miRNA display CGI


Results 1 - 20 of 37 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
24860 3' -54.7 NC_005284.1 + 1213 0.68 0.632786
Target:  5'- ---uGACCGgcaugggCGCGCGccggcAGCCGCUCa -3'
miRNA:   3'- ggagUUGGCaua----GCGCGC-----UCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 3520 0.67 0.687551
Target:  5'- gUUCGAagcaCGUucuUCGCGCGuGGCuCGCUCg -3'
miRNA:   3'- gGAGUUg---GCAu--AGCGCGC-UCG-GUGAG- -5'
24860 3' -54.7 NC_005284.1 + 4769 0.66 0.755513
Target:  5'- uCCUUGAgcaagcagcgguacgUCGUGggGCGCGAGCCuucgaugcGCUCg -3'
miRNA:   3'- -GGAGUU---------------GGCAUagCGCGCUCGG--------UGAG- -5'
24860 3' -54.7 NC_005284.1 + 7304 0.66 0.751385
Target:  5'- uCCUCGgugugGCCGacGUCGagcauGCGAGCCAucuuCUCg -3'
miRNA:   3'- -GGAGU-----UGGCa-UAGCg----CGCUCGGU----GAG- -5'
24860 3' -54.7 NC_005284.1 + 9411 0.69 0.56713
Target:  5'- aCCUCGACgGcAUCGUgaaacucgGCGuGUCGCUCg -3'
miRNA:   3'- -GGAGUUGgCaUAGCG--------CGCuCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 9503 0.69 0.56713
Target:  5'- aCUCAGCCaUGcCGCGC-AGCCGCg- -3'
miRNA:   3'- gGAGUUGGcAUaGCGCGcUCGGUGag -5'
24860 3' -54.7 NC_005284.1 + 10022 0.65 0.780827
Target:  5'- gCCUUgcgcaAGCCGagcgugaUGUCGCGCuuGCCACg- -3'
miRNA:   3'- -GGAG-----UUGGC-------AUAGCGCGcuCGGUGag -5'
24860 3' -54.7 NC_005284.1 + 14846 0.71 0.472605
Target:  5'- --cCGACCGUGUCG-GuCGAGUgGCUCg -3'
miRNA:   3'- ggaGUUGGCAUAGCgC-GCUCGgUGAG- -5'
24860 3' -54.7 NC_005284.1 + 16697 0.7 0.545576
Target:  5'- aCCUCGcgucuUCGUccgCGCGaCGAGCCACaUCg -3'
miRNA:   3'- -GGAGUu----GGCAua-GCGC-GCUCGGUG-AG- -5'
24860 3' -54.7 NC_005284.1 + 20770 0.67 0.718793
Target:  5'- uCCUCGACCGccUCGaaCGCGcagaaucGGCC-CUCg -3'
miRNA:   3'- -GGAGUUGGCauAGC--GCGC-------UCGGuGAG- -5'
24860 3' -54.7 NC_005284.1 + 23167 0.66 0.771815
Target:  5'- --cCGAUCGUcgCgGCGCGuuCCGCUCg -3'
miRNA:   3'- ggaGUUGGCAuaG-CGCGCucGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 24501 1.12 0.000744
Target:  5'- gCCUCAACCGUAUCGCGCGAGCCACUCg -3'
miRNA:   3'- -GGAGUUGGCAUAGCGCGCUCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 25529 0.69 0.57799
Target:  5'- --gCGGCCGUcGUCGUGCGcgcGUCGCUCu -3'
miRNA:   3'- ggaGUUGGCA-UAGCGCGCu--CGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 25672 0.79 0.145288
Target:  5'- --gCAGCCGU-UCGCGCGAGCCAagcCUCu -3'
miRNA:   3'- ggaGUUGGCAuAGCGCGCUCGGU---GAG- -5'
24860 3' -54.7 NC_005284.1 + 26824 0.69 0.556323
Target:  5'- gCUUCAGCauucgaCGuCGUGAGCCACUCu -3'
miRNA:   3'- -GGAGUUGgcaua-GC-GCGCUCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 28211 0.66 0.751385
Target:  5'- gCUCGACUGUG--GCGaacGCCACUCu -3'
miRNA:   3'- gGAGUUGGCAUagCGCgcuCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 32152 0.66 0.748276
Target:  5'- --cCGAUCGUaacgaucgaugcagGUCGCccaauCGAGCCGCUCg -3'
miRNA:   3'- ggaGUUGGCA--------------UAGCGc----GCUCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 33432 0.68 0.662443
Target:  5'- --cCGACCGUuguccgacucguugAUCGCGCGAcacgcgccccGCCAgUCg -3'
miRNA:   3'- ggaGUUGGCA--------------UAGCGCGCU----------CGGUgAG- -5'
24860 3' -54.7 NC_005284.1 + 33964 0.71 0.472605
Target:  5'- uCgUCGGCCGg--CGCugcuGCGGGCUGCUCg -3'
miRNA:   3'- -GgAGUUGGCauaGCG----CGCUCGGUGAG- -5'
24860 3' -54.7 NC_005284.1 + 36315 0.67 0.709161
Target:  5'- uUCUCGGCgCGcaccCGCGCGAGgUACUUg -3'
miRNA:   3'- -GGAGUUG-GCaua-GCGCGCUCgGUGAG- -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.