miRNA display CGI


Results 1 - 20 of 66 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
16306 5' -49.6 NC_004084.1 + 278 0.68 0.918092
Target:  5'- --aGCUGGGgcagACGGUGAUCGUGucGCGAa -3'
miRNA:   3'- gagUGGUCU----UGCCGCUAGCAUu-UGCU- -5'
16306 5' -49.6 NC_004084.1 + 399 0.67 0.929537
Target:  5'- cCUCACCgAGAGCGaGCaggagauGAUCGaGAGCGu -3'
miRNA:   3'- -GAGUGG-UCUUGC-CG-------CUAGCaUUUGCu -5'
16306 5' -49.6 NC_004084.1 + 982 0.66 0.95923
Target:  5'- -cCACCGGGACGGCcug---AGACGAc -3'
miRNA:   3'- gaGUGGUCUUGCCGcuagcaUUUGCU- -5'
16306 5' -49.6 NC_004084.1 + 1013 0.7 0.822756
Target:  5'- gCUCGCCGGcGACGucgacGCGAUCGggGGCGc -3'
miRNA:   3'- -GAGUGGUC-UUGC-----CGCUAGCauUUGCu -5'
16306 5' -49.6 NC_004084.1 + 1131 0.74 0.641553
Target:  5'- gUC-CUGGAugGcGCGGUUGUAGACGAg -3'
miRNA:   3'- gAGuGGUCUugC-CGCUAGCAUUUGCU- -5'
16306 5' -49.6 NC_004084.1 + 1179 0.68 0.918092
Target:  5'- aUCGCCG--AC-GCGGUCGUGGACGu -3'
miRNA:   3'- gAGUGGUcuUGcCGCUAGCAUUUGCu -5'
16306 5' -49.6 NC_004084.1 + 1454 0.68 0.904223
Target:  5'- uUCGCuCGGAccgcuucgcugauGCGGCGAUCG---ACGAc -3'
miRNA:   3'- gAGUG-GUCU-------------UGCCGCUAGCauuUGCU- -5'
16306 5' -49.6 NC_004084.1 + 1822 0.7 0.847405
Target:  5'- -gCACCAGAcgaugcaguugcggACGGUGAacucuUCGUcGACGAg -3'
miRNA:   3'- gaGUGGUCU--------------UGCCGCU-----AGCAuUUGCU- -5'
16306 5' -49.6 NC_004084.1 + 3160 0.69 0.893544
Target:  5'- -aCGCCGccGAccguagacgucgucgACGGCGAggaCGUGAACGAg -3'
miRNA:   3'- gaGUGGU--CU---------------UGCCGCUa--GCAUUUGCU- -5'
16306 5' -49.6 NC_004084.1 + 3625 0.66 0.954653
Target:  5'- gUCAUCGGGACuauggagGGCGAUCaGUAGcgcugGCGGg -3'
miRNA:   3'- gAGUGGUCUUG-------CCGCUAG-CAUU-----UGCU- -5'
16306 5' -49.6 NC_004084.1 + 4027 0.7 0.841174
Target:  5'- gUCgACUGGAACGGCGAUCGcgucaGAg -3'
miRNA:   3'- gAG-UGGUCUUGCCGCUAGCauuugCU- -5'
16306 5' -49.6 NC_004084.1 + 5343 0.69 0.890589
Target:  5'- gUCGCCGagcGGGCGGCGAggacugGGACGAu -3'
miRNA:   3'- gAGUGGU---CUUGCCGCUagca--UUUGCU- -5'
16306 5' -49.6 NC_004084.1 + 8164 0.66 0.963106
Target:  5'- cCUCGCCGccAACGGCGA-CGaGGACGc -3'
miRNA:   3'- -GAGUGGUc-UUGCCGCUaGCaUUUGCu -5'
16306 5' -49.6 NC_004084.1 + 8563 0.69 0.890589
Target:  5'- aCUCGCCGGAucuCGcucGCGA-CGUcGACGAg -3'
miRNA:   3'- -GAGUGGUCUu--GC---CGCUaGCAuUUGCU- -5'
16306 5' -49.6 NC_004084.1 + 10642 0.66 0.954653
Target:  5'- cCUCACC-GAcaucaacGCGGCG-UCGaUGAugGAu -3'
miRNA:   3'- -GAGUGGuCU-------UGCCGCuAGC-AUUugCU- -5'
16306 5' -49.6 NC_004084.1 + 10881 0.72 0.752224
Target:  5'- aCUgGCCGGAugAUGGCGAUCGU---CGGg -3'
miRNA:   3'- -GAgUGGUCU--UGCCGCUAGCAuuuGCU- -5'
16306 5' -49.6 NC_004084.1 + 11576 0.76 0.540674
Target:  5'- uUCACgGacGCGGCGAUCGUGGGCa- -3'
miRNA:   3'- gAGUGgUcuUGCCGCUAGCAUUUGcu -5'
16306 5' -49.6 NC_004084.1 + 11842 0.66 0.955083
Target:  5'- aUCGCCuG-ACGGCGAUaucgaGUucACGAc -3'
miRNA:   3'- gAGUGGuCuUGCCGCUAg----CAuuUGCU- -5'
16306 5' -49.6 NC_004084.1 + 13215 0.67 0.949277
Target:  5'- aUCACCgaguacgaggagcaAGAAUGGCcGAUCGaggaGGGCGAa -3'
miRNA:   3'- gAGUGG--------------UCUUGCCG-CUAGCa---UUUGCU- -5'
16306 5' -49.6 NC_004084.1 + 13666 0.7 0.85004
Target:  5'- uUCGCCaaccuGGAGCaGGCcGUCGUAGAUGGc -3'
miRNA:   3'- gAGUGG-----UCUUG-CCGcUAGCAUUUGCU- -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.