miRNA display CGI


Results 1 - 20 of 23 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
2229 5' -60.6 NC_001405.1 + 3942 0.66 0.282285
Target:  5'- gUCGUuucuCAGCAGCUguuggaUCUGCGC-CAGCAg -3'
miRNA:   3'- aAGCG----GUCGUUGG------AGGCGCGcGUCGU- -5'
2229 5' -60.6 NC_001405.1 + 12207 0.66 0.275111
Target:  5'- -gCcCCAGCuGCCUCCaggGCGCGuCGGCu -3'
miRNA:   3'- aaGcGGUCGuUGGAGG---CGCGC-GUCGu -5'
2229 5' -60.6 NC_001405.1 + 33276 0.66 0.268083
Target:  5'- -gCGgCGGCAGCaguuuaUUCGCGCGCugcuGCAg -3'
miRNA:   3'- aaGCgGUCGUUGg-----AGGCGCGCGu---CGU- -5'
2229 5' -60.6 NC_001405.1 + 5463 0.66 0.268083
Target:  5'- -cCG-CGGCGuggcCCUUgGCGCGCAGCu -3'
miRNA:   3'- aaGCgGUCGUu---GGAGgCGCGCGUCGu -5'
2229 5' -60.6 NC_001405.1 + 22654 0.66 0.261202
Target:  5'- gUCGCaguuGgGGCCUCCGCccuGCGCGcGCGa -3'
miRNA:   3'- aAGCGgu--CgUUGGAGGCG---CGCGU-CGU- -5'
2229 5' -60.6 NC_001405.1 + 12664 0.67 0.254464
Target:  5'- --gGCCGuggcGCAGCgUgagCGCGCGCAGCAg -3'
miRNA:   3'- aagCGGU----CGUUGgAg--GCGCGCGUCGU- -5'
2229 5' -60.6 NC_001405.1 + 23214 0.67 0.241419
Target:  5'- cUCGCCuuCGAUCUCa--GCGCAGCGg -3'
miRNA:   3'- aAGCGGucGUUGGAGgcgCGCGUCGU- -5'
2229 5' -60.6 NC_001405.1 + 16402 0.67 0.235107
Target:  5'- cUCgGUUAGCGGCCUgCGCGUGCccguGCGc -3'
miRNA:   3'- aAG-CGGUCGUUGGAgGCGCGCGu---CGU- -5'
2229 5' -60.6 NC_001405.1 + 11482 0.67 0.228935
Target:  5'- -gCGUCgGGCucaaaguCCUCCuCGCGCAGCAa -3'
miRNA:   3'- aaGCGG-UCGuu-----GGAGGcGCGCGUCGU- -5'
2229 5' -60.6 NC_001405.1 + 14895 0.67 0.228935
Target:  5'- -cCGCCugAGCAACUuguugggcaUCCGCaaGCGGCAa -3'
miRNA:   3'- aaGCGG--UCGUUGG---------AGGCGcgCGUCGU- -5'
2229 5' -60.6 NC_001405.1 + 6620 0.68 0.200102
Target:  5'- -gCGCCuGCuGCCaUgCGCGgGCGGCAa -3'
miRNA:   3'- aaGCGGuCGuUGG-AgGCGCgCGUCGU- -5'
2229 5' -60.6 NC_001405.1 + 26438 0.69 0.178867
Target:  5'- aUCGCUA-CAACCUCCGCuccucagGCGCcgccGGCAc -3'
miRNA:   3'- aAGCGGUcGUUGGAGGCG-------CGCG----UCGU- -5'
2229 5' -60.6 NC_001405.1 + 15791 0.69 0.174
Target:  5'- cUCGCUGGacuCCUCCGaugcuguUGCGCAGCGg -3'
miRNA:   3'- aAGCGGUCguuGGAGGC-------GCGCGUCGU- -5'
2229 5' -60.6 NC_001405.1 + 23989 0.69 0.169722
Target:  5'- gUCGCC-GCcGCCUccCCGCGCGCccccaaaaAGCGg -3'
miRNA:   3'- aAGCGGuCGuUGGA--GGCGCGCG--------UCGU- -5'
2229 5' -60.6 NC_001405.1 + 3759 0.69 0.169722
Target:  5'- -aCGCCGuuggagacuGCAGCCUCCGC-CGCcGCu -3'
miRNA:   3'- aaGCGGU---------CGUUGGAGGCGcGCGuCGu -5'
2229 5' -60.6 NC_001405.1 + 4154 0.7 0.151825
Target:  5'- -cCGCUGGUcccgGGCCUaCCGCGCGC-GCAa -3'
miRNA:   3'- aaGCGGUCG----UUGGA-GGCGCGCGuCGU- -5'
2229 5' -60.6 NC_001405.1 + 8703 0.7 0.147627
Target:  5'- ---aCCAGCu-CCUgcCCGCGCGCGGCGc -3'
miRNA:   3'- aagcGGUCGuuGGA--GGCGCGCGUCGU- -5'
2229 5' -60.6 NC_001405.1 + 10881 0.71 0.121089
Target:  5'- uUUCGCuuucCAGCcuAACCgcuuacgCCGCGCGCGGCc -3'
miRNA:   3'- -AAGCG----GUCG--UUGGa------GGCGCGCGUCGu -5'
2229 5' -60.6 NC_001405.1 + 12557 0.72 0.107985
Target:  5'- aUCGCCAGCAcCUUCuCGUGCGUGGgGu -3'
miRNA:   3'- aAGCGGUCGUuGGAG-GCGCGCGUCgU- -5'
2229 5' -60.6 NC_001405.1 + 10787 0.74 0.074038
Target:  5'- -gCGCUAGCuuuuuuGGCCacuggCCGCGCGCGGCGu -3'
miRNA:   3'- aaGCGGUCG------UUGGa----GGCGCGCGUCGU- -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.