miRNA display CGI


Results 1 - 20 of 67 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
18049 3' -53.1 NC_004680.1 + 1153 1.13 0.00096
Target:  5'- cACAGCAACAGCGAACCCAUCCUCACCa -3'
miRNA:   3'- -UGUCGUUGUCGCUUGGGUAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 2937 0.81 0.141624
Target:  5'- cCGGCGGCGGCGAACCgGUCacuacagcaUCACCa -3'
miRNA:   3'- uGUCGUUGUCGCUUGGgUAGg--------AGUGG- -5'
18049 3' -53.1 NC_004680.1 + 14428 0.81 0.148537
Target:  5'- uCGGCAGCAGCGGACCaaacuccacauacuCAUCCgCGCCg -3'
miRNA:   3'- uGUCGUUGUCGCUUGG--------------GUAGGaGUGG- -5'
18049 3' -53.1 NC_004680.1 + 27270 0.8 0.162387
Target:  5'- gGCGGCGGCGGCGAcgcugccGCCgAgaaCCUCGCCa -3'
miRNA:   3'- -UGUCGUUGUCGCU-------UGGgUa--GGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 51603 0.8 0.167411
Target:  5'- gGCGGCGugcGCcuuGGCGAuccGCUCAUCCUCGCCg -3'
miRNA:   3'- -UGUCGU---UG---UCGCU---UGGGUAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 44219 0.76 0.298868
Target:  5'- cGCAGCAGCAGCGAgaagagcggcaGCCaguucgcgggCCUCAUCg -3'
miRNA:   3'- -UGUCGUUGUCGCU-----------UGGgua-------GGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 41429 0.76 0.315848
Target:  5'- -gAGuCGACAGCGAACgcgacgCCAUCgUCACCg -3'
miRNA:   3'- ugUC-GUUGUCGCUUG------GGUAGgAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 9697 0.75 0.331091
Target:  5'- cGCAGCAGCAGCuu-CCUuggugacGUUCUCGCCg -3'
miRNA:   3'- -UGUCGUUGUCGcuuGGG-------UAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 56238 0.73 0.440401
Target:  5'- cCAGCcGCGuCGAAguuCUCAUCCUCACCg -3'
miRNA:   3'- uGUCGuUGUcGCUU---GGGUAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 8226 0.73 0.465432
Target:  5'- uACAGCAGCAGCaacugguacuccgccGAAUCCGcguccagcagcggacCCUCACCa -3'
miRNA:   3'- -UGUCGUUGUCG---------------CUUGGGUa--------------GGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 34696 0.72 0.470527
Target:  5'- gACGGCGagcACAGCGAGCgCGgugaCCaUCACCu -3'
miRNA:   3'- -UGUCGU---UGUCGCUUGgGUa---GG-AGUGG- -5'
18049 3' -53.1 NC_004680.1 + 14510 0.72 0.480801
Target:  5'- uGCGGCGACGGCGGcACagacgucaaAUCCUgCACCa -3'
miRNA:   3'- -UGUCGUUGUCGCU-UGgg-------UAGGA-GUGG- -5'
18049 3' -53.1 NC_004680.1 + 43637 0.72 0.491182
Target:  5'- aGCAGCGGCAGCGuuCCCggCC--GCCc -3'
miRNA:   3'- -UGUCGUUGUCGCuuGGGuaGGagUGG- -5'
18049 3' -53.1 NC_004680.1 + 46938 0.72 0.500614
Target:  5'- aACAGCAuCAGCGGgugaaucACCCcaGUCUUgGCCa -3'
miRNA:   3'- -UGUCGUuGUCGCU-------UGGG--UAGGAgUGG- -5'
18049 3' -53.1 NC_004680.1 + 22761 0.72 0.512248
Target:  5'- gGCGGCGACGGCccccACCCAcCCgaaGCCg -3'
miRNA:   3'- -UGUCGUUGUCGcu--UGGGUaGGag-UGG- -5'
18049 3' -53.1 NC_004680.1 + 27219 0.71 0.52292
Target:  5'- aACAGCGcccGCAGCGGcaaGCCCAccauguuccugaUCCaCACCc -3'
miRNA:   3'- -UGUCGU---UGUCGCU---UGGGU------------AGGaGUGG- -5'
18049 3' -53.1 NC_004680.1 + 49865 0.71 0.533677
Target:  5'- cCAGC-GCAGCGAGgaUGUCUUCGCCa -3'
miRNA:   3'- uGUCGuUGUCGCUUggGUAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 27429 0.71 0.555416
Target:  5'- aACAGCAuCAGCaucAACCUGUgCUUCGCCg -3'
miRNA:   3'- -UGUCGUuGUCGc--UUGGGUA-GGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 8774 0.7 0.574095
Target:  5'- gACGGCAACgagaugguccugccGGCGGagACCCGUCCcggCGCg -3'
miRNA:   3'- -UGUCGUUG--------------UCGCU--UGGGUAGGa--GUGg -5'
18049 3' -53.1 NC_004680.1 + 55435 0.7 0.577407
Target:  5'- -aAGCAcucgccGCGGCGAucACCCAaaacuaugugaUCCUCACa -3'
miRNA:   3'- ugUCGU------UGUCGCU--UGGGU-----------AGGAGUGg -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.