Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006646.1 Corchorus capsularis cultivar CVL-1 contig06667, 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, 774

Length: 1291
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22


Found at i:497 original size:155 final size:154

Alignment explanation


    Indices: 1--1288  Score: 1993
    Period size: 155  Copynumber: 8.3  Consensus size: 154

                                          *                                  
          1 GATTCAAAACAGCACTAATGGGCCCCGAAATGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
          1 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                                  *      *       *    * *       **      *    
         66 ACTTCACAATGGACTAATCTCACCAAAATGATTATAGCTAGGTCGTAAACAATTGAAAGAAAAGC
         66 ACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAAAGGAAAGATAAGC

                              *    * 
        131 TTTGTTGG-TTG-CAAATTGAAGCC
        131 TTTG-TGGTTTGCCAAATCGAAGAC

                *  *                *                                        
        154 GATTTAACACAGCACTAATGGGCCTCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
          1 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                                                         *  *            *   
        219 ACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCAGAAGCAATAGG-AAGAAAAG
         66 ACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAA-AGGAAAGATAAG

                        *            
        283 CTTTGTGGTTTGGCAAATCGAAGAC
        130 CTTTGTGGTTTGCCAAATCGAAGAC

                                                                             
        308 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
          1 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                                                                             
        373 ACTTCACAATGGACTAATCTCATCAAAATAAGTTATAGTTAGGCCATAAACAAAGGAAAGATAAG
         66 ACTTCACAATGGACTAATCTCATCAAAATAA-TTATAGTTAGGCCATAAACAAAGGAAAGATAAG

                        *            
        438 CTTTGTGGTTTGGCAAATCGAAGAC
        130 CTTTGTGGTTTGCCAAATCGAAGAC

                                  *                                          
        463 GATTCAAAACAGCACTAATGGGACCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGA-CATAAA
          1 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGC-T-AA

                                                                             
        527 AAACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAAAGGAAAGATAA
         64 AAACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAAAGGAAAGATAA

                              *       
        592 GCTTTGTGGTTTGCCAAACCGAAGAC
        129 GCTTTGTGGTTTGCCAAATCGAAGAC

                                                                             
        618 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
          1 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                                  *      *       *    * *    *   **          
        683 ACTTCACAATGGACTAATCTCACCAAAATGATTATAGCTAGGTCGTATACCAATTG-AAGA-AAG
         66 ACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATA-AACAAAGGAAAGATAAG

                               *       
        746 C-TTGTTGG-TTG-CAAATTGAAGACC
        130 CTTTG-TGGTTTGCCAAATCGAAGA-C

                *   *            *                                           
        770 GATTTAACTACAAGCACTAATAGGCCGTCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCT
          1 GATTCAA-AAC-AGCACTAATGGGCC--CCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCT

                                                        *                    
        835 AAAAACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAAGCCATAAACAAAGGAAAGAT
         62 AAAAACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAAAGGAAAGAT

                                        
        900 AAGCTTTGTGGTTTGCCAAATCGAAGAC
        127 AAGCTTTGTGGTTTGCCAAATCGAAGAC

                                                  *                          
        928 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAACTAACAAAGTGTTCTGAATGAGCTAAA
          1 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAAC-AAGTGTTCTGAATGAGCTAAA

                                                                             
        993 AACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAAAGGAAAGATAAG
         65 AACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAAAGGAAAGATAAG

                               *     
       1058 CTTTGTGGTTTGCCAAATCAAAGAC
        130 CTTTGTGGTTTGCCAAATCGAAGAC

                      *                    *            *                    
       1083 GATTCAAAACGGCACTAATGGGCCCCGAAAGACCCGAAATAACATGTGTTCTGAATGAGCTAAAA
          1 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                                                         *      *            
       1148 ACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCAGAAACAATGGAAAGA-AACG
         66 ACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAAAGGAAAGATAA-G

                                     
       1212 CTTTGTGGTTTGCCAAATCGAAGAC
        130 CTTTGTGGTTTGCCAAATCGAAGAC

                               *                      *         
       1237 GATTCAAAACAGCACTAATTGGCCCCGAAAGGCCCGAAATAAAAAGTGTTCT
          1 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCT

       1289 CAT


Statistics
Matches: 1047,  Mismatches: 66, Indels: 43
        0.91            0.06        0.04

Matches are distributed among these distances:
 151    9  0.01
 152   16  0.02
 153  133  0.13
 154  340  0.32
 155  382  0.36
 156  135  0.13
 157    9  0.01
 158   13  0.01
 159   10  0.01

ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22


Consensus pattern (154 bp):   
GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
ACTTCACAATGGACTAATCTCATCAAAATAATTATAGTTAGGCCATAAACAAAGGAAAGATAAGC
TTTGTGGTTTGCCAAATCGAAGAC

Done.