miRNA display CGI


Results 1 - 20 of 56 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
9005 3' -59.4 NC_002512.2 + 69126 0.67 0.821586
Target:  5'- cGCUcCGGGAcCUCCGugCCCGGGgcCGGc -3'
miRNA:   3'- -CGA-GCCCUaGAGGCuaGGGUCC--GCCa -5'
9005 3' -59.4 NC_002512.2 + 7729 0.68 0.75255
Target:  5'- gGCgUCGGGAUag-CGGUCCUcggGGGCGGa -3'
miRNA:   3'- -CG-AGCCCUAgagGCUAGGG---UCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 103496 0.68 0.761591
Target:  5'- cGCcCGGGGcC-CCGGgcgcucUCCCGGGCGGc -3'
miRNA:   3'- -CGaGCCCUaGaGGCU------AGGGUCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 101849 0.68 0.796655
Target:  5'- -gUCGGGGccgugcagcUCUUCGAcgCCgGGGCGGg -3'
miRNA:   3'- cgAGCCCU---------AGAGGCUa-GGgUCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 80659 0.68 0.796655
Target:  5'- cGC-CGGG-UCcgUCGGUCCCGcGGCGGc -3'
miRNA:   3'- -CGaGCCCuAGa-GGCUAGGGU-CCGCCa -5'
9005 3' -59.4 NC_002512.2 + 90054 0.68 0.796655
Target:  5'- cGCUCGGGGUCgaccaugaCGuUCgCCggGGGCGGg -3'
miRNA:   3'- -CGAGCCCUAGag------GCuAG-GG--UCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 84164 0.67 0.802587
Target:  5'- cGCgCGGGAggUC-CCGGUCcagguucggcgggaCCAGGCGGc -3'
miRNA:   3'- -CGaGCCCU--AGaGGCUAG--------------GGUCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 82403 0.67 0.805108
Target:  5'- cGCgcgCGGGGgagCCGGuggUCCCGcGGCGGa -3'
miRNA:   3'- -CGa--GCCCUagaGGCU---AGGGU-CCGCCa -5'
9005 3' -59.4 NC_002512.2 + 24303 0.67 0.81342
Target:  5'- aGCggCGGGGcgaaCUgCGGUCCCccGGCGGUc -3'
miRNA:   3'- -CGa-GCCCUa---GAgGCUAGGGu-CCGCCA- -5'
9005 3' -59.4 NC_002512.2 + 46485 0.69 0.723953
Target:  5'- cGCUCuuGGGcAUCU-CGAUCCCggugucgAGGCGGa -3'
miRNA:   3'- -CGAG--CCC-UAGAgGCUAGGG-------UCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 99390 0.69 0.696582
Target:  5'- aGCgUCGGGGUC-CgGAcUCCCGgGGCGGc -3'
miRNA:   3'- -CG-AGCCCUAGaGgCU-AGGGU-CCGCCa -5'
9005 3' -59.4 NC_002512.2 + 72502 0.7 0.667841
Target:  5'- aGC-CGGcGAUCucgUCCGGUCCCugcccGGCGGc -3'
miRNA:   3'- -CGaGCC-CUAG---AGGCUAGGGu----CCGCCa -5'
9005 3' -59.4 NC_002512.2 + 134726 0.73 0.478613
Target:  5'- gGC-CGGGGgaaggCUCCGGUCCUcgacccgccgGGGCGGa -3'
miRNA:   3'- -CGaGCCCUa----GAGGCUAGGG----------UCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 15153 0.73 0.496636
Target:  5'- cGCgcaGGGGUUUuuGAagCCCGGGCGGg -3'
miRNA:   3'- -CGag-CCCUAGAggCUa-GGGUCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 142237 0.73 0.505762
Target:  5'- cGCggaacgCGGGAUCUCCGAUCUgGGaucCGGUc -3'
miRNA:   3'- -CGa-----GCCCUAGAGGCUAGGgUCc--GCCA- -5'
9005 3' -59.4 NC_002512.2 + 64422 0.72 0.533551
Target:  5'- aCUCGGGAUCuUCCGAUCgaUCAGaaaGCGGg -3'
miRNA:   3'- cGAGCCCUAG-AGGCUAG--GGUC---CGCCa -5'
9005 3' -59.4 NC_002512.2 + 130661 0.71 0.580966
Target:  5'- uGCgCGGGGcUCUCCGAggaCCGGGaCGGg -3'
miRNA:   3'- -CGaGCCCU-AGAGGCUag-GGUCC-GCCa -5'
9005 3' -59.4 NC_002512.2 + 8167 0.71 0.590569
Target:  5'- cGCUCGGGgAUCUcggcguagcacCCGAggccgagcgUCgCCGGGCGGg -3'
miRNA:   3'- -CGAGCCC-UAGA-----------GGCU---------AG-GGUCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 133879 0.7 0.64854
Target:  5'- gGCUCGaGGAgcggCUCggccggCGGUCCCGGGCGc- -3'
miRNA:   3'- -CGAGC-CCUa---GAG------GCUAGGGUCCGCca -5'
9005 3' -59.4 NC_002512.2 + 192259 0.7 0.6582
Target:  5'- cGUUCGGG-UCUCggaGAUCCCAcGGCauGGUg -3'
miRNA:   3'- -CGAGCCCuAGAGg--CUAGGGU-CCG--CCA- -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.