Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021404.1 Corchorus olitorius cultivar O-4 contig21437, 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: 12794
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34


Found at i:8585 original size:20 final size:20

Alignment explanation


    Indices: 8536--8588  Score: 72
    Period size: 20  Copynumber: 2.6  Consensus size: 20

       8526 TTTCCTTTGG

                      *         
       8536 TTTTGTTTTTATTTTTCGTA
          1 TTTTGTTTTTGTTTTTCGTA

                               *
       8556 TTTTGTTTTTGTTTTT-GTT
          1 TTTTGTTTTTGTTTTTCGTA

                          
       8575 TTTGTGTTTTTGTT
          1 TTT-TGTTTTTGTT

       8589 AATTTTGCAG


Statistics
Matches: 30,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  19    5  0.17
  20   25  0.83

ACGTcount: A:0.04, C:0.02, G:0.15, T:0.79


Consensus pattern (20 bp):   
TTTTGTTTTTGTTTTTCGTA

Found at i:8588 original size:6 final size:6

Alignment explanation


    Indices: 8531--8584  Score: 63
    Period size: 6  Copynumber: 8.5  Consensus size: 6

       8521 GTTACTTTCC

                *            *                                        
       8531 TTTGGT TTTGTT TTTATT TTTCGTAT TTTGTT TTTGTT TTTGTT TTTGTGT
          1 TTTGTT TTTGTT TTTGTT TTT-GT-T TTTGTT TTTGTT TTTGTT TTTGT-T

               
       8582 TTT
          1 TTT

       8585 TGTTAATTTT


Statistics
Matches: 42,  Mismatches: 3, Indels: 5
        0.84            0.06        0.10

Matches are distributed among these distances:
   6   31  0.74
   7    7  0.17
   8    4  0.10

ACGTcount: A:0.04, C:0.02, G:0.17, T:0.78


Consensus pattern (6 bp):   
TTTGTT
Done.