miRNA display CGI


Results 1 - 20 of 39 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
15749 3' -58.7 NC_004065.1 + 98989 0.73 0.544938
Target:  5'- cCUGCUCCAcaGGGUCGcccacacguucCGCCgCUGGUCu -3'
miRNA:   3'- -GGCGAGGU--UCCAGCu----------GCGG-GACCAGc -5'
15749 3' -58.7 NC_004065.1 + 32268 0.66 0.906123
Target:  5'- aCgGCUCCGAGugcccgcuGUCcGCGUCCUcGGUCu -3'
miRNA:   3'- -GgCGAGGUUC--------CAGcUGCGGGA-CCAGc -5'
15749 3' -58.7 NC_004065.1 + 101897 0.66 0.902595
Target:  5'- gCgGCUCCuccgagcugcuggagGAGGaugcUCGAuuuCGCCCUGuGUCGa -3'
miRNA:   3'- -GgCGAGG---------------UUCC----AGCU---GCGGGAC-CAGC- -5'
15749 3' -58.7 NC_004065.1 + 194954 0.66 0.900201
Target:  5'- cCCGUcucgCCAGcuGGUCGAUGuUCCUGGcCGc -3'
miRNA:   3'- -GGCGa---GGUU--CCAGCUGC-GGGACCaGC- -5'
15749 3' -58.7 NC_004065.1 + 225411 0.66 0.89345
Target:  5'- gCCGCUCCcucucgaAGGGUCGugGCgaaugCUGG-Cu -3'
miRNA:   3'- -GGCGAGG-------UUCCAGCugCGg----GACCaGc -5'
15749 3' -58.7 NC_004065.1 + 115045 0.66 0.892196
Target:  5'- gCCGCcagggCCGAGGgcaaCGGCGCgcgcgaggacgcggCCUcGGUCGg -3'
miRNA:   3'- -GGCGa----GGUUCCa---GCUGCG--------------GGA-CCAGC- -5'
15749 3' -58.7 NC_004065.1 + 74799 0.67 0.85095
Target:  5'- gCGCUCgcgcaagaugcugaCGAGcGUggaGACGCCCgGGUCGg -3'
miRNA:   3'- gGCGAG--------------GUUC-CAg--CUGCGGGaCCAGC- -5'
15749 3' -58.7 NC_004065.1 + 225583 0.68 0.830261
Target:  5'- cCCGCgaCGAGcUCGAgGCCCgagGGUCa -3'
miRNA:   3'- -GGCGagGUUCcAGCUgCGGGa--CCAGc -5'
15749 3' -58.7 NC_004065.1 + 46270 0.68 0.830261
Target:  5'- cCCGUUCgAccuGGUCGAgGCCgUGGgCGa -3'
miRNA:   3'- -GGCGAGgUu--CCAGCUgCGGgACCaGC- -5'
15749 3' -58.7 NC_004065.1 + 225076 0.68 0.813358
Target:  5'- gCCGCUCCAGgagaacuGGaUC-ACGUUCUGGUCu -3'
miRNA:   3'- -GGCGAGGUU-------CC-AGcUGCGGGACCAGc -5'
15749 3' -58.7 NC_004065.1 + 123557 0.68 0.79751
Target:  5'- gCCGCgUCCucgucguacGGGUCGACGCCCagcaUCGa -3'
miRNA:   3'- -GGCG-AGGu--------UCCAGCUGCGGGacc-AGC- -5'
15749 3' -58.7 NC_004065.1 + 229258 0.69 0.792404
Target:  5'- aCGCUCgAAGGUCGAgCGCgaaCCcgcgacgcggcacgcUGGUCGc -3'
miRNA:   3'- gGCGAGgUUCCAGCU-GCG---GG---------------ACCAGC- -5'
15749 3' -58.7 NC_004065.1 + 82605 0.7 0.697972
Target:  5'- -aGCaCC-AGGUUGACGaCCUGGUCGu -3'
miRNA:   3'- ggCGaGGuUCCAGCUGCgGGACCAGC- -5'
15749 3' -58.7 NC_004065.1 + 103326 0.73 0.554349
Target:  5'- gCCGCaggCguAGGUCGAaguacguguCGCCCUGGUgCGg -3'
miRNA:   3'- -GGCGa--GguUCCAGCU---------GCGGGACCA-GC- -5'
15749 3' -58.7 NC_004065.1 + 80996 0.69 0.75365
Target:  5'- cCCGCUcCCGAGGUCa--GCCCgaGGUUc -3'
miRNA:   3'- -GGCGA-GGUUCCAGcugCGGGa-CCAGc -5'
15749 3' -58.7 NC_004065.1 + 30280 0.69 0.75365
Target:  5'- gCaCUUCGGGGUCGugGgCCUgcgGGUCGg -3'
miRNA:   3'- gGcGAGGUUCCAGCugC-GGGa--CCAGC- -5'
15749 3' -58.7 NC_004065.1 + 160595 0.71 0.669368
Target:  5'- uCCGUcgagUCCAgcAGGUCGGCGCgcaCCUGG-CGc -3'
miRNA:   3'- -GGCG----AGGU--UCCAGCUGCG---GGACCaGC- -5'
15749 3' -58.7 NC_004065.1 + 161418 0.71 0.669368
Target:  5'- cUCGCugUCCAGGugcgacguGUCGGCGCUCUGGaUCGc -3'
miRNA:   3'- -GGCG--AGGUUC--------CAGCUGCGGGACC-AGC- -5'
15749 3' -58.7 NC_004065.1 + 88285 0.71 0.640522
Target:  5'- aCGCUCCGAaaacGGUCGggaGCGUCCUuGUCGc -3'
miRNA:   3'- gGCGAGGUU----CCAGC---UGCGGGAcCAGC- -5'
15749 3' -58.7 NC_004065.1 + 35437 0.66 0.911836
Target:  5'- uUCGuCUUCGAGGUguccacCGuCGUgCUGGUCGg -3'
miRNA:   3'- -GGC-GAGGUUCCA------GCuGCGgGACCAGC- -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.