miRNA display CGI


Results 1 - 20 of 20 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
16627 3' -41.2 NC_004156.1 + 20917 0.7 1
Target:  5'- cGGUUAAAGAGUUUGuuuACG-CGaCGCa -3'
miRNA:   3'- -CCGAUUUCUUAAACuu-UGUaGUcGCG- -5'
16627 3' -41.2 NC_004156.1 + 150235 0.66 1
Target:  5'- uGGCguagGAGGAgguaGUUUGGGAgG-CAGUGUa -3'
miRNA:   3'- -CCGa---UUUCU----UAAACUUUgUaGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 81168 0.66 1
Target:  5'- -aCUAGGGAcacGUUUGGAu--UCAGCGUc -3'
miRNA:   3'- ccGAUUUCU---UAAACUUuguAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 110238 0.67 1
Target:  5'- aGCUAAAGuuUUUGAucgaguACAUCuuGgGCa -3'
miRNA:   3'- cCGAUUUCuuAAACUu-----UGUAGu-CgCG- -5'
16627 3' -41.2 NC_004156.1 + 42939 0.67 1
Target:  5'- ---cAAGGGAUUgu--GCAUCGGUGCa -3'
miRNA:   3'- ccgaUUUCUUAAacuuUGUAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 58300 0.68 1
Target:  5'- cGCUAAAcguaaagccGAGgcUGAAGCAgcaaAGCGCa -3'
miRNA:   3'- cCGAUUU---------CUUaaACUUUGUag--UCGCG- -5'
16627 3' -41.2 NC_004156.1 + 20484 0.68 1
Target:  5'- cGCUAuGGGucucUUGAAGaguccCAUCAGUGCa -3'
miRNA:   3'- cCGAUuUCUua--AACUUU-----GUAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 81476 0.68 1
Target:  5'- aGGCUAGAGuAGUU---GACGUU-GCGCu -3'
miRNA:   3'- -CCGAUUUC-UUAAacuUUGUAGuCGCG- -5'
16627 3' -41.2 NC_004156.1 + 213556 0.68 1
Target:  5'- gGGCUuguacacguuGAGUgUGAGACAguguUCGGUGCc -3'
miRNA:   3'- -CCGAuuu-------CUUAaACUUUGU----AGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 19576 0.69 1
Target:  5'- uGCUAAAGAGUUgcgu-UAUCAGCa- -3'
miRNA:   3'- cCGAUUUCUUAAacuuuGUAGUCGcg -5'
16627 3' -41.2 NC_004156.1 + 214640 0.66 1
Target:  5'- aGCc-AAGug-UUGAuguAGCAUCAGUGCa -3'
miRNA:   3'- cCGauUUCuuaAACU---UUGUAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 98949 0.67 1
Target:  5'- aGuCUAGGGGAUUUGGugauUCAGUGUa -3'
miRNA:   3'- cC-GAUUUCUUAAACUuuguAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 201543 0.67 1
Target:  5'- -aCUAAAGug---GAAACAUUAGCaGCa -3'
miRNA:   3'- ccGAUUUCuuaaaCUUUGUAGUCG-CG- -5'
16627 3' -41.2 NC_004156.1 + 149303 0.68 1
Target:  5'- uGGCgu-AGAAggUG--GCGUCGGUGUa -3'
miRNA:   3'- -CCGauuUCUUaaACuuUGUAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 141828 0.68 1
Target:  5'- uGC-AAAGAGUaccaaGAguAACAUUAGCGCa -3'
miRNA:   3'- cCGaUUUCUUAaa---CU--UUGUAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 164373 0.69 1
Target:  5'- cGGCgauGGGggUgcUGAAugAUCcAGUGCc -3'
miRNA:   3'- -CCGau-UUCuuAa-ACUUugUAG-UCGCG- -5'
16627 3' -41.2 NC_004156.1 + 127229 0.78 0.998799
Target:  5'- aGUUGAAGAgcaaaaucuuuauaAUcUGAGGCAUCAGCGUc -3'
miRNA:   3'- cCGAUUUCU--------------UAaACUUUGUAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 199253 0.78 0.998618
Target:  5'- aGGUU--GGAGUUUGAaguuGACGUCGGUGUa -3'
miRNA:   3'- -CCGAuuUCUUAAACU----UUGUAGUCGCG- -5'
16627 3' -41.2 NC_004156.1 + 129613 0.81 0.991106
Target:  5'- gGGC-GAAGAGUUUGAGuGCGUCAGCu- -3'
miRNA:   3'- -CCGaUUUCUUAAACUU-UGUAGUCGcg -5'
16627 3' -41.2 NC_004156.1 + 11439 1.2 0.034752
Target:  5'- aGGCUAAAGAAUUUGAAACAUCAGCGCg -3'
miRNA:   3'- -CCGAUUUCUUAAACUUUGUAGUCGCG- -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.