miRNA display CGI


Results 1 - 16 of 16 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
18520 5' -57.6 NC_004681.1 + 46573 0.66 0.664496
Target:  5'- --cGuCCUCCUCGGgGgagaccuccAGGCCGAgGUa -3'
miRNA:   3'- guaCuGGAGGAGUCgC---------UCCGGCUgUA- -5'
18520 5' -57.6 NC_004681.1 + 46715 0.66 0.664496
Target:  5'- gCGUGugCggggcggggUCCUCGGCGAgugGGCCGGu-- -3'
miRNA:   3'- -GUACugG---------AGGAGUCGCU---CCGGCUgua -5'
18520 5' -57.6 NC_004681.1 + 57030 0.66 0.638774
Target:  5'- aGUGAgCUCCUCAaucgagggguacuCGGGGUCGGCAc -3'
miRNA:   3'- gUACUgGAGGAGUc------------GCUCCGGCUGUa -5'
18520 5' -57.6 NC_004681.1 + 14526 0.66 0.621599
Target:  5'- gGUGAagucgaUCCUCAaCGGGGUCGGCAUc -3'
miRNA:   3'- gUACUgg----AGGAGUcGCUCCGGCUGUA- -5'
18520 5' -57.6 NC_004681.1 + 15783 0.66 0.621599
Target:  5'- cCAUGACCUCCgaGGCGu-GCuCGACGUc -3'
miRNA:   3'- -GUACUGGAGGagUCGCucCG-GCUGUA- -5'
18520 5' -57.6 NC_004681.1 + 9168 0.67 0.596959
Target:  5'- --cGGCCauaCUUCAGCGAcgcgacaguguccuGGCCGACGa -3'
miRNA:   3'- guaCUGGa--GGAGUCGCU--------------CCGGCUGUa -5'
18520 5' -57.6 NC_004681.1 + 45436 0.67 0.589484
Target:  5'- cCAUGGCCgcCCUCGGUGuGGUgaugaaCGACAg -3'
miRNA:   3'- -GUACUGGa-GGAGUCGCuCCG------GCUGUa -5'
18520 5' -57.6 NC_004681.1 + 60300 0.67 0.589484
Target:  5'- gCGUGAUCcCCgcgCGGCGGGuGCCGAUc- -3'
miRNA:   3'- -GUACUGGaGGa--GUCGCUC-CGGCUGua -5'
18520 5' -57.6 NC_004681.1 + 67102 0.68 0.525341
Target:  5'- gCAUGGCCUgCgacaugaGGCGcgcgugcAGGCCGACGUg -3'
miRNA:   3'- -GUACUGGAgGag-----UCGC-------UCCGGCUGUA- -5'
18520 5' -57.6 NC_004681.1 + 69538 0.68 0.495755
Target:  5'- --cGAUCUCCggGGUgauguccacgGAGGCCGACAUg -3'
miRNA:   3'- guaCUGGAGGagUCG----------CUCCGGCUGUA- -5'
18520 5' -57.6 NC_004681.1 + 58990 0.71 0.382705
Target:  5'- gAUGuCCUCgUCAGCGAGaaGCUGGCGa -3'
miRNA:   3'- gUACuGGAGgAGUCGCUC--CGGCUGUa -5'
18520 5' -57.6 NC_004681.1 + 49352 0.71 0.357233
Target:  5'- gAUGugUUCCUCGGUGAGGUC-ACGa -3'
miRNA:   3'- gUACugGAGGAGUCGCUCCGGcUGUa -5'
18520 5' -57.6 NC_004681.1 + 3608 0.71 0.34901
Target:  5'- --gGACUUCC-CGGCGAGGaaGACGUg -3'
miRNA:   3'- guaCUGGAGGaGUCGCUCCggCUGUA- -5'
18520 5' -57.6 NC_004681.1 + 15318 0.71 0.340923
Target:  5'- uCAUGACg-CC-CAGCG-GGCCGACGUu -3'
miRNA:   3'- -GUACUGgaGGaGUCGCuCCGGCUGUA- -5'
18520 5' -57.6 NC_004681.1 + 41662 0.72 0.32516
Target:  5'- aCGUGACCaUgUUCAGCGcGGUCGGCAUc -3'
miRNA:   3'- -GUACUGG-AgGAGUCGCuCCGGCUGUA- -5'
18520 5' -57.6 NC_004681.1 + 65711 1.04 0.001628
Target:  5'- uCAUGACCUCCUCAGCGAGGCCGACAUc -3'
miRNA:   3'- -GUACUGGAGGAGUCGCUCCGGCUGUA- -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.