miRNA display CGI


Results 1 - 20 of 28 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
4009 3' -55.7 NC_001650.1 + 134817 1.07 0.004982
Target:  5'- uAUCAAAUUCACCCGUCUCCGGGGGCAg -3'
miRNA:   3'- -UAGUUUAAGUGGGCAGAGGCCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 109299 0.76 0.446295
Target:  5'- uGUUGAAaUCuccCCCGUCgUCCGGGGGCGc -3'
miRNA:   3'- -UAGUUUaAGu--GGGCAG-AGGCCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 52589 0.71 0.683585
Target:  5'- cGUCGGcUUCGCCCGggagCUCUgggauGGGGGCc -3'
miRNA:   3'- -UAGUUuAAGUGGGCa---GAGG-----CCCCCGu -5'
4009 3' -55.7 NC_001650.1 + 16856 0.71 0.693667
Target:  5'- --uGAggUCACCCGUCUCC--GGGCAg -3'
miRNA:   3'- uagUUuaAGUGGGCAGAGGccCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 183563 0.71 0.693667
Target:  5'- --uGAggUCACCCGUCUCC--GGGCAg -3'
miRNA:   3'- uagUUuaAGUGGGCAGAGGccCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 68740 0.71 0.71367
Target:  5'- cGUCAuggUgGCCCGggUCUCCcgGGGGGCGu -3'
miRNA:   3'- -UAGUuuaAgUGGGC--AGAGG--CCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 123037 0.71 0.723573
Target:  5'- gGUCAGGggCACCCucUCUCUuGGGGCAa -3'
miRNA:   3'- -UAGUUUaaGUGGGc-AGAGGcCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 59740 0.71 0.723573
Target:  5'- cGUCGAGgg-GCCCGUggcCcCCGGGGGCGa -3'
miRNA:   3'- -UAGUUUaagUGGGCA---GaGGCCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 138865 0.69 0.799206
Target:  5'- gGUUggGUUUGggaaCCGagCUCCGGGGGCGa -3'
miRNA:   3'- -UAGuuUAAGUg---GGCa-GAGGCCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 52451 0.69 0.816788
Target:  5'- uUCAAGUggucCACCuCGggccugCUCCGGGGGa- -3'
miRNA:   3'- uAGUUUAa---GUGG-GCa-----GAGGCCCCCgu -5'
4009 3' -55.7 NC_001650.1 + 170310 0.68 0.849888
Target:  5'- -cCAGGggggCGCCUcUCUCCGGGGGa- -3'
miRNA:   3'- uaGUUUaa--GUGGGcAGAGGCCCCCgu -5'
4009 3' -55.7 NC_001650.1 + 3603 0.68 0.849888
Target:  5'- -cCAGGggggCGCCUcUCUCCGGGGGa- -3'
miRNA:   3'- uaGUUUaa--GUGGGcAGAGGCCCCCgu -5'
4009 3' -55.7 NC_001650.1 + 139045 0.68 0.849888
Target:  5'- -gUggGggUACCCGgCUCCGGGGGa- -3'
miRNA:   3'- uaGuuUaaGUGGGCaGAGGCCCCCgu -5'
4009 3' -55.7 NC_001650.1 + 125014 0.68 0.849888
Target:  5'- cUCGA--UCGCCagaggggGUC-CCGGGGGCGg -3'
miRNA:   3'- uAGUUuaAGUGGg------CAGaGGCCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 30308 0.68 0.85769
Target:  5'- gGUCAGggUC-CCCuUCUaCGGGGGCGc -3'
miRNA:   3'- -UAGUUuaAGuGGGcAGAgGCCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 137962 0.68 0.872677
Target:  5'- gGUCAGc--CACCgGUCgCgCGGGGGCGu -3'
miRNA:   3'- -UAGUUuaaGUGGgCAGaG-GCCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 46487 0.67 0.879853
Target:  5'- gGUCAgaAGUUCACCC-UCUCCccggcgucGGGGCc -3'
miRNA:   3'- -UAGU--UUAAGUGGGcAGAGGc-------CCCCGu -5'
4009 3' -55.7 NC_001650.1 + 159090 0.67 0.886808
Target:  5'- -cCAGGUgUCugCCGUC-CCGGGaGCAg -3'
miRNA:   3'- uaGUUUA-AGugGGCAGaGGCCCcCGU- -5'
4009 3' -55.7 NC_001650.1 + 75051 0.67 0.89354
Target:  5'- cUCGucc-CACUCGgg-CCGGGGGCAg -3'
miRNA:   3'- uAGUuuaaGUGGGCagaGGCCCCCGU- -5'
4009 3' -55.7 NC_001650.1 + 78943 0.67 0.89354
Target:  5'- -----uUUUACCUGUCccUCCuGGGGGCGc -3'
miRNA:   3'- uaguuuAAGUGGGCAG--AGG-CCCCCGU- -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.