miRNA display CGI


Results 1 - 20 of 28 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
2248 3' -57.6 NC_001405.1 + 2179 0.75 0.097533
Target:  5'- gCGGCGGCAGGAGC-AGAGCccauggaacccgagAGcCGGCc -3'
miRNA:   3'- -GUCGCCGUUCUCGuUCUCG--------------UC-GCCGu -5'
2248 3' -57.6 NC_001405.1 + 3846 0.68 0.317327
Target:  5'- gCGGUGGCugcAGCGGcugaAGCGGCGGCGg -3'
miRNA:   3'- -GUCGCCGuucUCGUUc---UCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 4597 0.66 0.396398
Target:  5'- --aUGGCAAuGGGCccacGGGCGGCGGCc -3'
miRNA:   3'- gucGCCGUU-CUCGuu--CUCGUCGCCGu -5'
2248 3' -57.6 NC_001405.1 + 8601 0.66 0.425431
Target:  5'- gGGgGGCucgggacccgccGGGAGaGGGGGCAGgGGCAc -3'
miRNA:   3'- gUCgCCG------------UUCUCgUUCUCGUCgCCGU- -5'
2248 3' -57.6 NC_001405.1 + 8652 0.68 0.325498
Target:  5'- -cGCgGGCAGGAGCuGGuGCuGCGcGCGg -3'
miRNA:   3'- guCG-CCGUUCUCGuUCuCGuCGC-CGU- -5'
2248 3' -57.6 NC_001405.1 + 9389 0.71 0.185454
Target:  5'- uGGCGGCGguGGGGgAGGGGggacaCGGCGGCGa -3'
miRNA:   3'- gUCGCCGU--UCUCgUUCUC-----GUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 9728 0.69 0.25752
Target:  5'- -cGUGGCGGGcGGCAGcGGGUGGCGGUc -3'
miRNA:   3'- guCGCCGUUC-UCGUU-CUCGUCGCCGu -5'
2248 3' -57.6 NC_001405.1 + 11067 1.08 0.000284
Target:  5'- gCAGCGGCAAGAGCAAGAGCAGCGGCAg -3'
miRNA:   3'- -GUCGCCGUUCUCGUUCUCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 12064 0.69 0.250729
Target:  5'- gGGCccuGGCu--GGCAcGGGCAGCGGCGa -3'
miRNA:   3'- gUCG---CCGuucUCGUuCUCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 14187 0.66 0.396398
Target:  5'- -cGUGGUGAGcgcGGCGccAGuGGCGGCGGCGc -3'
miRNA:   3'- guCGCCGUUC---UCGU--UC-UCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 15041 0.73 0.143676
Target:  5'- gGGCGGgGAuGGCGcaGGCGGCGGCAa -3'
miRNA:   3'- gUCGCCgUUcUCGUucUCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 15076 0.66 0.404973
Target:  5'- gCAGCGGCGcGGAagagaacuccaacGCGGcAGCcGCGGCAa -3'
miRNA:   3'- -GUCGCCGU-UCU-------------CGUUcUCGuCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 15186 0.7 0.23124
Target:  5'- aAGCGcGCuGAGGcCGAG-GCAGCGGCAg -3'
miRNA:   3'- gUCGC-CG-UUCUcGUUCuCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 15633 0.68 0.301451
Target:  5'- uGGCGGau-GAGCuGGGAGUAGaCGGCc -3'
miRNA:   3'- gUCGCCguuCUCG-UUCUCGUC-GCCGu -5'
2248 3' -57.6 NC_001405.1 + 16243 0.7 0.213043
Target:  5'- gGGCGGCAGugccGGGUcGGcGGCGGUGGCGa -3'
miRNA:   3'- gUCGCCGUU----CUCGuUC-UCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 17573 0.74 0.110668
Target:  5'- gGGCuGGCGAcGGCGAcGGCGGCGGCGg -3'
miRNA:   3'- gUCG-CCGUUcUCGUUcUCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 18056 0.67 0.368672
Target:  5'- --uCGGCAccAGCAAuauGAGCGGUGGCGc -3'
miRNA:   3'- gucGCCGUucUCGUU---CUCGUCGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 18642 0.68 0.293745
Target:  5'- -cGCGGCuAGGGCGGGuuacaacaacGGCGGaCGGCc -3'
miRNA:   3'- guCGCCGuUCUCGUUC----------UCGUC-GCCGu -5'
2248 3' -57.6 NC_001405.1 + 22102 0.67 0.35973
Target:  5'- aCAGCGGUcGGGGgAAGAaGCAaUGGCGc -3'
miRNA:   3'- -GUCGCCGuUCUCgUUCU-CGUcGCCGU- -5'
2248 3' -57.6 NC_001405.1 + 23703 0.66 0.425431
Target:  5'- aCGGCaagggaGGUAAGcGCAcGGuGCGGCGGCu -3'
miRNA:   3'- -GUCG------CCGUUCuCGU-UCuCGUCGCCGu -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.