miRNA display CGI


Results 1 - 20 of 59 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
13115 3' -55.6 NC_003401.1 + 7438 0.68 0.821351
Target:  5'- uUCGCCAgCAGAuggGGCGagaaAGACGcGGCGu -3'
miRNA:   3'- -AGCGGUgGUCU---UCGCg---UUUGCcCUGC- -5'
13115 3' -55.6 NC_003401.1 + 11242 0.68 0.794714
Target:  5'- cUCGaaaCACUGGGccAGCGCGAcguugGCGGGGCc -3'
miRNA:   3'- -AGCg--GUGGUCU--UCGCGUU-----UGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 13824 0.69 0.775256
Target:  5'- cUCGCCggcaugcACCAGcuacagcaggaaGAGCGUAGGCGGuuaGACGa -3'
miRNA:   3'- -AGCGG-------UGGUC------------UUCGCGUUUGCC---CUGC- -5'
13115 3' -55.6 NC_003401.1 + 14235 0.71 0.677253
Target:  5'- cCGCCugccuccgaacGCCAGggGC--AGGCGGGAUGa -3'
miRNA:   3'- aGCGG-----------UGGUCuuCGcgUUUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 14661 0.67 0.846417
Target:  5'- uUCGCC-CCAGGAGCuuGAGCacgguuccgcuuGGGAUa -3'
miRNA:   3'- -AGCGGuGGUCUUCGcgUUUG------------CCCUGc -5'
13115 3' -55.6 NC_003401.1 + 17023 0.69 0.767688
Target:  5'- cUCGCCagcuuuugguacaccGCCAGGuggggcagguugguGGUcuuguaaucGCAGACGGGGCGg -3'
miRNA:   3'- -AGCGG---------------UGGUCU--------------UCG---------CGUUUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 17631 0.75 0.429331
Target:  5'- gUCGCCGCCGGAAuC-C-AACGGGGCGa -3'
miRNA:   3'- -AGCGGUGGUCUUcGcGuUUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 18183 0.69 0.757155
Target:  5'- -gGCCGCCGGuguGgGUggGCaGGACGg -3'
miRNA:   3'- agCGGUGGUCuu-CgCGuuUGcCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 23937 0.67 0.845609
Target:  5'- cCGCCaACC---GGCGCGgcccucggugauuGACGGGACa -3'
miRNA:   3'- aGCGG-UGGucuUCGCGU-------------UUGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 28161 0.69 0.737664
Target:  5'- gCGCgACgGGcGGUGCGuacGAUGGGACGg -3'
miRNA:   3'- aGCGgUGgUCuUCGCGU---UUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 28200 1.09 0.002956
Target:  5'- cUCGCCACCAGAAGCGCAAACGGGACGu -3'
miRNA:   3'- -AGCGGUGGUCUUCGCGUUUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 29973 0.66 0.891048
Target:  5'- gUGCCagACCGGggG-GCGAugGGuGCGa -3'
miRNA:   3'- aGCGG--UGGUCuuCgCGUUugCCcUGC- -5'
13115 3' -55.6 NC_003401.1 + 30183 0.69 0.785525
Target:  5'- gCGCCGCUAGAuaCGCAccCGGGAa- -3'
miRNA:   3'- aGCGGUGGUCUucGCGUuuGCCCUgc -5'
13115 3' -55.6 NC_003401.1 + 32100 0.68 0.803754
Target:  5'- cCGUCAgaugcgggaUCGGAAGCcUAGAUGGGACGa -3'
miRNA:   3'- aGCGGU---------GGUCUUCGcGUUUGCCCUGC- -5'
13115 3' -55.6 NC_003401.1 + 42279 0.66 0.903497
Target:  5'- cCGCCACCAGggGauCGCuguacagcuugguGAACGGcACc -3'
miRNA:   3'- aGCGGUGGUCuuC--GCG-------------UUUGCCcUGc -5'
13115 3' -55.6 NC_003401.1 + 42332 0.66 0.900303
Target:  5'- gCGCUggGCCGGcAGGCGCGucAcguaauuugcgaccaGCGGGugGa -3'
miRNA:   3'- aGCGG--UGGUC-UUCGCGU--U---------------UGCCCugC- -5'
13115 3' -55.6 NC_003401.1 + 49678 0.69 0.785525
Target:  5'- aCGCCACCuGAcuCGCAa--GGGACc -3'
miRNA:   3'- aGCGGUGGuCUucGCGUuugCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 56474 0.68 0.812636
Target:  5'- aCGCC-CgGGAGGUgGCAcucACGGGACa -3'
miRNA:   3'- aGCGGuGgUCUUCG-CGUu--UGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 57913 0.72 0.615472
Target:  5'- gUCGUgACCcgucuuGAGGCGCAuuUGGGACu -3'
miRNA:   3'- -AGCGgUGGu-----CUUCGCGUuuGCCCUGc -5'
13115 3' -55.6 NC_003401.1 + 58055 0.69 0.776196
Target:  5'- aCcCCACCAGGGaaGCAAAaCGGGACu -3'
miRNA:   3'- aGcGGUGGUCUUcgCGUUU-GCCCUGc -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.