miRNA display CGI


Results 1 - 20 of 204 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
13999 3' -55.5 NC_003521.1 + 29 0.66 0.956731
Target:  5'- gGgGuGGGGGGguGUuuuuGGCGG-GGGGGCa -3'
miRNA:   3'- -CgCuCUCCCCguCA----UCGUCgUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 93 0.66 0.963721
Target:  5'- cGCGGGcgugcaGGGaGGCcgaAGcGGCGGCcGGAGCc -3'
miRNA:   3'- -CGCUC------UCC-CCG---UCaUCGUCGuUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 5155 0.67 0.944173
Target:  5'- ---cGGGGGGUucauagauacgaaAGgGGCGGCGAGGGUg -3'
miRNA:   3'- cgcuCUCCCCG-------------UCaUCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 6384 0.69 0.889436
Target:  5'- cGCG-GAGGGGCGccgcagcuaccGcGGCGGCGAcGGGUc -3'
miRNA:   3'- -CGCuCUCCCCGU-----------CaUCGUCGUU-CUCG- -5'
13999 3' -55.5 NC_003521.1 + 7729 0.7 0.845793
Target:  5'- gGUGGGGaGGGCGGcgcgAGCGGCGGaGGCg -3'
miRNA:   3'- -CGCUCUcCCCGUCa---UCGUCGUUcUCG- -5'
13999 3' -55.5 NC_003521.1 + 7849 0.67 0.940123
Target:  5'- aCGAGGGGguGGCGGacggccuccaUGGggaugagcucCAGCAGGAGCa -3'
miRNA:   3'- cGCUCUCC--CCGUC----------AUC----------GUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 7977 0.66 0.956731
Target:  5'- cCGGGAGGGuCcGcGGCGGCGGGGGa -3'
miRNA:   3'- cGCUCUCCCcGuCaUCGUCGUUCUCg -5'
13999 3' -55.5 NC_003521.1 + 13096 0.69 0.875712
Target:  5'- cCGAGGGGGGa---AGCGGCAcAGAGg -3'
miRNA:   3'- cGCUCUCCCCgucaUCGUCGU-UCUCg -5'
13999 3' -55.5 NC_003521.1 + 17162 0.69 0.889436
Target:  5'- cGCGAggccGAGGcGCAGcgcUGGCAGCu-GGGCa -3'
miRNA:   3'- -CGCU----CUCCcCGUC---AUCGUCGuuCUCG- -5'
13999 3' -55.5 NC_003521.1 + 19441 0.71 0.795466
Target:  5'- gGUGAGAaagGGGGgAGgcGCGGCGGGAc- -3'
miRNA:   3'- -CGCUCU---CCCCgUCauCGUCGUUCUcg -5'
13999 3' -55.5 NC_003521.1 + 24231 0.72 0.720755
Target:  5'- aGCGGGuuGGGCAGcgGGCGGUc-GGGCg -3'
miRNA:   3'- -CGCUCucCCCGUCa-UCGUCGuuCUCG- -5'
13999 3' -55.5 NC_003521.1 + 26058 0.68 0.895973
Target:  5'- aGCGGGAGGGGgGagAGgAGgAAGAGg -3'
miRNA:   3'- -CGCUCUCCCCgUcaUCgUCgUUCUCg -5'
13999 3' -55.5 NC_003521.1 + 27038 0.68 0.914244
Target:  5'- cGCGGcGcAGGGGCcgaaAGUAGCguuucaccAGCGAcGAGCc -3'
miRNA:   3'- -CGCU-C-UCCCCG----UCAUCG--------UCGUU-CUCG- -5'
13999 3' -55.5 NC_003521.1 + 28261 0.67 0.940123
Target:  5'- cCGAGAGGaacagcGGCGGcgaugacAGCAGCcacaccgacaacGAGAGCa -3'
miRNA:   3'- cGCUCUCC------CCGUCa------UCGUCG------------UUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 30783 0.67 0.935407
Target:  5'- aGCGcuGGAuguGGGcGCGGUAGCGcacCGAGGGCc -3'
miRNA:   3'- -CGC--UCU---CCC-CGUCAUCGUc--GUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 30891 0.69 0.853568
Target:  5'- cCGAGAGGGccgaGCugaacuGcGGCAgGCGAGAGCg -3'
miRNA:   3'- cGCUCUCCC----CGu-----CaUCGU-CGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 31694 0.71 0.758974
Target:  5'- gGUGAaaGuGGGGCGGcGGCAGCAuGuGCg -3'
miRNA:   3'- -CGCU--CuCCCCGUCaUCGUCGUuCuCG- -5'
13999 3' -55.5 NC_003521.1 + 32363 0.66 0.952912
Target:  5'- gGCGGGAcGGGGCuuuuGGUGGC-GCGu-GGCc -3'
miRNA:   3'- -CGCUCU-CCCCG----UCAUCGuCGUucUCG- -5'
13999 3' -55.5 NC_003521.1 + 33644 0.72 0.720755
Target:  5'- cGUG-GAGGGGCGGc--CAGC-AGAGCg -3'
miRNA:   3'- -CGCuCUCCCCGUCaucGUCGuUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 34303 0.67 0.937321
Target:  5'- cCGuGAGGGGCucgcgcguGUacagggagcguuggaAGCGGCGcAGGGCg -3'
miRNA:   3'- cGCuCUCCCCGu-------CA---------------UCGUCGU-UCUCG- -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.