miRNA display CGI


Results 1 - 17 of 17 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
27605 5' -47.9 NC_005882.1 + 4206 0.66 0.952299
Target:  5'- -gGGCGGCGGCaaGACGAc------- -3'
miRNA:   3'- agUCGCCGCUGaaCUGCUucuuuaag -5'
27605 5' -47.9 NC_005882.1 + 28289 0.66 0.947414
Target:  5'- aCGGcCGGCGGCUUGAaCGGGuuu-UUCu -3'
miRNA:   3'- aGUC-GCCGCUGAACU-GCUUcuuuAAG- -5'
27605 5' -47.9 NC_005882.1 + 10747 0.66 0.942209
Target:  5'- -gAGCGGCGAa-UGuCGAAGAGc--- -3'
miRNA:   3'- agUCGCCGCUgaACuGCUUCUUuaag -5'
27605 5' -47.9 NC_005882.1 + 11611 0.66 0.936681
Target:  5'- gUCAGCcGCGggaagcGCUUGAUGAAGGGc--- -3'
miRNA:   3'- -AGUCGcCGC------UGAACUGCUUCUUuaag -5'
27605 5' -47.9 NC_005882.1 + 28518 0.67 0.930826
Target:  5'- aUCAGCGGCuuGCUUGAUGuuGG---UCa -3'
miRNA:   3'- -AGUCGCCGc-UGAACUGCuuCUuuaAG- -5'
27605 5' -47.9 NC_005882.1 + 11514 0.67 0.924645
Target:  5'- uUUAGCGGuCGGCUUGcGCGgcGuuccugcGAUUCa -3'
miRNA:   3'- -AGUCGCC-GCUGAAC-UGCuuCu------UUAAG- -5'
27605 5' -47.9 NC_005882.1 + 544 0.67 0.918136
Target:  5'- uUCcGCGGCGACaaccaUGcCGAgcuggcacGGAAGUUCg -3'
miRNA:   3'- -AGuCGCCGCUGa----ACuGCU--------UCUUUAAG- -5'
27605 5' -47.9 NC_005882.1 + 18021 0.68 0.863644
Target:  5'- gCGGCGcGUGACUgggucGACGGugcGGAAcgUCg -3'
miRNA:   3'- aGUCGC-CGCUGAa----CUGCU---UCUUuaAG- -5'
27605 5' -47.9 NC_005882.1 + 6227 0.69 0.854654
Target:  5'- aCGGuCGGUGACgcGGCGGAGAuuUUg -3'
miRNA:   3'- aGUC-GCCGCUGaaCUGCUUCUuuAAg -5'
27605 5' -47.9 NC_005882.1 + 31094 0.69 0.835857
Target:  5'- gCAGUGGCGcCUugcUGACGgcGucAUUCg -3'
miRNA:   3'- aGUCGCCGCuGA---ACUGCuuCuuUAAG- -5'
27605 5' -47.9 NC_005882.1 + 28302 0.7 0.805789
Target:  5'- aUCGGCGGUGGCcaccgcGCGAGGcacGAUUCa -3'
miRNA:   3'- -AGUCGCCGCUGaac---UGCUUCu--UUAAG- -5'
27605 5' -47.9 NC_005882.1 + 26163 0.7 0.805789
Target:  5'- gCAGUGGCGACgaagccgUGACGAAu------ -3'
miRNA:   3'- aGUCGCCGCUGa------ACUGCUUcuuuaag -5'
27605 5' -47.9 NC_005882.1 + 22274 0.7 0.784644
Target:  5'- cCAGCGGCGucacGCUgcagGACGgcGAAGa-- -3'
miRNA:   3'- aGUCGCCGC----UGAa---CUGCuuCUUUaag -5'
27605 5' -47.9 NC_005882.1 + 13075 0.71 0.718333
Target:  5'- gCuGCGGCGGCUggcgucgacguggugGGCGAGGAug-UCg -3'
miRNA:   3'- aGuCGCCGCUGAa--------------CUGCUUCUuuaAG- -5'
27605 5' -47.9 NC_005882.1 + 3472 0.71 0.716006
Target:  5'- gUCGGCGGUGACgaccgGcacgcccaggcccGCGgcGAGAUUCa -3'
miRNA:   3'- -AGUCGCCGCUGaa---C-------------UGCuuCUUUAAG- -5'
27605 5' -47.9 NC_005882.1 + 28584 0.72 0.705489
Target:  5'- aUCGGCgcaaGGCGGCUUGGCGAAc------ -3'
miRNA:   3'- -AGUCG----CCGCUGAACUGCUUcuuuaag -5'
27605 5' -47.9 NC_005882.1 + 26870 1.12 0.002063
Target:  5'- uUCAGCGGCGACUUGACGAAGAAAUUCa -3'
miRNA:   3'- -AGUCGCCGCUGAACUGCUUCUUUAAG- -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.