miRNA display CGI


Results 1 - 20 of 21 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
26960 3' -54.1 NC_005809.1 + 37693 0.66 0.721373
Target:  5'- aCGAGGCc-GCCGUcGCCGCgcUGGg-- -3'
miRNA:   3'- aGUUCCGuaUGGCA-CGGCGa-ACCacc -5'
26960 3' -54.1 NC_005809.1 + 23848 0.66 0.710383
Target:  5'- uUCGAcGGCAUcCCGUGCCGCc------ -3'
miRNA:   3'- -AGUU-CCGUAuGGCACGGCGaaccacc -5'
26960 3' -54.1 NC_005809.1 + 8746 0.66 0.710383
Target:  5'- cCAGGGCGcGCgcguauucaCGUGCCGCUUcGGg-- -3'
miRNA:   3'- aGUUCCGUaUG---------GCACGGCGAA-CCacc -5'
26960 3' -54.1 NC_005809.1 + 2033 0.66 0.710383
Target:  5'- ---cGGCAUACCG-GCCGCcucGGcgacgaUGGa -3'
miRNA:   3'- aguuCCGUAUGGCaCGGCGaa-CC------ACC- -5'
26960 3' -54.1 NC_005809.1 + 18319 0.67 0.665734
Target:  5'- aCAcGGCAguaGCgGcGCaGCUUGGUGGg -3'
miRNA:   3'- aGUuCCGUa--UGgCaCGgCGAACCACC- -5'
26960 3' -54.1 NC_005809.1 + 16935 0.67 0.654459
Target:  5'- gUAGGGCAcgGCgccguccagcagCGUGCCGCgUUGGUauGGa -3'
miRNA:   3'- aGUUCCGUa-UG------------GCACGGCG-AACCA--CC- -5'
26960 3' -54.1 NC_005809.1 + 320 0.67 0.631855
Target:  5'- cCAGGGCGUGCCGUaCCGgg-GGUc- -3'
miRNA:   3'- aGUUCCGUAUGGCAcGGCgaaCCAcc -5'
26960 3' -54.1 NC_005809.1 + 8979 0.67 0.620548
Target:  5'- ----aGCGUgGCCGUGCCGCgauagccagcGGUGGc -3'
miRNA:   3'- aguucCGUA-UGGCACGGCGaa--------CCACC- -5'
26960 3' -54.1 NC_005809.1 + 9264 0.68 0.597977
Target:  5'- cCAGcGGUG-GCCGUGCCGCgauagccagcGGUGGc -3'
miRNA:   3'- aGUU-CCGUaUGGCACGGCGaa--------CCACC- -5'
26960 3' -54.1 NC_005809.1 + 9120 0.68 0.597977
Target:  5'- cCAGcGGUG-GCCGUGCCGCgauagccagcGGUGGc -3'
miRNA:   3'- aGUU-CCGUaUGGCACGGCGaa--------CCACC- -5'
26960 3' -54.1 NC_005809.1 + 1980 0.69 0.531285
Target:  5'- -gAAGGCAcGCUGUagGCCGCgaGGUcGGa -3'
miRNA:   3'- agUUCCGUaUGGCA--CGGCGaaCCA-CC- -5'
26960 3' -54.1 NC_005809.1 + 24639 0.69 0.509621
Target:  5'- aCAuGGCGUGCCGgcggGCCaGgaUGGUGu -3'
miRNA:   3'- aGUuCCGUAUGGCa---CGG-CgaACCACc -5'
26960 3' -54.1 NC_005809.1 + 29260 0.7 0.457221
Target:  5'- aUAAGGCcgGCCgGUGUCGg--GGUGGa -3'
miRNA:   3'- aGUUCCGuaUGG-CACGGCgaaCCACC- -5'
26960 3' -54.1 NC_005809.1 + 4665 0.71 0.417457
Target:  5'- gUCAAGGUcgAUGCCGUagguaGCCGCcccGGUGa -3'
miRNA:   3'- -AGUUCCG--UAUGGCA-----CGGCGaa-CCACc -5'
26960 3' -54.1 NC_005809.1 + 40545 0.71 0.398381
Target:  5'- cCGAGGCG-GCCGguaUGCCGgUgcUGGUGGc -3'
miRNA:   3'- aGUUCCGUaUGGC---ACGGCgA--ACCACC- -5'
26960 3' -54.1 NC_005809.1 + 30549 0.71 0.395568
Target:  5'- aUCGcGGGUcuuuGUGCCG-GCCGCUguagaugcggcagaUGGUGGg -3'
miRNA:   3'- -AGU-UCCG----UAUGGCaCGGCGA--------------ACCACC- -5'
26960 3' -54.1 NC_005809.1 + 15407 0.73 0.3279
Target:  5'- gUCGAGGCAUcCgCGUGCgGCgcgUGG-GGg -3'
miRNA:   3'- -AGUUCCGUAuG-GCACGgCGa--ACCaCC- -5'
26960 3' -54.1 NC_005809.1 + 3718 0.73 0.319767
Target:  5'- cUCGuGGCGc-CCGUGCCGUUcacgccggUGGUGGg -3'
miRNA:   3'- -AGUuCCGUauGGCACGGCGA--------ACCACC- -5'
26960 3' -54.1 NC_005809.1 + 8671 0.74 0.266381
Target:  5'- ---cGGCAUugCGUGCCGCgcgcaccucggcgUUGGUGu -3'
miRNA:   3'- aguuCCGUAugGCACGGCG-------------AACCACc -5'
26960 3' -54.1 NC_005809.1 + 42153 0.76 0.199287
Target:  5'- aCAAGGUAcggccgacgaucaccGCCGUGCUGCU-GGUGGg -3'
miRNA:   3'- aGUUCCGUa--------------UGGCACGGCGAaCCACC- -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.