miRNA display CGI


Results 1 - 20 of 38 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
28122 3' -52.3 NC_005887.1 + 30372 0.66 0.832624
Target:  5'- aGCUCGGUGUACcgcuCGGCGUcGC-CGuCu -3'
miRNA:   3'- -UGAGCUACAUGcu--GCUGCA-CGaGCuG- -5'
28122 3' -52.3 NC_005887.1 + 23491 0.66 0.813708
Target:  5'- cCUUGAUcUGCuugcCGACGUGUUCGGCc -3'
miRNA:   3'- uGAGCUAcAUGcu--GCUGCACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 35637 0.66 0.80394
Target:  5'- cGCUCGGgcugagcgGUGCGAgcuCGACGcUG-UCGACa -3'
miRNA:   3'- -UGAGCUa-------CAUGCU---GCUGC-ACgAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 41377 0.66 0.80394
Target:  5'- gUUCGAgcagaccGUGCG-CGACGUGUUcucCGACg -3'
miRNA:   3'- uGAGCUa------CAUGCuGCUGCACGA---GCUG- -5'
28122 3' -52.3 NC_005887.1 + 23126 0.66 0.80394
Target:  5'- gGCUgGcgGUGaggUGACGGCGUGacgaucCUCGACc -3'
miRNA:   3'- -UGAgCuaCAU---GCUGCUGCAC------GAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 3977 0.66 0.80394
Target:  5'- uGCUCGcga-ACGAggaGGCGUGCUUGAUg -3'
miRNA:   3'- -UGAGCuacaUGCUg--CUGCACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 16587 0.66 0.80394
Target:  5'- cACUCGgcGccgGCGGCGACGcgaucgGCcugCGACa -3'
miRNA:   3'- -UGAGCuaCa--UGCUGCUGCa-----CGa--GCUG- -5'
28122 3' -52.3 NC_005887.1 + 18494 0.66 0.79398
Target:  5'- aAC-CGAUGUuCGACGACGUGaagcacgCGGg -3'
miRNA:   3'- -UGaGCUACAuGCUGCUGCACga-----GCUg -5'
28122 3' -52.3 NC_005887.1 + 10360 0.67 0.783839
Target:  5'- cGC-CGGUaucacGUACaACGGCGUGC-CGACg -3'
miRNA:   3'- -UGaGCUA-----CAUGcUGCUGCACGaGCUG- -5'
28122 3' -52.3 NC_005887.1 + 8510 0.67 0.777674
Target:  5'- cGCUCGAUcgcGUugacgcggaucgcuCGGCGAuagccugguCGUGCUCGGCc -3'
miRNA:   3'- -UGAGCUA---CAu-------------GCUGCU---------GCACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 19658 0.67 0.773531
Target:  5'- cUUCGuaccGUACGAacgcgacagcgUGACGcUGCUCGACg -3'
miRNA:   3'- uGAGCua--CAUGCU-----------GCUGC-ACGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 21848 0.67 0.763068
Target:  5'- -gUUGAUGc-CGGCGAUGaUGCUCGAa -3'
miRNA:   3'- ugAGCUACauGCUGCUGC-ACGAGCUg -5'
28122 3' -52.3 NC_005887.1 + 40433 0.67 0.763068
Target:  5'- cCUCGcgc-GCGACGGCGgcacggccgcGCUCGACg -3'
miRNA:   3'- uGAGCuacaUGCUGCUGCa---------CGAGCUG- -5'
28122 3' -52.3 NC_005887.1 + 16983 0.67 0.763068
Target:  5'- aGCUCGAc-UACGGCuACGUGC-CGAUc -3'
miRNA:   3'- -UGAGCUacAUGCUGcUGCACGaGCUG- -5'
28122 3' -52.3 NC_005887.1 + 31343 0.67 0.752461
Target:  5'- aGCUCGAcgagGCGAuCGACGcgGC-CGACg -3'
miRNA:   3'- -UGAGCUaca-UGCU-GCUGCa-CGaGCUG- -5'
28122 3' -52.3 NC_005887.1 + 41957 0.67 0.752461
Target:  5'- uGCUCGcgugGUGCGugcGCGGCGcGCUCGcCu -3'
miRNA:   3'- -UGAGCua--CAUGC---UGCUGCaCGAGCuG- -5'
28122 3' -52.3 NC_005887.1 + 8481 0.67 0.752461
Target:  5'- cGCUCGgcG-ACGAC-ACGUgGCUCGAg -3'
miRNA:   3'- -UGAGCuaCaUGCUGcUGCA-CGAGCUg -5'
28122 3' -52.3 NC_005887.1 + 30644 0.67 0.752461
Target:  5'- gGCUCGAaGcgACGAUGACcaGCUCGuCg -3'
miRNA:   3'- -UGAGCUaCa-UGCUGCUGcaCGAGCuG- -5'
28122 3' -52.3 NC_005887.1 + 35558 0.68 0.719907
Target:  5'- uGCUCGAcaUGUGCGGCGAgCGccggGCacaCGGCc -3'
miRNA:   3'- -UGAGCU--ACAUGCUGCU-GCa---CGa--GCUG- -5'
28122 3' -52.3 NC_005887.1 + 34034 0.68 0.719907
Target:  5'- cGC-CGGUGcugACGgacgccgcacGCGACGUGCUCGcCg -3'
miRNA:   3'- -UGaGCUACa--UGC----------UGCUGCACGAGCuG- -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.