miRNA display CGI


Results 1 - 20 of 25 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
27215 3' -55.9 NC_005832.1 + 18991 0.66 0.851207
Target:  5'- gACUCUuuucAGGAUCcucuGGCGGUugGGGACgAa -3'
miRNA:   3'- -UGAGGu---UCCUAGu---CCGCCA--CUCUGgU- -5'
27215 3' -55.9 NC_005832.1 + 51054 0.66 0.851207
Target:  5'- --gUCAuGGGUCccguaAGGCaGGUGGGACCGa -3'
miRNA:   3'- ugaGGUuCCUAG-----UCCG-CCACUCUGGU- -5'
27215 3' -55.9 NC_005832.1 + 39268 0.66 0.842972
Target:  5'- -gUCCAGGGGaUGGGCGGgaucuggcgGAGGCUc -3'
miRNA:   3'- ugAGGUUCCUaGUCCGCCa--------CUCUGGu -5'
27215 3' -55.9 NC_005832.1 + 10315 0.66 0.834534
Target:  5'- --gCCAGGGGagAGGCGGUGGcagucACCGu -3'
miRNA:   3'- ugaGGUUCCUagUCCGCCACUc----UGGU- -5'
27215 3' -55.9 NC_005832.1 + 46443 0.66 0.817078
Target:  5'- aACUCCcgcggagcuguGGGAcaAGGCGGUGGccguGGCCAa -3'
miRNA:   3'- -UGAGGu----------UCCUagUCCGCCACU----CUGGU- -5'
27215 3' -55.9 NC_005832.1 + 69192 0.66 0.808078
Target:  5'- cCUUCAAGGA-CAGaGCcGUGAGGCUg -3'
miRNA:   3'- uGAGGUUCCUaGUC-CGcCACUCUGGu -5'
27215 3' -55.9 NC_005832.1 + 1668 0.67 0.798908
Target:  5'- cACUCC-AGGcUCAGGCcaucggcaGUGAGGCUg -3'
miRNA:   3'- -UGAGGuUCCuAGUCCGc-------CACUCUGGu -5'
27215 3' -55.9 NC_005832.1 + 55097 0.67 0.789578
Target:  5'- -gUUCGAGGcgCAGGCcGUGAGgaACCGg -3'
miRNA:   3'- ugAGGUUCCuaGUCCGcCACUC--UGGU- -5'
27215 3' -55.9 NC_005832.1 + 7499 0.67 0.789578
Target:  5'- cACUcCCGGGGAUgAGGUGa-GGGACCu -3'
miRNA:   3'- -UGA-GGUUCCUAgUCCGCcaCUCUGGu -5'
27215 3' -55.9 NC_005832.1 + 39695 0.67 0.770476
Target:  5'- -gUCCAAGGuggGUCcuGUGG-GAGACCAg -3'
miRNA:   3'- ugAGGUUCC---UAGucCGCCaCUCUGGU- -5'
27215 3' -55.9 NC_005832.1 + 7825 0.67 0.763663
Target:  5'- gGCUCCucaggggcagggacgGAGGGUgGguGGCGGUGAcaaagggGACCAa -3'
miRNA:   3'- -UGAGG---------------UUCCUAgU--CCGCCACU-------CUGGU- -5'
27215 3' -55.9 NC_005832.1 + 49511 0.67 0.75085
Target:  5'- -gUCCGAGGAggUCAGGCGGgacauGGCg- -3'
miRNA:   3'- ugAGGUUCCU--AGUCCGCCacu--CUGgu -5'
27215 3' -55.9 NC_005832.1 + 99815 0.68 0.720603
Target:  5'- -gUCCAcagAGGAucUCAGGUcgggGGUGAGAuCCAu -3'
miRNA:   3'- ugAGGU---UCCU--AGUCCG----CCACUCU-GGU- -5'
27215 3' -55.9 NC_005832.1 + 79126 0.68 0.710346
Target:  5'- gACggaCGAGGA-CA-GCGGUGAGGCCu -3'
miRNA:   3'- -UGag-GUUCCUaGUcCGCCACUCUGGu -5'
27215 3' -55.9 NC_005832.1 + 92144 0.68 0.703124
Target:  5'- gGCUCCAAGGugggagaguuuuggaGGGCGGUGgcAGACa- -3'
miRNA:   3'- -UGAGGUUCCuag------------UCCGCCAC--UCUGgu -5'
27215 3' -55.9 NC_005832.1 + 24260 0.69 0.679191
Target:  5'- aGCUCCAA-GAUCAuGGCaGGcGGGACCc -3'
miRNA:   3'- -UGAGGUUcCUAGU-CCG-CCaCUCUGGu -5'
27215 3' -55.9 NC_005832.1 + 50913 0.69 0.668711
Target:  5'- -gUCCA---GUCAGGCGcGUGGGACCc -3'
miRNA:   3'- ugAGGUuccUAGUCCGC-CACUCUGGu -5'
27215 3' -55.9 NC_005832.1 + 93831 0.69 0.667661
Target:  5'- -aUCCGguuugggGGGAUUGGGCccgGGUGGGGCCu -3'
miRNA:   3'- ugAGGU-------UCCUAGUCCG---CCACUCUGGu -5'
27215 3' -55.9 NC_005832.1 + 100831 0.69 0.657147
Target:  5'- -aUCCAGGGAaagauugccgaguUCAGGCG-UGAGAUUAa -3'
miRNA:   3'- ugAGGUUCCU-------------AGUCCGCcACUCUGGU- -5'
27215 3' -55.9 NC_005832.1 + 42510 0.7 0.605487
Target:  5'- uGCUCCAugAGGAgggccgccaugcUCuGGUGGUG-GACCGu -3'
miRNA:   3'- -UGAGGU--UCCU------------AGuCCGCCACuCUGGU- -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.