miRNA display CGI


Results 41 - 56 of 56 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
28005 3' -53.6 NC_005887.1 + 32788 0.69 0.517487
Target:  5'- uGCGCAGGaUCGGcgcgcGCCGcuUCAcgGGCACGa -3'
miRNA:   3'- uUGCGUCC-AGCUu----CGGU--AGU--UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 34840 0.69 0.516388
Target:  5'- uGACGCucgGGGUCGu-GCCGccgaggguguaguUCAAGCGCa -3'
miRNA:   3'- -UUGCG---UCCAGCuuCGGU-------------AGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 35054 0.75 0.228705
Target:  5'- uACGCgAGGUCGcuGCCGUCGucggcgGGCGCGa -3'
miRNA:   3'- uUGCG-UCCAGCuuCGGUAGU------UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 35143 0.66 0.721801
Target:  5'- cGGCGCcacGGaCGGgcGGCCGUCAcgcuGCACGa -3'
miRNA:   3'- -UUGCGu--CCaGCU--UCGGUAGUu---CGUGC- -5'
28005 3' -53.6 NC_005887.1 + 35622 0.66 0.721801
Target:  5'- cGCcCGGGUUGAAGUCGcUCGGGCugaGCGg -3'
miRNA:   3'- uUGcGUCCAGCUUCGGU-AGUUCG---UGC- -5'
28005 3' -53.6 NC_005887.1 + 36469 0.67 0.658329
Target:  5'- cGACGUuccGGUCGuAGCUGUCGccccacucgccuuucAGCGCGg -3'
miRNA:   3'- -UUGCGu--CCAGCuUCGGUAGU---------------UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 36780 0.66 0.720688
Target:  5'- uGGCGCAGGUCagcgucggcgauaGAuugcAGCCAcgUggGCGCa -3'
miRNA:   3'- -UUGCGUCCAG-------------CU----UCGGUa-GuuCGUGc -5'
28005 3' -53.6 NC_005887.1 + 36981 0.83 0.063499
Target:  5'- cGCGCGGGUCGAGcucGCCggCGAGCACGc -3'
miRNA:   3'- uUGCGUCCAGCUU---CGGuaGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 38353 1.06 0.001445
Target:  5'- gAACGCAGGUCGAAGCCAUCAAGCACGc -3'
miRNA:   3'- -UUGCGUCCAGCUUCGGUAGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 39376 0.66 0.665207
Target:  5'- gGACGCAGuaacCGAGGCCGgc-GGCGCa -3'
miRNA:   3'- -UUGCGUCca--GCUUCGGUaguUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 39937 0.75 0.228079
Target:  5'- cGGCGCGGGcuucgccUCGAAGCCAgc-GGCACGc -3'
miRNA:   3'- -UUGCGUCC-------AGCUUCGGUaguUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 40330 0.66 0.665207
Target:  5'- aGACGUucgccGcCGAaauggacuGGCCGUCGAGCGCGg -3'
miRNA:   3'- -UUGCGuc---CaGCU--------UCGGUAGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 40581 0.69 0.539654
Target:  5'- cGCGCAGGUCGA-GCaUGUCGAGgAuCGg -3'
miRNA:   3'- uUGCGUCCAGCUuCG-GUAGUUCgU-GC- -5'
28005 3' -53.6 NC_005887.1 + 40659 0.72 0.327874
Target:  5'- cGCGCAGcuugcgcucgugcUCGggGCgAUCGAGCGCGa -3'
miRNA:   3'- uUGCGUCc------------AGCuuCGgUAGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 41449 0.7 0.463813
Target:  5'- cGACGCGGaUCGAAGCCGaggccgccugacUCGuccggcGGCGCGg -3'
miRNA:   3'- -UUGCGUCcAGCUUCGGU------------AGU------UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 41745 0.66 0.665207
Target:  5'- cGGCGCGcgggcucuGGUCGAAGaCCAcgaUCGAGguCGu -3'
miRNA:   3'- -UUGCGU--------CCAGCUUC-GGU---AGUUCguGC- -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.