Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011436.1 Corchorus capsularis cultivar CVL-1 contig11457, 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: 9996
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29


Found at i:2436 original size:17 final size:18

Alignment explanation


    Indices: 2409--2442  Score: 61
    Period size: 17  Copynumber: 1.9  Consensus size: 18

       2399 CTCTCGATAG

                              
       2409 TACCTAGGTAGTATGAGA
          1 TACCTAGGTAGTATGAGA

                             
       2427 TACC-AGGTAGTATGAG
          1 TACCTAGGTAGTATGAG

       2443 GTGATAGGCT


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  17   12  0.75
  18    4  0.25

ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26


Consensus pattern (18 bp):   
TACCTAGGTAGTATGAGA

Found at i:8229 original size:36 final size:35

Alignment explanation


    Indices: 8182--8253  Score: 117
    Period size: 36  Copynumber: 2.0  Consensus size: 35

       8172 TGTGCAATTT

                                                
       8182 AGGTAGATAACCCAAACTCAATCGCACTCTTTTCCA
          1 AGGTAGATAACCCAAACTCAATCGCACTC-TTTCCA

                            *      *           
       8218 AGGTAGATAACCCAAATTCAATCTCACTCTTTCCA
          1 AGGTAGATAACCCAAACTCAATCGCACTCTTTCCA

             
       8253 A
          1 A

       8254 ACTACTCCCT


Statistics
Matches: 34,  Mismatches: 2, Indels: 1
        0.92            0.05        0.03

Matches are distributed among these distances:
  35    7  0.21
  36   27  0.79

ACGTcount: A:0.35, C:0.29, G:0.10, T:0.26


Consensus pattern (35 bp):   
AGGTAGATAACCCAAACTCAATCGCACTCTTTCCA
Done.