Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007428.1 Hibiscus syriacus cultivar Beakdansim tig00020138_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: 917797
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:662027 original size:21 final size:23
Alignment explanation
Indices: 661966--662025 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
661956 AATGATTTGA
*
661966 AATAATGAAATTATAATAATTACT
1 AATAATG-ATTTATAATAATTACT
*
661990 AATAATGATTTAATAATTATTACT
1 AATAATGATTT-ATAATAATTACT
*
662014 AATAATTATTTA
1 AATAATGATTTA
662026 ATAGTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (23 bp):
AATAATGATTTATAATAATTACT
Found at i:668320 original size:2 final size:2
Alignment explanation
Indices: 668313--668393 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
668303 CGAGTACCGC
668313 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
668355 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
668394 CCTCTATAGA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:669120 original size:22 final size:22
Alignment explanation
Indices: 669095--669139 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
669085 ATTACATAAC
*
669095 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGATACTT
* *
669117 TTTATAAAAAGTATGGATACTT
1 TTTAAAAAAAGTATCGATACTT
669139 T
1 T
669140 CAATATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGATACTT
Found at i:669188 original size:23 final size:23
Alignment explanation
Indices: 669157--669229 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
669147 ATAGGTAAAA
*
669157 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
669180 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
669203 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
669226 ATAT
1 ATAT
669230 TGTAAAGTAT
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:669628 original size:22 final size:21
Alignment explanation
Indices: 669585--669628 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
669575 ATTACATAAC
*
669585 TTTAAAAAAGTATCGATCCTT
1 TTTAAAAAAGTATCGATACTT
669606 TTTATAAAAAGTAT-GTATACTT
1 TTTA-AAAAAGTATCG-ATACTT
669628 T
1 T
669629 CAATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (21 bp):
TTTAAAAAAGTATCGATACTT
Found at i:669653 original size:489 final size:489
Alignment explanation
Indices: 668734--672060 Score: 5791
Period size: 489 Copynumber: 6.8 Consensus size: 489
668724 TTTTTACCTG
* *
668734 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
668799 AATTTAAGGTTATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGACGTCTAATTAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
668864 TTATTTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
131 TTA-TTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
* *
668929 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAA
*
668994 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAA
* *
669059 ACACTGTTAAAAAAAATGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
325 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
*
669124 AAAGTATGGATACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
390 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
669189 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
455 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * *
669224 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
669289 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGACGTCTAATTAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
669354 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* *
669419 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
*
669484 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAA
*
669549 CACTGTTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTATAA
326 CACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
* *
669613 AAAGTATGTATACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
390 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
* *
669678 AATAGCTAGCGTTTATATAATGTAATAGGTAGTTC
455 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
669713 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * **
669778 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
669843 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
669908 TTATTATTATCTTTGATTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* *
669973 ACCATCAAATAATTTTTTGTGCAAATTAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAA
*
670038 CACTATTAAAAAAATTGAAACATAAATTATATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
*
670103 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
670168 ATAGGTAGCGTTTATATAATGTAAT-GGTAGTGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
670201 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
670266 AATTTAAGGTTATCTTTTGAGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
670331 TTATTTTTTACGTTACGGTATATATTGTTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
670396 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* * * *
670461 ACAATCAAAT-ATTTTTTTTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAA
670525 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
* *
670590 AAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGTGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
670655 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
670689 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
670754 AATTTAAGGTTATCTTTTAAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATAAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
670819 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
670884 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* *
670949 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACACGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAA
*
671014 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCTTTTTTATAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTTTATAA
*
671079 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCTCTTATATAATGT
390 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
*
671144 AATAGGTAGCGTTTATATAATGTAATAGATAGTGC
455 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
671179 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
671244 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
671309 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
671374 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
*
671439 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAA
*
671504 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT--A
* * *
671569 AAAAGTATGGACACTTACAATAT-ATCATGTAAAAATATGATGTAATAGGTAGCACTTATATAAT
389 AAAAGTATGGACACTTTCAATATAAT-AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
671633 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
453 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
671670 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGGAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
671735 AATTTAAGGTTATCTTTTGAGTGA-TATTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGA
66 AATTTAAGGTTATCTTTTGAGTGAGT-TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
671799 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
130 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
*
671864 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTTTAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAA
*
671929 AACAATAAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT-A---G-------G--
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAA
*
671981 ----TATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAA
325 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-A
*
672041 AAAAGTATAGACACTTTCAA
389 AAAAGTATGGACACTTTCAA
672061 CATATTATAA
Statistics
Matches: 2738, Mismatches: 90, Indels: 36
0.96 0.03 0.01
Matches are distributed among these distances:
472 20 0.01
473 54 0.02
474 4 0.00
480 1 0.00
487 201 0.07
488 567 0.21
489 857 0.31
490 642 0.23
491 392 0.14
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (489 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAA
CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:669677 original size:23 final size:23
Alignment explanation
Indices: 669646--669718 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
669636 ATAGGTAAAA
*
669646 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
669669 ATATAATGTAATAGCTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
**
669692 ATATAATGTAATAGGTAGTTCTT
1 ATATAATGTAATAGGTAGCGCTT
669715 ATAT
1 ATAT
669719 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:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:670166 original size:23 final size:23
Alignment explanation
Indices: 670135--670206 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
670125 ATAGGTAAAA
* *
670135 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
670158 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
670181 ATATAATGTAAT-GGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
670203 ATAT
1 ATAT
670207 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 12 0.27
23 32 0.73
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:670604 original size:22 final size:22
Alignment explanation
Indices: 670560--670604 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
670550 ATTACATAAC
*
670560 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
670582 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
670604 T
1 T
670605 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:670653 original size:23 final size:23
Alignment explanation
Indices: 670622--670694 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
670612 ATAGGTAAAA
*
670622 ATATGATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
670645 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGTGCTT
670668 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
670691 ATAT
1 ATAT
670695 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:671143 original size:23 final size:23
Alignment explanation
Indices: 671112--671184 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
671102 ATAGGTAAAA
*
671112 ATATGATGTAATAGGTAGCTCTT
1 ATATAATGTAATAGGTAGCTCTT
671135 ATATAATGTAATAGGTAGCGT-TT
1 ATATAATGTAATAGGTAGC-TCTT
*
671158 ATATAATGTAATAGATAG-TGCTT
1 ATATAATGTAATAGGTAGCT-CTT
671181 ATAT
1 ATAT
671185 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 1 0.02
23 43 0.96
24 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCTCTT
Found at i:671629 original size:23 final size:23
Alignment explanation
Indices: 671603--671675 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
671593 TCATGTAAAA
* *
671603 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
671626 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
671649 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
671672 ATAT
1 ATAT
671676 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:673664 original size:5 final size:5
Alignment explanation
Indices: 673654--673706 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
673644 TCATAAAGCT
* * * * * *
673654 GAGCC GAGCC GAGCC GAGCC GACCC GACCC GACCC GAGCT GAGAC GAGAC
1 GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC
673704 GAG
1 GAG
673707 ACGGACGACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.25, C:0.38, G:0.36, T:0.02
Consensus pattern (5 bp):
GAGCC
Found at i:678828 original size:21 final size:21
Alignment explanation
Indices: 678802--678860 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
678792 ATTTACCGTG
678802 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGGCGCT
** *
678823 ATTGCGGTTGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGGCGCT
678844 ATTGCGGCCGTCGCGGG
1 ATTGCGGCCGTCGCGGG
678861 TAACTCGGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.07, C:0.29, G:0.42, T:0.22
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGGCGCT
Found at i:685415 original size:57 final size:57
Alignment explanation
Indices: 685161--685475 Score: 384
Period size: 57 Copynumber: 5.5 Consensus size: 57
685151 TCCAATATAG
* * ** *
685161 AAATTCATACACTTAGTATGAATTTCTTATCATGTTAG-G-ACATGAAGTGCCCTATCTGG
1 AAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCGTACA--AAACGCCCTATCT-A
* * *
685220 AAATTCATACAATTAGTATGATTTTTTAACATTTTAGCGTACGAAACG-CCTATCTA
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCTA
* * *
685276 AAATTCATACACTTAGTATGGTTTCTTAATATTTTAGCGTACGAAAACGCCCTGTCTA
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTAC-AAAACGCCCTATCTA
* * * *
685334 AAATTCATACACTTAGAATTATTTCTTAACATTTTAGCGTAAAAAATGCCCTATCTA
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCTA
* * * *
685391 AAATTTATACACGTAGTATGATTTCTTAACATTTTAGCATACAAAACGCCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCTA
*
685448 AAATTCATACACTTAGTATGTTTTCTTA
1 AAATTCATACACTTAGTATGATTTCTTA
685476 TATTTTGCAC
Statistics
Matches: 220, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
56 38 0.17
57 99 0.45
58 61 0.28
59 20 0.09
60 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (57 bp):
AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATCTA
Found at i:685829 original size:17 final size:18
Alignment explanation
Indices: 685807--685844 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
685797 ACATTTCTGG
685807 TCCTTC-GGTATCGATAC
1 TCCTTCTGGTATCGATAC
685824 TCCTTCTATGGTATCGATAC
1 TCCTTC--TGGTATCGATAC
685844 T
1 T
685845 AACCTATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
20 12 0.67
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.39
Consensus pattern (18 bp):
TCCTTCTGGTATCGATAC
Found at i:685861 original size:22 final size:20
Alignment explanation
Indices: 685813--685870 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
685803 CTGGTCCTTC
*
685813 GGTATCGATACTCCTTCTAT
1 GGTATCGATACTCCTTCTAG
685833 GGTATCGATACTAACCTAT-TAG
1 GGTATCGATACT--CCT-TCTAG
*
685855 GGTATCGATACCCCTT
1 GGTATCGATACTCCTT
685871 AATGTATCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 1 0.03
20 15 0.45
22 16 0.48
23 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (20 bp):
GGTATCGATACTCCTTCTAG
Found at i:685958 original size:22 final size:19
Alignment explanation
Indices: 685933--685980 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
685923 CCATGGTATT
685933 GATACCCCTATGCTATGGTACC
1 GATACCCCT-T-CTA-GGTACC
*
685955 GATACCCCTTCTAGGTATC
1 GATACCCCTTCTAGGTACC
685974 GATACCC
1 GATACCC
685981 AATTTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 12 0.48
20 3 0.12
21 1 0.04
22 9 0.36
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (19 bp):
GATACCCCTTCTAGGTACC
Found at i:685976 original size:19 final size:22
Alignment explanation
Indices: 685925--685980 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
685915 TACCCTCACC
*
685925 ATGGTATTGATACCCCTATGCT
1 ATGGTATCGATACCCCTATGCT
*
685947 ATGGTACCGATACCCCT-T-CT
1 ATGGTATCGATACCCCTATGCT
685967 A-GGTATCGATACCC
1 ATGGTATCGATACCC
685981 AATTTAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.39
20 3 0.10
21 1 0.03
22 15 0.48
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (22 bp):
ATGGTATCGATACCCCTATGCT
Found at i:687072 original size:2 final size:2
Alignment explanation
Indices: 687065--687093 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
687055 GGTTATAAAT
687065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
687094 TATCCCTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:687720 original size:59 final size:58
Alignment explanation
Indices: 687594--687860 Score: 254
Period size: 59 Copynumber: 4.6 Consensus size: 58
687584 TTCCCATACG
* * * * * * * * *
687594 GAAACTCATACACATAGTATGAATTTCTTGTC-CTTTAGCACCCAAAATGTCCAATAT
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAACGCCCTATCT
* * * **
687651 AGAAATTCATACGCTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCTATCT
1 -GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAACGCCCTATCT
* * * ** * *
687710 GGAAATTCATACACTTAGTATGATTTTTTTAACATTTTAGCGTACGAAACGCGCTATCT
1 -GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAACGCCCTATCT
* * * * *
687769 GAAATTTATACACTTAGTATG-ATTTGTTAACATTTTAGCGCACAAAACACCCTATCT
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAACGCCCTATCT
687826 GAAATTCATACACTTAGTATG-ATTTCTTAT-ATTTT
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTT
687861 TCACACTTAG
Statistics
Matches: 175, Mismatches: 33, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
56 5 0.03
57 57 0.33
58 48 0.27
59 65 0.37
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (58 bp):
GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAACGCCCTATCT
Found at i:687826 original size:57 final size:57
Alignment explanation
Indices: 687652--687854 Score: 262
Period size: 57 Copynumber: 3.5 Consensus size: 57
687642 GTCCAATATA
* * * * **
687652 GAAATTCATACGCTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCTATCT
1 GAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCGCACGAAACGCCCTATCT
* * *
687710 GGAAATTCATACACTTAGTATGATTTTTTTAACATTTTAGCGTACGAAACGCGCTATCT
1 -GAAATTCATACACTTAGTATGA-TTTCTTAACATTTTAGCGCACGAAACGCCCTATCT
* * * *
687769 GAAATTTATACACTTAGTATGATTTGTTAACATTTTAGCGCACAAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGCACGAAACGCCCTATCT
687826 GAAATTCATACACTTAGTATGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
687855 TATTTTTCAC
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
57 57 0.45
58 22 0.17
59 47 0.37
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGCACGAAACGCCCTATCT
Found at i:688258 original size:19 final size:21
Alignment explanation
Indices: 688213--688259 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
688203 CTCCTTCTAT
*
688213 TGTATCGATACTACCCTATTA
1 TGTATCGATACTACCCTATAA
*
688234 TGGTATCGATAC-CCCCT-TAA
1 T-GTATCGATACTACCCTATAA
688254 TGTATC
1 TGTATC
688260 AATATCGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.22
20 3 0.13
21 5 0.22
22 10 0.43
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (21 bp):
TGTATCGATACTACCCTATAA
Found at i:688330 original size:95 final size:95
Alignment explanation
Indices: 688214--688419 Score: 249
Period size: 98 Copynumber: 2.1 Consensus size: 95
688204 TCCTTCTATT
* * * *
688214 GTATCGATACTACCCTATTATGGTATCGATACCCCCTT-AATGTATCAATATCGA-AA-TTAGCT
1 GTATCGATAC--CCCTATTATGGTACCGATACCCCCTTCAAGGTATAAATA-C-ACAATTTAGAT
688276 TCGATATAGC-CTGGTATCGATACCCTCACCATG
62 TCGATATAGCACTGGTATCGATACCCTCACCATG
*
688309 GTATCGATACCCCTATGTTATGGTACCGATACCCCCTTCTAGGTATAAATACACAATTTAGATTC
1 GTATCGATACCCCTA--TTATGGTACCGATACCCCCTTCAAGGTATAAATACACAATTTAGATTC
**
688374 GATATTTCTACTGGTATCGATACCCTCACCATG
64 GATATAGC-ACTGGTATCGATACCCTCACCATG
*
688407 GTATTGATACCCC
1 GTATCGATACCCC
688420 ATTGCTTGTG
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
93 5 0.05
94 1 0.01
95 33 0.34
96 22 0.23
98 35 0.36
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (95 bp):
GTATCGATACCCCTATTATGGTACCGATACCCCCTTCAAGGTATAAATACACAATTTAGATTCGA
TATAGCACTGGTATCGATACCCTCACCATG
Found at i:688759 original size:110 final size:112
Alignment explanation
Indices: 688587--688840 Score: 354
Period size: 110 Copynumber: 2.3 Consensus size: 112
688577 GCCCTATCTG
* * * *
688587 GAAATTCATACACTTAGTATGATTTTTTTTACATTTTAGCGTACGAAACGCCTTATCTGAAATTC
1 GAAATTCATACACTTAGTATGA-TTTCTTAACATTTTAGCATACGAAACGCCCTATCTGAAATTC
* *
688652 ATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAA-ACGC-CT
65 ATACACTTAGTATGATTTATTAACATTTTAGCGTACAAAACACCCTCT
688698 GAAATTCATA-AGCTTAGTATGATTTCTTAACATTTTAGCATAC-AGAACGCCCTATCTGAAATT
1 GAAATTCATACA-CTTAGTATGATTTCTTAACATTTTAGCATACGA-AACGCCCTATCTGAAATT
* *
688761 CATACACTTAGTATGATTTCTTAATATTTTAGCGTACAAAACACCCTATCT
64 CATACACTTAGTATGATTTATTAACATTTTAGCGTACAAAACACCC--TCT
*
688812 GAAATTCATACACTTAGTCTGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
688841 TATTTTTCAC
Statistics
Matches: 127, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
109 1 0.01
110 74 0.58
111 23 0.18
114 28 0.22
115 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.37
Consensus pattern (112 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATCTGAAATTCA
TACACTTAGTATGATTTATTAACATTTTAGCGTACAAAACACCCTCT
Found at i:688775 original size:57 final size:57
Alignment explanation
Indices: 688529--688840 Score: 363
Period size: 57 Copynumber: 5.5 Consensus size: 57
688519 TCCAATACAT
* * * *
688529 AAATTCATACACTTAGTATGAATTTCTTATCATGTTAAC--ACACGAAATGCCCTATCTGG
1 AAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCGTACA-G-AACGCCCTATCT-G
* * *
688588 AAATTCATACACTTAGTATGATTTTTTTTACATTTTAGCGTAC-GAAACGCCTTATCTG
1 AAATTCATACACTTAGTATGA-TTTCTTAACATTTTAGCGTACAG-AACGCCCTATCTG
* *
688646 AAATTCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAAACG--C---CTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTAC-AGAACGCCCTATCTG
*
688699 AAATTCATA-AGCTTAGTATGATTTCTTAACATTTTAGCATACAGAACGCCCTATCTG
1 AAATTCATACA-CTTAGTATGATTTCTTAACATTTTAGCGTACAGAACGCCCTATCTG
* * *
688756 AAATTCATACACTTAGTATGATTTCTTAATATTTTAGCGTACAAAACACCCTATCTG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAGAACGCCCTATCTG
*
688813 AAATTCATACACTTAGTCTGATTTCTTA
1 AAATTCATACACTTAGTATGATTTCTTA
688841 TATTTTTCAC
Statistics
Matches: 222, Mismatches: 19, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
52 6 0.03
53 41 0.18
54 1 0.00
57 100 0.45
58 28 0.13
59 44 0.20
61 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (57 bp):
AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAGAACGCCCTATCTG
Found at i:688819 original size:167 final size:170
Alignment explanation
Indices: 688529--688836 Score: 455
Period size: 167 Copynumber: 1.8 Consensus size: 170
688519 TCCAATACAT
* *
688529 AAATTCATACACTTAGTATGAATTTCTTATCATGTTAACACACGAAATGCCCTATCTGGAAATTC
1 AAATTCATACACTTAGTATGAATTTCTTAACATGTTAACACACGAAACGCCCTATCTGGAAATTC
* * * * *
688594 ATACACTTAGTATGATTTTTTTTACATTTTAGCGTACGAAACGCCTTATCTGAAATTCATACACT
66 ATACACTTAGTATGATTTTCTTAACATTTTAGCGTACAAAACACCCTATCTGAAATTCATACACT
688659 TAGTATGATTTATTAACATTTTAGCGTACGAAAACGCCTG
131 TAGTATGATTTATTAACATTTTAGCGTACGAAAACGCCTG
* * *
688699 AAATTCATA-AGCTTAGTATG-ATTTCTTAACATTTTAGCATAC-AGAACGCCCTATCT-GAAAT
1 AAATTCATACA-CTTAGTATGAATTTCTTAACATGTTAACACACGA-AACGCCCTATCTGGAAAT
*
688760 TCATACACTTAGTATGA-TTTCTTAATATTTTAGCGTACAAAACACCCTATCTGAAATTCATACA
64 TCATACACTTAGTATGATTTTCTTAACATTTTAGCGTACAAAACACCCTATCTGAAATTCATACA
*
688824 CTTAGTCTGATTT
129 CTTAGTATGATTT
688837 CTTATATTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
167 53 0.43
168 23 0.19
169 30 0.24
170 18 0.15
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (170 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATGTTAACACACGAAACGCCCTATCTGGAAATTC
ATACACTTAGTATGATTTTCTTAACATTTTAGCGTACAAAACACCCTATCTGAAATTCATACACT
TAGTATGATTTATTAACATTTTAGCGTACGAAAACGCCTG
Found at i:693233 original size:20 final size:20
Alignment explanation
Indices: 693186--693234 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
693176 TTTATATAAA
*
693186 AATTAAATATTTTATAATTC
1 AATTAAATAGTTTATAATTC
**
693206 AAAAAAATAGTTTATAATT-
1 AATTAAATAGTTTATAATTC
693225 AATTTAAATA
1 AA-TTAAATA
693235 ATATATAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
AATTAAATAGTTTATAATTC
Found at i:697925 original size:16 final size:16
Alignment explanation
Indices: 697897--697929 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
697887 TAATTTCTTA
697897 TCCAACAATTAAGTACT
1 TCCAACAATTAAG-ACT
697914 TCCAAC-ATTAAGACT
1 TCCAACAATTAAGACT
697929 T
1 T
697930 TTGACTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (16 bp):
TCCAACAATTAAGACT
Found at i:701274 original size:20 final size:20
Alignment explanation
Indices: 701249--701288 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
701239 CATGTGCGAT
701249 AATTATTAGTTGTCATGCAA
1 AATTATTAGTTGTCATGCAA
701269 AATTATTAGTTGTCATGCAA
1 AATTATTAGTTGTCATGCAA
701289 CTAATAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
AATTATTAGTTGTCATGCAA
Found at i:701314 original size:21 final size:20
Alignment explanation
Indices: 701290--701331 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
701280 GTCATGCAAC
*
701290 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
701311 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
701331 T
1 T
701332 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:704088 original size:31 final size:31
Alignment explanation
Indices: 704050--704174 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
704040 CCCGAAGGAC
* * *
704050 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
704081 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
704112 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
704143 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
704174 C
1 C
704175 CCTCGACCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 89 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:708242 original size:20 final size:20
Alignment explanation
Indices: 708217--708255 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
708207 CAAGTGGGAG
708217 ATTATTAGTTGTCATGCAAA
1 ATTATTAGTTGTCATGCAAA
708237 ATTATTAGTTGTCATGCAA
1 ATTATTAGTTGTCATGCAA
708256 CTAATAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTATTAGTTGTCATGCAAA
Found at i:708354 original size:23 final size:23
Alignment explanation
Indices: 708313--708356 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
708303 AGTTGACAAC
*
708313 AATAATGGTTAATAGGTGACACT
1 AATAATGGTTAATAAGTGACACT
708336 AATAATGGTTGAA-AAGTGACA
1 AATAATGGTT-AATAAGTGACA
708357 TGGCAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (23 bp):
AATAATGGTTAATAAGTGACACT
Found at i:718698 original size:34 final size:35
Alignment explanation
Indices: 718660--718741 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
718650 CATGATAAGG
718660 GGTATCGATACCCA-GAAACATCGAATCC-AATTTT
1 GGTATCGATACCCAGGAAACATCGAA-CCTAATTTT
* * * *
718694 GGTATCCATA-CTAGGCAACATCGAACCTATTTTT
1 GGTATCGATACCCAGGAAACATCGAACCTAATTTT
718728 GGTATCGATACCCA
1 GGTATCGATACCCA
718742 AAGGGGGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
33 4 0.10
34 33 0.85
35 2 0.05
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (35 bp):
GGTATCGATACCCAGGAAACATCGAACCTAATTTT
Found at i:719212 original size:59 final size:59
Alignment explanation
Indices: 719113--719391 Score: 396
Period size: 59 Copynumber: 4.7 Consensus size: 59
719103 ATGACATTAA
* * * ** *
719113 GTGTGCTAAAATGATAAGAATTTCATACTAAGTGTGTGAATTTCAGTATAGGGCACTTC
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
* * *
719172 GTGTACTAAATTGTTGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
* *
719231 GTGTTCTAAAATGATGAGAAATTTATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
* *
719290 GTGTGCTAAAATGATGAGAAATTTATACTAAGTGTATGAATTTCCTTATAGGGCACTTA
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
* * * * *
719349 GTGTGCTAAGATGATAAGAAATTCATATTACGTGTAAGAATTT
1 GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTT
719392 TTGTATGAGA
Statistics
Matches: 199, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 199 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (59 bp):
GTGTGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
Found at i:719979 original size:68 final size:68
Alignment explanation
Indices: 719610--719963 Score: 602
Period size: 68 Copynumber: 5.2 Consensus size: 68
719600 AGTTAAAAGA
* *
719610 TTTGAGGCCTAATTGTGCATATGACTGAAAGGTGTCATTTATGT-CAGTTAGATGAAAGGCTAAG
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTAT-TCCAGTTAGATGAAAGGCTAAG
719674 TGCC
65 TGCC
719678 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
719743 GCC
66 GCC
**
719746 TTTGAGGCCTAACTGTGCATATGACTTAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
719811 GCC
66 GCC
* *
719814 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAATGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
719879 GCC
66 GCC
* * * *
719882 TTTGAGGCCTAACTGCGCTTTTGACAGAAATGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
719947 GCC
66 GCC
719950 TTTGAGGCCTAACT
1 TTTGAGGCCTAACT
719964 ATGTAATTGG
Statistics
Matches: 271, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
67 1 0.00
68 270 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:720000 original size:204 final size:204
Alignment explanation
Indices: 719610--720005 Score: 591
Period size: 204 Copynumber: 1.9 Consensus size: 204
719600 AGTTAAAAGA
* * *
719610 TTTGAGGCCTAATTGTGCATATGACTGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
719675 GCCTTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTA
66 GCCTTTGAGGCCTAACTGCGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTA
* * * * * * **
719740 AGTGCCTTTGAGGCCTAACTGTGCATATGACTTAAAGGTGTCATTTATTCCAGTTAGATGAAAGG
131 AGTGCCTTTGAGGCCTAACTATGAATATGACTGAAAAGTCTCAATTATGACAGTTAGATGAAAGG
719805 CTAAGTGCC
196 CTAAGTGCC
*
719814 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAATGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
* * *
719879 GCCTTTGAGGCCTAACTGCGCTTTTGACAGAAATGTGTCATTTATTCCAGTTAGATGAAAGGCTA
66 GCCTTTGAGGCCTAACTGCGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTA
*
719944 AGTGCCTTTGAGGCCTAACTATGTAAT-TG-GTAGAAAAGTACT-AATTATGACAGTTAGATGAA
131 AGTGCCTTTGAGGCCTAACTATG-AATATGACT-GAAAAGT-CTCAATTATGACAGTTAGATGAA
720006 CGATTTAGTG
Statistics
Matches: 172, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
203 1 0.01
204 168 0.98
205 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (204 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCCTTTGAGGCCTAACTGCGCATATGACAGAAAGGTGTCATTTATTCCAGTTAGATGAAAGGCTA
AGTGCCTTTGAGGCCTAACTATGAATATGACTGAAAAGTCTCAATTATGACAGTTAGATGAAAGG
CTAAGTGCC
Found at i:720101 original size:81 final size:80
Alignment explanation
Indices: 719956--720273 Score: 350
Period size: 81 Copynumber: 3.9 Consensus size: 80
719946 TGCCTTTGAG
* * * * * * *
719956 GCCTAACTATGTAATTGGTAGAAAAGTACTAATTATGACAGTTAGATGAACGATTTAGTGCCATT
1 GCCTAACTGTGCAATTGGTAGAAACGTAC-CATTATGCCAGTTAGATGAACGATTAAGTACCATT
720021 GAGTAAAAGAATAATA
65 GAGTAAAAGAATAATA
* * * * * *
720037 GCCTAACTGTGCATTTGGTATAAAGGTACCGATTATGCTAGTTAGATGAATGGTTAAGTACCATT
1 GCCTAACTGTGCAATTGGTAGAAACGTACC-ATTATGCCAGTTAGATGAACGATTAAGTACCATT
720102 GAGTAAAAGAATAATA
65 GAGTAAAAGAATAATA
* * * ** * * *
720118 GCCTAATTGTGCAATTGGCAGAAATGTGTCATTTATGCCATTTAGATGAATGATTAAGTACCGTT
1 GCCTAACTGTGCAATTGGTAGAAACGTACCA-TTATGCCAGTTAGATGAACGATTAAGTACCATT
*
720183 GAGTAAAAGAAAAATA
65 GAGTAAAAGAATAATA
* * **
720199 GCCTAACTGTGCAATTGGTAGAAACATACCAATTATGCCAGTTAGATGAACGGTT-AGATACTGT
1 GCCTAACTGTGCAATTGGTAGAAACGTACC-ATTATGCCAGTTAGATGAACGATTAAG-TACCAT
720263 TGAGTAAAAGA
64 TGAGTAAAAGA
720274 CGAAAGGTTA
Statistics
Matches: 199, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.02
81 195 0.98
82 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (80 bp):
GCCTAACTGTGCAATTGGTAGAAACGTACCATTATGCCAGTTAGATGAACGATTAAGTACCATTG
AGTAAAAGAATAATA
Found at i:724780 original size:59 final size:59
Alignment explanation
Indices: 724684--724959 Score: 381
Period size: 59 Copynumber: 4.7 Consensus size: 59
724674 GCACTAAGTA
* * ** * *
724684 TGCTAAAATGATAAGAAATTCATACTAAGTGTGTGAATTTCAGTATACGACACTTCGTG
1 TGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGACACTTGGTG
* * *
724743 TGCTAAATTGTTGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTGGTG
1 TGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGACACTTGGTG
* *
724802 TGCTAAAATGATGAGAAATTTATACTAAGTGTATGAATTTCCTTATAGGGCACTTGGTG
1 TGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGACACTTGGTG
* * *
724861 TGCTAAAATGATAAGAAATTTATACTAAGTGTATGAATTTCCTTATAGGACACTTAGTG
1 TGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGACACTTGGTG
* * * * *
724920 TGCTAAGATGATTAGAAATTCATATTAGGTGTAAGAATTT
1 TGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTT
724960 TTGTATGGGA
Statistics
Matches: 196, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 196 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (59 bp):
TGCTAAAATGATGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGACACTTGGTG
Found at i:725249 original size:68 final size:68
Alignment explanation
Indices: 725140--725496 Score: 498
Period size: 68 Copynumber: 5.2 Consensus size: 68
725130 AGTTAAAAGA
*
725140 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
725205 GCC
66 GCC
** *
725208 TTTGAGATCTAACTGTGCATATGACAGAAAAGCGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
725273 GCC
66 GCC
* * **
725276 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAATACTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
725341 GCT
66 GCC
* * * * *
725344 TTTGAGGCCTAACTGTGCATATGACATAAATGTGTCATTAATGCCAATTAGATGAAAGGCTAAAT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
725409 GTC
66 GCC
* * * * * * *
725412 TTTGAGGCCTAACTATGCTTTTGGCAAAAAAGTGTCATTCATGCCAGTTAAATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
725477 TCC
66 GCC
*
725480 TTTGAGGCCTAATTGTG
1 TTTGAGGCCTAACTGTG
725497 AAATTGGTAG
Statistics
Matches: 253, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 253 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:725524 original size:68 final size:67
Alignment explanation
Indices: 725140--725553 Score: 443
Period size: 68 Copynumber: 6.1 Consensus size: 67
725130 AGTTAAAAGA
*
725140 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGT-AATTATGCCAGTTAGATGAAAGGCTAAGT
725205 GCC
65 GCC
** * * *
725208 TTTGAGATCTAACTGTGCATATGACAGAAAAGCGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGT-AATTATGCCAGTTAGATGAAAGGCTAAGT
725273 GCC
65 GCC
* * **
725276 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAATACTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGT-AATTATGCCAGTTAGATGAAAGGCTAAGT
*
725341 GCT
65 GCC
* * * * *
725344 TTTGAGGCCTAACTGTGCATATGACATAAATGTGTCATTAATGCCAATTAGATGAAAGGCTAAAT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTAATT-ATGCCAGTTAGATGAAAGGCTAAGT
*
725409 GTC
65 GCC
* * * * * * * *
725412 TTTGAGGCCTAACTATGCTTTTGGCAAAAAAGTGTCATTCATGCCAGTTAAATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTAATT-ATGCCAGTTAGATGAAAGGCTAAGT
*
725477 TCC
65 GCC
* * ** * * *
725480 TTTGAGGCCTAATTGTG-AAATTGGTAGAAAGGTACTAATTATGCCAGTTAGATGAACGGTTAAG
1 TTTGAGGCCTAACTGTGCATA-TGACAGAAAGGT-GTAATTATGCCAGTTAGATGAAAGGCTAAG
*
725544 TACC
64 TGCC
*
725548 GTTGAG
1 TTTGAG
725554 TAAAAGAATA
Statistics
Matches: 293, Mismatches: 50, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
67 2 0.01
68 287 0.98
69 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (67 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTAATTATGCCAGTTAGATGAAAGGCTAAGTG
CC
Found at i:725553 original size:136 final size:135
Alignment explanation
Indices: 725140--725553 Score: 490
Period size: 136 Copynumber: 3.0 Consensus size: 135
725130 AGTTAAAAGA
725140 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
** *
725205 GCCTTTGAGATCTAACTGTGCATATGACAGAAAAGCGTC-ATTTATGCCAGTTAGATGAAAGGCT
66 GCCTTTGAGGCCTAACTGTGCATATGACAG-AAAG-GTCTAATTATGCCAGTTAGATGAAAGGCT
725269 AAGTGCC
129 AAGTGCC
* **
725276 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAATACTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
* * * * * *
725341 GCTTTTGAGGCCTAACTGTGCATATGACATAAATGTGTCATTAATGCCAATTAGATGAAAGGCTA
66 GCCTTTGAGGCCTAACTGTGCATATGACAGAAAGGTCTAATT-ATGCCAGTTAGATGAAAGGCTA
* *
725406 AATGTC
130 AGTGCC
* * * * * * * *
725412 TTTGAGGCCTAACTATGCTTTTGGCAAAAAAGTGTCATTCATGCCAGTTAAATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
* * * ** * *
725477 TCCTTTGAGGCCTAATTGTG-AAATTGGTAGAAAGGTACTAATTATGCCAGTTAGATGAACGGTT
66 GCCTTTGAGGCCTAACTGTGCATA-TGACAGAAAGGT-CTAATTATGCCAGTTAGATGAAAGGCT
*
725541 AAGTACC
129 AAGTGCC
*
725548 GTTGAG
1 TTTGAG
725554 TAAAAGAATA
Statistics
Matches: 232, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
134 2 0.01
135 7 0.03
136 219 0.94
137 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (135 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCCTTTGAGGCCTAACTGTGCATATGACAGAAAGGTCTAATTATGCCAGTTAGATGAAAGGCTAA
GTGCC
Found at i:725621 original size:81 final size:81
Alignment explanation
Indices: 725486--725884 Score: 557
Period size: 81 Copynumber: 4.9 Consensus size: 81
725476 TTCCTTTGAG
* * *
725486 GCCTAATTGTGAAATTGGTAGAAAGGTACTAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
1 GCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
725551 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* *
725567 GCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAATTAGATGAACGGTTAAGTACCGTT
1 GCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
725632 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* ** **
725648 GCCTAACTGTGCATTTGGTAGAAAGGTACTGATTATGATAGTTAGATGAACGGTTAAGTACCGTT
1 GCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
*
725713 TAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* * * ** *
725729 GCCTAATTGTGCAATTGGCAGAAATGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTT
1 GCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
*
725794 GAGTAAAAGGAA-AATG
66 GAGTAAAA-GAATAATA
** * * ** *
725810 GCCTAACTGTAAAATTGGTAGAAAGATACCAATTATGCCAGTTAGATGAACTGTTATCTACCATT
1 GCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
725875 GAGTAAAAGA
66 GAGTAAAAGA
725885 CGAAAGGTTA
Statistics
Matches: 278, Mismatches: 39, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
80 2 0.01
81 273 0.98
82 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (81 bp):
GCCTAACTGTGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
GAGTAAAAGAATAATA
Found at i:731549 original size:25 final size:25
Alignment explanation
Indices: 731521--731570 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
731511 TGTCATAGCT
*
731521 ATCTTCCACAACATCATATTCTTCC
1 ATCTTCCAAAACATCATATTCTTCC
* *
731546 ATCTTCCAAAATATCATCTTCTTCC
1 ATCTTCCAAAACATCATATTCTTCC
731571 TCAAAACCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (25 bp):
ATCTTCCAAAACATCATATTCTTCC
Found at i:732556 original size:160 final size:160
Alignment explanation
Indices: 732276--732658 Score: 534
Period size: 160 Copynumber: 2.4 Consensus size: 160
732266 TGTGATTTCA
* * * * * * *
732276 TTATTTATTCAATTCCTCCTTCATGTTAAGTCCATTTTTTTCCAAATTTGAACCACATACTCCTA
1 TTATTTCTTCAATTCATCATTTATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTA
* * *
732341 AATCATTGTAGAATACATTTGTACTTTCAATTACTCTTTTTGACAACAATTTTTTTTTATTTTTC
66 AACCATAGTAGAATACATGTGTACTTTCAATTACTCTTTTTGACAACAATTTTTTTTTATTTTTC
* *
732406 AATCTAGTCCTTCAATTTTTCATAATCTCC
131 AATCTACTACTTCAATTTTTCATAATCTCC
* *
732436 TTATTTCTTCAATTCATCATTTATTTTAAGTCCCTTTTTTACCAAATTTGAGCCACATGCTCCTA
1 TTATTTCTTCAATTCATCATTTATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTA
* * *
732501 AACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTGATAACATTTTTTTTTTATTTTTC
66 AACCATAGTAGAATACATGTGTACTTTCAATTACTCTTTTTGACAACAATTTTTTTTTATTTTTC
*
732566 AATTTACTACTTCAATTTTTCATAATCTCC
131 AATCTACTACTTCAATTTTTCATAATCTCC
* ** * *
732596 TTATTCCTTCAATTTGTTATTTATTTTAAGT-CATTTGTTTTACCAAATTTAAACCACATGCTC
1 TTATTTCTTCAATTCATCATTTATTTTAAGTCCA-TT-TTTTACCAAATTTGAACCACATGCTC
732659 ATATTCAACT
Statistics
Matches: 196, Mismatches: 25, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
159 1 0.01
160 171 0.87
161 24 0.12
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (160 bp):
TTATTTCTTCAATTCATCATTTATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCCTA
AACCATAGTAGAATACATGTGTACTTTCAATTACTCTTTTTGACAACAATTTTTTTTTATTTTTC
AATCTACTACTTCAATTTTTCATAATCTCC
Found at i:732947 original size:2 final size:2
Alignment explanation
Indices: 732940--732993 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
732930 TGAAAGAATA
732940 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
732982 AT AT AT AT -T AT A
1 AT AT AT AT AT AT A
732994 GTTAGATAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:733201 original size:28 final size:28
Alignment explanation
Indices: 733169--733240 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
733159 AAATACAAAG
733169 ATGATTTTAGGGATTTTAGGAGGAAAAA
1 ATGATTTTAGGGATTTTAGGAGGAAAAA
* *
733197 ATGATTTTAGGGATATTAGGAGGAAACA
1 ATGATTTTAGGGATTTTAGGAGGAAAAA
*
733225 ATGATTCTAGGGATTT
1 ATGATTTTAGGGATTT
733241 CTGGGTTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (28 bp):
ATGATTTTAGGGATTTTAGGAGGAAAAA
Found at i:742313 original size:19 final size:19
Alignment explanation
Indices: 742276--742312 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
742266 AGACCAAAGT
742276 CTATCTTTGATTTTGAAAA
1 CTATCTTTGATTTTGAAAA
742295 CTAT-TTTGATTTTGAAAA
1 CTATCTTTGATTTTGAAAA
742313 ATAAGCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (19 bp):
CTATCTTTGATTTTGAAAA
Found at i:742482 original size:25 final size:26
Alignment explanation
Indices: 742454--742508 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
742444 AGCATATTTA
*
742454 AAAAAACAAAGCTTG-AAAATAAAAG
1 AAAAAACAAAACTTGAAAAATAAAAG
** *
742479 AAAAATGAAAACTTGAAAAATAAAAT
1 AAAAAACAAAACTTGAAAAATAAAAG
742505 AAAA
1 AAAA
742509 GAGAAAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.71, C:0.05, G:0.09, T:0.15
Consensus pattern (26 bp):
AAAAAACAAAACTTGAAAAATAAAAG
Found at i:744685 original size:3 final size:3
Alignment explanation
Indices: 744677--744715 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
744667 ATATAAATAT
744677 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
744716 CTACTACTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:745292 original size:2 final size:2
Alignment explanation
Indices: 745287--745345 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
745277 ATGTTTTTAC
745287 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
* *
745329 AT AT GT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT A
745346 AAGAACACAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:747792 original size:20 final size:20
Alignment explanation
Indices: 747768--747821 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
747758 ATCGCAGTCG
*
747768 CATCTTTATATTTGTGTTCG
1 CATCTTTATATTTGTGTTCA
* *
747788 TATCTTTACATTTGTGTTCA
1 CATCTTTATATTTGTGTTCA
*
747808 CATCTTTGTATTTG
1 CATCTTTATATTTG
747822 CACTCTCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.56
Consensus pattern (20 bp):
CATCTTTATATTTGTGTTCA
Found at i:749213 original size:18 final size:18
Alignment explanation
Indices: 749190--749224 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
749180 TATAAAAGAA
*
749190 AAAATGATAAAGATAAAG
1 AAAATGAGAAAGATAAAG
*
749208 AAAATGAGAAATATAAA
1 AAAATGAGAAAGATAAA
749225 ATAATATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (18 bp):
AAAATGAGAAAGATAAAG
Found at i:749316 original size:15 final size:17
Alignment explanation
Indices: 749277--749321 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
749267 AGAAAAAAAT
749277 AAAGTAAAG-AAATAGGG
1 AAAG-AAAGAAAATAGGG
749294 AAAAGAAA-AAAATAGGG
1 -AAAGAAAGAAAATAGGG
749311 -AAGAAAGAAAA
1 AAAGAAAGAAAA
749322 CATATCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.24
16 4 0.16
17 11 0.44
18 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (17 bp):
AAAGAAAGAAAATAGGG
Found at i:757953 original size:25 final size:24
Alignment explanation
Indices: 757899--757948 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
757889 CCACTAGGAG
*
757899 CTATGAAATTTATCTCGAAGGACCA
1 CTATGAAA-TTATCCCGAAGGACCA
*
757924 CTATGAAA-TATCCCGAAGGATCA
1 CTATGAAATTATCCCGAAGGACCA
757947 CT
1 CT
757949 GTATGTCCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
25 8 0.35
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (24 bp):
CTATGAAATTATCCCGAAGGACCA
Found at i:758462 original size:2 final size:2
Alignment explanation
Indices: 758455--758480 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
758445 GCTTATGTGA
758455 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
758481 CACTTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:758907 original size:24 final size:23
Alignment explanation
Indices: 758848--758911 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 23
758838 TTTATTTACC
*
758848 CTTTAA-AGTGCATCGATACATT
1 CTTTAACAGTGCATCGATGCATT
758870 C--T-ACAGTGCATCGATGCATT
1 CTTTAACAGTGCATCGATGCATT
758890 CTTTAACATGTGCATCGATGCA
1 CTTTAACA-GTGCATCGATGCA
758912 CTACCCATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 1 0.03
20 17 0.47
22 2 0.06
23 3 0.08
24 13 0.36
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (23 bp):
CTTTAACAGTGCATCGATGCATT
Found at i:758958 original size:63 final size:62
Alignment explanation
Indices: 758889--759035 Score: 154
Period size: 64 Copynumber: 2.3 Consensus size: 62
758879 ATCGATGCAT
* *
758889 TCTTTAACATGTGCATCGATGCACTACC-CATGCATCGATACCCTAATCACCTTCGATGTTTTCG
1 TCTTTAA-ATGTGCATCGATGCACT-CCTCATGCATCGATACACTAATCACATTCGATG-TTTCG
** * * * *
758953 T-TTTAAGGGGGTGCATCGATGCACTCCTTATGCATCGATGCACTAATTACATTCGATGTTTCT
1 TCTTTAA--ATGTGCATCGATGCACTCCTCATGCATCGATACACTAATCACATTCGATGTTTCG
759016 TCTTTAAATAGTGCATCGAT
1 TCTTTAAAT-GTGCATCGAT
759036 ACATAATGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
63 22 0.32
64 46 0.68
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (62 bp):
TCTTTAAATGTGCATCGATGCACTCCTCATGCATCGATACACTAATCACATTCGATGTTTCG
Found at i:769591 original size:54 final size:54
Alignment explanation
Indices: 769501--769775 Score: 374
Period size: 54 Copynumber: 5.1 Consensus size: 54
769491 CCAAACAATA
* * *
769501 TGATGTGTTCAAATGAATTTTGAAAGAAGCTAAGCCTGGTTTTCAGGGGTTTCT
1 TGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * *
769555 TGATATCTTCAAATGAATTTTGAAAGAAGTTGAGCCTGATTTTTAGGGGTTTCT
1 TGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * * * *
769609 TGATGTTTTCAGATGAATTTTTAAAGGAGCTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* *
769663 TGATGT-TTACAAAT-AGATTTTGAAAGAAGCTAAGCTTGATATTTAGGGGTTTCT
1 TGATGTCTT-CAAATGA-ATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * *
769717 TGATGTCTTTAAATGAATTTTTAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
1 TGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
769771 TGATG
1 TGATG
769776 ATAACTGTAA
Statistics
Matches: 192, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.02
54 186 0.97
55 3 0.02
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (54 bp):
TGATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
Found at i:771392 original size:165 final size:165
Alignment explanation
Indices: 771183--771535 Score: 449
Period size: 165 Copynumber: 2.1 Consensus size: 165
771173 TCAAACTTTG
* * *
771183 TTTGATTCCATCACATAAGGAGTTGGATCAGTATCATAACTTTGTTCGAATCCATTACAAAAGGA
1 TTTGATTCTATCACATAAGGAGTTGGATCAGCAACATAACTTTGTTCGAATCCATTACAAAAGGA
* ** * *
771248 GATG-GATCAACATTTCCAATGCCGAAGCTCAGAATGAGAAGAACTTGTTCAACGCGCTCAATTC
66 GATGAG-TCAACATTGCCAATGAAGAAGCTCAGAATAAGAAGAACTTGTTCAACGCACTCAATTC
* *
771312 CATCACATAAGGAGTTGGATCAGCACTAGCACTACA
130 CATCACATAAGGAGTTGCATCAGCACCAGCACTACA
* * * *
771348 TTTGATTCTATCACATAAGGAGTTGGATCAGCAACATCACTTTGTTTGAATCTATTACATAAGGA
1 TTTGATTCTATCACATAAGGAGTTGGATCAGCAACATAACTTTGTTCGAATCCATTACAAAAGGA
* * * * * * * *
771413 GGTGAGTCAACATTGCTAGTTAAGAAGTTCATAATAAGAAGAACTTGTTTAACGCACTCGATTCC
66 GATGAGTCAACATTGCCAATGAAGAAGCTCAGAATAAGAAGAACTTGTTCAACGCACTCAATTCC
* *
771478 ATCACATAAGGAGTTGCATCAGGACCATCACTACA
131 ATCACATAAGGAGTTGCATCAGCACCAGCACTACA
*
771513 TTTTATTCCT-TCACATAAGGAGT
1 TTTGATT-CTATCACATAAGGAGT
771536 CGGGTCAACA
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
165 158 0.98
166 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (165 bp):
TTTGATTCTATCACATAAGGAGTTGGATCAGCAACATAACTTTGTTCGAATCCATTACAAAAGGA
GATGAGTCAACATTGCCAATGAAGAAGCTCAGAATAAGAAGAACTTGTTCAACGCACTCAATTCC
ATCACATAAGGAGTTGCATCAGCACCAGCACTACA
Found at i:771402 original size:44 final size:44
Alignment explanation
Indices: 771313--771413 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
771303 GCTCAATTCC
*
771313 ATCACATAAGGAGTTGGATCAGCACTAGCACTACATTTGATTCT
1 ATCACATAAGGAGTTGGATCAGCACTAGCACTACATTTGAATCT
* ***
771357 ATCACATAAGGAGTTGGATCAGCAAC-ATCACTTTGTTTGAATCT
1 ATCACATAAGGAGTTGGATCAGC-ACTAGCACTACATTTGAATCT
*
771401 ATTACATAAGGAG
1 ATCACATAAGGAG
771414 GTGAGTCAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
44 48 0.96
45 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCACATAAGGAGTTGGATCAGCACTAGCACTACATTTGAATCT
Found at i:771482 original size:121 final size:123
Alignment explanation
Indices: 771351--771745 Score: 363
Period size: 123 Copynumber: 3.2 Consensus size: 123
771341 CACTACATTT
* *** *
771351 GATTCTATCACATAAGGAGTTGGATCAGCAACATCACTTTGTTTGAAT-CTATTACATAAGGAGG
1 GATTCCATCACATAAGGAGTTGGATCAGCAACATCACTACATTTGAATCCT-TCACATAAGGA-G
** *
771415 T-GAGTCAACATTGCT-AGTTAAGAAGTTCATAA-TAAGAAGAACTTGTTTAACGCACTC
64 TCGAGTCAACATTGCTAAGAGAAGAAGTTCATAATTAAGAAGAACTTGTTCAACGCACTC
* * * * *
771472 GATTCCATCACATAAGGAGTTGCATCAGGACCATCACTACATTTTATTCCTTCACATAAGGAGTC
1 GATTCCATCACATAAGGAGTTGGATCAGCAACATCACTACATTTGAATCCTTCACATAAGGAGTC
* * *
771537 GGGTCAACATTTCTAAGAGAAGAAGTTCATAATTTAGAAGAACTTGTTCAACGCACTC
66 GAGTCAACATTGCTAAGAGAAGAAGTTCATAATTAAGAAGAACTTGTTCAACGCACTC
* * * * * * *
771595 GATACCATCACATAAGGAGTTGGATAAG-AACCAACACTACGTTTGATTCCATCATATAAGGAGT
1 GATTCCATCACATAAGGAGTTGGATCAGCAA-CATCACTACATTTGAATCCTTCACATAAGGAGT
* * ** ** * * * * *
771659 TGGGTCAATGTTTTTGATAGAATAAGTTCATAATGAA-AAGAACTTGTTCAAC-CTTTGCTC
65 CGAGTCAACATTGCTAAGAGAAGAAGTTCATAATTAAGAAGAACTTGTTCAACGC---ACTC
* *
771719 GATTCCATCACAAAAGGAGGTGGATCA
1 GATTCCATCACATAAGGAGTTGGATCA
771746 ACCTTTCCCA
Statistics
Matches: 227, Mismatches: 39, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
120 2 0.01
121 62 0.27
122 33 0.15
123 104 0.46
124 26 0.11
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (123 bp):
GATTCCATCACATAAGGAGTTGGATCAGCAACATCACTACATTTGAATCCTTCACATAAGGAGTC
GAGTCAACATTGCTAAGAGAAGAAGTTCATAATTAAGAAGAACTTGTTCAACGCACTC
Found at i:771614 original size:123 final size:120
Alignment explanation
Indices: 771404--771710 Score: 364
Period size: 123 Copynumber: 2.5 Consensus size: 120
771394 TGAATCTATT
* * ** *
771404 ACATAAGGAGGTGAGTCAACATTGCTAGTTAAGAAGTTCATAATAAGAAGAACTTGTTTAACGCA
1 ACATAAGGA-GTGGGTCAACATTTCTAGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACGCA
* * * * * *
771469 CTCGATTCCATCACATAAGGAGTTGCATCAGGACCATCACTACATTTTATTCCTTC
65 CTCGATACCATCACATAAGGAGTTGCATAAGAACCAACACTACATTTGATTCCATC
*
771525 ACATAAGGAGTCGGGTCAACATTTCTAAGAGAAGAAGTTCATAATTTAGAAGAACTTGTTCAACG
1 ACATAAGGAGT-GGGTCAACATTTCT-AGAGAAGAAGTTCATAA-TAAGAAGAACTTGTTCAACG
* *
771590 CACTCGATACCATCACATAAGGAGTTGGATAAGAACCAACACTACGTTTGATTCCATC
63 CACTCGATACCATCACATAAGGAGTTGCATAAGAACCAACACTACATTTGATTCCATC
* ** * * *
771648 ATATAAGGAGTTGGGTCAATGTTTTTGATAGAATAAGTTCATAATGAA-AAGAACTTGTTCAAC
1 ACATAAGGAG-TGGGTCAACATTTCT-AGAGAAGAAGTTCATAAT-AAGAAGAACTTGTTCAAC
771711 CTTTGCTCGA
Statistics
Matches: 159, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
120 2 0.01
121 21 0.13
122 31 0.19
123 104 0.65
124 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (120 bp):
ACATAAGGAGTGGGTCAACATTTCTAGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACGCAC
TCGATACCATCACATAAGGAGTTGCATAAGAACCAACACTACATTTGATTCCATC
Found at i:771988 original size:3 final size:3
Alignment explanation
Indices: 771980--772009 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
771970 GTGTTATATC
771980 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
772010 CATAACTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:772294 original size:21 final size:21
Alignment explanation
Indices: 772241--772295 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
772231 CAGATCAAAC
*
772241 CAAATCAAA--TAATAAATAA
1 CAAATCAAACCTAATAAAAAA
* *
772260 GAAATCAAATCTAATAAAAAA
1 CAAATCAAACCTAATAAAAAA
*
772281 CAAATCACACCTAAT
1 CAAATCAAACCTAAT
772296 CTATGTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 8 0.28
21 21 0.72
ACGTcount: A:0.62, C:0.16, G:0.02, T:0.20
Consensus pattern (21 bp):
CAAATCAAACCTAATAAAAAA
Found at i:773659 original size:21 final size:18
Alignment explanation
Indices: 773628--773685 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 18
773618 TATATGTTGT
773628 ATTTGTTTTTATAAATATCA
1 ATTT-TTTTTATAAATAT-A
*
773648 ATATATTTTTTATTAAAGATA
1 AT-T-TTTTTTA-TAAATATA
*
773669 ATTTTTTTTATATATAT
1 ATTTTTTTTATAAATAT
773686 TTAAATATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 5 0.16
19 7 0.22
20 3 0.09
21 10 0.31
22 7 0.22
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTTTTTTATAAATATA
Found at i:774746 original size:18 final size:18
Alignment explanation
Indices: 774723--774760 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
774713 TTTTAAGATT
*
774723 TTATATTCGATTCAATTA
1 TTATATTCGATTAAATTA
774741 TTATATTCGATTAAATTA
1 TTATATTCGATTAAATTA
774759 TT
1 TT
774761 CGAATATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATATTCGATTAAATTA
Found at i:780993 original size:42 final size:42
Alignment explanation
Indices: 780947--781055 Score: 209
Period size: 42 Copynumber: 2.6 Consensus size: 42
780937 GCATAGTATC
780947 GATACTTCTTCAATAGGTATCGATATTGTTCTAAACAGTACT
1 GATACTTCTTCAATAGGTATCGATATTGTTCTAAACAGTACT
780989 GATACTTCTTCAATAGGTATCGATATTGTTCTAAACAGTACT
1 GATACTTCTTCAATAGGTATCGATATTGTTCTAAACAGTACT
*
781031 GATACTTCTTCAATGGGTATCGATA
1 GATACTTCTTCAATAGGTATCGATA
781056 CGTGAAAAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (42 bp):
GATACTTCTTCAATAGGTATCGATATTGTTCTAAACAGTACT
Found at i:781602 original size:12 final size:13
Alignment explanation
Indices: 781575--781607 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
781565 ATATTATAAT
*
781575 TTTTCAAACTTAG
1 TTTTCAAACATAG
781588 TTTTCAAA-ATAG
1 TTTTCAAACATAG
781600 TTTTCAAA
1 TTTTCAAA
781608 TTTGCCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:783527 original size:18 final size:18
Alignment explanation
Indices: 783490--783523 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
783480 TTTTAAGATT
*
783490 TTATATTTGATTCAAATA
1 TTATATTAGATTCAAATA
783508 TTATATTAGATT-AAAT
1 TTATATTAGATTCAAAT
783524 TATTTGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (18 bp):
TTATATTAGATTCAAATA
Found at i:786850 original size:17 final size:16
Alignment explanation
Indices: 786785--786853 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 16
786775 AAAGTAAGCT
786785 TTCATTCAATAAAGCTAG
1 TTCATT-AATAAA-CTAG
* *
786803 TTCCATAAATAAACAAG
1 TT-CATTAATAAACTAG
* *
786820 TTCTTTCATTAAACTAG
1 TTCATT-AATAAACTAG
786837 TTCATTAATCAAACTAG
1 TTCATTAAT-AAACTAG
786854 CTCCTTTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
16 4 0.10
17 25 0.62
18 8 0.20
19 3 0.08
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (16 bp):
TTCATTAATAAACTAG
Found at i:798097 original size:16 final size:16
Alignment explanation
Indices: 798076--798107 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
798066 AACCCTGGTA
798076 TAAATTGGACCATTAT
1 TAAATTGGACCATTAT
798092 TAAATTGGACCATTAT
1 TAAATTGGACCATTAT
798108 ATGAAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
TAAATTGGACCATTAT
Found at i:803953 original size:34 final size:35
Alignment explanation
Indices: 803909--803994 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
803899 AGATTTACTC
803909 AATCTTTTAATATTCAAAT-CTAAACAGATA-ATA
1 AATCTTTTAATATTCAAATACTAAACAGATATATA
* * *
803942 ATATCTTTTAAT-TTGAAATATTCAACAGATATATA
1 A-ATCTTTTAATATTCAAATACTAAACAGATATATA
* *
803977 AACCTTTTACTATTCAAA
1 AATCTTTTAATATTCAAA
803995 CATAAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
33 7 0.16
34 27 0.63
35 9 0.21
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (35 bp):
AATCTTTTAATATTCAAATACTAAACAGATATATA
Found at i:814716 original size:26 final size:26
Alignment explanation
Indices: 814682--814739 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
814672 CCATTTTTTA
814682 TTTCATTCATCTT-ATTCTCCTCCCTAT
1 TTTC-TTCATCTTCATTCTCCTCCCT-T
* * *
814709 TTTCTTCATTTTCATTCTTCTTCCTT
1 TTTCTTCATCTTCATTCTCCTCCCTT
814735 TTTCT
1 TTTCT
814740 ATCAAAAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.10, C:0.29, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTCTTCATCTTCATTCTCCTCCCTT
Found at i:818090 original size:19 final size:20
Alignment explanation
Indices: 818068--818105 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
818058 ATTATTGTCT
*
818068 TACTTGCATTG-ATTGTGTA
1 TACTTGCATAGAATTGTGTA
818087 TACTTGCATAGAATTGTGT
1 TACTTGCATAGAATTGTGT
818106 GTCGCAGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.45
Consensus pattern (20 bp):
TACTTGCATAGAATTGTGTA
Found at i:824326 original size:32 final size:32
Alignment explanation
Indices: 824207--824331 Score: 109
Period size: 31 Copynumber: 4.0 Consensus size: 32
824197 AACCTCGACA
* * * * *
824207 ACTGTCCATAGGTCCTGAAGAACCTAAGTAA-
1 ACTGTCCATATGTTCTGTAGAACATAGGTAAT
*
824238 ACTGTCCATATATTCCT-TAGAACATAGGT-AT
1 ACTGTCCATATGTT-CTGTAGAACATAGGTAAT
*
824269 ACTGTCCATATG-TCTCG-AAAGACATAGGTAATT
1 ACTGTCCATATGTTCT-GTAGA-ACATAGGTAA-T
824302 A-TGTCCATATGTTCTGTAGAACATAGGTAA
1 ACTGTCCATATGTTCTGTAGAACATAGGTAA
824332 ACCCTCGACT
Statistics
Matches: 76, Mismatches: 9, Indels: 17
0.75 0.09 0.17
Matches are distributed among these distances:
29 2 0.03
30 4 0.05
31 39 0.51
32 24 0.32
33 7 0.09
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (32 bp):
ACTGTCCATATGTTCTGTAGAACATAGGTAAT
Found at i:827506 original size:19 final size:18
Alignment explanation
Indices: 827482--827517 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
827472 CAATTGTATA
827482 TTTTCCATTTCATTTTTCT
1 TTTTCCATTT-ATTTTTCT
827501 TTTTCCATTTATTTTTC
1 TTTTCCATTTATTTTTC
827518 ATGGTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTCCATTTATTTTTCT
Found at i:829811 original size:139 final size:140
Alignment explanation
Indices: 829523--829812 Score: 306
Period size: 139 Copynumber: 2.1 Consensus size: 140
829513 CAAATAATCG
* * *
829523 AAATAGAACCTCAGACAACAAAAAACAAGGACCAAATAAAAATTATCCTAAATTAAAGGATTAAG
1 AAATAGAACCTCAGACAACAAAAAACAACGACCAAATAAAAATTATCCTAAATAAAAGGATAAAG
** * *
829588 ATGAAATTAAAACTAAGGTAAAGGCCTTAATATTAATCCTAAACAATTTTAGCAATTTACTGAAA
66 ATGAAATTAAAACTAAGAAAAAGGCCTTAATATTAATCCTAAACAATTTTAACAAATTACTGAAA
829653 TGAATAATTA
131 TGAATAATTA
** * * * *
829663 AAACGGAACCTCA-AGAA-TAAAAACAACGATCAAATTAAAAATTCTCCTAAATAAAAGGAATAA
1 AAATAGAACCTCAGACAACAAAAAACAACGACCAAA-TAAAAATTATCCTAAATAAAAGG-ATAA
* * * *
829726 AG-TGAAATTAAAA-TAA-AAAGAAGG-GTGTAATTATTAATCCTAACCGATTTTAACAAATTAT
64 AGATGAAATTAAAACTAAGAAA-AAGGCCT-TAA-TATTAATCCTAAACAATTTTAACAAATTAC
*
829787 TG-GATCGAATAATTA
126 TGAAAT-GAATAATTA
*
829802 ATATAGAACCT
1 AAATAGAACCT
829813 AGGGCATAAT
Statistics
Matches: 123, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
137 2 0.02
138 26 0.21
139 79 0.64
140 16 0.13
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.25
Consensus pattern (140 bp):
AAATAGAACCTCAGACAACAAAAAACAACGACCAAATAAAAATTATCCTAAATAAAAGGATAAAG
ATGAAATTAAAACTAAGAAAAAGGCCTTAATATTAATCCTAAACAATTTTAACAAATTACTGAAA
TGAATAATTA
Found at i:832935 original size:3 final size:3
Alignment explanation
Indices: 832921--832958 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
832911 AATCCAAAGA
*
832921 AAG AATG AAG AAG AAG AAG AAG AAG AA- AAG AAC AAG AA
1 AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
832959 AAATGAGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.68, C:0.03, G:0.26, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:837239 original size:13 final size:13
Alignment explanation
Indices: 837218--837259 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
837208 GTTTTGACCC
837218 GACCTGACCCGTT
1 GACCTGACCCGTT
*
837231 GATCTGACCCGTT
1 GACCTGACCCGTT
*
837244 GACCTGACCCTTT
1 GACCTGACCCGTT
837257 GAC
1 GAC
837260 TGTTGGCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.36, G:0.21, T:0.26
Consensus pattern (13 bp):
GACCTGACCCGTT
Found at i:837316 original size:23 final size:23
Alignment explanation
Indices: 837290--837335 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
837280 CCTCTGTTGC
837290 CGTTGACCATTGACTTTGACCGA
1 CGTTGACCATTGACTTTGACCGA
*
837313 CGTTGACCTTTGACTTTGACCGA
1 CGTTGACCATTGACTTTGACCGA
837336 AAAGTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.33
Consensus pattern (23 bp):
CGTTGACCATTGACTTTGACCGA
Found at i:841985 original size:22 final size:20
Alignment explanation
Indices: 841958--842015 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
841948 AATATCATTT
*
841958 ATATATTTTTTAATTTATAAA
1 ATATATTTTATAATTT-TAAA
*
841979 ATAATATTTAAATAATTTTAAA
1 AT-ATATTT-TATAATTTTAAA
842001 ATATATTTTAATAAT
1 ATATATTTT-ATAAT
842016 AAAATTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 13 0.42
22 12 0.39
23 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATTTTATAATTTTAAA
Found at i:842008 original size:21 final size:23
Alignment explanation
Indices: 841968--842015 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
841958 ATATATTTTT
841968 TAATTTATAAAATAATATTTAAA
1 TAATTTATAAAATAATATTTAAA
*
841991 TAATTT-TAAAAT-ATATTTTAA
1 TAATTTATAAAATAATATTTAAA
842012 TAAT
1 TAAT
842016 AAAATTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 12 0.50
22 6 0.25
23 6 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTTATAAAATAATATTTAAA
Found at i:843034 original size:21 final size:21
Alignment explanation
Indices: 842983--843035 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
842973 ATTATGACTA
*
842983 TCGCAATGCGATTTTCTAATT
1 TCGCAATGCGATTTTCCAATT
**
843004 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
843025 TCGCAATGCGA
1 TCGCAATGCGA
843036 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:843050 original size:20 final size:21
Alignment explanation
Indices: 843025--843076 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
843015 TTTTCCCAAT
*
843025 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
843045 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
843066 TCGCAATGCGA
1 TCGCAATGCGA
843077 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:843055 original size:41 final size:41
Alignment explanation
Indices: 843010--843241 Score: 125
Period size: 41 Copynumber: 5.7 Consensus size: 41
843000 AATTTCGCGT
*
843010 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * * *
843051 TGCGAATTTGGAAAATCGCAATGCG-AT-ACTGACTATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGT-A-AATCGCAA
* * * * * **
843092 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCCTAATTCGCAATGCGA-ATAAGTAAATCGCAA
*
843133 TGCGATTTTCATAATTCGCAATGCGAATACA-TAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATA-AGTAAATCGCAA
* * *** * * *
843174 CGC-AATTAAGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAA-TAAGTAAATCGCAA
* * * *
843215 TGCGA-ATACGTAAATCGCAATGCGAAT
1 TGCGATTTTCCTAATTCGCAATGCGAAT
843242 CTTACTATCG
Statistics
Matches: 141, Mismatches: 40, Indels: 21
0.70 0.20 0.10
Matches are distributed among these distances:
39 2 0.01
40 25 0.18
41 111 0.79
42 1 0.01
43 1 0.01
44 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (41 bp):
TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:843120 original size:21 final size:21
Alignment explanation
Indices: 843086--843158 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
843076 ATACTGACTA
* *
843086 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
843107 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
843127 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
843148 TCGCAATGCGA
1 TCGCAATGCGA
843159 ATACATAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:843171 original size:20 final size:20
Alignment explanation
Indices: 843142--843259 Score: 109
Period size: 20 Copynumber: 5.8 Consensus size: 20
843132 TTGCGATTTT
*
843142 CATAATTCGCAATGCGAATA
1 CATAAATCGCAATGCGAATA
*
843162 CATAAATCGCAACGC-AATTA
1 CATAAATCGCAATGCGAA-TA
843182 -AGTAAATCGCAATGCGAATTA
1 CA-TAAATCGCAATGCGAA-TA
*
843203 GGA-AAATCGCAATGCGAATA
1 -CATAAATCGCAATGCGAATA
*
843223 CGTAAATCGCAATGCGAAT-
1 CATAAATCGCAATGCGAATA
* *
843242 CTTACTATCGCAATGCGA
1 CATA-AATCGCAATGCGA
843260 TTTACATAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.07
20 57 0.68
21 20 0.24
23 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (20 bp):
CATAAATCGCAATGCGAATA
Found at i:843526 original size:27 final size:27
Alignment explanation
Indices: 843469--843521 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
843459 CATCGACGGC
* *
843469 GAAATCCCTCACAACCATTCACAGTCA
1 GAAATCCCTCACAACCATTCAAAATCA
*
843496 GAAATCCCTCACAATCATTCAGAAAT
1 GAAATCCCTCACAACCATTCA-AAAT
843522 GGAAAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.21
Consensus pattern (27 bp):
GAAATCCCTCACAACCATTCAAAATCA
Found at i:843904 original size:33 final size:33
Alignment explanation
Indices: 843867--843954 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
843857 GTTGCGATTT
843867 TCATTTCGCGTTGCGATTCTCTCGTTGCAATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCAATAG
*
843900 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTTGCAATAG
843933 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
843955 ATTATCTCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 38 0.72
34 15 0.28
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTTGCAATAG
Found at i:843956 original size:20 final size:19
Alignment explanation
Indices: 843834--843979 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
843824 GAAACCAAAA
* *
843834 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
*
843853 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
843872 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
* **
843888 T--CGTTGCAATAGTCATT
1 TCGCGTTGCGATTCTCATT
843905 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
**
843921 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCATT
843938 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTCTCATT
* *
843958 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTCTCATT
843978 TC
1 TC
843980 AACCAAAAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 21 0.21
16 2 0.02
17 2 0.02
19 45 0.45
20 30 0.30
21 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTCTCATT
Found at i:845839 original size:95 final size:93
Alignment explanation
Indices: 845666--845945 Score: 451
Period size: 95 Copynumber: 3.0 Consensus size: 93
845656 TAGATTGCTT
* * *
845666 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-CTGT-TT-ATTAACACTGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAATGTGTATTCTTTAACACTGTGAAGTTAGTA
845728 TTTGTCTTTTTATTTTGTCTTTTGGTTGA
66 TTTGTCTTTTT-TTTTGTCTTTTGGTTGA
845757 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAA-TGTGTATTCTTTAACACTGTGAAGTTAGT
845822 ATTTGTCTTTTTGTTTTGTCTTTTGGTTGA
65 ATTTGTCTTTTT-TTTTGTCTTTTGGTTGA
*
845852 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACAATGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAA-TGTGTATTCTTTAACACTGTGAAGTTAGT
*
845917 ATTTGTC-TTTTTTATGTCTTTTGGTTGA
65 ATTTGTCTTTTTTTTTGTCTTTTGGTTGA
845945 A
1 A
845946 AGTTTGAAAT
Statistics
Matches: 178, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
91 34 0.19
93 20 0.11
94 6 0.03
95 118 0.66
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAATGTGTATTCTTTAACACTGTGAAGTTAGTA
TTTGTCTTTTTTTTTGTCTTTTGGTTGA
Found at i:846243 original size:42 final size:42
Alignment explanation
Indices: 846167--846285 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
846157 GACTCGCCTG
* * * * * * *
846167 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
846209 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGTCACTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
846251 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
846286 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:846284 original size:21 final size:21
Alignment explanation
Indices: 846225--846285 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
846215 CTCGAGAGTC
846225 CCCTCCCACCGTTCAAGAGGT
1 CCCTCCCACCGTTCAAGAGGT
* ** * *
846246 CACTATCATCGTTGAAGAGGT
1 CCCTCCCACCGTTCAAGAGGT
*
846267 CCCTCCCACCATTCAAGAG
1 CCCTCCCACCGTTCAAGAG
846286 CCCGATTCAC
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (21 bp):
CCCTCCCACCGTTCAAGAGGT
Found at i:847656 original size:14 final size:14
Alignment explanation
Indices: 847637--847672 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
847627 ATTGTTTAAT
847637 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
847651 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
847665 TGATTTGT
1 TGATTTGT
847673 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:847835 original size:19 final size:19
Alignment explanation
Indices: 847811--847896 Score: 85
Period size: 19 Copynumber: 4.8 Consensus size: 19
847801 ACAACGAGAG
*
847811 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
847830 AATCGCAACGCG-AAT---
1 AATCGCAACGCGAAATGAA
* * *
847845 -TTTGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
847863 AATCGCAACGCGAAACT-AA
1 AATCGCAACGCGAAA-TGAA
847882 AATCGCAACGCGAAA
1 AATCGCAACGCGAAA
847897 CTTAATTCGC
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
18 3 0.06
19 39 0.72
20 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:847873 original size:33 final size:32
Alignment explanation
Indices: 847779--847877 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 32
847769 AAAAAGTACT
* * *
847779 ATCGCAATGCGAAATAAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
847812 ATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAA
* *
847844 TTTTGCAATGCGAAATGAAAATCGCAACGCGAA
1 -ATCGCAATGCGAAATGAAAATCGCAACGCGAA
847877 A
1 A
847878 CTAAAATCGC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
32 1 0.02
33 58 0.98
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.15
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAA
Found at i:847924 original size:19 final size:19
Alignment explanation
Indices: 847902--847986 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 19
847892 CGAAACTTAA
847902 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
847921 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
847936 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
847954 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
847973 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
847987 AGACATTAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
14 9 0.18
16 3 0.06
17 3 0.06
19 26 0.51
20 10 0.20
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:850275 original size:12 final size:12
Alignment explanation
Indices: 850258--850282 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
850248 TCTTCGGGGA
850258 CTTTTTCTTCTT
1 CTTTTTCTTCTT
850270 CTTTTTCTTCTT
1 CTTTTTCTTCTT
850282 C
1 C
850283 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:850491 original size:24 final size:24
Alignment explanation
Indices: 850457--850510 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
850447 CTGAAACATC
*
850457 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
850481 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
850505 ATCAAA
1 ATCAAA
850511 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:851420 original size:20 final size:20
Alignment explanation
Indices: 851331--851422 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
851321 TGCGAATTTG
* *
851331 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
851351 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
851371 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
851392 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
851412 GAAAATCGCAA
1 GAAAATCGCAA
851423 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:851751 original size:20 final size:20
Alignment explanation
Indices: 851636--851743 Score: 137
Period size: 20 Copynumber: 5.4 Consensus size: 20
851626 CAACGGGGAA
851636 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
851656 ATCGCAAGGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
851676 ATCGCAATGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
851696 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
851716 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
851736 ATCGCAAC
1 ATCGCAAC
851744 TAGAAAATCG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.07
20 65 0.87
21 5 0.07
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:853458 original size:41 final size:42
Alignment explanation
Indices: 853404--853495 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
853394 CCTCTTCAAC
* *
853404 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
853445 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
*
853487 AATGACAGG
1 GATGACAGG
853496 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.45
42 24 0.55
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:853858 original size:20 final size:20
Alignment explanation
Indices: 853833--853871 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
853823 GAAGAATAGT
853833 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
*
853853 TTACTTTCGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
853872 ATGACTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:853886 original size:20 final size:20
Alignment explanation
Indices: 853839--853945 Score: 99
Period size: 20 Copynumber: 5.4 Consensus size: 20
853829 TAGTTTACTT
* * * *
853839 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
853859 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* * *
853879 TCGTAACGTGGAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
853899 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
853919 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
853938 TCGCAACG
1 TCGCAACG
853946 ACAAAATCGC
Statistics
Matches: 72, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
19 13 0.18
20 59 0.82
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:853933 original size:19 final size:20
Alignment explanation
Indices: 853859--853945 Score: 104
Period size: 20 Copynumber: 4.4 Consensus size: 20
853849 AAACTTACTT
*
853859 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
* *
853879 TCGTAACGTGGAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
853899 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
853919 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
853938 TCGCAACG
1 TCGCAACG
853946 ACAAAATCGC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 14 0.25
20 42 0.75
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:853953 original size:14 final size:14
Alignment explanation
Indices: 853934--853992 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
853924 ATGCGAAATG
853934 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
853948 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
853967 AAAATCGCAACGAC
1 AAAATCGCAACGAC
853981 AAAATCGCAACG
1 AAAATCGCAACG
853993 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:853972 original size:19 final size:19
Alignment explanation
Indices: 853918--853976 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
853908 GGAAATGGCT
853918 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
853937 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
853951 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
853970 ATCGCAA
1 ATCGCAA
853977 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:854005 original size:33 final size:33
Alignment explanation
Indices: 853918--853997 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
853908 GGAAATGGCT
853918 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
853951 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
853984 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
853998 CACAAATCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:854070 original size:20 final size:20
Alignment explanation
Indices: 854021--854073 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
854011 GCGATTTTCA
*
854021 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
854041 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
* *
854061 TTTTGTGTTGCGA
1 TTTCGCGTTGCGA
854074 AAGTAAACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:854661 original size:18 final size:18
Alignment explanation
Indices: 854614--854661 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
854604 CGGGTCGATC
*
854614 AGGTGATGGCACTGGGTG
1 AGGTGATGGCTCTGGGTG
*
854632 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
854650 AGGTGATGGCTC
1 AGGTGATGGCTC
854662 CCGAAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.46, T:0.25
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:856003 original size:20 final size:20
Alignment explanation
Indices: 855978--856017 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
855968 AGAATAGTTT
855978 ATGAAAATGTA-AATCGCAAC
1 ATGAAAATG-ACAATCGCAAC
855998 ATGAAAATGACAATCGCAAC
1 ATGAAAATGACAATCGCAAC
856018 GCGAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (20 bp):
ATGAAAATGACAATCGCAAC
Found at i:856319 original size:20 final size:21
Alignment explanation
Indices: 856294--856342 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
856284 TCTGAGATAT
856294 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
856314 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
*
856336 AGAGATG
1 GGAGATG
856343 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:856328 original size:22 final size:22
Alignment explanation
Indices: 856301--856344 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
856291 TATGGAGATA
*
856301 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
*
856323 GACGGATTTCGTCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
856345 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:856592 original size:20 final size:20
Alignment explanation
Indices: 856537--856612 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
856527 GTATTATCTC
*
856537 GTTGCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* * *
856557 GTTGCAAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
856577 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
*
856597 GTTGCGATAGTCAGTA
1 GTTGCGAAAGTCAGTA
856613 CCGCGTTACG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:856617 original size:20 final size:20
Alignment explanation
Indices: 856577--856624 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
856567 TAAGTATCGA
* *
856577 GTTGCGAAAGTCAGTATCGC
1 GTTGCGATAGTCAGTACCGC
856597 GTTGCGATAGTCAGTACCGC
1 GTTGCGATAGTCAGTACCGC
*
856617 GTTACGAT
1 GTTGCGAT
856625 TTTCCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (20 bp):
GTTGCGATAGTCAGTACCGC
Found at i:856647 original size:21 final size:21
Alignment explanation
Indices: 856621--856665 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
856611 TACCGCGTTA
856621 CGATTTTCCAAATTCGCATTG
1 CGATTTTCCAAATTCGCATTG
856642 CGATTTTCCAAATTCGCATTG
1 CGATTTTCCAAATTCGCATTG
856663 CGA
1 CGA
856666 ATTGGGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (21 bp):
CGATTTTCCAAATTCGCATTG
Found at i:856680 original size:21 final size:20
Alignment explanation
Indices: 856656--856707 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
856646 TTTCCAAATT
856656 CGCATTGCGAATTGGGAAAAG
1 CGCATTGCGAATT-GGAAAAG
* *
856677 CGCAATGCGAAATTGGAAAAT
1 CGCATTGCG-AATTGGAAAAG
856698 CGCATTGCGA
1 CGCATTGCGA
856708 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (20 bp):
CGCATTGCGAATTGGAAAAG
Found at i:857354 original size:116 final size:115
Alignment explanation
Indices: 857181--857407 Score: 314
Period size: 116 Copynumber: 2.0 Consensus size: 115
857171 AATGAAGAGA
* * * *
857181 TTAAATTGAATTCAAAATTGAATGAATAAATAAGAGAAATGGAAAAGGAAGTAAAAAACTAAACA
1 TTAAATTGAATCCAAAATTGAATAAATAAATAAGAGAAATGGAAAAAGAAGTAAAAAACTAAAAA
*
857246 TTTTATGAAATTATAAAAATTAGTGGTCCTAATTATAAATATAAAAAATGG
66 TTTAATGAAATTATAAAAATTAG-GGTCCTAATTATAAATATAAAAAATGG
* * *
857297 TTAAATTTAATCCAAAATT-AGATAAATTAATAAGAGAAAT-GAAAAAGAAGATCAAAAACTAAA
1 TTAAATTGAATCCAAAATTGA-ATAAATAAATAAGAGAAATGGAAAAAGAAG-TAAAAAACTAAA
** *
857360 AATTTAATGAAATTATAAAAATTAGGGTGTTGATTATAAATATAAAAA
64 AATTTAATGAAATTATAAAAATTAGGGTCCTAATTATAAATATAAAAA
857408 TTAGATGAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
115 30 0.31
116 68 0.69
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (115 bp):
TTAAATTGAATCCAAAATTGAATAAATAAATAAGAGAAATGGAAAAAGAAGTAAAAAACTAAAAA
TTTAATGAAATTATAAAAATTAGGGTCCTAATTATAAATATAAAAAATGG
Done.