miRNA display CGI


Results 1 - 18 of 18 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
11691 3' -42.7 NC_003102.1 + 113724 0.66 1
Target:  5'- ---cGUCGAUUCgGUCGAcgacuAGAGUcuuUUCg -3'
miRNA:   3'- gauaCAGCUGAGgCAGCU-----UUUUA---AAG- -5'
11691 3' -42.7 NC_003102.1 + 79366 0.67 1
Target:  5'- -cAUGUCGAC-CgG-CGAAAAAUUUa -3'
miRNA:   3'- gaUACAGCUGaGgCaGCUUUUUAAAg -5'
11691 3' -42.7 NC_003102.1 + 83054 0.67 1
Target:  5'- --uUGUcuucCGACgUCGUCGAAGAAUUUUc -3'
miRNA:   3'- gauACA----GCUGaGGCAGCUUUUUAAAG- -5'
11691 3' -42.7 NC_003102.1 + 101559 0.66 1
Target:  5'- uCUAUGUCGuuUCCGuaUCGAu--GUUUg -3'
miRNA:   3'- -GAUACAGCugAGGC--AGCUuuuUAAAg -5'
11691 3' -42.7 NC_003102.1 + 63520 0.66 1
Target:  5'- -gGUGUCGACUCUgGUC--AAAAUgUCa -3'
miRNA:   3'- gaUACAGCUGAGG-CAGcuUUUUAaAG- -5'
11691 3' -42.7 NC_003102.1 + 64738 0.66 1
Target:  5'- ---cGUCGucuccguCUCCGUCGAucAAAUcUCg -3'
miRNA:   3'- gauaCAGCu------GAGGCAGCUu-UUUAaAG- -5'
11691 3' -42.7 NC_003102.1 + 78864 0.68 0.999999
Target:  5'- ---aGUCaaaUCCGUCGAuAAAGUUUCg -3'
miRNA:   3'- gauaCAGcugAGGCAGCU-UUUUAAAG- -5'
11691 3' -42.7 NC_003102.1 + 67449 0.68 0.999999
Target:  5'- uUGUGUCGACcaaucugcuauucgaUCCGUCuuuguggaAGAAAUUUCc -3'
miRNA:   3'- gAUACAGCUG---------------AGGCAGc-------UUUUUAAAG- -5'
11691 3' -42.7 NC_003102.1 + 27197 0.68 0.999998
Target:  5'- aUAUGUgGGCggCGUUGAAcuGUUUCa -3'
miRNA:   3'- gAUACAgCUGagGCAGCUUuuUAAAG- -5'
11691 3' -42.7 NC_003102.1 + 73696 0.69 0.99999
Target:  5'- gCUAUGUCGACgguaCCGUUGuu--GUUUg -3'
miRNA:   3'- -GAUACAGCUGa---GGCAGCuuuuUAAAg -5'
11691 3' -42.7 NC_003102.1 + 28394 0.69 0.999989
Target:  5'- ---aGUCGGCUgCCGUUGGGuaaaauccguaucAAGUUUCg -3'
miRNA:   3'- gauaCAGCUGA-GGCAGCUU-------------UUUAAAG- -5'
11691 3' -42.7 NC_003102.1 + 50960 0.7 0.999979
Target:  5'- -aAUGggagCGACUCaggacgaCGUCGAAAAGUUUa -3'
miRNA:   3'- gaUACa---GCUGAG-------GCAGCUUUUUAAAg -5'
11691 3' -42.7 NC_003102.1 + 88928 0.7 0.999961
Target:  5'- ---cGUCGGCgCCGUCGAAAc----- -3'
miRNA:   3'- gauaCAGCUGaGGCAGCUUUuuaaag -5'
11691 3' -42.7 NC_003102.1 + 41687 0.7 0.999947
Target:  5'- --uUGUCGAUUCgGUCcGAGAAUUUUu -3'
miRNA:   3'- gauACAGCUGAGgCAGcUUUUUAAAG- -5'
11691 3' -42.7 NC_003102.1 + 120596 0.71 0.999874
Target:  5'- ---gGUCgGACUUCGUCGGGAAGcacgUUCg -3'
miRNA:   3'- gauaCAG-CUGAGGCAGCUUUUUa---AAG- -5'
11691 3' -42.7 NC_003102.1 + 26602 0.73 0.998904
Target:  5'- -cGUGUCGAgUuuGUCGGuAAGAUUUUg -3'
miRNA:   3'- gaUACAGCUgAggCAGCU-UUUUAAAG- -5'
11691 3' -42.7 NC_003102.1 + 31937 0.77 0.986512
Target:  5'- ---cGUCGACUCUGUCGAAccucauGAGUUgaUCg -3'
miRNA:   3'- gauaCAGCUGAGGCAGCUU------UUUAA--AG- -5'
11691 3' -42.7 NC_003102.1 + 41489 1.11 0.048099
Target:  5'- uCUAUGUCGACUCCGUCGAAAAAUUUCc -3'
miRNA:   3'- -GAUACAGCUGAGGCAGCUUUUUAAAG- -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.