miRNA display CGI


Results 1 - 20 of 24 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
30839 5' -55.6 NC_006552.1 + 3160 0.66 0.779211
Target:  5'- ---aGCCGACGGCGauccaucCAUCcGGCGAGUg -3'
miRNA:   3'- ccagCGGCUGUCGCc------GUAG-CUGUUCA- -5'
30839 5' -55.6 NC_006552.1 + 31255 0.66 0.779211
Target:  5'- uGUCGCCGccguUGGgGGUgAUCGGCAGGc -3'
miRNA:   3'- cCAGCGGCu---GUCgCCG-UAGCUGUUCa -5'
30839 5' -55.6 NC_006552.1 + 9326 0.66 0.778231
Target:  5'- uGUCGCCGAacCAGCguuugaaGGCGUCGcUGAGc -3'
miRNA:   3'- cCAGCGGCU--GUCG-------CCGUAGCuGUUCa -5'
30839 5' -55.6 NC_006552.1 + 39364 0.66 0.768351
Target:  5'- ---gGCCGGCAGCGGUAcggaaacUUGaACGGGUc -3'
miRNA:   3'- ccagCGGCUGUCGCCGU-------AGC-UGUUCA- -5'
30839 5' -55.6 NC_006552.1 + 34493 0.66 0.768351
Target:  5'- cGUCGCCcucgaacuucacgGGCGGCGGCGgcagcUCGAUcuGGUc -3'
miRNA:   3'- cCAGCGG-------------CUGUCGCCGU-----AGCUGu-UCA- -5'
30839 5' -55.6 NC_006552.1 + 62547 0.66 0.749215
Target:  5'- -aUCGCCGAauGCGGCGUcagcgCGACGAa- -3'
miRNA:   3'- ccAGCGGCUguCGCCGUA-----GCUGUUca -5'
30839 5' -55.6 NC_006552.1 + 348 0.66 0.749215
Target:  5'- -cUUGCCgcGACAGCGGCA-CGAUAu-- -3'
miRNA:   3'- ccAGCGG--CUGUCGCCGUaGCUGUuca -5'
30839 5' -55.6 NC_006552.1 + 42773 0.66 0.749215
Target:  5'- aGUCGUCcaccaggacgGACAgGCGGuCAUCGACAAc- -3'
miRNA:   3'- cCAGCGG----------CUGU-CGCC-GUAGCUGUUca -5'
30839 5' -55.6 NC_006552.1 + 61997 0.66 0.728628
Target:  5'- cGagGCCGAacucugcGCGGCGuucaUCGACGAGUu -3'
miRNA:   3'- cCagCGGCUgu-----CGCCGU----AGCUGUUCA- -5'
30839 5' -55.6 NC_006552.1 + 33274 0.68 0.632613
Target:  5'- uGUCGCCGAUGGCgaGGCAguaGGCGGa- -3'
miRNA:   3'- cCAGCGGCUGUCG--CCGUag-CUGUUca -5'
30839 5' -55.6 NC_006552.1 + 22611 0.69 0.600242
Target:  5'- cGUCGCCGAUGGCgacaugcacGGCGUCGcgguAgAAGUa -3'
miRNA:   3'- cCAGCGGCUGUCG---------CCGUAGC----UgUUCA- -5'
30839 5' -55.6 NC_006552.1 + 10789 0.69 0.600242
Target:  5'- uGG-CGCCGACGGCauuGCGUcCGGCGAa- -3'
miRNA:   3'- -CCaGCGGCUGUCGc--CGUA-GCUGUUca -5'
30839 5' -55.6 NC_006552.1 + 57266 0.69 0.600242
Target:  5'- -cUCGCCGACGGCGcacgugaccGCAUCGAa---- -3'
miRNA:   3'- ccAGCGGCUGUCGC---------CGUAGCUguuca -5'
30839 5' -55.6 NC_006552.1 + 25010 0.7 0.536417
Target:  5'- aGcCGCuCGACAGCGGCggcaucGUCGGCGGa- -3'
miRNA:   3'- cCaGCG-GCUGUCGCCG------UAGCUGUUca -5'
30839 5' -55.6 NC_006552.1 + 62098 0.7 0.505367
Target:  5'- aGGaUgGCCGGCAGauCGGCGUCGAggcCAAGc -3'
miRNA:   3'- -CC-AgCGGCUGUC--GCCGUAGCU---GUUCa -5'
30839 5' -55.6 NC_006552.1 + 59678 0.7 0.495187
Target:  5'- -cUCGCCGGCcaacGGCGGUgAUCGGCAAu- -3'
miRNA:   3'- ccAGCGGCUG----UCGCCG-UAGCUGUUca -5'
30839 5' -55.6 NC_006552.1 + 14484 0.71 0.475115
Target:  5'- aGGUCGCgGAUGGgGGCAUCcaGGCGGa- -3'
miRNA:   3'- -CCAGCGgCUGUCgCCGUAG--CUGUUca -5'
30839 5' -55.6 NC_006552.1 + 5002 0.71 0.459354
Target:  5'- uGGUCGCUcagcgacuucagguuGGCGGUGGCGUCcugguACAGGUg -3'
miRNA:   3'- -CCAGCGG---------------CUGUCGCCGUAGc----UGUUCA- -5'
30839 5' -55.6 NC_006552.1 + 21142 0.71 0.436246
Target:  5'- aGGUUGaCgGGCGGCGGCGacgCGAUAGGc -3'
miRNA:   3'- -CCAGC-GgCUGUCGCCGUa--GCUGUUCa -5'
30839 5' -55.6 NC_006552.1 + 36147 0.72 0.417511
Target:  5'- uGUCuGCCuGAuCGGCGGCAUCGGCGc-- -3'
miRNA:   3'- cCAG-CGG-CU-GUCGCCGUAGCUGUuca -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.