miRNA display CGI


Results 1 - 20 of 45 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
16316 3' -56.4 NC_004084.1 + 54747 0.66 0.710334
Target:  5'- aUUGaGGAGuUCCUCGAcGCCa-AGCCCa -3'
miRNA:   3'- -AGCaUCUCcAGGAGCU-UGGgcUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 35928 0.66 0.699813
Target:  5'- -aGUGGAcuacGUCC-CGAACUgGAGCCg -3'
miRNA:   3'- agCAUCUc---CAGGaGCUUGGgCUCGGg -5'
16316 3' -56.4 NC_004084.1 + 52251 0.66 0.699813
Target:  5'- ----cGAGGUCCaccUgGAGCCCGAucGCCa -3'
miRNA:   3'- agcauCUCCAGG---AgCUUGGGCU--CGGg -5'
16316 3' -56.4 NC_004084.1 + 10163 0.66 0.699813
Target:  5'- cCGgcucGAGGUUCUCGGAauCCC-AGUCCu -3'
miRNA:   3'- aGCau--CUCCAGGAGCUU--GGGcUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 12864 0.66 0.697701
Target:  5'- gCGUAcuccgcuucGAGGUCCUCGcgccaacccauCCCGGcGUCCu -3'
miRNA:   3'- aGCAU---------CUCCAGGAGCuu---------GGGCU-CGGG- -5'
16316 3' -56.4 NC_004084.1 + 50269 0.66 0.689228
Target:  5'- gCGgcGAGGUCCUCGAcgucugCCGA-CCa -3'
miRNA:   3'- aGCauCUCCAGGAGCUug----GGCUcGGg -5'
16316 3' -56.4 NC_004084.1 + 45400 0.66 0.678592
Target:  5'- gUCGUGaagguguugcucGAGGUCgUCGA--UCGAGCCg -3'
miRNA:   3'- -AGCAU------------CUCCAGgAGCUugGGCUCGGg -5'
16316 3' -56.4 NC_004084.1 + 18360 0.66 0.678592
Target:  5'- aCGUucgcGGGGUCgacggCUCGGACgUGcAGCCCg -3'
miRNA:   3'- aGCAu---CUCCAG-----GAGCUUGgGC-UCGGG- -5'
16316 3' -56.4 NC_004084.1 + 56909 0.66 0.678592
Target:  5'- gUGUAGAGGUCCUCGucgggacggcgGACuUCGuAGUCg -3'
miRNA:   3'- aGCAUCUCCAGGAGC-----------UUG-GGC-UCGGg -5'
16316 3' -56.4 NC_004084.1 + 17648 0.66 0.678592
Target:  5'- aUCGUucGAGG-CCUgGGcgacACCCGAGCa- -3'
miRNA:   3'- -AGCAu-CUCCaGGAgCU----UGGGCUCGgg -5'
16316 3' -56.4 NC_004084.1 + 20027 0.67 0.667913
Target:  5'- cCGUAcGGuuGGUCCUCGGucgccuuCCCGcGCUCg -3'
miRNA:   3'- aGCAU-CU--CCAGGAGCUu------GGGCuCGGG- -5'
16316 3' -56.4 NC_004084.1 + 22592 0.67 0.667913
Target:  5'- gCGUcuggGGGGGcCUUCGuGCUCG-GCCCg -3'
miRNA:   3'- aGCA----UCUCCaGGAGCuUGGGCuCGGG- -5'
16316 3' -56.4 NC_004084.1 + 2432 0.67 0.666843
Target:  5'- aUCGUGGGcGGUgaaucgaCCgUCGAcgagAUCCGAGCCa -3'
miRNA:   3'- -AGCAUCU-CCA-------GG-AGCU----UGGGCUCGGg -5'
16316 3' -56.4 NC_004084.1 + 1119 0.67 0.657203
Target:  5'- cUCGUcgaGGAGGUCCUgGAugGCgcgguuguagaCGAGCUCg -3'
miRNA:   3'- -AGCA---UCUCCAGGAgCU--UGg----------GCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 53463 0.67 0.650765
Target:  5'- cUC-UGGAGccacugcucgauuucGUCCUCGAgcgGCUgGAGCCCc -3'
miRNA:   3'- -AGcAUCUC---------------CAGGAGCU---UGGgCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 345 0.67 0.64647
Target:  5'- gUCGUugAGccAGGUggccUCUCGAaacuguGCCgCGAGCCCg -3'
miRNA:   3'- -AGCA--UC--UCCA----GGAGCU------UGG-GCUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 52695 0.67 0.635724
Target:  5'- cCGaucGAGGaCCUCG-GCCCGAGCg- -3'
miRNA:   3'- aGCau-CUCCaGGAGCuUGGGCUCGgg -5'
16316 3' -56.4 NC_004084.1 + 38081 0.67 0.614233
Target:  5'- cUCGUGauGAGGUCCgu--GCUCuAGCCCg -3'
miRNA:   3'- -AGCAU--CUCCAGGagcuUGGGcUCGGG- -5'
16316 3' -56.4 NC_004084.1 + 43910 0.68 0.603506
Target:  5'- ---aAGAGGgCCaCGAACCCGAGUuggCCg -3'
miRNA:   3'- agcaUCUCCaGGaGCUUGGGCUCG---GG- -5'
16316 3' -56.4 NC_004084.1 + 1497 0.68 0.603506
Target:  5'- -gGUAGAcGUcgcCCUCGAGCUCGaAGCCg -3'
miRNA:   3'- agCAUCUcCA---GGAGCUUGGGC-UCGGg -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.