miRNA display CGI


Results 1 - 20 of 41 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
13465 3' -51.6 NC_003409.1 + 132886 1.09 0.006315
Target:  5'- cCACCGCAAACACCAGGGAGCAAUACAc -3'
miRNA:   3'- -GUGGCGUUUGUGGUCCCUCGUUAUGU- -5'
13465 3' -51.6 NC_003409.1 + 121682 0.67 0.961534
Target:  5'- gCGCCGgGAACACgCAGGuGGCA--GCGg -3'
miRNA:   3'- -GUGGCgUUUGUG-GUCCcUCGUuaUGU- -5'
13465 3' -51.6 NC_003409.1 + 31958 0.68 0.940144
Target:  5'- uGCCGCGucGGCGCCccAGGGcgcauAGUGAUACGu -3'
miRNA:   3'- gUGGCGU--UUGUGG--UCCC-----UCGUUAUGU- -5'
13465 3' -51.6 NC_003409.1 + 82762 0.68 0.935096
Target:  5'- uCACCGCucucauAAgAgCAGGGGGCAAagACGa -3'
miRNA:   3'- -GUGGCGu-----UUgUgGUCCCUCGUUa-UGU- -5'
13465 3' -51.6 NC_003409.1 + 107269 0.69 0.924215
Target:  5'- cCACCGCGAAgGCUAGaGAGUu-UGCAg -3'
miRNA:   3'- -GUGGCGUUUgUGGUCcCUCGuuAUGU- -5'
13465 3' -51.6 NC_003409.1 + 68713 0.72 0.801639
Target:  5'- gGCCGUAAGCACCAGGu-GUuucuGUGCGu -3'
miRNA:   3'- gUGGCGUUUGUGGUCCcuCGu---UAUGU- -5'
13465 3' -51.6 NC_003409.1 + 67799 0.66 0.979374
Target:  5'- gAUCGCGgugggugcGGCGCgCAGGGGGCGccACGa -3'
miRNA:   3'- gUGGCGU--------UUGUG-GUCCCUCGUuaUGU- -5'
13465 3' -51.6 NC_003409.1 + 135222 0.66 0.979374
Target:  5'- -uUUGCuuuAugACCAGGGAGCugcuacccaGGUACAa -3'
miRNA:   3'- guGGCGu--UugUGGUCCCUCG---------UUAUGU- -5'
13465 3' -51.6 NC_003409.1 + 120233 0.66 0.973466
Target:  5'- gGCCGUGAGCGCCAGcaacaugggaucauGGuAGUaaGAUACAg -3'
miRNA:   3'- gUGGCGUUUGUGGUC--------------CC-UCG--UUAUGU- -5'
13465 3' -51.6 NC_003409.1 + 109833 0.68 0.949459
Target:  5'- cCGCCGCccaAGACGCCGcggcGGGAGgCGGUGg- -3'
miRNA:   3'- -GUGGCG---UUUGUGGU----CCCUC-GUUAUgu -5'
13465 3' -51.6 NC_003409.1 + 87517 0.68 0.933004
Target:  5'- cCACgCGCGAGCACauuggccgcuuugGGGGAGCAAUc-- -3'
miRNA:   3'- -GUG-GCGUUUGUGg------------UCCCUCGUUAugu -5'
13465 3' -51.6 NC_003409.1 + 56116 0.78 0.451178
Target:  5'- cCACCGCGuaucuuaaAGCGCCccgugaauGGGGGCAGUGCAc -3'
miRNA:   3'- -GUGGCGU--------UUGUGGu-------CCCUCGUUAUGU- -5'
13465 3' -51.6 NC_003409.1 + 88192 0.66 0.974299
Target:  5'- aGCCcCGAugGCGCCuuagGGGGAGCAGgugcUGCAg -3'
miRNA:   3'- gUGGcGUU--UGUGG----UCCCUCGUU----AUGU- -5'
13465 3' -51.6 NC_003409.1 + 18265 0.75 0.648084
Target:  5'- uCGCCaaaaaGUGAGCACCAGGGGGCGggguuucuaacGUGCGa -3'
miRNA:   3'- -GUGG-----CGUUUGUGGUCCCUCGU-----------UAUGU- -5'
13465 3' -51.6 NC_003409.1 + 94749 0.68 0.940144
Target:  5'- gGCCGUcGAUAUCAGGGuggccAGCAGUAa- -3'
miRNA:   3'- gUGGCGuUUGUGGUCCC-----UCGUUAUgu -5'
13465 3' -51.6 NC_003409.1 + 85147 0.66 0.976684
Target:  5'- gCGCCGCAAuguccagugguaaGCacagcuauGCCGGGGAGCcaccggccaucaGAUAUAg -3'
miRNA:   3'- -GUGGCGUU-------------UG--------UGGUCCCUCG------------UUAUGU- -5'
13465 3' -51.6 NC_003409.1 + 16001 0.66 0.981612
Target:  5'- gCACCGCAAGCAgCAaacGGAGaccUACAc -3'
miRNA:   3'- -GUGGCGUUUGUgGUc--CCUCguuAUGU- -5'
13465 3' -51.6 NC_003409.1 + 116042 0.72 0.772843
Target:  5'- -uCCGCcuGC-CCAGGGAGCAggaGUAUAa -3'
miRNA:   3'- guGGCGuuUGuGGUCCCUCGU---UAUGU- -5'
13465 3' -51.6 NC_003409.1 + 78726 0.67 0.971446
Target:  5'- gGuuGaCGAAgGCCGGGGAGgGAUugAc -3'
miRNA:   3'- gUggC-GUUUgUGGUCCCUCgUUAugU- -5'
13465 3' -51.6 NC_003409.1 + 128048 0.7 0.892441
Target:  5'- aACCGgGAGCACaguGGGGGGUAAauucUGCAa -3'
miRNA:   3'- gUGGCgUUUGUGg--UCCCUCGUU----AUGU- -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.