-TATCTCCCTGGGTAG
* * ** *
17204296 CAGTGGAATAGATTTAAGATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
** ** ** * *
17204340 TGGTGGAGTAGATCAAAGA-TAGTGGATTTTAGCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGATTA-CAGATCTTATCTCCCTG-GG-TAG
* * *
17204385 CAGTGGAGTACATTGAAGCCAGTA-A-ATC-TATCTCCCTGGGCAG
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * ** * ** *
17204428 CAGTGTAATAGAGCGAAGATTACAGATCTCATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * ** * * * *
17204472 TAGTGGAGCAGATCAAAGA-TAGTAGATTTTACCTCCCTATGGTTA-
1 CAGTGGAGTAGATTGAAGATTA-CAGATCTTATCTCCC--TGGGTAG
** * * * *
17204517 CAGTGGAGTACCTTGAAGCCAGTA-A-TTC-TATCTCCCTGAGCAG
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * ** *
17204560 CAGTTGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * ** * * * *
17204604 TAGTGGAGCAGA-TCAATGATGGCAGATTTTACCTGCCTGATGT-G
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GGTAG
* * * *
17204648 ACAGTGGAGTATAATGAAGCCAGTA-A-TTC-TATCTCCCTGGGTAG
1 -CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* ** *
17204692 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * *
17204736 TAGTGGAGCAGATCATG--GATGATAGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGAT--TGAAGATTACAGATCTTATCTCCCTG-GG-TAG
* * * * **
17204781 CAGTGGAGTACATTGAATCCAATA-A-TTC-TATCTCCCTAGCCT-G
1 CAGTGGAGTAGATTGAA--GATTACAGATCTTATCTCCCT-GGGTAG
* * ** *
17204824 CAGTGGAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * * *
17204868 TAGCGGAGCAGA-TCAAGGATGACAGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCCTG-GG-TAG
* * * * *
17204913 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCTCTGGGCAG
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * ****
17204956 CAGTGTAATAGATTGAAGATTACAGATCTTATCTCCCTAACCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * * *
17205000 TAGTGGAGCAGA-TCAAGGATGACAGATTTTACCTCCCTTAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCC-T-GGGTAG
* * * * *
17205045 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCTCTGGGCAG
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * * ** *
17205088 CAGTGTAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * * *
17205132 TAGCGGAGCAGATT-AAGGATGACAGATTTTACCTCCCTTAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCC-T-GGGTAG
* * * * *
17205177 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCTCTGGGCAG
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* * * ** *
17205220 CAGTGTAATAGATTGAAGATTACAGATCTTATCCCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * * *
17205264 TAGCGGAGCAGATT-AAGGATGACAGATTTTACCTCCCTTAGGTTA-
1 CAGTGGAGTAGATTGAA-GATTACAGATCTTATCTCCC-T-GGGTAG
* * * *
17205309 CAGTGGAGTACATTGAAGCGAGTA-A-TTC-TATCTCTCTGGGTAG
1 CAGTGGAGTAGATTGAA--GATTACAGATCTTATCTCCCTGGGTAG
* * ** *
17205352 CAGTGTAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * ** * *** * * * * *
17205396 TAGTGGAGCAGATCAAATATGGTAGTTTTTACCTCCATAAGGTTA-
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT--GGGTAG
* * *
17205441 CAGTGGAGTACATTGAAG-CTAGTA-AT-TCTATCTCCCTGGGTAG
1 CAGTGGAGTAGATTGAAGATTA-CAGATCT-TATCTCCCTGGGTAG
* * * ****
17205484 CAGTGGAATAGATTGAAGATTACAAATCTTATCTCCGTAAACAG
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
* * * * * * *
17205528 TAGTGGAGCAGA-TCAAGGTTGATGGCGGATTTTACCTCCCTGAGGTTA-
1 CAGTGGAGTAGATTGAAGATT-A---CAGATCTTATCTCCCTG-GG-TAG
* * * *
17205576 CAGTGGAGTACATTGAAGTCAGTA-A-ATC-TATCTCCCCGGGCAG
1 CAGTGGAGTAGATTGAAG--ATTACAGATCTTATCTCCCTGGGTAG
* *
17205619 CAGTGGAATAGATTGAATATTACAGATCTTATCTCCCT
1 CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCT
17205657 AAGCAGTAGT
Statistics
Matches: 2181, Mismatches: 878, Indels: 482
0.62 0.25 0.14
Matches are distributed among these distances:
41 70 0.03
42 79 0.04
43 497 0.23
44 1074 0.49
45 291 0.13
46 78 0.04
47 57 0.03
48 21 0.01
49 12 0.01
50 1 0.00
51 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CAGTGGAGTAGATTGAAGATTACAGATCTTATCTCCCTGGGTAG
Found at i:17206678 original size:132 final size:131
Alignment explanation
Indices: 17206360--17206798 Score: 572
Period size: 132 Copynumber: 3.3 Consensus size: 131
17206350 NNNNNNNNNN
*
17206360 AGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGA
1 AGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGAAGCAGTGGAATAGATTGA
* * * * *
17206425 AGATTACAAATCTTATCTCCGTAAACAGTAGTGGAGCAGATCAAGGTTGATGGCGGATTTTACCT
65 AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAA---AGATGGTGGATTTTACCT
17206490 CCCTG
127 CCCTG
*** *
17206495 AGGTTACAGTGGAGTACATTGAAGTTTGTAATTCTATCTCCCTAGGAAGCAGTGGAATAGATTTA
1 AGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGAAGCAGTGGAATAGATTGA
* * * * * *
17206560 AAATTACGGATCTTATCTCCCTAAGCAGTGGCGGAGTAGATCAAAGATGGTGGATTTTAGCTCCC
65 AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCC
17206625 TG
130 TG
* * * ** * **
17206627 AGGTTACAGTGGAGTACATTGATGCCAATAAATCTATCGGCCTGGACAGCAGTGTAATAGAGCGA
1 AGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGA-AGCAGTGGAATAGATTGA
* *
17206692 AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTAGATTTTACCTCCC
65 AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCC
*
17206757 TA
130 TG
*
17206759 AGGTTACAGTGGAGTACCTTGAAGCCAGTAATTCTATCTC
1 AGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
17206799 NNNNNNNNNN
Statistics
Matches: 259, Mismatches: 44, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
131 3 0.01
132 161 0.62
135 95 0.37
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (131 bp):
AGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGAAGCAGTGGAATAGATTGAA
GATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGATTTTACCTCCCT
G
Found at i:17207109 original size:44 final size:44
Alignment explanation
Indices: 17206934--17207110 Score: 121
Period size: 44 Copynumber: 4.0 Consensus size: 44
17206924 NNNNNNNNNN
17206934 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGG
** ** * **** * *
17206978 AGCAGATCAAAGATGGTGGATTTTATCTCCCTGAG--GTTACAGTGG
1 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAG-T--AGTGG
* * * ** *
17207023 AGTACATTGAAGTCAGTA-A-ATC-TATCTCCCTGGGCAGCAGTGG
1 AATAGATTGAA-T-ATTACAGATCTTATCTCCCTAAGCAGTAGTGG
17207066 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGG
17207110 A
1 A
17207111 GCAGATCAAA
Statistics
Matches: 94, Mismatches: 29, Indels: 20
0.66 0.20 0.14
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 18 0.19
44 54 0.57
45 14 0.15
46 1 0.01
47 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGG
Found at i:17207175 original size:132 final size:132
Alignment explanation
Indices: 17206934--17207257 Score: 540
Period size: 132 Copynumber: 2.5 Consensus size: 132
17206924 NNNNNNNNNN
17206934 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGAT
1 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGAT
* * *
17206999 TTTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGTCAGTAAATCTATCTCCCTGGGCAGCAGT
66 TTTAGCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAAATCTATCTCCCTGGGCAGCAGT
17207064 GG
131 GG
17207066 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGAT
1 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGAT
*
17207131 TTTAGCTCCCTGAGGTTACAGTGGTGTACATTGAAGCCAATAAATCTATCTCCCTGGGCAGCAGT
66 TTTAGCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAAATCTATCTCCCTGGGCAGCAGT
*
17207196 GT
131 GG
* * * * * * *
17207198 AGTATATCGAAGACTACAAATCTTATCTCCCTAAGCAGAAGTGGAGCAGATCAAAGATGG
1 AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
17207258 NNNNNNNNNN
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 180 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
AATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGGAT
TTTAGCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAAATCTATCTCCCTGGGCAGCAGT
GG
Found at i:17228060 original size:44 final size:44
Alignment explanation
Indices: 17228012--17228214 Score: 146
Period size: 44 Copynumber: 4.6 Consensus size: 44
17228002 CTAGTAATTC
* *
17228012 TATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTAAAGATTACAGATCT
* * * * * * *
17228056 TATCTCCCTAAGTAGCAGTGGAGCAGATCAAGGATGACAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTAAAGATTACAGATCT
* * * * * *
17228100 TA-CTTCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGT--AGTTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTAAAG--ATTACAGATCT
* * * *
17228143 TATCTCCCTAGGCAGTAGTGGAATAGATTGACGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTAAAGATTACAGATCT
* *
17228187 TATCTCCCAAGGCAGTAGTGGAGTAGAT
1 TATCTCCCTAGGCAGCAGTGGAGTAGAT
17228215 CGAAGATGGC
Statistics
Matches: 120, Mismatches: 30, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 28 0.23
44 86 0.72
45 2 0.02
46 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAGTAGATTAAAGATTACAGATCT
Found at i:17228168 original size:131 final size:131
Alignment explanation
Indices: 17227904--17228308 Score: 555
Period size: 131 Copynumber: 3.1 Consensus size: 131
17227894 NNNNNNNNNN
* * *
17227904 AGATTTAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGTGCAGATCAAGGATGGCGGATTTT
1 AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCAGA-TTT
* * * *
17227969 TCCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTGGGCAGCAGTGGA
65 TACTTCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGA
17228034 AT
130 AT
* * *
17228036 AGATTAAAGATTACAGATCTTATCTCCCTAAGTAGCAGTGGAGCAGATCAAGGATGACAGATTTT
1 AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCAGATTTT
* *
17228101 ACTTCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTAGGCAGTAGTGGAA
66 ACTTCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAA
17228166 T
131 T
* * *
17228167 AGATTGACGATTACAGATCTTATCTCCC-AAGGCAGTAGTGGAGTAGATCGAA-GATGGCAGATT
1 AGATTAAAGATTACAGATCTTATCTCCCTAA-GCAGTAGTGGAGCAGATC-AAGGATGGCAGATT
* * * *
17228230 TTACCTCCTTGATGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCT-GGTCGGCAGT
64 TTACTTCC-TGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGG-CAGCAGT
17228294 GGAAT
127 GGAAT
* *
17228299 CGATCAAAGA
1 AGATTAAAGA
17228309 AAGTAGATCT
Statistics
Matches: 241, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
130 2 0.01
131 124 0.51
132 115 0.48
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (131 bp):
AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCAGATTTT
ACTTCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGCAGTGGAA
T
Found at i:17228228 original size:44 final size:44
Alignment explanation
Indices: 17228143--17228237 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
17228133 CCAGTAGTTC
* * * *
17228143 TATCTCCCTAGGCAGTAGTGGAATAGATTGACGATTACAGATCT
1 TATCTCCCAAGGCAGTAGTGGAATAGATCGAAGATGACAGATCT
* * *
17228187 TATCTCCCAAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCAAGGCAGTAGTGGAATAGATCGAAGATGACAGATCT
*
17228231 TACCTCC
1 TATCTCC
17228238 TTGATGTTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCAAGGCAGTAGTGGAATAGATCGAAGATGACAGATCT
Found at i:17228319 original size:132 final size:130
Alignment explanation
Indices: 17227904--17228308 Score: 562
Period size: 132 Copynumber: 3.1 Consensus size: 130
17227894 NNNNNNNNNN
* * *
17227904 AGATTTAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGTGCAGATCAAGGATGGCGGATTTT
1 AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCAGATTTT
* *
17227969 TCCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTGGGCAGCAGTGGA
66 ACCT-CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGCAGCAGTGGA
17228034 AT
129 AT
* * *
17228036 AGATTAAAGATTACAGATCTTATCTCCCTAAGTAGCAGTGGAGCAGATCAAGGATGACAGATTTT
1 AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCAGATTTT
* * *
17228101 ACTTCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTAGGCAGTAGTGGAA
66 ACCTCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT-GGCAGCAGTGGAA
17228166 T
130 T
* * *
17228167 AGATTGACGATTACAGATCTTATCTCCC-AAGGCAGTAGTGGAGTAGATCGAA-GATGGCAGATT
1 AGATTAAAGATTACAGATCTTATCTCCCTAA-GCAGTAGTGGAGCAGATC-AAGGATGGCAGATT
* * *
17228230 TTACCTCCTTGATGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGTCGGCAGTG
64 TTACCTCC-TGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGG-CAGCAGTG
17228295 GAAT
127 GAAT
* *
17228299 CGATCAAAGA
1 AGATTAAAGA
17228309 AAGTAGATCT
Statistics
Matches: 241, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
130 2 0.01
131 118 0.49
132 121 0.50
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (130 bp):
AGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCAGATTTT
ACCTCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGCAGCAGTGGAAT
Found at i:17229797 original size:14 final size:14
Alignment explanation
Indices: 17229769--17229810 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
17229759 AAATTATTCC
17229769 TCTGTTTTGTTAATT
1 TCTGTTTT-TTAATT
17229784 TCTGTTTTTTAA-T
1 TCTGTTTTTTAATT
*
17229797 TC-GTTTTTTTATT
1 TCTGTTTTTTAATT
17229810 T
1 T
17229811 ATTTTTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 8 0.32
13 5 0.20
14 4 0.16
15 8 0.32
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.71
Consensus pattern (14 bp):
TCTGTTTTTTAATT
Found at i:17244397 original size:27 final size:27
Alignment explanation
Indices: 17244322--17244390 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
17244312 CCTTCAAGGA
*
17244322 TATTTCGGTCATTTTACCCTATGTGGG
1 TATTTCAGTCATTTTACCCTATGTGGG
*
17244349 TATTTCAATCATTTTACCCTATG-GGG
1 TATTTCAGTCATTTTACCCTATGTGGG
17244375 TTATTTCAGTCATTTT
1 -TATTTCAGTCATTTT
17244391 CATCTATTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (27 bp):
TATTTCAGTCATTTTACCCTATGTGGG
Found at i:17245500 original size:24 final size:25
Alignment explanation
Indices: 17245461--17245510 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
17245451 CCTCCCCAAA
*
17245461 TCCCAATATTCTCTCCTCAAATCTC
1 TCCCAATATGCTCTCCTCAAATCTC
*
17245486 TCCCAATATGC-CTCCTCAATTCTC
1 TCCCAATATGCTCTCCTCAAATCTC
17245510 T
1 T
17245511 TTATGACCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.22, C:0.40, G:0.02, T:0.36
Consensus pattern (25 bp):
TCCCAATATGCTCTCCTCAAATCTC
Found at i:17246680 original size:15 final size:15
Alignment explanation
Indices: 17246660--17246688 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17246650 ATATTGTTGT
17246660 TTGATAACATGGTGA
1 TTGATAACATGGTGA
17246675 TTGATAACATGGTG
1 TTGATAACATGGTG
17246689 TGTGAAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGATAACATGGTGA
Found at i:17254083 original size:20 final size:20
Alignment explanation
Indices: 17254058--17254098 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17254048 TCAACATAGA
17254058 TAGGCTACGAGAGTTGAGGC
1 TAGGCTACGAGAGTTGAGGC
17254078 TAGGCTACGAGAGTTGAGGC
1 TAGGCTACGAGAGTTGAGGC
17254098 T
1 T
17254099 GGTTTTACTT
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:0.24, C:0.15, G:0.39, T:0.22
Consensus pattern (20 bp):
TAGGCTACGAGAGTTGAGGC
Found at i:17265339 original size:27 final size:27
Alignment explanation
Indices: 17265309--17265464 Score: 179
Period size: 27 Copynumber: 5.8 Consensus size: 27
17265299 GACCCCTGTA
** *
17265309 GGGTAAAATTGCCGAGATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTCGAT
* *
17265336 GGGTACAGTTATCGAAATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTCGAT
* *
17265363 GGGTAAAATTATAGAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCGAT
* * *
17265390 GGGTAAAATTATCAAAATACCCCCGAA
1 GGGTAAAATTATCGAAATACCCTCGAT
* *
17265417 GGGTAAAATGATCGAAATACCCTTG-T
1 GGGTAAAATTATCGAAATACCCTCGAT
* *
17265443 GGGTAAAATTACCAAAATACCC
1 GGGTAAAATTATCGAAATACCC
17265465 CTATAAAATG
Statistics
Matches: 107, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 19 0.18
27 88 0.82
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTCGAT
Found at i:17274579 original size:27 final size:27
Alignment explanation
Indices: 17274549--17274674 Score: 103
Period size: 27 Copynumber: 4.7 Consensus size: 27
17274539 ACCCCTGTAG
*
17274549 GGTAAAATTACCAAGATACCCTC-ATTA
1 GGTAAAATTACCAAAATACCCTCGA-TA
* * *
17274576 GGTAAAATTTCTAAAATACCCTCGATG
1 GGTAAAATTACCAAAATACCCTCGATA
** *
17274603 GGTAAAATTATGAAAATACCCCCGA-A
1 GGTAAAATTACCAAAATACCCTCGATA
* ** * *
17274629 GGGTAAAATGACTGAAATACCCTTGATG
1 -GGTAAAATTACCAAAATACCCTCGATA
*
17274657 GGTAAAATTACCGAAATA
1 GGTAAAATTACCAAAATA
17274675 GGCCTACAGG
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
27 77 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (27 bp):
GGTAAAATTACCAAAATACCCTCGATA
Found at i:17289060 original size:40 final size:40
Alignment explanation
Indices: 17288994--17289316 Score: 340
Period size: 40 Copynumber: 8.0 Consensus size: 40
17288984 TGATTATTGG
*
17288994 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTAACCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
17289034 TAATTGCACATACATGCCTCTGTTTGTACTTCGGCACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * * *
17289074 TGATTGAACATGCGTACCCCTGTTTGTACTTAGTTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* ** *
17289114 TGATTTCACATACGTGCCCCTATTTGTACTTCAATACCAC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
17289154 TGATTGCACATACGTGCCCTTTTTTGTCCTTCAGTACCAC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
17289194 TGATTGCACATACGTGCCCCTGTTTATACTTTGGTATCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * **
17289234 TCATTGCACATACATGCCCGTATTTTGTACTTTAGTACCCCC
1 TGATTGCACATACGTGCCCCTA-TTTGTACTTCGGTA-CCCC
* *
17289276 TAATTGCACATAAGTGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
17289316 T
1 T
17289317 AAATTCACTT
Statistics
Matches: 231, Mismatches: 50, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
40 186 0.81
41 24 0.10
42 21 0.09
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:17290043 original size:12 final size:12
Alignment explanation
Indices: 17290026--17290056 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17290016 TTAGTGAGTT
17290026 ACACGGCCAAGC
1 ACACGGCCAAGC
*
17290038 ACACGGCCTAGC
1 ACACGGCCAAGC
17290050 ACACGGC
1 ACACGGC
17290057 TTGGAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.42, G:0.26, T:0.03
Consensus pattern (12 bp):
ACACGGCCAAGC
Found at i:17294973 original size:27 final size:27
Alignment explanation
Indices: 17294935--17295180 Score: 271
Period size: 27 Copynumber: 9.2 Consensus size: 27
17294925 AGGTCGATAT
*
17294935 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
17294962 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
17294989 ATGATCAAAATACCCTCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * *
17295016 ATGATCAAAATAGCCCCATAAGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
*
17295043 ATGACCAAAATACACCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * *
17295070 TTGACTAAAATACCCCCATAAGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* * * * *
17295097 CTAACTAAAATA-CCCTATAGGTTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
17295123 ATGACCGAAATAACCCCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
* ** *
17295150 ATGGCTGAAATACCCCCATAAGGT-AA
1 ATGACCAAAATACCCCCATAGGGTAAA
17295176 ATGAC
1 ATGAC
17295181 TTTTATACCC
Statistics
Matches: 188, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 25 0.13
27 163 0.87
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (27 bp):
ATGACCAAAATACCCCCATAGGGTAAA
Found at i:17295432 original size:27 final size:27
Alignment explanation
Indices: 17295402--17295461 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
17295392 CCTACTGGTG
* *
17295402 GCTTTGCCACATATACTGTTACTGG-AA
1 GCTTTGCCAC-GATACTATTACTGGCAA
*
17295429 GCTTTGCTACGATACTATTACTGGCAA
1 GCTTTGCCACGATACTATTACTGGCAA
17295456 -CTTTGC
1 GCTTTGC
17295462 TGCGATATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
GCTTTGCCACGATACTATTACTGGCAA
Found at i:17295450 original size:26 final size:26
Alignment explanation
Indices: 17295414--17295468 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
17295404 TTTGCCACAT
*
17295414 ATACTGTTACTGG-AAGCTTTGCTACG
1 ATACTATTACTGGCAA-CTTTGCTACG
*
17295440 ATACTATTACTGGCAACTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTACG
17295466 ATA
1 ATA
17295469 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTGCTACG
Found at i:17297906 original size:10 final size:10
Alignment explanation
Indices: 17297872--17297905 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
17297862 ATGCATTAAC
17297872 CACAAATAAT
1 CACAAATAAT
17297882 CACAAATAAT
1 CACAAATAAT
*
17297892 CACATATAAT
1 CACAAATAAT
17297902 CACA
1 CACA
17297906 TTTAGTCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.21
Consensus pattern (10 bp):
CACAAATAAT
Found at i:17298155 original size:20 final size:20
Alignment explanation
Indices: 17298142--17298199 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
17298132 AGCTCACTTG
17298142 AGATCAAGTCAGCTCATTCA
1 AGATCAAGTCAGCTCATTCA
* *
17298162 AGCTCAAGTCAGCTCATTCG
1 AGATCAAGTCAGCTCATTCA
* * *
17298182 AGCTCAATTCAACTCATT
1 AGATCAAGTCAGCTCATT
17298200 GAGCTCGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (20 bp):
AGATCAAGTCAGCTCATTCA
Found at i:17301811 original size:17 final size:17
Alignment explanation
Indices: 17301789--17301822 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17301779 AATACAAATT
17301789 GCGATAATGATCTGCAA
1 GCGATAATGATCTGCAA
*
17301806 GCGATATTGATCTGCAA
1 GCGATAATGATCTGCAA
17301823 ACAAATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (17 bp):
GCGATAATGATCTGCAA
Found at i:17302641 original size:10 final size:10
Alignment explanation
Indices: 17302615--17302683 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
17302605 TTTCATGTAT
*
17302615 TTCAGCTCAC
1 TTCAGCTCAA
*
17302625 TTGAGCTCAA
1 TTCAGCTCAA
*
17302635 GTCAGCTC-A
1 TTCAGCTCAA
*
17302644 TTCGACCTCAA
1 TTC-AGCTCAA
*
17302655 GTCAGCTC-A
1 TTCAGCTCAA
17302664 TTCAAGCTCAA
1 TTC-AGCTCAA
17302675 TTCAGCTCA
1 TTCAGCTCA
17302684 TTGAGCTCGT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
9 6 0.13
10 33 0.72
11 7 0.15
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (10 bp):
TTCAGCTCAA
Found at i:17302641 original size:20 final size:20
Alignment explanation
Indices: 17302616--17302691 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
17302606 TTCATGTATT
17302616 TCAGCTCACTT-GAGCTCAAG
1 TCAGCTCA-TTCGAGCTCAAG
*
17302636 TCAGCTCATTCGACCTCAAG
1 TCAGCTCATTCGAGCTCAAG
* *
17302656 TCAGCTCATTCAAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
17302676 TCAGCTCATT-GAGCTC
1 TCAGCTCATTCGAGCTC
17302692 GTTATTAGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.14
20 43 0.86
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.28
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:17326547 original size:38 final size:38
Alignment explanation
Indices: 17326505--17326811 Score: 310
Period size: 38 Copynumber: 8.1 Consensus size: 38
17326495 AGAAACATAA
* *
17326505 TGTTATTTGGGCTATGTGCCTAGTAGGCTTTGTGCTGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
*
17326543 TGTTATTCGGGCTATGTGCTTAGCAGGCTTTGTGCTGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
** * * * * **
17326581 TCATATTCAGGTTATATGCCAAGCAGGCTTTGTGCCAG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
* * * **
17326619 TGATATTTGGGCTATATGCCTAGCAGGCTTTGTGCCAG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
* * * *
17326657 TGATATTCGGGCTATATGCCTAGCAGGCTTTGTGCCGA
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
** * * *
17326695 TAATATTCAGGCCATGTGCCTAACAGGCTTTGTGCTGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
* * * *
17326733 TTTTATTCAGGCTATGTGCCTCA-CAGGCTTTGTACTAG
1 TGTTATTCGGGCTATGTGCCT-AGCAGGCTTTGTGCTGG
* * *
17326771 TGTTATTCGGGCTTTGTGCCTACCAGGCTTTGTGATGG
1 TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
17326809 TGT
1 TGT
17326812 AATGCAAATT
Statistics
Matches: 229, Mismatches: 38, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
37 1 0.00
38 227 0.99
39 1 0.00
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.36
Consensus pattern (38 bp):
TGTTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
Found at i:17326722 original size:114 final size:114
Alignment explanation
Indices: 17326508--17326804 Score: 364
Period size: 114 Copynumber: 2.6 Consensus size: 114
17326498 AACATAATGT
* * *
17326508 TATTTGGGCTATGTGCCTAGTAGGCTTTGTGCTGGTGTTATTCGGGCTATGTGCTTAGCAGGCTT
1 TATTTGGGCTATGTGCCTAGCAGGCTTTGTGCTAGTGTTATTCGGGCTATGTGCCTAGCAGGCTT
* * * **
17326573 TGTGCTGGTCATATTCAGGTTATATGCCAAGCAGGCTTTGTGCCAGTGA
66 TGTGCCGATAATATTCAGGCCATATGCCAAGCAGGCTTTGTGCCAGTGA
* * * *
17326622 TATTTGGGCTATATGCCTAGCAGGCTTTGTGCCAGTGATATTCGGGCTATATGCCTAGCAGGCTT
1 TATTTGGGCTATGTGCCTAGCAGGCTTTGTGCTAGTGTTATTCGGGCTATGTGCCTAGCAGGCTT
* ** **
17326687 TGTGCCGATAATATTCAGGCCATGTGCCTAA-CAGGCTTTGTGCTGGTTT
66 TGTGCCGATAATATTCAGGCCATATGCC-AAGCAGGCTTTGTGCCAGTGA
** * * *
17326736 TATTCAGGCTATGTGCCTCA-CAGGCTTTGTACTAGTGTTATTCGGGCTTTGTGCCTACCAGGCT
1 TATTTGGGCTATGTGCCT-AGCAGGCTTTGTGCTAGTGTTATTCGGGCTATGTGCCTAGCAGGCT
17326800 TTGTG
65 TTGTG
17326805 ATGGTGTAAT
Statistics
Matches: 155, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
114 152 0.98
115 3 0.02
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.36
Consensus pattern (114 bp):
TATTTGGGCTATGTGCCTAGCAGGCTTTGTGCTAGTGTTATTCGGGCTATGTGCCTAGCAGGCTT
TGTGCCGATAATATTCAGGCCATATGCCAAGCAGGCTTTGTGCCAGTGA
Found at i:17330648 original size:27 final size:27
Alignment explanation
Indices: 17330520--17330663 Score: 141
Period size: 27 Copynumber: 5.4 Consensus size: 27
17330510 CCTAATATTT
*
17330520 GTAAAATGACCGTAATAG-CCCTATAAG
1 GTAAAATGACCGTAAT-GCCCCTATAGG
* * * *
17330547 GTAGAATGATCGTAATGCCCTTGTAGG
1 GTAAAATGACCGTAATGCCCCTATAGG
* *
17330574 GTAAAATGATCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTATAGG
* * * *
17330601 GTTAAATGA-CATAAATACCCCTATAAG
1 GTAAAATGACCGT-AATGCCCCTATAGG
*
17330628 GTAAAATGACCGTAATGCCCCTAGAGG
1 GTAAAATGACCGTAATGCCCCTATAGG
17330655 GT-AAATGAC
1 GTAAAATGAC
17330664 GATTTTGGCC
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
26 10 0.10
27 85 0.88
28 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTATAGG
Found at i:17330717 original size:24 final size:24
Alignment explanation
Indices: 17330683--17330728 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
17330673 CCTCGAGTGT
*
17330683 AAATGATTGATTTGTCCGTGATGC
1 AAATGACTGATTTGTCCGTGATGC
*
17330707 AAATGACTGATTTGTCTGTGAT
1 AAATGACTGATTTGTCCGTGAT
17330729 TGGTATGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (24 bp):
AAATGACTGATTTGTCCGTGATGC
Found at i:17330736 original size:24 final size:24
Alignment explanation
Indices: 17330709--17330766 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
17330699 CGTGATGCAA
*
17330709 ATGACTGATTTGTCTGTGATTGGT
1 ATGACTGATTTGTCTGTAATTGGT
* *
17330733 ATGACTAATTTGTCTGTAATTTGT
1 ATGACTGATTTGTCTGTAATTGGT
17330757 ATGACTGATT
1 ATGACTGATT
17330767 CTGAGCATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTAATTGGT
Found at i:17330868 original size:27 final size:27
Alignment explanation
Indices: 17330830--17330893 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
17330820 ATGGAGGAAG
17330830 TACTG-TACTGGTGGCTCTGG-CACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
17330855 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
17330883 TACTGTTACTG
1 TACTGTTACTG
17330894 CCAGTGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
25 1 0.03
26 7 0.20
27 25 0.71
28 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:17330992 original size:32 final size:32
Alignment explanation
Indices: 17330941--17331033 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 32
17330931 GTGATGCTAC
*
17330941 TGATGGCTTTGTGCTGATCATATTACTGTTAA
1 TGATGGCTTTGTGCCGATCATATTACTGTTAA
* * * * *
17330973 TGATGGCTGTGTACCGATCATATCACTGCTAC
1 TGATGGCTTTGTGCCGATCATATTACTGTTAA
* *
17331005 TTATGGCTTTGTGCCAATCATATTACTGT
1 TGATGGCTTTGTGCCGATCATATTACTGT
17331034 ACTTATGGCT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTGTTAA
Found at i:17337401 original size:18 final size:20
Alignment explanation
Indices: 17337380--17337420 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
17337370 TTTCCAATTC
17337380 TTATTTGA-CCAAAAA-TAT
1 TTATTTGACCCAAAAATTAT
*
17337398 TTATTTTACCCAAAAATTAT
1 TTATTTGACCCAAAAATTAT
17337418 TTA
1 TTA
17337421 AAACTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 7 0.35
20 6 0.30
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (20 bp):
TTATTTGACCCAAAAATTAT
Found at i:17342200 original size:46 final size:46
Alignment explanation
Indices: 17342150--17342244 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
17342140 AGTATATGGC
17342150 TAAGCATAATAAAAACATCATCAACTCATACCTTTTTATACTTTCA
1 TAAGCATAATAAAAACATCATCAACTCATACCTTTTTATACTTTCA
* *
17342196 TAAGCATATTCAAAACATCATCAACTCATACCTTTTTATACTTTCA
1 TAAGCATAATAAAAACATCATCAACTCATACCTTTTTATACTTTCA
17342242 TAA
1 TAA
17342245 CATTATTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (46 bp):
TAAGCATAATAAAAACATCATCAACTCATACCTTTTTATACTTTCA
Found at i:17343831 original size:16 final size:16
Alignment explanation
Indices: 17343806--17343837 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17343796 GAGCATCAAT
*
17343806 TTACTGAAGTCTCTAA
1 TTACTAAAGTCTCTAA
17343822 TTACTAAAGTCTCTAA
1 TTACTAAAGTCTCTAA
17343838 CATACTCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (16 bp):
TTACTAAAGTCTCTAA
Found at i:17348462 original size:27 final size:27
Alignment explanation
Indices: 17348432--17348605 Score: 213
Period size: 27 Copynumber: 6.4 Consensus size: 27
17348422 ATTTCGTCTC
* *
17348432 ATGGGGGTATTTTGGTCATTTTATCCT
1 ATGGGGGTATTTCGGTCATTTTACCCT
** *
17348459 ATGGGCATATATCGGTCATTTTACCCT
1 ATGGGGGTATTTCGGTCATTTTACCCT
*
17348486 ATGGGGGTATTTCGATCATTTTACCCT
1 ATGGGGGTATTTCGGTCATTTTACCCT
* *
17348513 ATAGGGATATTTCGGTCATTTTACCCT
1 ATGGGGGTATTTCGGTCATTTTACCCT
* * * *
17348540 ATAGGAGTATTTCGGTCATTTTAACAT
1 ATGGGGGTATTTCGGTCATTTTACCCT
* *
17348567 ATGGGGGTATTTCAGTCATTTTACCCG
1 ATGGGGGTATTTCGGTCATTTTACCCT
*
17348594 ATTGGGGTATTT
1 ATGGGGGTATTT
17348606 TAGTAATTTT
Statistics
Matches: 124, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (27 bp):
ATGGGGGTATTTCGGTCATTTTACCCT
Found at i:17348615 original size:81 final size:81
Alignment explanation
Indices: 17348435--17348618 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 81
17348425 TCGTCTCATG
* * * *
17348435 GGGGTATTTTGGTCATTTTATCCTATGGGCATATATCGGTCATTTTACCCTATGGGGGTATTTCG
1 GGGGTATTTTGGTCATTTTACCCTATAGGCATATATCGGTCATTTTAACATATGGGGGTATTTCG
*
17348500 ATCATTTTACCCTATA
66 ATCATTTTACCCGATA
* * *
17348516 GGGATATTTCGGTCATTTTACCCTATAGG-AGTATTTCGGTCATTTTAACATATGGGGGTATTTC
1 GGGGTATTTTGGTCATTTTACCCTATAGGCA-TATATCGGTCATTTTAACATATGGGGGTATTTC
*
17348580 -AGTCATTTTACCCGATT
65 GA-TCATTTTACCCGATA
* *
17348597 GGGGTATTTTAGTAATTTTACC
1 GGGGTATTTTGGTCATTTTACC
17348619 TATTTTGGGG
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 86 0.98
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (81 bp):
GGGGTATTTTGGTCATTTTACCCTATAGGCATATATCGGTCATTTTAACATATGGGGGTATTTCG
ATCATTTTACCCGATA
Found at i:17352529 original size:21 final size:21
Alignment explanation
Indices: 17352496--17352551 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
17352486 GGAGCTATCA
* *
17352496 CACAAGGGTGTGTGGGATTCC
1 CACACGGGCGTGTGGGATTCC
*
17352517 CACACGGGCGTGTGGGATTTC
1 CACACGGGCGTGTGGGATTCC
*
17352538 CACACGGGCATGTG
1 CACACGGGCGTGTG
17352552 CAATCATCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.23, G:0.38, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTGGGATTCC
Found at i:17369133 original size:11 final size:11
Alignment explanation
Indices: 17369114--17369153 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
17369104 TTAAAAAGTG
*
17369114 AAATCAAAACA
1 AAATAAAAACA
17369125 AAATAAAAACA
1 AAATAAAAACA
* *
17369136 AAACAAAATCA
1 AAATAAAAACA
17369147 AAATAAA
1 AAATAAA
17369154 GAATCGGGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (11 bp):
AAATAAAAACA
Found at i:17369139 original size:16 final size:17
Alignment explanation
Indices: 17369118--17369149 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17369108 AAAGTGAAAT
17369118 CAAAACAAAAT-AAAAA
1 CAAAACAAAATCAAAAA
17369134 CAAAACAAAATCAAAA
1 CAAAACAAAATCAAAA
17369150 TAAAGAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.78, C:0.16, G:0.00, T:0.06
Consensus pattern (17 bp):
CAAAACAAAATCAAAAA
Found at i:17369893 original size:45 final size:44
Alignment explanation
Indices: 17369829--17370811 Score: 462
Period size: 44 Copynumber: 21.9 Consensus size: 44
17369819 CAATTTATAG
* * * * *
17369829 CTTCAATTTGTTCCACTGCAATTTTAGGGAAATGAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAT
* * * * * **
17369874 CTTCAGTCTACTCCACTGCAACCTTAGGGATATAAGACTTGTGG
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
* * *
17369918 CTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGATTTGTAT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
* * * * *
17369962 CTTCAACCTGCTCCACTGAAAATTGAGGGAGATAAGGTTTGATAT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAT
** * * * * *
17370007 CTTCGGTCTGCTCCACTGTAACTTCAGGGAGATAAAACTTGGAT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
* * * * * * *
17370051 TTGGTGAATTTGATCCGACCTACTGCAACTTCAGAGG-TATAGGATTT-T-T
1 CT--TCAATCTG---C-TCC-ACTGCAACTTTAG-GGAGATAAGATTTGTAT
* * * * * * *
17370100 CGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAG
1 C--TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
* * * * *
17370146 CTTCAATATGCTCCACTGCAACTTCACGGAGACAAGATTGGTAT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
* * * * *
17370190 CTTCAACCTGCTCCACTACAAATTCAGGGAGATAA-A-GTGTGAT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGT-AT
* * * * ** * *
17370233 -AT-GATCTTCTCTACTGCAACTTTAAAGAGATAAGATCTGCAATTTACAA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT-T----TGT--AT
* * * *
17370282 CTTCAATCTGTTCCACTGCAACTTTAGGGGGATAAGACTTGCTTT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAT
* * *
17370327 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
* * * * * **
17370371 CTTTAATCTGCTCCACTGTAACTTCAGAGAGATAGGATTAT-TGG
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-TGTAT
* * * *
17370415 CTTTAATTTGCTCTACTGCAACTTCAGGGAGATAAGATTT-TCCAT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGT--AT
* * * * * *
17370460 CTTCAACCTGCCCCACTACAACTTCACGGG-GATAAGACTTGCTTT
1 CTTCAATCTGCTCCACTGCAACTTTA-GGGAGATAAGATTTG-TAT
* * * * * *
17370505 CTTCAGTCTGCTTCACTTCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
* ** * * **
17370549 CTTTAATCCACTCCACTGCAACTTTAGGGGGATAATATTAT-TGG
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-TGTAT
* * * * * *
17370593 CTTTAATATGCTCCACTGTAACTTCAAGGAGATAAGATTTGCCAT
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAT
* * * * ** *
17370638 CTTCAGTCTGC-CTCACTGTAACTTCAGGGGGATAAGACTTACTTT
1 CTTCAATCTGCTC-CACTGCAACTTTAGGGAGATAAGA-TTTGTAT
* * * *
17370683 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
* * * * * **
17370727 CTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTAT-TGG
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-TGTAT
* * * * * *
17370771 CTTTAATCTACTCCATTGCAACTTCAAGGAGATATGATTTG
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG
17370812 CCATGATCTA
Statistics
Matches: 708, Mismatches: 189, Indels: 83
0.72 0.19 0.08
Matches are distributed among these distances:
41 22 0.03
42 4 0.01
43 9 0.01
44 362 0.51
45 235 0.33
46 13 0.02
47 2 0.00
48 2 0.00
49 8 0.01
50 4 0.01
51 45 0.06
52 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAT
Found at i:17370443 original size:225 final size:222
Alignment explanation
Indices: 17369736--17370449 Score: 589
Period size: 225 Copynumber: 3.2 Consensus size: 222
17369726 ACAGGAAGTG
** * * *
17369736 GCTTCAATTTGCTGCACTGCAACTTCAGGGAAAT-AAGATTTGATATGATCTACTCAACTGCAAC
1 GCTTCAACCTGCTCCACTGCAAATTCAGGGAGATAAAG-TTTGATATGATCTACTCAACTGCAAC
* * * * * * *
17369800 TCTAGAGAGATAAGATCTGCAATTTATAGCTTCAATTTGTTCCACTGCAATTTTAGGGAAATGAG
65 TTTAGAGAGATAAGATCTGCAATTTACAACTTCAATCTGTTCCACTGCAACTTTAGGGGAATAAG
* * * * * *
17369865 ATTTGCTATCTTCAGTCTACTCCACTGCAACCTTAGGGATATAAGACTTGTGGCTTCAATCTGCC
130 A-TTGCTTTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAATCTGCT
*
17369930 CCACTGCAACTTCAGGGGGATAAGATTTGTA
194 CCACTGCAACTTCA-GGAGATAAGATTT-TA
* * * * * * * *
17369961 TCTTCAACCTGCTCCACTGAAAATTGAGGGAGATAAGGTTTGATATCTTCGGTCTGCTCCACTGT
1 GCTTCAACCTGCTCCACTGCAAATTCAGGGAGATAAAGTTTGATA---T-GATCTACTCAACTGC
* * * * ** ** * * * *
17370026 AACTTCAGGGAGATAA-AACTTG-GATTTGGTGAA-TTTGATCCG-ACCTACTGCAACTTCAGAG
62 AACTTTAGAGAGATAAGATC-TGCAATTT--ACAACTTCAATCTGTTCC-ACTGCAACTTTAGGG
* * * * * * * *
17370087 GTATAGGATT--TTTCGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTAGTAGCTT
123 GAATAAGATTGCTTTC--TTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTT-GTAGCTT
* * *
17370149 CAATATGCTCCACTGCAACTTCACGGAGACAAGATTGGTA
185 CAATCTGCTCCACTGCAACTTCA-GGAGATAAGATT-TTA
* * * * *
17370189 TCTTCAACCTGCTCCACTACAAATTCAGGGAGATAAAGTGTGATATGATCTTCTCTACTGCAACT
1 GCTTCAACCTGCTCCACTGCAAATTCAGGGAGATAAAGTTTGATATGATCTACTCAACTGCAACT
* *
17370254 TTAAAGAGATAAGATCTGCAATTTACAACTTCAATCTGTTCCACTGCAACTTTAGGGGGATAAGA
66 TTAGAGAGATAAGATCTGCAATTTACAACTTCAATCTGTTCCACTGCAACTTTAGGGGAATAAGA
* *
17370319 CTTGCTTTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTTAATCTGCTC
131 -TTGCTTTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAATCTGCTC
* * *
17370384 CACTGTAACTTCAGAGAGATAGGATTATTG
195 CACTGCAACTTCAG-GAGATAAGATT-TTA
* ** * *
17370414 GCTTTAATTTGCTCTACTGCAACTTCAGGGAGATAA
1 GCTTCAACCTGCTCCACTGCAAATTCAGGGAGATAA
17370450 GATTTTCCAT
Statistics
Matches: 371, Mismatches: 96, Indels: 44
0.73 0.19 0.09
Matches are distributed among these distances:
223 2 0.01
224 52 0.14
225 139 0.37
226 7 0.02
227 6 0.02
228 117 0.32
229 47 0.13
230 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (222 bp):
GCTTCAACCTGCTCCACTGCAAATTCAGGGAGATAAAGTTTGATATGATCTACTCAACTGCAACT
TTAGAGAGATAAGATCTGCAATTTACAACTTCAATCTGTTCCACTGCAACTTTAGGGGAATAAGA
TTGCTTTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAATCTGCTCC
ACTGCAACTTCAGGAGATAAGATTTTA
Found at i:17370512 original size:178 final size:178
Alignment explanation
Indices: 17370294--17370815 Score: 758
Period size: 178 Copynumber: 2.9 Consensus size: 178
17370284 TCAATCTGTT
* *
17370294 CCACTGCAACTTTAGGGGGATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTTAGGGAGA
1 CCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* * *
17370359 TAAGACTTGTAACTTTAATCTGCTCCACTGTAACTTCAGAGAGATAGGATTATTGGCTTTAATTT
66 TAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATAT
* * *
17370424 GCTCTACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAACCTGCC
131 GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAACCTGCC
* * * *
17370472 CCACTACAACTTCACGGGGATAAGACTTGCTTTCTTCAGTCTGCTTCACTTCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * * **
17370537 TAAGACTTGTAACTTTAATCCACTCCACTGCAACTTTAGGGGGATAATATTATTGGCTTTAATAT
66 TAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATAT
* **
17370602 GCTCCACTGTAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCC
131 GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAACCTGCC
* * * * *
17370650 TCACTGTAACTTCAGGGGGATAAGACTTACTTTCTTCAATCTGCTCCACTGCAACTTCAAGGAGA
1 CCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
*
17370715 TAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCA-AGGAGATAGGATTATTGGCTTTAATC
66 TAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGA-GAGATAGGATTATTGGCTTTAATA
* * *
17370779 TACTCCATTGCAACTTCAAGGAGATATGATTTGCCAT
130 TGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCAT
17370816 GATCTATTCT
Statistics
Matches: 302, Mismatches: 41, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
178 302 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (178 bp):
CCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATAT
GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAACCTGCC
Found at i:17373170 original size:18 final size:18
Alignment explanation
Indices: 17373149--17373196 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
17373139 CTTTGGCCTC
17373149 TCTTTTTTCTTTTCCTTT
1 TCTTTTTTCTTTTCCTTT
* * *
17373167 TCTTTTTCCTTCTCTTTT
1 TCTTTTTTCTTTTCCTTT
*
17373185 TCTTTTCTCTTT
1 TCTTTTTTCTTT
17373197 CCATCATTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTTTTTTCTTTTCCTTT
Found at i:17373173 original size:12 final size:12
Alignment explanation
Indices: 17373153--17373198 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
17373143 GGCCTCTCTT
17373153 TTTTC-TTTTCC
1 TTTTCTTTTTCC
17373164 TTTTCTTTTTCC
1 TTTTCTTTTTCC
*
17373176 TTCTCTTTTT-C
1 TTTTCTTTTTCC
*
17373187 TTTTCTCTTTCC
1 TTTTCTTTTTCC
17373199 ATCATTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 14 0.47
12 16 0.53
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTCTTTTTCC
Found at i:17376340 original size:19 final size:20
Alignment explanation
Indices: 17376316--17376362 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
17376306 TGGTGGACTT
* *
17376316 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
17376335 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
17376355 -AATGCAAA
1 TAATGCAAA
17376363 AAAGGCGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:17380211 original size:14 final size:15
Alignment explanation
Indices: 17380192--17380224 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17380182 ATAATCAATC
17380192 AAAATAAAA-AAACA
1 AAAATAAAATAAACA
*
17380206 AAAATAAAATACACA
1 AAAATAAAATAAACA
17380221 AAAA
1 AAAA
17380225 AATGAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAATAAAATAAACA
Found at i:17393755 original size:38 final size:39
Alignment explanation
Indices: 17393600--17393781 Score: 206
Period size: 39 Copynumber: 4.7 Consensus size: 39
17393590 AGACATATTC
* * * * * *
17393600 ACATTTAAGTATATACCATATTACACATATAATCACCTA
1 ACATTTAAGCATATATCACAATACTCATATAATCACATA
* * *
17393639 ACATACT-AGCATATGTCACAATACTCATATAATCTCATA
1 ACAT-TTAAGCATATATCACAATACTCATATAATCACATA
* *
17393678 ACATTTAAGCATATGTCACAATACTCGTATAATCACATA
1 ACATTTAAGCATATATCACAATACTCATATAATCACATA
* * * *
17393717 AAATTCAAGCATATATCAC-CTACTCATATAATCGCATA
1 ACATTTAAGCATATATCACAATACTCATATAATCACATA
17393755 ACATTTAAGCATATATCACAATACTCA
1 ACATTTAAGCATATATCACAATACTCA
17393782 AAAACATCTT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
38 34 0.29
39 84 0.71
40 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (39 bp):
ACATTTAAGCATATATCACAATACTCATATAATCACATA
Found at i:17393762 original size:77 final size:78
Alignment explanation
Indices: 17393600--17393780 Score: 229
Period size: 78 Copynumber: 2.3 Consensus size: 78
17393590 AGACATATTC
* * * * * * * * * *
17393600 ACATTTAAGTATATACCATATTACACATATAATCACCTAACATACTAGCATATGTCACAATACTC
1 ACATTTAAGCATATATCACAATACTCGTATAATCACATAAAATACAAGCATATATCACAATACTC
*
17393665 ATATAATCTCATA
66 ATATAATCGCATA
* * *
17393678 ACATTTAAGCATATGTCACAATACTCGTATAATCACATAAAATTCAAGCATATATCAC-CTACTC
1 ACATTTAAGCATATATCACAATACTCGTATAATCACATAAAATACAAGCATATATCACAATACTC
17393742 ATATAATCGCATA
66 ATATAATCGCATA
17393755 ACATTTAAGCATATATCACAATACTC
1 ACATTTAAGCATATATCACAATACTC
17393781 AAAAACATCT
Statistics
Matches: 88, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 42 0.48
78 46 0.52
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (78 bp):
ACATTTAAGCATATATCACAATACTCGTATAATCACATAAAATACAAGCATATATCACAATACTC
ATATAATCGCATA
Found at i:17416271 original size:16 final size:16
Alignment explanation
Indices: 17416250--17416281 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17416240 ACCAAAGTGA
17416250 CTGTTTATACGGACCT
1 CTGTTTATACGGACCT
17416266 CTGTTTATACGGACCT
1 CTGTTTATACGGACCT
17416282 GTAACACCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (16 bp):
CTGTTTATACGGACCT
Found at i:17418416 original size:42 final size:43
Alignment explanation
Indices: 17418317--17418427 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 43
17418307 AATGCCATAT
* * * * *
17418317 CCCAGATATGGTCTTACATGATATAATATATCGATGTCACTGT
1 CCCAGACATGGTCTTACATGAAATCATATATCGATGCCACTGC
* * *
17418360 CCCAAACAGGGTCTTACACGAAATCATATA-CGATGCCAAC-GC
1 CCCAGACATGGTCTTACATGAAATCATATATCGATGCC-ACTGC
17418402 CCCAGACATGGTCTTACATGAAATCA
1 CCCAGACATGGTCTTACATGAAATCA
17418428 CACCTCAGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 30 0.54
43 26 0.46
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
CCCAGACATGGTCTTACATGAAATCATATATCGATGCCACTGC
Found at i:17423635 original size:25 final size:25
Alignment explanation
Indices: 17423607--17423660 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
17423597 TGTAGTGGCA
*
17423607 AGGTGGTGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
* *
17423632 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
17423657 AGGT
1 AGGT
17423661 CAGAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.48, T:0.19
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:17424935 original size:19 final size:18
Alignment explanation
Indices: 17424911--17424953 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
17424901 ACGCTGTTTT
*
17424911 TGGGCCAAATAGACCGGAA
1 TGGGCCAAATAGACC-CAA
* *
17424930 TGGGCCGAGTAGACCCAA
1 TGGGCCAAATAGACCCAA
17424948 TGGGCC
1 TGGGCC
17424954 CATAGGCCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.26, G:0.35, T:0.12
Consensus pattern (18 bp):
TGGGCCAAATAGACCCAA
Found at i:17425235 original size:27 final size:27
Alignment explanation
Indices: 17425170--17425309 Score: 163
Period size: 27 Copynumber: 5.1 Consensus size: 27
17425160 AAAGGTTGTT
* * * *
17425170 AAATGACCGAGTTACCCCTGAAAGGTAA
1 AAATGATCGAATTACCCCCGAAGGGT-A
* *
17425198 AAATGACCGAATTACCCCCGGAGGGTA
1 AAATGATCGAATTACCCCCGAAGGGTA
17425225 AAATGATCGAATTACCCCCGAAGGGTA
1 AAATGATCGAATTACCCCCGAAGGGTA
* * **
17425252 AAATGATTGAAATACCCTTGAAGGGTA
1 AAATGATCGAATTACCCCCGAAGGGTA
* *
17425279 AAATTATCGAAATACCCCCGAAGGGTA
1 AAATGATCGAATTACCCCCGAAGGGTA
17425306 AAAT
1 AAAT
17425310 AACCAAAATA
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
27 76 0.78
28 22 0.22
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.19
Consensus pattern (27 bp):
AAATGATCGAATTACCCCCGAAGGGTA
Found at i:17425319 original size:54 final size:54
Alignment explanation
Indices: 17425219--17425339 Score: 154
Period size: 54 Copynumber: 2.2 Consensus size: 54
17425209 TTACCCCCGG
* * ***
17425219 AGGGTAAAATGATCGAATTACCCCCGAAGGGTAAAATGATTGAAATACCCTTGA
1 AGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATAACCAAAATACCCTTGA
* *
17425273 AGGGTAAAATTATCGAAATACCCCCGAAGGGTAAAATAACCAAAATACCCCT-A
1 AGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATAACCAAAATACCCTTGA
*
17425326 TAGGATAAAATGAT
1 -AGGGTAAAATGAT
17425340 TGTTTTACCC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 56 0.98
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (54 bp):
AGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATAACCAAAATACCCTTGA
Found at i:17425322 original size:81 final size:82
Alignment explanation
Indices: 17425182--17425341 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 82
17425172 ATGACCGAGT
* * * * * *
17425182 TACCCCTGAAAGGTAAAAATGACCGAATTACCCCCGGAGGGTAAAATGATCGAATTACCCCCGA-
1 TACCCCTGAAAGGTAAAAATGACCGAAATACCCCCGAAGGGTAAAATAACCAAAATA-CCCCGAT
*
17425246 AGGGTAAAATGATTGAAA
65 AGGATAAAATGATTGAAA
* * * * *
17425264 TACCCTTGAAGGGT-AAAATTATCGAAATACCCCCGAAGGGTAAAATAACCAAAATACCCCTATA
1 TACCCCTGAAAGGTAAAAATGACCGAAATACCCCCGAAGGGTAAAATAACCAAAATACCCCGATA
17425328 GGATAAAATGATTG
66 GGATAAAATGATTG
17425342 TTTTACCCCT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
80 5 0.08
81 48 0.74
82 12 0.18
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (82 bp):
TACCCCTGAAAGGTAAAAATGACCGAAATACCCCCGAAGGGTAAAATAACCAAAATACCCCGATA
GGATAAAATGATTGAAA
Found at i:17429817 original size:50 final size:50
Alignment explanation
Indices: 17429640--17429827 Score: 178
Period size: 50 Copynumber: 3.6 Consensus size: 50
17429630 GGGGATGAGA
* * * *
17429640 TCCCATGTAAGACCATGTTTGGGACATGGAATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGC---ATCGA---TATGAGAGG
* * * * * *
17429696 TCCCACGTAAGACCATGTCTAGGACATGCCGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAGG
* * **
17429746 TCCCCTGTAAGACTATGTCTGGGACATGGCATGGGCATCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAGG
* *
17429796 TCCCATGTAAGACCATATCTGGGATATGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCAT
17429828 TGGTAGTACA
Statistics
Matches: 110, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 76 0.69
53 4 0.04
56 30 0.27
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAGG
Found at i:17431135 original size:17 final size:18
Alignment explanation
Indices: 17431100--17431135 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17431090 GTTAGGTCGA
*
17431100 AATGGGCTGTGTGGGCCC
1 AATGGGCTGTGTAGGCCC
17431118 AATGGGCT-TGTAGGCCC
1 AATGGGCTGTGTAGGCCC
17431135 A
1 A
17431136 CACGGATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.22, G:0.39, T:0.22
Consensus pattern (18 bp):
AATGGGCTGTGTAGGCCC
Found at i:17431375 original size:27 final size:27
Alignment explanation
Indices: 17431339--17431668 Score: 346
Period size: 27 Copynumber: 12.2 Consensus size: 27
17431329 AGAGGTCGAT
17431339 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* **
17431366 AAATGATCGAATTACCCCCGCAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * *
17431393 AAATGACCGAATTACCCCCACAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
17431420 AAAT-AACCAAATTACCCCCATAGGGTA
1 AAATGATCGAAA-TACCCCCATAGGGTA
* *
17431447 AAATGA-CAGAATTACCCCCATACGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
* * * *
17431474 AAGTGA-CCAAATTACCCTCACAGGGTA
1 AAATGATCGAAA-TACCCCCATAGGGTA
* * *
17431501 AAATGA-CCAAATTACCCCCACAGGATA
1 AAATGATCGAAA-TACCCCCATAGGGTA
*
17431528 AAATGATCGAAATACCCCTATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
17431555 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
17431582 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * *
17431609 AAATAATTGAAATACCCCTATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
17431636 AAAT-AACTGAAATACCCCAATAGGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
17431663 AAATGA
1 AAATGA
17431669 CTGTTATACC
Statistics
Matches: 258, Mismatches: 38, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
26 7 0.03
27 243 0.94
28 8 0.03
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAGGGTA
Found at i:17431487 original size:81 final size:81
Alignment explanation
Indices: 17431351--17431669 Score: 385
Period size: 81 Copynumber: 3.9 Consensus size: 81
17431341 ATGATCGAAA
** * *
17431351 TACCCCCATAGGGTAAAATGATCGAATTACCCCCGCAGGGTAAAATGACCGAATTACCCCCACAG
1 TACCCCCATAGGGTAAAATGATCGAATTACCCCCATAGGGTAAAATGACCAAATTACCCTCACAG
*
17431416 GGTAAAATAACCAAAT
66 GGTAAAATGACCAAAT
* *
17431432 TACCCCCATAGGGTAAAATGA-CAGAATTACCCCCATACGGTAAAGTGACCAAATTACCCTCACA
1 TACCCCCATAGGGTAAAATGATC-GAATTACCCCCATAGGGTAAAATGACCAAATTACCCTCACA
17431496 GGGTAAAATGACCAAAT
65 GGGTAAAATGACCAAAT
* * * * * *
17431513 TACCCCCACAGGATAAAATGATCGAAATACCCCTATAGGGTAAAATGATCGAAA-TACCCTCATA
1 TACCCCCATAGGGTAAAATGATCGAATTACCCCCATAGGGTAAAATGA-CCAAATTACCCTCACA
*
17431577 GGGTAAAATGACCAAAA
65 GGGTAAAATGACCAAAT
* * * * * * *
17431594 TACCCCCATAGGGTAAAATAATTGAAATACCCCTATAGGGTAAAATAACTGAAA-TACCC-CAAT
1 TACCCCCATAGGGTAAAATGATCGAATTACCCCCATAGGGTAAAATGAC-CAAATTACCCTC-AC
17431657 AGGGTAAAATGAC
64 AGGGTAAAATGAC
17431670 TGTTATACCC
Statistics
Matches: 212, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
80 3 0.01
81 204 0.96
82 5 0.02
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (81 bp):
TACCCCCATAGGGTAAAATGATCGAATTACCCCCATAGGGTAAAATGACCAAATTACCCTCACAG
GGTAAAATGACCAAAT
Found at i:17432129 original size:28 final size:28
Alignment explanation
Indices: 17432086--17432320 Score: 345
Period size: 28 Copynumber: 8.4 Consensus size: 28
17432076 TATTGCACTG
*
17432086 CACTGTTACTGTATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
17432114 CACTGATT-CTAG-ATTGGGCTAAGGCCCA
1 CACTG-TTACT-GTATTGGGCTAAGGCCCA
* * *
17432142 CACTGTTACTATAATGGGCTAAGTCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
17432170 CACTGATT-CTGTAATGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
17432198 CACTGATT-CTGTATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
17432226 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
17432254 CACTGTTACTGTATTTGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
17432282 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
17432310 CACTG-TACTGT
1 CACTGTTACTGT
17432321 CACTGAATAG
Statistics
Matches: 192, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
27 10 0.05
28 177 0.92
29 5 0.03
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:17433147 original size:20 final size:20
Alignment explanation
Indices: 17433122--17433160 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17433112 TGAGTTATTT
17433122 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
17433142 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
17433161 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:17433169 original size:12 final size:12
Alignment explanation
Indices: 17433154--17433186 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
17433144 GTAAGAGAGT
17433154 AAGTAAAGAAGA
1 AAGTAAAGAAGA
17433166 AAGTAAAGAAGA
1 AAGTAAAGAAGA
17433178 AAGTAAAGA
1 AAGTAAAGA
17433187 TCATGATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (12 bp):
AAGTAAAGAAGA
Found at i:17433491 original size:25 final size:27
Alignment explanation
Indices: 17433456--17433505 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
17433446 ATGATATGGC
17433456 TAATGAATAGC-ATGGAAAT-ACTCGA
1 TAATGAATAGCTATGGAAATGACTCGA
* *
17433481 TAATGATTAGCTATTGAAATGACTC
1 TAATGAATAGCTATGGAAATGACTC
17433506 TTTAAGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 7 0.33
27 4 0.19
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (27 bp):
TAATGAATAGCTATGGAAATGACTCGA
Found at i:17435888 original size:51 final size:50
Alignment explanation
Indices: 17435759--17435951 Score: 199
Period size: 51 Copynumber: 3.8 Consensus size: 50
17435749 ATTGTTATCA
* * * * * *
17435759 TTCGATACACGTAGTAGCCTTCACTTAGTACTACACACATGATC-AAACTT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAAC-C
* * *
17435809 TTCGGTTCATGTAGTAGCCTGCATATAGTACTACACACGTGACCAAAACC
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACC
* * ** *
17435859 TTCCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACC
* * *
17435910 TATCGATACTCGTAGTAGCCTGCACTTAGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
17435952 TTTATAGGCA
Statistics
Matches: 118, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
50 38 0.32
51 79 0.67
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACC
Found at i:17449680 original size:27 final size:27
Alignment explanation
Indices: 17449637--17449791 Score: 204
Period size: 27 Copynumber: 5.8 Consensus size: 27
17449627 CTGCATTGAG
* * **
17449637 ACCCCCATAAGGCAAAATGACTAAAAT
1 ACCCCCATAGGGTAAAATGACCGAAAT
17449664 ACCCCCATAGGGTAAAATGACCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAAT
* *
17449691 ACCCCCATAAGGTAAAATAACCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAAT
*
17449718 ACCCTCATAGGGTAAAATGACCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAAT
** * *
17449745 ACCCTTATAGGATAAAATGATCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAAT
17449772 A-CCCCATAGGGTAAAATGAC
1 ACCCCCATAGGGTAAAATGAC
17449792 TGTTATACCC
Statistics
Matches: 112, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 15 0.13
27 97 0.87
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (27 bp):
ACCCCCATAGGGTAAAATGACCGAAAT
Found at i:17449816 original size:53 final size:53
Alignment explanation
Indices: 17449660--17449818 Score: 201
Period size: 54 Copynumber: 3.0 Consensus size: 53
17449650 AAAATGACTA
* * * *
17449660 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAAAATAACCG
1 AAATA-CCCCATAGGGTAAAATGACCGAAATACCCCTATAAGATAAAATGATCG
* *
17449714 AAATACCCTCATAGGGTAAAATGACCGAAATACCCTTATAGGATAAAATGATCG
1 AAATACCC-CATAGGGTAAAATGACCGAAATACCCCTATAAGATAAAATGATCG
* ** * *
17449768 AAATACCCCATAGGGTAAAATGACTGTTATACCCCTAGAAGATGAAATGAT
1 AAATACCCCATAGGGTAAAATGACCGAAATACCCCTATAAGATAAAATGAT
17449819 TGTTATGGCC
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 39 0.43
54 52 0.57
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (53 bp):
AAATACCCCATAGGGTAAAATGACCGAAATACCCCTATAAGATAAAATGATCG
Found at i:17464152 original size:9 final size:9
Alignment explanation
Indices: 17464135--17464165 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17464125 TCGAGTTGAT
17464135 TCGAATAAC
1 TCGAATAAC
*
17464144 TCGATTAAC
1 TCGAATAAC
17464153 TCGAATAAC
1 TCGAATAAC
17464162 TCGA
1 TCGA
17464166 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:17465420 original size:4 final size:4
Alignment explanation
Indices: 17465411--17465468 Score: 53
Period size: 4 Copynumber: 14.5 Consensus size: 4
17465401 GTGCCCCAAT
** * * * *
17465411 TTCA TTCA TTTT TTAA TTCA TTCA TTCA TTCA TCCA TTCG TTCA CTCA
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA
*
17465459 TTCG TTCA TT
1 TTCA TTCA TT
17465469 TGTTTATTCA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (4 bp):
TTCA
Found at i:17472985 original size:23 final size:23
Alignment explanation
Indices: 17472925--17472985 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
17472915 CCTCATTCCG
* *
17472925 AAAAGAAAAGAAAGAAGAAGAAA
1 AAAAGAAAGGAAATAAGAAGAAA
* *
17472948 TAGAGAAAGCG-AATAAGAA-ATAA
1 AAAAGAAAG-GAAATAAGAAGA-AA
17472971 AAAAGAAAGGAAATA
1 AAAAGAAAGGAAATA
17472986 GGAATGAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
22 2 0.07
23 26 0.90
24 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.21, T:0.07
Consensus pattern (23 bp):
AAAAGAAAGGAAATAAGAAGAAA
Found at i:17473557 original size:14 final size:13
Alignment explanation
Indices: 17473538--17473568 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
17473528 GTCTAAATAA
17473538 AAAACAACAACAAC
1 AAAACAACAA-AAC
17473552 AAAACAACAAAAC
1 AAAACAACAAAAC
17473565 AAAA
1 AAAA
17473569 AAGAAACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAACAAAAC
Found at i:17473579 original size:17 final size:17
Alignment explanation
Indices: 17473559--17473591 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17473549 AACAAAACAA
*
17473559 CAAAACAAAAAAGAAAC
1 CAAAAAAAAAAAGAAAC
17473576 CAAAAAAAAAAAGAAA
1 CAAAAAAAAAAAGAAA
17473592 AAAAATAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAAGAAAC
Found at i:17474069 original size:42 final size:42
Alignment explanation
Indices: 17473999--17474379 Score: 424
Period size: 42 Copynumber: 9.1 Consensus size: 42
17473989 AAGGAAAACA
*
17473999 TTCATTGCATTTAGTGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
17474041 TTCATTACATTTAGAGGCCTAGGGGTGGAAGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* ***
17474083 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTTGTTCT-CTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATT-TACTT
* * * *
17474125 TTCATTGCATTTAGAGGCCTAGGTGTAGAGGTTCGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
17474167 TTCATTGCATTTAGAAGCCCAGATATGGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
17474209 TTCTTTACATTTAGAGACCTAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
17474251 TTTATTGCATTTAGAGGCCCAGGTATTGAGGTCCACTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* ** *
17474293 TTCATTTCATTTAGAGATCCAGGTGTGGATGT-CATTTGACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTT-ACTT
* * *
17474335 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
17474377 TTC
1 TTC
17474380 TAGTTTACTT
Statistics
Matches: 283, Mismatches: 52, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.01
42 274 0.97
43 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:17474407 original size:16 final size:16
Alignment explanation
Indices: 17474386--17474416 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17474376 TTTCTAGTTT
17474386 ACTTTTCATTGCATTG
1 ACTTTTCATTGCATTG
17474402 ACTTTTCATTGCATT
1 ACTTTTCATTGCATT
17474417 TAGAGGCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (16 bp):
ACTTTTCATTGCATTG
Found at i:17474732 original size:10 final size:10
Alignment explanation
Indices: 17474705--17474738 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
17474695 GATTTGAAAC
*
17474705 CTTTATTTTT
1 CTTTTTTTTT
17474715 CTTATTTTTTT
1 CTT-TTTTTTT
17474726 CTTTTTTTTT
1 CTTTTTTTTT
17474736 CTT
1 CTT
17474739 CTTTCCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:17475140 original size:19 final size:20
Alignment explanation
Indices: 17475098--17475143 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17475088 TTTCCTCCCC
*
17475098 TTTTTAAAATAAAGGTTTTG
1 TTTTTAAAATAAAGGTCTTG
17475118 TTTTTAAAA-AAAGG-CTTG
1 TTTTTAAAATAAAGGTCTTG
17475136 ATTTTTAA
1 -TTTTTAA
17475144 CAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 12 0.50
20 9 0.38
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTTTAAAATAAAGGTCTTG
Found at i:17475327 original size:153 final size:150
Alignment explanation
Indices: 17475135--17475523 Score: 482
Period size: 153 Copynumber: 2.5 Consensus size: 150
17475125 AAAAAGGCTT
* * *
17475135 GATTTTTAACAAATAAAAATATGTTT-TTTATAGTT-ATTTTAAAGGAAAGATTAAAATTTTAAA
1 GATTTTGAA-AAATAAAAATATATTTGTTTA-A-TTCATTTTAAAGGAAAGTTTAAAATTTTAAA
* * *
17475198 ATAAAGTTTTGATTTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAG-AAT-T-TTTT
63 ACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAACTTTAATCTTTAAGAAATATGTTTT
17475260 TTTAAAAAAAAAAAAGAGAAAGTTTA
128 TTT---AAAAAAAAAGAGAAAGTTTA
* * **
17475286 GATTTTGAAAAATAAAAATCTATTGTTTTTTTTTATCATTTTAAAGGAAAGTTTAAAATTTTAAA
1 GATTTTGAAAAATAAAAATATA-T-TTGTTTAAT-TCATTTTAAAGGAAAGTTTAAAATTTTAAA
*
17475351 ACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAATTTTAATCTTTAAGAAAAATAGTGT
63 ACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAACTTTAATCTTTAAG--AAATA-TGT
** **
17475416 TTTTTTTTAAAAAGGGAGAAAGTTTA
125 TTTTTTAAAAAAAAAGAGAAAGTTTA
* *
17475442 GATTTTGAAAAATAAAAATATATTTGTTTAATTCATTTTAAAGGAAATTTTAAAATTTTAATACA
1 GATTTTGAAAAATAAAAATATATTTGTTTAATTCATTTTAAAGGAAAGTTTAAAATTTTAAAACA
17475507 AAGTTTTGATTTTTTTT
66 AAGTTTTGATTTTTTTT
17475524 ATCTACTTTG
Statistics
Matches: 207, Mismatches: 20, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
150 11 0.05
151 10 0.05
152 3 0.01
153 128 0.62
154 6 0.03
155 1 0.00
156 40 0.19
158 1 0.00
159 7 0.03
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (150 bp):
GATTTTGAAAAATAAAAATATATTTGTTTAATTCATTTTAAAGGAAAGTTTAAAATTTTAAAACA
AAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAACTTTAATCTTTAAGAAATATGTTTTTTT
AAAAAAAAAGAGAAAGTTTA
Found at i:17475581 original size:153 final size:156
Alignment explanation
Indices: 17475170--17475581 Score: 479
Period size: 153 Copynumber: 2.7 Consensus size: 156
17475160 TTTTATAGTT
* * *
17475170 ATTTTAAAGGAAAGATTAAAATTTTAAAATAAAGTTTTGATTTTTTTTCAACTATTTCAAAGTAA
1 ATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAA
** * **
17475235 AAGCTTTAATCTTTAAG---AAT--T-TTTTTTTAAAAAAAAAAAAGAGAAAGTTTAGATTTTGA
66 AAATTTTAATCTTTAAGAAAAATAATGTTTTTTT---TAAAAAAGGGAGAAAGTTTAGATTTTGA
* * **
17475294 AAAATAAAAATCTATTGTTTTTTTTTATC
128 AAAATAAAAATATATTGTTGTTTAATATC
17475323 ATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAA
1 ATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAA
* *
17475388 AAATTTTAATCTTTAAGAAAAATAGTGTTTTTTTTTAAAAAGGGAGAAAGTTTAGATTTTGAAAA
66 AAATTTTAATCTTTAAGAAAAATAATGTTTTTTTTAAAAAAGGGAGAAAGTTTAGATTTTGAAAA
17475453 ATAAAAATATA-T-TTGTTTAAT-TC
131 ATAAAAATATATTGTTGTTTAATATC
* * * *
17475476 ATTTTAAAGGAAATTTTAAAATTTTAATACAAAGTTTTGATTTTTTTT-ATCTACTTT-GAAAT-
1 ATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTA-TTTCAAAATA
** * * *
17475538 AAGGTTTTGATTTTTAAGAAAAGTAATGATTTTTTTCTAAAAAA
65 AAAATTTTAATCTTTAAGAAAAATAATG-TTTTTTT-TAAAAAA
17475582 AACACTTTGA
Statistics
Matches: 226, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
151 22 0.10
152 15 0.07
153 134 0.59
154 6 0.03
155 1 0.00
156 40 0.18
158 1 0.00
159 7 0.03
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (156 bp):
ATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAA
AAATTTTAATCTTTAAGAAAAATAATGTTTTTTTTAAAAAAGGGAGAAAGTTTAGATTTTGAAAA
ATAAAAATATATTGTTGTTTAATATC
Found at i:17476185 original size:16 final size:17
Alignment explanation
Indices: 17476164--17476208 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
17476154 TATTTATTCG
17476164 TATTTCATTTTTATTTA
1 TATTTCATTTTTATTTA
* *
17476181 T-TTTCATGTCTATTTA
1 TATTTCATTTTTATTTA
17476197 TATTT-ATTTTTA
1 TATTTCATTTTTA
17476209 CACATTCCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTTCATTTTTATTTA
Found at i:17476195 original size:22 final size:20
Alignment explanation
Indices: 17476149--17476206 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
17476139 CACTTGTATA
* *
17476149 ATTTTTATTTATTCGTATTTC
1 ATTTTTATTTATT-TTATGTC
17476170 ATTTTTATTTATTTTCATGTC
1 ATTTTTATTTATTTT-ATGTC
*
17476191 TATTTATATTTATTTT
1 -ATTTTTATTTATTTT
17476207 TACACATTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 17 0.53
22 14 0.44
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (20 bp):
ATTTTTATTTATTTTATGTC
Found at i:17477649 original size:39 final size:39
Alignment explanation
Indices: 17477598--17477677 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
17477588 TCATTAGAAG
17477598 TTTGAATAGTTTTTGTTTTATTTTTATTTAGCCTTTAGT
1 TTTGAATAGTTTTTGTTTTATTTTTATTTAGCCTTTAGT
17477637 TTTGAATAGTTTTTGTTTTATTTTTATTTAGCCTTTAGT
1 TTTGAATAGTTTTTGTTTTATTTTTATTTAGCCTTTAGT
17477676 TT
1 TT
17477678 ATTATCCTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.65
Consensus pattern (39 bp):
TTTGAATAGTTTTTGTTTTATTTTTATTTAGCCTTTAGT
Found at i:17479965 original size:23 final size:23
Alignment explanation
Indices: 17479935--17479978 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
17479925 TGGGTTTAGG
17479935 GTTATAAAACCTTTTGTATTTAA
1 GTTATAAAACCTTTTGTATTTAA
*
17479958 GTTATAAAACTTTTTGTATTT
1 GTTATAAAACCTTTTGTATTT
17479979 GCATAACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (23 bp):
GTTATAAAACCTTTTGTATTTAA
Found at i:17486822 original size:132 final size:132
Alignment explanation
Indices: 17486585--17486849 Score: 530
Period size: 132 Copynumber: 2.0 Consensus size: 132
17486575 TACATACATT
17486585 TACAAATTTTAAATTAAAACCAAGGCTAACCTATACATGCCATAGTTCCAAAACAGAATTTATCT
1 TACAAATTTTAAATTAAAACCAAGGCTAACCTATACATGCCATAGTTCCAAAACAGAATTTATCT
17486650 TATCATATACCGTAGTTAGTCGATAGTGTGGTAGGCTTCACTGACAGATCCCCGAGCTCGTAACG
66 TATCATATACCGTAGTTAGTCGATAGTGTGGTAGGCTTCACTGACAGATCCCCGAGCTCGTAACG
17486715 AC
131 AC
17486717 TACAAATTTTAAATTAAAACCAAGGCTAACCTATACATGCCATAGTTCCAAAACAGAATTTATCT
1 TACAAATTTTAAATTAAAACCAAGGCTAACCTATACATGCCATAGTTCCAAAACAGAATTTATCT
17486782 TATCATATACCGTAGTTAGTCGATAGTGTGGTAGGCTTCACTGACAGATCCCCGAGCTCGTAACG
66 TATCATATACCGTAGTTAGTCGATAGTGTGGTAGGCTTCACTGACAGATCCCCGAGCTCGTAACG
17486847 AC
131 AC
17486849 T
1 T
17486850 TTAAAATCTA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (132 bp):
TACAAATTTTAAATTAAAACCAAGGCTAACCTATACATGCCATAGTTCCAAAACAGAATTTATCT
TATCATATACCGTAGTTAGTCGATAGTGTGGTAGGCTTCACTGACAGATCCCCGAGCTCGTAACG
AC
Found at i:17487436 original size:43 final size:43
Alignment explanation
Indices: 17487326--17487439 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
17487316 AGCTTGTACA
* * * *
17487326 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACAGATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAGATCG
17487369 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACAGA-TCG
*
17487412 ATGCCAACGTCCCAGACGTAGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
17487440 GGAGAACTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.07
43 54 0.89
44 3 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAGATCG
Found at i:17488971 original size:85 final size:85
Alignment explanation
Indices: 17488844--17489018 Score: 332
Period size: 85 Copynumber: 2.1 Consensus size: 85
17488834 AAAATACCCA
*
17488844 AAAGATGATGATGATAGTGTGGATGATGTTCTGACCCCGTCCAATTCCCTAGCTAATTAATATCA
1 AAAGATGATGATGATAGTGTGGATGATGTTCTGACCCCGTCCAATTCCCGAGCTAATTAATATCA
17488909 CTATAAAATAAGAGAAAAAT
66 CTATAAAATAAGAGAAAAAT
*
17488929 AAAGATGATGATGATAGTGTGGATGATGTTCTGACCCCGTCCAATTCCCGAGCTGATTAATATCA
1 AAAGATGATGATGATAGTGTGGATGATGTTCTGACCCCGTCCAATTCCCGAGCTAATTAATATCA
17488994 CTATAAAATAAGAGAAAAAT
66 CTATAAAATAAGAGAAAAAT
17489014 AAAGA
1 AAAGA
17489019 AGAGTAAGCT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (85 bp):
AAAGATGATGATGATAGTGTGGATGATGTTCTGACCCCGTCCAATTCCCGAGCTAATTAATATCA
CTATAAAATAAGAGAAAAAT
Found at i:17489874 original size:51 final size:50
Alignment explanation
Indices: 17489798--17490040 Score: 258
Period size: 51 Copynumber: 4.8 Consensus size: 50
17489788 NNNNNNNNNN
* * *
17489798 TTTACGGTTCACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGC-
1 TTTACGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACC--AGCA
* * *
17489849 TTTACGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCA
1 TTTACGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAGCA
* * *
17489899 TTTATCGATTCGCGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGC-
1 TTTA-CGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACC--AGCA
* * * *
17489951 TTCT-CGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCA
1 TT-TACGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAGCA
* * *
17490001 TTTATCGATACACGTAGTAGCCTTCACACAATACTACACA
1 TTTA-CGGTACACGTAGTAGCCTTCACATAGTACTACACA
17490041 CGTGTTCATC
Statistics
Matches: 159, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 5 0.03
50 6 0.04
51 143 0.90
52 2 0.01
53 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TTTACGGTACACGTAGTAGCCTTCACATAGTACTACACATGTGACCAGCA
Found at i:17489985 original size:102 final size:102
Alignment explanation
Indices: 17489807--17490044 Score: 397
Period size: 102 Copynumber: 2.3 Consensus size: 102
17489797 NTTTACGGTT
*
17489807 CACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTTTACGGTACACATAGTAGCCTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTACGGTACACATAGTAGCCTT
*
17489872 CACTTAGTACTACACATGTGACCATCATTTATCGATT
66 CACTTAGTACTACACATGTGACCATCATTTATCGATA
* * *
17489909 CGCGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTCT-CGGTACACATTGTAGCCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT-TACGGTACACATAGTAGCCT
17489973 TCACTTAGTACTACACATGTGACCATCATTTATCGATA
65 TCACTTAGTACTACACATGTGACCATCATTTATCGATA
* *
17490011 CACGTAGTAGCCTTCACACAATACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
17490045 TTCATCGATT
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
102 125 0.99
103 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTACGGTACACATAGTAGCCTT
CACTTAGTACTACACATGTGACCATCATTTATCGATA
Found at i:17490567 original size:30 final size:31
Alignment explanation
Indices: 17490513--17490571 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
17490503 GCTTCAACTC
17490513 AACTTTTGTCAAAATTACGATTTTGTCCCTA
1 AACTTTTGTCAAAATTACGATTTTGTCCCTA
*
17490544 AACTTTTG-CATAATTAC-ATTTTTGTCCC
1 AACTTTTGTCAAAATTACGA-TTTTGTCCC
17490572 AAAGATCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 17 0.65
31 8 0.31
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTTTTGTCAAAATTACGATTTTGTCCCTA
Found at i:17492107 original size:11 final size:12
Alignment explanation
Indices: 17492090--17492118 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
17492080 ATGTTTTATT
17492090 TTATTAACATTA
1 TTATTAACATTA
17492102 -TATTAACATTA
1 TTATTAACATTA
17492113 TTATTA
1 TTATTA
17492119 TTTTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATTAACATTA
Found at i:17494173 original size:2 final size:2
Alignment explanation
Indices: 17494166--17494213 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
17494156 GTGGATTCCC
17494166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17494208 AT AT AT
1 AT AT AT
17494214 TTNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17495837 original size:31 final size:31
Alignment explanation
Indices: 17495799--17495859 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
17495789 GACACAGCCA
17495799 TGTGTCCCTACTTTGAACGTCCACAAGGCCG
1 TGTGTCCCTACTTTGAACGTCCACAAGGCCG
* *
17495830 TGTGTCCCTACTTTGAATGTCCACATGGCC
1 TGTGTCCCTACTTTGAACGTCCACAAGGCC
17495860 TGAGACACTG
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:0.18, C:0.31, G:0.21, T:0.30
Consensus pattern (31 bp):
TGTGTCCCTACTTTGAACGTCCACAAGGCCG
Found at i:17498524 original size:16 final size:16
Alignment explanation
Indices: 17498503--17498604 Score: 78
Period size: 16 Copynumber: 5.6 Consensus size: 16
17498493 TGTTATACAA
17498503 GCTTAGTGCCTAGCAG
1 GCTTAGTGCCTAGCAG
*
17498519 GCTTAGTGCCGGTGTTATTCAG
1 GCTTAGTGCC-----TA-GCAG
17498541 GCTTAGTGCCTAGCAG
1 GCTTAGTGCCTAGCAG
*
17498557 GCTTAGTGCCGGTGTTATTCAG
1 GCTTAGTGCC-----TA-GCAG
17498579 GCTTAGTGCCTAGCAG
1 GCTTAGTGCCTAGCAG
17498595 GCTTAGTGCC
1 GCTTAGTGCC
17498605 GGTGTTATTC
Statistics
Matches: 70, Mismatches: 4, Indels: 24
0.71 0.04 0.24
Matches are distributed among these distances:
16 36 0.51
17 4 0.06
21 4 0.06
22 26 0.37
ACGTcount: A:0.16, C:0.23, G:0.31, T:0.30
Consensus pattern (16 bp):
GCTTAGTGCCTAGCAG
Found at i:17498544 original size:22 final size:22
Alignment explanation
Indices: 17498516--17498626 Score: 120
Period size: 22 Copynumber: 5.6 Consensus size: 22
17498506 TAGTGCCTAG
17498516 CAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCCGGTGTTATT
*
17498538 CAGGCTTAGTGCC-----TA-G
1 CAGGCTTAGTGCCGGTGTTATT
17498554 CAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCCGGTGTTATT
*
17498576 CAGGCTTAGTGCC-----TA-G
1 CAGGCTTAGTGCCGGTGTTATT
17498592 CAGGCTTAGTGCCGGTGTTATT
1 CAGGCTTAGTGCCGGTGTTATT
17498614 CAGGCTTAGTGCC
1 CAGGCTTAGTGCC
17498627 TAGTAGGCTT
Statistics
Matches: 73, Mismatches: 4, Indels: 24
0.72 0.04 0.24
Matches are distributed among these distances:
16 26 0.36
17 4 0.05
21 4 0.05
22 39 0.53
ACGTcount: A:0.15, C:0.22, G:0.32, T:0.32
Consensus pattern (22 bp):
CAGGCTTAGTGCCGGTGTTATT
Found at i:17498636 original size:16 final size:16
Alignment explanation
Indices: 17498539--17498645 Score: 54
Period size: 16 Copynumber: 6.0 Consensus size: 16
17498529 GGTGTTATTC
*
17498539 AGGCTTAGTGCCTAGC
1 AGGCTTAGTGCCTAGT
*
17498555 AGGCTTAGTGCCGGTGTTATT
1 AGGCTTAGTGCC-----TAGT
*
17498576 CAGGCTTAGTGCCTAGC
1 -AGGCTTAGTGCCTAGT
*
17498593 AGGCTTAGTGCCGGTGTTATT
1 AGGCTTAGTGCC-----TAGT
17498614 CAGGCTTAGTGCCTAGT
1 -AGGCTTAGTGCCTAGT
*
17498631 AGGCTTTGTG-CTAGT
1 AGGCTTAGTGCCTAGT
17498646 GTTAATCAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 25
0.68 0.08 0.24
Matches are distributed among these distances:
15 5 0.07
16 33 0.46
17 5 0.07
21 4 0.06
22 24 0.34
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.33
Consensus pattern (16 bp):
AGGCTTAGTGCCTAGT
Found at i:17498685 original size:38 final size:38
Alignment explanation
Indices: 17498459--17498670 Score: 316
Period size: 38 Copynumber: 5.6 Consensus size: 38
17498449 GAATGTATTG
* *
17498459 ATTCAAGCTTAGTGCCTAGCAGGCTTAGTGCTGGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
* *
17498497 ATACAAGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
17498535 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
17498573 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
* * **
17498611 ATTCAGGCTTAGTGCCTAGTAGGCTTTGTGCTAGTGTT
1 ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
* * * *
17498649 AATCAAGCATATTGCCTAGCAG
1 ATTCAGGCTTAGTGCCTAGCAG
17498671 ACTTTGAGCC
Statistics
Matches: 161, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 161 1.00
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (38 bp):
ATTCAGGCTTAGTGCCTAGCAGGCTTAGTGCCGGTGTT
Found at i:17500284 original size:16 final size:16
Alignment explanation
Indices: 17500263--17500294 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17500253 TGATTGAAAG
*
17500263 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
17500279 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
17500295 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:17503071 original size:22 final size:22
Alignment explanation
Indices: 17503045--17503088 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17503035 AATTTAGGTA
17503045 CTCAAATTATACTTAATTCAAT
1 CTCAAATTATACTTAATTCAAT
17503067 CTCAAATTATACTTAATTCAAT
1 CTCAAATTATACTTAATTCAAT
17503089 GGACCCACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCAAATTATACTTAATTCAAT
Found at i:17503405 original size:31 final size:32
Alignment explanation
Indices: 17503334--17503405 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
17503324 TAATTTGATC
* *
17503334 AATTTTAGTTCATGTACTTTTCAAATTGGTCA
1 AATTTTAGTCCATGTACTTTTCAAATTGGTAA
* * *
17503366 AA-TCTAGTCCTTGTACTTTTCAAATT-TTAA
1 AATTTTAGTCCATGTACTTTTCAAATTGGTAA
17503396 AATTTTAGTC
1 AATTTTAGTC
17503406 TTAACCCTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 4 0.12
31 27 0.82
32 2 0.06
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (32 bp):
AATTTTAGTCCATGTACTTTTCAAATTGGTAA
Found at i:17505176 original size:16 final size:18
Alignment explanation
Indices: 17505148--17505181 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17505138 AGGACTGAGG
17505148 TAAATTGTTTTTT-TCTT
1 TAAATTGTTTTTTATCTT
17505165 TAAATT-TTTTTTATCTT
1 TAAATTGTTTTTTATCTT
17505182 GGATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
TAAATTGTTTTTTATCTT
Found at i:17510495 original size:144 final size:143
Alignment explanation
Indices: 17510235--17510524 Score: 449
Period size: 144 Copynumber: 2.0 Consensus size: 143
17510225 GAATTATGAG
*
17510235 GCATATGTACTGATGATAGATGCCTGTTATCCCTTCCTAAATACATATTAGGAAGTCTAAGAGGG
1 GCATATGTACTGATGATAGATGCCTGTTATCCCTTCCTAAATACATATAAGGAAGTCTAAGAGGG
* * * * *
17510300 GATAGAGGATTCCAACCTTTCATTGCTCTTCTCTAGGCTAAAGTTAATTTAAAATTAAACCTTTC
66 GAGAGAGGATTCCAACCTTGCATTGCTCCTCTCTACGCTAAAGTTAATTTAAAATTAAAACTTTC
17510365 CTACCATTTAAGAT
131 CTACCA-TTAAGAT
* **
17510379 GCATATGTACTGATGGTAGATGCCTGTTATCTTTTCCTAAATACATATAAGGAAGTCTAAGAGGG
1 GCATATGTACTGATGATAGATGCCTGTTATCCCTTCCTAAATACATATAAGGAAGTCTAAGAGGG
17510444 GAGAGAGGATTCCAACCTTGCATTGCTCCTCTCTACGCTAAAAAG-T-ATTTAAAATTAAAACTT
66 GAGAGAGGATTCCAACCTTGCATTGCTCCTCTCTACGCT--AAAGTTAATTTAAAATTAAAACTT
*
17510507 TGCTACCATTAAGAT
129 TCCTACCATTAAGAT
17510522 GCA
1 GCA
17510525 CAGTTGAATT
Statistics
Matches: 134, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
143 10 0.07
144 119 0.89
145 1 0.01
146 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (143 bp):
GCATATGTACTGATGATAGATGCCTGTTATCCCTTCCTAAATACATATAAGGAAGTCTAAGAGGG
GAGAGAGGATTCCAACCTTGCATTGCTCCTCTCTACGCTAAAGTTAATTTAAAATTAAAACTTTC
CTACCATTAAGAT
Found at i:17528575 original size:18 final size:18
Alignment explanation
Indices: 17528527--17528576 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
17528517 TGATATGAAT
*
17528527 CAAATCATAATAATTTAAC
1 CAAATAATAATAA-TTAAC
17528546 CAAATAAT-ATAATT-AC
1 CAAATAATAATAATTAAC
*
17528562 CATAATTATAATAAT
1 CA-AATAATAATAAT
17528577 GTTTGACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 9 0.33
19 7 0.26
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (18 bp):
CAAATAATAATAATTAAC
Found at i:17529363 original size:42 final size:42
Alignment explanation
Indices: 17529268--17529366 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
17529258 AATGGGCCTA
* *
17529268 CTCACAGGAGCCGTGGGTCGAAATGTAAGCTACATGATACTG
1 CTCACACGAGCTGTGGGTCGAAATGTAAGCTACATGATACTG
*
17529310 CTCACACGAGCTGTGGGTCCG-AATGTAAGCTACATGATGCTG
1 CTCACACGAGCTGTGGGT-CGAAATGTAAGCTACATGATACTG
* *
17529352 TTCACATGAGCTGTG
1 CTCACACGAGCTGTG
17529367 AAGTATCCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 49 0.96
43 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (42 bp):
CTCACACGAGCTGTGGGTCGAAATGTAAGCTACATGATACTG
Found at i:17546728 original size:25 final size:25
Alignment explanation
Indices: 17546700--17546775 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
17546690 CATGCCCGTG
17546700 TGCTAGGCAGTGTAACTCACTGAGT
1 TGCTAGGCAGTGTAACTCACTGAGT
* * * *
17546725 TGCT---CCGTGTGACATGC-CCGTG-
1 TGCTAGGCAGTGTAAC-T-CACTGAGT
17546747 TGCTAGGCAGTGTAACTCACTGAGT
1 TGCTAGGCAGTGTAACTCACTGAGT
17546772 TGCT
1 TGCT
17546776 CCACACGCCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 11 0.31
23 5 0.14
24 5 0.14
25 15 0.42
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (25 bp):
TGCTAGGCAGTGTAACTCACTGAGT
Found at i:17546751 original size:47 final size:47
Alignment explanation
Indices: 17546682--17546816 Score: 199
Period size: 47 Copynumber: 3.0 Consensus size: 47
17546672 GGACACATGG
17546682 CCGTGTGACATGCCCGTGTGCTAGGCAGTGTAACTCACTGAGTTGCT
1 CCGTGTGACATGCCCGTGTGCTAGGCAGTGTAACTCACTGAGTTGCT
17546729 CCGTGTGACATGCCCGTGTGCTAGGCAGTGTAACTCACTGAGTTGCT
1 CCGTGTGACATGCCCGTGTGCTAGGCAGTGTAACTCACTGAGTTGCT
* * * *
17546776 CC-----ACACGCCCGTGTGCCAGGCCGTGTAACTCACTGACTTGC
1 CCGTGTGACATGCCCGTGTGCTAGGCAGTGTAACTCACTGAGTTGC
17546817 ACCCTAAGAA
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
42 35 0.42
47 49 0.58
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (47 bp):
CCGTGTGACATGCCCGTGTGCTAGGCAGTGTAACTCACTGAGTTGCT
Found at i:17547449 original size:19 final size:20
Alignment explanation
Indices: 17547427--17547465 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
17547417 CTATTTTTCT
*
17547427 TTACTTAATTA-CATTTTAA
1 TTACCTAATTACCATTTTAA
*
17547446 TTACCTATTTACCATTTTAA
1 TTACCTAATTACCATTTTAA
17547466 CCTTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
TTACCTAATTACCATTTTAA
Found at i:17555648 original size:13 final size:14
Alignment explanation
Indices: 17555622--17555651 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
17555612 AGAAAAGGTG
17555622 ATAATTATTAATAT
1 ATAATTATTAATAT
17555636 ATAATTA-TAATAT
1 ATAATTATTAATAT
17555649 ATA
1 ATA
17555652 TTAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATTAATAT
Found at i:17559375 original size:14 final size:14
Alignment explanation
Indices: 17559356--17559382 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17559346 GTGGTCCAGT
17559356 TGAACTGAACCGAG
1 TGAACTGAACCGAG
17559370 TGAACTGAACCGA
1 TGAACTGAACCGA
17559383 ACAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:17559995 original size:21 final size:20
Alignment explanation
Indices: 17559950--17559995 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
17559940 TTGTTGGAAT
17559950 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
17559969 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
17559990 GGTTGA
1 GGTTGA
17559996 TTTCCTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:17561968 original size:51 final size:49
Alignment explanation
Indices: 17561894--17562080 Score: 194
Period size: 51 Copynumber: 3.7 Consensus size: 49
17561884 CTATAAACAT
* **
17561894 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCACTAGGTAATGGTCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCA--AGGTTTTGGTCAC
* * * *
17561945 ATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAAGGTTTTGGTCAT
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTA-T-CAAGGTTTTGGTCAC
* * * * ** *
17561996 GTGTGTAGTACTATGTGGAGGCTACTATGTGAACCAAAAATTTTGATCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AAGGTTTTGGTCAC
*
17562046 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATC
17562081 GAATGATAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 41 0.36
51 70 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (49 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAGGTTTTGGTCAC
Found at i:17561976 original size:26 final size:26
Alignment explanation
Indices: 17561895--17561977 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
17561885 TATAAACATG
17561895 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * *
17561921 CGTGTA-TCACTAGGT-AATGG-TCAC-A
1 TGTGTAGT-ACTAAGTGCA-GGCT-ACTA
*
17561946 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
17561972 TGTGTA
1 TGTGTA
17561978 CTGGAAGGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
25 19 0.43
26 25 0.57
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:17562061 original size:50 final size:51
Alignment explanation
Indices: 17561941--17562072 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
17561931 TAGGTAATGG
* * * ** ** *
17561941 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAAGGTTTTGG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACTCAAAAATTTTGA
* *
17561992 TCATGTGTGTAGTACTATGTGGAGGCTACTATGTGAAC-CAAAAATTTTGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACTCAAAAATTTTGA
17562042 TCACGTGTGTAGTACTATGTGAAGGCTACTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTA
17562073 CGTGTATCGA
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 36 0.51
51 34 0.49
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACTCAAAAATTTTGA
Found at i:17568444 original size:50 final size:50
Alignment explanation
Indices: 17568335--17568522 Score: 142
Period size: 50 Copynumber: 3.6 Consensus size: 50
17568325 GGTAAAGAGA
* *** *
17568335 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTAAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TGG-A-CACCGA-G--ATGAGAAG
* * *
17568391 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGATACCGAGATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGACACCGAGATGAGAAG
** * ** * * ** *
17568441 TCCCCCGTAAGACTATGTCTAAGACATGGCATGGGCACTGTTATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGACACCGAGATGAGAAG
* *
17568491 TCCCATGTAAGACCATATCTGGGATATGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCAT
17568523 TGGAAGTACA
Statistics
Matches: 104, Mismatches: 28, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
50 69 0.66
52 1 0.01
53 2 0.02
54 1 0.01
55 2 0.02
56 29 0.28
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGACACCGAGATGAGAAG
Found at i:17577442 original size:21 final size:22
Alignment explanation
Indices: 17577416--17577465 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
17577406 ATGTGTGTTA
17577416 TGTTTAATAAG-T-TTTTACATG
1 TGTTTAATAAGCTATTTTA-ATG
17577437 TGTTTAATAAGCTCATTTTAATG
1 TGTTTAATAAGCT-ATTTTAATG
17577460 TGTTTA
1 TGTTTA
17577466 TTGTAGGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.42
22 1 0.04
23 9 0.35
24 5 0.19
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (22 bp):
TGTTTAATAAGCTATTTTAATG
Found at i:17582682 original size:16 final size:17
Alignment explanation
Indices: 17582649--17582682 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17582639 GAGTCTTAGT
17582649 CCTGGGTTGTTGTGGCA
1 CCTGGGTTGTTGTGGCA
17582666 CCTGGGTTGTT-TGGCA
1 CCTGGGTTGTTGTGGCA
17582682 C
1 C
17582683 TCAAATTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.06, C:0.21, G:0.38, T:0.35
Consensus pattern (17 bp):
CCTGGGTTGTTGTGGCA
Found at i:17582874 original size:18 final size:18
Alignment explanation
Indices: 17582845--17582879 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17582835 TCAATCATCC
17582845 CTCATATCATCATCTCTCA
1 CTCATATCATCAT-TCTCA
17582864 CTCAT-TCATCATTCTC
1 CTCATATCATCATTCTC
17582880 TTATCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (18 bp):
CTCATATCATCATTCTCA
Found at i:17595267 original size:15 final size:15
Alignment explanation
Indices: 17595243--17595273 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17595233 TAGTGCTACA
17595243 TGTGTAGGACAGATT
1 TGTGTAGGACAGATT
*
17595258 TGTGTTGGACAGATT
1 TGTGTAGGACAGATT
17595273 T
1 T
17595274 AGGGAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.32, T:0.39
Consensus pattern (15 bp):
TGTGTAGGACAGATT
Found at i:17599285 original size:9 final size:9
Alignment explanation
Indices: 17599271--17599295 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17599261 TATTATAAAT
17599271 CGAGAAAGA
1 CGAGAAAGA
17599280 CGAGAAAGA
1 CGAGAAAGA
17599289 CGAGAAA
1 CGAGAAA
17599296 CTGACATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.32, T:0.00
Consensus pattern (9 bp):
CGAGAAAGA
Found at i:17602478 original size:42 final size:42
Alignment explanation
Indices: 17602431--17602525 Score: 163
Period size: 42 Copynumber: 2.3 Consensus size: 42
17602421 CCCGTGTGAC
*
17602431 CTGGCCGTGTGTCACACGTGGCTGAGACACACGCCTGTGTCT
1 CTGGCCGTGTGTCACACGTGGCTGACACACACGCCTGTGTCT
*
17602473 CTGGCCGTGTGTCACACGTGGCTGACACACACGTCTGTGTCT
1 CTGGCCGTGTGTCACACGTGGCTGACACACACGCCTGTGTCT
*
17602515 CTGCCCGTGTG
1 CTGGCCGTGTG
17602526 GACAAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.13, C:0.32, G:0.31, T:0.25
Consensus pattern (42 bp):
CTGGCCGTGTGTCACACGTGGCTGACACACACGCCTGTGTCT
Found at i:17602964 original size:21 final size:22
Alignment explanation
Indices: 17602938--17602978 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
17602928 CTTCCATCAT
17602938 TCAACCATATTAA-GTTACTCG
1 TCAACCATATTAAGGTTACTCG
*
17602959 TCAACCATTTTAAGGTTACT
1 TCAACCATATTAAGGTTACT
17602979 TATATACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (22 bp):
TCAACCATATTAAGGTTACTCG
Done.