miRNA display CGI


Results 1 - 20 of 22 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
31731 3' -59.1 NC_006938.1 + 36105 0.66 0.563103
Target:  5'- -uCUcCUCGugcuCCUCGGCCGCUCc -3'
miRNA:   3'- ucGAcGAGCuacuGGAGCCGGCGAGc -5'
31731 3' -59.1 NC_006938.1 + 23138 0.66 0.531953
Target:  5'- cGGCgcgGCgUCGGUGAUCU-GGCCucGCUUGa -3'
miRNA:   3'- -UCGa--CG-AGCUACUGGAgCCGG--CGAGC- -5'
31731 3' -59.1 NC_006938.1 + 29687 0.66 0.531953
Target:  5'- aGGgaGCUCGAUGACCggaGGCUugugguGCaUCa -3'
miRNA:   3'- -UCgaCGAGCUACUGGag-CCGG------CG-AGc -5'
31731 3' -59.1 NC_006938.1 + 9963 0.67 0.501446
Target:  5'- gAGgaGCUCcagGAggaCUCGGCCGCUaCGg -3'
miRNA:   3'- -UCgaCGAGcuaCUg--GAGCCGGCGA-GC- -5'
31731 3' -59.1 NC_006938.1 + 39530 0.67 0.501446
Target:  5'- aGGUUGCcaaguUCGGUGGCa-CGGCCaccGCUCGc -3'
miRNA:   3'- -UCGACG-----AGCUACUGgaGCCGG---CGAGC- -5'
31731 3' -59.1 NC_006938.1 + 25576 0.67 0.501446
Target:  5'- -cCUGCUCcGUGAcguuccaacCCUCGGCCGUgaaCGg -3'
miRNA:   3'- ucGACGAGcUACU---------GGAGCCGGCGa--GC- -5'
31731 3' -59.1 NC_006938.1 + 10601 0.67 0.501446
Target:  5'- aAGCUGgUCGAUGcaccacCCUCGGgaGcCUCGa -3'
miRNA:   3'- -UCGACgAGCUACu-----GGAGCCggC-GAGC- -5'
31731 3' -59.1 NC_006938.1 + 30858 0.67 0.491446
Target:  5'- gAGCUGCUUGcgGA--UCGGCuCGC-CGg -3'
miRNA:   3'- -UCGACGAGCuaCUggAGCCG-GCGaGC- -5'
31731 3' -59.1 NC_006938.1 + 11241 0.67 0.491446
Target:  5'- aAGUUGUugUCGAUGccGCCcUGGCCGC-CGa -3'
miRNA:   3'- -UCGACG--AGCUAC--UGGaGCCGGCGaGC- -5'
31731 3' -59.1 NC_006938.1 + 44664 0.67 0.471732
Target:  5'- cGC-GCUCGGUGGCC-CGGUC-CUUGc -3'
miRNA:   3'- uCGaCGAGCUACUGGaGCCGGcGAGC- -5'
31731 3' -59.1 NC_006938.1 + 30727 0.67 0.462026
Target:  5'- cAGCUGCccUCGA--GCCacgCGGCCaGCUUGg -3'
miRNA:   3'- -UCGACG--AGCUacUGGa--GCCGG-CGAGC- -5'
31731 3' -59.1 NC_006938.1 + 28878 0.67 0.462026
Target:  5'- cAGCUGUcCGcccuUCUgGGCCGCUCGg -3'
miRNA:   3'- -UCGACGaGCuacuGGAgCCGGCGAGC- -5'
31731 3' -59.1 NC_006938.1 + 49606 0.68 0.452426
Target:  5'- ---aGCUUGcUGAgCUCGGCCccGCUCGg -3'
miRNA:   3'- ucgaCGAGCuACUgGAGCCGG--CGAGC- -5'
31731 3' -59.1 NC_006938.1 + 7985 0.68 0.452426
Target:  5'- --gUGCUCGgcGACC-CGGCCcaGCUCc -3'
miRNA:   3'- ucgACGAGCuaCUGGaGCCGG--CGAGc -5'
31731 3' -59.1 NC_006938.1 + 12636 0.68 0.433559
Target:  5'- uGGCgaaGuCUCGGUccaGGcCCUCGGCCGcCUCGc -3'
miRNA:   3'- -UCGa--C-GAGCUA---CU-GGAGCCGGC-GAGC- -5'
31731 3' -59.1 NC_006938.1 + 27583 0.68 0.406138
Target:  5'- uGGCggUGCgagUGAUGGCCUCGG-CGUUCc -3'
miRNA:   3'- -UCG--ACGa--GCUACUGGAGCCgGCGAGc -5'
31731 3' -59.1 NC_006938.1 + 42490 0.69 0.397243
Target:  5'- aAGgUGgUCGucGUGAUC-CGGCCGUUCGg -3'
miRNA:   3'- -UCgACgAGC--UACUGGaGCCGGCGAGC- -5'
31731 3' -59.1 NC_006938.1 + 29205 0.69 0.371321
Target:  5'- uGCaGCgUGGUG-CCUCGGUgGCUCGg -3'
miRNA:   3'- uCGaCGaGCUACuGGAGCCGgCGAGC- -5'
31731 3' -59.1 NC_006938.1 + 21628 0.69 0.371321
Target:  5'- cGCUGCUggacggCGGUGACCagggcgacgUgGGCCGCgcgCGg -3'
miRNA:   3'- uCGACGA------GCUACUGG---------AgCCGGCGa--GC- -5'
31731 3' -59.1 NC_006938.1 + 16571 0.7 0.308018
Target:  5'- gAGCUGCUCaaaGAgccGAUCUCGGagGCUCGu -3'
miRNA:   3'- -UCGACGAG---CUa--CUGGAGCCggCGAGC- -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.