Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005714.1 Corchorus capsularis cultivar CVL-1 contig05732, 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, 708

Length: 1181
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31


Found at i:881 original size:321 final size:323

Alignment explanation


    Indices: 61--1181  Score: 1186
    Period size: 321  Copynumber: 3.4  Consensus size: 323

         51 TATTTTTCCG

                                                        *                  * 
         61 AATTAAATCGAAACATGATTCAAATGCTCGTAAAAACAAATCCTGAAATCCAATGTGGCT-ATTA
          1 AATTAAATCGAAACATGATTCAAATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGA-GA

                                                                             
        125 TTTGGTTAAATTGAATATAGATATTTCAATTACTCTTGACGCCAAAAATCAGGCAAAACTAAGCC
         65 TTTGGTTAAA-TGAATATAGATATTTCAATTACTCTTGACGCCAAAAATCAGGCAAAACTAAGCC

             *          *         **                                         
        190 GGGGCCCCGGAACGCATTTTCAGCAAAAAACCGTGATGGTTAGCACATGATTCGTCTAAAATTTG
        129 GAGGCCCCGGAATGCATTTTCAATAAAAAA-CGTGATGGTTAGCACA-GATTCGTCTAAAATTTG

                     *  * *                               *               *  
        255 GCAAAAACTAACTCGAAATTTTTTTACTCAATTTTTGGCCACAGTATTCATAAAATATATATTAT
        192 GCAAAAACTGACCCAAAATTTTTTTACTCAATTTTTGGCCACAGTACTCATAAAATATATATAAT

            *                      *      *                                  
        320 CCAAACGCCAAAAAGAAAAATAGGGCTTATGACACTTCAAACATCGTTTTTCATAATTTTCCGAA
        257 TC-AACGCCAAAAAG-AAAATAGCGCTTATCACACTTCAAACATCG-TTTT-AT-ATTTT-C-AA

                     
        385 TTAATTTCT
        315 TTAATTTCT

                             * *                                             
        394 AATTAAATCGAAACATGGTCCAAATGCTCGT-AAAACAAATCCTTAAA-CCGAATGTGGCTGAGA
          1 AATTAAATCGAAACATGATTCAAATGCTCGTAAAAACAAATCCTTAAATCC-AATGTGGCTGAGA

                   *                       *     *  *         *        *     
        457 TTTGGTTTAATGAATATAGATATTTCAATTAATCTTGGCGTCAAAAATCATGCAAAACTGAGCC-
         65 TTTGGTTAAATGAATATAGATATTTCAATTACTCTTGACGCCAAAAATCAGGCAAAACTAAGCCG

                     *                    *                         *       *
        521 AGGGCCCCGAAATGCATTTTCAACTAAAAATCGTGATGGTTAGCACACGATTCGTCGAAAATTTA
        130 A-GGCCCCGGAATGCATTTTCAA-TAAAAAACGTGATGGTTAGCACA-GATTCGTCTAAAATTTG

                                     *             *   *     *  **           
        586 GCAAAAACTGACCCAAAATTTTTTTTCTCAATTTTTGGCTACAATACTCGTAGGATATATATAAT
        192 GCAAAAACTGACCCAAAATTTTTTTACTCAATTTTTGGCCACAGTACTCATAAAATATATATAAT

                                      *    *       *                         
        651 TCAACGCCAAAAAGAAAATAGCGCTTTTCACGCTTCAAATATCG-TTT-T-TTTT-AATTAATTT
        257 TCAACGCCAAAAAGAAAATAGCGCTTATCACACTTCAAACATCGTTTTATATTTTCAATTAATTT

              
        712 CT
        322 CT

                                                *                            
        714 AATTAAATCGAAACATGATTCAAATGCTCGTAAAAATAAATCCTTAAATCCAATGTGGCTGAGAT
          1 AATTAAATCGAAACATGATTCAAATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT

                *     *  *                        *                   *      
        779 TTGGCTAAATAAAAATAGATATTTCAATTACTCTTGACACCAAAAATCAGGCAAAACTTAGCCGA
         66 TTGGTTAAATGAATATAGATATTTCAATTACTCTTGACGCCAAAAATCAGGCAAAACTAAGCCGA

                *                         *                                  
        844 GGCCGCGGAATGCATTTTCAATAAAAAACATTGATGGTTAGCACAGATTTCGTCTAAAATTTGGC
        131 GGCCCCGGAATGCATTTTCAATAAAAAAC-GTGATGGTTAGCACAGA-TTCGTCTAAAATTTGGC

                             **   * * *                                      
        909 AAAAACTGA-CCAGAAAAATTTGTCCACAATTTTTGGCCACAGTACTCATAAAATAT-TATAATT
        194 AAAAACTGACCCA-AAATTTTTTTACTCAATTTTTGGCCACAGTACTCATAAAATATATATAATT

            *   *                  *  *  *  *   **      *          *         
        972 AAACACCAAAAAGAAAAAAAAAAAAGGGCATAACACGGTTCAAATATCGTTTTTCTTATTTTTCC
        258 CAACGCCAAAAAG------AAAATAGCGCTTATCACACTTCAAACATCG-TTTT-ATA-TTTT-C

                        
       1037 GAATTAATTTCT
        313 -AATTAATTTCT

            *        *                                                       
       1049 GATTAAATCAAAACATGATTCAAATGCTCGTAAAAAACGATATTTCAATTACCCTTAAA-CCTAA
          1 AATTAAATCGAAACATGATTCAAATGCTCGT-AAAAAC---A----AA-T--CCTTAAATCC-AA

                   *          **                       *    *            **  
       1113 TGTGGCTAAGATTTGGTTTGATGAATATAGATATTTCAATTACCCTTGGCG-CAAAAATCATTCA
         54 TGTGGCTGAGATTTGGTTAAATGAATATAGATATTTCAATTACTCTTGACGCCAAAAATCAGGCA

                 
       1177 AAACT
        119 AAACT


Statistics
Matches: 664,  Mismatches: 87, Indels: 62
        0.82            0.11        0.08

Matches are distributed among these distances:
 320   70  0.11
 321  172  0.26
 322    3  0.00
 323    4  0.01
 325    1  0.00
 326   24  0.04
 327    3  0.00
 328    3  0.00
 329   25  0.04
 330   13  0.02
 331  155  0.23
 332   43  0.06
 333   30  0.05
 335   40  0.06
 336    5  0.01
 339    1  0.00
 343    2  0.00
 344    1  0.00
 345   18  0.03
 346   51  0.08

ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30


Consensus pattern (323 bp):   
AATTAAATCGAAACATGATTCAAATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
TTGGTTAAATGAATATAGATATTTCAATTACTCTTGACGCCAAAAATCAGGCAAAACTAAGCCGA
GGCCCCGGAATGCATTTTCAATAAAAAACGTGATGGTTAGCACAGATTCGTCTAAAATTTGGCAA
AAACTGACCCAAAATTTTTTTACTCAATTTTTGGCCACAGTACTCATAAAATATATATAATTCAA
CGCCAAAAAGAAAATAGCGCTTATCACACTTCAAACATCGTTTTATATTTTCAATTAATTTCT
Done.