miRNA display CGI


Results 1 - 20 of 25 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
20444 3' -57.1 NC_004688.1 + 16318 0.66 0.790127
Target:  5'- uGGCCgagaaGGUGGCcgaCGCCACcCCCg -3'
miRNA:   3'- uUCGGaac--CCAUCGug-GUGGUGaGGG- -5'
20444 3' -57.1 NC_004688.1 + 35486 0.66 0.790127
Target:  5'- uGGCCgacGGGgcugAGC-CCGCgCGgUCCCa -3'
miRNA:   3'- uUCGGaa-CCCa---UCGuGGUG-GUgAGGG- -5'
20444 3' -57.1 NC_004688.1 + 26159 0.66 0.77782
Target:  5'- -uGCCUuugUGGGgcaagcuggccgaguGCGCCACCugccGCUCCa -3'
miRNA:   3'- uuCGGA---ACCCau-------------CGUGGUGG----UGAGGg -5'
20444 3' -57.1 NC_004688.1 + 448 0.66 0.771096
Target:  5'- -cGCCUgcGGUAGCGCUcUCGCUCgCg -3'
miRNA:   3'- uuCGGAacCCAUCGUGGuGGUGAGgG- -5'
20444 3' -57.1 NC_004688.1 + 82348 0.66 0.771096
Target:  5'- cGGCCUUGGcGcgGGCcuUCACCGuCUCCUc -3'
miRNA:   3'- uUCGGAACC-Ca-UCGu-GGUGGU-GAGGG- -5'
20444 3' -57.1 NC_004688.1 + 36155 0.66 0.771096
Target:  5'- -cGCCUUGcuGUGGCugGCCGCCcccaUCCCc -3'
miRNA:   3'- uuCGGAACc-CAUCG--UGGUGGug--AGGG- -5'
20444 3' -57.1 NC_004688.1 + 87672 0.66 0.761379
Target:  5'- cAGCCUggauugGGGUugcGCGCCcgaACCACggucggucggCCCg -3'
miRNA:   3'- uUCGGAa-----CCCAu--CGUGG---UGGUGa---------GGG- -5'
20444 3' -57.1 NC_004688.1 + 31322 0.66 0.741591
Target:  5'- cGAGCCcuUUGGaGUAGC-CgACCAUcCCCc -3'
miRNA:   3'- -UUCGG--AACC-CAUCGuGgUGGUGaGGG- -5'
20444 3' -57.1 NC_004688.1 + 104646 0.66 0.741591
Target:  5'- -uGCCacacUGGG-AGUcgCACCACUCCCc -3'
miRNA:   3'- uuCGGa---ACCCaUCGugGUGGUGAGGG- -5'
20444 3' -57.1 NC_004688.1 + 5724 0.67 0.731541
Target:  5'- cGGCCgaGGGgcggcAGCACCuuCGCUgCCu -3'
miRNA:   3'- uUCGGaaCCCa----UCGUGGugGUGAgGG- -5'
20444 3' -57.1 NC_004688.1 + 95509 0.67 0.720381
Target:  5'- gGGGCCgccGGaGUGGCGcaacccccaggccCCGCCAUUCCg -3'
miRNA:   3'- -UUCGGaa-CC-CAUCGU-------------GGUGGUGAGGg -5'
20444 3' -57.1 NC_004688.1 + 38359 0.67 0.719362
Target:  5'- -uGCCgguaccaggaaGGGUGGUGCCcauCCACaUCCCg -3'
miRNA:   3'- uuCGGaa---------CCCAUCGUGGu--GGUG-AGGG- -5'
20444 3' -57.1 NC_004688.1 + 26088 0.67 0.711178
Target:  5'- cAGGCC--GGGUAG-ACCACCGCcagCCg -3'
miRNA:   3'- -UUCGGaaCCCAUCgUGGUGGUGa--GGg -5'
20444 3' -57.1 NC_004688.1 + 50007 0.68 0.648695
Target:  5'- gAGGCCUgugGGGauuUAGCACCcCUACggUCCa -3'
miRNA:   3'- -UUCGGAa--CCC---AUCGUGGuGGUGa-GGG- -5'
20444 3' -57.1 NC_004688.1 + 2974 0.68 0.648695
Target:  5'- -uGCCggcgGGGUgguucAGCACCACCcAUuugCCCa -3'
miRNA:   3'- uuCGGaa--CCCA-----UCGUGGUGG-UGa--GGG- -5'
20444 3' -57.1 NC_004688.1 + 10050 0.68 0.647644
Target:  5'- cGGCCUUcaGGGUGGCgacugcuucaaccGCCGCCGCgCgCa -3'
miRNA:   3'- uUCGGAA--CCCAUCG-------------UGGUGGUGaGgG- -5'
20444 3' -57.1 NC_004688.1 + 41636 0.68 0.627657
Target:  5'- -cGCCccacaugUGGGaguUGGCGCCGCCGC-CCg -3'
miRNA:   3'- uuCGGa------ACCC---AUCGUGGUGGUGaGGg -5'
20444 3' -57.1 NC_004688.1 + 49864 0.69 0.617139
Target:  5'- gAGGUUgUUGGGc-GCGCCGCCggACUCCCc -3'
miRNA:   3'- -UUCGG-AACCCauCGUGGUGG--UGAGGG- -5'
20444 3' -57.1 NC_004688.1 + 73506 0.69 0.596147
Target:  5'- cGAGCCUUGGu--GCA-CGCCGCgCCCu -3'
miRNA:   3'- -UUCGGAACCcauCGUgGUGGUGaGGG- -5'
20444 3' -57.1 NC_004688.1 + 93889 0.71 0.455304
Target:  5'- cAGCCcccGGc-GCAUCACCGCUCCCa -3'
miRNA:   3'- uUCGGaacCCauCGUGGUGGUGAGGG- -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.