Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014919.1 Corchorus olitorius cultivar O-4 contig14952, 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, 889
Length: 1483
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Found at i:1125 original size:220 final size:221
Alignment explanation
Indices: 742--1138 Score: 663
Period size: 220 Copynumber: 1.8 Consensus size: 221
732 TCCGGAGCCA
** * * *
742 CGGCTCAATTTTGCTTGATTGTTGGCACAAAGACTCCTTGAAATATCTATATTCATCTAAACAAA
1 CGGCTCAATTTTGCAAGATTGTTGGAACAAAGACTCCTAGAAATATCTATAGTCATCTAAACAAA
* * *
807 TCATAGCCACAATGGATTTAAGGATTTTTTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
66 TCATAGCCACAATGGATTTAAGGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATT
872 AAAAATAAATTCGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAAACATCACAGTTTTTGA
131 AAAAATAAATTCGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAAACATCACAGTTTTTGA
937 CAAAAAAAAAAGGCGTTTCAGGGCCC
196 CAAAAAAAAAAGGCGTTTCAGGGCCC
* * * *
963 CGGCTCAGTTTTGCAAGATTTTTGGAAGAAAGACTCCTAGAAATATCTATAGTCATCTAACCAAA
1 CGGCTCAATTTTGCAAGATTGTTGGAACAAAGACTCCTAGAAATATCTATAGTCATCTAAACAAA
1028 TC-TCAGCCACAATGGATTTAA-GAATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAAT
66 TCAT-AGCCACAATGGATTTAAGGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAAT
1091 TAAAAATAAATTCGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAA
130 TAAAAATAAATTCGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAA
1139 GAACCATTTT
Statistics
Matches: 163, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
220 88 0.54
221 75 0.46
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (221 bp):
CGGCTCAATTTTGCAAGATTGTTGGAACAAAGACTCCTAGAAATATCTATAGTCATCTAAACAAA
TCATAGCCACAATGGATTTAAGGAATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATT
AAAAATAAATTCGAAAAAAAATGGAAAAACGATATTGGAAGCGTGAAAAACATCACAGTTTTTGA
CAAAAAAAAAAGGCGTTTCAGGGCCC
Done.