miRNA display CGI


Results 1 - 14 of 14 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
20834 3' -51.5 NC_004689.1 + 12151 0.66 0.94301
Target:  5'- cGAAGGUGACCuCAccgaucugcacGACCggUUC-GACCg -3'
miRNA:   3'- -CUUCCGUUGG-GU-----------CUGGaaAAGcCUGG- -5'
20834 3' -51.5 NC_004689.1 + 41487 0.66 0.93794
Target:  5'- uGAAGuGCuuCUCGguGACCUcggucUCGGACCa -3'
miRNA:   3'- -CUUC-CGuuGGGU--CUGGAaa---AGCCUGG- -5'
20834 3' -51.5 NC_004689.1 + 40302 0.66 0.926958
Target:  5'- cGAAGuagaacgucuGCGA-CCGGACCUUgaUCGGACg -3'
miRNA:   3'- -CUUC----------CGUUgGGUCUGGAAa-AGCCUGg -5'
20834 3' -51.5 NC_004689.1 + 51034 0.66 0.926958
Target:  5'- -cGGGC-ACCaCAGaACCUuUUUCGGAUUc -3'
miRNA:   3'- cuUCCGuUGG-GUC-UGGA-AAAGCCUGG- -5'
20834 3' -51.5 NC_004689.1 + 10638 0.66 0.91485
Target:  5'- --uGGCAGCCCcgccAGGCUg--UUGGGCg -3'
miRNA:   3'- cuuCCGUUGGG----UCUGGaaaAGCCUGg -5'
20834 3' -51.5 NC_004689.1 + 32009 0.67 0.907712
Target:  5'- -cGGGCAccgugauucgcuuGCCCAG-CCacUUCGcGACCu -3'
miRNA:   3'- cuUCCGU-------------UGGGUCuGGaaAAGC-CUGG- -5'
20834 3' -51.5 NC_004689.1 + 21039 0.67 0.901623
Target:  5'- aGAGGUuugaagcaAGCCCAGACCUUcaagCGcgagcuugaGACCg -3'
miRNA:   3'- cUUCCG--------UUGGGUCUGGAAaa--GC---------CUGG- -5'
20834 3' -51.5 NC_004689.1 + 59433 0.67 0.887299
Target:  5'- -uAGGUGGCCCAGAcgcgauCCUUga-GGGCUu -3'
miRNA:   3'- cuUCCGUUGGGUCU------GGAAaagCCUGG- -5'
20834 3' -51.5 NC_004689.1 + 10478 0.68 0.863839
Target:  5'- uAGGGCAGCC---GCCU--UCGGAUCg -3'
miRNA:   3'- cUUCCGUUGGgucUGGAaaAGCCUGG- -5'
20834 3' -51.5 NC_004689.1 + 15443 0.68 0.841711
Target:  5'- -uGGGCAuaugGCaCCAGACCaugaggucucgCGGACCc -3'
miRNA:   3'- cuUCCGU----UG-GGUCUGGaaaa-------GCCUGG- -5'
20834 3' -51.5 NC_004689.1 + 50494 0.68 0.840829
Target:  5'- gGAGGGCuGccgagacgaaaugucGCCCAGcacacgaacauucGCCUUUUCGG-CCa -3'
miRNA:   3'- -CUUCCG-U---------------UGGGUC-------------UGGAAAAGCCuGG- -5'
20834 3' -51.5 NC_004689.1 + 8450 0.7 0.781146
Target:  5'- --uGGCAACCCAacGACCUUUUCuGuCa -3'
miRNA:   3'- cuuCCGUUGGGU--CUGGAAAAGcCuGg -5'
20834 3' -51.5 NC_004689.1 + 46436 0.71 0.685803
Target:  5'- --cGGCAACCacacggccaCAGGCgaUUUCGGAUCg -3'
miRNA:   3'- cuuCCGUUGG---------GUCUGgaAAAGCCUGG- -5'
20834 3' -51.5 NC_004689.1 + 31440 0.72 0.663741
Target:  5'- -cGGGCAACCCGGcacuCCUgagaaugUCGGggaGCCa -3'
miRNA:   3'- cuUCCGUUGGGUCu---GGAaa-----AGCC---UGG- -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.