miRNA display CGI


Results 1 - 20 of 27 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
30404 5' -58.8 NC_006548.1 + 23412 0.66 0.379718
Target:  5'- uAACGCUUgGCCAGUGgcagaCUGUAgccCCGGCg -3'
miRNA:   3'- -UUGCGAA-UGGUCGCg----GGCAU---GGCCGa -5'
30404 5' -58.8 NC_006548.1 + 1539 0.66 0.398015
Target:  5'- gAGCGCUaccacuccacUGCCGGCGaCCGccUCGGCg -3'
miRNA:   3'- -UUGCGA----------AUGGUCGCgGGCauGGCCGa -5'
30404 5' -58.8 NC_006548.1 + 21981 0.66 0.407373
Target:  5'- uAGCGUcauCCuGCGCCCGaacAUCGGCg -3'
miRNA:   3'- -UUGCGaauGGuCGCGGGCa--UGGCCGa -5'
30404 5' -58.8 NC_006548.1 + 35867 0.66 0.398015
Target:  5'- uGCGaagaaUGCCGGCGCgauCCGcgcgGCCGGCg -3'
miRNA:   3'- uUGCga---AUGGUCGCG---GGCa---UGGCCGa -5'
30404 5' -58.8 NC_006548.1 + 28559 0.66 0.388796
Target:  5'- cGGCGC-UACCcGCGacuaCCGUcACCGGUa -3'
miRNA:   3'- -UUGCGaAUGGuCGCg---GGCA-UGGCCGa -5'
30404 5' -58.8 NC_006548.1 + 12810 0.66 0.388796
Target:  5'- -uUGCUcGCCAGUGCCgCGcgAgCGGCg -3'
miRNA:   3'- uuGCGAaUGGUCGCGG-GCa-UgGCCGa -5'
30404 5' -58.8 NC_006548.1 + 2368 0.66 0.379718
Target:  5'- -cCGCcagGCCGGCGguuuuccaUCCGaGCCGGCUg -3'
miRNA:   3'- uuGCGaa-UGGUCGC--------GGGCaUGGCCGA- -5'
30404 5' -58.8 NC_006548.1 + 844 0.67 0.336501
Target:  5'- --gGCUUGCCGGCgGCUCGcuUGCUgGGCUg -3'
miRNA:   3'- uugCGAAUGGUCG-CGGGC--AUGG-CCGA- -5'
30404 5' -58.8 NC_006548.1 + 37712 0.67 0.344851
Target:  5'- cACGCUcaucaCAGUGCCgGcgACCGGCg -3'
miRNA:   3'- uUGCGAaug--GUCGCGGgCa-UGGCCGa -5'
30404 5' -58.8 NC_006548.1 + 1135 0.67 0.361992
Target:  5'- uGCGCg-GCCAGCaacGCCUGUG-CGGCg -3'
miRNA:   3'- uUGCGaaUGGUCG---CGGGCAUgGCCGa -5'
30404 5' -58.8 NC_006548.1 + 2312 0.67 0.361992
Target:  5'- uGCGCgg--CGGCGCCgGagcugACCGGCUa -3'
miRNA:   3'- uUGCGaaugGUCGCGGgCa----UGGCCGA- -5'
30404 5' -58.8 NC_006548.1 + 13630 0.67 0.320247
Target:  5'- cAGCaGCUUGCCGcCGCCCGcGCaGGCa -3'
miRNA:   3'- -UUG-CGAAUGGUcGCGGGCaUGgCCGa -5'
30404 5' -58.8 NC_006548.1 + 4304 0.67 0.3283
Target:  5'- cAACGCc-ACCcGCGCCCugcgcaagGCCGGCa -3'
miRNA:   3'- -UUGCGaaUGGuCGCGGGca------UGGCCGa -5'
30404 5' -58.8 NC_006548.1 + 11743 0.67 0.344851
Target:  5'- cGGCGCgcGgCGGCGCCgggGUugCGGCg -3'
miRNA:   3'- -UUGCGaaUgGUCGCGGg--CAugGCCGa -5'
30404 5' -58.8 NC_006548.1 + 23884 0.68 0.304589
Target:  5'- cACGUUUGCCAucugccgggucGCGCcaCCGgcaugGCCGGCg -3'
miRNA:   3'- uUGCGAAUGGU-----------CGCG--GGCa----UGGCCGa -5'
30404 5' -58.8 NC_006548.1 + 5569 0.69 0.268036
Target:  5'- cGCGCagGCCAG-GCCgG-GCCGGCUu -3'
miRNA:   3'- uUGCGaaUGGUCgCGGgCaUGGCCGA- -5'
30404 5' -58.8 NC_006548.1 + 4514 0.69 0.261164
Target:  5'- aGGCGCUcgAUCAGCGCCUGgaUGCCGcuuGCg -3'
miRNA:   3'- -UUGCGAa-UGGUCGCGGGC--AUGGC---CGa -5'
30404 5' -58.8 NC_006548.1 + 32150 0.69 0.254437
Target:  5'- --gGCUcgGCCAGCGCCuCGaccuugGCUGGCa -3'
miRNA:   3'- uugCGAa-UGGUCGCGG-GCa-----UGGCCGa -5'
30404 5' -58.8 NC_006548.1 + 15210 0.69 0.235107
Target:  5'- cGCGCUUGCCGGCcuGCgCGU-CCGGg- -3'
miRNA:   3'- uUGCGAAUGGUCG--CGgGCAuGGCCga -5'
30404 5' -58.8 NC_006548.1 + 27169 0.69 0.238872
Target:  5'- -cCGCUUGCacagcagcauugaGGCGCUgCGUACUGGCUg -3'
miRNA:   3'- uuGCGAAUGg------------UCGCGG-GCAUGGCCGA- -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.