miRNA display CGI


Results 1 - 19 of 19 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
12204 3' -47.6 NC_003309.1 + 5536 0.67 0.972262
Target:  5'- gUCGCcGAccacGAUCUGAUCGAcGUucggauucACGCCg -3'
miRNA:   3'- -AGCGuUUa---CUGGACUAGUU-CA--------UGCGG- -5'
12204 3' -47.6 NC_003309.1 + 5584 0.67 0.972262
Target:  5'- gUCGCGAAUGAacgcCUUGucuUCGcGcGCGCCg -3'
miRNA:   3'- -AGCGUUUACU----GGACu--AGUuCaUGCGG- -5'
12204 3' -47.6 NC_003309.1 + 9509 0.69 0.929103
Target:  5'- gCGCAccGUGACCUGcacgcuugcggcguUCGAGgcaaACGCCg -3'
miRNA:   3'- aGCGUu-UACUGGACu-------------AGUUCa---UGCGG- -5'
12204 3' -47.6 NC_003309.1 + 10536 0.7 0.907154
Target:  5'- uUCGCuucGGUGuACUUGAUCGAGccggccgucaACGCCg -3'
miRNA:   3'- -AGCGu--UUAC-UGGACUAGUUCa---------UGCGG- -5'
12204 3' -47.6 NC_003309.1 + 11143 0.73 0.761463
Target:  5'- uUUGUcGAUGAUCUGAUCGAGcgGUGCCu -3'
miRNA:   3'- -AGCGuUUACUGGACUAGUUCa-UGCGG- -5'
12204 3' -47.6 NC_003309.1 + 12490 0.71 0.876865
Target:  5'- aCGCGauuGAUGGCCUGAUUcAGcucGCGCg -3'
miRNA:   3'- aGCGU---UUACUGGACUAGuUCa--UGCGg -5'
12204 3' -47.6 NC_003309.1 + 19122 0.72 0.79213
Target:  5'- uUCG-AAAUGcCCUGAUCGacuaccgAGUACGUCg -3'
miRNA:   3'- -AGCgUUUACuGGACUAGU-------UCAUGCGG- -5'
12204 3' -47.6 NC_003309.1 + 20082 0.7 0.892598
Target:  5'- cUGCAccuUGACCUGAUacg--ACGCCg -3'
miRNA:   3'- aGCGUuu-ACUGGACUAguucaUGCGG- -5'
12204 3' -47.6 NC_003309.1 + 22349 0.69 0.926705
Target:  5'- -aGCcGAUGugCgccGAUCAGGUgcucgacgcaaGCGCCg -3'
miRNA:   3'- agCGuUUACugGa--CUAGUUCA-----------UGCGG- -5'
12204 3' -47.6 NC_003309.1 + 23013 0.67 0.978049
Target:  5'- gCGCgGGAUGAUgUGGUCAgcgAGUcgACGCUu -3'
miRNA:   3'- aGCG-UUUACUGgACUAGU---UCA--UGCGG- -5'
12204 3' -47.6 NC_003309.1 + 25581 0.73 0.739568
Target:  5'- cUUGCAGAUGACCUuuuuaucgaccgGGUCGGGUguagcGgGCCg -3'
miRNA:   3'- -AGCGUUUACUGGA------------CUAGUUCA-----UgCGG- -5'
12204 3' -47.6 NC_003309.1 + 26492 0.66 0.984787
Target:  5'- aCGCAGA-GGCUUGGcUCGcgcgaacGGcUGCGCCg -3'
miRNA:   3'- aGCGUUUaCUGGACU-AGU-------UC-AUGCGG- -5'
12204 3' -47.6 NC_003309.1 + 32203 0.75 0.659832
Target:  5'- -aGCGAGUG-CC-GAUCAGGU-CGCCg -3'
miRNA:   3'- agCGUUUACuGGaCUAGUUCAuGCGG- -5'
12204 3' -47.6 NC_003309.1 + 33042 0.71 0.842081
Target:  5'- gCGCAcgaucGAcGACCUGAUCAAccGCGCg -3'
miRNA:   3'- aGCGU-----UUaCUGGACUAGUUcaUGCGg -5'
12204 3' -47.6 NC_003309.1 + 35858 0.67 0.978049
Target:  5'- gCGCGAacggcaucGUGaACCUGA-CGcAGUACGCa -3'
miRNA:   3'- aGCGUU--------UAC-UGGACUaGU-UCAUGCGg -5'
12204 3' -47.6 NC_003309.1 + 48034 0.69 0.920496
Target:  5'- gCGUgaaGAGUGGCC-GGUCGAGguCGCCg -3'
miRNA:   3'- aGCG---UUUACUGGaCUAGUUCauGCGG- -5'
12204 3' -47.6 NC_003309.1 + 49459 0.66 0.986882
Target:  5'- gCGCGAAUG-CCgauugcGAUgCAcGUAUGCCu -3'
miRNA:   3'- aGCGUUUACuGGa-----CUA-GUuCAUGCGG- -5'
12204 3' -47.6 NC_003309.1 + 49674 0.66 0.982892
Target:  5'- cCGCAucucgauuUGACCgucGUCGAGcucgACGCCc -3'
miRNA:   3'- aGCGUuu------ACUGGac-UAGUUCa---UGCGG- -5'
12204 3' -47.6 NC_003309.1 + 52258 0.73 0.750582
Target:  5'- cCGUcGAcGACUUGAUCGAGUugcCGCCu -3'
miRNA:   3'- aGCGuUUaCUGGACUAGUUCAu--GCGG- -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.