miRNA display CGI


Results 1 - 20 of 67 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
25029 3' -57.9 NC_005336.1 + 29167 0.66 0.826215
Target:  5'- cGCCccuaaaugguGCUCGCGCcCUCCgaGCUCGucGUCg -3'
miRNA:   3'- -UGG----------UGAGCGCGuGAGGagUGAGC--CAG- -5'
25029 3' -57.9 NC_005336.1 + 42147 0.66 0.826215
Target:  5'- cGCCGCg-GCGCGCggCCUCGCUgugccaCGGcuUCg -3'
miRNA:   3'- -UGGUGagCGCGUGa-GGAGUGA------GCC--AG- -5'
25029 3' -57.9 NC_005336.1 + 103449 0.66 0.821133
Target:  5'- gGCCGCgggCGUGCACgucugcgacguguucUUCUCGC-CGGUg -3'
miRNA:   3'- -UGGUGa--GCGCGUG---------------AGGAGUGaGCCAg -5'
25029 3' -57.9 NC_005336.1 + 69139 0.66 0.818568
Target:  5'- cGCCGCggcCGCGaACUCCUCGCgcgagaaggcguaccCGGUg -3'
miRNA:   3'- -UGGUGa--GCGCgUGAGGAGUGa--------------GCCAg -5'
25029 3' -57.9 NC_005336.1 + 99254 0.66 0.81771
Target:  5'- gACCucacuUUCGUGCGCUUCUCGgucUUCGGcCg -3'
miRNA:   3'- -UGGu----GAGCGCGUGAGGAGU---GAGCCaG- -5'
25029 3' -57.9 NC_005336.1 + 71224 0.66 0.809912
Target:  5'- gGCCACUCGCGCGgCcgCCgcgcacaacgucgagUACagcgCGGUCa -3'
miRNA:   3'- -UGGUGAGCGCGU-Ga-GGa--------------GUGa---GCCAG- -5'
25029 3' -57.9 NC_005336.1 + 75086 0.66 0.809037
Target:  5'- aGCCGCgccgCGCGCGCgggCC-CGCgCGcGUCc -3'
miRNA:   3'- -UGGUGa---GCGCGUGa--GGaGUGaGC-CAG- -5'
25029 3' -57.9 NC_005336.1 + 91881 0.66 0.809037
Target:  5'- cGCCGCagaUGCGCGCgugcgCCUCAaagcUGGUCa -3'
miRNA:   3'- -UGGUGa--GCGCGUGa----GGAGUga--GCCAG- -5'
25029 3' -57.9 NC_005336.1 + 25113 0.66 0.800205
Target:  5'- cGCCACgUCGCgGCGCgUCUCGCU-GGUg -3'
miRNA:   3'- -UGGUG-AGCG-CGUGaGGAGUGAgCCAg -5'
25029 3' -57.9 NC_005336.1 + 29010 0.66 0.800205
Target:  5'- cCUGCUCGCGCAgUUCUCGCacaugaagacgCGGcUCg -3'
miRNA:   3'- uGGUGAGCGCGUgAGGAGUGa----------GCC-AG- -5'
25029 3' -57.9 NC_005336.1 + 41965 0.66 0.800205
Target:  5'- cGCCACgCGCGCGCgUCCgcgaGCUCGcG-Ca -3'
miRNA:   3'- -UGGUGaGCGCGUG-AGGag--UGAGC-CaG- -5'
25029 3' -57.9 NC_005336.1 + 75858 0.66 0.791223
Target:  5'- gGCCACggccUCGuCGUACUCCU-GCUUGGa- -3'
miRNA:   3'- -UGGUG----AGC-GCGUGAGGAgUGAGCCag -5'
25029 3' -57.9 NC_005336.1 + 20736 0.66 0.791223
Target:  5'- uACCGCagCGCGUcguGCUCCgugcCGCU-GGUCg -3'
miRNA:   3'- -UGGUGa-GCGCG---UGAGGa---GUGAgCCAG- -5'
25029 3' -57.9 NC_005336.1 + 130164 0.66 0.791223
Target:  5'- -gCGCUCGCGCACcaggCCgCGCUCGcG-Cg -3'
miRNA:   3'- ugGUGAGCGCGUGa---GGaGUGAGC-CaG- -5'
25029 3' -57.9 NC_005336.1 + 16062 0.66 0.791223
Target:  5'- aGCaGCUCGCGCACgaugCCcgCACUCGc-- -3'
miRNA:   3'- -UGgUGAGCGCGUGa---GGa-GUGAGCcag -5'
25029 3' -57.9 NC_005336.1 + 74713 0.66 0.790317
Target:  5'- uCCACUUcgugGUGCACcucgUCCUCGggagcgcCUCGGUCc -3'
miRNA:   3'- uGGUGAG----CGCGUG----AGGAGU-------GAGCCAG- -5'
25029 3' -57.9 NC_005336.1 + 46191 0.67 0.782099
Target:  5'- aGCCGCgccaGCGCcuccacgaGgUCCUCGCgcgUGGUCa -3'
miRNA:   3'- -UGGUGag--CGCG--------UgAGGAGUGa--GCCAG- -5'
25029 3' -57.9 NC_005336.1 + 51823 0.67 0.782099
Target:  5'- gUCGC-CGCGCugUCCgacgacgaggCGCUCGG-Cg -3'
miRNA:   3'- uGGUGaGCGCGugAGGa---------GUGAGCCaG- -5'
25029 3' -57.9 NC_005336.1 + 50692 0.67 0.782099
Target:  5'- aGCCGCUCG-GC-CUCCgcgCGCgcggcaaGGUCg -3'
miRNA:   3'- -UGGUGAGCgCGuGAGGa--GUGag-----CCAG- -5'
25029 3' -57.9 NC_005336.1 + 67760 0.67 0.77656
Target:  5'- cACCGCcuugacCGCGCGCagugccgagcgguugUCCagccgcagCGCUCGGUCg -3'
miRNA:   3'- -UGGUGa-----GCGCGUG---------------AGGa-------GUGAGCCAG- -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.