Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000354.1 Corchorus capsularis cultivar CVL-1 contig00354, 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, 828

Length: 1381
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:741 original size:27 final size:27

Alignment explanation


    Indices: 711--779  Score: 111
    Period size: 27  Copynumber: 2.6  Consensus size: 27

        701 ACTCAAGGGT

                                       
        711 ATTTTGGTCATTTTTGCACCCAGGGGC
          1 ATTTTGGTCATTTTTGCACCCAGGGGC

                            *  *       
        738 ATTTTGGTCATTTTTGTACTCAGGGGC
          1 ATTTTGGTCATTTTTGCACCCAGGGGC

                 *         
        765 ATTTTAGTCATTTTT
          1 ATTTTGGTCATTTTT

        780 AGGTGCACCT


Statistics
Matches: 39,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  27   39  1.00

ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46


Consensus pattern (27 bp):   
ATTTTGGTCATTTTTGCACCCAGGGGC

Found at i:1253 original size:16 final size:15

Alignment explanation


    Indices: 1234--1263  Score: 51
    Period size: 16  Copynumber: 1.9  Consensus size: 15

       1224 CAAAAAAAGT

                            
       1234 AATAATAACAAAATAA
          1 AATAATAA-AAAATAA

                          
       1250 AATAATAAAAAATA
          1 AATAATAAAAAATA

       1264 GCAAAAAATA


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

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

ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20


Consensus pattern (15 bp):   
AATAATAAAAAATAA

Found at i:1255 original size:19 final size:19

Alignment explanation


    Indices: 1219--1257  Score: 53
    Period size: 19  Copynumber: 2.1  Consensus size: 19

       1209 GTACATTCAC

                         *     
       1219 ATAAGCAAAAAAAGTAATA
          1 ATAAGCAAAAAAAATAATA

                                
       1238 ATAA-CAAAATAAAATAATA
          1 ATAAGCAAAA-AAAATAATA

             
       1257 A
          1 A

       1258 AAAATAGCAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  18    5  0.28
  19   13  0.72

ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18


Consensus pattern (19 bp):   
ATAAGCAAAAAAAATAATA
Done.