miRNA display CGI


Results 1 - 20 of 33 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
23257 3' -59.2 NC_005259.1 + 51131 0.66 0.530516
Target:  5'- --aGAUCACCGucgGGGCGGCCaUgAGCg- -3'
miRNA:   3'- ugaCUGGUGGC---UCCGUCGG-AgUCGaa -5'
23257 3' -59.2 NC_005259.1 + 6105 0.66 0.520126
Target:  5'- --aGAUCGCCGAGGCcgaGGCCgccGCUa -3'
miRNA:   3'- ugaCUGGUGGCUCCG---UCGGaguCGAa -5'
23257 3' -59.2 NC_005259.1 + 19379 0.66 0.519092
Target:  5'- cGCUGAUCACCGGccccaacGGCAGCgUCGa--- -3'
miRNA:   3'- -UGACUGGUGGCU-------CCGUCGgAGUcgaa -5'
23257 3' -59.2 NC_005259.1 + 30265 0.66 0.509817
Target:  5'- gACUGACaugCACCGGGccaGCAGCgUCgAGCUc -3'
miRNA:   3'- -UGACUG---GUGGCUC---CGUCGgAG-UCGAa -5'
23257 3' -59.2 NC_005259.1 + 1844 0.66 0.499595
Target:  5'- cGCUG-CCGCCGAGGCcgagaaAGCCgccgCcGCg- -3'
miRNA:   3'- -UGACuGGUGGCUCCG------UCGGa---GuCGaa -5'
23257 3' -59.2 NC_005259.1 + 60150 0.66 0.489465
Target:  5'- cUUGGCCGCCGccucaGCGGCCUCacgGGCg- -3'
miRNA:   3'- uGACUGGUGGCuc---CGUCGGAG---UCGaa -5'
23257 3' -59.2 NC_005259.1 + 17254 0.66 0.489465
Target:  5'- cGCUGGCCACCucagacaAGGCAGUgCUCGaccGCUa -3'
miRNA:   3'- -UGACUGGUGGc------UCCGUCG-GAGU---CGAa -5'
23257 3' -59.2 NC_005259.1 + 55319 0.66 0.489465
Target:  5'- --cGACCACaGGGGUGGUCUUGGCg- -3'
miRNA:   3'- ugaCUGGUGgCUCCGUCGGAGUCGaa -5'
23257 3' -59.2 NC_005259.1 + 23355 0.66 0.479432
Target:  5'- gGCUG-CCugCGAGGCcGCCgaGGCa- -3'
miRNA:   3'- -UGACuGGugGCUCCGuCGGagUCGaa -5'
23257 3' -59.2 NC_005259.1 + 48040 0.67 0.459675
Target:  5'- gUUGACCACCccGGUGGCCaCGGCg- -3'
miRNA:   3'- uGACUGGUGGcuCCGUCGGaGUCGaa -5'
23257 3' -59.2 NC_005259.1 + 54729 0.67 0.459675
Target:  5'- --gGACauaGCCGAGGCuGCCgaCAGCg- -3'
miRNA:   3'- ugaCUGg--UGGCUCCGuCGGa-GUCGaa -5'
23257 3' -59.2 NC_005259.1 + 29768 0.67 0.430875
Target:  5'- gACUGAUCAgacccaCGAGGCAcccccgguGCCUCGGUa- -3'
miRNA:   3'- -UGACUGGUg-----GCUCCGU--------CGGAGUCGaa -5'
23257 3' -59.2 NC_005259.1 + 29390 0.67 0.430875
Target:  5'- cGCcGACCuacACCGAGG--GCCUCGGCg- -3'
miRNA:   3'- -UGaCUGG---UGGCUCCguCGGAGUCGaa -5'
23257 3' -59.2 NC_005259.1 + 21607 0.67 0.430875
Target:  5'- aGCUGAucuacaCCACCGAGGCuGUgUCGcGCg- -3'
miRNA:   3'- -UGACU------GGUGGCUCCGuCGgAGU-CGaa -5'
23257 3' -59.2 NC_005259.1 + 60266 0.67 0.420583
Target:  5'- gGCUGGCCACCagcgcugccGGGCGGCCaucgucgUCGGUg- -3'
miRNA:   3'- -UGACUGGUGGc--------UCCGUCGG-------AGUCGaa -5'
23257 3' -59.2 NC_005259.1 + 48425 0.67 0.420583
Target:  5'- --cGACCGCCaccaccgaggcgcGAGGCAGCggCAGCg- -3'
miRNA:   3'- ugaCUGGUGG-------------CUCCGUCGgaGUCGaa -5'
23257 3' -59.2 NC_005259.1 + 36944 0.68 0.412274
Target:  5'- uGCUG-UCACCGGGGUGcccgcgagaccGCCUCGGCc- -3'
miRNA:   3'- -UGACuGGUGGCUCCGU-----------CGGAGUCGaa -5'
23257 3' -59.2 NC_005259.1 + 42539 0.68 0.412274
Target:  5'- -aUGGgCACCGAGGUGGCgggCAGCUc -3'
miRNA:   3'- ugACUgGUGGCUCCGUCGga-GUCGAa -5'
23257 3' -59.2 NC_005259.1 + 45006 0.68 0.412274
Target:  5'- cGCcGACCGCCGGGGCcgcGCCgccCuGCUUc -3'
miRNA:   3'- -UGaCUGGUGGCUCCGu--CGGa--GuCGAA- -5'
23257 3' -59.2 NC_005259.1 + 45729 0.68 0.412274
Target:  5'- cCUGcgcACCACCGAGGCcgcgcaccGCCUCGGg-- -3'
miRNA:   3'- uGAC---UGGUGGCUCCGu-------CGGAGUCgaa -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.