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
12540 3' -57.2 NC_003345.1 + 75324 0.66 0.731783
Target:  5'- cGGCCcCGGuuACGCCggggaaCCGcacauuGGUCGGUCa -3'
miRNA:   3'- -CCGGuGCCc-UGCGGa-----GGU------UUAGCCAG- -5'
12540 3' -57.2 NC_003345.1 + 28766 0.66 0.721613
Target:  5'- -uCCACGGGAUGUUUCCGA--UGGg- -3'
miRNA:   3'- ccGGUGCCCUGCGGAGGUUuaGCCag -5'
12540 3' -57.2 NC_003345.1 + 32390 0.66 0.721613
Target:  5'- --aCACGGGgcgGCGCgUCCAucucAAUCGGcUCa -3'
miRNA:   3'- ccgGUGCCC---UGCGgAGGU----UUAGCC-AG- -5'
12540 3' -57.2 NC_003345.1 + 5085 0.66 0.720591
Target:  5'- uGCCGCuGGugGuucgucgucguccCCUCCGucccUCGGUCg -3'
miRNA:   3'- cCGGUGcCCugC-------------GGAGGUuu--AGCCAG- -5'
12540 3' -57.2 NC_003345.1 + 65073 0.66 0.711361
Target:  5'- aGGCCGUGGG-CGaCCUCCGGuaaUGGUg -3'
miRNA:   3'- -CCGGUGCCCuGC-GGAGGUUua-GCCAg -5'
12540 3' -57.2 NC_003345.1 + 12228 0.66 0.701038
Target:  5'- cGCCACGGuGCgGCUUCCGGGUUGuUCc -3'
miRNA:   3'- cCGGUGCCcUG-CGGAGGUUUAGCcAG- -5'
12540 3' -57.2 NC_003345.1 + 68582 0.66 0.701038
Target:  5'- -cCCACGGGugGCCccgcgaCCGAGcCGGg- -3'
miRNA:   3'- ccGGUGCCCugCGGa-----GGUUUaGCCag -5'
12540 3' -57.2 NC_003345.1 + 22981 0.66 0.690653
Target:  5'- cGGCCcgaacggUGGGACGUUgaaUCCGGuGUCGGUUg -3'
miRNA:   3'- -CCGGu------GCCCUGCGG---AGGUU-UAGCCAG- -5'
12540 3' -57.2 NC_003345.1 + 8210 0.67 0.669737
Target:  5'- aGGCUuCGGGuCGUCg--GGGUCGGUCa -3'
miRNA:   3'- -CCGGuGCCCuGCGGaggUUUAGCCAG- -5'
12540 3' -57.2 NC_003345.1 + 59495 0.67 0.648692
Target:  5'- cGCUACGGGAaucgGCgCUCUgcuGGUCGGUg -3'
miRNA:   3'- cCGGUGCCCUg---CG-GAGGu--UUAGCCAg -5'
12540 3' -57.2 NC_003345.1 + 2473 0.68 0.62759
Target:  5'- aGGCUACGGaaaGCUUCgAGGUCGGg- -3'
miRNA:   3'- -CCGGUGCCcugCGGAGgUUUAGCCag -5'
12540 3' -57.2 NC_003345.1 + 45463 0.68 0.606503
Target:  5'- uGGUCGCGGGA-GCCgUCaCGGuacaCGGUCa -3'
miRNA:   3'- -CCGGUGCCCUgCGG-AG-GUUua--GCCAG- -5'
12540 3' -57.2 NC_003345.1 + 61184 0.68 0.585496
Target:  5'- gGGCgGCGGaGGuCGCaCUCCAAAcUCGG-Ca -3'
miRNA:   3'- -CCGgUGCC-CU-GCG-GAGGUUU-AGCCaG- -5'
12540 3' -57.2 NC_003345.1 + 57823 0.69 0.554273
Target:  5'- gGGUCGuCGGGA-GCCgCCAAGU-GGUCg -3'
miRNA:   3'- -CCGGU-GCCCUgCGGaGGUUUAgCCAG- -5'
12540 3' -57.2 NC_003345.1 + 22732 0.69 0.554273
Target:  5'- aGCCGCcGGACGCCUUCGuucuGUUcGUCg -3'
miRNA:   3'- cCGGUGcCCUGCGGAGGUu---UAGcCAG- -5'
12540 3' -57.2 NC_003345.1 + 63407 0.69 0.52356
Target:  5'- gGGCCggugaGCGaGGACGCaUCCGAugUGGUCu -3'
miRNA:   3'- -CCGG-----UGC-CCUGCGgAGGUUuaGCCAG- -5'
12540 3' -57.2 NC_003345.1 + 30725 1.11 0.000803
Target:  5'- gGGCCACGGGACGCCUCCAAAUCGGUCu -3'
miRNA:   3'- -CCGGUGCCCUGCGGAGGUUUAGCCAG- -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.