Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000442.1 Corchorus capsularis cultivar CVL-1 contig00442, 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: 1680
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37


Found at i:988 original size:31 final size:32

Alignment explanation


    Indices: 953--1020  Score: 102
    Period size: 31  Copynumber: 2.2  Consensus size: 32

        943 ATGTTTTCCG

                    *                     * 
        953 ATTGTACCCTTATTTTTAAAACATATTT-TCA
          1 ATTGTACCATTATTTTTAAAACATATTTCTAA

                       *                    
        984 ATTGTACCATTTTTTTTAAAACATATTTCTAA
          1 ATTGTACCATTATTTTTAAAACATATTTCTAA

                 
       1016 ATTGT
          1 ATTGT

       1021 CAGTACTAAA


Statistics
Matches: 33,  Mismatches: 3, Indels: 1
        0.89            0.08        0.03

Matches are distributed among these distances:
  31   26  0.79
  32    7  0.21

ACGTcount: A:0.32, C:0.13, G:0.04, T:0.50


Consensus pattern (32 bp):   
ATTGTACCATTATTTTTAAAACATATTTCTAA

Found at i:1356 original size:19 final size:21

Alignment explanation


    Indices: 1324--1366  Score: 56
    Period size: 19  Copynumber: 2.1  Consensus size: 21

       1314 TTCTTTACTA

                                  
       1324 TTACTTTTTGAATTT-AATATT
          1 TTACTTTTTGAATTTCAAT-TT

                                 
       1345 TTAC-TTTT-AATTTCAATTT
          1 TTACTTTTTGAATTTCAATTT

               
       1364 TTA
          1 TTA

       1367 AATGTCAATA


Statistics
Matches: 21,  Mismatches: 0, Indels: 4
        0.84            0.00        0.16

Matches are distributed among these distances:
  19   10  0.48
  20    7  0.33
  21    4  0.19

ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63


Consensus pattern (21 bp):   
TTACTTTTTGAATTTCAATTT
Done.