Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004819.1 Corchorus capsularis cultivar CVL-1 contig04837, 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: 3926
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35


Found at i:2188 original size:11 final size:11

Alignment explanation


    Indices: 2172--2214  Score: 68
    Period size: 11  Copynumber: 3.9  Consensus size: 11

       2162 TATATTATAT

                       
       2172 CTAATTAATAG
          1 CTAATTAATAG

                      *
       2183 CTAATTAATAT
          1 CTAATTAATAG

                       
       2194 CTAATTAATAG
          1 CTAATTAATAG

            *         
       2205 TTAATTAATA
          1 CTAATTAATA

       2215 ATGAATATAA


Statistics
Matches: 29,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  11   29  1.00

ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42


Consensus pattern (11 bp):   
CTAATTAATAG

Found at i:2193 original size:22 final size:22

Alignment explanation


    Indices: 2168--2214  Score: 85
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       2158 CCATTATATT

                                  
       2168 ATATCTAATTAATAGCTAATTA
          1 ATATCTAATTAATAGCTAATTA

                           *      
       2190 ATATCTAATTAATAGTTAATTA
          1 ATATCTAATTAATAGCTAATTA

               
       2212 ATA
          1 ATA

       2215 ATGAATATAA


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   24  1.00

ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43


Consensus pattern (22 bp):   
ATATCTAATTAATAGCTAATTA

Found at i:3047 original size:14 final size:14

Alignment explanation


    Indices: 3028--3054  Score: 54
    Period size: 14  Copynumber: 1.9  Consensus size: 14

       3018 CACGGAGAGT

                          
       3028 AAAAAAATAAAAAA
          1 AAAAAAATAAAAAA

                         
       3042 AAAAAAATAAAAA
          1 AAAAAAATAAAAA

       3055 GACGACCGAC


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   13  1.00

ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07


Consensus pattern (14 bp):   
AAAAAAATAAAAAA
Done.