miRNA display CGI


Results 1 - 20 of 27 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
24876 5' -52.7 NC_005284.1 + 16862 0.66 0.841462
Target:  5'- -cGGCGGGUcguaugcgcaggUGcUGGCCggUGCGuucgacGGCa -3'
miRNA:   3'- caCCGCCUAa-----------AC-ACCGGuuGCGU------UCG- -5'
24876 5' -52.7 NC_005284.1 + 25752 0.66 0.834201
Target:  5'- uUGGCGGGgagcaaGCCucgGACGCAAGUu -3'
miRNA:   3'- cACCGCCUaaacacCGG---UUGCGUUCG- -5'
24876 5' -52.7 NC_005284.1 + 47949 0.66 0.834201
Target:  5'- cUGGCGcGGU---UGGCCGACgaGCAGGg -3'
miRNA:   3'- cACCGC-CUAaacACCGGUUG--CGUUCg -5'
24876 5' -52.7 NC_005284.1 + 52476 0.66 0.833283
Target:  5'- cUGGCGGGcgUUGacGCCAgugcguuACGCGAGa -3'
miRNA:   3'- cACCGCCUa-AACacCGGU-------UGCGUUCg -5'
24876 5' -52.7 NC_005284.1 + 54338 0.66 0.824923
Target:  5'- --aGCGGAUUUGUagagauGGCaCGACGCccgaugAAGCc -3'
miRNA:   3'- cacCGCCUAAACA------CCG-GUUGCG------UUCG- -5'
24876 5' -52.7 NC_005284.1 + 52740 0.66 0.824923
Target:  5'- -gGGUGGccggUGUGGCUAA-GCAgccGGCa -3'
miRNA:   3'- caCCGCCuaa-ACACCGGUUgCGU---UCG- -5'
24876 5' -52.7 NC_005284.1 + 6704 0.66 0.795848
Target:  5'- -aGGCgcucGGAUgaccgGGCCGGCGCGuaauGCg -3'
miRNA:   3'- caCCG----CCUAaaca-CCGGUUGCGUu---CG- -5'
24876 5' -52.7 NC_005284.1 + 45752 0.67 0.782725
Target:  5'- -aGGCGGugugaauggUGUGGCucuuCAuuccaucgaacuuuGCGCAGGCg -3'
miRNA:   3'- caCCGCCuaa------ACACCG----GU--------------UGCGUUCG- -5'
24876 5' -52.7 NC_005284.1 + 9759 0.67 0.775541
Target:  5'- -gGGCGGucga--GGCgaCGGCGCAAGCu -3'
miRNA:   3'- caCCGCCuaaacaCCG--GUUGCGUUCG- -5'
24876 5' -52.7 NC_005284.1 + 50676 0.67 0.754607
Target:  5'- cGUGGCGGAauuaucgucUGUGaGCggaAGCGCGAGa -3'
miRNA:   3'- -CACCGCCUaa-------ACAC-CGg--UUGCGUUCg -5'
24876 5' -52.7 NC_005284.1 + 23334 0.67 0.743936
Target:  5'- -cGGCGGucaaUUGggGGcCCGGCGCGccgcAGCg -3'
miRNA:   3'- caCCGCCua--AACa-CC-GGUUGCGU----UCG- -5'
24876 5' -52.7 NC_005284.1 + 41625 0.68 0.733146
Target:  5'- uUGGCGGcac---GGaCGACGCGAGCg -3'
miRNA:   3'- cACCGCCuaaacaCCgGUUGCGUUCG- -5'
24876 5' -52.7 NC_005284.1 + 16439 0.68 0.722247
Target:  5'- -aGGUGGug--GUGGCgGugGCA-GCa -3'
miRNA:   3'- caCCGCCuaaaCACCGgUugCGUuCG- -5'
24876 5' -52.7 NC_005284.1 + 12556 0.68 0.70018
Target:  5'- -gGGCGGAaccUUGUGGagAGCGCAAa- -3'
miRNA:   3'- caCCGCCUa--AACACCggUUGCGUUcg -5'
24876 5' -52.7 NC_005284.1 + 19009 0.68 0.689035
Target:  5'- cUGGCG----UGUGGUCGcUGCAGGCg -3'
miRNA:   3'- cACCGCcuaaACACCGGUuGCGUUCG- -5'
24876 5' -52.7 NC_005284.1 + 46282 0.69 0.666583
Target:  5'- -cGGCGGAa-----GCCAucaGCGCAAGCg -3'
miRNA:   3'- caCCGCCUaaacacCGGU---UGCGUUCG- -5'
24876 5' -52.7 NC_005284.1 + 15749 0.69 0.666583
Target:  5'- -gGGCGGAaugUG-GGCCGACaGCu-GCa -3'
miRNA:   3'- caCCGCCUaa-ACaCCGGUUG-CGuuCG- -5'
24876 5' -52.7 NC_005284.1 + 20256 0.69 0.643995
Target:  5'- -gGGCGGAccuacacgGUGcGCCuuauuaccgaAACGCAGGCu -3'
miRNA:   3'- caCCGCCUaaa-----CAC-CGG----------UUGCGUUCG- -5'
24876 5' -52.7 NC_005284.1 + 9636 0.69 0.643995
Target:  5'- -cGGCGGA-----GGCuuCAGCGCAGGCc -3'
miRNA:   3'- caCCGCCUaaacaCCG--GUUGCGUUCG- -5'
24876 5' -52.7 NC_005284.1 + 18066 0.69 0.643995
Target:  5'- gGUGGCGGGcgcugUGUGGaugauCGAaagcCGCGAGCu -3'
miRNA:   3'- -CACCGCCUaa---ACACCg----GUU----GCGUUCG- -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.