miRNA display CGI


Results 1 - 16 of 16 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
9352 3' -56.3 NC_002512.2 + 173328 0.66 0.945456
Target:  5'- -cCUGCGGGGU--CUUCGgUCccGGCa -3'
miRNA:   3'- cuGAUGCCCCAcuGGAGCgAGuaCCG- -5'
9352 3' -56.3 NC_002512.2 + 117680 0.66 0.941063
Target:  5'- gGGCUACGGGucGACga-GCUgCGUGGCg -3'
miRNA:   3'- -CUGAUGCCCcaCUGgagCGA-GUACCG- -5'
9352 3' -56.3 NC_002512.2 + 93486 0.66 0.941063
Target:  5'- uACUuCGGGGUaucgGACCUgucgGC-CAUGGCg -3'
miRNA:   3'- cUGAuGCCCCA----CUGGAg---CGaGUACCG- -5'
9352 3' -56.3 NC_002512.2 + 148124 0.66 0.936447
Target:  5'- aGGCgGCGGuGGUGACCcacgaccaGCUCAUGa- -3'
miRNA:   3'- -CUGaUGCC-CCACUGGag------CGAGUACcg -5'
9352 3' -56.3 NC_002512.2 + 105369 0.67 0.915738
Target:  5'- uGACgGCGGGGUucagacccaucGACCcggcgaCGCUCuugGGCg -3'
miRNA:   3'- -CUGaUGCCCCA-----------CUGGa-----GCGAGua-CCG- -5'
9352 3' -56.3 NC_002512.2 + 182457 0.67 0.91
Target:  5'- --gUGCGGGcGUGG---UGCUCGUGGCa -3'
miRNA:   3'- cugAUGCCC-CACUggaGCGAGUACCG- -5'
9352 3' -56.3 NC_002512.2 + 97485 0.67 0.91
Target:  5'- ---gACGGGGcacaugGugUUCGCggcCAUGGCg -3'
miRNA:   3'- cugaUGCCCCa-----CugGAGCGa--GUACCG- -5'
9352 3' -56.3 NC_002512.2 + 220329 0.68 0.884847
Target:  5'- gGGCUcCGGGGggccggacGGCCUCGUcaacgcCGUGGCc -3'
miRNA:   3'- -CUGAuGCCCCa-------CUGGAGCGa-----GUACCG- -5'
9352 3' -56.3 NC_002512.2 + 220790 0.68 0.884847
Target:  5'- -cCUGCuGGGGaucguccucGACC-CGCUCGUGGUc -3'
miRNA:   3'- cuGAUG-CCCCa--------CUGGaGCGAGUACCG- -5'
9352 3' -56.3 NC_002512.2 + 207752 0.68 0.884847
Target:  5'- cGCUcCGGGGUGgaGCCgcCGC-CGUGGUg -3'
miRNA:   3'- cUGAuGCCCCAC--UGGa-GCGaGUACCG- -5'
9352 3' -56.3 NC_002512.2 + 199600 0.68 0.878024
Target:  5'- cGAC-GCGGGG--GCCUC-CUCcAUGGCg -3'
miRNA:   3'- -CUGaUGCCCCacUGGAGcGAG-UACCG- -5'
9352 3' -56.3 NC_002512.2 + 113147 0.69 0.863763
Target:  5'- ---cGCGGGGcgccGGCCUCGCcgcggCcgGGCg -3'
miRNA:   3'- cugaUGCCCCa---CUGGAGCGa----GuaCCG- -5'
9352 3' -56.3 NC_002512.2 + 219984 0.7 0.790585
Target:  5'- aGACUGCGGG---ACCUCGCUCccccucgcccGGCg -3'
miRNA:   3'- -CUGAUGCCCcacUGGAGCGAGua--------CCG- -5'
9352 3' -56.3 NC_002512.2 + 121325 0.7 0.781681
Target:  5'- aGAU--CGGcacGGUGACCUCGCUCc-GGCg -3'
miRNA:   3'- -CUGauGCC---CCACUGGAGCGAGuaCCG- -5'
9352 3' -56.3 NC_002512.2 + 185509 0.72 0.706605
Target:  5'- gGGCUGCGcGGG-GGCCUgcCGCUCuucgaggggGUGGCc -3'
miRNA:   3'- -CUGAUGC-CCCaCUGGA--GCGAG---------UACCG- -5'
9352 3' -56.3 NC_002512.2 + 44007 0.8 0.278703
Target:  5'- cACguugAgGGGGUGACCUUGCUCcgGGUg -3'
miRNA:   3'- cUGa---UgCCCCACUGGAGCGAGuaCCG- -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.