miRNA display CGI


Results 21 - 35 of 35 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
11610 3' -57.4 NC_003085.1 + 28028 0.8 0.071098
Target:  5'- uACGUGGACggcgucCUCCUGUCGgAGCCgAGCg -3'
miRNA:   3'- -UGUACCUGa-----GAGGGCAGCgUCGG-UCG- -5'
11610 3' -57.4 NC_003085.1 + 28077 0.67 0.478521
Target:  5'- -aGUGGAgUCUCCUGUCcGCcuucaccaacuuGGgCAGCg -3'
miRNA:   3'- ugUACCUgAGAGGGCAG-CG------------UCgGUCG- -5'
11610 3' -57.4 NC_003085.1 + 30426 0.69 0.383153
Target:  5'- ---cGGAaUCUCCaCGaCGCAGCCAGa -3'
miRNA:   3'- uguaCCUgAGAGG-GCaGCGUCGGUCg -5'
11610 3' -57.4 NC_003085.1 + 33170 0.67 0.498985
Target:  5'- uCAUGGcGCcugCUCCaguaGUCGC-GCCAGUa -3'
miRNA:   3'- uGUACC-UGa--GAGGg---CAGCGuCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 34158 0.66 0.551704
Target:  5'- cUAUGGGCUCgacgCCC--CG-GGCCAGCa -3'
miRNA:   3'- uGUACCUGAGa---GGGcaGCgUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 34414 0.67 0.498985
Target:  5'- gGCAUGGGgaUUCCgGccagccaaaacUCGgAGCCGGCg -3'
miRNA:   3'- -UGUACCUgaGAGGgC-----------AGCgUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 38160 0.68 0.429281
Target:  5'- -gGUGGcGCUC-CCCGcCGCGGCgCAGg -3'
miRNA:   3'- ugUACC-UGAGaGGGCaGCGUCG-GUCg -5'
11610 3' -57.4 NC_003085.1 + 38969 0.66 0.561386
Target:  5'- ---cGGAUUCUCCaGUgCGCcgcgcagcaggucGGCCAGCc -3'
miRNA:   3'- uguaCCUGAGAGGgCA-GCG-------------UCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 39092 0.67 0.498985
Target:  5'- cGCAUaGGCaacgCUCCCGcCGCAGUCcuGGCc -3'
miRNA:   3'- -UGUAcCUGa---GAGGGCaGCGUCGG--UCG- -5'
11610 3' -57.4 NC_003085.1 + 40473 0.73 0.227565
Target:  5'- -gGUGGGa-CUCCUGUCGCuGCUGGCg -3'
miRNA:   3'- ugUACCUgaGAGGGCAGCGuCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 42167 1.1 0.000423
Target:  5'- gACAUGGACUCUCCCGUCGCAGCCAGCc -3'
miRNA:   3'- -UGUACCUGAGAGGGCAGCGUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 42531 0.76 0.140082
Target:  5'- uGCGUGG-C-CUCCCGcuUCGCcucGGCCAGCg -3'
miRNA:   3'- -UGUACCuGaGAGGGC--AGCG---UCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 42690 0.71 0.308826
Target:  5'- aGCGgaaGGGCUCUCgCCGUCcGCcacGGCgCGGCa -3'
miRNA:   3'- -UGUa--CCUGAGAG-GGCAG-CG---UCG-GUCG- -5'
11610 3' -57.4 NC_003085.1 + 43805 0.68 0.438892
Target:  5'- aGCGUGucCgUCaUCuuGUCGUAGCCGGUg -3'
miRNA:   3'- -UGUACcuG-AG-AGggCAGCGUCGGUCG- -5'
11610 3' -57.4 NC_003085.1 + 44665 0.66 0.530379
Target:  5'- ---cGGGCUUugggCCCGUCcugGCGgauGCCAGCa -3'
miRNA:   3'- uguaCCUGAGa---GGGCAG---CGU---CGGUCG- -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.