miRNA display CGI


Results 1 - 20 of 29 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
24081 3' -59.7 NC_005262.1 + 54364 1.1 0.000466
Target:  5'- cCCGGCGAAGGGCUGGCAGACGUCCGAc -3'
miRNA:   3'- -GGCCGCUUCCCGACCGUCUGCAGGCU- -5'
24081 3' -59.7 NC_005262.1 + 45785 0.77 0.107443
Target:  5'- gCGGCGAAGGGC-GGCGG-CGUgCUGAu -3'
miRNA:   3'- gGCCGCUUCCCGaCCGUCuGCA-GGCU- -5'
24081 3' -59.7 NC_005262.1 + 55934 0.74 0.177394
Target:  5'- uCCGGCGAucgAGGGC-GGCGGcCGUCaGAu -3'
miRNA:   3'- -GGCCGCU---UCCCGaCCGUCuGCAGgCU- -5'
24081 3' -59.7 NC_005262.1 + 60746 0.72 0.234426
Target:  5'- cUCGGCGAA-GGCUGGgAGACGcgCuCGAa -3'
miRNA:   3'- -GGCCGCUUcCCGACCgUCUGCa-G-GCU- -5'
24081 3' -59.7 NC_005262.1 + 49281 0.71 0.306092
Target:  5'- gCCGGa--AGuGCUGGC-GACGUCCGAg -3'
miRNA:   3'- -GGCCgcuUCcCGACCGuCUGCAGGCU- -5'
24081 3' -59.7 NC_005262.1 + 17212 0.7 0.341479
Target:  5'- gCGGCGAGgacGGcGCUGGCgucguggucgucguGGGCGUCgCGGg -3'
miRNA:   3'- gGCCGCUU---CC-CGACCG--------------UCUGCAG-GCU- -5'
24081 3' -59.7 NC_005262.1 + 38953 0.69 0.359844
Target:  5'- aCUGGCGcAGGGUgaucGGCAcGGCG-CCGGc -3'
miRNA:   3'- -GGCCGCuUCCCGa---CCGU-CUGCaGGCU- -5'
24081 3' -59.7 NC_005262.1 + 23813 0.69 0.368041
Target:  5'- aUGuGCGAGGGGUUGGUcaucucauGGGCG-CCGGc -3'
miRNA:   3'- gGC-CGCUUCCCGACCG--------UCUGCaGGCU- -5'
24081 3' -59.7 NC_005262.1 + 29418 0.69 0.393389
Target:  5'- uUCGGCGA---GUUGGCGGugGUCUGc -3'
miRNA:   3'- -GGCCGCUuccCGACCGUCugCAGGCu -5'
24081 3' -59.7 NC_005262.1 + 36476 0.68 0.428899
Target:  5'- gCGcGCGA--GGCUGGCGGACaUCgCGAa -3'
miRNA:   3'- gGC-CGCUucCCGACCGUCUGcAG-GCU- -5'
24081 3' -59.7 NC_005262.1 + 21014 0.68 0.438068
Target:  5'- gCCGGagaCGAuguAGGGCUGGC---CGUCCGu -3'
miRNA:   3'- -GGCC---GCU---UCCCGACCGucuGCAGGCu -5'
24081 3' -59.7 NC_005262.1 + 17265 0.68 0.438068
Target:  5'- gCCGGCGccgcgcuGGGCUgcugcgcgGGCAGggGCGUCgCGGu -3'
miRNA:   3'- -GGCCGCuu-----CCCGA--------CCGUC--UGCAG-GCU- -5'
24081 3' -59.7 NC_005262.1 + 30857 0.68 0.447348
Target:  5'- gCCGGUcggagcgaucguGAAGGcGCUGGCGaGCGUCgCGc -3'
miRNA:   3'- -GGCCG------------CUUCC-CGACCGUcUGCAG-GCu -5'
24081 3' -59.7 NC_005262.1 + 29644 0.67 0.466229
Target:  5'- gCCGGCGAcggccGGCgGGUAGACGUa-GAa -3'
miRNA:   3'- -GGCCGCUuc---CCGaCCGUCUGCAggCU- -5'
24081 3' -59.7 NC_005262.1 + 207 0.67 0.472935
Target:  5'- gCCGGCG-GGGGC-GGCGGAgccagacacgcuacCG-CCGGc -3'
miRNA:   3'- -GGCCGCuUCCCGaCCGUCU--------------GCaGGCU- -5'
24081 3' -59.7 NC_005262.1 + 54809 0.67 0.475824
Target:  5'- gCGGcCGAuuuaugcgcGGGGUUGGCuGGC-UCCGGa -3'
miRNA:   3'- gGCC-GCU---------UCCCGACCGuCUGcAGGCU- -5'
24081 3' -59.7 NC_005262.1 + 60601 0.67 0.4953
Target:  5'- cCCGGCGAuacAGGGCacGGCGaACG-CCa- -3'
miRNA:   3'- -GGCCGCU---UCCCGa-CCGUcUGCaGGcu -5'
24081 3' -59.7 NC_005262.1 + 15718 0.67 0.4953
Target:  5'- gUCGGCGccGGGCggcucgucgcGGCAGguGCGaCCGAc -3'
miRNA:   3'- -GGCCGCuuCCCGa---------CCGUC--UGCaGGCU- -5'
24081 3' -59.7 NC_005262.1 + 34789 0.67 0.505173
Target:  5'- aUCGGUGAAGGugUGGCuucgccucaAGcCGUCCGAg -3'
miRNA:   3'- -GGCCGCUUCCcgACCG---------UCuGCAGGCU- -5'
24081 3' -59.7 NC_005262.1 + 5179 0.67 0.505173
Target:  5'- gCCGGCGucgcGGGCgcgGGCGcggccGGCGcgaCCGAg -3'
miRNA:   3'- -GGCCGCuu--CCCGa--CCGU-----CUGCa--GGCU- -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.