miRNA display CGI


Results 1 - 20 of 22 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
10309 3' -47.2 NC_002687.1 + 39410 0.66 0.999999
Target:  5'- aGCUCgCGGGCga---CAUGAgcGugGCCu -3'
miRNA:   3'- -CGAG-GCUCGaaaaaGUACU--UugCGGu -5'
10309 3' -47.2 NC_002687.1 + 280015 0.66 0.999999
Target:  5'- aGCUuuGcccaGGaCUUUUUCG-GGAACGCCu -3'
miRNA:   3'- -CGAggC----UC-GAAAAAGUaCUUUGCGGu -5'
10309 3' -47.2 NC_002687.1 + 231513 0.66 0.999998
Target:  5'- aCUCCGuGUUg--UCcgGGAuuaGCGCCAc -3'
miRNA:   3'- cGAGGCuCGAaaaAGuaCUU---UGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 299415 0.66 0.999998
Target:  5'- aGC-CCGAGUg--UUCGgggcccgGAGACGUCGa -3'
miRNA:   3'- -CGaGGCUCGaaaAAGUa------CUUUGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 181536 0.67 0.999996
Target:  5'- aGCUCCaGAGUgg---CAUGGGcugcugccuugaugcGCGCCAu -3'
miRNA:   3'- -CGAGG-CUCGaaaaaGUACUU---------------UGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 163510 0.67 0.999995
Target:  5'- gGCUCuCGAGCUUguaCAUuaGAAACuCCAg -3'
miRNA:   3'- -CGAG-GCUCGAAaaaGUA--CUUUGcGGU- -5'
10309 3' -47.2 NC_002687.1 + 284754 0.67 0.999994
Target:  5'- cGCUCCGgaAGCUg--UCGaugcaccugcUGAAcGCGCCGc -3'
miRNA:   3'- -CGAGGC--UCGAaaaAGU----------ACUU-UGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 202498 0.67 0.999988
Target:  5'- -gUUCGAGCUguacgaUAUGAAcgGCGCCAa -3'
miRNA:   3'- cgAGGCUCGAaaaa--GUACUU--UGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 259793 0.67 0.999988
Target:  5'- uUUCuCGAGCgaugUUCAUGGccaaggcgggcAGCGCCGa -3'
miRNA:   3'- cGAG-GCUCGaaa-AAGUACU-----------UUGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 42499 0.67 0.999988
Target:  5'- aUUCCGuuCUUUUUCAUGGcuAugGCUAc -3'
miRNA:   3'- cGAGGCucGAAAAAGUACU--UugCGGU- -5'
10309 3' -47.2 NC_002687.1 + 56794 0.68 0.999969
Target:  5'- uCUCCGuGCUggugUUCGUGAgcAACGUUg -3'
miRNA:   3'- cGAGGCuCGAaa--AAGUACU--UUGCGGu -5'
10309 3' -47.2 NC_002687.1 + 61347 0.68 0.999945
Target:  5'- gGCUCCGAaUUUgUUCGUGuacuuGAUGCCGc -3'
miRNA:   3'- -CGAGGCUcGAAaAAGUACu----UUGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 136097 0.68 0.999945
Target:  5'- -gUCCGAGCUggaUUCGUGgcAgGUCAu -3'
miRNA:   3'- cgAGGCUCGAaa-AAGUACuuUgCGGU- -5'
10309 3' -47.2 NC_002687.1 + 123806 0.7 0.999679
Target:  5'- cGCcgUCGAGCUUgUUCGUGGAAuCGCa- -3'
miRNA:   3'- -CGa-GGCUCGAAaAAGUACUUU-GCGgu -5'
10309 3' -47.2 NC_002687.1 + 104502 0.7 0.999383
Target:  5'- uGCUUCGGGCgaacuaaUCAUGgGGAUGCCGa -3'
miRNA:   3'- -CGAGGCUCGaaaa---AGUAC-UUUGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 66847 0.71 0.999074
Target:  5'- -aUCCGAuCUUggcUUUCGUGAAGCgGCCAc -3'
miRNA:   3'- cgAGGCUcGAA---AAAGUACUUUG-CGGU- -5'
10309 3' -47.2 NC_002687.1 + 277407 0.71 0.999074
Target:  5'- uGCUgCCGAGCUg---C-UGAGACGCUu -3'
miRNA:   3'- -CGA-GGCUCGAaaaaGuACUUUGCGGu -5'
10309 3' -47.2 NC_002687.1 + 170523 0.72 0.998367
Target:  5'- uGCUCCGGGCgaggcaCGUGAagugaaacgaGugGCCAc -3'
miRNA:   3'- -CGAGGCUCGaaaaa-GUACU----------UugCGGU- -5'
10309 3' -47.2 NC_002687.1 + 152950 0.72 0.997676
Target:  5'- gGUUgCCGAGCgga-UCGUGA-ACGCCAa -3'
miRNA:   3'- -CGA-GGCUCGaaaaAGUACUuUGCGGU- -5'
10309 3' -47.2 NC_002687.1 + 155639 0.73 0.994018
Target:  5'- gGCUCCGAGCUugUUUUCAUcuucuuuACgGCCAc -3'
miRNA:   3'- -CGAGGCUCGA--AAAAGUAcuu----UG-CGGU- -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.