Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014867.1 Corchorus olitorius cultivar O-4 contig14900, 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: 6868
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30


Found at i:826 original size:37 final size:37

Alignment explanation


    Indices: 785--859  Score: 150
    Period size: 37  Copynumber: 2.0  Consensus size: 37

        775 CATTGTCCTC

                                                 
        785 AATGTGGAAACACATAAGAAATTAACACAAACAATTG
          1 AATGTGGAAACACATAAGAAATTAACACAAACAATTG

                                                 
        822 AATGTGGAAACACATAAGAAATTAACACAAACAATTG
          1 AATGTGGAAACACATAAGAAATTAACACAAACAATTG

             
        859 A
          1 A

        860 TATTATGCAT


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  37   38  1.00

ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19


Consensus pattern (37 bp):   
AATGTGGAAACACATAAGAAATTAACACAAACAATTG

Found at i:1287 original size:21 final size:21

Alignment explanation


    Indices: 1261--1320  Score: 75
    Period size: 21  Copynumber: 2.8  Consensus size: 21

       1251 GGAATGATGA

                                 
       1261 TGGCACGGGCATGGCCGGTGG
          1 TGGCACGGGCATGGCCGGTGG

                      * **       
       1282 TGGCACGGGCTTAACCGGTGG
          1 TGGCACGGGCATGGCCGGTGG

                      *       
       1303 TGGCACGGTGAATGGCCG
          1 TGGCACGG-GCATGGCCG

       1321 ATAATGGCTT


Statistics
Matches: 31,  Mismatches: 7, Indels: 1
        0.79            0.18        0.03

Matches are distributed among these distances:
  21   26  0.84
  22    5  0.16

ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17


Consensus pattern (21 bp):   
TGGCACGGGCATGGCCGGTGG

Found at i:5004 original size:22 final size:22

Alignment explanation


    Indices: 4974--5018  Score: 72
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       4964 GCCGGGTATA

                                  
       4974 GTGCACGGGTAGCCAGGCCATG
          1 GTGCACGGGTAGCCAGGCCATG

                *        *        
       4996 GTGCGCGGGTAGCTAGGCCATG
          1 GTGCACGGGTAGCCAGGCCATG

             
       5018 G
          1 G

       5019 CCAGCCTAGC


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  22   21  1.00

ACGTcount: A:0.16, C:0.24, G:0.44, T:0.16


Consensus pattern (22 bp):   
GTGCACGGGTAGCCAGGCCATG
Done.