Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018837.1 Corchorus olitorius cultivar O-4 contig18870, 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: 8369
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Found at i:111 original size:48 final size:48
Alignment explanation
Indices: 59--502 Score: 448
Period size: 48 Copynumber: 9.2 Consensus size: 48
49 AGAAATAAGG
* * * * *
59 TGGTGGAGG-CGAGGACTTGTAAACATATGGAGGAGGTGGTGAGGGAGA
1 TGGTGGAGGTGGA-GACTTGTAGACATAAGGAGGTGGAGGTGAGGGAGA
*
107 TGGTGGAGGTGGAGACTTGTAGACATAAGGTGGTGGAGGTTGATGGG-GA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGAGGTGGAGG-TGA-GGGAGA
* * * * * * *
156 TGGTGGTGGTGGTGACTTGTATACGTAAGGAGGAGGCGGTGATGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGAGGTGGAGGTGAGGGAGA
* * *
204 TAGTGGAGGTGGGGACTTGTAGACATAAGGAGGTGGAGGTGATGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGAGGTGGAGGTGAGGGAGA
* * * * *
252 TGGTGGTGGTGGTGACTTATATG-CATAAGGAGGAGGAGGTGATGGAGA
1 TGGTGGAGGTGGAGACTTGTA-GACATAAGGAGGTGGAGGTGAGGGAGA
* * * * *
300 TGGTGAAGGTGGGGACTTGTAGACATAAGGAGGAGGTGGGGAGGGAGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGAGGTGGAGGTGAGGGAGA
* ** *
348 TGGTGGAGGTGGAGACTTGTAAATGTAAGGTGGTGGAGGTGATGGG-GA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGAGGTGGAGGTGA-GGGAGA
* * * * * *
396 TGGTGGTGGTGGAGACTTATAAACATATGGATGTGGAGGTGAGGGGGA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGAGGTGGAGGTGAGGGAGA
* *
444 TGGGGGAGGTGGAGACTTGTAGACATAAGGTGGTGGAGGTGATGGG-GA
1 TGGTGGAGGTGGAGACTTGTAGACATAAGGAGGTGGAGGTGA-GGGAGA
*
492 TGGTGGTGGTG
1 TGGTGGAGGTG
503 AAGGAGATGG
Statistics
Matches: 329, Mismatches: 58, Indels: 18
0.81 0.14 0.04
Matches are distributed among these distances:
47 6 0.02
48 274 0.83
49 46 0.14
50 3 0.01
ACGTcount: A:0.24, C:0.04, G:0.49, T:0.23
Consensus pattern (48 bp):
TGGTGGAGGTGGAGACTTGTAGACATAAGGAGGTGGAGGTGAGGGAGA
Found at i:365 original size:144 final size:143
Alignment explanation
Indices: 59--977 Score: 642
Period size: 144 Copynumber: 6.2 Consensus size: 143
49 AGAAATAAGG
* * * * * *
59 TGGTGGAGG-CGAGGACTTGTAAACATATGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGAC
1 TGGTGGAGGTGGA-GACTTGTAAACATAAGGAGGTGGAGGTGATGGAGATGGTGGTGGTGGAGAC
* * * * * *
123 TTGTAGACATAAGGTGGTGGAGGTTGATGGGGATGGTGGTGGTGGTGACTTGTATACGTAAGGAG
65 TTATAG-CATAAGGAGGTGGAGG-TGATGGGGATGGTGGAGGTGGAGACTTGTAGACATAAGGAG
* *
188 GAGGCGGTGATGGAGA
128 GAGGCGGGGAGGGAGA
* * * *
204 TAGTGGAGGTGGGGACTTGTAGACATAAGGAGGTGGAGGTGATGGAGATGGTGGTGGTGGTGACT
1 TGGTGGAGGTGGAGACTTGTAAACATAAGGAGGTGGAGGTGATGGAGATGGTGGTGGTGGAGACT
* * * *
269 TATATGCATAAGGAGGAGGAGGTGATGGAGATGGTGAAGGTGGGGACTTGTAGACATAAGGAGGA
66 TATA-GCATAAGGAGGTGGAGGTGATGGGGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGGA
*
334 GGTGGGGAGGGAGA
130 GGCGGGGAGGGAGA
** * *
348 TGGTGGAGGTGGAGACTTGTAAATGTAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGACT
1 TGGTGGAGGTGGAGACTTGTAAACATAAGGAGGTGGAGGTGATGGAGATGGTGGTGGTGGAGACT
* * * * * * *
413 TATAAACATATGGATGTGGAGGTGAGGGGGATGGGGGAGGTGGAGACTTGTAGACATAAGGTGGT
66 TAT-AGCATAAGGAGGTGGAGGTGATGGGGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGGA
* *
478 GGAGGTGATGGG-GA
130 GGCGGGGA-GGGAGA
* * * ** ** * * * * *
492 TGGTGGTGGTGAAGGAGA-TGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGTGAAGGA
1 TGGTGGAGGT---GGAGACT--T----GT--AAAC--ATAAGGAGGTGGAGGTGATGGAGATGGT
* * * * *
556 GATGGGGGAGGTGGAGACTTGTATTCATAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGA
53 G------GTGGTGGAGACTTATA-GCATAAGGAGGTGGAGGTGATGGGGATGGTGGAGGTGGAGA
* * * * * * * *
621 TTTATACACATATGGAGGTGGTGGTGAAGGAGA
111 CTTGTAGACATAAGGAGGAGGCGGGGAGGGAGA
* * * * * * *
654 CGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGTGAAGGAGATGGGGGAGGTGGAGACT
1 TGGTGGAGGTGGAGACTTGTAAACATAAGGAGGTGGAGGTGATGGAGATGGTGGTGGTGGAGACT
* * * * * * * *
719 TGTAGACATAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGAATTATACACATATGGAGGT
66 TATAG-CATAAGGAGGTGGAGGTGATGGGGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGGA
* * *
784 GGTGGTGAAGGAGA
130 GGCGGGGAGGGAGA
* * * * * *
798 TGGTGGAGGTGGAGACTTGTACACATATGGAGGAGGTGGTGAAGGAGATGGTGGTGGTGGTGGTG
1 TGGTGGAGGTGGAGACTTGTAAACATAAGGAGGTGGAGGTGATGGAGA---TGGTGGTGGTGGAG
* * * * * * *
863 ACTCATAGACATAAGGAGGAGGTGGTGA-GGGAGATGGTGGAGGCGGGGACTTGTAAACATAGGG
63 ACTTATAG-CATAAGGAGGTGGAGGTGATGGG-GATGGTGGAGGTGGAGACTTGTAGACATAAGG
*
927 AGGAGGTGGGGATGGG-GA
126 AGGAGGCGGGGA-GGGAGA
* * *
945 TGGTGGTGGCGGAGACTTGTAAAAATAAGGAGG
1 TGGTGGAGGTGGAGACTTGTAAACATAAGGAGG
978 AGGGGGTGTT
Statistics
Matches: 626, Mismatches: 116, Indels: 62
0.78 0.14 0.08
Matches are distributed among these distances:
144 308 0.49
145 74 0.12
146 6 0.01
147 104 0.17
148 3 0.00
150 15 0.02
152 5 0.01
154 4 0.01
156 19 0.03
158 1 0.00
159 5 0.01
160 1 0.00
161 3 0.00
162 78 0.12
ACGTcount: A:0.25, C:0.05, G:0.48, T:0.22
Consensus pattern (143 bp):
TGGTGGAGGTGGAGACTTGTAAACATAAGGAGGTGGAGGTGATGGAGATGGTGGTGGTGGAGACT
TATAGCATAAGGAGGTGGAGGTGATGGGGATGGTGGAGGTGGAGACTTGTAGACATAAGGAGGAG
GCGGGGAGGGAGA
Found at i:497 original size:18 final size:18
Alignment explanation
Indices: 474--520 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
464 AGACATAAGG
* *
474 TGGTGGAGGTGATGGGGA
1 TGGTGGAGGTGAAGGAGA
*
492 TGGTGGTGGTGAAGGAGA
1 TGGTGGAGGTGAAGGAGA
510 TGGTGGAGGTG
1 TGGTGGAGGTG
521 GAGACTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.60, T:0.23
Consensus pattern (18 bp):
TGGTGGAGGTGAAGGAGA
Found at i:499 original size:24 final size:24
Alignment explanation
Indices: 472--521 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
462 GTAGACATAA
* *
472 GGTGGTGGAGGTGATGG-GGATGGT
1 GGTGGTGAAGGAGATGGTGGA-GGT
496 GGTGGTGAAGGAGATGGTGGAGGT
1 GGTGGTGAAGGAGATGGTGGAGGT
520 GG
1 GG
522 AGACTTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.16, C:0.00, G:0.62, T:0.22
Consensus pattern (24 bp):
GGTGGTGAAGGAGATGGTGGAGGT
Found at i:533 original size:114 final size:114
Alignment explanation
Indices: 378--616 Score: 370
Period size: 114 Copynumber: 2.1 Consensus size: 114
368 AAATGTAAGG
* * * * * * * *
378 TGGTGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATAAACATATGGATGTGGAGGTGAGGGGG
1 TGGTGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATATGGAGGAGGAGGTGAAGGAG
443 ATGGGGGAGGTGGAGACTTGTAGACATAAGGTGGTGGAGGTGATGGGGA
66 ATGGGGGAGGTGGAGACTTGTAGACATAAGGTGGTGGAGGTGATGGGGA
* *
492 TGGTGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGTGAAGGAG
1 TGGTGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATATGGAGGAGGAGGTGAAGGAG
**
557 ATGGGGGAGGTGGAGACTTGTATTCATAAGGTGGTGGAGGTGATGGGGA
66 ATGGGGGAGGTGGAGACTTGTAGACATAAGGTGGTGGAGGTGATGGGGA
606 TGGTGGTGGTG
1 TGGTGGTGGTG
617 GAGATTTATA
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.23
Consensus pattern (114 bp):
TGGTGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTATAAACATATGGAGGAGGAGGTGAAGGAG
ATGGGGGAGGTGGAGACTTGTAGACATAAGGTGGTGGAGGTGATGGGGA
Found at i:544 original size:210 final size:210
Alignment explanation
Indices: 289--680 Score: 597
Period size: 210 Copynumber: 1.9 Consensus size: 210
279 AGGAGGAGGA
* * * * *
289 GGTGATGGAGATGGTGAAGGTGGGGACTTGTAGACATAAGGAGGAGGTGGGGAGGGAGATGGTGG
1 GGTGAAGGAGATGGTGAAGGTGGAGACTTGTAAACATAAGGAGGAGGTGGGGAAGGAGATGGGGG
*
354 AGGTGGAGACTTGTAAAT-GTAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATAA
66 AGGTGGAGACTTGT-AATCATAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATAA
* * * * *
418 ACATATGGATGTGGAGGTGAGGGGGATGGGGGAGGTGGAGACTTGTAGACATAAGGTGGTGGAGG
130 ACATATGGAGGTGGAGGTGAAGGAGACGGGGGAGGTGGAGACTTGTAAACATAAGGTGGTGGAGG
483 TGATGGGGATGGTGGT
195 TGATGGGGATGGTGGT
* * *
499 GGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGTGAAGGAGATGGGGG
1 GGTGAAGGAGATGGTGAAGGTGGAGACTTGTAAACATAAGGAGGAGGTGGGGAAGGAGATGGGGG
* * *
564 AGGTGGAGACTTGTATTCATAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGATTTATACA
66 AGGTGGAGACTTGTAATCATAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATAAA
* *
629 CATATGGAGGTGGTGGTGAAGGAGACGGTGGAGGTGGAGACTTGTAAACATA
131 CATATGGAGGTGGAGGTGAAGGAGACGGGGGAGGTGGAGACTTGTAAACATA
681 TGGAGGAGGT
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
209 2 0.01
210 160 0.99
ACGTcount: A:0.25, C:0.04, G:0.48, T:0.23
Consensus pattern (210 bp):
GGTGAAGGAGATGGTGAAGGTGGAGACTTGTAAACATAAGGAGGAGGTGGGGAAGGAGATGGGGG
AGGTGGAGACTTGTAATCATAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATAAA
CATATGGAGGTGGAGGTGAAGGAGACGGGGGAGGTGGAGACTTGTAAACATAAGGTGGTGGAGGT
GATGGGGATGGTGGT
Found at i:551 original size:66 final size:66
Alignment explanation
Indices: 424--568 Score: 175
Period size: 66 Copynumber: 2.2 Consensus size: 66
414 ATAAACATAT
* * * * * *
424 GGAT-GTGGAGGTGAGGGGGATGGGGGAGGTGGAGACTTGTAGACATAAGGTGGTGGAGGTGATG
1 GGATGGTGGAGGTGAAGGAGATGGGGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAG
488 G
66 G
* * * *
489 GGATGGTGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGTGAAG
1 GGATGGTGGAGGTGAAGGAGATGGGGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAG
554 G
66 G
* *
555 AGATGGGGGAGGTG
1 GGATGGTGGAGGTG
569 GAGACTTGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
65 4 0.06
66 62 0.94
ACGTcount: A:0.23, C:0.03, G:0.54, T:0.20
Consensus pattern (66 bp):
GGATGGTGGAGGTGAAGGAGATGGGGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAAG
G
Found at i:555 original size:48 final size:48
Alignment explanation
Indices: 496--985 Score: 530
Period size: 48 Copynumber: 10.1 Consensus size: 48
486 TGGGGATGGT
496 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
* ** * * *
544 GGTGGTGAAGGAGATGGGGGAGGTGGAGACTTGTATTCATAAGGTGGT
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
* * * * * * * *
592 GGAGGTGATGGGGATGGTGGTGGTGGAGATTTATACACATATGGAGGT
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
*
640 GGTGGTGAAGGAGACGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
* * * * *
688 GGTGGTGAAGGAGATGGGGGAGGTGGAGACTTGTAGACATAAGGTGGT
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
* * * * * * * *
736 GGAGGTGATGGGGATGGTGGTGGTGGAGAATTATACACATATGGAGGT
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
*
784 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTACACATATGGAGGA
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
* * ** * *
832 GGTGGTGAAGGAGATGGTGGTGGTGGTGGTGACTCATAGACATAAGGAGGA
1 GGTGGTGAAGGAGA---TGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
* * * *
883 GGTGGTGAGGGAGATGGTGGAGGCGGGGACTTGTAAACATAGGGAGGA
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
* * * * * * *
931 GGTGGGGATGGGGATGGTGGTGGCGGAGACTTGTAAAAATAAGGAGGA
1 GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
*
979 GGGGGTG
1 GGTGGTG
986 TTAGGCACAT
Statistics
Matches: 367, Mismatches: 72, Indels: 6
0.82 0.16 0.01
Matches are distributed among these distances:
48 326 0.89
51 41 0.11
ACGTcount: A:0.26, C:0.05, G:0.48, T:0.21
Consensus pattern (48 bp):
GGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGA
Found at i:5835 original size:25 final size:25
Alignment explanation
Indices: 5807--5859 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
5797 AGATTTTAAA
* * *
5807 CAAACACAAATACTACCTTATATAT
1 CAAACAAAAATACCACCTTATAGAT
* *
5832 CAAATAAAAATACCATCTTATAGAT
1 CAAACAAAAATACCACCTTATAGAT
5857 CAA
1 CAA
5860 CATATTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.26
Consensus pattern (25 bp):
CAAACAAAAATACCACCTTATAGAT
Found at i:7664 original size:48 final size:48
Alignment explanation
Indices: 7599--7726 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 48
7589 AGGTGGGGGA
* * * * * *
7599 GGAGACTTGTACACATAAGGTGGCGGAGGTGATGGCGATGGTGGTGGT
1 GGAGACTTGTAGACATAAGGTGGTGGAGGTGAGGGAGATGGAGGAGGT
* * *
7647 GGAGATTTGTAGGCATAAGGAGGTGGAGGTGAGGGAGATGGAGGAGGT
1 GGAGACTTGTAGACATAAGGTGGTGGAGGTGAGGGAGATGGAGGAGGT
*
7695 GGGGACTTGTAGACATAAGGTGGTGGAGGTGA
1 GGAGACTTGTAGACATAAGGTGGTGGAGGTGA
7727 CTTATAGATG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.24, C:0.06, G:0.48, T:0.21
Consensus pattern (48 bp):
GGAGACTTGTAGACATAAGGTGGTGGAGGTGAGGGAGATGGAGGAGGT
Found at i:7717 original size:75 final size:75
Alignment explanation
Indices: 7638--7798 Score: 178
Period size: 75 Copynumber: 2.1 Consensus size: 75
7628 TGATGGCGAT
* * * * * * *
7638 GGTGGTGGTGGAGATTTGTAGGCATAAGGAGGTGGAGGTGAGGGAGATGGAGGAGGTGGGGACTT
1 GGTGGTGGAGGAGACTTATAGACATAAGGAGGAGGAGGAGACGGAGATGGAGGAGGTGGGGACTT
7703 GTAGACATAA
66 GTAGACATAA
* ** * * *
7713 GGTGGTGGAGGTGACTTATAGATGTAAGGAGGAGGAGGAGACGGAGATGGTGGTGGTGGTGACTT
1 GGTGGTGGAGGAGACTTATAGACATAAGGAGGAGGAGGAGACGGAGATGGAGGAGGTGGGGACTT
*
7778 GTAGACGTAA
66 GTAGACATAA
* *
7788 GGAGGAGGAGG
1 GGTGGTGGAGG
7799 TGAGGGAGAT
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.25, C:0.04, G:0.50, T:0.20
Consensus pattern (75 bp):
GGTGGTGGAGGAGACTTATAGACATAAGGAGGAGGAGGAGACGGAGATGGAGGAGGTGGGGACTT
GTAGACATAA
Found at i:7765 original size:48 final size:48
Alignment explanation
Indices: 7713--8369 Score: 676
Period size: 48 Copynumber: 13.7 Consensus size: 48
7703 GTAGACATAA
* * * ** * *
7713 GGTGGTGGAGGTGACTTATAGATGTAAGGAGGAGGAGGAGACGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
* *
7761 GGTGGTGGTGGTGACTTGTAGACGTAAGGAGGAGGAGGTGAGGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
* * * * *
7809 GGTGGAGGTGGGGACTTATAGACGTAAGGAGGTGGAGGTGAGGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
* * * * * *
7857 GGAGGAGGTGGAGACTTGTAGACATAGGGTGGAGGTGGTGATGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
* * * * * *
7905 GGAGGAGGAGGAGACTTATAGACATAAGGTGGTGGAGGTGAGGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
* * * *
7953 GGTGGTGGTGGTGATTTATAGACATAAGGGGGAGGAGGTGAGGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
* * * *
8001 GGTGGTGGTGGGGACTTGTAGACATAGGGAGGAGGTGGGGATGGG-GAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGA-GGGAGAT
* * *
8049 GGTGGTGGCGGAGACTTGTAGACATAAGGTGGTGGAGGTGATGGG-GAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGA-GGGAGAT
* * * * * * *
8097 GGTGGTGGTGGAGACTTATACACGTATGGAGGTGGAGGCGAAGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
* * *
8145 GGTGGTGGAGGAGACTTGTACAAATAAGGAGGAGGAGGTGAGGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
* * * * *
8193 GGAGGAGGTGGAGACTTGTAGACATAAGGTGGGGGAGGAGATGGG-GAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGA-GGGAGAT
* * ** * *
8241 GGTGGTGGTGGAGACTTATACATGTATGGAGGTGGAGGTGAGGGAGAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
*
8289 GGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGG-GGTGATGGG-GAT
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGA-GGGAGAT
* * * *
8336 GGTGGAGGTGGGGACTTGTAAACATAAGGGGGAG
1 GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAG
Statistics
Matches: 513, Mismatches: 91, Indels: 11
0.83 0.15 0.02
Matches are distributed among these distances:
47 42 0.08
48 465 0.91
49 6 0.01
ACGTcount: A:0.25, C:0.05, G:0.50, T:0.20
Consensus pattern (48 bp):
GGTGGTGGTGGAGACTTGTAGACATAAGGAGGAGGAGGTGAGGGAGAT
Found at i:7799 original size:75 final size:75
Alignment explanation
Indices: 7662--7801 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 75
7652 TTTGTAGGCA
* * * * *
7662 TAAGGAGGTGGAGGTGAGGGAGATGGAGGAGGTGGGGACTTGTAGACATAAGGTGGTGGAGGTGA
1 TAAGGAGGAGGAGGAGACGGAGATGGAGGAGGTGGGGACTTGTAGACATAAGGAGGAGGAGGTGA
7727 CTTATAGATG
66 CTTATAGATG
* * * *
7737 TAAGGAGGAGGAGGAGACGGAGATGGTGGTGGTGGTGACTTGTAGACGTAAGGAGGAGGAGGTGA
1 TAAGGAGGAGGAGGAGACGGAGATGGAGGAGGTGGGGACTTGTAGACATAAGGAGGAGGAGGTGA
7802 GGGAGATGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 56 1.00
ACGTcount: A:0.27, C:0.04, G:0.49, T:0.19
Consensus pattern (75 bp):
TAAGGAGGAGGAGGAGACGGAGATGGAGGAGGTGGGGACTTGTAGACATAAGGAGGAGGAGGTGA
CTTATAGATG
Found at i:7933 original size:144 final size:144
Alignment explanation
Indices: 7713--8369 Score: 798
Period size: 144 Copynumber: 4.6 Consensus size: 144
7703 GTAGACATAA
* * ** * * * * *
7713 GGTGGTGGAGGTGACTTATAGATGTAAGGAGGAGGAGGAGACGGAGATGGTGGTGGTGGTGACTT
1 GGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGATGGAGATGGTGGAGGTGGAGACTT
* * * * *
7778 GTAGACGTAAGGAGGAGGAGGTGA-GGGAGATGGTGGAGGTGGGGACTTATAGACGTAAGGAGGT
66 GTAGACATAAGGTGGAGGAGGTGATGGG-GATGGTGGTGGTGGAGACTTATACACGTAAGGAGGT
7842 GGAGGTGAGGGAGAT
130 GGAGGTGAGGGAGAT
* * * * * * *
7857 GGAGGAGGTGGAGACTTGTAGACATAGGGTGGAGGTGGTGATGGAGATGGAGGAGGAGGAGACTT
1 GGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGATGGAGATGGTGGAGGTGGAGACTT
* * * * * * * *
7922 ATAGACATAAGGTGGTGGAGGTGA-GGGAGATGGTGGTGGTGGTGATTTATAGACATAAGGGGGA
66 GTAGACATAAGGTGGAGGAGGTGATGGG-GATGGTGGTGGTGGAGACTTATACACGTAAGGAGGT
7986 GGAGGTGAGGGAGAT
130 GGAGGTGAGGGAGAT
* * * * * * *
8001 GGTGGTGGTGGGGACTTGTAGACATAGGGAGGAGGTGGGGATGGGGATGGTGGTGGCGGAGACTT
1 GGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGATGGAGATGGTGGAGGTGGAGACTT
* *
8066 GTAGACATAAGGTGGTGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATACACGTATGGAGGTG
66 GTAGACATAAGGTGGAGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATACACGTAAGGAGGTG
* *
8131 GAGGCGAAGGAGAT
131 GAGGTGAGGGAGAT
* * * * *
8145 GGTGGTGGAGGAGACTTGTACAAATAAGGAGGAGGAGGTGAGGGAGATGGAGGAGGTGGAGACTT
1 GGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGATGGAGATGGTGGAGGTGGAGACTT
* * * *
8210 GTAGACATAAGGTGGGGGAGGAGATGGGGATGGTGGTGGTGGAGACTTATACATGTATGGAGGTG
66 GTAGACATAAGGTGGAGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATACACGTAAGGAGGTG
8275 GAGGTGAGGGAGAT
131 GAGGTGAGGGAGAT
* *
8289 GGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGG-GGTGATGGGGATGGTGGAGGTGGGGACTT
1 GGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGATGGAGATGGTGGAGGTGGAGACTT
* *
8353 GTAAACATAAGGGGGAG
66 GTAGACATAAGGTGGAG
Statistics
Matches: 441, Mismatches: 71, Indels: 3
0.86 0.14 0.01
Matches are distributed among these distances:
143 39 0.09
144 399 0.90
145 3 0.01
ACGTcount: A:0.25, C:0.05, G:0.50, T:0.20
Consensus pattern (144 bp):
GGTGGTGGAGGAGACTTGTAGACATAAGGAGGAGGTGGTGATGGAGATGGTGGAGGTGGAGACTT
GTAGACATAAGGTGGAGGAGGTGATGGGGATGGTGGTGGTGGAGACTTATACACGTAAGGAGGTG
GAGGTGAGGGAGAT
Done.