miRNA display CGI


Results 1 - 20 of 66 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
23272 3' -59.3 NC_005259.1 + 28992 1.11 0.000471
Target:  5'- cGCCCGCUACGGCCACGAGAUCGGCGAa -3'
miRNA:   3'- -CGGGCGAUGCCGGUGCUCUAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 44236 0.76 0.140645
Target:  5'- cGCCCGCcGCGccGCCcgcgcGCGAGAagUCGGCGAc -3'
miRNA:   3'- -CGGGCGaUGC--CGG-----UGCUCU--AGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 8367 0.74 0.212539
Target:  5'- cGCUCgGCgGCGGCCucggcaucgGCGAGAgccUCGGCGAg -3'
miRNA:   3'- -CGGG-CGaUGCCGG---------UGCUCU---AGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 13111 0.73 0.234891
Target:  5'- gGCCCGCUcgGCGGCUACGAccagcgcacgguGuUCGGCu- -3'
miRNA:   3'- -CGGGCGA--UGCCGGUGCU------------CuAGCCGcu -5'
23272 3' -59.3 NC_005259.1 + 20175 0.73 0.240779
Target:  5'- cGCCCGCcgccuCGGCUgACGAGAUCGcCGGu -3'
miRNA:   3'- -CGGGCGau---GCCGG-UGCUCUAGCcGCU- -5'
23272 3' -59.3 NC_005259.1 + 60300 0.73 0.240779
Target:  5'- -gUCGgUGCGGCCACG-GA-CGGCGAa -3'
miRNA:   3'- cgGGCgAUGCCGGUGCuCUaGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 49671 0.73 0.24679
Target:  5'- cGCCUGCU-CGGCCugGuaGUCGGCc- -3'
miRNA:   3'- -CGGGCGAuGCCGGugCucUAGCCGcu -5'
23272 3' -59.3 NC_005259.1 + 66849 0.73 0.24679
Target:  5'- cGCCCGC-ACgGGCCACc-GAUCGGCc- -3'
miRNA:   3'- -CGGGCGaUG-CCGGUGcuCUAGCCGcu -5'
23272 3' -59.3 NC_005259.1 + 27741 0.72 0.259184
Target:  5'- cGCCCGCUGCuGcCCACGGuGcaucgcccUCGGCGAc -3'
miRNA:   3'- -CGGGCGAUGcC-GGUGCUcU--------AGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 68870 0.72 0.292386
Target:  5'- uGCCCGCgccggGCGcGCCgAUGAGGUagaugaGGCGGu -3'
miRNA:   3'- -CGGGCGa----UGC-CGG-UGCUCUAg-----CCGCU- -5'
23272 3' -59.3 NC_005259.1 + 40564 0.71 0.299413
Target:  5'- cGCCCGC-GCGGUguUGcuGUCGGCGGc -3'
miRNA:   3'- -CGGGCGaUGCCGguGCucUAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 38749 0.71 0.299413
Target:  5'- gGCCCGCcGCaGGCCggugagcugcGCGAucauGUCGGCGAa -3'
miRNA:   3'- -CGGGCGaUG-CCGG----------UGCUc---UAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 1871 0.71 0.30657
Target:  5'- cGCCgCGUUccguaaGCaGGCCGcCGAGAUCGcGCGAg -3'
miRNA:   3'- -CGG-GCGA------UG-CCGGU-GCUCUAGC-CGCU- -5'
23272 3' -59.3 NC_005259.1 + 40873 0.71 0.30657
Target:  5'- cGCCCacaGCUcacCGGCCaccgugGCGGGGUCGGCa- -3'
miRNA:   3'- -CGGG---CGAu--GCCGG------UGCUCUAGCCGcu -5'
23272 3' -59.3 NC_005259.1 + 64785 0.71 0.313857
Target:  5'- gGCCCGCUGCGacuggcuguguGCCuCGGccUCGGCGGc -3'
miRNA:   3'- -CGGGCGAUGC-----------CGGuGCUcuAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 36635 0.7 0.352244
Target:  5'- cGCCCGCaa-GGCC-CGcGAUCaGCGAg -3'
miRNA:   3'- -CGGGCGaugCCGGuGCuCUAGcCGCU- -5'
23272 3' -59.3 NC_005259.1 + 4947 0.7 0.368503
Target:  5'- gGCCCGaaaACGGCUACGAcGAUcCGGUa- -3'
miRNA:   3'- -CGGGCga-UGCCGGUGCU-CUA-GCCGcu -5'
23272 3' -59.3 NC_005259.1 + 17338 0.69 0.385271
Target:  5'- uGCCgGUcaACGucGCCGuCGAGGUCGGCGGc -3'
miRNA:   3'- -CGGgCGa-UGC--CGGU-GCUCUAGCCGCU- -5'
23272 3' -59.3 NC_005259.1 + 27833 0.69 0.385271
Target:  5'- uUCUGCgcgagguaGGCCGCGAGGUCGcGCGc -3'
miRNA:   3'- cGGGCGaug-----CCGGUGCUCUAGC-CGCu -5'
23272 3' -59.3 NC_005259.1 + 37769 0.69 0.385271
Target:  5'- gGCCC-CUGCGGgCACGAGcgcAUCaGUGAg -3'
miRNA:   3'- -CGGGcGAUGCCgGUGCUC---UAGcCGCU- -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.