miRNA display CGI


Results 1 - 20 of 53 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
25988 5' -52.9 NC_005340.1 + 14 0.67 0.556712
Target:  5'- -aAGCAuuGCGCgccAGCGGUGguGCGUa -3'
miRNA:   3'- ggUCGUuuUGCG---UCGCCGUguCGUAg -5'
25988 5' -52.9 NC_005340.1 + 629 0.73 0.274122
Target:  5'- uCUGGUAAuacuUGCGGCGGaACAGCGUCg -3'
miRNA:   3'- -GGUCGUUuu--GCGUCGCCgUGUCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 867 0.69 0.445647
Target:  5'- gCCGGU--GACGCuGUGGCGCuGC-UCa -3'
miRNA:   3'- -GGUCGuuUUGCGuCGCCGUGuCGuAG- -5'
25988 5' -52.9 NC_005340.1 + 872 0.71 0.375695
Target:  5'- aCCGGCAAAAUaCAccCGGCGCGGgGUCg -3'
miRNA:   3'- -GGUCGUUUUGcGUc-GCCGUGUCgUAG- -5'
25988 5' -52.9 NC_005340.1 + 937 0.7 0.404762
Target:  5'- uUCGGUAAcGCcuuucuugaGCAGCGcCACAGCGUCa -3'
miRNA:   3'- -GGUCGUUuUG---------CGUCGCcGUGUCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 1572 0.75 0.201467
Target:  5'- gCGGCAAAAguCGCAGCGGCuAUAGCc-- -3'
miRNA:   3'- gGUCGUUUU--GCGUCGCCG-UGUCGuag -5'
25988 5' -52.9 NC_005340.1 + 2143 0.75 0.213304
Target:  5'- aCCAGCAGcgGGCGCAGCgcuaccuaugaGGC-CAGCcgCa -3'
miRNA:   3'- -GGUCGUU--UUGCGUCG-----------CCGuGUCGuaG- -5'
25988 5' -52.9 NC_005340.1 + 2313 0.67 0.591747
Target:  5'- uCCAGUugguGCGUucauucuacccGGCGGCucGCGGUAUCc -3'
miRNA:   3'- -GGUCGuuu-UGCG-----------UCGCCG--UGUCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 3625 0.69 0.445647
Target:  5'- aCAGC---GCGaCGGCuGGgACGGCAUCg -3'
miRNA:   3'- gGUCGuuuUGC-GUCG-CCgUGUCGUAG- -5'
25988 5' -52.9 NC_005340.1 + 5587 0.66 0.638954
Target:  5'- aCAGCGAGuCGCucGCGGCAgAuauCAUCa -3'
miRNA:   3'- gGUCGUUUuGCGu-CGCCGUgUc--GUAG- -5'
25988 5' -52.9 NC_005340.1 + 6030 0.67 0.556712
Target:  5'- aCCAGCAucugcucauAgGCGGUugcauGGCGCAGCGg- -3'
miRNA:   3'- -GGUCGUuu-------UgCGUCG-----CCGUGUCGUag -5'
25988 5' -52.9 NC_005340.1 + 6136 0.68 0.54516
Target:  5'- aCCGGCGAcccacGGCGCAuagaaCGGCAgCAGC-UCg -3'
miRNA:   3'- -GGUCGUU-----UUGCGUc----GCCGU-GUCGuAG- -5'
25988 5' -52.9 NC_005340.1 + 6340 0.71 0.34807
Target:  5'- aCCGGCAucGCGCAGaCGcaGUGCGGCAa- -3'
miRNA:   3'- -GGUCGUuuUGCGUC-GC--CGUGUCGUag -5'
25988 5' -52.9 NC_005340.1 + 6460 0.66 0.650768
Target:  5'- aCCGGCAucACGCAG-GGUcaGGCcgGUCa -3'
miRNA:   3'- -GGUCGUuuUGCGUCgCCGugUCG--UAG- -5'
25988 5' -52.9 NC_005340.1 + 6635 0.66 0.650768
Target:  5'- gCCGGUuaacuGAACGCuccccgagccgGGCGGCAC-GCcgGUCa -3'
miRNA:   3'- -GGUCGu----UUUGCG-----------UCGCCGUGuCG--UAG- -5'
25988 5' -52.9 NC_005340.1 + 6963 0.67 0.556712
Target:  5'- gCCGGUucuGAugGCA-UGGCGCAggcgcGCAUCg -3'
miRNA:   3'- -GGUCGu--UUugCGUcGCCGUGU-----CGUAG- -5'
25988 5' -52.9 NC_005340.1 + 7020 0.66 0.627133
Target:  5'- cCCGGCG----GCAGUcuGGCGCAGCcgguaGUCg -3'
miRNA:   3'- -GGUCGUuuugCGUCG--CCGUGUCG-----UAG- -5'
25988 5' -52.9 NC_005340.1 + 8614 0.74 0.225733
Target:  5'- aCCGGCGcuGGCGCAgGCGGCGCGGg--- -3'
miRNA:   3'- -GGUCGUu-UUGCGU-CGCCGUGUCguag -5'
25988 5' -52.9 NC_005340.1 + 8742 0.68 0.511007
Target:  5'- aCCuGCAGcGCGCAgGCGGU-CAGCGc- -3'
miRNA:   3'- -GGuCGUUuUGCGU-CGCCGuGUCGUag -5'
25988 5' -52.9 NC_005340.1 + 8850 0.72 0.325327
Target:  5'- gCAGCAuaucgggguuguuucGGA-GCuGCGGCACGGCGUUa -3'
miRNA:   3'- gGUCGU---------------UUUgCGuCGCCGUGUCGUAG- -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.