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
19553 3' -56.1 NC_004685.1 + 34509 0.66 0.750538
Target:  5'- aGCCGGAGCcagaacgccuggcucGGCUGGAgcguaCGCGGc----- -3'
miRNA:   3'- -CGGCCUCG---------------UCGACCU-----GCGCUaacagu -5'
19553 3' -56.1 NC_004685.1 + 18285 0.66 0.746462
Target:  5'- gGgCGGGGUacAGCgGcGAgGUGAUUGUCAg -3'
miRNA:   3'- -CgGCCUCG--UCGaC-CUgCGCUAACAGU- -5'
19553 3' -56.1 NC_004685.1 + 10492 0.66 0.746462
Target:  5'- uGCCGG-GUGuGCUGGAguggGCGGUcgGUCAg -3'
miRNA:   3'- -CGGCCuCGU-CGACCUg---CGCUAa-CAGU- -5'
19553 3' -56.1 NC_004685.1 + 59827 0.66 0.736196
Target:  5'- uGCCGGcccguGaCGGCUGcaccGACGCGAUcagcGUCAu -3'
miRNA:   3'- -CGGCCu----C-GUCGAC----CUGCGCUAa---CAGU- -5'
19553 3' -56.1 NC_004685.1 + 33116 0.66 0.72687
Target:  5'- aCUGGAucGCGGCgugGGACGCGAagaagccuggcgagcUGUCGu -3'
miRNA:   3'- cGGCCU--CGUCGa--CCUGCGCUa--------------ACAGU- -5'
19553 3' -56.1 NC_004685.1 + 32006 0.67 0.694232
Target:  5'- aGCCGGAGCcGCUGGuccCGCcGGUg---- -3'
miRNA:   3'- -CGGCCUCGuCGACCu--GCG-CUAacagu -5'
19553 3' -56.1 NC_004685.1 + 36276 0.67 0.694232
Target:  5'- gGCCGGuGC-GCUGcGGCGCGGcgaUCAu -3'
miRNA:   3'- -CGGCCuCGuCGAC-CUGCGCUaacAGU- -5'
19553 3' -56.1 NC_004685.1 + 10238 0.67 0.694232
Target:  5'- cGCCGGGGUgucGGaUUGGAUGCGGgagaaGUCc -3'
miRNA:   3'- -CGGCCUCG---UC-GACCUGCGCUaa---CAGu -5'
19553 3' -56.1 NC_004685.1 + 36158 0.67 0.651342
Target:  5'- uGCCGGuuGguGgUGGugGCGAacccGUCGc -3'
miRNA:   3'- -CGGCCu-CguCgACCugCGCUaa--CAGU- -5'
19553 3' -56.1 NC_004685.1 + 69 0.67 0.640551
Target:  5'- aGCCGGGGCgGGCgcgcgcccgugUGGACGCGcgcccGUUGg-- -3'
miRNA:   3'- -CGGCCUCG-UCG-----------ACCUGCGC-----UAACagu -5'
19553 3' -56.1 NC_004685.1 + 7926 0.68 0.629754
Target:  5'- gGCCGGAGCAcgaaaucgugacGCUGGAC-CGAgccaagGcCAu -3'
miRNA:   3'- -CGGCCUCGU------------CGACCUGcGCUaa----CaGU- -5'
19553 3' -56.1 NC_004685.1 + 9455 0.68 0.608174
Target:  5'- uGCCGccGAGUAucacGCUGccCGCGAUUGUCGg -3'
miRNA:   3'- -CGGC--CUCGU----CGACcuGCGCUAACAGU- -5'
19553 3' -56.1 NC_004685.1 + 20360 0.7 0.482516
Target:  5'- cGUCGGAGCuGCUGGcCGCGGc----- -3'
miRNA:   3'- -CGGCCUCGuCGACCuGCGCUaacagu -5'
19553 3' -56.1 NC_004685.1 + 4985 0.7 0.462709
Target:  5'- cGCCGuGAGCAagcaguggucGCUGGAgGCGAUgGUg- -3'
miRNA:   3'- -CGGC-CUCGU----------CGACCUgCGCUAaCAgu -5'
19553 3' -56.1 NC_004685.1 + 69290 0.7 0.462709
Target:  5'- cGCCGccuacGAGCAGCUcGAgGCGGcUGUCGa -3'
miRNA:   3'- -CGGC-----CUCGUCGAcCUgCGCUaACAGU- -5'
19553 3' -56.1 NC_004685.1 + 56621 0.72 0.400589
Target:  5'- aGCCGGGGUAGCUGGgauuggcgucagcccACGCGucUGcCGa -3'
miRNA:   3'- -CGGCCUCGUCGACC---------------UGCGCuaACaGU- -5'
19553 3' -56.1 NC_004685.1 + 15215 0.72 0.396998
Target:  5'- cGCCGG-GCGGCUGGAC-CGAgaaGUa- -3'
miRNA:   3'- -CGGCCuCGUCGACCUGcGCUaa-CAgu -5'
19553 3' -56.1 NC_004685.1 + 33194 0.73 0.345676
Target:  5'- cGCCGGuGCGG-UGGACGCGcaacccgGUCGa -3'
miRNA:   3'- -CGGCCuCGUCgACCUGCGCuaa----CAGU- -5'
19553 3' -56.1 NC_004685.1 + 69423 1.1 0.000866
Target:  5'- cGCCGGAGCAGCUGGACGCGAUUGUCAc -3'
miRNA:   3'- -CGGCCUCGUCGACCUGCGCUAACAGU- -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.