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 + 36353 0.66 0.628694
Target:  5'- aUCGG-CCAaccgGACGAGuCGAGCGaGUAc -3'
miRNA:   3'- gAGCUaGGUg---CUGCUCuGCUCGC-CGU- -5'
28154 5' -56.3 NC_005887.1 + 16039 0.66 0.628694
Target:  5'- -aCGAcaUCCuCGACGAacugcgacagcGGCGuGCGGCGc -3'
miRNA:   3'- gaGCU--AGGuGCUGCU-----------CUGCuCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 913 0.66 0.625382
Target:  5'- uUCGAUCCGCGucgcgacccgcaucGCGAGugcccCGAGUgcuucGGCGa -3'
miRNA:   3'- gAGCUAGGUGC--------------UGCUCu----GCUCG-----CCGU- -5'
28154 5' -56.3 NC_005887.1 + 23223 0.66 0.617655
Target:  5'- --aGggCCACGcCGAcggcacGCGAGCGGCGg -3'
miRNA:   3'- gagCuaGGUGCuGCUc-----UGCUCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 27338 0.66 0.617655
Target:  5'- gUCGAcugcgCCACGcgcagcggcGCGcAGACGAGCgucGGCAu -3'
miRNA:   3'- gAGCUa----GGUGC---------UGC-UCUGCUCG---CCGU- -5'
28154 5' -56.3 NC_005887.1 + 26443 0.66 0.606627
Target:  5'- -aCGAUCCGCGACuGGAac-GCuGGCAa -3'
miRNA:   3'- gaGCUAGGUGCUGcUCUgcuCG-CCGU- -5'
28154 5' -56.3 NC_005887.1 + 8785 0.66 0.595622
Target:  5'- uUCGuggCCGCGACGAaGCGcuuaccgccGCGGCGg -3'
miRNA:   3'- gAGCua-GGUGCUGCUcUGCu--------CGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 25979 0.66 0.584649
Target:  5'- uUCGAcacuUCgGCGACGcGGuacagcuucACGGGCGGCGu -3'
miRNA:   3'- gAGCU----AGgUGCUGC-UC---------UGCUCGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 36221 0.66 0.584649
Target:  5'- -aCGcgCCGCGACGAGGaaacCGGCGa -3'
miRNA:   3'- gaGCuaGGUGCUGCUCUgcucGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 32281 0.66 0.584649
Target:  5'- -cCGGUCCAC-ACGGGGCGAucgucgggccaGcCGGCGc -3'
miRNA:   3'- gaGCUAGGUGcUGCUCUGCU-----------C-GCCGU- -5'
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 + 8548 0.66 0.573715
Target:  5'- aCUCGAgCCACGuguCGucGcCGAGCGGUu -3'
miRNA:   3'- -GAGCUaGGUGCu--GCu-CuGCUCGCCGu -5'
28154 5' -56.3 NC_005887.1 + 32527 0.66 0.573715
Target:  5'- aUCGAUCCGC-ACGccGCGcAGUGGCu -3'
miRNA:   3'- gAGCUAGGUGcUGCucUGC-UCGCCGu -5'
28154 5' -56.3 NC_005887.1 + 29714 0.66 0.573715
Target:  5'- cCUCGcgCCGCG-CGugaguGACGA-CGGCGa -3'
miRNA:   3'- -GAGCuaGGUGCuGCu----CUGCUcGCCGU- -5'
28154 5' -56.3 NC_005887.1 + 23510 0.66 0.573715
Target:  5'- -cCGGUggaaGCGGCGGGaugGCGGGCGGCu -3'
miRNA:   3'- gaGCUAgg--UGCUGCUC---UGCUCGCCGu -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 + 20009 0.67 0.562829
Target:  5'- aCUCGAagcgCCACGGaggcuGAcacCGGGCGGCAg -3'
miRNA:   3'- -GAGCUa---GGUGCUgcu--CU---GCUCGCCGU- -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 + 35134 0.67 0.541234
Target:  5'- aUCGGaaUCCgGCGccACG-GACGGGCGGCc -3'
miRNA:   3'- gAGCU--AGG-UGC--UGCuCUGCUCGCCGu -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.