miRNA display CGI


Results 1 - 19 of 19 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
19275 3' -57.7 NC_004685.1 + 8411 0.66 0.644382
Target:  5'- uGCcuGcGGCUGCCCgaCGGUGUGgUCgGCa -3'
miRNA:   3'- -UGuuC-CCGACGGGa-GUCACGU-AGgCG- -5'
19275 3' -57.7 NC_004685.1 + 20167 0.66 0.644382
Target:  5'- uGCAGGGGUcgaauacggcUGCCCcgaGGUGg--CCGCa -3'
miRNA:   3'- -UGUUCCCG----------ACGGGag-UCACguaGGCG- -5'
19275 3' -57.7 NC_004685.1 + 20339 0.66 0.644382
Target:  5'- cCGAGGacgacacacuGCUGCCgUCGGagcUGCuggCCGCg -3'
miRNA:   3'- uGUUCC----------CGACGGgAGUC---ACGua-GGCG- -5'
19275 3' -57.7 NC_004685.1 + 57250 0.66 0.644382
Target:  5'- gGCGcAGGGCUGCCgccuuCUCGGcgaugGC--CCGCa -3'
miRNA:   3'- -UGU-UCCCGACGG-----GAGUCa----CGuaGGCG- -5'
19275 3' -57.7 NC_004685.1 + 3471 0.66 0.622819
Target:  5'- -uGAGGGCaGCCCUUGuugGCGUcguggCCGCa -3'
miRNA:   3'- ugUUCCCGaCGGGAGUca-CGUA-----GGCG- -5'
19275 3' -57.7 NC_004685.1 + 10715 0.66 0.60774
Target:  5'- cACGGGaGGCUGCCauggagcauuggCAGcGCGUgCGCg -3'
miRNA:   3'- -UGUUC-CCGACGGga----------GUCaCGUAgGCG- -5'
19275 3' -57.7 NC_004685.1 + 39449 0.66 0.601288
Target:  5'- gGCAAGGGCcGCgCCUgGGUcCAguUCCGg -3'
miRNA:   3'- -UGUUCCCGaCG-GGAgUCAcGU--AGGCg -5'
19275 3' -57.7 NC_004685.1 + 68478 0.66 0.601288
Target:  5'- cCAAGGGUugUGCCgCgcagUGGUGCGacUCUGCa -3'
miRNA:   3'- uGUUCCCG--ACGG-Ga---GUCACGU--AGGCG- -5'
19275 3' -57.7 NC_004685.1 + 2549 0.66 0.601288
Target:  5'- -gAAGGuGCgUGCCCUCcaGGcUGCAcugcgCCGCg -3'
miRNA:   3'- ugUUCC-CG-ACGGGAG--UC-ACGUa----GGCG- -5'
19275 3' -57.7 NC_004685.1 + 37316 0.66 0.590556
Target:  5'- aGCAGuGGGCgcagGgCCUCGGUGCcgagAUCauCGCg -3'
miRNA:   3'- -UGUU-CCCGa---CgGGAGUCACG----UAG--GCG- -5'
19275 3' -57.7 NC_004685.1 + 1151 0.66 0.590556
Target:  5'- gACcAGGGUgGCCCUCGgccaucGUGCAgCgGCa -3'
miRNA:   3'- -UGuUCCCGaCGGGAGU------CACGUaGgCG- -5'
19275 3' -57.7 NC_004685.1 + 31229 0.67 0.558593
Target:  5'- gGCAAGGGCgucggcucggGCCUggUCGGcaucGCggCCGCg -3'
miRNA:   3'- -UGUUCCCGa---------CGGG--AGUCa---CGuaGGCG- -5'
19275 3' -57.7 NC_004685.1 + 66065 0.68 0.506536
Target:  5'- gGCAAgcGGGCgGUCgUUGGUGCcgCCGUa -3'
miRNA:   3'- -UGUU--CCCGaCGGgAGUCACGuaGGCG- -5'
19275 3' -57.7 NC_004685.1 + 15081 0.69 0.437456
Target:  5'- ---cGGGgaGCUgCUCGGUGCcgagGUCCGCu -3'
miRNA:   3'- uguuCCCgaCGG-GAGUCACG----UAGGCG- -5'
19275 3' -57.7 NC_004685.1 + 21652 0.71 0.348924
Target:  5'- uGCAGGuGGUcgaGCCUUCGGUGUucgGUCUGCa -3'
miRNA:   3'- -UGUUC-CCGa--CGGGAGUCACG---UAGGCG- -5'
19275 3' -57.7 NC_004685.1 + 64414 0.71 0.340803
Target:  5'- aAC-AGGGCUGCCa-UAGUGC-UCUGCc -3'
miRNA:   3'- -UGuUCCCGACGGgaGUCACGuAGGCG- -5'
19275 3' -57.7 NC_004685.1 + 60706 0.71 0.324975
Target:  5'- cACAcccGGCUGaCCCUCGGcGCccAUCCGCa -3'
miRNA:   3'- -UGUuc-CCGAC-GGGAGUCaCG--UAGGCG- -5'
19275 3' -57.7 NC_004685.1 + 39548 0.73 0.267182
Target:  5'- gGCcGGGGCUGCCgggCcgAGUGCggCCGCg -3'
miRNA:   3'- -UGuUCCCGACGGga-G--UCACGuaGGCG- -5'
19275 3' -57.7 NC_004685.1 + 66222 1.11 0.000438
Target:  5'- aACAAGGGCUGCCCUCAGUGCAUCCGCg -3'
miRNA:   3'- -UGUUCCCGACGGGAGUCACGUAGGCG- -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.