Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012233.1 Corchorus olitorius cultivar O-4 contig12266, 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: 4987
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30


Found at i:4076 original size:3 final size:3

Alignment explanation


    Indices: 4058--4093  Score: 56
    Period size: 3  Copynumber: 12.0  Consensus size: 3

       4048 TTATTCCAAA

                                                            
       4058 ATT ATTT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT
          1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT

       4094 TTCCTCCTAA


Statistics
Matches: 31,  Mismatches: 0, Indels: 4
        0.89            0.00        0.11

Matches are distributed among these distances:
   2    2  0.06
   3   26  0.84
   4    3  0.10

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (3 bp):   
ATT

Found at i:4121 original size:26 final size:27

Alignment explanation


    Indices: 4092--4155  Score: 67
    Period size: 26  Copynumber: 2.4  Consensus size: 27

       4082 ATTATTATTA

                                       
       4092 TTTTCCTCCTAATTCTCTT-ATTTTCC
          1 TTTTCCTCCTAATTCTCTTCATTTTCC

                 *    **    *   *      
       4118 TTTTCTTCCTTTTTCTTTTCTTTTTCC
          1 TTTTCCTCCTAATTCTCTTCATTTTCC

                       
       4145 TTCTTCCTCCT
          1 TT-TTCCTCCT

       4156 TATATTATAA


Statistics
Matches: 30,  Mismatches: 6, Indels: 2
        0.79            0.16        0.05

Matches are distributed among these distances:
  26   15  0.50
  27    8  0.27
  28    7  0.23

ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64


Consensus pattern (27 bp):   
TTTTCCTCCTAATTCTCTTCATTTTCC

Found at i:4277 original size:11 final size:11

Alignment explanation


    Indices: 4261--4287  Score: 54
    Period size: 11  Copynumber: 2.5  Consensus size: 11

       4251 TTGGCTAGGC

                       
       4261 CCAAAACCTAG
          1 CCAAAACCTAG

                       
       4272 CCAAAACCTAG
          1 CCAAAACCTAG

                 
       4283 CCAAA
          1 CCAAA

       4288 CCCGCTGGGC


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

Matches are distributed among these distances:
  11   16  1.00

ACGTcount: A:0.48, C:0.37, G:0.07, T:0.07


Consensus pattern (11 bp):   
CCAAAACCTAG
Done.