Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019719.1 Corchorus olitorius cultivar O-4 contig19752, 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: 12141
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Found at i:1433 original size:325 final size:325
Alignment explanation
Indices: 1--3719 Score: 4973
Period size: 325 Copynumber: 11.5 Consensus size: 325
* *
1 ATATTAGAAGCGTGAAAAGCAGTCCAATC-TTTTGGCGTTGACTT-TATA-TTTTTAT-AGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * *
62 CT-GG--AATTTGTAGG-AAAATCTTTCAGGTCTA-TTTTGCAAAATTTTAGCCGAAATCGTGTA
66 CTGGGAAAAATTG-AGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA
* * * *
122 CTAACCATCACGGTTTTAGGCTAAAAAACGTGTTTTTTGGGGGCCCGACTCAG-TTTGCATGATT
130 CTAACCATCACGGTTTTAGGCT-AAAAACGCG--TTCTGGCGGCCCGACTAAGTTTTGCATGATT
* * * * * *
186 TTTGGCGCAAAGATTCCTTAAAATATCCATATTCATCTAACCAAATCTCTGCAA-GTATGGATTT
192 TTTGGCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACG-ATGGATTT
* * **
250 ATGCATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCA---AAAA
256 AAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAA
*
312 AAACC
321 AAACG
** * *
317 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGAATTGAATTATATATATTTTATGTGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * * *
382 CTAGGAAAAATTGAAGAAAAATCTTTCGGGTCAATATTTGC-AATTTTTAGCCGAAATCGTGTAC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * *
446 TAACCATCACGTTTTTAGGCTAAAAACACGTTCTGGCAGCCCGACTAAGTTTTGCATGATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
* *** * * *
511 GCGCCAAGACTCCTTCAAATATCTAACCAAATCGTGTGCTAACCAAATCTCTGCAACTATGGATT
196 GCGCCAAGACTCCTTGAAATATCT-A--TTTTC--AT-CTAACCAAATCTCAGCAACGATGGATT
**
576 TAAGGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATT------AA
255 TAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAA
635 AAAAC-
320 AAAACG
* * *
640 ATATTAGAAGCGTGAAAGGCCGTCCAATCTTTTTGGAGGTGAATTATATATTTTTTTATGAGTAT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATA-TTTTTTATGAGTAT
* * * * *
705 TCTAGGAAAAATTGAAGAAAAATCTTTCGGGTCAATATTTGC-AAATTTTTGCCGAAATCATGTA
65 TCTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA
*
769 CTAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTTTT
130 CTAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTT
* *
834 GGCGCCAAGACTCCTTGAAATATCTATTTTCATCTATCCAAATCTCAGCAACAATGGATTTAAGG
195 GGCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGG
*
899 ATTTGTTTTTAC-A--AGC---ATC----TTCGATTAAATTAGAAATTAATTC-GAGGAAAAAAA
260 ATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAG-GGAAAAAAA
953 CCG
324 -CG
*
956 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTGTT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* *
1021 CTGTGAAAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * *
1086 TAACCATCACGGTTTTAGGCTAAAATCGCGTTCTGGCAGCCCGACTAAGTTTTGAATGATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
* *
1151 GCGTCAAGACTCCTTGAAATATCTATTTTCATCTATCCAAATCTCAGCAACGATGGATTTAAGGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
* * *
1216 TTTGTTTTTACAAGCATCTAAATCTTGTTTCGTTTAAATTAGAAATTAATTCAGGGAAAAAATCG
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAAAAACG
* * *
1281 ATATTAGAAGTGTGAAAAGCTGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTACT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
*
1346 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGAGTAC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * * *
1411 TAACCATCACGGTTTCAGGCTAAAAACGCGTTGTGGCGGCCCGACTAAATTTTGCAAGATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
*
1476 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTATCCAAATCTCAGCAACGATGGATTTAAGGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
* *
1541 TTTGTTTTTGCGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATAAATTCAGGGGAAAAAAGA
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCA-GGGAAAAAA-A
1606 CCG
324 -CG
* * * *
1609 ATATTAGAAGCGTGTAAAGCTGTCCAATCTTTTTGGCATTGAATTATATATTATTTATGAGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * * * *
1674 CTGGGTAAATTTGAGGAAAAATCTTTCGGGTGAATTTTTGCAAAATTTTAGCCGAAATTGTATAC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* *
1739 TAATCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
*** * * *
1804 GCGTGTAGACTCCTTGAAATAACTATTTTCATCTATCCAAATCTCAGAAACGATGGATTTAAGGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
* *
1869 TTTGTTTATACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTTA--GAAAAAAACG
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAAAAACG
* * *
1932 ATATTAAAAGCGTGAAAAGCCGTCCAATCTTTTAGGTGTTGAATTATATATTTTTTATGAGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* *
1997 CTTGGAAAAATTGAGGAAAAATCTTCCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA-
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * * *
2061 -GACCTTCACGGTTTTGGGCTAAAACCGCGTTCTGGCGGCCCGACTAAGTTTTGCAT-ATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
* * * * * * *
2124 GTGCCAAGACTACTTGGAATATCTATTTGCATCTAACCAAATCTCAACAATGATGGATTTAAAGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
* * **
2189 TTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTAGAAATTAATTCAGAAACAAAAAA
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGA-TTAAATTAGAAATTAATTCAG-----GGAAA
2254 AAAACG
320 AAAACG
*
2260 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTAGAATTATATATTTTTTATGAGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * * *
2325 CTGGGATAAATTGAGTAAAAAGCTTTCTGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * * * *
2390 TAAGCATCACTGTTTTAGGCTAAAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATGATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
* * * * * * *
2455 GCACCAAGATTCTTTGAAATATCCATATTCATCTAACCAAATCTCTGCAACTATGGATTTAAGGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
** * *
2520 TTTGTTTTTACGAGCATCTCTATCTTGTTTCGTTTAAATTAGAAATTAATTCAGGGAAAAAATCG
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAAAAACG
* * * *
2585 ATATTAGAAGTGTGAAAAGCCGTTCAATCTTTTTGGCGTTGAATTATATATTTCTTATGACTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * *
2650 TTGGGAAAAATTGAGGAGAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTGC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
*
2715 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
* * *
2780 GCGTCATGACTCCTTGAAATATCTATTTTCATCTATCCAAATCTCAGCAACGATGGATTTAAGGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
2845 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAATAAAC
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAA-AAA-
2910 CG
324 CG
* * * *
2912 ATATTAGAAGCGTGAAAAGCAGTCCAATCTTTTTGGCGTTGACTTTTATATTTTTTATAAGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
** * *
2977 CTGGGAAATTTTGAGGAAAAATCTTTCAGGTCTATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * *
3042 TAACCATCACGGTTTTAGGCTAAAAACGTGTTTTTGG-GGCCCGACTCAGTTTTGCATGATTTTT
131 TAACCATCACGGTTTTAGGCTAAAAACGCG-TTCTGGCGGCCCGACTAAGTTTTGCATGATTTTT
* * * * * * *
3106 GGCGCAAAGATTCCTTAAAATATCCATATTCATCTAACCAAATCTCTGCAACTATGGATTTAAGG
195 GGCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGG
**
3171 ATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCA---AAAAAAAC
260 ATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAAAAAC
*
3233 C
325 G
3234 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATA-TTTTTATGAGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * * * * * *
3298 CTTGGAAAAATTGAAGAAAAATCTTTCGGGTCAATATTTGTAACATTTTTGCCGAAATCGTGTAT
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * * *
3363 TAATCATCACGGTTTTAGGCTAAAAACGTGGTT-TGG-GGTCCGACTTAGTTTTGCATGATTTTT
131 TAACCATCACGGTTTTAGGCTAAAAACG-CGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTT
* * ** * *
3426 GGCGCCAAGATTCCTTGAAATATCCATAGTCATCTAACCAAATCTCTGCAACTATGGATTTAAGG
195 GGCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGG
* * ***
3491 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAATTAGAAATTATTTCAAAAAAAAATAA
260 ATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTC-AGGGAAAA-AA
*
3556 ACT
323 ACG
* * *
3559 ATATTAGAATCGTGAAAAGGCC-TCCAATCTTTTTGGCATTGAATTATATATTTTTTAGGAGTAT
1 ATATTAGAAGCGTGAAAA-GCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTAT
* * * * * *
3623 T-TAGGCCAAAAATTGAGG-AAAAT-ATTCTGGTTAATTTTCGCAAAATTTTAGCTGAAATCGTG
65 TCT-GG-GAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTG
**
3685 TACCAATAACCATCACGGTTTTTTGCTAAAAACGC
128 TA-C--TAACCATCACGGTTTTAGGCTAAAAACGC
3720 ATTCCGGTGC
Statistics
Matches: 3035, Mismatches: 300, Indels: 125
0.88 0.09 0.04
Matches are distributed among these distances:
308 23 0.01
312 3 0.00
314 6 0.00
315 53 0.02
316 233 0.08
317 14 0.00
318 45 0.01
319 9 0.00
320 252 0.08
321 204 0.07
322 62 0.02
323 230 0.08
324 184 0.06
325 681 0.22
326 65 0.02
327 369 0.12
328 447 0.15
330 67 0.02
331 88 0.03
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (325 bp):
ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAAAAACG
Found at i:1873 original size:653 final size:648
Alignment explanation
Indices: 1--3719 Score: 5060
Period size: 651 Copynumber: 5.7 Consensus size: 648
* *
1 ATATTAGAAGCGTGAAAAGCAGTCCAATC-TTTTGGCGTTGACTT-TATA-TTTTTAT-AGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * *
62 CT-GG--AATTTGTAGG-AAAATCTTTCAGGTCTA-TTTTGCAAAATTTTAGCCGAAATCGTGTA
66 CTGGGAAAAATTG-AGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA
* * * *
122 CTAACCATCACGGTTTTAGGCTAAAAAACGTGTTTTTTGGGGGCCCGACTCAG-TTTGCATGATT
130 CTAACCATCACGGTTTTAGGCT-AAAAACGCG--TTCTGGCGGCCCGACTAAGTTTTGCATGATT
* * * * * *
186 TTTGGCGCAAAGATTCCTTAAAATATCCATATTCATCTAACCAAATCTCTGCAA-GTATGGATTT
192 TTTGGCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACG-ATGGATTT
* * **
250 ATGCATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCA--AAAAA
256 AAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGAAAAA
* * *
313 AACC-ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGAATTGAATTATATATATTTTATGT
321 AACCGATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCATTGAATTATATATTTTTTATGA
* * * * *
377 GTATTCTAGGAAAAATTGAAGAAAAATCTTTCGGGTCAATATTTGC-AATTTTTAGCCGAAATCG
386 GTATTCTGGGAAAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCG
* *
441 TGTACTAACCATCACGTTTTTAGGCTAAAAACACGTTCTGGCAGCCCGACTAAGTTTTGCATGAT
451 TGTACTAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGAT
* * * *
506 TTTTGGCGCCAAGACTCCTTCAAATATCTAACCAAATCGTGTGCTAACCAAATCTCTGCAACTAT
516 TTTTGGCGCCAAGACTCCTTGAAATATCT-A--TATTC--AT-CTAACCAAATCTCTGCAACTAT
571 GGATTTAAGGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATT---
575 GGATTTAAGGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCAG
633 -AAAAAAC-
640 AAAAAAACG
* * *
640 ATATTAGAAGCGTGAAAGGCCGTCCAATCTTTTTGGAGGTGAATTATATATTTTTTTATGAGTAT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATA-TTTTTTATGAGTAT
* * * * *
705 TCTAGGAAAAATTGAAGAAAAATCTTTCGGGTCAATATTTGC-AAATTTTTGCCGAAATCATGTA
65 TCTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA
*
769 CTAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTTTT
130 CTAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTT
* *
834 GGCGCCAAGACTCCTTGAAATATCTATTTTCATCTATCCAAATCTCAGCAACAATGGATTTAAGG
195 GGCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGG
*
899 ATTTGTTTTTAC-A--AGC---ATC----TTCGATTAAATTAGAAATTAATTCGAGGAAAAAAAC
260 ATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTC-AGGAAAAAAAC
* *
954 CGATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTG
324 CGATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTA
*
1019 TTCTGTGAAAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGT
389 TTCTGGGAAAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGT
* *
1084 ACTAACCATCACGGTTTTAGGCTAAAATCGCGTTCTGGCAGCCCGACTAAGTTTTGAATGATTTT
454 ACTAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTTT
* * * * *
1149 TGGCGTCAAGACTCCTTGAAATATCTATTTTCATCTATCCAAATCTCAGCAACGATGGATTTAAG
519 TGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCTGCAACTATGGATTTAAG
* ** * *
1214 GATTTGTTTTTACAAGCATCTAAATCTTGTTTCGTTTAAATTAGAAATTAATTCAGGGAAAAAAT
584 GATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCA--GAAAAAAA
1279 CG
647 CG
* * *
1281 ATATTAGAAGTGTGAAAAGCTGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTACT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
*
1346 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGAGTAC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * * *
1411 TAACCATCACGGTTTCAGGCTAAAAACGCGTTGTGGCGGCCCGACTAAATTTTGCAAGATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
*
1476 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTATCCAAATCTCAGCAACGATGGATTTAAGGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
* *
1541 TTTGTTTTTGCGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATAAATTCAGGGGAAAAAAGA
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCA--GGAAAAAA-A
* * *
1606 CCGATATTAGAAGCGTGTAAAGCTGTCCAATCTTTTTGGCATTGAATTATATATTATTTATGAGT
323 CCGATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGT
* * * *
1671 ATTCTGGGTAAATTTGAGGAAAAATCTTTCGGGTGAATTTTTGCAAAATTTTAGCCGAAATTGTA
388 ATTCTGGGAAAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTG
*
1736 TACTAATCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTT
453 TACTAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTT
*** * * * * * *
1801 TTGGCGTGTAGACTCCTTGAAATAACTATTTTCATCTATCCAAATCTCAGAAACGATGGATTTAA
518 TTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCTGCAACTATGGATTTAA
* ** *
1866 GGATTTGTTTATACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTTAGAAAAAAAC
583 GGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCAGAAAAAAAC
1931 G
648 G
* * *
1932 ATATTAAAAGCGTGAAAAGCCGTCCAATCTTTTAGGTGTTGAATTATATATTTTTTATGAGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* *
1997 CTTGGAAAAATTGAGGAAAAATCTTCCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTA-
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * * *
2061 -GACCTTCACGGTTTTGGGCTAAAACCGCGTTCTGGCGGCCCGACTAAGTTTTGCAT-ATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
* * * * * * *
2124 GTGCCAAGACTACTTGGAATATCTATTTGCATCTAACCAAATCTCAACAATGATGGATTTAAAGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
* * *
2189 TTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTAGAAATTAATTCAGAAACAAAAAA
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGA-TTAAATTAGAAATTAATTCAG-----GAAAA
* * *
2254 AAAACGATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTAGAATTATATATTTTTTATG
320 AAACCGATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCATTGAATTATATATTTTTTATG
* * *
2319 AGTATTCTGGGATAAA-TTGAGTAAAAAGCTTTCTGGTCAATTTTTGCAAAATTTTAGCCGAAAT
385 AGTATTCTGGGA-AAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAAT
* * * ** *
2383 CGTGTACTAAGCATCACTGTTTTAGGCTAAAAACGCGTTTTGGGGGCCCGACTCAGTTTTGCATG
449 CGTGTACTAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATG
* * * *
2448 ATTTTTGGCACCAAGATTCTTTGAAATATCCATATTCATCTAACCAAATCTCTGCAACTATGGAT
514 ATTTTTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCTGCAACTATGGAT
*
2513 TTAAGGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGTTTAAATTAGAAATTAATTCAGGGAA
579 TTAAGGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCA--GAA
*
2578 AAAATCG
642 AAAAACG
* * * *
2585 ATATTAGAAGTGTGAAAAGCCGTTCAATCTTTTTGGCGTTGAATTATATATTTCTTATGACTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * *
2650 TTGGGAAAAATTGAGGAGAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTGC
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
*
2715 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTTTTG
131 TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
* * *
2780 GCGTCATGACTCCTTGAAATATCTATTTTCATCTATCCAAATCTCAGCAACGATGGATTTAAGGA
196 GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
2845 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGGAAAATAAAC
261 TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCA-GGAAAA-AAAC
* * * * *
2910 CGATATTAGAAGCGTGAAAAGCAGTCCAATCTTTTTGGCGTTGACTTTTATATTTTTTATAAGTA
324 CGATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTA
* * *
2975 TTCTGGGAAATTTTGAGGAAAAATCTTTCAGGTCTATTTTTGCAAAATTTTAGCCGAAATCGTGT
389 TTCTGGGAAAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGT
* * * *
3040 ACTAACCATCACGGTTTTAGGCTAAAAACGTGTTTTTGG-GGCCCGACTCAGTTTTGCATGATTT
454 ACTAACCATCACGGTTTTAGGCTAAAAACGCG-TTCTGGCAGCCCGACTAAGTTTTGCATGATTT
* * * *
3104 TTGGCGCAAAGATTCCTTAAAATATCCATATTCATCTAACCAAATCTCTGCAACTATGGATTTAA
518 TTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCTGCAACTATGGATTTAA
3169 GGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCA-AAAAAAAC
583 GGATTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCAGAAAAAAAC
*
3233 C
648 G
3234 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATA-TTTTTATGAGTATT
1 ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
* * * * * * *
3298 CTTGGAAAAATTGAAGAAAAATCTTTCGGGTCAATATTTGTAACATTTTTGCCGAAATCGTGTAT
66 CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
* * * *
3363 TAATCATCACGGTTTTAGGCTAAAAACGTGGTT-TGG-GGTCCGACTTAGTTTTGCATGATTTTT
131 TAACCATCACGGTTTTAGGCTAAAAACG-CGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTT
* * ** * *
3426 GGCGCCAAGATTCCTTGAAATATCCATAGTCATCTAACCAAATCTCTGCAACTATGGATTTAAGG
195 GGCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGG
* * **
3491 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAATTAGAAATTATTTCAAAAAAAAATAA
260 ATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTC-AGGAAAAA-AA
* * * *
3556 ACTATATTAGAATCGTGAAAAGGCC-TCCAATCTTTTTGGCATTGAATTATATATTTTTTAGGAG
323 CCGATATTAGAAGCGTGAAAA-GCCGTCCAATCTTTTTGGCATTGAATTATATATTTTTTATGAG
* * * * * * *
3620 TATT-TAGGCCAAAAATTGAGG-AAAAT-ATTCTGGTTAATTTTCGCAAAATTTTAGCTGAAATC
387 TATTCT-GG-GAAAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATC
**
3682 GTGTACCAATAACCATCACGGTTTTTTGCTAAAAACGC
450 GTGTA-C--TAACCATCACGGTTTTAGGCTAAAAACGC
3720 ATTCCGGTGC
Statistics
Matches: 2745, Mismatches: 272, Indels: 116
0.88 0.09 0.04
Matches are distributed among these distances:
634 77 0.03
635 25 0.01
636 1 0.00
637 2 0.00
638 9 0.00
639 127 0.05
640 175 0.06
641 203 0.07
642 3 0.00
643 7 0.00
644 26 0.01
645 82 0.03
646 47 0.02
647 267 0.10
648 209 0.08
649 150 0.05
650 1 0.00
651 434 0.16
652 307 0.11
653 428 0.16
655 70 0.03
656 95 0.03
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (648 bp):
ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATT
CTGGGAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCGGCCCGACTAAGTTTTGCATGATTTTTG
GCGCCAAGACTCCTTGAAATATCTATTTTCATCTAACCAAATCTCAGCAACGATGGATTTAAGGA
TTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTAAATTAGAAATTAATTCAGGAAAAAAACCG
ATATTAGAAGCGTGAAAAGCCGTCCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATT
CTGGGAAAATTTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC
TAACCATCACGGTTTTAGGCTAAAAACGCGTTCTGGCAGCCCGACTAAGTTTTGCATGATTTTTG
GCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCTGCAACTATGGATTTAAGGA
TTTGTTTTTACGAGCATCTCTATCTTGTTTCGATTAAATTAGAAATTAATTCAGAAAAAAACG
Done.