miRNA display CGI


Results 1 - 20 of 32 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
33037 3' -49.7 NC_007497.1 + 12329 0.66 0.94121
Target:  5'- cGG-CAAUCCGcGCuGCGGCcuagcucuGCCCugAg -3'
miRNA:   3'- -CCaGUUAGGCuUGuUGCUG--------UGGGugU- -5'
33037 3' -49.7 NC_007497.1 + 20855 0.66 0.94121
Target:  5'- -aUCAucGUCCGAACcGCGAgCACgCGCu -3'
miRNA:   3'- ccAGU--UAGGCUUGuUGCU-GUGgGUGu -5'
33037 3' -49.7 NC_007497.1 + 12288 0.66 0.939633
Target:  5'- cGGaCGAuUCCGAaaaACccgaugccaccgagGACGGCACCCGCc -3'
miRNA:   3'- -CCaGUU-AGGCU---UG--------------UUGCUGUGGGUGu -5'
33037 3' -49.7 NC_007497.1 + 29799 0.66 0.930187
Target:  5'- uGGUCGGUCgGAGuCGGCGcgacauuuCGCCCcgGCAa -3'
miRNA:   3'- -CCAGUUAGgCUU-GUUGCu-------GUGGG--UGU- -5'
33037 3' -49.7 NC_007497.1 + 795 0.66 0.930187
Target:  5'- cGGcaUCGAUCaCGc-CGACGGCGCCCGu- -3'
miRNA:   3'- -CC--AGUUAG-GCuuGUUGCUGUGGGUgu -5'
33037 3' -49.7 NC_007497.1 + 34510 0.66 0.930187
Target:  5'- cGUCAGgaugCCGGGCAGCccgccGAcCACCgACAa -3'
miRNA:   3'- cCAGUUa---GGCUUGUUG-----CU-GUGGgUGU- -5'
33037 3' -49.7 NC_007497.1 + 15828 0.67 0.896627
Target:  5'- cGUCAcUCCGAGCAcccaccgAUGACGCCgGu- -3'
miRNA:   3'- cCAGUuAGGCUUGU-------UGCUGUGGgUgu -5'
33037 3' -49.7 NC_007497.1 + 38024 0.67 0.889905
Target:  5'- -uUC-GUCCGAACAcgGACACCgGCGg -3'
miRNA:   3'- ccAGuUAGGCUUGUugCUGUGGgUGU- -5'
33037 3' -49.7 NC_007497.1 + 10174 0.68 0.882164
Target:  5'- --gCGAUCCGAGCGGCagccuGCGCgCGCAg -3'
miRNA:   3'- ccaGUUAGGCUUGUUGc----UGUGgGUGU- -5'
33037 3' -49.7 NC_007497.1 + 35502 0.68 0.874143
Target:  5'- aGGUCGAUgUGAccgucgggcaaGCGAUGACucGCCUGCAg -3'
miRNA:   3'- -CCAGUUAgGCU-----------UGUUGCUG--UGGGUGU- -5'
33037 3' -49.7 NC_007497.1 + 4586 0.68 0.865848
Target:  5'- cGUCGAUccgCCGAGCAucuucACGAUGUCCGCAg -3'
miRNA:   3'- cCAGUUA---GGCUUGU-----UGCUGUGGGUGU- -5'
33037 3' -49.7 NC_007497.1 + 15851 0.68 0.865848
Target:  5'- -uUCAa--CGuGCGACGGCGCCCACc -3'
miRNA:   3'- ccAGUuagGCuUGUUGCUGUGGGUGu -5'
33037 3' -49.7 NC_007497.1 + 26070 0.68 0.857287
Target:  5'- aGUCGAUCggcuCGAGCAGauCGugGCCCAg- -3'
miRNA:   3'- cCAGUUAG----GCUUGUU--GCugUGGGUgu -5'
33037 3' -49.7 NC_007497.1 + 29842 0.68 0.848468
Target:  5'- cGUCAcccgccgcuGUCCGcACGAUGA-GCCCGCAg -3'
miRNA:   3'- cCAGU---------UAGGCuUGUUGCUgUGGGUGU- -5'
33037 3' -49.7 NC_007497.1 + 27137 0.69 0.839402
Target:  5'- uGUCGugUUGGACAA-GGCGCCCGCAg -3'
miRNA:   3'- cCAGUuaGGCUUGUUgCUGUGGGUGU- -5'
33037 3' -49.7 NC_007497.1 + 16158 0.69 0.838482
Target:  5'- --aCGA-CCGAACGGCGgauugagccagacGCGCCCGCGc -3'
miRNA:   3'- ccaGUUaGGCUUGUUGC-------------UGUGGGUGU- -5'
33037 3' -49.7 NC_007497.1 + 25144 0.69 0.830097
Target:  5'- uGGUCGuauagcCCGAacgACAGCGgcucuaacgcauACACCCGCGu -3'
miRNA:   3'- -CCAGUua----GGCU---UGUUGC------------UGUGGGUGU- -5'
33037 3' -49.7 NC_007497.1 + 36698 0.69 0.830097
Target:  5'- cGUCGcgaAUUCGGcgACAGCGAUGCCCAa- -3'
miRNA:   3'- cCAGU---UAGGCU--UGUUGCUGUGGGUgu -5'
33037 3' -49.7 NC_007497.1 + 36818 0.69 0.820565
Target:  5'- cGGUCc--UCGAGCAGCGGCucGCgCACAg -3'
miRNA:   3'- -CCAGuuaGGCUUGUUGCUG--UGgGUGU- -5'
33037 3' -49.7 NC_007497.1 + 15185 0.69 0.810816
Target:  5'- uGUUGAgcUUCGggUAGCGGCGCgCCACGc -3'
miRNA:   3'- cCAGUU--AGGCuuGUUGCUGUG-GGUGU- -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.