miRNA display CGI


Results 1 - 20 of 52 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
16393 3' -54.5 NC_004084.1 + 48997 0.66 0.788049
Target:  5'- cCGAgAGCgCGUG-CUCgUCAUCGGCa -3'
miRNA:   3'- aGCUgUUGaGCGCaGAGgAGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 27000 0.68 0.684023
Target:  5'- aUCG-CGGC-CGCGUCgucugcgaCUUCGCCGAUa -3'
miRNA:   3'- -AGCuGUUGaGCGCAGa-------GGAGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 31685 0.67 0.705576
Target:  5'- aCGcCGAgaUCGgGUCUCCaaaUCGCCGAUa -3'
miRNA:   3'- aGCuGUUg-AGCgCAGAGG---AGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 12930 0.67 0.726846
Target:  5'- gCGACGAUgaCGaCGUCUUCgUgACCGACg -3'
miRNA:   3'- aGCUGUUGa-GC-GCAGAGG-AgUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 19957 0.67 0.726846
Target:  5'- cCGACAcgguCUCGCGa-UCCUCgaggccgcagggGCCGACc -3'
miRNA:   3'- aGCUGUu---GAGCGCagAGGAG------------UGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 48036 0.67 0.726846
Target:  5'- aCGACgAGCUCGaCGUCgaaCUCAuCCgGACg -3'
miRNA:   3'- aGCUG-UUGAGC-GCAGag-GAGU-GG-CUG- -5'
16393 3' -54.5 NC_004084.1 + 45486 0.67 0.726846
Target:  5'- uUCGGCGucgaUCaGCGUCUaCCUgGCCGGg -3'
miRNA:   3'- -AGCUGUug--AG-CGCAGA-GGAgUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 50938 0.66 0.75802
Target:  5'- gUCGACGAC-CcUGaUCUCCUCcUCGACg -3'
miRNA:   3'- -AGCUGUUGaGcGC-AGAGGAGuGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 39649 0.66 0.78707
Target:  5'- gCGACGccgaggaACUCGCGcgCUCCaaccCCGACu -3'
miRNA:   3'- aGCUGU-------UGAGCGCa-GAGGagu-GGCUG- -5'
16393 3' -54.5 NC_004084.1 + 19681 0.68 0.673167
Target:  5'- gUCGACGGCaUCGCGU----UCACCGAg -3'
miRNA:   3'- -AGCUGUUG-AGCGCAgaggAGUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 11111 0.68 0.672079
Target:  5'- aUCGACGuCUCGUcggacgaGUCggUCCUCACagaGACg -3'
miRNA:   3'- -AGCUGUuGAGCG-------CAG--AGGAGUGg--CUG- -5'
16393 3' -54.5 NC_004084.1 + 21899 0.69 0.61852
Target:  5'- aUCGGCGuCUCG-GUCggccUCCUCAUCGAg -3'
miRNA:   3'- -AGCUGUuGAGCgCAG----AGGAGUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 22504 0.75 0.288298
Target:  5'- cUCGugAAC-CGCGUCaUCCUCGaCGACg -3'
miRNA:   3'- -AGCugUUGaGCGCAG-AGGAGUgGCUG- -5'
16393 3' -54.5 NC_004084.1 + 35146 0.74 0.334076
Target:  5'- gUCGGCcGCUCG-GUCUCCagACCGAa -3'
miRNA:   3'- -AGCUGuUGAGCgCAGAGGagUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 20037 0.73 0.412247
Target:  5'- aCGACGA-UCGCGUCUCgUCAgUCGAUg -3'
miRNA:   3'- aGCUGUUgAGCGCAGAGgAGU-GGCUG- -5'
16393 3' -54.5 NC_004084.1 + 37848 0.71 0.499728
Target:  5'- gUCGACGGC-CGauucgaacuggccCGUCUCCUCAuuCCGAUc -3'
miRNA:   3'- -AGCUGUUGaGC-------------GCAGAGGAGU--GGCUG- -5'
16393 3' -54.5 NC_004084.1 + 57818 0.7 0.542729
Target:  5'- aCGAuCAACUCGagggCgUCCUCACCGAa -3'
miRNA:   3'- aGCU-GUUGAGCgca-G-AGGAGUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 3813 0.7 0.564153
Target:  5'- aCGGCGAcCUCGauccaGUCUUCgucgaCGCCGACg -3'
miRNA:   3'- aGCUGUU-GAGCg----CAGAGGa----GUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 27263 0.69 0.607587
Target:  5'- cUCGACGAgauCUCGCGg-UCCgaacCGCUGACg -3'
miRNA:   3'- -AGCUGUU---GAGCGCagAGGa---GUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 1237 0.69 0.607587
Target:  5'- aUCGAgGGCgaUCGCGcccaUCUCCUCAUCcugGACg -3'
miRNA:   3'- -AGCUgUUG--AGCGC----AGAGGAGUGG---CUG- -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.