miRNA display CGI


Results 1 - 19 of 19 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
11848 3' -62.8 NC_003266.2 + 23652 0.66 0.271338
Target:  5'- aGGaCGCgCUGCUUgaCCGCAccgaggUGCCCCu -3'
miRNA:   3'- aCC-GCGgGAUGAG--GGCGUca----GCGGGG- -5'
11848 3' -62.8 NC_003266.2 + 26111 0.66 0.258069
Target:  5'- -uGCGCUC-GCUcaCCCGCAGUUGUCUg -3'
miRNA:   3'- acCGCGGGaUGA--GGGCGUCAGCGGGg -5'
11848 3' -62.8 NC_003266.2 + 8839 0.66 0.258069
Target:  5'- cGGCGCCCU-CgggaUCGCGGgcgCGCaugaCCa -3'
miRNA:   3'- aCCGCGGGAuGag--GGCGUCa--GCGg---GG- -5'
11848 3' -62.8 NC_003266.2 + 21956 0.66 0.254193
Target:  5'- gGGCGCCCUGCaacugaCGCGGaagcuguggaccgacUCGuuCCCCg -3'
miRNA:   3'- aCCGCGGGAUGagg---GCGUC---------------AGC--GGGG- -5'
11848 3' -62.8 NC_003266.2 + 13278 0.66 0.249732
Target:  5'- cGGCGCUgUccggccgcacggguGCUgCCGCAGcggUGCCCg -3'
miRNA:   3'- aCCGCGGgA--------------UGAgGGCGUCa--GCGGGg -5'
11848 3' -62.8 NC_003266.2 + 16962 0.66 0.245336
Target:  5'- ---aGCUgaACUCCCGCuGcCGCCCUg -3'
miRNA:   3'- accgCGGgaUGAGGGCGuCaGCGGGG- -5'
11848 3' -62.8 NC_003266.2 + 5471 0.66 0.245336
Target:  5'- cGGCGCggacgCCUACgccCCCG-AGuccgucuuccUCGCCCCc -3'
miRNA:   3'- aCCGCG-----GGAUGa--GGGCgUC----------AGCGGGG- -5'
11848 3' -62.8 NC_003266.2 + 15879 0.66 0.239167
Target:  5'- cUGGCGCCUgaagCCgCGCgucuGGcCGCCCUg -3'
miRNA:   3'- -ACCGCGGGaugaGG-GCG----UCaGCGGGG- -5'
11848 3' -62.8 NC_003266.2 + 25831 0.67 0.210245
Target:  5'- cGGCGCuaCCUGCUCuuucaCCGCGGggugaacuUC-CCCCg -3'
miRNA:   3'- aCCGCG--GGAUGAG-----GGCGUC--------AGcGGGG- -5'
11848 3' -62.8 NC_003266.2 + 3875 0.68 0.194377
Target:  5'- cGGCccGCgUCUGCUCCUGCAGcugaGCCaCCu -3'
miRNA:   3'- aCCG--CG-GGAUGAGGGCGUCag--CGG-GG- -5'
11848 3' -62.8 NC_003266.2 + 11010 0.68 0.189325
Target:  5'- gGGUGCC--GCUCCgGCGacGaCGCCCCc -3'
miRNA:   3'- aCCGCGGgaUGAGGgCGU--CaGCGGGG- -5'
11848 3' -62.8 NC_003266.2 + 14836 0.68 0.187832
Target:  5'- uUGGcCGCCgCcACUgCUGCGGcgcuagcaaaauuaUCGCCCCg -3'
miRNA:   3'- -ACC-GCGG-GaUGAgGGCGUC--------------AGCGGGG- -5'
11848 3' -62.8 NC_003266.2 + 8295 0.69 0.165765
Target:  5'- cGcGCGCCCUugaaaaACUCCUGCAaGUcaaccgcgCGCCgCCg -3'
miRNA:   3'- aC-CGCGGGA------UGAGGGCGU-CA--------GCGG-GG- -5'
11848 3' -62.8 NC_003266.2 + 30786 0.69 0.157101
Target:  5'- aGGCGCUCUgGCUCCCGCc--UGaUCCCg -3'
miRNA:   3'- aCCGCGGGA-UGAGGGCGucaGC-GGGG- -5'
11848 3' -62.8 NC_003266.2 + 15542 0.7 0.122987
Target:  5'- gGGCGCCCUcaaggGCcgCgUGCGGUCGCgCaCCa -3'
miRNA:   3'- aCCGCGGGA-----UGa-GgGCGUCAGCG-G-GG- -5'
11848 3' -62.8 NC_003266.2 + 8638 0.73 0.083337
Target:  5'- cGGCGgCCUGCcgcagaaucUCuuGCAcGUCGCCCg -3'
miRNA:   3'- aCCGCgGGAUG---------AGggCGU-CAGCGGGg -5'
11848 3' -62.8 NC_003266.2 + 13592 0.75 0.054487
Target:  5'- gUGGCcCCCUGCguugCCCGgGGaUCGUCCCu -3'
miRNA:   3'- -ACCGcGGGAUGa---GGGCgUC-AGCGGGG- -5'
11848 3' -62.8 NC_003266.2 + 21518 0.76 0.048601
Target:  5'- gGGUGCCCaACggcaugCUC-CAGUCGCCCCa -3'
miRNA:   3'- aCCGCGGGaUGa-----GGGcGUCAGCGGGG- -5'
11848 3' -62.8 NC_003266.2 + 5131 1.11 7.4e-05
Target:  5'- cUGGCGCCCUACUCCCGCAGUCGCCCCa -3'
miRNA:   3'- -ACCGCGGGAUGAGGGCGUCAGCGGGG- -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.