miRNA display CGI


Results 1 - 17 of 17 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
18666 3' -65.4 NC_004682.1 + 42465 0.66 0.276038
Target:  5'- aACUgGCUGG--CCGGGGucggcCUCCCUGCg -3'
miRNA:   3'- -UGGgCGACCcaGGCCCU-----GAGGGGCGg -5'
18666 3' -65.4 NC_004682.1 + 2083 0.66 0.262586
Target:  5'- gGCCCGCaGGGUCCGcaGGgUCCacaagguCCGCg -3'
miRNA:   3'- -UGGGCGaCCCAGGCc-CUgAGG-------GGCGg -5'
18666 3' -65.4 NC_004682.1 + 41041 0.66 0.25514
Target:  5'- -gCCGCUugGGGUCCGGGcuguuggggucgauGCUCUuCUGCg -3'
miRNA:   3'- ugGGCGA--CCCAGGCCC--------------UGAGG-GGCGg -5'
18666 3' -65.4 NC_004682.1 + 35898 0.66 0.244891
Target:  5'- aGCCCGaUGGGUCUaaGGAgaCCUgGCCg -3'
miRNA:   3'- -UGGGCgACCCAGGc-CCUgaGGGgCGG- -5'
18666 3' -65.4 NC_004682.1 + 2298 0.66 0.239022
Target:  5'- gACCUGCUGGG-CCGguggguccGGugUCaCCCuucggGCCu -3'
miRNA:   3'- -UGGGCGACCCaGGC--------CCugAG-GGG-----CGG- -5'
18666 3' -65.4 NC_004682.1 + 32857 0.67 0.233272
Target:  5'- -aCCGCUGgcGGUUCGuGGACgcccagCUCCGUCg -3'
miRNA:   3'- ugGGCGAC--CCAGGC-CCUGa-----GGGGCGG- -5'
18666 3' -65.4 NC_004682.1 + 11306 0.67 0.222121
Target:  5'- aGCCCGCguaGcGGUCUuGGcCUCCUCGaCCg -3'
miRNA:   3'- -UGGGCGa--C-CCAGGcCCuGAGGGGC-GG- -5'
18666 3' -65.4 NC_004682.1 + 15624 0.67 0.216718
Target:  5'- gACCCaGCcgGGGgaagCCGaGcGCUCgCCCGCCu -3'
miRNA:   3'- -UGGG-CGa-CCCa---GGC-CcUGAG-GGGCGG- -5'
18666 3' -65.4 NC_004682.1 + 48608 0.67 0.206248
Target:  5'- gGCaCCGCgUGGcGUUCGGGAacugcgCCuuGCCu -3'
miRNA:   3'- -UG-GGCG-ACC-CAGGCCCUga----GGggCGG- -5'
18666 3' -65.4 NC_004682.1 + 39769 0.68 0.201179
Target:  5'- uACCUGCUGGGggCCGGauGACg--CUGCCg -3'
miRNA:   3'- -UGGGCGACCCa-GGCC--CUGaggGGCGG- -5'
18666 3' -65.4 NC_004682.1 + 46353 0.68 0.191365
Target:  5'- aGCCCGCcGGGUgCgaGGGAacgCCUCGCg -3'
miRNA:   3'- -UGGGCGaCCCAgG--CCCUga-GGGGCGg -5'
18666 3' -65.4 NC_004682.1 + 26847 0.7 0.144607
Target:  5'- -aCCGCUGGGccUCUGGaGuGC-CCCCGCUg -3'
miRNA:   3'- ugGGCGACCC--AGGCC-C-UGaGGGGCGG- -5'
18666 3' -65.4 NC_004682.1 + 46791 0.7 0.127005
Target:  5'- aACCUGCUGGG--CGGuGuACUUCCCGUCg -3'
miRNA:   3'- -UGGGCGACCCagGCC-C-UGAGGGGCGG- -5'
18666 3' -65.4 NC_004682.1 + 40103 0.71 0.111111
Target:  5'- gGCCCGCagaGGGUCCuuaagguuggcguGGuGCUCCuuGCCu -3'
miRNA:   3'- -UGGGCGa--CCCAGG-------------CCcUGAGGggCGG- -5'
18666 3' -65.4 NC_004682.1 + 1835 0.73 0.083189
Target:  5'- cGCCCGUccgGGcGUCUGcucGGGCUCCCCgGCCc -3'
miRNA:   3'- -UGGGCGa--CC-CAGGC---CCUGAGGGG-CGG- -5'
18666 3' -65.4 NC_004682.1 + 3478 0.8 0.021842
Target:  5'- aGCCUGCUGGG-CCGGGAgcggacggugaaCcCCCCGCCu -3'
miRNA:   3'- -UGGGCGACCCaGGCCCU------------GaGGGGCGG- -5'
18666 3' -65.4 NC_004682.1 + 6332 1.1 0.00009
Target:  5'- gACCCGCUGGGUCCGGGACUCCCCGCCg -3'
miRNA:   3'- -UGGGCGACCCAGGCCCUGAGGGGCGG- -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.