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
12195 5' -53.9 NC_003309.1 + 12024 0.66 0.752567
Target:  5'- cGCAGUGgaCG-CGAUCGUcucGUCGAa- -3'
miRNA:   3'- aCGUUACgaGCgGCUAGCG---CAGCUaa -5'
12195 5' -53.9 NC_003309.1 + 17837 0.66 0.752567
Target:  5'- gGUGAUcGCUucgaUGuuGAUCGCGUCGGc- -3'
miRNA:   3'- aCGUUA-CGA----GCggCUAGCGCAGCUaa -5'
12195 5' -53.9 NC_003309.1 + 3320 0.66 0.73116
Target:  5'- cGCGAUGUcgagCGCgGAaaggcgcagCGCGUCGAUc -3'
miRNA:   3'- aCGUUACGa---GCGgCUa--------GCGCAGCUAa -5'
12195 5' -53.9 NC_003309.1 + 16125 0.67 0.6983
Target:  5'- cGCGAUGC-CGCUGcgcucgcacAUCGCG-CGAUc -3'
miRNA:   3'- aCGUUACGaGCGGC---------UAGCGCaGCUAa -5'
12195 5' -53.9 NC_003309.1 + 12365 0.68 0.653598
Target:  5'- cGCuccuucaGCUUGuuGAUCGCGUCGc-- -3'
miRNA:   3'- aCGuua----CGAGCggCUAGCGCAGCuaa -5'
12195 5' -53.9 NC_003309.1 + 4036 0.68 0.652474
Target:  5'- cGCAgggguucAUGUgCGCCGAUCGCGauaCGAg- -3'
miRNA:   3'- aCGU-------UACGaGCGGCUAGCGCa--GCUaa -5'
12195 5' -53.9 NC_003309.1 + 5561 0.68 0.642343
Target:  5'- -----cGCgcgCGCCGAUCGCGgCGGUg -3'
miRNA:   3'- acguuaCGa--GCGGCUAGCGCaGCUAa -5'
12195 5' -53.9 NC_003309.1 + 43614 0.68 0.642343
Target:  5'- cGCGGUGCUUGuCCGggUGCccGUCGGg- -3'
miRNA:   3'- aCGUUACGAGC-GGCuaGCG--CAGCUaa -5'
12195 5' -53.9 NC_003309.1 + 7900 0.69 0.586127
Target:  5'- cUGcCAAgucgGCaaGCCGAUCGgCGUCGGUg -3'
miRNA:   3'- -AC-GUUa---CGagCGGCUAGC-GCAGCUAa -5'
12195 5' -53.9 NC_003309.1 + 16912 0.69 0.574966
Target:  5'- aGCGacgaGUGCggCGCCGAgaaUCGUGUUGAa- -3'
miRNA:   3'- aCGU----UACGa-GCGGCU---AGCGCAGCUaa -5'
12195 5' -53.9 NC_003309.1 + 31014 0.7 0.48812
Target:  5'- aGCAAUcauaagGCUCGCCaGAUCGCGagCGGc- -3'
miRNA:   3'- aCGUUA------CGAGCGG-CUAGCGCa-GCUaa -5'
12195 5' -53.9 NC_003309.1 + 37968 0.71 0.467343
Target:  5'- cGCAGUuccccGCUCGCCGcgCGCGg-GAUUu -3'
miRNA:   3'- aCGUUA-----CGAGCGGCuaGCGCagCUAA- -5'
12195 5' -53.9 NC_003309.1 + 11502 0.72 0.38921
Target:  5'- cGCGAgGCUCGCCGugucgAUCGCGcCGGc- -3'
miRNA:   3'- aCGUUaCGAGCGGC-----UAGCGCaGCUaa -5'
12195 5' -53.9 NC_003309.1 + 37299 0.73 0.362196
Target:  5'- cGCGAcGCccugaaucUCGCCGG-CGCGUCGAUg -3'
miRNA:   3'- aCGUUaCG--------AGCGGCUaGCGCAGCUAa -5'
12195 5' -53.9 NC_003309.1 + 9744 0.73 0.353486
Target:  5'- uUGCGAUccgcugauacaGCUCgGCCG-UCGCGUCGAg- -3'
miRNA:   3'- -ACGUUA-----------CGAG-CGGCuAGCGCAGCUaa -5'
12195 5' -53.9 NC_003309.1 + 47425 0.76 0.24729
Target:  5'- cGCGGUGCUCGCaccaguCGAgccaCGCGUCGAc- -3'
miRNA:   3'- aCGUUACGAGCG------GCUa---GCGCAGCUaa -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.