Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001492.1 Corchorus capsularis cultivar CVL-1 contig01492, 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: 5526
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34


Found at i:2218 original size:2 final size:2

Alignment explanation


    Indices: 2211--2239  Score: 51
    Period size: 2  Copynumber: 15.0  Consensus size: 2

       2201 CCTGATTTAC

                                                        
       2211 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       2240 CTATTAATAG


Statistics
Matches: 26,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   1    1  0.04
   2   25  0.96

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


Consensus pattern (2 bp):   
TA

Found at i:3107 original size:7 final size:7

Alignment explanation


    Indices: 3095--3121  Score: 54
    Period size: 7  Copynumber: 3.9  Consensus size: 7

       3085 TAGGATGTTG

                   
       3095 CTTCTTT
          1 CTTCTTT

                   
       3102 CTTCTTT
          1 CTTCTTT

                   
       3109 CTTCTTT
          1 CTTCTTT

                  
       3116 CTTCTT
          1 CTTCTT

       3122 CTTTAGCATT


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

Matches are distributed among these distances:
   7   20  1.00

ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70


Consensus pattern (7 bp):   
CTTCTTT

Found at i:5395 original size:15 final size:16

Alignment explanation


    Indices: 5359--5388  Score: 53
    Period size: 15  Copynumber: 1.9  Consensus size: 16

       5349 TATGTTATTA

                            
       5359 ATATATAATAATATAT
          1 ATATATAATAATATAT

                           
       5375 ATATAT-ATAATATA
          1 ATATATAATAATATA

       5389 GTTATATTTC


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    8  0.57
  16    6  0.43

ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43


Consensus pattern (16 bp):   
ATATATAATAATATAT
Done.