Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 2 of 109
Found at i:139435 original size:647 final size:650
Alignment explanation
Indices: 138503--140048 Score: 1598
Period size: 647 Copynumber: 2.4 Consensus size: 650
138493 TAATCACATG
* * * * * * * *
138503 TCAATTTTTTATCATATAA-TGCAAAGGTA-ATTTTGGTAATTTCTTATGTAATTATTTAG-TAA
1 TCAATTTCTTATCATATAATTGAAAAGG-ACATTTTAGTAATTTCATAAGGAATTACTTAGCAAA
* *
138565 TAATTATAAAAGAAGGGGTATATTT-GTAATTATGATATGAATGCATAAT-TGTCAATTT-AGCC
65 TAATTATAAAAGAAGGGGTAT-TTTCGTAATTATGATATGAATGTATAATAT-TCAATTTGA-CT
* * ** *
138627 ATATGTCAATTTTTTATCATATAATGGAAAATGCATTCTAGTAATTTTTT-GAGAGATTATTTAG
127 ATATATCAATTTCTTATCATATAATGGAATGTGCATTTTAGTAATTTTTTAGAG-GATTATTTAG
* * * * *
138691 TAAATAATTATAAGAGAAGAGGTATTTT-AGTAGTTATGTTATGATGGCATAATAG-TACA-TTC
191 TAAATAATTATAAGAGAA-TGGTATTTTCA-TAATTATGATATAATGCCATAATAGTTA-ATTTC
* * * * *
138753 AGTCATATGATAATTTCTTATCATATAATGAAAAGGGTAATTTCA-TAATTTCATAAAAGATTAT
253 ACTCA-ATGACAACTTCTTATAATATAATGAAAAGGGCAATTT-AGTAATTTCATAAAAGATTAT
* * * * *
138817 TTAGTAAATAATTATAAGAGAAGGGAT-TTTTTCATAATTATGATATGAAGG-CGTAATTATCAA
316 TTACTAAATAATTATAAGAGAAGGGATATTGTT-ATAATTATGAAATG-AGGTCATAAATATCAA
* * * *
138880 GTTCACCATATGC-CAATATCCTATAATATAATGGAAATGGAATTTTGGTAAATTT-TTAAAAGA
379 GTTCACCACAT-CTCAATATCCTATAATATAATAGAAATGGAATTTTCGT-AATTTCATAAAAGA
* * * **
138943 TTATTTAGTAAATAATTATAAGATAAATGATATTTTCATAATTAT-AGTATTCGGGCATAATAAC
442 TTATTTAGTAAATAATTATAAAAGAAAAGATATTTTCATAATTATGA-TATGAGGGCATAAT-AC
* * * * * *
139007 CT-ATTTGACTACATGTCAAATTCTTATCATGTAATAGAAATGGCATTTTGGTAATTTCATAAAG
505 CTAATTTGACAACATATCAAATTATTATCATATAATAGAAAGGGCATTTTAGTAATTTCATAAAG
* *
139071 GATTATTTAGTAAATAATTATAAGAAAAGT-ATATTTTCATAATTATGGTATGAAAG-AATGATA
570 GATTATTTAGTAAATAATTATAAGAAAAGTGATATTTTCATAATTATGGCATGAAAGCAA-AATA
*
139134 GTCCATTTGGCCAAATT
634 GTCCATTTGGCCAAATA
* ** * *
139151 TTAATTTCTTATCATATAATTG-AAAGGGTATTTTATTAATTTCATAAGGGATTACTTAGCAAAT
1 TCAATTTCTTATCATATAATTGAAAAGGACATTTTAGTAATTTCATAAGGAATTACTTAGCAAAT
* * * *
139215 AATTATAAAA-AA-GGGTATTTTCGTAATTATGGTATGAAGGTAAAATATTCAATTTGACTAAAT
66 AATTATAAAAGAAGGGGTATTTTCGTAATTATGATATGAATGTATAATATTCAATTTGACTATAT
* * * * *
139278 TTTAATTTCTTATTATATAATGGAGTGTGCATTTTTGTAATTTTTTAGAGGATTATTTAGTAAAT
131 ATCAATTTCTTATCATATAATGGAATGTGCATTTTAGTAATTTTTTAGAGGATTATTTAGTAAAT
* *
139343 AATTATAAGAGATTCGGTATTTTCATAATTATGATATAATGCCATAATAGTTAATTTTACCTC-A
196 AATTATAAGAGAAT-GGTATTTTCATAATTATGATATAATGCCATAATAGTTAATTTCA-CTCAA
* * * * *
139407 TGGCAACTTCTTATAATATATTGAAAAGGGCAATTTAGTAATTTCTTGAAAGATTATTTTCTAAA
259 TGACAACTTCTTATAATATAATGAAAAGGGCAATTTAGTAATTTCATAAAAGATTATTTACTAAA
* * * * * *
139472 TAATTATAAGAGAAGGGATATTGTTGTAATTATGAAATGAGGTCATAAATGTCTATTTGATCACA
324 TAATTATAAGAGAAGGGATATTGTTATAATTATGAAATGAGGTCATAAATATCAAGTTCACCACA
* * * * *
139537 TCTCAATTTCTTATCATATAATAGAAATGGTATTTTCGTAATTTCATAAGAGATTATTTAGTAAA
389 TCTCAATATCCTATAATATAATAGAAATGGAATTTTCGTAATTTCATAAAAGATTATTTAGTAAA
* ** ***
139602 TAATTATAAAAGAAAAGGTATTTTTGTAATTATGATATGAGGGCATAATGGTTAATTTGACAACA
454 TAATTATAAAAGAAAAGATATTTTCATAATTATGATATGAGGGCATAATACCTAATTTGACAACA
* * * * *
139667 TATCAATTTATTATCATATATTATAAAGGGCATTTTAGTAATTTCTTAGAGGATTATTTAGTAAA
519 TATCAAATTATTATCATATAATAGAAAGGGCATTTTAGTAATTTCATAAAGGATTATTTAGTAAA
* * * * ** **
139732 TATTTATAAGAGAAGTGGTATTTTCGTAATTATGGCATGAGGGCAAAATAGTCCATTTGGTTAAA
584 TAATTATAAGAAAAGTGATATTTTCATAATTATGGCATGAAAGCAAAATAGTCCATTTGGCCAAA
139797 TA
649 TA
* ** * * * *
139799 TCAATTTCTTATCATATAATTGAAAATGACATTTTAGTGTTTTCTTAAGTAATTATTTAGTAAAT
1 TCAATTTCTTATCATATAATTGAAAAGGACATTTTAGTAATTTCATAAGGAATTACTTAGCAAAT
* ** * * * *
139864 AATTATAAAAGAATGAATATTTTCGTAATTACGATATAAATGTGTAATAGTCAATTTGA-TCATA
66 AATTATAAAAGAAGGGGTATTTTCGTAATTATGATATGAATGTATAATATTCAATTTGACT-ATA
* * *
139928 TATCAATTTCTTATCATATAATGGAAATGT-AATTTTGGTAATTTCTTATG-GGATTATTTAGTA
130 TATCAATTTCTTATCATATAATGG-AATGTGCATTTTAGTAATTTTTTA-GAGGATTATTTAGTA
* * * * *
139991 AATAATTATTAGGGAATGCGTATATTCGTAATTATGATATAA-GCGCATAATTGTTAAT
193 AATAATTATAAGAGAATG-GTATTTTCATAATTATGATATAATGC-CATAATAGTTAAT
140049 CTGGTCACAT
Statistics
Matches: 738, Mismatches: 131, Indels: 55
0.80 0.14 0.06
Matches are distributed among these distances:
646 14 0.02
647 397 0.54
648 122 0.17
649 60 0.08
650 6 0.01
651 134 0.18
652 5 0.01
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (650 bp):
TCAATTTCTTATCATATAATTGAAAAGGACATTTTAGTAATTTCATAAGGAATTACTTAGCAAAT
AATTATAAAAGAAGGGGTATTTTCGTAATTATGATATGAATGTATAATATTCAATTTGACTATAT
ATCAATTTCTTATCATATAATGGAATGTGCATTTTAGTAATTTTTTAGAGGATTATTTAGTAAAT
AATTATAAGAGAATGGTATTTTCATAATTATGATATAATGCCATAATAGTTAATTTCACTCAATG
ACAACTTCTTATAATATAATGAAAAGGGCAATTTAGTAATTTCATAAAAGATTATTTACTAAATA
ATTATAAGAGAAGGGATATTGTTATAATTATGAAATGAGGTCATAAATATCAAGTTCACCACATC
TCAATATCCTATAATATAATAGAAATGGAATTTTCGTAATTTCATAAAAGATTATTTAGTAAATA
ATTATAAAAGAAAAGATATTTTCATAATTATGATATGAGGGCATAATACCTAATTTGACAACATA
TCAAATTATTATCATATAATAGAAAGGGCATTTTAGTAATTTCATAAAGGATTATTTAGTAAATA
ATTATAAGAAAAGTGATATTTTCATAATTATGGCATGAAAGCAAAATAGTCCATTTGGCCAAATA
Found at i:139476 original size:517 final size:517
Alignment explanation
Indices: 138490--139902 Score: 1209
Period size: 517 Copynumber: 2.7 Consensus size: 517
138480 ATAATAGTCA
* * * * * * * *
138490 ATTTAATCACATGTCAATTTTTTATCATATAAT-GCAAA-GGTAATTTTGGTAATTTCTTATGTA
1 ATTTGATCACATCTCAAATTCTTATCATATAATAG-AAATGG-CATTTTCGTAATTTCATAAG-A
** * * * * *
138553 -ATTATTTAGT-AATAATTATAAAAGAAGGGGTATATTTGTAATTATGATATGAATGCATAATTG
63 GATTATTTAGTAAATAATTAT-AAAGAAAAGGTATTTTTATAATTATGATATGAAAGAATAATAG
* * * * * * ** * **
138616 TCAATTT-AGCCATATGTCAATTTTTTATCATATAATGGAAAATGCATTCTAGTAATTT-TTTGA
127 TCAATTTGA-CAACATATCAATTTATTATCATATATTAGAAAGGGCATTTTAGTAATTTCTAAGA
* * * * * * ** * *
138679 GAGATTATTTAGTAAATAATTATAAGAGAAGAGGTATTTTAGTAGTTATGTTATGATGGCATAAT
191 G-GATTACTTAGCAAATAATTATAAGAAAAGTGGTATTTTCGTAATTATGGCATGAAGGCAAAAT
* * * * * *
138744 AGT-ACA-TTCAGTCATATGAT-AATTTCTTATCATATAAT-GAAAAGGGTA-ATTTCA-TAATT
255 AGTCA-ATTTGACT-AAAT-ATCAATTTCTTATCATATAATGGAAAA-TG-ACATTTTAGTATTT
* ** * * *
138803 TCATAAAAGATTATTTAGTAAATAATTATAAGAGAAGGGATTTTTTCATAATTATGATATGAAGG
315 TCTTAAGTGATTATTTAGTAAATAATTATAAGAG-ATGG-TATTTTCATAATTATGATAT-AAGC
* * * *
138868 CGTAATTATCAAGTTCACCATATGCCAATATCCTATAATATAATGGAAATGGAATTTTGGTAAAT
377 CATAATTATCAAGTTCACCATATGCCAATATCCTATAATATAATGAAAAGGGAATTTTAGTAAAT
* * * * *
138933 TTTTAAAAGATTATTTAGTAAATAATTATAAGATAAATGATATT-TTCATAATTATAGTATTCG-
442 TTTTAAAAGATTATTTACTAAATAATTATAAGAGAAAGGATATTGTT-ATAATTAT-GAAAT-GA
138996 GG-CAT-AATAACCT
504 GGTCATAAAT-ACCT
* * *
139009 ATTTGA-CTACATGTCAAATTCTTATCATGTAATAGAAATGGCATTTTGGTAATTTCATAA-AGG
1 ATTTGATC-ACATCTCAAATTCTTATCATATAATAGAAATGGCATTTTCGTAATTTCATAAGA-G
* *
139072 ATTATTTAGTAAATAATTAT-AAGAAAA-GTATATTTTCATAATTATGGTATGAAAGAATGATAG
64 ATTATTTAGTAAATAATTATAAAGAAAAGGTAT-TTTT-ATAATTATGATATGAAAGAATAATAG
* * * * * * *
139135 TCCATTTGGCCAA-ATTTTAATTTCTTATCATATAATT-GAAAGGGTATTTTATTAATTTCATAA
127 TCAATTT-GACAACATATCAATTTATTATCATAT-ATTAGAAAGGGCATTTTAGTAATTTC-TAA
* *
139198 G-GGATTACTTAGCAAATAATTATAA-AAAAG-GGTATTTTCGTAATTATGGTATGAAGGTAAAA
189 GAGGATTACTTAGCAAATAATTATAAGAAAAGTGGTATTTTCGTAATTATGGCATGAAGGCAAAA
* * * * *** *
139260 TATTCAATTTGACTAAATTTTAATTTCTTATTATATAATGGAGTGTG-CATTTTTGTAATTTT-T
254 TAGTCAATTTGACTAAATATCAATTTCTTATCATATAATGGAAAATGACATTTTAGT-ATTTTCT
139323 TAGAG-GATTATTTAGTAAATAATTATAAGAGATTCGGTATTTTCATAATTATGATATAATGCCA
318 TA-AGTGATTATTTAGTAAATAATTATAAGAGA-T-GGTATTTTCATAATTATGATATAA-GCCA
* * * * * *
139387 TAA-TAGTTAATTTTACC-TCATGGCAACT-TCTTATAATATATTGAAAAGGGCAA-TTTAGT-A
379 TAATTA-TCAAGTTCACCAT-ATGCCAA-TATCCTATAATATAATGAAAAGGG-AATTTTAGTAA
* * * *
139447 ATTTCTTGAAAGATTATTTTCTAAATAATTATAAGAGAAGGGATATTGTTGTAATTATGAAATGA
440 ATTT-TTAAAAGATTATTTACTAAATAATTATAAGAGAAAGGATATTGTTATAATTATGAAATGA
**
139512 GGTCATAAATGTCT
504 GGTCATAAATACCT
* *
139526 ATTTGATCACATCTCAATTTCTTATCATATAATAGAAATGGTATTTTCGTAATTTCATAAGAGAT
1 ATTTGATCACATCTCAAATTCTTATCATATAATAGAAATGGCATTTTCGTAATTTCATAAGAGAT
* ** * * *
139591 TATTTAGTAAATAATTATAAAAGAAAAGGTATTTTTGTAATTATGATATGAGGGCATAATGGTTA
66 TATTTAGTAAATAATTAT-AAAGAAAAGGTATTTTTATAATTATGATATGAAAGAATAATAGTCA
* *
139656 ATTTGACAACATATCAATTTATTATCATATATTATAAAGGGCATTTTAGTAATTTCTTAGAGGAT
130 ATTTGACAACATATCAATTTATTATCATATATTAGAAAGGGCATTTTAGTAATTTCTAAGAGGAT
* * * * * *
139721 TATTTAGTAAATATTTATAAGAGAAGTGGTATTTTCGTAATTATGGCATGAGGGCAAAATAGTCC
195 TACTTAGCAAATAATTATAAGAAAAGTGGTATTTTCGTAATTATGGCATGAAGGCAAAATAGTCA
** * * *
139786 ATTTGGTTAAATATCAATTTCTTATCATATAATTGAAAATGACATTTTAGTGTTTTCTTAAGTAA
260 ATTTGACTAAATATCAATTTCTTATCATATAATGGAAAATGACATTTTAGTATTTTCTTAAGTGA
* * * *
139851 TTATTTAGTAAATAATTATAAAAGAATGAATATTTTCGTAATTACGATATAA
325 TTATTTAGTAAATAATTATAAGAG-ATG-GTATTTTCATAATTATGATATAA
139903 ATGTGTAATA
Statistics
Matches: 721, Mismatches: 125, Indels: 94
0.77 0.13 0.10
Matches are distributed among these distances:
515 1 0.00
516 21 0.03
517 278 0.39
518 118 0.16
519 151 0.21
520 93 0.13
521 58 0.08
522 1 0.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.40
Consensus pattern (517 bp):
ATTTGATCACATCTCAAATTCTTATCATATAATAGAAATGGCATTTTCGTAATTTCATAAGAGAT
TATTTAGTAAATAATTATAAAGAAAAGGTATTTTTATAATTATGATATGAAAGAATAATAGTCAA
TTTGACAACATATCAATTTATTATCATATATTAGAAAGGGCATTTTAGTAATTTCTAAGAGGATT
ACTTAGCAAATAATTATAAGAAAAGTGGTATTTTCGTAATTATGGCATGAAGGCAAAATAGTCAA
TTTGACTAAATATCAATTTCTTATCATATAATGGAAAATGACATTTTAGTATTTTCTTAAGTGAT
TATTTAGTAAATAATTATAAGAGATGGTATTTTCATAATTATGATATAAGCCATAATTATCAAGT
TCACCATATGCCAATATCCTATAATATAATGAAAAGGGAATTTTAGTAAATTTTTAAAAGATTAT
TTACTAAATAATTATAAGAGAAAGGATATTGTTATAATTATGAAATGAGGTCATAAATACCT
Found at i:140663 original size:129 final size:129
Alignment explanation
Indices: 140165--140783 Score: 385
Period size: 129 Copynumber: 4.8 Consensus size: 129
140155 TGTCATATGA
* * * * * * *
140165 CAATTTCGTATCATATAATAGAAAGGATAATTTCATAATTTTGTAGGAAATTATTTAGTAAATAA
1 CAATTTCTTATCATATAATTG-AAGGATATTTTTATAATTTTATAAGAGATTATTTAGTAAATAA
* * *
140230 TTATAAGAGAAAGGATATTTTCGTAATTATGAG-ACGATGGTG-TAAT--TA-TCCATTTGACCA
65 TTATAAGAGAAAGG-TATTTTTGTAATTATG-GTA-TA-GG-GAAAATAATAGTCCATTTGACCA
* *
140290 CA-GT
125 AATTT
* * * ** * *
140294 CAATGTCTTGTCATATAA-TGCAAAGTG-CATTTTGGTAA-TTTACAAGGGTATTATTTCA-TAA
1 CAATTTCTTATCATATAATTG--AAG-GATATTTTTATAATTTTATAAGAG-ATTATTT-AGTAA
* * * * * * * * *
140355 ATAATTATAAGAGAATAGATATTTGTATAATTATAGCATGAGGGTATAATAAT--T-TATTCGGC
61 ATAATTATAAGAGAA-AGGTATTTTTGTAATTATGGTAT-AGGG-AAAATAATAGTCCATTTGAC
* * *
140417 TATATGT
123 CAAATTT
* * * * *
140424 CAATTTCTTATCTTATAATTAAAAGGATGTTTTTGGTAATTTTATAATAGATTATTTAGTAAATA
1 CAATTTCTTATCATATAATT-GAAGGATATTTTT-ATAATTTTATAAGAGATTATTTAGTAAATA
* * * *
140489 ATTATAAGAG-AAGTGTATTTTTGTAATTGTGGTCT-GGGAAAATAATTGTCCATTTGATCAAAT
64 ATTATAAGAGAAAG-GTATTTTTGTAATTATGGTATAGGGAAAATAATAGTCCATTTGACCAAAT
140552 ATT
128 -TT
*
140555 -AATTACTTATCATATAATTGAAGGGATATTTTTATAATTTTATAAGAGATTATTTAGTAAATAA
1 CAATTTCTTATCATATAATTGAA-GGATATTTTTATAATTTTATAAGAGATTATTTAGTAAATAA
* * ** * * *
140619 TTACAAGAGAAAGGTATTTTCGTAATTATGGTATAGGG-GTATAATAGTTCATTTGGCCACATTT
65 TTATAAGAGAAAGGTATTTTTGTAATTATGGTATAGGGAAAATAATAGTCCATTTGACCAAATTT
* * * * * * *
140683 CAATTTCTTATAATATAATGGACTATG-CATTTCTATAA-TTTATAAGGGGATTGTTTAGTAAAT
1 CAATTTCTTATCATATAATTGA--AGGATATTTTTATAATTTTATAA-GAGATTATTTAGTAAAT
* *
140746 AATTATAAGAGAAGGGATATTTTTGTAATTATGATATA
63 AATTATAAGAGAAAGG-TATTTTTGTAATTATGGTATA
140784 ATGGTTGCCA
Statistics
Matches: 381, Mismatches: 78, Indels: 61
0.73 0.15 0.12
Matches are distributed among these distances:
127 8 0.02
128 21 0.06
129 210 0.55
130 104 0.27
131 31 0.08
132 7 0.02
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (129 bp):
CAATTTCTTATCATATAATTGAAGGATATTTTTATAATTTTATAAGAGATTATTTAGTAAATAAT
TATAAGAGAAAGGTATTTTTGTAATTATGGTATAGGGAAAATAATAGTCCATTTGACCAAATTT
Found at i:141977 original size:18 final size:18
Alignment explanation
Indices: 141924--141978 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
141914 TATTTGATTG
*
141924 TTTATTCA-TTTGTTTTGT
1 TTTATTCATTTTGTTTT-A
* *
141942 TTTATGCATAATTG-TTTA
1 TTTATTCAT-TTTGTTTTA
141960 TTTATTCATTTTGTTTTA
1 TTTATTCATTTTGTTTTA
141978 T
1 T
141979 GGTTTTCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.10
18 20 0.69
19 3 0.10
20 3 0.10
ACGTcount: A:0.18, C:0.05, G:0.09, T:0.67
Consensus pattern (18 bp):
TTTATTCATTTTGTTTTA
Found at i:142216 original size:16 final size:16
Alignment explanation
Indices: 142189--142232 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
142179 TTCAAACCAA
142189 AAAAAT-TAAAAA-ATT
1 AAAAATATAAAAACA-T
142204 AAAAATAATAAAAACAT
1 AAAAAT-ATAAAAACAT
142221 AAAAATATAAAA
1 AAAAATATAAAA
142233 TTTTTGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 13 0.50
18 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATATAAAAACAT
Found at i:143762 original size:37 final size:38
Alignment explanation
Indices: 143702--143778 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 38
143692 AGACTTCGCT
*
143702 TATAATTTAGGGTCTCACATAGGG-TTCTAGTTTCACC
1 TATAATTTAGGGTCTCACATAGGGTTTCAAGTTTCACC
* * * *
143739 TATAGTTTAGGGTTTTACTTAGGGTTTCAAGTTTCACC
1 TATAATTTAGGGTCTCACATAGGGTTTCAAGTTTCACC
143777 TA
1 TA
143779 GGATTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
37 20 0.59
38 14 0.41
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (38 bp):
TATAATTTAGGGTCTCACATAGGGTTTCAAGTTTCACC
Found at i:143899 original size:26 final size:27
Alignment explanation
Indices: 143870--143943 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 27
143860 AGATTTTAGG
* *
143870 GTTTTATTTTTAAGG-TTTC-ATTTAAC
1 GTTTTAGTTTT-AGGATTTCAATTTAAA
143896 GTTTT-GTTTTAGGATTTCAATTTAAA
1 GTTTTAGTTTTAGGATTTCAATTTAAA
*
143922 GTTTTAGTGTTTTATGATTTCA
1 GTTTTA--GTTTTAGGATTTCA
143944 TAACTTTACG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 3 0.08
25 8 0.20
26 16 0.40
29 13 0.32
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (27 bp):
GTTTTAGTTTTAGGATTTCAATTTAAA
Found at i:144081 original size:23 final size:23
Alignment explanation
Indices: 144041--144102 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
144031 ACTTTTATAT
* *
144041 TTTTATACATATTTTTTATTAAAA
1 TTTTATA-TTATTATTTATTAAAA
*
144065 TTTTATATTATTATTTATTAATA
1 TTTTATATTATTATTTATTAAAA
144088 TTTTATTATT-TTATT
1 TTTTA-TATTATTATT
144103 CTTATTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 23 0.68
24 11 0.32
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTATATTATTATTTATTAAAA
Found at i:144300 original size:74 final size:75
Alignment explanation
Indices: 144164--144311 Score: 199
Period size: 75 Copynumber: 2.0 Consensus size: 75
144154 ATTTTTTAAA
** * * *
144164 AAAAAATTTGACTTTTATTCCCTTTAACATCTAGGTAAGAATTTGAAAATCTTTATTTTTATTAT
1 AAAAAATTTGACTTTTATTCCCTCCAACATCTAAGCAAGAATTTCAAAATCTTTATTTTTATTAT
144229 TATTATTTTT
66 TATTATTTTT
* * * *
144239 AAAAAATTTGATTTTTTTTCTCTCCAACATTTAAGCAAGAA-TTCAAAATCTTTATTTTTATTAT
1 AAAAAATTTGACTTTTATTCCCTCCAACATCTAAGCAAGAATTTCAAAATCTTTATTTTTATTAT
*
144303 TTTTATTTT
66 TATTATTTT
144312 ACATATTTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
74 30 0.48
75 33 0.52
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (75 bp):
AAAAAATTTGACTTTTATTCCCTCCAACATCTAAGCAAGAATTTCAAAATCTTTATTTTTATTAT
TATTATTTTT
Found at i:145462 original size:14 final size:12
Alignment explanation
Indices: 145438--145476 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
145428 TCTCTCTAGC
*
145438 CTTTTTTTTTTG
1 CTTTTTTTTTTT
145450 CTTTTTTTCTTTT
1 CTTTTTTT-TTTT
*
145463 CTTTTTTTTATT
1 CTTTTTTTTTTT
145475 CT
1 CT
145477 GTTACTAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:145665 original size:29 final size:28
Alignment explanation
Indices: 145603--145666 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
145593 CCACTGGTAG
* *
145603 TTTTTTTTTTCTATTTTTTTTGCTTTTC
1 TTTTTTTTTTCTATTTTTTTGGCTTTGC
*
145631 TCTTTTCTTTTCTA-TTTTTTGGCTGTTGC
1 T-TTTTTTTTTCTATTTTTTTGGCT-TTGC
145660 TTTTTTT
1 TTTTTTT
145667 AATCATGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.03, C:0.12, G:0.08, T:0.77
Consensus pattern (28 bp):
TTTTTTTTTTCTATTTTTTTGGCTTTGC
Found at i:146111 original size:3 final size:3
Alignment explanation
Indices: 146103--146134 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
146093 AAAATTTTAA
146103 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
146135 ATCTTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:146581 original size:43 final size:42
Alignment explanation
Indices: 146497--146708 Score: 205
Period size: 43 Copynumber: 5.0 Consensus size: 42
146487 TCAGTGTCTT
* *
146497 AATTGT-GGGAGAATATTTCATTTTTC-AAAGTTTCAAGGCCTC
1 AATTGTGGGGAGCAT-TTT-ATTTTTCAAAAGTTTCAAAGCCTC
* * *
146539 AATTTTGAGGGAGCATTGTATTTTTCAAAAGTTTTAAAGCCTC
1 AATTGTG-GGGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTC
* ** * * *
146582 AATTATGAATGAGTATTTTATTTTT-AAAACTTTCAATGCCTC
1 AATTGTG-GGGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTC
* *
146624 AGTTGTGGAGGAGCATTTTATTTTTCAAAAGTTTCAAAGCTTC
1 AATTGTGG-GGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTC
* **
146667 AATTGTGGGAGAACATTTTATTTTTCCTAAGTTTCAAAGCCT
1 AATTGTGGG-GAGCATTTTATTTTTCAAAAGTTTCAAAGCCT
146709 TTGGTAGGGG
Statistics
Matches: 138, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
42 46 0.33
43 85 0.62
44 7 0.05
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (42 bp):
AATTGTGGGGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTC
Found at i:146685 original size:85 final size:85
Alignment explanation
Indices: 146497--146691 Score: 241
Period size: 85 Copynumber: 2.3 Consensus size: 85
146487 TCAGTGTCTT
* * * *
146497 AATTGTGGGAGAATATTTCATTTTTCAAAGTTTCAAGGCCTCAATTTTGAGGGAGCATTGTATTT
1 AATTGTGGGAGAATATTTTATTTTTAAAACTTTCAAGGCCTCAATTTGGAGGGAGCATTGTATTT
*
146562 TTCAAAAGTTTTAAAGCCTC
66 TTCAAAAGTTTCAAAGCCTC
* * * * * *
146582 AATTAT-GAATGAGTATTTTATTTTTAAAACTTTCAATGCCTCAGTTGTGGA-GGAGCATTTTAT
1 AATTGTGGGA-GAATATTTTATTTTTAAAACTTTCAAGGCCTCAATT-TGGAGGGAGCATTGTAT
*
146645 TTTTCAAAAGTTTCAAAGCTTC
64 TTTTCAAAAGTTTCAAAGCCTC
*
146667 AATTGTGGGAGAACATTTTATTTTT
1 AATTGTGGGAGAATATTTTATTTTT
146692 CCTAAGTTTC
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.02
85 84 0.92
86 5 0.05
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (85 bp):
AATTGTGGGAGAATATTTTATTTTTAAAACTTTCAAGGCCTCAATTTGGAGGGAGCATTGTATTT
TTCAAAAGTTTCAAAGCCTC
Found at i:147904 original size:8 final size:7
Alignment explanation
Indices: 147880--147946 Score: 53
Period size: 7 Copynumber: 8.7 Consensus size: 7
147870 TCAATTTTCA
147880 TTTTATTT
1 TTTTA-TT
147888 TATTTATT
1 T-TTTATT
147896 TTCTTATT
1 TT-TTATT
*
147904 TTCTATTT
1 TTTTA-TT
147912 ATTTTATT
1 -TTTTATT
*
147920 TTTTGTT
1 TTTTATT
147927 TTTTATT
1 TTTTATT
*
147934 ATTTATT
1 TTTTATT
147941 ATTTTA
1 -TTTTA
147947 ATTGTGTGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
7 21 0.44
8 19 0.40
9 8 0.17
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (7 bp):
TTTTATT
Found at i:147914 original size:23 final size:22
Alignment explanation
Indices: 147886--147946 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
147876 TTCATTTTAT
147886 TTTATTTATTTTCTTATTTTCTA
1 TTTATTTATTTT-TTATTTTCTA
* *
147909 TTTATTTTATTTTTTGTTTTTTA
1 TTTA-TTTATTTTTTATTTTCTA
147932 -TTATTTATTATTTTA
1 TTTATTTATT-TTTTA
147947 ATTGTGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 6 0.18
22 7 0.21
23 12 0.36
24 8 0.24
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTATTTATTTTTTATTTTCTA
Found at i:148123 original size:19 final size:19
Alignment explanation
Indices: 148099--148160 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
148089 ATTTCATGTT
148099 TTTGCATGATTTTTAATTA
1 TTTGCATGATTTTTAATTA
*
148118 TTTGCATAATTATTT-ATTA
1 TTTGCATGATT-TTTAATTA
* *
148137 TTTGTATGATTATTAATATA
1 TTTGCATGATTTTTAAT-TA
148157 TTTG
1 TTTG
148161 TTTGTGAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 2 0.06
19 25 0.69
20 9 0.25
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (19 bp):
TTTGCATGATTTTTAATTA
Found at i:148195 original size:20 final size:21
Alignment explanation
Indices: 148170--148220 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
148160 GTTTGTGAGA
148170 TTGCATGATTATTT-ATATAT
1 TTGCATGATTATTTAATATAT
148190 TTGCATGATT-TTTAATATAT
1 TTGCATGATTATTTAATATAT
*
148210 TTGTATGATTA
1 TTGCATGATTA
148221 ATATCTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (21 bp):
TTGCATGATTATTTAATATAT
Found at i:148237 original size:52 final size:51
Alignment explanation
Indices: 148119--148216 Score: 133
Period size: 52 Copynumber: 1.9 Consensus size: 51
148109 TTTTAATTAT
* * * *
148119 TTGCATAATTATTTATTATTTGTATGATTATTAATATATTTGTTTGTGAGA
1 TTGCATGATAATTTATTATTTGCATGATTATTAATATATTTGTATGTGAGA
* *
148170 TTGCATGATTATTTATATATTTGCATGATTTTTAATATATTTGTATG
1 TTGCATGATAATTTAT-TATTTGCATGATTATTAATATATTTGTATG
148217 ATTAATATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 15 0.36
52 27 0.64
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (51 bp):
TTGCATGATAATTTATTATTTGCATGATTATTAATATATTTGTATGTGAGA
Found at i:149281 original size:18 final size:19
Alignment explanation
Indices: 149258--149293 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
149248 AAAATCTACG
149258 GCCG-AAACAAGCTTGTTC
1 GCCGAAAACAAGCTTGTTC
*
149276 GCCGAAAACAAGTTTGTT
1 GCCGAAAACAAGCTTGTT
149294 AGCTGTCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (19 bp):
GCCGAAAACAAGCTTGTTC
Found at i:152305 original size:18 final size:18
Alignment explanation
Indices: 152284--152388 Score: 102
Period size: 18 Copynumber: 5.2 Consensus size: 18
152274 ATTAATATAA
152284 TATATTAATAAATAATAT
1 TATATTAATAAATAATAT
*
152302 TATAAATAAATATATACTAATATAT
1 TAT--ATTAATA-A-A-T-A-ATAT
152327 TAATATTAATAAATAATAT
1 T-ATATTAATAAATAATAT
152346 TATATTAATAAATAAAAATAT
1 TATATTAATAAAT---AATAT
152367 TATATTAATAAATAATAT
1 TATATTAATAAATAATAT
152385 TATA
1 TATA
152389 ATATATTAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 22
0.76 0.02 0.22
Matches are distributed among these distances:
18 24 0.32
19 5 0.07
20 7 0.09
21 20 0.27
22 2 0.03
23 2 0.03
24 7 0.09
25 5 0.07
26 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
TATATTAATAAATAATAT
Found at i:152416 original size:39 final size:39
Alignment explanation
Indices: 152290--152424 Score: 105
Period size: 39 Copynumber: 3.3 Consensus size: 39
152280 ATAATATATT
* * **
152290 AATAAATAATATTATAAATAAATATATACTAATATATTAATATT
1 AATAAATAATATTAT-AAT-AATAAATA--AAAATATT-ATAGG
* **
152334 AATAAATAATATTATATTAATAAATAAAAATATTATATT
1 AATAAATAATATTATAATAATAAATAAAAATATTATAGG
*
152373 AATAAATAATATTATAATATATTAATAAATAATA-TA-AGG
1 AATAAATAATATTATAATA-ATAAATAAA-AATATTATAGG
152412 AATAACA-AATATT
1 AATAA-ATAATATT
152425 TTTATTTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
39 35 0.43
40 18 0.22
41 4 0.05
42 7 0.09
43 2 0.02
44 15 0.19
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (39 bp):
AATAAATAATATTATAATAATAAATAAAAATATTATAGG
Found at i:152466 original size:19 final size:19
Alignment explanation
Indices: 152439--152505 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
152429 TTTTAAGTAT
*
152439 TTTTTATATTAATATAATA
1 TTTTAATATTAATATAATA
*
152458 TTTTAATATTAA-ATATTA
1 TTTTAATATTAATATAATA
*
152476 TTATT-A-A--AATATAATT
1 TT-TTAATATTAATATAATA
152492 TTTTAATATTAATA
1 TTTTAATATTAATA
152506 ATTTTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
15 4 0.11
16 7 0.18
17 2 0.05
18 8 0.21
19 17 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATATTAATATAATA
Found at i:152535 original size:26 final size:26
Alignment explanation
Indices: 152502--152565 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
152492 TTTTAATATT
152502 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
*
152527 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAATAAATAATTTC
*
152553 TA-ATATTTTAATA
1 AATATATTTTAATA
152566 GGTATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:152557 original size:10 final size:9
Alignment explanation
Indices: 152486--152565 Score: 55
Period size: 9 Copynumber: 9.3 Consensus size: 9
152476 TTATTAAAAT
152486 ATAATTTT-
1 ATAATTTTA
* *
152494 TTAATATTA
1 ATAATTTTA
152503 ATAATTTTA
1 ATAATTTTA
*
152512 ATAA--TAA
1 ATAATTTTA
*
152519 ATAATTTCA
1 ATAATTTTA
152528 ATATATTTTA
1 ATA-ATTTTA
*
152538 ATAA--TAA
1 ATAATTTTA
152545 ATAATTTTTA
1 ATAA-TTTTA
152555 AT-ATTTTA
1 ATAATTTTA
152563 ATA
1 ATA
152566 GGTATATTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
7 12 0.22
8 13 0.24
9 18 0.33
10 12 0.22
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (9 bp):
ATAATTTTA
Found at i:154349 original size:15 final size:15
Alignment explanation
Indices: 154329--154359 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
154319 GTAAATTTGA
154329 TATTTTTCCTTTTTT
1 TATTTTTCCTTTTTT
*
154344 TATTTTTTCTTTTTT
1 TATTTTTCCTTTTTT
154359 T
1 T
154360 TGGAAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (15 bp):
TATTTTTCCTTTTTT
Found at i:154498 original size:17 final size:18
Alignment explanation
Indices: 154468--154501 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
154458 AAATAAATTA
*
154468 AAATAGAAATTAGAAAAT
1 AAATAGAAAATAGAAAAT
154486 AAAT-GAAAATAGAAAA
1 AAATAGAAAATAGAAAA
154502 AAAAACCTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (18 bp):
AAATAGAAAATAGAAAAT
Found at i:155604 original size:19 final size:19
Alignment explanation
Indices: 155580--155617 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
155570 GTGATTTTGT
155580 CTCGGTCACTCGATCTTGG
1 CTCGGTCACTCGATCTTGG
155599 CTCGGTCACTCGATCTTGG
1 CTCGGTCACTCGATCTTGG
155618 TTCAGTTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.32, G:0.26, T:0.32
Consensus pattern (19 bp):
CTCGGTCACTCGATCTTGG
Found at i:155716 original size:138 final size:138
Alignment explanation
Indices: 155465--155739 Score: 372
Period size: 138 Copynumber: 2.0 Consensus size: 138
155455 TTTTATCACA
* **
155465 GTCACTCGATCTTGGCTCAGTCCAAATCATTCCTTATGATTCGTGGTTTCGTCCCAATCATCTAT
1 GTCACTCGATCTTGGCTCAGTCCAAATCATTACTTATGATTAATGGTTTCGTCCCAATCATCTAT
155530 CCTCGATCTGGACTCAGTCCTAATCGCTTTATTTTGACTTGTGATTTTGTCTCGGTCACTCGATC
66 CCTCGATCTGGACTCAGTCCTAATCGCTTTATTTTGACTTGTGATTTTGTCTCGGTCACTCGATC
155595 TTGGCTCG
131 TTGGCTCG
* * * * * * *
155603 GTCACTCGATCTTGGTTCAGTTCAGATTATTATTTATGATTAATGGTTTCGTCCCGATCATTTAT
1 GTCACTCGATCTTGGCTCAGTCCAAATCATTACTTATGATTAATGGTTTCGTCCCAATCATCTAT
* * * ** * * *
155668 TCTCGATCTTGACTC-GATCTTGGTCGCTTTATTTTGACTTGTGGTTTTGTTTCGGTCACTTGAT
66 CCTCGATCTGGACTCAG-TCCTAATCGCTTTATTTTGACTTGTGATTTTGTCTCGGTCACTCGAT
155732 CTTGGCTC
130 CTTGGCTC
155740 AGTCCAGATC
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
137 1 0.01
138 117 0.99
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (138 bp):
GTCACTCGATCTTGGCTCAGTCCAAATCATTACTTATGATTAATGGTTTCGTCCCAATCATCTAT
CCTCGATCTGGACTCAGTCCTAATCGCTTTATTTTGACTTGTGATTTTGTCTCGGTCACTCGATC
TTGGCTCG
Found at i:155811 original size:119 final size:119
Alignment explanation
Indices: 155599--155904 Score: 339
Period size: 119 Copynumber: 2.6 Consensus size: 119
155589 TCGATCTTGG
* * ** * *
155599 CTCGGTCACTCGATCTTGGTTCAGTTCAGATTATTAT-TTATGATTAATGGTTTCGTCCCGATCA
1 CTCGGTCACTCGATCTTGGCTCAGTTCAGATCATT-TCTTATGATTCGTGATTCCGTCCCGATCA
* * * * * * *
155663 TTTATTCTCGATCTTGACTCGATCTTGGTCGCTTTATTTTGACTTGTGGTTTTGT
65 TCTATCCTCGACCTGGACTCGATCCTGGTCGCTTTATTTTAACTTGTGGTTTTAT
* * * *
155718 TTCGGTCACTTGATCTTGGCTCAGTCCAGATCATTTCTTATAATTCGTGATTCCGTCCCGATCAT
1 CTCGGTCACTCGATCTTGGCTCAGTTCAGATCATTTCTTATGATTCGTGATTCCGTCCCGATCAT
* *
155783 CTATCCTCGACCTGGACTC-AGTCCTGGTCGTTTTATTTTAACTTGTGTTTTTAT
66 CTATCCTCGACCTGGACTCGA-TCCTGGTCGCTTTATTTTAACTTGTGGTTTTAT
* * * * **
155837 CCCGATCACTCGATCTTGGCTCAGTTCAGATCA-TTCTTTATGATTCGTGCTTCTGTCTTGATCA
1 CTCGGTCACTCGATCTTGGCTCAGTTCAGATCATTTC-TTATGATTCGTGATTCCGTCCCGATCA
155901 TCTA
65 TCTA
155905 CTTTCGACCT
Statistics
Matches: 155, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
118 5 0.03
119 150 0.97
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (119 bp):
CTCGGTCACTCGATCTTGGCTCAGTTCAGATCATTTCTTATGATTCGTGATTCCGTCCCGATCAT
CTATCCTCGACCTGGACTCGATCCTGGTCGCTTTATTTTAACTTGTGGTTTTAT
Found at i:156210 original size:3 final size:3
Alignment explanation
Indices: 156202--156251 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
156192 CCAACTAGAT
156202 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
156250 TT
1 TT
156252 TCTTTTGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:157460 original size:10 final size:10
Alignment explanation
Indices: 157426--157563 Score: 65
Period size: 10 Copynumber: 13.8 Consensus size: 10
157416 TTTTTTGAAT
157426 TTTTTATTTA
1 TTTTTATTTA
*
157436 TTTGT-TTTA
1 TTTTTATTTA
*
157445 TCTTTATTTA
1 TTTTTATTTA
157455 TTTTTATTTA
1 TTTTTATTTA
*
157465 TTAGATTAGATTTA
1 TT---TT-TATTTA
* *
157479 TTTAATATTTT
1 TTT-TTATTTA
157490 TTCTTTATCTTA
1 TT-TTTAT-TTA
157502 TTTTTA-TT-
1 TTTTTATTTA
*
157510 TTTGT-TTTA
1 TTTTTATTTA
* *
157519 CTTTTCTTTA
1 TTTTTATTTA
*
157529 -ATTT-TTTA
1 TTTTTATTTA
157537 TTTTTATTTA
1 TTTTTATTTA
* *
157547 TTTTCACTT-
1 TTTTTATTTA
157556 TTTTTATT
1 TTTTTATT
157564 ATTCTATTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 27
0.68 0.13 0.19
Matches are distributed among these distances:
8 10 0.10
9 24 0.25
10 34 0.35
11 14 0.15
12 5 0.05
13 2 0.02
14 7 0.07
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:157518 original size:22 final size:21
Alignment explanation
Indices: 157484--157535 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
157474 ATTTATTTAA
157484 TATTTTTTCTTTATCTTATT-TT
1 TATTTTTTCTTTA-CTT-TTCTT
157506 TATTTTTGT-TTTACTTTTCTT
1 TATTTTT-TCTTTACTTTTCTT
157527 TAATTTTTT
1 T-ATTTTTT
157536 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 2 0.07
21 7 0.26
22 17 0.63
23 1 0.04
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (21 bp):
TATTTTTTCTTTACTTTTCTT
Found at i:157529 original size:46 final size:45
Alignment explanation
Indices: 157428--157550 Score: 124
Period size: 46 Copynumber: 2.6 Consensus size: 45
157418 TTTTGAATTT
* *
157428 TTTATTTATTTGTTTTATCTTTATTTATTTTTATTTATTAGATTAGA
1 TTTATTTAATT-TTTT-TCTTTATTTATTTTTATTTATTAGATTACA
* *
157475 TTTATTTAATATTTTTTCTTTATCTTATTTTTATTT-TT-GTTTTACT
1 TTTATTTAAT-TTTTTTCTTTAT-TTATTTTTATTTATTAG-ATTACA
* *
157521 TTTCTTTAATTTTTTATTTTTATTTATTTT
1 TTTATTTAATTTTTT-TCTTTATTTATTTT
157551 CACTTTTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
45 13 0.20
46 27 0.41
47 25 0.38
48 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (45 bp):
TTTATTTAATTTTTTTCTTTATTTATTTTTATTTATTAGATTACA
Found at i:157535 original size:18 final size:17
Alignment explanation
Indices: 157514--157578 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
157504 TTTATTTTTG
157514 TTTTACTTTTCTTTAATT
1 TTTTACTTTTCTTT-ATT
* *
157532 TTTTATTTTTATTTA-T
1 TTTTACTTTTCTTTATT
*
157548 TTTCACTTTT-TTTATT
1 TTTTACTTTTCTTTATT
*
157564 ATTCTA-TTTTCTTTA
1 -TTTTACTTTTCTTTA
157579 AAGAAAAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
15 4 0.11
16 14 0.37
17 8 0.21
18 12 0.32
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTACTTTTCTTTATT
Found at i:157571 original size:23 final size:23
Alignment explanation
Indices: 157531--157574 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
157521 TTTCTTTAAT
*
157531 TTTTTATTTTTATTTATTTTCAC
1 TTTTTATTATTATTTATTTTCAC
157554 TTTTT-TTATTATTCTATTTTC
1 TTTTTATTATTATT-TATTTTC
157575 TTTAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTATTATTATTTATTTTCAC
Found at i:157662 original size:60 final size:59
Alignment explanation
Indices: 157582--157756 Score: 271
Period size: 60 Copynumber: 2.9 Consensus size: 59
157572 TTCTTTAAAG
* *
157582 AAAAATCAAAATTTCCAAAAAAA-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAT-AAAATTTCAAAAAAAAGGATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTT
*
157642 AAAAATAAATTTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAATAAAATTTCAAAAAAAAGGATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTT
* *
157702 AAAAATAAAATTTCAAAAAAAGGGATTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAATAAAATTTCAAAAAAAAGGATTTTTGGGAAAAGTTGAAAGTATCAATTTT
157757 CCCTACACAA
Statistics
Matches: 107, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
59 39 0.36
60 68 0.64
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (59 bp):
AAAAATAAAATTTCAAAAAAAAGGATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTT
Found at i:162873 original size:42 final size:42
Alignment explanation
Indices: 162826--163380 Score: 927
Period size: 42 Copynumber: 13.3 Consensus size: 42
162816 ATGATTGTCA
* * *
162826 AGGAGCAATTTACTTTTCCAAAGTCATGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
162868 AGGAGCAATTTACTTTTTTAAAGTCATGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
162910 AGGAACAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
162952 AGGAGCAATTTACTTTTTCATAGTCGTGGTACCCCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
162994 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
163035 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
163076 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
163118 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCCCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
163160 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
163202 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
163244 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
163286 AGGAGCAATTTACTTTTTCAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
163328 AGGAGCAATTTAC-TTTGCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
163369 AGGAGCAATTTA
1 AGGAGCAATTTA
163381 TGTTTCTTAA
Statistics
Matches: 488, Mismatches: 24, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
41 117 0.24
42 371 0.76
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:163430 original size:1 final size:1
Alignment explanation
Indices: 163424--163534 Score: 60
Period size: 1 Copynumber: 111.0 Consensus size: 1
163414 GAGCTTTGGT
* ** * * * * * * * *
163424 AAAAAAAAACAAAAAAAAATTAAAACAAAACAAAACAAAAAAACAAAAACAAAAAAAAACACATA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * **
163489 AAAAAAAAAACAACACAAGAAAAAAAACAAAAAAACCAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
163535 GACAATGTTG
Statistics
Matches: 78, Mismatches: 32, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 78 1.00
ACGTcount: A:0.84, C:0.13, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:163499 original size:40 final size:41
Alignment explanation
Indices: 163424--163523 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 41
163414 GAGCTTTGGT
* *
163424 AAAAAAAAACAAAAAAAAATTAAAACAAAACAAAACAA-A-
1 AAAAAAAAACAAAAAAAAATCAAAACAAAAAAAAACAACAC
163463 AAAACAAAAACAAAAAAAAA-CACATAA-AAAAAAAAACAACAC
1 AAAA-AAAAACAAAAAAAAATCA-A-AACAAAAAAAAACAACAC
163505 AAGAAAAAAAACAAAAAAA
1 -A-AAAAAAAACAAAAAAA
163524 CCAAAAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
39 5 0.10
40 27 0.52
41 3 0.06
43 14 0.27
44 3 0.06
ACGTcount: A:0.84, C:0.12, G:0.01, T:0.03
Consensus pattern (41 bp):
AAAAAAAAACAAAAAAAAATCAAAACAAAAAAAAACAACAC
Found at i:163522 original size:50 final size:51
Alignment explanation
Indices: 163424--163534 Score: 140
Period size: 50 Copynumber: 2.2 Consensus size: 51
163414 GAGCTTTGGT
163424 AAAAAAAAACAAAAAAAAATTAAAACAAAACAAAACAAAAAAAC-AAAAA-C
1 AAAAAAAAACAAAAAAAAA-TAAAACAAAACAAAACAAAAAAACAAAAAACC
* *
163474 AAAAAAAAACACATAAAAAAA-AAAACAACACAAGA-AAAAAAACAAAAAAACC
1 AAAAAAAAACA-A-AAAAAAATAAAACAAAACAAAACAAAAAAAC-AAAAAACC
163526 AAAAAAAAA
1 AAAAAAAAA
163535 GACAATGTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
49 8 0.15
50 23 0.43
51 6 0.11
52 17 0.31
ACGTcount: A:0.84, C:0.13, G:0.01, T:0.03
Consensus pattern (51 bp):
AAAAAAAAACAAAAAAAAATAAAACAAAACAAAACAAAAAAACAAAAAACC
Found at i:163710 original size:5 final size:6
Alignment explanation
Indices: 163694--163740 Score: 78
Period size: 6 Copynumber: 7.8 Consensus size: 6
163684 TATCTTTATC
163694 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTT ATTTTAT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT-T ATTTT
163741 ATGTATATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.13
6 28 0.72
7 6 0.15
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:163823 original size:4 final size:4
Alignment explanation
Indices: 163793--163880 Score: 53
Period size: 4 Copynumber: 22.2 Consensus size: 4
163783 TATATATATT
*
163793 TTTA TTTT TTTAA TTT- TTTA TTTTA TTTA TTTA TTT- TTGTA -TT- TTTA
1 TTTA TTTA TTT-A TTTA TTTA -TTTA TTTA TTTA TTTA TT-TA TTTA TTTA
* * *
163840 TTTA TCTA ATTA TATA TTTGA TATTA TTT- TTT- TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTT-A T-TTA TTTA TTTA TTTA TTTA T
163881 CCTATAATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
3 14 0.21
4 39 0.59
5 11 0.17
6 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:163825 original size:13 final size:14
Alignment explanation
Indices: 163793--163829 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
163783 TATATATATT
163793 TTTATTT-TTTTAA
1 TTTATTTATTTTAA
163806 TTT-TTTATTTT-A
1 TTTATTTATTTTAA
163818 TTTATTTATTTT
1 TTTATTTATTTT
163830 TGTATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTAA
Found at i:163836 original size:43 final size:42
Alignment explanation
Indices: 163789--163878 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 42
163779 CTAATATATA
* * * * *
163789 TATTTTTATTTTTTTAATTTTTTATTTTAT-TTATTTATTTTT
1 TATTTTTATTTATCTAATTATATATTTGATATTATTT-TTTTT
163831 GTATTTTTATTTATCTAATTATATATTTGATATTATTTTTTTT
1 -TATTTTTATTTATCTAATTATATATTTGATATTATTTTTTTT
163874 TATTT
1 TATTT
163879 ATCCTATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 5 0.12
43 30 0.73
44 6 0.15
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.74
Consensus pattern (42 bp):
TATTTTTATTTATCTAATTATATATTTGATATTATTTTTTTT
Found at i:163857 original size:22 final size:22
Alignment explanation
Indices: 163779--163858 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
163769 TGTATTATTA
*
163779 CTAATATATATATTTTTATTTTT
1 CTAAT-TATATATTTTTATTTAT
* * *
163802 TTAATTTTTTA-TTTTATTTAT
1 CTAATTATATATTTTTATTTAT
* * * *
163823 TTATTTTTGTATTTTTATTTAT
1 CTAATTATATATTTTTATTTAT
163845 CTAATTATATATTT
1 CTAATTATATATTT
163859 GATATTATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 18 0.39
22 24 0.52
23 4 0.09
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (22 bp):
CTAATTATATATTTTTATTTAT
Found at i:164823 original size:46 final size:45
Alignment explanation
Indices: 164773--164915 Score: 112
Period size: 46 Copynumber: 3.1 Consensus size: 45
164763 GCTCTAGGTT
164773 TTTTTTTTTTTTTGAATTTTTTATTTATTTGTTTTATCTTTATTTA
1 TTTTTTTTTTTTTGAATTTTTTATTTATTT-TTTTATCTTTATTTA
* * * * *
164819 TTTTTATTTATTAG-ATTAGATTTATTTAATATTTTT-TCTTTATCTTA
1 TTTTTTTTTTTTTGAATT--TTTTATTT-ATTTTTTTATCTTTAT-TTA
* * * * *
164866 TTTTTATTTTTGTTTTACTTTTCT-TTAATTTTTTTATTTTTATTTA
1 TTTTT-TTTTT-TTTGAATTTTTTATTTATTTTTTTATCTTTATTTA
164912 TTTT
1 TTTT
164916 CACTTTTTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
45 3 0.04
46 32 0.43
47 27 0.36
48 8 0.11
49 2 0.03
50 2 0.03
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (45 bp):
TTTTTTTTTTTTTGAATTTTTTATTTATTTTTTTATCTTTATTTA
Found at i:164824 original size:10 final size:10
Alignment explanation
Indices: 164790--164928 Score: 74
Period size: 10 Copynumber: 13.8 Consensus size: 10
164780 TTTTTTGAAT
164790 TTTTTATTTA
1 TTTTTATTTA
*
164800 TTTGT-TTTA
1 TTTTTATTTA
*
164809 TCTTTATTTA
1 TTTTTATTTA
164819 TTTTTATTTA
1 TTTTTATTTA
*
164829 TTAGATTAGATTTA
1 TT---TT-TATTTA
* *
164843 TTTAATATTTT
1 TTT-TTATTTA
164854 TTCTTTATCTTA
1 TT-TTTAT-TTA
164866 TTTTTA-TT-
1 TTTTTATTTA
*
164874 TTTGT-TTTA
1 TTTTTATTTA
* *
164883 CTTTTCTTTA
1 TTTTTATTTA
*
164893 ATTTT-TTTA
1 TTTTTATTTA
164902 TTTTTATTTA
1 TTTTTATTTA
* *
164912 TTTTCACTT-
1 TTTTTATTTA
164921 TTTTTATT
1 TTTTTATT
164929 ATTCTATTTT
Statistics
Matches: 98, Mismatches: 19, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
8 6 0.06
9 26 0.27
10 38 0.39
11 14 0.14
12 5 0.05
13 2 0.02
14 7 0.07
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:164882 original size:22 final size:21
Alignment explanation
Indices: 164848--164915 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 21
164838 ATTTATTTAA
164848 TATTTTTTCTTTATCTTATT-TT
1 TATTTTTTCTTTA-CTT-TTCTT
164870 TATTTTTGT-TTTACTTTTCTT
1 TATTTTT-TCTTTACTTTTCTT
* * *
164891 TA-ATTTT-TTTATTTTTATT
1 TATTTTTTCTTTACTTTTCTT
164910 TATTTT
1 TATTTT
164916 CACTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 13 0.33
20 7 0.18
21 7 0.18
22 11 0.28
23 1 0.03
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (21 bp):
TATTTTTTCTTTACTTTTCTT
Found at i:164906 original size:19 final size:18
Alignment explanation
Indices: 164867--164915 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
164857 TTTATCTTAT
*
164867 TTTTATTT-TTGTTTTAC
1 TTTTATTTATTTTTTTAC
* *
164884 TTTTCTTTAATTTTTTTAT
1 TTTTATTT-ATTTTTTTAC
164903 TTTTATTTATTTT
1 TTTTATTTATTTT
164916 CACTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 14 0.54
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTATTTTTTTAC
Found at i:164936 original size:23 final size:23
Alignment explanation
Indices: 164896--164939 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
164886 TTCTTTAATT
*
164896 TTTTTATTTTTATTTATTTTCAC
1 TTTTTATTATTATTTATTTTCAC
164919 TTTTT-TTATTATTCTATTTTC
1 TTTTTATTATTATT-TATTTTC
164940 TTTAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTATTATTATTTATTTTCAC
Found at i:165027 original size:60 final size:58
Alignment explanation
Indices: 164947--165243 Score: 407
Period size: 60 Copynumber: 5.0 Consensus size: 58
164937 TTCTTTAAAG
* * *
164947 AAAAATCAAATTTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAT-AAATTTTCAAAAAAAAGATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT
165007 AAAAATAAATTTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTC-AAAAAAAAGATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT
*
165067 AAAAATAAATTTTCAAAAAAAGGGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTCAAAAAAA-AGATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
165127 GAAAATCAAAATTTTC-AAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAAT--AAATTTTCAAAAAAAAGATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTT
**
165187 AAAAATAAATTTTCAAAAAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAATAAATTTTCAAAAAAAAGATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC
165244 CTATACAAGA
Statistics
Matches: 213, Mismatches: 16, Indels: 17
0.87 0.07 0.07
Matches are distributed among these distances:
58 9 0.04
59 51 0.24
60 138 0.65
61 7 0.03
62 8 0.04
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAATAAATTTTCAAAAAAAAGATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:165729 original size:3 final size:3
Alignment explanation
Indices: 165721--165749 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
165711 TGTTACGACA
165721 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
165750 ATTTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:168895 original size:25 final size:26
Alignment explanation
Indices: 168842--168896 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
168832 AAAAATTGAT
**
168842 ATTT-ATTTATTAATAAAATGATATC
1 ATTTAATTTATTAATAAAATGATAAA
*
168867 ATTTAATTTATTAATAATAT-ATAAA
1 ATTTAATTTATTAATAAAATGATAAA
168892 ATTTA
1 ATTTA
168897 TACACTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTTAATTTATTAATAAAATGATAAA
Found at i:170756 original size:21 final size:21
Alignment explanation
Indices: 170722--170771 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
170712 CAACCAATAT
* * *
170722 ATTAAAATATAATTAAACGAA
1 ATTAATATAAAATTAAACCAA
*
170743 ATTAATATAAAATTGAACCAA
1 ATTAATATAAAATTAAACCAA
*
170764 ATTTATAT
1 ATTAATAT
170772 GGGATTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (21 bp):
ATTAATATAAAATTAAACCAA
Found at i:170992 original size:3 final size:3
Alignment explanation
Indices: 170984--171021 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
170974 TATCTCACTT
170984 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
171022 GCGAACAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:176016 original size:2 final size:2
Alignment explanation
Indices: 176004--176042 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
175994 AACACTTTAG
* *
176004 AT AT A- AT AT AT AT AT AT AT AT AT AT AA AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
176043 TTATGTCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:192788 original size:33 final size:33
Alignment explanation
Indices: 192722--192789 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
192712 TTCTTTTAAT
*
192722 TTAGTGATGGTTTTTGTTTAAATTTACAGCAAC
1 TTAGTGATGGTTTTTGTTTAAATTTACAACAAC
**
192755 TTAGTGATGGTTTTTGTTTAAATTTTTAACAAC
1 TTAGTGATGGTTTTTGTTTAAATTTACAACAAC
192788 TT
1 TT
192790 GATGCTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.50
Consensus pattern (33 bp):
TTAGTGATGGTTTTTGTTTAAATTTACAACAAC
Found at i:194298 original size:17 final size:17
Alignment explanation
Indices: 194261--194340 Score: 72
Period size: 17 Copynumber: 4.8 Consensus size: 17
194251 CTGTTGTTGT
* * *
194261 TGTTGGTAGGTTGCTAT
1 TGTTAGTAGGTTGTTAC
* *
194278 TGTTAGCAGGTTGTTCC
1 TGTTAGTAGGTTGTTAC
* * *
194295 TGTTAATGGGTTGCTAC
1 TGTTAGTAGGTTGTTAC
194312 TGTTAG-AGGTTGTTAC
1 TGTTAGTAGGTTGTTAC
*
194328 TATTAGTAGGTTG
1 TGTTAGTAGGTTG
194341 CTGCTATTGG
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
16 13 0.27
17 35 0.73
ACGTcount: A:0.16, C:0.09, G:0.31, T:0.44
Consensus pattern (17 bp):
TGTTAGTAGGTTGTTAC
Found at i:194340 original size:33 final size:34
Alignment explanation
Indices: 194266--194342 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 34
194256 GTTGTTGTTG
* * *
194266 GTAGGTTGCTATTGTTAGCAGGTTGTTCCTGTTA
1 GTAGGTTGCTACTGTTAGCAGGTTGTTACTATTA
* *
194300 ATGGGTTGCTACTGTTAG-AGGTTGTTACTATTA
1 GTAGGTTGCTACTGTTAGCAGGTTGTTACTATTA
194333 GTAGGTTGCT
1 GTAGGTTGCT
194343 GCTATTGGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 21 0.58
34 15 0.42
ACGTcount: A:0.17, C:0.10, G:0.30, T:0.43
Consensus pattern (34 bp):
GTAGGTTGCTACTGTTAGCAGGTTGTTACTATTA
Found at i:197382 original size:20 final size:22
Alignment explanation
Indices: 197359--197402 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
197349 TATGGGAATG
197359 TTGTTT-GT-TATATGATTTTA
1 TTGTTTAGTCTATATGATTTTA
*
197379 TTGTTTATTCTATATGATTTTA
1 TTGTTTAGTCTATATGATTTTA
197401 TT
1 TT
197403 ATATGGGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.66
Consensus pattern (22 bp):
TTGTTTAGTCTATATGATTTTA
Found at i:199213 original size:15 final size:14
Alignment explanation
Indices: 199174--199209 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
199164 ACTATAGGTC
*
199174 TACAATTACTTTTT
1 TACAATTATTTTTT
199188 TACAATTATTTTTT
1 TACAATTATTTTTT
*
199202 TAGAATTA
1 TACAATTA
199210 ATTTCACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (14 bp):
TACAATTATTTTTT
Found at i:200132 original size:5 final size:5
Alignment explanation
Indices: 200122--200152 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
200112 CCCAAGAGCC
200122 TAATT TAATT TAATT TAATT TAATT T-ATT TA
1 TAATT TAATT TAATT TAATT TAATT TAATT TA
200153 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TAATT
Found at i:201331 original size:44 final size:43
Alignment explanation
Indices: 201281--201440 Score: 133
Period size: 45 Copynumber: 3.7 Consensus size: 43
201271 TTATTTTTAC
* * * *
201281 TTCCAAAATCATGGAAGCTTTACACAAATTTTCGTTCTTTATAT
1 TTCCAAAATAATGGAAGATTTACACAAATTTTCATT-TTAATAT
* * * *
201325 TTCCAAAATAATAGAAAATTTATACAAATTTTCATTTTAATCT
1 TTCCAAAATAATGGAAGATTTACACAAATTTTCATTTTAATAT
** * **
201368 TTCCAAAATGGTGGAAGTTTTACACAAAAATTTT-ATTTTTAATGC
1 TTCCAAAATAATGGAAGATTTACAC--AAATTTTCA-TTTTAATAT
* * *
201413 TTCCAAAATGATGGAAGTTTTATACAAA
1 TTCCAAAATAATGGAAGATTTACACAAA
201441 ATTCCATCTT
Statistics
Matches: 95, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
43 27 0.28
44 31 0.33
45 37 0.39
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (43 bp):
TTCCAAAATAATGGAAGATTTACACAAATTTTCATTTTAATAT
Found at i:201453 original size:45 final size:44
Alignment explanation
Indices: 201177--201454 Score: 201
Period size: 44 Copynumber: 6.4 Consensus size: 44
201167 TTTTTTTATG
* * * * * *
201177 AAAATTTTATTTTAAATATTTCCACAATGAT-GAAGTCTTATGC
1 AAAATTTCATTTTTAATCTTTCCAAAATGATGGAAGTTTTATAC
* * * * * *
201220 AAAGTTTCATTTTTAATCCTTCCAAAATGGTGAAATTTTTACAC
1 AAAATTTCATTTTTAATCTTTCCAAAATGATGGAAGTTTTATAC
* * * * *
201264 GAAGATTTTATTTTT-A-C-TTCCAAAATCATGGAAGCTTTACAC
1 -AAAATTTCATTTTTAATCTTTCCAAAATGATGGAAGTTTTATAC
* * * * * **
201306 AAATTTTCGTTCTTT-ATATTTCCAAAATAATAGAAAATTTATAC
1 AAAATTTCATT-TTTAATCTTTCCAAAATGATGGAAGTTTTATAC
* * *
201350 AAATTTTCA-TTTTAATCTTTCCAAAATGGTGGAAGTTTTACAC
1 AAAATTTCATTTTTAATCTTTCCAAAATGATGGAAGTTTTATAC
*
201393 AAAAATTTTATTTTTAATGC-TTCCAAAATGATGGAAGTTTTATAC
1 -AAAATTTCATTTTTAAT-CTTTCCAAAATGATGGAAGTTTTATAC
*
201438 AAAATTCCATCTTTTAA
1 AAAATTTCAT-TTTTAA
201455 AAAAAAAAAT
Statistics
Matches: 181, Mismatches: 44, Indels: 18
0.74 0.18 0.07
Matches are distributed among these distances:
41 7 0.04
42 27 0.15
43 48 0.27
44 51 0.28
45 47 0.26
46 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.41
Consensus pattern (44 bp):
AAAATTTCATTTTTAATCTTTCCAAAATGATGGAAGTTTTATAC
Found at i:201472 original size:129 final size:129
Alignment explanation
Indices: 201214--201464 Score: 276
Period size: 129 Copynumber: 1.9 Consensus size: 129
201204 TGATGAAGTC
* * * *
201214 TTATGCAAAGTTTCATTTTTAATCCTTCCAAAATGGTGAAATTTTTACACGAAGATTTTATTTTT
1 TTATACAAAGTTTCATTTTTAATCCTTCCAAAATGGTGAAAGTTTTACACAAAAATTTTATTTTT
* ** *** * *
201279 ACTTCCAAAATCATGGAAGCTTTACACAAATTTTCGTTCTTTATATTTCCAAAATAATAGAAAAT
66 ACTTCCAAAATCATGGAAGCTTTACACAAATATTCCATCTTTATA-TAAAAAAAAAATACAAAAT
* * *
201344 TTATACAAATTTTCA-TTTTAATCTTTCCAAAATGGTGGAAGTTTTACACAAAAATTTTATTTTT
1 TTATACAAAGTTTCATTTTTAATCCTTCCAAAATGGTGAAAGTTTTACACAAAAATTTTATTTTT
* * *
201408 AATGCTTCCAAAATGATGGAAGTTTTATACAAA-ATTCCATCTTT-TA-AAAAAAAAAAT
66 -A--CTTCCAAAATCATGGAAGCTTTACACAAATATTCCATCTTTATATAAAAAAAAAAT
201465 TCCAAAATGT
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
128 7 0.07
129 44 0.44
130 16 0.16
131 8 0.08
132 26 0.26
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (129 bp):
TTATACAAAGTTTCATTTTTAATCCTTCCAAAATGGTGAAAGTTTTACACAAAAATTTTATTTTT
ACTTCCAAAATCATGGAAGCTTTACACAAATATTCCATCTTTATATAAAAAAAAAATACAAAAT
Found at i:202990 original size:64 final size:64
Alignment explanation
Indices: 202900--203042 Score: 184
Period size: 64 Copynumber: 2.2 Consensus size: 64
202890 TTGTAAAAAA
* * *
202900 TTGAATGGGATTATTGAATGCTTTTTTTGTCAAAAACATCTTCAATAATCCATTC-AAAAAATT
1 TTGAATGGGATTATTGAATGCTTTTTTAGCCAAAAACATCTTCAATAATCCATACAAAAAAATT
* *
202963 TTGAATAGGGATTATTGAA-GGTGTTTTTAGCCAAAAACATCTTCAATAATTCATACAAAAAAAT
1 TTGAAT-GGGATTATTGAATGCT-TTTTTAGCCAAAAACATCTTCAATAATCCATACAAAAAAA-
203027 TT
63 TT
*
203029 TTGTAT-GGATTATT
1 TTGAATGGGATTATT
203043 TACTGACAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
63 8 0.11
64 49 0.70
65 6 0.09
66 7 0.10
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (64 bp):
TTGAATGGGATTATTGAATGCTTTTTTAGCCAAAAACATCTTCAATAATCCATACAAAAAAATT
Found at i:203443 original size:63 final size:64
Alignment explanation
Indices: 203328--203449 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 64
203318 AACTCATTTA
* *
203328 AAAAATTTTGGAGAGGGATTATTAAAGGCGTTTTCGGTTAAAAACACATTAAATAATCTATACG
1 AAAAATTTTGGAGAGAGATTATTAAAGGCGTTTTCGGCTAAAAACACATTAAATAATCTATACG
* * * * *
203392 AAAAATTTTGTA-AGAGATTATTGAAGG-GCTTTTTGGCTAAAAACGCCTTAAATAATCT
1 AAAAATTTTGGAGAGAGATTATTAAAGGCG-TTTTCGGCTAAAAACACATTAAATAATCT
203450 CTTACAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 1 0.02
63 38 0.76
64 11 0.22
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (64 bp):
AAAAATTTTGGAGAGAGATTATTAAAGGCGTTTTCGGCTAAAAACACATTAAATAATCTATACG
Found at i:203459 original size:63 final size:64
Alignment explanation
Indices: 203280--203459 Score: 172
Period size: 64 Copynumber: 2.8 Consensus size: 64
203270 AATTAAATGG
* ** *
203280 GATTATTGAAGGCATTTTTGGCCAAAAACATTTTTAATAA-CTCATTTA-AAAAATTTTGGAGAG
1 GATTATTGAAGGCATTTTTGGCTAAAAACACATTAAATAATCTC--TTACAAAAATTTTGGAGAG
*
203343 G
64 A
* * * * * *
203344 GATTATTAAAGGCGTTTTCGGTTAAAAACACATTAAATAATCT-ATACGAAAAATTTTGTA-AGA
1 GATTATTGAAGGCATTTTTGGCTAAAAACACATTAAATAATCTCTTAC-AAAAATTTTGGAGAGA
* *
203407 GATTATTGAAGGGC-TTTTTGGCTAAAAACGCCTTAAATAATCTCTTACAAAAA
1 GATTATTGAA-GGCATTTTTGGCTAAAAACACATTAAATAATCTCTTACAAAAA
203460 ATTGAATACG
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 2 0.02
63 41 0.44
64 49 0.52
65 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (64 bp):
GATTATTGAAGGCATTTTTGGCTAAAAACACATTAAATAATCTCTTACAAAAATTTTGGAGAGA
Found at i:204087 original size:60 final size:61
Alignment explanation
Indices: 203953--204142 Score: 258
Period size: 60 Copynumber: 3.1 Consensus size: 61
203943 TTTATTAACA
* *
203953 GATTATTCAAGGCATTTTTGG-TCAAAACGCCTTGAATAATCCTATTCAATTTATTGTAAGG
1 GATTATTCAAGGCGTTTTTGGCTAAAAACGCCTTGAATAATCCTATTCAATTT-TTGTAAGG
* * *
204014 GATTATTCAAGGCGTTTTTGGCTAAAAATGCTTTAAATAATCCTATTCAATTTTT-TAAGG
1 GATTATTCAAGGCGTTTTTGGCTAAAAACGCCTTGAATAATCCTATTCAATTTTTGTAAGG
* * * * *
204074 GATTATTCAAGGCGTTTTTAGCCAGAAACGCCTTGAATAACCCTATTGAATTTTTTGTAAGG
1 GATTATTCAAGGCGTTTTTGGCTAAAAACGCCTTGAATAATCCTATTCAA-TTTTTGTAAGG
204136 GATTATT
1 GATTATT
204143 GAATGTGTTT
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
60 47 0.42
61 27 0.24
62 39 0.35
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (61 bp):
GATTATTCAAGGCGTTTTTGGCTAAAAACGCCTTGAATAATCCTATTCAATTTTTGTAAGG
Found at i:204175 original size:62 final size:62
Alignment explanation
Indices: 203953--204178 Score: 233
Period size: 62 Copynumber: 3.7 Consensus size: 62
203943 TTTATTAACA
* * * * * * *
203953 GATTATTCAAGGCATTTTTGGTC-AAAACGCCTTGAATAATCCTATTCAATTTATTGTAAGG
1 GATTATTCAAGGCGTTTTTAGCCAAAAATGCTTTAAATAATCCTATTCAATTTTTTGTAAGG
* *
204014 GATTATTCAAGGCGTTTTTGGCTAAAAATGCTTTAAATAATCCTATTCAA-TTTTT-TAAGG
1 GATTATTCAAGGCGTTTTTAGCCAAAAATGCTTTAAATAATCCTATTCAATTTTTTGTAAGG
* * * * * *
204074 GATTATTCAAGGCGTTTTTAGCCAGAAACGCCTTGAATAACCCTATTGAATTTTTTGTAAGG
1 GATTATTCAAGGCGTTTTTAGCCAAAAATGCTTTAAATAATCCTATTCAATTTTTTGTAAGG
* * * * * * *
204136 GATTATTGAATGTGTTTCTAACCAAAAATACTTTTAATAATCC
1 GATTATTCAAGGCGTTTTTAGCCAAAAATGCTTTAAATAATCC
204179 CCTCAATAAA
Statistics
Matches: 136, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
60 47 0.35
61 29 0.21
62 60 0.44
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (62 bp):
GATTATTCAAGGCGTTTTTAGCCAAAAATGCTTTAAATAATCCTATTCAATTTTTTGTAAGG
Found at i:204175 original size:122 final size:121
Alignment explanation
Indices: 203953--204178 Score: 308
Period size: 122 Copynumber: 1.9 Consensus size: 121
203943 TTTATTAACA
* * *
203953 GATTATTCAAGGCATTTTTGGTCAAAACGCCTTGAATAATCCTATTCAATTTATTGTAAGGGATT
1 GATTATTCAAGGCATTTTTAGCCAAAACGCCTTGAATAACCCTATTCAATTTATTGTAAGGGATT
* ** * *
204018 ATTCAAGGCGTTTTTGGCTAAAAATGCTTTAAATAATCCTATTCAATTTTTTAAGG
66 ATTCAAGGCGTTTCTAACCAAAAATACTTTAAATAATCCTATTCAATTTTTTAAGG
* * *
204074 GATTATTCAAGGCGTTTTTAGCCAGAAACGCCTTGAATAACCCTATTGAATTTTTTGTAAGGGAT
1 GATTATTCAAGGCATTTTTAGCCA-AAACGCCTTGAATAACCCTATTCAATTTATTGTAAGGGAT
* * * *
204139 TATTGAATGTGTTTCTAACCAAAAATACTTTTAATAATCC
65 TATTCAAGGCGTTTCTAACCAAAAATACTTTAAATAATCC
204179 CCTCAATAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
121 21 0.24
122 68 0.76
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (121 bp):
GATTATTCAAGGCATTTTTAGCCAAAACGCCTTGAATAACCCTATTCAATTTATTGTAAGGGATT
ATTCAAGGCGTTTCTAACCAAAAATACTTTAAATAATCCTATTCAATTTTTTAAGG
Found at i:204474 original size:19 final size:20
Alignment explanation
Indices: 204440--204478 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
204430 ACATGCTTAA
204440 TCTCTACCTCCCACCGACTC
1 TCTCTACCTCCCACCGACTC
204460 TCTCTACCT-CCACCGACTC
1 TCTCTACCTCCCACCGACTC
204479 CACTAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.15, C:0.54, G:0.05, T:0.26
Consensus pattern (20 bp):
TCTCTACCTCCCACCGACTC
Found at i:205439 original size:7 final size:7
Alignment explanation
Indices: 205404--205430 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
205394 TATACTTTGT
205404 TATATAA
1 TATATAA
205411 TATATAA
1 TATATAA
205418 TATATAA
1 TATATAA
205425 TATATA
1 TATATA
205431 TAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATATAA
Found at i:205516 original size:12 final size:12
Alignment explanation
Indices: 205495--205547 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
205485 TGTCACTATC
205495 AATTATTTATTT
1 AATTATTTATTT
*
205507 AATT-TATTA-TC
1 AATTAT-TTATTT
*
205518 AATTATTTAATT
1 AATTATTTATTT
205530 AATTATTTATTT
1 AATTATTTATTT
205542 AATTAT
1 AATTAT
205548 ATCCTGAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:208092 original size:27 final size:30
Alignment explanation
Indices: 208027--208093 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 30
208017 TAAAGATATC
208027 ATATTAAAAATTATATGTAAAAAATTAATAA
1 ATATTAAAAATTATA-GTAAAAAATTAATAA
*
208058 ATGGTTAAAAATTA-A-T-AAAAA-TAATAA
1 AT-ATTAAAAATTATAGTAAAAAATTAATAA
208085 TATATTAAA
1 -ATATTAAA
208094 TAATATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
27 11 0.34
28 7 0.22
29 1 0.03
31 3 0.09
32 10 0.31
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (30 bp):
ATATTAAAAATTATAGTAAAAAATTAATAA
Found at i:208485 original size:2 final size:2
Alignment explanation
Indices: 208478--208507 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
208468 CAAGTGATAA
*
208478 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
208508 GTTCATCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:208670 original size:2 final size:2
Alignment explanation
Indices: 208663--208698 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
208653 CTTCTAAATC
*
208663 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
208699 AGTAATCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:209121 original size:203 final size:204
Alignment explanation
Indices: 208762--209146 Score: 745
Period size: 203 Copynumber: 1.9 Consensus size: 204
208752 GTTCATTCAA
*
208762 ATCATCAAATTATTGCCATACCAACCCTATCAACCCTATAACCCTTGACATGTGTCCTTTTTTAA
1 ATCATCAAACTATTGCCATACCAACCCTATCAACCCTATAACCCTTGACATGTGTCCTTTTTTAA
208827 TCGAAATCATTTGCCTTCTACAATTGACTACCACCACCTAAGCCGCCACCATCACCGACCACCCA
66 TCGAAATCATTTGCCTTCTACAATTGACTACCACCACCTAAGCCGCCACCATCACCGACCACCCA
208892 ACTCATCCACCACTTTTGCATACCTAAACCCATCATCGATCACAACCCAAATGCCCAAATCTTGC
131 ACTCATCCACCACTTTTGCATACCTAAACCCATCATCGATCACAACCCAAATGCCCAAATCTTGC
208957 CAAGAATCC
196 CAAGAATCC
*
208966 ATCAT-AAACTATTGCCATACCAACCCTATCAACCCTATAACCCTTGACATGTGTTCTTTTTTAA
1 ATCATCAAACTATTGCCATACCAACCCTATCAACCCTATAACCCTTGACATGTGTCCTTTTTTAA
209030 TCGAAATCATTTGCCTTCTACAATTGACTACCACCACCTAAGCCGCCACCATCACCGACCACCCA
66 TCGAAATCATTTGCCTTCTACAATTGACTACCACCACCTAAGCCGCCACCATCACCGACCACCCA
209095 ACTCATCCACCACTTTTGCATACCTAAACCCATCATCGATCACAACCCAAAT
131 ACTCATCCACCACTTTTGCATACCTAAACCCATCATCGATCACAACCCAAAT
209147 CTTGCCAAGA
Statistics
Matches: 179, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
203 174 0.97
204 5 0.03
ACGTcount: A:0.31, C:0.36, G:0.07, T:0.25
Consensus pattern (204 bp):
ATCATCAAACTATTGCCATACCAACCCTATCAACCCTATAACCCTTGACATGTGTCCTTTTTTAA
TCGAAATCATTTGCCTTCTACAATTGACTACCACCACCTAAGCCGCCACCATCACCGACCACCCA
ACTCATCCACCACTTTTGCATACCTAAACCCATCATCGATCACAACCCAAATGCCCAAATCTTGC
CAAGAATCC
Found at i:219283 original size:12 final size:10
Alignment explanation
Indices: 219234--219275 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
219224 AAAAATTCAT
219234 AAAACCT-AG
1 AAAACCTAAG
*
219243 AAAA-CTCAG
1 AAAACCTAAG
219252 CAAAACCTAAG
1 -AAAACCTAAG
219263 AAAACCTAAG
1 AAAACCTAAG
219273 AAA
1 AAA
219276 CAACCTAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 2 0.07
9 6 0.21
10 17 0.59
11 4 0.14
ACGTcount: A:0.60, C:0.21, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAACCTAAG
Found at i:229795 original size:20 final size:20
Alignment explanation
Indices: 229766--229811 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
229756 GGATAAAAAC
*
229766 TCAATCCAATTCAATTTGAG
1 TCAATTCAATTCAATTTGAG
229786 TCAATTCAATTCAATTTGAG
1 TCAATTCAATTCAATTTGAG
*
229806 TTAATT
1 TCAATT
229812 TGAAATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (20 bp):
TCAATTCAATTCAATTTGAG
Found at i:232702 original size:12 final size:12
Alignment explanation
Indices: 232685--232709 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
232675 TGATTTGTTA
232685 TGTATACAATGC
1 TGTATACAATGC
232697 TGTATACAATGC
1 TGTATACAATGC
232709 T
1 T
232710 ATGTACAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TGTATACAATGC
Found at i:232954 original size:22 final size:22
Alignment explanation
Indices: 232926--232967 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
232916 CTCAAAGTAA
232926 CTATATTTTTATTTTGAATGGT
1 CTATATTTTTATTTTGAATGGT
232948 CTATATTTTTATTTTGAATG
1 CTATATTTTTATTTTGAATG
232968 ATGGAGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.60
Consensus pattern (22 bp):
CTATATTTTTATTTTGAATGGT
Found at i:234399 original size:26 final size:25
Alignment explanation
Indices: 234350--234415 Score: 105
Period size: 26 Copynumber: 2.6 Consensus size: 25
234340 TTAATATAAC
234350 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAATTATTTAT
*
234375 TATTAAAATATTTTAAAATTATTTAT
1 TATTAAAATA-TTAAAAATTATTTAT
234401 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
234416 TATTAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 10 0.27
26 25 0.68
27 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTATTTAT
Found at i:234406 original size:16 final size:15
Alignment explanation
Indices: 234358--234423 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
234348 ACTATTAAAA
234358 TATTAAAAATTATTTAT
1 TATT-AAAATTA-TTAT
234375 TATT-AAA--A-TAT
1 TATTAAAATTATTAT
234386 T-TTAAAATTATTTAT
1 TATTAAAATTA-TTAT
*
234401 TATTAAAATTATTAA
1 TATTAAAATTATTAT
234416 TATTAAAA
1 TATTAAAA
234424 AATAATTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
10 2 0.05
11 7 0.17
13 2 0.05
15 18 0.43
16 9 0.21
17 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAAAATTATTAT
Found at i:241790 original size:27 final size:27
Alignment explanation
Indices: 241760--241814 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
241750 AAATTTAAAA
*
241760 AAATCACATCTCATAAATATAACAACC
1 AAATCACATCTCAAAAATATAACAACC
241787 AAATCACATCTCAAAAATATAACAACC
1 AAATCACATCTCAAAAATATAACAACC
241814 A
1 A
241815 CTAGCAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (27 bp):
AAATCACATCTCAAAAATATAACAACC
Found at i:252556 original size:2 final size:2
Alignment explanation
Indices: 252549--252577 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
252539 TGTTCACCTT
252549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
252578 GAGGAGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:253207 original size:25 final size:25
Alignment explanation
Indices: 253173--253225 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
253163 CAATGAGAGA
** *
253173 TTAGTAATTTAGTATGTTGTTAATT
1 TTAGTAATTTAACATGTAGTTAATT
253198 TTAGTAATTTAACATGTAGTTAATT
1 TTAGTAATTTAACATGTAGTTAATT
253223 TTA
1 TTA
253226 CATTATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (25 bp):
TTAGTAATTTAACATGTAGTTAATT
Found at i:254004 original size:17 final size:17
Alignment explanation
Indices: 253971--254005 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
253961 AAAATTAATT
*
253971 ATTAAAAAATATATAAA
1 ATTAAAAAAAATATAAA
*
253988 ATTAAAAAAAATTTAAA
1 ATTAAAAAAAATATAAA
254005 A
1 A
254006 GTAAGTTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAAAAAATATAAA
Found at i:254030 original size:2 final size:2
Alignment explanation
Indices: 254023--254049 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
254013 GATGCTCTTC
254023 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 A
254050 GAAGCCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:257129 original size:76 final size:78
Alignment explanation
Indices: 257048--257203 Score: 203
Period size: 75 Copynumber: 2.0 Consensus size: 78
257038 TAGTTTTGAA
* * * * *
257048 TCTTTTGTTTATATAAAATAG-TTTTAATTTTTTTGTATGGATTTAACGTGTTGTT-TT-TTATT
1 TCTTTTATATATATAAAATAGTTTTTAA--TTTTTGTATGAATTCAACGTCTTGTTGTTGTTATT
257110 TTTTT-AGATTTTAT
64 TTTTTAAGATTTTAT
* *
257124 TCTTTTATATATATAAAATAGTTTTTAATTTTTGTATGAATTCAATGTCTTGTTGTTGTTTTTTT
1 TCTTTTATATATATAAAATAGTTTTTAATTTTTGTATGAATTCAACGTCTTGTTGTTGTTATTTT
257189 TTTAAGATTTTAT
66 TTTAAGATTTTAT
257202 TC
1 TC
257204 GTAAATATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
75 22 0.32
76 21 0.30
77 15 0.22
78 11 0.16
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.62
Consensus pattern (78 bp):
TCTTTTATATATATAAAATAGTTTTTAATTTTTGTATGAATTCAACGTCTTGTTGTTGTTATTTT
TTTAAGATTTTAT
Found at i:258913 original size:8 final size:9
Alignment explanation
Indices: 258902--258940 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
258892 AAATACCTAA
258902 ATTTTAA-T
1 ATTTTAATT
258910 ATTTTAATT
1 ATTTTAATT
*
258919 AATTTAATT
1 ATTTTAATT
*
258928 ATTTCAATT
1 ATTTTAATT
258937 ATTT
1 ATTT
258941 GTTTTTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTAATT
Found at i:269431 original size:22 final size:22
Alignment explanation
Indices: 269387--269433 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
269377 TTTAAAATTA
**
269387 TAATTTTCAATTTAGTTTTAAT
1 TAATTTTCAATTTAGTTCGAAT
**
269409 TAATTTTTTATTTAGTTCGAAT
1 TAATTTTCAATTTAGTTCGAAT
269431 TAA
1 TAA
269434 ATTTATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (22 bp):
TAATTTTCAATTTAGTTCGAAT
Found at i:269579 original size:27 final size:24
Alignment explanation
Indices: 269561--269609 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
269551 TTAAATATAT
269561 TTAAAATTATTAAAAATTTTCAAAAAA
1 TTAAAA-TATTAAAAA-TTT-AAAAAA
*
269588 TTAAAATATTTAAAATTTAAAA
1 TTAAAATATTAAAAATTTAAAA
269610 TTCTAAACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 3 0.14
26 8 0.38
27 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAAATATTAAAAATTTAAAAAA
Found at i:271509 original size:28 final size:26
Alignment explanation
Indices: 271454--271509 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
271444 ATATATGTAA
*
271454 TTCTAATTGTGTTTTTTTTTTTTGTT
1 TTCTAATTGTGTTTTTTTTTTTTCTT
271480 TTCTAATTGTGTTTTTTTTGTTTTACTT
1 TTCTAATTGTGTTTTTTTT-TTTT-CTT
271508 TT
1 TT
271510 TATTATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 19 0.70
27 4 0.15
28 4 0.15
ACGTcount: A:0.09, C:0.05, G:0.11, T:0.75
Consensus pattern (26 bp):
TTCTAATTGTGTTTTTTTTTTTTCTT
Found at i:271544 original size:20 final size:20
Alignment explanation
Indices: 271519--271556 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
271509 TTATTATTTT
*
271519 ATATTAAAATAATTAAAAAA
1 ATATTAAAATAATGAAAAAA
*
271539 ATATTAAACTAATGAAAA
1 ATATTAAAATAATGAAAA
271557 TTTTTGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
ATATTAAAATAATGAAAAAA
Found at i:274216 original size:21 final size:21
Alignment explanation
Indices: 274175--274216 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
274165 AAGGTAAAAG
** *
274175 GAAAAAGAAAAACTAGGAGAA
1 GAAAAAGAAAAAAAAGAAGAA
274196 GAAAAAGAAAAAAAAGAAGAA
1 GAAAAAGAAAAAAAAGAAGAA
274217 ATAACCTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (21 bp):
GAAAAAGAAAAAAAAGAAGAA
Found at i:274927 original size:13 final size:14
Alignment explanation
Indices: 274909--274938 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
274899 TAATTTTTAT
274909 AAAATAAAAA-ATA
1 AAAATAAAAAGATA
274922 AAAATAAAAAGATA
1 AAAATAAAAAGATA
274936 AAA
1 AAA
274939 TATCTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAATAAAAAGATA
Found at i:274939 original size:13 final size:12
Alignment explanation
Indices: 274907--274940 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
274897 AATAATTTTT
274907 ATAAAATAAAAA
1 ATAAAATAAAAA
274919 ATAAAAATAAAAA
1 AT-AAAATAAAAA
274932 GATAAAATA
1 -ATAAAATA
274941 TCTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 16 0.80
14 2 0.10
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:276482 original size:20 final size:20
Alignment explanation
Indices: 276440--276483 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
276430 TAGATGTATG
**
276440 AATAGTGTAAATAAAACTAA
1 AATAGTGTAAATAAAAAGAA
276460 AATAGTGTAAA-AAAAAGAGA
1 AATAGTGTAAATAAAAAGA-A
276480 AATA
1 AATA
276484 AAAAAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.20
Consensus pattern (20 bp):
AATAGTGTAAATAAAAAGAA
Found at i:278361 original size:28 final size:28
Alignment explanation
Indices: 278329--278391 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
278319 GAAATGATTT
* * *
278329 AAATATATATGTAAATAAACAAATAAAC
1 AAATAAATAAGTAAATAAACAAATAAAA
* *
278357 AAATAAATAAGTAAATTAACATATAAAA
1 AAATAAATAAGTAAATAAACAAATAAAA
278385 AAATAAA
1 AAATAAA
278392 AAATAAACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (28 bp):
AAATAAATAAGTAAATAAACAAATAAAA
Found at i:278391 original size:20 final size:20
Alignment explanation
Indices: 278349--278391 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
278339 GTAAATAAAC
* *
278349 AAATAAACAAATAAATAAGT
1 AAATAAACAAATAAAAAAAT
* *
278369 AAATTAACATATAAAAAAAT
1 AAATAAACAAATAAAAAAAT
278389 AAA
1 AAA
278392 AAATAAACCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATAAACAAATAAAAAAAT
Found at i:280078 original size:14 final size:15
Alignment explanation
Indices: 280053--280081 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
280043 TTGTAGATCA
280053 ATTTTGAATTTTGTT
1 ATTTTGAATTTTGTT
280068 ATTTT-AATTTTGTT
1 ATTTTGAATTTTGTT
280082 GGAATTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (15 bp):
ATTTTGAATTTTGTT
Found at i:288084 original size:14 final size:14
Alignment explanation
Indices: 288049--288084 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
288039 TTAAATTGTT
288049 AGAAAAAATAAATA
1 AGAAAAAATAAATA
*
288063 AGAGAAAATAAATA
1 AGAAAAAATAAATA
*
288077 ATAAAAAA
1 AGAAAAAA
288085 GAATTTTCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (14 bp):
AGAAAAAATAAATA
Found at i:293927 original size:29 final size:30
Alignment explanation
Indices: 293885--293944 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 30
293875 TCACATAAAG
293885 TAAGAGAAGAATAGTACCATTTT-AGTAGT
1 TAAGAGAAGAATAGTACCATTTTCAGTAGT
293914 TAAGAGATA-AATAGTACCATTTTCAGTAGT
1 TAAGAGA-AGAATAGTACCATTTTCAGTAGT
293944 T
1 T
293945 CAAGTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (30 bp):
TAAGAGAAGAATAGTACCATTTTCAGTAGT
Found at i:296754 original size:12 final size:12
Alignment explanation
Indices: 296737--296780 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
296727 ATAATCACAT
296737 AATCAATATTTA
1 AATCAATATTTA
*
296749 AATCAATATCTA
1 AATCAATATTTA
* *
296761 AATTAATA-TCA
1 AATCAATATTTA
296772 AATCAATAT
1 AATCAATAT
296781 CTAATATTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (12 bp):
AATCAATATTTA
Found at i:296779 original size:11 final size:11
Alignment explanation
Indices: 296737--296811 Score: 71
Period size: 11 Copynumber: 6.6 Consensus size: 11
296727 ATAATCACAT
*
296737 AATCAATATTTA
1 AATCAATA-TCA
296749 AATCAATATCTA
1 AATCAATATC-A
*
296761 AATTAATATCA
1 AATCAATATCA
*
296772 AATCAATATCT
1 AATCAATATCA
* *
296783 AAT-ATTCTCTA
1 AATCAATATC-A
296794 AATCAATATCA
1 AATCAATATCA
296805 AATCAAT
1 AATCAAT
296812 TTAAAATATT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
10 4 0.08
11 25 0.49
12 22 0.43
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (11 bp):
AATCAATATCA
Found at i:296785 original size:18 final size:17
Alignment explanation
Indices: 296737--296787 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
296727 ATAATCACAT
296737 AATCAATATTTAA-ATCA
1 AATCAATA-TTAATATCA
296754 ATATCTAA-ATTAATATCA
1 A-ATC-AATATTAATATCA
296772 AATCAATATCTAATAT
1 AATCAATAT-TAATAT
296788 TCTCTAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.07
17 10 0.34
18 15 0.52
19 2 0.07
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (17 bp):
AATCAATATTAATATCA
Found at i:296799 original size:22 final size:22
Alignment explanation
Indices: 296747--296816 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 22
296737 AATCAATATT
296747 TAAATCAATATCTAAATTAATA
1 TAAATCAATATCTAAATTAATA
* *
296769 TCAAATCAATATCTAATATT-CTC
1 T-AAATCAATATCTAA-ATTAATA
* *
296792 TAAATCAATATC-AAATCAATT
1 TAAATCAATATCTAAATTAATA
296813 TAAA
1 TAAA
296817 ATATTACTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.05
21 7 0.17
22 12 0.30
23 16 0.40
24 3 0.08
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATCAATATCTAAATTAATA
Found at i:296820 original size:33 final size:33
Alignment explanation
Indices: 296757--296821 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
296747 TAAATCAATA
* **
296757 TCTAAATTAATATCAAATCAATATCTAATATTC
1 TCTAAATCAATATCAAATCAATATAAAATATTC
*
296790 TCTAAATCAATATCAAATCAATTTAAAATATT
1 TCTAAATCAATATCAAATCAATATAAAATATT
296822 ACTGAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (33 bp):
TCTAAATCAATATCAAATCAATATAAAATATTC
Found at i:296862 original size:10 final size:10
Alignment explanation
Indices: 296847--296881 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
296837 ATAATATCAT
296847 TATTATAAAA
1 TATTATAAAA
296857 TATTATCAAAA
1 TATTAT-AAAA
296868 TATTACTAAAA
1 TATTA-TAAAA
296879 TAT
1 TAT
296882 CATTGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 16 0.70
12 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (10 bp):
TATTATAAAA
Found at i:298076 original size:48 final size:48
Alignment explanation
Indices: 297979--298076 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
297969 ATAAAACTTG
* *
297979 TTAAAGTTATATTATCTCATGTCTATCAAATATTAAATTTTTTATGAT
1 TTAAAATTATATTATCTCATGTCTATCAAATATTAAATTTTTTACGAT
* * * *
298027 TTAAAATTATATTGT-TCCATGTCTATTAAATATTAATTTTTTTGCGAT
1 TTAAAATTATATTATCT-CATGTCTATCAAATATTAAATTTTTTACGAT
298075 TT
1 TT
298077 TATTTTCAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.02
48 42 0.98
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (48 bp):
TTAAAATTATATTATCTCATGTCTATCAAATATTAAATTTTTTACGAT
Found at i:298401 original size:12 final size:12
Alignment explanation
Indices: 298384--298438 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
298374 GGATGTCTAG
*
298384 CCCAAACCCTAA
1 CCCAAACCTTAA
298396 CCCAAACCTTAA
1 CCCAAACCTTAA
* ** *
298408 CTCAATGCATAA
1 CCCAAACCTTAA
*
298420 CCAAAACCTTAA
1 CCCAAACCTTAA
298432 CCCAAAC
1 CCCAAAC
298439 GCTGAGCCAG
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.44, C:0.40, G:0.02, T:0.15
Consensus pattern (12 bp):
CCCAAACCTTAA
Found at i:299073 original size:43 final size:44
Alignment explanation
Indices: 299010--299128 Score: 168
Period size: 44 Copynumber: 2.7 Consensus size: 44
299000 CTTCACCATT
299010 ACTTCCGAGAAGGGATATGCAAAATCAAAGTACCGACCAGTTATC
1 ACTTCCGAGAA-GGATATGCAAAATCAAAGTACCGACCAGTTATC
*
299055 ACTT-CGAGAAGGATATGCAAAATCGAAGGTACCGACCAGTTATC
1 ACTTCCGAGAAGGATATGCAAAATC-AAAGTACCGACCAGTTATC
* * *
299099 ACTTCCGAGGAGGGAAATGGAAAATCAAAG
1 ACTTCCGA-GAAGGATATGCAAAATCAAAG
299129 GAACCGATCG
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
43 14 0.21
44 28 0.42
45 10 0.15
46 14 0.21
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (44 bp):
ACTTCCGAGAAGGATATGCAAAATCAAAGTACCGACCAGTTATC
Found at i:300295 original size:2 final size:2
Alignment explanation
Indices: 300288--300313 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
300278 TTATCTTAAT
300288 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
300314 CACGTATGTA
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):
TA
Found at i:310473 original size:14 final size:14
Alignment explanation
Indices: 310450--310479 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
310440 TAGAAATTTA
310450 TTTTTAAAAAATAT
1 TTTTTAAAAAATAT
*
310464 TTTTTGAAAAATAT
1 TTTTTAAAAAATAT
310478 TT
1 TT
310480 ATATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTTAAAAAATAT
Found at i:310622 original size:25 final size:26
Alignment explanation
Indices: 310593--310658 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
310583 TTAATATAAC
310593 TATTAAAGTAT-TTAAAATTATTTAT
1 TATTAAAGTATATTAAAATTATTTAT
*
310618 TATTAAAGTATATTGAAATTATTTAT
1 TATTAAAGTATATTAAAATTATTTAT
*
310644 TATTAAAAT-TATTAA
1 TATTAAAGTATATTAA
310659 TATTTAAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 16 0.43
26 21 0.57
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (26 bp):
TATTAAAGTATATTAAAATTATTTAT
Found at i:310674 original size:36 final size:35
Alignment explanation
Indices: 310634--310718 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 35
310624 AGTATATTGA
*
310634 AATTATTTATTATTAA-AAT-TATTAATATTTAAGAAT
1 AATTATTTATTAATAATAATAT-TTAATA-TTAA-AAT
310670 AATTATATT-TTAATAATAATATTTAATATTAAAAT
1 AATTAT-TTATTAATAATAATATTTAATATTAAAAT
*
310705 -ATTATATATTAATA
1 AATTATTTATTAATA
310719 TAAAAATACT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
33 1 0.02
34 11 0.26
35 3 0.07
36 16 0.37
37 11 0.26
38 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (35 bp):
AATTATTTATTAATAATAATATTTAATATTAAAAT
Found at i:310675 original size:20 final size:20
Alignment explanation
Indices: 310650--310699 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 20
310640 TTATTATTAA
310650 AATTATTAATATTTAAGAAT
1 AATTATTAATATTTAAGAAT
*
310670 AATTA-T-AT-TTTAATAAT
1 AATTATTAATATTTAAGAAT
310687 AA-TATTTAATATT
1 AATTA-TTAATATT
310700 AAAATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
16 2 0.08
17 10 0.40
18 3 0.12
19 3 0.12
20 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTATTAATATTTAAGAAT
Found at i:310705 original size:21 final size:22
Alignment explanation
Indices: 310681--310726 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
310671 ATTATATTTT
*
310681 AATAATAATAT-TTAATATTAA
1 AATAATAATATATTAATATAAA
*
310702 AAT-ATTATATATTAATATAAA
1 AATAATAATATATTAATATAAA
310723 AATA
1 AATA
310727 CTTTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAATAATATATTAATATAAA
Done.