miRNA display CGI


Results 1 - 20 of 58 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
28056 3' -53.6 NC_005887.1 + 13995 0.97 0.007232
Target:  5'- gCGUUcGUGCUCGAAGCCAAUGCCGCGc -3'
miRNA:   3'- -GCAAaCGCGAGCUUCGGUUACGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 31037 0.78 0.165267
Target:  5'- gGUUgcgGCGCUCGcuGCCGAgccgGCCGCu -3'
miRNA:   3'- gCAAa--CGCGAGCuuCGGUUa---CGGCGc -5'
28056 3' -53.6 NC_005887.1 + 35076 0.75 0.256363
Target:  5'- gCGg--GCgGC-CGggGCCGAUGUCGCGg -3'
miRNA:   3'- -GCaaaCG-CGaGCuuCGGUUACGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 32176 0.74 0.299916
Target:  5'- gGUcgGCGCUCagcgauGAGCCAGUGCCaguGCGg -3'
miRNA:   3'- gCAaaCGCGAGc-----UUCGGUUACGG---CGC- -5'
28056 3' -53.6 NC_005887.1 + 34830 0.73 0.340414
Target:  5'- gCGUUcagcgUGaCGCUCGggGUCG-UGCCGCc -3'
miRNA:   3'- -GCAA-----AC-GCGAGCuuCGGUuACGGCGc -5'
28056 3' -53.6 NC_005887.1 + 42083 0.72 0.36655
Target:  5'- ----aGCGCUgucgcgUGggGCgCGAUGCCGCGu -3'
miRNA:   3'- gcaaaCGCGA------GCuuCG-GUUACGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 41452 0.71 0.432693
Target:  5'- ----cGCGgaUCGAAGCCGAgGCCGCc -3'
miRNA:   3'- gcaaaCGCg-AGCUUCGGUUaCGGCGc -5'
28056 3' -53.6 NC_005887.1 + 36814 0.71 0.456921
Target:  5'- aCGUggGCGCagaaUCGugcgugccugcugcGGCCGGUGCUGCGg -3'
miRNA:   3'- -GCAaaCGCG----AGCu-------------UCGGUUACGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 23443 0.7 0.463092
Target:  5'- gGUgaGCGCUgCGGgcuGCCGGUGCCGgGc -3'
miRNA:   3'- gCAaaCGCGA-GCUu--CGGUUACGGCgC- -5'
28056 3' -53.6 NC_005887.1 + 6088 0.7 0.463092
Target:  5'- aGUacGCGgaCGAAGgCAcgGCCGCGc -3'
miRNA:   3'- gCAaaCGCgaGCUUCgGUuaCGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 850 0.7 0.463092
Target:  5'- cCGUcgacUUGcCGUUCG-AGCCGGUGCCauGCGg -3'
miRNA:   3'- -GCA----AAC-GCGAGCuUCGGUUACGG--CGC- -5'
28056 3' -53.6 NC_005887.1 + 32177 0.7 0.483968
Target:  5'- cCGUUcGCGUcCGGAuGCCGAUGCCaGCc -3'
miRNA:   3'- -GCAAaCGCGaGCUU-CGGUUACGG-CGc -5'
28056 3' -53.6 NC_005887.1 + 36726 0.7 0.492444
Target:  5'- uCGUcgUGCGaaacgauguuaaUCGu-GCCGAUGCCGCGc -3'
miRNA:   3'- -GCAa-ACGCg-----------AGCuuCGGUUACGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 39933 0.7 0.505285
Target:  5'- uCGUcgGCGCgggcuucgccUCGAAGCCAGcgGCaCGCa -3'
miRNA:   3'- -GCAaaCGCG----------AGCUUCGGUUa-CG-GCGc -5'
28056 3' -53.6 NC_005887.1 + 9133 0.7 0.505285
Target:  5'- ----gGCGCgacCGAGuGCCAGUGCgGCGc -3'
miRNA:   3'- gcaaaCGCGa--GCUU-CGGUUACGgCGC- -5'
28056 3' -53.6 NC_005887.1 + 685 0.7 0.505285
Target:  5'- ---cUGCuGCUCGccGAGUCGAUGCUGCu -3'
miRNA:   3'- gcaaACG-CGAGC--UUCGGUUACGGCGc -5'
28056 3' -53.6 NC_005887.1 + 31386 0.69 0.516094
Target:  5'- ----cGCGCUCGGcguAGCgGugcGUGCCGUGg -3'
miRNA:   3'- gcaaaCGCGAGCU---UCGgU---UACGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 2002 0.69 0.516094
Target:  5'- aCGgccGCGCUCGAcGGCCAGUccauuucgGCgGCGa -3'
miRNA:   3'- -GCaaaCGCGAGCU-UCGGUUA--------CGgCGC- -5'
28056 3' -53.6 NC_005887.1 + 7008 0.69 0.526995
Target:  5'- gCGUgaa-GCUCGuGGCCGGccGCCGCGg -3'
miRNA:   3'- -GCAaacgCGAGCuUCGGUUa-CGGCGC- -5'
28056 3' -53.6 NC_005887.1 + 435 0.69 0.560178
Target:  5'- uGUUgcUGCGCUCGAAcCCucUGgCGCGu -3'
miRNA:   3'- gCAA--ACGCGAGCUUcGGuuACgGCGC- -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.