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
26318 3' -54.9 NC_005345.2 + 1631 0.7 0.493266
Target:  5'- -aGCAUcCCGGGGgagGGU-GGC-AGGCa -3'
miRNA:   3'- cgUGUAaGGCCCCa--UCAuCCGcUCCG- -5'
26318 3' -54.9 NC_005345.2 + 5227 0.69 0.502645
Target:  5'- aCACGccgUCGGGGUgcccgcgguacacGGUGGGCGugacGGGCg -3'
miRNA:   3'- cGUGUaa-GGCCCCA-------------UCAUCCGC----UCCG- -5'
26318 3' -54.9 NC_005345.2 + 6528 0.74 0.288219
Target:  5'- gGCACGgggCGGGGcg--GGGCGGGGCg -3'
miRNA:   3'- -CGUGUaagGCCCCaucaUCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 7344 0.66 0.708944
Target:  5'- uGCGCAagggucucgacgUCCGGGGc-GUcGGUGAGuGCa -3'
miRNA:   3'- -CGUGUa-----------AGGCCCCauCAuCCGCUC-CG- -5'
26318 3' -54.9 NC_005345.2 + 7584 1.13 0.000556
Target:  5'- gGCACAUUCCGGGGUAGUAGGCGAGGCc -3'
miRNA:   3'- -CGUGUAAGGCCCCAUCAUCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 10134 0.67 0.634185
Target:  5'- cGCGCAgcagccaccagUUCGGGGUGGggaUGGGCGcAGacGCg -3'
miRNA:   3'- -CGUGUa----------AGGCCCCAUC---AUCCGC-UC--CG- -5'
26318 3' -54.9 NC_005345.2 + 10536 0.66 0.700263
Target:  5'- cGCGCAUgaccugUCCGGcGGUGGc---CGAGGUa -3'
miRNA:   3'- -CGUGUA------AGGCC-CCAUCauccGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 12456 0.75 0.240691
Target:  5'- cGCGCAgcUCgCGGGGc---AGGCGAGGCg -3'
miRNA:   3'- -CGUGUa-AG-GCCCCaucaUCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 12675 0.71 0.432985
Target:  5'- cGUACccgCCGGgucGGUuGUAGGCcGAGGCg -3'
miRNA:   3'- -CGUGuaaGGCC---CCAuCAUCCG-CUCCG- -5'
26318 3' -54.9 NC_005345.2 + 12683 0.66 0.732546
Target:  5'- gGCACcgacaCGGcgagaguggcGGUGGUGGGCGAuGCa -3'
miRNA:   3'- -CGUGuaag-GCC----------CCAUCAUCCGCUcCG- -5'
26318 3' -54.9 NC_005345.2 + 15330 0.67 0.678386
Target:  5'- gGUGCGUcggCCGGGGcgUAGcGGGUGugcGGCg -3'
miRNA:   3'- -CGUGUAa--GGCCCC--AUCaUCCGCu--CCG- -5'
26318 3' -54.9 NC_005345.2 + 16054 0.67 0.634185
Target:  5'- aGCGCGaUCCGGGuccgGGcGGuGCGuGGCa -3'
miRNA:   3'- -CGUGUaAGGCCCca--UCaUC-CGCuCCG- -5'
26318 3' -54.9 NC_005345.2 + 16205 0.72 0.377215
Target:  5'- cGC-CGUgcUCCGucaGGaGGUGGGCGAGGCc -3'
miRNA:   3'- -CGuGUA--AGGCc--CCaUCAUCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 17386 0.66 0.726153
Target:  5'- gGUGCcgUCCGcGGUgguccgcgGGUAGGCGAacgucacccucauagGGCa -3'
miRNA:   3'- -CGUGuaAGGCcCCA--------UCAUCCGCU---------------CCG- -5'
26318 3' -54.9 NC_005345.2 + 22289 0.67 0.634185
Target:  5'- -gGCgg-CCGGGGcgacGUGGGuCGAGGUg -3'
miRNA:   3'- cgUGuaaGGCCCCau--CAUCC-GCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 27958 0.67 0.656331
Target:  5'- aGCGCGUgaacccgaaCGGcGGUGcgccGUcgacGGGCGGGGCg -3'
miRNA:   3'- -CGUGUAag-------GCC-CCAU----CA----UCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 28672 0.69 0.503692
Target:  5'- aCACgg-UCGGGGccacAGGCGAGGCg -3'
miRNA:   3'- cGUGuaaGGCCCCaucaUCCGCUCCG- -5'
26318 3' -54.9 NC_005345.2 + 28853 0.68 0.589947
Target:  5'- cCGCAgucgUCCGGGGgcucuucGGCG-GGCa -3'
miRNA:   3'- cGUGUa---AGGCCCCaucau--CCGCuCCG- -5'
26318 3' -54.9 NC_005345.2 + 29857 0.67 0.667375
Target:  5'- cGCACuuccccUUCgCGuGGaGGUGGGCGAGGa -3'
miRNA:   3'- -CGUGu-----AAG-GCcCCaUCAUCCGCUCCg -5'
26318 3' -54.9 NC_005345.2 + 30872 0.68 0.568007
Target:  5'- cGCGCGggugcUCCGGGu--GcGGGCGAcGGCg -3'
miRNA:   3'- -CGUGUa----AGGCCCcauCaUCCGCU-CCG- -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.