Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 50 of 147
Found at i:9877760 original size:66 final size:66
Alignment explanation
Indices: 9877634--9877761 Score: 145
Period size: 66 Copynumber: 1.9 Consensus size: 66
9877624 GATAATTTTA
* * * *
9877634 TAGTAAATCATTTATAACTTCATAGAAAATTAGTTATAACTTTAAACTAAATTATCAATAACTTA
1 TAGTAAATCATTCATAACTTCATAGAAAATCAGTTATAACTTTAAAATAAATCATCAATAACTTA
9877699 G
66 G
* * *
9877700 TAGTAAATCATTCATAACTT-AGTAGTAAATCA-TTCATAA-TTTAATAATAAGTCATTAATAAC
1 TAGTAAATCATTCATAACTTCA-TAGAAAATCAGTT-ATAACTTTAA-AATAAATCATCAATAAC
9877762 ATAATAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
65 8 0.15
66 44 0.85
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (66 bp):
TAGTAAATCATTCATAACTTCATAGAAAATCAGTTATAACTTTAAAATAAATCATCAATAACTTA
G
Found at i:9878004 original size:24 final size:24
Alignment explanation
Indices: 9877950--9878013 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
9877940 ATTCATATTT
* *
9877950 TAATAGTAAATTAGTGATATAATT
1 TAATAGTAAATTATTGATATAATA
9877974 TAATAGTAAATTATTGATA-ATATA
1 TAATAGTAAATTATTGATATA-ATA
* *
9877998 TAGTAGTAAATCATTG
1 TAATAGTAAATTATTG
9878014 CTAACTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (24 bp):
TAATAGTAAATTATTGATATAATA
Found at i:9880078 original size:863 final size:847
Alignment explanation
Indices: 9878350--9880062 Score: 2942
Period size: 886 Copynumber: 2.0 Consensus size: 847
9878340 ATATATATAT
* * *
9878350 AAAAGTATGAACTCTAAAACTATTAATAGTGAACGACCTAAATATCTTTATAAATTTTTAAATTA
1 AAAAGTATGAACTCTAAAACTATTAATAGTGAACGACCTAAATACCCTTATAAAATTTTAAATTA
9878415 ACAAATTTATCCTTAAATATGTATAACTTTTATTAATTTATTTAAATTTAATTTAAATCAACTAA
66 ACAAATTTATCCTTAAATATGTATAACTTTTATTAATTTATTTAAATTTAATTTAAATCAACTAA
9878480 AATTAAAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAAAATTTTAATTCTAAAAGTA
131 AATTAAAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAAAATTTTAATTCTAAAAGTA
* *
9878545 TTAAAAGTGATTATCCAAAATATCCTTACTAAATGTTTTTATATGAATTTTTTATTATTAGACTC
196 GTAAAAGTGATTATCCAAAATATCCTTACTAAATGTTTTTATATGAATTTTTCATTATTAGACTC
9878610 TTTCTTTTTATAATTAGGCAAAAAAAATACTAAAAGTGATTGATTATTTAATTTAAAAGATATTA
261 TTTCTTTTTATAATTAGGCAAAAAAAATACTAAAAGTGATTGATTATTTAATTTAAAAGATATTA
*
9878675 AAAAATGATTGATCAAAATGTCATTAGTAATTTTTTTAGAAATTTTAATTTAACTGACTTTTTTT
326 AAAAATGATTGATCAAAATGTCATTAGTAATTTTTTTAGAAATTTTAATTTAAATGACTTTTTTT
9878740 TTATTATTAGACTCTTTTTATAAGTAAATGATTTTTCACATTAAATAATCTAGGTGGTTGAATGA
391 TTATTATTAGACTCTTTTTATAAGTAAATGATTTTTCACATTAAATAATCTAGGTGGTTGAATGA
9878805 TCTAATGTAAATTATTCTAAGTAAACAATTATCTAGTAAAATAAAATTAATTATTTTTGGTGAAT
456 TCTAATGTAAATTATTCTAAGTAAACAATTATCTAGTAAAATAAAATTAATTATTTTTGGTGAAT
*
9878870 TCTATTAATAGTAAATGACCTAAATACCTCTATAAATTTTTAAATTAGCAAATTTATCCTTAAAT
521 TCTATTAATAGTAAATGACCTAAATACCTCTATAAAATTTTAAATTAGCAAATTTATCCTTAAAT
9878935 ATTGATAACTTTTATTAATTTATTTAAATTTAATTTAAATCAATTAAAATTAAAAATAGAGTTTA
586 ATTGATAACTTTTATTAATTTATTTAAATTTAATTTAAATCAATTAAAATTAAAAATAGAGTTTA
*
9879000 TGTAAAATTAAATTTTTTAAAATTTTTAAAATTTAATTTTACAAGTATTAAAAGTGATTGTCTAA
651 TGTAAAATTAAATTATTTAAAATTTTTAAAATTTAATTTTACAAGTATTAAAAGTGATTGTCTAA
9879065 AATATCCTTACTAAATATTTTTATTTGAATTTTTTATTATTAGACTCTTTCTTTTTATAATTAGG
716 AATATCCTTACTAAATATTTTTATTTGAATTTTTTATTATTAGACTCTTTCTTTTTATAATTAGG
9879130 CTAAAAAAAAATACTAAAAGTGATTGATTAAAATACTCTTAATAAAATTTTAATTTAAAAAATAT
781 CTAAAAAAAAATACTAAAAGTGATTGATTAAAATACTCTTAAT-AAA---TAA-TT-----ATAT
9879195 TAAAAAATGATTGATAAA
836 T----AA-GATT-ATAAA
*
9879213 AAAAGTGTGAACTCTAAAACTATTAATAGTGAACGACCTAAATACCCTTATAAAATTTTAAATTA
1 AAAAGTATGAACTCTAAAACTATTAATAGTGAACGACCTAAATACCCTTATAAAATTTTAAATTA
*
9879278 ACAAATTTATCCTTAAATATGTATAACTTTTATTATTTTATTTAAATTTAATTTAAATCAACTAA
66 ACAAATTTATCCTTAAATATGTATAACTTTTATTAATTTATTTAAATTTAATTTAAATCAACTAA
*
9879343 AATTACAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAAAATTTTAATTCTAAAAGTA
131 AATTAAAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAAAATTTTAATTCTAAAAGTA
9879408 GTAAAAGTGATTATCCAAAATATCCTTACTAAATGTTTTTATATGAATTTTTCATTATTAGACTC
196 GTAAAAGTGATTATCCAAAATATCCTTACTAAATGTTTTTATATGAATTTTTCATTATTAGACTC
9879473 TTTCTTTTTATAATTAGGCTAAAAAAAAAATACTAAAAGTGATTGATTAAAATACTCTTAATAAA
261 TTTCTTTTTATAATTAGGC---AAAAAAAATACTAAAAGTGATTG--------A----T--T---
9879538 ATTTTAATTTAAAAGATATTAAAAAATGATTGATCAAAATGTCATTAGTAATTTTTTTAGAAATT
306 A-TTTAATTTAAAAGATATTAAAAAATGATTGATCAAAATGTCATTAGTAATTTTTTTAGAAATT
9879603 TTAATTTAAATGACTTTTTTTTATTATTATTAGACTCTTTTTATAAGTAAATGATTTTTCACATT
370 TTAATTTAAATGAC-TTTTTTT-TTATTATTAGACTCTTTTTATAAGTAAATGATTTTTCACATT
9879668 AAATAATCTAGGTGGTTGAATGATCTAATGTAAATTATTCTAAGTAAACAATTATCTAGTAAAAT
433 AAATAATCTAGGTGGTTGAATGATCTAATGTAAATTATTCTAAGTAAACAATTATCTAGTAAAAT
9879733 AAAATTAATTATTTTTGGTGAATTCTATTAATAGTAAATGACCTAAATACCTCTATAAAATTTTA
498 AAAATTAATTATTTTTGGTGAATTCTATTAATAGTAAATGACCTAAATACCTCTATAAAATTTTA
9879798 AATTAGCAAATTTATCCTTAAATATTGATAACTTTTATTAATTTATTTAAATTTAATTTAAATCA
563 AATTAGCAAATTTATCCTTAAATATTGATAACTTTTATTAATTTATTTAAATTTAATTTAAATCA
9879863 ATTAAAATTAAAAATAGAGTTTATGTAAAATTAAATTATTTAAAA-TTTTAAAATTTTAATTTTA
628 ATTAAAATTAAAAATAGAGTTTATGTAAAATTAAATTATTTAAAATTTTTAAAA-TTTAATTTTA
*
9879927 CAAGTATTAAAAGTGATTGTCTAAAATATCCTTACTAAATGTTTTTATTTGAATTTTTTATTATT
692 CAAGTATTAAAAGTGATTGTCTAAAATATCCTTACTAAATATTTTTATTTGAATTTTTTATTATT
9879992 AGACTCTTTCTTTTTATAATTAGGCTAAAAAAAAAATACTAAAAGTGATTGATTAAAATACTCTT
757 AGACTCTTTCTTTTTATAATTAGGCT-AAAAAAAAATACTAAAAGTGATTGATTAAAATACTCTT
9880057 AATAAA
821 AATAAA
9880063 ATTTTAATTT
Statistics
Matches: 813, Mismatches: 12, Indels: 27
0.95 0.01 0.03
Matches are distributed among these distances:
863 271 0.33
866 23 0.03
874 1 0.00
878 1 0.00
880 1 0.00
883 1 0.00
884 76 0.09
885 15 0.02
886 383 0.47
887 41 0.05
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (847 bp):
AAAAGTATGAACTCTAAAACTATTAATAGTGAACGACCTAAATACCCTTATAAAATTTTAAATTA
ACAAATTTATCCTTAAATATGTATAACTTTTATTAATTTATTTAAATTTAATTTAAATCAACTAA
AATTAAAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAAAATTTTAATTCTAAAAGTA
GTAAAAGTGATTATCCAAAATATCCTTACTAAATGTTTTTATATGAATTTTTCATTATTAGACTC
TTTCTTTTTATAATTAGGCAAAAAAAATACTAAAAGTGATTGATTATTTAATTTAAAAGATATTA
AAAAATGATTGATCAAAATGTCATTAGTAATTTTTTTAGAAATTTTAATTTAAATGACTTTTTTT
TTATTATTAGACTCTTTTTATAAGTAAATGATTTTTCACATTAAATAATCTAGGTGGTTGAATGA
TCTAATGTAAATTATTCTAAGTAAACAATTATCTAGTAAAATAAAATTAATTATTTTTGGTGAAT
TCTATTAATAGTAAATGACCTAAATACCTCTATAAAATTTTAAATTAGCAAATTTATCCTTAAAT
ATTGATAACTTTTATTAATTTATTTAAATTTAATTTAAATCAATTAAAATTAAAAATAGAGTTTA
TGTAAAATTAAATTATTTAAAATTTTTAAAATTTAATTTTACAAGTATTAAAAGTGATTGTCTAA
AATATCCTTACTAAATATTTTTATTTGAATTTTTTATTATTAGACTCTTTCTTTTTATAATTAGG
CTAAAAAAAAATACTAAAAGTGATTGATTAAAATACTCTTAATAAATAATTATATTAAGATTATA
AA
Found at i:9880256 original size:14 final size:17
Alignment explanation
Indices: 9880224--9880256 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
9880214 GATCTAACGT
9880224 AAATTATTCTAAGTAAA
1 AAATTATTCTAAGTAAA
9880241 AAATTA-TC-AAGTAAA
1 AAATTATTCTAAGTAAA
9880256 A
1 A
9880257 TAAAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
AAATTATTCTAAGTAAA
Found at i:9880821 original size:537 final size:538
Alignment explanation
Indices: 9879260--9880863 Score: 2448
Period size: 525 Copynumber: 3.0 Consensus size: 538
9879250 CTAAATACCC
*
9879260 TTATAAAATTTTAAATTAACAAATTTATCCTTAAATATGTATAACTTTTATTATTTTATTTAAAT
1 TTATAAAATTTTAAATTAACAAATTTATCCTTAAATATGTATAACTTTTATTAATTTATTTAAAT
*
9879325 TTAATTTAAATCAACTAAAATTACAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAAA
66 TTAATTTAAATCAACTAAAATTAAAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAAA
* *
9879390 ATTTTAATTCTAAAAGTAGTAAAAGTGATTATCC-AAAATATCCTTACTAAATGTTTTTATATGA
131 ATTTTAATTCTAAAAGTATTAAAAGTGATT-GCCTAAAATATCCTTACTAAATGTTTTTATATGA
*
9879454 ATTTTTCATTATTAGACTCTTTCTTTTTATAATTAGGCTAAAAAAAAAATACTAAAAGTGATTGA
195 ATTTTTTATTATTAGACTCTTTCTTTTTATAATTAGGCT--AAAAAAAATACTAAAAGTGATTGA
9879519 TTAAAATACTCTTAATAAAATTTTAATTTAAAAGATATTAAAAAATGATTGATCAAAATGTCATT
258 TTAAAATACTCTTAATAAAATTTTAATTTAAAA-ATATTAAAAAATGATTGATCAAAATGTCATT
9879584 AGTAATTTTTTTAGAAATTTTAATTTAAATGACTTTTTTTTATTATTATTAGACTCTTTTTATAA
322 AGTAATTTTTTTAGAAATTTTAATTTAAATGAC-TTTTTTTATTATTATTAGACTCTTTTTATAA
9879649 GT-AAATGATTTTTCACATTAAATAATCTAGGTGGTTGAATGATCTAATGTAAATTATTCTAAGT
386 GTAAAATGATTTTTCACATTAAATAATCTAGGTGGTTGAATGATCTAATGTAAATTATTCTAAGT
* * *
9879713 AAACAATTATCTAGTAAAATAAAATTAATTATTTTTGGTGAATTCTATT-AA-T-AG----TA--
451 AAAAAATTATCAAGTAAAATAAAATTAATTGTTTTTGGTGAATTCT-TTCAAGTAAGATTTTATT
**** **
9879769 --A----ATGACCT-AAA-TACCT
515 TTATTTTATTTTTTAAAATTATGT
* *
9879785 CTATAAAATTTTAAATTAGCAAATTTATCCTTAAATAT-TGATAACTTTTATTAATTTATTTAAA
1 TTATAAAATTTTAAATTAACAAATTTATCCTTAAATATGT-ATAACTTTTATTAATTTATTTAAA
* *
9879849 TTTAATTTAAATCAATTAAAATTAAAAATAGAGTTTATGTAAAATTAAATTATTTAAAATTTTAA
65 TTTAATTTAAATCAACTAAAATTAAAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAA
* * * *
9879914 AATTTTAATTTTACAAGTATTAAAAGTGATTGTCTAAAATATCCTTACTAAATGTTTTTATTTGA
130 AATTTTAATTCTAAAAGTATTAAAAGTGATTGCCTAAAATATCCTTACTAAATGTTTTTATATGA
9879979 ATTTTTTATTATTAGACTCTTTCTTTTTATAATTAGGCTAAAAAAAAAATACTAAAAGTGATTGA
195 ATTTTTTATTATTAGACTCTTTCTTTTTATAATTAGGCT--AAAAAAAATACTAAAAGTGATTGA
9880044 TTAAAATACTCTTAATAAAATTTTAATTTAAAAAATATTAAAAAATGATTGATCAAAATGTCATT
258 TTAAAATACTCTTAATAAAATTTTAATTT-AAAAATATTAAAAAATGATTGATCAAAATGTCATT
*
9880109 AGTAATTTTTTTAGAAATTTTAATTTAAATGACTTTTTTTATTATTATTAGACTCTTTTTATGAG
322 AGTAATTTTTTTAGAAATTTTAATTTAAATGACTTTTTTTATTATTATTAGACTCTTTTTATAAG
* *
9880174 TAAAATGATTTTTCGCATTAAATAATCTAGGTGGTTGAATGATCTAACGTAAATTATTCTAAGTA
387 TAAAATGATTTTTCACATTAAATAATCTAGGTGGTTGAATGATCTAATGTAAATTATTCTAAGTA
*
9880239 AAAAATTATCAAGTAAAATAAAATTAATTGTTTTTAGTGAATTCTTTCAAGGTAAGATTTTATTT
452 AAAAATTATCAAGTAAAATAAAATTAATTGTTTTTGGTGAATTCTTTCAA-GTAAGATTTTATTT
9880304 TATTTTATTTTTTAAAATTATGT
516 TATTTTATTTTTTAAAATTATGT
*
9880327 TTATAAAATTTTAAATTAACAAATTTATCCTTAAATATGTAAAACTTTTATTAATTTATTTAAAT
1 TTATAAAATTTTAAATTAACAAATTTATCCTTAAATATGTATAACTTTTATTAATTTATTTAAAT
*
9880392 TTAATTTAAATCAACTAAACTTAAAAATAGAGTTTATGTAAAATT-AATTTTTTAAAAAGTTTTA
66 TTAATTTAAATCAACTAAAATTAAAAATAGAGTTTATGTAAAATTAAATTTTTT-AAAA-TTTTA
* *
9880456 AAATTTTAATTCTAAAAGCATTAAAAATGATTGCCTAAAATATCCTTACTAAATGTTTTTATATG
129 AAATTTTAATTCTAAAAGTATTAAAAGTGATTGCCTAAAATATCCTTACTAAATGTTTTTATATG
* *
9880521 AATTTTTTATTATTAGACTCTTTCTTTTTATAATTAGACT-AAAAAAATATTAAAAGTGATTGAT
194 AATTTTTTATTATTAGACTCTTTCTTTTTATAATTAGGCTAAAAAAAATACTAAAAGTGATTGAT
* * * *
9880585 TAAAATACTCTTAATAAAATTTTAATTTAACCAATGTT-AAAAGTGATTGATTAAAATGTCATTA
259 TAAAATACTCTTAATAAAATTTTAATTTAA-AAATATTAAAAAATGATTGATCAAAATGTCATTA
* * * ** *
9880649 GAAATATTTTTAGAAAATTTAATTTAAATGA-AATTTTT-TTATTATTAGATTCTTTTTATAAGT
323 GTAATTTTTTTAGAAATTTTAATTTAAATGACTTTTTTTATTATTATTAGACTCTTTTTATAAGT
* * * *
9880712 AAAATGATCTTTCACATCAAATAATCTAGGTGGTTAAATGATCTAATGTGAATTATTCTAAGTAA
388 AAAATGATTTTTCACATTAAATAATCTAGGTGGTTGAATGATCTAATGTAAATTATTCTAAGTAA
* * * *
9880777 AAAACTATCAAGTGACATAAAATTAATTGTTTATGGTGAATTCTTTCAATGTAAGATTTTATTTT
453 AAAATTATCAAGTAAAATAAAATTAATTGTTTTTGGTGAATTCTTTCAA-GTAAGATTTTATTTT
9880842 ATTTTATTTTTTAAAATTATGT
517 ATTTTATTTTTTAAAATTATGT
9880864 ATTTATATAA
Statistics
Matches: 990, Mismatches: 63, Indels: 40
0.91 0.06 0.04
Matches are distributed among these distances:
524 36 0.04
525 439 0.44
526 4 0.00
527 1 0.00
528 2 0.00
532 2 0.00
536 1 0.00
537 163 0.16
538 5 0.01
539 54 0.05
540 59 0.06
541 10 0.01
542 110 0.11
543 104 0.11
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (538 bp):
TTATAAAATTTTAAATTAACAAATTTATCCTTAAATATGTATAACTTTTATTAATTTATTTAAAT
TTAATTTAAATCAACTAAAATTAAAAATAGAGTTTATGTAAAATTAAATTTTTTAAAATTTTAAA
ATTTTAATTCTAAAAGTATTAAAAGTGATTGCCTAAAATATCCTTACTAAATGTTTTTATATGAA
TTTTTTATTATTAGACTCTTTCTTTTTATAATTAGGCTAAAAAAAATACTAAAAGTGATTGATTA
AAATACTCTTAATAAAATTTTAATTTAAAAATATTAAAAAATGATTGATCAAAATGTCATTAGTA
ATTTTTTTAGAAATTTTAATTTAAATGACTTTTTTTATTATTATTAGACTCTTTTTATAAGTAAA
ATGATTTTTCACATTAAATAATCTAGGTGGTTGAATGATCTAATGTAAATTATTCTAAGTAAAAA
ATTATCAAGTAAAATAAAATTAATTGTTTTTGGTGAATTCTTTCAAGTAAGATTTTATTTTATTT
TATTTTTTAAAATTATGT
Found at i:9882461 original size:22 final size:22
Alignment explanation
Indices: 9882436--9882517 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
9882426 AAAAAATAAG
* *
9882436 TGATAATTTAATAGTTAATTAT
1 TGATAATTTAATAGTAAATTAA
* * * * *
9882458 TGATTACTTAGTAATAAATCAA
1 TGATAATTTAATAGTAAATTAA
*
9882480 TGATAATTTAATAGTAAATTAG
1 TGATAATTTAATAGTAAATTAA
*
9882502 TAATAATTTAATAGTA
1 TGATAATTTAATAGTA
9882518 TATCAAATTT
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (22 bp):
TGATAATTTAATAGTAAATTAA
Found at i:9882523 original size:44 final size:44
Alignment explanation
Indices: 9882416--9882523 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 44
9882406 TAAATCAAGG
* * * * *
9882416 ATAACTTAACAAAAAAT-AAGTGATAATTTAATAGTTAATTATTG
1 ATAACTTAATAATAAATCAA-TGATAATTTAATAGTAAATTAGTA
* *
9882460 ATTACTTAGTAATAAATCAATGATAATTTAATAGTAAATTAGTA
1 ATAACTTAATAATAAATCAATGATAATTTAATAGTAAATTAGTA
* * *
9882504 ATAATTTAATAGTATATCAA
1 ATAACTTAATAATAAATCAA
9882524 ATTTAGTTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
44 49 0.96
45 2 0.04
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (44 bp):
ATAACTTAATAATAAATCAATGATAATTTAATAGTAAATTAGTA
Found at i:9882576 original size:22 final size:22
Alignment explanation
Indices: 9882551--9882593 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9882541 TAATTGATAG
9882551 TAAATCAA-TGATAAATTAGTAA
1 TAAAT-AATTGATAAATTAGTAA
*
9882573 TAAATAATTGATAATTTAGTA
1 TAAATAATTGATAAATTAGTA
9882594 GTTAAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.37
Consensus pattern (22 bp):
TAAATAATTGATAAATTAGTAA
Found at i:9882716 original size:21 final size:21
Alignment explanation
Indices: 9882648--9882738 Score: 67
Period size: 22 Copynumber: 4.2 Consensus size: 21
9882638 TAAATAATTT
* * *
9882648 ATAACATAATAGTTAATCTATA
1 ATAACTTAATAATAAATC-ATA
*
9882670 ATAACTTAATAATAAATCATGC
1 ATAACTTAATAATAAATCAT-A
*
9882692 ATAATTTAAT-ATAAATCAGTA
1 ATAACTTAATAATAAATCA-TA
* * *
9882713 ATAACTTGATCATTAATCATA
1 ATAACTTAATAATAAATCATA
9882734 GATAA
1 -ATAA
9882739 TTTAGTGGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
21 20 0.36
22 36 0.64
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.35
Consensus pattern (21 bp):
ATAACTTAATAATAAATCATA
Found at i:9882854 original size:22 final size:22
Alignment explanation
Indices: 9882807--9882943 Score: 111
Period size: 22 Copynumber: 6.4 Consensus size: 22
9882797 AATGATATCC
* *
9882807 TAATAGTAAAT-ATATAAAAATG
1 TAATAGTAAATCAT-TAATAATT
* *
9882829 TAATACTAAATCATTGATAATT
1 TAATAGTAAATCATTAATAATT
* *
9882851 TAATAAT-AA--ATTAATAACT
1 TAATAGTAAATCATTAATAATT
* *
9882870 TAGTAGTAAATCATTAATAATA
1 TAATAGTAAATCATTAATAATT
* *
9882892 TAATAGTAAATTACTAATAATT
1 TAATAGTAAATCATTAATAATT
* * *
9882914 TAATTGTAAATCAATGATAATT
1 TAATAGTAAATCATTAATAATT
*
9882936 TAGTAGTA
1 TAATAGTA
9882944 TATTAGTTAA
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
19 13 0.14
20 2 0.02
21 2 0.02
22 71 0.79
23 2 0.02
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.38
Consensus pattern (22 bp):
TAATAGTAAATCATTAATAATT
Found at i:9882855 original size:44 final size:42
Alignment explanation
Indices: 9882746--9882948 Score: 140
Period size: 44 Copynumber: 4.7 Consensus size: 42
9882736 TAATTTAGTG
** * *
9882746 GTAAATCGGTGATAATTTTATAGTAAATAATCAAAAATTAAGTA
1 GTAAATCAATGATAATTTAATAGTAAATTAT-AAAAATTAA-TA
* * * *
9882790 ATGAGTCAATGAT-ATCCTAATAGTAAATATATAAAAATGTAATA
1 GTAAATCAATGATAAT-TTAATAGTAAAT-TATAAAAAT-TAATA
* * * * * *
9882834 CTAAATCATTGATAATTTAATAATAAATTA-ATAACTTAGTA
1 GTAAATCAATGATAATTTAATAGTAAATTATAAAAATTAATA
* * * * *
9882875 GTAAATCATTAATAATATAATAGTAAATTACTAATAATTTAATT
1 GTAAATCAATGATAATTTAATAGTAAATTA-TAA-AAATTAATA
* *
9882919 GTAAATCAATGATAATTTAGTAGTATATTA
1 GTAAATCAATGATAATTTAATAGTAAATTA
9882949 GTTAATCATT
Statistics
Matches: 122, Mismatches: 30, Indels: 14
0.73 0.18 0.08
Matches are distributed among these distances:
41 30 0.25
42 4 0.03
43 5 0.04
44 76 0.62
45 7 0.06
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.37
Consensus pattern (42 bp):
GTAAATCAATGATAATTTAATAGTAAATTATAAAAATTAATA
Found at i:9883116 original size:22 final size:22
Alignment explanation
Indices: 9883004--9883116 Score: 59
Period size: 22 Copynumber: 5.2 Consensus size: 22
9882994 TAAATTAATT
* * * *
9883004 ATAACTTTATAATAAATTATCA
1 ATAACTTAATGATAAATCATTA
* * **
9883026 ATATCTTAATGGTAAATCACCA
1 ATAACTTAATGATAAATCATTA
* * * *
9883048 ACAATTTAAT-AGAAATCATTT
1 ATAACTTAATGATAAATCATTA
*
9883069 ACAACTTAATGATAAAT-ATTTA
1 ATAACTTAATGATAAATCA-TTA
* * *
9883091 ATAACTTGATGGTAAATCATTC
1 ATAACTTAATGATAAATCATTA
9883113 ATAA
1 ATAA
9883117 AATAGAAGTA
Statistics
Matches: 67, Mismatches: 21, Indels: 6
0.71 0.22 0.06
Matches are distributed among these distances:
21 16 0.24
22 50 0.75
23 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (22 bp):
ATAACTTAATGATAAATCATTA
Found at i:9883162 original size:22 final size:22
Alignment explanation
Indices: 9883134--9883175 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9883124 GTAAATATCA
*
9883134 TTGATAATTTAATAGTAAATCT
1 TTGATAATTTAATAATAAATCT
*
9883156 TTGATAATTTAGTAATAAAT
1 TTGATAATTTAATAATAAAT
9883176 AACTGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (22 bp):
TTGATAATTTAATAATAAATCT
Found at i:9883550 original size:22 final size:22
Alignment explanation
Indices: 9883516--9883561 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
9883506 AACCTAACAA
*
9883516 AAATTAATTATAACTTAATAGT
1 AAATTAATGATAACTTAATAGT
*
9883538 AAATTAGTGATAACTTAATAGT
1 AAATTAATGATAACTTAATAGT
9883560 AA
1 AA
9883562 GTAAATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (22 bp):
AAATTAATGATAACTTAATAGT
Found at i:9883603 original size:20 final size:18
Alignment explanation
Indices: 9883578--9883614 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
9883568 TTCAATTTAG
9883578 TAGTAGTTAATTGATAAATT
1 TAGTAG-TAATT-ATAAATT
9883598 TAGTAGTAATTATAAAT
1 TAGTAGTAATTATAAAT
9883615 AATTTAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (18 bp):
TAGTAGTAATTATAAATT
Found at i:9883884 original size:22 final size:22
Alignment explanation
Indices: 9883834--9883884 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
9883824 TAGTAAATTA
9883834 ATGATAACAAAATAATAAATGC
1 ATGATAACAAAATAATAAATGC
* *
9883856 ATAATAACATAATAATAAAT-C
1 ATGATAACAAAATAATAAATGC
9883877 ATTGATAA
1 A-TGATAA
9883885 TTTATATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (22 bp):
ATGATAACAAAATAATAAATGC
Found at i:9883918 original size:22 final size:20
Alignment explanation
Indices: 9883870--9883921 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 20
9883860 TAACATAATA
*
9883870 ATAAATCATTGATAATTTAT
1 ATAAATTATTGATAATTTAT
9883890 ATGTAAATTATTGATAATTTAGT
1 A--TAAATTATTGATAATTTA-T
9883913 CATAAATTA
1 -ATAAATTA
9883922 GTCAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
22 24 0.89
23 1 0.04
24 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (20 bp):
ATAAATTATTGATAATTTAT
Found at i:9884048 original size:44 final size:43
Alignment explanation
Indices: 9884000--9884147 Score: 152
Period size: 44 Copynumber: 3.4 Consensus size: 43
9883990 AAATTATCAG
* *
9884000 TAATTTAGTAGTAAATCATTAACAATTTAATAGTAAATCATTCA
1 TAATTTAGTAGTAAATCATTAATAATTTAATAGTAAATCAAT-A
* * * *
9884044 TAATTTAGTACTAGATCATTCATAAGTTAATAGTAAATCAATA
1 TAATTTAGTAGTAAATCATTAATAATTTAATAGTAAATCAATA
* * * * *
9884087 CTAATTTAGTGGTAAATCATTGATAATTTAATAATATATCACTGA
1 -TAATTTAGTAGTAAATCATTAATAATTTAATAGTAAATCAAT-A
**
9884132 TAGCTTAGTAGTAAAT
1 TAATTTAGTAGTAAAT
9884148 AGTTGATAAT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
43 1 0.01
44 83 0.98
45 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (43 bp):
TAATTTAGTAGTAAATCATTAATAATTTAATAGTAAATCAATA
Found at i:9884127 original size:22 final size:22
Alignment explanation
Indices: 9883941--9884119 Score: 134
Period size: 22 Copynumber: 8.1 Consensus size: 22
9883931 TGATATCTTT
*
9883941 ATAGTAAATCA-TCATTAAATTA
1 ATAGTAAATCATTCA-TAATTTA
*
9883963 ATAGTAAATCA-GCTATAACTTTA
1 ATAGTAAATCATTC-ATAA-TTTA
* * *
9883986 TTA-CAAATTA-TCAGTAATTTA
1 ATAGTAAATCATTCA-TAATTTA
* * *
9884007 GTAGTAAATCATTAACAATTTA
1 ATAGTAAATCATTCATAATTTA
9884029 ATAGTAAATCATTCATAATTTA
1 ATAGTAAATCATTCATAATTTA
* * * *
9884051 GTACTAGATCATTCATAAGTTA
1 ATAGTAAATCATTCATAATTTA
*
9884073 ATAGTAAATCAAT-ACTAATTTA
1 ATAGTAAATCATTCA-TAATTTA
* * *
9884095 GTGGTAAATCATTGATAATTTA
1 ATAGTAAATCATTCATAATTTA
9884117 ATA
1 ATA
9884120 ATATATCACT
Statistics
Matches: 122, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
21 8 0.07
22 105 0.86
23 9 0.07
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.38
Consensus pattern (22 bp):
ATAGTAAATCATTCATAATTTA
Found at i:9884144 original size:66 final size:66
Alignment explanation
Indices: 9884004--9884147 Score: 166
Period size: 66 Copynumber: 2.2 Consensus size: 66
9883994 TATCAGTAAT
* * * *
9884004 TTAGTAGTAAATCATTAACAATTTAATAGTAAATCATTCATAATTTAGTACTAGATCATTCATAA
1 TTAGTAGTAAATCAATAACAATTTAATAGTAAATCATTCATAATTTAATAATAGATCACTCATAA
9884069 G
66 G
* * * * * *
9884070 TTAATAGTAAATCAAT-ACTAATTTAGTGGTAAATCATTGATAATTTAATAATATATCACTGAT-
1 TTAGTAGTAAATCAATAAC-AATTTAATAGTAAATCATTCATAATTTAATAATAGATCACTCATA
9884133 AG
65 AG
9884135 CTTAGTAGTAAAT
1 -TTAGTAGTAAAT
9884148 AGTTGATAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 4 0.06
66 61 0.94
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.38
Consensus pattern (66 bp):
TTAGTAGTAAATCAATAACAATTTAATAGTAAATCATTCATAATTTAATAATAGATCACTCATAA
G
Found at i:9884177 original size:44 final size:44
Alignment explanation
Indices: 9884004--9884200 Score: 121
Period size: 44 Copynumber: 4.5 Consensus size: 44
9883994 TATCAGTAAT
* * * ** * * *
9884004 TTAGTAGTAAATCATTAACAATTTAATAGTAAATCATTCATAAT
1 TTAGTAGTAAATCATTGATAATATAATAAAAAATCAATGATAAC
* * * ** *
9884048 TTAGTACTAGATCATTCATAAGT-TAATAGTAAATCAAT-ACTAAT
1 TTAGTAGTAAATCATTGATAA-TATAATAAAAAATCAATGA-TAAC
* * * * * *
9884092 TTAGTGGTAAATCATTGATAATTTAATAATATATCACTGATAGC
1 TTAGTAGTAAATCATTGATAATATAATAAAAAATCAATGATAAC
*
9884136 TTAGTAGTAAAT-AGTTGATAATATAATAAAAAATTAATGATAAC
1 TTAGTAGTAAATCA-TTGATAATATAATAAAAAATCAATGATAAC
* * * *
9884180 TTAATTGTCAATCTTTGATAA
1 TTAGTAGTAAATCATTGATAA
9884201 ACTTTTTGGA
Statistics
Matches: 122, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
43 3 0.02
44 117 0.96
45 2 0.02
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (44 bp):
TTAGTAGTAAATCATTGATAATATAATAAAAAATCAATGATAAC
Found at i:9884582 original size:20 final size:21
Alignment explanation
Indices: 9884487--9884584 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 21
9884477 AGAAGGTTAA
**
9884487 TTATTAAAATTACATCAAAAGG
1 TTATTAAAATTTTATCAAAA-G
* *
9884509 TTACTAAAATTTTATC-AATG
1 TTATTAAAATTTTATCAAAAG
** * *
9884529 ATTACCAAAATTGTATCGAAAG
1 -TTATTAAAATTTTATCAAAAG
9884551 TTATTAAAATTTTATCAAAAG
1 TTATTAAAATTTTATCAAAAG
9884572 TTATT-AAATTTTA
1 TTATTAAAATTTTA
9884585 CTTATATTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
20 9 0.14
21 38 0.60
22 16 0.25
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (21 bp):
TTATTAAAATTTTATCAAAAG
Found at i:9887149 original size:91 final size:93
Alignment explanation
Indices: 9886988--9887174 Score: 272
Period size: 91 Copynumber: 2.0 Consensus size: 93
9886978 CGAAGAATCG
* * **
9886988 ATGTGCTTTAAGGAATATGCGTTGCTTTTTCCACATCCTGACGAAGAAACGAAGGAGCCATAAAC
1 ATGTGCTTTAAGGAATATGCCTTGCTTTTTCCACATCCTGACGAAGAAACGAAGAAAACATAAAC
*
9887053 TTTCCTA-C-GAGTAAACAAAACGCTCA
66 ATTCCTACCTGAGTAAACAAAACGCTCA
*
9887079 ATGTGCTTTAAGGAATATGCCTTGCTTTTTCCACATCCTGATGAAGAAACGAAGAAAACACT-AA
1 ATGTGCTTTAAGGAATATGCCTTGCTTTTTCCACATCCTGACGAAGAAACGAAGAAAACA-TAAA
*
9887143 CATTCCTACCTTGAGTAAACAAAATGCTCA
65 CATTCCTACC-TGAGTAAACAAAACGCTCA
9887173 AT
1 AT
9887175 TTGTGGATCA
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
91 64 0.75
92 2 0.02
94 19 0.22
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (93 bp):
ATGTGCTTTAAGGAATATGCCTTGCTTTTTCCACATCCTGACGAAGAAACGAAGAAAACATAAAC
ATTCCTACCTGAGTAAACAAAACGCTCA
Found at i:9891489 original size:35 final size:35
Alignment explanation
Indices: 9891437--9891513 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
9891427 GTTTAATTAT
* *
9891437 ATATGTGAAGTCTGTTGTAAGTTTATGCCCAAAAA
1 ATATTTGAAGTCAGTTGTAAGTTTATGCCCAAAAA
*
9891472 ATATTTGAAGTCAGTTGTAGGTTTATGCCCAAAAA
1 ATATTTGAAGTCAGTTGTAAGTTTATGCCCAAAAA
*
9891507 ACATTTG
1 ATATTTG
9891514 GTTTATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (35 bp):
ATATTTGAAGTCAGTTGTAAGTTTATGCCCAAAAA
Found at i:9894655 original size:12 final size:12
Alignment explanation
Indices: 9894638--9894665 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9894628 GCTCAAAAAC
9894638 ACCATTTAGCAA
1 ACCATTTAGCAA
9894650 ACCATTTAGCAA
1 ACCATTTAGCAA
9894662 ACCA
1 ACCA
9894666 ATATCATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (12 bp):
ACCATTTAGCAA
Found at i:9894681 original size:28 final size:28
Alignment explanation
Indices: 9894650--9894721 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
9894640 CATTTAGCAA
*
9894650 ACCATTTAGCAAACCAATATCATACAAT
1 ACCATTCAGCAAACCAATATCATACAAT
*
9894678 ACCATTCAGCAAAACAATATCATACAAT
1 ACCATTCAGCAAACCAATATCATACAAT
9894706 ACCATTCAGCAAACCA
1 ACCATTCAGCAAACCA
9894722 CAATATTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.47, C:0.28, G:0.04, T:0.21
Consensus pattern (28 bp):
ACCATTCAGCAAACCAATATCATACAAT
Found at i:9901764 original size:33 final size:33
Alignment explanation
Indices: 9901726--9901788 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
9901716 TTTATATGAG
9901726 AAAATAAATGATGGTATTGTTAGGTAGCAAATA
1 AAAATAAATGATGGTATTGTTAGGTAGCAAATA
9901759 AAAATAAATGATGGTATTGTTAGGTAGCAA
1 AAAATAAATGATGGTATTGTTAGGTAGCAA
9901789 CACAAATAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (33 bp):
AAAATAAATGATGGTATTGTTAGGTAGCAAATA
Found at i:9901803 original size:33 final size:33
Alignment explanation
Indices: 9901726--9901804 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
9901716 TTTATATGAG
*
9901726 AAAATAAATGATGGTATTGTTAGGTAGCAAATA
1 AAAATAAATGATGGTATTGTTAGGTAGCAAACA
9901759 AAAATAAATGATGGTATTGTTAGGTAGC-AACA
1 AAAATAAATGATGGTATTGTTAGGTAGCAAACA
*
9901791 CAAATAACATGATG
1 AAAATAA-ATGATG
9901805 ATGTATGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
32 9 0.21
33 34 0.79
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (33 bp):
AAAATAAATGATGGTATTGTTAGGTAGCAAACA
Found at i:9902165 original size:30 final size:30
Alignment explanation
Indices: 9902131--9902252 Score: 99
Period size: 30 Copynumber: 4.1 Consensus size: 30
9902121 GGGTTGAGGT
* *
9902131 TTTAAAGTTTTGGTTTTAGGGTTTAGAGTA
1 TTTAAAGTTTTGATTTTAAGGTTTAGAGTA
* * * *
9902161 TTTAAGGTTTCGATTTTAGGGTTTTGATGT-
1 TTTAAAGTTTTGATTTTAAGGTTTAGA-GTA
** * *
9902191 TTTAGGGATTTGATTTTAAGGTTT-GAG-G
1 TTTAAAGTTTTGATTTTAAGGTTTAGAGTA
*
9902219 TTTAAAGTTTT-AGTTTTAAGGTTTAGAATA
1 TTTAAAGTTTTGA-TTTTAAGGTTTAGAGTA
9902249 TTTA
1 TTTA
9902253 GGGTTTAATT
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
27 1 0.01
28 20 0.27
29 4 0.05
30 47 0.64
31 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.25, T:0.51
Consensus pattern (30 bp):
TTTAAAGTTTTGATTTTAAGGTTTAGAGTA
Found at i:9902169 original size:16 final size:14
Alignment explanation
Indices: 9902124--9902242 Score: 82
Period size: 14 Copynumber: 8.1 Consensus size: 14
9902114 TGGGTATGGG
*
9902124 TTGAGGTTTTAAAGTT
1 TTGA-GTTTT-AAGGT
*
9902140 TTG-GTTTTAGGGT
1 TTGAGTTTTAAGGT
9902153 TTAGAGTATTTAAGGT
1 TT-GAGT-TTTAAGGT
*
9902169 TTCGA-TTTTAGGGTT
1 TT-GAGTTTTAAGG-T
*
9902184 TTGATGTTTTAGGGAT
1 TTGA-GTTTTAAGG-T
9902200 TTGA-TTTTAAGGT
1 TTGAGTTTTAAGGT
* *
9902213 TTGAGGTTTAAAGT
1 TTGAGTTTTAAGGT
*
9902227 TTTAGTTTTAAGGT
1 TTGAGTTTTAAGGT
9902241 TT
1 TT
9902243 AGAATATTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
13 10 0.12
14 41 0.49
15 6 0.07
16 27 0.32
ACGTcount: A:0.21, C:0.01, G:0.27, T:0.51
Consensus pattern (14 bp):
TTGAGTTTTAAGGT
Found at i:9902267 original size:13 final size:13
Alignment explanation
Indices: 9902249--9902452 Score: 133
Period size: 13 Copynumber: 14.9 Consensus size: 13
9902239 GTTTAGAATA
9902249 TTTAGGGTTTAAT
1 TTTAGGGTTTAAT
**
9902262 TTTAGGGTTTGGAGG
1 TTTAGGGTTT--AAT
*
9902277 TTTGGGGTTTAAT
1 TTTAGGGTTTAAT
* *
9902290 TATAGGGTTTAAAGG
1 TTTAGGGTTT-AA-T
9902305 TTT-GGGATTTAAT
1 TTTAGGG-TTTAAT
*
9902318 TTTAAGGTTTAGAGGT
1 TTTAGGGTTTA-A--T
9902334 TTT-GTGGTTTAAAAAT
1 TTTAG-GGTTT---AAT
* **
9902350 TTTAAGGTTTGGT
1 TTTAGGGTTTAAT
9902363 TTTAGGGTTTAAT
1 TTTAGGGTTTAAT
* **
9902376 TTTAGAGTTTGGT
1 TTTAGGGTTTAAT
**
9902389 TTTAGGGTTTGGT
1 TTTAGGGTTTAAT
9902402 TTTAGGGTTTAAT
1 TTTAGGGTTTAAT
* **
9902415 TTTAGAGTTTGGT
1 TTTAGGGTTTAAT
9902428 TTTAGGGTTTAAT
1 TTTAGGGTTTAAT
9902441 TTTAGGGTTTAA
1 TTTAGGGTTTAA
9902453 AAATTTAAGA
Statistics
Matches: 147, Mismatches: 30, Indels: 28
0.72 0.15 0.14
Matches are distributed among these distances:
13 102 0.69
14 10 0.07
15 15 0.10
16 18 0.12
18 1 0.01
19 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (13 bp):
TTTAGGGTTTAAT
Found at i:9902290 original size:28 final size:28
Alignment explanation
Indices: 9902144--9902412 Score: 134
Period size: 28 Copynumber: 9.4 Consensus size: 28
9902134 AAAGTTTTGG
* ** *
9902144 TTTTAGGGTTTAGAGTATTTAAGGTTTCGA
1 TTTTAGGGTTTAGAG-GTTTGGGGTTT-AA
* * * *
9902174 TTTTAGGGTTTTGATGTTTTAGGGATTTGA
1 TTTTAGGGTTTAGA-GGTTT-GGGGTTTAA
* ** * *
9902204 TTTTAAGGTTT-GAGGTTTAAAGTTTTAG
1 TTTTAGGGTTTAGAGGTTT-GGGGTTTAA
* ** *
9902232 TTTTAAGGTTTAGAATATTTAGGGTTTAA
1 TTTTAGGGTTTAG-AGGTTTGGGGTTTAA
*
9902261 TTTTAGGGTTTGGAGGTTTGGGGTTTAA
1 TTTTAGGGTTTAGAGGTTTGGGGTTTAA
* * *
9902289 TTATAGGGTTTAAAGGTTTGGGATTTAA
1 TTTTAGGGTTTAGAGGTTTGGGGTTTAA
* *
9902317 TTTTAAGGTTTAGAGGTTTTGTGGTTTAAAAA
1 TTTTAGGGTTTAGAGG-TTTGGGGTTT---AA
* * *
9902349 TTTTAAGGTTT-G-GTTTTAGGGTTTAA
1 TTTTAGGGTTTAGAGGTTTGGGGTTTAA
* * * **
9902375 TTTTAGAGTTT-G-GTTTTAGGGTTTGG
1 TTTTAGGGTTTAGAGGTTTGGGGTTTAA
9902401 TTTTAGGGTTTA
1 TTTTAGGGTTTA
9902413 ATTTTAGAGT
Statistics
Matches: 191, Mismatches: 39, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
26 34 0.18
28 69 0.36
29 36 0.19
30 33 0.17
31 6 0.03
32 13 0.07
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.49
Consensus pattern (28 bp):
TTTTAGGGTTTAGAGGTTTGGGGTTTAA
Found at i:9902398 original size:39 final size:39
Alignment explanation
Indices: 9902349--9902452 Score: 181
Period size: 39 Copynumber: 2.7 Consensus size: 39
9902339 GGTTTAAAAA
*
9902349 TTTTAAGGTTTGGTTTTAGGGTTTAATTTTAGAGTTTGG
1 TTTTAGGGTTTGGTTTTAGGGTTTAATTTTAGAGTTTGG
9902388 TTTTAGGGTTTGGTTTTAGGGTTTAATTTTAGAGTTTGG
1 TTTTAGGGTTTGGTTTTAGGGTTTAATTTTAGAGTTTGG
**
9902427 TTTTAGGGTTTAATTTTAGGGTTTAA
1 TTTTAGGGTTTGGTTTTAGGGTTTAA
9902453 AAATTTAAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (39 bp):
TTTTAGGGTTTGGTTTTAGGGTTTAATTTTAGAGTTTGG
Found at i:9904307 original size:22 final size:22
Alignment explanation
Indices: 9904277--9904319 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9904267 CTGCGAATCA
* *
9904277 AAATTATGTCCGGAGGTCTTAG
1 AAATCATGTCCAGAGGTCTTAG
*
9904299 AAATCATGTTCAGAGGTCTTA
1 AAATCATGTCCAGAGGTCTTA
9904320 CAGAATTGAT
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:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (22 bp):
AAATCATGTCCAGAGGTCTTAG
Found at i:9904464 original size:89 final size:89
Alignment explanation
Indices: 9904309--9904585 Score: 344
Period size: 89 Copynumber: 3.1 Consensus size: 89
9904299 AAATCATGTT
* * * * *
9904309 CAGAGGTCTTACAGAATTGATTGGGATAACA-TCGCAAG-TCAAAAAATAACGAATCGATCGGGA
1 CAGAGGTCTTACAGAATCGACTGGGACAACACT-GCAAGTTGAAAAAATAACGAATCGATCGAGA
* *
9904372 TAACACCATAAATCAAATTTATGCC
65 TAACACCGTAAATCGAATTTATGCC
* * *
9904397 TAGATGTCTTACAGAATCGACTGGGCCAACACTGCAAGTTGAAAAAATAACGAATCGATCGAGAT
1 CAGAGGTCTTACAGAATCGACTGGGACAACACTGCAAGTTGAAAAAATAACGAATCGATCGAGAT
9904462 AACACCGTAAATCGAATTTATGCC
66 AACACCGTAAATCGAATTTATGCC
* * * ** * *
9904486 CAGAGGTCTTATAGAATCAACTAGGACAACACCACAAGTCGAAAAAATAATGAATCGATCGAGAT
1 CAGAGGTCTTACAGAATCGACTGGGACAACACTGCAAGTTGAAAAAATAACGAATCGATCGAGAT
* *
9904551 AACACTGTAAATTGAATTTATGCC
66 AACACCGTAAATCGAATTTATGCC
9904575 C-GAAGGTCTTA
1 CAG-AGGTCTTA
9904586 GAAATTATAC
Statistics
Matches: 164, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
88 31 0.19
89 133 0.81
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (89 bp):
CAGAGGTCTTACAGAATCGACTGGGACAACACTGCAAGTTGAAAAAATAACGAATCGATCGAGAT
AACACCGTAAATCGAATTTATGCC
Found at i:9904812 original size:110 final size:110
Alignment explanation
Indices: 9904481--9904915 Score: 387
Period size: 111 Copynumber: 3.9 Consensus size: 110
9904471 AATCGAATTT
* * *
9904481 ATGCCC-AGAGGTCTTATAGAATCAACTAGGACAACACCACAAGTCGAAAAAATAATGAATCGAT
1 ATGCCCGA-AGGTCTTACAGAATCGACTAGGACAACACCGCAAGTC-AAAAAATAATGAATCGAT
* * * *
9904545 CGAGATAACACTGTAAATTGAATTTATGCCCGAAGGTCTTAGAAATT
64 CGAGATAACACTGCAAATCGAATTTATACCCGAAGGTCTTAGAAATC
* * * * * * *
9904592 ATACTCGAAGGTCTTATAGAATTGACTGGGACAACACCGCAAGTCAAAAAAATAACGAATCAATC
1 ATGCCCGAAGGTCTTACAGAATCGACTAGGACAACACCGCAAGTC-AAAAAATAATGAATCGATC
* **** *
9904657 GAGATAACA-TCACAAATCGAATTTATTTTTGAAGATCTTAGAAATC
65 GAGATAACACT-GCAAATCGAATTTATACCCGAAGGTCTTAGAAATC
* ** *
9904703 ATGCCCGGAGGTCTTACAGAATCGACTAGGACAACATTGCAAGTCAAAAAATTAA-AAATCGATC
1 ATGCCCGAAGGTCTTACAGAATCGACTAGGACAACACCGCAAGTCAAAAAA-TAATGAATCGATC
* * * * *
9904767 GGGATAACA-TCGCGAATCAAATTTATACCTGGAGGTCTTAGAAATC
65 GAGATAACACT-GCAAATCGAATTTATACCCGAAGGTCTTAGAAATC
* * * * * * * * *
9904813 ATGCCTGAATGTCTTACAAAATTGATTGGGATAACACTGCAAGTC-AAAAATAATGAATCGATTG
1 ATGCCCGAAGGTCTTACAGAATCGACTAGGACAACACCGCAAGTCAAAAAATAATGAATCGATCG
* * * *
9904877 GGACAACACTGTGAAA-CGAATTTATACCCGGAGGTCTTA
66 AGATAACACTG-CAAATCGAATTTATACCCGAAGGTCTTA
9904916 TAGAATCGAT
Statistics
Matches: 265, Mismatches: 53, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
108 3 0.01
109 42 0.16
110 90 0.34
111 129 0.49
112 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (110 bp):
ATGCCCGAAGGTCTTACAGAATCGACTAGGACAACACCGCAAGTCAAAAAATAATGAATCGATCG
AGATAACACTGCAAATCGAATTTATACCCGAAGGTCTTAGAAATC
Found at i:9905042 original size:197 final size:198
Alignment explanation
Indices: 9904706--9905189 Score: 596
Period size: 197 Copynumber: 2.4 Consensus size: 198
9904696 AGAAATCATG
* * *
9904706 CCCGGAGGTCTTACAGAATCGACTAGGACAACATTGCAAGTCAAAAAATTAAAAATCGATCGGGA
1 CCCGGAGGTCTTATAGAATCGACTAGGATAACACTGCAAGTCAAAAAATTAAAAATCGATCGGGA
* * * * *
9904771 TAACATCGCGAATCAAATTTATACCTGGAGGTCTTAGAAATCATGCCTGAATGTCTTACAAAATT
66 TAACATCGCAAATCGAATTTATGCCTAGAGGTCTTAGAAATCATGCCGGAATGTCTTACAAAATT
* ** * * * ** *
9904836 GATTGGGATAACACTGCAAG-TCAAAAATAATGAATCGATTGGGACAACACTGTGAAACGAATTT
131 GACTGGGATAACACCACAAGTTAAAAAATAACGAATCGATTGGGACAACACCGCCAAACAAATTT
9904900 ATA
196 ATA
* * * *
9904903 CCCGGAGGTCTTATAGAATCGATTGGGATAACACCGCAAGTCAAAAAATTAAAAATTGATCGGGA
1 CCCGGAGGTCTTATAGAATCGACTAGGATAACACTGCAAGTCAAAAAATTAAAAATCGATCGGGA
* * *
9904968 TAACATCGCAAATCGAATTTATG-CTCAGAGGTCTTAGAAATCATGCTCGGAA-GTTTTATAGAA
66 TAACATCGCAAATCGAATTTATGCCT-AGAGGTCTTAGAAATCATGC-CGGAATGTCTTACAAAA
* * *
9905031 TTGACTGGGATAACACCACAAGTTAAAAAATAACGAATTGATTGGGATAACACCGCCAATCAAAT
129 TTGACTGGGATAACACCACAAGTTAAAAAATAACGAATCGATTGGGACAACACCGCCAAACAAAT
*
9905096 TTATG
194 TTATA
* * * * *
9905101 TCCGGAGGTCTTATAAAATCGACTAGGATAACACTGCAAGTCAAAAAAATAATGAATCGATTGGG
1 CCCGGAGGTCTTATAGAATCGACTAGGATAACACTGCAAGTCAAAAAATTAA-AAATCGATCGGG
* * *
9905166 ATAACACCGTAAATTGAATTTATG
65 ATAACATCGCAAATCGAATTTATG
9905190 TTTGGAGGTC
Statistics
Matches: 243, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
196 2 0.01
197 124 0.51
198 87 0.36
199 30 0.12
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (198 bp):
CCCGGAGGTCTTATAGAATCGACTAGGATAACACTGCAAGTCAAAAAATTAAAAATCGATCGGGA
TAACATCGCAAATCGAATTTATGCCTAGAGGTCTTAGAAATCATGCCGGAATGTCTTACAAAATT
GACTGGGATAACACCACAAGTTAAAAAATAACGAATCGATTGGGACAACACCGCCAAACAAATTT
ATA
Found at i:9905061 original size:110 final size:110
Alignment explanation
Indices: 9904913--9905113 Score: 280
Period size: 110 Copynumber: 1.8 Consensus size: 110
9904903 CCCGGAGGTC
* * *
9904913 TTATAGAATCGATTGGGATAACACCGCAAGTCAAAAAATTAA-AAATTGATCGGGATAACATCGC
1 TTATAGAATCGACTGGGATAACACCACAAGTCAAAAAA-TAACAAATTGATCGGGATAACACCGC
*
9904977 AAATCGAATTTATG-CTCAGAGGTCTTAGAAATCATGCTCGGAAGTT
65 AAATCAAATTTATGTC-CAGAGGTCTTAGAAATCATGCTCGGAAGTT
* * * * *
9905023 TTATAGAATTGACTGGGATAACACCACAAGTTAAAAAATAACGAATTGATTGGGATAACACCGCC
1 TTATAGAATCGACTGGGATAACACCACAAGTCAAAAAATAACAAATTGATCGGGATAACACCGCA
*
9905088 AATCAAATTTATGTCCGGAGGTCTTA
66 AATCAAATTTATGTCCAGAGGTCTTA
9905114 TAAAATCGAC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
109 3 0.04
110 75 0.95
111 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (110 bp):
TTATAGAATCGACTGGGATAACACCACAAGTCAAAAAATAACAAATTGATCGGGATAACACCGCA
AATCAAATTTATGTCCAGAGGTCTTAGAAATCATGCTCGGAAGTT
Found at i:9905174 original size:89 final size:88
Alignment explanation
Indices: 9905023--9905278 Score: 314
Period size: 89 Copynumber: 2.9 Consensus size: 88
9905013 CTCGGAAGTT
* * * * * **
9905023 TTATAGAATTGACTGGGATAACACCACAAGTTAAAAAATAACGAATTGATTGGGATAACACCGCC
1 TTATAAAATCGACTGGGATAACACCGCAAGTAAAAAAATAACGAATCGATTGGGATAACACCGTA
*
9905088 AATCAAATTTATGTCCGGAGGTC
66 AATCGAATTTATGTCCGGAGGTC
* * *
9905111 TTATAAAATCGACTAGGATAACACTGCAAGTCAAAAAAATAATGAATCGATTGGGATAACACCGT
1 TTATAAAATCGACTGGGATAACACCGCAAGT-AAAAAAATAACGAATCGATTGGGATAACACCGT
* **
9905176 AAATTGAATTTATGTTTGGAGGTC
65 AAATCGAATTTATGTCCGGAGGTC
* * * * **
9905200 TTACAAAATCGACTGGGACAATACCGCAAGTTGAAAAAATAACGAATCGATCAGGATAACACCGT
1 TTATAAAATCGACTGGGATAACACCGCAAG-TAAAAAAATAACGAATCGATTGGGATAACACCGT
9905265 AAATCGAATTTATG
65 AAATCGAATTTATG
9905279 CCTAAAGATC
Statistics
Matches: 142, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
88 26 0.18
89 115 0.81
90 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.25
Consensus pattern (88 bp):
TTATAAAATCGACTGGGATAACACCGCAAGTAAAAAAATAACGAATCGATTGGGATAACACCGTA
AATCGAATTTATGTCCGGAGGTC
Found at i:9905349 original size:111 final size:109
Alignment explanation
Indices: 9905195--9905647 Score: 461
Period size: 109 Copynumber: 4.1 Consensus size: 109
9905185 TTATGTTTGG
*
9905195 AGGTCTTACAAAATCGACTGGGACAATACCGCAAGTTGAAAAAATAACGAATCGATCAGGATAAC
1 AGGTCTTACAAAATCGACTGGGACAACACCGCAAG-T-AAAAAATAACGAATCGATCAGGATAAC
* * * *
9905260 ACCGTAAATCGAATTTATGCCTAAAGATCTTAGAAATTATGCTCGA
64 ACCGCAAATCAAATTTATGCCTAAAGGTCTTAGAAATCATGCTCGA
* * *
9905306 AGGTCTTATAAAATCGACTGGGACAACACCGTAAGTAAAAAAAATAACGAATCAATC-GAGATAA
1 AGGTCTTACAAAATCGACTGGGACAACACCGCAAGT--AAAAAATAACGAATCGATCAG-GATAA
* * * * *
9905370 CATCGCGAATCAAATTTATGCCCAAAGGTCTTAGAAATCATACTCGG
63 CACCGCAAATCAAATTTATGCCTAAAGGTCTTAGAAATCATGCTCGA
* * * * * *
9905417 AGGTCTTACATAATCGA-TCGGGATAACACCACAAGTCAAAAATAATGAATCGATCAGGACAACA
1 AGGTCTTACAAAATCGACT-GGGACAACACCGCAAGTAAAAAATAACGAATCGATCAGGATAACA
** * * *
9905481 CCGTGAATCAAATTTATGCCTGAAGGTTTTAGAAATCATGCTCGG
65 CCGCAAATCAAATTTATGCCTAAAGGTCTTAGAAATCATGCTCGA
* * * * *
9905526 AGGTCTTATAGAATCGACTGGGACAACACCGCAAGTCAAAATTAA-GAAATCGATTAGGATAACA
1 AGGTCTTACAAAATCGACTGGGACAACACCGCAAGTAAAAAATAACG-AATCGATCAGGATAACA
* * * * *
9905590 TCACAAATCGAAA-TTATG-CTAGAA-GTCTTACAAATTATGCTTGA
65 CCGCAAATC-AAATTTATGCCTA-AAGGTCTTAGAAATCATGCTCGA
*
9905634 AAGTCTTA-AAAATC
1 AGGTCTTACAAAATC
9905648 TTGACAATAG
Statistics
Matches: 286, Mismatches: 48, Indels: 20
0.81 0.14 0.06
Matches are distributed among these distances:
107 5 0.02
108 25 0.09
109 126 0.44
110 8 0.03
111 122 0.43
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (109 bp):
AGGTCTTACAAAATCGACTGGGACAACACCGCAAGTAAAAAATAACGAATCGATCAGGATAACAC
CGCAAATCAAATTTATGCCTAAAGGTCTTAGAAATCATGCTCGA
Found at i:9905513 original size:109 final size:110
Alignment explanation
Indices: 9905193--9905589 Score: 471
Period size: 111 Copynumber: 3.6 Consensus size: 110
9905183 ATTTATGTTT
* *
9905193 GGAGGTCTTACAAAATCGACTGGGACAATACCGCAAGTTGAAAAAATAACGAATCGATCAGGATA
1 GGAGGTCTTACAAAATCGACTGGGACAACACCGCAAG-TAAAAAAATAACGAATCGATCAGGATA
* * * *
9905258 ACACCGTAAATCGAATTTATGCCTAAAGATCTTAGAAATTATGCTC
65 ACACCGTGAATCAAATTTATGCCTAAAGGTCTTAGAAATCATGCTC
* * * *
9905304 GAAGGTCTTATAAAATCGACTGGGACAACACCGTAAGTAAAAAAAATAACGAATCAATC-GAGAT
1 GGAGGTCTTACAAAATCGACTGGGACAACACCGCAAGT-AAAAAAATAACGAATCGATCAG-GAT
* * * *
9905368 AACATCGCGAATCAAATTTATGCCCAAAGGTCTTAGAAATCATACTC
64 AACACCGTGAATCAAATTTATGCCTAAAGGTCTTAGAAATCATGCTC
* * * * * *
9905415 GGAGGTCTTACATAATCGA-TCGGGATAACACCACAAGT-CAAAAATAATGAATCGATCAGGACA
1 GGAGGTCTTACAAAATCGACT-GGGACAACACCGCAAGTAAAAAAATAACGAATCGATCAGGATA
* *
9905478 ACACCGTGAATCAAATTTATGCCTGAAGGTTTTAGAAATCATGCTC
65 ACACCGTGAATCAAATTTATGCCTAAAGGTCTTAGAAATCATGCTC
* * * * *
9905524 GGAGGTCTTATAGAATCGACTGGGACAACACCGCAAGT-CAAAATTAA-GAAATCGATTAGGATA
1 GGAGGTCTTACAAAATCGACTGGGACAACACCGCAAGTAAAAAAATAACG-AATCGATCAGGATA
9905587 ACA
65 ACA
9905590 TCACAAATCG
Statistics
Matches: 243, Mismatches: 37, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
108 1 0.00
109 114 0.47
110 5 0.02
111 123 0.51
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (110 bp):
GGAGGTCTTACAAAATCGACTGGGACAACACCGCAAGTAAAAAAATAACGAATCGATCAGGATAA
CACCGTGAATCAAATTTATGCCTAAAGGTCTTAGAAATCATGCTC
Found at i:9905624 original size:21 final size:22
Alignment explanation
Indices: 9905600--9905646 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
9905590 TCACAAATCG
*
9905600 AAATTATGCTAG-AAGTCTTAC
1 AAATTATGCTAGAAAGTCTTAA
*
9905621 AAATTATGCTTGAAAGTCTTAA
1 AAATTATGCTAGAAAGTCTTAA
9905643 AAAT
1 AAAT
9905647 CTTGACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (22 bp):
AAATTATGCTAGAAAGTCTTAA
Found at i:9907853 original size:10 final size:10
Alignment explanation
Indices: 9907816--9907854 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
9907806 AAGAAGTCCC
*
9907816 TTTTTTTCTT
1 TTTTTTTGTT
9907826 TTTTTTT-TT
1 TTTTTTTGTT
9907835 ATTTTTTTGTT
1 -TTTTTTTGTT
9907846 TTTTTTTGT
1 TTTTTTTGT
9907855 GATGCCCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.03, C:0.03, G:0.05, T:0.90
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:9908336 original size:21 final size:20
Alignment explanation
Indices: 9908312--9908351 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9908302 TTGAGTGATT
9908312 AGGGTCATGAAAGTATTTGAA
1 AGGGT-ATGAAAGTATTTGAA
* *
9908333 AGGGTGTGGAAGTATTTGA
1 AGGGTATGAAAGTATTTGA
9908352 TGAGCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.35, T:0.30
Consensus pattern (20 bp):
AGGGTATGAAAGTATTTGAA
Found at i:9914421 original size:14 final size:14
Alignment explanation
Indices: 9914404--9914474 Score: 70
Period size: 16 Copynumber: 4.8 Consensus size: 14
9914394 AGGTTTTAAA
9914404 GTTTTGGTTTTAGG
1 GTTTTGGTTTTAGG
*
9914418 GTTTAGAGTATTTAGG
1 GTTTTG-GT-TTTAGG
*
9914434 GTTTTGATTTTAGG
1 GTTTTGGTTTTAGG
9914448 GTTTTGATGTTTTAGG
1 GTTTTG--GTTTTAGG
* *
9914464 GATTTGATTTT
1 GTTTTGGTTTT
9914475 CAGGTTTGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 21 0.45
15 3 0.06
16 23 0.49
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (14 bp):
GTTTTGGTTTTAGG
Found at i:9914433 original size:16 final size:15
Alignment explanation
Indices: 9914404--9914495 Score: 86
Period size: 14 Copynumber: 6.3 Consensus size: 15
9914394 AGGTTTTAAA
9914404 GTTTTG-GTTTTAGG
1 GTTTTGAGTTTTAGG
*
9914418 GTTTAGAGTATTTAGG
1 GTTTTGAGT-TTTAGG
9914434 GTTTTGA-TTTTAGG
1 GTTTTGAGTTTTAGG
9914448 GTTTTGATGTTTTAGG
1 GTTTTGA-GTTTTAGG
*
9914464 GATTTGA-TTTTCA-G
1 GTTTTGAGTTTT-AGG
* *
9914478 G-TTTGAGGTTTGGG
1 GTTTTGAGTTTTAGG
9914492 GTTT
1 GTTT
9914496 AATTATAGGG
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.08
14 29 0.45
15 6 0.09
16 25 0.38
ACGTcount: A:0.14, C:0.01, G:0.33, T:0.52
Consensus pattern (15 bp):
GTTTTGAGTTTTAGG
Found at i:9914438 original size:30 final size:30
Alignment explanation
Indices: 9914404--9914474 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
9914394 AGGTTTTAAA
*
9914404 GTTTTGGTTTTAGGGTTTAGA-GTATTTAGG
1 GTTTTGATTTTAGGGTTTAGATGT-TTTAGG
*
9914434 GTTTTGATTTTAGGGTTTTGATGTTTTAGG
1 GTTTTGATTTTAGGGTTTAGATGTTTTAGG
*
9914464 GATTTGATTTT
1 GTTTTGATTTT
9914475 CAGGTTTGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (30 bp):
GTTTTGATTTTAGGGTTTAGATGTTTTAGG
Found at i:9914517 original size:28 final size:28
Alignment explanation
Indices: 9914476--9914554 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
9914466 TTTGATTTTC
9914476 AGGTTTG-AGGTTTGGGGTTTAATTATA
1 AGGTTTGAAGGTTTGGGGTTTAATTATA
* * *
9914503 GGGTTTGAAGGTTTGGGATTTAATTTTA
1 AGGTTTGAAGGTTTGGGGTTTAATTATA
*
9914531 AGGTTTAAAGGTTTTGGGGTTTAA
1 AGGTTTGAAGG-TTTGGGGTTTAA
9914555 AAATTTTAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.14
28 27 0.61
29 11 0.25
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (28 bp):
AGGTTTGAAGGTTTGGGGTTTAATTATA
Found at i:9914551 original size:16 final size:16
Alignment explanation
Indices: 9914524--9914589 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 16
9914514 TTTGGGATTT
*
9914524 AATTTTAAGGTTTAAA
1 AATTTTAGGGTTTAAA
** *
9914540 GGTTTTGGGGTTTAAA
1 AATTTTAGGGTTTAAA
9914556 AATTTTAGGGTTT---
1 AATTTTAGGGTTTAAA
* *
9914569 AGTTTTAGGATTTAAA
1 AATTTTAGGGTTTAAA
9914585 AATTT
1 AATTT
9914590 AAGATTTAGT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
13 11 0.30
16 26 0.70
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (16 bp):
AATTTTAGGGTTTAAA
Found at i:9914552 original size:57 final size:57
Alignment explanation
Indices: 9914444--9914554 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 57
9914434 GTTTTGATTT
* * * * *
9914444 TAGGGTTTTGATGTTTTAGGGATTTGATTTTCAGGTTTGAGGTTTGGGGTTTAATTA
1 TAGGGTTTTGAAGGTTTAGGGATTTAATTTTAAGGTTTAAGGTTTGGGGTTTAATTA
9914501 TAGGG-TTTGAAGGTTT-GGGATTTAATTTTAAGGTTTAAAGGTTTTGGGGTTTAA
1 TAGGGTTTTGAAGGTTTAGGGATTTAATTTTAAGGTTT-AAGG-TTTGGGGTTTAA
9914555 AAATTTTAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 18 0.38
56 12 0.26
57 17 0.36
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.47
Consensus pattern (57 bp):
TAGGGTTTTGAAGGTTTAGGGATTTAATTTTAAGGTTTAAGGTTTGGGGTTTAATTA
Found at i:9914908 original size:26 final size:25
Alignment explanation
Indices: 9914840--9914909 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 25
9914830 TTATTTATTC
9914840 TTATTTTT-ATTATTTTTTTAAGATA
1 TTATTTTTAATTA-TTTTTTAAGATA
* *
9914865 TTATTTTTAATCA-TTTTTAATATA
1 TTATTTTTAATTATTTTTTAAGATA
9914889 -TATTTTTTAATTATTATTTTA
1 TTA-TTTTTAATTATT-TTTTA
9914910 CTTGTTTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 2 0.05
24 19 0.50
25 9 0.24
26 8 0.21
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (25 bp):
TTATTTTTAATTATTTTTTAAGATA
Found at i:9916209 original size:15 final size:15
Alignment explanation
Indices: 9916191--9916219 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9916181 TTAAACCATT
9916191 ATTATTATTATTAAA
1 ATTATTATTATTAAA
9916206 ATTATTATTATTAA
1 ATTATTATTATTAA
9916220 TGAGAATTGA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTATTATTAAA
Found at i:9917797 original size:161 final size:161
Alignment explanation
Indices: 9917486--9917801 Score: 431
Period size: 161 Copynumber: 2.0 Consensus size: 161
9917476 TAAATTAATA
* * *
9917486 GTTATTGTTCTGTTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTATCCAAAGTATT
1 GTTATTGTTCTATTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACTTATCCAAAGTATT
* **
9917551 GAACTTAGTTACTATGGTTGATATGTATGAAAAAATTATTGTTTACATCTATGTAGGACTTTTTA
66 GAACTTAGTTACTATGGTTGATATATATGAAAAAATTATCATTTACATCTATGTAGGACTTTTTA
*
9917616 TGCCGTTAATAGGTAAAAATACAAAATTGTT
131 TGCCGTTAATAGGCAAAAATACAAAATTGTT
*
9917647 GTTATTGTTCTATTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAA-TGAT
1 GTTATTGTTCTATTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACTTATCCAAAGT-AT
* * * * ** * *
9917711 TGAACTTGGTTTCTATGGTTGATATATGTGACAAAATTATCATTTATGTCTATTTGGGACTATTT
65 TGAACTTAGTTACTATGGTTGATATATATGAAAAAATTATCATTTACATCTATGTAGGACT-TTT
*
9917776 T-TGCCTTTTAA-AGGCAAAAATACAAA
129 TATGCC-GTTAATAGGCAAAAATACAAA
9917802 TTAAACTTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
160 1 0.01
161 126 0.93
162 8 0.06
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (161 bp):
GTTATTGTTCTATTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACTTATCCAAAGTATT
GAACTTAGTTACTATGGTTGATATATATGAAAAAATTATCATTTACATCTATGTAGGACTTTTTA
TGCCGTTAATAGGCAAAAATACAAAATTGTT
Found at i:9919289 original size:34 final size:34
Alignment explanation
Indices: 9919250--9919326 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
9919240 CTTATCATAT
* **
9919250 AAACGCCACCATATTAGTGGTGTTTTTCTA-ATAC
1 AAACGCCACCAAATTAGTGGCATTTTTC-AGATAC
**
9919284 AAACGCCATTAAATTAGTGGCATTTTTCAGATAC
1 AAACGCCACCAAATTAGTGGCATTTTTCAGATAC
*
9919318 AAATGCCAC
1 AAACGCCAC
9919327 TAAAATAATG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
33 1 0.03
34 34 0.97
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (34 bp):
AAACGCCACCAAATTAGTGGCATTTTTCAGATAC
Found at i:9921019 original size:16 final size:16
Alignment explanation
Indices: 9920998--9921029 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9920988 GCCTTGACTT
9920998 GAGTTGCAGTTGGCTA
1 GAGTTGCAGTTGGCTA
9921014 GAGTTGCAGTTGGCTA
1 GAGTTGCAGTTGGCTA
9921030 TATGGCTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.38, T:0.31
Consensus pattern (16 bp):
GAGTTGCAGTTGGCTA
Found at i:9926766 original size:19 final size:20
Alignment explanation
Indices: 9926744--9926790 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
9926734 AGGGTTTTGT
9926744 TTAGGGTTTTA-GATTTTAC
1 TTAGGGTTTTAGGATTTTAC
*
9926763 TTAGAG-TTTAGGATTTTAC
1 TTAGGGTTTTAGGATTTTAC
*
9926782 CTAGGGTTT
1 TTAGGGTTT
9926791 CGAACTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 17 0.74
20 2 0.09
ACGTcount: A:0.21, C:0.06, G:0.23, T:0.49
Consensus pattern (20 bp):
TTAGGGTTTTAGGATTTTAC
Found at i:9926891 original size:15 final size:15
Alignment explanation
Indices: 9926873--9926915 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
9926863 TGTGTTTGAG
9926873 GTTTTAAGATTTCGA
1 GTTTTAAGATTTCGA
* *
9926888 GTTTTAAGGTTTTGA
1 GTTTTAAGATTTCGA
*
9926903 ATGTTTAAGATTT
1 GT-TTTAAGATTT
9926916 TAAAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.51
Consensus pattern (15 bp):
GTTTTAAGATTTCGA
Found at i:9927436 original size:13 final size:13
Alignment explanation
Indices: 9927418--9927442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9927408 CTAAGCAAGA
9927418 TTTTTAATTTTTT
1 TTTTTAATTTTTT
9927431 TTTTTAATTTTT
1 TTTTTAATTTTT
9927443 ATGTTCATTC
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTAATTTTTT
Found at i:9927580 original size:19 final size:22
Alignment explanation
Indices: 9927545--9927590 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
9927535 AGTATTAATA
9927545 ATTTTAATTTTGCAAGA-AT-T
1 ATTTTAATTTTGCAAGACATGT
*
9927565 ATTTTATTTTTG-AAGACATGT
1 ATTTTAATTTTGCAAGACATGT
9927586 ATTTT
1 ATTTT
9927591 TTATATTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 13 0.57
21 6 0.26
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (22 bp):
ATTTTAATTTTGCAAGACATGT
Found at i:9928314 original size:15 final size:14
Alignment explanation
Indices: 9928269--9928302 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9928259 GCCACCATAC
*
9928269 TTTTC-TCTTTCCT
1 TTTTCTTCTTTTCT
9928282 TTTTCTTCTTTTCT
1 TTTTCTTCTTTTCT
9928296 TTTTCTT
1 TTTTCTT
9928303 TATCTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTCTTTTCT
Found at i:9928319 original size:20 final size:20
Alignment explanation
Indices: 9928268--9928318 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
9928258 CGCCACCATA
* *
9928268 CTTTTCTCTTTCCTTTTTCTT
1 CTTTTCT-TTTTCTTTATCTT
9928289 CTTTTCTTTTTCTTTATCTT
1 CTTTTCTTTTTCTTTATCTT
9928309 CTTTT-TTTTT
1 CTTTTCTTTTT
9928319 TTTTTTTGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.18
20 16 0.57
21 7 0.25
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTTTCTTTTTCTTTATCTT
Found at i:9928442 original size:19 final size:20
Alignment explanation
Indices: 9928404--9928447 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
9928394 ACTGCAATTT
9928404 TTTTTTTTTGTATTTGTTGG
1 TTTTTTTTTGTATTTGTTGG
9928424 TTTTTTTTTGTGA-TT-TTGG
1 TTTTTTTTTGT-ATTTGTTGG
9928443 TTTTT
1 TTTTT
9928448 CGGGTGCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.39
20 13 0.57
21 1 0.04
ACGTcount: A:0.05, C:0.00, G:0.18, T:0.77
Consensus pattern (20 bp):
TTTTTTTTTGTATTTGTTGG
Found at i:9930789 original size:27 final size:28
Alignment explanation
Indices: 9930721--9930791 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
9930711 AAAAATTTAT
* *
9930721 TTAATAAA-TATGATTAATTTTATTTGAA
1 TTAA-AAATTATGATTAATTTCATTAGAA
* * *
9930749 TTAAAATTTTTGATTAATTTCATTAGTA
1 TTAAAAATTATGATTAATTTCATTAGAA
9930777 -TAAAAATTATGATTA
1 TTAAAAATTATGATTA
9930792 GTTTGATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
27 15 0.43
28 20 0.57
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.49
Consensus pattern (28 bp):
TTAAAAATTATGATTAATTTCATTAGAA
Found at i:9930840 original size:18 final size:17
Alignment explanation
Indices: 9930817--9930856 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9930807 GAAAGGAAAA
*
9930817 AAATTTCTTAAATAATTC
1 AAATTTATT-AATAATTC
*
9930835 AAATTTATTTATAATTC
1 AAATTTATTAATAATTC
9930852 AAATT
1 AAATT
9930857 AATCTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTATTAATAATTC
Found at i:9931087 original size:10 final size:10
Alignment explanation
Indices: 9931066--9931094 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9931056 AGTAAATAAT
9931066 AAATTT-AAA
1 AAATTTAAAA
9931075 AAATTTAAAA
1 AAATTTAAAA
9931085 AAATTTAAAA
1 AAATTTAAAA
9931095 GAAAACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:9931217 original size:28 final size:29
Alignment explanation
Indices: 9931175--9931249 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
9931165 TAATAAAAAA
*
9931175 TATTTAATAAATTATGATCAATTTTATGAG
1 TATTTAA-AAATTATGATCAATTTCATGAG
* * *
9931205 -ATTTAAAAATTATGATTAATTTCCTTAG
1 TATTTAAAAATTATGATCAATTTCATGAG
*
9931233 TATTAAAAAATTATGAT
1 TATTTAAAAATTATGAT
9931250 TAGTTTGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (29 bp):
TATTTAAAAATTATGATCAATTTCATGAG
Found at i:9931249 original size:29 final size:28
Alignment explanation
Indices: 9931178--9931251 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
9931168 TAAAAAATAT
* * *
9931178 TTAATAAATTATGATCAATTTTATGAGA
1 TTAAAAAATTATGATTAATTTCATGAGA
* * *
9931206 TTTAAAAATTATGATTAATTTCCTTAGTA
1 TTAAAAAATTATGATTAATTTCATGAG-A
9931235 TTAAAAAATTATGATTA
1 TTAAAAAATTATGATTA
9931252 GTTTGATTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 21 0.55
29 17 0.45
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (28 bp):
TTAAAAAATTATGATTAATTTCATGAGA
Found at i:9932549 original size:28 final size:28
Alignment explanation
Indices: 9932482--9932562 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
9932472 AAAGAAAAGA
*
9932482 TAATTA-AATTTAATAAA-TATAATTAATT
1 TAATTAGAA-TTAA-AAATTATGATTAATT
*
9932510 TAATTGGAATTAAAAATTATGATTAATT
1 TAATTAGAATTAAAAATTATGATTAATT
* *
9932538 TCATTAGTATTAAAAATTATGATTA
1 TAATTAGAATTAAAAATTATGATTA
9932563 GTTTGATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.07
28 41 0.89
29 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (28 bp):
TAATTAGAATTAAAAATTATGATTAATT
Found at i:9932745 original size:24 final size:24
Alignment explanation
Indices: 9932683--9932752 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
9932673 TAAACTATTC
* *
9932683 ATTTATTCATTTAACATACAAATT
1 ATTTATTTATTTAACATATAAATT
* * *
9932707 GTTTGTTTATATAACATATAAATT
1 ATTTATTTATTTAACATATAAATT
* *
9932731 ATTTATTTGTTTAACATGTAAA
1 ATTTATTTATTTAACATATAAA
9932753 AAAAAGAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTTATTTATTTAACATATAAATT
Found at i:9933692 original size:3 final size:3
Alignment explanation
Indices: 9933684--9933736 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
9933674 AAAATTTTCA
9933684 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9933732 TAT TA
1 TAT TA
9933737 CTTTTTAACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9933903 original size:22 final size:22
Alignment explanation
Indices: 9933873--9933932 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 22
9933863 AATGAGTTTC
9933873 AATAA-TATATAATTATTATTA
1 AATAATTATATAATTATTATTA
*
9933894 ATTAATTATATAA-TATTA-TA
1 AATAATTATATAATTATTATTA
*
9933914 AATAATTTTA-AATT-TTATT
1 AATAATTATATAATTATTATT
9933933 TTCAATAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 5 0.15
20 12 0.36
21 9 0.27
22 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATAATTATATAATTATTATTA
Found at i:9933991 original size:55 final size:55
Alignment explanation
Indices: 9933907--9934025 Score: 168
Period size: 55 Copynumber: 2.2 Consensus size: 55
9933897 AATTATATAA
* * *
9933907 TATTATAAATAATTTTAAATTTTATTTTCAATAGCTTT-ATATGATAAATACAACC
1 TATTATAAAAAATTTTAAAATTTATTTTCAAT-GATTTCATATGATAAATACAACC
* *
9933962 TATTATAAAAAATTTTAAAATTTATTTTCAATGATTTCGTATGATAAATACAATC
1 TATTATAAAAAATTTTAAAATTTATTTTCAATGATTTCATATGATAAATACAACC
*
9934017 TAATATAAA
1 TATTATAAA
9934026 TCATATGATA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 4 0.07
55 53 0.93
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.44
Consensus pattern (55 bp):
TATTATAAAAAATTTTAAAATTTATTTTCAATGATTTCATATGATAAATACAACC
Found at i:9934387 original size:28 final size:28
Alignment explanation
Indices: 9934344--9934406 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
9934334 ATTTGTATTT
9934344 TATATAATTTGCATTTTAAAGTTT-TACA
1 TATATAATTTGCATTTTAAA-TTTATACA
** * *
9934372 TATATAATTTTTATTTTTAATTTATATA
1 TATATAATTTGCATTTTAAATTTATACA
9934400 TATATAA
1 TATATAA
9934407 GAATTAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (28 bp):
TATATAATTTGCATTTTAAATTTATACA
Found at i:9935606 original size:14 final size:15
Alignment explanation
Indices: 9935585--9935624 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
9935575 TTTGTTGTTT
9935585 TATAATAATAATTAA
1 TATAATAATAATTAA
*
9935600 T-TAATAATAAATAA
1 TATAATAATAATTAA
9935614 TATAAT-ATAAT
1 TATAATAATAAT
9935625 AAAAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAATAATAATTAA
Found at i:9935608 original size:17 final size:20
Alignment explanation
Indices: 9935586--9935626 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
9935576 TTGTTGTTTT
9935586 ATAAT-AATAAT-TAAT-TA
1 ATAATAAATAATATAATATA
9935603 ATAATAAATAATATAATATA
1 ATAATAAATAATATAATATA
9935623 ATAA
1 ATAA
9935627 AAGTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 6 0.29
19 4 0.19
20 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAATAAATAATATAATATA
Found at i:9935627 original size:17 final size:17
Alignment explanation
Indices: 9935584--9935627 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
9935574 TTTTGTTGTT
9935584 TTATAAT-AATAATTAA
1 TTATAATAAATAATTAA
9935600 TTAATAATAAATAATATAA
1 TT-ATAATAAATAAT-TAA
9935619 -TATAATAAA
1 TTATAATAAA
9935628 AGTTTTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 13 0.52
18 7 0.28
19 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTATAATAAATAATTAA
Found at i:9938530 original size:25 final size:26
Alignment explanation
Indices: 9938478--9938532 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 26
9938468 AGGAGATCTA
9938478 GGTGGCGTAGGGTAGCTATAGGTGGCT
1 GGTGGCGTAGGGTAGC-ATAGGTGGCT
9938505 GGTGAGCGT-GGGTAGC-TAGGTGGCT
1 GGTG-GCGTAGGGTAGCATAGGTGGCT
9938530 GGT
1 GGT
9938533 TGGGTAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 12 0.44
27 11 0.41
28 4 0.15
ACGTcount: A:0.13, C:0.11, G:0.51, T:0.25
Consensus pattern (26 bp):
GGTGGCGTAGGGTAGCATAGGTGGCT
Found at i:9938614 original size:23 final size:23
Alignment explanation
Indices: 9938579--9938632 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
9938569 CCCCTTGACT
9938579 TTTGTCTTATTTTCGTT-TCTTTTG
1 TTTGT-TTATTTT-GTTGTCTTTTG
* *
9938603 TTTGTTTATTTTTTTGTTTTTTG
1 TTTGTTTATTTTGTTGTCTTTTG
9938626 TTTGTTT
1 TTTGTTT
9938633 TGTTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 20 0.74
24 5 0.19
ACGTcount: A:0.04, C:0.06, G:0.13, T:0.78
Consensus pattern (23 bp):
TTTGTTTATTTTGTTGTCTTTTG
Found at i:9938619 original size:16 final size:16
Alignment explanation
Indices: 9938598--9938636 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9938588 TTTTCGTTTC
9938598 TTTTGTTTGTTTATTT-
1 TTTTGTTT-TTTATTTG
*
9938614 TTTTGTTTTTTGTTTG
1 TTTTGTTTTTTATTTG
9938630 TTTTGTT
1 TTTTGTT
9938637 AAATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (16 bp):
TTTTGTTTTTTATTTG
Found at i:9939017 original size:47 final size:45
Alignment explanation
Indices: 9938855--9939221 Score: 412
Period size: 47 Copynumber: 8.0 Consensus size: 45
9938845 TTGAAAGTTT
* * * *
9938855 AAAAGGCTCCTTTTAGCAGAGGTTCAACAACTTTAAAAATTCTCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTCTC-TG
* * *
9938902 AAAAAAGCTCTTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCTT
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTG
* * **
9938948 AAAAAGCTCTTCTTAGCAGAGGCTCAATGACTTTAAAATCTCATCTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TC-TCTG
*
9938995 AAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCT-
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTG
* * *
9939039 TAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCTT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTG
* * *
9939084 AAAAAGCTTCTATCAGCAGAAGCTCAACAACTTTAAAATTCTCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTC-TG
* *
9939130 AAAAAGGCTCCTCTCAACAGAAGCTCAACAACTTTAAAATTTCATCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TTC-TC-TG
* * * * *
9939179 GAAAAGCTACTCTTAGTAGAGGCTCAATAACTTTAAAATTCTC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTC
9939222 ATATGTTTTC
Statistics
Matches: 276, Mismatches: 36, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
44 41 0.15
45 76 0.28
46 13 0.05
47 79 0.29
48 58 0.21
49 9 0.03
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (45 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTG
Found at i:9939022 original size:92 final size:91
Alignment explanation
Indices: 9938853--9939221 Score: 465
Period size: 92 Copynumber: 4.0 Consensus size: 91
9938843 TTTTGAAAGT
* * * *
9938853 TTAAAAGGCTCCTTTTAGCAGAGGTTCAACAACTTTAAAAATTCTCTTGAAAAAAGCTCTTCTCA
1 TTAAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTT-AAAATTCTCTTG-AAAAAGCTCCTCTCA
*
9938918 GCAGAGGCTCCACAACTTTAAAATTCTC
64 GCAGAGGCTCAACAACTTTAAAATTCTC
* **
9938946 TTAAAAAGCTCTTCTTAGCAGAGGCTCAATGACTTTAAAA-TCTCATCTGAAAAAGCTCCTCTCA
1 TTAAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTC-T-TGAAAAAGCTCCTCTCA
*
9939010 GCAGAGGCTCCACAACTTTAAAATTCTC
64 GCAGAGGCTCAACAACTTTAAAATTCTC
* *
9939038 TT-AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCTT-AAAAAGCTTCTATCAGC
1 TTAAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
*
9939101 AGAAGCTCAACAACTTTAAAATTCTC
66 AGAGGCTCAACAACTTTAAAATTCTC
* * * * *
9939127 TTGAAAAAGGCTCCTCTCAACAGAAGCTCAACAACTTTAAAATTTCATCTTGGAAAAGCTACTCT
1 TT-AAAAA-GCTCCTCTTAGCAGAGGCTCAACAACTTTAAAA-TTC-TCTTGAAAAAGCTCCTCT
* * *
9939192 TAGTAGAGGCTCAATAACTTTAAAATTCTC
62 CAGCAGAGGCTCAACAACTTTAAAATTCTC
9939222 ATATGTTTTC
Statistics
Matches: 243, Mismatches: 24, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
89 41 0.17
90 1 0.00
91 43 0.18
92 83 0.34
93 35 0.14
94 4 0.02
95 36 0.15
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (91 bp):
TTAAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
AGAGGCTCAACAACTTTAAAATTCTC
Found at i:9939069 original size:136 final size:136
Alignment explanation
Indices: 9938855--9939221 Score: 463
Period size: 136 Copynumber: 2.6 Consensus size: 136
9938845 TTGAAAGTTT
* * * * * *
9938855 AAAAGGCTCCTTTTAGCAGAGGTTCAACAACTTTAAAAATTCTCTTGAAAAAAGCTCTTCTCAGC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTCTCTTG--AAAAGCTCCTCTTAGC
* * **
9938920 AGAGGCTCCACAACTTTAAAATTCTCTTAAAAAGC-TCT-TCTTAGCAGAGGCTCAATGACTTTA
63 AGAGGCTCAACAACTTTAAAATTCTCTTAAAAAGCTTCTATC--AGCAGAAGCTCAACAACTTTA
9938983 AAA-TCTCATCTG
126 AAATTCTC-T-TG
*
9938995 AAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAATTCTCTT-AAAAGCTCCTCTTAGCAGA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAGCTCCTCTTAGCAGA
9939059 GGCTCAACAACTTTAAAATTCTCTTAAAAAGCTTCTATCAGCAGAAGCTCAACAACTTTAAAATT
66 GGCTCAACAACTTTAAAATTCTCTTAAAAAGCTTCTATCAGCAGAAGCTCAACAACTTTAAAATT
9939124 CTCTTG
131 CTCTTG
* * *
9939130 AAAAAGGCTCCTCTCAACAGAAGCTCAACAACTTTAAAATTTCATCTTGGAAAAGCTACTCTTAG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TTC-TCTT-GAAAAGCTCCTCTTAG
* *
9939195 TAGAGGCTCAATAACTTTAAAATTCTC
62 CAGAGGCTCAACAACTTTAAAATTCTC
9939222 ATATGTTTTC
Statistics
Matches: 202, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
135 7 0.03
136 100 0.50
137 10 0.05
138 6 0.03
139 11 0.05
140 68 0.34
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (136 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTTGAAAAGCTCCTCTTAGCAGA
GGCTCAACAACTTTAAAATTCTCTTAAAAAGCTTCTATCAGCAGAAGCTCAACAACTTTAAAATT
CTCTTG
Found at i:9939445 original size:110 final size:110
Alignment explanation
Indices: 9939303--9939557 Score: 429
Period size: 110 Copynumber: 2.3 Consensus size: 110
9939293 TATACCCGGA
* * *
9939303 GTCTTACAAATCATGCCCGGAGGTTTTACAGAATCGATTGGAATAACACTACAAGTCAAAAGATA
1 GTCTTAGAAGTCATGCCCGGAGGTTTTACAGAATCGATTGGAATAACACCACAAGTCAAAAGATA
**
9939368 AAAAATTGATCAAGATAACACCGTGAATCAAATTTATGCTCAAAG
66 AAAAATTGATCAAGATAACACCGCAAATCAAATTTATGCTCAAAG
*
9939413 GTCTTAGAAGTCATGCCCGGAGGTCTTACAGAATCGATTGGAATAACACCACAAGTCAAAAGATA
1 GTCTTAGAAGTCATGCCCGGAGGTTTTACAGAATCGATTGGAATAACACCACAAGTCAAAAGATA
* *
9939478 AAAAATTGATCGAGATAACACCGCAAATCAAATTTATGCTCAGAG
66 AAAAATTGATCAAGATAACACCGCAAATCAAATTTATGCTCAAAG
*
9939523 GTCTTAGAAGTCATGCCCGGAGGTTTTACAAAATC
1 GTCTTAGAAGTCATGCCCGGAGGTTTTACAGAATC
9939558 ATGCCCGAAG
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 135 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (110 bp):
GTCTTAGAAGTCATGCCCGGAGGTTTTACAGAATCGATTGGAATAACACCACAAGTCAAAAGATA
AAAAATTGATCAAGATAACACCGCAAATCAAATTTATGCTCAAAG
Found at i:9939545 original size:22 final size:23
Alignment explanation
Indices: 9939520--9939579 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
9939510 TTTATGCTCA
* *
9939520 GAGGTCTTA-GAAGTCATGCCCG
1 GAGGTCTTACAAAATCATGCCCG
*
9939542 GAGGTTTTACAAAATCATGCCCG
1 GAGGTCTTACAAAATCATGCCCG
*
9939565 AAGGTCTTACAAAAT
1 GAGGTCTTACAAAAT
9939580 TGATTGAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (23 bp):
GAGGTCTTACAAAATCATGCCCG
Found at i:9939669 original size:132 final size:133
Alignment explanation
Indices: 9939410--9939709 Score: 387
Period size: 132 Copynumber: 2.3 Consensus size: 133
9939400 TTTATGCTCA
* * * *
9939410 AAGGTCTTA-GAAGTCATGCCCGGAGGTCTTACAGAATCGATTGGAATAACACCACAAGTCAAAA
1 AAGGTCTTACAAAATCATGCCCGGAGGTCTTACAAAATTGATTGGAATAACACCACAAGTCAAAA
* * * *
9939474 GATAAAAAATTGATCGAGATAACACCGCAAATCAAATTTATGCTCAGAGGTCTTAGAAGTCATGC
66 GATAAAAAATCGATCGAGATAACACCGCAAATCAAAATTATGCCCAGAGGTCTTAGAAATCATGC
9939539 CCG
131 CCG
* * *
9939542 GAGGTTTTACAAAATCATGCCCGAAGGTCTTACAAAATTGATT-GAGATAACACCACAAGTCAAA
1 AAGGTCTTACAAAATCATGCCCGGAGGTCTTACAAAATTGATTGGA-ATAACACCACAAGTCAAA
* * * ** *
9939606 A-ATAAAGAATCGATCGGGATAACACTGTGAATCAAAATTATGCCCGGAGGTCTTAGAAATCATG
65 AGATAAAAAATCGATCGAGATAACACCGCAAATCAAAATTATGCCCAGAGGTCTTAGAAATCATG
9939670 CCCG
130 CCCG
*
9939674 AAGGTCTTACAGAAT--TGCCCGGAGGTCTTA-AAAATT
1 AAGGTCTTACAAAATCATGCCCGGAGGTCTTACAAAATT
9939710 ATGCCCGGAG
Statistics
Matches: 145, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
129 6 0.04
130 14 0.10
132 78 0.54
133 47 0.32
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (133 bp):
AAGGTCTTACAAAATCATGCCCGGAGGTCTTACAAAATTGATTGGAATAACACCACAAGTCAAAA
GATAAAAAATCGATCGAGATAACACCGCAAATCAAAATTATGCCCAGAGGTCTTAGAAATCATGC
CCG
Found at i:9939670 original size:22 final size:22
Alignment explanation
Indices: 9939640--9939731 Score: 116
Period size: 22 Copynumber: 4.2 Consensus size: 22
9939630 CTGTGAATCA
* *
9939640 AAATTATGCCCGGAGGTCTTAG
1 AAATCATGCCCGGAGGTCTTAC
*
9939662 AAATCATGCCCGAAGGTCTTAC
1 AAATCATGCCCGGAGGTCTTAC
*
9939684 AGAAT--TGCCCGGAGGTCTTAA
1 A-AATCATGCCCGGAGGTCTTAC
*
9939705 AAATTATGCCCGGAGGTCTTAC
1 AAATCATGCCCGGAGGTCTTAC
9939727 AAATC
1 AAATC
9939732 TCAAAATCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.05
21 15 0.25
22 39 0.65
23 3 0.05
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (22 bp):
AAATCATGCCCGGAGGTCTTAC
Found at i:9939714 original size:43 final size:43
Alignment explanation
Indices: 9939646--9939727 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
9939636 ATCAAAATTA
*
9939646 TGCCCGGAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAAT
1 TGCCCGGAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAAT
* *
9939689 TGCCCGGAGGTCTTAAAAATTATGCCCGGAGGTCTTACA
1 TGCCCGGAGGTCTTAAAAATCATGCCCGAAGGTCTTACA
9939728 AATCTCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (43 bp):
TGCCCGGAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAAT
Found at i:9940528 original size:33 final size:33
Alignment explanation
Indices: 9940416--9940774 Score: 524
Period size: 33 Copynumber: 10.8 Consensus size: 33
9940406 CTTCTTTTGG
* * *
9940416 GGCCAAATAAACTGGGCTTAAAT-TTTATTGAA
1 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
* * * * *
9940448 GGCCAGCTAAATTGGGCTTAAAACCTCATTTGAG
1 GGCCAGATAAACTGGGCTTAAATCTTCA-TTGAT
9940482 GGCCAGATAAACTGGGCTTAAATCTTCATTTGA-
1 GGCCAGATAAACTGGGCTTAAATCTTCA-TTGAT
* * *
9940515 GGCTAGATAAACTGGGTTTAAATCCTCATTGAT
1 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
*
9940548 GGCCAGATAAACTGGGCTTAAATTTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
*
9940581 GGCCAGATAAACTGGGTTTAAATCTTCTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAA---TCTTCATTGAT
9940617 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
9940650 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
*
9940683 GACCAGATAAACTGGGCTTAAATCTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
*
9940716 GGCCAGATAAACTGGGCTTAAATTTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
9940749 GGCCAGATAAACTGGGCTTAAATCTT
1 GGCCAGATAAACTGGGCTTAAATCTT
9940775 TTTTTTTTTT
Statistics
Matches: 296, Mismatches: 25, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
32 23 0.08
33 209 0.71
34 33 0.11
36 31 0.10
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (33 bp):
GGCCAGATAAACTGGGCTTAAATCTTCATTGAT
Found at i:9940760 original size:168 final size:167
Alignment explanation
Indices: 9940416--9940776 Score: 559
Period size: 168 Copynumber: 2.2 Consensus size: 167
9940406 CTTCTTTTGG
* * *
9940416 GGCCAAATAAACTGGGCTTAAA--TTTTATTGAAGGCCAGCTAAATTGGGCTTAAAACCTCATTT
1 GGCCAGATAAACTGGGCTTAAATCTTTTATTGAAGGCCAGATAAACTGGGCTTAAAACCTCATTT
* * *
9940479 GAGGGCCAGATAAACTGGGCTTAAATCTTCATTTGAGGCTAGATAAACTGGGTTTAAATCCTCAT
66 GAGGGCCAGATAAACTGGGCTTAAATCTTCATTTGAGACCAGATAAACTGGGCTTAAATCCTCAT
9940544 TGATGGCCAGATAAACTGGGCTTAAATTTTCATTGAT
131 TGATGGCCAGATAAACTGGGCTTAAATTTTCATTGAT
* * * *
9940581 GGCCAGATAAACTGGGTTTAAATCTTCTTCATTGATGGCCAGATAAACTGGGCTTAAATCTTCA-
1 GGCCAGATAAACTGGGCTTAAATCTT-TT-ATTGAAGGCCAGATAAACTGGGCTTAAAACCTCAT
* *
9940645 TTGATGGCCAGATAAACTGGGCTTAAATCTTCA-TTGATGACCAGATAAACTGGGCTTAAATCTT
64 TTGAGGGCCAGATAAACTGGGCTTAAATCTTCATTTGA-GACCAGATAAACTGGGCTTAAATCCT
9940709 CATTGATGGCCAGATAAACTGGGCTTAAATTTTCATTGAT
128 CATTGATGGCCAGATAAACTGGGCTTAAATTTTCATTGAT
9940749 GGCCAGATAAACTGGGCTTAAATCTTTT
1 GGCCAGATAAACTGGGCTTAAATCTTTT
9940777 TTTTTTTTTA
Statistics
Matches: 178, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
165 20 0.11
167 8 0.04
168 121 0.68
169 29 0.16
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (167 bp):
GGCCAGATAAACTGGGCTTAAATCTTTTATTGAAGGCCAGATAAACTGGGCTTAAAACCTCATTT
GAGGGCCAGATAAACTGGGCTTAAATCTTCATTTGAGACCAGATAAACTGGGCTTAAATCCTCAT
TGATGGCCAGATAAACTGGGCTTAAATTTTCATTGAT
Found at i:9944396 original size:45 final size:42
Alignment explanation
Indices: 9944212--9944385 Score: 159
Period size: 45 Copynumber: 4.0 Consensus size: 42
9944202 AGACACTTGA
* *
9944212 AAAATAAATAAAACTCCTCTAAACAGAGACTCAACGACTTTG
1 AAAATAAACAAAACTCCTCTAAACAGAGGCTCAACGACTTTG
* ** * * * *
9944254 AAAAATAGATGAAGCTCCTCTAAACAGAGGCAACCATGACTTTTG
1 -AAAATAAACAAAACTCCTCTAAACAGAGGC-TCAACGAC-TTTG
* * *
9944299 AAAATAAACAAAACTCCTCTAATCAGAGGCTCAATGACTTGAAAG
1 AAAATAAACAAAACTCCTCTAAACAGAGGCTCAACGACTT---TG
* * *
9944344 AAAATAAACAAAGCTCTTCTAATCAGAGGCTCAACGACTTTG
1 AAAATAAACAAAACTCCTCTAAACAGAGGCTCAACGACTTTG
9944386 GGAACAATAA
Statistics
Matches: 107, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
42 3 0.03
43 32 0.30
44 30 0.28
45 42 0.39
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.22
Consensus pattern (42 bp):
AAAATAAACAAAACTCCTCTAAACAGAGGCTCAACGACTTTG
Found at i:9944438 original size:43 final size:43
Alignment explanation
Indices: 9944356--9944470 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
9944346 AATAAACAAA
* * *
9944356 GCTCTTCT-AATCAGAGGCTCAACGACTTTGGGAACAATAAATT
1 GCTCTTCTAAAT-AGAGGCACCACGACTTTGGGAAAAATAAATT
*
9944399 GCTCTTCTAAATAGAGGCAACCACGACTTT-TGAAAAATAAATT
1 GCTCTTCTAAATAGAGGC-ACCACGACTTTGGGAAAAATAAATT
* *
9944442 GCTCTTCTAAACAGAGGCACCACAACTTT
1 GCTCTTCTAAATAGAGGCACCACGACTTT
9944471 AGAAGTAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 10 0.16
43 42 0.66
44 12 0.19
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
GCTCTTCTAAATAGAGGCACCACGACTTTGGGAAAAATAAATT
Found at i:9956038 original size:6 final size:6
Alignment explanation
Indices: 9956024--9956082 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
9956014 ATCATTAAAA
* * *
9956024 AAATA- AAATAC AAATAC AAATAC AAATAA AAATAA AAATA- AAATAA
1 AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC AAATAC
9956070 AGAATACC AAATA
1 A-AATA-C AAATA
9956083 ATTCTAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
5 10 0.21
6 29 0.60
7 8 0.17
8 1 0.02
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAC
Found at i:9956044 original size:12 final size:11
Alignment explanation
Indices: 9956022--9956125 Score: 66
Period size: 11 Copynumber: 8.7 Consensus size: 11
9956012 AAATCATTAA
9956022 AAAAATAAAAT
1 AAAAATAAAAT
*
9956033 ACAAATACAAAT
1 AAAAATA-AAAT
*
9956045 ACAAATAAAAAT
1 AAAAAT-AAAAT
9956057 AAAAATAAAAT
1 AAAAATAAAAT
9956068 AAAGAATACCAAAT
1 AAA-AATA--AAAT
*** *
9956082 AATTCTAATAT
1 AAAAATAAAAT
9956093 AATAAAT-AAAT
1 AA-AAATAAAAT
9956104 AAATAATAATAAT
1 AAA-AATAA-AAT
9956117 AATAAATAA
1 AA-AAATAA
9956126 GAAAAAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
10 1 0.01
11 27 0.37
12 25 0.34
13 13 0.18
14 7 0.10
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.23
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:9956056 original size:18 final size:17
Alignment explanation
Indices: 9956024--9956083 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
9956014 ATCATTAAAA
*
9956024 AAATAAAATACAAATAC
1 AAATAAAATAAAAATAC
*
9956041 AAATACAAATAAAAATAA
1 AAATA-AAATAAAAATAC
9956059 AAATAAAATAAAGAATACC
1 AAATAAAATAAA-AATA-C
9956078 AAATAA
1 AAATAA
9956084 TTCTAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 12 0.32
18 19 0.51
19 6 0.16
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.17
Consensus pattern (17 bp):
AAATAAAATAAAAATAC
Found at i:9956120 original size:20 final size:20
Alignment explanation
Indices: 9956087--9956125 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9956077 CAAATAATTC
9956087 TAATATAATAAATAAATAAA
1 TAATATAATAAATAAATAAA
9956107 TAATAATAAT-AATAAATAA
1 TAAT-ATAATAAATAAATAA
9956126 GAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
TAATATAATAAATAAATAAA
Found at i:9956820 original size:3 final size:3
Alignment explanation
Indices: 9956802--9956964 Score: 147
Period size: 3 Copynumber: 53.0 Consensus size: 3
9956792 AGCTAAAAAA
* * * *
9956802 AAT AAA AAT AAA AAT AAT AGAT AA- ATAT ATT AAT AAAT AACT AA- AAG
1 AAT AAT AAT AAT AAT AAT A-AT AAT A-AT AAT AAT -AAT AA-T AAT AAT
*
9956849 AA- AAT AATT AGAT AAAT AA- AA- AAT ATT AAT AGAT AAAT AAT AAT
1 AAT AAT AA-T A-AT -AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT
9956893 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9956941 AAT AAT CAT AAT CAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
9956965 GAAAAATAAA
Statistics
Matches: 135, Mismatches: 12, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
2 9 0.07
3 104 0.77
4 19 0.14
5 3 0.02
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9969504 original size:22 final size:22
Alignment explanation
Indices: 9969472--9969557 Score: 100
Period size: 22 Copynumber: 3.9 Consensus size: 22
9969462 CTACTAAGTT
*
9969472 ATATCACTAATTTATTATTAAA
1 ATATCAATAATTTATTATTAAA
*
9969494 ATATGAATAATTTATTATTAAA
1 ATATCAATAATTTATTATTAAA
* * *
9969516 TTATCAATAAATTATTATTAAG
1 ATATCAATAATTTATTATTAAA
* * *
9969538 TTAACACTAATTTATTATTA
1 ATATCAATAATTTATTATTA
9969558 TAACTAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATCAATAATTTATTATTAAA
Found at i:9969554 original size:19 final size:18
Alignment explanation
Indices: 9969530--9969571 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
9969520 CAATAAATTA
9969530 TTATTAAGTTA-ACACTAAT
1 TTATTAA-TTATA-ACTAAT
9969549 TTATT-ATTATAACTAAT
1 TTATTAATTATAACTAAT
9969566 TTATTA
1 TTATTA
9969572 CTAAGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 14 0.67
18 2 0.10
19 5 0.24
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATTAATTATAACTAAT
Found at i:9969681 original size:22 final size:21
Alignment explanation
Indices: 9969656--9969752 Score: 95
Period size: 22 Copynumber: 4.4 Consensus size: 21
9969646 TCAATTGATA
* *
9969656 ATTAAGTTATAACTGATTTGTT
1 ATTAAATTATAA-TGATTTATT
**
9969678 ATTATGTTATTAATGATTTATT
1 ATTAAATTA-TAATGATTTATT
*
9969700 ATTAAATTATCAATGATTTACT
1 ATTAAATTAT-AATGATTTATT
*
9969722 ATTAAATTATAAATGATTTACT
1 ATTAAATTAT-AATGATTTATT
*
9969744 ACTAAATTA
1 ATTAAATTA
9969753 ATTTATTATA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
21 1 0.02
22 62 0.94
23 3 0.05
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTAAATTATAATGATTTATT
Found at i:9969730 original size:27 final size:26
Alignment explanation
Indices: 9969700--9969758 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 26
9969690 ATGATTTATT
*
9969700 ATTAAATTATCAATGATTTACTATTAA
1 ATTAAATTAT-AATGATTTACTACTAA
9969727 ATT--A-TA-AATGATTTACTACTAA
1 ATTAAATTATAATGATTTACTACTAA
*
9969749 ATTAATTTAT
1 ATTAAATTAT
9969759 TATAAAGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
22 18 0.69
24 2 0.08
25 3 0.12
27 3 0.12
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (26 bp):
ATTAAATTATAATGATTTACTACTAA
Found at i:9969811 original size:59 final size:60
Alignment explanation
Indices: 9969693--9969807 Score: 146
Period size: 59 Copynumber: 1.9 Consensus size: 60
9969683 GTTATTAATG
*
9969693 ATTTATTATTAAATTATCAATGATTTACTATTAAATTATAAATGATTTACTACTAAATTA
1 ATTTATTATTAAATTATCAATGATTTACTATGAAATTATAAATGATTTACTACTAAATTA
* * * * *
9969753 ATTTATTA-TAAAGTTAT-ACTTATTTTCTATGAAGTTATCAATGATTTACTA-TAAA
1 ATTTATTATTAAA-TTATCAATGATTTACTATGAAATTATAAATGATTTACTACTAAA
9969808 ATTATCAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 4 0.08
59 32 0.67
60 12 0.25
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (60 bp):
ATTTATTATTAAATTATCAATGATTTACTATGAAATTATAAATGATTTACTACTAAATTA
Found at i:9969886 original size:11 final size:11
Alignment explanation
Indices: 9969861--9969899 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9969851 TGCAACTAAA
*
9969861 TTATAAGTGAT
1 TTATTAGTGAT
9969872 TTATTAGT-AT
1 TTATTAGTGAT
9969882 GTTATTAGTGAT
1 -TTATTAGTGAT
9969894 TTATTA
1 TTATTA
9969900 CTAAATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 2 0.08
11 21 0.84
12 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (11 bp):
TTATTAGTGAT
Found at i:9970355 original size:22 final size:22
Alignment explanation
Indices: 9970337--9970400 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
9970327 TCAATTTATC
9970337 ACTAAATTATAGATGATTTACT
1 ACTAAATTATAGATGATTTACT
* *
9970359 ACTAAGTTATAAATGATTTACT
1 ACTAAATTATAGATGATTTACT
* *
9970381 ACTAAATTATTGATAATTTA
1 ACTAAATTATAGATGATTTA
9970401 TTATAAAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
ACTAAATTATAGATGATTTACT
Found at i:9970410 original size:44 final size:44
Alignment explanation
Indices: 9970340--9970486 Score: 122
Period size: 44 Copynumber: 3.3 Consensus size: 44
9970330 ATTTATCACT
* * *
9970340 AAATTATAGATGATTTACTACT-AAGTTATAAATGATTTACTACT-
1 AAATTATTGATAATTTATTA-TAAAGTTATAAATGATTTACTA-TG
* * * *
9970384 AAATTATTGATAATTTATTATAAAGTTATTACTAATTTATTATG
1 AAATTATTGATAATTTATTATAAAGTTATAAATGATTTACTATG
* **
9970428 AAGTTATT-ACTAATTTATTATGAAA-TTATCGATGATTTACTATG
1 AAATTATTGA-TAATTTATTAT-AAAGTTATAAATGATTTACTATG
* *
9970472 AAGTTATTAATAATT
1 AAATTATTGATAATT
9970487 AACTAATTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
43 3 0.04
44 78 0.92
45 4 0.05
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (44 bp):
AAATTATTGATAATTTATTATAAAGTTATAAATGATTTACTATG
Found at i:9970412 original size:22 final size:21
Alignment explanation
Indices: 9970374--9970486 Score: 95
Period size: 22 Copynumber: 5.1 Consensus size: 21
9970364 GTTATAAATG
*
9970374 ATTTACTACTAAA-TTATTGATA
1 ATTTATTA-TAAAGTTATT-ATA
9970396 ATTTATTATAAAGTTATTACTA
1 ATTTATTATAAAGTTATTA-TA
*
9970418 ATTTATTATGAAGTTATTACTA
1 ATTTATTATAAAGTTATTA-TA
* *
9970440 ATTTATTATGAAA-TTATCGATG
1 ATTTATTAT-AAAGTTAT-TATA
* *
9970462 ATTTACTATGAAGTTATTAATA
1 ATTTATTATAAAGTTATT-ATA
9970484 ATT
1 ATT
9970487 AACTAATTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
21 7 0.09
22 66 0.87
23 3 0.04
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (21 bp):
ATTTATTATAAAGTTATTATA
Found at i:9970422 original size:66 final size:66
Alignment explanation
Indices: 9970352--9970491 Score: 149
Period size: 66 Copynumber: 2.1 Consensus size: 66
9970342 ATTATAGATG
* * *
9970352 ATTTACTACT-AAGTTATAAATGATTTACTACT-AAATTATTGATAATTTATTATAAAGTTATTA
1 ATTTACTA-TGAAGTTATAAATAATTTACTA-TGAAATTATCGATAATTTACTATAAAGTTATTA
*
9970415 CTA
64 ATA
* * * * * *
9970418 ATTTATTATGAAGTTATTACTAATTTATTATGAAATTATCGATGATTTACTATGAAGTTATTAAT
1 ATTTACTATGAAGTTATAAATAATTTACTATGAAATTATCGATAATTTACTATAAAGTTATTAAT
9970483 A
66 A
*
9970484 ATTAACTA
1 ATTTACTA
9970492 ATTTACAACT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
65 2 0.03
66 58 0.97
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (66 bp):
ATTTACTATGAAGTTATAAATAATTTACTATGAAATTATCGATAATTTACTATAAAGTTATTAAT
A
Found at i:9970456 original size:11 final size:10
Alignment explanation
Indices: 9970383--9970456 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 10
9970373 GATTTACTAC
9970383 TAAATTATTGA
1 TAAATTATT-A
*
9970394 TAATTTATTA
1 TAAATTATTA
9970404 TAAAGTTATTA
1 TAAA-TTATTA
*
9970415 CTAATTTATTA
1 -TAAATTATTA
*
9970426 TGAAGTTATTA
1 T-AAATTATTA
*
9970437 CTAATTTATTA
1 -TAAATTATTA
9970448 TGAAATTAT
1 T-AAATTAT
9970457 CGATGATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
10 6 0.12
11 42 0.81
12 4 0.08
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (10 bp):
TAAATTATTA
Found at i:9970491 original size:22 final size:22
Alignment explanation
Indices: 9970387--9970486 Score: 119
Period size: 22 Copynumber: 4.5 Consensus size: 22
9970377 TACTACTAAA
* *
9970387 TTATTGATAATTTATTATAAAG
1 TTATTAATAATTTATTATGAAG
*
9970409 TTATTACTAATTTATTATGAAG
1 TTATTAATAATTTATTATGAAG
* *
9970431 TTATTACTAATTTATTATGAAA
1 TTATTAATAATTTATTATGAAG
** * *
9970453 TTATCGATGATTTACTATGAAG
1 TTATTAATAATTTATTATGAAG
9970475 TTATTAATAATT
1 TTATTAATAATT
9970487 AACTAATTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 65 1.00
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (22 bp):
TTATTAATAATTTATTATGAAG
Found at i:9970516 original size:22 final size:22
Alignment explanation
Indices: 9970484--9970629 Score: 123
Period size: 22 Copynumber: 6.6 Consensus size: 22
9970474 GTTATTAATA
9970484 ATTAACTAATTTACAACTAAATT
1 ATTAA-TAATTTACAACTAAATT
* *
9970507 ATTATTAATTTATAACTAAATT
1 ATTAATAATTTACAACTAAATT
* * * *
9970529 ATCATTGATTTACAACTAAGTT
1 ATTAATAATTTACAACTAAATT
* * *
9970551 ATCAATAATTTACTA-TGATATT
1 ATTAATAATTTACAACT-AAATT
* * *
9970573 ATTAGTGATTTACTACTAAATT
1 ATTAATAATTTACAACTAAATT
* *
9970595 ATTAATAATTTACTATTAAATT
1 ATTAATAATTTACAACTAAATT
* *
9970617 ATCAATGATTTAC
1 ATTAATAATTTAC
9970630 TATATATTGT
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
21 1 0.01
22 95 0.94
23 5 0.05
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.45
Consensus pattern (22 bp):
ATTAATAATTTACAACTAAATT
Found at i:9970540 original size:118 final size:118
Alignment explanation
Indices: 9970374--9970609 Score: 266
Period size: 118 Copynumber: 2.0 Consensus size: 118
9970364 GTTATAAATG
* * * ** * *
9970374 ATTTACTACTAAATTATTGATAATTTATTATAAAGTTATTACTAATTTATTA-TGAAGTTATTAC
1 ATTTACAACTAAATTATTGATAATTTATAATAAAGTTATCACTAATTTACAACT-AAGTTATCAA
* *
9970438 TAATTTATTATGAAATTATCGA-TGATTTACTA-TGAAGTTATTAATAATTAACTA
65 TAATTTACTATGAAATTAT-GAGTGATTTACTACT-AAATTATTAATAATTAACTA
* *
9970492 ATTTACAACTAAATTATT-ATTAATTTATAACTAAA-TTATCATTGATTTACAACTAAGTTATCA
1 ATTTACAACTAAATTATTGA-TAATTTATAA-TAAAGTTATCACTAATTTACAACTAAGTTATCA
* * *
9970555 ATAATTTACTATGATATTATTAGTGATTTACTACTAAATTATTAATAATTTACTA
64 ATAATTTACTATGAAATTATGAGTGATTTACTACTAAATTATTAATAATTAACTA
9970610 TTAAATTATC
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
117 2 0.02
118 91 0.92
119 6 0.06
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (118 bp):
ATTTACAACTAAATTATTGATAATTTATAATAAAGTTATCACTAATTTACAACTAAGTTATCAAT
AATTTACTATGAAATTATGAGTGATTTACTACTAAATTATTAATAATTAACTA
Found at i:9970630 original size:22 final size:22
Alignment explanation
Indices: 9970523--9971036 Score: 159
Period size: 22 Copynumber: 23.4 Consensus size: 22
9970513 AATTTATAAC
* * *
9970523 TAAATTATCATTGATTTACAAC
1 TAAATTATCAATGATTTACTAT
* *
9970545 TAAGTTATCAATAATTTACTAT
1 TAAATTATCAATGATTTACTAT
* * * * *
9970567 GATATTATTAGTGATTTACTAC
1 TAAATTATCAATGATTTACTAT
* *
9970589 TAAATTATTAATAATTTACTAT
1 TAAATTATCAATGATTTACTAT
9970611 TAAATTATCAATGATTTACTA-
1 TAAATTATCAATGATTTACTAT
* * *
9970632 TATATTGT-TATGCATTTACTAT
1 TAAATTATCAATG-ATTTACTAT
* * *
9970654 TATATTATCATTGATTTATTAT
1 TAAATTATCAATGATTTACTAT
* * * * * *
9970676 TGAGTT-TTAGTGATTAACTAC
1 TAAATTATCAATGATTTACTAT
* * * *
9970697 TAAATTATCATTAATTTATTAC
1 TAAATTATCAATGATTTACTAT
* * * **
9970719 TAAGTTATTC-ATAATTTATTGC
1 TAAATTA-TCAATGATTTACTAT
* * *
9970741 TAAGTTTAT-AATTTAATTACTAT
1 TAA-ATTATCAA-TGATTTACTAT
* **
9970764 TAAACTAAAACAT-ATTTACTAT
1 TAAATTATCA-ATGATTTACTAT
* * ** * * *
9970786 TAAGTTACCTGTAATTTATTAC
1 TAAATTATCAATGATTTACTAT
* **
9970808 TAAATTTTCCTTGATTTACTAT
1 TAAATTATCAATGATTTACTAT
* *
9970830 TAAATTATCAATAATTAACTA-
1 TAAATTATCAATGATTTACTAT
* * * **
9970851 TAAGTTATCATTTATTTTTTTAT
1 TAAATTATCAATGA-TTTACTAT
* * * *
9970874 TAAGTTGTCATTGATTTACTAC
1 TAAATTATCAATGATTTACTAT
* * *
9970896 T-ATTCTAT-TATGCATTTACAAT
1 TAAAT-TATCAATG-ATTTACTAT
** *
9970918 TATGTTAT-AATTGATTTACTAG
1 TAAATTATCAA-TGATTTACTAT
* *
9970940 TAAGTTAT-TATGTATTTACTAT
1 TAAATTATCAATG-ATTTACTAT
* * *
9970962 TATATTATTATTGATTTACTAT
1 TAAATTATCAATGATTTACTAT
* * *
9970984 TAAATTATCAATTATTTGCTAC
1 TAAATTATCAATGATTTACTAT
* * *
9971006 TAAATTATTATTGATATACTAT
1 TAAATTATCAATGATTTACTAT
*
9971028 TAAGTTATC
1 TAAATTATC
9971037 TCACTAAACT
Statistics
Matches: 355, Mismatches: 118, Indels: 38
0.69 0.23 0.07
Matches are distributed among these distances:
20 3 0.01
21 46 0.13
22 270 0.76
23 35 0.10
24 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (22 bp):
TAAATTATCAATGATTTACTAT
Found at i:9970630 original size:44 final size:44
Alignment explanation
Indices: 9970492--9971035 Score: 237
Period size: 44 Copynumber: 12.4 Consensus size: 44
9970482 TAATTAACTA
* * *
9970492 ATTTACAACTAAATTATTATTAATTTA-TAACTAAATTATCATTG
1 ATTTACTACTAAATTATTAATAATTTACT-ATTAAATTATCATTG
* * * * * * *
9970536 ATTTACAACTAAGTTATCAATAATTTACTATGATATTATTAGTG
1 ATTTACTACTAAATTATTAATAATTTACTATTAAATTATCATTG
*
9970580 ATTTACTACTAAATTATTAATAATTTACTATTAAATTATCAATG
1 ATTTACTACTAAATTATTAATAATTTACTATTAAATTATCATTG
* * * *
9970624 ATTTACTA-TATATTGTT-ATGCATTTACTATTATATTATCATTG
1 ATTTACTACTAAATTATTAAT-AATTTACTATTAAATTATCATTG
* * * * * * * * *
9970667 ATTTATTATTGAGTT-TTAGTGATTAACTACTAAATTATCATTA
1 ATTTACTACTAAATTATTAATAATTTACTATTAAATTATCATTG
* * * * ** * * *
9970710 ATTTATTACTAAGTTATTCATAATTTATTGCTAAGTTTATAATTT
1 ATTTACTACTAAATTATTAATAATTTACTATTAA-ATTATCATTG
* * * * * * * *
9970755 AATTACTATTAAACTA-AAACATATTTACTATTAAGTTA-CCTGTA
1 ATTTACTACTAAATTATTAATA-ATTTACTATTAAATTATCAT-TG
* ** * * *
9970799 ATTTATTACTAAATT-TTCCTTGATTTACTATTAAATTATCAATA
1 ATTTACTACTAAATTATT-AATAATTTACTATTAAATTATCATTG
* * * * * ** * *
9970843 ATTAACTA-TAAGTTATCATTTATTTTTTTATTAAGTTGTCATTG
1 ATTTACTACTAAATTATTA-ATAATTTACTATTAAATTATCATTG
* * * ** *
9970887 ATTTACTACT-ATTCTATT-ATGCATTTACAATTATGTTATAATTG
1 ATTTACTACTAAAT-TATTAAT-AATTTACTATTAAATTATCATTG
* * * * *
9970931 ATTTACTAGTAAGTTATT-ATGTATTTACTATTATATTATTATTG
1 ATTTACTACTAAATTATTAAT-AATTTACTATTAAATTATCATTG
* * * * * *
9970975 ATTTACTATTAAATTATCAATTATTTGCTACTAAATTATTATTG
1 ATTTACTACTAAATTATTAATAATTTACTATTAAATTATCATTG
* * *
9971019 ATATACTATTAAGTTAT
1 ATTTACTACTAAATTAT
9971036 CTCACTAAAC
Statistics
Matches: 375, Mismatches: 107, Indels: 36
0.72 0.21 0.07
Matches are distributed among these distances:
42 2 0.01
43 74 0.20
44 262 0.70
45 37 0.10
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (44 bp):
ATTTACTACTAAATTATTAATAATTTACTATTAAATTATCATTG
Found at i:9970630 original size:66 final size:64
Alignment explanation
Indices: 9970490--9970663 Score: 170
Period size: 66 Copynumber: 2.6 Consensus size: 64
9970480 AATAATTAAC
* * * * * *
9970490 TAATTTACAACTAAATTATTATTAATTTA-TAACTAAATTATCATTGATTTACAACTAAGTTATC
1 TAATTTACTA-TATATTATTA-TGATTTACT-ACTAAATTATCAATAATTTACAACTAAATTATC
9970554 AA
63 AA
* * *
9970556 TAATTTACTATGATATTATTAGTGATTTACTACTAAATTATTAATAATTTACTATTAAATTATCA
1 TAATTTACTAT-ATATTATTA-TGATTTACTACTAAATTATCAATAATTTACAACTAAATTATCA
9970621 A
64 A
* * * *
9970622 TGATTTACTATATATTGTTATGCATTTACTATTATATTATCA
1 TAATTTACTATATATTATTATG-ATTTACTACTAAATTATCA
9970664 TTGATTTATT
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
64 2 0.02
65 25 0.28
66 62 0.69
67 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (64 bp):
TAATTTACTATATATTATTATGATTTACTACTAAATTATCAATAATTTACAACTAAATTATCAA
Found at i:9970704 original size:43 final size:43
Alignment explanation
Indices: 9970606--9970717 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 43
9970596 TTAATAATTT
* * *
9970606 ACTATTAAATTATCAATGATTTACTATATATTGTTATGCATTT
1 ACTATTAAATTATCATTGATTTATTATATATTGTTATGCATTA
*
9970649 ACTATTATATTATCATTGATTTATTAT-TGAGTT-TTAGTG-ATTA
1 ACTATTAAATTATCATTGATTTATTATAT-A-TTGTTA-TGCATTA
* *
9970692 ACTACTAAATTATCATTAATTTATTA
1 ACTATTAAATTATCATTGATTTATTA
9970718 CTAAGTTATT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 54 0.92
44 4 0.07
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (43 bp):
ACTATTAAATTATCATTGATTTATTATATATTGTTATGCATTA
Found at i:9971508 original size:22 final size:22
Alignment explanation
Indices: 9971483--9971574 Score: 98
Period size: 22 Copynumber: 4.2 Consensus size: 22
9971473 ACTGAATCTT
*
9971483 ATTTATTATTAAATTATTATTA
1 ATTTATTATTAAATTATCATTA
** * *
9971505 ATTTGCTATTAAGTTATCATTG
1 ATTTATTATTAAATTATCATTA
*
9971527 ATTTATTATTAAGTTATCACTT-
1 ATTTATTATTAAATTATCA-TTA
*
9971549 ATTT-TTATTAAATTATCCTTA
1 ATTTATTATTAAATTATCATTA
9971570 ATTTA
1 ATTTA
9971575 CTACTATATT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
20 2 0.03
21 16 0.28
22 38 0.66
23 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTATTATTAAATTATCATTA
Found at i:9971717 original size:22 final size:22
Alignment explanation
Indices: 9971692--9971749 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
9971682 TACAACTATC
9971692 TTATCAATAATTTACTATTAAA
1 TTATCAATAATTTACTATTAAA
* * *
9971714 TTATTATTTATTTACTATTAAA
1 TTATCAATAATTTACTATTAAA
*
9971736 TTATCCATAATTTA
1 TTATCAATAATTTA
9971750 ATATATCGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATCAATAATTTACTATTAAA
Found at i:9971782 original size:22 final size:22
Alignment explanation
Indices: 9971692--9971783 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
9971682 TACAACTATC
* *
9971692 TTATCAATAATTTACTATTAAA
1 TTATCATTAATTTAATATTAAA
* * *
9971714 TTATTATTTATTTACTATTAAA
1 TTATCATTAATTTAATATTAAA
**
9971736 TTATCCA-TAATTTAATA-TATCG
1 TTAT-CATTAATTTAATATTA-AA
9971758 TTATCATTAATTTAATA-TAAA
1 TTATCATTAATTTAATATTAAA
9971779 GTTAT
1 -TTAT
9971784 TACTTTTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
21 4 0.07
22 51 0.91
23 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATCATTAATTTAATATTAAA
Found at i:9973901 original size:23 final size:24
Alignment explanation
Indices: 9973874--9973925 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
9973864 CTCTTTTCAA
9973874 ATAATTTT-T-TGATACTTTAATTT
1 ATAATTTTCTATGA-ACTTTAATTT
9973897 ATAATTTTCTATGAACTTTAATTT
1 ATAATTTTCTATGAACTTTAATTT
9973921 -TAATT
1 ATAATT
9973926 AATCTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 13 0.48
24 11 0.41
25 3 0.11
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (24 bp):
ATAATTTTCTATGAACTTTAATTT
Found at i:9974522 original size:24 final size:25
Alignment explanation
Indices: 9974495--9974542 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
9974485 TTATAAGGTA
9974495 TTTATACTGTT-CACTTTTA-ATACT
1 TTTATACT-TTACACTTTTATATACT
*
9974519 TTTATAGTTTACACTTTTATATAC
1 TTTATACTTTACACTTTTATATAC
9974543 AGATAGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 15 0.71
25 4 0.19
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTATACTTTACACTTTTATATACT
Found at i:9974572 original size:5 final size:5
Alignment explanation
Indices: 9974553--9974593 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
9974543 AGATAGATAA
9974553 AATAT -ATAT -ATAT AATAT AATAT AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
9974594 GGTTGAGGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 8 0.23
5 27 0.77
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Done.