miRNA display CGI


Results 1 - 20 of 32 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
23091 3' -56.3 NC_005178.1 + 37066 0.66 0.550456
Target:  5'- gGACGAGGcggcagcacucGCUGGCGuccCGGUCGGCGa -3'
miRNA:   3'- -CUGCUUU-----------CGGCCGCuccGUUAGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 17068 0.66 0.550456
Target:  5'- cGGCGAccuucAGCUgGGCGGuGGCGG-CGGCGa -3'
miRNA:   3'- -CUGCUu----UCGG-CCGCU-CCGUUaGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 31492 0.66 0.539437
Target:  5'- uGCGAcacGGCCGGCcucgacuuccgcGAcGGCGGUCuGGCGa -3'
miRNA:   3'- cUGCUu--UCGGCCG------------CU-CCGUUAG-CCGU- -5'
23091 3' -56.3 NC_005178.1 + 16878 0.66 0.539437
Target:  5'- cGCGGAGGUa-GCGAGGCcgagcugcUCGGCGc -3'
miRNA:   3'- cUGCUUUCGgcCGCUCCGuu------AGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 18637 0.66 0.53834
Target:  5'- gGGCGGucAGGCUgGGCGAGGCcGUaaggugacuauccCGGCGc -3'
miRNA:   3'- -CUGCU--UUCGG-CCGCUCCGuUA-------------GCCGU- -5'
23091 3' -56.3 NC_005178.1 + 36121 0.66 0.506866
Target:  5'- --aGGuuGGGCUGGCGGGuGCAggUGGCGa -3'
miRNA:   3'- cugCU--UUCGGCCGCUC-CGUuaGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 16586 0.66 0.505794
Target:  5'- cGACGAuggcGCCGGCGAagaccuggacguuGGCcgcuacCGGCAc -3'
miRNA:   3'- -CUGCUuu--CGGCCGCU-------------CCGuua---GCCGU- -5'
23091 3' -56.3 NC_005178.1 + 15291 0.66 0.496192
Target:  5'- uGGCG--GGCCaGCcuGGCGGUCGGCu -3'
miRNA:   3'- -CUGCuuUCGGcCGcuCCGUUAGCCGu -5'
23091 3' -56.3 NC_005178.1 + 14234 0.66 0.496192
Target:  5'- cGGCaAGGGCC-GCGucuGGCaAGUCGGCAc -3'
miRNA:   3'- -CUGcUUUCGGcCGCu--CCG-UUAGCCGU- -5'
23091 3' -56.3 NC_005178.1 + 32614 0.66 0.496192
Target:  5'- gGGCGGccGCUGGCGGccaguuccucGGCGaucugGUCGGCc -3'
miRNA:   3'- -CUGCUuuCGGCCGCU----------CCGU-----UAGCCGu -5'
23091 3' -56.3 NC_005178.1 + 21114 0.67 0.485622
Target:  5'- uGGCGGcGAGCUGGCG-GGCA-UCcGCAg -3'
miRNA:   3'- -CUGCU-UUCGGCCGCuCCGUuAGcCGU- -5'
23091 3' -56.3 NC_005178.1 + 3561 0.67 0.485622
Target:  5'- cAUGAu-GCgCGaCGAGGCGGUCGGCc -3'
miRNA:   3'- cUGCUuuCG-GCcGCUCCGUUAGCCGu -5'
23091 3' -56.3 NC_005178.1 + 12656 0.67 0.485622
Target:  5'- -uCGgcGGCCGGCGcgcuGGCGggUGGCc -3'
miRNA:   3'- cuGCuuUCGGCCGCu---CCGUuaGCCGu -5'
23091 3' -56.3 NC_005178.1 + 9455 0.67 0.47516
Target:  5'- gGACGGucuGCCGGaCGuGGUggUcCGGUAc -3'
miRNA:   3'- -CUGCUuu-CGGCC-GCuCCGuuA-GCCGU- -5'
23091 3' -56.3 NC_005178.1 + 26906 0.67 0.464812
Target:  5'- cGCGGAGacGCCGGcCGGGGCGuugcgcccCGGCu -3'
miRNA:   3'- cUGCUUU--CGGCC-GCUCCGUua------GCCGu -5'
23091 3' -56.3 NC_005178.1 + 17167 0.67 0.464812
Target:  5'- gGGCGuccAGGGCCGGCuucaGGGCGGUCagGGCc -3'
miRNA:   3'- -CUGC---UUUCGGCCGc---UCCGUUAG--CCGu -5'
23091 3' -56.3 NC_005178.1 + 33671 0.67 0.454583
Target:  5'- cGGCGgcGGCCGGUGuucGGGuCAAcgaugcgCGGCAa -3'
miRNA:   3'- -CUGCuuUCGGCCGC---UCC-GUUa------GCCGU- -5'
23091 3' -56.3 NC_005178.1 + 26461 0.67 0.454583
Target:  5'- cGGCGcu-GCCGGcCGAGGUggaugcggGAUCaGGCAu -3'
miRNA:   3'- -CUGCuuuCGGCC-GCUCCG--------UUAG-CCGU- -5'
23091 3' -56.3 NC_005178.1 + 9659 0.67 0.441469
Target:  5'- cGCGGccgguggcuucgccGAGCCGGcCGAGGCGGUCa--- -3'
miRNA:   3'- cUGCU--------------UUCGGCC-GCUCCGUUAGccgu -5'
23091 3' -56.3 NC_005178.1 + 30121 0.68 0.414935
Target:  5'- aACGGGugcuGCCGGcCGAGGC-GUCGcGCu -3'
miRNA:   3'- cUGCUUu---CGGCC-GCUCCGuUAGC-CGu -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.