miRNA display CGI


Results 1 - 20 of 35 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
16266 5' -54.8 NC_004084.1 + 10270 0.66 0.78805
Target:  5'- cGGAUcaCGAUGUUCGAGGGCauccgguacaucUCGGGCa -3'
miRNA:   3'- -UCUGa-GCUGUAGGCUUCCG------------AGCUCGc -5'
16266 5' -54.8 NC_004084.1 + 6319 0.66 0.78805
Target:  5'- cGACgUCGACAUcCCGgcGGUaacgUCG-GCGa -3'
miRNA:   3'- uCUG-AGCUGUA-GGCuuCCG----AGCuCGC- -5'
16266 5' -54.8 NC_004084.1 + 52589 0.66 0.78805
Target:  5'- cGGCggCGugGUCCGguGGgUCGAGgCa -3'
miRNA:   3'- uCUGa-GCugUAGGCuuCCgAGCUC-Gc -5'
16266 5' -54.8 NC_004084.1 + 1658 0.66 0.78805
Target:  5'- -cGCUCGuCAUCau-GGGCUCGucgGGCGa -3'
miRNA:   3'- ucUGAGCuGUAGgcuUCCGAGC---UCGC- -5'
16266 5' -54.8 NC_004084.1 + 8291 0.66 0.78707
Target:  5'- cGGaACUCGGCAUCCcguuGGGCUuCGuccagacGGCGu -3'
miRNA:   3'- -UC-UGAGCUGUAGGcu--UCCGA-GC-------UCGC- -5'
16266 5' -54.8 NC_004084.1 + 17320 0.66 0.78707
Target:  5'- gAGAUUaCGAUcgaggagAUCaacgccggaggCGAGGGCUCGAGUGa -3'
miRNA:   3'- -UCUGA-GCUG-------UAG-----------GCUUCCGAGCUCGC- -5'
16266 5' -54.8 NC_004084.1 + 4197 0.66 0.778185
Target:  5'- cGACgUCGAgAUCCGA---CUCGAGCc -3'
miRNA:   3'- uCUG-AGCUgUAGGCUuccGAGCUCGc -5'
16266 5' -54.8 NC_004084.1 + 49622 0.66 0.778185
Target:  5'- uGGACgaugaCGACAUgUGGAccuGCUCGAGCu -3'
miRNA:   3'- -UCUGa----GCUGUAgGCUUc--CGAGCUCGc -5'
16266 5' -54.8 NC_004084.1 + 51241 0.66 0.768172
Target:  5'- -aGCUCGACGUCCGGAucGCUgCGAcCGa -3'
miRNA:   3'- ucUGAGCUGUAGGCUUc-CGA-GCUcGC- -5'
16266 5' -54.8 NC_004084.1 + 46567 0.66 0.768172
Target:  5'- cGGACUCGGCAUC----GGCaUCGcGGCGa -3'
miRNA:   3'- -UCUGAGCUGUAGgcuuCCG-AGC-UCGC- -5'
16266 5' -54.8 NC_004084.1 + 53429 0.66 0.734206
Target:  5'- cGACUCGAgCGacgaaagguccucuUCCGAGGcGCUCugGAGCc -3'
miRNA:   3'- uCUGAGCU-GU--------------AGGCUUC-CGAG--CUCGc -5'
16266 5' -54.8 NC_004084.1 + 58262 0.67 0.716252
Target:  5'- uGAUUCGugAUCUGGAuGGcCUCGGGg- -3'
miRNA:   3'- uCUGAGCugUAGGCUU-CC-GAGCUCgc -5'
16266 5' -54.8 NC_004084.1 + 40571 0.67 0.716252
Target:  5'- cGAC-CGACAUCuCGGccGuCUCGAGCu -3'
miRNA:   3'- uCUGaGCUGUAG-GCUucC-GAGCUCGc -5'
16266 5' -54.8 NC_004084.1 + 27826 0.67 0.69483
Target:  5'- cGACcgCGGCGUCCGcGAGGUcacggaCGAGCu -3'
miRNA:   3'- uCUGa-GCUGUAGGC-UUCCGa-----GCUCGc -5'
16266 5' -54.8 NC_004084.1 + 25060 0.67 0.693751
Target:  5'- uAGACUCGGCgguugagGUCCGAGGcCUC-AGCu -3'
miRNA:   3'- -UCUGAGCUG-------UAGGCUUCcGAGcUCGc -5'
16266 5' -54.8 NC_004084.1 + 3550 0.67 0.692672
Target:  5'- cGACUCGAacuggcaggucgGUCCGAuGGaaagCGAGCGg -3'
miRNA:   3'- uCUGAGCUg-----------UAGGCUuCCga--GCUCGC- -5'
16266 5' -54.8 NC_004084.1 + 3543 0.67 0.684023
Target:  5'- cGcCUCGACGUUCGAagAGGCcagGAGCa -3'
miRNA:   3'- uCuGAGCUGUAGGCU--UCCGag-CUCGc -5'
16266 5' -54.8 NC_004084.1 + 12936 0.68 0.662273
Target:  5'- uAGACgcugaUCGACG-CCGAacgAGGCUCG-GCu -3'
miRNA:   3'- -UCUG-----AGCUGUaGGCU---UCCGAGCuCGc -5'
16266 5' -54.8 NC_004084.1 + 31329 0.68 0.629465
Target:  5'- cGGCUCGGgAUCCGGAGcaGUucgucgucgacgUCGAGCa -3'
miRNA:   3'- uCUGAGCUgUAGGCUUC--CG------------AGCUCGc -5'
16266 5' -54.8 NC_004084.1 + 36764 0.68 0.62837
Target:  5'- cGGGCUCGAUAgUUCGAgucGGGUUCGccccgcuGGCGg -3'
miRNA:   3'- -UCUGAGCUGU-AGGCU---UCCGAGC-------UCGC- -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.