miRNA display CGI


Results 1 - 20 of 70 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
28019 5' -62.7 NC_005887.1 + 2006 0.66 0.331296
Target:  5'- cCGCGcUCGaCGGCCaGUccauuUC-GGCGGCg -3'
miRNA:   3'- aGCGC-AGCaGCCGGaCG-----AGcCCGCCG- -5'
28019 5' -62.7 NC_005887.1 + 18884 0.68 0.224276
Target:  5'- -gGCGUCGcCGGCUgccggGCUucCGGuggaaGCGGCg -3'
miRNA:   3'- agCGCAGCaGCCGGa----CGA--GCC-----CGCCG- -5'
28019 5' -62.7 NC_005887.1 + 21015 0.69 0.187497
Target:  5'- gUCGUGuUCGUacCGGCCgaUGCggUCGGcGCGGUg -3'
miRNA:   3'- -AGCGC-AGCA--GCCGG--ACG--AGCC-CGCCG- -5'
28019 5' -62.7 NC_005887.1 + 28783 1.11 0.000104
Target:  5'- uUCGCGUCGUCGGCCUGCUCGGGCGGCa -3'
miRNA:   3'- -AGCGCAGCAGCCGGACGAGCCCGCCG- -5'
28019 5' -62.7 NC_005887.1 + 37056 0.66 0.307937
Target:  5'- -gGCGuagaacuUCGcCGcGCgCUGCUCGGGCGacuGCg -3'
miRNA:   3'- agCGC-------AGCaGC-CG-GACGAGCCCGC---CG- -5'
28019 5' -62.7 NC_005887.1 + 5348 0.66 0.294253
Target:  5'- uUCGCGUa--CGGCCUGCgcgugcUCGccGGCGaGCu -3'
miRNA:   3'- -AGCGCAgcaGCCGGACG------AGC--CCGC-CG- -5'
28019 5' -62.7 NC_005887.1 + 34462 0.66 0.287243
Target:  5'- --uCGUCGcCGGCCUGCUCGu-CGGa -3'
miRNA:   3'- agcGCAGCaGCCGGACGAGCccGCCg -5'
28019 5' -62.7 NC_005887.1 + 34961 0.67 0.27362
Target:  5'- gCGauCGUCGUCGGCgaGCUgaacGCGGCg -3'
miRNA:   3'- aGC--GCAGCAGCCGgaCGAgcc-CGCCG- -5'
28019 5' -62.7 NC_005887.1 + 29763 0.67 0.254162
Target:  5'- -aGCGUCG-CGGCCgGgUCGG-CGGa -3'
miRNA:   3'- agCGCAGCaGCCGGaCgAGCCcGCCg -5'
28019 5' -62.7 NC_005887.1 + 18155 0.68 0.230004
Target:  5'- aCGCa-CGUCGGCaacacgacGCUgUGGGCGGCu -3'
miRNA:   3'- aGCGcaGCAGCCGga------CGA-GCCCGCCG- -5'
28019 5' -62.7 NC_005887.1 + 27357 0.67 0.247934
Target:  5'- -gGCGgcaCGccugCGGCCUGCgCGGccugcGCGGCg -3'
miRNA:   3'- agCGCa--GCa---GCCGGACGaGCC-----CGCCG- -5'
28019 5' -62.7 NC_005887.1 + 30908 0.67 0.254162
Target:  5'- gCGCGUUGcgauccaugaucgCGGCCUGUUgCGcucagacgaugccuuGGCGGCg -3'
miRNA:   3'- aGCGCAGCa------------GCCGGACGA-GC---------------CCGCCG- -5'
28019 5' -62.7 NC_005887.1 + 24306 0.66 0.330523
Target:  5'- aUCGCccaaUCGUCGGCCgucaGUcCGGcgcgcguaagcgcGCGGCg -3'
miRNA:   3'- -AGCGc---AGCAGCCGGa---CGaGCC-------------CGCCG- -5'
28019 5' -62.7 NC_005887.1 + 39992 0.68 0.230004
Target:  5'- --uCGUCGUCGGCCUGCgagCGcuGGUcGCc -3'
miRNA:   3'- agcGCAGCAGCCGGACGa--GC--CCGcCG- -5'
28019 5' -62.7 NC_005887.1 + 37724 0.66 0.323621
Target:  5'- aUCGCGcCGgCGGCCaccgGCgcCGcGGCGaGCa -3'
miRNA:   3'- -AGCGCaGCaGCCGGa---CGa-GC-CCGC-CG- -5'
28019 5' -62.7 NC_005887.1 + 32657 0.67 0.254162
Target:  5'- aUCGCugaGUCaUCGGUCUGCU-GGuCGGCg -3'
miRNA:   3'- -AGCG---CAGcAGCCGGACGAgCCcGCCG- -5'
28019 5' -62.7 NC_005887.1 + 39303 0.68 0.230004
Target:  5'- uUCGCGUCGUCguucgucauuGGCCgaGCaUGGcuuugcccGCGGCg -3'
miRNA:   3'- -AGCGCAGCAG----------CCGGa-CGaGCC--------CGCCG- -5'
28019 5' -62.7 NC_005887.1 + 20845 0.69 0.197427
Target:  5'- -gGCGUCGUUGcGCCgauUGC-C-GGCGGCg -3'
miRNA:   3'- agCGCAGCAGC-CGG---ACGaGcCCGCCG- -5'
28019 5' -62.7 NC_005887.1 + 37761 0.66 0.323621
Target:  5'- gUUGCaucugCG-CGGCCUGCgccucGGCGGCu -3'
miRNA:   3'- -AGCGca---GCaGCCGGACGagc--CCGCCG- -5'
28019 5' -62.7 NC_005887.1 + 25125 0.66 0.294253
Target:  5'- aCGCGaUCGUgucccacaCGcCCUGCUUGcGCGGCg -3'
miRNA:   3'- aGCGC-AGCA--------GCcGGACGAGCcCGCCG- -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.