miRNA display CGI


Results 1 - 20 of 21 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
11456 5' -56.5 NC_003085.1 + 47177 0.66 0.632682
Target:  5'- -cCGUgcugCCGgAGC-CCGCGAagaAGUCCg -3'
miRNA:   3'- gaGUAa---GGCgUCGcGGCGCU---UCAGGa -5'
11456 5' -56.5 NC_003085.1 + 25123 0.66 0.610603
Target:  5'- -cCGUcgCCGUagAGCGCCGCGGAGa--- -3'
miRNA:   3'- gaGUAa-GGCG--UCGCGGCGCUUCagga -5'
11456 5' -56.5 NC_003085.1 + 45248 0.66 0.610603
Target:  5'- gCUCAgcguaacCCGCcGCGCgucaGCGgcGUCCUg -3'
miRNA:   3'- -GAGUaa-----GGCGuCGCGg---CGCuuCAGGA- -5'
11456 5' -56.5 NC_003085.1 + 27387 0.66 0.599587
Target:  5'- cCUC-UUCCGCGGCGgCGaUGGccuuGUCCa -3'
miRNA:   3'- -GAGuAAGGCGUCGCgGC-GCUu---CAGGa -5'
11456 5' -56.5 NC_003085.1 + 34254 0.66 0.599587
Target:  5'- cCUCGcccacUUCCGCGGCGCgGCGcuGgcgcaCCg -3'
miRNA:   3'- -GAGU-----AAGGCGUCGCGgCGCuuCa----GGa -5'
11456 5' -56.5 NC_003085.1 + 13689 0.66 0.588599
Target:  5'- -aCAccggCCGUcGCGCCGCGAAGcaCCa -3'
miRNA:   3'- gaGUaa--GGCGuCGCGGCGCUUCa-GGa -5'
11456 5' -56.5 NC_003085.1 + 44284 0.66 0.577647
Target:  5'- gCUUGUUCCucccgucgaGCAGCaaucGCCGCGAGGUgUUg -3'
miRNA:   3'- -GAGUAAGG---------CGUCG----CGGCGCUUCAgGA- -5'
11456 5' -56.5 NC_003085.1 + 23563 0.67 0.566741
Target:  5'- gCUCGg--CGCGGCGuuGCGAuGUCgCUg -3'
miRNA:   3'- -GAGUaagGCGUCGCggCGCUuCAG-GA- -5'
11456 5' -56.5 NC_003085.1 + 20911 0.67 0.565654
Target:  5'- uCUCcgUCCaGCAGUcguaggcgacgacGCCGCGGauucgcccugacGGUCCa -3'
miRNA:   3'- -GAGuaAGG-CGUCG-------------CGGCGCU------------UCAGGa -5'
11456 5' -56.5 NC_003085.1 + 41313 0.67 0.555889
Target:  5'- aCUCGUUCgccugaugCGCGGCGCUugaGC-AGGUCCa -3'
miRNA:   3'- -GAGUAAG--------GCGUCGCGG---CGcUUCAGGa -5'
11456 5' -56.5 NC_003085.1 + 28869 0.67 0.545097
Target:  5'- ---cUUCCGCGGCGCUGcCGAgcagcAGUCg- -3'
miRNA:   3'- gaguAAGGCGUCGCGGC-GCU-----UCAGga -5'
11456 5' -56.5 NC_003085.1 + 32472 0.67 0.534374
Target:  5'- uCUCGUcgCCGuCGGCGUCGCG-GGcCCg -3'
miRNA:   3'- -GAGUAa-GGC-GUCGCGGCGCuUCaGGa -5'
11456 5' -56.5 NC_003085.1 + 34294 0.68 0.49956
Target:  5'- --uGUUCCGCcgAGCGUCGCGGGcagggcaccgaggcGUCCa -3'
miRNA:   3'- gagUAAGGCG--UCGCGGCGCUU--------------CAGGa -5'
11456 5' -56.5 NC_003085.1 + 45328 0.68 0.482021
Target:  5'- gUCGcUCCGUagAGCGgCGCuGGAGUCCc -3'
miRNA:   3'- gAGUaAGGCG--UCGCgGCG-CUUCAGGa -5'
11456 5' -56.5 NC_003085.1 + 19054 0.68 0.482021
Target:  5'- --gAUUCCGCGGCGCgCGgCGGAGcaggcgCCg -3'
miRNA:   3'- gagUAAGGCGUCGCG-GC-GCUUCa-----GGa -5'
11456 5' -56.5 NC_003085.1 + 30410 0.68 0.471843
Target:  5'- gCUCcg-CCGC-GCGCCGCGGAaucUCCa -3'
miRNA:   3'- -GAGuaaGGCGuCGCGGCGCUUc--AGGa -5'
11456 5' -56.5 NC_003085.1 + 5645 0.69 0.451823
Target:  5'- gCUCGcccugugacUUgCGCgAGCGCCGCGGAGagauUCCg -3'
miRNA:   3'- -GAGU---------AAgGCG-UCGCGGCGCUUC----AGGa -5'
11456 5' -56.5 NC_003085.1 + 40081 0.7 0.394713
Target:  5'- --aGUUUCGCucGUGCCGUGAAGUUCa -3'
miRNA:   3'- gagUAAGGCGu-CGCGGCGCUUCAGGa -5'
11456 5' -56.5 NC_003085.1 + 20600 0.72 0.266947
Target:  5'- ----cUCgGCAGCGCCGCgGAAGUCg- -3'
miRNA:   3'- gaguaAGgCGUCGCGGCG-CUUCAGga -5'
11456 5' -56.5 NC_003085.1 + 43807 0.73 0.240727
Target:  5'- uCUC--UCCGCGGCGCuCGCGcAAGUCa- -3'
miRNA:   3'- -GAGuaAGGCGUCGCG-GCGC-UUCAGga -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.