miRNA display CGI


Results 1 - 20 of 46 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
19547 3' -52.9 NC_004685.1 + 3334 0.66 0.899235
Target:  5'- gGCCGAuuUCGGCguGgcc-CCGUCu- -3'
miRNA:   3'- -CGGCUuuAGCCGguCaaacGGCAGca -5'
19547 3' -52.9 NC_004685.1 + 13358 0.66 0.899235
Target:  5'- aCUGGAAUUcGCCAGggUGCUGcUCGa -3'
miRNA:   3'- cGGCUUUAGcCGGUCaaACGGC-AGCa -5'
19547 3' -52.9 NC_004685.1 + 44905 0.66 0.897154
Target:  5'- uGCCGAGuucUCGGUgccggGGUccucgacgaucgagUUGCCGUCGg -3'
miRNA:   3'- -CGGCUUu--AGCCGg----UCA--------------AACGGCAGCa -5'
19547 3' -52.9 NC_004685.1 + 55899 0.66 0.884917
Target:  5'- cGCCGAcgguGUgGGCCAGcacGCCaUCGg -3'
miRNA:   3'- -CGGCUu---UAgCCGGUCaaaCGGcAGCa -5'
19547 3' -52.9 NC_004685.1 + 15195 0.66 0.884917
Target:  5'- aUCGAAGUCGGCguGgcgUUcGCCGggCGg -3'
miRNA:   3'- cGGCUUUAGCCGguCa--AA-CGGCa-GCa -5'
19547 3' -52.9 NC_004685.1 + 48726 0.66 0.883427
Target:  5'- aGCCGAAcaccCGGCCGGUgaugagguuggGCUccugGUCGUg -3'
miRNA:   3'- -CGGCUUua--GCCGGUCAaa---------CGG----CAGCA- -5'
19547 3' -52.9 NC_004685.1 + 36970 0.66 0.87583
Target:  5'- uGCCGAcuacaacaagguGUCagcgGGCCAGgagGCCGUCa- -3'
miRNA:   3'- -CGGCUu-----------UAG----CCGGUCaaaCGGCAGca -5'
19547 3' -52.9 NC_004685.1 + 36044 0.66 0.869571
Target:  5'- aGCCGGAugcCGuucucaCCGGgggUGCCGUCGUc -3'
miRNA:   3'- -CGGCUUua-GCc-----GGUCaa-ACGGCAGCA- -5'
19547 3' -52.9 NC_004685.1 + 67886 0.66 0.869571
Target:  5'- cGCCGgcGUCGcGCUg----GCCGUCGa -3'
miRNA:   3'- -CGGCuuUAGC-CGGucaaaCGGCAGCa -5'
19547 3' -52.9 NC_004685.1 + 52771 0.67 0.862343
Target:  5'- aGCCGAucaccgccauauucUCGGCgAGgaUGCgCGUCGa -3'
miRNA:   3'- -CGGCUuu------------AGCCGgUCaaACG-GCAGCa -5'
19547 3' -52.9 NC_004685.1 + 15096 0.67 0.861528
Target:  5'- uGCCGAGGUCcGCuCGGgugUGCUGcUCGa -3'
miRNA:   3'- -CGGCUUUAGcCG-GUCaa-ACGGC-AGCa -5'
19547 3' -52.9 NC_004685.1 + 12478 0.67 0.861528
Target:  5'- gGCCGAccguggAcgCGGCCGGUgccGCCaacgagGUCGg -3'
miRNA:   3'- -CGGCU------UuaGCCGGUCAaa-CGG------CAGCa -5'
19547 3' -52.9 NC_004685.1 + 1860 0.67 0.861528
Target:  5'- aGCuCGGcuUCGGCCAGguugaggaUGgCGUCGg -3'
miRNA:   3'- -CG-GCUuuAGCCGGUCaa------ACgGCAGCa -5'
19547 3' -52.9 NC_004685.1 + 52315 0.67 0.844736
Target:  5'- aGCCGGAcgCcguaguagcgGGCCAG-UUGCCG-CGc -3'
miRNA:   3'- -CGGCUUuaG----------CCGGUCaAACGGCaGCa -5'
19547 3' -52.9 NC_004685.1 + 29856 0.67 0.844736
Target:  5'- cGCCGugauGUCGGCCGGca-GCgGaUCGUc -3'
miRNA:   3'- -CGGCuu--UAGCCGGUCaaaCGgC-AGCA- -5'
19547 3' -52.9 NC_004685.1 + 37692 0.67 0.836003
Target:  5'- cGCCGGGucgacCGGCuCGGUgaagGUCGUCGc -3'
miRNA:   3'- -CGGCUUua---GCCG-GUCAaa--CGGCAGCa -5'
19547 3' -52.9 NC_004685.1 + 59423 0.67 0.836003
Target:  5'- cGCCGAucucgucacGGUCGGgCAGcg-GCCaGUCGa -3'
miRNA:   3'- -CGGCU---------UUAGCCgGUCaaaCGG-CAGCa -5'
19547 3' -52.9 NC_004685.1 + 8652 0.67 0.827057
Target:  5'- aGCCGcaccAUCGGUacgCGGUgugcugGCCGUCGa -3'
miRNA:   3'- -CGGCuu--UAGCCG---GUCAaa----CGGCAGCa -5'
19547 3' -52.9 NC_004685.1 + 66840 0.67 0.825243
Target:  5'- cGCCcugcacGUUGGCCGGcccgcagagcggUUGCCGUCGa -3'
miRNA:   3'- -CGGcuu---UAGCCGGUCa-----------AACGGCAGCa -5'
19547 3' -52.9 NC_004685.1 + 22067 0.68 0.817907
Target:  5'- cGCCGAGcaCGGCCcacuGGga-GCCGUCa- -3'
miRNA:   3'- -CGGCUUuaGCCGG----UCaaaCGGCAGca -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.