miRNA display CGI


Results 1 - 16 of 16 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
9495 3' -52.9 NC_002531.1 + 66482 0.66 0.950879
Target:  5'- ---cACCGCAGGU---GGCCaCCCAAUc -3'
miRNA:   3'- aaauUGGCGUCUAccuUCGG-GGGUUG- -5'
9495 3' -52.9 NC_002531.1 + 61453 0.66 0.946407
Target:  5'- ---cACCGgAagaaugaggauGAUGGAAGCCaCCAACa -3'
miRNA:   3'- aaauUGGCgU-----------CUACCUUCGGgGGUUG- -5'
9495 3' -52.9 NC_002531.1 + 91084 0.66 0.941676
Target:  5'- --cGACCGCAuGAUGGggGUggCaCAGCa -3'
miRNA:   3'- aaaUUGGCGU-CUACCuuCGggG-GUUG- -5'
9495 3' -52.9 NC_002531.1 + 116611 0.66 0.941676
Target:  5'- --cGGCCGCuu-UGGggGUCCCUg-- -3'
miRNA:   3'- aaaUUGGCGucuACCuuCGGGGGuug -5'
9495 3' -52.9 NC_002531.1 + 17529 0.67 0.925899
Target:  5'- gUUGACCGUAGuucuccUGcGAuaucCCCCCAGCa -3'
miRNA:   3'- aAAUUGGCGUCu-----AC-CUuc--GGGGGUUG- -5'
9495 3' -52.9 NC_002531.1 + 66805 0.67 0.907735
Target:  5'- --aAACCaGCauuaggcaaAGAUGGAAGCCCUCu-- -3'
miRNA:   3'- aaaUUGG-CG---------UCUACCUUCGGGGGuug -5'
9495 3' -52.9 NC_002531.1 + 116884 0.67 0.901154
Target:  5'- --aAACCuuGGGgacuuagaguUGGAGGCCCCUGGCu -3'
miRNA:   3'- aaaUUGGcgUCU----------ACCUUCGGGGGUUG- -5'
9495 3' -52.9 NC_002531.1 + 103961 0.68 0.88722
Target:  5'- --aAGCgGCAGcgGUGGAagugGGCCCCCu-- -3'
miRNA:   3'- aaaUUGgCGUC--UACCU----UCGGGGGuug -5'
9495 3' -52.9 NC_002531.1 + 102826 0.68 0.879875
Target:  5'- --gAGCCaGUAGAaaaUGGAgaucccccugGGCCCCCAGg -3'
miRNA:   3'- aaaUUGG-CGUCU---ACCU----------UCGGGGGUUg -5'
9495 3' -52.9 NC_002531.1 + 112529 0.69 0.830886
Target:  5'- ---uACUGCAGAUGGucuccuAAGCCCCUu-- -3'
miRNA:   3'- aaauUGGCGUCUACC------UUCGGGGGuug -5'
9495 3' -52.9 NC_002531.1 + 118405 0.7 0.781566
Target:  5'- -aUAGCC-CAGAUGGGccaggggcucaagaGGUCCCCGAg -3'
miRNA:   3'- aaAUUGGcGUCUACCU--------------UCGGGGGUUg -5'
9495 3' -52.9 NC_002531.1 + 10359 0.71 0.744565
Target:  5'- -cUGACCGCAGA-GGAgcGGuUCCCCAugACa -3'
miRNA:   3'- aaAUUGGCGUCUaCCU--UC-GGGGGU--UG- -5'
9495 3' -52.9 NC_002531.1 + 67400 0.71 0.734285
Target:  5'- aUUUGGCUGCcua-GGcAGCCCCCAACu -3'
miRNA:   3'- -AAAUUGGCGucuaCCuUCGGGGGUUG- -5'
9495 3' -52.9 NC_002531.1 + 29918 0.75 0.521487
Target:  5'- gUUUGGgUGCAGAacuguagcagcuUGuGAAGCCCCCAACc -3'
miRNA:   3'- -AAAUUgGCGUCU------------AC-CUUCGGGGGUUG- -5'
9495 3' -52.9 NC_002531.1 + 112724 0.75 0.49083
Target:  5'- -aUGugUGCAGcUGGGcAGCCCCCAAUu -3'
miRNA:   3'- aaAUugGCGUCuACCU-UCGGGGGUUG- -5'
9495 3' -52.9 NC_002531.1 + 64278 1.06 0.00532
Target:  5'- uUUUAACCGCAGAUGGAAGCCCCCAACc -3'
miRNA:   3'- -AAAUUGGCGUCUACCUUCGGGGGUUG- -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.