Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009501.1 Corchorus capsularis cultivar CVL-1 contig09522, 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: 4651
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31


Found at i:3005 original size:9 final size:9

Alignment explanation


    Indices: 2978--3011  Score: 50
    Period size: 10  Copynumber: 3.6  Consensus size: 9

       2968 TGGTTGAAAA

                     
       2978 TTTTTTTAT
          1 TTTTTTTAT

                      
       2987 TTTATTTTAT
          1 TTT-TTTTAT

                     
       2997 TTTTTTTAT
          1 TTTTTTTAT

                  
       3006 ATTTTT
          1 -TTTTT

       3012 CGATATAACT


Statistics
Matches: 23,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
   9    9  0.39
  10   14  0.61

ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85


Consensus pattern (9 bp):   
TTTTTTTAT

Found at i:4152 original size:33 final size:33

Alignment explanation


    Indices: 4088--4194  Score: 110
    Period size: 33  Copynumber: 3.2  Consensus size: 33

       4078 CGCCAAGCGA

                                  *           
       4088 TGGCCGGT-TGTGGCCGGACATGTCCATGTCGCG
          1 TGGCCGGTGT-TGGCCGGACATCTCCATGTCGCG

               *             *                
       4121 TGGTCGGTGTTGGCCGGGCATCTCCGA-GTCGCG
          1 TGGCCGGTGTTGGCCGGACATCTCC-ATGTCGCG

                             * *      *  *  *
       4154 TGGCCGGTGTTGGCCGGTCTTCTCCAAGTTGCA
          1 TGGCCGGTGTTGGCCGGACATCTCCATGTCGCG

                    
       4187 TGGCCGGT
          1 TGGCCGGT

       4195 CACTCGCACC


Statistics
Matches: 63,  Mismatches: 8, Indels: 6
        0.82            0.10        0.08

Matches are distributed among these distances:
  32    1  0.02
  33   60  0.95
  34    2  0.03

ACGTcount: A:0.07, C:0.27, G:0.39, T:0.26


Consensus pattern (33 bp):   
TGGCCGGTGTTGGCCGGACATCTCCATGTCGCG
Done.