miRNA display CGI


Results 1 - 20 of 53 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
26648 3' -51.8 NC_005808.1 + 42310 0.77 0.247993
Target:  5'- uGCUCGCCGACcauccggguguGCUUGGCCu-GCCGa -3'
miRNA:   3'- -UGAGCGGCUGuu---------UGAAUCGGcuUGGC- -5'
26648 3' -51.8 NC_005808.1 + 41874 0.72 0.496359
Target:  5'- --cCGCCaGGCGcucGACUUGGCCGuGGCCGa -3'
miRNA:   3'- ugaGCGG-CUGU---UUGAAUCGGC-UUGGC- -5'
26648 3' -51.8 NC_005808.1 + 37989 0.66 0.844016
Target:  5'- --cCGCCGACAucauc-GCCGAgGCCGa -3'
miRNA:   3'- ugaGCGGCUGUuugaauCGGCU-UGGC- -5'
26648 3' -51.8 NC_005808.1 + 37735 0.73 0.423942
Target:  5'- gGCUCGCCGGCGAggauuggaaGC-UGGCCGcuuuCCGu -3'
miRNA:   3'- -UGAGCGGCUGUU---------UGaAUCGGCuu--GGC- -5'
26648 3' -51.8 NC_005808.1 + 37344 0.67 0.796094
Target:  5'- cGCaUUGCCGACcccGACcugccGGCCGAACUGc -3'
miRNA:   3'- -UG-AGCGGCUGu--UUGaa---UCGGCUUGGC- -5'
26648 3' -51.8 NC_005808.1 + 35018 0.69 0.661794
Target:  5'- -gUCGCCGAC-GACUUcguggacguguccaAGCCGGuggcGCCGc -3'
miRNA:   3'- ugAGCGGCUGuUUGAA--------------UCGGCU----UGGC- -5'
26648 3' -51.8 NC_005808.1 + 34953 0.69 0.665218
Target:  5'- gGCUUGCCGAUGAACUgcagcgcacGCuCGGcgGCCGg -3'
miRNA:   3'- -UGAGCGGCUGUUUGAau-------CG-GCU--UGGC- -5'
26648 3' -51.8 NC_005808.1 + 34367 0.69 0.676608
Target:  5'- cUUCGCCGACGAggGCacGGCCGcGCaCGa -3'
miRNA:   3'- uGAGCGGCUGUU--UGaaUCGGCuUG-GC- -5'
26648 3' -51.8 NC_005808.1 + 33962 0.68 0.710453
Target:  5'- --gCGCCGcGCAGAUUgcuGCCGAACaCGa -3'
miRNA:   3'- ugaGCGGC-UGUUUGAau-CGGCUUG-GC- -5'
26648 3' -51.8 NC_005808.1 + 33735 0.66 0.815901
Target:  5'- gAUUCGCCaGCGG---UGGCCGuGCCGg -3'
miRNA:   3'- -UGAGCGGcUGUUugaAUCGGCuUGGC- -5'
26648 3' -51.8 NC_005808.1 + 33711 0.66 0.815901
Target:  5'- gAUUCGCCaGCGG---UGGCCGuGCCGg -3'
miRNA:   3'- -UGAGCGGcUGUUugaAUCGGCuUGGC- -5'
26648 3' -51.8 NC_005808.1 + 32707 0.66 0.852919
Target:  5'- uGCUCGCCGcgugcaauCAGGCgauggagGGCUGAcGCCa -3'
miRNA:   3'- -UGAGCGGCu-------GUUUGaa-----UCGGCU-UGGc -5'
26648 3' -51.8 NC_005808.1 + 32612 0.67 0.775545
Target:  5'- gGCaUCGCCGGCGgcAGCauccUGGCCGGcaucACCa -3'
miRNA:   3'- -UG-AGCGGCUGU--UUGa---AUCGGCU----UGGc -5'
26648 3' -51.8 NC_005808.1 + 31508 0.68 0.732622
Target:  5'- uGC-CGCCGGCGuGCU--GCUGGGCCu -3'
miRNA:   3'- -UGaGCGGCUGUuUGAauCGGCUUGGc -5'
26648 3' -51.8 NC_005808.1 + 31391 0.66 0.834872
Target:  5'- -gUCGCCG-CGAcCUgggauuccAGCCGGGCCa -3'
miRNA:   3'- ugAGCGGCuGUUuGAa-------UCGGCUUGGc -5'
26648 3' -51.8 NC_005808.1 + 31311 0.66 0.844016
Target:  5'- -gUCGcCCGGCucguAGCUgGGCCGcgcGCCGg -3'
miRNA:   3'- ugAGC-GGCUGu---UUGAaUCGGCu--UGGC- -5'
26648 3' -51.8 NC_005808.1 + 31024 0.66 0.852919
Target:  5'- gGCUUGCCGGCcgAGGCaaucGCgCGGGCCa -3'
miRNA:   3'- -UGAGCGGCUG--UUUGaau-CG-GCUUGGc -5'
26648 3' -51.8 NC_005808.1 + 28224 0.69 0.653794
Target:  5'- --aCGCCGACGAccacGCgcgGGUCGGACUGc -3'
miRNA:   3'- ugaGCGGCUGUU----UGaa-UCGGCUUGGC- -5'
26648 3' -51.8 NC_005808.1 + 27578 0.75 0.324006
Target:  5'- gACcgCGCCGAgAAGCUggcGGCCGAggccGCCGg -3'
miRNA:   3'- -UGa-GCGGCUgUUUGAa--UCGGCU----UGGC- -5'
26648 3' -51.8 NC_005808.1 + 26499 0.69 0.642349
Target:  5'- cCUCGCCGACucGCa-AGCCGGcaucauucACCGc -3'
miRNA:   3'- uGAGCGGCUGuuUGaaUCGGCU--------UGGC- -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.