miRNA display CGI


Results 1 - 20 of 32 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
23091 3' -56.3 NC_005178.1 + 6945 1.08 0.000498
Target:  5'- aGACGAAAGCCGGCGAGGCAAUCGGCAu -3'
miRNA:   3'- -CUGCUUUCGGCCGCUCCGUUAGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 37066 0.66 0.550456
Target:  5'- gGACGAGGcggcagcacucGCUGGCGuccCGGUCGGCGa -3'
miRNA:   3'- -CUGCUUU-----------CGGCCGCuccGUUAGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 31492 0.66 0.539437
Target:  5'- uGCGAcacGGCCGGCcucgacuuccgcGAcGGCGGUCuGGCGa -3'
miRNA:   3'- cUGCUu--UCGGCCG------------CU-CCGUUAG-CCGU- -5'
23091 3' -56.3 NC_005178.1 + 16878 0.66 0.539437
Target:  5'- cGCGGAGGUa-GCGAGGCcgagcugcUCGGCGc -3'
miRNA:   3'- cUGCUUUCGgcCGCUCCGuu------AGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 18637 0.66 0.53834
Target:  5'- gGGCGGucAGGCUgGGCGAGGCcGUaaggugacuauccCGGCGc -3'
miRNA:   3'- -CUGCU--UUCGG-CCGCUCCGuUA-------------GCCGU- -5'
23091 3' -56.3 NC_005178.1 + 36121 0.66 0.506866
Target:  5'- --aGGuuGGGCUGGCGGGuGCAggUGGCGa -3'
miRNA:   3'- cugCU--UUCGGCCGCUC-CGUuaGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 14234 0.66 0.496192
Target:  5'- cGGCaAGGGCC-GCGucuGGCaAGUCGGCAc -3'
miRNA:   3'- -CUGcUUUCGGcCGCu--CCG-UUAGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 3561 0.67 0.485622
Target:  5'- cAUGAu-GCgCGaCGAGGCGGUCGGCc -3'
miRNA:   3'- cUGCUuuCG-GCcGCUCCGUUAGCCGu -5'
23091 3' -56.3 NC_005178.1 + 12656 0.67 0.485622
Target:  5'- -uCGgcGGCCGGCGcgcuGGCGggUGGCc -3'
miRNA:   3'- cuGCuuUCGGCCGCu---CCGUuaGCCGu -5'
23091 3' -56.3 NC_005178.1 + 9455 0.67 0.47516
Target:  5'- gGACGGucuGCCGGaCGuGGUggUcCGGUAc -3'
miRNA:   3'- -CUGCUuu-CGGCC-GCuCCGuuA-GCCGU- -5'
23091 3' -56.3 NC_005178.1 + 16685 0.73 0.197788
Target:  5'- gGGCGAucAGGCCGGCGcAGGCAucgcccaacugagcCGGCGc -3'
miRNA:   3'- -CUGCU--UUCGGCCGC-UCCGUua------------GCCGU- -5'
23091 3' -56.3 NC_005178.1 + 35149 0.71 0.265198
Target:  5'- uGACGAAcgccAGCCGGCugGAGGaCGucacuGUCGGCc -3'
miRNA:   3'- -CUGCUU----UCGGCCG--CUCC-GU-----UAGCCGu -5'
23091 3' -56.3 NC_005178.1 + 34585 0.71 0.272236
Target:  5'- --gGGGAGCUGGCcGGGCgAGUCGGUg -3'
miRNA:   3'- cugCUUUCGGCCGcUCCG-UUAGCCGu -5'
23091 3' -56.3 NC_005178.1 + 12866 0.69 0.372064
Target:  5'- aGCGGAAGCCGaGgGggacgacugggacaaGGcGCAAUCGGCGc -3'
miRNA:   3'- cUGCUUUCGGC-CgC---------------UC-CGUUAGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 26816 0.68 0.395923
Target:  5'- gGACGcgcuguGGCCaGCGGGGCugucuUCGGCc -3'
miRNA:   3'- -CUGCuu----UCGGcCGCUCCGuu---AGCCGu -5'
23091 3' -56.3 NC_005178.1 + 9659 0.67 0.441469
Target:  5'- cGCGGccgguggcuucgccGAGCCGGcCGAGGCGGUCa--- -3'
miRNA:   3'- cUGCU--------------UUCGGCC-GCUCCGUUAGccgu -5'
23091 3' -56.3 NC_005178.1 + 17068 0.66 0.550456
Target:  5'- cGGCGAccuucAGCUgGGCGGuGGCGG-CGGCGa -3'
miRNA:   3'- -CUGCUu----UCGG-CCGCU-CCGUUaGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 36790 0.73 0.197245
Target:  5'- -uUGAuAGCCGGCGAgcauuGGCGaagcagGUCGGCAu -3'
miRNA:   3'- cuGCUuUCGGCCGCU-----CCGU------UAGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 28481 0.69 0.333972
Target:  5'- cGACGAucuucuggAGGCCGGUGAccGCGAgcgCGGCGc -3'
miRNA:   3'- -CUGCU--------UUCGGCCGCUc-CGUUa--GCCGU- -5'
23091 3' -56.3 NC_005178.1 + 33076 0.69 0.342373
Target:  5'- -cCGguAGCgcugGGCGGGaGCGGUCGGCAg -3'
miRNA:   3'- cuGCuuUCGg---CCGCUC-CGUUAGCCGU- -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.