Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022892.1 Corchorus olitorius cultivar O-4 contig22925, 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: 8401
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Found at i:2736 original size:70 final size:70
Alignment explanation
Indices: 2623--2755 Score: 266
Period size: 70 Copynumber: 1.9 Consensus size: 70
2613 TTCAAAGCTT
2623 TTACGGGTCTTATTGGCGTGAGATCCACAAGATTGCTACCATTGAGCTTCTTTCAACTCACCATC
1 TTACGGGTCTTATTGGCGTGAGATCCACAAGATTGCTACCATTGAGCTTCTTTCAACTCACCATC
2688 GCGCC
66 GCGCC
2693 TTACGGGTCTTATTGGCGTGAGATCCACAAGATTGCTACCATTGAGCTTCTTTCAACTCACCA
1 TTACGGGTCTTATTGGCGTGAGATCCACAAGATTGCTACCATTGAGCTTCTTTCAACTCACCA
2756 GATTGATCTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (70 bp):
TTACGGGTCTTATTGGCGTGAGATCCACAAGATTGCTACCATTGAGCTTCTTTCAACTCACCATC
GCGCC
Found at i:2860 original size:22 final size:22
Alignment explanation
Indices: 2832--2875 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2822 ATGGCTTGAC
*
2832 AAAGGTGGTGCAGAAATAGGAG
1 AAAGGTGGTGCAGAAACAGGAG
2854 AAAGGTGGTGCAGAAACAGGAG
1 AAAGGTGGTGCAGAAACAGGAG
2876 TATTGATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.41, T:0.11
Consensus pattern (22 bp):
AAAGGTGGTGCAGAAACAGGAG
Done.