miRNA display CGI


Results 1 - 20 of 32 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
13431 3' -58.1 NC_003409.1 + 132392 0.66 0.838153
Target:  5'- -aCGGAGugauggccuccacCGUGUcgggcacucugggCGCCACCCUCUcgGCc -3'
miRNA:   3'- agGCCUU-------------GCACA-------------GCGGUGGGAGGa-CG- -5'
13431 3' -58.1 NC_003409.1 + 15079 0.66 0.831641
Target:  5'- cUCCGGGAgGcaaaUCGCCGCCCUUg--- -3'
miRNA:   3'- -AGGCCUUgCac--AGCGGUGGGAGgacg -5'
13431 3' -58.1 NC_003409.1 + 30986 0.66 0.831641
Target:  5'- -gCGGGugGUG-CGCCAacuaCCgcgagUCCUGUa -3'
miRNA:   3'- agGCCUugCACaGCGGUg---GG-----AGGACG- -5'
13431 3' -58.1 NC_003409.1 + 51932 0.66 0.831641
Target:  5'- cUCCGGGaaccguGCGUGgagaaaGCCuagACCCgCCUGUu -3'
miRNA:   3'- -AGGCCU------UGCACag----CGG---UGGGaGGACG- -5'
13431 3' -58.1 NC_003409.1 + 24776 0.66 0.814878
Target:  5'- cUCCGGGGaggGUGgcgCGCCGggauccCCCUCCggggaggggGCg -3'
miRNA:   3'- -AGGCCUUg--CACa--GCGGU------GGGAGGa--------CG- -5'
13431 3' -58.1 NC_003409.1 + 4399 0.67 0.751578
Target:  5'- aCUGGAugG-GUCaucuuaCACCCUCCaGCa -3'
miRNA:   3'- aGGCCUugCaCAGcg----GUGGGAGGaCG- -5'
13431 3' -58.1 NC_003409.1 + 107967 0.67 0.742058
Target:  5'- cUCCaGGGGCGUG-C-CCACCguggCCUGCu -3'
miRNA:   3'- -AGG-CCUUGCACaGcGGUGGga--GGACG- -5'
13431 3' -58.1 NC_003409.1 + 107926 0.67 0.742058
Target:  5'- aCUGGAGCGcGUgGCUaaGCCUcagugCCUGCa -3'
miRNA:   3'- aGGCCUUGCaCAgCGG--UGGGa----GGACG- -5'
13431 3' -58.1 NC_003409.1 + 71593 0.67 0.742058
Target:  5'- --gGGGACGUGUCauuGCCACCCagCUa- -3'
miRNA:   3'- aggCCUUGCACAG---CGGUGGGagGAcg -5'
13431 3' -58.1 NC_003409.1 + 133482 0.68 0.732446
Target:  5'- -aCGGuGCGcaccaUCGCCACCaCUCCUGg -3'
miRNA:   3'- agGCCuUGCac---AGCGGUGG-GAGGACg -5'
13431 3' -58.1 NC_003409.1 + 75444 0.68 0.732446
Target:  5'- gCUGGGACGg--CGUCACCC-CUUGUc -3'
miRNA:   3'- aGGCCUUGCacaGCGGUGGGaGGACG- -5'
13431 3' -58.1 NC_003409.1 + 88088 0.68 0.72275
Target:  5'- aCCGGGcACGg--CGCCGCCCaagCCgcaGCa -3'
miRNA:   3'- aGGCCU-UGCacaGCGGUGGGa--GGa--CG- -5'
13431 3' -58.1 NC_003409.1 + 72092 0.68 0.712978
Target:  5'- -aCGGGACGUGU-GCU-CCCUCCUu- -3'
miRNA:   3'- agGCCUUGCACAgCGGuGGGAGGAcg -5'
13431 3' -58.1 NC_003409.1 + 54739 0.68 0.70314
Target:  5'- --gGGAGCGccUUGCCGCCaaCCUGCa -3'
miRNA:   3'- aggCCUUGCacAGCGGUGGgaGGACG- -5'
13431 3' -58.1 NC_003409.1 + 73609 0.68 0.697208
Target:  5'- aCCGGAGgGgaGUUGCCuguaaugucagcguCCaCUCCUGCa -3'
miRNA:   3'- aGGCCUUgCa-CAGCGGu-------------GG-GAGGACG- -5'
13431 3' -58.1 NC_003409.1 + 113163 0.68 0.693244
Target:  5'- cUUGGAGCGcGUCGCC-CCUacgguucCCUGCg -3'
miRNA:   3'- aGGCCUUGCaCAGCGGuGGGa------GGACG- -5'
13431 3' -58.1 NC_003409.1 + 24634 0.69 0.663292
Target:  5'- cCCGGAGgGggaucccgGcgCGCCACCCUCCc-- -3'
miRNA:   3'- aGGCCUUgCa-------Ca-GCGGUGGGAGGacg -5'
13431 3' -58.1 NC_003409.1 + 24724 0.69 0.663292
Target:  5'- cCCGGAGgGggaucccgGcgCGCCACCCUCCc-- -3'
miRNA:   3'- aGGCCUUgCa-------Ca-GCGGUGGGAGGacg -5'
13431 3' -58.1 NC_003409.1 + 24784 0.69 0.663292
Target:  5'- cCCGGAGgGggaucccgGcgCGCCACCCUCCc-- -3'
miRNA:   3'- aGGCCUUgCa-------Ca-GCGGUGGGAGGacg -5'
13431 3' -58.1 NC_003409.1 + 51297 0.69 0.663292
Target:  5'- gCCGaGAugGUGUcggugaCGCCGuCCCccagggcuauuUCCUGCa -3'
miRNA:   3'- aGGC-CUugCACA------GCGGU-GGG-----------AGGACG- -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.