miRNA display CGI


Results 1 - 12 of 12 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
19440 3' -59.9 NC_004685.1 + 12513 0.66 0.516543
Target:  5'- aGGaGCCGCUGugcacgcugCGCCUGGAGuG-CUGc -3'
miRNA:   3'- -UCgCGGCGACua-------GCGGACCUC-CaGAU- -5'
19440 3' -59.9 NC_004685.1 + 11360 0.66 0.505391
Target:  5'- gGGCGCaggGCUGGugaccacUCGCC-GGAGG-CUGg -3'
miRNA:   3'- -UCGCGg--CGACU-------AGCGGaCCUCCaGAU- -5'
19440 3' -59.9 NC_004685.1 + 46735 0.66 0.486378
Target:  5'- cGGCGUgGCUGAUacUGCugcugCUGGGGGUgCUGg -3'
miRNA:   3'- -UCGCGgCGACUA--GCG-----GACCUCCA-GAU- -5'
19440 3' -59.9 NC_004685.1 + 16636 0.66 0.485387
Target:  5'- gAGCGCCGCcaucaccgcGGUCGCCuucggccgcaggcUGGAgcGGUCa- -3'
miRNA:   3'- -UCGCGGCGa--------CUAGCGG-------------ACCU--CCAGau -5'
19440 3' -59.9 NC_004685.1 + 39469 0.67 0.418622
Target:  5'- cGCGCCGCccGGUguugugccguuucCGCCgagGGuGGUCUGg -3'
miRNA:   3'- uCGCGGCGa-CUA-------------GCGGa--CCuCCAGAU- -5'
19440 3' -59.9 NC_004685.1 + 26107 0.68 0.375342
Target:  5'- uGGCaCCGCgaacgGAUCGgCUGGGGGUa-- -3'
miRNA:   3'- -UCGcGGCGa----CUAGCgGACCUCCAgau -5'
19440 3' -59.9 NC_004685.1 + 64796 0.68 0.366888
Target:  5'- gGGCGCCGUgagcaagcagUGGUCG-CUGGAGG-Cg- -3'
miRNA:   3'- -UCGCGGCG----------ACUAGCgGACCUCCaGau -5'
19440 3' -59.9 NC_004685.1 + 55030 0.69 0.350379
Target:  5'- gGGUGCCGCaggaguauuucUGcAUCGaCCUGGAGGccgCUGg -3'
miRNA:   3'- -UCGCGGCG-----------AC-UAGC-GGACCUCCa--GAU- -5'
19440 3' -59.9 NC_004685.1 + 24171 0.69 0.34553
Target:  5'- gAGuCGCCGC--GUCGCCUGGAauacacaaacgacaaGGUCa- -3'
miRNA:   3'- -UC-GCGGCGacUAGCGGACCU---------------CCAGau -5'
19440 3' -59.9 NC_004685.1 + 1334 0.7 0.296114
Target:  5'- uGCGuCCGCgaagcccUGAUUGCCUGGGGGa--- -3'
miRNA:   3'- uCGC-GGCG-------ACUAGCGGACCUCCagau -5'
19440 3' -59.9 NC_004685.1 + 3503 0.7 0.289721
Target:  5'- gGGCaucgGCCGCUGGUCGCC-GGAagcgcuGGUCc- -3'
miRNA:   3'- -UCG----CGGCGACUAGCGGaCCU------CCAGau -5'
19440 3' -59.9 NC_004685.1 + 20880 1.06 0.000653
Target:  5'- cAGCGCCGCUGAUCGCCUGGAGGUCUAu -3'
miRNA:   3'- -UCGCGGCGACUAGCGGACCUCCAGAU- -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.