miRNA display CGI


Results 1 - 20 of 57 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
28040 3' -59.3 NC_005887.1 + 812 0.67 0.335812
Target:  5'- cGCgUGCGCGCCgagcGCC-UCGCgGAUCu- -3'
miRNA:   3'- aCG-ACGCGCGG----UGGcAGCGaCUAGca -5'
28040 3' -59.3 NC_005887.1 + 2447 0.72 0.162542
Target:  5'- -uCUGCGCGgCACCGUaUGCUGGUCc- -3'
miRNA:   3'- acGACGCGCgGUGGCA-GCGACUAGca -5'
28040 3' -59.3 NC_005887.1 + 2451 0.66 0.396063
Target:  5'- cGCUGCGCuacGgCGCCGUCgacgaggcGCUGAcgCGg -3'
miRNA:   3'- aCGACGCG---CgGUGGCAG--------CGACUa-GCa -5'
28040 3' -59.3 NC_005887.1 + 3331 0.7 0.21834
Target:  5'- cGCaGCaaGCCGCCGUCGaCUGcgCGg -3'
miRNA:   3'- aCGaCGcgCGGUGGCAGC-GACuaGCa -5'
28040 3' -59.3 NC_005887.1 + 3402 0.66 0.423934
Target:  5'- cGCcGCGCGCUACCGcUgGCaGggCGg -3'
miRNA:   3'- aCGaCGCGCGGUGGC-AgCGaCuaGCa -5'
28040 3' -59.3 NC_005887.1 + 5156 0.7 0.212656
Target:  5'- cGUcgGCGCGCCGCUGaUGCUGAUgGc -3'
miRNA:   3'- aCGa-CGCGCGGUGGCaGCGACUAgCa -5'
28040 3' -59.3 NC_005887.1 + 6038 0.69 0.282531
Target:  5'- gUGCgcgGCGuCGaCCGCCG-CGCaGAUCGg -3'
miRNA:   3'- -ACGa--CGC-GC-GGUGGCaGCGaCUAGCa -5'
28040 3' -59.3 NC_005887.1 + 8051 0.66 0.433481
Target:  5'- gUGCUcgacGCGUGUCugCGUgCGCacgucUGGUCGUu -3'
miRNA:   3'- -ACGA----CGCGCGGugGCA-GCG-----ACUAGCA- -5'
28040 3' -59.3 NC_005887.1 + 11558 0.7 0.21834
Target:  5'- cGCaGCGCGCgGCgGUCGCgGaAUCGg -3'
miRNA:   3'- aCGaCGCGCGgUGgCAGCGaC-UAGCa -5'
28040 3' -59.3 NC_005887.1 + 13525 0.7 0.230097
Target:  5'- gGCaUGCGCGCCACgaUCGCgaaugcGAUCGg -3'
miRNA:   3'- aCG-ACGCGCGGUGgcAGCGa-----CUAGCa -5'
28040 3' -59.3 NC_005887.1 + 14027 0.68 0.312117
Target:  5'- cGCcgGCGCGCCGCCGgCGCagccUGAgaCGa -3'
miRNA:   3'- aCGa-CGCGCGGUGGCaGCG----ACUa-GCa -5'
28040 3' -59.3 NC_005887.1 + 14125 0.69 0.275491
Target:  5'- aGCUGCGCGCgcugcucaaaacCGCCGagacgcgcggCGCUGAUgCGg -3'
miRNA:   3'- aCGACGCGCG------------GUGGCa---------GCGACUA-GCa -5'
28040 3' -59.3 NC_005887.1 + 14657 0.66 0.405222
Target:  5'- gUGCUGCcCGUCGCCGguucgaCGCUgccccgcacGAUCGg -3'
miRNA:   3'- -ACGACGcGCGGUGGCa-----GCGA---------CUAGCa -5'
28040 3' -59.3 NC_005887.1 + 14902 0.66 0.413578
Target:  5'- aGCUGCuacgGUGCCGCUGcaaucacUCGC-GAUCGa -3'
miRNA:   3'- aCGACG----CGCGGUGGC-------AGCGaCUAGCa -5'
28040 3' -59.3 NC_005887.1 + 15003 0.67 0.378152
Target:  5'- cGCagGCGUGCCGCCcgaGCUGAugcUCGc -3'
miRNA:   3'- aCGa-CGCGCGGUGGcagCGACU---AGCa -5'
28040 3' -59.3 NC_005887.1 + 15004 0.69 0.268591
Target:  5'- cGuCUGCGCGCCGCUG-CGCgUGGcgcagUCGa -3'
miRNA:   3'- aC-GACGCGCGGUGGCaGCG-ACU-----AGCa -5'
28040 3' -59.3 NC_005887.1 + 15561 0.75 0.110229
Target:  5'- gGC-GCGCGCgACCGcgcucgauUCGCUGAUCGc -3'
miRNA:   3'- aCGaCGCGCGgUGGC--------AGCGACUAGCa -5'
28040 3' -59.3 NC_005887.1 + 18045 0.66 0.423934
Target:  5'- cGCU-CGUGCCGCucgucuCGUCGUgGAUCGa -3'
miRNA:   3'- aCGAcGCGCGGUG------GCAGCGaCUAGCa -5'
28040 3' -59.3 NC_005887.1 + 20096 1.07 0.000357
Target:  5'- cUGCUGCGCGCCACCGUCGCUGAUCGUg -3'
miRNA:   3'- -ACGACGCGCGGUGGCAGCGACUAGCA- -5'
28040 3' -59.3 NC_005887.1 + 22114 0.68 0.32777
Target:  5'- cUGCUGCcggGUGCgAUUGgcUCGCUGAUCGc -3'
miRNA:   3'- -ACGACG---CGCGgUGGC--AGCGACUAGCa -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.