miRNA display CGI


Results 1 - 20 of 82 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
23509 3' -50.3 NC_005259.1 + 56573 0.66 0.974771
Target:  5'- uGAUCgUCGCgGCuGCGAuGAgcGCCUCGUa -3'
miRNA:   3'- cCUAG-AGCG-CGuUGCUuUU--UGGGGCG- -5'
23509 3' -50.3 NC_005259.1 + 47367 0.66 0.972161
Target:  5'- aGGAUCguguugccgaacgcaCGCGCGcCGuuGAGACCCuCGUc -3'
miRNA:   3'- -CCUAGa--------------GCGCGUuGCu-UUUUGGG-GCG- -5'
23509 3' -50.3 NC_005259.1 + 20686 0.66 0.97186
Target:  5'- uGGUCgcacggcaCGCGCucggugguCGAAGGuuucACCCCGCc -3'
miRNA:   3'- cCUAGa-------GCGCGuu------GCUUUU----UGGGGCG- -5'
23509 3' -50.3 NC_005259.1 + 27768 0.66 0.97186
Target:  5'- ---cCUCG-GCGACGAccuuGAGcACCUCGCg -3'
miRNA:   3'- ccuaGAGCgCGUUGCU----UUU-UGGGGCG- -5'
23509 3' -50.3 NC_005259.1 + 67908 0.66 0.97186
Target:  5'- uGGGUCUCggcgaggucaaGCGCGuaggucGCGAGGauGAUCuuGCg -3'
miRNA:   3'- -CCUAGAG-----------CGCGU------UGCUUU--UUGGggCG- -5'
23509 3' -50.3 NC_005259.1 + 24688 0.66 0.97186
Target:  5'- ---cCUCGUGCAcgugccgaGCGAuc-ACCCCGa -3'
miRNA:   3'- ccuaGAGCGCGU--------UGCUuuuUGGGGCg -5'
23509 3' -50.3 NC_005259.1 + 29953 0.66 0.970001
Target:  5'- cGGucgcggCUgGUGgGGCGGGcggugaccguccaacGGACCCCGCa -3'
miRNA:   3'- -CCua----GAgCGCgUUGCUU---------------UUUGGGGCG- -5'
23509 3' -50.3 NC_005259.1 + 1364 0.66 0.968714
Target:  5'- uGGGccgCUCGcCGCGccgcccGCGAG--GCCCgCGCa -3'
miRNA:   3'- -CCUa--GAGC-GCGU------UGCUUuuUGGG-GCG- -5'
23509 3' -50.3 NC_005259.1 + 25493 0.66 0.968714
Target:  5'- aGGcgCUCGCGCGugaGGgcaaaAAGGCCCuCGa -3'
miRNA:   3'- -CCuaGAGCGCGUug-CU-----UUUUGGG-GCg -5'
23509 3' -50.3 NC_005259.1 + 13879 0.66 0.965327
Target:  5'- gGGAUCaCGUgGUGACccGAGACCCCGa -3'
miRNA:   3'- -CCUAGaGCG-CGUUGcuUUUUGGGGCg -5'
23509 3' -50.3 NC_005259.1 + 38153 0.66 0.965327
Target:  5'- cGGuugCUCGCGCcgauGACGGugaucgguGCCUCGUc -3'
miRNA:   3'- -CCua-GAGCGCG----UUGCUuuu-----UGGGGCG- -5'
23509 3' -50.3 NC_005259.1 + 12940 0.66 0.965327
Target:  5'- cGGAccccggCU-GCGCGACcccgcaucGACCCCGCg -3'
miRNA:   3'- -CCUa-----GAgCGCGUUGcuuu----UUGGGGCG- -5'
23509 3' -50.3 NC_005259.1 + 10081 0.66 0.965327
Target:  5'- aGGA---CGC-CGACGAGuAGACCCCGa -3'
miRNA:   3'- -CCUagaGCGcGUUGCUU-UUUGGGGCg -5'
23509 3' -50.3 NC_005259.1 + 10018 0.66 0.964262
Target:  5'- cGAUCUCGCcCuuacCGAccacgaccucgaauGAGACCCCGa -3'
miRNA:   3'- cCUAGAGCGcGuu--GCU--------------UUUUGGGGCg -5'
23509 3' -50.3 NC_005259.1 + 58043 0.66 0.963902
Target:  5'- cGGAaguguUCUUGCGuCAGCGAAcgcaugaaccauucGAccagcucgggccaGCCCUGCu -3'
miRNA:   3'- -CCU-----AGAGCGC-GUUGCUU--------------UU-------------UGGGGCG- -5'
23509 3' -50.3 NC_005259.1 + 18846 0.66 0.957795
Target:  5'- aGGGUCUCGCcggugccguGCAACGGuu-GCgCgCGUg -3'
miRNA:   3'- -CCUAGAGCG---------CGUUGCUuuuUG-GgGCG- -5'
23509 3' -50.3 NC_005259.1 + 15919 0.66 0.957795
Target:  5'- aGAUgUUCGCuGCGAUGAAAcGCUCgGCg -3'
miRNA:   3'- cCUA-GAGCG-CGUUGCUUUuUGGGgCG- -5'
23509 3' -50.3 NC_005259.1 + 39270 0.66 0.957795
Target:  5'- cGGca-UCGUGCcgaucuUGAAGcACCCCGCg -3'
miRNA:   3'- -CCuagAGCGCGuu----GCUUUuUGGGGCG- -5'
23509 3' -50.3 NC_005259.1 + 46270 0.66 0.957795
Target:  5'- aGGGUCUgCGCGagguucugcaaCAGCGG--GGCCgCCGUg -3'
miRNA:   3'- -CCUAGA-GCGC-----------GUUGCUuuUUGG-GGCG- -5'
23509 3' -50.3 NC_005259.1 + 23525 0.66 0.957795
Target:  5'- aGAUCUCGa-CggUGAAAAucaGCCgCCGCc -3'
miRNA:   3'- cCUAGAGCgcGuuGCUUUU---UGG-GGCG- -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.