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
23284 3' -56.5 NC_005259.1 + 42649 0.66 0.729948
Target:  5'- gGCCCCGAugugGgcGGCCacgcggcugcugUUGGCGAUCuCg -3'
miRNA:   3'- gUGGGGCU----CuuUCGG------------AGCCGCUAGuG- -5'
23284 3' -56.5 NC_005259.1 + 7707 0.66 0.719547
Target:  5'- cCACCaucgucugggCCGAGGGAuaccucacccGCCUCGaggacGCGGUCACc -3'
miRNA:   3'- -GUGG----------GGCUCUUU----------CGGAGC-----CGCUAGUG- -5'
23284 3' -56.5 NC_005259.1 + 4720 0.66 0.718502
Target:  5'- cCGCgCCCGAGAAAGCCcgcaaggaccggcUCaGGcCGGUCc- -3'
miRNA:   3'- -GUG-GGGCUCUUUCGG-------------AG-CC-GCUAGug -5'
23284 3' -56.5 NC_005259.1 + 44749 0.66 0.717456
Target:  5'- cCGCgCCGAGGcucuuGAGCaccgaucccgcaUCGGCGGUCGa -3'
miRNA:   3'- -GUGgGGCUCU-----UUCGg-----------AGCCGCUAGUg -5'
23284 3' -56.5 NC_005259.1 + 13237 0.66 0.698507
Target:  5'- gGCCaCCGuGAGGGCCgagcaccCGGCGGUa-- -3'
miRNA:   3'- gUGG-GGCuCUUUCGGa------GCCGCUAgug -5'
23284 3' -56.5 NC_005259.1 + 22384 0.66 0.687888
Target:  5'- aAgCCCG-GucGGCCUCGGCGAc--- -3'
miRNA:   3'- gUgGGGCuCuuUCGGAGCCGCUagug -5'
23284 3' -56.5 NC_005259.1 + 67374 0.66 0.677219
Target:  5'- gAUCuuGGGGAaauuacgcuuGGCCUCGGgGGugUCACg -3'
miRNA:   3'- gUGGggCUCUU----------UCGGAGCCgCU--AGUG- -5'
23284 3' -56.5 NC_005259.1 + 8314 0.67 0.645005
Target:  5'- cCGCCuuGucGGAGCUgccgaCGGCGAUCAg -3'
miRNA:   3'- -GUGGggCucUUUCGGa----GCCGCUAGUg -5'
23284 3' -56.5 NC_005259.1 + 45378 0.67 0.612689
Target:  5'- uUugCCCGAGGAAuuUCUCGG-GGUCGCc -3'
miRNA:   3'- -GugGGGCUCUUUc-GGAGCCgCUAGUG- -5'
23284 3' -56.5 NC_005259.1 + 29915 0.67 0.621302
Target:  5'- gCugCCCGAGAccaucgacgcguGGCCgccacgCGGCccGGUCGCg -3'
miRNA:   3'- -GugGGGCUCUu-----------UCGGa-----GCCG--CUAGUG- -5'
23284 3' -56.5 NC_005259.1 + 49030 0.67 0.623457
Target:  5'- cCACCCCGGucGAGUCggcaCGGaCGAUgACg -3'
miRNA:   3'- -GUGGGGCUcuUUCGGa---GCC-GCUAgUG- -5'
23284 3' -56.5 NC_005259.1 + 17152 0.67 0.633154
Target:  5'- gCACCCCGcagaagaAGAAAGCUgacgacaaGGCGG-CGCa -3'
miRNA:   3'- -GUGGGGC-------UCUUUCGGag------CCGCUaGUG- -5'
23284 3' -56.5 NC_005259.1 + 33307 0.67 0.634232
Target:  5'- gCGgCUCGAucccGCCgUCGGCGGUCACg -3'
miRNA:   3'- -GUgGGGCUcuuuCGG-AGCCGCUAGUG- -5'
23284 3' -56.5 NC_005259.1 + 60910 0.67 0.634232
Target:  5'- cCACCaucgugaaaCCGAuGAGcucGGCCUUGGUGAUCGu -3'
miRNA:   3'- -GUGG---------GGCU-CUU---UCGGAGCCGCUAGUg -5'
23284 3' -56.5 NC_005259.1 + 58853 0.67 0.638542
Target:  5'- uCACCCuCGGGcucgccgucgucgucGucGCCUCGGC-AUCGCc -3'
miRNA:   3'- -GUGGG-GCUC---------------UuuCGGAGCCGcUAGUG- -5'
23284 3' -56.5 NC_005259.1 + 46519 0.67 0.645005
Target:  5'- gAUCCCGc--GAGCCggUCGGgGAUCGCc -3'
miRNA:   3'- gUGGGGCucuUUCGG--AGCCgCUAGUG- -5'
23284 3' -56.5 NC_005259.1 + 64760 0.67 0.655768
Target:  5'- gCGCCUCGcGAcggugcGCCUCGGCGGccCGCu -3'
miRNA:   3'- -GUGGGGCuCUuu----CGGAGCCGCUa-GUG- -5'
23284 3' -56.5 NC_005259.1 + 41263 0.68 0.59121
Target:  5'- cCGCCCCGGucGAGCacccucgUCGGCGcacucauucGUCACg -3'
miRNA:   3'- -GUGGGGCUcuUUCGg------AGCCGC---------UAGUG- -5'
23284 3' -56.5 NC_005259.1 + 51779 0.68 0.601937
Target:  5'- gCGCCuuGAGGuauucGGCgCUCGGCgGGUCGg -3'
miRNA:   3'- -GUGGggCUCUu----UCG-GAGCCG-CUAGUg -5'
23284 3' -56.5 NC_005259.1 + 1292 0.68 0.601937
Target:  5'- gACCCCGAGGucGAGCuCUacGCGGUCGu -3'
miRNA:   3'- gUGGGGCUCU--UUCG-GAgcCGCUAGUg -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.