miRNA display CGI


Results 1 - 17 of 17 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
30858 5' -57.7 NC_006552.1 + 44407 0.66 0.617199
Target:  5'- cGGCGAuuGCgCUgCCGGCcGGCGaaACCGGc- -3'
miRNA:   3'- -CCGUU--CG-GA-GGCCGaCCGU--UGGCUaa -5'
30858 5' -57.7 NC_006552.1 + 61188 0.66 0.617199
Target:  5'- cGGCAAGCCUgcgccgauaUCGGCUgcuggGGCGACa---- -3'
miRNA:   3'- -CCGUUCGGA---------GGCCGA-----CCGUUGgcuaa -5'
30858 5' -57.7 NC_006552.1 + 25902 0.66 0.616114
Target:  5'- cGGCGAGCCaUCCGGUgaugcguUGGUgccuACCa--- -3'
miRNA:   3'- -CCGUUCGG-AGGCCG-------ACCGu---UGGcuaa -5'
30858 5' -57.7 NC_006552.1 + 49003 0.66 0.595525
Target:  5'- gGGCAAGC--CCGGC-GGCGcgagcguucaGCCGAa- -3'
miRNA:   3'- -CCGUUCGgaGGCCGaCCGU----------UGGCUaa -5'
30858 5' -57.7 NC_006552.1 + 3580 0.66 0.595525
Target:  5'- uGGcCGAGCCgCCGGCgccGGCAggacuuGCCGc-- -3'
miRNA:   3'- -CC-GUUCGGaGGCCGa--CCGU------UGGCuaa -5'
30858 5' -57.7 NC_006552.1 + 42114 0.66 0.589043
Target:  5'- uGGCGauGGCCUCCuggauguuaaguuuuGucaauaGCUGGCuACCGAUUg -3'
miRNA:   3'- -CCGU--UCGGAGG---------------C------CGACCGuUGGCUAA- -5'
30858 5' -57.7 NC_006552.1 + 6798 0.67 0.532529
Target:  5'- cGGCAAGCCaCCGGCgcccccgacgagcaGCAgcauACCGAUc -3'
miRNA:   3'- -CCGUUCGGaGGCCGac------------CGU----UGGCUAa -5'
30858 5' -57.7 NC_006552.1 + 35332 0.67 0.500371
Target:  5'- cGGCGauGGCCUCgaauCGGUUGcCAGCCGGa- -3'
miRNA:   3'- -CCGU--UCGGAG----GCCGACcGUUGGCUaa -5'
30858 5' -57.7 NC_006552.1 + 33685 0.68 0.466127
Target:  5'- uGCAGGUCUUCGGCgacgaagccggcgGGCAACgGGa- -3'
miRNA:   3'- cCGUUCGGAGGCCGa------------CCGUUGgCUaa -5'
30858 5' -57.7 NC_006552.1 + 11335 0.68 0.450436
Target:  5'- cGGCGucgauGGCUUCCucGGUgacGGCGGCCGAg- -3'
miRNA:   3'- -CCGU-----UCGGAGG--CCGa--CCGUUGGCUaa -5'
30858 5' -57.7 NC_006552.1 + 63485 0.68 0.440778
Target:  5'- uGCcGGCCgCCGGCgccgGaGCAACCGGa- -3'
miRNA:   3'- cCGuUCGGaGGCCGa---C-CGUUGGCUaa -5'
30858 5' -57.7 NC_006552.1 + 21649 0.69 0.421822
Target:  5'- uGCcGGCCaCCGGCUGGCugucACCGu-- -3'
miRNA:   3'- cCGuUCGGaGGCCGACCGu---UGGCuaa -5'
30858 5' -57.7 NC_006552.1 + 61803 0.7 0.351169
Target:  5'- aGCAGGcCCUCCGGCUGuuCGGCCuGAa- -3'
miRNA:   3'- cCGUUC-GGAGGCCGACc-GUUGG-CUaa -5'
30858 5' -57.7 NC_006552.1 + 21082 0.71 0.319129
Target:  5'- aGGCccccagGGGCUUCCGGCUugaccagcGGCGACgGGUUa -3'
miRNA:   3'- -CCG------UUCGGAGGCCGA--------CCGUUGgCUAA- -5'
30858 5' -57.7 NC_006552.1 + 6305 0.72 0.282236
Target:  5'- uGGCuacGCUggCCGGCUGGaAGCCGAUg -3'
miRNA:   3'- -CCGuu-CGGa-GGCCGACCgUUGGCUAa -5'
30858 5' -57.7 NC_006552.1 + 28736 0.72 0.261768
Target:  5'- cGGgAAGCCggCCGGCggcgaaGGCAuGCCGAUg -3'
miRNA:   3'- -CCgUUCGGa-GGCCGa-----CCGU-UGGCUAa -5'
30858 5' -57.7 NC_006552.1 + 49186 0.74 0.213082
Target:  5'- cGGC-GGCCuggUCCGGCUGGUcagcAACCGGg- -3'
miRNA:   3'- -CCGuUCGG---AGGCCGACCG----UUGGCUaa -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.