Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013365.1 Corchorus capsularis cultivar CVL-1 contig13386, 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: 3420
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Found at i:592 original size:323 final size:321
Alignment explanation
Indices: 1--3303 Score: 3098
Period size: 322 Copynumber: 10.2 Consensus size: 321
* * *
1 GTGTTGAATTATACATTTTTTCTGAGTATTGTGGC-AAAATAT-TGAGAAAAAAACTTTTC-AGT
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAT-TCTG-GAAAAAAAATTTTCGAG-
** * * *
63 TCAGTTTTTAGCCGAAACCGTG-------CATCACGGTTTTTGGCTAAAAACGCTTTTCGGGGCC
63 TCAGTTTTTAG-CGAAATAGTGTACTAACCATCACGGTTTTTGACTAAAAACGCGTTTCGGGCCC
*
121 CAGCTCAGGTTTGCATAATTTTTTGCAGGAAGACTCCATGAAATATCTATATAT-ATCTAACCAA
127 CAGCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATAT-TCATCTAACCAA
* * * * *
185 ATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACAAGCATCTTATTCTTCTTTCAATTTAATT
191 ATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
** * * * * *
250 TCAAATTAATTCAGAAAAAAATGGAGAAACGATATTAGAAGCGTGAAAGGCCAATCAATCTTTTT
256 AGAAATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTT
315 G
321 G
** * * *
316 GCATTAAATTATATATTGTTTCTGAGTATTATAGCAAAAATTCTGGAAAAAAAATTTTCGAGTCA
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTCTGGAAAAAAAATTTTCGAGTCA
* * * *
381 GTTTTTAGCGAAAATAGTTTACTAGCCATCACGGTTTTTAGACTAAAATCGCGTTTCGGGCCCCT
66 GTTTTTAGCG-AAATAGTGTACTAACCATCACGGTTTTT-GACTAAAAACGCGTTTCGGGCCCCA
* * * * * * *
446 GCTCAGTTTTGCATGATTTTTGGCCA-AAATACTCCTTGAAGTATCTATATTCATCTAAGCAAAT
129 GCTCAGGTTTGCATGATTTTTTG-CAGGAAGACTCCATGAAATATCTATATTCATCTAACCAAAT
* * * * ** * * * * * *
510 ATCAGTCACATTGGATTTAAGGATTTAATTTTATGGGCATATGAATCTAGTTTGGATTTTATTAG
193 TTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* ** * *
575 AAATTAATTCCGAAAAAAAAT-AAAAACGATATTAGAAGCGTGAATCGCCCGTCAATCTATTT-
258 AAATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTG
* *
637 GTGTTAAATTATAT-TTTTTTCTGAGCATTTTGGCAAAAATT-TGAGAAAAAATCATTCGGATCA
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTCTG-G-AAAAA--A-----A--A
* * * * * *
700 GTTTTTTTCG-GACCCGTTTTTAGCCGAAATTGTGTA-TTA-CATCACAGTTTTTGGCTAAAAAC
55 ----TTTTCGAG-TCAGTTTTTAG-CGAAATAGTGTACTAACCATCACGGTTTTTGACTAAAAAC
* * ** * * * * *
762 GTGTTTCGAGGCCCCGGCTCAGGTTTATATTATTTTTAGCAGGAAGAATCCTTGAAATATTTATA
114 GCGTTTCG-GGCCCCAGCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATA
* * * * *
827 TTCATCTAACCAAATCTCGGCCACATTGGATTTAAGGCTTTG-TTTTACGAGCATCTGAATCTTG
178 TTCATCTAACCAAATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * * * *
891 TTTCTATTTAATTAGAAATTAAAT-CGTAAAAAGTTGAAAAACGATATTAGAAGCGTCAAAAGCC
243 TTTCGATTTAATTAGAAATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCC
* *
955 TATCACTCTTTTTG
308 CATCAATCTTTTTG
* * * *
969 GTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAAT-AGAGAAAAAAACTTTTC-ATG
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGC-AAAAATTCTG-GAAAAAAAATTTTCGA-G
* * * *
1032 GCAGTTTTTAGCCAAAATCA-CGTACTAACCATCACGGTTTTTGGA-TAAAAACGCGTTTCGGGG
63 TCAGTTTTTAG-CGAAAT-AGTGTACTAACCATCACGGTTTTT-GACTAAAAACGCGTTTCGGGC
* * * *
1095 CCCAGCTTAGATTTTCATGATTTTTTGCAGGAAGACTCCATAAAATATCTATATTCATCTAACCA
125 CCCAGCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATTCATCTAACCA
* *
1160 AATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACTAGCATTTGAATCTTGTTTCGATTTAAT
190 AATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
* * * * * * *
1225 TATAAATTAATTCGGAAAAAAATTTAAAAACGATATTAGAAACGTGAAAACCCCGTCAATATTTT
255 TAGAAATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTT
1290 TG
320 TG
* * *
1292 GTGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAAATAT-T-GAGAAAAAACTTTTC-ATG
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAT-TCTGGA-AAAAAAATTTTCGA-G
* * * * ** *
1354 TCAATTTTTAACCGAAATCA-TGTGCTAACTATCACGGTTTTTGTTTAAAAACGCTTTTCGGGGC
63 TCAGTTTTT-AGCGAAAT-AGTGTACTAACCATCACGGTTTTTGACTAAAAACGCGTTTC-GGGC
* * * *
1418 CCCAGCTCAGGTTTGCATAATTTTTTGCGGGAAGACTCCATGAAATATCGATATAT-ATGTAACC
125 CCCAGCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATAT-TCATCTAACC
* * * * *
1482 AAATTTCAGCCACAATGGAATTAAGGATTTCTTTTTACAAGCATCTTAATCTTCTTTCAATTTAA
189 AAATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
** * * * * * *
1547 TTTCAAATTAATT-CAAAAAAAATGGAGAAACGATATTAGAAGCGTGAAAGGCCAATCAATTTTT
254 TTAGAAATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTT
*
1611 TTC
319 TTG
** * **
1614 GCATTAAATTATATATTTTTTCTGAGTATTATATCAAAAATTCTGGAAAAAAAATTTTCGAGTCA
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTCTGGAAAAAAAATTTTCGAGTCA
* * * * * *
1679 ATTTTTAGCGAAAATAGTTTACTAGCAATCACGGTTTTTAGACTAAAATCGCGTTTCGGGCCCCG
66 GTTTTTAGCG-AAATAGTGTACTAACCATCACGGTTTTT-GACTAAAAACGCGTTTCGGGCCCCA
** * * * * * * * *
1744 GCTCAATTTTGCATGATTTTTGGCAGAAATACTCCTTGAAGTATCTATATTCGTCTAAGCAAATA
129 GCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATTCATCTAACCAAATT
* * * ** * * * * *
1809 TCAGCGACATTGGATTTAAGGATTTAATTTTACGGGCATATGAATCTAGTTTGGATTTTATTAGA
194 TCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * *
1874 AATTAATTCCGAAAAAAAAT-AAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTATTT-
259 AATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTG
* * * *
1935 GTGTTAAATTATAT-TTTTTCCTGAGCATTTTGGCAAAAA-TCTTAGAAAAAATCATTCGGATCA
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTC-T-GGAAAAA--A-----A--A
* * * * * *
1998 GTTTTTTTCG-GACCCGTTTTTAGCCGAAATTGTGTA-TTA-CATCACAGTTTTTGGCTAAAAAC
55 ----TTTTCGAG-TCAGTTTTTAG-CGAAATAGTGTACTAACCATCACGGTTTTTGACTAAAAAC
* ** * * * **
2060 GTGTTTCGGGGCCCCAGCTCAGGTTTATATGATTTTTAGCAGGAAGATTCCTTGAAATATAAATA
114 GCGTTTC-GGGCCCCAGCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATA
* * * * * *
2125 TTCATCTAACCAAATCTCAGCTACATTGGATTTAAGGCTTTG-TTTTACGAGCATCTGAATTTTG
178 TTCATCTAACCAAATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * * **
2189 TTTCTATTTAATTAGAAATTAAAT-CGTAAAAAATTGAAAAACGATATTAGAAGCGTCCAAAGCC
243 TTTCGATTTAATTAGAAATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCC
* *
2253 TATCACTCTTTTTG
308 CATCAATCTTTTTG
* **
2267 GTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAA-AATGGAGAAAAAAACTTTTC-AGG
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTCTGGA-AAAAAAA-TTTTCGA-G
* * * * *
2330 CCAGTTTTTTGCCGAAATCGTGTATTAACCATCACGGTTTTTGGA-TAAAAATGCGTTTCGGGGC
63 TCAGTTTTTAG-CGAAATAGTGTACTAACCATCACGGTTTTT-GACTAAAAACGCGTTTC-GGGC
* * * * * * * *
2394 CCCAGCTTAGATTTCCATTACTTTTTGCAAGTAGACTCCATAAAATATCTATATTCATCTAACCA
125 CCCAGCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATTCATCTAACCA
*
2459 AATTTCAGCCACAATGGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
190 AATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
* * * *
2524 TATAAATTAATTCGGAAAAAAATTTAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTT
255 TAGAAATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTT
2589 TG
320 TG
* * * *
2591 GTGTTGAATTATATATTTTTTCAGAGTATTGTGGC-AAAATT-TTGAGAAAAAACTTTTC-AGGT
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTCTGGA-AAAAAAATTTTCGA-GT
* * * *
2653 CAGTTTTTAGCCGAAATCGTGTACTAACCAGCACGGTTTTTTTGGCTAAAAACGCTTTTCGGGGC
64 CAGTTTTTAG-CGAAATAGTGTACTAACCATCACGG--TTTTTGACTAAAAACGCGTTTC-GGGC
* *
2718 CTCAGCTCAGGTTTGCATAATTTTTTGCAGGAAGACTCCATGAAATATCTATATAT-ATCTAACC
125 CCCAGCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATAT-TCATCTAACC
* * * *
2782 AAATTTCAG-CACCAATGGAATTAAGGATTTGTTTTTACAAGCATCTTAATCTTCTTTCAATTTA
189 AAATTTCAGCCA-CAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTA
** * * * * *
2846 ATTTCAAATTAATTCAG-AAAAAATGGAGAAACGATATTAGAAGCGTGAAAGGCCAATCAATCTT
253 ATTAGAAATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTT
2910 TTTG
318 TTTG
* * *
2914 GCGTTAAATTATATATTTTTTCTGAGTATTATAGCAAAAATTCTGGAAAAAAAATTTTCGAGTCA
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTCTGGAAAAAAAATTTTCGAGTCA
* * * * *
2979 ATTTTTAGCGAAAATAGTTTACTAGCCATCACGGTTTTTAGACTAAAATCGCGTTTCGGGCCCCG
66 GTTTTTAGCG-AAATAGTGTACTAACCATCACGGTTTTT-GACTAAAAACGCGTTTCGGGCCCCA
* * * * * * * *
3044 GCTCAGTTTTGCATGATTTTTTGCTGAAATACTCCTTGAAGTATCTATATTCATCTAAGCAAATA
129 GCTCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATTCATCTAACCAAATT
* * ** * * * * *
3109 TCAGCCACATTGGATTTAAGGATTTAATTTTACGGGCATATGAATCTAGTTTGGATTTTATTAGA
194 TCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
*
3174 AATTAATTCCGAAAAAAA-T-AAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTT-
259 AATTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTG
* * * * *
3234 GTGTTAAATTATAT-TTTTTTCTGAGCATTTTTGCAAAAA-TCTGAGAAAAAAACTATTCG-GAT
1 GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTCTG-GAAAAAAAATTTTCGAG-T
3296 CAGTTTTT
64 CAGTTTTT
3304 TTCGGACCCG
Statistics
Matches: 2445, Mismatches: 439, Indels: 204
0.79 0.14 0.07
Matches are distributed among these distances:
314 2 0.00
315 58 0.02
316 9 0.00
318 5 0.00
319 47 0.02
320 107 0.04
321 169 0.07
322 717 0.29
323 528 0.22
324 275 0.11
325 6 0.00
326 1 0.00
328 2 0.00
330 20 0.01
331 179 0.07
332 213 0.09
333 49 0.02
334 54 0.02
335 4 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (321 bp):
GTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTCTGGAAAAAAAATTTTCGAGTCA
GTTTTTAGCGAAATAGTGTACTAACCATCACGGTTTTTGACTAAAAACGCGTTTCGGGCCCCAGC
TCAGGTTTGCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATTCATCTAACCAAATTTC
AGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
TTAATTCCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTG
Found at i:2050 original size:976 final size:956
Alignment explanation
Indices: 1--3303 Score: 3181
Period size: 976 Copynumber: 3.4 Consensus size: 956
* * * *
1 GTGTTGAATTATACATTTTTTCTGAGTATTGTGGCAAAATATTGAG-AAAAAAAC----TTTTCA
1 GTGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAA-ATTTAGAAAAAAAACATTTTTTTC-
** ** * *
61 GTTCAGTTTTTAGCCGAAACCGTG------CATCACGGTTTTTGGCTAAAAACGCTTTTCGGGGC
64 GGACAGTTTTTAGCCGAAATAGTGTATTACCATCACGGTTTTTGGATAAAAACGCGTTTCGGGGC
* *
120 CCAGCTCAGGTTTGCATAATTTTTTGCAGGAAGACTCCATGAAATATCTATATAT-ATCTAACCA
129 CCAGCTCAGGTTTTCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATAT-TCATCTAACCA
* * * *
184 AATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACAAGCATCTT-ATTCTTCTTTCAATTTAA
193 AATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCAT-TTGAATCTTGTTTCGATTTAA
** * * * *
248 TTTCAAATTAATTCAGAAAAAAATGGAGAAACGATATTAGAAGCGTGAAAGGCCAATCAATCTTT
257 TTAGAAATTAATTC-GAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTT
** * * * *
313 TTGGCATTAAATTATATATTGTTTCTGAGTATTATAGCAAAAATTCTG-GAAAAAAAATTTTCGA
321 TTGGTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATT-TGAGAAAAAAACTTTTC-A
* * * * *
377 GTCAGTTTTTAGCGAAAAT-AGTTTACTAGCCATCACGGTTTTTAGACTAAAATCGCGTTTC-GG
384 GTCAGTTTTTACCG-AAATCA-TGTACTAACCATCACGGTTTTT-GAATAAAAACGCGTTTCGGG
* * * * * * *
440 GCCCCTGCTCAGTTTTGCATGATTTTTGGCCAA-AATACTCCTTGAAGTATCTATATTCATCTAA
446 GCCCCAGCTCAGATTTGCATAATTTTTTG-CAAGAAGACTCCATGAAATATCTATATTCATCTAA
* * * * * * * * * * *
504 GCAAATATCAGTCACATTGGATTTAAGGATTTAATTTTATGGGCATATGAATCTAGTTTGGATTT
510 CCAAATTTCAGCCACAATGGAATTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTT
* * ** *
569 TATTAGAAATTAATTCCGAAAAAAAATAAAAACGATATTAGAAGCGTGAATCGCCCGTCAATCTA
575 AATT-TAAATTAATT-CGAAAAAAAATAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTT
* *
634 TTTGTGTTAAATTATAT-TTTTTTCTGAGCATTTTGGCAAAAATTTGAGAAAAAATCATTCGGAT
638 TTTGTGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAAATTTG-G-AAAAA--A-----A-
* * * * *
698 CAGTTTTTTTCG-GACCCGTTTTTAGCCGAAATTGTGTATTACATCACAGTTTTTGGCTAAAAAC
693 -A----TTTTCGAG-TCAGTTTTTAGCCGAAATAGTGTACTACATCACGGTTTTTGGCTAAAAAC
* ** * * *
762 GTGTTTCGAGGCCCCGGCTCAGGTTTATATTATTTTTAGCAGGAAGAATCCTTGAAATATTTATA
752 GCGTTTCG-GGCCCCGGCTCAGGTTTGCATAATTTTTAGCAGGAAGACTCCTTGAAATATCTATA
* * * *
827 TTCATCTAACCAAATCTCGGCCACATTGGATTTAAGGCTTTGTTTTACGAGCATCTGAATCTTGT
816 TTCATCTAACCAAATATCAG-CACATTGGATTTAAGGATTTATTTTACGAGCATCTGAATCTTGT
* * * ** * *
892 TTCTATTTAATTAGAAATTAAAT-CGTAAAAAGTTGAAAAACGATATTAGAAGCGTCAAAAGCCT
880 TTCAATTTAATTAGAAATTAATTCCGAAAAAAAAT-AAAAACGATATTAGAAGCGTGAAAAGCCA
*
956 ATCACTCTTTTTG
944 ATCAATCTTTTTG
* * ** **
969 GTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATAGAGAAAAAAAC-TTTTCAT-G
1 GTGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAAATTTAGA-AAAAAAACATTTTTTTCG
* * *
1032 G-CAGTTTTTAGCCAAAATCA-CGTACTAACCATCACGGTTTTTGGATAAAAACGCGTTTCGGGG
65 GACAGTTTTTAGCCGAAAT-AGTGTA-TTACCATCACGGTTTTTGGATAAAAACGCGTTTCGGGG
* * *
1095 CCCAGCTTAGATTTTCATGATTTTTTGCAGGAAGACTCCATAAAATATCTATATTCATCTAACCA
128 CCCAGCTCAGGTTTTCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATTCATCTAACCA
*
1160 AATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACTAGCATTTGAATCTTGTTTCGATTTAAT
193 AATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAAT
* * * * * *
1225 TATAAATTAATTCGGAAAAAAATTTAAAAACGATATTAGAAACGTGAAAACCCCGTCAATATTTT
258 TAGAAATTAATTC-GAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTT
* *
1290 TGGTGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAAATATTGAG-AAAAAACTTTTCATG
322 TGGTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAT-TTGAGAAAAAAACTTTTCA-G
* * * ** *
1354 TCAATTTTTAACCGAAATCATGTGCTAACTATCACGGTTTTTGTTTAAAAACGCTTTTCGGGGCC
385 TCAGTTTTT-ACCGAAATCATGTACTAACCATCACGGTTTTTGAATAAAAACGCGTTTCGGGGCC
* ** * *
1419 CCAGCTCAGGTTTGCATAATTTTTTGCGGGAAGACTCCATGAAATATCGATATAT-ATGTAACCA
449 CCAGCTCAGATTTGCATAATTTTTTGCAAGAAGACTCCATGAAATATCTATAT-TCATCTAACCA
* * * * *
1483 AATTTCAGCCACAATGGAATTAAGGATTTCTTTTTACAAGCATCTTAATCTTCTTTCAATTTAAT
513 AATTTCAGCCACAATGGAATTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
* * ** *
1548 TTCAAATTAATTC-AAAAAAAATGGAGAAACGATATTAGAAGCGTGAAAGGCCAATCAATTTTTT
578 TT-AAATTAATTCGAAAAAAAAT--AAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTT
** **
1612 TCGCATTAAATTATATATTTTTTCTGAGTATTATATCAAAAATTCTGGAAAAAAAATTTTCGAGT
640 T-GTGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAAATT-TGGAAAAAAAATTTTCGAGT
* * * *
1677 CAATTTTTAG-CGAAAATAGTTTACTAGCAATCACGGTTTTTAGACTAAAATCGCGTTTCGGGCC
703 CAGTTTTTAGCCG-AAATAGTGTACTA-C-ATCACGGTTTTT-GGCTAAAAACGCGTTTCGGGCC
** * * * * * * *
1741 CCGGCTCAATTTTGCATGATTTTTGGCAGAAATACTCCTTGAAGTATCTATATTCGTCTAAGCAA
764 CCGGCTCAGGTTTGCATAATTTTTAGCAGGAAGACTCCTTGAAATATCTATATTCATCTAACCAA
* * * ** *
1806 ATATCAGCGACATTGGATTTAAGGATTTAATTTTACGGGCATATGAATCTAGTTTGGATTTTATT
829 ATATCAGC-ACATTGGATTTAAGGATTT-ATTTTACGAGCATCTGAATCTTGTTTCAATTTAATT
** *
1871 AGAAATTAATTCCGAAAAAAAATAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTATTT-
892 AGAAATTAATTCCGAAAAAAAATAAAAACGATATTAGAAGCGTGAAAAGCCAATCAATCTTTTTG
* * *
1935 GTGTTAAATTATAT-TTTTTCCTGAGCATTTTGGCAAAAATCTTAGAAAAAATCATTCGGATCAG
1 GTGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAAAT-TTAGAAAAAA--A-----A-CA-
* * * * *
1999 TTTTTTTCGGACCCGTTTTTAGCCGAAATTGTGTATTA-CATCACAGTTTTTGGCTAAAAACGTG
56 TTTTTTTCGGA-CAGTTTTTAGCCGAAATAGTGTATTACCATCACGGTTTTTGGATAAAAACGCG
* * * **
2063 TTTCGGGGCCCCAGCTCAGGTTTAT-ATGATTTTTAGCAGGAAGATTCCTTGAAATATAAATATT
120 TTTCGGGG-CCCAGCTCAGGTTT-TCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATT
* * * * * * *
2127 CATCTAACCAAATCTCAGCTACATTGGATTTAAGGCTTTG-TTTTACGAGCATCTGAATTTTGTT
183 CATCTAACCAAATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTT
* * * ** *
2191 TCTATTTAATTAGAAATTAAATCGTAAAAAATTGAAAAACGATATTAGAAGCGTCCAAAGCCTAT
248 TCGATTTAATTAGAAATTAATTCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCAT
* * * *
2256 CACTCTTTTTGGTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATGGAGAAAAAAA
313 CAATCTTTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTGGC-AAAAATTTGAGAAAAAAA
* * * * * *
2321 CTTTTCAGGCCAGTTTTTTGCCGAAATCGTGTATTAACCATCACGGTTTTTGGATAAAAATGCGT
377 CTTTTCA-GTCAG-TTTTTACCGAAATCATGTACTAACCATCACGGTTTTTGAATAAAAACGCGT
* * * * * *
2386 TTCGGGGCCCCAGCTTAGATTTCCATTACTTTTTGCAAGTAGACTCCATAAAATATCTATATTCA
440 TTCGGGGCCCCAGCTCAGATTTGCATAATTTTTTGCAAGAAGACTCCATGAAATATCTATATTCA
* *
2451 TCTAACCAAATTTCAGCCACAATGGAATTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
505 TCTAACCAAATTTCAGCCACAATGGAATTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTC
*
2516 GATTTAATTATAAATTAATTCGGAAAAAAATTTAAAAACGATATTAGAAGCGTGAAAAGCCCGTC
570 GATTTAATT-TAAATTAATTC-GAAAAAAA-ATAAAAACGATATTAGAAGCGTGAAAAGCCCGTC
* * * * *
2581 AATCTTTTTGGTGTTGAATTATATATTTTTTCAGAGTATTGTGGC-AAAATTTTGAGAAAAAACT
632 AATCTTTTT-GTGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAAATTTGGA-AAAAAAAT
* * *
2645 TTTC-AGGTCAGTTTTTAGCCGAAATCGTGTACTAACCAGCACGGTTTTTTTGGCTAAAAACGCT
695 TTTCGA-GTCAGTTTTTAGCCGAAATAGTGTACT-A-CATCACGG--TTTTTGGCTAAAAACGCG
* * * *
2709 TTTCGGGGCCTCAGCTCAGGTTTGCATAATTTTTTGCAGGAAGACTCCATGAAATATCTATATAT
755 TTTC-GGGCCCCGGCTCAGGTTTGCATAATTTTTAGCAGGAAGACTCCTTGAAATATCTATAT-T
* * * * * * *
2774 -ATCTAACCAAATTTCAGCACCAATGGAATTAAGGATTTGTTTTTACAAGCATCTTAATCTTCTT
818 CATCTAACCAAATATCAGCA-CATTGGATTTAAGGATTT-ATTTTACGAGCATCTGAATCTTGTT
** * *** * *
2838 TCAATTTAATTTCAAATTAATTCAGAAAAAATGGAGAAACGATATTAGAAGCGTGAAAGGCCAAT
881 TCAATTTAATTAGAAATTAATTCCGAAAAAAAATAAAAACGATATTAGAAGCGTGAAAAGCCAAT
2903 CAATCTTTTTG
946 CAATCTTTTTG
* * *
2914 GCGTTAAATTATATATTTTTTCTGAGTATTATAGCAAAAATTCT-GGAAAAAAA-A---TTTTCG
1 GTGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAAATT-TAGAAAAAAAACATTTTTTTCG
* * * * * *
2974 AGTCAATTTTTAG-CGAAAATAGTTTACTAGCCATCACGGTTTTTAGACTAAAATCGCGTTTCGG
65 -GACAGTTTTTAGCCG-AAATAGTGTATTA-CCATCACGGTTTTTGGA-TAAAAACGCGTTTCGG
* * * * * * *
3038 GCCCCGGCTCA-GTTTTGCATGATTTTTTGCTGAAATACTCCTTGAAGTATCTATATTCATCTAA
126 GGCCCAGCTCAGGTTTT-CATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATTCATCTAA
* * * * ** * * * *
3102 GCAAATATCAGCCACATTGGATTTAAGGATTTAATTTTACGGGCATATGAATCTAGTTTGGATTT
190 CCAAATTTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTT
* *
3167 TATTAGAAATTAATTCCGAAAAAAA-T-AAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCT
255 AATTAGAAATTAATT-CGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCT
* * * * * *
3230 TTTT-GTGTTAAATTATAT-TTTTTTCTGAGCATTTTTGCAAAAATCTGAGAAAAAAACTATTCG
319 TTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGAAAAAAACTTTTCA
3293 GATCAGTTTTT
384 G-TCAGTTTTT
3304 TTCGGACCCG
Statistics
Matches: 1921, Mismatches: 330, Indels: 172
0.79 0.14 0.07
Matches are distributed among these distances:
963 2 0.00
964 30 0.02
965 55 0.03
966 149 0.08
967 112 0.06
968 170 0.09
969 78 0.04
970 11 0.01
972 4 0.00
973 1 0.00
974 9 0.00
975 111 0.06
976 733 0.38
977 196 0.10
978 213 0.11
979 24 0.01
980 23 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (956 bp):
GTGTTAAATTATATATTTTTTCTGAGTATTATGGCAAAAATTTAGAAAAAAAACATTTTTTTCGG
ACAGTTTTTAGCCGAAATAGTGTATTACCATCACGGTTTTTGGATAAAAACGCGTTTCGGGGCCC
AGCTCAGGTTTTCATGATTTTTTGCAGGAAGACTCCATGAAATATCTATATTCATCTAACCAAAT
TTCAGCCACAATGGAATTAAGGATTTGTTTTTACGAGCATTTGAATCTTGTTTCGATTTAATTAG
AAATTAATTCGAAAAAAATTGAAAAACGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTGGT
GTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGAGAAAAAAACTTTTCAGTCAGTT
TTTACCGAAATCATGTACTAACCATCACGGTTTTTGAATAAAAACGCGTTTCGGGGCCCCAGCTC
AGATTTGCATAATTTTTTGCAAGAAGACTCCATGAAATATCTATATTCATCTAACCAAATTTCAG
CCACAATGGAATTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTAAATTA
ATTCGAAAAAAAATAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGTGTTAAATT
ATATATTTTTTCTGAGTATTATGGCAAAAATTTGGAAAAAAAATTTTCGAGTCAGTTTTTAGCCG
AAATAGTGTACTACATCACGGTTTTTGGCTAAAAACGCGTTTCGGGCCCCGGCTCAGGTTTGCAT
AATTTTTAGCAGGAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCACATTGGAT
TTAAGGATTTATTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATTAATTCCGAAAAA
AAATAAAAACGATATTAGAAGCGTGAAAAGCCAATCAATCTTTTTG
Done.