Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002054.1 Corchorus capsularis cultivar CVL-1 contig02058, 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, 872

Length: 1454
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35


Found at i:983 original size:26 final size:26

Alignment explanation


    Indices: 954--1005  Score: 104
    Period size: 26  Copynumber: 2.0  Consensus size: 26

        944 TGTCTTTATT

                                      
        954 TTATCTCTTTATTCAGAGTCAAAGAC
          1 TTATCTCTTTATTCAGAGTCAAAGAC

                                      
        980 TTATCTCTTTATTCAGAGTCAAAGAC
          1 TTATCTCTTTATTCAGAGTCAAAGAC

       1006 GAAACAAAAG


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  26   26  1.00

ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38


Consensus pattern (26 bp):   
TTATCTCTTTATTCAGAGTCAAAGAC

Found at i:1310 original size:15 final size:14

Alignment explanation


    Indices: 1276--1315  Score: 55
    Period size: 14  Copynumber: 2.9  Consensus size: 14

       1266 AAACAACTCT

                 *        
       1276 TTTTTTTTAAATCG
          1 TTTTTGTTAAATCG

                           
       1290 TTTTTGTTAATATCG
          1 TTTTTGTTAA-ATCG

                        
       1305 TTTTTG-TAAAT
          1 TTTTTGTTAAAT

       1316 TCGTCTCTTC


Statistics
Matches: 24,  Mismatches: 1, Indels: 3
        0.86            0.04        0.11

Matches are distributed among these distances:
  13    2  0.08
  14   12  0.50
  15   10  0.42

ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62


Consensus pattern (14 bp):   
TTTTTGTTAAATCG

Found at i:1319 original size:14 final size:14

Alignment explanation


    Indices: 1277--1319  Score: 52
    Period size: 15  Copynumber: 3.1  Consensus size: 14

       1267 AACAACTCTT

                 *        
       1277 TTTTTTTAAA-TCG
          1 TTTTTGTAAATTCG

                   *       
       1290 TTTTTGTTAATATCG
          1 TTTTTGTAAAT-TCG

                          
       1305 TTTTTGTAAATTCG
          1 TTTTTGTAAATTCG

             
       1319 T
          1 T

       1320 CTCTTCCTTA


Statistics
Matches: 25,  Mismatches: 3, Indels: 3
        0.81            0.10        0.10

Matches are distributed among these distances:
  13    8  0.32
  14    4  0.16
  15   13  0.52

ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60


Consensus pattern (14 bp):   
TTTTTGTAAATTCG
Done.