miRNA display CGI


Results 1 - 17 of 17 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
28489 3' -57.8 NC_005946.1 + 7277 0.66 0.793957
Target:  5'- -cUCC---UGCGGCGGCCgUGGugGCCu -3'
miRNA:   3'- acAGGcucAUGCUGCCGG-GUCugCGG- -5'
28489 3' -57.8 NC_005946.1 + 78025 0.66 0.793957
Target:  5'- uUGUCCGGGUGCc-UGGCCUuggGGAUGggaCCa -3'
miRNA:   3'- -ACAGGCUCAUGcuGCCGGG---UCUGC---GG- -5'
28489 3' -57.8 NC_005946.1 + 7775 0.66 0.784832
Target:  5'- cGUCCccggugauGAGgGCGACGGUCaugUAGACGUUg -3'
miRNA:   3'- aCAGG--------CUCaUGCUGCCGG---GUCUGCGG- -5'
28489 3' -57.8 NC_005946.1 + 1528 0.66 0.784832
Target:  5'- cGUCC----GCGGCGGCCCucAGG-GCCa -3'
miRNA:   3'- aCAGGcucaUGCUGCCGGG--UCUgCGG- -5'
28489 3' -57.8 NC_005946.1 + 73533 0.66 0.77557
Target:  5'- cGUCCuGGaACGAgcUGGUCUuGGCGCCg -3'
miRNA:   3'- aCAGGcUCaUGCU--GCCGGGuCUGCGG- -5'
28489 3' -57.8 NC_005946.1 + 79032 0.67 0.74705
Target:  5'- cUGcCCGGGUugGCGGCGGUaaAGucguaGCGCCu -3'
miRNA:   3'- -ACaGGCUCA--UGCUGCCGggUC-----UGCGG- -5'
28489 3' -57.8 NC_005946.1 + 46755 0.67 0.73733
Target:  5'- -cUCUGAGUgGCGAUGGCCUucaugAGAcuCGCUa -3'
miRNA:   3'- acAGGCUCA-UGCUGCCGGG-----UCU--GCGG- -5'
28489 3' -57.8 NC_005946.1 + 92988 0.67 0.711651
Target:  5'- gGUCCccugcccgcuuuguuGGGcGCGuCGGCCgCGGAgGCCg -3'
miRNA:   3'- aCAGG---------------CUCaUGCuGCCGG-GUCUgCGG- -5'
28489 3' -57.8 NC_005946.1 + 31756 0.67 0.707656
Target:  5'- --aCCGugaGGUACGAgccccCGuGCCCAGACGgCa -3'
miRNA:   3'- acaGGC---UCAUGCU-----GC-CGGGUCUGCgG- -5'
28489 3' -57.8 NC_005946.1 + 26655 0.67 0.707656
Target:  5'- uUGga-GAGgacccucGCGGCGGCCUcugcgacuauGGACGCCa -3'
miRNA:   3'- -ACaggCUCa------UGCUGCCGGG----------UCUGCGG- -5'
28489 3' -57.8 NC_005946.1 + 82771 0.68 0.687539
Target:  5'- cUGUuuGGGggucuugAUGACGcCCCuGGCGCCu -3'
miRNA:   3'- -ACAggCUCa------UGCUGCcGGGuCUGCGG- -5'
28489 3' -57.8 NC_005946.1 + 103227 0.68 0.667238
Target:  5'- aGUCCGAcacGUAcuCGGcCGGCCCcugcuACGCCg -3'
miRNA:   3'- aCAGGCU---CAU--GCU-GCCGGGuc---UGCGG- -5'
28489 3' -57.8 NC_005946.1 + 22073 0.68 0.65704
Target:  5'- uUGUCUGuGUucuCGA-GGCCCuuuuucacGACGCCg -3'
miRNA:   3'- -ACAGGCuCAu--GCUgCCGGGu-------CUGCGG- -5'
28489 3' -57.8 NC_005946.1 + 84969 0.7 0.535334
Target:  5'- -cUCCcAGUACGACGuGCUCGGAgGCa -3'
miRNA:   3'- acAGGcUCAUGCUGC-CGGGUCUgCGg -5'
28489 3' -57.8 NC_005946.1 + 29236 0.7 0.524478
Target:  5'- --cCCGGGgaugACGGCaaccaggGGCCCAGGgGCCc -3'
miRNA:   3'- acaGGCUCa---UGCUG-------CCGGGUCUgCGG- -5'
28489 3' -57.8 NC_005946.1 + 102144 0.71 0.496279
Target:  5'- aGUCCGAGgGgGACagGGCCacgaccauGACGCCg -3'
miRNA:   3'- aCAGGCUCaUgCUG--CCGGgu------CUGCGG- -5'
28489 3' -57.8 NC_005946.1 + 92147 0.73 0.412796
Target:  5'- aGUCCGAcgcaUACGccuCGGCCUgggaccaGGACGCCg -3'
miRNA:   3'- aCAGGCUc---AUGCu--GCCGGG-------UCUGCGG- -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.