Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013660.1 Corchorus capsularis cultivar CVL-1 contig13681, 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: 10371
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33


Found at i:687 original size:2 final size:2

Alignment explanation


    Indices: 680--705  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

        670 AGGCAAAATC

                                                  
        680 TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA

        706 CACTTTCACT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:1231 original size:83 final size:82

Alignment explanation


    Indices: 1121--1289  Score: 311
    Period size: 83  Copynumber: 2.0  Consensus size: 82

       1111 TGTAATCGGA

                          *                                                  
       1121 ACCTATACTTAAAGTTTAAGGTTAGGTTCCAATATCTTTAGAACCATAACTGCCAATTTGGAGCC
          1 ACCTATACTTAAAGGTTAAGGTTAGGTTCCAATATCTTTAGAACCATAACTGCCAATTTGGAGCC

                             
       1186 AAAACCGAACTGTCGTC
         66 AAAACCGAACTGTCGTC

                                                                             
       1203 ACCTATACTTAAAAGGTTAAGGTTAGGTTCCAATATCTTTAGAACCATAACTGCCAATTTGGAGC
          1 ACCTATACTT-AAAGGTTAAGGTTAGGTTCCAATATCTTTAGAACCATAACTGCCAATTTGGAGC

                          *   
       1268 CAAAACCGAACTGTGGTC
         65 CAAAACCGAACTGTCGTC

                
       1286 ACCT
          1 ACCT

       1290 TTACGTTTCC


Statistics
Matches: 84,  Mismatches: 2, Indels: 1
        0.97            0.02        0.01

Matches are distributed among these distances:
  82   10  0.12
  83   74  0.88

ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28


Consensus pattern (82 bp):   
ACCTATACTTAAAGGTTAAGGTTAGGTTCCAATATCTTTAGAACCATAACTGCCAATTTGGAGCC
AAAACCGAACTGTCGTC

Found at i:3293 original size:2 final size:2

Alignment explanation


    Indices: 3286--3312  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       3276 CTCGATACAA

                                                    
       3286 AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT A

       3313 CATACATAAT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

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


Consensus pattern (2 bp):   
AT

Done.