miRNA display CGI


Results 1 - 20 of 135 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
11408 5' -60.9 NC_003085.1 + 530 0.66 0.371396
Target:  5'- gCGCGCUGCccucgcggagauuGGCgaacgGCgcgAGGCGGCGCGg- -3'
miRNA:   3'- -GCGCGGCG-------------UUGa----CG---UCCGCUGCGCgu -5'
11408 5' -60.9 NC_003085.1 + 731 0.69 0.253039
Target:  5'- aCGCGCCGCucACgGaCAGGCGAgagGUGCu -3'
miRNA:   3'- -GCGCGGCGu-UGaC-GUCCGCUg--CGCGu -5'
11408 5' -60.9 NC_003085.1 + 1049 0.67 0.323445
Target:  5'- gGCGCCG-AACUGCccGCGugGCu-- -3'
miRNA:   3'- gCGCGGCgUUGACGucCGCugCGcgu -5'
11408 5' -60.9 NC_003085.1 + 1059 0.67 0.308273
Target:  5'- aGCGCCGCcgagGCAGacaauGCGGCGCuGCu -3'
miRNA:   3'- gCGCGGCGuugaCGUC-----CGCUGCG-CGu -5'
11408 5' -60.9 NC_003085.1 + 1324 0.68 0.28584
Target:  5'- cCGCGCUGgAggaggcagcccagACUGCuGGCGACGuUGCc -3'
miRNA:   3'- -GCGCGGCgU-------------UGACGuCCGCUGC-GCGu -5'
11408 5' -60.9 NC_003085.1 + 1566 0.72 0.158378
Target:  5'- gCGCGUCGC--CUGCAGuuGCGGCGCgGCGu -3'
miRNA:   3'- -GCGCGGCGuuGACGUC--CGCUGCG-CGU- -5'
11408 5' -60.9 NC_003085.1 + 2119 0.66 0.380855
Target:  5'- uGuCGCaCGCAuggauggGCaaGGGCGGCGCGCu -3'
miRNA:   3'- gC-GCG-GCGUuga----CG--UCCGCUGCGCGu -5'
11408 5' -60.9 NC_003085.1 + 2410 0.67 0.339168
Target:  5'- -cCGCCG-AGCUGguGGUgacgaaGACGCGCu -3'
miRNA:   3'- gcGCGGCgUUGACguCCG------CUGCGCGu -5'
11408 5' -60.9 NC_003085.1 + 2633 0.7 0.206208
Target:  5'- gGCGUCGCAACUcggcgGCgAGGUGAUGcCGCc -3'
miRNA:   3'- gCGCGGCGUUGA-----CG-UCCGCUGC-GCGu -5'
11408 5' -60.9 NC_003085.1 + 3139 0.66 0.397569
Target:  5'- gCGCGUCG-AAgaGUGGGCGcucgcugacuuccGCGCGCAc -3'
miRNA:   3'- -GCGCGGCgUUgaCGUCCGC-------------UGCGCGU- -5'
11408 5' -60.9 NC_003085.1 + 3489 0.67 0.330452
Target:  5'- gGCG-CGCAuCUGCcgccccaAGGCGACGCuGUAc -3'
miRNA:   3'- gCGCgGCGUuGACG-------UCCGCUGCG-CGU- -5'
11408 5' -60.9 NC_003085.1 + 3582 0.67 0.308273
Target:  5'- gCGCGCCuc-GCUGCcgAGGCGGCGaacugGCAg -3'
miRNA:   3'- -GCGCGGcguUGACG--UCCGCUGCg----CGU- -5'
11408 5' -60.9 NC_003085.1 + 3626 0.75 0.08888
Target:  5'- uGCGCCGCGACUgGCuGGCcgagaggGACGCuGCAc -3'
miRNA:   3'- gCGCGGCGUUGA-CGuCCG-------CUGCG-CGU- -5'
11408 5' -60.9 NC_003085.1 + 3691 0.67 0.347234
Target:  5'- uGCGUugggaUGCGGCcacGCAGcGCGACGUGCc -3'
miRNA:   3'- gCGCG-----GCGUUGa--CGUC-CGCUGCGCGu -5'
11408 5' -60.9 NC_003085.1 + 3706 0.8 0.037034
Target:  5'- cCGCGuCCGguGCUGguGGUGACGaCGCAg -3'
miRNA:   3'- -GCGC-GGCguUGACguCCGCUGC-GCGU- -5'
11408 5' -60.9 NC_003085.1 + 4093 0.67 0.347234
Target:  5'- aGCGcCCGCAcucgccGCUGgaguuGGGCGcCGCGCu -3'
miRNA:   3'- gCGC-GGCGU------UGACg----UCCGCuGCGCGu -5'
11408 5' -60.9 NC_003085.1 + 4138 0.68 0.293649
Target:  5'- aGCGCCGCucuacggagcGACUGCuGGCGcaacucCGCGa- -3'
miRNA:   3'- gCGCGGCG----------UUGACGuCCGCu-----GCGCgu -5'
11408 5' -60.9 NC_003085.1 + 5313 0.7 0.222825
Target:  5'- gCGCGCCGUc-CUGaAGGCGACcgagaaGCGCGu -3'
miRNA:   3'- -GCGCGGCGuuGACgUCCGCUG------CGCGU- -5'
11408 5' -60.9 NC_003085.1 + 5525 0.7 0.206208
Target:  5'- aCGUGCuCGC-ACUGguGcGCGaaguGCGCGCAa -3'
miRNA:   3'- -GCGCG-GCGuUGACguC-CGC----UGCGCGU- -5'
11408 5' -60.9 NC_003085.1 + 5948 0.66 0.395788
Target:  5'- gGCGCCGUucccguccacgccgGGCUGCuggAGGCGGUGgGCc -3'
miRNA:   3'- gCGCGGCG--------------UUGACG---UCCGCUGCgCGu -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.