miRNA display CGI


Results 1 - 20 of 40 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
19517 5' -57.2 NC_004685.1 + 17875 0.66 0.69884
Target:  5'- aGCGUCaCCGacauugagacGUG-GCUGUCCaUCAACUu -3'
miRNA:   3'- aUGCAG-GGC----------CGCuCGACAGG-AGUUGG- -5'
19517 5' -57.2 NC_004685.1 + 22816 0.66 0.667097
Target:  5'- gACGgggcaaccCCUGGCGAGCUGggcaCCUau-CCg -3'
miRNA:   3'- aUGCa-------GGGCCGCUCGACa---GGAguuGG- -5'
19517 5' -57.2 NC_004685.1 + 22469 0.66 0.667097
Target:  5'- cGgGUCgCGGCGAGCUGgaCCUCc--- -3'
miRNA:   3'- aUgCAGgGCCGCUCGACa-GGAGuugg -5'
19517 5' -57.2 NC_004685.1 + 14068 0.66 0.667097
Target:  5'- gUAUGugaUCCCGGCuGAGCUGgacaCggCGACCc -3'
miRNA:   3'- -AUGC---AGGGCCG-CUCGACag--Ga-GUUGG- -5'
19517 5' -57.2 NC_004685.1 + 28102 0.67 0.635075
Target:  5'- gGCGUUcgCCGcGCaGcAGCUGUCCagggCGACCa -3'
miRNA:   3'- aUGCAG--GGC-CG-C-UCGACAGGa---GUUGG- -5'
19517 5' -57.2 NC_004685.1 + 55359 0.67 0.631868
Target:  5'- cACGUCgUCGGCGAacucagcgauacccGCaG-CCUCGGCCa -3'
miRNA:   3'- aUGCAG-GGCCGCU--------------CGaCaGGAGUUGG- -5'
19517 5' -57.2 NC_004685.1 + 30994 0.67 0.624384
Target:  5'- aUGCG-CCgGGUGAGCUGguccCCUCcaggacGCCc -3'
miRNA:   3'- -AUGCaGGgCCGCUCGACa---GGAGu-----UGG- -5'
19517 5' -57.2 NC_004685.1 + 18216 0.67 0.613699
Target:  5'- cGCGgaCUGGauCGAGCUGUCgUCGGCUg -3'
miRNA:   3'- aUGCagGGCC--GCUCGACAGgAGUUGG- -5'
19517 5' -57.2 NC_004685.1 + 14061 0.67 0.603029
Target:  5'- gGCG-CCC-GCGAGCgcggCUUCGGCCg -3'
miRNA:   3'- aUGCaGGGcCGCUCGaca-GGAGUUGG- -5'
19517 5' -57.2 NC_004685.1 + 61950 0.67 0.603029
Target:  5'- cACGUCCUGGCu-GCgggCCUC-GCCg -3'
miRNA:   3'- aUGCAGGGCCGcuCGacaGGAGuUGG- -5'
19517 5' -57.2 NC_004685.1 + 30189 0.67 0.603029
Target:  5'- gGCGUCguCCGGCucGCUGaugaCCUCAccgACCa -3'
miRNA:   3'- aUGCAG--GGCCGcuCGACa---GGAGU---UGG- -5'
19517 5' -57.2 NC_004685.1 + 55929 0.67 0.593446
Target:  5'- gGCGguacgccagcagcagCCCGGCGAuGCcGUCCU--GCCa -3'
miRNA:   3'- aUGCa--------------GGGCCGCU-CGaCAGGAguUGG- -5'
19517 5' -57.2 NC_004685.1 + 6092 0.67 0.592383
Target:  5'- aUAgGUgaCGGCGGGCUGUCCggcgucaucguUCAcACCa -3'
miRNA:   3'- -AUgCAggGCCGCUCGACAGG-----------AGU-UGG- -5'
19517 5' -57.2 NC_004685.1 + 64264 0.67 0.592383
Target:  5'- ----cCCUGGCcaGGCUGUCCUCcucGGCCa -3'
miRNA:   3'- augcaGGGCCGc-UCGACAGGAG---UUGG- -5'
19517 5' -57.2 NC_004685.1 + 51158 0.68 0.560665
Target:  5'- aACGUCCCGGUGucgauaccgcgcAGCgccucguugagGUaCUUCGACCg -3'
miRNA:   3'- aUGCAGGGCCGC------------UCGa----------CA-GGAGUUGG- -5'
19517 5' -57.2 NC_004685.1 + 39680 0.68 0.550191
Target:  5'- gACGaUCCCccuGGCGGGcCUGUCgCaggCGACCg -3'
miRNA:   3'- aUGC-AGGG---CCGCUC-GACAG-Ga--GUUGG- -5'
19517 5' -57.2 NC_004685.1 + 35957 0.68 0.550191
Target:  5'- gACGUUCCgcaacGGCGAGgUGUacacCCUCGGCa -3'
miRNA:   3'- aUGCAGGG-----CCGCUCgACA----GGAGUUGg -5'
19517 5' -57.2 NC_004685.1 + 4456 0.68 0.539778
Target:  5'- gGCGcCCCGGCGAGUg--CgUCGAUg -3'
miRNA:   3'- aUGCaGGGCCGCUCGacaGgAGUUGg -5'
19517 5' -57.2 NC_004685.1 + 6909 0.68 0.529432
Target:  5'- gGCGUucCCCGGUGcgacGCagGUgCCUCAGCCc -3'
miRNA:   3'- aUGCA--GGGCCGCu---CGa-CA-GGAGUUGG- -5'
19517 5' -57.2 NC_004685.1 + 59564 0.69 0.508969
Target:  5'- gGCGUgCCCGuCGAGCgcGUUCUCGucGCCg -3'
miRNA:   3'- aUGCA-GGGCcGCUCGa-CAGGAGU--UGG- -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.