miRNA display CGI


Results 1 - 20 of 20 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
25053 3' -55.6 NC_005336.1 + 65288 0.66 0.924357
Target:  5'- gGCgc-GCGGCUCCGAGgcGcgcGAGAgCGu -3'
miRNA:   3'- -CGaucCGCCGAGGCUCuuC---CUCUaGC- -5'
25053 3' -55.6 NC_005336.1 + 96691 0.66 0.924357
Target:  5'- gGCcGGGgGGUagCCGGGAcuagGGGGGAgUCGg -3'
miRNA:   3'- -CGaUCCgCCGa-GGCUCU----UCCUCU-AGC- -5'
25053 3' -55.6 NC_005336.1 + 29205 0.66 0.92271
Target:  5'- cGUUGGGCGcCUCCGAGGccagcaucgugcgcGGGAacGUCGc -3'
miRNA:   3'- -CGAUCCGCcGAGGCUCU--------------UCCUc-UAGC- -5'
25053 3' -55.6 NC_005336.1 + 117993 0.66 0.906919
Target:  5'- gGCUGGGCcuGuCUCCGGGGAaGAGGUa- -3'
miRNA:   3'- -CGAUCCGc-C-GAGGCUCUUcCUCUAgc -5'
25053 3' -55.6 NC_005336.1 + 41288 0.66 0.894108
Target:  5'- gGCgaaGGGgGGCUCUaaGGGAGGcGuGGUCGa -3'
miRNA:   3'- -CGa--UCCgCCGAGG--CUCUUC-CuCUAGC- -5'
25053 3' -55.6 NC_005336.1 + 98631 0.66 0.894108
Target:  5'- --cGGGCGGCUgCCGcgcacGccGGAGGUCa -3'
miRNA:   3'- cgaUCCGCCGA-GGCu----CuuCCUCUAGc -5'
25053 3' -55.6 NC_005336.1 + 51229 0.67 0.880374
Target:  5'- --gGGGCucaagaagcugGGCUCCGAcAAGGAGcUCGc -3'
miRNA:   3'- cgaUCCG-----------CCGAGGCUcUUCCUCuAGC- -5'
25053 3' -55.6 NC_005336.1 + 58143 0.68 0.842246
Target:  5'- --gAGGaGGCcgCCGAGGAGGAGuUCu -3'
miRNA:   3'- cgaUCCgCCGa-GGCUCUUCCUCuAGc -5'
25053 3' -55.6 NC_005336.1 + 127296 0.68 0.842246
Target:  5'- uGCaUGGGCGGCgCgGAGgcGGccguGAUCGc -3'
miRNA:   3'- -CG-AUCCGCCGaGgCUCuuCCu---CUAGC- -5'
25053 3' -55.6 NC_005336.1 + 74588 0.68 0.842246
Target:  5'- cGCUGGcguGCGuGCUgcgcgaggUCGAGGAGGAGAcCGg -3'
miRNA:   3'- -CGAUC---CGC-CGA--------GGCUCUUCCUCUaGC- -5'
25053 3' -55.6 NC_005336.1 + 94588 0.68 0.808251
Target:  5'- aGCcacGGCGGCUCCGcGgcGGAG-UCc -3'
miRNA:   3'- -CGau-CCGCCGAGGCuCuuCCUCuAGc -5'
25053 3' -55.6 NC_005336.1 + 47533 0.69 0.79933
Target:  5'- uGCUGcGGCGGgUUCGGGAucucgcauuacuGGGAGAagGg -3'
miRNA:   3'- -CGAU-CCGCCgAGGCUCU------------UCCUCUagC- -5'
25053 3' -55.6 NC_005336.1 + 115369 0.69 0.79933
Target:  5'- --gAGaGCGGCUCCGcGAuauucgcGGAGGUCa -3'
miRNA:   3'- cgaUC-CGCCGAGGCuCUu------CCUCUAGc -5'
25053 3' -55.6 NC_005336.1 + 49794 0.69 0.762211
Target:  5'- cGCgAGcGCGcGCUCCGAGAAGcAGcUCGa -3'
miRNA:   3'- -CGaUC-CGC-CGAGGCUCUUCcUCuAGC- -5'
25053 3' -55.6 NC_005336.1 + 130922 0.7 0.71327
Target:  5'- cGCUGccuGGCGGgggugUCCGGGAuccAGGAGGUCc -3'
miRNA:   3'- -CGAU---CCGCCg----AGGCUCU---UCCUCUAGc -5'
25053 3' -55.6 NC_005336.1 + 25417 0.71 0.642077
Target:  5'- cGCUcGGCGGCUaagCCGAGuucaauAAGGAGGUa- -3'
miRNA:   3'- -CGAuCCGCCGA---GGCUC------UUCCUCUAgc -5'
25053 3' -55.6 NC_005336.1 + 79607 0.73 0.580613
Target:  5'- cGUUGGGCGaGCUCCcGGuGGaGAGGUCGu -3'
miRNA:   3'- -CGAUCCGC-CGAGGcUCuUC-CUCUAGC- -5'
25053 3' -55.6 NC_005336.1 + 114761 0.73 0.580613
Target:  5'- cGCUGgcGGagaaGGCUCCGGGAAcgugggcguGGAGAUCc -3'
miRNA:   3'- -CGAU--CCg---CCGAGGCUCUU---------CCUCUAGc -5'
25053 3' -55.6 NC_005336.1 + 58111 0.79 0.259742
Target:  5'- cGCgcguGGCGGCUCgcaaGAuGGAGGAGAUCGa -3'
miRNA:   3'- -CGau--CCGCCGAGg---CU-CUUCCUCUAGC- -5'
25053 3' -55.6 NC_005336.1 + 122349 1.1 0.002536
Target:  5'- aGCUAGGCGGCUCCGAGAAGGAGAUCGc -3'
miRNA:   3'- -CGAUCCGCCGAGGCUCUUCCUCUAGC- -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.