miRNA display CGI


Results 1 - 20 of 39 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
16459 3' -53.9 NC_004084.1 + 5740 0.66 0.827705
Target:  5'- uCGAUCGGGaugauCGCCUCGAcGAcGAuCUCc -3'
miRNA:   3'- -GCUAGCUC-----GCGGAGCUaCUcCUuGAG- -5'
16459 3' -53.9 NC_004084.1 + 15398 0.66 0.827705
Target:  5'- aGAguucugaGGGCGUCUCGA-GAGGAuuugAUUCg -3'
miRNA:   3'- gCUag-----CUCGCGGAGCUaCUCCU----UGAG- -5'
16459 3' -53.9 NC_004084.1 + 16099 0.66 0.827705
Target:  5'- aGAcCGAGCGCCUCgcaGAUGAGuauGC-Cg -3'
miRNA:   3'- gCUaGCUCGCGGAG---CUACUCcu-UGaG- -5'
16459 3' -53.9 NC_004084.1 + 16684 0.66 0.826795
Target:  5'- cCGAagCGGG-GCCUCGAcguUGgucgcgaucguccAGGAACUCa -3'
miRNA:   3'- -GCUa-GCUCgCGGAGCU---AC-------------UCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 54247 0.66 0.818516
Target:  5'- gCGAUC-AGCGCCgucggCGAgguUGAGGuagucCUCg -3'
miRNA:   3'- -GCUAGcUCGCGGa----GCU---ACUCCuu---GAG- -5'
16459 3' -53.9 NC_004084.1 + 1728 0.66 0.80913
Target:  5'- gCGAgUCGAGCGUggCguaGAUGAcGAACUCg -3'
miRNA:   3'- -GCU-AGCUCGCG--Gag-CUACUcCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 56314 0.66 0.799557
Target:  5'- -cAUCGAgggcaugucccaGCGCCUCGA-GGGuGACUCg -3'
miRNA:   3'- gcUAGCU------------CGCGGAGCUaCUCcUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 42355 0.66 0.789808
Target:  5'- gGAacUCGAGCGCCaggcCGAgcGGGAGCa- -3'
miRNA:   3'- gCU--AGCUCGCGGa---GCUacUCCUUGag -5'
16459 3' -53.9 NC_004084.1 + 39464 0.66 0.789808
Target:  5'- gGcgCGAGCGCCgaUCGAgGAGGccAACa- -3'
miRNA:   3'- gCuaGCUCGCGG--AGCUaCUCC--UUGag -5'
16459 3' -53.9 NC_004084.1 + 55021 0.66 0.779895
Target:  5'- ---gCGuGCGUCUCGuugugcucGAGGAGCUCc -3'
miRNA:   3'- gcuaGCuCGCGGAGCua------CUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 9920 0.67 0.769827
Target:  5'- aGAcaaGAGCGCCUCGAcGAGc--CUCa -3'
miRNA:   3'- gCUag-CUCGCGGAGCUaCUCcuuGAG- -5'
16459 3' -53.9 NC_004084.1 + 5323 0.67 0.769827
Target:  5'- -cGUCGAGUGCCUCcugGAGGucUUCu -3'
miRNA:   3'- gcUAGCUCGCGGAGcuaCUCCuuGAG- -5'
16459 3' -53.9 NC_004084.1 + 26039 0.67 0.769827
Target:  5'- uCGAUCGAGCGgagcugCUUGAaGAGaAGCUCg -3'
miRNA:   3'- -GCUAGCUCGCg-----GAGCUaCUCcUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 53489 0.67 0.769827
Target:  5'- --cUCGAGCGgcuggagccCCUCGAcguagugcucGAGGAACUCc -3'
miRNA:   3'- gcuAGCUCGC---------GGAGCUa---------CUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 46402 0.67 0.753427
Target:  5'- aCGAUCG-GCGacggCGAaguuguugacgucgcUGGGGAACUCg -3'
miRNA:   3'- -GCUAGCuCGCgga-GCU---------------ACUCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 4976 0.67 0.749275
Target:  5'- ----aGAGCGCCUCGGaaGGGAccuuucgucGCUCg -3'
miRNA:   3'- gcuagCUCGCGGAGCUacUCCU---------UGAG- -5'
16459 3' -53.9 NC_004084.1 + 11406 0.67 0.749275
Target:  5'- uCGAUCGcGaCGuCCUCGA---GGAACUCg -3'
miRNA:   3'- -GCUAGCuC-GC-GGAGCUacuCCUUGAG- -5'
16459 3' -53.9 NC_004084.1 + 36251 0.67 0.738814
Target:  5'- gGGUCGA-CGuCCUCGAgugcgccGAGGcGCUCg -3'
miRNA:   3'- gCUAGCUcGC-GGAGCUa------CUCCuUGAG- -5'
16459 3' -53.9 NC_004084.1 + 18937 0.67 0.728245
Target:  5'- gGAUCGAGgGCCUUGuUGGccuccucaucGGcGCUCg -3'
miRNA:   3'- gCUAGCUCgCGGAGCuACU----------CCuUGAG- -5'
16459 3' -53.9 NC_004084.1 + 583 0.68 0.717579
Target:  5'- -cGUCGAuGUGCUcuUCGGUGAGGAcgccCUCg -3'
miRNA:   3'- gcUAGCU-CGCGG--AGCUACUCCUu---GAG- -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.