miRNA display CGI


Results 1 - 20 of 72 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
23056 3' -61.1 NC_005178.1 + 7490 0.66 0.321425
Target:  5'- -aCGGguGCuGCCgGccGAgGCGuCGCGCUg -3'
miRNA:   3'- uaGCCguCG-CGGgU--UUgCGC-GCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 36336 0.66 0.319078
Target:  5'- -aCGGCAGCGguuccaagcuuccCCCAcuccccguuguUGCGCGCGUa -3'
miRNA:   3'- uaGCCGUCGC-------------GGGUuu---------GCGCGCGCGg -5'
23056 3' -61.1 NC_005178.1 + 26238 0.66 0.31365
Target:  5'- ---cGCAGCGgCCAc-CGC-CGCGCCg -3'
miRNA:   3'- uagcCGUCGCgGGUuuGCGcGCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 12919 0.66 0.31365
Target:  5'- -cCGGUGGUggGCUggaGGACGUgGCGCGCCa -3'
miRNA:   3'- uaGCCGUCG--CGGg--UUUGCG-CGCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 21042 0.66 0.31365
Target:  5'- -cCGGUAGCGUUCGccacGACGaUG-GCGCCg -3'
miRNA:   3'- uaGCCGUCGCGGGU----UUGC-GCgCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 24209 0.66 0.306018
Target:  5'- gGUCGGCGGggaguaccuCGCCCGucACGgaGCcCGCCg -3'
miRNA:   3'- -UAGCCGUC---------GCGGGUu-UGCg-CGcGCGG- -5'
23056 3' -61.1 NC_005178.1 + 35473 0.66 0.306018
Target:  5'- uGUCGGUGGCGgCC-AGCGC-CgGgGCCa -3'
miRNA:   3'- -UAGCCGUCGCgGGuUUGCGcG-CgCGG- -5'
23056 3' -61.1 NC_005178.1 + 15793 0.66 0.306018
Target:  5'- cGUCGGCcuucucuGCgGCCgAGGCGuUGCGCGgCg -3'
miRNA:   3'- -UAGCCGu------CG-CGGgUUUGC-GCGCGCgG- -5'
23056 3' -61.1 NC_005178.1 + 33090 0.66 0.303757
Target:  5'- cUCGGUGcCGCCCAgGAUGUaaagaucggguccgGCGUGCCg -3'
miRNA:   3'- uAGCCGUcGCGGGU-UUGCG--------------CGCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 28622 0.66 0.291184
Target:  5'- -cCGGCGaCGCCCccGGugGCGCGgcggacggccccCGCCc -3'
miRNA:   3'- uaGCCGUcGCGGG--UUugCGCGC------------GCGG- -5'
23056 3' -61.1 NC_005178.1 + 25547 0.66 0.291184
Target:  5'- aAUCGGCGucgaugaaUGCCUAccacAACGCcgaGCGCGCCc -3'
miRNA:   3'- -UAGCCGUc-------GCGGGU----UUGCG---CGCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 34247 0.66 0.290457
Target:  5'- uGUCaGCAGCgGCCCGccagcucGccucguccauucGCGUGCGgGCCa -3'
miRNA:   3'- -UAGcCGUCG-CGGGU-------U------------UGCGCGCgCGG- -5'
23056 3' -61.1 NC_005178.1 + 11769 0.66 0.284694
Target:  5'- cGUUGGaCGGCGCCCAgcgAGCGaucagcgauucgacgGUGCGCa -3'
miRNA:   3'- -UAGCC-GUCGCGGGU---UUGCg--------------CGCGCGg -5'
23056 3' -61.1 NC_005178.1 + 35314 0.66 0.28398
Target:  5'- uAUCGGCGcagccGCGCgCGAGgGUGacCGUGCCg -3'
miRNA:   3'- -UAGCCGU-----CGCGgGUUUgCGC--GCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 28947 0.67 0.276918
Target:  5'- -cCGGCA-CGgCCAu-CGcCGUGCGCCa -3'
miRNA:   3'- uaGCCGUcGCgGGUuuGC-GCGCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 4232 0.67 0.276918
Target:  5'- -aCGcGCAGagGCCC--GCGagaaGCGCGCCc -3'
miRNA:   3'- uaGC-CGUCg-CGGGuuUGCg---CGCGCGG- -5'
23056 3' -61.1 NC_005178.1 + 12178 0.67 0.276219
Target:  5'- aGUCGGCGGCacaacugaagacgGUCCAGGacaccaGCGCggcucuuuuccaGCGCCu -3'
miRNA:   3'- -UAGCCGUCG-------------CGGGUUUg-----CGCG------------CGCGG- -5'
23056 3' -61.1 NC_005178.1 + 17900 0.67 0.269996
Target:  5'- -gCGGCAgGCGCuCCcAGgGUGCGCucgGCCu -3'
miRNA:   3'- uaGCCGU-CGCG-GGuUUgCGCGCG---CGG- -5'
23056 3' -61.1 NC_005178.1 + 26184 0.67 0.269996
Target:  5'- -gCGGCGGUGgCCGcuGCGgGCGUGgCg -3'
miRNA:   3'- uaGCCGUCGCgGGUu-UGCgCGCGCgG- -5'
23056 3' -61.1 NC_005178.1 + 9866 0.67 0.269996
Target:  5'- uAUCGcGCAuugcucgcucGCGUCgCGGGCGUGCGCucgGCCa -3'
miRNA:   3'- -UAGC-CGU----------CGCGG-GUUUGCGCGCG---CGG- -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.