Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014237.1 Corchorus olitorius cultivar O-4 contig14270, 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: 5147
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:1257 original size:322 final size:320
Alignment explanation
Indices: 7--3905 Score: 4247
Period size: 322 Copynumber: 11.9 Consensus size: 320
1 TTTTGC
* * * *
7 AAAAATACCTGCAAAATTGAGCCGGCACTCCGGAACGCGTTTTTAGACAAAATCTGTGATGGTTA
1 AAAAAT-CCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA
* *
72 GTACACCGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAG--TTTTCCTCAATTTTTTTG
65 GTACA-CGATTTCCGC--------T--AAAAACTGACCCGAAAAGTTTTTTTCTCAA-TTTTTTG
* * * * * * * * *
135 CCATAATACTCAGAAAAAATATATAATTTAACGCCAAAAA-ATTAAAGGATTTTCACGCTTCTAT
118 CGA-AATATTTAGAAAAAATATATAATTCAACGCCAAAAAGAGTGACGGCTTTTCACGCTTCTAA
* ** *
199 TATCATTTTTCCTTTTGTTTTTCCGAATTTGTTTTCTAATTAAATCGAAACAAAGATTGAGATGC
182 TATCATTTTTCCATTTG---TTCCGAA-TTAATTTCTAATTAAATCAAAAC-AAGATTGAGATGC
* * * * * * * *
264 TCGTAAAAACAAATTCTTAAATCCATTGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAA
242 TCGTAAAAACAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAA
* *
329 GGAGTCTTTCTGCC
307 GGAGTCTTTGTGCA
* ** * * * * * *
343 AAAAATCATTTAAAACTGAGCC-GTGA-TCCGAAACGCGTTTTTAGCCTAAAACTGTGACGGTTA
1 AAAAATCCTGCAAAATTGAGCCAG-CACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA
* * * *
406 GTACACGATTTCAGCTAAAAACTGACCCGAAATG-TTTTTTCTCAATTTTTTGCGATATATTCA-
65 GTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATATTTAG
* * * *
469 AAAACAAT-TAACTAATTCAACGCCAAAAAGATTGACGGCCTTTTGACACTTCTAATATCGTTTT
130 AAAA-AATAT-A-TAATTCAACGCCAAAAAGAGTGACGG-CTTTTCACGCTTCTAATATCATTTT
* * * * * *
533 TCCATTGTTTTTTTTTCGAATTAATTTCTAAATAAATCTAAACAAGATTCAGATGCTCATAAAAA
191 TCCA-----TTTGTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAA
** * * * * *
598 CAAATTTTTATATACAATGTGGCTGAGATTTGGTTCGATGAATATAGATCA-TTCAAAGAGTCTT
251 CAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGAT-ATTTCAAGGAGTCTT
* *
662 TGCGCC
315 TGTGCA
* * * *
668 AACAATCATGCAAAATTGAGCCGAG-ACTCCGGAACGCGTTTTTAGGCAAAAAACTGTGATGGTT
1 AAAAATCCTGCAAAATTGAGCC-AGCACTCCGGAACGCGTTTTTA-GCCAAAAACCGTGATGGTT
* ** *
732 AGTACACGATTTCCGCTAAAAACTGACCCGAAACG-TTTTTTCTCAATTTTTTTTTGAAATAATT
64 AGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAA-TTTTTTGCGAAATATTT
* ** *
796 AGAAAAAATATATAATTCAATGTGAAAAAGAGTGACAGGCTTTTCACGCTTTCTAATATCGTTTT
128 AGAAAAAATATATAATTCAACGCCAAAAAGAGTGAC-GGCTTTTCACGC-TTCTAATATCATTTT
*
861 TCCATTTGTTCCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAAGAAA
191 TCCATTTGTT-CCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAACAAA
926 TCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGC
255 TCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGC
991 A
320 A
* * *
992 AAAAAACCTGCAAAATTGAGCCAGCACTCCGGAACGTGTTTTTAGCCAAAAACCGTGATTGTTAG
1 AAAAATCCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAG
*
1057 TACACGATTTCCGCTAAAAACTGACCCCAAAAGTTTTTTTCTCAATTTTTTGCGAAATATTTAGA
66 TACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATATTTAGA
* * * *
1122 AAAAACATATAATTCAATGTCAAAAAGAGTGACGAGCTTTTCACGCTTCTAATATCGTTTTTCCA
131 AAAAATATATAATTCAACGCCAAAAAGAGTGACG-GCTTTTCACGCTTCTAATATCATTTTTCCA
*
1187 TTTGTTCCGGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAATAAATCCT
195 TTTGTTCC-GAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAACAAATCCT
*
1252 TATATCCAATGTGGATGACATTTGGTTCGTTGAATAAAGATATTTCAAGGAGTCTTTGTGCA
259 TATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGCA
* * * * *
1314 AAAAAACCTGCAAAATTGAGCCGGCACTCAGGAACGCGTTTTTTGCCATAAACCGTGATGGTTAG
1 AAAAATCCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAG
* *
1379 TACACGATTTCCGCTAAAAACTGATCCGAAAAGTTTTTTTCTCTATTTTTTGCGAAATATTTAGA
66 TACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATATTTAGA
* *
1444 AAAAATATATAATTCAATGTCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCATTTTTCCA
131 AAAAATATATAATTCAACGCCAAAAAGAGTGAC-GGCTTTTCACGCTTCTAATATCATTTTTCCA
*
1509 TTTGTTTCAGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAA-AAATCCT
195 TTTG-TTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAACAAATCCT
* * *
1573 TATATTCAATGTGGATGACATTTGGTTCCATGAATAAAGATATTTCAAGGAGGCTTTGTGCA
259 TATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGCA
* * * * * *
1635 AAAAATCCTGCAAAATTGAGTCGGCACTCCGGAACGCCTTTTTAGACAAAATCTGTGATGGTTAG
1 AAAAATCCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAG
* *
1700 TACACCGATTTCGGCTAAAATTTGCAAAAACTGACCCGAAAAGTTTTTTCCTCAATTTTTTTTGC
66 TACA-CGATTTCCGC-------T--AAAAACTGACCCGAAAAGTTTTTTTCTCAA--TTTTTTGC
* * * * * * * *
1765 CATAATACTCAGAAAAAATATATAATTTAACGCCAAAAA-ATTAAAGGATTTTTCACGCTTCTAA
119 GA-AATATTTAGAAAAAATATATAATTCAACGCCAAAAAGAGTGACGG-CTTTTCACGCTTCTAA
* **
1829 TATCATTTTTCCTTTTGTTTTCCGAATTTGTTTCTAATTAAATCAAAACAAGATTGAGATGCTCG
182 TATCATTTTTCCATTTG--TTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCG
* *
1894 TAAAAAGAAAT-CTTATATCCAATGTGGATGACATTTGGTTCAATGAATAAAGATATTTCAAGGA
245 TAAAAACAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGA
1958 GTCTTTGTGCA
310 GTCTTTGTGCA
* * * *
1969 AAAAAACCTGCAAAATTGAGCCAGCACTCCGGAACGTGTTTTTAGCGAAAAACCGTGATTGTTAG
1 AAAAATCCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAG
*
2034 TACACGATTTTCGCTAAAAACTGACCCGAAAAG-TTTTTTCTCAATTTTTTGCGAAATATTTAGA
66 TACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATATTTAGA
* * * *
2098 AAGAATATATAATTCAATGTCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCGTTTTTCCA
131 AAAAATATATAATTCAACGCCAAAAAGAGTGAC-GGCTTTTCACGCTTCTAATATCATTTTTCCA
* *
2163 TTTGTTTCAGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTTC-TAAAAATAAATCC
195 TTTG-TTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGC-TCGTAAAAACAAATCC
* * * *
2227 TTATATTCAATGTGGATGACATTTGGTTCCATGAATAAAGACATTTCAAGGAGTCTTTTTGC-
258 TTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGCA
* * * *
2289 AAAAATCCTGCAAAATTGAGCCGGCACTCCGGAACGCGTTTTTAGACAAAATCTGTGATGGTTAG
1 AAAAATCCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAG
*
2354 TACACCGATTT-CGCCTAAAATTTTGCAAAAACTGACCCGAAAAG-TTTTTCCTCAATTTGTTTT
66 TACA-CGATTTCCG-C--------T--AAAAACTGACCCGAAAAGTTTTTTTCTCAA-TT-TTTT
* * * * * * * * * *
2417 TCCATAATACTCAGAAAAAATATATAATTTAACGCCAAAAA-ATTAAAGGATTTTTCATGCTTCT
117 GCGA-AATATTTAGAAAAAATATATAATTCAACGCCAAAAAGAGTGACGG-CTTTTCACGCTTCT
* * *
2481 AATATCATTTTTCCTTTTTTTTCCGAATT--TGTTCTAATTAAATCGAAACAAAGATTGAGATGC
180 AATATCATTTTTCC-ATTTGTTCCGAATTAAT-TTCTAATTAAATCAAAAC-AAGATTGAGATGC
* * * * * * * *
2544 TCGTAAAAACAAATTCTTAAATCCATTGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAA
242 TCGTAAAAACAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAA
* *
2609 GGAGTCTTTCTGCC
307 GGAGTCTTTGTGCA
* * ** * * * * * *
2623 AAAATTCATTTAGAACTAAGCC-GTGA-TCCGAAACGCGTTTTTAGTCAAAAACCGT-A-----A
1 AAAAATCCTGCAAAATTGAGCCAG-CACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA
* * * *
2680 CGTACACGATTTCAGCTAAAAACTGACCCGAAATGTTTTTTTCTCAATTTTTTGCGATATATTCA
65 -GTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATATTTA
* * * *
2745 -AAAACAATTAAATAATTCAACGCCAAAAAGATTGACGGCCTTTTGACACTTCTAATATCATTTT
129 GAAAA-AA-TATATAATTCAACGCCAAAAAGAGTGACGG-CTTTTCACGCTTCTAATATCATTTT
* * * * *
2809 TCCATTGTTTTTTTTCCGAATTAATTTCTAAATAAATCTAAACAAGATTCAGATGCTGGTAAAAA
191 TCCA-----TTTGTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAA
** * * * * *
2874 CAAATTTTTATATACAATGTGAATGAGATTTGGTTCGATGAATATAGATCA-TTCAAAGAGTCTT
251 CAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGAT-ATTTCAAGGAGTCTT
* *
2938 TGCGCC
315 TGTGCA
* * * *
2944 AAAAATCATGCAAAATTGAGCCGAG-ACTCTGGAACGCGTTTTTAGGCAAAAAACTGTGATGGTT
1 AAAAATCCTGCAAAATTGAGCC-AGCACTCCGGAACGCGTTTTTA-GCCAAAAACCGTGATGGTT
* * *
3008 AGTGCACGATTTCCGCTAAAAACTGGCCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATAATTA
64 AGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATATTTA
* * *
3073 GAAAAAATATATGATTCAATGTCAAAAAGAGTGACAGGCTTTTCACGCTT-TCAATATCATTTTT
129 GAAAAAATATATAATTCAACGCCAAAAAGAGTGAC-GGCTTTTCACGCTTCT-AATATCATTTTT
* *
3137 CCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAATTAAGATTGAGATGCTCGTAAAAAGAAA
192 CCATTTG-TTCCGAATTAATTTCTAATTAAATCAAAA-CAAGATTGAGATGCTCGTAAAAACAAA
* *
3202 TCCTTATATCCAATGTGGATGACATTTGCTTCGATGAATAAAGATATTTCAAGGAGTCATTGTGC
255 TCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGC
3267 A
320 A
* * * *
3268 AAAAAACCTGCAAAATTGAGCCAGCACTCTGGAACGTGTTTTTAGCCAAAAACCGTGATTGTTAG
1 AAAAATCCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAG
* * * * ** *
3333 TACATGATTTCGGCTAAAAACTGACCCGAAAAGTTTATTTCTCAATTTTTTGCAAAATACTCAAA
66 TACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATA-TTTAG
* * * *
3398 AAAAAATATATAATTTAACGCCAAAAAGATTGACGGCCTTTTGACGCTTCTAATATCGTTTTTCC
130 AAAAAATATATAATTCAACGCCAAAAAGAGTGACGG-CTTTTCACGCTTCTAATATCATTTTTCC
* * * * *
3463 ATTGTTTTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACTAGATTTAGATGCTCATAAAAAC
194 A-------TTTGTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAAC
* * * * * * * *
3528 AAAT-TTTATATACAATGTGGCTGAGATTTGGTTTGATGAATATAGATAATTCAAAGAGTCTTTG
252 AAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTG
* *
3592 CGCC
317 TGCA
* * * *
3596 AAAAATCATGCAAAACTGAGCCGAG-ACTCCGGAACGCGTTTTTAGGCAAAAAAACCAAATCG-T
1 AAAAATCCTGCAAAATTGAGCC-AGCACTCCGGAACGCGTTTTTA-GC-CAAAAACC--GT-GAT
** ** * * *
3659 TTTTTCTCAAACCATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGTAAT
60 GGTTAGT-ACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAAT
* *
3724 ATTTAGAAAAAATATATAATTCAATGTCAAAAAGAGTGACGGGCTTTTCACGCTT-TCAATATCA
124 ATTTAGAAAAAATATATAATTCAACGCCAAAAAGAGTGAC-GGCTTTTCACGCTTCT-AATATCA
3788 TTTTTCCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAA
187 TTTTTCCATTTG-TTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAA
*
3853 GAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTT
251 CAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTT
3906 GATTGAGCCA
Statistics
Matches: 3056, Mismatches: 383, Indels: 257
0.83 0.10 0.07
Matches are distributed among these distances:
314 4 0.00
315 8 0.00
316 25 0.01
317 49 0.02
318 10 0.00
319 1 0.00
320 144 0.05
321 349 0.11
322 432 0.14
323 286 0.09
324 354 0.12
325 126 0.04
326 90 0.03
327 191 0.06
328 193 0.06
329 39 0.01
330 38 0.01
331 60 0.02
332 89 0.03
333 257 0.08
334 288 0.09
335 17 0.01
336 6 0.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (320 bp):
AAAAATCCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAG
TACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCGAAATATTTAGA
AAAAATATATAATTCAACGCCAAAAAGAGTGACGGCTTTTCACGCTTCTAATATCATTTTTCCAT
TTGTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTA
TATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGCA
Found at i:2024 original size:655 final size:643
Alignment explanation
Indices: 4--3905 Score: 4364
Period size: 654 Copynumber: 6.0 Consensus size: 643
1 TTT
* * * *
4 TGCAAAAATACCTGCAAAATTGAGCCGGCACTCCGGAACGCGTTTTTAGACAAAATCTGTGATGG
1 TGCAAAAAAACCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAG-CAAAAACCGTGATGG
* *
69 TTAGTACACCGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAG-TTTTCCTCAATTTTTT
65 TTAGTACA-CGATTTCCGC--------T--AAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTT
* * * * * ** *
133 TGCCATAATACTCAGAAAAAATATATAATTTAACGCCAAAAA-A-TTAAAGGATTTTCACGCTTC
118 TGCGA-AATATTTAGAAAAAATATATAATTCAACGCCAAAAAGAGTGACGGGCTTTTCACGCTTC
* * ** *
196 TATTATCATTTTTCCTTTTGTTTTTCCGAATTTGTTTTCTAATTAAATCGAAACAAAGATTGAGA
182 TAATATCATTTTTCCATTTG--TTTCCGAA-TTAATTTCTAATTAAATCAAAAC-AAGATTGAGA
* * * * * * * * *
261 TGCTCGTAAAAACAAATTCTTAAATCCATTGTGGCTGAGATTTTGTTAGATGAATATAGATATTT
243 TGCTCGTAAAAACAAATCCTTATATACAATGTGGATGACATTTGGTTCGATGAATAAAGATATTT
* ** * * * * *
326 CAAGGAGTCTTTCTGCCAAAAATCATTTAAAACTGAGCCGTGA-TCCGAAACGCGTTTTTAGCCT
308 CAAGGAGTCTTTGTGCCAAAAATCATGCAAAATTGAGCCGAGACTCCGGAACGCGTTTTTAGACA
* * *
390 AAAACTGTGACGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAATG-TTTTTTCTCAATTT
373 AAAACTGTGATGGTTAGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTT
* * * * *
454 TTTGCGAT-ATATTCA-AAAACAAT-TAACTAATTCAACGCCAAAAAGATTGACGGCCTTTTGAC
438 TTTGCCATAATATTCAGAAAA-AATAT-A-TAATTCAACGCCAAAAAGATTAAAGGACTTTTCAC
* * * * * *
516 ACTTCTAATATCGTTTTTCCATTGTTTTTTTTTCGAATTAATTTCTAAATAAATCTAAACAAGAT
500 GCTTCTAATATCATTTTTCCA----TTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGAT
* * * ** * * * *
581 TCAGATGCTCATAAAAACAAATTTTTATATACAATGTGGCTGAGATTTGGTTCGATGAATATAGA
561 TGAGATGCTCGTAAAAAGAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGA
*
646 TCA-TTCAAAGAGTCTTTG
626 T-ATTTCAAGGAGTCTTTG
* * * * * *
664 CGCCAACAATCATGCAAAATTGAGCCGAG-ACTCCGGAACGCGTTTTTAGGCAAAAAACTGTGAT
1 TGCAAAAAAACCTGCAAAATTGAGCC-AGCACTCCGGAACGCGTTTTTA-GC-AAAAACCGTGAT
* **
728 GGTTAGTACACGATTTCCGCTAAAAACTGACCCGAAACGTTTTTTCTCAATTTTTTTTTGAAATA
63 GGTTAGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTCTCAA-TTTTTTGCGAAATA
* * ** * *
793 ATTAGAAAAAATATATAATTCAATGTGAAAAAGAGTGACAGGCTTTTCACGCTTTCTAATATCGT
127 TTTAGAAAAAATATATAATTCAACGCCAAAAAGAGTGACGGGCTTTTCACGC-TTCTAATATCAT
* *
858 TTTTCCATTTGTTCCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAAG
191 TTTTCCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAAC
*
923 AAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTG
256 AAATCCTTATATACAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTG
* * * * * * *
988 TGCAAAAAAACCTGCAAAATTGAGCC-AGCACTCCGGAACGTGTTTTTAGCCAAAAACCGTGATT
321 TGCCAAAAATCATGCAAAATTGAGCCGAG-ACTCCGGAACGCGTTTTTAGACAAAAACTGTGATG
* *
1052 GTTAGTACACGATTTCCGCTAAAAACTGACCCCAAAAGTTTTTTTCTCAATTTTTTGCGA-AATA
385 GTTAGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCCATAATA
* * * * * * * *
1116 TTTAGAAAAAACATATAATTCAATGTCAAAAAGAGT-GACGAGCTTTTCACGCTTCTAATATCGT
450 TTCAGAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGA-CTTTTCACGCTTCTAATATCAT
1180 TTTTCCATTTG-TTCCGGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAA
514 TTTTCCATTTGTTTCC-GAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAA
* *
1244 TAAATCCTTATATCCAATGTGGATGACATTTGGTTCGTTGAATAAAGATATTTCAAGGAGTCTTT
578 GAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTT
1309 G
643 G
* * * *
1310 TGCAAAAAAACCTGCAAAATTGAGCCGGCACTCAGGAACGCGTTTTTTGCCATAAACCGTGATGG
1 TGCAAAAAAACCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAG-CAAAAACCGTGATGG
* *
1375 TTAGTACACGATTTCCGCTAAAAACTGATCCGAAAAGTTTTTTTCTCTATTTTTTGCGAAATATT
65 TTAGTACACGATTTCCGCTAAAAACTGACCCGAAAAG-TTTTTTCTCAATTTTTTGCGAAATATT
* *
1440 TAGAAAAAATATATAATTCAATGTCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCATTTT
129 TAGAAAAAATATATAATTCAACGCCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCATTTT
*
1505 TCCATTTGTTTCAGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAA-AAA
194 TCCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAACAAA
* * *
1569 TCCTTATATTCAATGTGGATGACATTTGGTTCCATGAATAAAGATATTTCAAGGAGGCTTTGTGC
259 TCCTTATATACAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGC
* * * * *
1634 AAAAAATCCTGCAAAATTGAGTCG-GCACTCCGGAACGCCTTTTTAGACAAAATCTGTGATGGTT
324 CAAAAATCATGCAAAATTGAGCCGAG-ACTCCGGAACGCGTTTTTAGACAAAAACTGTGATGGTT
* *
1698 AGTACACCGATTTCGGCTAAAATTTGCAAAAACTGACCCGAAAAGTTTTTTCCTCAATTTTTTTT
388 AGTACA-CGATTTCCGC-------T--AAAAACTGACCCGAAAAGTTTTTTTCTCAA--TTTTTT
* * *
1763 GCCATAATACTCAGAAAAAATATATAATTTAACGCCAAAAA-ATTAAAGGATTTTTCACGCTTCT
441 GCCATAATATTCAGAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGACTTTTCACGCTTCT
* **
1827 AATATCATTTTTCCTTTTGTTTTCCGAATTTGTTTCTAATTAAATCAAAACAAGATTGAGATGCT
506 AATATCATTTTTCCATTTG-TTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCT
*
1892 CGTAAAAAGAAAT-CTTATATCCAATGTGGATGACATTTGGTTCAATGAATAAAGATATTTCAAG
570 CGTAAAAAGAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAG
1956 GAGTCTTTG
635 GAGTCTTTG
* *
1965 TGCAAAAAAACCTGCAAAATTGAGCCAGCACTCCGGAACGTGTTTTTAGCGAAAAACCGTGATTG
1 TGCAAAAAAACCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGC-AAAAACCGTGATGG
*
2030 TTAGTACACGATTTTCGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTTTTGCGAAATATTT
65 TTAGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTTTTGCGAAATATTT
* * * *
2095 AGAAAGAATATATAATTCAATGTCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCGTTTTT
130 AGAAAAAATATATAATTCAACGCCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCATTTTT
* *
2160 CCATTTGTTTCAGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTTC-TAAAAATAAA
195 CCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGC-TCGTAAAAACAAA
* * * *
2224 TCCTTATATTCAATGTGGATGACATTTGGTTCCATGAATAAAGACATTTCAAGGAGTCTTTTTG-
259 TCCTTATATACAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGC
* *
2288 CAAAAATCCTGCAAAATTGAGCCG-GCACTCCGGAACGCGTTTTTAGACAAAATCTGTGATGGTT
324 CAAAAATCATGCAAAATTGAGCCGAG-ACTCCGGAACGCGTTTTTAGACAAAAACTGTGATGGTT
*
2352 AGTACACCGATTT-CGCCTAAAATTTTGCAAAAACTGACCCGAAAAG-TTTTTCCTCAATTTGTT
388 AGTACA-CGATTTCCG-C--------T--AAAAACTGACCCGAAAAGTTTTTTTCTCAA-TT-TT
* * * * *
2415 TTTCCATAATACTCAGAAAAAATATATAATTTAACGCCAAAAA-ATTAAAGGATTTTTCATGCTT
439 TTGCCATAATATTCAGAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGACTTTTCACGCTT
* * *
2479 CTAATATCATTTTTCCTTTTTTTTCCGAATT--TGTTCTAATTAAATCGAAACAAAGATTGAGAT
504 CTAATATCATTTTTCCATTTGTTTCCGAATTAAT-TTCTAATTAAATCAAAAC-AAGATTGAGAT
* * * * * * * * *
2542 GCTCGTAAAAACAAATTCTTAAATCCATTGTGGCTGAGATTTTGTTAGATGAATATAGATATTTC
567 GCTCGTAAAAAGAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTC
*
2607 AAGGAGTCTTTC
632 AAGGAGTCTTTG
* ** * ** * * * * *
2619 TGCCAAAATTCATTTAGAACTAAGCC-GTGA-TCCGAAACGCGTTTTTAGTCAAAAACCGT-A--
1 TGCAAAAAAACCTGCAAAATTGAGCCAG-CACTCCGGAACGCGTTTTTAG-CAAAAACCGTGATG
* * *
2679 ---ACGTACACGATTTCAGCTAAAAACTGACCCGAAATGTTTTTTTCTCAATTTTTTGCGATATA
64 GTTA-GTACACGATTTCCGCTAAAAACTGACCCGAAAAG-TTTTTTCTCAATTTTTTGCGAAATA
* * * * * *
2741 TTCA-AAAACAATTAAATAATTCAACGCCAAAAAGATTGACGGCCTTTTGACACTTCTAATATCA
127 TTTAGAAAA-AA-TATATAATTCAACGCCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCA
* * * * *
2805 TTTTTCCATTGTTTTTTTTCCGAATTAATTTCTAAATAAATCTAAACAAGATTCAGATGCTGGTA
190 TTTTTCCA----TTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTA
** * * * *
2870 AAAACAAATTTTTATATACAATGTGAATGAGATTTGGTTCGATGAATATAGATCA-TTCAAAGAG
251 AAAACAAATCCTTATATACAATGTGGATGACATTTGGTTCGATGAATAAAGAT-ATTTCAAGGAG
* * *
2934 TCTTTGCGCCAAAAATCATGCAAAATTGAGCCGAGACTCTGGAACGCGTTTTTAGGCAAAAAACT
315 TCTTTGTGCCAAAAATCATGCAAAATTGAGCCGAGACTCCGGAACGCGTTTTTAGAC-AAAAACT
* * *
2999 GTGATGGTTAGTGCACGATTTCCGCTAAAAACTGGCCCGAAAAGTTTTTTTCTCAATTTTTTGCG
379 GTGATGGTTAGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCC
* * * * *
3064 A-AATAATT-AGAAAAAATATATGATTCAATGTCAAAAAGAGTGACAGG-CTTTTCACGCTT-TC
444 ATAAT-ATTCAGAAAAAATATATAATTCAACGCCAAAAAGA-TTAAAGGACTTTTCACGCTTCT-
*
3125 AATATCATTTTTCCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAATTAAGATTGAGATGCT
506 AATATCATTTTTCCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAA-CAAGATTGAGATGCT
*
3190 CGTAAAAAGAAATCCTTATATCCAATGTGGATGACATTTGCTTCGATGAATAAAGATATTTCAAG
570 CGTAAAAAGAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAG
*
3255 GAGTCATTG
635 GAGTCTTTG
* * *
3264 TGCAAAAAAACCTGCAAAATTGAGCCAGCACTCTGGAACGTGTTTTTAGCCAAAAACCGTGATTG
1 TGCAAAAAAACCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAG-CAAAAACCGTGATGG
* * *
3329 TTAGTACATGATTTCGGCTAAAAACTGACCCGAAAAGTTTATTTCTCAATTTTTTGCAAAATACT
65 TTAGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTT-TTTCTCAATTTTTTGCGAAATA-T
** * * * * * *
3394 CAAAAAAAAATATATAATTTAACGCCAAAAAGATTGACGGCCTTTTGACGCTTCTAATATCGTTT
128 TTAGAAAAAATATATAATTCAACGCCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCATTT
* * * * *
3459 TTCCATTGTTTTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACTAGATTTAGATGCTCATAA
193 TTCCA------TTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAA
* * * * * * *
3524 AAACAAAT-TTTATATACAATGTGGCTGAGATTTGGTTTGATGAATATAGATAATTCAAAGAGTC
252 AAACAAATCCTTATATACAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTC
* * *
3588 TTTGCGCCAAAAATCATGCAAAACTGAGCCGAGACTCCGGAACGCGTTTTTAGGCAAAAAAACCA
317 TTTGTGCCAAAAATCATGCAAAATTGAGCCGAGACTCCGGAACGCGTTTTTA-G-ACAAAAA-C-
** ** ** * *
3653 AATCG-TTTTTTCTCAAACCATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTT
378 TGT-GATGGTTAGT-ACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTT
* * * * * * * *
3717 G-CGTAATATTTAGAAAAAATATATAATTCAATGTCAAAAAGAGTGACGGGCTTTTCACGCTT-T
441 GCCATAATATTCAGAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGACTTTTCACGCTTCT
3780 CAATATCATTTTTCCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCT
506 -AATATCATTTTTCCATTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCT
3845 CGTAAAAAGAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTT
570 CGTAAAAAGAAATCCTTATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTT
3906 GATTGAGCCA
Statistics
Matches: 2843, Mismatches: 307, Indels: 189
0.85 0.09 0.06
Matches are distributed among these distances:
643 155 0.05
644 128 0.05
645 248 0.09
646 188 0.07
647 3 0.00
648 35 0.01
649 129 0.05
650 229 0.08
651 165 0.06
652 144 0.05
653 183 0.06
654 492 0.17
655 418 0.15
656 250 0.09
657 4 0.00
660 49 0.02
661 23 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (643 bp):
TGCAAAAAAACCTGCAAAATTGAGCCAGCACTCCGGAACGCGTTTTTAGCAAAAACCGTGATGGT
TAGTACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTTTTGCGAAATATTTA
GAAAAAATATATAATTCAACGCCAAAAAGAGTGACGGGCTTTTCACGCTTCTAATATCATTTTTC
CATTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAACAAATC
CTTATATACAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTGTGCCA
AAAATCATGCAAAATTGAGCCGAGACTCCGGAACGCGTTTTTAGACAAAAACTGTGATGGTTAGT
ACACGATTTCCGCTAAAAACTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCCATAATATTCAGA
AAAAATATATAATTCAACGCCAAAAAGATTAAAGGACTTTTCACGCTTCTAATATCATTTTTCCA
TTTGTTTCCGAATTAATTTCTAATTAAATCAAAACAAGATTGAGATGCTCGTAAAAAGAAATCCT
TATATCCAATGTGGATGACATTTGGTTCGATGAATAAAGATATTTCAAGGAGTCTTTG
Done.