miRNA display CGI


Results 1 - 19 of 19 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
27426 3' -59.3 NC_005869.1 + 10930 0.66 0.354016
Target:  5'- -gGAGGAGGCgGgGGGagugagCGCGGCGc- -3'
miRNA:   3'- gaCUCCUCCGaCgCCUg-----GCGUCGUac -5'
27426 3' -59.3 NC_005869.1 + 7702 0.66 0.337095
Target:  5'- -cGAGGucuGGGUUGUGGGCCaGCAG-GUGc -3'
miRNA:   3'- gaCUCC---UCCGACGCCUGG-CGUCgUAC- -5'
27426 3' -59.3 NC_005869.1 + 15317 0.66 0.328857
Target:  5'- -gGAGGAGGUggugGUGGugaGCgGCGGCGg- -3'
miRNA:   3'- gaCUCCUCCGa---CGCC---UGgCGUCGUac -5'
27426 3' -59.3 NC_005869.1 + 15652 0.66 0.32077
Target:  5'- -gGAGGAGcuGCUGCuG-CCGCAGCu-- -3'
miRNA:   3'- gaCUCCUC--CGACGcCuGGCGUCGuac -5'
27426 3' -59.3 NC_005869.1 + 12362 0.66 0.319969
Target:  5'- cCUGuGGGGGCUGCaggcccccgcuggGGAgCGCGGgCAc- -3'
miRNA:   3'- -GACuCCUCCGACG-------------CCUgGCGUC-GUac -5'
27426 3' -59.3 NC_005869.1 + 8406 0.67 0.312832
Target:  5'- -aGAGG-GGCgGCGGGCacuCGCGGUAg- -3'
miRNA:   3'- gaCUCCuCCGaCGCCUG---GCGUCGUac -5'
27426 3' -59.3 NC_005869.1 + 8270 0.67 0.305044
Target:  5'- gUGGcGAGGCaGCGGugCGguGCGc- -3'
miRNA:   3'- gACUcCUCCGaCGCCugGCguCGUac -5'
27426 3' -59.3 NC_005869.1 + 20718 0.67 0.305044
Target:  5'- --cGGGAGGCgcgGCGG-CgGCGGCcgGc -3'
miRNA:   3'- gacUCCUCCGa--CGCCuGgCGUCGuaC- -5'
27426 3' -59.3 NC_005869.1 + 3637 0.67 0.305044
Target:  5'- aUGcGGcAGGCgcugGCGGAgCUGCGGCAg- -3'
miRNA:   3'- gACuCC-UCCGa---CGCCU-GGCGUCGUac -5'
27426 3' -59.3 NC_005869.1 + 8217 0.67 0.305044
Target:  5'- -aGGGGAGGCggggcgGCGGGCCcucggGCGGgGg- -3'
miRNA:   3'- gaCUCCUCCGa-----CGCCUGG-----CGUCgUac -5'
27426 3' -59.3 NC_005869.1 + 17279 0.68 0.26144
Target:  5'- -cGGGGAGGCUGggcagcaccuCGGG-CGCGGCGa- -3'
miRNA:   3'- gaCUCCUCCGAC----------GCCUgGCGUCGUac -5'
27426 3' -59.3 NC_005869.1 + 11587 0.68 0.232791
Target:  5'- -aGAGGAGGaguucgguccccGgGGACCGCGGCGc- -3'
miRNA:   3'- gaCUCCUCCga----------CgCCUGGCGUCGUac -5'
27426 3' -59.3 NC_005869.1 + 2053 0.69 0.223047
Target:  5'- -gGuGGGGGCcgUGCgcaacagccGGGCCGCGGUAUGu -3'
miRNA:   3'- gaCuCCUCCG--ACG---------CCUGGCGUCGUAC- -5'
27426 3' -59.3 NC_005869.1 + 7600 0.69 0.217135
Target:  5'- -aGAGGggcggcccgcgcAGGCgGCGGcGCCGCAGC-UGg -3'
miRNA:   3'- gaCUCC------------UCCGaCGCC-UGGCGUCGuAC- -5'
27426 3' -59.3 NC_005869.1 + 6141 0.7 0.179414
Target:  5'- gUGGGGAGGCUgaaGCGcaGACCGUGGCc-- -3'
miRNA:   3'- gACUCCUCCGA---CGC--CUGGCGUCGuac -5'
27426 3' -59.3 NC_005869.1 + 18409 0.7 0.174525
Target:  5'- uUGcGGAGGCgGCGG-CUGCGGCGc- -3'
miRNA:   3'- gACuCCUCCGaCGCCuGGCGUCGUac -5'
27426 3' -59.3 NC_005869.1 + 9464 0.71 0.165103
Target:  5'- -aGAGGAGGUaggugGCcaGGGCCucggGCAGCAUGa -3'
miRNA:   3'- gaCUCCUCCGa----CG--CCUGG----CGUCGUAC- -5'
27426 3' -59.3 NC_005869.1 + 12994 0.73 0.104857
Target:  5'- -cGAGGAGggccgccucauGCUGCGGuCCGCAGCc-- -3'
miRNA:   3'- gaCUCCUC-----------CGACGCCuGGCGUCGuac -5'
27426 3' -59.3 NC_005869.1 + 21026 1.08 0.000213
Target:  5'- uCUGAGGAGGCUGCGGACCGCAGCAUGa -3'
miRNA:   3'- -GACUCCUCCGACGCCUGGCGUCGUAC- -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.