miRNA display CGI


Results 1 - 20 of 48 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
23040 3' -56.4 NC_005178.1 + 22226 1.11 0.000297
Target:  5'- aGCUGCCAGAAGCCGUAACCGGCAGCAg -3'
miRNA:   3'- -CGACGGUCUUCGGCAUUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 20997 0.77 0.096494
Target:  5'- cGCUaCCGGGuucGCCGUGGgCGGCAGCAc -3'
miRNA:   3'- -CGAcGGUCUu--CGGCAUUgGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 28307 0.76 0.114955
Target:  5'- aGCUGCCGG-GGCCGcuggagUGGCUGGUGGCGg -3'
miRNA:   3'- -CGACGGUCuUCGGC------AUUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 37280 0.75 0.136673
Target:  5'- gGCUGUCAGGuccggcGCUGU-GCCGGUAGCGa -3'
miRNA:   3'- -CGACGGUCUu-----CGGCAuUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 6882 0.75 0.132808
Target:  5'- aCUGCCAGGcaaugAGgCGgcgGAUCGGCAGCAg -3'
miRNA:   3'- cGACGGUCU-----UCgGCa--UUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 31982 0.74 0.157587
Target:  5'- -aUGCC-GAuccagcgauGGCCGaUGACCGGCAGCGc -3'
miRNA:   3'- cgACGGuCU---------UCGGC-AUUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 25842 0.74 0.153185
Target:  5'- --cGCCAu-GGCCGUGGCCGGCauuucGGCAg -3'
miRNA:   3'- cgaCGGUcuUCGGCAUUGGCCG-----UCGU- -5'
23040 3' -56.4 NC_005178.1 + 10831 0.72 0.208236
Target:  5'- uCUGCUGGAAGCCugcccgGUcAACUGGCAGCc -3'
miRNA:   3'- cGACGGUCUUCGG------CA-UUGGCCGUCGu -5'
23040 3' -56.4 NC_005178.1 + 25626 0.71 0.237852
Target:  5'- gGCUGCgGcGAAagccaccGCCGaguucGACCGGCAGCAg -3'
miRNA:   3'- -CGACGgU-CUU-------CGGCa----UUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 16657 0.7 0.309936
Target:  5'- cGCUGCCAgccaauggcGAGGCgGUccugggcgaucaGGCCGGCgcaGGCAu -3'
miRNA:   3'- -CGACGGU---------CUUCGgCA------------UUGGCCG---UCGU- -5'
23040 3' -56.4 NC_005178.1 + 16190 0.69 0.351358
Target:  5'- cCUGCUgcGAGCgGUGACCGGCcucGGCc -3'
miRNA:   3'- cGACGGucUUCGgCAUUGGCCG---UCGu -5'
23040 3' -56.4 NC_005178.1 + 22163 0.69 0.3601
Target:  5'- uGCUGCCGGuuacGGCUu---CUGGCAGCu -3'
miRNA:   3'- -CGACGGUCu---UCGGcauuGGCCGUCGu -5'
23040 3' -56.4 NC_005178.1 + 5803 0.69 0.33433
Target:  5'- -gUGCCcGAGGCCGccACCGauGCGGCGa -3'
miRNA:   3'- cgACGGuCUUCGGCauUGGC--CGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 10097 0.69 0.3601
Target:  5'- cGCUgGCCAGGAGCgCgGUGAUuuUGcGCAGCAc -3'
miRNA:   3'- -CGA-CGGUCUUCG-G-CAUUG--GC-CGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 3432 0.69 0.351358
Target:  5'- --gGCCGGAagggccGGCCGUGcAUCGGguGCu -3'
miRNA:   3'- cgaCGGUCU------UCGGCAU-UGGCCguCGu -5'
23040 3' -56.4 NC_005178.1 + 16266 0.68 0.377124
Target:  5'- cGCUGCgGcauggccGAGGCCGgucACCGcucGCAGCAg -3'
miRNA:   3'- -CGACGgU-------CUUCGGCau-UGGC---CGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 10227 0.68 0.413724
Target:  5'- uGCUGCCGGAuaccguccgcgacauGGCCGgacgcaucggccuGCCGGCcacGCu -3'
miRNA:   3'- -CGACGGUCU---------------UCGGCau-----------UGGCCGu--CGu -5'
23040 3' -56.4 NC_005178.1 + 7418 0.68 0.387225
Target:  5'- gGCUuCCAGcgcgacGCCucGGCCGGCAGCAc -3'
miRNA:   3'- -CGAcGGUCuu----CGGcaUUGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 20919 0.68 0.372592
Target:  5'- cGCU-CCAGGAcGCCGaggucaucggcguGCCGGUAGCGg -3'
miRNA:   3'- -CGAcGGUCUU-CGGCau-----------UGGCCGUCGU- -5'
23040 3' -56.4 NC_005178.1 + 9659 0.68 0.406039
Target:  5'- cGCgGCCGGuggcuucGCCG-AGCCGGCcgaGGCGg -3'
miRNA:   3'- -CGaCGGUCuu-----CGGCaUUGGCCG---UCGU- -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.