miRNA display CGI


Results 1 - 19 of 19 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
16942 3' -50.2 NC_004313.1 + 3180 0.66 0.887752
Target:  5'- gGACUGGAAGucGAUGGCgcugaacgccGAGGaCAGCCa -3'
miRNA:   3'- aUUGGUCUUU--UUGCCG----------CUCCcGUUGG- -5'
16942 3' -50.2 NC_004313.1 + 11319 0.66 0.887752
Target:  5'- -uGCgCAGGAGAugGGCGGauGGGaGACg -3'
miRNA:   3'- auUG-GUCUUUUugCCGCU--CCCgUUGg -5'
16942 3' -50.2 NC_004313.1 + 13885 0.66 0.886178
Target:  5'- ---aCGGAugacgauuuCGGCGAGG-CAACCa -3'
miRNA:   3'- auugGUCUuuuu-----GCCGCUCCcGUUGG- -5'
16942 3' -50.2 NC_004313.1 + 36878 0.66 0.879766
Target:  5'- aAACCgGGGAAAACGccgccaccGCGc-GGCAACCa -3'
miRNA:   3'- aUUGG-UCUUUUUGC--------CGCucCCGUUGG- -5'
16942 3' -50.2 NC_004313.1 + 29545 0.66 0.87149
Target:  5'- -cGCCAGAAAaggguGACGcccGCGAGuGuGCAGCUc -3'
miRNA:   3'- auUGGUCUUU-----UUGC---CGCUC-C-CGUUGG- -5'
16942 3' -50.2 NC_004313.1 + 37679 0.66 0.87149
Target:  5'- aUGGCUGGAAGuaucGCgGGCGuGGGCuuauCCa -3'
miRNA:   3'- -AUUGGUCUUUu---UG-CCGCuCCCGuu--GG- -5'
16942 3' -50.2 NC_004313.1 + 9722 0.66 0.868952
Target:  5'- cAGCCGGAcgccgccgucaccgGAAACGGUGAacGGaaAACCa -3'
miRNA:   3'- aUUGGUCU--------------UUUUGCCGCU--CCcgUUGG- -5'
16942 3' -50.2 NC_004313.1 + 10531 0.66 0.862932
Target:  5'- -uGCCGGAGuggcaucCGGCGAaauugccgcgauGGGCGccACCa -3'
miRNA:   3'- auUGGUCUUuuu----GCCGCU------------CCCGU--UGG- -5'
16942 3' -50.2 NC_004313.1 + 9900 0.67 0.845002
Target:  5'- -cGCCAGAAGuauGCGGUGuuGuaGACCc -3'
miRNA:   3'- auUGGUCUUUu--UGCCGCucCcgUUGG- -5'
16942 3' -50.2 NC_004313.1 + 19666 0.67 0.806178
Target:  5'- --uCCAGGuu-GCaGGUGAuGGCAGCCa -3'
miRNA:   3'- auuGGUCUuuuUG-CCGCUcCCGUUGG- -5'
16942 3' -50.2 NC_004313.1 + 14613 0.67 0.805162
Target:  5'- gAGCCGGAAuagugguAAAUGGCGGcGGaaAGCCa -3'
miRNA:   3'- aUUGGUCUU-------UUUGCCGCU-CCcgUUGG- -5'
16942 3' -50.2 NC_004313.1 + 11470 0.68 0.774839
Target:  5'- cGGCCAGcAGGACGGacugcugcAGGGC-ACCa -3'
miRNA:   3'- aUUGGUCuUUUUGCCgc------UCCCGuUGG- -5'
16942 3' -50.2 NC_004313.1 + 26261 0.68 0.773766
Target:  5'- -uGCCuguuGGAucguaauGCGGCGAacagccuGGGCGGCCu -3'
miRNA:   3'- auUGGu---CUUuu-----UGCCGCU-------CCCGUUGG- -5'
16942 3' -50.2 NC_004313.1 + 10262 0.69 0.708003
Target:  5'- ---gCAGAGAucguGGCGGCGGgcGGGCAGgCa -3'
miRNA:   3'- auugGUCUUU----UUGCCGCU--CCCGUUgG- -5'
16942 3' -50.2 NC_004313.1 + 16 0.69 0.708003
Target:  5'- aUGGCUGGA---ACGGCG-GGGCGuuCCg -3'
miRNA:   3'- -AUUGGUCUuuuUGCCGCuCCCGUu-GG- -5'
16942 3' -50.2 NC_004313.1 + 4725 0.7 0.683736
Target:  5'- -cGCCAGGAGGccACGGUGAucaccguGGGCGguuCCg -3'
miRNA:   3'- auUGGUCUUUU--UGCCGCU-------CCCGUu--GG- -5'
16942 3' -50.2 NC_004313.1 + 6503 0.7 0.672086
Target:  5'- cAGCCGGAAGAACugguguuuaaccgGGCGAGaauGCGACg -3'
miRNA:   3'- aUUGGUCUUUUUG-------------CCGCUCc--CGUUGg -5'
16942 3' -50.2 NC_004313.1 + 1571 0.74 0.446037
Target:  5'- aAACCAGAuuaaAGAAUGcuguGCGGGcGGCAACCc -3'
miRNA:   3'- aUUGGUCU----UUUUGC----CGCUC-CCGUUGG- -5'
16942 3' -50.2 NC_004313.1 + 6723 1.12 0.001326
Target:  5'- cUAACCAGAAAAACGGCGAGGGCAACCg -3'
miRNA:   3'- -AUUGGUCUUUUUGCCGCUCCCGUUGG- -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.