miRNA display CGI


Results 1 - 20 of 22 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
30685 3' -65.3 NC_006552.1 + 44114 0.66 0.303635
Target:  5'- --aGGCCcCCAGGGGCUU--CCGGCu -3'
miRNA:   3'- ggaCCGGcGGUUCCCGGAccGGCCGu -5'
30685 3' -65.3 NC_006552.1 + 37793 0.66 0.289838
Target:  5'- --gGGCCGUaaUAGGGGCCacGGUcuaCGGCAg -3'
miRNA:   3'- ggaCCGGCG--GUUCCCGGa-CCG---GCCGU- -5'
30685 3' -65.3 NC_006552.1 + 43401 0.66 0.283126
Target:  5'- gCCUGGCCGCCGu---CCUGGUCGc-- -3'
miRNA:   3'- -GGACCGGCGGUucccGGACCGGCcgu -5'
30685 3' -65.3 NC_006552.1 + 62422 0.66 0.283126
Target:  5'- --gGGUgGCCGAGGGCg-GGCC-GCGg -3'
miRNA:   3'- ggaCCGgCGGUUCCCGgaCCGGcCGU- -5'
30685 3' -65.3 NC_006552.1 + 61977 0.66 0.283126
Target:  5'- gCCUGGCCcuCUuuGGGCUcGGCUGGa- -3'
miRNA:   3'- -GGACCGGc-GGuuCCCGGaCCGGCCgu -5'
30685 3' -65.3 NC_006552.1 + 113 0.66 0.276538
Target:  5'- aCCUGGaCGCCGccGGC---GCCGGCAa -3'
miRNA:   3'- -GGACCgGCGGUucCCGgacCGGCCGU- -5'
30685 3' -65.3 NC_006552.1 + 52905 0.66 0.276538
Target:  5'- --cGGcCCGCUcguuGAGGGCCUGaGCCauGGUg -3'
miRNA:   3'- ggaCC-GGCGG----UUCCCGGAC-CGG--CCGu -5'
30685 3' -65.3 NC_006552.1 + 5576 0.67 0.257508
Target:  5'- gCCUGGCagaacucggGCCGGGaGGUgCUGGCUGGgGa -3'
miRNA:   3'- -GGACCGg--------CGGUUC-CCG-GACCGGCCgU- -5'
30685 3' -65.3 NC_006552.1 + 38418 0.67 0.239562
Target:  5'- aCCUGG-CGCacaGAGGcccgcaguugcGCCUugccGGCCGGCGa -3'
miRNA:   3'- -GGACCgGCGg--UUCC-----------CGGA----CCGGCCGU- -5'
30685 3' -65.3 NC_006552.1 + 38492 0.67 0.233817
Target:  5'- aCUGGUCGcCCAGGGcGCCgaaggcgucGCCGuGCAg -3'
miRNA:   3'- gGACCGGC-GGUUCC-CGGac-------CGGC-CGU- -5'
30685 3' -65.3 NC_006552.1 + 31345 0.67 0.233817
Target:  5'- aCUGGCCGCCGAGcGGgaUGGUCuuguacugGGCc -3'
miRNA:   3'- gGACCGGCGGUUC-CCggACCGG--------CCGu -5'
30685 3' -65.3 NC_006552.1 + 36122 0.67 0.233817
Target:  5'- --cGuGCCGCCGAccauaGGUCUGGCCacGGCAu -3'
miRNA:   3'- ggaC-CGGCGGUUc----CCGGACCGG--CCGU- -5'
30685 3' -65.3 NC_006552.1 + 2198 0.67 0.221584
Target:  5'- aCCUGcGCCGCCAGGuguuggagaaaauGGCCgcccagcgcaaccUGGCCGcCAu -3'
miRNA:   3'- -GGAC-CGGCGGUUC-------------CCGG-------------ACCGGCcGU- -5'
30685 3' -65.3 NC_006552.1 + 52350 0.68 0.21942
Target:  5'- gCUGcGCUGCCcggcGGGCCUGGauuuccugcugcgccUCGGCGa -3'
miRNA:   3'- gGAC-CGGCGGuu--CCCGGACC---------------GGCCGU- -5'
30685 3' -65.3 NC_006552.1 + 13002 0.68 0.215675
Target:  5'- gCCUGGCCaCCGAGGaCUUGcucgucgucgaccaGCCGGCc -3'
miRNA:   3'- -GGACCGGcGGUUCCcGGAC--------------CGGCCGu -5'
30685 3' -65.3 NC_006552.1 + 29831 0.68 0.210941
Target:  5'- gCUuGCCGCCc-GGGauauccgagagaCUGGCCGGCGg -3'
miRNA:   3'- gGAcCGGCGGuuCCCg-----------GACCGGCCGU- -5'
30685 3' -65.3 NC_006552.1 + 2610 0.68 0.206808
Target:  5'- uCCUGGCuCGaCAAGGGCgCcGaGCgCGGCAc -3'
miRNA:   3'- -GGACCG-GCgGUUCCCG-GaC-CG-GCCGU- -5'
30685 3' -65.3 NC_006552.1 + 52396 0.69 0.187183
Target:  5'- gCCUGGCggaacuCGgCGAGGGUCUgcgGGuuGGCGa -3'
miRNA:   3'- -GGACCG------GCgGUUCCCGGA---CCggCCGU- -5'
30685 3' -65.3 NC_006552.1 + 8040 0.69 0.164973
Target:  5'- aCCUGGCgGCguuccuCAAGGGgUUGaCCGGCAu -3'
miRNA:   3'- -GGACCGgCG------GUUCCCgGACcGGCCGU- -5'
30685 3' -65.3 NC_006552.1 + 16030 0.71 0.11794
Target:  5'- cCCUccGGCUGCCcgcacugcGGcGGCCUGGuCCGGCu -3'
miRNA:   3'- -GGA--CCGGCGGu-------UC-CCGGACC-GGCCGu -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.