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
28028 3' -54.7 NC_005887.1 + 30624 0.65 0.671875
Target:  5'- -aGCGCGUCCGGcagaUCCGgaucguugaugcgacGCuCGAGCGu -3'
miRNA:   3'- gaCGCGUAGGCU----AGGCaa-------------CG-GUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 14242 0.66 0.663961
Target:  5'- -cGCgGCAUCCGAUCU--UGCCGccGGUc -3'
miRNA:   3'- gaCG-CGUAGGCUAGGcaACGGU--UCGu -5'
28028 3' -54.7 NC_005887.1 + 16858 0.66 0.652629
Target:  5'- -cGCGCcaucGUCCGAgccgCCGcugcguugUGCCcAAGCAa -3'
miRNA:   3'- gaCGCG----UAGGCUa---GGCa-------ACGG-UUCGU- -5'
28028 3' -54.7 NC_005887.1 + 32465 0.66 0.641277
Target:  5'- aCUGCGCGgcgugcggaUCGAUCuCGUUGUagUAGGCAc -3'
miRNA:   3'- -GACGCGUa--------GGCUAG-GCAACG--GUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 37701 0.66 0.623099
Target:  5'- uCUGCGCGUCgcugagauccuugauCGcgCCGgcgGCCAccGGCGc -3'
miRNA:   3'- -GACGCGUAG---------------GCuaGGCaa-CGGU--UCGU- -5'
28028 3' -54.7 NC_005887.1 + 13251 0.66 0.617421
Target:  5'- gCUGacCGCcgUCGAUUCGUUGCCGAucgacacaaaggcGCAg -3'
miRNA:   3'- -GAC--GCGuaGGCUAGGCAACGGUU-------------CGU- -5'
28028 3' -54.7 NC_005887.1 + 35736 0.67 0.595887
Target:  5'- -gGCGuUGUCgGAUCCGgUGCCGccAGCGu -3'
miRNA:   3'- gaCGC-GUAGgCUAGGCaACGGU--UCGU- -5'
28028 3' -54.7 NC_005887.1 + 16509 0.67 0.595887
Target:  5'- aUGuCGCAggCCGAUCgCGUcGCCGccGGCGc -3'
miRNA:   3'- gAC-GCGUa-GGCUAG-GCAaCGGU--UCGU- -5'
28028 3' -54.7 NC_005887.1 + 24475 0.67 0.573348
Target:  5'- -gGCGCggCCGAUCguguCGUcgaUGCCcGGCAg -3'
miRNA:   3'- gaCGCGuaGGCUAG----GCA---ACGGuUCGU- -5'
28028 3' -54.7 NC_005887.1 + 34652 0.67 0.569983
Target:  5'- -gGCGCGccggcuugccgguuUCCgGAUCCGccacgUUGUCGAGCAg -3'
miRNA:   3'- gaCGCGU--------------AGG-CUAGGC-----AACGGUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 40929 0.67 0.562151
Target:  5'- -cGCGCA-CCGAgUUCGgcaacGCCGAGCGc -3'
miRNA:   3'- gaCGCGUaGGCU-AGGCaa---CGGUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 36282 0.68 0.555461
Target:  5'- -cGCGCAUcuucguuggugagugCCGcgCCGcUGCCAccAGCAc -3'
miRNA:   3'- gaCGCGUA---------------GGCuaGGCaACGGU--UCGU- -5'
28028 3' -54.7 NC_005887.1 + 40935 0.68 0.551014
Target:  5'- gCU-CGCGUUCGucuugCCGcUGCCGAGCGg -3'
miRNA:   3'- -GAcGCGUAGGCua---GGCaACGGUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 38252 0.68 0.538842
Target:  5'- cCUGCGCGaacucgaugCCGAUCUGcgccugcUUGCCcguGAGCAg -3'
miRNA:   3'- -GACGCGUa--------GGCUAGGC-------AACGG---UUCGU- -5'
28028 3' -54.7 NC_005887.1 + 31517 0.68 0.528952
Target:  5'- uUGCGUAUCCaGAaUCGggaagaaGCCGAGCAg -3'
miRNA:   3'- gACGCGUAGG-CUaGGCaa-----CGGUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 815 0.69 0.475377
Target:  5'- gUGCGCG-CCGAgcgCCucgcggaucUUGCCGAGCAc -3'
miRNA:   3'- gACGCGUaGGCUa--GGc--------AACGGUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 41390 0.69 0.475377
Target:  5'- gUGCGCGacguguucUCCGA--CGaUGCCGAGCAg -3'
miRNA:   3'- gACGCGU--------AGGCUagGCaACGGUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 24246 0.69 0.464983
Target:  5'- -aGCGCGUCCGGUgucagguauUCGgcguccccauacUUGCCGGGCGu -3'
miRNA:   3'- gaCGCGUAGGCUA---------GGC------------AACGGUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 2229 0.69 0.454709
Target:  5'- -gGCGCAUCCGGUCggaaguCGUcGCgaCGAGCAu -3'
miRNA:   3'- gaCGCGUAGGCUAG------GCAaCG--GUUCGU- -5'
28028 3' -54.7 NC_005887.1 + 35449 0.7 0.395802
Target:  5'- -cGCGUAgaugacgCCGAggcgUUCGUUGUCGAGCAg -3'
miRNA:   3'- gaCGCGUa------GGCU----AGGCAACGGUUCGU- -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.