miRNA display CGI


Results 1 - 17 of 17 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
11352 3' -52.2 NC_003084.1 + 15405 0.66 0.960418
Target:  5'- uUACGACGCGcgGUACaguuaACCGGUGcuCGCc -3'
miRNA:   3'- cAUGUUGCGCa-CAUG-----UGGUCACc-GUG- -5'
11352 3' -52.2 NC_003084.1 + 105316 0.66 0.952383
Target:  5'- cUGCGAcCGgGUG-AUACCGGagcUGGCACc -3'
miRNA:   3'- cAUGUU-GCgCACaUGUGGUC---ACCGUG- -5'
11352 3' -52.2 NC_003084.1 + 18080 0.66 0.952383
Target:  5'- -gACAAUuCG-GUGCAgCCGGUGGCGu -3'
miRNA:   3'- caUGUUGcGCaCAUGU-GGUCACCGUg -5'
11352 3' -52.2 NC_003084.1 + 12876 0.66 0.947981
Target:  5'- uUGCAgcuACGCaggGUGCGCUGGcuaUGGCGCg -3'
miRNA:   3'- cAUGU---UGCGca-CAUGUGGUC---ACCGUG- -5'
11352 3' -52.2 NC_003084.1 + 49780 0.67 0.927738
Target:  5'- -cGCAACccaaGUugGUACACCAGUGGUgguGCa -3'
miRNA:   3'- caUGUUGcg--CA--CAUGUGGUCACCG---UG- -5'
11352 3' -52.2 NC_003084.1 + 15773 0.67 0.927738
Target:  5'- ---gAACGCGg--ACACCA-UGGCGCg -3'
miRNA:   3'- caugUUGCGCacaUGUGGUcACCGUG- -5'
11352 3' -52.2 NC_003084.1 + 67663 0.67 0.927738
Target:  5'- -cACcGCGaUGUGUGCACCuuaacGGCACa -3'
miRNA:   3'- caUGuUGC-GCACAUGUGGuca--CCGUG- -5'
11352 3' -52.2 NC_003084.1 + 102332 0.67 0.922009
Target:  5'- -cAUAGCGUGUGUcCA-CGGUGGUGCc -3'
miRNA:   3'- caUGUUGCGCACAuGUgGUCACCGUG- -5'
11352 3' -52.2 NC_003084.1 + 67084 0.68 0.909749
Target:  5'- aGUGCugcuGGCGCGUGUACACCcgAGcUGGa-- -3'
miRNA:   3'- -CAUG----UUGCGCACAUGUGG--UC-ACCgug -5'
11352 3' -52.2 NC_003084.1 + 83451 0.68 0.89643
Target:  5'- -aGCAaagcGCGCGUaauguuccaGUAC-UCGGUGGCGCg -3'
miRNA:   3'- caUGU----UGCGCA---------CAUGuGGUCACCGUG- -5'
11352 3' -52.2 NC_003084.1 + 30421 0.69 0.866731
Target:  5'- aUGCGACG-GUGUACaACCuG-GGCGCc -3'
miRNA:   3'- cAUGUUGCgCACAUG-UGGuCaCCGUG- -5'
11352 3' -52.2 NC_003084.1 + 15906 0.69 0.858699
Target:  5'- uUACAGCGCGccauggUGUcCGCguucaGGUGGCGCa -3'
miRNA:   3'- cAUGUUGCGC------ACAuGUGg----UCACCGUG- -5'
11352 3' -52.2 NC_003084.1 + 97777 0.69 0.833256
Target:  5'- -aACGGCGUGaaccGCACCAGUGGUugGCa -3'
miRNA:   3'- caUGUUGCGCaca-UGUGGUCACCG--UG- -5'
11352 3' -52.2 NC_003084.1 + 47469 0.7 0.822549
Target:  5'- cGUACAccaaGCGCGUGcgagagugguucAUGCUGGUGGCGCu -3'
miRNA:   3'- -CAUGU----UGCGCACa-----------UGUGGUCACCGUG- -5'
11352 3' -52.2 NC_003084.1 + 67093 0.7 0.786878
Target:  5'- uGUAC-ACGaa-GUACGCCAGuUGGCGCu -3'
miRNA:   3'- -CAUGuUGCgcaCAUGUGGUC-ACCGUG- -5'
11352 3' -52.2 NC_003084.1 + 64361 0.76 0.471985
Target:  5'- ----uGCGCGUGUACACaaaGGUGGCGa -3'
miRNA:   3'- cauguUGCGCACAUGUGg--UCACCGUg -5'
11352 3' -52.2 NC_003084.1 + 94461 1.1 0.003264
Target:  5'- gGUACAACGCGUGUACACCAGUGGCACa -3'
miRNA:   3'- -CAUGUUGCGCACAUGUGGUCACCGUG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.