miRNA display CGI


Results 1 - 20 of 39 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
20390 3' -52.5 NC_004687.1 + 151478 0.66 0.981519
Target:  5'- cGCCAGucGcGACGgCCUGCAcaugguuaccgcaccGUGuGGCg -3'
miRNA:   3'- -UGGUCuuC-CUGCaGGACGU---------------UACuCUG- -5'
20390 3' -52.5 NC_004687.1 + 88890 0.66 0.980658
Target:  5'- cGCCGucGAAGGugGUCCcGUAAcacUGcGGGCa -3'
miRNA:   3'- -UGGU--CUUCCugCAGGaCGUU---AC-UCUG- -5'
20390 3' -52.5 NC_004687.1 + 50989 0.66 0.978374
Target:  5'- gACCGGc-GGugGUCUgGCGG-GAGGCa -3'
miRNA:   3'- -UGGUCuuCCugCAGGaCGUUaCUCUG- -5'
20390 3' -52.5 NC_004687.1 + 106157 0.66 0.978135
Target:  5'- -gCGGAGGGGCaUCCUGUcuuugcugaguucGAUGAGGu -3'
miRNA:   3'- ugGUCUUCCUGcAGGACG-------------UUACUCUg -5'
20390 3' -52.5 NC_004687.1 + 19638 0.66 0.975897
Target:  5'- gGCCGGAAGGuCGUCaagGUGAcgGAGgACa -3'
miRNA:   3'- -UGGUCUUCCuGCAGga-CGUUa-CUC-UG- -5'
20390 3' -52.5 NC_004687.1 + 130137 0.66 0.973218
Target:  5'- cCCAGgcGGGCGcggCCUgaGCGAcgGGGGCa -3'
miRNA:   3'- uGGUCuuCCUGCa--GGA--CGUUa-CUCUG- -5'
20390 3' -52.5 NC_004687.1 + 6249 0.66 0.973218
Target:  5'- uCUGGAcGGAgGUCCgugGUAAUGAGGa -3'
miRNA:   3'- uGGUCUuCCUgCAGGa--CGUUACUCUg -5'
20390 3' -52.5 NC_004687.1 + 75341 0.66 0.973218
Target:  5'- cACCA--AGGcCGUCCaggGCGAcUGGGACg -3'
miRNA:   3'- -UGGUcuUCCuGCAGGa--CGUU-ACUCUG- -5'
20390 3' -52.5 NC_004687.1 + 7345 0.66 0.97033
Target:  5'- cACCGGGccGAUGUCCUGCu-UGucGACc -3'
miRNA:   3'- -UGGUCUucCUGCAGGACGuuACu-CUG- -5'
20390 3' -52.5 NC_004687.1 + 5975 0.66 0.97033
Target:  5'- uGCgGGuGAGGuccuuCGU-CUGCAGUGAGGCu -3'
miRNA:   3'- -UGgUC-UUCCu----GCAgGACGUUACUCUG- -5'
20390 3' -52.5 NC_004687.1 + 131078 0.66 0.97033
Target:  5'- gUCGGGgucGGuGAUGUCCUGCAcgGcGGCg -3'
miRNA:   3'- uGGUCU---UC-CUGCAGGACGUuaCuCUG- -5'
20390 3' -52.5 NC_004687.1 + 43192 0.66 0.97033
Target:  5'- gGCCGGucuGGGCGgggcgCUUGCcg-GAGGCg -3'
miRNA:   3'- -UGGUCuu-CCUGCa----GGACGuuaCUCUG- -5'
20390 3' -52.5 NC_004687.1 + 57881 0.67 0.967226
Target:  5'- uCCGGGAGGAUGccgCCcGCuaccgccaggAAUGGGACg -3'
miRNA:   3'- uGGUCUUCCUGCa--GGaCG----------UUACUCUG- -5'
20390 3' -52.5 NC_004687.1 + 125647 0.67 0.963899
Target:  5'- gGCCAGAAagcGGuCGagcgCCUGCuuguUGAGGCc -3'
miRNA:   3'- -UGGUCUU---CCuGCa---GGACGuu--ACUCUG- -5'
20390 3' -52.5 NC_004687.1 + 120570 0.67 0.963899
Target:  5'- aGCgAGAGGGACGcaUCCUGUGA-GGGuCu -3'
miRNA:   3'- -UGgUCUUCCUGC--AGGACGUUaCUCuG- -5'
20390 3' -52.5 NC_004687.1 + 67471 0.67 0.956551
Target:  5'- gACCGGGuAGGGC-UCCU-CAGUGAGGu -3'
miRNA:   3'- -UGGUCU-UCCUGcAGGAcGUUACUCUg -5'
20390 3' -52.5 NC_004687.1 + 95820 0.67 0.956551
Target:  5'- uCCGGGAGGGCG-CUcGUuuUGAGGCc -3'
miRNA:   3'- uGGUCUUCCUGCaGGaCGuuACUCUG- -5'
20390 3' -52.5 NC_004687.1 + 75865 0.67 0.95252
Target:  5'- gACCAGAccuacggcggucGGGugGUCCaGCugcUGGGAg -3'
miRNA:   3'- -UGGUCU------------UCCugCAGGaCGuu-ACUCUg -5'
20390 3' -52.5 NC_004687.1 + 143708 0.68 0.943724
Target:  5'- gGCCAGAcggcaaucAGGACG-CCUGgGcgGcGACg -3'
miRNA:   3'- -UGGUCU--------UCCUGCaGGACgUuaCuCUG- -5'
20390 3' -52.5 NC_004687.1 + 56095 0.68 0.943724
Target:  5'- -gCAGGAGGACGaCCUGCGGaccuUGAaGCc -3'
miRNA:   3'- ugGUCUUCCUGCaGGACGUU----ACUcUG- -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.