miRNA display CGI


Results 1 - 20 of 34 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
31908 3' -54.6 NC_006938.1 + 50840 0.66 0.80395
Target:  5'- -gGGUGUGacGCGgGGCGAGCUcCGCc -3'
miRNA:   3'- ugCCGCGCgaUGUgUCGCUUGAaGCG- -5'
31908 3' -54.6 NC_006938.1 + 36309 0.66 0.80395
Target:  5'- uUGGaucccaCGCGCccagUGCGCAGCGAGCggaucUUGCc -3'
miRNA:   3'- uGCC------GCGCG----AUGUGUCGCUUGa----AGCG- -5'
31908 3' -54.6 NC_006938.1 + 20502 0.66 0.802998
Target:  5'- -gGGCGaGUUGC-CAGCGAugUccuugggcaccugUCGCg -3'
miRNA:   3'- ugCCGCgCGAUGuGUCGCUugA-------------AGCG- -5'
31908 3' -54.6 NC_006938.1 + 22066 0.66 0.784586
Target:  5'- -gGGaGCgGCUGCGCGGCGGcCUggGCa -3'
miRNA:   3'- ugCCgCG-CGAUGUGUCGCUuGAagCG- -5'
31908 3' -54.6 NC_006938.1 + 52548 0.66 0.774663
Target:  5'- uACGGCGCGUauUugAUGGC--ACcgUCGCg -3'
miRNA:   3'- -UGCCGCGCG--AugUGUCGcuUGa-AGCG- -5'
31908 3' -54.6 NC_006938.1 + 24521 0.66 0.774663
Target:  5'- aGCGGUGCcgucgucCUGCACAGCGGcaguGCcaUUCGg -3'
miRNA:   3'- -UGCCGCGc------GAUGUGUCGCU----UG--AAGCg -5'
31908 3' -54.6 NC_006938.1 + 50335 0.66 0.764594
Target:  5'- gUGGCGCGC-GCACGGUcAAC--CGCu -3'
miRNA:   3'- uGCCGCGCGaUGUGUCGcUUGaaGCG- -5'
31908 3' -54.6 NC_006938.1 + 27905 0.67 0.733625
Target:  5'- gACGGacagcaucuccuCGCGCcACACcucGGCGGACUUCu- -3'
miRNA:   3'- -UGCC------------GCGCGaUGUG---UCGCUUGAAGcg -5'
31908 3' -54.6 NC_006938.1 + 1892 0.67 0.712455
Target:  5'- cACGGCGCGCUAUgagcCGGCaAAgUUCa- -3'
miRNA:   3'- -UGCCGCGCGAUGu---GUCGcUUgAAGcg -5'
31908 3' -54.6 NC_006938.1 + 10781 0.67 0.710319
Target:  5'- cACGGCGCGCUugcugaccaggcCACGGaccACUUCGa -3'
miRNA:   3'- -UGCCGCGCGAu-----------GUGUCgcuUGAAGCg -5'
31908 3' -54.6 NC_006938.1 + 10102 0.67 0.701747
Target:  5'- cACGGUGCacaUGC-CGGaCGGugUUCGCa -3'
miRNA:   3'- -UGCCGCGcg-AUGuGUC-GCUugAAGCG- -5'
31908 3' -54.6 NC_006938.1 + 38082 0.68 0.690972
Target:  5'- cGCGGuCGCGgUACuugaAGCuguGCUUCGCc -3'
miRNA:   3'- -UGCC-GCGCgAUGug--UCGcu-UGAAGCG- -5'
31908 3' -54.6 NC_006938.1 + 2028 0.68 0.690972
Target:  5'- gGCGGUGUGaaGC-CAGCGGugUagCGCg -3'
miRNA:   3'- -UGCCGCGCgaUGuGUCGCUugAa-GCG- -5'
31908 3' -54.6 NC_006938.1 + 10856 0.68 0.689892
Target:  5'- uACGGCGaggugaacgaccuCGacaugUACAUGGCGAucuACUUCGCa -3'
miRNA:   3'- -UGCCGC-------------GCg----AUGUGUCGCU---UGAAGCG- -5'
31908 3' -54.6 NC_006938.1 + 12197 0.68 0.680141
Target:  5'- aGCGGCGggaagaccgccUGCaGCGCGGCGAAUaUCuGCu -3'
miRNA:   3'- -UGCCGC-----------GCGaUGUGUCGCUUGaAG-CG- -5'
31908 3' -54.6 NC_006938.1 + 58040 0.68 0.680141
Target:  5'- gACGGCcuugGCauuGCUGCcaGCGGCGggUggCGCg -3'
miRNA:   3'- -UGCCG----CG---CGAUG--UGUCGCuuGaaGCG- -5'
31908 3' -54.6 NC_006938.1 + 46272 0.68 0.647419
Target:  5'- cGCGGUGCGCgcgguGGCGAACga-GCu -3'
miRNA:   3'- -UGCCGCGCGaugugUCGCUUGaagCG- -5'
31908 3' -54.6 NC_006938.1 + 41992 0.69 0.636471
Target:  5'- -gGGCGaCGUcgGCACGGCGAACcUUGa -3'
miRNA:   3'- ugCCGC-GCGa-UGUGUCGCUUGaAGCg -5'
31908 3' -54.6 NC_006938.1 + 59423 0.69 0.614571
Target:  5'- gUGGCGcCGCcggACcCGGCcGACUUCGCc -3'
miRNA:   3'- uGCCGC-GCGa--UGuGUCGcUUGAAGCG- -5'
31908 3' -54.6 NC_006938.1 + 25036 0.69 0.592732
Target:  5'- cGCGGCGUuCaGgGCGGCGAugUcCGCg -3'
miRNA:   3'- -UGCCGCGcGaUgUGUCGCUugAaGCG- -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.