miRNA display CGI


Results 1 - 20 of 22 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
28808 5' -57.7 NC_006146.1 + 41358 0.66 0.84189
Target:  5'- --aGGGCcugGCGGUGGUgGCCguggCUCUg -3'
miRNA:   3'- aaaCUCG---CGCCACCGgUGGaa--GAGGu -5'
28808 5' -57.7 NC_006146.1 + 47204 0.66 0.82531
Target:  5'- --cGAGCGCcaGGccccUGGCCGCCUcCgCCAc -3'
miRNA:   3'- aaaCUCGCG--CC----ACCGGUGGAaGaGGU- -5'
28808 5' -57.7 NC_006146.1 + 58977 0.66 0.816754
Target:  5'- --gGAGa-CGGUGGCCACCUgcaaccuggCCAa -3'
miRNA:   3'- aaaCUCgcGCCACCGGUGGAaga------GGU- -5'
28808 5' -57.7 NC_006146.1 + 41715 0.66 0.816754
Target:  5'- --gGGGUGCGGcgcugUGGCCuuuugcaacGCCUUCUUCc -3'
miRNA:   3'- aaaCUCGCGCC-----ACCGG---------UGGAAGAGGu -5'
28808 5' -57.7 NC_006146.1 + 42785 0.66 0.816754
Target:  5'- ---cGGCGC-GUGGCCGCCUcggCCAg -3'
miRNA:   3'- aaacUCGCGcCACCGGUGGAagaGGU- -5'
28808 5' -57.7 NC_006146.1 + 70168 0.67 0.799147
Target:  5'- --gGGGCGCuGGUGGCCggcgagGCCggUC-CCAc -3'
miRNA:   3'- aaaCUCGCG-CCACCGG------UGGa-AGaGGU- -5'
28808 5' -57.7 NC_006146.1 + 8526 0.67 0.790113
Target:  5'- --cGGGCGCGGgcgcgccaaggGGCU-CCaUCUCCAa -3'
miRNA:   3'- aaaCUCGCGCCa----------CCGGuGGaAGAGGU- -5'
28808 5' -57.7 NC_006146.1 + 2849 0.67 0.790113
Target:  5'- --gGAGCGgGGUgccgguuguGGCCGgCUUCUaCCGg -3'
miRNA:   3'- aaaCUCGCgCCA---------CCGGUgGAAGA-GGU- -5'
28808 5' -57.7 NC_006146.1 + 102141 0.67 0.784624
Target:  5'- --aGAGCGCaccgccugaagcuUGGCCACCUgggcCUCCAc -3'
miRNA:   3'- aaaCUCGCGcc-----------ACCGGUGGAa---GAGGU- -5'
28808 5' -57.7 NC_006146.1 + 62701 0.67 0.780937
Target:  5'- -gUGcGUGCGGUcaagccGGCCAUCUugcugaauaUCUCCAg -3'
miRNA:   3'- aaACuCGCGCCA------CCGGUGGA---------AGAGGU- -5'
28808 5' -57.7 NC_006146.1 + 13335 0.67 0.778158
Target:  5'- --gGAGUcggccgcggccuacGCGGaGGCCACCUcCUCCc -3'
miRNA:   3'- aaaCUCG--------------CGCCaCCGGUGGAaGAGGu -5'
28808 5' -57.7 NC_006146.1 + 113412 0.67 0.768811
Target:  5'- ---cAGCGCGGUGGCUcggucagggucucgGCg-UCUCCAu -3'
miRNA:   3'- aaacUCGCGCCACCGG--------------UGgaAGAGGU- -5'
28808 5' -57.7 NC_006146.1 + 86463 0.67 0.762195
Target:  5'- --gGAGCuuaGGaGGCCuuCCUUCUCCAu -3'
miRNA:   3'- aaaCUCGcg-CCaCCGGu-GGAAGAGGU- -5'
28808 5' -57.7 NC_006146.1 + 106527 0.67 0.761245
Target:  5'- -gUGGGCGCauccccuGGUGGgCACCauccaCUCCAg -3'
miRNA:   3'- aaACUCGCG-------CCACCgGUGGaa---GAGGU- -5'
28808 5' -57.7 NC_006146.1 + 168743 0.67 0.752647
Target:  5'- --cGGGCGCGcGUGGCcCGCCcccgggUCUUCc -3'
miRNA:   3'- aaaCUCGCGC-CACCG-GUGGa-----AGAGGu -5'
28808 5' -57.7 NC_006146.1 + 169675 0.67 0.752647
Target:  5'- --cGGGCGCGcGUGGCcCGCCcccgggUCUUCc -3'
miRNA:   3'- aaaCUCGCGC-CACCG-GUGGa-----AGAGGu -5'
28808 5' -57.7 NC_006146.1 + 167811 0.67 0.752647
Target:  5'- --cGGGCGCGcGUGGCcCGCCcccgggUCUUCc -3'
miRNA:   3'- aaaCUCGCGC-CACCG-GUGGa-----AGAGGu -5'
28808 5' -57.7 NC_006146.1 + 48104 0.68 0.693455
Target:  5'- ---cAGCGCGGccucGGCCGCCcgUCUCUu -3'
miRNA:   3'- aaacUCGCGCCa---CCGGUGGa-AGAGGu -5'
28808 5' -57.7 NC_006146.1 + 111926 0.69 0.652849
Target:  5'- --aGGuUGCaGGUGGCCACCgUCUCCc -3'
miRNA:   3'- aaaCUcGCG-CCACCGGUGGaAGAGGu -5'
28808 5' -57.7 NC_006146.1 + 31427 0.72 0.511781
Target:  5'- --cGGGUGCcGUGGagACCUUCUCCAg -3'
miRNA:   3'- aaaCUCGCGcCACCggUGGAAGAGGU- -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.