miRNA display CGI


Results 1 - 20 of 57 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
28040 3' -59.3 NC_005887.1 + 8051 0.66 0.433481
Target:  5'- gUGCUcgacGCGUGUCugCGUgCGCacgucUGGUCGUu -3'
miRNA:   3'- -ACGA----CGCGCGGugGCA-GCG-----ACUAGCA- -5'
28040 3' -59.3 NC_005887.1 + 39822 0.66 0.433481
Target:  5'- cUGCUGgauaaagcgcgaCGgGCCGCCGUCGCacaucaAUCGa -3'
miRNA:   3'- -ACGAC------------GCgCGGUGGCAGCGac----UAGCa -5'
28040 3' -59.3 NC_005887.1 + 39785 0.66 0.433481
Target:  5'- cGCU-CGCGCCgAUCGUUGCgcgcGUCGUc -3'
miRNA:   3'- aCGAcGCGCGG-UGGCAGCGac--UAGCA- -5'
28040 3' -59.3 NC_005887.1 + 26496 0.66 0.423934
Target:  5'- cUGCUGCGCGCgGgCGUUuccCUcGAUCGc -3'
miRNA:   3'- -ACGACGCGCGgUgGCAGc--GA-CUAGCa -5'
28040 3' -59.3 NC_005887.1 + 18045 0.66 0.423934
Target:  5'- cGCU-CGUGCCGCucgucuCGUCGUgGAUCGa -3'
miRNA:   3'- aCGAcGCGCGGUG------GCAGCGaCUAGCa -5'
28040 3' -59.3 NC_005887.1 + 3402 0.66 0.423934
Target:  5'- cGCcGCGCGCUACCGcUgGCaGggCGg -3'
miRNA:   3'- aCGaCGCGCGGUGGC-AgCGaCuaGCa -5'
28040 3' -59.3 NC_005887.1 + 29740 0.66 0.423934
Target:  5'- cGCcGCGCGUgCACgGUCuugcccggcgaGCUGAUCGc -3'
miRNA:   3'- aCGaCGCGCG-GUGgCAG-----------CGACUAGCa -5'
28040 3' -59.3 NC_005887.1 + 34925 0.66 0.423934
Target:  5'- cGCUGUGCGgaacUUGCCGUCGCcGGcuUCGa -3'
miRNA:   3'- aCGACGCGC----GGUGGCAGCGaCU--AGCa -5'
28040 3' -59.3 NC_005887.1 + 25816 0.66 0.414513
Target:  5'- uUGCUGaCGCGCCcacucggcGCCGgcggcgaCGC-GAUCGg -3'
miRNA:   3'- -ACGAC-GCGCGG--------UGGCa------GCGaCUAGCa -5'
28040 3' -59.3 NC_005887.1 + 22540 0.66 0.414513
Target:  5'- cGCUGCGCa-UGCCGUCcGC-GAUCGa -3'
miRNA:   3'- aCGACGCGcgGUGGCAG-CGaCUAGCa -5'
28040 3' -59.3 NC_005887.1 + 14902 0.66 0.413578
Target:  5'- aGCUGCuacgGUGCCGCUGcaaucacUCGC-GAUCGa -3'
miRNA:   3'- aCGACG----CGCGGUGGC-------AGCGaCUAGCa -5'
28040 3' -59.3 NC_005887.1 + 14657 0.66 0.405222
Target:  5'- gUGCUGCcCGUCGCCGguucgaCGCUgccccgcacGAUCGg -3'
miRNA:   3'- -ACGACGcGCGGUGGCa-----GCGA---------CUAGCa -5'
28040 3' -59.3 NC_005887.1 + 23006 0.66 0.396063
Target:  5'- cUGCUGCGCGagCAUgGUCaGCUuAUCGa -3'
miRNA:   3'- -ACGACGCGCg-GUGgCAG-CGAcUAGCa -5'
28040 3' -59.3 NC_005887.1 + 2451 0.66 0.396063
Target:  5'- cGCUGCGCuacGgCGCCGUCgacgaggcGCUGAcgCGg -3'
miRNA:   3'- aCGACGCG---CgGUGGCAG--------CGACUa-GCa -5'
28040 3' -59.3 NC_005887.1 + 37114 0.66 0.396063
Target:  5'- gGCgauCGCGCgGCCGUCGCccggaaucuucUGGUUGa -3'
miRNA:   3'- aCGac-GCGCGgUGGCAGCG-----------ACUAGCa -5'
28040 3' -59.3 NC_005887.1 + 37459 0.66 0.387039
Target:  5'- cGCgccgGCccucgGCGaCCAUCGUCGCgagcgGAUCGa -3'
miRNA:   3'- aCGa---CG-----CGC-GGUGGCAGCGa----CUAGCa -5'
28040 3' -59.3 NC_005887.1 + 40364 0.66 0.387039
Target:  5'- cGCgGcCGUGCCGCuCGUCGCgcgcgagGAaaUCGUg -3'
miRNA:   3'- aCGaC-GCGCGGUG-GCAGCGa------CU--AGCA- -5'
28040 3' -59.3 NC_005887.1 + 15003 0.67 0.378152
Target:  5'- cGCagGCGUGCCGCCcgaGCUGAugcUCGc -3'
miRNA:   3'- aCGa-CGCGCGGUGGcagCGACU---AGCa -5'
28040 3' -59.3 NC_005887.1 + 42040 0.67 0.369402
Target:  5'- gGUguaCGCGCgCACCGcggccUCGCUGAUCa- -3'
miRNA:   3'- aCGac-GCGCG-GUGGC-----AGCGACUAGca -5'
28040 3' -59.3 NC_005887.1 + 38226 0.67 0.369402
Target:  5'- aGCcuUGCGCGUgGCCGggauggucgagCGCUcGAUCGa -3'
miRNA:   3'- aCG--ACGCGCGgUGGCa----------GCGA-CUAGCa -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.