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
12198 5' -48.3 NC_003309.1 + 10700 0.66 0.981581
Target:  5'- cGCGCUCGAgcuCCUGcuGCG-CggCGGCCg -3'
miRNA:   3'- cCGCGAGUU---GGACu-UGUaGuaGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 17721 0.66 0.981581
Target:  5'- aGCGCUCGuagagcGACGUCGUCuuGCCg -3'
miRNA:   3'- cCGCGAGUuggac-UUGUAGUAGu-UGG- -5'
12198 5' -48.3 NC_003309.1 + 18390 0.66 0.980879
Target:  5'- uGCGCUCGcugccgacguACUUGAaugaaccgccgacgACGUUcgCGGCCg -3'
miRNA:   3'- cCGCGAGU----------UGGACU--------------UGUAGuaGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 19036 0.66 0.970496
Target:  5'- cGGCcguuGCUgGAUCUGcgcgcCGUCGUCGAUCg -3'
miRNA:   3'- -CCG----CGAgUUGGACuu---GUAGUAGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 41983 0.67 0.967103
Target:  5'- -aCGUUCAAUa-GGAUAUCGUUAACCc -3'
miRNA:   3'- ccGCGAGUUGgaCUUGUAGUAGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 23960 0.67 0.967103
Target:  5'- cGGUGCc---CCUGAAUA-CGUCAACUu -3'
miRNA:   3'- -CCGCGaguuGGACUUGUaGUAGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 20226 0.67 0.963444
Target:  5'- cGGCGCaccgaUCAcACCgGAGCcguccUCGUCGAUCa -3'
miRNA:   3'- -CCGCG-----AGU-UGGaCUUGu----AGUAGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 43257 0.67 0.963444
Target:  5'- cGGCGCUCGGCaacuucacGAGCG-CGU-AACCa -3'
miRNA:   3'- -CCGCGAGUUGga------CUUGUaGUAgUUGG- -5'
12198 5' -48.3 NC_003309.1 + 17792 0.67 0.963444
Target:  5'- cGCGUUCGGCgUGAuACGgcgCAcacggaUCAGCCa -3'
miRNA:   3'- cCGCGAGUUGgACU-UGUa--GU------AGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 34871 0.67 0.955293
Target:  5'- aGCGCcgcCAACgUGAacgagcACGUCAUC-ACCg -3'
miRNA:   3'- cCGCGa--GUUGgACU------UGUAGUAGuUGG- -5'
12198 5' -48.3 NC_003309.1 + 19912 0.67 0.953972
Target:  5'- cGGCGCUCAGCagguucGAGCucgaucgcugcugcgCcgCGACCg -3'
miRNA:   3'- -CCGCGAGUUGga----CUUGua-------------GuaGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 52371 0.67 0.950788
Target:  5'- uGCGCUCGccgcagcaGCCg--GCAUCAgcaaaccguaucUCAGCCa -3'
miRNA:   3'- cCGCGAGU--------UGGacuUGUAGU------------AGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 3271 0.67 0.950788
Target:  5'- -aCGUUCGucaucgauagcgGCCUGAACGUCAU--GCCc -3'
miRNA:   3'- ccGCGAGU------------UGGACUUGUAGUAguUGG- -5'
12198 5' -48.3 NC_003309.1 + 5040 0.68 0.94599
Target:  5'- cGGCGgUCGgauucgggucaACCgGAACAgccgCcgCAGCCg -3'
miRNA:   3'- -CCGCgAGU-----------UGGaCUUGUa---GuaGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 47423 0.68 0.94599
Target:  5'- cGGUGCUCGcACCagucGAGCcacgCGUCGACg -3'
miRNA:   3'- -CCGCGAGU-UGGa---CUUGua--GUAGUUGg -5'
12198 5' -48.3 NC_003309.1 + 32033 0.68 0.939307
Target:  5'- uGGCgGCUCGGCCgugaacugggGAccgggcgcaccgcgGCGUCgcacGUCAGCCg -3'
miRNA:   3'- -CCG-CGAGUUGGa---------CU--------------UGUAG----UAGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 6531 0.69 0.917487
Target:  5'- cGGCGC-CAGCCUu-GC-UC-UCGGCCg -3'
miRNA:   3'- -CCGCGaGUUGGAcuUGuAGuAGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 3391 0.69 0.915535
Target:  5'- uGGUGCUCGAUguugCUGAACGuggcucgcuccaacUCGUUcACCa -3'
miRNA:   3'- -CCGCGAGUUG----GACUUGU--------------AGUAGuUGG- -5'
12198 5' -48.3 NC_003309.1 + 43720 0.69 0.910876
Target:  5'- -aUGUUCAGCCaGAGCGugccaUCGUCGGCUa -3'
miRNA:   3'- ccGCGAGUUGGaCUUGU-----AGUAGUUGG- -5'
12198 5' -48.3 NC_003309.1 + 24303 0.7 0.881464
Target:  5'- cGGCGagaUCuuGCUUGAAC-UgAUCGACCg -3'
miRNA:   3'- -CCGCg--AGu-UGGACUUGuAgUAGUUGG- -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.