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
23454 3' -59.8 NC_005259.1 + 20059 0.66 0.537993
Target:  5'- -aUGUCCGCU--GCgguGGCGGUCGUCa -3'
miRNA:   3'- ucACGGGCGGgaUGug-CCGCCAGUAG- -5'
23454 3' -59.8 NC_005259.1 + 66263 0.66 0.537993
Target:  5'- --gGCCCGCgCCgg-GCGGCGGcUCAc- -3'
miRNA:   3'- ucaCGGGCG-GGaugUGCCGCC-AGUag -5'
23454 3' -59.8 NC_005259.1 + 29935 0.66 0.537993
Target:  5'- cGUGgCCGCC--ACGCGGCccGGUCGc- -3'
miRNA:   3'- uCACgGGCGGgaUGUGCCG--CCAGUag -5'
23454 3' -59.8 NC_005259.1 + 66725 0.66 0.527773
Target:  5'- -aUGCCCGCCgc-CACG-CGGUCAg- -3'
miRNA:   3'- ucACGGGCGGgauGUGCcGCCAGUag -5'
23454 3' -59.8 NC_005259.1 + 58641 0.66 0.527773
Target:  5'- cAGUGCCCauGCCCU-CGCGGUagcccGGUgCAc- -3'
miRNA:   3'- -UCACGGG--CGGGAuGUGCCG-----CCA-GUag -5'
23454 3' -59.8 NC_005259.1 + 20532 0.66 0.517627
Target:  5'- gGGUGCgCUGCCCgcaGCGUGGUGGaUCAg- -3'
miRNA:   3'- -UCACG-GGCGGGa--UGUGCCGCC-AGUag -5'
23454 3' -59.8 NC_005259.1 + 18689 0.66 0.507559
Target:  5'- gAGgGUCUGCUUgaGCACGGCGGUCu-- -3'
miRNA:   3'- -UCaCGGGCGGGa-UGUGCCGCCAGuag -5'
23454 3' -59.8 NC_005259.1 + 1972 0.67 0.458576
Target:  5'- cGUuCCgGCgCUACACGaGCGGUCGg- -3'
miRNA:   3'- uCAcGGgCGgGAUGUGC-CGCCAGUag -5'
23454 3' -59.8 NC_005259.1 + 8749 0.67 0.449081
Target:  5'- --aGCCCgucgaggucgagGCCCUuggccaGCGCGGCGGUgAUg -3'
miRNA:   3'- ucaCGGG------------CGGGA------UGUGCCGCCAgUAg -5'
23454 3' -59.8 NC_005259.1 + 27372 0.67 0.439696
Target:  5'- uGGUGCCCGgCaCggugACcgGCGGCGGU-GUCg -3'
miRNA:   3'- -UCACGGGCgG-Ga---UG--UGCCGCCAgUAG- -5'
23454 3' -59.8 NC_005259.1 + 29975 0.68 0.403312
Target:  5'- cGGUGaCCGUCCaacggaccccGCACGGUGGUCAc- -3'
miRNA:   3'- -UCACgGGCGGGa---------UGUGCCGCCAGUag -5'
23454 3' -59.8 NC_005259.1 + 13051 0.68 0.385849
Target:  5'- --gGCCCGUUCUGCGCGaUGGUCGa- -3'
miRNA:   3'- ucaCGGGCGGGAUGUGCcGCCAGUag -5'
23454 3' -59.8 NC_005259.1 + 45224 0.69 0.377306
Target:  5'- --aGCCCgauGCCCUGCACcuugcucaGGUcgccGGUCAUCg -3'
miRNA:   3'- ucaCGGG---CGGGAUGUG--------CCG----CCAGUAG- -5'
23454 3' -59.8 NC_005259.1 + 41223 0.69 0.377306
Target:  5'- --cGUCaCGCCCUGCuCGGCGGUgAc- -3'
miRNA:   3'- ucaCGG-GCGGGAUGuGCCGCCAgUag -5'
23454 3' -59.8 NC_005259.1 + 7187 0.7 0.326482
Target:  5'- gAGUGCCCGgCCUGCggacgcaccgggcuGCGGUGGaUCu-- -3'
miRNA:   3'- -UCACGGGCgGGAUG--------------UGCCGCC-AGuag -5'
23454 3' -59.8 NC_005259.1 + 28326 0.7 0.321158
Target:  5'- cGGUGUgCCGUCCUugGCGGCGaa-AUCg -3'
miRNA:   3'- -UCACG-GGCGGGAugUGCCGCcagUAG- -5'
23454 3' -59.8 NC_005259.1 + 32323 0.72 0.216955
Target:  5'- cAGUGCCCGCCaauugUGCGCGGC---CAUCa -3'
miRNA:   3'- -UCACGGGCGGg----AUGUGCCGccaGUAG- -5'
23454 3' -59.8 NC_005259.1 + 55003 0.73 0.200973
Target:  5'- uGUGCUCGgCUcGCuuGGCGGUCGUCu -3'
miRNA:   3'- uCACGGGCgGGaUGugCCGCCAGUAG- -5'
23454 3' -59.8 NC_005259.1 + 27757 0.74 0.169387
Target:  5'- cGGUGCaUCGCCCUcggcgacgaccuugaGCACcucGCGGUCAUCg -3'
miRNA:   3'- -UCACG-GGCGGGA---------------UGUGc--CGCCAGUAG- -5'
23454 3' -59.8 NC_005259.1 + 37045 0.75 0.15087
Target:  5'- uGGUGCCCGCCaccgccCACGGCGGcggUGUCc -3'
miRNA:   3'- -UCACGGGCGGgau---GUGCCGCCa--GUAG- -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.