miRNA display CGI


Results 1 - 20 of 35 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
7647 3' -56.1 NC_001973.1 + 100895 0.66 0.936338
Target:  5'- gACUuuGACCCuGUugugcgACAGGAUGUAgcuguugagacUGGUg -3'
miRNA:   3'- -UGAggCUGGG-CA------UGUCCUGCAU-----------GCCG- -5'
7647 3' -56.1 NC_001973.1 + 59543 0.66 0.931434
Target:  5'- cGCUUgGACgCGgccaAGGGCGUcGCGGUg -3'
miRNA:   3'- -UGAGgCUGgGCaug-UCCUGCA-UGCCG- -5'
7647 3' -56.1 NC_001973.1 + 138686 0.66 0.931434
Target:  5'- aGCUCCaucacgucuUCCGcggACAGGccuGCGUGCGGUg -3'
miRNA:   3'- -UGAGGcu-------GGGCa--UGUCC---UGCAUGCCG- -5'
7647 3' -56.1 NC_001973.1 + 70731 0.66 0.926299
Target:  5'- gAUUCCGACgacauugaCGaGCAGGACGaagucAUGGCa -3'
miRNA:   3'- -UGAGGCUGg-------GCaUGUCCUGCa----UGCCG- -5'
7647 3' -56.1 NC_001973.1 + 95499 0.66 0.926299
Target:  5'- uGCaggCCGAgaCCa-ACAGGACGUACGaGCu -3'
miRNA:   3'- -UGa--GGCUg-GGcaUGUCCUGCAUGC-CG- -5'
7647 3' -56.1 NC_001973.1 + 30375 0.66 0.926299
Target:  5'- cGCggCGACUCGggUGCGGGcCGgcgcgGCGGCg -3'
miRNA:   3'- -UGagGCUGGGC--AUGUCCuGCa----UGCCG- -5'
7647 3' -56.1 NC_001973.1 + 26168 0.66 0.926299
Target:  5'- gUUCCG-CCgGcGCGGGcGCGUcgACGGCg -3'
miRNA:   3'- uGAGGCuGGgCaUGUCC-UGCA--UGCCG- -5'
7647 3' -56.1 NC_001973.1 + 89557 0.67 0.909515
Target:  5'- cGC-CCGAuCCUGUAUAGGuuucgcucGCGguucaGCGGCg -3'
miRNA:   3'- -UGaGGCU-GGGCAUGUCC--------UGCa----UGCCG- -5'
7647 3' -56.1 NC_001973.1 + 144438 0.67 0.903463
Target:  5'- uACUCCGccgaggacgcGCgCGUGuCGGGcgGCGUGCGGg -3'
miRNA:   3'- -UGAGGC----------UGgGCAU-GUCC--UGCAUGCCg -5'
7647 3' -56.1 NC_001973.1 + 28918 0.67 0.903463
Target:  5'- aGCUCCGAgUCGUugGGcuugcacGCGgcugggGCGGCa -3'
miRNA:   3'- -UGAGGCUgGGCAugUCc------UGCa-----UGCCG- -5'
7647 3' -56.1 NC_001973.1 + 95018 0.67 0.903463
Target:  5'- gGCUUCGugCCGaugUGCGGcGGgG-ACGGCa -3'
miRNA:   3'- -UGAGGCugGGC---AUGUC-CUgCaUGCCG- -5'
7647 3' -56.1 NC_001973.1 + 14002 0.67 0.897186
Target:  5'- gGCUCuccaaCGACCgGUgGCGGGcgGCGU-CGGCg -3'
miRNA:   3'- -UGAG-----GCUGGgCA-UGUCC--UGCAuGCCG- -5'
7647 3' -56.1 NC_001973.1 + 56466 0.67 0.897186
Target:  5'- gGCUCgGcgccaaGCUCGgGCGGGGCGggcuCGGCg -3'
miRNA:   3'- -UGAGgC------UGGGCaUGUCCUGCau--GCCG- -5'
7647 3' -56.1 NC_001973.1 + 56520 0.67 0.897186
Target:  5'- gGCUCgGcgccaaGCUCGgGCGGGGCGggcuCGGCg -3'
miRNA:   3'- -UGAGgC------UGGGCaUGUCCUGCau--GCCG- -5'
7647 3' -56.1 NC_001973.1 + 146503 0.67 0.897186
Target:  5'- cCUCUGGCCC--GCGGGAuCGUcgGGCa -3'
miRNA:   3'- uGAGGCUGGGcaUGUCCU-GCAugCCG- -5'
7647 3' -56.1 NC_001973.1 + 158037 0.67 0.897186
Target:  5'- cGCcgCCGcGCCCGUGCguAGcGACGacucgccgaggaUACGGCg -3'
miRNA:   3'- -UGa-GGC-UGGGCAUG--UC-CUGC------------AUGCCG- -5'
7647 3' -56.1 NC_001973.1 + 55951 0.67 0.890686
Target:  5'- gACUCgGGCCCGUucuguCGGGAgagGCGcGCg -3'
miRNA:   3'- -UGAGgCUGGGCAu----GUCCUgcaUGC-CG- -5'
7647 3' -56.1 NC_001973.1 + 9796 0.67 0.890686
Target:  5'- uGCUCCGGCgUG-ACGGaGGCcacgACGGCg -3'
miRNA:   3'- -UGAGGCUGgGCaUGUC-CUGca--UGCCG- -5'
7647 3' -56.1 NC_001973.1 + 157880 0.67 0.883968
Target:  5'- cGCUgCGGCUCGUGucGGAgGUcGCGGCc -3'
miRNA:   3'- -UGAgGCUGGGCAUguCCUgCA-UGCCG- -5'
7647 3' -56.1 NC_001973.1 + 120302 0.67 0.877034
Target:  5'- uAUUCCaaggcgaaugGugUCGUGCGGaGACG-ACGGCg -3'
miRNA:   3'- -UGAGG----------CugGGCAUGUC-CUGCaUGCCG- -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.