miRNA display CGI


Results 1 - 20 of 37 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
19284 5' -64.3 NC_004685.1 + 21918 0.66 0.33745
Target:  5'- uACGCCCguguGGCUGGCagaacgaCUCGGCGUggcauccgcaCCAUc -3'
miRNA:   3'- -UGUGGG----CCGACUGg------GAGCCGCG----------GGUA- -5'
19284 5' -64.3 NC_004685.1 + 43708 0.66 0.336685
Target:  5'- -uGCCCGGCUGGaagaCCgauggugUCGGCgGCaCCAUg -3'
miRNA:   3'- ugUGGGCCGACUg---GG-------AGCCG-CG-GGUA- -5'
19284 5' -64.3 NC_004685.1 + 12454 0.66 0.32986
Target:  5'- aGCGCCCGGUcagcUGACCagucgacgUUGGCGCgCGc -3'
miRNA:   3'- -UGUGGGCCG----ACUGGg-------AGCCGCGgGUa -5'
19284 5' -64.3 NC_004685.1 + 65696 0.66 0.322398
Target:  5'- uACACCgGGCcGGCUgUCGucGUGCCCGc -3'
miRNA:   3'- -UGUGGgCCGaCUGGgAGC--CGCGGGUa -5'
19284 5' -64.3 NC_004685.1 + 40594 0.66 0.315061
Target:  5'- cGCGgCCGGUU--CCCUCGGCgGCaCCAUc -3'
miRNA:   3'- -UGUgGGCCGAcuGGGAGCCG-CG-GGUA- -5'
19284 5' -64.3 NC_004685.1 + 59596 0.66 0.314335
Target:  5'- aGCGCaCCGGCUGcGCCUUCcagccacGGC-CCCAg -3'
miRNA:   3'- -UGUG-GGCCGAC-UGGGAG-------CCGcGGGUa -5'
19284 5' -64.3 NC_004685.1 + 58325 0.66 0.307852
Target:  5'- -gGCCCGGCcGGCacagCCUCGGUGUCgGg -3'
miRNA:   3'- ugUGGGCCGaCUG----GGAGCCGCGGgUa -5'
19284 5' -64.3 NC_004685.1 + 6405 0.66 0.307138
Target:  5'- gACACUCGGCgGAUUCUucuccggCGGCGCCa-- -3'
miRNA:   3'- -UGUGGGCCGaCUGGGA-------GCCGCGGgua -5'
19284 5' -64.3 NC_004685.1 + 11712 0.66 0.307138
Target:  5'- uCACCCGGCUGugCgCUgacaccgcgcaCGGCccgcuguGCCCGa -3'
miRNA:   3'- uGUGGGCCGACugG-GA-----------GCCG-------CGGGUa -5'
19284 5' -64.3 NC_004685.1 + 67312 0.67 0.286984
Target:  5'- -aGCUCGugcuggccgaacGCUGGCCCggGGUGCCCAa -3'
miRNA:   3'- ugUGGGC------------CGACUGGGagCCGCGGGUa -5'
19284 5' -64.3 NC_004685.1 + 39216 0.67 0.286984
Target:  5'- cCGCCUGGC-GGCggCUUCGGCGCCgGc -3'
miRNA:   3'- uGUGGGCCGaCUG--GGAGCCGCGGgUa -5'
19284 5' -64.3 NC_004685.1 + 2905 0.67 0.280279
Target:  5'- gGCACCCGGCcccaGugCCggugCGGCgGgCCAg -3'
miRNA:   3'- -UGUGGGCCGa---CugGGa---GCCG-CgGGUa -5'
19284 5' -64.3 NC_004685.1 + 53315 0.67 0.280279
Target:  5'- cCAUCaGGCUGAggUCCUgGGCGCUCAUc -3'
miRNA:   3'- uGUGGgCCGACU--GGGAgCCGCGGGUA- -5'
19284 5' -64.3 NC_004685.1 + 65997 0.67 0.280279
Target:  5'- uACACCCGcGCcGAgCCgUCGGCGUCgCGg -3'
miRNA:   3'- -UGUGGGC-CGaCU-GGgAGCCGCGG-GUa -5'
19284 5' -64.3 NC_004685.1 + 14674 0.67 0.2737
Target:  5'- -gACCgaGGgUGACCCcgaggCGGUGCCCGa -3'
miRNA:   3'- ugUGGg-CCgACUGGGa----GCCGCGGGUa -5'
19284 5' -64.3 NC_004685.1 + 6838 0.67 0.2737
Target:  5'- gGCGCaCCGGCucccgccgUGACCC-CgGGUGCCCc- -3'
miRNA:   3'- -UGUG-GGCCG--------ACUGGGaG-CCGCGGGua -5'
19284 5' -64.3 NC_004685.1 + 14076 0.67 0.267245
Target:  5'- --uCCCGGCUGAgCUggacaCGGCGaCCCGg -3'
miRNA:   3'- uguGGGCCGACUgGGa----GCCGC-GGGUa -5'
19284 5' -64.3 NC_004685.1 + 24478 0.67 0.254705
Target:  5'- uCACCCGGCUcGGCCg-CGGCGUaCAg -3'
miRNA:   3'- uGUGGGCCGA-CUGGgaGCCGCGgGUa -5'
19284 5' -64.3 NC_004685.1 + 49728 0.67 0.254705
Target:  5'- aGCGUCCaGCUGaACCCgUCGGCGCCa-- -3'
miRNA:   3'- -UGUGGGcCGAC-UGGG-AGCCGCGGgua -5'
19284 5' -64.3 NC_004685.1 + 22507 0.67 0.254705
Target:  5'- -gGCUCGGCUGAUCUucuccgCGGUGUCCGc -3'
miRNA:   3'- ugUGGGCCGACUGGGa-----GCCGCGGGUa -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.