miRNA display CGI


Results 1 - 20 of 22 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
12810 3' -53.8 NC_003387.1 + 49421 0.66 0.811364
Target:  5'- aGguGGgCGcGUGAACGUcGCCG--AGCa -3'
miRNA:   3'- -CguCCaGC-CACUUGCA-CGGCaaUCGc -5'
12810 3' -53.8 NC_003387.1 + 2745 0.66 0.800833
Target:  5'- aGCAGc-CGGUGAACGUGCgcgaggucaccgaCGUgaucgAGCa -3'
miRNA:   3'- -CGUCcaGCCACUUGCACG-------------GCAa----UCGc -5'
12810 3' -53.8 NC_003387.1 + 35671 0.66 0.778131
Target:  5'- cGCGGG-CGGUGGcugaGCGggcacguguggggGCCGUacGGCGa -3'
miRNA:   3'- -CGUCCaGCCACU----UGCa------------CGGCAa-UCGC- -5'
12810 3' -53.8 NC_003387.1 + 44035 0.67 0.741027
Target:  5'- cGUcGGUCGGcagcGGCGUGCCGaacGGCGc -3'
miRNA:   3'- -CGuCCAGCCac--UUGCACGGCaa-UCGC- -5'
12810 3' -53.8 NC_003387.1 + 12201 0.67 0.741027
Target:  5'- gGCAGGUCGcUGcuCgGUGCCGggccaccGGCGg -3'
miRNA:   3'- -CGUCCAGCcACuuG-CACGGCaa-----UCGC- -5'
12810 3' -53.8 NC_003387.1 + 46726 0.68 0.698132
Target:  5'- gGCGGG-CGaGUGGACGaUGCaCGgcGGCa -3'
miRNA:   3'- -CGUCCaGC-CACUUGC-ACG-GCaaUCGc -5'
12810 3' -53.8 NC_003387.1 + 31009 0.68 0.698132
Target:  5'- uCAGGaUCGGgccGAGCGUgcGCCGgggcGGCGg -3'
miRNA:   3'- cGUCC-AGCCa--CUUGCA--CGGCaa--UCGC- -5'
12810 3' -53.8 NC_003387.1 + 45056 0.68 0.698132
Target:  5'- aGCAGGUCGccGAGCGcGUCGagGGCc -3'
miRNA:   3'- -CGUCCAGCcaCUUGCaCGGCaaUCGc -5'
12810 3' -53.8 NC_003387.1 + 33966 0.68 0.687217
Target:  5'- -gGGGUCGGguaUGAGC-UGCCGc-AGCGg -3'
miRNA:   3'- cgUCCAGCC---ACUUGcACGGCaaUCGC- -5'
12810 3' -53.8 NC_003387.1 + 49698 0.68 0.676249
Target:  5'- uGCAGccCGGcaUGAACGUGCCGa-AGCa -3'
miRNA:   3'- -CGUCcaGCC--ACUUGCACGGCaaUCGc -5'
12810 3' -53.8 NC_003387.1 + 37716 0.68 0.676249
Target:  5'- uGCGGGUUGGUGugcgacaccuuGAUGUGCgccacCGUgcGCGg -3'
miRNA:   3'- -CGUCCAGCCAC-----------UUGCACG-----GCAauCGC- -5'
12810 3' -53.8 NC_003387.1 + 28644 0.68 0.676249
Target:  5'- --uGGUCGGgacacaUGAcCGUGCCGgucGGCGa -3'
miRNA:   3'- cguCCAGCC------ACUuGCACGGCaa-UCGC- -5'
12810 3' -53.8 NC_003387.1 + 35411 0.69 0.643134
Target:  5'- cGCAGGUcagCGGUGugauuGGCGgauucgccgGCUGUUAGCu -3'
miRNA:   3'- -CGUCCA---GCCAC-----UUGCa--------CGGCAAUCGc -5'
12810 3' -53.8 NC_003387.1 + 37922 0.69 0.627632
Target:  5'- cGUGGGUCGGUGucgaccaucauguACGaGCCGUcGGUGu -3'
miRNA:   3'- -CGUCCAGCCACu------------UGCaCGGCAaUCGC- -5'
12810 3' -53.8 NC_003387.1 + 32601 0.69 0.598883
Target:  5'- uCGGuGUCGGUGuugGUGCCGUcgguguaccUGGCGa -3'
miRNA:   3'- cGUC-CAGCCACuugCACGGCA---------AUCGC- -5'
12810 3' -53.8 NC_003387.1 + 22059 0.7 0.587869
Target:  5'- cCGGGUCGG-GGGCGUuucUCGUUGGCu -3'
miRNA:   3'- cGUCCAGCCaCUUGCAc--GGCAAUCGc -5'
12810 3' -53.8 NC_003387.1 + 44857 0.71 0.501775
Target:  5'- -aAGGUCGGUGc-CGUaGCCGUcgggGGCGu -3'
miRNA:   3'- cgUCCAGCCACuuGCA-CGGCAa---UCGC- -5'
12810 3' -53.8 NC_003387.1 + 37209 0.71 0.481075
Target:  5'- aGCAGG-CGGUGcucauaAACGccGCCGUgGGCGa -3'
miRNA:   3'- -CGUCCaGCCAC------UUGCa-CGGCAaUCGC- -5'
12810 3' -53.8 NC_003387.1 + 10008 0.73 0.425485
Target:  5'- aGCAGGUCGGcGuugccgguaucggucGGCGUGaCGUUAGCu -3'
miRNA:   3'- -CGUCCAGCCaC---------------UUGCACgGCAAUCGc -5'
12810 3' -53.8 NC_003387.1 + 40373 0.75 0.294341
Target:  5'- gGCGGcGUUGGUGAugaACucGCCGUUAGCGa -3'
miRNA:   3'- -CGUC-CAGCCACU---UGcaCGGCAAUCGC- -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.