miRNA display CGI


Results 1 - 20 of 52 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
26895 3' -58.5 NC_005809.1 + 16535 0.66 0.512351
Target:  5'- cGCCCGCCGc--GCGgGCUuugaUGCCAUCg -3'
miRNA:   3'- -CGGGUGGCuccUGCaCGA----GCGGUAGg -5'
26895 3' -58.5 NC_005809.1 + 1902 0.66 0.511317
Target:  5'- cGCCCgcuugACCGAGGACuUGCgcagCagcuuguggguggGCCAuaUCCg -3'
miRNA:   3'- -CGGG-----UGGCUCCUGcACGa---G-------------CGGU--AGG- -5'
26895 3' -58.5 NC_005809.1 + 36181 0.66 0.502053
Target:  5'- -aUCACCGAGGGCGccgcgGCg-GCCGaCCu -3'
miRNA:   3'- cgGGUGGCUCCUGCa----CGagCGGUaGG- -5'
26895 3' -58.5 NC_005809.1 + 10715 0.66 0.491846
Target:  5'- uGCaCGgCGAGGGCGUGC-CGCaggaAUUCu -3'
miRNA:   3'- -CGgGUgGCUCCUGCACGaGCGg---UAGG- -5'
26895 3' -58.5 NC_005809.1 + 7170 0.66 0.49083
Target:  5'- gGCCgGgcgcuugucggauUCGGGGGCGacgcuggGCUUGCCAUCg -3'
miRNA:   3'- -CGGgU-------------GGCUCCUGCa------CGAGCGGUAGg -5'
26895 3' -58.5 NC_005809.1 + 40228 0.66 0.481736
Target:  5'- uGCCCAgcaacagaUCGAGGACaG-GCUgCGCgAUCUg -3'
miRNA:   3'- -CGGGU--------GGCUCCUG-CaCGA-GCGgUAGG- -5'
26895 3' -58.5 NC_005809.1 + 16771 0.66 0.481736
Target:  5'- -gCCACCGGcGACGUGaaggcgauggUCGCCAguugCCa -3'
miRNA:   3'- cgGGUGGCUcCUGCACg---------AGCGGUa---GG- -5'
26895 3' -58.5 NC_005809.1 + 23953 0.66 0.481736
Target:  5'- cGCCCGgCGAGGuCG-GCauUUGCCgAUUCa -3'
miRNA:   3'- -CGGGUgGCUCCuGCaCG--AGCGG-UAGG- -5'
26895 3' -58.5 NC_005809.1 + 17264 0.66 0.471728
Target:  5'- gGCaaGCCGGGGAUa---UUGCCGUCCa -3'
miRNA:   3'- -CGggUGGCUCCUGcacgAGCGGUAGG- -5'
26895 3' -58.5 NC_005809.1 + 10747 0.66 0.471728
Target:  5'- uGCUCGCCaAGGGCGcGCUCGaCUucggCCc -3'
miRNA:   3'- -CGGGUGGcUCCUGCaCGAGC-GGua--GG- -5'
26895 3' -58.5 NC_005809.1 + 32539 0.66 0.471728
Target:  5'- uGCCgGCC-AGGAUGcUGC-CGCCGgcgaugCCg -3'
miRNA:   3'- -CGGgUGGcUCCUGC-ACGaGCGGUa-----GG- -5'
26895 3' -58.5 NC_005809.1 + 9786 0.66 0.471727
Target:  5'- aGCaCCagcgagguGCCGAGGGCGgacUUCGCCG-CCu -3'
miRNA:   3'- -CG-GG--------UGGCUCCUGCac-GAGCGGUaGG- -5'
26895 3' -58.5 NC_005809.1 + 7995 0.66 0.471727
Target:  5'- aGCaCCACgGcgucGGACGUGCccuuggCGCCAgcuucgCCg -3'
miRNA:   3'- -CG-GGUGgCu---CCUGCACGa-----GCGGUa-----GG- -5'
26895 3' -58.5 NC_005809.1 + 17940 0.66 0.471727
Target:  5'- gGCCCGCCGGcacgccauguGGuucACGUGC-CGCUGaCCu -3'
miRNA:   3'- -CGGGUGGCU----------CC---UGCACGaGCGGUaGG- -5'
26895 3' -58.5 NC_005809.1 + 12166 0.67 0.461826
Target:  5'- cGCCaUGCCGAGcGaaaGCGUGgaCGCCGUUa -3'
miRNA:   3'- -CGG-GUGGCUC-C---UGCACgaGCGGUAGg -5'
26895 3' -58.5 NC_005809.1 + 18083 0.67 0.455938
Target:  5'- gGgCCGCCGAagccggcgcgaaccaGGACGccuucgCGCCGUCCg -3'
miRNA:   3'- -CgGGUGGCU---------------CCUGCacga--GCGGUAGG- -5'
26895 3' -58.5 NC_005809.1 + 31202 0.67 0.432799
Target:  5'- -gCCACCGAGGugccggGCGaGCaggUCGCCA-CCg -3'
miRNA:   3'- cgGGUGGCUCC------UGCaCG---AGCGGUaGG- -5'
26895 3' -58.5 NC_005809.1 + 14765 0.67 0.423362
Target:  5'- aGCgCGCgCGAGGACGUGCU-GCgG-CUg -3'
miRNA:   3'- -CGgGUG-GCUCCUGCACGAgCGgUaGG- -5'
26895 3' -58.5 NC_005809.1 + 4304 0.67 0.414049
Target:  5'- cGCCCAUguAGGACagcuUGCcggCGUCAUCCa -3'
miRNA:   3'- -CGGGUGgcUCCUGc---ACGa--GCGGUAGG- -5'
26895 3' -58.5 NC_005809.1 + 13681 0.68 0.404864
Target:  5'- cGCgCACCguGAGGAUGUcgUCGgCGUCCa -3'
miRNA:   3'- -CGgGUGG--CUCCUGCAcgAGCgGUAGG- -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.