miRNA display CGI


Results 1 - 16 of 16 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
28516 5' -58.6 NC_005946.1 + 85192 0.66 0.713855
Target:  5'- aGCCUggCCGG-CCucGAGGC-CCUGGu- -3'
miRNA:   3'- aCGGA--GGCCuGGu-UUCCGaGGACCuc -5'
28516 5' -58.6 NC_005946.1 + 82715 0.66 0.713855
Target:  5'- cGCCUCUGGAgaCUGAGGGUgUCCcagGGAc -3'
miRNA:   3'- aCGGAGGCCU--GGUUUCCG-AGGa--CCUc -5'
28516 5' -58.6 NC_005946.1 + 34064 0.66 0.703729
Target:  5'- gGCC-CgCGGGCCAGAGGa--CgGGAGg -3'
miRNA:   3'- aCGGaG-GCCUGGUUUCCgagGaCCUC- -5'
28516 5' -58.6 NC_005946.1 + 3028 0.66 0.6833
Target:  5'- gGaCC-CagaGGACCGGAGggaGCUCCUGGAu -3'
miRNA:   3'- aC-GGaGg--CCUGGUUUC---CGAGGACCUc -5'
28516 5' -58.6 NC_005946.1 + 11488 0.67 0.662697
Target:  5'- cUGCCuUCCGGAUCGggagcagaguacGAGGCcgcCCUGGc- -3'
miRNA:   3'- -ACGG-AGGCCUGGU------------UUCCGa--GGACCuc -5'
28516 5' -58.6 NC_005946.1 + 35887 0.67 0.662697
Target:  5'- aGCCUCuCGGAC---AGGC-CCUGGc- -3'
miRNA:   3'- aCGGAG-GCCUGguuUCCGaGGACCuc -5'
28516 5' -58.6 NC_005946.1 + 49455 0.67 0.651318
Target:  5'- gGaCCUCUGGAgucgauggggugcUCAuGGGCUCCaGGAGc -3'
miRNA:   3'- aC-GGAGGCCU-------------GGUuUCCGAGGaCCUC- -5'
28516 5' -58.6 NC_005946.1 + 78451 0.67 0.607794
Target:  5'- aGCCUCCugagGGGcCCGcccucggccgagauGAGGCUCCUG-AGg -3'
miRNA:   3'- aCGGAGG----CCU-GGU--------------UUCCGAGGACcUC- -5'
28516 5' -58.6 NC_005946.1 + 25541 0.68 0.559496
Target:  5'- cUGCCUUCGGA-CAGGGGCccUCCgacgUGGAa -3'
miRNA:   3'- -ACGGAGGCCUgGUUUCCG--AGG----ACCUc -5'
28516 5' -58.6 NC_005946.1 + 80953 0.68 0.549343
Target:  5'- cGCCUCCcgugcuagcgGGAgCGAucaugcucaGGGCUCCggcgUGGAGg -3'
miRNA:   3'- aCGGAGG----------CCUgGUU---------UCCGAGG----ACCUC- -5'
28516 5' -58.6 NC_005946.1 + 76159 0.69 0.529218
Target:  5'- aGCCUCCuGGugaCAGAGGCggucagggUCCUGGuGu -3'
miRNA:   3'- aCGGAGG-CCug-GUUUCCG--------AGGACCuC- -5'
28516 5' -58.6 NC_005946.1 + 83440 0.71 0.424502
Target:  5'- uUGuCCUgCCGGuCCuAGGGUUCCUGGuGg -3'
miRNA:   3'- -AC-GGA-GGCCuGGuUUCCGAGGACCuC- -5'
28516 5' -58.6 NC_005946.1 + 85095 0.72 0.372839
Target:  5'- -cUCUCUGGACguCAAgaagcucgacAGGCUCCUGGAGc -3'
miRNA:   3'- acGGAGGCCUG--GUU----------UCCGAGGACCUC- -5'
28516 5' -58.6 NC_005946.1 + 32471 0.74 0.292524
Target:  5'- gGCCUCUGuGgaagaggaccgcaacGCCAAGGGCUCCaaGGAGg -3'
miRNA:   3'- aCGGAGGC-C---------------UGGUUUCCGAGGa-CCUC- -5'
28516 5' -58.6 NC_005946.1 + 84710 0.76 0.210637
Target:  5'- gGCCUCaagcagaccauguCGGGCUucaAGAGGCUCCUGGGa -3'
miRNA:   3'- aCGGAG-------------GCCUGG---UUUCCGAGGACCUc -5'
28516 5' -58.6 NC_005946.1 + 83652 0.76 0.20084
Target:  5'- gGCCUgCCGGuCCuAGGGUUCCUGGuGg -3'
miRNA:   3'- aCGGA-GGCCuGGuUUCCGAGGACCuC- -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.