Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008939.1 Corchorus capsularis cultivar CVL-1 contig08960, 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: 5954
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:4428 original size:24 final size:27

Alignment explanation


    Indices: 4401--4453  Score: 67
    Period size: 26  Copynumber: 2.1  Consensus size: 27

       4391 TTCTAGTGAT

                                 *     
       4401 GAGAAT-AAG-GAAGGAAAA-GAGGAG
          1 GAGAATCAAGAGAAGGAAAATAAGGAG

                    *                  
       4425 GAGAATCACGAGAAGGAAAATAAGGAG
          1 GAGAATCAAGAGAAGGAAAATAAGGAG

              
       4452 GA
          1 GA

       4454 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:0.04, G:0.38, T:0.06


Consensus pattern (27 bp):   
GAGAATCAAGAGAAGGAAAATAAGGAG

Found at i:5862 original size:19 final size:18

Alignment explanation


    Indices: 5838--5873  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       5828 TGAAGATTTC

                               
       5838 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
       5857 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

       5874 ATTATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAT
Done.