Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007112.1 Corchorus capsularis cultivar CVL-1 contig07133, 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: 7822
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29


Found at i:3485 original size:8 final size:8

Alignment explanation


    Indices: 3457--3490  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

       3447 GAATCGGCTA

                    
       3457 TGAATTTT
          1 TGAATTTT

                    *
       3465 TGAAGTTTC
          1 TGAA-TTTT

                    
       3474 TGAATTTT
          1 TGAATTTT

                    
       3482 TGAATTTT
          1 TGAATTTT

             
       3490 T
          1 T

       3491 CAAGAAGGGT


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   8   16  0.70
   9    7  0.30

ACGTcount: A:0.24, C:0.03, G:0.15, T:0.59


Consensus pattern (8 bp):   
TGAATTTT

Found at i:4484 original size:33 final size:33

Alignment explanation


    Indices: 4447--4544  Score: 110
    Period size: 33  Copynumber: 3.0  Consensus size: 33

       4437 TGCCAAGCGA

                                  *            
       4447 TGGCCGGTTG-TGGCCGGACATGTCC-ATGTCGCG
          1 TGGCCGG-TGATGGCCGGACATCTCCGA-GTCGCG

                             *               
       4480 TGGCCGGTGATGGCCGGGCATCTCCGAGTCGCG
          1 TGGCCGGTGATGGCCGGACATCTCCGAGTCGCG

                     *       * *     *      
       4513 TGGCCGGTGTTGGCCGGGCTTCTCCAAGTCGC
          1 TGGCCGGTGATGGCCGGACATCTCCGAGTCGC

       4545 ATTACCGGTC


Statistics
Matches: 58,  Mismatches: 5, Indels: 4
        0.87            0.07        0.06

Matches are distributed among these distances:
  32    2  0.03
  33   55  0.95
  34    1  0.02

ACGTcount: A:0.08, C:0.30, G:0.40, T:0.22


Consensus pattern (33 bp):   
TGGCCGGTGATGGCCGGACATCTCCGAGTCGCG

Done.