miRNA display CGI


Results 1 - 13 of 13 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
11331 3' -54.3 NC_003084.1 + 20684 0.66 0.915974
Target:  5'- -gGGCGCUGGAGuuuGcGUGCCGUuGCGCu- -3'
miRNA:   3'- ugUCGCGGCUUU---C-CAUGGCA-UGCGuc -5'
11331 3' -54.3 NC_003084.1 + 80760 0.66 0.903475
Target:  5'- -gGGgGCCGAGcacuGGUACCGcUugGUAa -3'
miRNA:   3'- ugUCgCGGCUUu---CCAUGGC-AugCGUc -5'
11331 3' -54.3 NC_003084.1 + 94843 0.66 0.896848
Target:  5'- gGCGGCcgGCCGcAAAGGUucGCCaauGUGCGCc- -3'
miRNA:   3'- -UGUCG--CGGC-UUUCCA--UGG---CAUGCGuc -5'
11331 3' -54.3 NC_003084.1 + 53979 0.67 0.882856
Target:  5'- -aAGuCGCCGugaucAAAGGgcCCGUgaACGCAGa -3'
miRNA:   3'- ugUC-GCGGC-----UUUCCauGGCA--UGCGUC- -5'
11331 3' -54.3 NC_003084.1 + 81707 0.67 0.882132
Target:  5'- uGCAGCGCCGAAuguugcucaguguGGGUAgUucACGCu- -3'
miRNA:   3'- -UGUCGCGGCUU-------------UCCAUgGcaUGCGuc -5'
11331 3' -54.3 NC_003084.1 + 64429 0.67 0.875501
Target:  5'- --cGCGCUGGAugugACCGUACGCGc -3'
miRNA:   3'- uguCGCGGCUUuccaUGGCAUGCGUc -5'
11331 3' -54.3 NC_003084.1 + 40893 0.69 0.790265
Target:  5'- -uGGCGCCaguAGGUGCUagGUACGCGu -3'
miRNA:   3'- ugUCGCGGcuuUCCAUGG--CAUGCGUc -5'
11331 3' -54.3 NC_003084.1 + 10375 0.69 0.780752
Target:  5'- cCAGCugGCCGAGGGGUGCUuggaGCAGc -3'
miRNA:   3'- uGUCG--CGGCUUUCCAUGGcaugCGUC- -5'
11331 3' -54.3 NC_003084.1 + 85132 0.69 0.780752
Target:  5'- uGCAGacgcuCGCCGAGGGGUGCuucgCGU-UGCAGa -3'
miRNA:   3'- -UGUC-----GCGGCUUUCCAUG----GCAuGCGUC- -5'
11331 3' -54.3 NC_003084.1 + 89480 0.69 0.751395
Target:  5'- --uGCGCUGGAcgaGGGUGCCGUaaagGCGUAc -3'
miRNA:   3'- uguCGCGGCUU---UCCAUGGCA----UGCGUc -5'
11331 3' -54.3 NC_003084.1 + 64782 0.71 0.637172
Target:  5'- uAUAGCGCCGaAGAGGgccACCGUGagguugUGCGGc -3'
miRNA:   3'- -UGUCGCGGC-UUUCCa--UGGCAU------GCGUC- -5'
11331 3' -54.3 NC_003084.1 + 32063 0.73 0.551929
Target:  5'- gUAGCGCCGGGucGGGcaagcgauccaagUGCCGUcuguGCGCAGg -3'
miRNA:   3'- uGUCGCGGCUU--UCC-------------AUGGCA----UGCGUC- -5'
11331 3' -54.3 NC_003084.1 + 44080 1.08 0.00337
Target:  5'- gACAGCGCCGAAAGGUACCGUACGCAGc -3'
miRNA:   3'- -UGUCGCGGCUUUCCAUGGCAUGCGUC- -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.