miRNA display CGI


Results 1 - 18 of 18 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
23098 5' -53.4 NC_005178.1 + 12116 0.66 0.704172
Target:  5'- -gGCcGAUGGGCGcGCCGCCUGcgccGACGc -3'
miRNA:   3'- caUGaCUACUCGU-CGGUGGGUa---CUGC- -5'
23098 5' -53.4 NC_005178.1 + 6718 0.66 0.692796
Target:  5'- cUGCUGAgccagGAGguGCCG-CCAUG-CGc -3'
miRNA:   3'- cAUGACUa----CUCguCGGUgGGUACuGC- -5'
23098 5' -53.4 NC_005178.1 + 24959 0.66 0.681354
Target:  5'- gGU-CUGGUGGGCAGCCAaCCAgGGu- -3'
miRNA:   3'- -CAuGACUACUCGUCGGUgGGUaCUgc -5'
23098 5' -53.4 NC_005178.1 + 16538 0.66 0.669861
Target:  5'- -gGCcGGUGGcgguGCuGCCGCCCAcGGCGa -3'
miRNA:   3'- caUGaCUACU----CGuCGGUGGGUaCUGC- -5'
23098 5' -53.4 NC_005178.1 + 24731 0.66 0.669861
Target:  5'- -aGCUGAccuucgaaGAGCAGCuCACCCAccACGc -3'
miRNA:   3'- caUGACUa-------CUCGUCG-GUGGGUacUGC- -5'
23098 5' -53.4 NC_005178.1 + 31471 0.66 0.658329
Target:  5'- gGUGgUGGUaggugucgagGGGCGGCCACCCcucGGCa -3'
miRNA:   3'- -CAUgACUA----------CUCGUCGGUGGGua-CUGc -5'
23098 5' -53.4 NC_005178.1 + 32411 0.66 0.657174
Target:  5'- uUGCgGAUGGGCAGCCggugcgGCuguaucaguucagCCGUGGCGc -3'
miRNA:   3'- cAUGaCUACUCGUCGG------UG-------------GGUACUGC- -5'
23098 5' -53.4 NC_005178.1 + 14704 0.67 0.64677
Target:  5'- -gGCcgGAUGGGCAGCCccucuacaaGCUCAUGGUGa -3'
miRNA:   3'- caUGa-CUACUCGUCGG---------UGGGUACUGC- -5'
23098 5' -53.4 NC_005178.1 + 19556 0.67 0.64677
Target:  5'- -aGCUGGgcacccUGGGCAGCCGCauagGUGAUGu -3'
miRNA:   3'- caUGACU------ACUCGUCGGUGgg--UACUGC- -5'
23098 5' -53.4 NC_005178.1 + 4941 0.67 0.635196
Target:  5'- -aACUGGccgccAGCGGCCGCCCGcUGAUc -3'
miRNA:   3'- caUGACUac---UCGUCGGUGGGU-ACUGc -5'
23098 5' -53.4 NC_005178.1 + 12053 0.67 0.612049
Target:  5'- -cGCUGGUG-GCuGCC-CgCGUGGCGg -3'
miRNA:   3'- caUGACUACuCGuCGGuGgGUACUGC- -5'
23098 5' -53.4 NC_005178.1 + 6065 0.67 0.58898
Target:  5'- gGUGCcGAgGGGUGGCCGCCCcucGACa -3'
miRNA:   3'- -CAUGaCUaCUCGUCGGUGGGua-CUGc -5'
23098 5' -53.4 NC_005178.1 + 31797 0.7 0.435758
Target:  5'- aGUGCUG--GAGCAG-CACCCG-GACGa -3'
miRNA:   3'- -CAUGACuaCUCGUCgGUGGGUaCUGC- -5'
23098 5' -53.4 NC_005178.1 + 14987 0.72 0.332897
Target:  5'- --cCUGAUGAauagGUGGCCAUCCGUGGCc -3'
miRNA:   3'- cauGACUACU----CGUCGGUGGGUACUGc -5'
23098 5' -53.4 NC_005178.1 + 25170 0.72 0.332897
Target:  5'- -aGCUGAUG-GCGGUCAaCCAUGGCu -3'
miRNA:   3'- caUGACUACuCGUCGGUgGGUACUGc -5'
23098 5' -53.4 NC_005178.1 + 17125 0.73 0.316218
Target:  5'- -aACUGGcacgauguUGAcGCGGCCACCCAugcccgagcgcUGACGg -3'
miRNA:   3'- caUGACU--------ACU-CGUCGGUGGGU-----------ACUGC- -5'
23098 5' -53.4 NC_005178.1 + 21213 0.81 0.0881
Target:  5'- -gGCUGGUGAGCGuGCCGCCCAggaucgccuuUGACa -3'
miRNA:   3'- caUGACUACUCGU-CGGUGGGU----------ACUGc -5'
23098 5' -53.4 NC_005178.1 + 9481 1.09 0.000796
Target:  5'- gGUACUGAUGAGCAGCCACCCAUGACGa -3'
miRNA:   3'- -CAUGACUACUCGUCGGUGGGUACUGC- -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.