miRNA display CGI


Results 1 - 20 of 24 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
32282 3' -44 NC_007023.1 + 124823 0.66 1
Target:  5'- aCCUGGCUAaauucaucuacACggGCGAAGAauuGGCUCCUg -3'
miRNA:   3'- -GGGUUGAU-----------UGaaUGUUUUU---UCGGGGA- -5'
32282 3' -44 NC_007023.1 + 15636 0.66 1
Target:  5'- aCCCAGCgcaaggAACUUGCAcaugaAGAAAuGCCaCUg -3'
miRNA:   3'- -GGGUUGa-----UUGAAUGU-----UUUUU-CGG-GGa -5'
32282 3' -44 NC_007023.1 + 102987 0.66 1
Target:  5'- aCCCAuuCUAuacagGCgauCGAGAAGcGCCCCUg -3'
miRNA:   3'- -GGGUu-GAU-----UGaauGUUUUUU-CGGGGA- -5'
32282 3' -44 NC_007023.1 + 112386 0.66 1
Target:  5'- uCCCAuauUUAGCaaACAAAAAA-CCCCUg -3'
miRNA:   3'- -GGGUu--GAUUGaaUGUUUUUUcGGGGA- -5'
32282 3' -44 NC_007023.1 + 120384 0.67 0.999999
Target:  5'- cCCCGuuaaaACUGGCUaACcuuAAAGGCUCCg -3'
miRNA:   3'- -GGGU-----UGAUUGAaUGuu-UUUUCGGGGa -5'
32282 3' -44 NC_007023.1 + 94274 0.67 0.999999
Target:  5'- aCCGACgaauACaagGCgAAGAAAGCCCUg -3'
miRNA:   3'- gGGUUGau--UGaa-UG-UUUUUUCGGGGa -5'
32282 3' -44 NC_007023.1 + 66222 0.67 0.999998
Target:  5'- cUCCAGCUuucaucCUcAUAacAAAAAGCCCCUu -3'
miRNA:   3'- -GGGUUGAuu----GAaUGU--UUUUUCGGGGA- -5'
32282 3' -44 NC_007023.1 + 101025 0.68 0.999997
Target:  5'- cCUCAACUAcGCauguugaaaaguaUUugAAAAAAGCCCUUg -3'
miRNA:   3'- -GGGUUGAU-UG-------------AAugUUUUUUCGGGGA- -5'
32282 3' -44 NC_007023.1 + 15916 0.68 0.999997
Target:  5'- aCCCAACUGAgggUAuCAGAAAGGCUUUg -3'
miRNA:   3'- -GGGUUGAUUga-AU-GUUUUUUCGGGGa -5'
32282 3' -44 NC_007023.1 + 90571 0.68 0.999997
Target:  5'- gUCAuauUUcACcUACAAAAAAGCCCCUu -3'
miRNA:   3'- gGGUu--GAuUGaAUGUUUUUUCGGGGA- -5'
32282 3' -44 NC_007023.1 + 12386 0.68 0.999997
Target:  5'- cCCCAAaUGACagaaUUAUAauAAAAAGCCCUUg -3'
miRNA:   3'- -GGGUUgAUUG----AAUGU--UUUUUCGGGGA- -5'
32282 3' -44 NC_007023.1 + 69659 0.68 0.999995
Target:  5'- aCCUGGCUGGCUucccgUACAAGAAAGgCgCg -3'
miRNA:   3'- -GGGUUGAUUGA-----AUGUUUUUUCgGgGa -5'
32282 3' -44 NC_007023.1 + 11390 0.69 0.999981
Target:  5'- cUCCGuuuguguauguGCgUAAUaUACAAAAAAGCCCCc -3'
miRNA:   3'- -GGGU-----------UG-AUUGaAUGUUUUUUCGGGGa -5'
32282 3' -44 NC_007023.1 + 59774 0.69 0.999964
Target:  5'- cCCCGAUcaaGGCUUACAAGuauaacguGAGCaCCCg -3'
miRNA:   3'- -GGGUUGa--UUGAAUGUUUu-------UUCG-GGGa -5'
32282 3' -44 NC_007023.1 + 75898 0.7 0.999952
Target:  5'- -aCAGCguacuACUcaauaACAAAAAAGCCCCg -3'
miRNA:   3'- ggGUUGau---UGAa----UGUUUUUUCGGGGa -5'
32282 3' -44 NC_007023.1 + 30496 0.7 0.999935
Target:  5'- aUCCAACUaAACUU-CAAGAAcaaguugcAGCCCUg -3'
miRNA:   3'- -GGGUUGA-UUGAAuGUUUUU--------UCGGGGa -5'
32282 3' -44 NC_007023.1 + 3940 0.71 0.999649
Target:  5'- uCCUAAUcggUAGCgggaguaauauaACAAAAAAGCCCCUg -3'
miRNA:   3'- -GGGUUG---AUUGaa----------UGUUUUUUCGGGGA- -5'
32282 3' -44 NC_007023.1 + 124824 0.73 0.99853
Target:  5'- aCUCAACccgAAUUUGCuAAAGAAGUCCCg -3'
miRNA:   3'- -GGGUUGa--UUGAAUG-UUUUUUCGGGGa -5'
32282 3' -44 NC_007023.1 + 72201 0.73 0.997849
Target:  5'- cCCCAGCUugugcGCUUuCAGGGGuuGCCCCUu -3'
miRNA:   3'- -GGGUUGAu----UGAAuGUUUUUu-CGGGGA- -5'
32282 3' -44 NC_007023.1 + 38602 0.74 0.996346
Target:  5'- cCCCAGgaAGCaaAgAAAGAAGCCCCa -3'
miRNA:   3'- -GGGUUgaUUGaaUgUUUUUUCGGGGa -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.