miRNA display CGI


Results 1 - 20 of 44 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
16385 3' -56.2 NC_004084.1 + 57487 0.74 0.261223
Target:  5'- aGCucGccGGCGACGUCGAcGCGAUCGg -3'
miRNA:   3'- aCGu-CucCCGCUGCAGCUcUGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 56924 0.73 0.310501
Target:  5'- aGCucGAGGGCGACGUCuaccagGAGGucguCGAUCGc -3'
miRNA:   3'- aCGu-CUCCCGCUGCAG------CUCU----GCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 56823 0.69 0.518139
Target:  5'- aGCAGAgcucccagccGGGCGACGUCGuccuGGACccguUCGc -3'
miRNA:   3'- aCGUCU----------CCCGCUGCAGC----UCUGcu--AGC- -5'
16385 3' -56.2 NC_004084.1 + 52643 0.7 0.448185
Target:  5'- gGguGAGugccucggcugcGGCGAgacggagaucguCGUCGAGGCGAUCa -3'
miRNA:   3'- aCguCUC------------CCGCU------------GCAGCUCUGCUAGc -5'
16385 3' -56.2 NC_004084.1 + 52586 0.72 0.383781
Target:  5'- cUGCGGc-GGCGugGUCcGGugGGUCGa -3'
miRNA:   3'- -ACGUCucCCGCugCAGcUCugCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 51510 0.69 0.549447
Target:  5'- --gAGuGGGagcuCGUCGAGACGGUCGc -3'
miRNA:   3'- acgUCuCCCgcu-GCAGCUCUGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 51312 0.67 0.635131
Target:  5'- --aAGAcGGCGAC--CGAGGCGAUCGa -3'
miRNA:   3'- acgUCUcCCGCUGcaGCUCUGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 51137 0.7 0.481551
Target:  5'- cGCuu-GGGCGaucccgaacgaggagGCGaUCGAGACGGUCGc -3'
miRNA:   3'- aCGucuCCCGC---------------UGC-AGCUCUGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 51015 0.67 0.6567
Target:  5'- aGgAGAucaGGGUcgucGACGUCGAGGcCGAUCc -3'
miRNA:   3'- aCgUCU---CCCG----CUGCAGCUCU-GCUAGc -5'
16385 3' -56.2 NC_004084.1 + 49651 0.67 0.667457
Target:  5'- aGCuGuGGGCgGugGUCGAcAUGAUCu -3'
miRNA:   3'- aCGuCuCCCG-CugCAGCUcUGCUAGc -5'
16385 3' -56.2 NC_004084.1 + 47993 0.67 0.624337
Target:  5'- aUGCAcGAGGaCGuCGacugCGAGAUGGUCGa -3'
miRNA:   3'- -ACGU-CUCCcGCuGCa---GCUCUGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 44759 0.66 0.688865
Target:  5'- cUGCuccaGGuuGGCGAaGaCGAGACGGUCGa -3'
miRNA:   3'- -ACG----UCucCCGCUgCaGCUCUGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 44728 0.66 0.724732
Target:  5'- cGCGcuGGGCGggcucggagaucGCGUccgguuggucgcgacCGAGGCGAUCGg -3'
miRNA:   3'- aCGUcuCCCGC------------UGCA---------------GCUCUGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 43691 0.69 0.549447
Target:  5'- cGaCGGAcGGGCG-CGUCGAcgaaGugGAUCa -3'
miRNA:   3'- aC-GUCU-CCCGCuGCAGCU----CugCUAGc -5'
16385 3' -56.2 NC_004084.1 + 41833 0.66 0.7069
Target:  5'- cGUAGGGGGUGACGaggcCGAuggugagugaguccGACGAguUCGc -3'
miRNA:   3'- aCGUCUCCCGCUGCa---GCU--------------CUGCU--AGC- -5'
16385 3' -56.2 NC_004084.1 + 41397 0.67 0.613551
Target:  5'- gGUAGAGGGCGAgGaggcCGGGAagguagcgacCGAUCu -3'
miRNA:   3'- aCGUCUCCCGCUgCa---GCUCU----------GCUAGc -5'
16385 3' -56.2 NC_004084.1 + 40448 0.66 0.710064
Target:  5'- gGCcGAGGGCGACacCGAcGACGuccacAUCGg -3'
miRNA:   3'- aCGuCUCCCGCUGcaGCU-CUGC-----UAGC- -5'
16385 3' -56.2 NC_004084.1 + 39614 0.68 0.560017
Target:  5'- cGUGGccGGCGACGUCcucgacGAGuCGAUCGu -3'
miRNA:   3'- aCGUCucCCGCUGCAG------CUCuGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 37118 0.66 0.730968
Target:  5'- cGCGGAGcguGGUGGCuucUCGAcGCGGUCGu -3'
miRNA:   3'- aCGUCUC---CCGCUGc--AGCUcUGCUAGC- -5'
16385 3' -56.2 NC_004084.1 + 35909 0.69 0.507858
Target:  5'- cGCuGGAGuGGCcGCGUCGAGugGAc-- -3'
miRNA:   3'- aCG-UCUC-CCGcUGCAGCUCugCUagc -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.