miRNA display CGI


Results 1 - 12 of 12 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
28453 5' -59.4 NC_005946.1 + 74063 0.66 0.684921
Target:  5'- -aGCUUCUCCaucAGGUCCCu-UCCcUGCu -3'
miRNA:   3'- gaCGAGGGGG---UCCAGGGucAGGaACG- -5'
28453 5' -59.4 NC_005946.1 + 64220 0.66 0.684921
Target:  5'- -gGCUCCCCCuGaGUCCCAcGgggCCa--- -3'
miRNA:   3'- gaCGAGGGGGuC-CAGGGU-Ca--GGaacg -5'
28453 5' -59.4 NC_005946.1 + 92963 0.66 0.683904
Target:  5'- gUGCUCCaacguguCCguGGagCCCGGUCCccUGCc -3'
miRNA:   3'- gACGAGG-------GGguCCa-GGGUCAGGa-ACG- -5'
28453 5' -59.4 NC_005946.1 + 33430 0.66 0.654249
Target:  5'- -cGCUCCCuCCucGUCCCcGUcggacucucucCCUUGCc -3'
miRNA:   3'- gaCGAGGG-GGucCAGGGuCA-----------GGAACG- -5'
28453 5' -59.4 NC_005946.1 + 57204 0.66 0.643977
Target:  5'- --cCUCCUCCAccuGUCCCAGUCCa--- -3'
miRNA:   3'- gacGAGGGGGUc--CAGGGUCAGGaacg -5'
28453 5' -59.4 NC_005946.1 + 83826 0.67 0.633697
Target:  5'- --cCUCCCCCuugauGGUCCUgccGGUCCUg-- -3'
miRNA:   3'- gacGAGGGGGu----CCAGGG---UCAGGAacg -5'
28453 5' -59.4 NC_005946.1 + 33151 0.67 0.58243
Target:  5'- -cGCUCCCgCCAGGcuggCgUGGUCCggcgcUGCg -3'
miRNA:   3'- gaCGAGGG-GGUCCa---GgGUCAGGa----ACG- -5'
28453 5' -59.4 NC_005946.1 + 11796 0.68 0.542017
Target:  5'- uCUG-UCCUCCAGGaUCCCAGcUCCcgccgGCc -3'
miRNA:   3'- -GACgAGGGGGUCC-AGGGUC-AGGaa---CG- -5'
28453 5' -59.4 NC_005946.1 + 6575 0.68 0.519197
Target:  5'- -cGCUCCUCCGGGUCaaagaccaUaaaaacauaucccaGGUCCUUGUc -3'
miRNA:   3'- gaCGAGGGGGUCCAGg-------G--------------UCAGGAACG- -5'
28453 5' -59.4 NC_005946.1 + 56966 0.69 0.512327
Target:  5'- -cGUUCCUCaCGGGUCCCcuGGUCCa--- -3'
miRNA:   3'- gaCGAGGGG-GUCCAGGG--UCAGGaacg -5'
28453 5' -59.4 NC_005946.1 + 70574 0.69 0.473838
Target:  5'- -aGCgUCUCCCAGGUCCCA-UCCcagggagGCc -3'
miRNA:   3'- gaCG-AGGGGGUCCAGGGUcAGGaa-----CG- -5'
28453 5' -59.4 NC_005946.1 + 37070 0.7 0.436855
Target:  5'- -aGCUCCCuggccucagaguCCAGGUCCCAcagcUCCgaGCu -3'
miRNA:   3'- gaCGAGGG------------GGUCCAGGGUc---AGGaaCG- -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.