Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018912.1 Corchorus olitorius cultivar O-4 contig18945, 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: 3220
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37


Found at i:1656 original size:58 final size:58

Alignment explanation


    Indices: 1561--1675  Score: 162
    Period size: 58  Copynumber: 2.0  Consensus size: 58

       1551 ATTAATCAAA

                                                          *           
       1561 TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTCGGACCAAGGCT
          1 TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCAAGGCT

                *            *                                    *    
       1619 TATCGAGTGACATGTTTTTTTATTAGATGTC-T-AAAAAAGACGTTTTAGGACCGAGGC
          1 TATCAAGTGACATG-TTCTTTATTAGATG-CATAAAAAAAGACGTTTTAGGACCAAGGC

       1676 ATGATGCTAT


Statistics
Matches: 51,  Mismatches: 4, Indels: 4
        0.86            0.07        0.07

Matches are distributed among these distances:
  58   36  0.71
  59   14  0.27
  60    1  0.02

ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33


Consensus pattern (58 bp):   
TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCAAGGCT

Found at i:2356 original size:36 final size:36

Alignment explanation


    Indices: 2309--2378  Score: 113
    Period size: 36  Copynumber: 1.9  Consensus size: 36

       2299 TTCAATAACC

                         *      *               
       2309 TTACATCTTTTGTGATTTTGGTTATCATATTTCTTA
          1 TTACATCTTTTGTAATTTTGATTATCATATTTCTTA

                  *                           
       2345 TTACATTTTTTGTAATTTTGATTATCATATTTCT
          1 TTACATCTTTTGTAATTTTGATTATCATATTTCT

       2379 CCAAAATCTC


Statistics
Matches: 31,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  36   31  1.00

ACGTcount: A:0.21, C:0.10, G:0.09, T:0.60


Consensus pattern (36 bp):   
TTACATCTTTTGTAATTTTGATTATCATATTTCTTA
Done.