Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006418.1 Hibiscus syriacus cultivar Beakdansim tig00015483_pilon, 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: 114890
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:2833 original size:2 final size:2
Alignment explanation
Indices: 2826--2855 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2816 ACCCATCTTC
2826 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2856 CAATAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4348 original size:30 final size:32
Alignment explanation
Indices: 4307--4450 Score: 95
Period size: 32 Copynumber: 4.6 Consensus size: 32
4297 ATTATAATGA
* *
4307 TTGTAAAATTTCTAT-AAA-CTAATGA-TCATT
1 TTGTAACATTTCGATAAAATCTAATGACT-ATT
*
4337 TTGTAACATTTCGATAAAATTTAATGACTATT
1 TTGTAACATTTCGATAAAATCTAATGACTATT
** * *
4369 TTGTAACA-AACTGATAAAATTTAATGAC-CTT
1 TTGTAACATTTC-GATAAAATCTAATGACTATT
* * * * * *
4400 TTCTAAAAATTCAAT-AAATTTAATGACTATC
1 TTGTAACATTTCGATAAAATCTAATGACTATT
4431 TTGTAACAATTT-GATAAAAT
1 TTGTAAC-ATTTCGATAAAAT
4451 TGGTGAGCAA
Statistics
Matches: 89, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
30 25 0.28
31 22 0.25
32 41 0.46
33 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (32 bp):
TTGTAACATTTCGATAAAATCTAATGACTATT
Found at i:4370 original size:32 final size:32
Alignment explanation
Indices: 4326--4451 Score: 118
Period size: 32 Copynumber: 4.0 Consensus size: 32
4316 TTCTATAAAC
4326 TAATGA-TCATTTTGTAACATTTCGATAAAATT
1 TAATGACT-ATTTTGTAACATTTCGATAAAATT
**
4358 TAATGACTATTTTGTAACA-AACTGATAAAATT
1 TAATGACTATTTTGTAACATTTC-GATAAAATT
* * * * *
4390 TAATGAC-CTTTTCTAAAAATTCAAT-AAATT
1 TAATGACTATTTTGTAACATTTCGATAAAATT
*
4420 TAATGACTATCTTGTAACAATTT-GATAAAATT
1 TAATGACTATTTTGTAAC-ATTTCGATAAAATT
4452 GGTGAGCAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
30 12 0.16
31 19 0.26
32 42 0.57
33 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (32 bp):
TAATGACTATTTTGTAACATTTCGATAAAATT
Found at i:4947 original size:39 final size:43
Alignment explanation
Indices: 4898--4996 Score: 118
Period size: 41 Copynumber: 2.4 Consensus size: 43
4888 TTTACATATA
* *
4898 TATATTTATATAAGTATAAAATATTTATT-TAC-TA-ATATATTT
1 TATATATATAT-AGTATAAAATA-TTATTGTACATATATATATGT
*
4940 TA-ATATATATA-TATATAATATTATTGTACATATATATATGT
1 TATATATATATAGTATAAAATATTATTGTACATATATATATGT
4981 TATATATATATAGTAT
1 TATATATATATAGTAT
4997 GTTTTAATGC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
38 5 0.10
39 11 0.22
40 3 0.06
41 16 0.33
42 11 0.22
43 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (43 bp):
TATATATATATAGTATAAAATATTATTGTACATATATATATGT
Found at i:5089 original size:22 final size:21
Alignment explanation
Indices: 5063--5103 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
5053 TTATAATTAT
5063 TTATATGTATA-TATGATTTTTA
1 TTATAT-TATACTAT-ATTTTTA
5085 TTATATTATACTATATTTT
1 TTATATTATACTATATTTT
5104 CCTTACGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATATTATACTATATTTTTA
Found at i:8855 original size:30 final size:34
Alignment explanation
Indices: 8819--8885 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
8809 TCAAAATAAT
8819 TTTATTAT-ATTTAA-TATA-TATA-ATTTTTTA
1 TTTATTATAATTTAACTATATTATATATTTTTTA
*
8849 TTTATTATAATTTAACTTTATTATATATTTTTTA
1 TTTATTATAATTTAACTATATTATATATTTTTTA
8883 TTT
1 TTT
8886 TTAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 8 0.25
31 6 0.19
32 3 0.09
33 4 0.12
34 11 0.34
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (34 bp):
TTTATTATAATTTAACTATATTATATATTTTTTA
Found at i:8877 original size:23 final size:24
Alignment explanation
Indices: 8814--8877 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
8804 TTTTGTCAAA
8814 ATAATTTTATTATAT-TTAATATAT
1 ATAA-TTTATTATATATTAATATAT
* *
8838 ATAATTTTTTATTTATT-ATA-AT
1 ATAATTTATTATATATTAATATAT
*
8860 TTAACTTTATTATATATT
1 ATAA-TTTATTATATATT
8878 TTTTATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 5 0.15
23 22 0.67
24 6 0.18
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
ATAATTTATTATATATTAATATAT
Found at i:8899 original size:30 final size:34
Alignment explanation
Indices: 8835--8900 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
8825 ATATTTAATA
*
8835 TATATAATTTTTTATTTATTATAATTTAACTTTAT
1 TATATAATTTTTTATTTATTATAA-TTAAATTTAT
8870 TATAT-ATTTTTTATTT-TTA-AA-TAAATTTAT
1 TATATAATTTTTTATTTATTATAATTAAATTTAT
8900 T
1 T
8901 TTCTTGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 9 0.30
32 2 0.07
33 3 0.10
34 11 0.37
35 5 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (34 bp):
TATATAATTTTTTATTTATTATAATTAAATTTAT
Found at i:16708 original size:20 final size:21
Alignment explanation
Indices: 16667--16713 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
16657 GTTCAAAAAA
*
16667 TTAATAATTATTTTAAA-ATT
1 TTAATAATTATTATAAATATT
*
16687 TTAATAATTA-TATAATATTTT
1 TTAATAATTATTATAA-ATATT
16708 TTAATA
1 TTAATA
16714 TAATTCAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 11 0.48
21 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATAATTATTATAAATATT
Found at i:17642 original size:186 final size:186
Alignment explanation
Indices: 17411--17786 Score: 680
Period size: 186 Copynumber: 2.0 Consensus size: 186
17401 TATGCATAAA
17411 ATTTATATTGGGAGATTCATCCACCAAAATCATATTTCGATACATGTTCTTACTTCTTACCTAAA
1 ATTTATATTGGGAGATTCATCCACCAAAATCATATTTCGATACATGTTCTTACTTCTTACCTAAA
*
17476 TCGTTTTGTTTCAAACTAAGATTTATAAGAGAATAAAATCTAAATCATATACGTTTAAGCATCAA
66 TCGTTTTGTTTCAAACTAAGATTTATAAGAGAATAAAATCTAAACCATATACGTTTAAGCATCAA
17541 CATCTCATTAGTATCTTTTTATTAAGGGTTAGCTACCGGATTAATAGATTCTCTTT
131 CATCTCATTAGTATCTTTTTATTAAGGGTTAGCTACCGGATTAATAGATTCTCTTT
* * *
17597 ATTTATATTGGGAGATTCATCTACCAAAATCATGTTTCGATACATGTTCTTACTTCTTACCTCAA
1 ATTTATATTGGGAGATTCATCCACCAAAATCATATTTCGATACATGTTCTTACTTCTTACCTAAA
*
17662 TCGTTTTGTTTCAAACTAAGATTTGTAAGAGAATAAAATCTAAACCATATACGTTTAAGCATCAA
66 TCGTTTTGTTTCAAACTAAGATTTATAAGAGAATAAAATCTAAACCATATACGTTTAAGCATCAA
* * *
17727 CATTTCATTAGTATCTTTTTATTAAGGGTTATCTACCGGATTAATAGCTTCTCTTT
131 CATCTCATTAGTATCTTTTTATTAAGGGTTAGCTACCGGATTAATAGATTCTCTTT
17783 ATTT
1 ATTT
17787 TTGTACCCTT
Statistics
Matches: 182, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
186 182 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (186 bp):
ATTTATATTGGGAGATTCATCCACCAAAATCATATTTCGATACATGTTCTTACTTCTTACCTAAA
TCGTTTTGTTTCAAACTAAGATTTATAAGAGAATAAAATCTAAACCATATACGTTTAAGCATCAA
CATCTCATTAGTATCTTTTTATTAAGGGTTAGCTACCGGATTAATAGATTCTCTTT
Found at i:19380 original size:23 final size:23
Alignment explanation
Indices: 19350--19412 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
19340 ACTTTACAAC
19350 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
19373 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
19396 TACCTATTACATCATAT
1 TACCTATTACATTATAT
19413 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:19857 original size:23 final size:23
Alignment explanation
Indices: 19831--19893 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
19821 ACTTTACAAC
19831 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
19854 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
19877 TACCTATTACATCATAT
1 TACCTATTACATTATAT
19894 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:20345 original size:23 final size:23
Alignment explanation
Indices: 20315--20377 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
20305 ACTTTACAAC
20315 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
20338 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
20361 TACCTATTACATCATAT
1 TACCTATTACATTATAT
20378 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:20812 original size:966 final size:962
Alignment explanation
Indices: 18945--21394 Score: 4580
Period size: 966 Copynumber: 2.5 Consensus size: 962
18935 TTATAATATG
*
18945 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT-ATTCTTTTTAAAGTTATGTAATTTATGT
*
19010 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
19075 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATTTAACAATAT
130 CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
19140 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
19205 ATCGTAACGTAAAAAATAAATAATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
19270 CAAAATATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
19335 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
390 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
19400 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
455 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
19465 TCTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACA
520 TCTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACA
19530 ATATTAATTTAATAATTTCATTTACACAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAA
585 ATATTAATTTAATAATTTCATTTACACAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAA
19595 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
650 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTA
19660 TTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
715 TTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
* *
19725 ACTAAATTAATATCTTAAAACTCACTCAAAATATAACCTTAAATTAATGTTTTCTACAGTGAAAA
780 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAA
*
19790 AAATATGGACACTTTTATAAAAAGGATATATACTTTACAACTACCTATTACATTATATAAACGAT
845 AAATATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGAT
*
19855 ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
910 ACCTATTACATTATATAAGCGCTACCTATTAAATCATATTTTTACCTATTATA
* * * *
19908 TTGAAAGTGTTCATATTTTTTATAAAAAGGACCGATACTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATATTCTTTTTAAAGTTATGTAATTTATGTT
19973 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
20038 CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
20103 TAACCAAAGATAATAATAAATATGTAATATATATATGTTTATTGTTTTTAATTTAATAATAATAT
195 TAACCAAAGATAATAATAAATATGT-A-ATATATATGTTTATTGTTTTTAATTTAATAATAATAT
*
20168 ATATCGTAACGTAAAAAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCA
258 ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
*
20233 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAA
323 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAG
20298 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
388 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
* *
20363 CCTATTACATCATATTTTTACCTATTATATTGAAAGTGTTCATACTTTTTATAAAAAGGACCGAT
453 CCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
20428 ACTCTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCT
518 ACTCTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCT
*
20493 ACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAA
582 ACAATATTAATTTAATAATTTCATTTACACAAAAAAATATTTGATTGTTTTGATATTTTATAAAA
20558 TAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGT
647 TAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGT
*
20623 TTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGTCTATA
712 TTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATA
20688 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
777 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
*
20753 AAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAAC
842 AAAAAATATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAAC
*
20818 GATACCTATTACATTATATAAGCGCTACTTATTAAATCATATTTTTACCTATTATA
907 GATACCTATTACATTATATAAGCGCTACCTATTAAATCATATTTTTACCTATTATA
*
20874 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATATTCTTTTTAAAGTTATGTAATTTATGTT
20939 TCAACTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
21004 -AAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 CAAAAAAA-TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
21068 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
21133 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC-CAA
259 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTC-A
*
21197 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGTACACTTTTATAAAAAG
323 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAG
21262 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
388 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
*
21327 CCTATTACATTATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
453 CCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
21392 ACT
518 ACT
21395 TACGAAAGTA
Statistics
Matches: 1446, Mismatches: 35, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
962 31 0.02
963 181 0.13
964 293 0.20
965 331 0.23
966 610 0.42
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (962 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATATTCTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACT
CTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAA
TATTAATTTAATAATTTCATTTACACAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAAT
ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTAT
TGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTA
CTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
AATATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATA
CCTATTACATTATATAAGCGCTACCTATTAAATCATATTTTTACCTATTATA
Found at i:20859 original size:23 final size:23
Alignment explanation
Indices: 20796--20851 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
20786 TACTTTACAA
20796 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
20819 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
20842 CTACTTATTA
1 CTACCTATTA
20852 AATCATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:20891 original size:482 final size:481
Alignment explanation
Indices: 18945--21394 Score: 4578
Period size: 482 Copynumber: 5.1 Consensus size: 481
18935 TTATAATATG
* *
18945 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT-ACTCTTTTTAAAGTTATGTAATTTATGT
*
19010 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
19075 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
19140 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
19205 ATCGTAACGTAAAAAATAAATAATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
19270 CAAAATATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
19335 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
390 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
19400 TATTACATCATATTTTTACCTATTATA
455 TATTACATCATATTTTTACCTATTATA
19427 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
19492 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
19557 AAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
19622 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
19687 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* * *
19752 AAAATATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAATATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
19817 ATATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
391 AGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
19882 ATTACATCATATTTTTACCTATTATA
456 ATTACATCATATTTTTACCTATTATA
* * *
19908 TTGAAAGTGTTCATATTTTTTATAAAAAGGACCGATACTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
19973 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
20038 CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
20103 TAACCAAAGATAATAATAAATATGTAATATATATATGTTTATTGTTTTTAATTTAATAATAATAT
195 TAACCAAAGATAATAATAAATATGT-A-ATATATATGTTTATTGTTTTTAATTTAATAATAATAT
*
20168 ATATCGTAACGTAAAAAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCA
258 ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
*
20233 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAA
323 CTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAG
20298 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
388 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
20363 CCTATTACATCATATTTTTACCTATTATA
453 CCTATTACATCATATTTTTACCTATTATA
* *
20392 TTGAAAGTGTTCATACTTTTTATAAAAAGGACCGATACTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
20457 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
20522 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
20587 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
20652 ATCGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
20717 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
20782 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACT
390 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
*
20847 TATTAAATCATATTTTTACCTATTATA
455 TATTACATCATATTTTTACCTATTATA
* *
20874 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTCTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
20939 TCAACTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
21004 AAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
21069 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
21134 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC-CAAC
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTC-AC
*
21198 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGTACACTTTTATAAAAAGG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
21263 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
389 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
*
21328 CTATTACATTATATTTTTACCTATTATA
454 CTATTACATCATATTTTTACCTATTATA
21356 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACT
21395 TACGAAAGTA
Statistics
Matches: 1927, Mismatches: 37, Indels: 8
0.98 0.02 0.00
Matches are distributed among these distances:
481 504 0.26
482 948 0.49
483 2 0.00
484 473 0.25
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (481 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
ATTACATCATATTTTTACCTATTATA
Found at i:21309 original size:23 final size:23
Alignment explanation
Indices: 21279--21341 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
21269 ACTTTACAAC
21279 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
21302 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
21325 TACCTATTACATTATAT
1 TACCTATTACATTATAT
21342 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:21449 original size:17 final size:18
Alignment explanation
Indices: 21427--21469 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
21417 ATATATCCGG
21427 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
21444 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
21464 TATCAT
1 TATCAT
21470 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:21639 original size:20 final size:19
Alignment explanation
Indices: 21612--21672 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 19
21602 TCCGGTAACG
21612 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
21631 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
*
21652 TTTTACCTGG-TATATCATT
1 TTTTACC-GGTTTTATCATT
21671 TT
1 TT
21673 AATATTTCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 5 0.13
20 28 0.74
21 5 0.13
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:22177 original size:23 final size:23
Alignment explanation
Indices: 22147--22209 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
22137 ACTTTACAAC
22147 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
22170 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
22193 TACCTATTACATTATAT
1 TACCTATTACATTATAT
22210 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:22663 original size:23 final size:23
Alignment explanation
Indices: 22633--22691 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
22623 TACAACTACC
22633 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
22656 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
22679 TATTACATTATAT
1 TATTACATTATAT
22692 TTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:22858 original size:482 final size:482
Alignment explanation
Indices: 21953--23230 Score: 2448
Period size: 482 Copynumber: 2.7 Consensus size: 482
21943 GGTAACGTTT
*
21953 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAA
1 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCATAACGTAAAAAA
*
22018 TAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
66 TAAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
* *
22083 ATTAATGTTTTCCACAATGAAAAAGGTATGTACACTTTTATAAAAAGGATAGATACTTTACAACT
131 ATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACT
*
22148 ACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATTATATTTT
196 ACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATTATATTTT
22213 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATG
261 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATG
*
22278 TAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
326 TAATTTATATTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
22343 TTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAA
391 TTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAA
22408 TTTAACAATATTAACCAATGATAATAA
456 TTTAACAATATTAACCAATGATAATAA
*
22435 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCATAAAGTAAAAAA
1 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCATAACGTAAAAAA
22500 TAAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
66 TAAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
22565 ATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACT
131 ATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACT
22630 ACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATTATATTTT
196 ACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATTATATTTT
*
22695 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATG
261 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATG
22760 TAATTTATATTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
326 TAATTTATATTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
22825 TTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAA
391 TTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAA
22890 TTTAACAATATTAACCAATGATAATAA
456 TTTAACAATATTAACCAATGATAATAA
22917 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCATAACGTAAAAAA
1 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCATAACGTAAAAAA
*
22982 TAAATTATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
66 TAAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
23047 ATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACT
131 ATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACT
* *
23112 ACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATCATTTTTT
196 ACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATTATATTTT
*
23177 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACATTTT
261 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTT
23231 GAAGCAATTG
Statistics
Matches: 782, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
482 782 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.40
Consensus pattern (482 bp):
TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCATAACGTAAAAAA
TAAATCATTAGACGCCTATAGTTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
ATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACT
ACCTATTACATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATTATATTTT
TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATG
TAATTTATATTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
TTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAA
TTTAACAATATTAACCAATGATAATAA
Found at i:23145 original size:23 final size:23
Alignment explanation
Indices: 23115--23168 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
23105 TACAACTACC
23115 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
23138 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
23161 TATTACAT
1 TATTACAT
23169 CATTTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:23853 original size:17 final size:18
Alignment explanation
Indices: 23831--23873 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
23821 ATATATCCGG
23831 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
23848 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
23868 TATCAT
1 TATCAT
23874 ATTTTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:24048 original size:20 final size:20
Alignment explanation
Indices: 24017--24063 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
24007 TACGGTAACG
*
24017 TTTTATCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
24036 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
24057 TTTTACC
1 TTTTACC
24064 TGATATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:24519 original size:229 final size:229
Alignment explanation
Indices: 24112--25061 Score: 1724
Period size: 229 Copynumber: 4.1 Consensus size: 229
24102 ACTTTTATAC
*
24112 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
* *
24177 TTTTTAATAGTGTTTCATGTTTTTCACTTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
24242 TTATTTGATTAATTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
* *
24307 GATAATAATAAATATGTTTTCCACAGTAAAATGA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
24341 GTATGAACACTTTTATAAAAATGATATATA-TATTTTTTAAAGTTATGTAATTTATGTTTCAATT
1 GTATGAACACTTTTATAAAAATGATATATACT-TTTTTTAAAGTTATGTAATTTATGTTTCAATT
24405 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
65 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
24470 ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAA
130 ATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAA
24535 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
195 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
24570 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
24635 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
24700 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
**
24765 GATAATAATAAATATGTTTTCCTTAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
24799 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
24864 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
24929 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
131 TTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAA
*
24994 AGATAATAATAAATATATTTT-CACAGTGAAATAA
195 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
* * *
25028 GTATGTACACTTTTATAAAAAGGATAGATACTTT
1 GTATGAACACTTTTATAAAAATGATATATACTTT
25062 ACAATATAAC
Statistics
Matches: 700, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
228 1 0.00
229 626 0.89
230 73 0.10
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (229 bp):
GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACAAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:25192 original size:17 final size:17
Alignment explanation
Indices: 25170--25205 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25160 GGATAGATAC
25170 TTACCGATAACCAAAGT
1 TTACCGATAACCAAAGT
* *
25187 TTACCGGTTACCAAAGT
1 TTACCGATAACCAAAGT
25204 TT
1 TT
25206 TAATAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (17 bp):
TTACCGATAACCAAAGT
Found at i:43327 original size:21 final size:21
Alignment explanation
Indices: 43301--43363 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
43291 GTCGAGGGTT
43301 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
*
43322 TCATAGGTCCTTCGGGACAAAT
1 TCATAGGTCCTTCGGGAC-AAC
*
43344 TCACAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
43364 ATTTCATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:43354 original size:22 final size:22
Alignment explanation
Indices: 43300--43371 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
43290 AGTCGAGGGT
43300 TTCATAGGTCCTTCGGGAC-AA
1 TTCATAGGTCCTTCGGGACAAA
*
43321 CTCATAGGTCCTTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
*
43343 TTCACAGGTCCTTCGGGACAAA
1 TTCATAGGTCCTTCGGGACAAA
43365 TTTCATA
1 -TTCATA
43372 TGCCACTCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.40
22 22 0.49
23 5 0.11
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (22 bp):
TTCATAGGTCCTTCGGGACAAA
Found at i:43901 original size:22 final size:22
Alignment explanation
Indices: 43876--43921 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
43866 TTCGGAAGTA
*
43876 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGATTCC
*
43898 CTGTAGTAGGGGAATCGATTCC
1 CTGTAGCAGGGGAATCGATTCC
43920 CT
1 CT
43922 ATTTGTAAAT
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:0.20, C:0.22, G:0.33, T:0.26
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATTCC
Found at i:46445 original size:20 final size:18
Alignment explanation
Indices: 46420--46470 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 18
46410 AAATCAGAGT
46420 TTTAAATATATATAGTTAA-A
1 TTTAAATA-ATAT--TTAATA
46440 TTTAAACTAATATTTAATA
1 TTTAAA-TAATATTTAATA
46459 TTTAAATTAATA
1 TTTAAA-TAATA
46471 ATTAGACTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 10 0.36
21 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTAAATAATATTTAATA
Found at i:46463 original size:19 final size:18
Alignment explanation
Indices: 46435--46470 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
46425 ATATATATAG
46435 TTAAATTTAAACTAATAT
1 TTAAATTTAAACTAATAT
*
46453 TTAATATTTAAATTAATA
1 TTAA-ATTTAAACTAATA
46471 ATTAGACTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTTAAACTAATAT
Found at i:48637 original size:2 final size:2
Alignment explanation
Indices: 48630--48674 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
48620 TATTAATACA
48630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48672 AT A
1 AT A
48675 AGGCTATGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:49290 original size:22 final size:22
Alignment explanation
Indices: 49247--49290 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49237 TTTCTAATAA
*
49247 TTTTGTCTTTATAACATATTTT
1 TTTTGTCTTTATAACACATTTT
* *
49269 TTTTGTCTTTATGACACGTTTT
1 TTTTGTCTTTATAACACATTTT
49291 CTCCTGCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTTGTCTTTATAACACATTTT
Found at i:52010 original size:20 final size:19
Alignment explanation
Indices: 51973--52021 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
51963 TTAAAATATC
*
51973 AAAATATT-CAAAAAAAAT
1 AAAATATTAAAAAAAAAAT
51991 AAAATATTAAAAATAAAAAT
1 AAAATATTAAAAA-AAAAAT
* *
52011 TAATTATTAAA
1 AAAATATTAAA
52022 CTAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 15 0.58
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATATTAAAAAAAAAAT
Found at i:56028 original size:21 final size:21
Alignment explanation
Indices: 56002--56049 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
55992 ACTTCAGTTG
56002 TTAAAAGAATCATTGTTGTTC
1 TTAAAAGAATCATTGTTGTTC
56023 TTAAAAGAATCATTGTTGTTC
1 TTAAAAGAATCATTGTTGTTC
56044 TTAAAA
1 TTAAAA
56050 ATTACGAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (21 bp):
TTAAAAGAATCATTGTTGTTC
Found at i:60814 original size:13 final size:14
Alignment explanation
Indices: 60791--60823 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
60781 TGTGACCCAG
60791 CACAGTAAAACTGA-
1 CACA-TAAAACTGAT
60805 CACATAAAACTGAT
1 CACATAAAACTGAT
60819 CACAT
1 CACAT
60824 TAATTCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.48, C:0.24, G:0.09, T:0.18
Consensus pattern (14 bp):
CACATAAAACTGAT
Found at i:63016 original size:21 final size:22
Alignment explanation
Indices: 62992--63040 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
62982 TTAAGCGTTC
62992 ATTATGTT-ATGTATTTATT-TT
1 ATTATGTTCAT-TATTTATTATT
*
63013 ATTATTTTCATTATTTATTACTT
1 ATTATGTTCATTATTTATTA-TT
63036 ATTAT
1 ATTAT
63041 ACAATTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 15 0.62
22 2 0.08
23 7 0.29
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTATGTTCATTATTTATTATT
Found at i:66182 original size:120 final size:120
Alignment explanation
Indices: 66036--66294 Score: 297
Period size: 122 Copynumber: 2.1 Consensus size: 120
66026 TAAATAAGTG
* * *
66036 CCTAAATTGTCAGTTTTAGTATTTTTAATACTTAAACTTACAA-TTTTTTAAAATTATACATAAT
1 CCTAAATTAT-AGTTTTAGTATTTTTAATACGTAAACTTACAATTTTTTTAAAATTATACATAAC
* * * *
66100 GTTTAGTTTTTATTTCATTTTAGTATCTCTCC-ATTAAAAATTTAATGCATTTATTA
65 GTTTAATTTTTATATCATTTTAGTATCTC-CCTATTAAAAATTTAACGCATTTAGTA
* * ** * *
66156 CCTAAATTATAGTTTTAGTCTGTTTTAATGCGTAAACTTTTAATTTTTTTTAAATTTATACCTAA
1 CCTAAATTATAGTTTTAGTAT-TTTTAATACGTAAACTTACAA-TTTTTTTAAAATTATACATAA
* * * *
66221 CGTTTAATTTTTGTATCATTTTATTATCTCCCTGTTAAAAATTTAACGCGTTTAGTA
64 CGTTTAATTTTTATATCATTTTAGTATCTCCCTATTAAAAATTTAACGCATTTAGTA
*
66278 CCTAAAATATTAGTTTT
1 CCTAAATTA-TAGTTTT
66295 GGTCCATTTT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 10 0.09
120 26 0.22
121 2 0.02
122 71 0.61
123 7 0.06
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (120 bp):
CCTAAATTATAGTTTTAGTATTTTTAATACGTAAACTTACAATTTTTTTAAAATTATACATAACG
TTTAATTTTTATATCATTTTAGTATCTCCCTATTAAAAATTTAACGCATTTAGTA
Found at i:67945 original size:35 final size:35
Alignment explanation
Indices: 67886--67997 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 35
67876 AAAACATTCC
* *
67886 TCAATTTCATTATAAATCCC-AAATTTCAAAGTAAT
1 TCAATTTCATTCTAAA-CCCTAAATTTCAAAATAAT
*
67921 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
* *
67956 TCAATTACATTCTAAACCCTAAA-TTCTAAAATACT
1 TCAATTTCATTCTAAACCCTAAATTTC-AAAATAAT
67991 TCAATTT
1 TCAATTT
67998 AAGGAGAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 5 0.07
35 63 0.93
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
Found at i:69069 original size:35 final size:34
Alignment explanation
Indices: 69020--69132 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
69010 AAAAAAGACA
* *
69020 GAAATTGAAGTATTTTAGAATTTGGGTTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGGG-TTTAGAAT
*
69055 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTT-GGGTTTAGAAT
*
69090 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTAGAAT
69125 GAAATTGA
1 GAAATTGA
69133 GAATTGTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.94
36 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTAGAAT
Found at i:70965 original size:25 final size:26
Alignment explanation
Indices: 70921--70970 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
70911 GTTGTTTATA
*
70921 GGATTGGGGTTTAGTTCTTTATAGAT
1 GGATTGGGGTGTAGTTCTTTATAGAT
70947 GGATTGGGG-GTAGTTCTTTATAGA
1 GGATTGGGGTGTAGTTCTTTATAGA
70971 AAGATTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.20, C:0.04, G:0.34, T:0.42
Consensus pattern (26 bp):
GGATTGGGGTGTAGTTCTTTATAGAT
Found at i:70976 original size:25 final size:26
Alignment explanation
Indices: 70922--70978 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
70912 TTGTTTATAG
* **
70922 GATTGGGGTTTAGTTCTTTATAGATG
1 GATTGGGGTGTAGTTCTTTATAGAAA
70948 GATTGGGG-GTAGTTCTTTATAGAAA
1 GATTGGGGTGTAGTTCTTTATAGAAA
70973 GATTGG
1 GATTGG
70979 TTTTTTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.40
Consensus pattern (26 bp):
GATTGGGGTGTAGTTCTTTATAGAAA
Found at i:71077 original size:107 final size:106
Alignment explanation
Indices: 70890--71301 Score: 560
Period size: 107 Copynumber: 3.8 Consensus size: 106
70880 TATTAGTGCT
* *
70890 ATAAGTAGGATGCAATGTAACGTTGTTTATAGGATTGGGGTTTAGTTCTTTATAGATGGATTGGG
1 ATAAGTAGGATGCAATGTAACTTTG-TTATAGGATTGGGGTTTAGTTCTTTATAGATGGATT-TG
*
70955 GGTAGTTCTTTATAGAAAGATTGGTTTTTTTTAGTTATATGCA
64 GGTAGTTCTTTATAGAAAGATTGGATTTTTTTAGTTATATGCA
* * *
70998 ATAAGTAGGATGCAATGTAATTTTGTTATAGGATTGGGG-TTAGTTCTTTTTAGATGGGATTCTA
1 ATAAGTAGGATGCAATGTAACTTTGTTATAGGATTGGGGTTTAGTTCTTTATAGAT-GGATT-TG
* * * *
71062 GGTAGTTCTCTATAGAAAGATTGGAGTTTTTTAGTTGTGTGCA
64 GGTAGTTCTTTATAGAAAGATTGGATTTTTTTAGTTATATGCA
*
71105 ATAAGTAGGATGCAATGTAACTTTGTTATAGGATTGGGG-TTAGTTCTTTTTAGATGGA-TTGGG
1 ATAAGTAGGATGCAATGTAACTTTGTTATAGGATTGGGGTTTAGTTCTTTATAGATGGATTTGGG
* *
71168 GAGTTCTTTATAGAAAGATTGGGTTTTTTTAGTTATATGCA
66 TAGTTCTTTATAGAAAGATTGGATTTTTTTAGTTATATGCA
* *
71209 ATAAGTAGAATGCAATGTAACTTTCTTTATAGATGGATTGGGGTTTAGTTCTTTATAGATGGATT
1 ATAAGTAGGATGCAATGTAACTTT-GTTAT--A-GGATTGGGGTTTAGTTCTTTATAGATGGATT
* *
71274 GGGGTTTAGTTCTTTATAGAAGGATTGG
62 TGGG--TAGTTCTTTATAGAAAGATTGG
71302 GGTTTAGTTT
Statistics
Matches: 270, Mismatches: 25, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
104 61 0.23
105 5 0.02
106 18 0.07
107 112 0.41
108 32 0.12
109 18 0.07
110 4 0.01
112 20 0.07
ACGTcount: A:0.26, C:0.05, G:0.27, T:0.42
Consensus pattern (106 bp):
ATAAGTAGGATGCAATGTAACTTTGTTATAGGATTGGGGTTTAGTTCTTTATAGATGGATTTGGG
TAGTTCTTTATAGAAAGATTGGATTTTTTTAGTTATATGCA
Found at i:71176 original size:23 final size:24
Alignment explanation
Indices: 71134--71190 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
71124 ACTTTGTTAT
*
71134 AGGATTGGGGTTAGTTCTTTTTAGA
1 AGGATTGGGG-TAGTTCTTTATAGA
*
71159 TGGATTGGGG-AGTTCTTTATAGA
1 AGGATTGGGGTAGTTCTTTATAGA
*
71182 AAGATTGGG
1 AGGATTGGG
71191 TTTTTTTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.68
25 9 0.32
ACGTcount: A:0.23, C:0.04, G:0.35, T:0.39
Consensus pattern (24 bp):
AGGATTGGGGTAGTTCTTTATAGA
Found at i:71260 original size:26 final size:26
Alignment explanation
Indices: 71231--71310 Score: 151
Period size: 26 Copynumber: 3.1 Consensus size: 26
71221 CAATGTAACT
71231 TTCTTTATAGATGGATTGGGGTTTAG
1 TTCTTTATAGATGGATTGGGGTTTAG
71257 TTCTTTATAGATGGATTGGGGTTTAG
1 TTCTTTATAGATGGATTGGGGTTTAG
*
71283 TTCTTTATAGAAGGATTGGGGTTTAG
1 TTCTTTATAGATGGATTGGGGTTTAG
71309 TT
1 TT
71311 TTCAGGCAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.46
Consensus pattern (26 bp):
TTCTTTATAGATGGATTGGGGTTTAG
Found at i:71668 original size:28 final size:28
Alignment explanation
Indices: 71635--71694 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
71625 GAGCAGGATT
71635 AATGAAGGCCCTTTGATCTTTCAGGAGC
1 AATGAAGGCCCTTTGATCTTTCAGGAGC
71663 AATGAAGGCCCTTTGATCTTTCAGGAGC
1 AATGAAGGCCCTTTGATCTTTCAGGAGC
71691 AATG
1 AATG
71695 CATAAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (28 bp):
AATGAAGGCCCTTTGATCTTTCAGGAGC
Found at i:79410 original size:24 final size:24
Alignment explanation
Indices: 79368--79418 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
79358 ATTATTTTTT
* *
79368 TATCATTTTTACTATTAAAATAAAC
1 TATCATTTTTACAAATAAAAT-AAC
79393 TATCATTTTTA-AAATAAAATAAC
1 TATCATTTTTACAAATAAAATAAC
79416 TAT
1 TAT
79419 GTTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.25
24 7 0.29
25 11 0.46
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (24 bp):
TATCATTTTTACAAATAAAATAAC
Found at i:80215 original size:20 final size:20
Alignment explanation
Indices: 80190--80228 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
80180 TAATTTTTTC
* *
80190 AAAATAATAATTAAATAATT
1 AAAATAAAAACTAAATAATT
80210 AAAATAAAAACTAAATAAT
1 AAAATAAAAACTAAATAAT
80229 GCGTTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATAAAAACTAAATAATT
Found at i:86830 original size:6 final size:6
Alignment explanation
Indices: 86818--86878 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
86808 GGAAGAGGAG
* *
86818 GTAGAA GTTGAA GAAGAA GTAGAA GTAGAA GTAGAA GTAGAA G-AGGAA
1 GTAGAA GTAGAA GTAGAA GTAGAA GTAGAA GTAGAA GTAGAA GTA-GAA
* *
86866 GTTGAA GTTGAA G
1 GTAGAA GTAGAA G
86879 AAGACGAGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 1 0.02
6 47 0.98
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (6 bp):
GTAGAA
Found at i:86830 original size:18 final size:18
Alignment explanation
Indices: 86803--86879 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 18
86793 GCATCTACAG
* *
86803 GAAGTGGAAGAGGAGGTA
1 GAAGTTGAAGAGGAAGTA
*
86821 GAAGTTGAAGAAGAAGTA
1 GAAGTTGAAGAGGAAGTA
86839 GAAG-T----A-GAAGTA
1 GAAGTTGAAGAGGAAGTA
* *
86851 GAAGTAGAAGAGGAAGTT
1 GAAGTTGAAGAGGAAGTA
86869 GAAGTTGAAGA
1 GAAGTTGAAGA
86880 AGACGAGGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
12 10 0.21
13 1 0.02
17 2 0.04
18 34 0.72
ACGTcount: A:0.45, C:0.00, G:0.39, T:0.16
Consensus pattern (18 bp):
GAAGTTGAAGAGGAAGTA
Found at i:88538 original size:31 final size:31
Alignment explanation
Indices: 88488--88623 Score: 105
Period size: 32 Copynumber: 4.4 Consensus size: 31
88478 AATTTTATCA
* * *
88488 AATTGTTACAAGATAGTCATTAAATTTATTG
1 AATTTTTACAAAATGGTCATTAAATTTATTG
* *
88519 AATTTTTAGAAAATGGTCATTAAATTT-TATC
1 AATTTTTACAAAATGGTCATTAAATTTAT-TG
* * *
88550 AGTTTATTACAAAATAGTCATTAAATTTTATCG
1 AATTT-TTACAAAATGGTCATTAAA-TTTATTG
* * * * *
88583 AAATGTTACAAAATGATCATT-AGTTTATAG
1 AATTTTTACAAAATGGTCATTAAATTTATTG
*
88613 AAATTTTACAA
1 AATTTTTACAA
88624 TCATTATAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
30 17 0.20
31 29 0.35
32 31 0.37
33 5 0.06
34 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (31 bp):
AATTTTTACAAAATGGTCATTAAATTTATTG
Found at i:88564 original size:32 final size:31
Alignment explanation
Indices: 88478--88604 Score: 123
Period size: 32 Copynumber: 4.0 Consensus size: 31
88468 TTTGCTCACC
* *
88478 AATTTTATCAAATTGTTACAAGATAGTCATTA
1 AATTTTATC-AATTTTTACAAAATAGTCATTA
* * *
88510 AA-TTTATTGAATTTTTAGAAAATGGTCATTA
1 AATTTTA-TCAATTTTTACAAAATAGTCATTA
*
88541 AATTTTATCAGTTTATTACAAAATAGTCATTA
1 AATTTTATCAATTT-TTACAAAATAGTCATTA
* *
88573 AATTTTATCGAAATGTTACAAAAT-GATCATTA
1 AATTTTATC-AATTTTTACAAAATAG-TCATTA
88605 GTTTATAGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
31 30 0.38
32 46 0.59
33 2 0.03
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (31 bp):
AATTTTATCAATTTTTACAAAATAGTCATTA
Found at i:88577 original size:63 final size:64
Alignment explanation
Indices: 88478--88604 Score: 166
Period size: 63 Copynumber: 2.0 Consensus size: 64
88468 TTTGCTCACC
* * * * * * *
88478 AATTTTATCAAATTGTTACAAGATAGTCATTAAA-TTTATTGAATTTTTAGAAAATGGTCATTA
1 AATTTTATCAAATTATTACAAAATAGTCATTAAATTTTATCGAAATGTTACAAAATGATCATTA
**
88541 AATTTTATCAGTTTATTACAAAATAGTCATTAAATTTTATCGAAATGTTACAAAATGATCATTA
1 AATTTTATCAAATTATTACAAAATAGTCATTAAATTTTATCGAAATGTTACAAAATGATCATTA
88605 GTTTATAGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 30 0.56
64 24 0.44
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (64 bp):
AATTTTATCAAATTATTACAAAATAGTCATTAAATTTTATCGAAATGTTACAAAATGATCATTA
Found at i:90099 original size:2 final size:2
Alignment explanation
Indices: 90092--90116 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90082 GTTTATTGTG
90092 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
90117 GAAGATGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100526 original size:12 final size:12
Alignment explanation
Indices: 100494--100526 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
100484 AAAAAGAAAT
*
100494 ATTAGTTATAAA
1 ATTATTTATAAA
100506 ATT-TTTATAAA
1 ATTATTTATAAA
100517 ATTATTTATA
1 ATTATTTATA
100527 TTTTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (12 bp):
ATTATTTATAAA
Found at i:103112 original size:24 final size:26
Alignment explanation
Indices: 103082--103132 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
103072 ACAGTGTTGA
*
103082 ATGATTCAGCAC-AGAAT-CATTCTG
1 ATGATTCAGCACAAAAATACATTCTG
103106 ATGATTCAGCACAAAAATACATTCTG
1 ATGATTCAGCACAAAAATACATTCTG
103132 A
1 A
103133 ATTATTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.50
25 4 0.17
26 8 0.33
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (26 bp):
ATGATTCAGCACAAAAATACATTCTG
Found at i:108624 original size:13 final size:13
Alignment explanation
Indices: 108606--108632 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108596 TTCCATCACC
108606 GCTCATAATATTT
1 GCTCATAATATTT
108619 GCTCATAATATTT
1 GCTCATAATATTT
108632 G
1 G
108633 TTTTAAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (13 bp):
GCTCATAATATTT
Found at i:111635 original size:2 final size:2
Alignment explanation
Indices: 111630--111663 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
111620 TAGATAATTG
111630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111664 TGATATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.