miRNA display CGI


Results 1 - 20 of 30 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
15761 3' -58.5 NC_004065.1 + 43330 0.66 0.879923
Target:  5'- uGGCCcggCGGGgacgccccacgcgcCGCGUCCCCGACaCUcGUc -3'
miRNA:   3'- -CCGGa--GCCC--------------GUGUAGGGGUUG-GA-CAu -5'
15761 3' -58.5 NC_004065.1 + 169773 0.66 0.875095
Target:  5'- cGCCUCGGGCAgaaGUUCgCCGACaUGg- -3'
miRNA:   3'- cCGGAGCCCGUg--UAGG-GGUUGgACau -5'
15761 3' -58.5 NC_004065.1 + 169872 0.66 0.875095
Target:  5'- nGCauggCGGGCGCcgauccguUCCCCAaguucccuaagaGCCUGUAc -3'
miRNA:   3'- cCGga--GCCCGUGu-------AGGGGU------------UGGACAU- -5'
15761 3' -58.5 NC_004065.1 + 199545 0.66 0.875094
Target:  5'- cGCCUccagcCGGGCGCG-CCCCAucguGCCgcgGUc -3'
miRNA:   3'- cCGGA-----GCCCGUGUaGGGGU----UGGa--CAu -5'
15761 3' -58.5 NC_004065.1 + 150265 0.66 0.872995
Target:  5'- -cCCUCGuGGUgccccagaggaucuACAUCCCCGACCaGUu -3'
miRNA:   3'- ccGGAGC-CCG--------------UGUAGGGGUUGGaCAu -5'
15761 3' -58.5 NC_004065.1 + 91714 0.66 0.868026
Target:  5'- aGGCCUCgcacgcgaucaGGGcCGCGUCCacggCCucCCUGUAc -3'
miRNA:   3'- -CCGGAG-----------CCC-GUGUAGG----GGuuGGACAU- -5'
15761 3' -58.5 NC_004065.1 + 4988 0.66 0.868026
Target:  5'- uGCCUCGGGCuucaACGUCUCCuaucgcAACCa--- -3'
miRNA:   3'- cCGGAGCCCG----UGUAGGGG------UUGGacau -5'
15761 3' -58.5 NC_004065.1 + 130877 0.66 0.860759
Target:  5'- aGCCUCGGGCGCcggcgugagGUCCUCAugagGUGu -3'
miRNA:   3'- cCGGAGCCCGUG---------UAGGGGUuggaCAU- -5'
15761 3' -58.5 NC_004065.1 + 136805 0.67 0.853301
Target:  5'- cGCUUCGucGGCuGCGUCCCCGACa-GUGg -3'
miRNA:   3'- cCGGAGC--CCG-UGUAGGGGUUGgaCAU- -5'
15761 3' -58.5 NC_004065.1 + 169847 0.67 0.853301
Target:  5'- cGCCgugCGGGC-CAgCgUCGACCUGUGc -3'
miRNA:   3'- cCGGa--GCCCGuGUaGgGGUUGGACAU- -5'
15761 3' -58.5 NC_004065.1 + 31907 0.67 0.845657
Target:  5'- gGGCCUgaCGcGGCGCGUCgCCGACagcGUGc -3'
miRNA:   3'- -CCGGA--GC-CCGUGUAGgGGUUGga-CAU- -5'
15761 3' -58.5 NC_004065.1 + 46287 0.67 0.845657
Target:  5'- aGGCCgUGGGCGa--CCUgGACCUGUc -3'
miRNA:   3'- -CCGGaGCCCGUguaGGGgUUGGACAu -5'
15761 3' -58.5 NC_004065.1 + 83215 0.67 0.837833
Target:  5'- gGGCC-CGGGCaggcACAUCCgCAggacggcgaACCUGa- -3'
miRNA:   3'- -CCGGaGCCCG----UGUAGGgGU---------UGGACau -5'
15761 3' -58.5 NC_004065.1 + 1768 0.67 0.836247
Target:  5'- gGGCCUCacccgcuGGGUgucGCAuucuaccUCCCUGACCUGg- -3'
miRNA:   3'- -CCGGAG-------CCCG---UGU-------AGGGGUUGGACau -5'
15761 3' -58.5 NC_004065.1 + 65214 0.67 0.829835
Target:  5'- cGCCUCGGGUugA-CCCCGaagagcacggcgACCUa-- -3'
miRNA:   3'- cCGGAGCCCGugUaGGGGU------------UGGAcau -5'
15761 3' -58.5 NC_004065.1 + 155889 0.68 0.804866
Target:  5'- cGGCC-CGGGCACccgccucgacGUCCUCGugcCCUGc- -3'
miRNA:   3'- -CCGGaGCCCGUG----------UAGGGGUu--GGACau -5'
15761 3' -58.5 NC_004065.1 + 75677 0.68 0.804865
Target:  5'- cGGCCgCGGGCugAUUCUUGGCCg--- -3'
miRNA:   3'- -CCGGaGCCCGugUAGGGGUUGGacau -5'
15761 3' -58.5 NC_004065.1 + 1325 0.68 0.796242
Target:  5'- uGGacgaUCGaguGGUACAUCCCCAGCCUa-- -3'
miRNA:   3'- -CCgg--AGC---CCGUGUAGGGGUUGGAcau -5'
15761 3' -58.5 NC_004065.1 + 125438 0.68 0.78748
Target:  5'- cGCCUCGGGCAgGUUaCCC-ACCaUGa- -3'
miRNA:   3'- cCGGAGCCCGUgUAG-GGGuUGG-ACau -5'
15761 3' -58.5 NC_004065.1 + 64640 0.68 0.778589
Target:  5'- aGGCCaUCGaccGCGCGUCCgCCGugCUGg- -3'
miRNA:   3'- -CCGG-AGCc--CGUGUAGG-GGUugGACau -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.