miRNA display CGI


Results 1 - 20 of 64 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
25843 5' -52.2 NC_005337.1 + 57742 1.1 0.004945
Target:  5'- gCGCAAGGCCUUCCGCAUGAACAUCGAg -3'
miRNA:   3'- -GCGUUCCGGAAGGCGUACUUGUAGCU- -5'
25843 5' -52.2 NC_005337.1 + 76093 0.8 0.347255
Target:  5'- aCGC-GGGCCUggaucucuuucuccaUCCGCAUGAACAUCu- -3'
miRNA:   3'- -GCGuUCCGGA---------------AGGCGUACUUGUAGcu -5'
25843 5' -52.2 NC_005337.1 + 40826 0.79 0.412076
Target:  5'- gGCGGGcGUCUUCCGCAUGAGCcgCa- -3'
miRNA:   3'- gCGUUC-CGGAAGGCGUACUUGuaGcu -5'
25843 5' -52.2 NC_005337.1 + 22642 0.78 0.439644
Target:  5'- cCGCGAGGCCUUCgGCGcGGACGcgCGGc -3'
miRNA:   3'- -GCGUUCCGGAAGgCGUaCUUGUa-GCU- -5'
25843 5' -52.2 NC_005337.1 + 124808 0.75 0.591568
Target:  5'- aGUggGGCCgcagcgaggaggugcUCCGCAcGGGCAUCGAg -3'
miRNA:   3'- gCGuuCCGGa--------------AGGCGUaCUUGUAGCU- -5'
25843 5' -52.2 NC_005337.1 + 34721 0.75 0.632885
Target:  5'- cCGCAGGGCCUcCuCGCGcGAGCAgUCGGc -3'
miRNA:   3'- -GCGUUCCGGAaG-GCGUaCUUGU-AGCU- -5'
25843 5' -52.2 NC_005337.1 + 23547 0.74 0.674187
Target:  5'- gGCGGGGCCUgccCCGCGuacacgcccaagcUGAACAcCGAg -3'
miRNA:   3'- gCGUUCCGGAa--GGCGU-------------ACUUGUaGCU- -5'
25843 5' -52.2 NC_005337.1 + 91109 0.73 0.727253
Target:  5'- gGCGAGGuCCggucggCgCGCAUGAGCAUgGAg -3'
miRNA:   3'- gCGUUCC-GGaa----G-GCGUACUUGUAgCU- -5'
25843 5' -52.2 NC_005337.1 + 76542 0.72 0.78664
Target:  5'- gCGgAAGGCCUUgCGCGUG-GCGUUGu -3'
miRNA:   3'- -GCgUUCCGGAAgGCGUACuUGUAGCu -5'
25843 5' -52.2 NC_005337.1 + 109761 0.72 0.78664
Target:  5'- cCGCGAGGUCgUCCGCGgugGGACGaccUCGc -3'
miRNA:   3'- -GCGUUCCGGaAGGCGUa--CUUGU---AGCu -5'
25843 5' -52.2 NC_005337.1 + 57803 0.72 0.796073
Target:  5'- cCGCGGGcaGCCgcaUCUGCGUGGuCAUCGAc -3'
miRNA:   3'- -GCGUUC--CGGa--AGGCGUACUuGUAGCU- -5'
25843 5' -52.2 NC_005337.1 + 131158 0.71 0.814453
Target:  5'- aCGCGAGGCCggCCGCGgucGCGgucgCGGa -3'
miRNA:   3'- -GCGUUCCGGaaGGCGUacuUGUa---GCU- -5'
25843 5' -52.2 NC_005337.1 + 65994 0.71 0.82338
Target:  5'- cCGCc-GGCCggCCGCA--GACGUCGAa -3'
miRNA:   3'- -GCGuuCCGGaaGGCGUacUUGUAGCU- -5'
25843 5' -52.2 NC_005337.1 + 46713 0.71 0.82338
Target:  5'- aGCGAGGaggUCUcCGUGAACGUCGAu -3'
miRNA:   3'- gCGUUCCggaAGGcGUACUUGUAGCU- -5'
25843 5' -52.2 NC_005337.1 + 41521 0.71 0.840666
Target:  5'- cCGCGcGGCCaUCCGCucgcGGAUGUCGGu -3'
miRNA:   3'- -GCGUuCCGGaAGGCGua--CUUGUAGCU- -5'
25843 5' -52.2 NC_005337.1 + 35757 0.71 0.840666
Target:  5'- gGCGGgcuccccccGGCCUUgCCGCGgaacucggGGACGUCGAa -3'
miRNA:   3'- gCGUU---------CCGGAA-GGCGUa-------CUUGUAGCU- -5'
25843 5' -52.2 NC_005337.1 + 37351 0.7 0.849006
Target:  5'- cCGCGGGGCUguUUCCGCcgGAGuCGUaGAa -3'
miRNA:   3'- -GCGUUCCGG--AAGGCGuaCUU-GUAgCU- -5'
25843 5' -52.2 NC_005337.1 + 100902 0.7 0.857136
Target:  5'- uGCAGGGUCUgucgcCCGuCGUGAGCGgagaCGAg -3'
miRNA:   3'- gCGUUCCGGAa----GGC-GUACUUGUa---GCU- -5'
25843 5' -52.2 NC_005337.1 + 128124 0.7 0.865046
Target:  5'- uGCGcGGCUg-CCGCGUGAACGcgCGAa -3'
miRNA:   3'- gCGUuCCGGaaGGCGUACUUGUa-GCU- -5'
25843 5' -52.2 NC_005337.1 + 29930 0.7 0.880184
Target:  5'- aGCAuggagAGGUCUUCCGCGaGAAgAUgGAg -3'
miRNA:   3'- gCGU-----UCCGGAAGGCGUaCUUgUAgCU- -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.