miRNA display CGI


Results 1 - 20 of 22 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
22584 5' -54.8 NC_005091.1 + 44191 0.66 0.757888
Target:  5'- cGCCGUg--CGCGACagUGCCguaUGCGGCGu -3'
miRNA:   3'- -UGGCAguaGUGUUGg-AUGG---ACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 46823 0.66 0.757888
Target:  5'- gGCgGUCGUguccgggacgaCGCGGCCUuccaacacguCCUGUGGCGu -3'
miRNA:   3'- -UGgCAGUA-----------GUGUUGGAu---------GGACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 41243 0.66 0.751656
Target:  5'- gGCCgGUgAUCGCGcgcAUCUGCCgaacgaguuccagcuUGCGGCGa -3'
miRNA:   3'- -UGG-CAgUAGUGU---UGGAUGG---------------ACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 33519 0.66 0.747476
Target:  5'- uCCG-CAUCACGG-CUGCCUGCGu-- -3'
miRNA:   3'- uGGCaGUAGUGUUgGAUGGACGCcgu -5'
22584 5' -54.8 NC_005091.1 + 50558 0.66 0.736945
Target:  5'- aACCGUCGUaaggCGgAugUUGCCggUGCGGUAg -3'
miRNA:   3'- -UGGCAGUA----GUgUugGAUGG--ACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 50810 0.66 0.736945
Target:  5'- gGCCGUCGUgcgCGCGGCUauCCggaGCGGUAc -3'
miRNA:   3'- -UGGCAGUA---GUGUUGGauGGa--CGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 13899 0.66 0.715575
Target:  5'- aGCCGUCGUCugGuugaACCgcaGCUUGUaccGGCGc -3'
miRNA:   3'- -UGGCAGUAGugU----UGGa--UGGACG---CCGU- -5'
22584 5' -54.8 NC_005091.1 + 11956 0.66 0.714497
Target:  5'- aGCCGUCGUCcugcgugacggugACGugCUcguGCCUuCGGCGu -3'
miRNA:   3'- -UGGCAGUAG-------------UGUugGA---UGGAcGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 19220 0.66 0.714497
Target:  5'- uACCGUCAUCGgGuuCgCUACUacuucgggauucaUGCGGCGc -3'
miRNA:   3'- -UGGCAGUAGUgUu-G-GAUGG-------------ACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 13890 0.67 0.69387
Target:  5'- gACgGUCAgCACGACgCUcgUUGCGGCAg -3'
miRNA:   3'- -UGgCAGUaGUGUUG-GAugGACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 5692 0.68 0.624331
Target:  5'- cGCCGgaUCAUCccgGCGAUCUccuuagcgagcgcaGCUUGCGGCGa -3'
miRNA:   3'- -UGGC--AGUAG---UGUUGGA--------------UGGACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 46782 0.68 0.616575
Target:  5'- aACCGUCAUCAgAuuCCgguaUGCCgcacGCGGCu -3'
miRNA:   3'- -UGGCAGUAGUgUu-GG----AUGGa---CGCCGu -5'
22584 5' -54.8 NC_005091.1 + 19439 0.69 0.546364
Target:  5'- gACCGUCcaAUCGCugcaccagcaaucGCCgaacacgacgGCCUGCGGCGu -3'
miRNA:   3'- -UGGCAG--UAGUGu------------UGGa---------UGGACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 21321 0.69 0.539893
Target:  5'- aGCgCGUCAgaaacacugcUCGCAACC-GCCUGCGcuGCAa -3'
miRNA:   3'- -UG-GCAGU----------AGUGUUGGaUGGACGC--CGU- -5'
22584 5' -54.8 NC_005091.1 + 8829 0.69 0.539893
Target:  5'- cGCCGaaCAUCGCAGCCUGCacaaUGauauCGGCGa -3'
miRNA:   3'- -UGGCa-GUAGUGUUGGAUGg---AC----GCCGU- -5'
22584 5' -54.8 NC_005091.1 + 36611 0.69 0.539893
Target:  5'- cGCCGUCGaUACuggaaguGCCcGCaCUGCGGCGa -3'
miRNA:   3'- -UGGCAGUaGUGu------UGGaUG-GACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 30288 0.7 0.466691
Target:  5'- cUCGUCGUCggugaaaucgaACGGCUUGCCcggUGCGGCGu -3'
miRNA:   3'- uGGCAGUAG-----------UGUUGGAUGG---ACGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 34313 0.71 0.456645
Target:  5'- cGCCGgggugCGCGACCUGaauccaguagcCCUGCGGCc -3'
miRNA:   3'- -UGGCagua-GUGUUGGAU-----------GGACGCCGu -5'
22584 5' -54.8 NC_005091.1 + 11393 0.71 0.446716
Target:  5'- gGCCG-CGUCACGcugcgcuucgGCCUGCCccuguuucGCGGCGg -3'
miRNA:   3'- -UGGCaGUAGUGU----------UGGAUGGa-------CGCCGU- -5'
22584 5' -54.8 NC_005091.1 + 48845 0.77 0.207488
Target:  5'- cCCGU-GUCACGGCCUGCCgcgUGUGGCGu -3'
miRNA:   3'- uGGCAgUAGUGUUGGAUGG---ACGCCGU- -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.