miRNA display CGI


Results 1 - 16 of 16 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
18535 3' -56.7 NC_004681.1 + 12192 0.66 0.743635
Target:  5'- gGACcCggCGUCGGGCUuccccgcgcgccGCaUCCCCGGUGg -3'
miRNA:   3'- -CUGcGa-GUAGCCUGA------------UG-AGGGGUCGC- -5'
18535 3' -56.7 NC_004681.1 + 69316 0.66 0.743635
Target:  5'- --aGCUCAUCgaGGACUAC-CUCCGGg- -3'
miRNA:   3'- cugCGAGUAG--CCUGAUGaGGGGUCgc -5'
18535 3' -56.7 NC_004681.1 + 39875 0.66 0.741609
Target:  5'- aGCGCUUccucgaccaggCGGGCggagAC-CCCCAGCGc -3'
miRNA:   3'- cUGCGAGua---------GCCUGa---UGaGGGGUCGC- -5'
18535 3' -56.7 NC_004681.1 + 50966 0.66 0.733465
Target:  5'- -cUGCUUGUCGGGgUACUCggCGGCGa -3'
miRNA:   3'- cuGCGAGUAGCCUgAUGAGggGUCGC- -5'
18535 3' -56.7 NC_004681.1 + 24020 0.66 0.7232
Target:  5'- gGugGUUCggCGcGGCUACcaUCCCCgaAGCGu -3'
miRNA:   3'- -CugCGAGuaGC-CUGAUG--AGGGG--UCGC- -5'
18535 3' -56.7 NC_004681.1 + 56408 0.66 0.71285
Target:  5'- uGGCGC-CGUgGGugUGCUUgaCCGGCa -3'
miRNA:   3'- -CUGCGaGUAgCCugAUGAGg-GGUCGc -5'
18535 3' -56.7 NC_004681.1 + 16166 0.67 0.649538
Target:  5'- -uCGCUCAUCGcGCUG-UCCUCGGCc -3'
miRNA:   3'- cuGCGAGUAGCcUGAUgAGGGGUCGc -5'
18535 3' -56.7 NC_004681.1 + 16464 0.68 0.617547
Target:  5'- uGGCGUUCcagccccccaCGGACUACUcggcgccgcgCCCCGGCa -3'
miRNA:   3'- -CUGCGAGua--------GCCUGAUGA----------GGGGUCGc -5'
18535 3' -56.7 NC_004681.1 + 22928 0.68 0.617547
Target:  5'- gGAUGaggaUCAUCGGAg-GCggggucgCCCCGGCGa -3'
miRNA:   3'- -CUGCg---AGUAGCCUgaUGa------GGGGUCGC- -5'
18535 3' -56.7 NC_004681.1 + 16658 0.68 0.606895
Target:  5'- aGCGCUCGUCGGcaaGCUGCauaCCaCGGCc -3'
miRNA:   3'- cUGCGAGUAGCC---UGAUGag-GG-GUCGc -5'
18535 3' -56.7 NC_004681.1 + 39143 0.68 0.585662
Target:  5'- aGGCGCUCAUCGuGCUGUUCaccgagaCCGGCa -3'
miRNA:   3'- -CUGCGAGUAGCcUGAUGAGg------GGUCGc -5'
18535 3' -56.7 NC_004681.1 + 48342 0.69 0.564574
Target:  5'- cGCGUgcccgUAUCGGACUgGCgagCCUCGGCGa -3'
miRNA:   3'- cUGCGa----GUAGCCUGA-UGa--GGGGUCGC- -5'
18535 3' -56.7 NC_004681.1 + 49748 0.69 0.554104
Target:  5'- cACGCUCGUUGGcCcGCUC-CCGGCa -3'
miRNA:   3'- cUGCGAGUAGCCuGaUGAGgGGUCGc -5'
18535 3' -56.7 NC_004681.1 + 37122 0.69 0.554104
Target:  5'- uGCGUacuUCAUCaGACacGCUCCCCGGUGc -3'
miRNA:   3'- cUGCG---AGUAGcCUGa-UGAGGGGUCGC- -5'
18535 3' -56.7 NC_004681.1 + 23530 0.73 0.347383
Target:  5'- gGACG-UCAUCGuGAUUGC-CCCCGGCa -3'
miRNA:   3'- -CUGCgAGUAGC-CUGAUGaGGGGUCGc -5'
18535 3' -56.7 NC_004681.1 + 73898 1.08 0.001292
Target:  5'- cGACGCUCAUCGGACUACUCCCCAGCGc -3'
miRNA:   3'- -CUGCGAGUAGCCUGAUGAGGGGUCGC- -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.