miRNA display CGI


Results 1 - 20 of 40 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
24959 3' -58.5 NC_005284.1 + 23603 0.66 0.558713
Target:  5'- uCGaCGCGGcGGGUuuugcucaugAGCGCCGAuauccgaccGCGUCa -3'
miRNA:   3'- -GCcGCGUCaCCCG----------UUGCGGCU---------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 22248 0.66 0.548169
Target:  5'- aGGUguucGCGGgcgGGGCGGCGCUGuACuUCa -3'
miRNA:   3'- gCCG----CGUCa--CCCGUUGCGGCuUGcAG- -5'
24959 3' -58.5 NC_005284.1 + 10932 0.66 0.548169
Target:  5'- -uGCGCAGgcccGCAugGCCGGccuCGUCg -3'
miRNA:   3'- gcCGCGUCacc-CGUugCGGCUu--GCAG- -5'
24959 3' -58.5 NC_005284.1 + 13298 0.66 0.547118
Target:  5'- uCGGaCGguGUGaagaacuGGCAcguCGCCGAGCG-Cg -3'
miRNA:   3'- -GCC-GCguCAC-------CCGUu--GCGGCUUGCaG- -5'
24959 3' -58.5 NC_005284.1 + 6522 0.66 0.547118
Target:  5'- aGGCuccuCAGUGcccgcacGGCAacGCGCCGucAGCGUCa -3'
miRNA:   3'- gCCGc---GUCAC-------CCGU--UGCGGC--UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 36244 0.66 0.541872
Target:  5'- gCGGCGgAGUGGuuuucccggucaguuGCGuaucgacgccguACGCCGGaaucgACGUCa -3'
miRNA:   3'- -GCCGCgUCACC---------------CGU------------UGCGGCU-----UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 51291 0.66 0.537688
Target:  5'- aCGGCGCuuauucGGGCAAUGgagcucgagcCCGAGCuGUCc -3'
miRNA:   3'- -GCCGCGuca---CCCGUUGC----------GGCUUG-CAG- -5'
24959 3' -58.5 NC_005284.1 + 51594 0.66 0.527277
Target:  5'- aGGcCGCA--GGGUGAaugucaaaaaGCCGAGCGUCu -3'
miRNA:   3'- gCC-GCGUcaCCCGUUg---------CGGCUUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 12059 0.66 0.527277
Target:  5'- uCGGCGC-GUGcGGCGAUGUCucagguguucgGAGCGaUCg -3'
miRNA:   3'- -GCCGCGuCAC-CCGUUGCGG-----------CUUGC-AG- -5'
24959 3' -58.5 NC_005284.1 + 45151 0.67 0.506689
Target:  5'- aGGCGUGGUcgacgcacGGCGACGUCGGGCa-- -3'
miRNA:   3'- gCCGCGUCAc-------CCGUUGCGGCUUGcag -5'
24959 3' -58.5 NC_005284.1 + 17391 0.67 0.496524
Target:  5'- uCGGUGUgaaGGUGcaacgcuacGGCGACGaCCGcGGCGUCa -3'
miRNA:   3'- -GCCGCG---UCAC---------CCGUUGC-GGC-UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 19228 0.67 0.496524
Target:  5'- uGGCGCAGUccu--ACGCCGAucugaacggacGCGUCg -3'
miRNA:   3'- gCCGCGUCAcccguUGCGGCU-----------UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 38832 0.67 0.486452
Target:  5'- aCGGCGaacGUGaGGCcggcgucgcGCGCCG-ACGUCa -3'
miRNA:   3'- -GCCGCgu-CAC-CCGu--------UGCGGCuUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 11567 0.67 0.48345
Target:  5'- gGaGCGCAGUGcGCAgaucgacgcggaGCucggcgacuacgcgGCCGAGCGUCa -3'
miRNA:   3'- gC-CGCGUCACcCGU------------UG--------------CGGCUUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 7643 0.67 0.476478
Target:  5'- uGGUGCGucaguacacGUGGGCGGCGUCG---GUCa -3'
miRNA:   3'- gCCGCGU---------CACCCGUUGCGGCuugCAG- -5'
24959 3' -58.5 NC_005284.1 + 17742 0.67 0.474495
Target:  5'- aGGCGCAGgcgcaccggcucGGGCGcugGCuGCUGcuGACGUCg -3'
miRNA:   3'- gCCGCGUCa-----------CCCGU---UG-CGGC--UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 50831 0.67 0.466607
Target:  5'- uGGC-CGuUGGGUGGgGCCGGGCGUUu -3'
miRNA:   3'- gCCGcGUcACCCGUUgCGGCUUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 44308 0.67 0.456842
Target:  5'- aCGGCGCAucgccaaacGUcGGCAccaugacacuuuGCGCCGcccGCGUCg -3'
miRNA:   3'- -GCCGCGU---------CAcCCGU------------UGCGGCu--UGCAG- -5'
24959 3' -58.5 NC_005284.1 + 21831 0.68 0.444314
Target:  5'- cCGGCGCuuccagcgccgccgGcGUGGGCGAuggugcCGCCGccuaugcaGACGUCg -3'
miRNA:   3'- -GCCGCG--------------U-CACCCGUU------GCGGC--------UUGCAG- -5'
24959 3' -58.5 NC_005284.1 + 42256 0.68 0.418926
Target:  5'- aCGaGCGUu-UGGGCGaguguGCGCCGGuCGUCg -3'
miRNA:   3'- -GC-CGCGucACCCGU-----UGCGGCUuGCAG- -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.