miRNA display CGI


Results 1 - 20 of 40 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
25137 3' -54.7 NC_005336.1 + 90701 0.66 0.930267
Target:  5'- gGCU-GCCGAGcGUGUACGCaCUCaCGc- -3'
miRNA:   3'- aCGAgUGGCUC-CACAUGUG-GAG-GUag -5'
25137 3' -54.7 NC_005336.1 + 61052 0.68 0.832926
Target:  5'- aGCUCcgcgaccaGCCGGcGGUaGUGCGCCUCCn-- -3'
miRNA:   3'- aCGAG--------UGGCU-CCA-CAUGUGGAGGuag -5'
25137 3' -54.7 NC_005336.1 + 91349 0.68 0.849518
Target:  5'- gGUcgCGCCuGAGGUaGUgaGCACCUCCAg- -3'
miRNA:   3'- aCGa-GUGG-CUCCA-CA--UGUGGAGGUag -5'
25137 3' -54.7 NC_005336.1 + 99035 0.67 0.872847
Target:  5'- gUGCUgCccuCCGcGccGUGCGCCUCCAUCg -3'
miRNA:   3'- -ACGA-Gu--GGCuCcaCAUGUGGAGGUAG- -5'
25137 3' -54.7 NC_005336.1 + 44025 0.67 0.883052
Target:  5'- cGC-CGCCGAGGucgUagaauucaucaggcgGUACGCCUCCGg- -3'
miRNA:   3'- aCGaGUGGCUCC---A---------------CAUGUGGAGGUag -5'
25137 3' -54.7 NC_005336.1 + 69485 0.67 0.887287
Target:  5'- cGCUgCGCgaCGAGGaggACugCUCCGUCg -3'
miRNA:   3'- aCGA-GUG--GCUCCacaUGugGAGGUAG- -5'
25137 3' -54.7 NC_005336.1 + 24436 0.67 0.900789
Target:  5'- cUGCUCucgGCCGuGGagacgcugcUGcgGCGCUUCCGUCg -3'
miRNA:   3'- -ACGAG---UGGCuCC---------ACa-UGUGGAGGUAG- -5'
25137 3' -54.7 NC_005336.1 + 49459 0.66 0.913322
Target:  5'- cGCUCACCGAG------ACCUCgGUCa -3'
miRNA:   3'- aCGAGUGGCUCcacaugUGGAGgUAG- -5'
25137 3' -54.7 NC_005336.1 + 24367 0.66 0.924868
Target:  5'- aUGCUCGCgGAGGagaugagcgUGUACACgUaCC-UCg -3'
miRNA:   3'- -ACGAGUGgCUCC---------ACAUGUGgA-GGuAG- -5'
25137 3' -54.7 NC_005336.1 + 51919 0.68 0.832926
Target:  5'- aGCUCGCCGccgcGGg--GCACCacuacgacUCCAUCg -3'
miRNA:   3'- aCGAGUGGCu---CCacaUGUGG--------AGGUAG- -5'
25137 3' -54.7 NC_005336.1 + 10145 0.69 0.815574
Target:  5'- cGCUCGCgGcGGUGUGCACgUCg--- -3'
miRNA:   3'- aCGAGUGgCuCCACAUGUGgAGguag -5'
25137 3' -54.7 NC_005336.1 + 139686 0.69 0.815574
Target:  5'- cGCggCugCGGGGUGc-CGCCUCCGc- -3'
miRNA:   3'- aCGa-GugGCUCCACauGUGGAGGUag -5'
25137 3' -54.7 NC_005336.1 + 8851 0.74 0.523746
Target:  5'- gGCUCACCGAGGgcaGgACCUCCu-- -3'
miRNA:   3'- aCGAGUGGCUCCacaUgUGGAGGuag -5'
25137 3' -54.7 NC_005336.1 + 64224 0.72 0.626736
Target:  5'- aGCgagCGCCGc-GUGUACACCUUCAUg -3'
miRNA:   3'- aCGa--GUGGCucCACAUGUGGAGGUAg -5'
25137 3' -54.7 NC_005336.1 + 38199 0.72 0.647629
Target:  5'- cGgUCAcgcCCGAGGcGUACGCCUUCAUg -3'
miRNA:   3'- aCgAGU---GGCUCCaCAUGUGGAGGUAg -5'
25137 3' -54.7 NC_005336.1 + 93973 0.72 0.658061
Target:  5'- --gUCGCCgGAGGUG-GCGCCUCCAc- -3'
miRNA:   3'- acgAGUGG-CUCCACaUGUGGAGGUag -5'
25137 3' -54.7 NC_005336.1 + 118222 0.71 0.713785
Target:  5'- cGCUCaccgcgcugacggcgGCCGuGGUGUGCGCgaucgCCGUCg -3'
miRNA:   3'- aCGAG---------------UGGCuCCACAUGUGga---GGUAG- -5'
25137 3' -54.7 NC_005336.1 + 32343 0.69 0.778858
Target:  5'- aGCUCAgCGccGcGcGCGCCUCCGUCa -3'
miRNA:   3'- aCGAGUgGCucCaCaUGUGGAGGUAG- -5'
25137 3' -54.7 NC_005336.1 + 96168 0.69 0.787332
Target:  5'- -aCUCGCCGGGcgucggcGUGUcgaGCACCUCCAc- -3'
miRNA:   3'- acGAGUGGCUC-------CACA---UGUGGAGGUag -5'
25137 3' -54.7 NC_005336.1 + 105577 0.69 0.797527
Target:  5'- cGCgucaccucggCGCCGGGccggcggcacGUGUGCACgUCCGUCu -3'
miRNA:   3'- aCGa---------GUGGCUC----------CACAUGUGgAGGUAG- -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.