miRNA display CGI


Results 1 - 18 of 18 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
23956 3' -55.2 NC_005262.1 + 17360 0.66 0.7723
Target:  5'- cGgcgCGGGCGgcgCggcgGGCCCCUgcgGAccuuGCGGGc -3'
miRNA:   3'- aCa--GCCCGUa--G----UCGGGGAa--CU----UGUCC- -5'
23956 3' -55.2 NC_005262.1 + 34465 0.66 0.76223
Target:  5'- -cUCGGGCGUCGGUUCgUccUGAucCGGGu -3'
miRNA:   3'- acAGCCCGUAGUCGGGgA--ACUu-GUCC- -5'
23956 3' -55.2 NC_005262.1 + 12892 0.66 0.76223
Target:  5'- -cUCGuGcGCAUCAGCCCCggccugcUGGACGa- -3'
miRNA:   3'- acAGC-C-CGUAGUCGGGGa------ACUUGUcc -5'
23956 3' -55.2 NC_005262.1 + 20493 0.66 0.752028
Target:  5'- -cUCGGGCGucaUCAGCaccgagCCCUcGAuCAGGa -3'
miRNA:   3'- acAGCCCGU---AGUCG------GGGAaCUuGUCC- -5'
23956 3' -55.2 NC_005262.1 + 21267 0.66 0.731277
Target:  5'- aG-CGGGCuUCAGCgCCaaGAcugcGCAGGa -3'
miRNA:   3'- aCaGCCCGuAGUCGgGGaaCU----UGUCC- -5'
23956 3' -55.2 NC_005262.1 + 14728 0.66 0.731277
Target:  5'- cUGcUCGGGCAgcgauugaagCAGCCCgCUcGAAUAGc -3'
miRNA:   3'- -AC-AGCCCGUa---------GUCGGG-GAaCUUGUCc -5'
23956 3' -55.2 NC_005262.1 + 56218 0.67 0.720749
Target:  5'- uUGUCGGGaaagaCGGCUCCgUGAcgcugcACGGGa -3'
miRNA:   3'- -ACAGCCCgua--GUCGGGGaACU------UGUCC- -5'
23956 3' -55.2 NC_005262.1 + 56345 0.67 0.667032
Target:  5'- gGUCgaGGGCggCGuGCCCCgcGAGCAGa -3'
miRNA:   3'- aCAG--CCCGuaGU-CGGGGaaCUUGUCc -5'
23956 3' -55.2 NC_005262.1 + 36979 0.67 0.667032
Target:  5'- -aUCGGGUAUCgacccgAGCCCCaaGAACGucGGc -3'
miRNA:   3'- acAGCCCGUAG------UCGGGGaaCUUGU--CC- -5'
23956 3' -55.2 NC_005262.1 + 284 0.68 0.656149
Target:  5'- -cUCGcGGCucCGGCUCCUUGcGACAGGc -3'
miRNA:   3'- acAGC-CCGuaGUCGGGGAAC-UUGUCC- -5'
23956 3' -55.2 NC_005262.1 + 36448 0.68 0.612499
Target:  5'- gGUCGGGUucUCGGgCaUCUUGAugAGGu -3'
miRNA:   3'- aCAGCCCGu-AGUCgG-GGAACUugUCC- -5'
23956 3' -55.2 NC_005262.1 + 37461 0.68 0.612499
Target:  5'- cGcCcGGCAUCAGCUCCUcGAGCAu- -3'
miRNA:   3'- aCaGcCCGUAGUCGGGGAaCUUGUcc -5'
23956 3' -55.2 NC_005262.1 + 950 0.69 0.601605
Target:  5'- uUGUCGaGGauugcgucaucCGUCAGCCCCUgccGAguggcgaccuGCGGGg -3'
miRNA:   3'- -ACAGC-CC-----------GUAGUCGGGGAa--CU----------UGUCC- -5'
23956 3' -55.2 NC_005262.1 + 46409 0.69 0.569112
Target:  5'- cGUCGGGC-UgGGCCCgCaaGGuccGCAGGg -3'
miRNA:   3'- aCAGCCCGuAgUCGGG-GaaCU---UGUCC- -5'
23956 3' -55.2 NC_005262.1 + 32709 0.7 0.505677
Target:  5'- uUGUCGGGCcgCGGCucgCCCUU---CAGGu -3'
miRNA:   3'- -ACAGCCCGuaGUCG---GGGAAcuuGUCC- -5'
23956 3' -55.2 NC_005262.1 + 17160 0.71 0.485191
Target:  5'- cUGUCGGcCAUCAGCgugCCCUUcaucgcgucGGGCGGGa -3'
miRNA:   3'- -ACAGCCcGUAGUCG---GGGAA---------CUUGUCC- -5'
23956 3' -55.2 NC_005262.1 + 4589 0.76 0.220671
Target:  5'- cUGcUCGGGCGUgAGCgCCCgcagGAACGGGc -3'
miRNA:   3'- -AC-AGCCCGUAgUCG-GGGaa--CUUGUCC- -5'
23956 3' -55.2 NC_005262.1 + 10797 1.1 0.00109
Target:  5'- cUGUCGGGCAUCAGCCCCUUGAACAGGc -3'
miRNA:   3'- -ACAGCCCGUAGUCGGGGAACUUGUCC- -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.