miRNA display CGI


Results 1 - 20 of 47 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
28024 5' -56.3 NC_005887.1 + 35835 0.75 0.15302
Target:  5'- -gCGCCGCGUcggcguagaucaUCGCCUGCggaUUGcgcUCGGCa -3'
miRNA:   3'- uaGCGGCGCA------------AGUGGACG---AAC---AGCCG- -5'
28024 5' -56.3 NC_005887.1 + 40161 0.68 0.449603
Target:  5'- cUCGCCGCGUgugAgCUGCgcGaCGGCa -3'
miRNA:   3'- uAGCGGCGCAag-UgGACGaaCaGCCG- -5'
28024 5' -56.3 NC_005887.1 + 26634 0.67 0.500055
Target:  5'- cUCGCCGCGUUCaugGCCUcgaucggGCUgucGUCGa- -3'
miRNA:   3'- uAGCGGCGCAAG---UGGA-------CGAa--CAGCcg -5'
28024 5' -56.3 NC_005887.1 + 12060 0.67 0.501112
Target:  5'- -gCGCCGCG--CugCaGCagGUCGGCa -3'
miRNA:   3'- uaGCGGCGCaaGugGaCGaaCAGCCG- -5'
28024 5' -56.3 NC_005887.1 + 24571 0.67 0.522439
Target:  5'- gAUCGCCGUcagcuucaCACCUGCgcaUGgguucgCGGCg -3'
miRNA:   3'- -UAGCGGCGcaa-----GUGGACGa--ACa-----GCCG- -5'
28024 5' -56.3 NC_005887.1 + 4620 0.66 0.533235
Target:  5'- cUCGCCGCGg-CGCCggugGCc-GcCGGCg -3'
miRNA:   3'- uAGCGGCGCaaGUGGa---CGaaCaGCCG- -5'
28024 5' -56.3 NC_005887.1 + 3400 0.66 0.566062
Target:  5'- uUCGCCGCGcgCuACCgcugGCagGgCGGCu -3'
miRNA:   3'- uAGCGGCGCaaG-UGGa---CGaaCaGCCG- -5'
28024 5' -56.3 NC_005887.1 + 28305 0.66 0.566062
Target:  5'- cGUCGUgGCGacUugUUGCUggaagccuguUGUCGGCg -3'
miRNA:   3'- -UAGCGgCGCaaGugGACGA----------ACAGCCG- -5'
28024 5' -56.3 NC_005887.1 + 34632 0.66 0.587125
Target:  5'- uUCGCCGUucgcgucgacgagGcgCGCCgGCUUGcCGGUu -3'
miRNA:   3'- uAGCGGCG-------------CaaGUGGaCGAACaGCCG- -5'
28024 5' -56.3 NC_005887.1 + 9245 0.68 0.429827
Target:  5'- -gCGCCGCGUcggcgaucgcgUCuAUCUGUgcacggcgGUCGGCa -3'
miRNA:   3'- uaGCGGCGCA-----------AG-UGGACGaa------CAGCCG- -5'
28024 5' -56.3 NC_005887.1 + 35212 0.69 0.410572
Target:  5'- uUCGuuGCGca-GCa-GCUUGUCGGCc -3'
miRNA:   3'- uAGCggCGCaagUGgaCGAACAGCCG- -5'
28024 5' -56.3 NC_005887.1 + 16334 0.73 0.212888
Target:  5'- gGUCGCCGCGaacugcUUCAUCaGCUUGggaGGCu -3'
miRNA:   3'- -UAGCGGCGC------AAGUGGaCGAACag-CCG- -5'
28024 5' -56.3 NC_005887.1 + 26566 0.73 0.230717
Target:  5'- uGUCGCUGcCGUcgUCcuCCUGCUUGUagaCGGCg -3'
miRNA:   3'- -UAGCGGC-GCA--AGu-GGACGAACA---GCCG- -5'
28024 5' -56.3 NC_005887.1 + 37351 0.72 0.263215
Target:  5'- gGUCGCCGCau---CCUGCUUuuuugcagcGUCGGCu -3'
miRNA:   3'- -UAGCGGCGcaaguGGACGAA---------CAGCCG- -5'
28024 5' -56.3 NC_005887.1 + 23748 0.71 0.299334
Target:  5'- uAUCGCUGCGcgUCACUuuccacagcgaUGCUUGUuccaUGGCa -3'
miRNA:   3'- -UAGCGGCGCa-AGUGG-----------ACGAACA----GCCG- -5'
28024 5' -56.3 NC_005887.1 + 34575 0.7 0.322788
Target:  5'- gAUCGUCGCGUUCACgUaGCa-GcCGGCg -3'
miRNA:   3'- -UAGCGGCGCAAGUGgA-CGaaCaGCCG- -5'
28024 5' -56.3 NC_005887.1 + 33532 0.7 0.35615
Target:  5'- gAUCaCCGUGagCGCCUGCUUcugGUCGGg -3'
miRNA:   3'- -UAGcGGCGCaaGUGGACGAA---CAGCCg -5'
28024 5' -56.3 NC_005887.1 + 8108 0.7 0.35615
Target:  5'- cUCGCCGCGcUCGCCgagGCgccgcUGuUCGGg -3'
miRNA:   3'- uAGCGGCGCaAGUGGa--CGa----AC-AGCCg -5'
28024 5' -56.3 NC_005887.1 + 37162 0.69 0.391863
Target:  5'- gAUCaGCCGCuucacGUUCuCCUGC--GUCGGCu -3'
miRNA:   3'- -UAG-CGGCG-----CAAGuGGACGaaCAGCCG- -5'
28024 5' -56.3 NC_005887.1 + 28021 1.1 0.000411
Target:  5'- gAUCGCCGCGUUCACCUGCUUGUCGGCg -3'
miRNA:   3'- -UAGCGGCGCAAGUGGACGAACAGCCG- -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.