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
6244 3' -60.3 NC_001844.1 + 140382 0.66 0.71884
Target:  5'- gAGUgaUGCCUCa--AGCGGCAGa-GCCGg -3'
miRNA:   3'- -UCG--AUGGAGgagUCGCCGUCggUGGC- -5'
6244 3' -60.3 NC_001844.1 + 143489 0.66 0.71884
Target:  5'- cGCgucugaaGCCUCCcCGGCGGUguGGCC-CCu -3'
miRNA:   3'- uCGa------UGGAGGaGUCGCCG--UCGGuGGc -5'
6244 3' -60.3 NC_001844.1 + 121799 0.66 0.709044
Target:  5'- cAGgUACCUCCcCAccgcGCGGCguagcgGGuCCGCCGa -3'
miRNA:   3'- -UCgAUGGAGGaGU----CGCCG------UC-GGUGGC- -5'
6244 3' -60.3 NC_001844.1 + 50995 0.66 0.68927
Target:  5'- cGGCggUCUCCccuUgGGCaGCAGCCGCCa -3'
miRNA:   3'- -UCGauGGAGG---AgUCGcCGUCGGUGGc -5'
6244 3' -60.3 NC_001844.1 + 114390 0.66 0.669312
Target:  5'- gAGCUGgCUgC-CAGCGGaccgcuccGCCGCCGg -3'
miRNA:   3'- -UCGAUgGAgGaGUCGCCgu------CGGUGGC- -5'
6244 3' -60.3 NC_001844.1 + 104320 0.67 0.649238
Target:  5'- gAGCUaagGCCguagUCCaCAGCGGUGGCCAUg- -3'
miRNA:   3'- -UCGA---UGG----AGGaGUCGCCGUCGGUGgc -5'
6244 3' -60.3 NC_001844.1 + 12913 0.67 0.649238
Target:  5'- uGCUGCgUCgCUUgcauguGCGGCGGCUACgCGa -3'
miRNA:   3'- uCGAUGgAG-GAGu-----CGCCGUCGGUG-GC- -5'
6244 3' -60.3 NC_001844.1 + 41537 0.67 0.638171
Target:  5'- cGCUgcgauauucaacgGCUUCCaggUGGgGGCGGCUACCGg -3'
miRNA:   3'- uCGA-------------UGGAGGa--GUCgCCGUCGGUGGC- -5'
6244 3' -60.3 NC_001844.1 + 40577 0.67 0.629111
Target:  5'- uGCUauaGCCUCCUCAaaGGCAGau-CCGg -3'
miRNA:   3'- uCGA---UGGAGGAGUcgCCGUCgguGGC- -5'
6244 3' -60.3 NC_001844.1 + 11655 0.68 0.559107
Target:  5'- gGGUUGCCUgCUcCAGCGGauauGCCAUUGu -3'
miRNA:   3'- -UCGAUGGAgGA-GUCGCCgu--CGGUGGC- -5'
6244 3' -60.3 NC_001844.1 + 114937 0.68 0.539452
Target:  5'- aGGCUcGCC-CCUCGG-GGCAGaaggcucgcuccCCACCGg -3'
miRNA:   3'- -UCGA-UGGaGGAGUCgCCGUC------------GGUGGC- -5'
6244 3' -60.3 NC_001844.1 + 115907 0.7 0.463614
Target:  5'- cGCgGCagCCUCGGUGGCcaugAGCCGCCGc -3'
miRNA:   3'- uCGaUGgaGGAGUCGCCG----UCGGUGGC- -5'
6244 3' -60.3 NC_001844.1 + 68560 0.7 0.463614
Target:  5'- aAGCUugUggcagCCagacaUCgAGCGGCAGCCGCUGc -3'
miRNA:   3'- -UCGAugGa----GG-----AG-UCGCCGUCGGUGGC- -5'
6244 3' -60.3 NC_001844.1 + 60394 0.7 0.436624
Target:  5'- aAGUUACCcCCaaguUCAGCGG-AGCCGCUGu -3'
miRNA:   3'- -UCGAUGGaGG----AGUCGCCgUCGGUGGC- -5'
6244 3' -60.3 NC_001844.1 + 42463 0.73 0.32375
Target:  5'- aGGCUACCUUagcuGCGGCGGcCCGCCc -3'
miRNA:   3'- -UCGAUGGAGgaguCGCCGUC-GGUGGc -5'
6244 3' -60.3 NC_001844.1 + 40800 0.76 0.202531
Target:  5'- aGGUUGCCUUgUCaagGGCGGCGGCCACg- -3'
miRNA:   3'- -UCGAUGGAGgAG---UCGCCGUCGGUGgc -5'
6244 3' -60.3 NC_001844.1 + 135086 1.07 0.001319
Target:  5'- uAGCUACCUCCUCAGCGGCAGCCACCGc -3'
miRNA:   3'- -UCGAUGGAGGAGUCGCCGUCGGUGGC- -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.