miRNA display CGI


Results 1 - 20 of 41 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
31876 5' -63 NC_006938.1 + 40933 1.09 0.000253
Target:  5'- aGCCCAAGCUCGGCUCGACCCGCCCCGc -3'
miRNA:   3'- -CGGGUUCGAGCCGAGCUGGGCGGGGC- -5'
31876 5' -63 NC_006938.1 + 7058 0.67 0.314162
Target:  5'- aGCCUggGCgucgcccCGGCUCcaccuCCCuCCCCGa -3'
miRNA:   3'- -CGGGuuCGa------GCCGAGcu---GGGcGGGGC- -5'
31876 5' -63 NC_006938.1 + 61659 0.67 0.344129
Target:  5'- uGCCCGAGauguugaacgcUUCGGCggcgCGGCCCGgaCCUCu -3'
miRNA:   3'- -CGGGUUC-----------GAGCCGa---GCUGGGC--GGGGc -5'
31876 5' -63 NC_006938.1 + 47840 0.66 0.367921
Target:  5'- cGCCUAcacAGg-CGGCUCGcucCCCGUCCUGc -3'
miRNA:   3'- -CGGGU---UCgaGCCGAGCu--GGGCGGGGC- -5'
31876 5' -63 NC_006938.1 + 23715 0.66 0.391125
Target:  5'- uGCUCGAGCgcgcccugagUGGUgccgcgaacaacUGACCCGUCCCGg -3'
miRNA:   3'- -CGGGUUCGa---------GCCGa-----------GCUGGGCGGGGC- -5'
31876 5' -63 NC_006938.1 + 46077 0.66 0.392819
Target:  5'- gGCCCAGGCagaCGGCaCGGCCgGaaacgacaucCCCCu -3'
miRNA:   3'- -CGGGUUCGa--GCCGaGCUGGgC----------GGGGc -5'
31876 5' -63 NC_006938.1 + 51944 0.66 0.410013
Target:  5'- --gUggGCUCGGCg-GugCCGCCCg- -3'
miRNA:   3'- cggGuuCGAGCCGagCugGGCGGGgc -5'
31876 5' -63 NC_006938.1 + 46684 0.66 0.410013
Target:  5'- uGCUCAAGCgagcggagcaggUCGcGCUCGucgcACCCGgCUCGg -3'
miRNA:   3'- -CGGGUUCG------------AGC-CGAGC----UGGGCgGGGC- -5'
31876 5' -63 NC_006938.1 + 1816 0.66 0.410013
Target:  5'- uGUCCGGGCUucagaccuacacCGGCUCuGACUCGggcaucuucCCCCa -3'
miRNA:   3'- -CGGGUUCGA------------GCCGAG-CUGGGC---------GGGGc -5'
31876 5' -63 NC_006938.1 + 29630 0.68 0.275592
Target:  5'- cGCCCGcuggcaccagaAGCcaugguggaggaggaUCuGGCUCGACgagCCGCCCCu -3'
miRNA:   3'- -CGGGU-----------UCG---------------AG-CCGAGCUG---GGCGGGGc -5'
31876 5' -63 NC_006938.1 + 23422 0.68 0.272987
Target:  5'- gGCCCucuccggaGAGCUC--CUCGACCUGgCCCGu -3'
miRNA:   3'- -CGGG--------UUCGAGccGAGCUGGGCgGGGC- -5'
31876 5' -63 NC_006938.1 + 17858 0.73 0.132356
Target:  5'- --gCGAGCUCGGCUCGuacauccaccuccuuCCCGCCCg- -3'
miRNA:   3'- cggGUUCGAGCCGAGCu--------------GGGCGGGgc -5'
31876 5' -63 NC_006938.1 + 32947 0.72 0.146449
Target:  5'- aGCUCGAccGCUCguucgacuggGGCUCG-UCCGCCCCGu -3'
miRNA:   3'- -CGGGUU--CGAG----------CCGAGCuGGGCGGGGC- -5'
31876 5' -63 NC_006938.1 + 34572 0.72 0.150277
Target:  5'- gGUCgGAGCgaaugccCGGCUCGACCUGCCgaCGg -3'
miRNA:   3'- -CGGgUUCGa------GCCGAGCUGGGCGGg-GC- -5'
31876 5' -63 NC_006938.1 + 7976 0.72 0.154196
Target:  5'- cCCCAuccuguGCUCGGCgaccCGGCCCaGCuCCCGc -3'
miRNA:   3'- cGGGUu-----CGAGCCGa---GCUGGG-CG-GGGC- -5'
31876 5' -63 NC_006938.1 + 28768 0.7 0.203758
Target:  5'- uGCCCGAGCUCGuGC-CgGACCuCGaCCCa -3'
miRNA:   3'- -CGGGUUCGAGC-CGaG-CUGG-GCgGGGc -5'
31876 5' -63 NC_006938.1 + 50209 0.7 0.203758
Target:  5'- cGCCCAGGCacCGGCuggcuuugUCGACaCCGCCauCCa -3'
miRNA:   3'- -CGGGUUCGa-GCCG--------AGCUG-GGCGG--GGc -5'
31876 5' -63 NC_006938.1 + 20258 0.69 0.242076
Target:  5'- aGCCCu-GUUCGGCUgGgACCCGaUCCGg -3'
miRNA:   3'- -CGGGuuCGAGCCGAgC-UGGGCgGGGC- -5'
31876 5' -63 NC_006938.1 + 39108 0.68 0.272987
Target:  5'- uGCCaugcAGCUUGGCaUCGGCuCCGCCaaGg -3'
miRNA:   3'- -CGGgu--UCGAGCCG-AGCUG-GGCGGggC- -5'
31876 5' -63 NC_006938.1 + 53707 0.75 0.098826
Target:  5'- gGCCCGAcacuccGCUUGauagaGCUCGACCgCGCCCUGg -3'
miRNA:   3'- -CGGGUU------CGAGC-----CGAGCUGG-GCGGGGC- -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.