Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003768.1 Corchorus capsularis cultivar CVL-1 contig03776, 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: 2359
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38


Found at i:1911 original size:37 final size:38

Alignment explanation


    Indices: 1829--1911  Score: 114
    Period size: 38  Copynumber: 2.2  Consensus size: 38

       1819 GTTTCCAATA

                                         *  *     
       1829 TCCTATTTAATTTTGCCTTTTGTCTTTGTTTCGAACCG
          1 TCCTATTTAATTTTGCCTTTTGTCTTTGTCTCCAACCG

             **             *                     
       1867 TTGTATTTAATTTTGCTTTTTGTCTTTGTCTCCAA-CG
          1 TCCTATTTAATTTTGCCTTTTGTCTTTGTCTCCAACCG

                    
       1904 TCCTATTT
          1 TCCTATTT

       1912 GAGTTTAGAT


Statistics
Matches: 38,  Mismatches: 7, Indels: 1
        0.83            0.15        0.02

Matches are distributed among these distances:
  37    8  0.21
  38   30  0.79

ACGTcount: A:0.13, C:0.19, G:0.12, T:0.55


Consensus pattern (38 bp):   
TCCTATTTAATTTTGCCTTTTGTCTTTGTCTCCAACCG

Found at i:2038 original size:35 final size:35

Alignment explanation


    Indices: 1999--2070  Score: 135
    Period size: 35  Copynumber: 2.1  Consensus size: 35

       1989 GTACGAACTC

                                               
       1999 AAAAATCTTAATTAGTCAATTACTAAAATACCCTT
          1 AAAAATCTTAATTAGTCAATTACTAAAATACCCTT

                                  *            
       2034 AAAAATCTTAATTAGTCAATTATTAAAATACCCTT
          1 AAAAATCTTAATTAGTCAATTACTAAAATACCCTT

              
       2069 AA
          1 AA

       2071 TATTAGTATA


Statistics
Matches: 36,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  35   36  1.00

ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35


Consensus pattern (35 bp):   
AAAAATCTTAATTAGTCAATTACTAAAATACCCTT
Done.