miRNA display CGI


Results 1 - 20 of 25 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
30856 3' -61.1 NC_006552.1 + 7194 0.66 0.492274
Target:  5'- cCCAAGcGCGUC-CCGuccccGGCGCgCaGCGAg -3'
miRNA:   3'- cGGUUC-CGCAGaGGC-----UCGCG-GcCGCU- -5'
30856 3' -61.1 NC_006552.1 + 13162 0.66 0.482572
Target:  5'- aCCAGGGCGUCg-CGGGCGUUcuGCGu -3'
miRNA:   3'- cGGUUCCGCAGagGCUCGCGGc-CGCu -5'
30856 3' -61.1 NC_006552.1 + 55284 0.66 0.479679
Target:  5'- uCCAGGGCGagUCCGgggccuacccguucAGCGgcuggcUCGGCGAg -3'
miRNA:   3'- cGGUUCCGCagAGGC--------------UCGC------GGCCGCU- -5'
30856 3' -61.1 NC_006552.1 + 35371 0.66 0.472962
Target:  5'- cGCCcGGGaua-UCCGAGagacugGCCGGCGGu -3'
miRNA:   3'- -CGGuUCCgcagAGGCUCg-----CGGCCGCU- -5'
30856 3' -61.1 NC_006552.1 + 63083 0.66 0.454039
Target:  5'- gGCCAAcGcCGUCgCCGAGaacuGCCGuGCGAu -3'
miRNA:   3'- -CGGUUcC-GCAGaGGCUCg---CGGC-CGCU- -5'
30856 3' -61.1 NC_006552.1 + 50303 0.66 0.444732
Target:  5'- cGCC-GGGCGcUCaCCGAaguuGCGUCGGCa- -3'
miRNA:   3'- -CGGuUCCGC-AGaGGCU----CGCGGCCGcu -5'
30856 3' -61.1 NC_006552.1 + 56203 0.66 0.444732
Target:  5'- cGCUcGGGCacaUCCGAGCGUUcugGGCGGa -3'
miRNA:   3'- -CGGuUCCGcagAGGCUCGCGG---CCGCU- -5'
30856 3' -61.1 NC_006552.1 + 36060 0.67 0.417472
Target:  5'- cGUC-AGGCGUCUugcccuguuggUCGccaccagccgaAGCGCCGGCGu -3'
miRNA:   3'- -CGGuUCCGCAGA-----------GGC-----------UCGCGGCCGCu -5'
30856 3' -61.1 NC_006552.1 + 59458 0.67 0.408614
Target:  5'- cCCAcuuGGGCGg--CUGAGCuGCUGGUGAg -3'
miRNA:   3'- cGGU---UCCGCagaGGCUCG-CGGCCGCU- -5'
30856 3' -61.1 NC_006552.1 + 25355 0.67 0.408614
Target:  5'- gGUCAugcuGGUGaUCUCCGAG-GCCaccgcGGCGAa -3'
miRNA:   3'- -CGGUu---CCGC-AGAGGCUCgCGG-----CCGCU- -5'
30856 3' -61.1 NC_006552.1 + 44262 0.67 0.399874
Target:  5'- aCCAAGcGCuucuugauGUCUUCaAGcCGCCGGCGAa -3'
miRNA:   3'- cGGUUC-CG--------CAGAGGcUC-GCGGCCGCU- -5'
30856 3' -61.1 NC_006552.1 + 26537 0.67 0.399874
Target:  5'- cGCCGGGGUGUCcagcgUCaGGCGCuCGGCc- -3'
miRNA:   3'- -CGGUUCCGCAGa----GGcUCGCG-GCCGcu -5'
30856 3' -61.1 NC_006552.1 + 26719 0.68 0.374383
Target:  5'- cGCCgAAGGCGUCgCCGuGCaGUgGGCu- -3'
miRNA:   3'- -CGG-UUCCGCAGaGGCuCG-CGgCCGcu -5'
30856 3' -61.1 NC_006552.1 + 26246 0.68 0.374383
Target:  5'- cGCCGGucGGCccagCUCCGguAGCGUCGGCa- -3'
miRNA:   3'- -CGGUU--CCGca--GAGGC--UCGCGGCCGcu -5'
30856 3' -61.1 NC_006552.1 + 54121 0.68 0.366135
Target:  5'- gGCUcuGGCGcaUCgUCUGAGCGCCGGg-- -3'
miRNA:   3'- -CGGuuCCGC--AG-AGGCUCGCGGCCgcu -5'
30856 3' -61.1 NC_006552.1 + 37969 0.68 0.350016
Target:  5'- gGCCAGGGCGUCUUgcaCG-GC-CUGGuCGAu -3'
miRNA:   3'- -CGGUUCCGCAGAG---GCuCGcGGCC-GCU- -5'
30856 3' -61.1 NC_006552.1 + 61373 0.68 0.342149
Target:  5'- aGCC-GGGCcauGUUUUgGcGCGCCGGCGGc -3'
miRNA:   3'- -CGGuUCCG---CAGAGgCuCGCGGCCGCU- -5'
30856 3' -61.1 NC_006552.1 + 17951 0.69 0.326799
Target:  5'- cCCGAGGCG-CgCCGAGUuaCCGGCGu -3'
miRNA:   3'- cGGUUCCGCaGaGGCUCGc-GGCCGCu -5'
30856 3' -61.1 NC_006552.1 + 60528 0.69 0.304743
Target:  5'- uGCCGAGcccCGUCUcggccagcaCCGuuCGCCGGCGAc -3'
miRNA:   3'- -CGGUUCc--GCAGA---------GGCucGCGGCCGCU- -5'
30856 3' -61.1 NC_006552.1 + 9329 0.7 0.283172
Target:  5'- cGCCGaaccagcguuugaAGGCGUCgCUGAGCGUCuGCGu -3'
miRNA:   3'- -CGGU-------------UCCGCAGaGGCUCGCGGcCGCu -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.