miRNA display CGI


Results 1 - 20 of 61 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
28112 3' -54.7 NC_005887.1 + 627 0.74 0.214338
Target:  5'- gAUCGAAGCC-GCGAugaaAGcGCGCGGCGAg -3'
miRNA:   3'- -UGGCUUCGGuUGCU----UC-CGUGCCGUUa -5'
28112 3' -54.7 NC_005887.1 + 954 0.67 0.55554
Target:  5'- aGCCGAGGCCGccugacucgucCGgcGGCGCGGg--- -3'
miRNA:   3'- -UGGCUUCGGUu----------GCuuCCGUGCCguua -5'
28112 3' -54.7 NC_005887.1 + 1476 0.67 0.541033
Target:  5'- cCCGAcGCCGACGGcgugcggcgcucgcGcGGCGCGGCcGUg -3'
miRNA:   3'- uGGCUuCGGUUGCU--------------U-CCGUGCCGuUA- -5'
28112 3' -54.7 NC_005887.1 + 1805 0.66 0.635061
Target:  5'- cCCGAAggacgugccGCCGACcu-GGUACGGCAu- -3'
miRNA:   3'- uGGCUU---------CGGUUGcuuCCGUGCCGUua -5'
28112 3' -54.7 NC_005887.1 + 2464 0.69 0.437881
Target:  5'- cUCGAAGCCAGCGGcacgcAGGauccggaACGGCGu- -3'
miRNA:   3'- uGGCUUCGGUUGCU-----UCCg------UGCCGUua -5'
28112 3' -54.7 NC_005887.1 + 3090 0.75 0.20283
Target:  5'- cGCCGAccacGGCCGcAUGAAGGaaaaGCGGCAGUc -3'
miRNA:   3'- -UGGCU----UCGGU-UGCUUCCg---UGCCGUUA- -5'
28112 3' -54.7 NC_005887.1 + 3472 0.76 0.17148
Target:  5'- aGCCGcccuGCCAGCGGuAGcGCGCGGCGAa -3'
miRNA:   3'- -UGGCuu--CGGUUGCU-UC-CGUGCCGUUa -5'
28112 3' -54.7 NC_005887.1 + 4406 0.8 0.082843
Target:  5'- -gCGc-GCCGGCGAAGGCGCGGCGAUc -3'
miRNA:   3'- ugGCuuCGGUUGCUUCCGUGCCGUUA- -5'
28112 3' -54.7 NC_005887.1 + 4688 0.67 0.589409
Target:  5'- cGCCGGcGGCCAcCGgcGcCGCGGCGAg -3'
miRNA:   3'- -UGGCU-UCGGUuGCuuCcGUGCCGUUa -5'
28112 3' -54.7 NC_005887.1 + 5033 1.06 0.001079
Target:  5'- gACCGAAGCCAACGAAGGCACGGCAAUg -3'
miRNA:   3'- -UGGCUUCGGUUGCUUCCGUGCCGUUA- -5'
28112 3' -54.7 NC_005887.1 + 5758 0.82 0.065212
Target:  5'- gGCCGAGGCC-GCGAAGGCGCuGGCc-- -3'
miRNA:   3'- -UGGCUUCGGuUGCUUCCGUG-CCGuua -5'
28112 3' -54.7 NC_005887.1 + 6405 0.67 0.578068
Target:  5'- cGCgGAAGUCGAC-AAGGCGCuGGCc-- -3'
miRNA:   3'- -UGgCUUCGGUUGcUUCCGUG-CCGuua -5'
28112 3' -54.7 NC_005887.1 + 7882 0.66 0.612198
Target:  5'- uCCGAcucGuCCGACGAgcAGGC-CGGCGAc -3'
miRNA:   3'- uGGCUu--C-GGUUGCU--UCCGuGCCGUUa -5'
28112 3' -54.7 NC_005887.1 + 8362 0.67 0.589409
Target:  5'- gGCCGAAGCCuGCGAaagccugacgcAGaGCGCGaCGAa -3'
miRNA:   3'- -UGGCUUCGGuUGCU-----------UC-CGUGCcGUUa -5'
28112 3' -54.7 NC_005887.1 + 10151 0.67 0.589409
Target:  5'- gGCCGGAGCgAcgucuACGGcuGGCAuCGGCAu- -3'
miRNA:   3'- -UGGCUUCGgU-----UGCUu-CCGU-GCCGUua -5'
28112 3' -54.7 NC_005887.1 + 10453 0.67 0.55554
Target:  5'- cCCGAGGCCGGCGAuagucgacgucGGCACGcCGu- -3'
miRNA:   3'- uGGCUUCGGUUGCUu----------CCGUGCcGUua -5'
28112 3' -54.7 NC_005887.1 + 11117 0.68 0.511335
Target:  5'- cGCgCGAAGCUGGCcGAGGCGCcguGGCGGc -3'
miRNA:   3'- -UG-GCUUCGGUUGcUUCCGUG---CCGUUa -5'
28112 3' -54.7 NC_005887.1 + 12632 0.66 0.611056
Target:  5'- cCCGAccAGCCAcugcccgcagguuACGAGuGGguCGGCGAUu -3'
miRNA:   3'- uGGCU--UCGGU-------------UGCUU-CCguGCCGUUA- -5'
28112 3' -54.7 NC_005887.1 + 12874 0.68 0.479162
Target:  5'- gACCGuggcagguGCCGugcGCGAGcugaucGGCACGGCGAg -3'
miRNA:   3'- -UGGCuu------CGGU---UGCUU------CCGUGCCGUUa -5'
28112 3' -54.7 NC_005887.1 + 13388 0.67 0.566775
Target:  5'- cGCUGAAgGCCGGCGc-GGCggacgucgGCGGCAAg -3'
miRNA:   3'- -UGGCUU-CGGUUGCuuCCG--------UGCCGUUa -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.