Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001007.1 Hibiscus syriacus cultivar Beakdansim tig00002010_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: 76350
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:9610 original size:2 final size:2
Alignment explanation
Indices: 9603--9637 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9593 AAAACAAATT
9603 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9638 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17604 original size:14 final size:15
Alignment explanation
Indices: 17584--17621 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
17574 CTCCTACAAG
17584 ATTATTAGTTGAATT
1 ATTATTAGTTGAATT
*
17599 -TTATTAGTTGCATT
1 ATTATTAGTTGAATT
17613 ATTATTAGT
1 ATTATTAGT
17622 CGTGTCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (15 bp):
ATTATTAGTTGAATT
Found at i:22036 original size:3 final size:3
Alignment explanation
Indices: 22028--22058 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
22018 TAGTTATTCA
22028 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
22059 AGTTTATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:26154 original size:34 final size:34
Alignment explanation
Indices: 26116--26182 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
26106 AGAGGCAATA
26116 TGCATATTAGAAATATAGGACTCCGTAGGCGATC
1 TGCATATTAGAAATATAGGACTCCGTAGGCGATC
26150 TGCATATTAGAAATATAGGACTCCGTAGGCGAT
1 TGCATATTAGAAATATAGGACTCCGTAGGCGAT
26183 TTGCGAGAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (34 bp):
TGCATATTAGAAATATAGGACTCCGTAGGCGATC
Found at i:27764 original size:5 final size:5
Alignment explanation
Indices: 27754--27780 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
27744 TTCCCTCTTG
27754 TCCAA TCCAA TCCAA TCCAA TCCAA TC
1 TCCAA TCCAA TCCAA TCCAA TCCAA TC
27781 TTGTGTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (5 bp):
TCCAA
Found at i:28307 original size:2 final size:2
Alignment explanation
Indices: 28300--28345 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
28290 TAATCCAACG
28300 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
28342 AT AT
1 AT AT
28346 TCTTTTGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31601 original size:2 final size:2
Alignment explanation
Indices: 31594--31634 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
31584 ATATGAAGAA
31594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
31635 TGTTATAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:32096 original size:13 final size:13
Alignment explanation
Indices: 32078--32102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32068 AGTAATAATT
32078 AATAAAATAAATA
1 AATAAAATAAATA
32091 AATAAAATAAAT
1 AATAAAATAAAT
32103 TGATTTATTA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAAAATAAATA
Found at i:33064 original size:2 final size:2
Alignment explanation
Indices: 33057--33092 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
33047 TTTATGAGAA
33057 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
33093 TTGATTGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37912 original size:23 final size:23
Alignment explanation
Indices: 37886--37958 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
37876 ATAGGTAAAA
* * *
37886 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
*
37909 ATATAATGTAATAGGTAGCATTT
1 ATATAATGTAATAGGTAGCGTTT
*
37932 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
37955 ATAT
1 ATAT
37959 TATAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:38445 original size:23 final size:23
Alignment explanation
Indices: 38373--38445 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
38363 ATAGGTAAAA
*
38373 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
38396 ATACAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
38419 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
38442 ATAT
1 ATAT
38446 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:38892 original size:23 final size:23
Alignment explanation
Indices: 38861--38933 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
38851 ATAGGTAAAA
*
38861 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
38884 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
38907 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
38930 ATAT
1 ATAT
38934 TATAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:39376 original size:23 final size:23
Alignment explanation
Indices: 39345--39417 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
39335 ATAGGTAAAA
*
39345 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
39368 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
39391 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
39414 ATAT
1 ATAT
39418 TGTAAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:39868 original size:23 final size:23
Alignment explanation
Indices: 39834--39906 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
39824 ATAGGTAAAA
* *
39834 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAACGCTT
* *
39857 ATATAATTTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAACGCTT
*
39880 ATATAATGTAATAGGTAATGCTT
1 ATATAATGTAATAGGTAACGCTT
39903 ATAT
1 ATAT
39907 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:39947 original size:489 final size:489
Alignment explanation
Indices: 37466--40797 Score: 5806
Period size: 489 Copynumber: 6.8 Consensus size: 489
37456 TTTTTAATTG
* * *
37466 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTATGAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
** * * *
37531 AATTTAAGGTTATCTTGCGAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGTGCCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
37596 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* *
37661 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAACATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
37726 ACAATCAAATATTTTTTTGTGT-AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
37790 CACTTTTAAAAAAATTGAAACATAAATTACATAAC-TTAAAAAAAATATCGATCATTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAA
* *
37854 AAGTATTGACACTTTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
* *
37919 ATAGGTAGCATTTATATAATGTAATAGGTAGTGT
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
37953 TTATATTATAAAGTATCTATCCTTTTTATAAAAGTGTCCATA-TTCTTTTCAATGTGGAAAACAT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT-TTTTCACTGTGGAAAACAT
38017 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
65 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
38082 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
130 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
38147 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
* *
38212 AATAATCAAATAATATTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
*
38277 ACACTATTAAAAAAATTGAAACATAAATTACATAAC-TT-AAAAAAATATCGATCCTTTTTATAA
325 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAA
*
38340 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATACAATGT
390 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
38405 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
455 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
38440 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * * *
38505 AATTTAAAGTTATTTTTTAAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
38570 TTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAATAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
38635 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATACCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
38700 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
38765 CAGTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAA
*
38829 AAATATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
*
38894 ATAGGTAACGTTTATATAATGTAATAGGTAGTGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
38928 TTATATTATAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
38993 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATAAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
39058 TTATTTTTTACGTTACGATATATATTATTATTAAATT-AAAACAATAAAC--ATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
39120 TT-TTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
39184 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
39249 CACTATTAAAAAAATTGAAACATAAATTACATAAC-TTAAAAAAAATATCGATCATTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAA
**
39313 AAGTATAAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
39378 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* ** * *
39412 TTATATTGTAAAATATCTATATTTTTTATAAAAATGTCCATACTTTTTTTACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
39477 AATTTAAAGTTATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
39542 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* *
39607 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
* *
39672 ACAATCAGATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* * *
39737 TACTATTAAAAAAATTGAAACATAAATTATATAACTTTAAAAAAAGTATCGATCATTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAA
** *
39802 AAGTATTAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATTTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
* *
39867 ATAGGTAACGTTTATATAATGTAATAGGTAATGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
39901 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
39966 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
40031 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
40096 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
40161 ACAATTAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
40226 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAA
* *
40291 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACGTTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
* *
40356 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
40390 TTATATTGTAAAGTATCTATCCTTTTTATAGAAGTGTCCATACTTATTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * * **
40455 AATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* * *
40520 TTACTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* *
40585 TTATTATTATCTTTGTTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
40650 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
40715 CACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATTGATCATTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTAT-AA
40779 AAAGTATGGACACTTTCAA
390 AAAGTATGGACACTTTCAA
40798 CATATTATAA
Statistics
Matches: 2715, Mismatches: 118, Indels: 22
0.95 0.04 0.01
Matches are distributed among these distances:
484 413 0.15
485 54 0.02
486 29 0.01
487 727 0.27
488 568 0.21
489 924 0.34
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (489 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAA
AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:40354 original size:23 final size:23
Alignment explanation
Indices: 40323--40395 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
40313 ATAGGTAAAA
* * *
40323 ATATGATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
40346 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
40369 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
40392 ATAT
1 ATAT
40396 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:41070 original size:19 final size:19
Alignment explanation
Indices: 41024--41150 Score: 66
Period size: 19 Copynumber: 6.5 Consensus size: 19
41014 CTACCCCTAA
41024 TAAATATAAATTAAAAATAT
1 TAAA-ATAAATTAAAAATAT
* * *
41044 TTAGATAAGTTAAAAATAT
1 TAAAATAAATTAAAAATAT
*
41063 TAAAATAATATTTAGATTAATAT
1 TAAAATAA-A-TTA-A-AAATAT
*
41086 TAAAATATAATTTAGATAA-AT
1 TAAAATA-AA-TTA-AAAATAT
* * *
41107 TAAAAAATAATTAAAATTTT
1 TAAAATA-AATTAAAAATAT
41127 TAAAAT-AA-TAAAAATA-
1 TAAAATAAATTAAAAATAT
41143 -AAAATAAA
1 TAAAATAAA
41151 AATAAAATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
15 5 0.06
16 2 0.02
17 6 0.07
18 2 0.02
19 22 0.26
20 11 0.13
21 14 0.16
22 4 0.05
23 19 0.22
24 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
TAAAATAAATTAAAAATAT
Found at i:41076 original size:978 final size:960
Alignment explanation
Indices: 37466--40797 Score: 5266
Period size: 972 Copynumber: 3.4 Consensus size: 960
37456 TTTTTAATTG
* *
37466 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTATGAAAAACATT
1 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * ** * * *
37531 AATTTAAGGTTATCTTGCGAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGTGCCTAATGAT
66 AATTTAAAGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
37596 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* **
37661 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAACATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* *
37726 ACAATCAAATATTTTTTTGTG-TAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
37790 CACTTTTAAAAAAATTGAAACATAAATTACATAAC-TTAAAAAAAATATCGATCATTTTTAT-AA
326 CACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAA
* * *
37853 AAAGTATTGACACTTTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGT
390 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATAT
* * * * *
37918 AATAGGTAGCATTTATATAATGTAATAGGT-AGTGTTTATATTATAAAGTATCTATCCTTTTTAT
455 AATAGGTAAC-GTTATATAATGTAATA-GTAAGCG-TTATA-TA-ATAGTATCTATAC--TTTAT
* *
37982 AAAAGTGTCCATA-TTCTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
513 AAAAGTGTCCA-ACTT-TTTTCACTGT-AAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
* *
38046 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
575 TAAGATATTAATTTAGTAATTATAGGCGCCTAATGA-TTA---TTTACGTTAC-ATATATATTAT
*
38111 TATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTA
635 TATTAAATT-TAAA-AATAAACATATA-ATTACATATTTATTATTATCTTTGGTTAATATTGTTA
* *
38176 AATTTAAATTCTAAATAATATTTTATAAAATATCAAAATAATCAAATAATATTTTGTGTAAATGA
697 AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGA
38241 AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATT
762 AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATT
*
38306 ACATAACTTAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAA
827 ACATAACTTAAAAAAATATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAA
*
38371 AAATATGATGTAATAGGTAGCGCTTATACAATGTAATAGGTAGCGTTTATATAATGTAATAGGTA
892 AAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTA
38436 GTGC
957 GTGC
38440 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
38505 AATTTAAAGTTATTTTTTAAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAAGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
38570 TTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAATAATAAACATATATATTACATAT
131 TTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* *
38635 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATACCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
*
38700 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
38765 CAGTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAAA
326 CACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAA
*
38830 AA-TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATA
* * *
38894 ATAGGTAACGTTTATATAATGTAATAGGT-AGTGCTTATATTATAAAGTATCTATCATTTTTATA
456 ATAGGTAACG-TTATATAATGTAATA-GTAAGCG-TTATA-TA-ATAGTATCTAT-A-CTTTATA
*
38958 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
514 AAAGTGTCCA-ACTTTTTTCACTGT-AAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
* *
39023 AGATATTAATTTAGTAATTATAGGCGTCTAATAATTTATTTTTTACGTTACGATATATATTATTA
577 AGATATTAATTTAGTAATTATAGGCGCCTAATGA-TTA---TTTACGTTAC-ATATATATTATTA
*
39088 TTAAATTAAAACAATAAACATAT-ATTACATATTT-TTATTATCTTTGGTTAATATTGTTAAATT
637 TTAAATTTAAA-AATAAACATATAATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATT
*
39151 TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATT
701 TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATT
39216 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACAT
766 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACAT
**
39281 AACTTAAAAAAAATATCGATCATTTTTATAAAAAGTATAAACACTTTCAATATAATAGGTAAAAA
831 AACTT-AAAAAAATATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
39346 TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTG
895 TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTG
39411 C
960 C
* * * *
39412 TTATATTGTAAAATATCTATATTTTTTATAAAAATGTCCATACTTTTTTTACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
39477 AATTTAAAGTTATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAAGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
39542 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
39607 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
*
39672 ACAATCAGATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
39737 TACTATTAAAAAAATTGAAACATAAATTATATAACTTTAAAAAAAGTATCGATCATTTTTAT-AA
326 CACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAA
** *
39801 AAAGTATTAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATTT
390 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATAT
*
39866 AATAGGTAACGTTTATATAATGTAATAGGTAATGC-TTATATTGTAA-AGTATCTATCCTTTTTA
455 AATAGGTAACG-TTATATAATGTAATA-GTAA-GCGTTATA---TAATAGTATCTATAC--TTTA
39929 TAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
512 TAAAAGTGTCCA-ACTTTTTTCACTGTA-AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
*
39994 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTAT
575 TAAGATATTAATTTAGTAATTATAGGCGCCTAATGA-TTA---TTTACGTTAC-ATATATATTAT
*
40059 TATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTA
635 TATTAAATT-TAAA-AATAAACATATA-ATTACATATTTATTATTATCTTTGGTTAATATTGTTA
*
40124 AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATTAAATAATTTTTTGTGTAAATGA
697 AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGA
40189 AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATT
762 AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATT
*
40254 ACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGT
827 ACATAAC-TTAAAAAAA-TATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGT
* * *
40319 AAAAATATGATGTAATAGGTAACGTTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGG
890 AAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGG
*
40384 TAGCGC
955 TAGTGC
* * *
40390 TTATATTGTAAAGTATCTATCCTTTTTATAGAAGTGTCCATACTTATTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * * **
40455 AATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAAGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
40520 TTACTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
40585 TTATTATTATCTTTGTTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
40650 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
40715 CACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATTGATCATTTTTATAAAA
326 CACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAA
40780 AAGTATGGACACTTTCAA
391 AAGTATGGACACTTTCAA
40798 CATATTATAA
Statistics
Matches: 2235, Mismatches: 99, Indels: 44
0.94 0.04 0.02
Matches are distributed among these distances:
971 161 0.07
972 451 0.20
973 294 0.13
974 327 0.15
975 323 0.14
976 18 0.01
977 219 0.10
978 442 0.20
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (960 bp):
TTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAAGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAA
AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATA
ATAGGTAACGTTATATAATGTAATAGTAAGCGTTATATAATAGTATCTATACTTTATAAAAGTGT
CCAACTTTTTTCACTGTAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA
TTTAGTAATTATAGGCGCCTAATGATTATTTACGTTACATATATATTATTATTAAATTTAAAAAT
AAACATATAATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAAT
ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTG
TAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTAAAAAAATAT
CGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTA
GCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:41086 original size:23 final size:22
Alignment explanation
Indices: 41058--41136 Score: 78
Period size: 23 Copynumber: 3.7 Consensus size: 22
41048 ATAAGTTAAA
41058 AATATTAAAATAATATTTAGATT
1 AATATTAAAATAATATTTAGA-T
41081 AATATTAAAAT-ATAATTTAGAT
1 AATATTAAAATAAT-ATTTAGAT
*
41103 AA-ATTAAAA-AATAATTA-A-
1 AATATTAAAATAATATTTAGAT
*
41121 AATTTTTAAAATAATA
1 AA-TATTAAAATAATA
41137 AAAATAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 10 0.20
21 13 0.27
22 5 0.10
23 18 0.37
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (22 bp):
AATATTAAAATAATATTTAGAT
Found at i:41110 original size:21 final size:23
Alignment explanation
Indices: 41058--41118 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
41048 ATAAGTTAAA
41058 AATATTAAAATA-ATATTTAGATT
1 AATATTAAAATATA-ATTTAGATT
41081 AATATTAAAATATAATTTAGA-T
1 AATATTAAAATATAATTTAGATT
*
41103 AA-ATTAAAAAATAATT
1 AATATTAAAATATAATT
41119 AAAATTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 13 0.36
22 3 0.08
23 19 0.53
24 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (23 bp):
AATATTAAAATATAATTTAGATT
Found at i:41142 original size:6 final size:6
Alignment explanation
Indices: 41133--41157 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
41123 TTTTTAAAAT
41133 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
41158 TATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:41258 original size:2 final size:2
Alignment explanation
Indices: 41251--41283 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
41241 TATTTCATAA
41251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41284 AAAGTAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41751 original size:19 final size:18
Alignment explanation
Indices: 41727--41770 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
41717 AAAATAATCG
41727 AACCGAACTAAGTTCG-ATT
1 AACCGAACTAA--TCGAATT
*
41746 AACCGAATTAATCGAATT
1 AACCGAACTAATCGAATT
41764 AACCGAA
1 AACCGAA
41771 ATTTATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 10 0.43
19 10 0.43
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (18 bp):
AACCGAACTAATCGAATT
Found at i:42061 original size:3 final size:3
Alignment explanation
Indices: 42048--42093 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
42038 TTTTTTATCG
*
42048 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42094 CATATTACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:42194 original size:25 final size:25
Alignment explanation
Indices: 42165--42213 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
42155 CCCAACCCAT
42165 CAGATTAGGGTTTCAAACCCTAAAC
1 CAGATTAGGGTTTCAAACCCTAAAC
42190 CAGATTAGGGTTTCAAACCCTAAA
1 CAGATTAGGGTTTCAAACCCTAAA
42214 TGTTCCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAC
Found at i:45674 original size:31 final size:32
Alignment explanation
Indices: 45638--45699 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
45628 ATTTTACATG
45638 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
45669 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
45700 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:46246 original size:210 final size:210
Alignment explanation
Indices: 45878--46293 Score: 564
Period size: 210 Copynumber: 2.0 Consensus size: 210
45868 ATGATATTTT
* *
45878 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
1 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCGAAGGAGTAATCCAACAG
* * * *
45943 TAGATTCTCATCCACAATTATTCCATCGTTAACCATCAGGGAGTGAAGCACAAACTTCAGCATAG
66 TAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACAG
* * * * *
46008 CCGAGGTATTAATGGAGTTAGTTTACAGAGCATAGAGGGGCATCGGTTCCAAGTACAAAGATCCG
131 CCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCCG
46073 AGACGAAGCAGTGAG
196 AGACGAAGCAGTGAG
*
46088 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCAGTGATCCGAA-GAGTAATCCAACA
1 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGAT-CGAAGGAGTAATCCAACA
* * * * ** *
46152 GTAGATTCTCATCTACAATTATTTCATCGCTATCCATCAAGGAGCGACGCACTGACTTCAGCACC
65 GTAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACA
* * * * * * * * *
46217 GCCGGGGCATTAATGGTGTCAGATTACAGATCATTGAGGGGCATTATTTTCAAGGACGAAGATCT
130 GCCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCC
46282 GAGACGAAGCAG
195 GAGACGAAGCAG
46294 CGATCTATTT
Statistics
Matches: 177, Mismatches: 28, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
210 174 0.98
211 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (210 bp):
CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCGAAGGAGTAATCCAACAG
TAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACAG
CCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCCG
AGACGAAGCAGTGAG
Found at i:48163 original size:26 final size:25
Alignment explanation
Indices: 48134--48211 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
48124 AATTTTTGAC
48134 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
48160 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
48180 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
48206 ATTCTT
1 ATTCTT
48212 TCCACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:48172 original size:20 final size:20
Alignment explanation
Indices: 48149--48223 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
48139 ATCTCTTTGA
48149 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
48169 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
48195 GACCTTGAAATATTC-TTTC
1 GACCTTGAAATATTCTTTTC
*
48214 CACCTTGAAA
1 GACCTTGAAA
48224 CACTGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.20
20 14 0.32
21 1 0.02
22 2 0.05
24 3 0.07
25 4 0.09
26 11 0.25
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Found at i:50582 original size:36 final size:34
Alignment explanation
Indices: 50536--50605 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
50526 ATTTTTCTAA
* * *
50536 AAAATAAATTTTGTCTCGCTTGAGACAATTTATTTC
1 AAAACAAATTTCGTCTCACTTGAGAC-ATTT-TTTC
*
50572 AAAACAAATTTCGTCTCATTTGAGACATTTTTTC
1 AAAACAAATTTCGTCTCACTTGAGACATTTTTTC
50606 CTTTGAGATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.13
35 4 0.13
36 22 0.73
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (34 bp):
AAAACAAATTTCGTCTCACTTGAGACATTTTTTC
Found at i:50746 original size:196 final size:197
Alignment explanation
Indices: 50396--50786 Score: 612
Period size: 196 Copynumber: 2.0 Consensus size: 197
50386 ATTCAGTCCC
50396 TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
1 TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
* *
50461 TTTGAGATCGTATCTATTTCAAAACAAATTTTTGTCCCTTGAGACATTTTTCCACAAACTTTGAG
66 TTTGAGATCGTATCTATTTCAAAACAAATTTTTGTCCCTGGAGACAGTTTTCCACAAACTTTGAG
*
50526 ATTTTTCTAAAAAATAAATTTTGTCTC-GC-TTGAGACAATTTATTTCAAAACAAATTTCGTCTC
131 ATATTTCTAAAAAATAAATTTTGTCTCAGCTTTGAGACAATTTATTTCAAAACAAATTTCGTCTC
50589 AT
196 AT
50591 TTGAGACATTTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTC
1 TTGAGACA-TTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTC
* *
50656 ATTTGAGATCGTATCTATTTCAAAACAAAATTTTTGTCTCACTGGAGATAGTTTTCCACAAATTT
65 ATTTGAGATCGTATCTATTTCAAAAC-AAATTTTTGTC-C-CTGGAGACAGTTTTCCACAAACTT
* * * * * *
50721 TGAGA-ATTT-TAAAACA-AATTTTTGTCTCATCTTTGAGACAATTTCTTTCAAAGCAAATTTTG
127 TGAGATATTTCTAAAAAATAAATTTTGTCTCAGCTTTGAGACAATTTATTTCAAAACAAATTTCG
50783 TCTC
192 TCTC
50787 GATCGAGACA
Statistics
Matches: 179, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
195 8 0.04
196 93 0.52
197 18 0.10
198 35 0.20
199 25 0.14
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (197 bp):
TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
TTTGAGATCGTATCTATTTCAAAACAAATTTTTGTCCCTGGAGACAGTTTTCCACAAACTTTGAG
ATATTTCTAAAAAATAAATTTTGTCTCAGCTTTGAGACAATTTATTTCAAAACAAATTTCGTCTC
AT
Found at i:50817 original size:35 final size:36
Alignment explanation
Indices: 50731--50850 Score: 120
Period size: 35 Copynumber: 3.3 Consensus size: 36
50721 TGAGAATTTT
**
50731 AAAACAAATTTTTGTCTC-ATCTTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGATC---GAGACAATTTCTTGA
* *
50770 AAAGCAAATTTTGTCTCGATCGAGACAGCTTTC-T-A
1 AAAACAAATTTTGTCTCGATCGAGACA-ATTTCTTGA
* *
50805 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGATCGAGACAATTTCTTGA
50841 AAAACAAATT
1 AAAACAAATT
50851 CCGCCTTACT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
34 4 0.06
35 25 0.36
36 18 0.26
37 4 0.06
38 9 0.13
39 10 0.14
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGATCGAGACAATTTCTTGA
Found at i:51034 original size:36 final size:36
Alignment explanation
Indices: 50953--51034 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
50943 ATTTTGTTTT
* *
50953 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
* * *
50989 ACTTAAGACAAATTCTCTT-AAAACAAA-TTGCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAAGTT-CGTATC
51025 GCTTGAGACA
1 GCTTGAGACA
51035 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.05
36 33 0.89
37 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
Found at i:51593 original size:29 final size:28
Alignment explanation
Indices: 51558--51700 Score: 157
Period size: 29 Copynumber: 5.1 Consensus size: 28
51548 TTCTCTTGAA
51558 AAAAAAATCTTTGAGTTTGTTCCTTTTG
1 AAAAAAATCTTTGAGTTTGTTCCTTTTG
*
51586 AATAAAAATCTTGGAGTTTGTTCCTTTTG
1 AA-AAAAATCTTTGAGTTTGTTCCTTTTG
* * *
51615 AATAAATATCTTTGAG-TCGTTTCTTTTG
1 AA-AAAAATCTTTGAGTTTGTTCCTTTTG
* *
51643 -AAAAAATCTTTGAGTTTGTTTCTATTG
1 AAAAAAATCTTTGAGTTTGTTCCTTTTG
* * *
51670 AAACACATCTTTGAGTTGGTCTCC-TTTG
1 AAAAAAATCTTTGAGTTTGT-TCCTTTTG
51698 AAA
1 AAA
51701 CCATTATCCT
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.12
27 11 0.11
28 34 0.35
29 41 0.42
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (28 bp):
AAAAAAATCTTTGAGTTTGTTCCTTTTG
Found at i:51698 original size:55 final size:55
Alignment explanation
Indices: 51564--51700 Score: 143
Period size: 55 Copynumber: 2.4 Consensus size: 55
51554 TGAAAAAAAA
* * *
51564 ATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTTGAATAAAT
1 ATCTTTGAGTTCGTTCC-TTTG-A-AAAAATCTTGGAGTTTGTTCCTATTGAATAAAC
* * * *
51622 ATCTTTGAG-TCGTTTCTTTTGAAAAAATCTTTGAGTTTGTTTCTATTGAA-ACAC
1 ATCTTTGAGTTCG-TTCCTTTGAAAAAATCTTGGAGTTTGTTCCTATTGAATAAAC
*
51676 ATCTTTGAGTTGGTCTCCTTTGAAA
1 ATCTTTGAGTTCGT-TCCTTTGAAA
51701 CCATTATCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
54 12 0.18
55 36 0.54
56 1 0.01
57 6 0.09
58 12 0.18
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (55 bp):
ATCTTTGAGTTCGTTCCTTTGAAAAAATCTTGGAGTTTGTTCCTATTGAATAAAC
Found at i:51911 original size:46 final size:45
Alignment explanation
Indices: 51736--52136 Score: 249
Period size: 40 Copynumber: 9.3 Consensus size: 45
51726 TCCTCGTCAT
* *
51736 GTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCAC
1 GTAGGAGCCGTGTCATCACC-TTAGATGGCCAGAACTCTTCATCAC
* * *
51782 GTATGAGCCGTGTCATTC-CC--CGA---CCAGATCTCTTCATCAC
1 GTAGGAGCCGTGTCA-TCACCTTAGATGGCCAGAACTCTTCATCAC
* ** * *
51822 GTAGGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCCTCATCAC
1 GTAGGAGCCGTGTCATCACCTTAGATGGCCAGAAC-TCTTCATCAC
* * *
51865 GTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCATCAC
1 GTAGGAGCCGTGTCATCACC-TTAGATGGCCAGAACTCTTCATCAC
* * * *
51911 GTATGAGCCGTGTCATC-CC-CAGA---CCAGATCTCCTCATCAC
1 GTAGGAGCCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCAC
* *** * *
51951 GTAGGAGCCGTGTCA--ACCATAGATAAACAG-CCGTCCTCATCAC
1 GTAGGAGCCGTGTCATCACCTTAGATGGCCAGAAC-TCTTCATCAC
* * *
51994 GTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCATCAC
1 GTAGGAGCCGTGTCATCACC-TTAGATGGCCAGAACTCTTCATCAC
* * *
52040 GTATGAGCCGTGTCATC-CC-CAGA---CCAGATCTCTTCATCAC
1 GTAGGAGCCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCAC
* * * *
52080 GTAGGAGCTGTGTCA-C-CTTTAGACGACCCA-AACTCTTCATCAC
1 GTAGGAGCCGTGTCATCACCTTAGATG-GCCAGAACTCTTCATCAC
* *
52123 GTATGAGCAGTGTC
1 GTAGGAGCCGTGTC
52137 GTCCCCAACA
Statistics
Matches: 278, Mismatches: 50, Indels: 57
0.72 0.13 0.15
Matches are distributed among these distances:
38 2 0.01
39 4 0.01
40 96 0.35
42 2 0.01
43 82 0.29
44 3 0.01
45 10 0.04
46 75 0.27
47 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (45 bp):
GTAGGAGCCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCAC
Found at i:52119 original size:83 final size:83
Alignment explanation
Indices: 51751--52143 Score: 268
Period size: 83 Copynumber: 4.6 Consensus size: 83
51741 AACCGTGTTA
51751 TCACCTTTAGATG-GCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTC
1 TCACCTTTAGA-GAGCCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTC
51814 TTCATCACGTAGGAGCCGTG
64 TTCATCACGTAGGAGCCGTG
* * * * * * * * * *
51834 TCAACC-ATAGATAACCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCA
1 TC-ACCTTTAGAGAGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATC-CC--CAGA---CCA
* *
51897 GAACTCTTCATCACGTATGAGCCGTG
58 GATCTCTTCATCACGTAGGAGCCGTG
** * * * * ** * *
51923 TCATCC---CCAGA-CCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAAACAG-CC
1 TCA-CCTTTAGAGAGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---ACCAGATC
* * *
51983 GTCCTCATCACGTAGGAACCATGTTA
62 -TCTTCATCACGTAGGAGCC--G-TG
52009 TCACCTTTAGATG-GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCT
1 TCACCTTTAGA-GAGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCT
*
52073 TCATCACGTAGGAGCTGTG
65 TCATCACGTAGGAGCCGTG
* * *
52092 TCACCTTTAGACGACCCA-AACTCTTCATCACGTATGAGCAGTGTCGTCCCCA
1 TCACCTTTAGA-GAGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCA
52144 ACAACCAATA
Statistics
Matches: 239, Mismatches: 45, Indels: 52
0.71 0.13 0.15
Matches are distributed among these distances:
82 4 0.02
83 99 0.41
84 7 0.03
85 4 0.02
86 54 0.23
87 4 0.02
88 2 0.01
89 65 0.27
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (83 bp):
TCACCTTTAGAGAGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTT
CATCACGTAGGAGCCGTG
Found at i:52125 original size:129 final size:129
Alignment explanation
Indices: 51713--52094 Score: 694
Period size: 129 Copynumber: 3.0 Consensus size: 129
51703 ATTATCCTAG
* * *
51713 AGATAACCAGCCGTCCTCGTCATGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
51778 TCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
51842 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
51907 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
*
51971 AGATAAACAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
52036 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCTGTGTCA
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCA
52095 CCTTTAGACG
Statistics
Matches: 245, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
128 5 0.02
129 240 0.98
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:52306 original size:3 final size:3
Alignment explanation
Indices: 52293--52345 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
52283 TTTTTTATCG
*
52293 TTA TT- TTA TTA TTA TTA TTA TTA TTTA ATA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
52337 TTA ATA TTA
1 TTA TTA TTA
52346 CATATTACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:52447 original size:25 final size:25
Alignment explanation
Indices: 52418--52466 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
52408 CCCAACCCAT
52418 CAGATTAGGGTTTCAAACCCTAAAC
1 CAGATTAGGGTTTCAAACCCTAAAC
52443 CAGATTAGGGTTTCAAACCCTAAA
1 CAGATTAGGGTTTCAAACCCTAAA
52467 TGTTCCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAC
Found at i:56114 original size:37 final size:37
Alignment explanation
Indices: 56064--56139 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
56054 ATATGAGCCT
56064 AGAAAATGTTTATATACTCTGAAATTCATCATTTAAC
1 AGAAAATGTTTATATACTCTGAAATTCATCATTTAAC
56101 AGAAAATGTTTATATACTCTGAAATTCATCATTTAAC
1 AGAAAATGTTTATATACTCTGAAATTCATCATTTAAC
56138 AG
1 AG
56140 TGTCATGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (37 bp):
AGAAAATGTTTATATACTCTGAAATTCATCATTTAAC
Found at i:56124 original size:19 final size:19
Alignment explanation
Indices: 56065--56124 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
56055 TATGAGCCTA
56065 GAAAATGTTTATATACTCT
1 GAAAATGTTTATATACTCT
* ** * * * *
56084 GAAATTCATCATTTA-ACA
1 GAAAATGTTTATATACTCT
56102 GAAAATGTTTATATACTCT
1 GAAAATGTTTATATACTCT
56121 GAAA
1 GAAA
56125 TTCATCATTT
Statistics
Matches: 26, Mismatches: 14, Indels: 2
0.62 0.33 0.05
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (19 bp):
GAAAATGTTTATATACTCT
Found at i:71334 original size:6 final size:6
Alignment explanation
Indices: 71323--71352 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
71313 AGTCTACCAA
71323 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
71353 CTTCTTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:74999 original size:28 final size:28
Alignment explanation
Indices: 74968--75021 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
74958 CCTATCCCTG
74968 CTCTTCATCTTCAAAAATAATGACTGCT
1 CTCTTCATCTTCAAAAATAATGACTGCT
74996 CTCTTCATCTTCAAAAATAATGACTG
1 CTCTTCATCTTCAAAAATAATGACTG
75022 TTAATCCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (28 bp):
CTCTTCATCTTCAAAAATAATGACTGCT
Done.