miRNA display CGI


Results 1 - 20 of 33 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
28064 3' -53.9 NC_005887.1 + 37319 0.66 0.725418
Target:  5'- uCGGUCGucGCA---GCA-GCGCCGGCa- -3'
miRNA:   3'- -GCCAGC--UGUucaUGUaCGCGGUCGag -5'
28064 3' -53.9 NC_005887.1 + 11605 0.66 0.714386
Target:  5'- uCGGcgcUCGACAcgcaGGUGCAgagcgUGCGCaaugccgAGCUCg -3'
miRNA:   3'- -GCC---AGCUGU----UCAUGU-----ACGCGg------UCGAG- -5'
28064 3' -53.9 NC_005887.1 + 5110 0.66 0.703267
Target:  5'- uGGaCGACgAGGUGCu--CGCCaAGCUCg -3'
miRNA:   3'- gCCaGCUG-UUCAUGuacGCGG-UCGAG- -5'
28064 3' -53.9 NC_005887.1 + 18794 0.66 0.703267
Target:  5'- cCGGcCGGCGA-UGCGggcgGCGUCAGCg- -3'
miRNA:   3'- -GCCaGCUGUUcAUGUa---CGCGGUCGag -5'
28064 3' -53.9 NC_005887.1 + 6180 0.66 0.692073
Target:  5'- cCGGUCGGCAcGGUGac-GCGCC-GCg- -3'
miRNA:   3'- -GCCAGCUGU-UCAUguaCGCGGuCGag -5'
28064 3' -53.9 NC_005887.1 + 16122 0.66 0.692073
Target:  5'- gCGGaUCGGacc---CGUGCGCCAGCUg -3'
miRNA:   3'- -GCC-AGCUguucauGUACGCGGUCGAg -5'
28064 3' -53.9 NC_005887.1 + 14084 0.66 0.692073
Target:  5'- cCGGUCGAUucgcuGUACGccgaccagacCGCCAGCUUu -3'
miRNA:   3'- -GCCAGCUGuu---CAUGUac--------GCGGUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 15719 0.66 0.680818
Target:  5'- cCGG-CGugAAGgaGCugacGCGCCAGCUg -3'
miRNA:   3'- -GCCaGCugUUCa-UGua--CGCGGUCGAg -5'
28064 3' -53.9 NC_005887.1 + 21728 0.66 0.669513
Target:  5'- gGGaUUGGgAGGUGucuggUAUGUGCCAGUUCa -3'
miRNA:   3'- gCC-AGCUgUUCAU-----GUACGCGGUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 23252 0.66 0.669513
Target:  5'- gCGGUCGGCGc--GCAaaagGCGC-AGCUCg -3'
miRNA:   3'- -GCCAGCUGUucaUGUa---CGCGgUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 36540 0.66 0.66838
Target:  5'- aGGUauuucgcgaauucCGGCAGGcguuCGUGCGCCuGCUUc -3'
miRNA:   3'- gCCA-------------GCUGUUCau--GUACGCGGuCGAG- -5'
28064 3' -53.9 NC_005887.1 + 40279 0.67 0.65817
Target:  5'- uGGcCGGCAAGU-CG-GUGCC-GCUCg -3'
miRNA:   3'- gCCaGCUGUUCAuGUaCGCGGuCGAG- -5'
28064 3' -53.9 NC_005887.1 + 19527 0.67 0.646802
Target:  5'- cCGGUUGAgCAcGUucGgAUGCGCCgcguAGCUCg -3'
miRNA:   3'- -GCCAGCU-GUuCA--UgUACGCGG----UCGAG- -5'
28064 3' -53.9 NC_005887.1 + 18547 0.67 0.646802
Target:  5'- uCGGUgGGCG---GCG-GCGCCGGCUUc -3'
miRNA:   3'- -GCCAgCUGUucaUGUaCGCGGUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 8081 0.67 0.624033
Target:  5'- uGGUCGuucACGAaaGCGcGCGCgCAGCUCg -3'
miRNA:   3'- gCCAGC---UGUUcaUGUaCGCG-GUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 32175 0.67 0.620618
Target:  5'- aGGUCGGCGcucagcgaugagccAGUGCcaGUGCGgCCAgaggugccGCUCg -3'
miRNA:   3'- gCCAGCUGU--------------UCAUG--UACGC-GGU--------CGAG- -5'
28064 3' -53.9 NC_005887.1 + 1405 0.67 0.612655
Target:  5'- gCGGUCGA-----GCAUGCGCuCGGCg- -3'
miRNA:   3'- -GCCAGCUguucaUGUACGCG-GUCGag -5'
28064 3' -53.9 NC_005887.1 + 31442 0.68 0.589962
Target:  5'- cCGGcCGACGu---CAucUGCGCCGGCUg -3'
miRNA:   3'- -GCCaGCUGUucauGU--ACGCGGUCGAg -5'
28064 3' -53.9 NC_005887.1 + 39700 0.68 0.578668
Target:  5'- gGGUCGguaucGCGAGUGCccGCcGCCAcCUCa -3'
miRNA:   3'- gCCAGC-----UGUUCAUGuaCG-CGGUcGAG- -5'
28064 3' -53.9 NC_005887.1 + 18399 0.68 0.578668
Target:  5'- aGGUCGuc-GGUGCGUGCGCagaCGGC-Cg -3'
miRNA:   3'- gCCAGCuguUCAUGUACGCG---GUCGaG- -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.