miRNA display CGI


Results 1 - 20 of 40 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
11413 5' -55.4 NC_003085.1 + 43407 0.66 0.70022
Target:  5'- aUCC-CGGUGGgGCUCGgGAGAaucagGUCAu -3'
miRNA:   3'- -AGGaGUUACUgCGAGCgCUCUg----CGGU- -5'
11413 5' -55.4 NC_003085.1 + 12997 0.66 0.70022
Target:  5'- gCCgcCAGUGGCacuacCUCGCcauGAGGCGCCGc -3'
miRNA:   3'- aGGa-GUUACUGc----GAGCG---CUCUGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 30785 0.66 0.689307
Target:  5'- aCCUCGAccgGAagaGC-CGUGAGcGCGCCGc -3'
miRNA:   3'- aGGAGUUa--CUg--CGaGCGCUC-UGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 17020 0.66 0.689307
Target:  5'- ----gGAUGGgcgcUGCUCGCGuauGACGCCAa -3'
miRNA:   3'- aggagUUACU----GCGAGCGCu--CUGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 32420 0.66 0.689307
Target:  5'- cCCUCGAagcuccggagguUGGCGUcauaCGCGAGcaGCGCCc -3'
miRNA:   3'- aGGAGUU------------ACUGCGa---GCGCUC--UGCGGu -5'
11413 5' -55.4 NC_003085.1 + 3506 0.66 0.678337
Target:  5'- -gCUCGccgucUGGCGuCUCGCGAG-CGUCAu -3'
miRNA:   3'- agGAGUu----ACUGC-GAGCGCUCuGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 46519 0.66 0.678337
Target:  5'- aCCUCuuUGGC-CUCGUGcucGACGUCAc -3'
miRNA:   3'- aGGAGuuACUGcGAGCGCu--CUGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 27448 0.66 0.678337
Target:  5'- cCUUCGAaaugGGCGCgcaguuucgUGCGGGAgGCCAc -3'
miRNA:   3'- aGGAGUUa---CUGCGa--------GCGCUCUgCGGU- -5'
11413 5' -55.4 NC_003085.1 + 5246 0.66 0.676138
Target:  5'- gCCUCcaacgcgaaugGGUGGCGCguggugggugcgCGaCGGGACGCCc -3'
miRNA:   3'- aGGAG-----------UUACUGCGa-----------GC-GCUCUGCGGu -5'
11413 5' -55.4 NC_003085.1 + 33023 0.66 0.671734
Target:  5'- gCCUCgAAUGACGUcggCGCcuggauauggggccaGAGACGCUu -3'
miRNA:   3'- aGGAG-UUACUGCGa--GCG---------------CUCUGCGGu -5'
11413 5' -55.4 NC_003085.1 + 45029 0.66 0.667324
Target:  5'- cUCgUCAggGAUGCUCuGCcAGuCGCCAg -3'
miRNA:   3'- -AGgAGUuaCUGCGAG-CGcUCuGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 40638 0.66 0.667324
Target:  5'- gUCCUCGucgcccUGACGCUgGCu--GCGCCGc -3'
miRNA:   3'- -AGGAGUu-----ACUGCGAgCGcucUGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 40906 0.66 0.667324
Target:  5'- aCCUCAagaccugcGUGACgaGCUCGCcgcGCGCCGa -3'
miRNA:   3'- aGGAGU--------UACUG--CGAGCGcucUGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 627 0.66 0.667324
Target:  5'- -gCUCGAggcUGGCGCggaccUCGuCGAGGCGCUc -3'
miRNA:   3'- agGAGUU---ACUGCG-----AGC-GCUCUGCGGu -5'
11413 5' -55.4 NC_003085.1 + 8336 0.66 0.656276
Target:  5'- uUCCUCAucgGGCGCguggaGCGgcuggaagaaagGGugGCCGg -3'
miRNA:   3'- -AGGAGUua-CUGCGag---CGC------------UCugCGGU- -5'
11413 5' -55.4 NC_003085.1 + 5092 0.66 0.656276
Target:  5'- cCCgagcgaCAGUGACGUUgaCGCGGGAUugGCCGc -3'
miRNA:   3'- aGGa-----GUUACUGCGA--GCGCUCUG--CGGU- -5'
11413 5' -55.4 NC_003085.1 + 24047 0.66 0.645206
Target:  5'- aUCCUCGcccgccUGGCGaagCGCGGGAaGCCGc -3'
miRNA:   3'- -AGGAGUu-----ACUGCga-GCGCUCUgCGGU- -5'
11413 5' -55.4 NC_003085.1 + 9862 0.66 0.645206
Target:  5'- -gCUCGGUG-CGCUcCGCGAcGCGCUc -3'
miRNA:   3'- agGAGUUACuGCGA-GCGCUcUGCGGu -5'
11413 5' -55.4 NC_003085.1 + 47683 0.67 0.634124
Target:  5'- aCUUCGGcggucUGACGCUCagauGCGAGuCGUCGa -3'
miRNA:   3'- aGGAGUU-----ACUGCGAG----CGCUCuGCGGU- -5'
11413 5' -55.4 NC_003085.1 + 5703 0.67 0.616393
Target:  5'- cCCUCGAUGGCGggacucggccgucuaCUCGCGGGccgagguCGUCGc -3'
miRNA:   3'- aGGAGUUACUGC---------------GAGCGCUCu------GCGGU- -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.