miRNA display CGI


Results 1 - 12 of 12 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
28477 3' -61.4 NC_005946.1 + 3017 0.66 0.619645
Target:  5'- -gGGGUCCagaGGGacccagaGGACCGGaGGGAg -3'
miRNA:   3'- agUCCAGGg--UCCag-----CCUGGCCcUCCU- -5'
28477 3' -61.4 NC_005946.1 + 33320 0.66 0.609625
Target:  5'- cUCGGGUgCCAGGgaaGGuuCGuGAGGAg -3'
miRNA:   3'- -AGUCCAgGGUCCag-CCugGCcCUCCU- -5'
28477 3' -61.4 NC_005946.1 + 2835 0.66 0.579689
Target:  5'- -gGGGUCCCaAGGgUGGAgUGGGAGc- -3'
miRNA:   3'- agUCCAGGG-UCCaGCCUgGCCCUCcu -5'
28477 3' -61.4 NC_005946.1 + 2888 0.67 0.559901
Target:  5'- gCGGGUCUCcccggagcaaAGGgaGGGCCGGGAGa- -3'
miRNA:   3'- aGUCCAGGG----------UCCagCCUGGCCCUCcu -5'
28477 3' -61.4 NC_005946.1 + 69452 0.67 0.550076
Target:  5'- gCAGGgCCCAagccGGUcCGuGACaGGGAGGAg -3'
miRNA:   3'- aGUCCaGGGU----CCA-GC-CUGgCCCUCCU- -5'
28477 3' -61.4 NC_005946.1 + 83122 0.67 0.550076
Target:  5'- cCGGGUUCCuGGUgGGAUCGGcAGcGAa -3'
miRNA:   3'- aGUCCAGGGuCCAgCCUGGCCcUC-CU- -5'
28477 3' -61.4 NC_005946.1 + 71238 0.67 0.540305
Target:  5'- cCAcGUCcgCCAGGUCGGGCCuGGAcauGGAu -3'
miRNA:   3'- aGUcCAG--GGUCCAGCCUGGcCCU---CCU- -5'
28477 3' -61.4 NC_005946.1 + 34730 0.67 0.540305
Target:  5'- cCAGGcagCCCGuGG-CGGGCagguccaGGGAGGGg -3'
miRNA:   3'- aGUCCa--GGGU-CCaGCCUGg------CCCUCCU- -5'
28477 3' -61.4 NC_005946.1 + 48002 0.69 0.420287
Target:  5'- cCAGGgCCCu-GUUGG-CCGGGGGGGa -3'
miRNA:   3'- aGUCCaGGGucCAGCCuGGCCCUCCU- -5'
28477 3' -61.4 NC_005946.1 + 16260 0.7 0.378568
Target:  5'- -aAGGuUCCCAGGUCGuGgUGGGGGGu -3'
miRNA:   3'- agUCC-AGGGUCCAGCcUgGCCCUCCu -5'
28477 3' -61.4 NC_005946.1 + 8001 0.7 0.362677
Target:  5'- -aGGGgaagaaCCAGGUUcuuGGCCGGGAGGAc -3'
miRNA:   3'- agUCCag----GGUCCAGc--CUGGCCCUCCU- -5'
28477 3' -61.4 NC_005946.1 + 30768 0.72 0.283758
Target:  5'- uUCAGGg-CCAGGcCGGACCuGGGAGc- -3'
miRNA:   3'- -AGUCCagGGUCCaGCCUGG-CCCUCcu -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.