miRNA display CGI


Results 1 - 20 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 + 356 0.69 0.517487
Target:  5'- cGACGUGGGcCGcAGGCCGUgcugcugauaggCGAGCGCGc -3'
miRNA:   3'- -UUGCGUCCaGC-UUCGGUA------------GUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 1083 0.73 0.313907
Target:  5'- uGCGCAGGUCGAcggcGCCAUugccgacgccgagCAGGUGCGu -3'
miRNA:   3'- uUGCGUCCAGCUu---CGGUA-------------GUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 1158 0.68 0.573469
Target:  5'- cGCGCGGGUCGGAuGCagcCAGGCGg- -3'
miRNA:   3'- uUGCGUCCAGCUU-CGguaGUUCGUgc -5'
28005 3' -53.6 NC_005887.1 + 2094 0.66 0.721801
Target:  5'- cAGCgGCAGcacgaacauauuGcCGAAGCCGUCGcucGGCACGc -3'
miRNA:   3'- -UUG-CGUC------------CaGCUUCGGUAGU---UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 2228 0.71 0.423048
Target:  5'- uGGCGCAuccGGUCgGAAGUCGUCGcgacgAGCAUGg -3'
miRNA:   3'- -UUGCGU---CCAG-CUUCGGUAGU-----UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 4532 0.66 0.710625
Target:  5'- cGGCGUcccGGUCGAGGCgAU-GAGCACc -3'
miRNA:   3'- -UUGCGu--CCAGCUUCGgUAgUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 5026 0.72 0.348367
Target:  5'- aGGCGCAGacCGAAGCCAacgaAGGCACGg -3'
miRNA:   3'- -UUGCGUCcaGCUUCGGUag--UUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 6340 0.7 0.433039
Target:  5'- uGACGCugcuGGUUGAAcaacggcuGuCCAUCGAGCACa -3'
miRNA:   3'- -UUGCGu---CCAGCUU--------C-GGUAGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 7216 0.66 0.688034
Target:  5'- uGCGCAGG-CGcuGUCggcGUCGGGCGCa -3'
miRNA:   3'- uUGCGUCCaGCuuCGG---UAGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 8430 0.69 0.52742
Target:  5'- --gGCAGGUCGAcgucgaaGGCUucacuccCGAGCACGa -3'
miRNA:   3'- uugCGUCCAGCU-------UCGGua-----GUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 9098 0.68 0.59629
Target:  5'- cAGCGCGGGcacCGgcGCCGUuacucuggucgCAAGCGCa -3'
miRNA:   3'- -UUGCGUCCa--GCuuCGGUA-----------GUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 12252 0.69 0.528527
Target:  5'- cGGCGUAGccGUCGAAGCgGUCGacaAGUACa -3'
miRNA:   3'- -UUGCGUC--CAGCUUCGgUAGU---UCGUGc -5'
28005 3' -53.6 NC_005887.1 + 13934 0.67 0.607755
Target:  5'- cGACG-GGGUCGAAGuUCGUCAcggacaagacgGGCGCGc -3'
miRNA:   3'- -UUGCgUCCAGCUUC-GGUAGU-----------UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 13970 0.68 0.584858
Target:  5'- uGACGaCAGccgCGAAGCCGUCGA-CGCGu -3'
miRNA:   3'- -UUGC-GUCca-GCUUCGGUAGUUcGUGC- -5'
28005 3' -53.6 NC_005887.1 + 14313 0.74 0.261866
Target:  5'- aAGCGCAGGcCGAcGCCGaCAAGCAgGu -3'
miRNA:   3'- -UUGCGUCCaGCUuCGGUaGUUCGUgC- -5'
28005 3' -53.6 NC_005887.1 + 14526 0.72 0.339719
Target:  5'- -uUGCAGG-CGcGGCCGUCGgcGGCGCGu -3'
miRNA:   3'- uuGCGUCCaGCuUCGGUAGU--UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 14607 0.68 0.59629
Target:  5'- cGCGUAcGGccgUCGgcGCCGUCGAGgGCGc -3'
miRNA:   3'- uUGCGU-CC---AGCuuCGGUAGUUCgUGC- -5'
28005 3' -53.6 NC_005887.1 + 14985 0.66 0.665207
Target:  5'- cGCGCAGGccgCGcAGGCCG-CAGGCGu- -3'
miRNA:   3'- uUGCGUCCa--GC-UUCGGUaGUUCGUgc -5'
28005 3' -53.6 NC_005887.1 + 15024 0.67 0.607755
Target:  5'- uGGCGCA-GUCGAcguGGCCGgaCGAGUGCGa -3'
miRNA:   3'- -UUGCGUcCAGCU---UCGGUa-GUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 15258 0.69 0.50654
Target:  5'- cGCGCGuGUCGAaccAGCgCAgCAAGCGCGg -3'
miRNA:   3'- uUGCGUcCAGCU---UCG-GUaGUUCGUGC- -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.