miRNA display CGI


Results 1 - 20 of 27 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
19653 3' -57.6 NC_004686.1 + 11216 1.14 0.000321
Target:  5'- aGCAGGGCGGCGUUCCGUGGAUCGACCa -3'
miRNA:   3'- -CGUCCCGCCGCAAGGCACCUAGCUGG- -5'
19653 3' -57.6 NC_004686.1 + 37039 0.66 0.650857
Target:  5'- gGCuGGGUGGa--UCCGUGG-UUGGCg -3'
miRNA:   3'- -CGuCCCGCCgcaAGGCACCuAGCUGg -5'
19653 3' -57.6 NC_004686.1 + 5528 0.66 0.629517
Target:  5'- aCGcGGCGGUGUcggacaccgUCCGUGG--CGGCCc -3'
miRNA:   3'- cGUcCCGCCGCA---------AGGCACCuaGCUGG- -5'
19653 3' -57.6 NC_004686.1 + 21892 0.66 0.629517
Target:  5'- aCGGcGGCGGCGguggCgGUGGcggugccuauAUCGACg -3'
miRNA:   3'- cGUC-CCGCCGCaa--GgCACC----------UAGCUGg -5'
19653 3' -57.6 NC_004686.1 + 21846 0.66 0.618846
Target:  5'- gGCGcGGGCGGCGgcUCCGgacGGcgcUCGAacuCCg -3'
miRNA:   3'- -CGU-CCCGCCGCa-AGGCa--CCu--AGCU---GG- -5'
19653 3' -57.6 NC_004686.1 + 36141 0.67 0.597545
Target:  5'- cGCuGGaaGGCGUUgccuacgggCCGUGGGaguUCGACUg -3'
miRNA:   3'- -CGuCCcgCCGCAA---------GGCACCU---AGCUGG- -5'
19653 3' -57.6 NC_004686.1 + 12596 0.67 0.586932
Target:  5'- cCAGGGUGGCGUgcuggaaCCG-GGAauggUUGGCa -3'
miRNA:   3'- cGUCCCGCCGCAa------GGCaCCU----AGCUGg -5'
19653 3' -57.6 NC_004686.1 + 39584 0.67 0.56582
Target:  5'- aGCGGaucGUGGCGUUgUCGUGGAacgguUgGACCa -3'
miRNA:   3'- -CGUCc--CGCCGCAA-GGCACCU-----AgCUGG- -5'
19653 3' -57.6 NC_004686.1 + 32512 0.67 0.56582
Target:  5'- gGUGGGGCGGaucCGUUCCuuauggacGUGGggCaGCCa -3'
miRNA:   3'- -CGUCCCGCC---GCAAGG--------CACCuaGcUGG- -5'
19653 3' -57.6 NC_004686.1 + 43477 0.67 0.564769
Target:  5'- cGCAGGucuucGCGGCGcugUCgGUGGGUaucgucgCGACg -3'
miRNA:   3'- -CGUCC-----CGCCGCa--AGgCACCUA-------GCUGg -5'
19653 3' -57.6 NC_004686.1 + 3442 0.75 0.213053
Target:  5'- aGCAGuuGGCGGCGgugCCGUGGcuugcggaGACCg -3'
miRNA:   3'- -CGUC--CCGCCGCaa-GGCACCuag-----CUGG- -5'
19653 3' -57.6 NC_004686.1 + 41961 0.72 0.309437
Target:  5'- aCAGGGuCGGCcgcaCCuuGUGGAUCGACUg -3'
miRNA:   3'- cGUCCC-GCCGcaa-GG--CACCUAGCUGG- -5'
19653 3' -57.6 NC_004686.1 + 29133 0.69 0.445113
Target:  5'- gGCGGGccgcgcuuGCGGaUGUcugaUCCGUGGAUUGAUg -3'
miRNA:   3'- -CGUCC--------CGCC-GCA----AGGCACCUAGCUGg -5'
19653 3' -57.6 NC_004686.1 + 8283 0.68 0.514041
Target:  5'- uGCccGGUGGUuUUCCGUGGcUgGGCCu -3'
miRNA:   3'- -CGucCCGCCGcAAGGCACCuAgCUGG- -5'
19653 3' -57.6 NC_004686.1 + 45568 0.68 0.534548
Target:  5'- cGCAuuGGGCGaGCGaaCCcgguGUGGAUCGAa- -3'
miRNA:   3'- -CGU--CCCGC-CGCaaGG----CACCUAGCUgg -5'
19653 3' -57.6 NC_004686.1 + 18350 0.67 0.555336
Target:  5'- cGCAGGG-GGCGUUUgCGUGGcugcUGGCg -3'
miRNA:   3'- -CGUCCCgCCGCAAG-GCACCua--GCUGg -5'
19653 3' -57.6 NC_004686.1 + 2751 0.66 0.650857
Target:  5'- uGguGGGUGGUGUggucacagCgGUgaGGGUCGcCCa -3'
miRNA:   3'- -CguCCCGCCGCAa-------GgCA--CCUAGCuGG- -5'
19653 3' -57.6 NC_004686.1 + 31685 0.72 0.302086
Target:  5'- gGCGGGGCcGCGggauugaaCGUGGAUCuucauGACCg -3'
miRNA:   3'- -CGUCCCGcCGCaag-----GCACCUAG-----CUGG- -5'
19653 3' -57.6 NC_004686.1 + 30967 0.71 0.356385
Target:  5'- aGCAGcGGCGGCGaUCaGUGGAagcagGGCCu -3'
miRNA:   3'- -CGUC-CCGCCGCaAGgCACCUag---CUGG- -5'
19653 3' -57.6 NC_004686.1 + 7286 0.7 0.417188
Target:  5'- -aAGGGCGGCGgccagaUUCCGUGcGccGUCcGCCg -3'
miRNA:   3'- cgUCCCGCCGC------AAGGCAC-C--UAGcUGG- -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.