Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008766.1 Corchorus capsularis cultivar CVL-1 contig08787, 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: 27581
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31


Found at i:1571 original size:6 final size:6

Alignment explanation


    Indices: 1560--1591  Score: 57
    Period size: 6  Copynumber: 5.5  Consensus size: 6

       1550 ATTAATTTGC

                                                  
       1560 TTTAGA TTTAGA TTTAGA TTTAGA TTTA-A TTT
          1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTT

       1592 GCTTTGTTTT


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
   5    4  0.15
   6   22  0.85

ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56


Consensus pattern (6 bp):   
TTTAGA

Found at i:6282 original size:145 final size:145

Alignment explanation


    Indices: 6075--6366  Score: 584
    Period size: 145  Copynumber: 2.0  Consensus size: 145

       6065 AAGTGTGGGG

                                                                             
       6075 GAGTGAGTCTAATTGCATGTTAAATTGGCATAATTTTTTCGAAAATTTTGACAAAATTTTGATTT
          1 GAGTGAGTCTAATTGCATGTTAAATTGGCATAATTTTTTCGAAAATTTTGACAAAATTTTGATTT

                                                                             
       6140 CATATGCTTGTATTGAGTTATTGATTTGATTTTTGATTGATGATATCTTAGAATTTTTAAGAATG
         66 CATATGCTTGTATTGAGTTATTGATTTGATTTTTGATTGATGATATCTTAGAATTTTTAAGAATG

                           
       6205 TTTGATTCATTGATT
        131 TTTGATTCATTGATT

                                                                             
       6220 GAGTGAGTCTAATTGCATGTTAAATTGGCATAATTTTTTCGAAAATTTTGACAAAATTTTGATTT
          1 GAGTGAGTCTAATTGCATGTTAAATTGGCATAATTTTTTCGAAAATTTTGACAAAATTTTGATTT

                                                                             
       6285 CATATGCTTGTATTGAGTTATTGATTTGATTTTTGATTGATGATATCTTAGAATTTTTAAGAATG
         66 CATATGCTTGTATTGAGTTATTGATTTGATTTTTGATTGATGATATCTTAGAATTTTTAAGAATG

                           
       6350 TTTGATTCATTGATT
        131 TTTGATTCATTGATT

              
       6365 GA
          1 GA

       6367 TTTATAGTAT


Statistics
Matches: 147,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
 145  147  1.00

ACGTcount: A:0.29, C:0.06, G:0.17, T:0.47


Consensus pattern (145 bp):   
GAGTGAGTCTAATTGCATGTTAAATTGGCATAATTTTTTCGAAAATTTTGACAAAATTTTGATTT
CATATGCTTGTATTGAGTTATTGATTTGATTTTTGATTGATGATATCTTAGAATTTTTAAGAATG
TTTGATTCATTGATT
Done.