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
28104 3' -56 NC_005887.1 + 10734 0.66 0.657063
Target:  5'- uGUUCGAuggcgacauggaaucGGACuGGCGCG-GCGgguaCGAGGg -3'
miRNA:   3'- -CGAGCU---------------CCUG-CCGUGCuCGCa---GCUUC- -5'
28104 3' -56 NC_005887.1 + 40730 0.66 0.652657
Target:  5'- cUUCGAGGuCGcCGCccGCGUCGAGGc -3'
miRNA:   3'- cGAGCUCCuGCcGUGcuCGCAGCUUC- -5'
28104 3' -56 NC_005887.1 + 5338 0.66 0.652657
Target:  5'- uGCUCGGGcGACugcguuucaGGUGCGAGCGacaugUCGGu- -3'
miRNA:   3'- -CGAGCUC-CUG---------CCGUGCUCGC-----AGCUuc -5'
28104 3' -56 NC_005887.1 + 13196 0.66 0.597539
Target:  5'- --aCGAGGccCGGCACGcucgaGGUGUCGAc- -3'
miRNA:   3'- cgaGCUCCu-GCCGUGC-----UCGCAGCUuc -5'
28104 3' -56 NC_005887.1 + 4900 0.66 0.597539
Target:  5'- cGC-CGAGGGcCGGCGCGAGgUGuUCGu-- -3'
miRNA:   3'- -CGaGCUCCU-GCCGUGCUC-GC-AGCuuc -5'
28104 3' -56 NC_005887.1 + 19181 0.67 0.564745
Target:  5'- --cCGuGaGCGGCGCGGGCGUgGAGa -3'
miRNA:   3'- cgaGCuCcUGCCGUGCUCGCAgCUUc -5'
28104 3' -56 NC_005887.1 + 40430 0.67 0.553913
Target:  5'- cGCgcgCGAcGGCGGCACGGccGCGcUCGAc- -3'
miRNA:   3'- -CGa--GCUcCUGCCGUGCU--CGC-AGCUuc -5'
28104 3' -56 NC_005887.1 + 24745 0.67 0.543143
Target:  5'- cGgUCGAGGaugccggccGCGGCugGAcaaUGUCGAAGc -3'
miRNA:   3'- -CgAGCUCC---------UGCCGugCUc--GCAGCUUC- -5'
28104 3' -56 NC_005887.1 + 13382 0.68 0.532443
Target:  5'- cGCUCGcgcugaAGGcCGGCGCGgcGGaCGUCGgcGg -3'
miRNA:   3'- -CGAGC------UCCuGCCGUGC--UC-GCAGCuuC- -5'
28104 3' -56 NC_005887.1 + 35473 0.68 0.521819
Target:  5'- aCUCGuGGGCGaaggccguGCGCGGGCGcaUCGAGc -3'
miRNA:   3'- cGAGCuCCUGC--------CGUGCUCGC--AGCUUc -5'
28104 3' -56 NC_005887.1 + 14523 0.68 0.490472
Target:  5'- cGCUUGcAGGcGCGGCcgucgGCGGcGCGUCGAu- -3'
miRNA:   3'- -CGAGC-UCC-UGCCG-----UGCU-CGCAGCUuc -5'
28104 3' -56 NC_005887.1 + 2518 0.69 0.460029
Target:  5'- cCUCGucGACGGCGcCGuAGCGcgCGAGGu -3'
miRNA:   3'- cGAGCucCUGCCGU-GC-UCGCa-GCUUC- -5'
28104 3' -56 NC_005887.1 + 5822 0.69 0.450105
Target:  5'- -aUCGAGu-CGGCGCGGGuCG-CGAAGg -3'
miRNA:   3'- cgAGCUCcuGCCGUGCUC-GCaGCUUC- -5'
28104 3' -56 NC_005887.1 + 27512 0.69 0.4403
Target:  5'- cGCUCGAacguguGGGcCGGCAUGGGCcUCGGc- -3'
miRNA:   3'- -CGAGCU------CCU-GCCGUGCUCGcAGCUuc -5'
28104 3' -56 NC_005887.1 + 14092 0.69 0.430618
Target:  5'- gGCUgCGccGGCGGCGCGccGGCGguugCGGAGg -3'
miRNA:   3'- -CGA-GCucCUGCCGUGC--UCGCa---GCUUC- -5'
28104 3' -56 NC_005887.1 + 24035 0.7 0.421062
Target:  5'- cGCUCGAGcaGugGGC-CGAGguCGUCGGu- -3'
miRNA:   3'- -CGAGCUC--CugCCGuGCUC--GCAGCUuc -5'
28104 3' -56 NC_005887.1 + 21684 0.7 0.421062
Target:  5'- -gUCGGGGgcagcugcaaACGGUGCGAGCGUCu--- -3'
miRNA:   3'- cgAGCUCC----------UGCCGUGCUCGCAGcuuc -5'
28104 3' -56 NC_005887.1 + 41924 0.7 0.402339
Target:  5'- cGCUCGA--ACGGCACGAGCaUCa--- -3'
miRNA:   3'- -CGAGCUccUGCCGUGCUCGcAGcuuc -5'
28104 3' -56 NC_005887.1 + 494 0.7 0.392269
Target:  5'- gGUUCGAgcgcagcaacagcGGGCGGCGCGGcGCGUCu--- -3'
miRNA:   3'- -CGAGCU-------------CCUGCCGUGCU-CGCAGcuuc -5'
28104 3' -56 NC_005887.1 + 11010 0.71 0.365655
Target:  5'- uGCUCGGGuGCGGCGgucugguCGAGUGUUGGGa -3'
miRNA:   3'- -CGAGCUCcUGCCGU-------GCUCGCAGCUUc -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.