Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 57 of 106
Found at i:10107599 original size:6 final size:6
Alignment explanation
Indices: 10107588--10107614 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10107578 AAATTTTAAC
10107588 AAACAA AAACAA AAACAA AAACAA AAA
1 AAACAA AAACAA AAACAA AAACAA AAA
10107615 AAGTGTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:10110456 original size:20 final size:19
Alignment explanation
Indices: 10110417--10110457 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10110407 CTGCAAGTCT
* *
10110417 AAGAAAGAGAGAAGCAAAC
1 AAGAAAGAGAAAAACAAAC
10110436 AAGAAAGAGAAAAAACAAAC
1 AAGAAAGAG-AAAAACAAAC
10110456 AA
1 AA
10110458 TTTAAGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.71, C:0.10, G:0.20, T:0.00
Consensus pattern (19 bp):
AAGAAAGAGAAAAACAAAC
Found at i:10110515 original size:51 final size:53
Alignment explanation
Indices: 10110458--10110558 Score: 170
Period size: 52 Copynumber: 1.9 Consensus size: 53
10110448 AAACAAACAA
* *
10110458 TTTAAGG-AAAGTTGAAAGTATCAATTTTTCTTGAAAA-AATTTTTCAAATGC
1 TTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAATGC
10110509 TTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAA
1 TTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAA
10110559 AAGGGTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 7 0.15
52 29 0.63
53 10 0.22
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.39
Consensus pattern (53 bp):
TTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAATGC
Found at i:10110665 original size:58 final size:59
Alignment explanation
Indices: 10110515--10110714 Score: 214
Period size: 58 Copynumber: 3.4 Consensus size: 59
10110505 ATGCTTTAAG
* * ** * * *
10110515 GAAAAGTTGAAAGTATCAATTTTTCTT-AAAAAT-AAGTTTTCAAAAAGGGTTTTTTTTTTAG
1 GAAAAGTTGAAAGTATCAATTTTTCTTCGAAATTAAAGTTTT-AAAAA---AATATTTTTGAA
* *
10110576 GAAAAGTTGAAAGTATCAA-TTTTCTTTGAAATTAAAGTTTCT-AACAAATATTTTTGATA
1 GAAAAGTTGAAAGTATCAATTTTTCTTCGAAATTAAAGTTT-TAAAAAAATATTTTTGA-A
*
10110635 G-AAAGTTGAAAGTATCAATTTTTC-TCGAAATTAAAGTTTTAAAAAAATATTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTTCTTCGAAATTAAAGTTTTAAAAAAATATTTTTGAA
10110692 GAAAAGTTGAAAGTATCAATTTT
1 GAAAAGTTGAAAGTATCAATTTT
10110715 CTTTACACAA
Statistics
Matches: 121, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
57 2 0.02
58 73 0.60
59 6 0.05
60 7 0.06
61 26 0.21
62 6 0.05
63 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.40
Consensus pattern (59 bp):
GAAAAGTTGAAAGTATCAATTTTTCTTCGAAATTAAAGTTTTAAAAAAATATTTTTGAA
Found at i:10113622 original size:17 final size:17
Alignment explanation
Indices: 10113597--10113636 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
10113587 TATTTCTATA
*
10113597 AATACATAAAAAAATAT
1 AATAAATAAAAAAATAT
10113614 AATAAATAAAAAAATAT
1 AATAAATAAAAAAATAT
10113631 AGATAA
1 A-ATAA
10113637 CATGAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
AATAAATAAAAAAATAT
Found at i:10114880 original size:237 final size:236
Alignment explanation
Indices: 10114383--10115432 Score: 902
Period size: 236 Copynumber: 4.4 Consensus size: 236
10114373 GTAAGGAATA
* * * * * *
10114383 ATATTGACAACATAAACTTTTAATTAATTATTGTTTTGTAAATAT-T-TAAGGAAAATGGATATA
1 ATATTGGCAACGTAAAATTTTAATTAATTATTATTTTGTAAATATATATAAGGAAAATAGATAAA
* * *
10114446 AATTAAAAAATAAATTTGATAA-ACTAAACAAGTGGATAACAAACATAAAATTAAAATCGTTTGA
66 AATTAAAAAATAAA-TTGATAATA-TAAACAAGT-G--AAGAAACATAAAATTAGAATCATTTGA
* * * * * * **
10114510 CGTAAAAT-AGGTAAGAAGTGTCATAATATATTAAGAAACAATTATAACAATTCTAAATGTAATG
126 CGTAAAATGA-GTAAGAAGTGTCATAACATACTAAGAAAGAGTTATGACAATTTTAAACATAATG
* * ** * * *
10114574 GAAAATAAAAACAATTGTAAGAATATATTATTGTAAAGTAAATAATT
190 GAAAGTAAGAACAATCATAAAAATATATTATTATAAAATAAATAATT
** * * * * *
10114621 ATATTGATAACGTAAAATTTTAATTAATTATTGTTCCTATAAATATATATAAGAAAAATAGTTAA
1 ATATTGGCAACGTAAAATTTTAATTAATTATTATT-TTGTAAATATATATAAGGAAAATAGATAA
* * **
10114686 AAATTAAAAAATAAATTGATAATGTAAACAAGT-AAGAAACATAAAATTAGTATCATTTGGTGTA
65 AAATTAAAAAATAAATTGATAATATAAACAAGTGAAGAAACATAAAATTAGAATCATTTGACGTA
* * * * *
10114750 AAATGAGTAATAAGTGTCGTAAAATACTAAGAAAGAGCTA-CACAATTTTAAACATAATGGAAAG
130 AAATGAGTAAGAAGTGTCATAACATACTAAGAAAGAGTTATGACAATTTTAAACATAATGGAAAG
**
10114814 TAA-AAGCAATCATAAAAATATATATTATTATATTATAAATAATT
195 TAAGAA-CAATCAT-AAAA-ATATATTATTATAAAATAAATAATT
* * *
10114858 ATAATGGCAATGTAAAATTTTAATTAATTATTATTTTTGTAAATATATA-AGAGGAAGATAGATA
1 ATATTGGCAACGTAAAATTTTAATTAATTATTA-TTTTGTAAATATATATA-AGGAAAATAGATA
* * * ** *
10114922 AAAATTAAAAAATAAATTGGTAATATAAACAAGTGAGAAGAAATATAAATTTAGTTTTATTTGAC
64 AAAATTAAAAAATAAATTGATAATATAAACAAGT--GAAGAAACATAAAATTAGAATCATTTGAC
* * * * *
10114987 GTAATATG-GATAAGAAGTGAT-ATAACACATTAAGAAAGAGTTATGATAATTTTAAATGA-AAT
127 GTAAAATGAG-TAAGAAGTG-TCATAACATACTAAGAAAGAGTTATGACAATTTTAAA-CATAAT
* * *
10115049 GG-AAGATAAGAACAACCATAAAAATATATTATTGTAAGATAAATAATT
189 GGAAAG-TAAGAACAATCATAAAAATATATTATTATAAAATAAATAATT
* * *
10115097 ATGTTGGCGATGTAAAATTTTAATTAATTATTATTTT-T-AA-ATATATAAGGAAAATA-ATTAA
1 ATATTGGCAACGTAAAATTTTAATTAATTATTATTTTGTAAATATATATAAGGAAAATAGA-TAA
* * * * * * * * * * *
10115158 AAATTGAAAAACAAATAGAAAACATAAAAAAGTGAGAAAAAGCGTAAAAATAGAATAATTTGACA
65 AAATTAAAAAATAAATTGATAATATAAACAAGTGA-AGAAA-CATAAAATTAGAATCATTTGACG
* * * * * * *
10115223 TAAAATGAGTAAAAAGTGTTATAACATACTAAGAAAAAGTAAGGACAATTATAAACATAAT-TAA
128 TAAAATGAGTAAGAAGTGTCATAACATACTAAGAAAGAGTTATGACAATTTTAAACATAATGGAA
* * *
10115287 AGGTAAGAACAATCATAAAAAAGAAATTATTATAACATAAATAATT
193 A-GTAAGAACAATCAT-AAAAATATATTATTATAAAATAAATAATT
* * * * *
10115333 A-ACTTGTCAACATAAAATTTTAATTACTTATTTTTTTGTAAATATATATAA--AAAA-AGCTAA
1 ATA-TTGGCAACGTAAAATTTTAATTAATTATTATTTTGTAAATATATATAAGGAAAATAGATAA
* * * *
10115394 AAATTAAAAAACAAACTGATAATGTAAACAA-TAAAGAAA
65 AAATTAAAAAATAAATTGATAATATAAACAAGTGAAGAAA
10115433 AATGTAAAAT
Statistics
Matches: 658, Mismatches: 120, Indels: 72
0.77 0.14 0.08
Matches are distributed among these distances:
233 2 0.00
234 13 0.02
235 145 0.22
236 147 0.22
237 109 0.17
238 40 0.06
239 69 0.10
240 78 0.12
241 52 0.08
242 3 0.00
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.31
Consensus pattern (236 bp):
ATATTGGCAACGTAAAATTTTAATTAATTATTATTTTGTAAATATATATAAGGAAAATAGATAAA
AATTAAAAAATAAATTGATAATATAAACAAGTGAAGAAACATAAAATTAGAATCATTTGACGTAA
AATGAGTAAGAAGTGTCATAACATACTAAGAAAGAGTTATGACAATTTTAAACATAATGGAAAGT
AAGAACAATCATAAAAATATATTATTATAAAATAAATAATT
Found at i:10115280 original size:476 final size:474
Alignment explanation
Indices: 10114390--10115404 Score: 1101
Period size: 476 Copynumber: 2.1 Consensus size: 474
10114380 ATAATATTGA
* * * * *
10114390 CAACATAAACTTTTAATTAATTATTGTTTTGTAAATAT-TTAAGGAAAATGGATATAAATTAAAA
1 CAACATAAAATTTTAATTAATTATTTTTTTGTAAATATATAAAGGAAAATAGATAAAAATTAAAA
* *
10114454 AATAAATTTGATAAACTAAACAAGTGGATAACAAACATAAAATTAAAATCGTTTGACGTAAAATA
66 AATAAATTTGATAAACTAAACAAGTGGAGAACAAACATAAAATTAAAATCATTTGACGTAAAATA
* * *
10114519 GGTAAGAAGTGTCATAATATATTAAGAAACAATTATAACAATTCTAAATGTAATGGAAAATAAAA
131 GGTAAGAAGTGTCATAACACATTAAGAAACAATTATAACAATTCTAAATGAAATGGAAAATAAAA
*** * *
10114584 ACAATTGTAAGAATATATTATTGTAAAGTAAATAATTATATTGATAACGTAAAATTTTAATTAAT
196 ACAACCATAAAAATATATTATTGTAAAGTAAATAATTATATTGACAACGTAAAATTTTAATTAAT
* * * * * **
10114649 TATTGTTCCTATAAATATATATAAGAAAAATAGTTAAAAATTAAAAAATAAATTGATAATGTAAA
261 TATTATT-CTATAAATATATATAAGAAAAATAATTAAAAATTAAAAAACAAATAGAAAACATAAA
* * * * * *** * *
10114714 CAAGTAAGAAACATAAAATTAGTATCATTTGGTGTAAAATGAGTAATAAGTGTCGTAAAATACTA
325 AAAGTAAAAAACATAAAAATAGAATAATTTGACATAAAATGAGTAAAAAGTGTCATAAAATACTA
* * * *
10114779 AGAAAGAGCTACACAATTTTAAACATAATGGAAA-GTAA-AAGCAATCATAAAAATATATATTAT
390 AGAAAAAGCTACACAATTATAAACATAAT-GAAAGGTAAGAA-CAATCATAAAAA-AGAAATTAT
**
10114842 TATATTATAAATAATTATA-ATGG
452 TATAACATAAATAATTA-ACATGG
** *
10114865 CAATGTAAAATTTTAATTAATTATTATTTTTGTAAATATATAAGAGGAAGATAGATAAAAATTAA
1 CAACATAAAATTTTAATTAATTATT-TTTTTGTAAATATATAA-AGGAAAATAGATAAAAATTAA
* * * * *** * *
10114930 AAAATAAA-TTGGTAATA-TAAACAAGT-GAGAAGAAATATAAATTTAGTTTTATTTGACGTAAT
64 AAAATAAATTTGATAA-ACTAAACAAGTGGAGAACAAACATAAAATTAAAATCATTTGACGTAAA
* * * * * *
10114992 AT-GGATAAGAAGTGAT-ATAACACATTAAGAAAGAGTTATGATAATTTTAAATGAAATGGAAGA
128 ATAGG-TAAGAAGTG-TCATAACACATTAAGAAACAATTATAACAATTCTAAATGAAATGGAAAA
* * * * *
10115055 TAAGAACAACCATAAAAATATATTATTGT-AAGATAAATAATTATGTTGGCGATGTAAAATTTTA
191 TAAAAACAACCATAAAAATATATTATTGTAAAG-TAAATAATTATATTGACAACGTAAAATTTTA
* * *
10115119 ATTAATTATTATT-T-TTAA-ATATATAAGGAAAATAATTAAAAATTGAAAAACAAATAGAAAAC
255 ATTAATTATTATTCTATAAATATATATAAGAAAAATAATTAAAAATTAAAAAACAAATAGAAAAC
* *
10115181 ATAAAAAAGTGAGAAAAAGCGTAAAAATAGAATAATTTGACATAAAATGAGTAAAAAGTGTTATA
320 ATAAAAAAGT-A-AAAAA-CATAAAAATAGAATAATTTGACATAAAATGAGTAAAAAGTGTCATA
* * *
10115246 ACATACTAAGAAAAAG-TAAGGACAATTATAAACATAATTAAAGGTAAGAACAATCATAAAAAAG
382 AAATACTAAGAAAAAGCT-A-CACAATTATAAACATAATGAAAGGTAAGAACAATCATAAAAAAG
* *
10115310 AAATTATTATAACATAAATAATTAACTTGT
445 AAATTATTATAACATAAATAATTAACATGG
* *
10115340 CAACATAAAATTTTAATTACTTATTTTTTTGTAAATATATATAA--AAAA-AGCTAAAAATTAAA
1 CAACATAAAATTTTAATTAATTATTTTTTTGTAAATATATA-AAGGAAAATAGATAAAAATTAAA
10115402 AAA
65 AAA
10115405 CAAACTGATA
Statistics
Matches: 448, Mismatches: 76, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
471 16 0.04
472 48 0.11
473 4 0.01
474 24 0.05
475 128 0.29
476 181 0.40
477 20 0.04
478 27 0.06
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (474 bp):
CAACATAAAATTTTAATTAATTATTTTTTTGTAAATATATAAAGGAAAATAGATAAAAATTAAAA
AATAAATTTGATAAACTAAACAAGTGGAGAACAAACATAAAATTAAAATCATTTGACGTAAAATA
GGTAAGAAGTGTCATAACACATTAAGAAACAATTATAACAATTCTAAATGAAATGGAAAATAAAA
ACAACCATAAAAATATATTATTGTAAAGTAAATAATTATATTGACAACGTAAAATTTTAATTAAT
TATTATTCTATAAATATATATAAGAAAAATAATTAAAAATTAAAAAACAAATAGAAAACATAAAA
AAGTAAAAAACATAAAAATAGAATAATTTGACATAAAATGAGTAAAAAGTGTCATAAAATACTAA
GAAAAAGCTACACAATTATAAACATAATGAAAGGTAAGAACAATCATAAAAAAGAAATTATTATA
ACATAAATAATTAACATGG
Found at i:10115296 original size:235 final size:233
Alignment explanation
Indices: 10114383--10115424 Score: 824
Period size: 235 Copynumber: 4.4 Consensus size: 233
10114373 GTAAGGAATA
* * * * * * *
10114383 ATATTGACAACATAAACTTTTAATTAATTATTGTTTTGTAAATATTTAAGGAAAATGGA-TATAA
1 ATATTGGCAACGTAAAATTTTAATTAATTATTATTTTGTAAATATATAAGGAAAAT-AATTAAAA
* ** **
10114447 ATTAAAAAATAAATTTGATAA-ACTAAACAAGTGGATAACAAACATAAAATTAAAATCGTTTGAC
65 ATTAAAAAATAAA-TTGATAATA-TAAACAAGT-GAGAA-AAACATAAAATTAGTATAATTTGAC
* * * * * * * * **
10114511 GTAAAAT-AGGTAAGAAGTGTCATAATATATTAAGAAACAATTATAACAATTCTAAATGTAATGG
126 GTAAAATGA-GTAAAAAGTGTTATAACATACTAAGAAA-GAGTA-GACAATTTTAAACATAAT-G
* * ** * *
10114575 AAA-ATAAAAACAATTGT-AAGAATATATTATTGTAAAGTAAATAATT
187 AAAGGTAAGAACAATCATAAAAAATATATTATTATAAA-TAAATAATT
** * * * * *
10114621 ATATTGATAACGTAAAATTTTAATTAATTATTGTTCCTATAAATATATATAAGAAAAATAGTTAA
1 ATATTGGCAACGTAAAATTTTAATTAATTATTATT-TTGT-AA-ATATATAAGGAAAATAATTAA
* * * **
10114686 AAATTAAAAAATAAATTGATAATGTAAACAAGT-A-AGAAACATAAAATTAGTATCATTTGGTGT
63 AAATTAAAAAATAAATTGATAATATAAACAAGTGAGAAAAACATAAAATTAGTATAATTTGACGT
* ** * *
10114749 AAAATGAGTAATAAGTGTCGTAAAATACTAAGAAAGAGCTACACAATTTTAAACATAATGGAAA-
128 AAAATGAGTAAAAAGTGTTATAACATACTAAGAAAGAG-TAGACAATTTTAAACATAAT-GAAAG
*
10114813 GTAA-AAGCAATCATAAAAATATATATTATTATATTATAAATAATT
191 GTAAGAA-CAATCATAAAAA-ATATATTATTATA-AATAAATAATT
* * *
10114858 ATAATGGCAATGTAAAATTTTAATTAATTATTATTTTTGTAAATATATAAGAGGAAGATAGA-TA
1 ATATTGGCAACGTAAAATTTTAATTAATTATTA-TTTTGTAAATATAT-A-AGGAAAATA-ATTA
* * * * *
10114922 AAAATTAAAAAATAAATTGGTAATATAAACAAGTGAGAAGAAATATAAATTTAGTTTTATTTGAC
62 AAAATTAAAAAATAAATTGATAATATAAACAAGTGAGAA-AAACATAAAATTAGTATAATTTGAC
* * * * * * *
10114987 GTAATATG-GATAAGAAGTGATATAACACATTAAGAAAGAGTTATGATAATTTTAAATGA-AATG
126 GTAAAATGAG-TAAAAAGTGTTATAACATACTAAGAAAGAG-TA-GACAATTTTAAA-CATAATG
* * * *
10115050 GAAGATAAGAACAACCAT-AAAAATATATTATTGTAAGATAAATAATT
187 AAAGGTAAGAACAATCATAAAAAATATATTATTATAA-ATAAATAATT
* * *
10115097 ATGTTGGCGATGTAAAATTTTAATTAATTATTATTTT-TAAATATATAAGGAAAATAATTAAAAA
1 ATATTGGCAACGTAAAATTTTAATTAATTATTATTTTGTAAATATATAAGGAAAATAATTAAAAA
* * * * * * * * * *
10115161 TTGAAAAACAAATAGAAAACATAAAAAAGTGAGAAAAAGCGTAAAAATAGAATAATTTGACATAA
66 TTAAAAAATAAATTGATAATATAAACAAGTGAGAAAAA-CATAAAATTAGTATAATTTGACGTAA
* * *
10115226 AATGAGTAAAAAGTGTTATAACATACTAAGAAAAAGTAAGGACAATTATAAACATAATTAAAGGT
130 AATGAGTAAAAAGTGTTATAACATACTAAGAAAGAGT-A-GACAATTTTAAACATAATGAAAGGT
* *
10115291 AAGAACAATCATAAAAAAGAAATTATTATAACATAAATAATT
193 AAGAACAATCATAAAAAATATATTATTATAA-ATAAATAATT
* * * * *
10115333 A-ACTTGTCAACATAAAATTTTAATTACTTATTTTTTTGTAAATATATATA--AAAA-AAGCTAA
1 ATA-TTGGCAACGTAAAATTTTAATTAATTATTATTTTGTAAATATATA-AGGAAAATAA-TTAA
* * *
10115394 AAATTAAAAAACAAACTGATAATGTAAACAA
63 AAATTAAAAAATAAATTGATAATATAAACAA
10115425 TAAAGAAAAA
Statistics
Matches: 649, Mismatches: 121, Indels: 70
0.77 0.14 0.08
Matches are distributed among these distances:
234 8 0.01
235 153 0.24
236 146 0.22
237 113 0.17
238 42 0.06
239 56 0.09
240 76 0.12
241 52 0.08
242 3 0.00
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.31
Consensus pattern (233 bp):
ATATTGGCAACGTAAAATTTTAATTAATTATTATTTTGTAAATATATAAGGAAAATAATTAAAAA
TTAAAAAATAAATTGATAATATAAACAAGTGAGAAAAACATAAAATTAGTATAATTTGACGTAAA
ATGAGTAAAAAGTGTTATAACATACTAAGAAAGAGTAGACAATTTTAAACATAATGAAAGGTAAG
AACAATCATAAAAAATATATTATTATAAATAAATAATT
Found at i:10127369 original size:2 final size:2
Alignment explanation
Indices: 10127362--10127387 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10127352 TTTCTTTCAA
10127362 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10127388 GCGTGCTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10127608 original size:22 final size:23
Alignment explanation
Indices: 10127565--10127609 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
10127555 ATAAGTTTGG
10127565 ATATAATCGATTAAATTAGAGTTA
1 ATATAATC-ATTAAATTAGAGTTA
* *
10127589 ATATAAT-ATTAATTTTGAGTT
1 ATATAATCATTAAATTAGAGTT
10127610 TAAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
24 7 0.37
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (23 bp):
ATATAATCATTAAATTAGAGTTA
Found at i:10137299 original size:15 final size:15
Alignment explanation
Indices: 10137279--10137307 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10137269 TTATTGTATC
10137279 CAAATAAATCATATA
1 CAAATAAATCATATA
10137294 CAAATAAATCATAT
1 CAAATAAATCATAT
10137308 CCTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
CAAATAAATCATATA
Found at i:10137436 original size:30 final size:30
Alignment explanation
Indices: 10137383--10137475 Score: 118
Period size: 30 Copynumber: 3.1 Consensus size: 30
10137373 ATTTATGTAT
10137383 AAATTAAAAATTTAAAG-TCTTATTTGGATAC
1 AAATTAAAAA-TTAAAGAT-TTATTTGGATAC
* *
10137414 AAATTAAAGATTAAAGATTTATTTAGG-TGC
1 AAATTAAAAATTAAAGATTTATTT-GGATAC
*
10137444 AAATTAAAAATTAAAGATTTATTTGAATAC
1 AAATTAAAAATTAAAGATTTATTTGGATAC
10137474 AA
1 AA
10137476 TAAAAGTATA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 41 0.76
31 12 0.22
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (30 bp):
AAATTAAAAATTAAAGATTTATTTGGATAC
Found at i:10137865 original size:50 final size:50
Alignment explanation
Indices: 10137806--10137901 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
10137796 AGGGTAATCC
*
10137806 TTGAAAATTATACCTAACTGCATTGACAAATCATTGAAAGG-GATTTCATA
1 TTGAAAATTATACATAACTGCATTGACAAATCATT-AAAGGAGATTTCATA
*
10137856 TTGAAAATTATGCATAACTGCATTGACAAATCATTAAAGGAGATTT
1 TTGAAAATTATACATAACTGCATTGACAAATCATTAAAGGAGATTT
10137902 TGGAAGTCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
49 5 0.12
50 38 0.88
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (50 bp):
TTGAAAATTATACATAACTGCATTGACAAATCATTAAAGGAGATTTCATA
Found at i:10141742 original size:2 final size:2
Alignment explanation
Indices: 10141735--10141783 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
10141725 ACCAAAGGAT
* * * *
10141735 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10141777 TA TA TA T
1 TA TA TA T
10141784 GCTATTTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10145547 original size:17 final size:19
Alignment explanation
Indices: 10145526--10145562 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10145516 AATTATTAAA
10145526 AAAAATAA-ATAAGAGAAT
1 AAAAATAATATAAGAGAAT
10145544 AAAAATAATATAAGAGAAT
1 AAAAATAATATAAGAGAAT
10145563 TTTGGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (19 bp):
AAAAATAATATAAGAGAAT
Found at i:10145750 original size:19 final size:18
Alignment explanation
Indices: 10145702--10145751 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
10145692 CGATATCAAT
* * *
10145702 TTTTTTAAATAATTATGA
1 TTTTTTGAATAATCATAA
*
10145720 TTTTTTGTATAATCATAA
1 TTTTTTGAATAATCATAA
10145738 TTTTTATGAATAAT
1 TTTTT-TGAATAAT
10145752 AATATATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTTTGAATAATCATAA
Found at i:10158417 original size:15 final size:15
Alignment explanation
Indices: 10158393--10158422 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10158383 AAGATAAAAA
10158393 AGATAGTTAAATAAT
1 AGATAGTTAAATAAT
*
10158408 AGATATTTAAATAAT
1 AGATAGTTAAATAAT
10158423 TTTCTTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AGATAGTTAAATAAT
Found at i:10166781 original size:40 final size:40
Alignment explanation
Indices: 10166726--10166807 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
10166716 AGAGTTTACA
10166726 TCAATAAGTAGATTTCAAATATAATTATGCTTTTATAGTC
1 TCAATAAGTAGATTTCAAATATAATTATGCTTTTATAGTC
10166766 TCAATAAGTAGATTTCAAATATAATTATGCTTTTATAGTC
1 TCAATAAGTAGATTTCAAATATAATTATGCTTTTATAGTC
10166806 TC
1 TC
10166808 CTTTTAAGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (40 bp):
TCAATAAGTAGATTTCAAATATAATTATGCTTTTATAGTC
Found at i:10169910 original size:18 final size:19
Alignment explanation
Indices: 10169887--10169923 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10169877 AAATTGTTAG
*
10169887 AAAAAATAA-ATAAAAGAA
1 AAAAAATAATAGAAAAGAA
10169905 AAAAAATAATAGAAAAGAA
1 AAAAAATAATAGAAAAGAA
10169924 TTTTGGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAAATAATAGAAAAGAA
Found at i:10169911 original size:14 final size:15
Alignment explanation
Indices: 10169888--10169920 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10169878 AATTGTTAGA
10169888 AAAAATAAATAAAAG
1 AAAAATAAATAAAAG
*
10169903 AAAAA-AAATAATAG
1 AAAAATAAATAAAAG
10169917 AAAA
1 AAAA
10169921 GAATTTTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAATAAATAAAAG
Found at i:10171475 original size:25 final size:25
Alignment explanation
Indices: 10171446--10171494 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10171436 CTGAGCCTCA
*
10171446 ATTAGACCCAT-TCGTGTCTAGGCCC
1 ATTAGACCCATCT-GTGTCCAGGCCC
*
10171471 ATTAGGCCCATCTGTGTCCAGGCC
1 ATTAGACCCATCTGTGTCCAGGCC
10171495 TAGTTGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.27
Consensus pattern (25 bp):
ATTAGACCCATCTGTGTCCAGGCCC
Found at i:10171531 original size:3 final size:3
Alignment explanation
Indices: 10171523--10171601 Score: 115
Period size: 3 Copynumber: 26.7 Consensus size: 3
10171513 ATGTATTTTG
* * * *
10171523 TTA TTA TTA TTA TTA TTG TTG TTG TTG TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10171571 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10171602 TTCCTTTTCT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10171673 original size:3 final size:3
Alignment explanation
Indices: 10171652--10171685 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
10171642 ATATTAATAC
* *
10171652 TAT TAA TAT TAT GAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10171686 TTCTTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:10171696 original size:9 final size:9
Alignment explanation
Indices: 10171684--10171743 Score: 63
Period size: 8 Copynumber: 6.7 Consensus size: 9
10171674 ATTATTATTA
10171684 TTTTCTTTT-
1 TTTT-TTTTC
10171693 TTTTTTTTCC
1 TTTTTTTT-C
10171703 TTTTCTTTTC
1 TTTT-TTTTC
*
10171713 TTTCTTTTC
1 TTTTTTTTC
10171722 -TTTTTTTC
1 TTTTTTTTC
10171730 -TTTTTTTC
1 TTTTTTTTC
10171738 TTTTTT
1 TTTTTT
10171744 GTTTTAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
8 19 0.42
9 14 0.31
10 8 0.18
11 4 0.09
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:10171734 original size:14 final size:14
Alignment explanation
Indices: 10171684--10171748 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 14
10171674 ATTATTATTA
10171684 TTTTCTTTTT-TTT
1 TTTTCTTTTTCTTT
*
10171697 TTTTCCTTTTCTTT
1 TTTTCTTTTTCTTT
10171711 TCTTTC-TTTTCTTT
1 T-TTTCTTTTTCTTT
*
10171725 TTTTCTTTTTTTCTT
1 TTTTCTTTTTCT-TT
*
10171740 TTTTGTTTT
1 TTTTCTTTT
10171749 AATTCACACG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
13 13 0.29
14 18 0.40
15 14 0.31
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.85
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:10172240 original size:19 final size:19
Alignment explanation
Indices: 10172218--10172254 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10172208 GTTTTTGGAA
* *
10172218 GAATTTTGAATTTTTCGAC
1 GAATGTTGAAGTTTTCGAC
10172237 GAATGTTGAAGTTTTCGA
1 GAATGTTGAAGTTTTCGA
10172255 TGAGATTCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (19 bp):
GAATGTTGAAGTTTTCGAC
Found at i:10183201 original size:1 final size:1
Alignment explanation
Indices: 10183195--10183252 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
10183185 CAGCTTGAAC
* * * * * * *
10183195 AAAAAAAAAACAAAAAAATAAAAACAAAACAAAAATAAAAAAAATAAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10183253 GGGGTTCAAA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.05, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:10183211 original size:8 final size:8
Alignment explanation
Indices: 10183198--10183252 Score: 67
Period size: 8 Copynumber: 6.6 Consensus size: 8
10183188 CTTGAACAAA
*
10183198 AAAAAAAC
1 AAAAAAAT
10183206 AAAAAAAT
1 AAAAAAAT
10183214 AAAAACAA-
1 AAAAA-AAT
10183222 AACAAAAAT
1 AA-AAAAAT
10183231 AAAAAAAAT
1 -AAAAAAAT
10183240 AAAAAAAT
1 AAAAAAAT
10183248 AAAAA
1 AAAAA
10183253 GGGGTTCAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 29 0.69
9 11 0.26
10 2 0.05
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.07
Consensus pattern (8 bp):
AAAAAAAT
Found at i:10183228 original size:17 final size:17
Alignment explanation
Indices: 10183192--10183252 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
10183182 GGGCAGCTTG
10183192 AACAAAAA-AAAAAC--
1 AACAAAAATAAAAACAA
10183206 AA-AAAAATAAAAACAA
1 AACAAAAATAAAAACAA
10183222 AACAAAAATAAAAA-AA
1 AACAAAAATAAAAACAA
*
10183238 ATAAAAAAATAAAAA
1 A-ACAAAAATAAAAA
10183253 GGGGTTCAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
13 5 0.12
14 8 0.20
16 5 0.12
17 23 0.56
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (17 bp):
AACAAAAATAAAAACAA
Found at i:10183235 original size:26 final size:25
Alignment explanation
Indices: 10183192--10183252 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
10183182 GGGCAGCTTG
10183192 AACAAAAAAAAAACAAAAAAATAAA
1 AACAAAAAAAAAACAAAAAAATAAA
10183217 AACAAAACAAAAATA-AAAAAAATAAA
1 AACAAAA-AAAAA-ACAAAAAAATAAA
*
10183243 AA-AATAAAAA
1 AACAAAAAAAA
10183253 GGGGTTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 4 0.12
25 10 0.30
26 18 0.55
27 1 0.03
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (25 bp):
AACAAAAAAAAAACAAAAAAATAAA
Found at i:10183855 original size:41 final size:41
Alignment explanation
Indices: 10183810--10183918 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
10183800 AAAAATCATC
*
10183810 TTCAGGTTAATGAAAGATGGTTTTTTTGCCAAAGATGTGCA
1 TTCAGGTTAATGAAAGATGGTTTTTTTGCCAAAGACGTGCA
** * * *
10183851 TTCAGGTTGGTGAAAGAAGGTTTCTTTGCCAATGACGTGCA
1 TTCAGGTTAATGAAAGATGGTTTTTTTGCCAAAGACGTGCA
**
10183892 TTCAGGTTAATGAAAGATTTTTTTTTT
1 TTCAGGTTAATGAAAGATGGTTTTTTT
10183919 TTTGCTAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (41 bp):
TTCAGGTTAATGAAAGATGGTTTTTTTGCCAAAGACGTGCA
Found at i:10184553 original size:113 final size:114
Alignment explanation
Indices: 10184070--10184631 Score: 517
Period size: 114 Copynumber: 4.9 Consensus size: 114
10184060 CATTATTCAG
* ** * ** * *
10184070 TCATCTGATCTCGACTTAAATTAGATCATCTTCAGACTCACAACATCAGTCCGATCATTTATTTA
1 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTAACATCAATTCGATCATTTATTTA
** * * * * ** *
10184135 TGACTTTAACTCGATCTT-GATCATCTTTAGACTCGCGGCATCGTCTTAG
66 TGACTTCGACTCGATCTTAG-TCACCTTCAGACTCGCGACATCATCCCAA
* ** * * * ** * * *
10184184 TCATCCTATCTTAACTTAGGTAAGATTATCTTCAAACTCACAACACCAGTCCGATCATTTATTTA
1 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTAACATCAATTCGATCATTTATTTA
* * * * *
10184249 -CAATCTCGACTC-AGTCTTGGTCACCTTTAGACTCGCGACATCATCTCAA
66 TGACT-TCGACTCGA-TCTTAGTCACCTTCAGACTCGCGACATCATCCCAA
* * * * * * *
10184298 TCATCTGATCTTGACTTAGGTCAGATCATCTTCAGACCCGTAACACCAGTTTGATTATTTATTTA
1 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTAACATCAATTCGATCATTTATTTA
* * *
10184363 TGACTTCGACTCGATCTTGGTCACCTTCAGACTCACGACATCATCCCAG
66 TGACTTCGACTCGATCTTAGTCACCTTCAGACTCGCGACATCATCCCAA
* * * *
10184412 TTATTCGATCTCGACTTAGGTCAAATCATTTTCAGACTCGTAACATCAATTCGATCATTTATTTA
1 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTAACATCAATTCGATCATTTATTTA
* * *
10184477 GGACCTT-GACTC-AGTCTTAGTCGCC-TCAGACTCGTGACATCATCCCAA
66 TGA-CTTCGACTCGA-TCTTAGTCACCTTCAGACTCGCGACATCATCCCAA
** *
10184525 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCGACATCAA-TCTAATCATTTATTT
1 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTAACATCAATTC-GATCATTTATTT
* * *
10184589 ATGACTTCGACTCGATCTTAGTCACTTTTAGACTCACGACATC
65 ATGACTTCGACTCGATCTTAGTCACCTTCAGACTCGCGACATC
10184632 GTCCTAGTTA
Statistics
Matches: 370, Mismatches: 67, Indels: 22
0.81 0.15 0.05
Matches are distributed among these distances:
112 5 0.01
113 95 0.26
114 263 0.71
115 7 0.02
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (114 bp):
TCATCCGATCTCGACTTAGGTCAGATCATCTTCAGACTCGTAACATCAATTCGATCATTTATTTA
TGACTTCGACTCGATCTTAGTCACCTTCAGACTCGCGACATCATCCCAA
Found at i:10184590 original size:227 final size:228
Alignment explanation
Indices: 10184070--10184664 Score: 692
Period size: 228 Copynumber: 2.6 Consensus size: 228
10184060 CATTATTCAG
** * * *
10184070 TCATCTGATCTCGACTTAAATTAGATCATCTTCAGACTCACAACATCAGTCCGATCATTTATTTA
1 TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAGTCTGATCATTTATTTA
** * * * * * * * * **
10184135 TGACTTTAACTCGATCTTGATCATCTTTAGACTCGCGGCATCGTCTTAGTCATCCTATCTTAACT
66 TGACTTCGACTCGATCTTGGTCACCTTTAGACTCACGACATCGTCCTAGTTATTCGATCTCGACT
* * *
10184200 TAGGT-AAGATTATCTTCAAACTCACAACACCAGTCCGATCATTTATTTACAATCTCGACTCAGT
131 TAGGTCAA-ATCATCTTCAAACTCACAACACCAATCCGATCATTTATTTACAACCTCGACTCAGT
* * *
10184264 CTTGGTCACCTTTAGACTCGCGACATCATCTCAA
195 CTTAGTCACCTTCAGACTCGCGACATCATCCCAA
* * * * * *
10184298 TCATCTGATCTTGACTTAGGTCAGATCATCTTCAGACCCGTAACACCAGTTTGATTATTTATTTA
1 TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAGTCTGATCATTTATTTA
* * *
10184363 TGACTTCGACTCGATCTTGGTCACCTTCAGACTCACGACATCATCCCAGTTATTCGATCTCGACT
66 TGACTTCGACTCGATCTTGGTCACCTTTAGACTCACGACATCGTCCTAGTTATTCGATCTCGACT
* * ** * * ** *
10184428 TAGGTCAAATCATTTTCAGACTCGTAACATCAATTCGATCATTTATTTAGGACCTTGACTCAGTC
131 TAGGTCAAATCATCTTCAAACTCACAACACCAATCCGATCATTTATTTACAACCTCGACTCAGTC
* *
10184493 TTAGTCGCC-TCAGACTCGTGACATCATCCCAA
196 TTAGTCACCTTCAGACTCGCGACATCATCCCAA
* * * *
10184525 TCATCCGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCGACATCAATCTAATCATTTATTTA
1 TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAGTCTGATCATTTATTTA
* * *
10184590 TGACTTCGACTCGATCTTAGTCACTTTTAGACTCACGACATCGTCCTAGTTAATT-GATCTCGAA
66 TGACTTCGACTCGATCTTGGTCACCTTTAGACTCACGACATCGTCCTAGTT-ATTCGATCTCGAC
*
10184654 TCAGGTCAAAT
130 TTAGGTCAAAT
10184665 TTTTTACTAG
Statistics
Matches: 305, Mismatches: 60, Indels: 5
0.82 0.16 0.01
Matches are distributed among these distances:
227 139 0.46
228 164 0.54
229 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (228 bp):
TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAGTCTGATCATTTATTTA
TGACTTCGACTCGATCTTGGTCACCTTTAGACTCACGACATCGTCCTAGTTATTCGATCTCGACT
TAGGTCAAATCATCTTCAAACTCACAACACCAATCCGATCATTTATTTACAACCTCGACTCAGTC
TTAGTCACCTTCAGACTCGCGACATCATCCCAA
Found at i:10185625 original size:114 final size:114
Alignment explanation
Indices: 10185044--10185642 Score: 577
Period size: 114 Copynumber: 5.3 Consensus size: 114
10185034 TGCATTATTC
** * * *
10185044 AGTCATCTGATCTCGACTTAAATTAAATCATCTTCAGACTCGCAACATCAGTCCGATCATTTATT
1 AGTCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGATCATTTATT
* ** * * * *
10185109 TATGACTTTAACTCGATCTTAATCATCTTT-AGACTTGCGGCATCATCTT
66 TACGACTTCGACTCGATCTTAGTCA-CTTTCAGACTCGCGACATCATCCT
* * * * * *
10185158 AGTCATCCT-ATCTCAACTTAGGTAAGATCATCTTCAAACTCACAACACCAGTCCGATCATTTAT
1 AGTCAT-CTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGATCATTTAT
* * * *
10185222 TTAC-AATCTCGACTCAATCTTGGTCACCTTT-AGACTCGCGACATCATCCC
65 TTACGACT-TCGACTCGATCTTAGTCA-CTTTCAGACTCGCGACATCATCCT
* * ** * * * * *
10185272 AATCATCCGATCTTAATTTAGGTCAGATCATCTTCAGACCCGTAACATCGATCCGATTATTTATT
1 AGTCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGATCATTTATT
* * * *
10185337 TACGACTTCGACTCAATCTTGGTCACCTTCAGACTCGTGACATCAT-CT
66 TACGACTTCGACTCGATCTTAGTCACTTTCAGACTCGCGACATCATCCT
* * * *
10185385 CAGTCAT-TCGATCTCGACTTAGGTCAAATCATCTTCAGACTTGTAACATCAATTCGATCATTTA
1 -AGTCATCT-GATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGATCATTTA
* * * * * *
10185449 TTTACGACCTT-GACTCGATCTTAGTCGCCTTCAAACTTGTGACATCATCCC
64 TTTACGA-CTTCGACTCGATCTTAGTCACTTTCAGACTCGCGACATCATCCT
* * *
10185500 AATCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTTGCGACATCAATCC-AGTCATTTAT
1 AGTCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGA-TCATTTAT
* * *
10185564 TTATGACTTCGACTCGATCTTAGTCACTTTCAGACTCACGACATCGTCCT
65 TTACGACTTCGACTCGATCTTAGTCACTTTCAGACTCGCGACATCATCCT
* *
10185614 AGTCAAT-TGATCTCGAATCAGGTCAGATC
1 AGTC-ATCTGATCTCGACTTAGGTCAGATC
10185643 TTCATACTAG
Statistics
Matches: 401, Mismatches: 71, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
113 11 0.03
114 379 0.95
115 11 0.03
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (114 bp):
AGTCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGATCATTTATT
TACGACTTCGACTCGATCTTAGTCACTTTCAGACTCGCGACATCATCCT
Found at i:10185628 original size:228 final size:228
Alignment explanation
Indices: 10185046--10185642 Score: 650
Period size: 228 Copynumber: 2.6 Consensus size: 228
10185036 CATTATTCAG
** * * *
10185046 TCATCTGATCTCGACTTAAATTAAATCATCTTCAGACTCGCAACATCAGTCCGATCATTTATTTA
1 TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGATCATTTATTTA
** * * * * *
10185111 TGACTTTAACTCGATCTTAATCATCTTT-AGACTTGCGGCATCATCTTAGTCATCCT-ATCTCAA
66 TGACTTCGACTCGATCTTAGTCA-CTTTCAGACTCGCGACATCATCCTAGTCAT--TGATCTCGA
* *
10185174 CTTAGGT-AAGATCATCTTCAAACTCACAACACCAGTCCGATCATTTATTTACAATCTCGACTCA
128 CTTAGGTCAAGATCATCTTCAAACTCACAACACCAATCCGATCATTTATTTACAACCTCGACTCA
* * *
10185238 ATCTTGGTCACCTTTAGACTCGCGACATCATCCCAA
193 ATCTTAGTCACCTTCAAACTCGCGACATCATCCCAA
* ** * * * * *
10185274 TCATCCGATCTTAATTTAGGTCAGATCATCTTCAGACCCGTAACATCGATCCGATTATTTATTTA
1 TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGATCATTTATTTA
* * * * *
10185339 CGACTTCGACTCAATCTTGGTCACCTTCAGACTCGTGACATCAT-CTCAGTCATTCGATCTCGAC
66 TGACTTCGACTCGATCTTAGTCACTTTCAGACTCGCGACATCATCCT-AGTCATT-GATCTCGAC
* *** * * * * *
10185403 TTAGGTCAA-ATCATCTTCAGACTTGTAACATCAATTCGATCATTTATTTACGACCTTGACTCGA
129 TTAGGTCAAGATCATCTTCAAACTCACAACACCAATCCGATCATTTATTTACAACCTCGACTCAA
* * *
10185467 TCTTAGTCGCCTTCAAACTTGTGACATCATCCCAA
194 TCTTAGTCACCTTCAAACTCGCGACATCATCCCAA
* *
10185502 TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTTGCGACATCAATCC-AGTCATTTATTT
1 TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGA-TCATTTATTT
* * *
10185566 ATGACTTCGACTCGATCTTAGTCACTTTCAGACTCACGACATCGTCCTAGTCAATTGATCTCGAA
65 ATGACTTCGACTCGATCTTAGTCACTTTCAGACTCGCGACATCATCCTAGTC-ATTGATCTCGAC
*
10185631 TCAGGTC-AGATC
129 TTAGGTCAAGATC
10185643 TTCATACTAG
Statistics
Matches: 299, Mismatches: 61, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
226 1 0.00
227 6 0.02
228 285 0.95
229 7 0.02
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (228 bp):
TCATCTGATCTCGACTTAGGTCAGATCATCTTCAGACTCGCAACATCAATCCGATCATTTATTTA
TGACTTCGACTCGATCTTAGTCACTTTCAGACTCGCGACATCATCCTAGTCATTGATCTCGACTT
AGGTCAAGATCATCTTCAAACTCACAACACCAATCCGATCATTTATTTACAACCTCGACTCAATC
TTAGTCACCTTCAAACTCGCGACATCATCCCAA
Found at i:10186008 original size:15 final size:15
Alignment explanation
Indices: 10185984--10186022 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10185974 ATTATTATTA
10185984 TTTT-TTTTTCCTTT-
1 TTTTCTTTTT-CTTTC
10185998 TTTTCTTTTTCTTTC
1 TTTTCTTTTTCTTTC
10186013 TTTTCTTTTT
1 TTTTCTTTTT
10186023 TGTTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTCTTTTTCTTTC
Found at i:10187039 original size:26 final size:24
Alignment explanation
Indices: 10187001--10187059 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 24
10186991 CCTAAAAGAG
*
10187001 AAAAAAAAGGAAAAAAATAAAGTTCT
1 AAAAAAAAAGAAAAAAAT--AGTTCT
10187027 AAAAAAAAAGAAAAAAATAGTTCT
1 AAAAAAAAAGAAAAAAATAGTTCT
*
10187051 ACAAAAAAA
1 AAAAAAAAA
10187060 TGATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (24 bp):
AAAAAAAAAGAAAAAAATAGTTCT
Found at i:10187110 original size:26 final size:28
Alignment explanation
Indices: 10187064--10187120 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
10187054 AAAAAATGAT
* *
10187064 AAATAAAAAAAATCTTTTC-AATAAA-A
1 AAATAAAAAAAATATTATCAAATAAACA
*
10187090 AAATAAAAAATATATTATCAAATAAACA
1 AAATAAAAAAAATATTATCAAATAAACA
10187118 AAA
1 AAA
10187121 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 16 0.62
27 6 0.23
28 4 0.15
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (28 bp):
AAATAAAAAAAATATTATCAAATAAACA
Found at i:10190941 original size:3 final size:3
Alignment explanation
Indices: 10190933--10190965 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10190923 GGCAAATTTT
10190933 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10190966 GTATAAGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10193020 original size:20 final size:20
Alignment explanation
Indices: 10192995--10193113 Score: 65
Period size: 20 Copynumber: 6.2 Consensus size: 20
10192985 TTTTGCATGA
10192995 ATTTGCATGATTAATATTAT
1 ATTTGCATGATTAATATTAT
10193015 ATTTGCATGA-T-A-ATT-T
1 ATTTGCATGATTAATATTAT
*
10193031 ATTTGTC-T-AAT-ATATT-T
1 ATTTG-CATGATTAATATTAT
* *
10193048 GTTTGCATGATTAATATATTT
1 ATTTGCATGATTAATAT-TAT
* * *
10193069 ATTTGTATGATTTATTAATAT
1 ATTTGCATGA-TTAATATTAT
* * * *
10193090 ATTTGTATGACTATTAATAT
1 ATTTGCATGATTAATATTAT
10193110 ATTT
1 ATTT
10193114 ATTTGTATAA
Statistics
Matches: 82, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
15 1 0.01
16 10 0.12
17 13 0.16
18 3 0.04
19 5 0.06
20 24 0.29
21 21 0.26
22 5 0.06
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTTGCATGATTAATATTAT
Found at i:10193064 original size:21 final size:21
Alignment explanation
Indices: 10193038--10193213 Score: 97
Period size: 21 Copynumber: 7.9 Consensus size: 21
10193028 TTTATTTGTC
*
10193038 TAATATATTTGTTTGCATGAT
1 TAATATATTTATTTGCATGAT
*
10193059 TAATATATTTATTTGTATGAT
1 TAATATATTTATTTGCATGAT
* * *
10193080 TTAT-TAATATATTTGTATGACTAT
1 TAATAT-ATTTATTTGCATG---AT
* *
10193104 TAATATATTTATTTGTATAAT
1 TAATATATTTATTTGCATGAT
* *
10193125 TATATTTAATTTGA-TTGTATGATTAT
1 TA-ATAT-ATTT-ATTTGCATG---AT
* * *
10193151 TAATAAATTTAATTGCTTGATTAT
1 TAATATATTTATTTGC---ATGAT
10193175 TAATATATTTATTTGCATGAT
1 TAATATATTTATTTGCATGAT
*
10193196 T-ATATATTTAATTGCATG
1 TAATATATTTATTTGCATG
10193214 TTTATTTATA
Statistics
Matches: 123, Mismatches: 17, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
20 17 0.14
21 43 0.35
22 3 0.02
23 11 0.09
24 40 0.33
25 3 0.02
26 4 0.03
27 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.54
Consensus pattern (21 bp):
TAATATATTTATTTGCATGAT
Found at i:10193152 original size:47 final size:45
Alignment explanation
Indices: 10193038--10193184 Score: 149
Period size: 47 Copynumber: 3.2 Consensus size: 45
10193028 TTTATTTGTC
* *
10193038 TAATATATTTGTTTG-CATGATTAATATATTTATTTGTATGATTTAT
1 TAATATATTTGTATGAC-T-ATTAATATATTTATTTGTATAATTTAT
10193084 TAATATATTTGTATGACTATTAATATATTTATTTGTATAATTATATT
1 TAATATATTTGTATGACTATTAATATATTTATTTGTATAATT-TA-T
* * * * *
10193131 TAATTTGA-TTGTATGATTATTAATAAATTTAATTGCT-TGA-TTAT
1 TAATAT-ATTTGTATGACTATTAATATATTTATTTG-TATAATTTAT
10193175 TAATATATTT
1 TAATATATTT
10193185 ATTTGCATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 8 0.09
45 25 0.29
46 18 0.21
47 33 0.38
48 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (45 bp):
TAATATATTTGTATGACTATTAATATATTTATTTGTATAATTTAT
Found at i:10193196 original size:24 final size:24
Alignment explanation
Indices: 10193043--10193198 Score: 139
Period size: 24 Copynumber: 6.6 Consensus size: 24
10193033 TTGTCTAATA
* *
10193043 TATTTGTTTGCATGATTAATATATT
1 TATTTGTATG-ATTATTAATATATT
10193068 TATTTGTATGATTTATT-A-ATA--
1 TATTTGTATGA-TTATTAATATATT
*
10193089 TATTTGTATGACTATTAATATATT
1 TATTTGTATGATTATTAATATATT
* *
10193113 TATTTGTATAATTA-T-ATTTAATT
1 TATTTGTATGATTATTAATAT-ATT
*
10193136 TGA-TTGTATGATTATTAATAAATT
1 T-ATTTGTATGATTATTAATATATT
*
10193160 TAATTGCT-TGATTATTAATATATT
1 TATTTG-TATGATTATTAATATATT
*
10193184 TATTTGCATGATTAT
1 TATTTGTATGATTAT
10193199 ATATTTAATT
Statistics
Matches: 107, Mismatches: 12, Indels: 25
0.74 0.08 0.17
Matches are distributed among these distances:
20 4 0.04
21 12 0.11
22 6 0.06
23 19 0.18
24 50 0.47
25 16 0.15
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (24 bp):
TATTTGTATGATTATTAATATATT
Found at i:10193202 original size:20 final size:20
Alignment explanation
Indices: 10192995--10193218 Score: 83
Period size: 21 Copynumber: 10.7 Consensus size: 20
10192985 TTTTGCATGA
10192995 ATTTGCATGATTA-ATATTAT
1 ATTTGCATGATTATATATT-T
10193015 ATTTGCATG---ATA-ATTT
1 ATTTGCATGATTATATATTT
10193031 ATTTGTC-T-A--ATATATTT
1 ATTTG-CATGATTATATATTT
*
10193048 GTTTGCATGATTAATATATTT
1 ATTTGCATGATT-ATATATTT
* *
10193069 ATTTGTATGATT-TATTAATAT
1 ATTTGCATGATTATA-T-ATTT
*
10193090 ATTTGTATGACTATTAATATATTT
1 ATTTGCATG---ATT-ATATATTT
* *
10193114 ATTTGTATAATTATATTTAATTT
1 ATTTGCATGATTATA--T-ATTT
*
10193137 GA-TTGTATGATTATTAATAAATTT
1 -ATTTGCATGATTA-T-AT--ATTT
* *
10193161 AATTGCTTGATTATTAATATATTT
1 ATTTGC---ATGATT-ATATATTT
10193185 ATTTGCATGATTATATATTT
1 ATTTGCATGATTATATATTT
* *
10193205 AATTGCATGTTTAT
1 ATTTGCATGATTAT
10193219 TTATATGATT
Statistics
Matches: 163, Mismatches: 13, Indels: 56
0.70 0.06 0.24
Matches are distributed among these distances:
16 11 0.07
17 14 0.09
18 2 0.01
19 2 0.01
20 33 0.20
21 38 0.23
22 1 0.01
23 16 0.10
24 33 0.20
25 2 0.01
26 4 0.02
27 6 0.04
28 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTTGCATGATTATATATTT
Found at i:10193218 original size:32 final size:32
Alignment explanation
Indices: 10193182--10193244 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
10193172 TATTAATATA
* *
10193182 TTTATTTGCATGATTATATATTTAATTGCATG
1 TTTATTTACATGATTATAGATTTAATTGCATG
*
10193214 TTTATTTATATGATTATAGATTTAATTGCAT
1 TTTATTTACATGATTATAGATTTAATTGCAT
10193245 ATTGTTAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (32 bp):
TTTATTTACATGATTATAGATTTAATTGCATG
Found at i:10193222 original size:24 final size:24
Alignment explanation
Indices: 10193057--10193224 Score: 113
Period size: 24 Copynumber: 7.3 Consensus size: 24
10193047 TGTTTGCATG
* *
10193057 ATTAATATATTTATTTGTATGATTT
1 ATTAATATATTTAATTGCATGA-TT
* *
10193082 ATTAATATA--T--TTGTATGACT
1 ATTAATATATTTAATTGCATGATT
* * *
10193102 ATTAATATATTTATTTGTATAATT
1 ATTAATATATTTAATTGCATGATT
* * *
10193126 A-T-ATTTAATTTGATTGTATGATT
1 ATTAATAT-ATTTAATTGCATGATT
* *
10193149 ATTAATAAATTTAATTGCTTGATT
1 ATTAATATATTTAATTGCATGATT
*
10193173 ATTAATATATTTATTTGCATG---
1 ATTAATATATTTAATTGCATGATT
*
10193194 ATT-ATATATTTAATTGCATGTTT
1 ATTAATATATTTAATTGCATGATT
*
10193217 ATTTATAT
1 ATTAATAT
10193225 GATTATAGAT
Statistics
Matches: 116, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
20 26 0.22
21 11 0.09
22 4 0.03
23 19 0.16
24 45 0.39
25 11 0.09
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.55
Consensus pattern (24 bp):
ATTAATATATTTAATTGCATGATT
Found at i:10207377 original size:6 final size:6
Alignment explanation
Indices: 10207366--10207394 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
10207356 TAGAGATAAA
10207366 TGAATT TGAATT TGAATT TGAATT TGAAT
1 TGAATT TGAATT TGAATT TGAATT TGAAT
10207395 CTTTAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (6 bp):
TGAATT
Found at i:10208207 original size:38 final size:39
Alignment explanation
Indices: 10208138--10208237 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 39
10208128 TGATTTTATT
**
10208138 TTTTTTCAAAGTTAAAGCCTTGGTGGAGGAGT-TCTTT-A
1 TTTTTTCAAAGTTAAAGCCTCAGTGGAGGAGTAT-TTTAA
* *
10208176 TTTTTTCAAAGTTAAAGTCTCAGTGGGGGAGTATTTTAA
1 TTTTTTCAAAGTTAAAGCCTCAGTGGAGGAGTATTTTAA
*
10208215 TTTTTT-TAAGTTTCAAAGCCTCA
1 TTTTTTCAAAG-TT-AAAGCCTCA
10208238 ATTGTGAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
38 34 0.65
39 10 0.19
40 8 0.15
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (39 bp):
TTTTTTCAAAGTTAAAGCCTCAGTGGAGGAGTATTTTAA
Found at i:10208317 original size:85 final size:84
Alignment explanation
Indices: 10208228--10208440 Score: 243
Period size: 85 Copynumber: 2.5 Consensus size: 84
10208218 TTTTAAGTTT
* *
10208228 CAAAGCCTCAATTGTGAATGAGCATTTTATTTTTAAAAGTTTTAAAGCCTCAGTTGTGGGA-GAA
1 CAAAGCCTCAATTGTGAAGGAGCATTTTATTTTTAAAAGTTTCAAAGCCTCAGTTGT-GGATGAA
*
10208292 TATTTTACTCTTCCAAAATTC
65 CATTTTA-TCTTCCAAAATTC
* * *
10208313 CAAAGACC-CAGTTGT-AAGGGAGTATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGATG
1 CAAAG-CCTCAATTGTGAA-GGAGCATTTTATTTTT-AAAAGTTTCAAAGCCTCAGTTGTGGATG
* * *
10208376 ACCATTTTATTTTTCAAAATTC
63 AACATTTTATCTTCCAAAATTC
* *
10208398 CAAAGCCTCAATTGTTGAGGGAGCATTTTACTTTTCAAAAGTT
1 CAAAGCCTCAATTG-TGAAGGAGCATTTTA-TTTTTAAAAGTT
10208441 CTACAACCTC
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
84 4 0.04
85 49 0.46
86 49 0.46
87 5 0.05
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (84 bp):
CAAAGCCTCAATTGTGAAGGAGCATTTTATTTTTAAAAGTTTCAAAGCCTCAGTTGTGGATGAAC
ATTTTATCTTCCAAAATTC
Found at i:10208354 original size:128 final size:129
Alignment explanation
Indices: 10208202--10208498 Score: 340
Period size: 128 Copynumber: 2.3 Consensus size: 129
10208192 GTCTCAGTGG
** * * *
10208202 GGGAGTATTTTAATTTTT-TTAAGTTTCAAAGCCTCAATTGTGAATGAGCATTTTATTTTT-AAA
1 GGGAGTATTTT-ATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGAATGACCATTTTATTTTTCAAA
** * * *
10208265 AGTTTTAAAGCCTCAGTTG-TG-GGAGAATATTTTACTCTTCCAAAA-TTCCAAAGACC-CAGTT
65 A-TTCCAAAGCCTCAATTGTTGAGG-GAACATTTTACT-TTCCAAAAGTTCCAAA-ACCTCAATT
10208326 GTA-A
126 G-AGA
*
10208330 GGGAGTATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGATGACCATTTTATTTTTCAAAA
1 GGGAGTATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGAATGACCATTTTATTTTTCAAAA
* * * *
10208395 TTCCAAAGCCTCAATTGTTGAGGGAGCATTTTACTTTTCAAAAGTTCTACAACCTCAATTGAGA
66 TTCCAAAGCCTCAATTGTTGAGGGAACATTTTACTTTCCAAAAGTTCCAAAACCTCAATTGAGA
*
10208459 GAGAGTATTTTATTTTTCAAAAG-TTCAAAGCTTCAGTTGT
1 GGGAGTATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGT
10208499 AAAGAAAGTA
Statistics
Matches: 146, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
127 6 0.04
128 89 0.61
129 49 0.34
130 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (129 bp):
GGGAGTATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGAATGACCATTTTATTTTTCAAAA
TTCCAAAGCCTCAATTGTTGAGGGAACATTTTACTTTCCAAAAGTTCCAAAACCTCAATTGAGA
Found at i:10208469 original size:86 final size:83
Alignment explanation
Indices: 10208204--10208498 Score: 258
Period size: 86 Copynumber: 3.5 Consensus size: 83
10208194 CTCAGTGGGG
** * * ** *
10208204 GAGTATTTTAATTTTTTTAAGTTTCAAAGCCTCAATTGTGAATGAGCATTTTATTTTTAAAAGTT
1 GAGTATTTT-ATTTTTCAAAATTCCAAAGCCTCAATTGTGAGGGAGCATTTTATTTTCAAAAG-T
10208269 TTA-AAGCCTCAGTTGTGGGA
64 TTACAAGCCTCAGTTGT-GGA
* * * * * *
10208289 GAATATTTTACTCTTCCAAAATTCCAAAGACC-CAGTTGTAAGGGAGTATTTTATTTTTCAAAAG
1 GAGTATTTTA-TTTTTCAAAATTCCAAAG-CCTCAATTGTGAGGGAGCATTTTA-TTTTCAAAAG
*
10208353 TTT-CAAAGCTTCAGTTGTGGA
63 TTTAC-AAGCCTCAGTTGTGGA
**
10208374 TGACCATTTTATTTTTCAAAATTCCAAAGCCTCAATTGTTGAGGGAGCATTTTACTTTTCAAAAG
1 -GAGTATTTTATTTTTCAAAATTCCAAAGCCTCAATTG-TGAGGGAGCATTTTA-TTTTCAAAAG
* *
10208439 TTCTACAA-CCTCAATTGAGAGA
63 TT-TACAAGCCTCAGTTGTG-GA
* *
10208461 GAGTATTTTATTTTTCAAAAGTT-CAAAGCTTCAGTTGT
1 GAGTATTTTATTTTTCAAAA-TTCCAAAGCCTCAATTGT
10208499 AAAGAAAGTA
Statistics
Matches: 169, Mismatches: 29, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
84 3 0.02
85 64 0.38
86 94 0.56
87 7 0.04
88 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (83 bp):
GAGTATTTTATTTTTCAAAATTCCAAAGCCTCAATTGTGAGGGAGCATTTTATTTTCAAAAGTTT
ACAAGCCTCAGTTGTGGA
Found at i:10208509 original size:43 final size:43
Alignment explanation
Indices: 10208204--10208512 Score: 212
Period size: 43 Copynumber: 7.2 Consensus size: 43
10208194 CTCAGTGGGG
**
10208204 GAGTATTTTAATTTTT-TTAAGTTTCAAAGCCTCAATTGT-GA-A
1 GAGTATTTT-ATTTTTCAAAAG-TTCAAAGCCTCAATTGTAGAGA
* * * *
10208246 TGAGCATTTTATTTTT-AAAAGTTTTAAAGCCTCAGTTGT-GGGA
1 -GAGTATTTTATTTTTCAAAAG-TTCAAAGCCTCAATTGTAGAGA
* * * * *
10208289 GAATATTTTACTCTTCCAAAA-TTCCAAAGACC-CAGTTGTA-AGG
1 GAGTATTTTA-TTTTTCAAAAGTT-CAAAG-CCTCAATTGTAGAGA
* *
10208332 GAGTATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGT-G-GA
1 GAGTATTTTATTTTTCAAAAG-TTCAAAGCCTCAATTGTAGAGA
** * *
10208374 TGACCATTTTATTTTTCAAAA-TTCCAAAGCCTCAATTGTTGAGG
1 -GAGTATTTTATTTTTCAAAAGTT-CAAAGCCTCAATTGTAGAGA
* *
10208418 GAGCATTTTACTTTTCAAAAGTTCTACAA-CCTCAATTG-AGAGA
1 GAGTATTTTATTTTTCAAAAGTTC-A-AAGCCTCAATTGTAGAGA
* * *
10208461 GAGTATTTTATTTTTCAAAAGTTCAAAGCTTCAGTTGTAAAGA
1 GAGTATTTTATTTTTCAAAAGTTCAAAGCCTCAATTGTAGAGA
*
10208504 AAGTATTTT
1 GAGTATTTT
10208513 GCAAAAAGTT
Statistics
Matches: 214, Mismatches: 33, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
41 4 0.02
42 67 0.31
43 120 0.56
44 21 0.10
45 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (43 bp):
GAGTATTTTATTTTTCAAAAGTTCAAAGCCTCAATTGTAGAGA
Found at i:10209494 original size:21 final size:21
Alignment explanation
Indices: 10209470--10209644 Score: 79
Period size: 21 Copynumber: 7.9 Consensus size: 21
10209460 TCTATTTGCC
*
10209470 TAATATAATTGTTTGCATGAT
1 TAATATAATTATTTGCATGAT
**
10209491 TAATATAATTATTTGTGTGAT
1 TAATATAATTATTTGCATGAT
* *
10209512 TTAT-TAATATATTTGCAAGATTAT
1 TAATATAAT-TATTTGC---ATGAT
* *
10209536 TAATATATTTATTTGTATGAT
1 TAATATAATTATTTGCATGAT
*
10209557 TATATTTAATT-TGATTGCATGAT
1 TA-ATATAATTAT--TTGCATGAT
* *
10209580 TATTAATAAATTTAATTT-CTTGATTAT
1 TAAT-AT-AA-TT-ATTTGC---ATGAT
*
10209607 TAATATATTTATTTGCATGAT
1 TAATATAATTATTTGCATGAT
* *
10209628 T-ATATATTTAATTGCAT
1 TAATATAATTATTTGCAT
10209645 ATTTTGCATG
Statistics
Matches: 116, Mismatches: 21, Indels: 35
0.67 0.12 0.20
Matches are distributed among these distances:
20 19 0.16
21 39 0.34
22 7 0.06
23 15 0.13
24 18 0.16
25 8 0.07
26 2 0.02
27 8 0.07
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (21 bp):
TAATATAATTATTTGCATGAT
Found at i:10209548 original size:24 final size:24
Alignment explanation
Indices: 10209489--10209630 Score: 120
Period size: 24 Copynumber: 6.1 Consensus size: 24
10209479 TGTTTGCATG
* **
10209489 ATTAATATAATTATTTGTGTGATTT
1 ATTAATATATTTATTTGCATGA-TT
*
10209514 ATT-A-ATA--TATTTGCAAGATT
1 ATTAATATATTTATTTGCATGATT
*
10209534 ATTAATATATTTATTTGTATGATT
1 ATTAATATATTTATTTGCATGATT
*
10209558 A-T-ATTTAATTTGA-TTGCATGATT
1 ATTAATAT-ATTT-ATTTGCATGATT
* *
10209581 ATTAATAAATTTAATTT-CTTGATT
1 ATTAATATATTT-ATTTGCATGATT
10209605 ATTAATATATTTATTTGCATGATT
1 ATTAATATATTTATTTGCATGATT
10209629 AT
1 AT
10209631 ATATTTAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 21
0.73 0.10 0.16
Matches are distributed among these distances:
20 5 0.05
21 9 0.10
22 6 0.06
23 22 0.23
24 45 0.48
25 7 0.07
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.54
Consensus pattern (24 bp):
ATTAATATATTTATTTGCATGATT
Found at i:10209561 original size:20 final size:20
Alignment explanation
Indices: 10209427--10209644 Score: 62
Period size: 21 Copynumber: 10.4 Consensus size: 20
10209417 TTTTGCATGA
10209427 ATTTGCATGATTA-ATATTAT
1 ATTTGCATGATTATATATT-T
*
10209447 ATTTGCATG--T-TA-ATCT
1 ATTTGCATGATTATATATTT
* *
10209463 ATTTGCCT-A--ATATAATT
1 ATTTGCATGATTATATATTT
* *
10209480 GTTTGCATGATTAATATAATT
1 ATTTGCATGATT-ATATATTT
** *
10209501 ATTTGTGTGATT-TATTAATAT
1 ATTTGCATGATTATA-T-ATTT
*
10209522 ATTTGCAAGATTATTAATATATTT
1 ATTTGC---ATGATT-ATATATTT
*
10209546 ATTTGTATGATTATATTTAATTT
1 ATTTGCATGATTATA--T-ATTT
10209569 GA-TTGCATGATTATTAATAAATTT
1 -ATTTGCATGATTA-T-AT--ATTT
*
10209593 AATTT-CTTGATTATTAATATATTT
1 -ATTTGCATGA---TTA-TATATTT
10209617 ATTTGCATGATTATATATTT
1 ATTTGCATGATTATATATTT
*
10209637 AATTGCAT
1 ATTTGCAT
10209645 ATTTTGCATG
Statistics
Matches: 148, Mismatches: 23, Indels: 54
0.66 0.10 0.24
Matches are distributed among these distances:
16 10 0.07
17 10 0.07
18 3 0.02
19 2 0.01
20 27 0.18
21 32 0.22
22 1 0.01
23 19 0.13
24 32 0.22
25 4 0.03
26 4 0.03
27 4 0.03
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (20 bp):
ATTTGCATGATTATATATTT
Found at i:10209584 original size:47 final size:45
Alignment explanation
Indices: 10209489--10209616 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 45
10209479 TGTTTGCATG
*
10209489 ATTAATATAATTATTTGTGTGATT-TATTAATATATTTGCAAGATT
1 ATTAATATATTTATTTGT-TGATTATATTAATATATTTGCAAGATT
* *
10209534 ATTAATATATTTATTTGTATGATTATATTTAATTTGA-TTGCATGATT
1 ATTAATATATTTATTTGT-TGATTATA-TTAATAT-ATTTGCAAGATT
* *
10209581 ATTAATAAATTTAATTTCTTGA-T-TATTAATATATTT
1 ATTAATATATTT-ATTTGTTGATTATATTAATATATTT
10209617 ATTTGCATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 8 0.11
45 24 0.34
46 3 0.04
47 29 0.41
48 6 0.08
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (45 bp):
ATTAATATATTTATTTGTTGATTATATTAATATATTTGCAAGATT
Found at i:10209746 original size:13 final size:12
Alignment explanation
Indices: 10209717--10209781 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 12
10209707 TAATTATATA
*
10209717 TTTAATTGCATG
1 TTTATTTGCATG
10209729 TTTATTTGCATGG
1 TTTATTTGCAT-G
* *
10209742 TTTATAT--ATT
1 TTTATTTGCATG
*
10209752 TTTGTTTGCATG
1 TTTATTTGCATG
*
10209764 TCTATTTGCATG
1 TTTATTTGCATG
*
10209776 ATTATT
1 TTTATT
10209782 AATTTATTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
10 5 0.12
11 2 0.05
12 26 0.65
13 7 0.17
ACGTcount: A:0.20, C:0.08, G:0.15, T:0.57
Consensus pattern (12 bp):
TTTATTTGCATG
Found at i:10209876 original size:19 final size:19
Alignment explanation
Indices: 10209848--10209884 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10209838 TATTTATTTA
10209848 TTATAATTATTACATGATT
1 TTATAATTATTACATGATT
* *
10209867 TTATATTTATTGCATGAT
1 TTATAATTATTACATGAT
10209885 ATGATATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TTATAATTATTACATGATT
Found at i:10209891 original size:19 final size:19
Alignment explanation
Indices: 10209854--10209892 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10209844 TTTATTATAA
* *
10209854 TTATTACATGATTTTATAT
1 TTATTACATGATATGATAT
*
10209873 TTATTGCATGATATGATAT
1 TTATTACATGATATGATAT
10209892 T
1 T
10209893 GTATGATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (19 bp):
TTATTACATGATATGATAT
Found at i:10210043 original size:36 final size:34
Alignment explanation
Indices: 10209995--10210081 Score: 81
Period size: 35 Copynumber: 2.5 Consensus size: 34
10209985 TATTTATGTG
*
10209995 ATTA-TATT-TTATTTCA-AGATTATATATTTGC
1 ATTATTATTATTATTTCAGAGATTATATATTTAC
* * *
10210026 ATGGTATTTTTTATTATTGCATGATATTATATATTTAC
1 AT--TA-TTATTATTATTTCA-GAGATTATATATTTAC
10210064 ATTATTATTATTATTTCA
1 ATTATTATTATTATTTCA
10210082 TGATAATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
31 2 0.05
33 2 0.05
35 15 0.35
36 9 0.21
38 15 0.35
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (34 bp):
ATTATTATTATTATTTCAGAGATTATATATTTAC
Found at i:10210060 original size:20 final size:19
Alignment explanation
Indices: 10210013--10210061 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
10210003 TTATTTCAAG
*
10210013 ATTATATA-TTTGCATGGT
1 ATTATATATTTTGCATGAT
* *
10210031 ATTTTTTATTATTGCATGAT
1 ATTATATATT-TTGCATGAT
10210051 ATTATATATTT
1 ATTATATATTT
10210062 ACATTATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (19 bp):
ATTATATATTTTGCATGAT
Found at i:10210060 original size:38 final size:37
Alignment explanation
Indices: 10210013--10210103 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 37
10210003 TTATTTCAAG
*
10210013 ATTATATATTTGCATGGTATTTTTTATTATTGCATGAT-
1 ATTATATATTTGCAT-GTA-TTATTATTATTGCATGATA
* *
10210051 ATTATATATTTACAT-TATTATTATTATTTCATGATA
1 ATTATATATTTGCATGTATTATTATTATTGCATGATA
*
10210087 ATTGACATATTTGCATG
1 ATT-ATATATTTGCATG
10210104 ACATTCTTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 16 0.36
36 5 0.11
37 10 0.22
38 14 0.31
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.53
Consensus pattern (37 bp):
ATTATATATTTGCATGTATTATTATTATTGCATGATA
Found at i:10220497 original size:52 final size:51
Alignment explanation
Indices: 10220355--10220511 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 51
10220345 TATAATCATA
* * * * *
10220355 CAAACTTGCCCATTAAGAATCTCACTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTC-TTTCTCTTAGAATTCTTCTCTTGCAAGT
* *
10220407 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTCTTT-CTCTTAGAATTCTTCTCTTGCAAGT
* *
10220459 CAAACTTACCTATTAAGAATCTTCTTTCTCTT-GAAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATC-TCTTTCTCTTAG-AATTCTTCTCTTGCAAGT
10220511 C
1 C
10220512 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
51 2 0.02
52 85 0.93
53 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.39
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCTCTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:10220886 original size:50 final size:51
Alignment explanation
Indices: 10220792--10220887 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 51
10220782 CTCAAACCAA
* * * *
10220792 GCTCTTTTCCATATCTCGAACTGTCAACTCTTTTTATGTCTCGAACCATCG
1 GCTCTTTTCCACATCTCGAACTGTCAACTCTTCTCACGTCTCGAACCATCG
* *
10220843 GCTCTTTT-CACATCTTGAATCT-TCAACTCTTCTCACGTTTCGAAC
1 GCTCTTTTCCACATCTCGAA-CTGTCAACTCTTCTCACGTCTCGAAC
10220888 TTTCAGCTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
50 28 0.74
51 10 0.26
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (51 bp):
GCTCTTTTCCACATCTCGAACTGTCAACTCTTCTCACGTCTCGAACCATCG
Found at i:10221572 original size:52 final size:52
Alignment explanation
Indices: 10221430--10221574 Score: 184
Period size: 52 Copynumber: 2.8 Consensus size: 52
10221420 TATAACCATA
* * ** *
10221430 CAAACTTGCCCATTAAGAATC-TCACTCATCTTAAAATTTTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCTTCTTTC-TCTTAAAATTCTTCTCCTGTAAGT
* * * *
10221482 CAAACTTACCTATTAAGAATCTTTTTTCTTTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTACCTATTAAGAATCTTCTTTCTCTTAAAATTCTTCTCCTGTAAGT
*
10221534 CAAACTTACCTATTAAGAATCTTCTTTCTCTTGAAATTCTT
1 CAAACTTACCTATTAAGAATCTTCTTTCTCTTAAAATTCTT
10221575 TTTTTGCAAG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 76 0.96
53 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTTCTTTCTCTTAAAATTCTTCTCCTGTAAGT
Found at i:10221638 original size:11 final size:11
Alignment explanation
Indices: 10221624--10221653 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10221614 AATTTTAAAT
10221624 AAATCTCTAAC
1 AAATCTCTAAC
*
10221635 AAATCTCAAAC
1 AAATCTCTAAC
10221646 AAATCTCT
1 AAATCTCT
10221654 TATGAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATCTCTAAC
Found at i:10221887 original size:22 final size:22
Alignment explanation
Indices: 10221857--10221923 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 22
10221847 TAAGCTTACT
* *
10221857 TCTTCCCATGTCTCAAACCAAC
1 TCTTTCCATGTCTCGAACCAAC
*
10221879 TCTTTCCATATCTCGAACTGTCAAC
1 TCTTTCCATGTCTCGAAC---CAAC
10221904 TCTTTCCATGTCTCGAACCA
1 TCTTTCCATGTCTCGAACCA
10221924 TCGGCTCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 17 0.45
25 21 0.55
ACGTcount: A:0.24, C:0.36, G:0.07, T:0.33
Consensus pattern (22 bp):
TCTTTCCATGTCTCGAACCAAC
Found at i:10221907 original size:25 final size:24
Alignment explanation
Indices: 10221875--10221957 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
10221865 TGTCTCAAAC
10221875 CAACTCTTTCCATATCTCGAACTGT
1 CAACTCTTTCCATATCTCGAACT-T
* *
10221900 CAACTCTTTCCATGTCTCGAACCAT
1 CAACTCTTTCCATATCTCGAA-CTT
** * *
10221925 CGGCTCTTTCCACATCTTGAATCTT
1 CAACTCTTTCCATATCTCGAA-CTT
10221950 CAACTCTT
1 CAACTCTT
10221958 CTCACGTTTC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (24 bp):
CAACTCTTTCCATATCTCGAACTT
Found at i:10222669 original size:52 final size:52
Alignment explanation
Indices: 10222524--10222669 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 52
10222514 AAATTTGCCC
** * *
10222524 ATTAAGAATCCCACTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTGCCT
1 ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCT
* *
10222576 ATTAAGAATCCCTTTCCTTTTAAAATTCTTCTCTTGTAAGTCAAACTTACCT
1 ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCT
* * *
10222628 ATTAAGAATCCTCTTT-CTCTTGGAATTCTTCTTTTGCAAGTC
1 ATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCTTGTAAGTC
10222670 TCCTTGTCCA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 78 0.95
53 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (52 bp):
ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCT
Found at i:10222710 original size:11 final size:11
Alignment explanation
Indices: 10222694--10222735 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
10222684 GTAATATCTG
10222694 ACAAATCTCAA
1 ACAAATCTCAA
*
10222705 ACAAATCTCTA
1 ACAAATCTCAA
*
10222716 ACAAATATCAA
1 ACAAATCTCAA
10222727 ACAAATCTC
1 ACAAATCTC
10222736 TTATGGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:10222719 original size:22 final size:22
Alignment explanation
Indices: 10222694--10222736 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10222684 GTAATATCTG
*
10222694 ACAAATCTCAAACAAATCTCTA
1 ACAAATATCAAACAAATCTCTA
10222716 ACAAATATCAAACAAATCTCT
1 ACAAATATCAAACAAATCTCT
10222737 TATGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATATCAAACAAATCTCTA
Found at i:10224250 original size:155 final size:155
Alignment explanation
Indices: 10223968--10224281 Score: 628
Period size: 155 Copynumber: 2.0 Consensus size: 155
10223958 CTAGCATGGC
10223968 GAGGAGCGGGTCATGGGATACAGCCTGAAAAGGGCACTTTCCTTTGAGGGACAGGGCATTTAGGA
1 GAGGAGCGGGTCATGGGATACAGCCTGAAAAGGGCACTTTCCTTTGAGGGACAGGGCATTTAGGA
10224033 TAGGGGAAAATTTTGCATCAGAGGAGTTAGCTTGAGGTAGGGTGATTGATGGGGACAAGCCATCA
66 TAGGGGAAAATTTTGCATCAGAGGAGTTAGCTTGAGGTAGGGTGATTGATGGGGACAAGCCATCA
10224098 AGCTTTTTGTCAGGGCAGGTGGCGG
131 AGCTTTTTGTCAGGGCAGGTGGCGG
10224123 GAGGAGCGGGTCATGGGATACAGCCTGAAAAGGGCACTTTCCTTTGAGGGACAGGGCATTTAGGA
1 GAGGAGCGGGTCATGGGATACAGCCTGAAAAGGGCACTTTCCTTTGAGGGACAGGGCATTTAGGA
10224188 TAGGGGAAAATTTTGCATCAGAGGAGTTAGCTTGAGGTAGGGTGATTGATGGGGACAAGCCATCA
66 TAGGGGAAAATTTTGCATCAGAGGAGTTAGCTTGAGGTAGGGTGATTGATGGGGACAAGCCATCA
10224253 AGCTTTTTGTCAGGGCAGGTGGCGG
131 AGCTTTTTGTCAGGGCAGGTGGCGG
10224278 GAGG
1 GAGG
10224282 TATGCGGCTG
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 159 1.00
ACGTcount: A:0.25, C:0.14, G:0.38, T:0.23
Consensus pattern (155 bp):
GAGGAGCGGGTCATGGGATACAGCCTGAAAAGGGCACTTTCCTTTGAGGGACAGGGCATTTAGGA
TAGGGGAAAATTTTGCATCAGAGGAGTTAGCTTGAGGTAGGGTGATTGATGGGGACAAGCCATCA
AGCTTTTTGTCAGGGCAGGTGGCGG
Found at i:10224890 original size:15 final size:16
Alignment explanation
Indices: 10224872--10224906 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10224862 GTGACGATAT
*
10224872 ATTAATTTTGT-ATCA
1 ATTAAATTTGTCATCA
10224887 ATTAAATTTGTCATCA
1 ATTAAATTTGTCATCA
10224903 ATTA
1 ATTA
10224907 TAAACTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (16 bp):
ATTAAATTTGTCATCA
Found at i:10236679 original size:4 final size:4
Alignment explanation
Indices: 10236670--10236763 Score: 77
Period size: 4 Copynumber: 24.2 Consensus size: 4
10236660 CAAAATAAAC
* * * * *
10236670 ATAT ATAT ATAT A-AT ATAT AT-T ATA- ATAG ATAC ATAC ATAC ATAC
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * *
10236715 ATAC ATAT ACAT ATAC ATAT ACAT ATAC ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
10236763 A
1 A
10236764 CACACACATA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
3 9 0.12
4 68 0.88
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (4 bp):
ATAT
Found at i:10236681 original size:6 final size:6
Alignment explanation
Indices: 10236670--10236763 Score: 77
Period size: 6 Copynumber: 16.2 Consensus size: 6
10236660 CAAAATAAAC
* * * * *
10236670 ATATAT ATATAT A-ATAT ATAT-T ATA-AT AGATAC ATACAT ACATAC
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * *
10236715 ATACAT ATACAT ATACAT ATACAT ATACAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
10236763 A
1 A
10236764 CACACACATA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
5 12 0.16
6 61 0.84
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (6 bp):
ATATAT
Found at i:10236760 original size:12 final size:12
Alignment explanation
Indices: 10236672--10236763 Score: 98
Period size: 12 Copynumber: 7.8 Consensus size: 12
10236662 AAATAAACAT
10236672 ATATATATATA-
1 ATATATATATAC
10236683 ATATATATTATA-
1 ATATATA-TATAC
* *
10236695 ATAGATACATAC
1 ATATATATATAC
* *
10236707 ATACATACATAC
1 ATATATATATAC
*
10236719 ATATACATATAC
1 ATATATATATAC
*
10236731 ATATACATATAC
1 ATATATATATAC
*
10236743 ATATATATATAT
1 ATATATATATAC
10236755 ATATATATA
1 ATATATATA
10236764 CACACACATA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
11 10 0.14
12 61 0.86
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (12 bp):
ATATATATATAC
Found at i:10241538 original size:19 final size:22
Alignment explanation
Indices: 10241496--10241537 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
10241486 TAAATATTAA
*
10241496 TATTATAAATTTTTAAAATTTT
1 TATTATAAATTTATAAAATTTT
10241518 TATTAT-AATTTAT-AAATTTT
1 TATTATAAATTTATAAAATTTT
10241538 AATGTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATAAATTTATAAAATTTT
Found at i:10242583 original size:27 final size:28
Alignment explanation
Indices: 10242530--10242595 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
10242520 ATTTTTATTA
* *
10242530 TAATATAATTAAATTTAAATATTAATTT
1 TAATAAAATTAAATTTAAATATAAATTT
10242558 TAATAAAATTAAA-TTAACATA-AAATTT
1 TAATAAAATTAAATTTAA-ATATAAATTT
**
10242585 TGTTAAAATTA
1 TAATAAAATTA
10242596 TTTTTCAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 18 0.55
28 15 0.45
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
TAATAAAATTAAATTTAAATATAAATTT
Found at i:10249009 original size:39 final size:39
Alignment explanation
Indices: 10248954--10249031 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
10248944 GAAAACCAAA
10248954 AACAAAAAGAAAATCTATTATTGTAGTTCCTATCCCATT
1 AACAAAAAGAAAATCTATTATTGTAGTTCCTATCCCATT
*
10248993 AACAAAAAGAACATCTATTATTGTAGTTCCTATCCCATT
1 AACAAAAAGAAAATCTATTATTGTAGTTCCTATCCCATT
10249032 TTTCTAAGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (39 bp):
AACAAAAAGAAAATCTATTATTGTAGTTCCTATCCCATT
Found at i:10254835 original size:2 final size:2
Alignment explanation
Indices: 10254828--10254852 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10254818 AATTACATAA
10254828 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 A
10254853 AACATTACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10258056 original size:22 final size:22
Alignment explanation
Indices: 10258013--10258066 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
10258003 ATATATATTT
*
10258013 AATAA-ATAAATTTTTTTGTTA
1 AATAATATAAATTTTATTGTTA
10258034 AATAATATAAATTATTATT-TTA
1 AATAATATAAATT-TTATTGTTA
10258056 AATTAAT-TAAA
1 AA-TAATATAAA
10258067 ATTAATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.17
22 16 0.55
23 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AATAATATAAATTTTATTGTTA
Found at i:10258106 original size:18 final size:18
Alignment explanation
Indices: 10258072--10258106 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10258062 TTAAAATTAA
* *
10258072 TATATCTTTATTAAAAAT
1 TATATATTTATAAAAAAT
10258090 TATATATTTATAAAAAA
1 TATATATTTATAAAAAA
10258107 ATTACTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TATATATTTATAAAAAAT
Found at i:10262902 original size:39 final size:39
Alignment explanation
Indices: 10262851--10262972 Score: 156
Period size: 39 Copynumber: 3.1 Consensus size: 39
10262841 ACACTTCTCC
* * *
10262851 AACTCCCCTTCAAGTCCGAAACATCTAACCAGATTCC-CA
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAGA-TCCTCA
* *
10262890 AAGTCCGTTTCAAGTCCAAAACATCCAACCAGATCCTCA
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAGATCCTCA
**
10262929 AACTCCCTTTCAAGTCCAAAACATCCAATTAGATCCTCCA
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAGATCCT-CA
10262969 AACT
1 AACT
10262973 TGAAGTCTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
38 3 0.04
39 63 0.88
40 6 0.08
ACGTcount: A:0.35, C:0.35, G:0.07, T:0.22
Consensus pattern (39 bp):
AACTCCCTTTCAAGTCCAAAACATCCAACCAGATCCTCA
Found at i:10264368 original size:98 final size:98
Alignment explanation
Indices: 10264199--10264395 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
10264189 CCAGAGATCG
10264199 ATTTTTCGGTTAGCATGGTAAGCAGATTCATGAACAACCCAACTAAGGAACACTTAAGGGCTATG
1 ATTTTTCGGTTAGCATGGTAAGCAGATTCATGAACAACCCAACTAAGGAACACTTAAGGGCTATG
10264264 CATCCAATCTTACAGTACCTAAATAAGAGTCCT
66 CATCCAATCTTACAGTACCTAAATAAGAGTCCT
*
10264297 ATTTTTCGGTTAGCATGGTAAGCAGATTCATGAACAACCCAACTAAGGAACACTTAAGGGCTGTG
1 ATTTTTCGGTTAGCATGGTAAGCAGATTCATGAACAACCCAACTAAGGAACACTTAAGGGCTATG
10264362 CATCCAATCTTACAGTACCTAAATAAGAGTCCT
66 CATCCAATCTTACAGTACCTAAATAAGAGTCCT
10264395 A
1 A
10264396 GTAAAGTGTT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (98 bp):
ATTTTTCGGTTAGCATGGTAAGCAGATTCATGAACAACCCAACTAAGGAACACTTAAGGGCTATG
CATCCAATCTTACAGTACCTAAATAAGAGTCCT
Found at i:10268755 original size:12 final size:12
Alignment explanation
Indices: 10268738--10268770 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
10268728 GATGTGACAT
10268738 AAATATTTAATA
1 AAATATTTAATA
10268750 AAATATTTAATA
1 AAATATTTAATA
10268762 AAATATTTA
1 AAATATTTA
10268771 TACGTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATATTTAATA
Found at i:10268921 original size:36 final size:35
Alignment explanation
Indices: 10268829--10268921 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 35
10268819 AATATTTAAA
10268829 AAAAATTT-AAAAATTAAAAATCTAAAATACTTTG
1 AAAAATTTAAAAAATTAAAAATCTAAAATACTTTG
* * * *
10268863 AAAAACTTATAAAAAATAAAAAAT-TGAAATATTTTTT
1 AAAAA-TT-TAAAAAATTAAAAATCTAAAATA-CTTTG
10268900 AAAAATTTAAAAACATTAAAAA
1 AAAAATTTAAAAA-ATTAAAAA
10268922 AAACCTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
34 5 0.10
35 8 0.16
36 16 0.33
37 20 0.41
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (35 bp):
AAAAATTTAAAAAATTAAAAATCTAAAATACTTTG
Found at i:10268972 original size:20 final size:19
Alignment explanation
Indices: 10268947--10268999 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
10268937 AAAATACCTC
* *
10268947 AAAATTTCCATAAAAGTATG
1 AAAATTTCCAAAAAAAT-TG
10268967 AAAATTT-CAAAAAAATTG
1 AAAATTTCCAAAAAAATTG
10268985 AAAATTT-CAAAAAAA
1 AAAATTTCCAAAAAAA
10269000 AATAAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 17 0.55
19 7 0.23
20 7 0.23
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.26
Consensus pattern (19 bp):
AAAATTTCCAAAAAAATTG
Found at i:10269006 original size:18 final size:18
Alignment explanation
Indices: 10268967--10269027 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
10268957 TAAAAGTATG
*
10268967 AAAATTTC-AAAAAAATT
1 AAAATTTCAAAAAAAAAT
10268984 GAAAATTTCAAAAAAAAAT
1 -AAAATTTCAAAAAAAAAT
*
10269003 AAAAGTTT-AAATAAAAAT
1 AAAA-TTTCAAAAAAAAAT
10269021 AAAATTT
1 AAAATTT
10269028 TCTTTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.08
18 25 0.64
19 11 0.28
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATTTCAAAAAAAAAT
Found at i:10269109 original size:20 final size:20
Alignment explanation
Indices: 10269077--10269139 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
10269067 TATCAAAATT
10269077 AAAAAATCT-AAAATTTTTA
1 AAAAAATCTAAAAATTTTTA
10269096 AAAAAATCTAAAAATTTTTA
1 AAAAAATCTAAAAATTTTTA
* * * *
10269116 AATAATTGTAAAAAATTTTA
1 AAAAAATCTAAAAATTTTTA
10269136 AAAA
1 AAAA
10269140 TCTAATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 9 0.24
20 29 0.76
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAAATCTAAAAATTTTTA
Found at i:10269285 original size:8 final size:9
Alignment explanation
Indices: 10269229--10269296 Score: 70
Period size: 8 Copynumber: 7.6 Consensus size: 9
10269219 TTCAGCAAAA
10269229 TTTT-TAAT
1 TTTTATAAT
10269237 TTTTATAAT
1 TTTTATAAT
10269246 TTTTATAAT
1 TTTTATAAT
10269255 GTTTTATGAAT
1 -TTTTAT-AAT
*
10269266 TTTGA-AAT
1 TTTTATAAT
10269274 TTTT-TAAT
1 TTTTATAAT
*
10269282 TTTTCAAAAT
1 TTTT-ATAAT
10269292 TTTTA
1 TTTTA
10269297 AAAAATTATC
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
8 17 0.33
9 14 0.27
10 17 0.33
11 3 0.06
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10269299 original size:9 final size:9
Alignment explanation
Indices: 10269225--10269299 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
10269215 ATTTTTCAGC
10269225 AAAATTTTT
1 AAAATTTTT
10269234 --AATTTTT
1 AAAATTTTT
*
10269241 ATAATTTTT
1 AAAATTTTT
*
10269250 ATAATGTTTT
1 AAAAT-TTTT
*
10269260 ATGAA-TTTT
1 A-AAATTTTT
*
10269269 GAAATTTTT
1 AAAATTTTT
*
10269278 -TAATTTTT
1 AAAATTTTT
10269286 CAAAATTTTT
1 -AAAATTTTT
10269296 AAAA
1 AAAA
10269300 AATTATCAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
7 7 0.13
8 9 0.17
9 24 0.44
10 12 0.22
11 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (9 bp):
AAAATTTTT
Found at i:10269335 original size:21 final size:21
Alignment explanation
Indices: 10269290--10269338 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10269280 ATTTTTCAAA
10269290 ATTTTTAAAAAATTATCAGAT
1 ATTTTTAAAAAATTATCAGAT
* *
10269311 -TTTTTCAAAAAATT-TTATAT
1 ATTTTT-AAAAAATTATCAGAT
10269331 ATTTTTAA
1 ATTTTTAA
10269339 TTTTGAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTTTAAAAAATTATCAGAT
Found at i:10269495 original size:10 final size:10
Alignment explanation
Indices: 10269448--10269505 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
10269438 AAGATTTTCA
*
10269448 TTTTTTCAAT
1 TTTTTTAAAT
*
10269458 TTTTTTGAAT
1 TTTTTTAAAT
*
10269468 TTTTTT-AGT
1 TTTTTTAAAT
**
10269477 TTTCATAAAT
1 TTTTTTAAAT
10269487 TTTTTTAAAAT
1 TTTTTT-AAAT
10269498 TTTTTTAA
1 TTTTTTAA
10269506 CTTAAAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 6 0.15
10 23 0.59
11 10 0.26
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:10269583 original size:10 final size:10
Alignment explanation
Indices: 10269536--10269610 Score: 64
Period size: 10 Copynumber: 7.6 Consensus size: 10
10269526 TTAATTTTAT
*
10269536 AATTTTTTAA
1 AATTTTTAAA
*
10269546 AATATTTCAAA
1 AAT-TTTTAAA
* *
10269557 AGTTTTGAAA
1 AATTTTTAAA
10269567 AATTTTTAAA
1 AATTTTTAAA
*
10269577 AATTTTT-AG
1 AATTTTTAAA
10269586 AATTTTT-AA
1 AATTTTTAAA
* *
10269595 ATTTTTTTAA
1 AATTTTTAAA
10269605 AATTTT
1 AATTTT
10269611 ATTTTAATGC
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
9 15 0.28
10 31 0.58
11 7 0.13
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:10269589 original size:19 final size:19
Alignment explanation
Indices: 10269539--10269610 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
10269529 ATTTTATAAT
* *
10269539 TTTTTAAAATATTTCAAAAG
1 TTTTTAAAAT-TTTTAAAAA
*
10269559 TTTTGAAAAATTTTTAAAAA
1 TTTT-TAAAATTTTTAAAAA
* **
10269579 TTTTTAGAATTTTTAAATT
1 TTTTTAAAATTTTTAAAAA
10269598 TTTTTAAAATTTT
1 TTTTTAAAATTTT
10269611 ATTTTAATGC
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
19 23 0.53
20 15 0.35
21 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTTAAAATTTTTAAAAA
Found at i:10270356 original size:11 final size:11
Alignment explanation
Indices: 10270342--10270380 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10270332 TTTATAAATT
10270342 ATTTAAATTTA
1 ATTTAAATTTA
**
10270353 ATTTAAATAAA
1 ATTTAAATTTA
*
10270364 ATTTTAATTTA
1 ATTTAAATTTA
10270375 ATTTAA
1 ATTTAA
10270381 TTATTATTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:10270496 original size:24 final size:25
Alignment explanation
Indices: 10270469--10270523 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
10270459 GTTATTTATG
* * *
10270469 AATTTAATTAAAT-TTTTATATTTT
1 AATTTAATAAAATATTTTAAATTTA
10270493 AA-TTAATAAAATATTTTAAATTTA
1 AATTTAATAAAATATTTTAAATTTA
10270517 AATTTAA
1 AATTTAA
10270524 ATATAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 9 0.35
24 13 0.50
25 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AATTTAATAAAATATTTTAAATTTA
Found at i:10270954 original size:23 final size:23
Alignment explanation
Indices: 10270928--10270971 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10270918 AAAATATCCC
10270928 AACCAAA-AACCATCAGCCCACGG
1 AACCAAACAACCA-CAGCCCACGG
*
10270951 AACCAAACGACCACAGCCCAC
1 AACCAAACAACCACAGCCCAC
10270972 AGATTTGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.43, C:0.43, G:0.11, T:0.02
Consensus pattern (23 bp):
AACCAAACAACCACAGCCCACGG
Found at i:10273844 original size:27 final size:27
Alignment explanation
Indices: 10273786--10273849 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
10273776 ATTTCTTTTT
* * *
10273786 TAAAAAAAAAAGGAAATAAAATATAAG
1 TAAAAAATAAAGGAAATAAAATAGAAA
* *
10273813 T-AAAAATAAATGAATTAAAATAGAAA
1 TAAAAAATAAAGGAAATAAAATAGAAA
10273839 TAAAAAATAAA
1 TAAAAAATAAA
10273850 AAGAAAATGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (27 bp):
TAAAAAATAAAGGAAATAAAATAGAAA
Found at i:10274743 original size:3 final size:3
Alignment explanation
Indices: 10274735--10274853 Score: 106
Period size: 3 Copynumber: 40.3 Consensus size: 3
10274725 AAACACAAAT
*
10274735 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ACA ATGGA ATA GA-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA -ATA ATA
* * * **
10274780 AGA A-A GTA A-A A-A AGA AGTA AGG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
10274823 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10274854 AATCTAATTG
Statistics
Matches: 99, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
2 9 0.09
3 84 0.85
4 3 0.03
5 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:10275374 original size:117 final size:116
Alignment explanation
Indices: 10275196--10275783 Score: 465
Period size: 117 Copynumber: 5.0 Consensus size: 116
10275186 AAGGTCAAGA
* * ** **
10275196 GATCGAGATC-AAATCACGAATCAAATGAAGTGATCAGGATGGAGTCGAA-GTCAAAATAGATGA
1 GATCGAGA-CGAAACCACGAGTCAAATGAAACGATCAGGACAGAGTC-AAGGTCAAAATAGATGA
* *
10275259 TCGGGATGAAACCACGAATCAAGAATAATGATCTGGACTGAGCCAAGACTAAGT
64 TCGGGATGAAACCATGAATCAAGAAAAATGATCTGGACTGAGCCAAGA-TAAGT
* * * * *
10275313 GATTGAGACGAAACCATGAGTCAAATGAAGCGA-CTATGATAGAGTCAAGGTCAAAATAGATGAT
1 GATCGAGACGAAACCACGAGTCAAATGAAACGATC-AGGACAGAGTCAAGGTCAAAATAGATGAT
** * * * * *
10275377 CAAGATGAAATCTTGAATCAAGAAAAATTATCTGGACTAAGCCAAGAGTAGGT
65 CGGGATGAAACCATGAATCAAGAAAAATGATCTGGACTGAGCCAAGA-TAAGT
* * * * * *
10275430 GATCGAGACAAAATCACGAGTCAAATGAAATGACCAGGACAGAGTTAAGGTCATAAATAAATGAT
1 GATCGAGACGAAACCACGAGTCAAATGAAACGATCAGGACAGAGTCAAGGTCA-AAATAGATGAT
* ** * * * *
10275495 CGGGATGGAACCACAAATCATA-AGAAACGATCTGAACTGAGCCAAGATCAGGT
65 CGGGATGAAACCATGAATCA-AGAAAAATGATCTGGACTGAGCCAAGAT-AAGT
* * * * * * **
10275548 GA-CAGGGATGAAACTATGAGTCAAAATAAAACGATCAGGACCGAGTTGAGGTCAAAATAGATGA
1 GATC-GAGACGAAACCACGAGTC-AAATGAAACGATCAGGACAGAGTCAAGGTCAAAATAGATGA
* * * * *
10275612 TCGGGAT-AGAACCATGAATCAAGAAGAATGATATGGACTAAGCTAAG-TTAGAT
64 TCGGGATGA-AACCATGAATCAAGAAAAATGATCTGGACTGAGCCAAGATAAG-T
* * ** *
10275665 GATCGAAACGAAACCACAAGTCAAATGAAGTGATCAGGAC-GAGTC-AGGTCAAAAATAAATGAT
1 GATCGAGACGAAACCACGAGTCAAATGAAACGATCAGGACAGAGTCAAGGTC-AAAATAGATGAT
* * * * * *
10275728 TGGGATAAAACCATGAATCATAAAAAAAGGATTTGGACTGAGCTAAGATCAAGT
65 CGGGATGAAACCATGAATCA-AGAAAAATGATCTGGACTGAGCCAAGAT-AAGT
10275782 GA
1 GA
10275784 ATGAGATGAT
Statistics
Matches: 372, Mismatches: 81, Indels: 36
0.76 0.17 0.07
Matches are distributed among these distances:
114 5 0.01
115 32 0.09
116 42 0.11
117 158 0.42
118 108 0.29
119 27 0.07
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (116 bp):
GATCGAGACGAAACCACGAGTCAAATGAAACGATCAGGACAGAGTCAAGGTCAAAATAGATGATC
GGGATGAAACCATGAATCAAGAAAAATGATCTGGACTGAGCCAAGATAAGT
Found at i:10275670 original size:235 final size:232
Alignment explanation
Indices: 10275196--10275783 Score: 589
Period size: 235 Copynumber: 2.5 Consensus size: 232
10275186 AAGGTCAAGA
* * * *
10275196 GATCGAGATCAAATCACGAATCAAATGAAGTGATCAGGATGGAGTCGAA-GTCAAAATAGATGAT
1 GATCGAGA-CAAATCACGAGTCAAATGAAGTGATCAGGA-CGAGT-TAAGGTCAAAATAAATGAT
* **
10275260 CGGGATGAAACCACGAATC--AAGAATAATGATCTGGACTGAGCCAAGA-CTAAGTGATTGAGAC
63 CGGGATGAAACCACGAATCATAAG-A-AACGATCTGGACTGAGCCAAGATC-AAGTGACAGAGAC
* * * *
10275322 GAAACCATGAGTCAAATGAAGCGACTATGATAGAGTCAAGGTCAAAATAGATGATCAAGATGAAA
125 GAAACCATGAGTCAAATAAAACGACTAGGACAGAGTCAAGGTCAAAATAGATGATCAAGATGAAA
* * * * *
10275387 TCTTGAATCAAGAAAAATTATCTGGACTAAGCCAAGAGTAGGT
190 CCATGAATCAAGAAAAATGATATGGACTAAGCCAAGAGTAGAT
* *
10275430 GATCGAGACAAAATCACGAGTCAAATGAAATGACCAGGACAGAGTTAAGGTCATAAATAAATGAT
1 GATCGAGAC-AAATCACGAGTCAAATGAAGTGATCAGGAC-GAGTTAAGGTCA-AAATAAATGAT
* * * * * *
10275495 CGGGATGGAACCACAAATCATAAGAAACGATCTGAACTGAGCCAAGATCAGGTGACAGGGATGAA
63 CGGGATGAAACCACGAATCATAAGAAACGATCTGGACTGAGCCAAGATCAAGTGACAGAGACGAA
* * ** **
10275560 ACTATGAGTCAAAATAAAACGA-TCAGGACCGAGTTGAGGTCAAAATAGATGATCGGGAT-AGAA
128 ACCATGAGTC-AAATAAAACGACT-AGGACAGAGTCAAGGTCAAAATAGATGATCAAGATGA-AA
* * *
10275623 CCATGAATCAAGAAGAATGATATGGACTAAGCTAAG-TTAGAT
190 CCATGAATCAAGAAAAATGATATGGACTAAGCCAAGAGTAGAT
* * * * *
10275665 GATCGAAACGAAACCACAAGTCAAATGAAGTGATCAGGACGAG-TCAGGTCAAAAATAAATGATT
1 GATCGAGAC-AAATCACGAGTCAAATGAAGTGATCAGGACGAGTTAAGGTC-AAAATAAATGATC
* * * * * *
10275729 GGGATAAAACCATGAATCATAAAAAAAGGATTTGGACTGAGCTAAGATCAAGTGA
64 GGGATGAAACCACGAATCAT-AAGAAACGATCTGGACTGAGCCAAGATCAAGTGA
10275784 ATGAGATGAT
Statistics
Matches: 291, Mismatches: 51, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
233 36 0.12
234 74 0.25
235 107 0.37
236 71 0.24
237 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (232 bp):
GATCGAGACAAATCACGAGTCAAATGAAGTGATCAGGACGAGTTAAGGTCAAAATAAATGATCGG
GATGAAACCACGAATCATAAGAAACGATCTGGACTGAGCCAAGATCAAGTGACAGAGACGAAACC
ATGAGTCAAATAAAACGACTAGGACAGAGTCAAGGTCAAAATAGATGATCAAGATGAAACCATGA
ATCAAGAAAAATGATATGGACTAAGCCAAGAGTAGAT
Found at i:10287182 original size:25 final size:25
Alignment explanation
Indices: 10287145--10287193 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10287135 CCAAACCCAA
*
10287145 AAAAACCCAAAAAAATTCCAAAAAG
1 AAAAACCCAAAAAAATTCAAAAAAG
* *
10287170 AAAAATCCTAAAAAATTCAAAAAA
1 AAAAACCCAAAAAAATTCAAAAAA
10287194 ATTCCTAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.69, C:0.16, G:0.02, T:0.12
Consensus pattern (25 bp):
AAAAACCCAAAAAAATTCAAAAAAG
Found at i:10289541 original size:13 final size:13
Alignment explanation
Indices: 10289523--10289547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10289513 TTTATTATTG
10289523 AATATTTGATTTC
1 AATATTTGATTTC
10289536 AATATTTGATTT
1 AATATTTGATTT
10289548 AAGATTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
AATATTTGATTTC
Found at i:10289942 original size:126 final size:122
Alignment explanation
Indices: 10289756--10290150 Score: 325
Period size: 126 Copynumber: 3.2 Consensus size: 122
10289746 CATTTTTTAT
* * ** * * * *
10289756 TAAAAACACTTTCAATAAT-TCTGTCATAAATTTTTATTATATGATTACTGAAGATTTTTTTTGT
1 TAAAAACACCTTCAATAATATCT-T-ATAAATTTTTATAACGTGATTACTCAAGGTATTTTTAGT
* * *
10289820 CAAAAAATGTCTTGAATTATCTTTAAAAAAAATTTTAATGACATTATTGAAGGAATTTATG-A
64 C-AAAAAT-ACTTGAATAATC-TTAAAAAAAATTTTAATGACATTATTGAAGGTATTTA-GCA
* * *
10289882 TAAAAATACCTTCAATAATCATCTTATAAATTTTTATAAGGTGATTACTCAAGGTATTTTTAGAC
1 TAAAAACACCTTCAATAAT-ATCTTATAAATTTTTATAACGTGATTACTCAAGGTATTTTTAGTC
* * * *
10289947 AAAAATACTTTGAATAATCTT-GAAAAAATTTTGAA-GACGGTTATTAAAAGCGTTTTTAGCA
65 AAAAATAC-TTGAATAATCTTAAAAAAAATTTT-AATGAC-ATTATT-GAAG-GTATTTAGCA
* * * * * * *
10290008 AAAAAACACCTTCAATAATTATGTCATAAATTTTTATGACGTGATTACTTAAGGCATTTTTCGTC
1 TAAAAACACCTTCAATAA-TATCTTATAAATTTTTATAACGTGATTACTCAAGGTATTTTTAGTC
* * **
10290073 AAAAATACCTT-AATAATCTAAAAAAAAAATTTAATGGGATTATTGAAGGTATTTTTAGC-
65 AAAAATA-CTTGAATAATCTTAAAAAAAATTTTAATGACATTATTGAAGGTA--TTTAGCA
* *
10290132 CAAAAACACCTTTAATAAT
1 TAAAAACACCTTCAATAAT
10290151 CCCCAAAAAA
Statistics
Matches: 218, Mismatches: 37, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
123 16 0.07
124 29 0.13
125 40 0.18
126 127 0.58
127 3 0.01
128 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (122 bp):
TAAAAACACCTTCAATAATATCTTATAAATTTTTATAACGTGATTACTCAAGGTATTTTTAGTCA
AAAATACTTGAATAATCTTAAAAAAAATTTTAATGACATTATTGAAGGTATTTAGCA
Found at i:10289951 original size:64 final size:63
Alignment explanation
Indices: 10289883--10290625 Score: 170
Period size: 62 Copynumber: 11.8 Consensus size: 63
10289873 AATTTATGAT
* * *
10289883 AAAAATACCTTCAATAATCATCTTATAAATTTTTATAAGGTGATTACTCAAGGTATTTTTAGAC
1 AAAAATACCTTCAATAATCAT-TCATAAATTTTTATAAGGTGATTACTAAAGGCATTTTTAGAC
* * * * * * ** * * * * *
10289947 AAAAATACTTTGAATAATC-TTGAAAAAATTTT-GAAGACGGTTATTAAAAGCGTTTTTAGCAA
1 AAAAATACCTTCAATAATCATTCATAAATTTTTATAAGGTGATTACTAAAGGCATTTTTAG-AC
* * * * * * *
10290009 AAAAACACCTTCAATAATTATGTCATAAATTTTTATGACGTGATTACTTAAGGCATTTTTCGTC
1 AAAAATACCTTCAATAATCAT-TCATAAATTTTTATAAGGTGATTACTAAAGGCATTTTTAGAC
** * ** * * * * *
10290073 AAAAATACCTT-AATAATC-TAAAAAAAAAATTTA-ATGG-GATTATTGAAGGTATTTTTAGCC
1 AAAAATACCTTCAATAATCAT-TCATAAATTTTTATAAGGTGATTACTAAAGGCATTTTTAGAC
* * ** * * * * *
10290133 AAAAACACCTTTAATAATC-CCCAAAAAAATTTTTAATAA--TG-TTATTGAAGACATTTCTAGT
1 AAAAATACCTTCAATAATCATTC--ATAAATTTTT-ATAAGGTGATTACTAAAGGCATTTTTAG-
10290194 A-
62 AC
* * * * * *
10290195 AAAAATACTTTCAATAATCCAGTCATAAATTTTTATGAA-GTGATTACTCAAGACCTTTTT-GAA
1 AAAAATACCTTCAATAAT-CATTCATAAATTTTTAT-AAGGTGATTACTAAAGGCATTTTTAGAC
* * * * * * * * * * * *
10290258 AAAAATGCCTTGAATAAT-TTTGAAAAATTTTTTTAAGGCGGTTATTAAATGCGTTTCTAG-C
1 AAAAATACCTTCAATAATCATTCATAAATTTTTATAAGGTGATTACTAAAGGCATTTTTAGAC
* * * * ** * *
10290319 AAAAAATGCATTTAATAATTTCA-TCATAAATTTTTATGACATGATTACTTAAGGCATTTTTCGT
1 -AAAAATACCTTCAATAA--TCATTCATAAATTTTTATAAGGTGATTACTAAAGGCATTTTTAG-
*
10290383 CC
62 AC
* * * * * * * * * *
10290385 AAAAATGA-CTTGAATTATC-TTTAAAAATTTTTTTAATG-GAGTTATTGAAGGCGTTTTTAG-T
1 AAAAAT-ACCTTCAATAATCATTCATAAATTTTTATAAGGTGA-TTACTAAAGGCATTTTTAGAC
* * * * * * *
10290446 AAAAA-ACGTTTTCAATAATCCTTTTATAAATTTTTATGAA-ATGATTACTCAATGCGTTTTT-G
1 AAAAATAC--CTTCAATAAT-CATTCATAAATTTTTAT-AAGGTGATTACTAAAGGCATTTTTAG
*
10290508 TCC
62 -AC
* * * **** * * * * *
10290511 AAATATGCCTTAAATAATCCCGAAAAAAATTTTTA-ATGG-GATTATTAAAGGTATTTCTAGTA-
1 AAAAATACCTTCAATAAT-CATTCATAAATTTTTATAAGGTGATTACTAAAGGCATTTTTAG-AC
* *
10290573 AAAAATACCTTCAATAATTCAATCATAAATTTTTATAAGGTAATTACTTAAAG
1 AAAAATACCTTCAATAA-TCATTCATAAATTTTTATAAGGTGATTAC-TAAAG
10290626 CGTTTTTGTT
Statistics
Matches: 475, Mismatches: 160, Indels: 87
0.66 0.22 0.12
Matches are distributed among these distances:
59 1 0.00
60 30 0.06
61 57 0.12
62 149 0.31
63 66 0.14
64 129 0.27
65 41 0.09
66 2 0.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (63 bp):
AAAAATACCTTCAATAATCATTCATAAATTTTTATAAGGTGATTACTAAAGGCATTTTTAGAC
Found at i:10290088 original size:63 final size:63
Alignment explanation
Indices: 10289883--10290089 Score: 165
Period size: 63 Copynumber: 3.3 Consensus size: 63
10289873 AATTTATGAT
* * * * * * *
10289883 AAAAATACCTTCAATAATCATCTTATAAATTTTTATAAGGTGATTACTCAAGGTATTTTTAGAC
1 AAAAATACCTTCAATAATTATGTAATAAATTTTTATGACGTGATTACTTAAGGCATTTTTAG-C
* * * * * * *
10289947 AAAAATACTTTGAATAATCT-TG-AAAAAATTTTGAAGACG-G-TTA-TTAAAAGCGTTTTTAGC
1 AAAAATACCTTCAATAAT-TATGTAATAAATTTTTATGACGTGATTACTT-AAGGCATTTTTAGC
* * *
10290007 AAAAAAACACCTTCAATAATTATGTCATAAATTTTTATGACGTGATTACTTAAGGCATTTTTCGT
1 --AAAAATACCTTCAATAATTATGTAATAAATTTTTATGACGTGATTACTTAAGGCATTTTTAG-
10290072 C
63 C
10290073 AAAAATACCTT-AATAAT
1 AAAAATACCTTCAATAAT
10290090 CTAAAAAAAA
Statistics
Matches: 108, Mismatches: 25, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
60 2 0.02
61 14 0.13
62 18 0.17
63 30 0.28
64 28 0.26
65 13 0.12
66 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (63 bp):
AAAAATACCTTCAATAATTATGTAATAAATTTTTATGACGTGATTACTTAAGGCATTTTTAGC
Found at i:10290450 original size:127 final size:123
Alignment explanation
Indices: 10290157--10290608 Score: 419
Period size: 126 Copynumber: 3.6 Consensus size: 123
10290147 TAATCCCCAA
* * * *
10290157 AAAAATTTTTAATAAT--GTTATTGAAGACATTTCTAGTAAAAAATACTTTCAATAATCCAGTCA
1 AAAAATTTTT-TTAATGGGTTATTAAAGGCATTTCTAGTAAAAAATACTTTCAATAATTCA-TCA
* * **
10290220 TAAATTTTTATGAAGTGATTACTCAAGACCTTTTTG-AAAAAAATGCCTTGAATAAT-TTT
64 TAAATTTTTATGAA-TGATTACTCAAGGCATTTTTGTCCAAAAATGCCTTGAATAATCTTT
* * * * *
10290279 GAAAAATTTTTTTAAGGCGGTTATTAAATGCGTTTCTAGCAAAAAATGCATTT-AATAATTTCAT
1 -AAAAATTTTTTTAATG-GGTTATTAAAGGCATTTCTAGTAAAAAATAC-TTTCAATAA-TTCAT
* * *
10290343 CATAAATTTTTATGACATGATTACTTAAGGCATTTTTCGTCCAAAAATGACTTGAATTATCTTT
62 CATAAATTTTTATGA-ATGATTACTCAAGGCATTTTT-GTCCAAAAATGCCTTGAATAATCTTT
* * * *** * * *
10290407 AAAAATTTTTTTAATGGAGTTATTGAAGGCGTTTTTAGTAAAAAACGTTTTCAATAATCCTTTTA
1 AAAAATTTTTTTAATGG-GTTATTAAAGGCATTTCTAGTAAAAAATACTTTCAATAATTC-ATCA
* * * * ***
10290472 TAAATTTTTATGAAATGATTACTCAATGCGTTTTTGTCCAAATATGCCTTAAATAATCCCG
64 TAAATTTTTATG-AATGATTACTCAAGGCATTTTTGTCCAAAAATGCCTTGAATAATCTTT
** * *
10290533 AAAAAAATTTTTAATGGGATTATTAAAGGTATTTCTAGTAAAAAATACCTTCAATAATTCAATCA
1 AAAAATTTTTTTAATGGG-TTATTAAAGGCATTTCTAGTAAAAAATACTTTCAATAATTC-ATCA
10290598 TAAATTTTTAT
64 TAAATTTTTAT
10290609 AAGGTAATTA
Statistics
Matches: 265, Mismatches: 50, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
122 3 0.01
123 10 0.04
125 63 0.24
126 93 0.35
127 92 0.35
128 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (123 bp):
AAAAATTTTTTTAATGGGTTATTAAAGGCATTTCTAGTAAAAAATACTTTCAATAATTCATCATA
AATTTTTATGAATGATTACTCAAGGCATTTTTGTCCAAAAATGCCTTGAATAATCTTT
Found at i:10290601 original size:126 final size:125
Alignment explanation
Indices: 10290131--10290634 Score: 401
Period size: 126 Copynumber: 4.0 Consensus size: 125
10290121 GTATTTTTAG
** * * ** * *
10290131 CCAAAAACACCTTTAATAATCCCCAAAAAAATTTTTAATAATG-TTATTGAAGACATTTCTAGTA
1 CCAAAAATGCCTTGAATAATCCCGAAAAAAATTTTTAAT-GGGATTATTAAAGGCATTTCTAGTA
* * *
10290195 AAAAATACTTTCAATAATCCAGTCATAAATTTTTATGAAGTGATTACTCAAGACCTTTTTG-
65 AAAAATACTTTCAATAATCCAATCATAAATTTTTATGAAATGATTACTCAAG-CGTTTTTGT
** *** ** * * * *
10290256 AAAAAAATGCCTTGAATAATTTTGAAAAATTTTTTTAA-GGCGGTTATTAAATGCGTTTCTAGCA
1 CCAAAAATGCCTTGAATAATCCCGAAAAAAATTTTTAATGG-GATTATTAAAGGCATTTCTAGTA
* * * * *
10290320 AAAAATGCATTT-AATAATTTC-ATCATAAATTTTTATGACATGATTACTTAAGGCATTTTTCGT
65 AAAAATAC-TTTCAATAA-TCCAATCATAAATTTTTATGAAATGATTACTCAA-GCGTTTTT-GT
* * *** ** * * *
10290383 CCAAAAATGACTTGAATTATCTTTAAAAATTTTTTTAAT-GGAGTTATTGAAGGCGTTTTTAGTA
1 CCAAAAATGCCTTGAATAATCCCGAAAAAAATTTTTAATGGGA-TTATTAAAGGCATTTCTAGTA
*** ** *
10290447 AAAAACGTTTTCAATAATCCTTTTATAAATTTTTATGAAATGATTACTCAATGCGTTTTTGT
65 AAAAATACTTTCAATAATCCAATCATAAATTTTTATGAAATGATTACTCAA-GCGTTTTTGT
* * *
10290509 CCAAATATGCCTTAAATAATCCCGAAAAAAATTTTTAATGGGATTATTAAAGGTATTTCTAGTAA
1 CCAAAAATGCCTTGAATAATCCCGAAAAAAATTTTTAATGGGATTATTAAAGGCATTTCTAGTAA
* * * * *
10290574 AAAATACCTTCAATAATTCAATCATAAATTTTTAT-AAGGTAATTACTTAAAGCGTTTTTGT
66 AAAATACTTTCAATAATCCAATCATAAATTTTTATGAA-ATGATTAC-TCAAGCGTTTTTGT
10290635 TGGACAAAAA
Statistics
Matches: 296, Mismatches: 69, Indels: 27
0.76 0.18 0.07
Matches are distributed among these distances:
124 1 0.00
125 89 0.30
126 106 0.36
127 100 0.34
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (125 bp):
CCAAAAATGCCTTGAATAATCCCGAAAAAAATTTTTAATGGGATTATTAAAGGCATTTCTAGTAA
AAAATACTTTCAATAATCCAATCATAAATTTTTATGAAATGATTACTCAAGCGTTTTTGT
Found at i:10290877 original size:127 final size:125
Alignment explanation
Indices: 10290651--10290983 Score: 324
Period size: 127 Copynumber: 2.6 Consensus size: 125
10290641 AAAACGCAAA
* * * * *
10290651 CAAAAATACCTTAAATAATCTAAAAAAAAATTTT-TTAAGCAGTTATTAAA-AGCGTTCATGGA-
1 CAAAAATATCTTGAATAATCTAAAAAAAAATTTTAAT-AG-AGTTATTAAAGA-CGTT-TTTGAC
* * * *
10290713 AAAAAACACATTTAATAATCCTATCATAAAATTTTATGACATGATTA-TTCAAAATAT-TTTTTT
62 CAAAAACACATTCAATAATCCTATCATAAAATTTTATGACATAATTACTT---AATATGTTTTTC
10290776 GT
124 GT
10290778 CAAAAATATCTTGAATAATCTCAAAAAAAAATTTTAATAGAGTTATTAAAGACGTTTTTGACCAA
1 CAAAAATATCTTGAATAATCT-AAAAAAAAATTTTAATAGAGTTATTAAAGACGTTTTTGACCAA
* * * * *
10290843 AAATACATTCGATAATCTCT-TCATAAATTTTTATGATATAATTACTTAATGTGTTTTTCGT
65 AAACACATTCAATAATC-CTATCATAAAATTTTATGACATAATTACTTAATATGTTTTTCGT
* * ** *
10290904 TAAAAATATCTTGAATAATCTTAAATGAAATTTTAATAAAGTTATTGAAAGTA--TTTTTGACCA
1 CAAAAATATCTTGAATAATCTAAAAAAAAATTTTAATAGAGTTATT-AAAG-ACGTTTTTGACCA
10290967 AAAACACCA-TCAATAAT
64 AAAACA-CATTCAATAAT
10290984 GTCTTTAATA
Statistics
Matches: 175, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
125 47 0.27
126 36 0.21
127 71 0.41
128 20 0.11
129 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (125 bp):
CAAAAATATCTTGAATAATCTAAAAAAAAATTTTAATAGAGTTATTAAAGACGTTTTTGACCAAA
AACACATTCAATAATCCTATCATAAAATTTTATGACATAATTACTTAATATGTTTTTCGT
Found at i:10291187 original size:2 final size:2
Alignment explanation
Indices: 10291180--10291220 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10291170 TACTACTAAG
10291180 AT AT AT AT AT 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 AT AT AT AT AT A
10291221 AAGAAAACAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10294534 original size:86 final size:86
Alignment explanation
Indices: 10294385--10294557 Score: 310
Period size: 86 Copynumber: 2.0 Consensus size: 86
10294375 AAAAAAAAAG
10294385 ATTGCTACATTGCACAGCCAAGGACTACCGTCTGTCTGACGTCAAAATTGCAGTTCAACATGATA
1 ATTGCTACATTGCACAGCCAAGGACTACCGTCTGTCTGACGTCAAAATTGCAGTTCAACATGATA
*
10294450 TGAGTTAATCGGAAATTATTA
66 TAAGTTAATCGGAAATTATTA
* * *
10294471 ATTGCTACATTGCATAGCCAAGGACTACTGTCTGTCTGACGTCAAAATTGCAGTTCAATATGATA
1 ATTGCTACATTGCACAGCCAAGGACTACCGTCTGTCTGACGTCAAAATTGCAGTTCAACATGATA
10294536 TAAGTTAATCGGAAATTATTA
66 TAAGTTAATCGGAAATTATTA
10294557 A
1 A
10294558 CAAAACGAAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (86 bp):
ATTGCTACATTGCACAGCCAAGGACTACCGTCTGTCTGACGTCAAAATTGCAGTTCAACATGATA
TAAGTTAATCGGAAATTATTA
Found at i:10295668 original size:22 final size:22
Alignment explanation
Indices: 10295654--10295696 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10295644 TATATATTTA
10295654 TACTTGTATTCCTATAATTAAG
1 TACTTGTATTCCTATAATTAAG
* * *
10295676 TATTTGTATTCTTAAAATTAA
1 TACTTGTATTCCTATAATTAA
10295697 AGACAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
TACTTGTATTCCTATAATTAAG
Found at i:10297155 original size:18 final size:18
Alignment explanation
Indices: 10297129--10297163 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10297119 GGATATGTTC
*
10297129 TTTAGGTAAGGTTTCTAG
1 TTTAAGTAAGGTTTCTAG
*
10297147 TTTAAGTAATGTTTCTA
1 TTTAAGTAAGGTTTCTA
10297164 ATTCTCATGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAAGTAAGGTTTCTAG
Found at i:10297380 original size:12 final size:12
Alignment explanation
Indices: 10297363--10297393 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10297353 ATCCATCGTT
10297363 TGTTCTTAAAAA
1 TGTTCTTAAAAA
10297375 TGTTCTTAAAAA
1 TGTTCTTAAAAA
*
10297387 TATTCTT
1 TGTTCTT
10297394 CATGTTCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (12 bp):
TGTTCTTAAAAA
Found at i:10300141 original size:22 final size:22
Alignment explanation
Indices: 10300115--10300169 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
10300105 CTGTATATTT
10300115 ATATTTGTATCTTTACAATTAA
1 ATATTTGTATCTTTACAATTAA
*
10300137 ATATTTGTATCTTTAGAATTAA
1 ATATTTGTATCTTTACAATTAA
10300159 ATATTTGTATC
1 ATATTTGTATC
10300170 CCTAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (22 bp):
ATATTTGTATCTTTACAATTAA
Found at i:10300178 original size:22 final size:22
Alignment explanation
Indices: 10300115--10300180 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
10300105 CTGTATATTT
*
10300115 ATATTTGTATCTTTACAATTAA
1 ATATTTGTATCTTTAAAATTAA
*
10300137 ATATTTGTATCTTTAGAATTAA
1 ATATTTGTATCTTTAAAATTAA
**
10300159 ATATTTGTATCCCTAAAATTAA
1 ATATTTGTATCTTTAAAATTAA
10300181 GGACAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (22 bp):
ATATTTGTATCTTTAAAATTAA
Found at i:10314882 original size:23 final size:25
Alignment explanation
Indices: 10314829--10314883 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
10314819 CATAAGATAT
* *
10314829 TTATTTATTTTAAAATATTTATAAA
1 TTATATATTTTAAAATATATATAAA
**
10314854 AAATATATTTTAAAAT-TAT-TAAA
1 TTATATATTTTAAAATATATATAAA
10314877 TTATATA
1 TTATATA
10314884 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 9 0.38
24 2 0.08
25 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTATATATTTTAAAATATATATAAA
Found at i:10319492 original size:202 final size:203
Alignment explanation
Indices: 10319109--10319507 Score: 538
Period size: 202 Copynumber: 2.0 Consensus size: 203
10319099 TTTTCAAAGC
* *
10319109 CCTTTAATTTTGTAAAGTCCATTCCTGTATCAATTCAATTTATTTTTCATTTAACTTAATTAGAA
1 CCTTTAACTTTGTAAAGTCCATTCCTGTATCAATTCAATTTATCTTTCATTTAACTTAATTAGAA
** ** * * * **
10319174 TTGTAATTGAAACATCAATGTCGACGCTTATACATGAGCAAGCAATATGTGAATGACATACAAGA
66 TCATAATCCAAACATAAATGTCAAAGCTTATACATGAGCAAAAAATATGTGAATGACATACAAGA
* *
10319239 AAAATCAAATTTTGACTTCAGTTTCCAAAATAAAAGGAAAAAAAAATTGCCTAAAAACAAAGTTT
131 AAAATCAAATTTTAACTTCAGTTTCCAAAATAAAAGGAAAAAAAAATTGCCTAAAAACAAAATTT
10319304 AGGTTCTT
196 AGGTTCTT
*
10319312 CCTTTAACTTTGTAAA-TCCATTCTTGTATCAATTCAATTTATCTTTCATTTAACTTAATTAGAA
1 CCTTTAACTTTGTAAAGTCCATTCCTGTATCAATTCAATTTATCTTTCATTTAACTTAATTAGAA
*
10319376 TCATAATCCAAACATAAATGTCAAAGCTTATACATGAGCAAAAAATACT-TGAATGACGGA-ATA
66 TCATAATCCAAACATAAATGTCAAAGCTTATACATGAGCAAAAAATA-TGTGAATGAC--ATACA
* * * ** *
10319439 A-AAAAATCAAATTTTAACTTCAGTTTTCAAAATGAGAA-GAAATAATGATTGCCTCAAAACAAA
128 AGAAAAATCAAATTTTAACTTCAGTTTCCAAAAT-AAAAGGAAAAAAAAATTGCCTAAAAACAAA
10319502 ATTTAG
192 ATTTAG
10319508 ATTCATATGT
Statistics
Matches: 171, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
202 148 0.87
203 22 0.13
204 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (203 bp):
CCTTTAACTTTGTAAAGTCCATTCCTGTATCAATTCAATTTATCTTTCATTTAACTTAATTAGAA
TCATAATCCAAACATAAATGTCAAAGCTTATACATGAGCAAAAAATATGTGAATGACATACAAGA
AAAATCAAATTTTAACTTCAGTTTCCAAAATAAAAGGAAAAAAAAATTGCCTAAAAACAAAATTT
AGGTTCTT
Found at i:10320367 original size:18 final size:19
Alignment explanation
Indices: 10320332--10320372 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10320322 TATTTTATTT
*
10320332 TATAAAAATTTAAAAAATA
1 TATAAAAATCTAAAAAATA
*
10320351 TATAAAAA-CTAATAAATA
1 TATAAAAATCTAAAAAATA
10320369 TATA
1 TATA
10320373 TAATTTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATCTAAAAAATA
Done.