miRNA display CGI


Results 1 - 20 of 23 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
2648 3' -61.4 NC_001491.2 + 105112 0.66 0.653205
Target:  5'- --gGCCGCCGcagauuuGGCCgGggCCGCgGCGg -3'
miRNA:   3'- aaaCGGCGGUc------CCGGaCaaGGCG-CGC- -5'
2648 3' -61.4 NC_001491.2 + 105046 0.66 0.653205
Target:  5'- --gGCCGCCgcagauuuggccGGGGCCgcggcggGggCCGcCGCa -3'
miRNA:   3'- aaaCGGCGG------------UCCCGGa------CaaGGC-GCGc -5'
2648 3' -61.4 NC_001491.2 + 104980 0.66 0.653205
Target:  5'- --gGCCGCCgcagauuuggccGGGGCCgcggcggGggCCGcCGCa -3'
miRNA:   3'- aaaCGGCGG------------UCCCGGa------CaaGGC-GCGc -5'
2648 3' -61.4 NC_001491.2 + 48355 0.66 0.653205
Target:  5'- --aGCCuGUCuGGGUCUGaUUCCGCuccaGCGg -3'
miRNA:   3'- aaaCGG-CGGuCCCGGAC-AAGGCG----CGC- -5'
2648 3' -61.4 NC_001491.2 + 5733 0.66 0.623142
Target:  5'- --gGUgGCCGGuGGCgggGUUCCGCgGCGg -3'
miRNA:   3'- aaaCGgCGGUC-CCGga-CAAGGCG-CGC- -5'
2648 3' -61.4 NC_001491.2 + 5358 0.66 0.613125
Target:  5'- --aGCCGCCGGGGUaggaGgaCCGcCGCu -3'
miRNA:   3'- aaaCGGCGGUCCCGga--CaaGGC-GCGc -5'
2648 3' -61.4 NC_001491.2 + 2511 0.66 0.613125
Target:  5'- --gGUgGCCAGGGCCUggggaucgaagGUgagcgCCGgGCGc -3'
miRNA:   3'- aaaCGgCGGUCCCGGA-----------CAa----GGCgCGC- -5'
2648 3' -61.4 NC_001491.2 + 2471 0.67 0.57326
Target:  5'- --cGCCGuCCcGGGCCgggGggCCGCuGCa -3'
miRNA:   3'- aaaCGGC-GGuCCCGGa--CaaGGCG-CGc -5'
2648 3' -61.4 NC_001491.2 + 8661 0.67 0.563378
Target:  5'- --gGCCcggggGCCAGGGgC-GUUCUGCGCc -3'
miRNA:   3'- aaaCGG-----CGGUCCCgGaCAAGGCGCGc -5'
2648 3' -61.4 NC_001491.2 + 13022 0.67 0.563378
Target:  5'- --gGuuGCCGGGGCUg---CUGCGCu -3'
miRNA:   3'- aaaCggCGGUCCCGGacaaGGCGCGc -5'
2648 3' -61.4 NC_001491.2 + 100599 0.67 0.553542
Target:  5'- -cUGCCGUgGGGcacaGCCUGUaaCGCGCc -3'
miRNA:   3'- aaACGGCGgUCC----CGGACAagGCGCGc -5'
2648 3' -61.4 NC_001491.2 + 12865 0.67 0.543757
Target:  5'- --cGCCGCCGccugugccugcGGGCCUGUcgacgUCCGacuCGCc -3'
miRNA:   3'- aaaCGGCGGU-----------CCCGGACA-----AGGC---GCGc -5'
2648 3' -61.4 NC_001491.2 + 39455 0.67 0.543757
Target:  5'- --aGUCGCCuGGGUgCUGgcccCCGCGCa -3'
miRNA:   3'- aaaCGGCGGuCCCG-GACaa--GGCGCGc -5'
2648 3' -61.4 NC_001491.2 + 6407 0.67 0.543757
Target:  5'- --aGCCuaUGGGGCCcgGUcCCGCGCu -3'
miRNA:   3'- aaaCGGcgGUCCCGGa-CAaGGCGCGc -5'
2648 3' -61.4 NC_001491.2 + 28649 0.68 0.514769
Target:  5'- --aGCCGCCGGGgaGCCUcgcGggCaCGCGCa -3'
miRNA:   3'- aaaCGGCGGUCC--CGGA---CaaG-GCGCGc -5'
2648 3' -61.4 NC_001491.2 + 35255 0.69 0.458848
Target:  5'- --gGCCGCCcugacuccgcGGGucGCCUGcgCCGUGCGc -3'
miRNA:   3'- aaaCGGCGG----------UCC--CGGACaaGGCGCGC- -5'
2648 3' -61.4 NC_001491.2 + 10434 0.69 0.455233
Target:  5'- --cGCCGCCGGcGGacgcagagcgcuaCUGggCCGCGCu -3'
miRNA:   3'- aaaCGGCGGUC-CCg------------GACaaGGCGCGc -5'
2648 3' -61.4 NC_001491.2 + 137072 0.69 0.432124
Target:  5'- -cUGuuGCCGGGGCgUcGUggaaguagccgCCGCGCGu -3'
miRNA:   3'- aaACggCGGUCCCGgA-CAa----------GGCGCGC- -5'
2648 3' -61.4 NC_001491.2 + 3740 0.69 0.432124
Target:  5'- cUUG-CGUCGGGGCCcgaGggCCGCGCa -3'
miRNA:   3'- aAACgGCGGUCCCGGa--CaaGGCGCGc -5'
2648 3' -61.4 NC_001491.2 + 4456 0.73 0.279709
Target:  5'- --cGCCGCCGGGGCCgaugCUGCuGCu -3'
miRNA:   3'- aaaCGGCGGUCCCGGacaaGGCG-CGc -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.