miRNA display CGI


Results 1 - 16 of 16 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
22237 3' -53.9 NC_005045.1 + 35919 0.66 0.683437
Target:  5'- --aGCGAGGUUcgcgguguugaUGCcuuccugCACAGCGUACa -3'
miRNA:   3'- ccgCGUUCCAA-----------ACGa------GUGUCGCGUGc -5'
22237 3' -53.9 NC_005045.1 + 41439 0.66 0.683437
Target:  5'- cGGCcaGCGAGGUacUGCUCGCGGgUGUuCGc -3'
miRNA:   3'- -CCG--CGUUCCAa-ACGAGUGUC-GCGuGC- -5'
22237 3' -53.9 NC_005045.1 + 19477 0.66 0.672152
Target:  5'- uGCGCcaucgcAGGUcUGCUggaGCuGCGCGCGg -3'
miRNA:   3'- cCGCGu-----UCCAaACGAg--UGuCGCGUGC- -5'
22237 3' -53.9 NC_005045.1 + 1959 0.66 0.672152
Target:  5'- uGGCGCuggcuccGGGUcgGUagCGUAGCGCACGu -3'
miRNA:   3'- -CCGCGu------UCCAaaCGa-GUGUCGCGUGC- -5'
22237 3' -53.9 NC_005045.1 + 23366 0.68 0.604002
Target:  5'- cGGCuGCuGGGUcgggauggccagUUGCU-GCGGCGCACc -3'
miRNA:   3'- -CCG-CGuUCCA------------AACGAgUGUCGCGUGc -5'
22237 3' -53.9 NC_005045.1 + 38662 0.68 0.592673
Target:  5'- aGGCGau-GGUc-GCUgCACAGCGCgGCGa -3'
miRNA:   3'- -CCGCguuCCAaaCGA-GUGUCGCG-UGC- -5'
22237 3' -53.9 NC_005045.1 + 20887 0.68 0.581379
Target:  5'- cGGCGCAAGcGgacUGCUCGCA-C-CACGu -3'
miRNA:   3'- -CCGCGUUC-Caa-ACGAGUGUcGcGUGC- -5'
22237 3' -53.9 NC_005045.1 + 39201 0.68 0.558935
Target:  5'- aGGCGCGuuauGGcgacugGCUCGCacccucuauccuGGCGCGCa -3'
miRNA:   3'- -CCGCGUu---CCaaa---CGAGUG------------UCGCGUGc -5'
22237 3' -53.9 NC_005045.1 + 34653 0.69 0.536741
Target:  5'- --aGCGAGGUccgGgUUGCGGCGCAUGg -3'
miRNA:   3'- ccgCGUUCCAaa-CgAGUGUCGCGUGC- -5'
22237 3' -53.9 NC_005045.1 + 4938 0.69 0.514861
Target:  5'- aGGUGCu-GGUccGCUUcagcgACAGCGCACc -3'
miRNA:   3'- -CCGCGuuCCAaaCGAG-----UGUCGCGUGc -5'
22237 3' -53.9 NC_005045.1 + 34833 0.7 0.458804
Target:  5'- cGGCGCAGGGggaugaagcggcccUUcgagUGCUC-CAGCaGUACGg -3'
miRNA:   3'- -CCGCGUUCC--------------AA----ACGAGuGUCG-CGUGC- -5'
22237 3' -53.9 NC_005045.1 + 21826 0.7 0.451642
Target:  5'- uGGCaGCGAGG-UUGUUCACuagcagGGCGC-CGg -3'
miRNA:   3'- -CCG-CGUUCCaAACGAGUG------UCGCGuGC- -5'
22237 3' -53.9 NC_005045.1 + 30550 0.7 0.441517
Target:  5'- --aGCAugcGGGUcUGCUCAcCAGCGaCACGg -3'
miRNA:   3'- ccgCGU---UCCAaACGAGU-GUCGC-GUGC- -5'
22237 3' -53.9 NC_005045.1 + 8540 0.74 0.269366
Target:  5'- cGGCGCAGGGccucgucGCUCAgcCGGCGCAg- -3'
miRNA:   3'- -CCGCGUUCCaaa----CGAGU--GUCGCGUgc -5'
22237 3' -53.9 NC_005045.1 + 18958 0.74 0.255484
Target:  5'- cGGgGCGGGGUgcuggGCauucCGCAGCGCACc -3'
miRNA:   3'- -CCgCGUUCCAaa---CGa---GUGUCGCGUGc -5'
22237 3' -53.9 NC_005045.1 + 3368 1.11 0.000667
Target:  5'- aGGCGCAAGGUUUGCUCACAGCGCACGu -3'
miRNA:   3'- -CCGCGUUCCAAACGAGUGUCGCGUGC- -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.