miRNA display CGI


Results 1 - 20 of 93 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
26275 3' -63.5 NC_005345.2 + 33125 1.1 0.000149
Target:  5'- cUCGCCGCGGGUCUCACCCUCGCGGGCc -3'
miRNA:   3'- -AGCGGCGCCCAGAGUGGGAGCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 13682 0.77 0.052467
Target:  5'- aCGCCGuCGGGcagCUCGCCCUCGaauGcGGCg -3'
miRNA:   3'- aGCGGC-GCCCa--GAGUGGGAGCg--C-CCG- -5'
26275 3' -63.5 NC_005345.2 + 17302 0.76 0.056983
Target:  5'- uUCGCCGCaGGUgCgccgCACCCgcCGCGGGUg -3'
miRNA:   3'- -AGCGGCGcCCA-Ga---GUGGGa-GCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 47986 0.76 0.063595
Target:  5'- gCGCCGCGcacgCUC-CCCUCGCGGcGCg -3'
miRNA:   3'- aGCGGCGCcca-GAGuGGGAGCGCC-CG- -5'
26275 3' -63.5 NC_005345.2 + 35932 0.76 0.063595
Target:  5'- aCGCCggggcGCGGGgugugCUCGCCg-CGCGGGCu -3'
miRNA:   3'- aGCGG-----CGCCCa----GAGUGGgaGCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 29402 0.75 0.070944
Target:  5'- cCGCCGCcucGGcCUCGguCgCCUCGCGGGCg -3'
miRNA:   3'- aGCGGCGc--CCaGAGU--G-GGAGCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 4347 0.75 0.072905
Target:  5'- -aGCCG-GGGUC-CugCCUCggGCGGGCg -3'
miRNA:   3'- agCGGCgCCCAGaGugGGAG--CGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 34520 0.75 0.076985
Target:  5'- gUCGagGCGGGcCgCGgCCUCGCGGGCg -3'
miRNA:   3'- -AGCggCGCCCaGaGUgGGAGCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 19096 0.74 0.079106
Target:  5'- cUCGCCGuCGGuGUCgUCgGCCCacgCGUGGGCg -3'
miRNA:   3'- -AGCGGC-GCC-CAG-AG-UGGGa--GCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 38769 0.74 0.090575
Target:  5'- aCGCCGUGGGgcaccgaCGCCCUCGaaGGCu -3'
miRNA:   3'- aGCGGCGCCCaga----GUGGGAGCgcCCG- -5'
26275 3' -63.5 NC_005345.2 + 43674 0.73 0.10087
Target:  5'- cCGCCGcCGGGUggcugaucagcCUCGCCg-CGUGGGCc -3'
miRNA:   3'- aGCGGC-GCCCA-----------GAGUGGgaGCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 15041 0.73 0.103611
Target:  5'- gCGUCgGCGGcGaUgUCGCCgUCGCGGGCg -3'
miRNA:   3'- aGCGG-CGCC-C-AgAGUGGgAGCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 3945 0.73 0.106422
Target:  5'- cUCGCCGCGGccggCAgCCUCuCGGGCg -3'
miRNA:   3'- -AGCGGCGCCcagaGUgGGAGcGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 16368 0.73 0.109305
Target:  5'- aUCGCCGCGGcGUCgcCGCUCUgCGCcgccaccaugagGGGCa -3'
miRNA:   3'- -AGCGGCGCC-CAGa-GUGGGA-GCG------------CCCG- -5'
26275 3' -63.5 NC_005345.2 + 25394 0.72 0.112261
Target:  5'- aUCGCCGCcGGcCUCGCCgUCGaggccgaggaaaUGGGCg -3'
miRNA:   3'- -AGCGGCGcCCaGAGUGGgAGC------------GCCCG- -5'
26275 3' -63.5 NC_005345.2 + 41558 0.71 0.135132
Target:  5'- aCGUCGUGcGcGcgCUCGCCgugCUCGCGGGCg -3'
miRNA:   3'- aGCGGCGC-C-Ca-GAGUGG---GAGCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 5285 0.71 0.142416
Target:  5'- cCGCCGCGGaGUCccggccgaCGCCCcgUCGacCGGGCa -3'
miRNA:   3'- aGCGGCGCC-CAGa-------GUGGG--AGC--GCCCG- -5'
26275 3' -63.5 NC_005345.2 + 30026 0.71 0.146192
Target:  5'- gUCGCCgaGCGGaUCggCGCCCacgCGUGGGCc -3'
miRNA:   3'- -AGCGG--CGCCcAGa-GUGGGa--GCGCCCG- -5'
26275 3' -63.5 NC_005345.2 + 20830 0.71 0.146192
Target:  5'- gUCGUCGUccuGGUCgucgucgccgUCGCCCUUGgCGGGCg -3'
miRNA:   3'- -AGCGGCGc--CCAG----------AGUGGGAGC-GCCCG- -5'
26275 3' -63.5 NC_005345.2 + 31842 0.71 0.150058
Target:  5'- cCGCgGCGGGUgCggcgCACCUgcggcgaaCGUGGGCa -3'
miRNA:   3'- aGCGgCGCCCA-Ga---GUGGGa-------GCGCCCG- -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.