miRNA display CGI


Results 1 - 17 of 17 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
14711 5' -50.4 NC_003529.1 + 140803 0.66 0.996005
Target:  5'- gCUgGcAGUCAACUUGAAUGGCgAuCa -3'
miRNA:   3'- -GAgCuUCAGUUGAGCUUGCCGgUuGc -5'
14711 5' -50.4 NC_003529.1 + 84355 0.66 0.996005
Target:  5'- uUCucAGUCAACUUGAACaGGUCAuCa -3'
miRNA:   3'- gAGcuUCAGUUGAGCUUG-CCGGUuGc -5'
14711 5' -50.4 NC_003529.1 + 82939 0.66 0.995941
Target:  5'- aUCGAaagcguuGGcCGGCUCGAuCGGCUuGCGc -3'
miRNA:   3'- gAGCU-------UCaGUUGAGCUuGCCGGuUGC- -5'
14711 5' -50.4 NC_003529.1 + 68909 0.67 0.99457
Target:  5'- uUCGAugGGUUggUggCGuACGGCCGGCa -3'
miRNA:   3'- gAGCU--UCAGuuGa-GCuUGCCGGUUGc -5'
14711 5' -50.4 NC_003529.1 + 50787 0.67 0.993711
Target:  5'- -aCGAGaUCGAUUCGuuauUGGCCAACa -3'
miRNA:   3'- gaGCUUcAGUUGAGCuu--GCCGGUUGc -5'
14711 5' -50.4 NC_003529.1 + 41103 0.67 0.992745
Target:  5'- uCUCGuAG-CAACUCGAACGGaCAu-- -3'
miRNA:   3'- -GAGCuUCaGUUGAGCUUGCCgGUugc -5'
14711 5' -50.4 NC_003529.1 + 132296 0.67 0.992745
Target:  5'- uCUCGAAGcucguaggCAACUU---CGGCCAGCa -3'
miRNA:   3'- -GAGCUUCa-------GUUGAGcuuGCCGGUUGc -5'
14711 5' -50.4 NC_003529.1 + 115001 0.67 0.990461
Target:  5'- uUUGAAGUUGGCcgcuaaugUCGAugaGGCCGGCGu -3'
miRNA:   3'- gAGCUUCAGUUG--------AGCUug-CCGGUUGC- -5'
14711 5' -50.4 NC_003529.1 + 80338 0.68 0.984231
Target:  5'- aUCGuuauuaauGGUCuGCUCGAACaGuCCAACGa -3'
miRNA:   3'- gAGCu-------UCAGuUGAGCUUGcC-GGUUGC- -5'
14711 5' -50.4 NC_003529.1 + 56064 0.68 0.981654
Target:  5'- aCUUGAAGUCGAcaaaugagcgcgguCggUCGAACGcGUCGACGg -3'
miRNA:   3'- -GAGCUUCAGUU--------------G--AGCUUGC-CGGUUGC- -5'
14711 5' -50.4 NC_003529.1 + 106341 0.71 0.947389
Target:  5'- aUUGAGacccAUUCGAACGGCCAGCGc -3'
miRNA:   3'- gAGCUUcaguUGAGCUUGCCGGUUGC- -5'
14711 5' -50.4 NC_003529.1 + 110652 0.71 0.947389
Target:  5'- -gCGAAGUCGugUCcu-CGGCCAAUu -3'
miRNA:   3'- gaGCUUCAGUugAGcuuGCCGGUUGc -5'
14711 5' -50.4 NC_003529.1 + 148923 0.71 0.942837
Target:  5'- uUCG--GUCAACUCGAAUuguuGGCCAuGCGg -3'
miRNA:   3'- gAGCuuCAGUUGAGCUUG----CCGGU-UGC- -5'
14711 5' -50.4 NC_003529.1 + 94270 0.72 0.903952
Target:  5'- cCUCGAAGgCGGCUCGcACGucGUCGACGa -3'
miRNA:   3'- -GAGCUUCaGUUGAGCuUGC--CGGUUGC- -5'
14711 5' -50.4 NC_003529.1 + 34353 0.76 0.743631
Target:  5'- uUCGAGGUCGucguaAUUCGGGcCGGCUAACGc -3'
miRNA:   3'- gAGCUUCAGU-----UGAGCUU-GCCGGUUGC- -5'
14711 5' -50.4 NC_003529.1 + 8597 0.76 0.733608
Target:  5'- uCUUGAGGUCGAuCUCGAcgacuCGGCCAcACGu -3'
miRNA:   3'- -GAGCUUCAGUU-GAGCUu----GCCGGU-UGC- -5'
14711 5' -50.4 NC_003529.1 + 144562 1.11 0.008856
Target:  5'- aCUCGAAGUCAACUCGAACGGCCAACGa -3'
miRNA:   3'- -GAGCUUCAGUUGAGCUUGCCGGUUGC- -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.