miRNA display CGI


Results 1 - 20 of 42 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
16092 3' -56.4 NC_004065.1 + 109304 1.06 0.005495
Target:  5'- gAACGAUCCCCCCAUCUCCUACUCCACc -3'
miRNA:   3'- -UUGCUAGGGGGGUAGAGGAUGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 62530 0.67 0.911733
Target:  5'- gAGgGAaugCCCCCCAUUUCC---UCCGCa -3'
miRNA:   3'- -UUgCUa--GGGGGGUAGAGGaugAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 52366 0.67 0.917468
Target:  5'- uAUGuGUCCCCcguCCGUCUCCggUUCCACu -3'
miRNA:   3'- uUGC-UAGGGG---GGUAGAGGauGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 32297 0.66 0.922434
Target:  5'- -uCGGUCUCCUCGUCggagcccgacgaaUCCUugUCCGa -3'
miRNA:   3'- uuGCUAGGGGGGUAG-------------AGGAugAGGUg -5'
16092 3' -56.4 NC_004065.1 + 190039 0.66 0.922974
Target:  5'- cGCGAUUCUCCUGUCcCCU-CUCuCACa -3'
miRNA:   3'- uUGCUAGGGGGGUAGaGGAuGAG-GUG- -5'
16092 3' -56.4 NC_004065.1 + 47780 0.66 0.933295
Target:  5'- cGACGAggagCCCCUCgAUCUCCU-CgggCCAg -3'
miRNA:   3'- -UUGCUa---GGGGGG-UAGAGGAuGa--GGUg -5'
16092 3' -56.4 NC_004065.1 + 142875 0.66 0.933295
Target:  5'- gGACGA--CCCCgGUCUCCagaGCUUCGCc -3'
miRNA:   3'- -UUGCUagGGGGgUAGAGGa--UGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 50513 0.66 0.938111
Target:  5'- gGGCG-UCCCCUCGUucCUUCUGCUCgaaGCa -3'
miRNA:   3'- -UUGCuAGGGGGGUA--GAGGAUGAGg--UG- -5'
16092 3' -56.4 NC_004065.1 + 96949 0.66 0.942698
Target:  5'- uGCGccUCUCCCCGUCUgcugccgcgCCUGCUgCGCc -3'
miRNA:   3'- uUGCu-AGGGGGGUAGA---------GGAUGAgGUG- -5'
16092 3' -56.4 NC_004065.1 + 146450 0.67 0.893169
Target:  5'- -cCGGcuUCCCCgCCGUCgccgUCUACUCCGu -3'
miRNA:   3'- uuGCU--AGGGG-GGUAGa---GGAUGAGGUg -5'
16092 3' -56.4 NC_004065.1 + 97108 0.68 0.879688
Target:  5'- cGACGGUCUCCUCcucCUCCUcuGCugUCCACa -3'
miRNA:   3'- -UUGCUAGGGGGGua-GAGGA--UG--AGGUG- -5'
16092 3' -56.4 NC_004065.1 + 67688 0.76 0.461997
Target:  5'- cGGCGggCCCUCCAUCUCUUcUUCCGCc -3'
miRNA:   3'- -UUGCuaGGGGGGUAGAGGAuGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 87289 0.75 0.517238
Target:  5'- -cUGAUCgcaauauCCCCCAUaUCCUGCUCCACc -3'
miRNA:   3'- uuGCUAG-------GGGGGUAgAGGAUGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 191491 0.7 0.773495
Target:  5'- cGCGuGUCCCCCCAgguucUCgugCCUcgGCUCCAg -3'
miRNA:   3'- uUGC-UAGGGGGGU-----AGa--GGA--UGAGGUg -5'
16092 3' -56.4 NC_004065.1 + 76165 0.69 0.817714
Target:  5'- aAGCGGUCCUgCCG-CUCCUacACUCC-Ca -3'
miRNA:   3'- -UUGCUAGGGgGGUaGAGGA--UGAGGuG- -5'
16092 3' -56.4 NC_004065.1 + 138883 0.68 0.850221
Target:  5'- -----gCCCCCCGUCUUCUACgaccCCAUc -3'
miRNA:   3'- uugcuaGGGGGGUAGAGGAUGa---GGUG- -5'
16092 3' -56.4 NC_004065.1 + 44703 0.68 0.857888
Target:  5'- gAGCGGuuUCCCCUCGuucUCUCCgcccaagACUCCGa -3'
miRNA:   3'- -UUGCU--AGGGGGGU---AGAGGa------UGAGGUg -5'
16092 3' -56.4 NC_004065.1 + 150073 0.68 0.865358
Target:  5'- -cCGGUCCCgCU-UCUCCaucaGCUCCACg -3'
miRNA:   3'- uuGCUAGGGgGGuAGAGGa---UGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 26387 0.68 0.879688
Target:  5'- gGGCGuuccccAUgCCCCCGcCUCCaACUCCGCc -3'
miRNA:   3'- -UUGC------UAgGGGGGUaGAGGaUGAGGUG- -5'
16092 3' -56.4 NC_004065.1 + 180605 0.66 0.942698
Target:  5'- gGACagucGUCCCUCCGUCUCCggaACgaggauucgCCGCg -3'
miRNA:   3'- -UUGc---UAGGGGGGUAGAGGa--UGa--------GGUG- -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.