miRNA display CGI


Results 1 - 20 of 43 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
28154 5' -56.3 NC_005887.1 + 36335 0.66 0.573715
Target:  5'- aCUCGAUCCAgguauaggcCGACGAGGgggacagGAGCGcGUg -3'
miRNA:   3'- -GAGCUAGGU---------GCUGCUCUg------CUCGC-CGu -5'
28154 5' -56.3 NC_005887.1 + 7113 0.68 0.509391
Target:  5'- -gUGGUCUAacgaGGCGGGGCGGcgcuGCGGCGc -3'
miRNA:   3'- gaGCUAGGUg---CUGCUCUGCU----CGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 2239 0.68 0.509391
Target:  5'- gUCGGaagucgUCGCGACGAGcAUGGGCGcGCGu -3'
miRNA:   3'- gAGCUa-----GGUGCUGCUC-UGCUCGC-CGU- -5'
28154 5' -56.3 NC_005887.1 + 17267 0.67 0.530539
Target:  5'- aUCGugCCG-GGCGAGACGucgGGCGGCGc -3'
miRNA:   3'- gAGCuaGGUgCUGCUCUGC---UCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 35184 0.67 0.541234
Target:  5'- cCUCGAccuuuuUCCaACGGCGGGGCGAuucguugcGCaGCAg -3'
miRNA:   3'- -GAGCU------AGG-UGCUGCUCUGCU--------CGcCGU- -5'
28154 5' -56.3 NC_005887.1 + 35134 0.67 0.541234
Target:  5'- aUCGGaaUCCgGCGccACG-GACGGGCGGCc -3'
miRNA:   3'- gAGCU--AGG-UGC--UGCuCUGCUCGCCGu -5'
28154 5' -56.3 NC_005887.1 + 23973 0.67 0.551999
Target:  5'- cCUCGGcCCACugcuCGAGcGCGAGgCGGCGc -3'
miRNA:   3'- -GAGCUaGGUGcu--GCUC-UGCUC-GCCGU- -5'
28154 5' -56.3 NC_005887.1 + 14693 0.67 0.551999
Target:  5'- aUCGGgcucgUCGCGGCG-GGCGGGCcgGGCGc -3'
miRNA:   3'- gAGCUa----GGUGCUGCuCUGCUCG--CCGU- -5'
28154 5' -56.3 NC_005887.1 + 29109 0.66 0.572624
Target:  5'- gUCGGU-CGCGACGAGcCGGGUuucguacGGCGu -3'
miRNA:   3'- gAGCUAgGUGCUGCUCuGCUCG-------CCGU- -5'
28154 5' -56.3 NC_005887.1 + 13383 0.68 0.498949
Target:  5'- gCUCGcgCUgaaggccggcGCGGCG-GACGucGGCGGCAa -3'
miRNA:   3'- -GAGCuaGG----------UGCUGCuCUGC--UCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 34352 0.68 0.458199
Target:  5'- -cCGG-CCACGGCugGAGACGAGCGccccGCGu -3'
miRNA:   3'- gaGCUaGGUGCUG--CUCUGCUCGC----CGU- -5'
28154 5' -56.3 NC_005887.1 + 19164 0.68 0.457203
Target:  5'- aCUCGGcaccgauuauUCCgugagcggcgcggGCGugGAGACaGGCGGCGc -3'
miRNA:   3'- -GAGCU----------AGG-------------UGCugCUCUGcUCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 39968 0.71 0.32339
Target:  5'- uCUCGAUUCGCacaagGGCGAGACGccGUGGCc -3'
miRNA:   3'- -GAGCUAGGUG-----CUGCUCUGCu-CGCCGu -5'
28154 5' -56.3 NC_005887.1 + 25501 0.71 0.33955
Target:  5'- gCUCGGaCgAUGGCGcGGCGGGUGGCGg -3'
miRNA:   3'- -GAGCUaGgUGCUGCuCUGCUCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 32399 0.7 0.382462
Target:  5'- cCUCGAuacUCCuuucguCGACGuGGCcGGCGGCGa -3'
miRNA:   3'- -GAGCU---AGGu-----GCUGCuCUGcUCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 10753 0.7 0.391467
Target:  5'- aUCGGaCUggcGCGGCGGGuACGAGgGGCAg -3'
miRNA:   3'- gAGCUaGG---UGCUGCUC-UGCUCgCCGU- -5'
28154 5' -56.3 NC_005887.1 + 628 0.69 0.428834
Target:  5'- aUCGAagCCGCGAUGAaaGCGcGCGGCGa -3'
miRNA:   3'- gAGCUa-GGUGCUGCUc-UGCuCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 40515 0.69 0.4385
Target:  5'- uUCGGcaUCCACcACGcGGCGcGCGGCAg -3'
miRNA:   3'- gAGCU--AGGUGcUGCuCUGCuCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 41710 0.69 0.4385
Target:  5'- gCUC-AUCaa-GGCGAuGACGGGCGGCGa -3'
miRNA:   3'- -GAGcUAGgugCUGCU-CUGCUCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 13672 0.68 0.457203
Target:  5'- -gCGAUCagcggCGCGACGGGugggaucucgaccACGGGCGGCc -3'
miRNA:   3'- gaGCUAG-----GUGCUGCUC-------------UGCUCGCCGu -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.