miRNA display CGI


Results 1 - 20 of 56 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
14529 3' -55.9 NC_003521.1 + 151914 0.66 0.977358
Target:  5'- cCGUgGUCAUCG--CUCCUCUGcUCGu -3'
miRNA:   3'- aGCAgCAGUAGCcgGAGGAGGCaAGC- -5'
14529 3' -55.9 NC_003521.1 + 197014 0.66 0.977358
Target:  5'- cCGUCGUCAgugcaCCUCCUCuCGUUa- -3'
miRNA:   3'- aGCAGCAGUagcc-GGAGGAG-GCAAgc -5'
14529 3' -55.9 NC_003521.1 + 140740 0.66 0.977358
Target:  5'- cUCGUCGgcgGUCGaggcgcccGCCUCCgugCCGggCGa -3'
miRNA:   3'- -AGCAGCag-UAGC--------CGGAGGa--GGCaaGC- -5'
14529 3' -55.9 NC_003521.1 + 123825 0.66 0.977358
Target:  5'- -gGUCGUCuUCGuCCUCCUCCu---- -3'
miRNA:   3'- agCAGCAGuAGCcGGAGGAGGcaagc -5'
14529 3' -55.9 NC_003521.1 + 121446 0.66 0.977358
Target:  5'- gCG-CGUCAUgguuaGGuCCUCCUCCucgUCGg -3'
miRNA:   3'- aGCaGCAGUAg----CC-GGAGGAGGca-AGC- -5'
14529 3' -55.9 NC_003521.1 + 204221 0.66 0.974992
Target:  5'- gUCGUgcgaGUCGUCGGCCacccgCCgccaggCCaGUUCGc -3'
miRNA:   3'- -AGCAg---CAGUAGCCGGa----GGa-----GG-CAAGC- -5'
14529 3' -55.9 NC_003521.1 + 97700 0.66 0.973488
Target:  5'- cUCGcCGUCGguggUGGCCgacucgucguccucaUCCUCCGgcggCGg -3'
miRNA:   3'- -AGCaGCAGUa---GCCGG---------------AGGAGGCaa--GC- -5'
14529 3' -55.9 NC_003521.1 + 126976 0.66 0.97245
Target:  5'- cCGUCGUCGcCGGCCgCC-CCGc--- -3'
miRNA:   3'- aGCAGCAGUaGCCGGaGGaGGCaagc -5'
14529 3' -55.9 NC_003521.1 + 169959 0.66 0.97245
Target:  5'- aUGUCGUCGUUGcUCUCCUCCu---- -3'
miRNA:   3'- aGCAGCAGUAGCcGGAGGAGGcaagc -5'
14529 3' -55.9 NC_003521.1 + 233678 0.66 0.97245
Target:  5'- uUCcUCGUCGUCGuCCUCCg-CGUUUGu -3'
miRNA:   3'- -AGcAGCAGUAGCcGGAGGagGCAAGC- -5'
14529 3' -55.9 NC_003521.1 + 169482 0.66 0.97245
Target:  5'- gCGUCGUCGUUGGCCaagaagCggCUGUaUCGg -3'
miRNA:   3'- aGCAGCAGUAGCCGGa-----GgaGGCA-AGC- -5'
14529 3' -55.9 NC_003521.1 + 33157 0.66 0.969727
Target:  5'- cCGUUGgccUCGUCGGCCUCggccaCGUUCc -3'
miRNA:   3'- aGCAGC---AGUAGCCGGAGgag--GCAAGc -5'
14529 3' -55.9 NC_003521.1 + 110378 0.66 0.968004
Target:  5'- gCGUCGUCgAUCGucGCCcguagugcgaagaagUCCUCCGUcagCGu -3'
miRNA:   3'- aGCAGCAG-UAGC--CGG---------------AGGAGGCAa--GC- -5'
14529 3' -55.9 NC_003521.1 + 165198 0.66 0.966817
Target:  5'- cCGUCGUCAucgUCGGCgaCUgagCCGUggCGc -3'
miRNA:   3'- aGCAGCAGU---AGCCGgaGGa--GGCAa-GC- -5'
14529 3' -55.9 NC_003521.1 + 76871 0.66 0.963715
Target:  5'- uUCGgCGUCcgCGGCCgagacUCCUCC--UCGc -3'
miRNA:   3'- -AGCaGCAGuaGCCGG-----AGGAGGcaAGC- -5'
14529 3' -55.9 NC_003521.1 + 197259 0.66 0.963715
Target:  5'- cCGUCcccccaGUCAgCGGCCgCCUCUGUcgCGg -3'
miRNA:   3'- aGCAG------CAGUaGCCGGaGGAGGCAa-GC- -5'
14529 3' -55.9 NC_003521.1 + 140255 0.67 0.960415
Target:  5'- gUCGUCGUCcuccUCGuGcCCUCCuUCUGUuucUCGg -3'
miRNA:   3'- -AGCAGCAGu---AGC-C-GGAGG-AGGCA---AGC- -5'
14529 3' -55.9 NC_003521.1 + 234803 0.67 0.960415
Target:  5'- cUCGUCGggcUCcUCGGCCUCgUCgucgggGUUCGu -3'
miRNA:   3'- -AGCAGC---AGuAGCCGGAGgAGg-----CAAGC- -5'
14529 3' -55.9 NC_003521.1 + 217809 0.67 0.956915
Target:  5'- gCGUCc-CAUUGGCCUCCUCgGa--- -3'
miRNA:   3'- aGCAGcaGUAGCCGGAGGAGgCaagc -5'
14529 3' -55.9 NC_003521.1 + 71126 0.67 0.956915
Target:  5'- aCGUCGggggacUCGUCGccGCCUCCUCCu---- -3'
miRNA:   3'- aGCAGC------AGUAGC--CGGAGGAGGcaagc -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.