miRNA display CGI


Results 1 - 20 of 63 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
27301 3' -50.6 NC_005856.1 + 50569 0.67 0.950906
Target:  5'- aCCGGCAaaggUCAGCAguggcugaUgAAGCGAUUGCu -3'
miRNA:   3'- -GGUCGUgu--GGUCGU--------AgUUCGUUAGCG- -5'
27301 3' -50.6 NC_005856.1 + 58486 0.69 0.913246
Target:  5'- gCCAGUGCACUugcccacgcuguAGCGauUUGAGCGGUgGCa -3'
miRNA:   3'- -GGUCGUGUGG------------UCGU--AGUUCGUUAgCG- -5'
27301 3' -50.6 NC_005856.1 + 89671 0.69 0.913246
Target:  5'- gCCAGuCAUGCCAGCGUgauauUGAGCGugacCGCu -3'
miRNA:   3'- -GGUC-GUGUGGUCGUA-----GUUCGUua--GCG- -5'
27301 3' -50.6 NC_005856.1 + 62675 0.68 0.917002
Target:  5'- gUCAGCACAcauuuuuaucccuCCAGCAcacaucguuuucccUCcAGCAcacAUCGCg -3'
miRNA:   3'- -GGUCGUGU-------------GGUCGU--------------AGuUCGU---UAGCG- -5'
27301 3' -50.6 NC_005856.1 + 15612 0.68 0.919452
Target:  5'- uCCAGCuuaauuGCACCacggaaAGCAaacCAGGCGcgCGCa -3'
miRNA:   3'- -GGUCG------UGUGG------UCGUa--GUUCGUuaGCG- -5'
27301 3' -50.6 NC_005856.1 + 66179 0.68 0.931036
Target:  5'- uUCAGCcuUACCAGCGUCAAauuuGCGgaugaAUUGCu -3'
miRNA:   3'- -GGUCGu-GUGGUCGUAGUU----CGU-----UAGCG- -5'
27301 3' -50.6 NC_005856.1 + 66567 0.68 0.931036
Target:  5'- -gGGUACGCCuu-GUCAGGCAuucaguAUCGCg -3'
miRNA:   3'- ggUCGUGUGGucgUAGUUCGU------UAGCG- -5'
27301 3' -50.6 NC_005856.1 + 74731 0.68 0.936414
Target:  5'- cCCAGCACauagaACCGGUAUCccGGGCuAUCu- -3'
miRNA:   3'- -GGUCGUG-----UGGUCGUAG--UUCGuUAGcg -5'
27301 3' -50.6 NC_005856.1 + 16053 0.67 0.946347
Target:  5'- uCCAGCGacCACCAGCAUauuuuuGCcAUaCGCc -3'
miRNA:   3'- -GGUCGU--GUGGUCGUAguu---CGuUA-GCG- -5'
27301 3' -50.6 NC_005856.1 + 64296 0.69 0.906766
Target:  5'- -aAGCGCAUuuaCAGCGuccUCAAGCGauuucguuguaGUCGCg -3'
miRNA:   3'- ggUCGUGUG---GUCGU---AGUUCGU-----------UAGCG- -5'
27301 3' -50.6 NC_005856.1 + 57154 0.69 0.906766
Target:  5'- aCGGUugACCAGCGcCgGAGUggUCGg -3'
miRNA:   3'- gGUCGugUGGUCGUaG-UUCGuuAGCg -5'
27301 3' -50.6 NC_005856.1 + 11378 0.69 0.900014
Target:  5'- cCUGGCuuguuuuCuCCGGCAUUcuGGCGAUCGCa -3'
miRNA:   3'- -GGUCGu------GuGGUCGUAGu-UCGUUAGCG- -5'
27301 3' -50.6 NC_005856.1 + 86663 0.73 0.728693
Target:  5'- aCGGCACuACCGGCAgUUAAGCcuccAGUUGCc -3'
miRNA:   3'- gGUCGUG-UGGUCGU-AGUUCG----UUAGCG- -5'
27301 3' -50.6 NC_005856.1 + 27908 0.71 0.827834
Target:  5'- aCCAGCAgAUCAGCcagguggCGAGCug-CGCc -3'
miRNA:   3'- -GGUCGUgUGGUCGua-----GUUCGuuaGCG- -5'
27301 3' -50.6 NC_005856.1 + 57013 0.71 0.836789
Target:  5'- cUCAGaguCACCGGCAUCAAuCGuGUCGCc -3'
miRNA:   3'- -GGUCgu-GUGGUCGUAGUUcGU-UAGCG- -5'
27301 3' -50.6 NC_005856.1 + 11943 0.7 0.844664
Target:  5'- aCCGGCACAaucgUAGUAUUGgccuacacgccauAGCGAUCGCc -3'
miRNA:   3'- -GGUCGUGUg---GUCGUAGU-------------UCGUUAGCG- -5'
27301 3' -50.6 NC_005856.1 + 14813 0.7 0.870371
Target:  5'- -uGGCA-ACCAGCucAUCGuAGCGAUCGUg -3'
miRNA:   3'- ggUCGUgUGGUCG--UAGU-UCGUUAGCG- -5'
27301 3' -50.6 NC_005856.1 + 27005 0.7 0.870371
Target:  5'- gCGGCGCACCAGUAccgGAGCcGUCa- -3'
miRNA:   3'- gGUCGUGUGGUCGUag-UUCGuUAGcg -5'
27301 3' -50.6 NC_005856.1 + 2121 0.69 0.885711
Target:  5'- -aGGCA-GCCAGagaaCGAGCGAUCGCu -3'
miRNA:   3'- ggUCGUgUGGUCgua-GUUCGUUAGCG- -5'
27301 3' -50.6 NC_005856.1 + 42748 0.69 0.899324
Target:  5'- -uGGCAU-CCAGCuuuUCAAGCAgcuuauuagauguAUCGCu -3'
miRNA:   3'- ggUCGUGuGGUCGu--AGUUCGU-------------UAGCG- -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.