Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018719.1 Corchorus olitorius cultivar O-4 contig18752, 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, 818
Length: 1364
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Found at i:926 original size:154 final size:153
Alignment explanation
Indices: 638--1351 Score: 1106
Period size: 154 Copynumber: 4.6 Consensus size: 153
628 GTATCTGCTA
* * * *
638 AAAACATCACAGTGGACTAATCACACCAAAATGATTACAGTTAGTCCATAAACAATGGAAAGAAA
1 AAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAA
** *
703 AGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCACGAATGGGCCCCGATAGGCCCAAA
66 AGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAA
768 ATAACAAGTGTTCCAAATGAGCT
131 ATAACAAGTGTTCCAAATGAGCT
* * *
791 ATAAACTTTACAGTGGACTTATCTCACCAAAATGATTATAGTTAGTCCATAAACAATGGAAAGAA
1 A-AAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAA
* *
856 AAGCTTTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCTCGATAGGCCCAA
65 AAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAA
921 AATAACAAGTGTTCCAAATGAGCT
130 AATAACAAGTGTTCCAAATGAGCT
* * * *
945 AAGAACTTCACAGTGGATTAATCTCATCAAAATGATTATAGTTAGGCCATAAACAACT-TAAATA
1 AA-AACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA-TGGAAAGA
* * *
1009 ATAGCTTTGAGGTTTGCCAAATTGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA
64 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCA
* *
1074 CAAGAACAAGTGTTCCAAATGAGCT
129 AAATAACAAGTGTTCCAAATGAGCT
*
1099 AAATACTTCACAGTAGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAACAATGGAAAGA
1 AAA-ACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCAT-AAACAATGGAAAGA
* * *
1164 AAAGCCTTGAGGTTTGCCAAATCGAAGACGATTCAAAACGTCAACTAATGGGCCGCGATAGGCCC
64 AAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACG-GAACTAATGGGCCCCGATAGGCCC
1229 AAAATAACAAGTGTTCCAAATGAGCT
128 AAAATAACAAGTGTTCCAAATGAGCT
* *
1255 AAAAACTTCACATTGGACTAATCTCACCAAATTGATTATAGTTAGGCCATAAACAATGGAAAGAA
1 -AAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAA
*
1320 AAGCATTGAGGTTTGCCAAATCGAAGATGATT
65 AAGCATTGAGGTTTGCCAAATCGAAGACGATT
1352 ACGAAACATC
Statistics
Matches: 514, Mismatches: 39, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
153 3 0.01
154 326 0.63
155 93 0.18
156 89 0.17
157 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (153 bp):
AAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAA
AGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAA
ATAACAAGTGTTCCAAATGAGCT
Done.