miRNA display CGI


Results 1 - 20 of 47 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
18048 3' -53.9 NC_004680.1 + 22847 0.66 0.84841
Target:  5'- cCCGgggCGGACgCCGaCAaacuCGCCGAACCa -3'
miRNA:   3'- uGGCa--GUUUG-GGCaGU----GUGGCUUGGc -5'
18048 3' -53.9 NC_004680.1 + 46025 0.66 0.84841
Target:  5'- gGCCGc----CCCGUCAcCGCCGAauucaccaccACCGa -3'
miRNA:   3'- -UGGCaguuuGGGCAGU-GUGGCU----------UGGC- -5'
18048 3' -53.9 NC_004680.1 + 20752 0.66 0.84841
Target:  5'- cGCCGaUCGGGCCUGUUcCGCC--GCCa -3'
miRNA:   3'- -UGGC-AGUUUGGGCAGuGUGGcuUGGc -5'
18048 3' -53.9 NC_004680.1 + 31625 0.66 0.845851
Target:  5'- cGCCGUCGgcgaacaccucuccAACCUGUUucccguccgGCACUGGcacACCGg -3'
miRNA:   3'- -UGGCAGU--------------UUGGGCAG---------UGUGGCU---UGGC- -5'
18048 3' -53.9 NC_004680.1 + 17415 0.66 0.839805
Target:  5'- -aCGUCAccGACCCcgccugacguUCACACCGAaaauagaucgucGCCGg -3'
miRNA:   3'- ugGCAGU--UUGGGc---------AGUGUGGCU------------UGGC- -5'
18048 3' -53.9 NC_004680.1 + 41742 0.66 0.839805
Target:  5'- cACCGcCGAccccGCCCGcCGCaucuGCUGGACCu -3'
miRNA:   3'- -UGGCaGUU----UGGGCaGUG----UGGCUUGGc -5'
18048 3' -53.9 NC_004680.1 + 20590 0.66 0.838932
Target:  5'- gGCCGUCAAAcuucuauCCCG--GCACCGAuuauCUGu -3'
miRNA:   3'- -UGGCAGUUU-------GGGCagUGUGGCUu---GGC- -5'
18048 3' -53.9 NC_004680.1 + 45268 0.66 0.830984
Target:  5'- -aCGUUGGugUCGUCGCGgCGAgaGCCGc -3'
miRNA:   3'- ugGCAGUUugGGCAGUGUgGCU--UGGC- -5'
18048 3' -53.9 NC_004680.1 + 24144 0.66 0.830984
Target:  5'- cACCGUCuuGAAUcuucgCCGaCGuCACCGAACCa -3'
miRNA:   3'- -UGGCAG--UUUG-----GGCaGU-GUGGCUUGGc -5'
18048 3' -53.9 NC_004680.1 + 23864 0.66 0.830984
Target:  5'- cGCCGUCAcAUCgGUgACAUCG-GCCa -3'
miRNA:   3'- -UGGCAGUuUGGgCAgUGUGGCuUGGc -5'
18048 3' -53.9 NC_004680.1 + 18950 0.66 0.830984
Target:  5'- uCgGUgAucCCCGcCACGCCGuAGCCGa -3'
miRNA:   3'- uGgCAgUuuGGGCaGUGUGGC-UUGGC- -5'
18048 3' -53.9 NC_004680.1 + 42709 0.66 0.821958
Target:  5'- uGCaGUCGAACCgCGUUGCGCCGcaaguuccCCGg -3'
miRNA:   3'- -UGgCAGUUUGG-GCAGUGUGGCuu------GGC- -5'
18048 3' -53.9 NC_004680.1 + 15863 0.66 0.821958
Target:  5'- aGCCGUac-GCCuauuuCGUgGCGCCuGAGCCGg -3'
miRNA:   3'- -UGGCAguuUGG-----GCAgUGUGG-CUUGGC- -5'
18048 3' -53.9 NC_004680.1 + 10984 0.66 0.821958
Target:  5'- cGCCGUCGGGCUgGUC---CUGAAUCGg -3'
miRNA:   3'- -UGGCAGUUUGGgCAGuguGGCUUGGC- -5'
18048 3' -53.9 NC_004680.1 + 1716 0.66 0.819211
Target:  5'- aGCCGUCGcaucucuccaccgcGACCCGUCAaACCcAGCa- -3'
miRNA:   3'- -UGGCAGU--------------UUGGGCAGUgUGGcUUGgc -5'
18048 3' -53.9 NC_004680.1 + 57340 0.66 0.812735
Target:  5'- gGCCGgCGAACCUGaaacgCGuCACCGAACa- -3'
miRNA:   3'- -UGGCaGUUUGGGCa----GU-GUGGCUUGgc -5'
18048 3' -53.9 NC_004680.1 + 20101 0.66 0.800467
Target:  5'- gGuuGUCGGACCCGUCGgauacguacgaguuCACCacGCCu -3'
miRNA:   3'- -UggCAGUUUGGGCAGU--------------GUGGcuUGGc -5'
18048 3' -53.9 NC_004680.1 + 50165 0.67 0.793738
Target:  5'- --gGUCG---CgGUCGCACCGGGCCGg -3'
miRNA:   3'- uggCAGUuugGgCAGUGUGGCUUGGC- -5'
18048 3' -53.9 NC_004680.1 + 47154 0.67 0.793738
Target:  5'- gACCGUaCGAcucACCCcccaucgucGUCgACACgGAACCGg -3'
miRNA:   3'- -UGGCA-GUU---UGGG---------CAG-UGUGgCUUGGC- -5'
18048 3' -53.9 NC_004680.1 + 55969 0.67 0.783985
Target:  5'- cGCCGaucCAAcgcuGCCCaGcCGCACCGaAACCGg -3'
miRNA:   3'- -UGGCa--GUU----UGGG-CaGUGUGGC-UUGGC- -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.