miRNA display CGI


Results 1 - 20 of 27 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
2992 3' -65.7 NC_001493.1 + 108580 0.66 0.469028
Target:  5'- gCGUGaUCgCGCGCUUguUCCCGGGC-CUg -3'
miRNA:   3'- aGCGC-GG-GCGCGAG--AGGGCCCGaGGu -5'
2992 3' -65.7 NC_001493.1 + 78452 0.66 0.469028
Target:  5'- aCGaCGCCCGUGCcagUCUgGGGC-CCGa -3'
miRNA:   3'- aGC-GCGGGCGCGag-AGGgCCCGaGGU- -5'
2992 3' -65.7 NC_001493.1 + 48160 0.66 0.451508
Target:  5'- -aGUGCCCGaCGCUCguggCCGGGUugggggCCGg -3'
miRNA:   3'- agCGCGGGC-GCGAGag--GGCCCGa-----GGU- -5'
2992 3' -65.7 NC_001493.1 + 83893 0.66 0.451508
Target:  5'- -gGCGCgCgGCGCUC-CCCGGuaaauuCUCCGc -3'
miRNA:   3'- agCGCG-GgCGCGAGaGGGCCc-----GAGGU- -5'
2992 3' -65.7 NC_001493.1 + 56790 0.66 0.442883
Target:  5'- uUCGCGCCCGC-CUCgggcggaUCGGuGC-CCAc -3'
miRNA:   3'- -AGCGCGGGCGcGAGag-----GGCC-CGaGGU- -5'
2992 3' -65.7 NC_001493.1 + 57147 0.66 0.433504
Target:  5'- uUCGuCGCCUGUGUgaucacggguaagUC-CUCGGGCUUCAc -3'
miRNA:   3'- -AGC-GCGGGCGCG-------------AGaGGGCCCGAGGU- -5'
2992 3' -65.7 NC_001493.1 + 112660 0.67 0.409343
Target:  5'- -gGCGCCCcCGUaucCUCaCGGGCUCCc -3'
miRNA:   3'- agCGCGGGcGCGa--GAGgGCCCGAGGu -5'
2992 3' -65.7 NC_001493.1 + 15156 0.67 0.393178
Target:  5'- cUCGCGCUUuCGCaUUCCCGgauauuucGGCUCCGg -3'
miRNA:   3'- -AGCGCGGGcGCGaGAGGGC--------CCGAGGU- -5'
2992 3' -65.7 NC_001493.1 + 130711 0.67 0.384465
Target:  5'- cUCGCGCUUuCGCaUUCCCGGauauuucGCUCCGg -3'
miRNA:   3'- -AGCGCGGGcGCGaGAGGGCC-------CGAGGU- -5'
2992 3' -65.7 NC_001493.1 + 39355 0.67 0.376656
Target:  5'- cUC-CGUCCGCGCUCuaccggcggucguUCCCGGGUcgggucucuuucUCCc -3'
miRNA:   3'- -AGcGCGGGCGCGAG-------------AGGGCCCG------------AGGu -5'
2992 3' -65.7 NC_001493.1 + 130626 0.67 0.36972
Target:  5'- cUCGgGCCCGCacccgcaccGCUCccUCCgGGGCcCCu -3'
miRNA:   3'- -AGCgCGGGCG---------CGAG--AGGgCCCGaGGu -5'
2992 3' -65.7 NC_001493.1 + 15072 0.67 0.36972
Target:  5'- cUCGgGCCCGCacccgcaccGCUCccUCCgGGGCcCCu -3'
miRNA:   3'- -AGCgCGGGCG---------CGAG--AGGgCCCGaGGu -5'
2992 3' -65.7 NC_001493.1 + 82217 0.67 0.36972
Target:  5'- gUCGCagaaucuccggaGUuuGCGCUCaCCCGGGuCUCUg -3'
miRNA:   3'- -AGCG------------CGggCGCGAGaGGGCCC-GAGGu -5'
2992 3' -65.7 NC_001493.1 + 84296 0.68 0.354622
Target:  5'- aCGC-CCCGCGaaaCUC-CCCGGcCUCCAu -3'
miRNA:   3'- aGCGcGGGCGC---GAGaGGGCCcGAGGU- -5'
2992 3' -65.7 NC_001493.1 + 93669 0.68 0.318812
Target:  5'- gUCGCGCCCGCcgaUUUaccCCCGGG-UCCGu -3'
miRNA:   3'- -AGCGCGGGCGcg-AGA---GGGCCCgAGGU- -5'
2992 3' -65.7 NC_001493.1 + 110836 0.69 0.305268
Target:  5'- aUCGaGUgCGCGCUCgaCCCGGGUUCg- -3'
miRNA:   3'- -AGCgCGgGCGCGAGa-GGGCCCGAGgu -5'
2992 3' -65.7 NC_001493.1 + 125516 0.69 0.279515
Target:  5'- aUGCGCCCGCGCcgagcucgacgUC-CCCGcGGUUCgAg -3'
miRNA:   3'- aGCGCGGGCGCG-----------AGaGGGC-CCGAGgU- -5'
2992 3' -65.7 NC_001493.1 + 9962 0.69 0.279515
Target:  5'- aUGCGCCCGCGCcgagcucgacgUC-CCCGcGGUUCgAg -3'
miRNA:   3'- aGCGCGGGCGCG-----------AGaGGGC-CCGAGgU- -5'
2992 3' -65.7 NC_001493.1 + 29181 0.71 0.22221
Target:  5'- cUCGCGCuucaggaCCGCGUguugCUCUCGGGCaucggCCAa -3'
miRNA:   3'- -AGCGCG-------GGCGCGa---GAGGGCCCGa----GGU- -5'
2992 3' -65.7 NC_001493.1 + 62462 0.73 0.159954
Target:  5'- cCGUGCCCGUGCccguggccggCUCCCgcGGGCUUCGc -3'
miRNA:   3'- aGCGCGGGCGCGa---------GAGGG--CCCGAGGU- -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.