miRNA display CGI


Results 1 - 20 of 23 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
26321 5' -51.3 NC_005345.2 + 35489 0.66 0.90981
Target:  5'- cGUCGAGGGCGgcgcgcugcuCGUCGGcgcucacGCCg -3'
miRNA:   3'- -CAGCUCCUGCauacu-----GCAGUCau-----CGG- -5'
26321 5' -51.3 NC_005345.2 + 29976 0.66 0.907118
Target:  5'- cGUCGAGGGgcuCGUcgG-CGUCcucGGCCg -3'
miRNA:   3'- -CAGCUCCU---GCAuaCuGCAGucaUCGG- -5'
26321 5' -51.3 NC_005345.2 + 4443 0.66 0.907118
Target:  5'- aUCGAGGuCGUGUGGaggcucCGgCGGgGGCCc -3'
miRNA:   3'- cAGCUCCuGCAUACU------GCaGUCaUCGG- -5'
26321 5' -51.3 NC_005345.2 + 4845 0.66 0.89297
Target:  5'- -aUGAucccGACGUGUGACGUCgAGUA-CCa -3'
miRNA:   3'- caGCUc---CUGCAUACUGCAG-UCAUcGG- -5'
26321 5' -51.3 NC_005345.2 + 14809 0.66 0.885474
Target:  5'- cGUCGAGcGGCGggcgcggGUGugGUCGac-GCCc -3'
miRNA:   3'- -CAGCUC-CUGCa------UACugCAGUcauCGG- -5'
26321 5' -51.3 NC_005345.2 + 3898 0.66 0.885474
Target:  5'- -gCGAGGGCGgggcgGACGUCGucGUacaGGUCg -3'
miRNA:   3'- caGCUCCUGCaua--CUGCAGU--CA---UCGG- -5'
26321 5' -51.3 NC_005345.2 + 16715 0.66 0.877705
Target:  5'- uGUCGAGGuagaGcGUGcCGUCGGccGCCg -3'
miRNA:   3'- -CAGCUCCug--CaUACuGCAGUCauCGG- -5'
26321 5' -51.3 NC_005345.2 + 34980 0.67 0.85282
Target:  5'- cGUCGAGGGCGUGcagguacucGGCGcCGGggcgcugcggcGGCCa -3'
miRNA:   3'- -CAGCUCCUGCAUa--------CUGCaGUCa----------UCGG- -5'
26321 5' -51.3 NC_005345.2 + 20131 0.67 0.85282
Target:  5'- uGUCGucGACGUc-GACGuUCGGgAGCCa -3'
miRNA:   3'- -CAGCucCUGCAuaCUGC-AGUCaUCGG- -5'
26321 5' -51.3 NC_005345.2 + 35249 0.67 0.834995
Target:  5'- cGUCGAuGGGCGgcaguucgGUGAUGgucCGG-AGCCg -3'
miRNA:   3'- -CAGCU-CCUGCa-------UACUGCa--GUCaUCGG- -5'
26321 5' -51.3 NC_005345.2 + 29940 0.68 0.825739
Target:  5'- --gGAGGAcCGgcUcGACGUCGG-GGCCg -3'
miRNA:   3'- cagCUCCU-GCauA-CUGCAGUCaUCGG- -5'
26321 5' -51.3 NC_005345.2 + 22702 0.68 0.825739
Target:  5'- -gCGGGGcgGCGUguggcAUGACGUCAucGUcgAGCCg -3'
miRNA:   3'- caGCUCC--UGCA-----UACUGCAGU--CA--UCGG- -5'
26321 5' -51.3 NC_005345.2 + 34681 0.68 0.804635
Target:  5'- aGUCGAGGGCGUcgGGgaugccgagcgaGUCGGcgAGCg -3'
miRNA:   3'- -CAGCUCCUGCAuaCUg-----------CAGUCa-UCGg -5'
26321 5' -51.3 NC_005345.2 + 2995 0.68 0.796725
Target:  5'- cGUCGGcgguacGGGCGgccGAgGcCAGUAGCCg -3'
miRNA:   3'- -CAGCU------CCUGCauaCUgCaGUCAUCGG- -5'
26321 5' -51.3 NC_005345.2 + 35076 0.68 0.786675
Target:  5'- gGUCGAGGACGUGcUGcagguucuCGgCGGUGGUg -3'
miRNA:   3'- -CAGCUCCUGCAU-ACu-------GCaGUCAUCGg -5'
26321 5' -51.3 NC_005345.2 + 33010 0.69 0.776455
Target:  5'- -gCGGGGGCGUc-GACGaUCGGgcucGGCCg -3'
miRNA:   3'- caGCUCCUGCAuaCUGC-AGUCa---UCGG- -5'
26321 5' -51.3 NC_005345.2 + 27985 0.69 0.776455
Target:  5'- cGUCGAcGGGCGg--GGCGUCGcGUAGg- -3'
miRNA:   3'- -CAGCU-CCUGCauaCUGCAGU-CAUCgg -5'
26321 5' -51.3 NC_005345.2 + 39328 0.71 0.656341
Target:  5'- cGUCGAGGAC-UAUGAgG-CAccccucggcGUGGCCg -3'
miRNA:   3'- -CAGCUCCUGcAUACUgCaGU---------CAUCGG- -5'
26321 5' -51.3 NC_005345.2 + 3301 0.71 0.645041
Target:  5'- cGUCGAGGGCGUcggcgaGUGcuuCGagGGUGGCg -3'
miRNA:   3'- -CAGCUCCUGCA------UACu--GCagUCAUCGg -5'
26321 5' -51.3 NC_005345.2 + 6603 0.71 0.622414
Target:  5'- cGUCGAcucgugucGGACGaugcucGUGAUGUCGGUgccgAGCCg -3'
miRNA:   3'- -CAGCU--------CCUGCa-----UACUGCAGUCA----UCGG- -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.