Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01003039.1 Corchorus olitorius cultivar O-4 contig03044, 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, 811

Length: 1352
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33


Found at i:955 original size:16 final size:16

Alignment explanation


    Indices: 934--965  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

        924 AAAAAAAAAA

                            
        934 TACATTTCTAGCTAAT
          1 TACATTTCTAGCTAAT

                            
        950 TACATTTCTAGCTAAT
          1 TACATTTCTAGCTAAT

        966 ATAGAATATA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44


Consensus pattern (16 bp):   
TACATTTCTAGCTAAT

Found at i:1133 original size:14 final size:13

Alignment explanation


    Indices: 1105--1129  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       1095 AAAGTGATAC

                         
       1105 AATACAAAAATAG
          1 AATACAAAAATAG

                        
       1118 AATACAAAAATA
          1 AATACAAAAATA

       1130 AGAACCGAGT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16


Consensus pattern (13 bp):   
AATACAAAAATAG

Found at i:1187 original size:17 final size:17

Alignment explanation


    Indices: 1153--1187  Score: 61
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       1143 TTGTTTTTGT

                         *   
       1153 AGTCTATCTAAAAGAAA
          1 AGTCTATCTAAAAAAAA

                             
       1170 AGTCTATCTAAAAAAAA
          1 AGTCTATCTAAAAAAAA

             
       1187 A
          1 A

       1188 TAGGAGATCA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   17  1.00

ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23


Consensus pattern (17 bp):   
AGTCTATCTAAAAAAAA
Done.