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
19293 5' -57.9 NC_004685.1 + 69559 0.66 0.617024
Target:  5'- -gGCAGCCGCgcCCGC--GCCgGUCGc -3'
miRNA:   3'- agUGUCGGCGa-GGUGuaCGGgCAGUa -5'
19293 5' -57.9 NC_004685.1 + 31954 0.66 0.617024
Target:  5'- -gACGGCgGUgugcugCCACccgGCCCGUCGa -3'
miRNA:   3'- agUGUCGgCGa-----GGUGua-CGGGCAGUa -5'
19293 5' -57.9 NC_004685.1 + 12662 0.66 0.613786
Target:  5'- aCGCGGCCGCUgucggaggugcgggCCGCAgagaaguucGCCCG-CAa -3'
miRNA:   3'- aGUGUCGGCGA--------------GGUGUa--------CGGGCaGUa -5'
19293 5' -57.9 NC_004685.1 + 51741 0.66 0.595467
Target:  5'- gCGCGGuuGC-CgAUGUGCCCGUUg- -3'
miRNA:   3'- aGUGUCggCGaGgUGUACGGGCAGua -5'
19293 5' -57.9 NC_004685.1 + 66921 0.66 0.58473
Target:  5'- gUCGCGcGCCGCggCAcCGUGCCCGaCGa -3'
miRNA:   3'- -AGUGU-CGGCGagGU-GUACGGGCaGUa -5'
19293 5' -57.9 NC_004685.1 + 36885 0.67 0.542237
Target:  5'- aUCGuCGGCCGCggCCGCggGCaCGUCGg -3'
miRNA:   3'- -AGU-GUCGGCGa-GGUGuaCGgGCAGUa -5'
19293 5' -57.9 NC_004685.1 + 50783 0.67 0.542237
Target:  5'- gUCGCGGCgCGCgucggCCACgAUGCCgaugagCGUCAc -3'
miRNA:   3'- -AGUGUCG-GCGa----GGUG-UACGG------GCAGUa -5'
19293 5' -57.9 NC_004685.1 + 63776 0.67 0.531765
Target:  5'- cUCACggaucAGCCGCUCCuCAUGCUCa---- -3'
miRNA:   3'- -AGUG-----UCGGCGAGGuGUACGGGcagua -5'
19293 5' -57.9 NC_004685.1 + 62374 0.67 0.521367
Target:  5'- aCcCAGCCGCUUC-CA-GCUCGUCGg -3'
miRNA:   3'- aGuGUCGGCGAGGuGUaCGGGCAGUa -5'
19293 5' -57.9 NC_004685.1 + 21373 0.67 0.511049
Target:  5'- -gGCAGCUGgaCC-CGUGCCCG-CAa -3'
miRNA:   3'- agUGUCGGCgaGGuGUACGGGCaGUa -5'
19293 5' -57.9 NC_004685.1 + 2688 0.68 0.500817
Target:  5'- aCGCGGCCGCUgucgccgccaUCACcgGCaCCGUgAUg -3'
miRNA:   3'- aGUGUCGGCGA----------GGUGuaCG-GGCAgUA- -5'
19293 5' -57.9 NC_004685.1 + 59539 0.68 0.451123
Target:  5'- aCGcCAGCUuCUCCcggcagaacaggGCGUGCCCGUCGa -3'
miRNA:   3'- aGU-GUCGGcGAGG------------UGUACGGGCAGUa -5'
19293 5' -57.9 NC_004685.1 + 25008 0.69 0.413382
Target:  5'- -gGgGGCCGCUCCAgGUaGCCCaUCAc -3'
miRNA:   3'- agUgUCGGCGAGGUgUA-CGGGcAGUa -5'
19293 5' -57.9 NC_004685.1 + 56550 0.69 0.413382
Target:  5'- -gGCGGCC-CUCCGCGUcGCCCGggcgcgCAUc -3'
miRNA:   3'- agUGUCGGcGAGGUGUA-CGGGCa-----GUA- -5'
19293 5' -57.9 NC_004685.1 + 50005 0.69 0.406979
Target:  5'- cCACGGCCGCUcgugcagCCACAcguaguacugccauuUGCCCucGUCAc -3'
miRNA:   3'- aGUGUCGGCGA-------GGUGU---------------ACGGG--CAGUa -5'
19293 5' -57.9 NC_004685.1 + 49355 0.69 0.395255
Target:  5'- uUCGCcGCCGC-CguCcgGCCCGUCGg -3'
miRNA:   3'- -AGUGuCGGCGaGguGuaCGGGCAGUa -5'
19293 5' -57.9 NC_004685.1 + 57207 0.69 0.395255
Target:  5'- gCAcCGGCCGCgUCCACGgucgGCCCcUCGUu -3'
miRNA:   3'- aGU-GUCGGCG-AGGUGUa---CGGGcAGUA- -5'
19293 5' -57.9 NC_004685.1 + 55337 0.7 0.344056
Target:  5'- gCAuCAGCCGCUCCACc-GCCaccaCGUCGUc -3'
miRNA:   3'- aGU-GUCGGCGAGGUGuaCGG----GCAGUA- -5'
19293 5' -57.9 NC_004685.1 + 53552 0.71 0.320305
Target:  5'- gCGCGGCCGaCUCCAggggaccguggcCGUGCgCGUCGg -3'
miRNA:   3'- aGUGUCGGC-GAGGU------------GUACGgGCAGUa -5'
19293 5' -57.9 NC_004685.1 + 35558 0.71 0.320305
Target:  5'- gCGCAGCUGCaCCACcUGCCCG-CGc -3'
miRNA:   3'- aGUGUCGGCGaGGUGuACGGGCaGUa -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.