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
14206 3' -57 NC_003521.1 + 11449 0.66 0.949953
Target:  5'- gACGCCGaCAUGUUUCUaggcuaCUCGUacGACu -3'
miRNA:   3'- -UGCGGCaGUACAGAGGg-----GAGCA--CUGc -5'
14206 3' -57 NC_003521.1 + 36562 0.66 0.945864
Target:  5'- aGCGCCGUCuccaGcCUCCCCaugCGcgaacuggccUGGCGg -3'
miRNA:   3'- -UGCGGCAGua--CaGAGGGGa--GC----------ACUGC- -5'
14206 3' -57 NC_003521.1 + 33151 0.66 0.945864
Target:  5'- uCGCCGUCA--UCUCCC-UCGcGAUGc -3'
miRNA:   3'- uGCGGCAGUacAGAGGGgAGCaCUGC- -5'
14206 3' -57 NC_003521.1 + 188075 0.66 0.937043
Target:  5'- -aGCCGcUCGUcUCccgaUCCCCUggCGUGACGa -3'
miRNA:   3'- ugCGGC-AGUAcAG----AGGGGA--GCACUGC- -5'
14206 3' -57 NC_003521.1 + 111872 0.67 0.932307
Target:  5'- cACGCCGcCAg----CCCCUCGUucgGACGu -3'
miRNA:   3'- -UGCGGCaGUacagaGGGGAGCA---CUGC- -5'
14206 3' -57 NC_003521.1 + 78562 0.67 0.932307
Target:  5'- gGCGCCG--GUGUCgcaCCCC-CGUuGACGc -3'
miRNA:   3'- -UGCGGCagUACAGa--GGGGaGCA-CUGC- -5'
14206 3' -57 NC_003521.1 + 194452 0.67 0.922183
Target:  5'- cGCGCCccucacagccgcGUCGUGUagcaUUCgCCCUCGUccGACGa -3'
miRNA:   3'- -UGCGG------------CAGUACA----GAG-GGGAGCA--CUGC- -5'
14206 3' -57 NC_003521.1 + 30712 0.67 0.916794
Target:  5'- gGCGCCGcgggcUCAUGUCgcgugaccUCCgaCCUCGUGGgGu -3'
miRNA:   3'- -UGCGGC-----AGUACAG--------AGG--GGAGCACUgC- -5'
14206 3' -57 NC_003521.1 + 24825 0.67 0.911188
Target:  5'- -gGCCGUCA-GUCUCUg--CGUGGCGc -3'
miRNA:   3'- ugCGGCAGUaCAGAGGggaGCACUGC- -5'
14206 3' -57 NC_003521.1 + 36119 0.67 0.911188
Target:  5'- cCGCCGUgGUGgucaccucgCUgCCCUCGUcGACc -3'
miRNA:   3'- uGCGGCAgUACa--------GAgGGGAGCA-CUGc -5'
14206 3' -57 NC_003521.1 + 35375 0.67 0.905366
Target:  5'- gACGCCGa---GUC-CCCCUCGgcgagGACGc -3'
miRNA:   3'- -UGCGGCaguaCAGaGGGGAGCa----CUGC- -5'
14206 3' -57 NC_003521.1 + 126972 0.68 0.899943
Target:  5'- cGCGCCGUCGUcGcCggccgCCCCgcugccgcugcccgaCGUGGCGg -3'
miRNA:   3'- -UGCGGCAGUA-CaGa----GGGGa--------------GCACUGC- -5'
14206 3' -57 NC_003521.1 + 126866 0.68 0.899329
Target:  5'- cUGCCGUC-UGUCUgCCuCCUcCGUGuCGa -3'
miRNA:   3'- uGCGGCAGuACAGA-GG-GGA-GCACuGC- -5'
14206 3' -57 NC_003521.1 + 62486 0.68 0.897477
Target:  5'- uCGUCGUCAUGUCUCCgggcccgcugcuguCCU--UGACGu -3'
miRNA:   3'- uGCGGCAGUACAGAGG--------------GGAgcACUGC- -5'
14206 3' -57 NC_003521.1 + 56420 0.68 0.879965
Target:  5'- aGCGCCGguacUCGcgGUCgaaggCCgCCUCGUGGCc -3'
miRNA:   3'- -UGCGGC----AGUa-CAGa----GG-GGAGCACUGc -5'
14206 3' -57 NC_003521.1 + 45438 0.68 0.873102
Target:  5'- gGCGCgGUCAUGg--CCUCgcCGUGGCGu -3'
miRNA:   3'- -UGCGgCAGUACagaGGGGa-GCACUGC- -5'
14206 3' -57 NC_003521.1 + 155592 0.68 0.872405
Target:  5'- cGCGCCGgcccCAUGUCUCUguccggcgcggcgCCggGUGACGc -3'
miRNA:   3'- -UGCGGCa---GUACAGAGG-------------GGagCACUGC- -5'
14206 3' -57 NC_003521.1 + 72170 0.69 0.858792
Target:  5'- gGCGCCGUCGgca-UgCCCUCGaUGACc -3'
miRNA:   3'- -UGCGGCAGUacagAgGGGAGC-ACUGc -5'
14206 3' -57 NC_003521.1 + 143298 0.69 0.851354
Target:  5'- cGCGCCGUC--GUCUCUCUcCGUGGuCGc -3'
miRNA:   3'- -UGCGGCAGuaCAGAGGGGaGCACU-GC- -5'
14206 3' -57 NC_003521.1 + 35819 0.69 0.851354
Target:  5'- cACGCCGUCGUuagcggGUCUCCCgcaUCGgGAuCGa -3'
miRNA:   3'- -UGCGGCAGUA------CAGAGGGg--AGCaCU-GC- -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.