miRNA display CGI


Results 1 - 20 of 24 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
23245 3' -60.3 NC_005259.1 + 6340 0.66 0.514092
Target:  5'- -aCACCCacgaCGGGGUgcCGuACGUGCGCa- -3'
miRNA:   3'- caGUGGGa---GCCCCA--GC-UGCGCGUGcu -5'
23245 3' -60.3 NC_005259.1 + 45378 0.66 0.504224
Target:  5'- uUUGCCCgaggaauuucUCGGGGUCGcCGCcgaGCGCGc -3'
miRNA:   3'- cAGUGGG----------AGCCCCAGCuGCG---CGUGCu -5'
23245 3' -60.3 NC_005259.1 + 58852 0.66 0.504224
Target:  5'- cUCACCCUCGGGcucgccgucGUCGuCGuCGCcuCGGc -3'
miRNA:   3'- cAGUGGGAGCCC---------CAGCuGC-GCGu-GCU- -5'
23245 3' -60.3 NC_005259.1 + 6538 0.66 0.504224
Target:  5'- -cCGgCCUCGGGG-CGAgcggugaagcUGUGCGCGGc -3'
miRNA:   3'- caGUgGGAGCCCCaGCU----------GCGCGUGCU- -5'
23245 3' -60.3 NC_005259.1 + 46323 0.67 0.48474
Target:  5'- --gGCCC-CGaGGGUCGcguCGCGCACc- -3'
miRNA:   3'- cagUGGGaGC-CCCAGCu--GCGCGUGcu -5'
23245 3' -60.3 NC_005259.1 + 30810 0.67 0.48474
Target:  5'- -aCACCUgagUCGGGuaGUcCGGCGCGC-CGAg -3'
miRNA:   3'- caGUGGG---AGCCC--CA-GCUGCGCGuGCU- -5'
23245 3' -60.3 NC_005259.1 + 62829 0.67 0.456213
Target:  5'- cUUGCCCgCGaGGUCGA-GCGCGCGGu -3'
miRNA:   3'- cAGUGGGaGCcCCAGCUgCGCGUGCU- -5'
23245 3' -60.3 NC_005259.1 + 51133 0.67 0.446906
Target:  5'- aUCACCgUCGGGG-CGGCcaugaGCGCGuuCGGg -3'
miRNA:   3'- cAGUGGgAGCCCCaGCUG-----CGCGU--GCU- -5'
23245 3' -60.3 NC_005259.1 + 33329 0.68 0.410772
Target:  5'- gGUCACgCggaagugaUCGGGGUCGAUGCaaucGgGCGAg -3'
miRNA:   3'- -CAGUGgG--------AGCCCCAGCUGCG----CgUGCU- -5'
23245 3' -60.3 NC_005259.1 + 20698 0.68 0.393399
Target:  5'- -aCGCgCUCGGuGGUCGAagguuucacccCGCcGCGCGAa -3'
miRNA:   3'- caGUGgGAGCC-CCAGCU-----------GCG-CGUGCU- -5'
23245 3' -60.3 NC_005259.1 + 17348 0.69 0.384892
Target:  5'- cGUCGCCgUCGaGGUCGGCggcucgGCGCugGu -3'
miRNA:   3'- -CAGUGGgAGCcCCAGCUG------CGCGugCu -5'
23245 3' -60.3 NC_005259.1 + 67199 0.69 0.360115
Target:  5'- cGUCuCCCUcgccgcugucggCGGGGUCGAUGCcgacCACGGc -3'
miRNA:   3'- -CAGuGGGA------------GCCCCAGCUGCGc---GUGCU- -5'
23245 3' -60.3 NC_005259.1 + 26322 0.69 0.360115
Target:  5'- -aUAUCCUCGGGGUCGcACaGauaGCACGc -3'
miRNA:   3'- caGUGGGAGCCCCAGC-UG-Cg--CGUGCu -5'
23245 3' -60.3 NC_005259.1 + 67306 0.71 0.292647
Target:  5'- -cCGCCCUCGGGGUUG-CGCGg---- -3'
miRNA:   3'- caGUGGGAGCCCCAGCuGCGCgugcu -5'
23245 3' -60.3 NC_005259.1 + 34292 0.71 0.259636
Target:  5'- aUCGCCCUCGGGGaucaCGAC-C-CACGAc -3'
miRNA:   3'- cAGUGGGAGCCCCa---GCUGcGcGUGCU- -5'
23245 3' -60.3 NC_005259.1 + 64455 0.72 0.25341
Target:  5'- --uGCCCUUGGGGcggcgaaCGACGCGCAaUGAa -3'
miRNA:   3'- cagUGGGAGCCCCa------GCUGCGCGU-GCU- -5'
23245 3' -60.3 NC_005259.1 + 31927 0.73 0.202781
Target:  5'- cGUCACgCaCUCGGGGUCGAgGCGguUa- -3'
miRNA:   3'- -CAGUG-G-GAGCCCCAGCUgCGCguGcu -5'
23245 3' -60.3 NC_005259.1 + 16778 0.74 0.183239
Target:  5'- aUCACgaCUCGuGGGUCGACGCGguCGc -3'
miRNA:   3'- cAGUGg-GAGC-CCCAGCUGCGCguGCu -5'
23245 3' -60.3 NC_005259.1 + 58902 0.74 0.180455
Target:  5'- aUCACCCUCGGGcucGUCGgcggucuugucgucgGCGgGCGCGGu -3'
miRNA:   3'- cAGUGGGAGCCC---CAGC---------------UGCgCGUGCU- -5'
23245 3' -60.3 NC_005259.1 + 15574 0.77 0.114606
Target:  5'- -cCACCCUCGGGGccagcgCGACGggcCGCAUGAg -3'
miRNA:   3'- caGUGGGAGCCCCa-----GCUGC---GCGUGCU- -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.