Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022567.1 Corchorus olitorius cultivar O-4 contig22600, 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: 3799
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35


Found at i:1011 original size:50 final size:50

Alignment explanation


    Indices: 942--1182  Score: 376
    Period size: 50  Copynumber: 4.8  Consensus size: 50

        932 TAAAGAGTCA

                *                                  *          
        942 TCTTTCGCTTATCCTTTGAACTGTCTTCCAATTCAATCTCAAAAGGACTG
          1 TCTTCCGCTTATCCTTTGAACTGTCTTCCAATTCAATCTTAAAAGGACTG

                  *                                        *   
        992 TCTTCCCCTTATCCTTTGAACTGTCTTCCAATTCAATCTTAAAA-GAATCG
          1 TCTTCCGCTTATCCTTTGAACTGTCTTCCAATTCAATCTTAAAAGGACT-G

                                      *                     *  
       1042 TCTTCCGCTTATCCTTTGAACTGTCTACCAATTCAATCTTAAAAAGGATTG
          1 TCTTCCGCTTATCCTTTGAACTGTCTTCCAATTCAATCTT-AAAAGGACTG

                                                            * 
       1093 TCTTCCGCTTATCCTTTGAACTGTCTTCCAATTCAATCTTAAAAGGACCG
          1 TCTTCCGCTTATCCTTTGAACTGTCTTCCAATTCAATCTTAAAAGGACTG

                                      *        *    
       1143 TCTTCCGCTTATCCTTTGAACTGTCTACCAATTCACTCTT
          1 TCTTCCGCTTATCCTTTGAACTGTCTTCCAATTCAATCTT

       1183 CTGTATATCT


Statistics
Matches: 176,  Mismatches: 12, Indels: 6
        0.91            0.06        0.03

Matches are distributed among these distances:
  49    3  0.02
  50  126  0.72
  51   44  0.25
  52    3  0.02

ACGTcount: A:0.24, C:0.27, G:0.10, T:0.38


Consensus pattern (50 bp):   
TCTTCCGCTTATCCTTTGAACTGTCTTCCAATTCAATCTTAAAAGGACTG

Found at i:1122 original size:101 final size:101

Alignment explanation


    Indices: 908--1182  Score: 403
    Period size: 101  Copynumber: 2.7  Consensus size: 101

        898 ATCAATTTCC

                  *  *             *        *  *    *                     *  
        908 TTGAACCGTATTCCAA-TCTAATATT-AAAGAGTCATCTTTCGCTTATCCTTTGAACTGTCTTCC
          1 TTGAACTGTCTTCCAATTC-AATCTTAAAAGAATCGTCTTCCGCTTATCCTTTGAACTGTCTACC

                       *                         
        971 AATTCAATC-TCAAAAGGACTGTCTTCCCCTTATCCT
         65 AATTCAATCTTAAAAAGGACTGTCTTCCCCTTATCCT

                                                                             
       1007 TTGAACTGTCTTCCAATTCAATCTTAAAAGAATCGTCTTCCGCTTATCCTTTGAACTGTCTACCA
          1 TTGAACTGTCTTCCAATTCAATCTTAAAAGAATCGTCTTCCGCTTATCCTTTGAACTGTCTACCA

                              *        *        
       1072 ATTCAATCTTAAAAAGGATTGTCTTCCGCTTATCCT
         66 ATTCAATCTTAAAAAGGACTGTCTTCCCCTTATCCT

                                          * *                                
       1108 TTGAACTGTCTTCCAATTCAATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAACTGTCTACCA
          1 TTGAACTGTCTTCCAATTCAATCTTAAAAGAATCGTCTTCCGCTTATCCTTTGAACTGTCTACCA

                 *    
       1173 ATTCACTCTT
         66 ATTCAATCTT

       1183 CTGTATATCT


Statistics
Matches: 160,  Mismatches: 13, Indels: 4
        0.90            0.07        0.02

Matches are distributed among these distances:
  99   19  0.12
 100   45  0.28
 101   96  0.60

ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37


Consensus pattern (101 bp):   
TTGAACTGTCTTCCAATTCAATCTTAAAAGAATCGTCTTCCGCTTATCCTTTGAACTGTCTACCA
ATTCAATCTTAAAAAGGACTGTCTTCCCCTTATCCT
Done.