miRNA display CGI


Results 1 - 20 of 21 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
20737 5' -53 NC_004688.1 + 57533 0.66 0.947143
Target:  5'- cCCCGUAGUgaaguaCAGUUaGGUucauGcAGCAGCa -3'
miRNA:   3'- cGGGCAUCGa-----GUUAA-CCGu---C-UCGUCG- -5'
20737 5' -53 NC_004688.1 + 11170 0.66 0.947143
Target:  5'- aGCCCGUGGUUaCAGa-GGCuGAcgagGCGGUg -3'
miRNA:   3'- -CGGGCAUCGA-GUUaaCCGuCU----CGUCG- -5'
20737 5' -53 NC_004688.1 + 105129 0.66 0.937532
Target:  5'- gGCCCGggugacgcGGC-CGAggGGC--GGCAGCa -3'
miRNA:   3'- -CGGGCa-------UCGaGUUaaCCGucUCGUCG- -5'
20737 5' -53 NC_004688.1 + 99313 0.66 0.931799
Target:  5'- uGCCCGaAGUUgucccacCGAgugugGGUAGAGCAGa -3'
miRNA:   3'- -CGGGCaUCGA-------GUUaa---CCGUCUCGUCg -5'
20737 5' -53 NC_004688.1 + 7220 0.66 0.926871
Target:  5'- aGCUCGUGGUgagcgUCAAUgGGCAaGAGCuGa -3'
miRNA:   3'- -CGGGCAUCG-----AGUUAaCCGU-CUCGuCg -5'
20737 5' -53 NC_004688.1 + 14054 0.66 0.926871
Target:  5'- uGCCCGUGGUUCGGcgccCGGuGCAGg -3'
miRNA:   3'- -CGGGCAUCGAGUUaaccGUCuCGUCg -5'
20737 5' -53 NC_004688.1 + 73627 0.66 0.926871
Target:  5'- aCCCGUGGCuUCAuucgccccugUGGUgccAGCAGCu -3'
miRNA:   3'- cGGGCAUCG-AGUua--------ACCGuc-UCGUCG- -5'
20737 5' -53 NC_004688.1 + 79954 0.66 0.920558
Target:  5'- cGCCCGgaucgaccgGGgUCAccaccggGUuggGGguGGGCAGCg -3'
miRNA:   3'- -CGGGCa--------UCgAGU-------UAa--CCguCUCGUCG- -5'
20737 5' -53 NC_004688.1 + 81717 0.67 0.915155
Target:  5'- gGCaCCGUGGuCUCG--UGGCAuuGCAGa -3'
miRNA:   3'- -CG-GGCAUC-GAGUuaACCGUcuCGUCg -5'
20737 5' -53 NC_004688.1 + 75248 0.67 0.915155
Target:  5'- gGCCgGUGGCcuUCAucUGGC-GAGCAacGCc -3'
miRNA:   3'- -CGGgCAUCG--AGUuaACCGuCUCGU--CG- -5'
20737 5' -53 NC_004688.1 + 100295 0.67 0.908902
Target:  5'- cGCCCGgcagaGGCUCGGUcgGGCAcagauucgcGuAGguGCg -3'
miRNA:   3'- -CGGGCa----UCGAGUUAa-CCGU---------C-UCguCG- -5'
20737 5' -53 NC_004688.1 + 98529 0.67 0.902388
Target:  5'- aGCCCGUGGCgacgccgaGGUUGGCGaa--GGCg -3'
miRNA:   3'- -CGGGCAUCGag------UUAACCGUcucgUCG- -5'
20737 5' -53 NC_004688.1 + 109102 0.68 0.881316
Target:  5'- uGCCCGgguauugcAGCgCAua-GGCgAGGGCGGCg -3'
miRNA:   3'- -CGGGCa-------UCGaGUuaaCCG-UCUCGUCG- -5'
20737 5' -53 NC_004688.1 + 48438 0.68 0.863664
Target:  5'- uGCCCGccGGCUC--UUGGCcggggaaguuucuuAGAGCGGa -3'
miRNA:   3'- -CGGGCa-UCGAGuuAACCG--------------UCUCGUCg -5'
20737 5' -53 NC_004688.1 + 92394 0.68 0.858046
Target:  5'- uUCCuUGGCggUCAGUgGGCGGAaGCGGCa -3'
miRNA:   3'- cGGGcAUCG--AGUUAaCCGUCU-CGUCG- -5'
20737 5' -53 NC_004688.1 + 32359 0.68 0.858046
Target:  5'- aGCCCGUcGUcgUCAAcgaGGCcguuGGAGUAGCa -3'
miRNA:   3'- -CGGGCAuCG--AGUUaa-CCG----UCUCGUCG- -5'
20737 5' -53 NC_004688.1 + 109020 0.69 0.8239
Target:  5'- gGCCCGcGGUUCGcgccaagcUUGGUGGcGGCGGCg -3'
miRNA:   3'- -CGGGCaUCGAGUu-------AACCGUC-UCGUCG- -5'
20737 5' -53 NC_004688.1 + 32907 0.69 0.805637
Target:  5'- cCUCGUauucgGGUUCGAUgggUGGCcGGGCGGCg -3'
miRNA:   3'- cGGGCA-----UCGAGUUA---ACCGuCUCGUCG- -5'
20737 5' -53 NC_004688.1 + 68388 0.7 0.786678
Target:  5'- cGCCCcacAGCU-GAUUGGUgcgaucaaAGAGCAGCc -3'
miRNA:   3'- -CGGGca-UCGAgUUAACCG--------UCUCGUCG- -5'
20737 5' -53 NC_004688.1 + 24627 0.73 0.619989
Target:  5'- gGCCCGggAGCUCGucgaggGGCAGGccCAGCa -3'
miRNA:   3'- -CGGGCa-UCGAGUuaa---CCGUCUc-GUCG- -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.