Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006101.1 Corchorus capsularis cultivar CVL-1 contig06119, 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: 2492
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29


Found at i:1528 original size:299 final size:300

Alignment explanation


    Indices: 988--1591  Score: 982
    Period size: 299  Copynumber: 2.0  Consensus size: 300

        978 GAATGAGATG

                          * *                            *                   
        988 AGCTTGTTAGACAGTGGTATGCACAAACAAAGCTCTCATCGAATTGCAAAGCATCAACTTTGCGA
          1 AGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCATCGAATTCCAAAGCATCAACTTTGCGA

                                       *      *                              
       1053 GTTTGTATGCAACACATCGTTCTTAGCGGTTTGTTGGAGTGAGATGAACTTTTTGGACAGCCCTA
         66 GTTTGTATGCAACACATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTA

                *                                    *                       
       1118 TGCAGAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTTGAGCGGTTGTATGCAAAACATCA
        131 TGCACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTAGAGCGGTTGTATGCAAAACATCA

                                  *            *                             
       1183 TTTTTAGCGAAAGGCTCATTCCGGATGCATTTTTTTCGCAACGAGTGCTCAAATGTCGTGCGTCG
        196 TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCG

                                    *               
       1248 AAGTGCGATGAGA-TGTTCGACAGTCCTGTGCACAAACAA
        261 AAGTGCGATGAGATTGTTCGACAGCCCTGTGCACAAACAA

                      *                *                                    *
       1287 AGCTTGTTAGGCAGCGCTATGCACAAATAAAGCTCT-ACTCG-ATGTCCAAAGCATCAACTTTGT
          1 AGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCA-TCGAAT-TCCAAAGCATCAACTTTGC

                                                                        *    
       1350 GCA-TTTGTATGCAACACATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGATAGCC
         64 G-AGTTTGTATGCAACACATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCC

              *            *                                                 
       1414 CTGTGCACAAACAAAGCTTTCCTAGAAGCCCAAAACCTCAACTTAGAGCGGTTGTATGCAAAACA
        128 CTATGCACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTAGAGCGGTTGTATGCAAAACA

                                                      *                      
       1479 TCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCTACGAGTGCTCAAATGTCGTGCG
        193 TCATTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCG

                 *               *                     
       1544 TCGAATTGCGATGAGATTGTTGGACAGCCCTGTGCACAAACAA
        258 TCGAAGTGCGATGAGATTGTTCGACAGCCCTGTGCACAAACAA

                 
       1587 AGCTT
          1 AGCTT

       1592 TCCTCGATGT


Statistics
Matches: 282,  Mismatches: 19, Indels: 7
        0.92            0.06        0.02

Matches are distributed among these distances:
 298    3  0.01
 299  249  0.88
 300   30  0.11

ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28


Consensus pattern (300 bp):   
AGCTTGTTAGACAGCGCTATGCACAAACAAAGCTCTCATCGAATTCCAAAGCATCAACTTTGCGA
GTTTGTATGCAACACATCGTTCTTAGCAGTTTGTCGGAGTGAGATGAACTTTTTGGACAGCCCTA
TGCACAAACAAAACTTTCCTAGAAGCCCAAAACCTCAACTTAGAGCGGTTGTATGCAAAACATCA
TTTTTAGCGAAAGGCTCATTCCAGATGCATTTTTTGCGCAACGAGTGCTCAAATGTCGTGCGTCG
AAGTGCGATGAGATTGTTCGACAGCCCTGTGCACAAACAA
Done.