miRNA display CGI


Results 1 - 20 of 52 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
23666 3' -63.3 NC_005261.1 + 55576 0.66 0.571966
Target:  5'- cGCCCCCGcagUCCGCG-GCGGc---- -3'
miRNA:   3'- aCGGGGGCca-GGGCGCuCGCCacuau -5'
23666 3' -63.3 NC_005261.1 + 29900 0.66 0.571966
Target:  5'- gGCCCgCGGcagCgCGCGAGCGGcUGc-- -3'
miRNA:   3'- aCGGGgGCCa--GgGCGCUCGCC-ACuau -5'
23666 3' -63.3 NC_005261.1 + 86892 0.66 0.562252
Target:  5'- cGCgCCCUGGUCCgCGCGcggcGCGGa---- -3'
miRNA:   3'- aCG-GGGGCCAGG-GCGCu---CGCCacuau -5'
23666 3' -63.3 NC_005261.1 + 50574 0.66 0.562252
Target:  5'- cGCgCCUGGcgucCgCCGCGAGCGGgGAg- -3'
miRNA:   3'- aCGgGGGCCa---G-GGCGCUCGCCaCUau -5'
23666 3' -63.3 NC_005261.1 + 34733 0.66 0.562252
Target:  5'- cGCCCCCuGGcggCCGCGGGgUGGUGu-- -3'
miRNA:   3'- aCGGGGG-CCag-GGCGCUC-GCCACuau -5'
23666 3' -63.3 NC_005261.1 + 48691 0.66 0.562252
Target:  5'- gGCCCgCGGgccaucacgCCgGCGGGC-GUGAUGu -3'
miRNA:   3'- aCGGGgGCCa--------GGgCGCUCGcCACUAU- -5'
23666 3' -63.3 NC_005261.1 + 26652 0.66 0.552582
Target:  5'- cUGCCCCUGGgccacacgCCCG-GAcGCGGagGGUAc -3'
miRNA:   3'- -ACGGGGGCCa-------GGGCgCU-CGCCa-CUAU- -5'
23666 3' -63.3 NC_005261.1 + 118877 0.66 0.552582
Target:  5'- cUGgCCUCGGcCaCCGCGGGCGcGcUGGUGg -3'
miRNA:   3'- -ACgGGGGCCaG-GGCGCUCGC-C-ACUAU- -5'
23666 3' -63.3 NC_005261.1 + 74442 0.66 0.542963
Target:  5'- cGCCCCC---CCgGCGGGgGGUGGg- -3'
miRNA:   3'- aCGGGGGccaGGgCGCUCgCCACUau -5'
23666 3' -63.3 NC_005261.1 + 6067 0.66 0.537219
Target:  5'- gGCCCCUcGUCCCgacgGCGgcggcaagcaacgguGGCGGUGGa- -3'
miRNA:   3'- aCGGGGGcCAGGG----CGC---------------UCGCCACUau -5'
23666 3' -63.3 NC_005261.1 + 66457 0.66 0.52106
Target:  5'- cGCCgCCGGUCCCGCcaggcgcgcguccucGCGGUa--- -3'
miRNA:   3'- aCGGgGGCCAGGGCGcu-------------CGCCAcuau -5'
23666 3' -63.3 NC_005261.1 + 31976 0.67 0.505094
Target:  5'- cGCgCCUGGgCCCGCGcaccGCGGUGc-- -3'
miRNA:   3'- aCGgGGGCCaGGGCGCu---CGCCACuau -5'
23666 3' -63.3 NC_005261.1 + 64505 0.67 0.505094
Target:  5'- gGUgCUCGGggCCCGCGGGCGGc---- -3'
miRNA:   3'- aCGgGGGCCa-GGGCGCUCGCCacuau -5'
23666 3' -63.3 NC_005261.1 + 37586 0.67 0.504161
Target:  5'- cGCCCCgguaccacacggcCGGUCCCuGC-AGCuccGGUGAUGg -3'
miRNA:   3'- aCGGGG-------------GCCAGGG-CGcUCG---CCACUAU- -5'
23666 3' -63.3 NC_005261.1 + 31042 0.67 0.495801
Target:  5'- cGCCgCCgGGUCCCcaGCGcGGCGG-GAg- -3'
miRNA:   3'- aCGG-GGgCCAGGG--CGC-UCGCCaCUau -5'
23666 3' -63.3 NC_005261.1 + 30120 0.67 0.486586
Target:  5'- cUGCUuggCgCGG-CCCGCGAcGCGGUGGa- -3'
miRNA:   3'- -ACGG---GgGCCaGGGCGCU-CGCCACUau -5'
23666 3' -63.3 NC_005261.1 + 111653 0.67 0.486586
Target:  5'- cGCCuCCCaGcccUCCCGCGccGCGGUGGc- -3'
miRNA:   3'- aCGG-GGGcC---AGGGCGCu-CGCCACUau -5'
23666 3' -63.3 NC_005261.1 + 48763 0.67 0.477454
Target:  5'- cGcCCCCCGGgcggCCCGaCGAGCucGGcGAUc -3'
miRNA:   3'- aC-GGGGGCCa---GGGC-GCUCG--CCaCUAu -5'
23666 3' -63.3 NC_005261.1 + 53699 0.67 0.468406
Target:  5'- aGCCCCCGGgcgCCgCGCGccGCGGc---- -3'
miRNA:   3'- aCGGGGGCCa--GG-GCGCu-CGCCacuau -5'
23666 3' -63.3 NC_005261.1 + 27283 0.67 0.459448
Target:  5'- gGCCCCCGGaccgccCUCGCGAGCaGGccgGGc- -3'
miRNA:   3'- aCGGGGGCCa-----GGGCGCUCG-CCa--CUau -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.