miRNA display CGI


Results 1 - 20 of 31 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
14349 5' -56.3 NC_003521.1 + 39271 1.11 0.004143
Target:  5'- aCCAGUCCGAACUCCGGGUCACCGUCAg -3'
miRNA:   3'- -GGUCAGGCUUGAGGCCCAGUGGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 84883 0.66 0.963107
Target:  5'- cCCGGUCCGggUggCGcGaGUagGCCGUCAg -3'
miRNA:   3'- -GGUCAGGCuuGagGC-C-CAg-UGGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 202463 0.67 0.940075
Target:  5'- gCUAGUgCUGGACgagCUGGGU-GCCGUCu -3'
miRNA:   3'- -GGUCA-GGCUUGa--GGCCCAgUGGCAGu -5'
14349 5' -56.3 NC_003521.1 + 40778 0.68 0.930703
Target:  5'- gCCGGaagcucggcgacUCCGGACUCCcGG-CGCgGUCAg -3'
miRNA:   3'- -GGUC------------AGGCUUGAGGcCCaGUGgCAGU- -5'
14349 5' -56.3 NC_003521.1 + 53524 0.69 0.863901
Target:  5'- gCGG-CCGAuggugcuguccGCUCCGGGUCgaggugccGCUGUCGc -3'
miRNA:   3'- gGUCaGGCU-----------UGAGGCCCAG--------UGGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 223038 0.73 0.681197
Target:  5'- gCCAGcacgCCGAcggcCUCCaGGUCAUCGUCAc -3'
miRNA:   3'- -GGUCa---GGCUu---GAGGcCCAGUGGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 169441 0.76 0.545628
Target:  5'- gCGGUCCucGAACagCGGGUCGCCGUgGa -3'
miRNA:   3'- gGUCAGG--CUUGagGCCCAGUGGCAgU- -5'
14349 5' -56.3 NC_003521.1 + 195554 0.66 0.955892
Target:  5'- cCCGGUCCauGAuCUCCaggaagcgcuuggGGGUCAggcCCGUCu -3'
miRNA:   3'- -GGUCAGG--CUuGAGG-------------CCCAGU---GGCAGu -5'
14349 5' -56.3 NC_003521.1 + 2235 0.67 0.940075
Target:  5'- gCUAGUgCUGGACgagCUGGGU-GCCGUCu -3'
miRNA:   3'- -GGUCA-GGCUUGa--GGCCCAgUGGCAGu -5'
14349 5' -56.3 NC_003521.1 + 105074 0.67 0.935497
Target:  5'- uUCGGUCCcggGAACgUCCGGGUgguugCACgCGUCc -3'
miRNA:   3'- -GGUCAGG---CUUG-AGGCCCA-----GUG-GCAGu -5'
14349 5' -56.3 NC_003521.1 + 3952 0.68 0.930703
Target:  5'- aCGGcguaUCCGAagaagcggaggAC-CCGGGgCACCGUCAg -3'
miRNA:   3'- gGUC----AGGCU-----------UGaGGCCCaGUGGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 149448 0.68 0.929223
Target:  5'- -gGGUCCGGGC-CCgGGGUucggcccccuccccCACCGUCc -3'
miRNA:   3'- ggUCAGGCUUGaGG-CCCA--------------GUGGCAGu -5'
14349 5' -56.3 NC_003521.1 + 26799 0.68 0.920465
Target:  5'- aCCGGUCUaacgccacccuGAGCgCCGucguGUCACCGUCGg -3'
miRNA:   3'- -GGUCAGG-----------CUUGaGGCc---CAGUGGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 96067 0.68 0.915021
Target:  5'- cCCAGaCCGccAGCagCCGGGUCAgcuccUCGUCAu -3'
miRNA:   3'- -GGUCaGGC--UUGa-GGCCCAGU-----GGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 195100 0.68 0.909362
Target:  5'- gCCAGUCCGucGCgg-GGGUCcUCGUCAu -3'
miRNA:   3'- -GGUCAGGCu-UGaggCCCAGuGGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 103487 0.69 0.891107
Target:  5'- uCCAGcgggCCcgcgugauagguGAACUCgGGGUCGCCGcgCAg -3'
miRNA:   3'- -GGUCa---GG------------CUUGAGgCCCAGUGGCa-GU- -5'
14349 5' -56.3 NC_003521.1 + 160507 0.69 0.884606
Target:  5'- uCCAGUCgCGcAGCUCCaGcacCACCGUCAc -3'
miRNA:   3'- -GGUCAG-GC-UUGAGGcCca-GUGGCAGU- -5'
14349 5' -56.3 NC_003521.1 + 199951 0.69 0.877902
Target:  5'- cCCGGUCCcuuccCUCCGcGGcUCACCGUg- -3'
miRNA:   3'- -GGUCAGGcuu--GAGGC-CC-AGUGGCAgu -5'
14349 5' -56.3 NC_003521.1 + 167753 0.7 0.825682
Target:  5'- gCCGG-CgGAGCUgaGGGUCACCGaCAu -3'
miRNA:   3'- -GGUCaGgCUUGAggCCCAGUGGCaGU- -5'
14349 5' -56.3 NC_003521.1 + 90045 0.66 0.971922
Target:  5'- aCGGccUCC-AGCUCCGGGaCGCCGa-- -3'
miRNA:   3'- gGUC--AGGcUUGAGGCCCaGUGGCagu -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.