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
23856 5' -60.5 NC_005261.1 + 6912 0.73 0.283436
Target:  5'- gGUUCC-CCCCuccugcUCUCCUUCUCaUCCUCc -3'
miRNA:   3'- aCGAGGaGGGG------AGAGGGAGAG-AGGAG- -5'
23856 5' -60.5 NC_005261.1 + 7687 0.66 0.681337
Target:  5'- gUGUUCUUCUUCUucugcauucuugCUCUCUCUCUCC-Cg -3'
miRNA:   3'- -ACGAGGAGGGGA------------GAGGGAGAGAGGaG- -5'
23856 5' -60.5 NC_005261.1 + 28325 0.69 0.483741
Target:  5'- cGCUCucgCUCUCC-CUCCCUCcCUcCCUCc -3'
miRNA:   3'- aCGAG---GAGGGGaGAGGGAGaGA-GGAG- -5'
23856 5' -60.5 NC_005261.1 + 11133 0.69 0.483741
Target:  5'- gUGCgccgCCUCCgCCgcUCUCCCcCUCcCCUCc -3'
miRNA:   3'- -ACGa---GGAGG-GG--AGAGGGaGAGaGGAG- -5'
23856 5' -60.5 NC_005261.1 + 6016 0.69 0.483741
Target:  5'- gGCUCCggcgagcgUCCCCcCUUCUUCuUCUCCUUc -3'
miRNA:   3'- aCGAGG--------AGGGGaGAGGGAG-AGAGGAG- -5'
23856 5' -60.5 NC_005261.1 + 26581 0.7 0.456093
Target:  5'- -cCUCCUCCUC-CUCCU--UCUCCUCu -3'
miRNA:   3'- acGAGGAGGGGaGAGGGagAGAGGAG- -5'
23856 5' -60.5 NC_005261.1 + 26410 0.7 0.447067
Target:  5'- cGCUCuCUCUCCcC-CCUUCUCUcCCUCu -3'
miRNA:   3'- aCGAG-GAGGGGaGaGGGAGAGA-GGAG- -5'
23856 5' -60.5 NC_005261.1 + 10716 0.72 0.339637
Target:  5'- cGcCUCCgggccCCCCUCUUCCUCcgccgcCUCCUCc -3'
miRNA:   3'- aC-GAGGa----GGGGAGAGGGAGa-----GAGGAG- -5'
23856 5' -60.5 NC_005261.1 + 120785 0.72 0.317656
Target:  5'- ---gCCUCCCUUCUCCUUCUcCUCCa- -3'
miRNA:   3'- acgaGGAGGGGAGAGGGAGA-GAGGag -5'
23856 5' -60.5 NC_005261.1 + 28395 0.73 0.303606
Target:  5'- cGCcUCUCCCCUaccCCCUC-CUCCUCc -3'
miRNA:   3'- aCGaGGAGGGGAga-GGGAGaGAGGAG- -5'
23856 5' -60.5 NC_005261.1 + 6945 0.73 0.283436
Target:  5'- gGCUCCUCCUCUCUgCCUUUUUUUUa -3'
miRNA:   3'- aCGAGGAGGGGAGAgGGAGAGAGGAg -5'
23856 5' -60.5 NC_005261.1 + 26363 1.08 0.001028
Target:  5'- aUGCUCCUCCCCUCUCCCUCUCUCCUCc -3'
miRNA:   3'- -ACGAGGAGGGGAGAGGGAGAGAGGAG- -5'
23856 5' -60.5 NC_005261.1 + 10065 0.74 0.270587
Target:  5'- -uCUCCUCCCCUCUCCCU---UCCa- -3'
miRNA:   3'- acGAGGAGGGGAGAGGGAgagAGGag -5'
23856 5' -60.5 NC_005261.1 + 83970 0.74 0.26434
Target:  5'- cGCUUCUcCCCCUCUCCCcccCUUUCCc- -3'
miRNA:   3'- aCGAGGA-GGGGAGAGGGa--GAGAGGag -5'
23856 5' -60.5 NC_005261.1 + 5684 0.74 0.258211
Target:  5'- aGCUCCcUCCC-CUCCCUCUcCUCCcCg -3'
miRNA:   3'- aCGAGGaGGGGaGAGGGAGA-GAGGaG- -5'
23856 5' -60.5 NC_005261.1 + 25713 0.74 0.246302
Target:  5'- cGCUCaagccCCCCUCUCCCccCUCUCC-Ca -3'
miRNA:   3'- aCGAGga---GGGGAGAGGGa-GAGAGGaG- -5'
23856 5' -60.5 NC_005261.1 + 22299 0.76 0.193456
Target:  5'- cGCccgCCUCCuCCUCUCUCUCUUUCCcCg -3'
miRNA:   3'- aCGa--GGAGG-GGAGAGGGAGAGAGGaG- -5'
23856 5' -60.5 NC_005261.1 + 28049 0.79 0.126233
Target:  5'- aGCUUCUcCCCCUCUCCCUC-CUCgUUg -3'
miRNA:   3'- aCGAGGA-GGGGAGAGGGAGaGAGgAG- -5'
23856 5' -60.5 NC_005261.1 + 33212 0.8 0.105411
Target:  5'- -cCUCCcCCCCUCUCCCUCccccucccuccUCUCCUCc -3'
miRNA:   3'- acGAGGaGGGGAGAGGGAG-----------AGAGGAG- -5'
23856 5' -60.5 NC_005261.1 + 3190 0.8 0.100082
Target:  5'- -cCUCCUCCUC-CUCCCUCUcCUCCUCc -3'
miRNA:   3'- acGAGGAGGGGaGAGGGAGA-GAGGAG- -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.