Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010195.1 Corchorus capsularis cultivar CVL-1 contig10216, 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, 709

Length: 1183
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36


Found at i:615 original size:24 final size:27

Alignment explanation


    Indices: 588--640  Score: 67
    Period size: 26  Copynumber: 2.1  Consensus size: 27

        578 TTCTAGTGAT

                                 *     
        588 GAGAAT-AAG-GAAGGAAAA-GAGGAG
          1 GAGAATCAAGAGAAGGAAAATAAGGAG

                   *                   
        612 GAGAATCGAGAGAAGGAAAATAAGGAG
          1 GAGAATCAAGAGAAGGAAAATAAGGAG

              
        639 GA
          1 GA

        641 ATTTCATCCT


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  24    6  0.25
  25    2  0.08
  26    9  0.38
  27    7  0.29

ACGTcount: A:0.53, C:0.02, G:0.40, T:0.06


Consensus pattern (27 bp):   
GAGAATCAAGAGAAGGAAAATAAGGAG

Found at i:874 original size:13 final size:13

Alignment explanation


    Indices: 828--878  Score: 50
    Period size: 13  Copynumber: 3.8  Consensus size: 13

        818 TAGGTTTAGT

                  *      
        828 TCTTTAGTTTATG
          1 TCTTTATTTTATG

                           *
        841 -CTTTATCTTTAATTT
          1 TCTTTAT-TTT-A-TG

                         
        856 TCTTTATTTTATG
          1 TCTTTATTTTATG

                      
        869 TCTTTATTTT
          1 TCTTTATTTT

        879 TCAAGTTTCA


Statistics
Matches: 31,  Mismatches: 3, Indels: 8
        0.74            0.07        0.19

Matches are distributed among these distances:
  12    5  0.16
  13   14  0.45
  14    2  0.06
  15    4  0.13
  16    6  0.19

ACGTcount: A:0.16, C:0.10, G:0.06, T:0.69


Consensus pattern (13 bp):   
TCTTTATTTTATG
Done.