miRNA display CGI


Results 1 - 20 of 30 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
28090 3' -55.4 NC_005887.1 + 19161 0.66 0.670528
Target:  5'- cGCCCccgGCCGUgaucgCGAGCGCg--ACGa- -3'
miRNA:   3'- -UGGG---UGGCGaa---GCUCGCGaaaUGCcc -5'
28090 3' -55.4 NC_005887.1 + 855 0.66 0.670528
Target:  5'- gACUUGCCGU-UCGAGCcgguGCcaUGCGGGa -3'
miRNA:   3'- -UGGGUGGCGaAGCUCG----CGaaAUGCCC- -5'
28090 3' -55.4 NC_005887.1 + 7669 0.66 0.659429
Target:  5'- cGCCCGCUGCUgcUCGAcaaCGUg--GCGGa -3'
miRNA:   3'- -UGGGUGGCGA--AGCUc--GCGaaaUGCCc -5'
28090 3' -55.4 NC_005887.1 + 40964 0.66 0.648304
Target:  5'- gGCCCAUgaUGaa-CGAGCGCgacgcGCGGGa -3'
miRNA:   3'- -UGGGUG--GCgaaGCUCGCGaaa--UGCCC- -5'
28090 3' -55.4 NC_005887.1 + 8106 0.66 0.637164
Target:  5'- aGCUCGCCGCgcucgcCGAGgcgcCGCUguuCGGGu -3'
miRNA:   3'- -UGGGUGGCGaa----GCUC----GCGAaauGCCC- -5'
28090 3' -55.4 NC_005887.1 + 2187 0.66 0.637164
Target:  5'- cGCCgGCCGCggugaUCGGGCaGCgcaaaccgAUGGGc -3'
miRNA:   3'- -UGGgUGGCGa----AGCUCG-CGaaa-----UGCCC- -5'
28090 3' -55.4 NC_005887.1 + 25886 0.66 0.622677
Target:  5'- uCCUGCCGCgcggUCGAGCGCaugcccgcgcgcacGCGGu -3'
miRNA:   3'- uGGGUGGCGa---AGCUCGCGaaa-----------UGCCc -5'
28090 3' -55.4 NC_005887.1 + 27721 0.66 0.61488
Target:  5'- cGCCgGCUGCcgUGAGCGCgcccucgACGGc -3'
miRNA:   3'- -UGGgUGGCGaaGCUCGCGaaa----UGCCc -5'
28090 3' -55.4 NC_005887.1 + 28964 0.67 0.604868
Target:  5'- gUCCGCCGCgccggccuucagcgCGAGCGCcaucgcCGGGc -3'
miRNA:   3'- uGGGUGGCGaa------------GCUCGCGaaau--GCCC- -5'
28090 3' -55.4 NC_005887.1 + 17433 0.67 0.592658
Target:  5'- --aCAUCGCgcucgUCGAGCGCU--ACGGc -3'
miRNA:   3'- uggGUGGCGa----AGCUCGCGAaaUGCCc -5'
28090 3' -55.4 NC_005887.1 + 41904 0.67 0.581593
Target:  5'- cGCaCCACaCGCgcagagggUUCGAGCGCagcaacaGCGGGc -3'
miRNA:   3'- -UG-GGUG-GCG--------AAGCUCGCGaaa----UGCCC- -5'
28090 3' -55.4 NC_005887.1 + 39013 0.67 0.559602
Target:  5'- -gCCACCGCgcagUCGAcgGCGgCUUgcUGCGGa -3'
miRNA:   3'- ugGGUGGCGa---AGCU--CGC-GAA--AUGCCc -5'
28090 3' -55.4 NC_005887.1 + 2197 0.67 0.559602
Target:  5'- aGCUCACaCGCggCGAGCGCg--GCGc- -3'
miRNA:   3'- -UGGGUG-GCGaaGCUCGCGaaaUGCcc -5'
28090 3' -55.4 NC_005887.1 + 33955 0.68 0.548691
Target:  5'- gGCCCACgcgccuuguCGCUUCGucGCGCUcUGCGu- -3'
miRNA:   3'- -UGGGUG---------GCGAAGCu-CGCGAaAUGCcc -5'
28090 3' -55.4 NC_005887.1 + 25686 0.68 0.505794
Target:  5'- cGCgCGCaCGCUUacggUGAGCGUUUU-CGGGa -3'
miRNA:   3'- -UGgGUG-GCGAA----GCUCGCGAAAuGCCC- -5'
28090 3' -55.4 NC_005887.1 + 428 0.68 0.49529
Target:  5'- cGCCCGCUGUUgcugCGcucgaacccucuGGCGCguguggUGCGGGc -3'
miRNA:   3'- -UGGGUGGCGAa---GC------------UCGCGaa----AUGCCC- -5'
28090 3' -55.4 NC_005887.1 + 40159 0.68 0.49529
Target:  5'- cGCUCGCCGCgugUGAGCuGCgcgACGGc -3'
miRNA:   3'- -UGGGUGGCGaa-GCUCG-CGaaaUGCCc -5'
28090 3' -55.4 NC_005887.1 + 8705 0.69 0.484886
Target:  5'- aACCCucGCCGag-CGcAGCGCgcgcUACGGGa -3'
miRNA:   3'- -UGGG--UGGCgaaGC-UCGCGaa--AUGCCC- -5'
28090 3' -55.4 NC_005887.1 + 7422 0.69 0.474587
Target:  5'- cACCCGCCGCcgccUCGuuuGGCGCUggcgUGCGc- -3'
miRNA:   3'- -UGGGUGGCGa---AGC---UCGCGAa---AUGCcc -5'
28090 3' -55.4 NC_005887.1 + 24752 0.69 0.474587
Target:  5'- cAUCUugCGCg-CGAGCGCgggauugACGGGc -3'
miRNA:   3'- -UGGGugGCGaaGCUCGCGaaa----UGCCC- -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.