Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017029.1 Corchorus olitorius cultivar O-4 contig17062, 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: 2251
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35


Found at i:793 original size:15 final size:15

Alignment explanation


    Indices: 763--804  Score: 75
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        753 TTAATTTACT

                            
        763 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
        779 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

                       
        794 TTGTTTTCTGT
          1 TTGTTTTCTGT

        805 CAATCTCTGT


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  15   17  0.65
  16    9  0.35

ACGTcount: A:0.12, C:0.07, G:0.14, T:0.67


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:1328 original size:255 final size:252

Alignment explanation


    Indices: 877--1383  Score: 897
    Period size: 255  Copynumber: 2.0  Consensus size: 252

        867 ATCACCCTTC

                                              *                              
        877 TCTGTGGGATCGACCCCTACTTGCCCTATCTACTTAGTTAGGAGTTTGCTGGGATTTTATTTTTA
          1 TCTGTGGGATCGACCCCTACTTGCCCTATCTACTCAGTTAGGAGTTTGCTGGGATTTTATTTTTA

                                                     *                       
        942 TGATTATTGACGACCAATCATAAATTTTGGCGCCGTTGCCGGGGAAGGGAACTTTTTCTGGTTTT
         66 TGATTATTGACGACCAATCATAAATTTTGGCGCCGTTGCCGAGGAAGGGAACTTTTTCTGGTTTT

                                                                             
       1007 TGCCAGGGGAAGGAAAATAGACTAATCTGAAGACAAATCCTGAGAATTTTCTCTTTGTGTCTTAG
        131 TGCCAGGGGAAGGAAAATAGACTAATCTGAAGACAAATCCTGAGAATTTTCTCTTTGTGTCTTAG

                                          *                             
       1072 TCTCTGCGTTTTCTCTAAAAAAAAAAAATTTCGTTTTTGAGTCTGCGTTTTTAATCTAAA
        196 TCTCTGCGTTTTCTCT---AAAAAAAAATTCCGTTTTTGAGTCTGCGTTTTTAATCTAAA

                                                            *                
       1132 TCTGTGGGATCGACCCCTACTTGCCCTATCTACTCAGTTAGGAGTTTGTTGGGATTTTATTTTTA
          1 TCTGTGGGATCGACCCCTACTTGCCCTATCTACTCAGTTAGGAGTTTGCTGGGATTTTATTTTTA

                 *         *                *                                
       1197 TGATTGTTGACGACCGATCATAAATTTTGGCGTCGTTGCCGAGGAAGGGAACTTTTTCTGGTTTT
         66 TGATTATTGACGACCAATCATAAATTTTGGCGCCGTTGCCGAGGAAGGGAACTTTTTCTGGTTTT

               *  *                           *                              
       1262 TGCTAGTGGAAGGAAAATAGACTAATCTGAAGACGAATCCTGAGAATTTTCTCTTTGTGTCTTAG
        131 TGCCAGGGGAAGGAAAATAGACTAATCTGAAGACAAATCCTGAGAATTTTCTCTTTGTGTCTTAG

                                                                     
       1327 TCTCTGCGTTTTCTCTAAAAAAAAATTCCGTTTTTGAGTCTGCGTTTTTAATCTAAA
        196 TCTCTGCGTTTTCTCTAAAAAAAAATTCCGTTTTTGAGTCTGCGTTTTTAATCTAAA

       1384 AAAAATAAAA


Statistics
Matches: 242,  Mismatches: 10, Indels: 3
        0.95            0.04        0.01

Matches are distributed among these distances:
 252   40  0.17
 255  202  0.83

ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38


Consensus pattern (252 bp):   
TCTGTGGGATCGACCCCTACTTGCCCTATCTACTCAGTTAGGAGTTTGCTGGGATTTTATTTTTA
TGATTATTGACGACCAATCATAAATTTTGGCGCCGTTGCCGAGGAAGGGAACTTTTTCTGGTTTT
TGCCAGGGGAAGGAAAATAGACTAATCTGAAGACAAATCCTGAGAATTTTCTCTTTGTGTCTTAG
TCTCTGCGTTTTCTCTAAAAAAAAATTCCGTTTTTGAGTCTGCGTTTTTAATCTAAA
Done.