Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016344.1 Corchorus olitorius cultivar O-4 contig16377, 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: 4025
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Found at i:646 original size:324 final size:322
Alignment explanation
Indices: 1--3890 Score: 4847
Period size: 324 Copynumber: 12.2 Consensus size: 322
* * *
1 TCCCGAAACGCG-TTTAAGCCCCAAAACTGTGATGTTTAGTACACGATTTCGGCTAAAAACTGAC
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGA-
* * * *
65 CCCAGAGTTTTTTTTCTG-ATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACACCAA
65 CCCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCAA
* * * *
129 GAATA-TGAAAGGGTTTTTCACACTTCTAATATCGTTTTT---TTTT-CTGAATTTATTTCTAAT
130 GAATATTG-AAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAAT
* * ** ** * * * * *
189 TTATTCTAAACAAGATTTGGATGCTCATAAAAATAAATCCTTCTATTCAATATGCATGAGATTCG
194 TAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTG
* * *
254 GTTAGATGAATATAAGATATTTCAAGAAGTCTTTATGCCAAAAAACATGCAAAACTGAACCAAGG
259 GTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTG-AGCAAGG
* *
319 TCCCGAAATGCGTTTTTAGGCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGAC
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGAC
* *
384 CCGAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAATGCCAAG
66 CCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCAAG
* * *
449 AATATTGAAGGGTTTTTTCACGCTTCTAATATCGTTTTTCCATTTTCCTGAATTGATTTCGAATT
131 AATATTGAAGGG-TTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAATT
* * *
514 AAATCGAAACAAGATTTAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTGC
195 AAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTGG
* * * * *
579 TTAGATAAATATAAGTTATTTCAAGGAGACTTTATGCCAAAAAACATGCAAAACTGAGTCGAGG
260 TTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAG-CAAGG
* * *
643 TCCCGAAATGCGTTTTTAGCCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGAC
* * * *
708 CCAAAATAATTTTTCTCAATTTTTTTGCCAAAATACTCAGAAAAAATATATAACTCAACGCTAAG
66 CCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCAAG
* *
773 AATATTGAAGGGTTTTTTCACGCCTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGTATT
131 AATATTGAAGGG-TTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAATT
* * * *
838 AAATCGGAATAAGATTCAGATGCTCGTAAAAATAAATACTTATATCTAATATGCATGAGATTTGG
195 AAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTGG
* * * *
903 TTAGATGAATATAAGATAATTCAACGAGTCTTTCTGCCAAAAATCATGCAAAACTGATCAAGAG
260 TTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAGCAAG-G
* *
967 TCCCGAAACGCGTTTTTAGCCCAAAAACTATAATGATTATTAGTACACGATTTCGGCTAAAAACT
1 TCCCGAAACGCGTTTTTAGCCCAAAAAC--T-GTGATGATTAGTACACGATTTCGGCTAAAAACT
* * *
1032 GACCCCAAAAT-TTTTTTCCGAA-TTTTTTGCCGAAATACTCAGAAAAAAATATATAATTCAACA
63 GA-CCCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAG-AAAAAATATATAATTCAACG
* * * *
1095 CCAAGAATATTGAAGGG-TTTTCACGCTTCTGATATCATTTTTCCA-TTACCTGAATTTATTTCT
126 CCAAGAATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCG
**
1158 AATTAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATTTAATATGCCTGAGAT
191 AATTAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGAT
* * * *
1223 TTGGTTATATGAATATAATATATTTCAAGAAGTCTTTCTGCCAAAAATCATGCAAAACTGAGCCA
256 TTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAG-CA
*
1288 GGG
320 AGG
* * *
1291 TCCCGGAATGTGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGAC
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGAC
* * *
1356 CCAAAATATTTTTTCTGGATTTTTTTGCCAAAACAATCAGAAAAAAATATATAATTCAACGCCAA
66 CCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAG-AAAAAATATATAATTCAACGCCAA
* * * *
1421 GAATATTGAAAGTTTTTTCACGCCTCCAATATCATTTTTCCATTTTCCCGAATTTATTTCGAATT
130 GAATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAATT
* * * * *
1486 AAATCGGAACAAGATTCAGATGCTCATAAAAATAAATCCGTAAATCCAATACGCCTGAGATTTAG
195 AAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTGG
* * * * *
1551 ATAGATGAATATTAGATATTTCAAGGAGTCTTTCTGACAAAAATCATGCAAAACTGAGCCAGG
260 TTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAGCAAGG
* * * *
1614 ATCCCGAAACGCGTTTTTAGCCCGAAAACTGTGATGATTTGTACATGATTTCGGCTAAAAACCGA
1 -TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGA
* * * * * **
1679 CTC-AATTTTTTTTTCTGAA-TTTTTTGCCAAAATACT---AAAAAA-ACATAATCCAACGCTTA
65 CCCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCAA
* * *
1738 GAATATTGAAGGGTTTTTCATGCTTCTAATATCATTTTTCTATTTTCCCGAATTTATTTCTAATT
130 GAATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAATT
* * *
1803 AAATCGGAACAAGATTTAGATGCTCGTAAAAGTAAATCCTTATATCCAATATGCCCGAGATTTGG
195 AAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTGG
*
1868 TTAGATGAATATAAGATATTTCAAGGAGTCTTTCTG-CAAAAAATTATGCAAAACTGAGC----
260 TTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAA-CATGCAAAACTGAGCAAGG
* * *
1927 -CCC-AAA-AC---TAT-G-------A-TGT-A--A-T-GTACACGATTTCGGCTAAAATCTGAC
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGAC
* * * * *
1972 CCGAAAATTTTTTTTC-GAA-TTTTTTGCCGAAATACTCACAAAAAA-ATATTATCCAACGCCAA
66 CC-AAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCAA
* * * * *
2034 GCATATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTTCCATTTTCCCAAATTTATTTCTAATT
130 GAATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAATT
* ** *
2099 AAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCCAAGATTTGC
195 AAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTGG
* *
2164 TTAGATGAATATAAGATATTTCGAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTCAGGG
260 TTAGATGAATATAAGATATTTC-AAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAG-CAAGG
* *
2229 TCCCGAAACGCG-TTTAAGCCCCAAAACTGTGATG-TATAGTACACGATTTCGGCTAAAAACTGA
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGAT-TAGTACACGATTTCGGCTAAAAACTGA
* * * *
2292 CCCCAGAGT-TTTTTTCT-AATTCTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACACCA
65 -CCCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCA
* * * * *
2355 AGAATATGGAAGGGTATTTCACACTTCTAATATC--GTTT---TTTT-CCGAATTTATTTCTAAT
129 AGAATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAAT
* * * ** ** * *
2414 TAATTCGAAACAAGATTTAGAT-AACGTAAAAATAAATTATTATATTCAATATGCCCGAGATTTG
194 TAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTG
* *
2478 GTTAGATGAATATAAGATATTTCAAGGAGTCTTTGTGCC-AAAAACATGCAAAACTGAGCCGAGG
259 GTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAG-CAAGG
* * * *
2542 TCCTGAAATC-CGTTTTTAGCCCAAAAACAGTGATGATTAGTACACGATTTCGTCTAAAAACCGA
1 TCCCGAAA-CGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGA
* * * * *
2606 CACAAAAT-TTTTATTCTGAA-TTTTTTGCTAATATAC-C-GAAAGAAAAATATAATCCAACGCC
65 CCCAAAATATTTT-TTCTGAATTTTTTTGCCAAAATACTCAGAAA-AAATATATAATTCAACGCC
* * ** * *
2667 AAGAATATTGAAGGATTTTTCATGCTTCTAATATTGTTTTTCCATTTTCCCAAATTTATTTCTAA
128 AAGAATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAA
* *
2732 TTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATTCTTATATCCAATATGCCTGAGATTT
193 TTAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTT
* * *
2797 GGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAGAATCATGCAAAACTGAGCCAGG
258 GGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAG-CAAG
2862 G
322 G
* * *
2863 TCCCGAAACGCGTTTTTAGCCCAAAAACTATGAGGATTAATACACGATTTTCGGCTAAAAACTGA
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGA-TTTCGGCTAAAAACTGA
* *
2928 CCCGAAAAT-TTTTTTCTGAA-TTTTTTGCCGAAATACTCAAAAAAAATA-ATAATTCAACGCCA
65 CCC-AAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCA
* *
2990 AGAATATTGAAGGG-TTTTCACGCTTCTAATATCGTTTTTCCATTTTCCCGAATTTATTTCTAAT
129 AGAATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAAT
**
3054 TAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATTTAATATGCCTGAGATTTG
194 TAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTG
* * * *
3119 CTTAAATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAATCATGCAAAACTGAGTC-GGT
259 GTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAG-CAAG-
3183 G
322 G
* * *
3184 TCCCGAAACGCGGTTTTAGCCCCAAAACTGTGATGGTTTA-TACACGATTTCGGCTAAAAACTGA
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGAT-GATTAGTACACGATTTCGGCTAAAAACTGA
* * * * * * * *
3248 CTCGAAAGT-TTTGTACT-AAATTTTTGGCCAAAATACTCATAAAAAATATATAATTCAATGCCA
65 C-CCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCA
* * * *** *
3311 AAAAGATTGAAGGGTTTTTCACGCTTCTAATATC--GTTTCCATTTTTTTTGAATTTATTTCTAA
129 AGAATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCA-TTTTCCCGAATTTATTTCGAA
*
3374 TTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTT
193 TTAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTT
* * * **
3439 GGTTAGATGAATATAAGATATTTCAAAGAGTTTTTCTGCC-AAAATCATGCAAAACTGAGCCGGG
258 GGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAG-CAAG
3503 G
322 G
* * * *
3504 TCCCGAAATGCGTTTTTATCCCTAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC
1 TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGAC
* * *
3569 CCGAAATATTTTTT-TGATATTTTTTTGCCAAAATATTCAG-AAAAA-ATATAATTCAACGACAA
66 CCAAAATATTTTTTCTGA-ATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCAA
* *
3631 GAATATTGAAGGGTTTTTTCACGCCTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCAAAT
130 GAATATTGAAGGG-TTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAAT
*
3696 TAAATCGGAACAAGATTCAGATACTCGTAAAAATAAAT-CTATATATCCAATATGCCTGAGATTT
194 TAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCT-TATATCCAATATGCCTGAGATTT
* * * * *
3760 AGTTAGATGAATATAAGATATTTCAAGGAGTCTTTTTGCCAAAAATCTTGCAAAACTGAGCCAGG
258 GGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAGCAAGG
**
3825 ATTACGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTATAGTACACGATTTCGGCTAAAAACT
1 -TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGA-T-TAGTACACGATTTCGGCTAAAAACT
3890 G
63 G
3891 TGATGATTAT
Statistics
Matches: 3132, Mismatches: 343, Indels: 188
0.86 0.09 0.05
Matches are distributed among these distances:
292 24 0.01
293 20 0.01
294 12 0.00
296 162 0.05
297 30 0.01
298 8 0.00
303 3 0.00
304 3 0.00
305 2 0.00
306 2 0.00
307 1 0.00
308 1 0.00
309 1 0.00
310 3 0.00
311 3 0.00
312 4 0.00
313 85 0.03
314 77 0.02
315 65 0.02
316 45 0.01
317 181 0.06
318 35 0.01
319 174 0.06
320 292 0.09
321 634 0.20
322 253 0.08
323 64 0.02
324 817 0.26
325 29 0.01
326 20 0.01
327 74 0.02
328 8 0.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (322 bp):
TCCCGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTAGTACACGATTTCGGCTAAAAACTGAC
CCAAAATATTTTTTCTGAATTTTTTTGCCAAAATACTCAGAAAAAATATATAATTCAACGCCAAG
AATATTGAAGGGTTTTTCACGCTTCTAATATCATTTTTCCATTTTCCCGAATTTATTTCGAATTA
AATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTATATCCAATATGCCTGAGATTTGGT
TAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAAACATGCAAAACTGAGCAAGG
Found at i:3029 original size:321 final size:320
Alignment explanation
Indices: 1947--4023 Score: 2648
Period size: 321 Copynumber: 6.5 Consensus size: 320
1937 TGATGTAATG
* *
1947 TACACGATTTCGGCTAAAATCTGACCCGAAAATTTTTTT-TCGAATTTTTTGCCGAAATACTCAC
1 TACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCT-GAATTTTTTGCCAAAATACTCA-
* * * *
2011 AAAAAAAT-ATTATCCAACGCCAAGCATATTGAAGGGTTTTTCAGGCTTCTAATATCGTTTTTCC
64 AAAAAAATAATAATTCAACGCCAAGAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
*
2075 ATTTTCCCAAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTT
129 ATTTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTT
** *
2140 ATATCCAATATGCCCAAGATTTGCTTAGATGAATATAAGATATTTCGAAGGAGTCTTTCTGCCAA
194 ATATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTC-AAGGAGTCTTTCTGCCAA
* * * * *
2205 AAATCATGCAAAACTGAGTCAGGGTCCCGAAACGCG-TTTAAGCCCCAAAACTGTGATGTATAG
258 AAATCATGCAAAACTGAGCCAGGGTCCCGAAACGCGTTTTTAGCCCAAAAACTGTGAGGT-TAA
* * * *
2268 TACACGATTTCGGCTAAAAACTGACCCCAGAGTTTTTTTCT-AATTCTTTTGCCAAAATACTCAG
1 TACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTGAATT-TTTTGCCAAAATACTCAA
* * * *
2332 AAAAAATATATAATTCAACACCAAGAATATGGAAGGGTATTTCACACTTCTAATATCG--TTT--
65 AAAAAATA-ATAATTCAACGCCAAGAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
* * ** **
2393 -TTTT-CCGAATTTATTTCTAATTAATTCGAAACAAGATTTAGAT-AACGTAAAAATAAATTATT
129 ATTTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTT
* * *
2455 ATATTCAATATGCCCGAGATTTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTGTGCCAAA
194 ATATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAA
* * * *
2520 AA-CATGCAAAACTGAGCC-GAGGTCCTGAAATC-CGTTTTTAGCCCAAAAACAGTGATGATTAG
259 AATCATGCAAAACTGAGCCAG-GGTCCCGAAA-CGCGTTTTTAGCCCAAAAACTGTGA-GGTTAA
* * * * *
2582 TACACGATTTCGTCTAAAAACCGACAC-AAAATTTTTATTCTGAATTTTTTGCTAATATAC-CGA
1 TACACGATTTCGGCTAAAAACTGACCCGAAAATTTTT-TTCTGAATTTTTTGCCAAAATACTC-A
* * * *
2645 AAGAAAAAT-ATAATCCAACGCCAAGAATATTGAAGGATTTTTCATGCTTCTAATATTGTTTTTC
64 AA-AAAAATAATAATTCAACGCCAAGAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTC
* *
2709 CATTTTCCCAAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATTCT
128 CATTTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCT
2774 TATATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAA
193 TATATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAA
* *
2839 GAATCATGCAAAACTGAGCCAGGGTCCCGAAACGCGTTTTTAGCCCAAAAACTATGAGGATTAA
258 AAATCATGCAAAACTGAGCCAGGGTCCCGAAACGCGTTTTTAGCCCAAAAACTGTGAGG-TTAA
*
2903 TACACGATTTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTGAATTTTTTGCCGAAATACTCAA
1 TACACGA-TTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTGAATTTTTTGCCAAAATACTCAA
2968 AAAAAATAATAATTCAACGCCAAGAATATTGAAGGG-TTTTCACGCTTCTAATATCGTTTTTCCA
65 AAAAAATAATAATTCAACGCCAAGAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCA
*
3032 TTTTCCCGAATTTATTTCTAATTAAATCGGAACAAGATTCAGATGCTCGTAAAAATAAATCCTTA
130 TTTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTTA
** * *
3097 TATTTAATATGCCTGAGATTTGCTTAAATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAA
195 TATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAA
* * * *
3162 ATCATGCAAAACTGAGTC-GGTGTCCCGAAACGCGGTTTTAGCCCCAAAACTGTGATGGTTTA
260 ATCATGCAAAACTGAGCCAGG-GTCCCGAAACGCGTTTTTAGCCCAAAAACTGTGA-GGTTAA
* * * * * * *
3224 TACACGATTTCGGCTAAAAACTGACTCGAAAGTTTTGTACTAAATTTTTGGCCAAAATACTCATA
1 TACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTGAATTTTTTGCCAAAATACTCAAA
* * *
3289 AAAAATATATAATTCAATGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATATCG--TTTCCA
66 AAAAATA-ATAATTCAACGCCAAGAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCA
***
3352 TTTTTTTTGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTT
130 -TTTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTT
* *
3417 ATATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTCAAAGAGTTTTTCTGCC-AA
194 ATATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAA
* * * * *
3481 AATCATGCAAAACTGAGCCGGGGTCCCGAAATGCGTTTTTATCCCTAAAACTGTGATGGTTAG
259 AATCATGCAAAACTGAGCCAGGGTCCCGAAACGCGTTTTTAGCCCAAAAACTGTGA-GGTTAA
*
3544 TACACGATTTCGGCTAAAAACTGACCCG-AAATATTTTTT-TGATATTTTTTTGCCAAAATATTC
1 TACACGATTTCGGCTAAAAACTGACCCGAAAAT-TTTTTTCTGA-A-TTTTTTGCCAAAATACTC
* * * *
3607 AGAAAAAAT-ATAATTCAACGACAAGAATATTGAAGGGTTTTTTCACGCCTCTAATATCATTTTT
63 AAAAAAAATAATAATTCAACGCCAAGAATATTGAAGGG-TTTTTCACGCTTCTAATATCGTTTTT
* * *
3671 CCATTTTCCCGAATTTATTTCAAATTAAATCGGAACAAGATTCAGATACTCGTAAAAATAAAT-C
127 CCATTTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCC
* *
3735 TATATATCCAATATGCCTGAGATTTAGTTAGATGAATATAAGATATTTCAAGGAGTCTTTTTGCC
192 T-TATATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCC
* * ** *
3800 AAAAATCTTGCAAAACTGAGCCAGGATTACGAAACGCGTTTTTAGCCCAAAAACTGTGATGATTA
256 AAAAATCATGCAAAACTGAGCCAGGGTCCCGAAACGCGTTTTTAGCCCAAAAACTGTGA-GGTTA
3865 TA
320 -A
* * *
3867 GTACACGATTTCGGCTAAAAACTG---TG---A--------TG-A----TT---ATAGTACTCAA
1 -TACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTGAATTTTTTGCCAAAATACTCAA
* * * *
3910 AAAATAATATTTAATCCAACGCCAAGAATATTGAAGGGTTTTTCATGCTTCTAATATCGTTTTTT
65 AAAA-AATA-ATAATTCAACGCCAAGAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTC
3975 CATTTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCT
128 CATTTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCT
4024 AC
Statistics
Matches: 1547, Mismatches: 163, Indels: 110
0.85 0.09 0.06
Matches are distributed among these distances:
301 11 0.01
302 3 0.00
303 69 0.04
304 27 0.02
309 1 0.00
311 2 0.00
312 1 0.00
313 75 0.05
314 83 0.05
315 72 0.05
316 36 0.02
317 4 0.00
318 4 0.00
319 66 0.04
320 268 0.17
321 600 0.39
322 192 0.12
323 10 0.01
324 23 0.01
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (320 bp):
TACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTGAATTTTTTGCCAAAATACTCAAA
AAAAATAATAATTCAACGCCAAGAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCAT
TTTCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAATAAATCCTTAT
ATCCAATATGCCTGAGATTTGGTTAGATGAATATAAGATATTTCAAGGAGTCTTTCTGCCAAAAA
TCATGCAAAACTGAGCCAGGGTCCCGAAACGCGTTTTTAGCCCAAAAACTGTGAGGTTAA
Done.