Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004191.1 Corchorus capsularis cultivar CVL-1 contig04199, 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, 640

Length: 1068
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35


Found at i:399 original size:26 final size:26

Alignment explanation


    Indices: 370--421  Score: 104
    Period size: 26  Copynumber: 2.0  Consensus size: 26

        360 TGTCTTTATT

                                      
        370 TTATCTCTTTATTCAGAGTCAAAGAC
          1 TTATCTCTTTATTCAGAGTCAAAGAC

                                      
        396 TTATCTCTTTATTCAGAGTCAAAGAC
          1 TTATCTCTTTATTCAGAGTCAAAGAC

        422 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:716 original size:13 final size:14

Alignment explanation


    Indices: 698--734  Score: 58
    Period size: 15  Copynumber: 2.6  Consensus size: 14

        688 CAACTCTTTT

                          
        698 TTTTTG-AATATCG
          1 TTTTTGTAATATCG

                           
        711 TTTTTGTTAATATCG
          1 TTTTTG-TAATATCG

                     
        726 TTTTTGTAA
          1 TTTTTGTAA

        735 ATTCGTCTCT


Statistics
Matches: 22,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  13    6  0.27
  14    3  0.14
  15   13  0.59

ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59


Consensus pattern (14 bp):   
TTTTTGTAATATCG

Found at i:740 original size:14 final size:15

Alignment explanation


    Indices: 704--740  Score: 58
    Period size: 15  Copynumber: 2.5  Consensus size: 15

        694 TTTTTTTTTG

                          *
        704 AATATCGTTTTTGTT
          1 AATATCGTTTTTGTA

                           
        719 AATATCGTTTTTGTA
          1 AATATCGTTTTTGTA

                    
        734 AAT-TCGT
          1 AATATCGT

        741 CTCTTCCTTA


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  14    4  0.19
  15   17  0.81

ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54


Consensus pattern (15 bp):   
AATATCGTTTTTGTA
Done.