Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022797.1 Corchorus olitorius cultivar O-4 contig22830, 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: 5067
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29


Found at i:1132 original size:27 final size:27

Alignment explanation


    Indices: 1092--1160  Score: 129
    Period size: 27  Copynumber: 2.6  Consensus size: 27

       1082 TGAGATAAAT

                                       
       1092 TGGATCCTGATGGTCGGGATGCCAAGG
          1 TGGATCCTGATGGTCGGGATGCCAAGG

             *                         
       1119 TTGATCCTGATGGTCGGGATGCCAAGG
          1 TGGATCCTGATGGTCGGGATGCCAAGG

                           
       1146 TGGATCCTGATGGTC
          1 TGGATCCTGATGGTC

       1161 ATGAGCCGAA


Statistics
Matches: 40,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  27   40  1.00

ACGTcount: A:0.17, C:0.19, G:0.38, T:0.26


Consensus pattern (27 bp):   
TGGATCCTGATGGTCGGGATGCCAAGG

Found at i:1178 original size:27 final size:27

Alignment explanation


    Indices: 1148--1220  Score: 119
    Period size: 27  Copynumber: 2.7  Consensus size: 27

       1138 TGCCAAGGTG

                 *                     
       1148 GATCCTGATGGTCATGAGCCGAAATAA
          1 GATCCCGATGGTCATGAGCCGAAATAA

                                     * 
       1175 GATCCCGATGGTCATGAGCCGAAATTA
          1 GATCCCGATGGTCATGAGCCGAAATAA

                    *          
       1202 GATCCCGACGGTCATGAGC
          1 GATCCCGATGGTCATGAGC

       1221 AATTTGGATC


Statistics
Matches: 43,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  27   43  1.00

ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21


Consensus pattern (27 bp):   
GATCCCGATGGTCATGAGCCGAAATAA

Found at i:1380 original size:15 final size:15

Alignment explanation


    Indices: 1360--1402  Score: 86
    Period size: 15  Copynumber: 2.9  Consensus size: 15

       1350 AAAGAAATAG

                           
       1360 CACACCATCAGGACA
          1 CACACCATCAGGACA

                           
       1375 CACACCATCAGGACA
          1 CACACCATCAGGACA

                         
       1390 CACACCATCAGGA
          1 CACACCATCAGGA

       1403 TAACTTATAT


Statistics
Matches: 28,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   28  1.00

ACGTcount: A:0.40, C:0.40, G:0.14, T:0.07


Consensus pattern (15 bp):   
CACACCATCAGGACA
Done.