Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014409.1 Corchorus capsularis cultivar CVL-1 contig14430, 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: 29282
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:2984 original size:2 final size:2

Alignment explanation


    Indices: 2977--3005  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

       2967 CAAGATCTTG

                                                       
       2977 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       3006 TAATAATCAG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:17451 original size:27 final size:29

Alignment explanation


    Indices: 17396--17456  Score: 108
    Period size: 27  Copynumber: 2.2  Consensus size: 29

      17386 TGCGCTCTTC

                                         
      17396 CATTAGTTATATGCAACACTCAAGGATAA
          1 CATTAGTTATATGCAACACTCAAGGATAA

                                         
      17425 CATTAGTTATATGC-A-ACTCAAGGATAA
          1 CATTAGTTATATGCAACACTCAAGGATAA

                 
      17452 CATTA
          1 CATTA

      17457 ATCTTTTTTT


Statistics
Matches: 32,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
  27   17  0.53
  28    1  0.03
  29   14  0.44

ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30


Consensus pattern (29 bp):   
CATTAGTTATATGCAACACTCAAGGATAA

Found at i:25121 original size:10 final size:10

Alignment explanation


    Indices: 25106--25135  Score: 60
    Period size: 10  Copynumber: 3.0  Consensus size: 10

      25096 AACTAAATAT

                      
      25106 GCAATTTAAA
          1 GCAATTTAAA

                      
      25116 GCAATTTAAA
          1 GCAATTTAAA

                      
      25126 GCAATTTAAA
          1 GCAATTTAAA

      25136 ACAAAATCCT


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   20  1.00

ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30


Consensus pattern (10 bp):   
GCAATTTAAA

Found at i:27202 original size:2 final size:2

Alignment explanation


    Indices: 27195--27223  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

      27185 TAAGAATACT

                                                       
      27195 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
          1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A

      27224 GAGAGAGAGA


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00


Consensus pattern (2 bp):   
AC

Done.