miRNA display CGI


Results 1 - 20 of 25 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
28492 5' -62.6 NC_005946.1 + 36689 0.66 0.50347
Target:  5'- gGCCCCGUCcuggaagggcagguaGCC-CCucuugacGCCCAUGGCu -3'
miRNA:   3'- aUGGGGCGG---------------CGGcGGuu-----CGGGUACUG- -5'
28492 5' -62.6 NC_005946.1 + 44426 0.66 0.471242
Target:  5'- aACCCCGagagggaCGCCGCCcuGGCCgAcagGAUg -3'
miRNA:   3'- aUGGGGCg------GCGGCGGu-UCGGgUa--CUG- -5'
28492 5' -62.6 NC_005946.1 + 11463 0.66 0.471242
Target:  5'- gUACCUCGCCGCCcuggugaggGCCcuGCCUuccgGAUc -3'
miRNA:   3'- -AUGGGGCGGCGG---------CGGuuCGGGua--CUG- -5'
28492 5' -62.6 NC_005946.1 + 3613 0.66 0.461962
Target:  5'- gGCCCCGCaCGCCaggGCgucaGAGUCUAUGGu -3'
miRNA:   3'- aUGGGGCG-GCGG---CGg---UUCGGGUACUg -5'
28492 5' -62.6 NC_005946.1 + 63561 0.67 0.447318
Target:  5'- gGCCCCGCguCGuCCGCUAucagauccccgccuuGGCCUAccUGACc -3'
miRNA:   3'- aUGGGGCG--GC-GGCGGU---------------UCGGGU--ACUG- -5'
28492 5' -62.6 NC_005946.1 + 60838 0.67 0.443698
Target:  5'- cUGCCUCuCUGCCGCCu-GCCUgacuAUGACc -3'
miRNA:   3'- -AUGGGGcGGCGGCGGuuCGGG----UACUG- -5'
28492 5' -62.6 NC_005946.1 + 84298 0.67 0.417082
Target:  5'- cGCCCUGUCgGCCGCCAucuccaacaCCGUGAg -3'
miRNA:   3'- aUGGGGCGG-CGGCGGUucg------GGUACUg -5'
28492 5' -62.6 NC_005946.1 + 56351 0.67 0.399889
Target:  5'- -cCCCCGuUUGCCGCaAAGCUCcUGACg -3'
miRNA:   3'- auGGGGC-GGCGGCGgUUCGGGuACUG- -5'
28492 5' -62.6 NC_005946.1 + 71234 0.68 0.391464
Target:  5'- aUGCCCaCGuCCGCCagGUCGGGCCUG-GACa -3'
miRNA:   3'- -AUGGG-GC-GGCGG--CGGUUCGGGUaCUG- -5'
28492 5' -62.6 NC_005946.1 + 94810 0.68 0.391464
Target:  5'- cGCCUCuuuuugGCCGCCGCC-AGCCCcagGGu -3'
miRNA:   3'- aUGGGG------CGGCGGCGGuUCGGGua-CUg -5'
28492 5' -62.6 NC_005946.1 + 64325 0.68 0.391464
Target:  5'- cACCCCuCCGCCGCCAGacGUCCccGcCu -3'
miRNA:   3'- aUGGGGcGGCGGCGGUU--CGGGuaCuG- -5'
28492 5' -62.6 NC_005946.1 + 92996 0.68 0.386465
Target:  5'- --gCCCGCUuuguugggcgcgucgGCCGCgGAGgCCGUGGCu -3'
miRNA:   3'- augGGGCGG---------------CGGCGgUUCgGGUACUG- -5'
28492 5' -62.6 NC_005946.1 + 37817 0.68 0.366894
Target:  5'- gGCCUCuCUGCCGCCAuuCCCGUcaGGCa -3'
miRNA:   3'- aUGGGGcGGCGGCGGUucGGGUA--CUG- -5'
28492 5' -62.6 NC_005946.1 + 11665 0.68 0.351113
Target:  5'- gACCCCGaCaugGUCGCCGaguggaAGCCCAggcuUGACa -3'
miRNA:   3'- aUGGGGC-Gg--CGGCGGU------UCGGGU----ACUG- -5'
28492 5' -62.6 NC_005946.1 + 19449 0.69 0.328358
Target:  5'- cACCCCuGCCGCCccagaCCAGGCCUcuGUGuCu -3'
miRNA:   3'- aUGGGG-CGGCGGc----GGUUCGGG--UACuG- -5'
28492 5' -62.6 NC_005946.1 + 93761 0.69 0.327619
Target:  5'- gACCCUGgugcacaUCGUgGCCAGGCUCAUGAa -3'
miRNA:   3'- aUGGGGC-------GGCGgCGGUUCGGGUACUg -5'
28492 5' -62.6 NC_005946.1 + 92037 0.69 0.306713
Target:  5'- cUACCUCaaaGCCGCCAGGCCC--GACg -3'
miRNA:   3'- -AUGGGGcggCGGCGGUUCGGGuaCUG- -5'
28492 5' -62.6 NC_005946.1 + 11961 0.7 0.286176
Target:  5'- gUACCCCG-CGaCCGCC-AGCCUcagagaGUGGCg -3'
miRNA:   3'- -AUGGGGCgGC-GGCGGuUCGGG------UACUG- -5'
28492 5' -62.6 NC_005946.1 + 12023 0.7 0.286176
Target:  5'- --aCCCGUgGCCGCagcgguagaaGAGCCCAgggGACa -3'
miRNA:   3'- augGGGCGgCGGCGg---------UUCGGGUa--CUG- -5'
28492 5' -62.6 NC_005946.1 + 85023 0.7 0.278922
Target:  5'- cGCCCUggagcagGCCGCCGCgguGGCCCugagGGCa -3'
miRNA:   3'- aUGGGG-------CGGCGGCGgu-UCGGGua--CUG- -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.