miRNA display CGI


Results 1 - 16 of 16 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
33285 3' -58.8 NC_007605.1 + 39094 0.66 0.784867
Target:  5'- -gGCUGCcccGGAgc-GCCAggaaccccggcUGCCCCAGg -3'
miRNA:   3'- ugCGACGa--CCUacaCGGU-----------ACGGGGUC- -5'
33285 3' -58.8 NC_007605.1 + 116358 0.66 0.784867
Target:  5'- aGCGCcgGCUGGAaaUGCg--GCCCCAu -3'
miRNA:   3'- -UGCGa-CGACCUacACGguaCGGGGUc -5'
33285 3' -58.8 NC_007605.1 + 61864 0.67 0.757004
Target:  5'- uACGCcaugaUGCUGGccucUGUGCCccggGUGUCCCGc -3'
miRNA:   3'- -UGCG-----ACGACCu---ACACGG----UACGGGGUc -5'
33285 3' -58.8 NC_007605.1 + 73520 0.67 0.757004
Target:  5'- -aGCUGCUGGAcacGCaCAUGCUcagCCAGg -3'
miRNA:   3'- ugCGACGACCUacaCG-GUACGG---GGUC- -5'
33285 3' -58.8 NC_007605.1 + 159100 0.67 0.750354
Target:  5'- cACGUUGCUGGGUGggggaaagagcccgcUcuccuccGCCAgggGCCCCGu -3'
miRNA:   3'- -UGCGACGACCUAC---------------A-------CGGUa--CGGGGUc -5'
33285 3' -58.8 NC_007605.1 + 162202 0.67 0.747489
Target:  5'- uGCGCauguccaaggUGCUGa---UGCUGUGCCCCAGg -3'
miRNA:   3'- -UGCG----------ACGACcuacACGGUACGGGGUC- -5'
33285 3' -58.8 NC_007605.1 + 100452 0.67 0.728169
Target:  5'- uACGUgGC-GGAgcuugGUGCUGUGCCCCu- -3'
miRNA:   3'- -UGCGaCGaCCUa----CACGGUACGGGGuc -5'
33285 3' -58.8 NC_007605.1 + 132386 0.67 0.728169
Target:  5'- -gGaCUGuCUGGGgagaggGUGCCGUGCcggaCCCAGg -3'
miRNA:   3'- ugC-GAC-GACCUa-----CACGGUACG----GGGUC- -5'
33285 3' -58.8 NC_007605.1 + 63626 0.68 0.698603
Target:  5'- uAUGCUucgucgggggGCUGGGccUGcaGCCGUGCCCCGc -3'
miRNA:   3'- -UGCGA----------CGACCU--ACa-CGGUACGGGGUc -5'
33285 3' -58.8 NC_007605.1 + 59076 0.68 0.658456
Target:  5'- gGCGCgGCUGGAUGcccUCAUGCgCCAa -3'
miRNA:   3'- -UGCGaCGACCUACac-GGUACGgGGUc -5'
33285 3' -58.8 NC_007605.1 + 156195 0.68 0.648347
Target:  5'- gGCGCcGCagggguggUGGAUGUGCgGggGCCUCAGc -3'
miRNA:   3'- -UGCGaCG--------ACCUACACGgUa-CGGGGUC- -5'
33285 3' -58.8 NC_007605.1 + 139094 0.69 0.628099
Target:  5'- gAUGCUGCUGG-UGUGCUguaaauaaGUGCCUa-- -3'
miRNA:   3'- -UGCGACGACCuACACGG--------UACGGGguc -5'
33285 3' -58.8 NC_007605.1 + 133920 0.7 0.537944
Target:  5'- gGCGCUGCUGG-UGUGagGaGCCCCc- -3'
miRNA:   3'- -UGCGACGACCuACACggUaCGGGGuc -5'
33285 3' -58.8 NC_007605.1 + 161019 0.72 0.461768
Target:  5'- cUGCUGCUGGGUGgaggaggGCaggGCUCCGGg -3'
miRNA:   3'- uGCGACGACCUACa------CGguaCGGGGUC- -5'
33285 3' -58.8 NC_007605.1 + 68695 0.73 0.391661
Target:  5'- gGCGUUGUUGGAguccUGUGCCcagugguUGCaCCCGGg -3'
miRNA:   3'- -UGCGACGACCU----ACACGGu------ACG-GGGUC- -5'
33285 3' -58.8 NC_007605.1 + 45158 1.09 0.001576
Target:  5'- cACGCUGCUGGAUGUGCCAUGCCCCAGg -3'
miRNA:   3'- -UGCGACGACCUACACGGUACGGGGUC- -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.