Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 23 of 378
Found at i:5955460 original size:173 final size:173
Alignment explanation
Indices: 5955056--5955593 Score: 862
Period size: 173 Copynumber: 3.1 Consensus size: 173
5955046 CCACCTGCTA
* * * * *
5955056 CCCTAGTGCTTAGGGGTTTAAGATCTGTAAATTCCACCTGTTACCCTACTGCTTAGGAGTTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAG
* * ** *
5955121 GTCCATCGCCTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCCAACCTGTTA
66 GTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTA
* *
5955186 CCCTACTACTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTT
131 CCCTACTACTTAGGGG-TTAAGGCTCATCGCTTTCGATCTGTTT
5955230 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAG
* * *
5955295 GTTCATCACCTTCGATCTGTTTCCCTACTGTTTTGGGGGTTAAGATCTGTAAATTTAGCCTGTTA
66 GTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTA
* *
5955360 CCCTACTACTTAGGGAGTTAAGGCTCGTCG-TTTCGATCTATTT
131 CCCTACTACTTAGGG-GTTAAGGCTCATCGCTTTCGATCTGTTT
*
5955403 CCCTACTGTTTAGGGGGTTAAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAG
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAG
5955468 GTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTA
66 GTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTA
* * *
5955533 CCCTACTGCTTAGGGGTTGAGGCCCATCGCTTTCGATCTGTTT
131 CCCTACTACTTAGGGGTTAAGGCTCATCGCTTTCGATCTGTTT
5955576 CCCTACTGCTTAGGGGGT
1 CCCTACTGCTTAGGGGGT
5955594 CAAATCTACT
Statistics
Matches: 335, Mismatches: 27, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
172 11 0.03
173 180 0.54
174 143 0.43
175 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (173 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAG
GTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTA
CCCTACTACTTAGGGGTTAAGGCTCATCGCTTTCGATCTGTTT
Found at i:5955574 original size:43 final size:43
Alignment explanation
Indices: 5954876--5955591 Score: 272
Period size: 43 Copynumber: 16.5 Consensus size: 43
5954866 AATTTTCAGC
* * * * *
5954876 CTGTTACCCTATTGCTTTGGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGGTCCATCGCTTTCGAT
* * * * *
5954920 CTATTTCCCTACTGCTTAGGGGGTTAAGAT-C-TTG-TAAATTC-AGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGGTCCATCGCT---TTCGA-T
* *
5954964 CTGTTACCCTACTGCTCAGGGGTTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGGTCCATCGCTTTCGAT
* * * ** *** * *
5955008 CTATTTCCCTACTGCTTAGGGGTTAAGATCTGT-AAATTCCAC
1 CTGTTACCCTACTGCTTAGGGGTTAAGGTCCATCGCTTTCGAT
* * * ** *** * *
5955050 CTGCTACCCTAGTGCTTAGGGGTTTAAGATCTGT-AAATTCCAC
1 CTGTTACCCTACTGCTTAGGGG-TTAAGGTCCATCGCTTTCGAT
*
5955093 CTGTTACCCTACTGCTTAGGAGTTTAAGGTCCATCGCCTTT-GAT
1 CTGTTACCCTACTGCTTAGG-GGTTAAGGTCCATCG-CTTTCGAT
* * ** *** * * *
5955137 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATCCAAC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGGTCCATCGCTTTCGAT
* * *
5955180 CTGTTACCCTACTACTTAGGGGTTTAAGGTTCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGGTCCATCGCTTTCGAT
* * ** *** * *
5955224 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGGTCCATCGCTTTCGAT
* * * *
5955267 CTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGGTCCATCGCTTTCGAT
* * * * ** *** * *
5955311 CTGTTTCCCTACTGTTTTGGGGGTTAAGATCTGTAAATTTAG-C
1 CTGTTACCCTACTG-CTTAGGGGTTAAGGTCCATCGCTTTCGAT
* *
5955354 CTGTTACCCTACTACTTAGGGAGTTAAGG-CTCGTCG-TTTCGAT
1 CTGTTACCCTACTGCTTAGGG-GTTAAGGTC-CATCGCTTTCGAT
* * * * ** *** * *
5955397 CTATTTCCCTACTGTTTAGGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGGTCCATCGCTTTCGAT
* * *
5955440 CTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGGTCCATCGCTTTCGAT
* * ** *** * *
5955484 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-C
1 CTGTTACCCTACTGCTTA-GGGGTTAAGGTCCATCGCTTTCGAT
* *
5955527 CTGTTACCCTACTGCTTAGGGGTTGAGGCCCATCGCTTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTAAGGTCCATCGCTTTCGAT
*
5955570 CTGTTTCCCTACTGCTTAGGGG
1 CTGTTACCCTACTGCTTAGGGG
5955592 GTCAAATCTA
Statistics
Matches: 485, Mismatches: 155, Indels: 65
0.69 0.22 0.09
Matches are distributed among these distances:
42 60 0.12
43 218 0.45
44 181 0.37
45 24 0.05
46 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGGTCCATCGCTTTCGAT
Found at i:5955831 original size:132 final size:132
Alignment explanation
Indices: 5955594--5956657 Score: 1725
Period size: 132 Copynumber: 8.1 Consensus size: 132
5955584 CTTAGGGGGT
* * * * *
5955594 CAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGTTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
5955659 CTTCACTGTAAGCACAGTAATGTCAGATCTTCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
5955724 GC
131 GC
* * *
5955726 CAAATATACTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATTTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
5955791 CTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
5955856 GC
131 GC
*
5955858 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * * *
5955923 CTTCACTATAAGCATAGGAATGTTAGATTTGCTATCTT-GATCTGTTCTCTATAAACAAAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
5955987 GC
131 GC
*
5955989 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
5956054 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATATTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
5956119 GC
131 GC
*
5956121 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAAGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
5956186 CTTCACTATAAGCACAGGAATATTAGAACTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
5956251 GC
131 GC
*
5956253 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
5956318 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATTTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
5956383 GC
131 GC
* *
5956385 CAAATCTGCGATTTTCAACTTGTTCCCTATAAGCACAGGGATTCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * *
5956450 CTTTACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATTTGTTCCCTATAAGCACAAGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
5956515 GC
131 GC
*
5956517 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAAGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
5956582 CTTCACTGTAAGCACGGGAATGTCAGATCTGCTATCTTTGATCTTTTCCCTATAAACATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
5956647 GC
131 GC
5956649 CAAATCTGC
1 CAAATCTGC
5956658 AATCTTCGAT
Statistics
Matches: 863, Mismatches: 68, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
131 120 0.14
132 743 0.86
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
GC
Found at i:5956663 original size:44 final size:44
Alignment explanation
Indices: 5955594--5956669 Score: 653
Period size: 44 Copynumber: 24.5 Consensus size: 44
5955584 CTTAGGGGGT
* * *
5955594 CAAATCTACTATCTTC-AACTTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
** ** * * * * ** *
5955638 CATGT-TGAAATCTTCAATCTGCTTCACTGTAAGCACAGTAATGT
1 CAAATCTGCTATCTTCGATCT-TTTCCCTATAAGCACAGGGATGC
* * * *
5955682 CAGATCTTCTATCTTCGATCTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGATCTTTTCCCTATAAGCACAGGGATGC
* * * *
5955726 CAAATATACTATTTTC-AACTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
** * * * *
5955770 C--ATGCTGAAATCTTCGAT-TTGCTTCACTGTAAGCACAGGAATGT
1 CAAAT-CTGCTATCTTCGATCTT--TTCCCTATAAGCACAGGGATGC
* * *
5955814 TAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCGATCTTTTCCCTATAAGCACAGGGATGC
* *
5955858 CAAATCTGCTATTTTC-AACTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
** * * * * * *
5955902 C--ATGCTGAAATCTTTGATCTGCTTCACTATAAGCATAGGAATGT
1 CAAAT-CTGCTATCTTCGATCT-TTTCCCTATAAGCACAGGGATGC
* * * * * * *
5955946 TAGATTTGCTATCTT-GATCTGTTCTCTATAAACAAAGGGATGC
1 CAAATCTGCTATCTTCGATCTTTTCCCTATAAGCACAGGGATGC
* * *
5955989 CAAATCTGTTATTTTC-AACTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
** * * * * *
5956033 C--ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGT
1 CAAAT-CTGCTATCTTCGATCT-TTTCCCTATAAGCACAGGGATGC
* * * *
5956077 CAGATCTGTTATATTCGATCTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCGATCTTTTCCCTATAAGCACAGGGATGC
* * *
5956121 CAAATCTGCTATTTTC-AACTTGTTCCCTATAAGCACAAGGATGC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
** * * * **
5956165 C--ATGCTGAAATCTTCGATCTGCTTCACTATAAGCACAGGAATAT
1 CAAAT-CTGCTATCTTCGATCT-TTTCCCTATAAGCACAGGGATGC
* * *
5956209 TAGAA-CTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGC
1 CA-AATCTGCTATCTTCGATCTTTTCCCTATAAGCACAGGGATGC
* * *
5956253 CAAATCTGTTATTTTC-AACTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
** * * * * *
5956297 C--ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGT
1 CAAAT-CTGCTATCTTCGATCT-TTTCCCTATAAGCACAGGGATGC
* * * *
5956341 CAGATCTGTTATTTTCGATCTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCGATCTTTTCCCTATAAGCACAGGGATGC
* * * *
5956385 CAAATCTGCGATTTTC-AACTTGTTCCCTATAAGCACAGGGATTC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
** * * * *
5956429 C--ATGCTGAAATCTTCGATCTGCTTT-ACTGTAAGCACAGGAATGT
1 CAAAT-CTGCTATCTTCGATCT--TTTCCCTATAAGCACAGGGATGC
* * *
5956473 CAGATCTGTTATCTTCGAT-TTGTTCCCTATAAGCACAAGGATGC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
* * *
5956517 CAAATCTGCTATTTTC-AACTTGTTCCCTATAAGCACAAGGATGC
1 CAAATCTGCTATCTTCGATCTT-TTCCCTATAAGCACAGGGATGC
** * * * *
5956561 C--ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCAC-GGGAATGT
1 CAAAT-CTGCTATCTTCGATCT-TTTCCCTATAAGCACAGGG-ATGC
* * * *
5956605 CAGATCTGCTATCTTTGATCTTTTCCCTATAAACATAGGGATGC
1 CAAATCTGCTATCTTCGATCTTTTCCCTATAAGCACAGGGATGC
*
5956649 CAAATCTGCAATCTTCGATCT
1 CAAATCTGCTATCTTCGATCT
5956670 GCTCTCCGCC
Statistics
Matches: 779, Mismatches: 199, Indels: 108
0.72 0.18 0.10
Matches are distributed among these distances:
42 15 0.02
43 114 0.15
44 535 0.69
45 100 0.13
46 14 0.02
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTTTTCCCTATAAGCACAGGGATGC
Found at i:5956811 original size:82 final size:82
Alignment explanation
Indices: 5956660--5956878 Score: 323
Period size: 82 Copynumber: 2.6 Consensus size: 82
5956650 AAATCTGCAA
* * *
5956660 TCTTCGATCTGCTCTCCGCC-GCTACAGAGACGCCAAATCATCTTGGATTTACTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGG----A--TCAACGTAAAC
5956724 ACGTGAAAGCCAAATCAGCTATG
60 ACGTGAAAGCCAAATCAGCTATG
* *
5956747 TCTTCGATCTACTCCCCGCCTGATACAAAGATGCCAAATCATCTTGGATCAACGTAAACACGTGA
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCAACGTAAACACGTGA
5956812 AAGCCAAATCAGCTATG
66 AAGCCAAATCAGCTATG
*
5956829 TCTTTGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATC
5956879 TGCTTCAGCG
Statistics
Matches: 123, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
82 81 0.66
84 1 0.01
87 18 0.15
88 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (82 bp):
TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCAACGTAAACACGTGA
AAGCCAAATCAGCTATG
Found at i:5957777 original size:39 final size:39
Alignment explanation
Indices: 5957728--5957808 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
5957718 TCGAAATGGA
5957728 TAAATTAATCAAAGATTGCAAATGCAATAAGAAGGAAAT
1 TAAATTAATCAAAGATTGCAAATGCAATAAGAAGGAAAT
5957767 TAAATTAATCAAAGATTGCAAATGCAATAAGAAGGAAAT
1 TAAATTAATCAAAGATTGCAAATGCAATAAGAAGGAAAT
5957806 TAA
1 TAA
5957809 CTCAAAACGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.23
Consensus pattern (39 bp):
TAAATTAATCAAAGATTGCAAATGCAATAAGAAGGAAAT
Found at i:5963236 original size:21 final size:22
Alignment explanation
Indices: 5963212--5963284 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 22
5963202 AAAGAAAAGG
5963212 ATAG-AAAAATATATATTAATA
1 ATAGAAAAAATATATATTAATA
* *
5963233 ATAGTAATAAATATAATAGTAATAA
1 ATAG-AAAAAATAT-ATATTAAT-A
*
5963258 ATAGAAAATAATAGTACATTAATA
1 ATAGAAAA-AATA-TATATTAATA
5963282 ATA
1 ATA
5963285 ATAGTATATG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 4 0.10
23 7 0.17
24 14 0.34
25 15 0.37
26 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (22 bp):
ATAGAAAAAATATATATTAATA
Found at i:5963250 original size:15 final size:15
Alignment explanation
Indices: 5963230--5963260 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5963220 ATATATATTA
5963230 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
5963245 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
5963260 A
1 A
5963261 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:5963384 original size:6 final size:6
Alignment explanation
Indices: 5963375--5963415 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
5963365 CAGTAGTAGT
5963375 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAA
5963416 TAGTAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:5963423 original size:21 final size:21
Alignment explanation
Indices: 5963353--5963447 Score: 82
Period size: 21 Copynumber: 4.4 Consensus size: 21
5963343 GAAAATATGT
* * *
5963353 TAATAAAAATAACAGTAGTAG
1 TAATAAAAATAAAAATAATAG
*
5963374 TAATAAAAATAAAAATAAAAATAA
1 TAATAAAAATAAAAAT---AATAG
*
5963398 AAATAAAAATAAAAATAATAG
1 TAATAAAAATAAAAATAATAG
** **
5963419 TAATAATGATATTAATAATAG
1 TAATAAAAATAAAAATAATAG
5963440 TAATAAAA
1 TAATAAAA
5963448 TAGAGAAAAG
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
21 40 0.69
24 18 0.31
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.25
Consensus pattern (21 bp):
TAATAAAAATAAAAATAATAG
Found at i:5963590 original size:3 final size:3
Alignment explanation
Indices: 5963584--5963717 Score: 121
Period size: 3 Copynumber: 44.7 Consensus size: 3
5963574 ATAGTTGTAG
* * * * * * *
5963584 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
5963631 T-A TAA CAA -AA AAA TAA TAA TAG TAA CGGAGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA --TA-A TAA TAA TAA TAA TAA
5963677 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5963718 TAAACAACAA
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
2 6 0.06
3 97 0.92
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:5964624 original size:24 final size:23
Alignment explanation
Indices: 5964591--5964638 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
5964581 CTTGAAGCTT
*
5964591 AAAAGCAAAATAAA-AAATGCAAAA
1 AAAAG-AAAAAAAAGAAAT-CAAAA
5964615 AAAAGAAAAAAAAGAAATCAAAA
1 AAAAGAAAAAAAAGAAATCAAAA
5964638 A
1 A
5964639 TTGAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.06
Consensus pattern (23 bp):
AAAAGAAAAAAAAGAAATCAAAA
Found at i:5972815 original size:22 final size:22
Alignment explanation
Indices: 5972787--5972831 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
5972777 AATGGATGAA
5972787 TGAATAAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
**
5972809 TGAATAAATGATGAATGAATGT
1 TGAATAAATGACAAATGAATGT
5972831 T
1 T
5972832 AGTCATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:5976217 original size:137 final size:136
Alignment explanation
Indices: 5975971--5976256 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
5975961 CATTGGGCCT
**
5975971 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
5976036 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTATGTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATGTCAAAATACATGCAACATCAAT-AA
5976101 CATATGC
130 CATATGC
* *
5976108 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCTTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
5976173 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATGTCAAAATACATGCAACATCAATAAC
5976238 ATATGC
131 ATATGC
5976244 AAGCCCATTTGGG
1 AAGCCCATTTGGG
5976257 AGACTACTCA
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 22 0.15
137 120 0.85
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATGTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:5978073 original size:26 final size:26
Alignment explanation
Indices: 5978044--5978127 Score: 109
Period size: 26 Copynumber: 3.2 Consensus size: 26
5978034 CATGAAATTC
*
5978044 TTATCATGAAACATTT-TGCTTGACC-A
1 TTATCATGAAACATTTAT-C-TAACCTA
5978070 TTATCATGAAACATTTATCTAACCTA
1 TTATCATGAAACATTTATCTAACCTA
* *
5978096 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTATCTAACCTA
5978122 TTATCA
1 TTATCA
5978128 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 4 0.08
26 48 0.91
27 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (26 bp):
TTATCATGAAACATTTATCTAACCTA
Found at i:5979727 original size:3 final size:3
Alignment explanation
Indices: 5979713--5979804 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
5979703 ATGTATACCA
* * *
5979713 AAT AAT ACAT AAT AAT ATT AA- AAT AA- AAT AAT AAGT AAC AAT AGT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* *
5979758 GAA- AAT AAT AAGT -AT AAT AAT AA- ATAT AAT GAT ATAT AAA AAT AAT
1 -AAT AAT AAT AA-T AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AAT AAT
5979804 A
1 A
5979805 CTATACATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
2 8 0.12
3 48 0.71
4 12 0.18
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:5979755 original size:26 final size:27
Alignment explanation
Indices: 5979712--5979765 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
5979702 TATGTATACC
* *
5979712 AAATAATACATAATAATA-TTAAAATA
1 AAATAATACATAACAATAGTGAAAATA
5979738 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATAGTGAAAATA
5979765 A
1 A
5979766 TAAGTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 15 0.62
27 8 0.33
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (27 bp):
AAATAATACATAACAATAGTGAAAATA
Found at i:5979973 original size:24 final size:23
Alignment explanation
Indices: 5979946--5980045 Score: 107
Period size: 23 Copynumber: 4.2 Consensus size: 23
5979936 TAGTTATTAA
5979946 AAAAATATATACATAAGATAATAT
1 AAAAATATATACATAA-ATAATAT
* *
5979970 AAAAATATGTACATGAAATAGTAT
1 AAAAATATATACAT-AAATAATAT
5979994 AAAAAATATATA-ACT-AATAATATT
1 -AAAAATATATACA-TAAATAATA-T
5980018 AAAAATATATACAT-AATATATAT
1 AAAAATATATACATAAATA-ATAT
5980041 AAAAA
1 AAAAA
5980046 CATTTACAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
23 28 0.42
24 25 0.38
25 13 0.20
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAAATAATAT
Found at i:5979979 original size:77 final size:71
Alignment explanation
Indices: 5979884--5980045 Score: 175
Period size: 77 Copynumber: 2.2 Consensus size: 71
5979874 GGGTAAAAAT
* * * *
5979884 AGATATAATAATAATATGTACAT-AATATAGTGTTAAAAGTACAT-ACATAATATAGTTATTAAA
1 AGATAT-ATAAAAATATGTACATGAA-ATAGTATAAAAAATACATAAC-TAATA-A--TATT--A
5979947 AAAATATATACATA
58 AAAATATATACATA
*
5979961 AGATAATATAAAAATATGTACATGAAATAGTATAAAAAATATATAACTAATAATATTAAAAATAT
1 AGAT-ATATAAAAATATGTACATGAAATAGTATAAAAAATACATAACTAATAATATTAAAAATAT
5980026 ATACATA
65 ATACATA
*
5980033 ATATATATAAAAA
1 AGATATATAAAAA
5980046 CATTTACAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
71 9 0.12
72 18 0.24
74 4 0.05
76 1 0.01
77 38 0.50
78 6 0.08
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (71 bp):
AGATATATAAAAATATGTACATGAAATAGTATAAAAAATACATAACTAATAATATTAAAAATATA
TACATA
Found at i:5979998 original size:25 final size:25
Alignment explanation
Indices: 5979945--5980045 Score: 106
Period size: 24 Copynumber: 4.2 Consensus size: 25
5979935 ATAGTTATTA
5979945 AAAAAATATATACATAAGATAATAT
1 AAAAAATATATACATAAGATAATAT
* *
5979970 -AAAAATATGTACATGAA-ATAGTAT
1 AAAAAATATATACAT-AAGATAATAT
5979994 AAAAAATATATA-ACT-A-ATAATAT
1 AAAAAATATATACA-TAAGATAATAT
* *
5980017 TAAAAATATATACATAATAT-ATAT
1 AAAAAATATATACATAAGATAATAT
5980041 AAAAA
1 AAAAA
5980046 CATTTACAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
23 19 0.30
24 30 0.47
25 15 0.23
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAAAATATATACATAAGATAATAT
Found at i:5980012 original size:23 final size:22
Alignment explanation
Indices: 5979945--5980062 Score: 96
Period size: 23 Copynumber: 5.0 Consensus size: 22
5979935 ATAGTTATTA
*
5979945 AAAAAATATATACATAAGATAAT
1 AAAAAATATATACATAATAT-AT
*
5979968 ATAAAAATATGTACATGAAATAGTAT
1 A-AAAAATATATACAT--AATA-TAT
5979994 AAAAAATATATA-ACTAATAATAT
1 AAAAAATATATACA-TAAT-ATAT
*
5980017 TAAAAATATATACATAATATAT
1 AAAAAATATATACATAATATAT
* *
5980039 ATAAAAACATTTACA-ATATATAT
1 A-AAAAATATATACATA-ATATAT
5980062 A
1 A
5980063 CATATTAGAA
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
22 5 0.06
23 40 0.51
24 16 0.20
25 11 0.14
26 6 0.08
27 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
AAAAAATATATACATAATATAT
Found at i:5980175 original size:3 final size:3
Alignment explanation
Indices: 5980167--5980213 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
5980157 ATACTAGTAC
5980167 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5980214 TATGCATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5981418 original size:22 final size:21
Alignment explanation
Indices: 5981386--5981434 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
5981376 GGTTAGTTTA
* *
5981386 GGTATTGGGTTATGGGTTTAAG
1 GGTAATGGGTTACGGG-TTAAG
*
5981408 TGTAATGGGTTACGGGTTAAG
1 GGTAATGGGTTACGGGTTAAG
5981429 GGTAAT
1 GGTAAT
5981435 TAGTTTTGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.22, C:0.02, G:0.39, T:0.37
Consensus pattern (21 bp):
GGTAATGGGTTACGGGTTAAG
Found at i:5982567 original size:19 final size:17
Alignment explanation
Indices: 5982545--5982589 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
5982535 AACATAAGTG
5982545 TTTTATATTGAAAAAATAT
1 TTTTATATTG--AAAATAT
*
5982564 TTTTATTTTGAAAATAT
1 TTTTATATTGAAAATAT
*
5982581 TTTTGTATT
1 TTTTATATT
5982590 TAATAACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
19 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (17 bp):
TTTTATATTGAAAATAT
Found at i:5984842 original size:22 final size:24
Alignment explanation
Indices: 5984816--5984864 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5984806 TATTTTGGAG
5984816 AGAAGA-A-ATTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
*
5984838 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
5984862 AGA
1 AGA
5984865 GGGGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 17 0.71
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (24 bp):
AGAAGAGATATTTTTTGAGATTCA
Found at i:5984856 original size:24 final size:24
Alignment explanation
Indices: 5984824--5984874 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
5984814 AGAGAAGAAA
5984824 TTTTTTGAGATTCAAGAAGAGATT
1 TTTTTTGAGATTCAAGAAGAGATT
* *
5984848 TTTTTTGAGATTCAAGAGGGGATT
1 TTTTTTGAGATTCAAGAAGAGATT
5984872 TTT
1 TTT
5984875 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (24 bp):
TTTTTTGAGATTCAAGAAGAGATT
Found at i:5984873 original size:21 final size:22
Alignment explanation
Indices: 5984816--5984874 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
5984806 TATTTTGGAG
*
5984816 AGAAGAAATTTTTTGAGATTCA
1 AGAAGAGATTTTTTGAGATTCA
5984838 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGA--TTTTTTGAGATTCA
* *
5984862 AGAGGGGATTTTT
1 AGAAGAGATTTTT
5984875 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
24 20 0.62
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (22 bp):
AGAAGAGATTTTTTGAGATTCA
Found at i:5985363 original size:3 final size:3
Alignment explanation
Indices: 5985355--5985383 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5985345 TGCATTTTAA
5985355 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
5985384 GTGTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5985623 original size:16 final size:15
Alignment explanation
Indices: 5985592--5985634 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
5985582 CCTTCATTCC
*
5985592 ATTATTATTATTACT
1 ATTATTATTTTTACT
5985607 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
5985623 ATCATTATTTTT
1 ATTATTATTTTT
5985635 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:5985760 original size:16 final size:16
Alignment explanation
Indices: 5985739--5985770 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5985729 CTATTGTTAC
5985739 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
5985755 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
5985771 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:5985812 original size:11 final size:13
Alignment explanation
Indices: 5985782--5985813 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
5985772 TTATTATAAT
5985782 TTATTATTGTTAC
1 TTATTATTGTTAC
5985795 TTATTATT-TTAC
1 TTATTATTGTTAC
5985807 -TATTATT
1 TTATTATT
5985814 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:5986023 original size:22 final size:22
Alignment explanation
Indices: 5985993--5986053 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
5985983 TTATTATATC
*
5985993 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
5986015 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
5986037 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
5986054 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:5986027 original size:3 final size:3
Alignment explanation
Indices: 5985770--5986008 Score: 84
Period size: 3 Copynumber: 80.3 Consensus size: 3
5985760 TTCTCATCAC
* * *
5985770 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
5985816 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * * * *
5985861 CAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG CAC TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * ** *
5985910 T-T TAT TAC TAT TAT T-T AATT TAT TAT TTT TAC TAT TAT CGT CA-
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
5985953 TAT TGT TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT TA- TAT CTTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
5985996 TAC TAT TAT TAT T
1 TAT TAT TAT TAT T
5986009 GTTGTATTTT
Statistics
Matches: 172, Mismatches: 46, Indels: 36
0.68 0.18 0.14
Matches are distributed among these distances:
2 16 0.09
3 140 0.81
4 16 0.09
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:5990501 original size:12 final size:12
Alignment explanation
Indices: 5990484--5990508 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5990474 AATTAAGGTT
5990484 AAAAAGAGAAAG
1 AAAAAGAGAAAG
5990496 AAAAAGAGAAAG
1 AAAAAGAGAAAG
5990508 A
1 A
5990509 GAGAATAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:5995719 original size:205 final size:205
Alignment explanation
Indices: 5995350--5996549 Score: 2023
Period size: 205 Copynumber: 5.9 Consensus size: 205
5995340 GTAATAGGCT
*
5995350 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGAATCCAAGATGGTTTGGCATCCTT
* *
5995415 GTGTTTACAAGGAATAAATCGAAGACGTAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
* * *
5995480 TCTAAGATGATTTGTCGTCTTTGTATCATCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
5995545 TGGAGAGCAG
196 TGGAGAGCAG
5995555 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGAATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGAATCCAAGATGGTTTGGCATCCTT
* *
5995620 GTGTTTACAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCATGTGATTATGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
*
5995685 TCTAAGATGATTTGTCATCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
5995750 TGGAGAGCAG
196 TGGAGAGCAG
*
5995760 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGC-AGATCCAAGATGGTTTGGCATCC
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGA-ATCCAAGATGGTTTGGCATCC
5995823 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
64 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
5995888 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
129 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
5995953 GATGGAGAGCAG
194 GATGGAGAGCAG
*
5995965 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGC-AGATCCAAGATGGTTTGGCATCC
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGA-ATCCAAGATGGTTTGGCATCC
*
5996028 TTGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
64 TTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCA
*
5996093 AATCTAAGATGATTTGTCGTCTCTGTATCGTTAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
129 AATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT
5996158 GATGGAGAGCAG
194 GATGGAGAGCAG
* * *
5996170 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAACGGATCCAAGATGATTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGAATCCAAGATGGTTTGGCATCCTT
5996235 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
5996300 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
5996365 TGGAGAGCAG
196 TGGAGAGCAG
* * *
5996375 ACACATAGCAGATCTCACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGATTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGAATCCAAGATGGTTTGGCATCCTT
* * * * ** * * *
5996440 ATGCTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCAAA
66 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
* * * * * *
5996504 TCTAAGATGATTTGGCATCTCTGTATTGTCAGGGATCAAATCGAAG
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
5996550 AAATAAATCT
Statistics
Matches: 951, Mismatches: 40, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
204 78 0.08
205 870 0.91
206 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (205 bp):
ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGAATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:5996679 original size:44 final size:43
Alignment explanation
Indices: 5996604--5996688 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 43
5996594 ATTTCAGCAT
*
5996604 GGCATCCCTGTGTTTATAAGGAGCAAGTTGAAGACAGCAGATTC
1 GGCATCCCTGTGTTTATAAGGAACAAGTTGAAGA-AGCAGATTC
**
5996648 GGCATCCCTGTGTTTATGGGGAAC-AGATTGAAGAAGCAGAT
1 GGCATCCCTGTGTTTATAAGGAACAAG-TTGAAGAAGCAGAT
5996689 CAAGAACTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (43 bp):
GGCATCCCTGTGTTTATAAGGAACAAGTTGAAGAAGCAGATTC
Found at i:5996918 original size:12 final size:12
Alignment explanation
Indices: 5996901--5996935 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
5996891 TAACCCAACC
5996901 CAAAAAAAAAAT
1 CAAAAAAAAAAT
5996913 C-AAAAAAAAAT
1 CAAAAAAAAAAT
5996924 CAAAAAAGAAAA
1 CAAAAAA-AAAA
5996936 AACCTAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.52
12 6 0.29
13 4 0.19
ACGTcount: A:0.83, C:0.09, G:0.03, T:0.06
Consensus pattern (12 bp):
CAAAAAAAAAAT
Found at i:5996919 original size:11 final size:11
Alignment explanation
Indices: 5996903--5996930 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5996893 ACCCAACCCA
5996903 AAAAAAAAATC
1 AAAAAAAAATC
5996914 AAAAAAAAATC
1 AAAAAAAAATC
5996925 AAAAAA
1 AAAAAA
5996931 GAAAAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:5997153 original size:22 final size:24
Alignment explanation
Indices: 5997127--5997175 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5997117 TATTTTGGAG
5997127 AGAAGA-A-ATTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
*
5997149 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
5997173 AGA
1 AGA
5997176 GGGGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 17 0.71
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (24 bp):
AGAAGAGATATTTTTTGAGATTCA
Found at i:5997167 original size:24 final size:24
Alignment explanation
Indices: 5997135--5997185 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
5997125 AGAGAAGAAA
5997135 TTTTTTGAGATTCAAGAAGAGATT
1 TTTTTTGAGATTCAAGAAGAGATT
* *
5997159 TTTTTTGAGATTCAAGAGGGGATT
1 TTTTTTGAGATTCAAGAAGAGATT
5997183 TTT
1 TTT
5997186 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (24 bp):
TTTTTTGAGATTCAAGAAGAGATT
Found at i:5997184 original size:21 final size:22
Alignment explanation
Indices: 5997127--5997185 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
5997117 TATTTTGGAG
*
5997127 AGAAGAAATTTTTTGAGATTCA
1 AGAAGAGATTTTTTGAGATTCA
5997149 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGA--TTTTTTGAGATTCA
* *
5997173 AGAGGGGATTTTT
1 AGAAGAGATTTTT
5997186 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
24 20 0.62
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (22 bp):
AGAAGAGATTTTTTGAGATTCA
Found at i:5997671 original size:3 final size:3
Alignment explanation
Indices: 5997663--5997712 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
5997653 TGCATTTTAA
5997663 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5997711 TA
1 TA
5997713 GTGTATATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5997814 original size:3 final size:3
Alignment explanation
Indices: 5997806--5997841 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
5997796 TGTATTTCTA
5997806 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5997842 ATGGTAGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5998769 original size:27 final size:28
Alignment explanation
Indices: 5998739--5998828 Score: 96
Period size: 27 Copynumber: 3.3 Consensus size: 28
5998729 TTTAGTTTAC
5998739 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * * *
5998766 TAAAAATACTGAAATGCCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
5998793 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
5998820 TAAAATTAC
1 TAAAATTAC
5998829 TAAAGTACCC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
26 4 0.08
27 47 0.92
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:5998837 original size:27 final size:26
Alignment explanation
Indices: 5998763--5998838 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
5998753 TACCCTTAGT
* * *
5998763 TTGTAAAAATACTGAAATGCCCTCGAT
1 TTGTAAAATTACT-AAATACCCTCGAC
* * *
5998790 TTGTAAATTTACCGAAATACCTTCGAC
1 TTGTAAAATTA-CTAAATACCCTCGAC
5998817 TTGTAAAATTACTAAAGTACCC
1 TTGTAAAATTACTAAA-TACCC
5998839 CGATTTACAG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
26 4 0.11
27 33 0.87
28 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (26 bp):
TTGTAAAATTACTAAATACCCTCGAC
Found at i:5998844 original size:53 final size:54
Alignment explanation
Indices: 5998739--5998844 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
5998729 TTTAGTTTAC
* *
5998739 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATGCCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTGAAATACCCTCGATTTG
* * *
5998793 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTACT-AAAGTACCC-CGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTGAAA-TACCCTCGATTT
5998845 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 14 0.31
54 31 0.69
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTGAAATACCCTCGATTTG
Found at i:5998855 original size:53 final size:53
Alignment explanation
Indices: 5998741--5998856 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 53
5998731 TAGTTTACTA
* * **
5998741 AAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATGCCCTCGATTTGT
1 AAATTACCGAAATACCCTTAGCTTGTAAAAATACTGAAATACCCTCGATTTAC
* *
5998794 AAATTTACCGAAATA-CCTTCGACTTGTAAAATTACT-AAAGTACCC-CGATTTAC
1 AAA-TTACCGAAATACCCTTAG-CTTGTAAAAATACTGAAA-TACCCTCGATTTAC
5998847 AGAATTACCG
1 A-AATTACCG
5998857 TTTTACCCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
53 24 0.45
54 29 0.55
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (53 bp):
AAATTACCGAAATACCCTTAGCTTGTAAAAATACTGAAATACCCTCGATTTAC
Found at i:5998879 original size:27 final size:27
Alignment explanation
Indices: 5998840--5999232 Score: 480
Period size: 27 Copynumber: 14.6 Consensus size: 27
5998830 AAAGTACCCC
5998840 GATTTACAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
5998867 AATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
5998894 GATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
5998921 GACTTACAGAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
5998948 AATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
5998975 GATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
5999002 GACTTACAGAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
5999029 AATTTACATAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* * * *
5999056 AATTTACATAATTATCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
5999083 GACTTACAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
5999110 GATTTACTGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* **
5999137 GATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
5999164 GATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
5999191 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
*
5999218 GATTTACAAAATTAC
1 GATTTACAGAATTAC
5999233 TAAAATACCC
Statistics
Matches: 321, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 321 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTT
Found at i:5998939 original size:81 final size:81
Alignment explanation
Indices: 5998834--5999231 Score: 561
Period size: 81 Copynumber: 4.9 Consensus size: 81
5998824 ATTACTAAAG
*
5998834 TACCC-CGATTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCTGATT
5998898 TACATAATTATCGTTT
66 TACATAATTATCGTTT
*
5998914 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCTGATT
5998979 TACATAATTATCGTTT
66 TACATAATTATCGTTT
* * *
5998995 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCTTAATT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCTGATT
5999060 TACATAATTATCGTTT
66 TACATAATTATCGTTT
** * *
5999076 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTAC-TGAATTACTGTTTTACCCTTGAT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACAT-AATTACCGTTTTACCCCTGAT
* * *
5999140 TTATAGAATTA-CTATTT
65 TTACATAATTATC-GTTT
* * * * * * *
5999157 TACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTA-CCCTCGAT
1 TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCT-GAT
*
5999221 TTACAAAATTA
65 TTACATAATTA
5999232 CTAAAATACC
Statistics
Matches: 292, Mismatches: 21, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
80 10 0.03
81 282 0.97
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGACTTACAGAATTACCGTTTTACCCTTAATTTACATAATTACCGTTTTACCCCTGATT
TACATAATTATCGTTT
Found at i:5999241 original size:27 final size:27
Alignment explanation
Indices: 5999130--5999381 Score: 134
Period size: 27 Copynumber: 9.3 Consensus size: 27
5999120 ATTACTGTTT
* * ***
5999130 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACTAAAA
* * ****
5999157 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
* ****
5999184 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACTAAAA
*
5999211 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *** *
5999238 TACCCTTGGTTTGTGAAATTACCGAAAA
1 TACCCTTGATTTACAAAATTA-CTAAAA
** ** *
5999266 -ACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* * *
5999292 TACCCCTAATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
5999319 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* *
5999348 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
5999375 TACCCTT
1 TACCCTT
5999382 AGTTTGTAGA
Statistics
Matches: 186, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 148 0.80
28 13 0.07
29 19 0.10
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:5999270 original size:81 final size:81
Alignment explanation
Indices: 5999104--5999276 Score: 186
Period size: 81 Copynumber: 2.1 Consensus size: 81
5999094 TTACCGTTTT
* * * * ***
5999104 ACCCTCGATTTACTGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
* ****
5999169 ATAGAATTACTGTTTT
66 ATAGAATTACCGAAAA
* *
5999185 ACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTT
1 ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
*
5999250 GT-GAAATTACCGAAAA
66 ATAG-AATTACCGAAAA
*
5999266 ACCCTCAATTT
1 ACCCTCGATTT
5999277 GTAAAATTAC
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 73 0.99
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (81 bp):
ACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTT
ATAGAATTACCGAAAA
Found at i:5999504 original size:27 final size:27
Alignment explanation
Indices: 5999440--5999504 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
5999430 ATCCCTATTA
*
5999440 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
5999467 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
5999494 GGTAAAATGAC
1 GGTAAAATGAC
5999505 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:6000763 original size:9 final size:9
Alignment explanation
Indices: 6000751--6000807 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
6000741 TTTGATAAAC
6000751 ATGATATGT
1 ATGATATGT
*
6000760 ATGATATGCAC
1 ATGATATG--T
*
6000771 ATGACATGT
1 ATGATATGT
*
6000780 ATGATATGCAC
1 ATGATATG--T
6000791 ATGATATGT
1 ATGATATGT
6000800 ATGATATG
1 ATGATATG
6000808 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:6000774 original size:20 final size:20
Alignment explanation
Indices: 6000749--6000819 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
6000739 ATTTTGATAA
6000749 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
6000769 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
6000789 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
6000809 ACATGAGATGT
1 ACATGATATGT
6000820 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:6000796 original size:11 final size:11
Alignment explanation
Indices: 6000760--6000814 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
6000750 CATGATATGT
6000760 ATGATATGCAC
1 ATGATATGCAC
* *
6000771 ATGACATG--T
1 ATGATATGCAC
6000780 ATGATATGCAC
1 ATGATATGCAC
*
6000791 ATGATATG--T
1 ATGATATGCAC
6000800 ATGATATGCAC
1 ATGATATGCAC
6000811 ATGA
1 ATGA
6000815 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:6000895 original size:23 final size:23
Alignment explanation
Indices: 6000865--6001030 Score: 260
Period size: 23 Copynumber: 7.1 Consensus size: 23
6000855 AGGAAGTGCA
6000865 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
6000888 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
6000911 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
6000935 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
6000958 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
6000982 AAAGGGCTTACGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
6001005 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
6001028 AAA
1 AAA
6001031 AGAGGCAAGG
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
23 89 0.68
24 41 0.32
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:6000956 original size:47 final size:47
Alignment explanation
Indices: 6000865--6001032 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
6000855 AGGAAGTGCA
*
6000865 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
6000911 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* * *
6000958 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
6001005 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
6001033 AGGCAAGGCC
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 22 0.19
47 92 0.81
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:6000976 original size:70 final size:71
Alignment explanation
Indices: 6000863--6001030 Score: 268
Period size: 70 Copynumber: 2.4 Consensus size: 71
6000853 GGAGGAAGTG
* * *
6000863 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
6000927 AGTTAT
66 AGTTAT
*
6000933 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
6000998 AGTTAT
66 AGTTAT
* *
6001004 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
6001031 AGAGGCAAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 71 0.78
71 20 0.22
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
AGTTAT
Found at i:6001235 original size:42 final size:42
Alignment explanation
Indices: 6001172--6001263 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
6001162 TAGTCTCCCC
* **
6001172 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
6001214 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
6001256 AAATGGGC
1 AAATGGGC
6001264 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:6001897 original size:3 final size:3
Alignment explanation
Indices: 6001881--6001916 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
6001871 TAAAATCTTC
* *
6001881 ATT ATT ATG GTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6001917 TTGGTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6004228 original size:20 final size:21
Alignment explanation
Indices: 6004185--6004230 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6004175 ACTGTTCTGT
6004185 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
6004205 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
6004224 TATGGGC
1 TATGGGC
6004231 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:6004371 original size:27 final size:28
Alignment explanation
Indices: 6004319--6004371 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6004309 TTACTGTAAG
* *
6004319 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
6004347 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
6004372 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:6008349 original size:17 final size:19
Alignment explanation
Indices: 6008315--6008351 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6008305 CTTTAGGATT
*
6008315 TTTTTTTTTCCTTCTTCTA
1 TTTTTTATTCCTTCTTCTA
6008334 TTTTTTATT-CTT-TTCTA
1 TTTTTTATTCCTTCTTCTA
6008351 T
1 T
6008352 CCTTCTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTATTCCTTCTTCTA
Found at i:6009700 original size:20 final size:21
Alignment explanation
Indices: 6009657--6009702 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6009647 ACTGTTCTGT
6009657 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
6009677 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
6009696 TATGGGC
1 TATGGGC
6009703 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:6009843 original size:27 final size:28
Alignment explanation
Indices: 6009791--6009843 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6009781 TTACTGTAAG
* *
6009791 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
6009819 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
6009844 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:6011321 original size:16 final size:15
Alignment explanation
Indices: 6011290--6011332 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
6011280 CCTTCATTCC
*
6011290 ATTATTATTATTACT
1 ATTATTATTTTTACT
6011305 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
6011321 ATCATTATTTTT
1 ATTATTATTTTT
6011333 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:6011458 original size:16 final size:16
Alignment explanation
Indices: 6011437--6011468 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6011427 CTATTGTTAC
6011437 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
6011453 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
6011469 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:6011510 original size:11 final size:13
Alignment explanation
Indices: 6011480--6011511 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6011470 TTATTATAAT
6011480 TTATTATTGTTAC
1 TTATTATTGTTAC
6011493 TTATTATT-TTAC
1 TTATTATTGTTAC
6011505 -TATTATT
1 TTATTATT
6011512 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:6011721 original size:8 final size:8
Alignment explanation
Indices: 6011708--6011750 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
6011698 TTGTTACTAT
6011708 TATTATTA
1 TATTATTA
6011716 TATTATTA
1 TATTATTA
*
6011724 TGTTATTA
1 TATTATTA
*
6011732 TATCTTTTA
1 TAT-TATTA
6011741 CTATTATTA
1 -TATTATTA
6011750 T
1 T
6011751 TGTTGTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 18 0.62
9 8 0.28
10 3 0.10
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTATTA
Found at i:6011766 original size:22 final size:22
Alignment explanation
Indices: 6011736--6011796 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
6011726 TTATTATATC
*
6011736 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
6011758 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
6011780 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
6011797 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:6011770 original size:3 final size:3
Alignment explanation
Indices: 6011468--6011751 Score: 174
Period size: 3 Copynumber: 95.3 Consensus size: 3
6011458 TTCTCATCAC
* * *
6011468 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
6011514 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * *
6011559 CAT CAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
6011607 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG CAC TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * ** *
6011653 T-T TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT CGT CA-
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
6011696 TAT TGT TAC TAT TAT TAT TA- TAT TAT TA- TGT TAT TA- TAT CTTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
6011739 TAC TAT TAT TAT T
1 TAT TAT TAT TAT T
6011752 GTTGTATTTT
Statistics
Matches: 219, Mismatches: 44, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
2 16 0.07
3 187 0.85
4 16 0.07
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:6011998 original size:29 final size:29
Alignment explanation
Indices: 6011962--6012022 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
6011952 CATTATTTCC
6011962 CTTTCTTATTATTTATTCGATTCATTTAT
1 CTTTCTTATTATTTATTCGATTCATTTAT
6011991 CTTTCTTATTATTTATTCGATTCATTTAT
1 CTTTCTTATTATTTATTCGATTCATTTAT
6012020 CTT
1 CTT
6012023 ACCTTCGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.20, C:0.15, G:0.03, T:0.62
Consensus pattern (29 bp):
CTTTCTTATTATTTATTCGATTCATTTAT
Found at i:6013931 original size:21 final size:22
Alignment explanation
Indices: 6013902--6013944 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6013892 TAGCAATTAG
*
6013902 ATAAATTTTAT-TTTTTTTAAA
1 ATAAATTTTATAATTTTTTAAA
*
6013923 ATAATTTTTATAATTTTTTAAA
1 ATAAATTTTATAATTTTTTAAA
6013945 CTTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATAAATTTTATAATTTTTTAAA
Found at i:6015959 original size:18 final size:18
Alignment explanation
Indices: 6015915--6015975 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
6015905 TACGACCATT
6015915 TACAGTACTATTCATGTA
1 TACAGTACTATTCATGTA
* *
6015933 TACGGTACTATTTATGTA
1 TACAGTACTATTCATGTA
* * *
6015951 TACAATACTGTTCACGTA
1 TACAGTACTATTCATGTA
6015969 TACAGTA
1 TACAGTA
6015976 GTTGGGATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (18 bp):
TACAGTACTATTCATGTA
Found at i:6025459 original size:18 final size:18
Alignment explanation
Indices: 6025424--6025517 Score: 138
Period size: 18 Copynumber: 5.3 Consensus size: 18
6025414 ATATGTAATA
6025424 TTAGATATGA-TACAATC
1 TTAGATATGATTACAATC
* *
6025441 TTAAATATGATTGCAATC
1 TTAGATATGATTACAATC
6025459 TTAGATATGA-TACAATC
1 TTAGATATGATTACAATC
*
6025476 TTAGATATGATTGCAATC
1 TTAGATATGATTACAATC
6025494 TTAGATATGATATACAATC
1 TTAGATATGAT-TACAATC
6025513 TTAGA
1 TTAGA
6025518 AGATATGATT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
17 25 0.37
18 32 0.47
19 11 0.16
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
TTAGATATGATTACAATC
Found at i:6025464 original size:35 final size:35
Alignment explanation
Indices: 6025424--6025515 Score: 157
Period size: 35 Copynumber: 2.6 Consensus size: 35
6025414 ATATGTAATA
6025424 TTAGATATGATACAATCTTAAATATGATTGCAATC
1 TTAGATATGATACAATCTTAAATATGATTGCAATC
*
6025459 TTAGATATGATACAATCTTAGATATGATTGCAATC
1 TTAGATATGATACAATCTTAAATATGATTGCAATC
6025494 TTAGATATGATATACAATCTTA
1 TTAGATATG--ATACAATCTTA
6025516 GAAGATATGA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
35 43 0.80
37 11 0.20
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (35 bp):
TTAGATATGATACAATCTTAAATATGATTGCAATC
Found at i:6028664 original size:13 final size:13
Alignment explanation
Indices: 6028646--6028695 Score: 64
Period size: 13 Copynumber: 3.6 Consensus size: 13
6028636 TTTTATTAGT
6028646 TTTGGGTTTTAAA
1 TTTGGGTTTTAAA
*
6028659 TTTGGGTTTATAATGT
1 TTTGGGTTT-TAA--A
6028675 TTTGGGTTTTAAA
1 TTTGGGTTTTAAA
6028688 TTTGGGTT
1 TTTGGGTT
6028696 ATGTAATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 17 0.53
14 3 0.09
15 3 0.09
16 9 0.28
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (13 bp):
TTTGGGTTTTAAA
Found at i:6028666 original size:29 final size:30
Alignment explanation
Indices: 6028633--6028695 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
6028623 TTTGGGCTTA
*
6028633 GGGTTTTATTA-GTTTTGGGTTTTAAATTT
1 GGGTTTTATAATGTTTTGGGTTTTAAATTT
6028662 GGG-TTTATAATGTTTTGGGTTTTAAATTT
1 GGGTTTTATAATGTTTTGGGTTTTAAATTT
6028691 GGGTT
1 GGGTT
6028696 ATGTAATTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 6 0.19
29 24 0.77
30 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (30 bp):
GGGTTTTATAATGTTTTGGGTTTTAAATTT
Found at i:6029803 original size:25 final size:24
Alignment explanation
Indices: 6029770--6029835 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
6029760 ATCATAATTT
*
6029770 GTACTAATTTTATTAAATCATATAG
1 GTACAAATTTTATTAAAT-ATATAG
*
6029795 GTACAAATTGTTTTTAAGA-ATATAG
1 GTACAAATT-TTATTAA-ATATATAG
*
6029820 CTACAAA--TTATTAAAT
1 GTACAAATTTTATTAAAT
6029836 GTTCAATATC
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
21 1 0.03
22 6 0.18
25 20 0.59
26 6 0.18
27 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (24 bp):
GTACAAATTTTATTAAATATATAG
Found at i:6030245 original size:14 final size:13
Alignment explanation
Indices: 6030226--6030266 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
6030216 CTACATTAAA
6030226 ATTAAACTATAATT
1 ATTAAA-TATAATT
6030240 ATTAAAT-TAAGTT
1 ATTAAATATAA-TT
6030253 ATTAAATATAATT
1 ATTAAATATAATT
6030266 A
1 A
6030267 ATACTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.12
13 13 0.52
14 9 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTAAATATAATT
Found at i:6032319 original size:27 final size:27
Alignment explanation
Indices: 6031871--6032318 Score: 540
Period size: 27 Copynumber: 16.6 Consensus size: 27
6031861 AAAGTACTCC
*
6031871 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
** *
6031898 C-AGTTTATAGAATTACTATTTTAACCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* *
6031925 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
6031952 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
6031979 CGATTTATAGAATTACCGTTTTACCGT
1 CGATTTATAGAATTACCGTTTTACCCT
*
6032006 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
**
6032033 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* *
6032060 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
6032087 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
6032114 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
** * * * *
6032141 TAATTTACATAATTACCATTTTACCCC
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
6032168 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
6032195 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * *
6032222 CGATTTACAGTATTTCCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
6032249 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
6032276 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
6032303 CGATTTACAAAATTAC
1 CGATTTATAGAATTAC
6032319 TAAAATACCC
Statistics
Matches: 365, Mismatches: 52, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 361 0.99
28 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:6033708 original size:20 final size:20
Alignment explanation
Indices: 6033648--6033708 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
6033638 ATAAATATGG
*
6033648 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
6033668 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
6033688 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
6033708 T
1 T
6033709 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:6033784 original size:24 final size:24
Alignment explanation
Indices: 6033757--6033875 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
6033747 GGAGGAAGTG
*
6033757 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
6033781 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
6033804 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
6033828 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
6033852 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
6033876 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:6033826 original size:47 final size:48
Alignment explanation
Indices: 6033757--6033875 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
6033747 GGAGGAAGTG
6033757 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
6033804 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
6033852 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
6033876 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:6034102 original size:31 final size:31
Alignment explanation
Indices: 6034067--6034130 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
6034057 CGTTTACAGT
*
6034067 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
6034098 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
6034129 AA
1 AA
6034131 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:6036014 original size:26 final size:26
Alignment explanation
Indices: 6035934--6036018 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
6035924 AAATTTTAAG
6035934 ATAAAA-AATTTAAAAT-AAGTAACAT
1 ATAAAAGAATTTAAAATCAA-TAACAT
* * * *
6035959 ATATAGGAAGTTCAAAA-CAAATAATA-
1 ATAAAAGAA-TTTAAAATC-AATAACAT
*
6035985 ATAAAAGAATTTAAAATCATTAACAT
1 ATAAAAGAATTTAAAATCAATAACAT
6036011 ATAAAAGA
1 ATAAAAGA
6036019 TATATACAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
25 15 0.33
26 18 0.40
27 10 0.22
28 2 0.04
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (26 bp):
ATAAAAGAATTTAAAATCAATAACAT
Found at i:6036255 original size:27 final size:27
Alignment explanation
Indices: 6036220--6036275 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
6036210 TAAAAATCTC
* * *
6036220 AAAATAAATAAC-TTCGTATAATAGTTT
1 AAAAGAAATAACATACGTAAAATA-TTT
6036247 AAAAGAAATAACATACGTAAAATATTT
1 AAAAGAAATAACATACGTAAAATATTT
6036274 AA
1 AA
6036276 CATTGATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAAGAAATAACATACGTAAAATATTT
Found at i:6036413 original size:6 final size:6
Alignment explanation
Indices: 6036310--6036412 Score: 152
Period size: 6 Copynumber: 17.2 Consensus size: 6
6036300 GTTACTCAAG
6036310 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* * * * *
6036358 AATAAT AATAAT AATAAT AGTAAT AGTAAT AGTAAT AGTAAT AGTAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
*
6036406 AGTAAT A
1 AATAAT A
6036413 GCAATAATGA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 96 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (6 bp):
AATAAT
Found at i:6036805 original size:2 final size:2
Alignment explanation
Indices: 6036798--6036828 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6036788 AAAATAGACA
6036798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6036829 GTTTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6038244 original size:27 final size:27
Alignment explanation
Indices: 6038219--6038583 Score: 542
Period size: 27 Copynumber: 13.7 Consensus size: 27
6038209 GAAAGTTATT
*
6038219 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6038246 GAAAT-CCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6038272 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
6038299 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
6038326 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
6038353 GAAATA-CCCTATAGGGTAGAATTACA
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
6038379 AAAATACCCCTGTATGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6038406 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6038433 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
6038460 AAAATACCCCTGTATGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
6038487 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
6038514 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
6038541 AAAATTCCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
6038568 -AAGATA-CCCT-TAGGGT
1 GAA-ATACCCCTGTAGGGT
6038584 GTTAAATGAT
Statistics
Matches: 309, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
25 6 0.02
26 53 0.17
27 250 0.81
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:6038833 original size:28 final size:28
Alignment explanation
Indices: 6038792--6038901 Score: 136
Period size: 27 Copynumber: 4.0 Consensus size: 28
6038782 GGAGGAACCA
6038792 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
6038820 TTCTGGTGGTTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
* *
6038847 TTCTGGTGGCTCTGCCAC-AATATTTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
* * * *
6038874 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
6038901 T
1 T
6038902 GACTGATCGA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.10
27 39 0.54
28 26 0.36
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:6039235 original size:27 final size:27
Alignment explanation
Indices: 6039205--6039261 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
6039195 ATTCTGTTAA
* *
6039205 GTGGCTTTGCCACATTATCTG-ATCCTG
1 GTGGCTCTGCCACAATATCTGTAT-CTG
6039232 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
6039259 GTG
1 GTG
6039262 ACTTCGTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:6039431 original size:31 final size:31
Alignment explanation
Indices: 6039396--6039468 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
6039386 TTGCATTCAC
* *
6039396 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTAATTCTGTCACCTGATACTG
* *
6039427 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTTTAATTCTGTCACCTGATACTG
*
6039458 ATTCTAATTTT
1 ATTCTGATTTT
6039469 CTGTAACACC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTAATTCTGTCACCTGATACTG
Found at i:6042153 original size:13 final size:13
Alignment explanation
Indices: 6042113--6042179 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
6042103 CATGAAATTC
6042113 TTATCATGAAACA
1 TTATCATGAAACA
*
6042126 TTTATC-T-AACCCA
1 -TTATCATGAA-ACA
6042139 TTATCATGAAACA
1 TTATCATGAAACA
*
6042152 TTTATC-T-AACCCA
1 -TTATCATGAA-ACA
6042165 TTATCATGAAACA
1 TTATCATGAAACA
6042178 TT
1 TT
6042180 TACCTAACCT
Statistics
Matches: 42, Mismatches: 4, Indels: 15
0.69 0.07 0.25
Matches are distributed among these distances:
12 14 0.33
13 14 0.33
14 14 0.33
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (13 bp):
TTATCATGAAACA
Found at i:6042222 original size:26 final size:26
Alignment explanation
Indices: 6042113--6042214 Score: 168
Period size: 26 Copynumber: 3.9 Consensus size: 26
6042103 CATGAAATTC
*
6042113 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
6042139 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
6042165 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
6042191 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
6042215 TTTTATCAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6042588 original size:18 final size:17
Alignment explanation
Indices: 6042567--6042600 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6042557 CTCATTTTGA
6042567 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
6042585 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
6042601 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:6043575 original size:2 final size:2
Alignment explanation
Indices: 6043568--6043601 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6043558 TATCTTCCTG
* *
6043568 AT AT AT AT AT AT AT AT AT AT AT AT GT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6043602 CTAAAGCAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6046746 original size:8 final size:8
Alignment explanation
Indices: 6046735--6046795 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 8
6046725 AGCAATTAAA
6046735 TAATTTTT
1 TAATTTTT
*
6046743 TAATATTT
1 TAATTTTT
6046751 T-ATTTTT
1 TAATTTTT
6046758 TAATTTTT
1 TAATTTTT
* *
6046766 TAAATATT
1 TAATTTTT
*
6046774 T--TTTCT
1 TAATTTTT
6046780 TAATTTTT
1 TAATTTTT
6046788 TAAATTTT
1 T-AATTTT
6046796 AAAAAATTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
6 3 0.07
7 6 0.15
8 26 0.63
9 6 0.15
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (8 bp):
TAATTTTT
Found at i:6046757 original size:15 final size:15
Alignment explanation
Indices: 6046737--6046767 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6046727 CAATTAAATA
6046737 ATTTTTTAATATTTT
1 ATTTTTTAATATTTT
*
6046752 ATTTTTTAATTTTTT
1 ATTTTTTAATATTTT
6046767 A
1 A
6046768 AATATTTTTT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTTAATATTTT
Found at i:6046782 original size:22 final size:24
Alignment explanation
Indices: 6046735--6046792 Score: 86
Period size: 22 Copynumber: 2.5 Consensus size: 24
6046725 AGCAATTAAA
*
6046735 TAATTTTTT-AATATTTTATTTTT
1 TAATTTTTTAAATATTTTATTTCT
6046758 TAATTTTTTAAATA-TTT-TTTCT
1 TAATTTTTTAAATATTTTATTTCT
6046780 TAATTTTTTAAAT
1 TAATTTTTTAAAT
6046793 TTTAAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 17 0.52
23 12 0.36
24 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (24 bp):
TAATTTTTTAAATATTTTATTTCT
Found at i:6047537 original size:20 final size:19
Alignment explanation
Indices: 6047496--6047538 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
6047486 ACTGTTAAAA
* *
6047496 ATATATAAGCAAATGTTTC
1 ATATATAAGCAAAAGTTCC
*
6047515 ATATATTAGACAAAAGTTCC
1 ATATATAAG-CAAAAGTTCC
6047535 ATAT
1 ATAT
6047539 TTGTCTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (19 bp):
ATATATAAGCAAAAGTTCC
Found at i:6047735 original size:21 final size:21
Alignment explanation
Indices: 6047711--6047753 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6047701 TCAGCTCTCT
6047711 GGCCATCTTCCATC-AAACATG
1 GGCC-TCTTCCATCTAAACATG
* *
6047732 GGCCTTTTCCTTCTAAACATG
1 GGCCTCTTCCATCTAAACATG
6047753 G
1 G
6047754 AGGAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (21 bp):
GGCCTCTTCCATCTAAACATG
Found at i:6047965 original size:30 final size:31
Alignment explanation
Indices: 6047929--6048028 Score: 121
Period size: 30 Copynumber: 3.2 Consensus size: 31
6047919 AGCCTCCTCC
* *
6047929 AAAAAAAAACCTAACCCCCCCAAAAAAAAGAAA
1 AAAAAAAAACCTAA--CCCCAAAAAAAAAAAAA
*
6047962 AAAAGAAAACCTAA-CCCAAAAAAAAAAAAA
1 AAAAAAAAACCTAACCCCAAAAAAAAAAAAA
* **
6047992 AAAGAAAAACCTAACCCCAAAAAAAAAACTA
1 AAAAAAAAACCTAACCCCAAAAAAAAAAAAA
6048023 AAAAAA
1 AAAAAA
6048029 CCCTAGCCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.45
31 19 0.33
33 13 0.22
ACGTcount: A:0.72, C:0.21, G:0.03, T:0.04
Consensus pattern (31 bp):
AAAAAAAAACCTAACCCCAAAAAAAAAAAAA
Found at i:6047979 original size:29 final size:31
Alignment explanation
Indices: 6047929--6048019 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 31
6047919 AGCCTCCTCC
*
6047929 AAAA-AAAAACCTAACCCCCCCAAAAAAAAGAAA
1 AAAAGAAAAACCTAA---CCCCAAAAAAAAAAAA
6047962 AAAAG-AAAACCTAA-CCCAAAAAAAAAAAA
1 AAAAGAAAAACCTAACCCCAAAAAAAAAAAA
6047991 AAAAGAAAAACCTAACCCCAAAAAAAAAA
1 AAAAGAAAAACCTAACCCCAAAAAAAAAA
6048020 CTAAAAAAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
29 19 0.35
30 9 0.17
31 13 0.24
33 13 0.24
ACGTcount: A:0.71, C:0.22, G:0.03, T:0.03
Consensus pattern (31 bp):
AAAAGAAAAACCTAACCCCAAAAAAAAAAAA
Found at i:6048334 original size:26 final size:25
Alignment explanation
Indices: 6048297--6048360 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
6048287 ATTTTTTTTC
*
6048297 TTTTTTC-CTCTTCTTTCGAATCT-TT
1 TTTTTTCTTTCTT-TTTCGAAT-TATT
* **
6048322 TTTTTTCTTTCTTTTTTGTGTTATT
1 TTTTTTCTTTCTTTTTCGAATTATT
6048347 TTTTTTCTTTCTTT
1 TTTTTTCTTTCTTT
6048361 ATATATACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 28 0.85
26 4 0.12
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTTTTCTTTCTTTTTCGAATTATT
Found at i:6051335 original size:140 final size:140
Alignment explanation
Indices: 6051078--6051565 Score: 879
Period size: 140 Copynumber: 3.5 Consensus size: 140
6051068 GGAAACTCAA
* * *
6051078 CTCATATTGCGAGAGATGAGTTGAGCCTCAGGTTACGCTGAGGTATTTTTAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
6051143 TTTACGTTGTTCAAGAATCAACTCATATTGTGAGAGGTGGGTTGAACTTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
6051208 TCAAAATCAG
131 TCAAAATCAG
6051218 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
6051283 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
6051348 TCAAAATCAG
131 TCAAAATCAG
*
6051358 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
6051423 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
6051488 TCAAAATCAG
131 TCAAAATCAG
6051498 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
6051562 TCAA
62 TCAA
6051566 AAAAAAATTC
Statistics
Matches: 337, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 2 0.01
140 307 0.91
142 22 0.07
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:6051661 original size:72 final size:72
Alignment explanation
Indices: 6051485--6051706 Score: 286
Period size: 72 Copynumber: 3.0 Consensus size: 72
6051475 AATTTCTACT
* ** * * * *
6051485 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
6051548 TCAATTTCTG
63 TCAATTTCTG
6051558 TCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
1 T-TTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
6051623 ATTTCAATTTCTG
60 ATTTCAATTTCTG
6051636 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
6051701 ATTTCT
66 ATTTCT
6051707 ATTCAAAATG
Statistics
Matches: 134, Mismatches: 7, Indels: 17
0.85 0.04 0.11
Matches are distributed among these distances:
72 66 0.49
73 1 0.01
74 4 0.03
77 4 0.03
78 24 0.18
79 4 0.03
80 30 0.22
81 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:6051805 original size:121 final size:121
Alignment explanation
Indices: 6051591--6051827 Score: 429
Period size: 121 Copynumber: 2.0 Consensus size: 121
6051581 ATATTGCGAG
6051591 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
6051656 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTATTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTATTCA
6051712 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * * *
6051777 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAGTTTCT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
6051828 GTTTTTTTAA
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTATTCA
Found at i:6051965 original size:75 final size:74
Alignment explanation
Indices: 6051715--6052647 Score: 958
Period size: 75 Copynumber: 12.1 Consensus size: 74
6051705 CTATTCAAAA
* * * * *
6051715 TGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATAT
**
6051778 TGCGAGAAA
66 TGCGAGAGG
* * * * *
6051787 TTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAGTTTCTGTTTTTTTAAAAAAAAAATCAACT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC---TTTTTT--CAAAAAAATCAACT
* **
6051852 CATATTGTGAGAAA
61 CATATTGCGAGAGG
* *
6051866 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATA
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATA
6051931 TTGCGAGAGG
65 TTGCGAGAGG
* * *
6051941 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATAT
* **
6052006 TGTGAGAAA
66 TGCGAGAGG
* *
6052015 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATA
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATA
6052080 TTGCGAGAGG
65 TTGCGAGAGG
* * *
6052090 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATAT
* **
6052155 TGTGAGAAA
66 TGCGAGAGG
* *
6052164 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATA
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATA
6052229 TTGCGAGAGG
65 TTGCGAGAGG
* * * *
6052239 TGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATAT
1 TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATAT
*
6052304 TGCTAGAGG
66 TGCGAGAGG
* * * *
6052313 TGAGTTGAGCCT-TGGCTCACGCACTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTC
1 TGAGTTGAGCCTCAGG-ACACG--CTGAGGTATTTTCAATTTCT-TTTTTCAAAAAAATCAACTC
6052377 ATATTGCGAGAGG
62 ATATTGCGAGAGG
* * * * *
6052390 TGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTAAAAAAAATCAACT
1 TGAGTTGAGCCTCAG--GACACGCTGAGGTA--TTTTCAATTTCT-TTTTTCAAAAAAATCAACT
* *
6052455 CACATTGCGAGATG
61 CATATTGCGAGAGG
* * **
6052469 TGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAGATTCTGTTTTCA
1 TGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTCAATTTCT-TTTTTCA-A----------A
*
6052533 AAAATCAACTCATATTGCGAGAAG
51 AAAATCAACTCATATTGCGAGAGG
* * *
6052557 TGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTTTTTTTTTTCAAAAAAATTCA
1 TGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAATTTC----TTTTTTCAAAAAAA-TCA
6052621 ACTCATATTGCGAGAGG
58 ACTCATATTGCGAGAGG
6052638 TGAGTTGAGC
1 TGAGTTGAGC
6052648 TTTTTAATTT
Statistics
Matches: 726, Mismatches: 94, Indels: 73
0.81 0.11 0.08
Matches are distributed among these distances:
72 35 0.05
73 2 0.00
74 178 0.25
75 198 0.27
76 18 0.02
77 67 0.09
78 3 0.00
79 126 0.17
80 5 0.01
81 29 0.04
86 3 0.00
87 2 0.00
88 50 0.07
89 1 0.00
90 1 0.00
91 7 0.01
92 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (74 bp):
TGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATAT
TGCGAGAGG
Found at i:6052044 original size:149 final size:149
Alignment explanation
Indices: 6051712--6052481 Score: 1055
Period size: 149 Copynumber: 5.1 Consensus size: 149
6051702 TTTCTATTCA
* * * * *
6051712 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT-GTTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTC
** * * * * * * *
6051774 ATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAGTTTCTGTTTTTTTAAA
66 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG---TTGT--C
6051839 AAAAAAATCAACTCATATTGTGAG
126 AAAAAAATCAACTCATATTGTGAG
6051863 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTC
6051928 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
6051993 AATCAACTCATATTGTGAG
131 AATCAACTCATATTGTGAG
6052012 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTC
6052077 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
6052142 AATCAACTCATATTGTGAG
131 AATCAACTCATATTGTGAG
6052161 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTC
*
6052226 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTCTGTTGTCAAAAA
66 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
6052291 AATCAACTCATATTGCT-AG
131 AATCAACTCATATTG-TGAG
** ** * * * * *
6052310 AGGTGAGTTGAGCCT-TGGCTCACGCACTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAA
1 AAATGAGTTGAGCCTCAAG-ACATG--CTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAA
* * * * * *
6052374 CTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTT
63 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA--ATTTCAATTTCT-GTT
* * * *
6052439 TTAAAAAAAATCAACTCACATTGCGAG
123 GTCAAAAAAATCAACTCATATTGTGAG
**
6052466 ATGTGAGTTGAGCCTC
1 AAATGAGTTGAGCCTC
6052482 GGGTCACATG
Statistics
Matches: 569, Mismatches: 36, Indels: 22
0.91 0.06 0.04
Matches are distributed among these distances:
148 1 0.00
149 335 0.59
150 1 0.00
151 109 0.19
152 5 0.01
153 11 0.02
154 59 0.10
155 10 0.02
156 38 0.07
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (149 bp):
AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTC
ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
AATCAACTCATATTGTGAG
Found at i:6052665 original size:30 final size:30
Alignment explanation
Indices: 6052629--6052690 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6052619 CAACTCATAT
6052629 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
6052659 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
6052689 TG
1 TG
6052691 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:6053427 original size:31 final size:32
Alignment explanation
Indices: 6053363--6053461 Score: 132
Period size: 32 Copynumber: 3.1 Consensus size: 32
6053353 AGCCTCCTCC
* *
6053363 AAAA-AAAAACCTAACCCCCCAAAAAGAAG-AA
1 AAAAGAAAAACCTAA-CCCCAAAAAAAAAGAAA
6053394 AAAAGAAAAACCTAA-CCCAAAAAAAAAGAAA
1 AAAAGAAAAACCTAACCCCAAAAAAAAAGAAA
*
6053425 AAAAGAAAAACCTAACCCCAAAAAAAAACTAAA
1 AAAAGAAAAACCTAACCCCAAAAAAAAA-GAAA
6053458 AAAA
1 AAAA
6053462 CCCTAGCCAC
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
30 11 0.18
31 21 0.34
32 22 0.36
33 7 0.11
ACGTcount: A:0.71, C:0.20, G:0.05, T:0.04
Consensus pattern (32 bp):
AAAAGAAAAACCTAACCCCAAAAAAAAAGAAA
Found at i:6054294 original size:3 final size:3
Alignment explanation
Indices: 6054255--6054280 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6054245 TTATTGTAGA
6054255 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
6054281 CATACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6060312 original size:29 final size:29
Alignment explanation
Indices: 6060248--6060312 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
6060238 CCAAAAAAAA
**
6060248 TGAAA-TTTCAGATTTTTTTAAGCTTTTT
1 TGAAATTTTCAGATTTTTTTAAGAATTTT
* * * *
6060276 TTATATTTTTAGATTTTTTTAATAATTTT
1 TGAAATTTTCAGATTTTTTTAAGAATTTT
6060305 TGAAATTT
1 TGAAATTT
6060313 AACACTCAAC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (29 bp):
TGAAATTTTCAGATTTTTTTAAGAATTTT
Found at i:6063725 original size:22 final size:24
Alignment explanation
Indices: 6063699--6063747 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6063689 TATTTTGGAG
6063699 AGAAGA-A-ATTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
*
6063721 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
6063745 AGA
1 AGA
6063748 GGGGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 17 0.71
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (24 bp):
AGAAGAGATATTTTTTGAGATTCA
Found at i:6063739 original size:24 final size:24
Alignment explanation
Indices: 6063707--6063757 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
6063697 AGAGAAGAAA
6063707 TTTTTTGAGATTCAAGAAGAGATT
1 TTTTTTGAGATTCAAGAAGAGATT
* *
6063731 TTTTTTGAGATTCAAGAGGGGATT
1 TTTTTTGAGATTCAAGAAGAGATT
6063755 TTT
1 TTT
6063758 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (24 bp):
TTTTTTGAGATTCAAGAAGAGATT
Found at i:6063756 original size:21 final size:22
Alignment explanation
Indices: 6063699--6063757 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
6063689 TATTTTGGAG
*
6063699 AGAAGAAATTTTTTGAGATTCA
1 AGAAGAGATTTTTTGAGATTCA
6063721 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGA--TTTTTTGAGATTCA
* *
6063745 AGAGGGGATTTTT
1 AGAAGAGATTTTT
6063758 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
24 20 0.62
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (22 bp):
AGAAGAGATTTTTTGAGATTCA
Found at i:6064240 original size:3 final size:3
Alignment explanation
Indices: 6064232--6064279 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
6064222 TTCTTTCTGC
6064232 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6064280 GTGTATATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6064381 original size:3 final size:3
Alignment explanation
Indices: 6064373--6064408 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6064363 TGTATTTCTA
6064373 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6064409 ATGGTAGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6064670 original size:16 final size:16
Alignment explanation
Indices: 6064649--6064680 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6064639 CTATTGTTAC
6064649 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
6064665 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
6064681 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Done.