miRNA display CGI


Results 1 - 20 of 21 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
33419 3' -54.3 NC_007605.1 + 87199 0.66 0.954667
Target:  5'- cGGGGCCaGGCUcuugCuGCGUgGGUgGUCg -3'
miRNA:   3'- aCCUCGGcCCGAa---GuCGUAgUUA-CAG- -5'
33419 3' -54.3 NC_007605.1 + 153792 0.66 0.946238
Target:  5'- gUGGgcGGCCaGGGCaUCGGCAaagcgCAggGUCu -3'
miRNA:   3'- -ACC--UCGG-CCCGaAGUCGUa----GUuaCAG- -5'
33419 3' -54.3 NC_007605.1 + 87258 0.66 0.941661
Target:  5'- aUGGAGCCGG--UUCAGCAgaggcccGUCa -3'
miRNA:   3'- -ACCUCGGCCcgAAGUCGUaguua--CAG- -5'
33419 3' -54.3 NC_007605.1 + 73201 0.66 0.938797
Target:  5'- gUGcGAGCCGGGCUugcccuuuugcacggUCAGgAU-GGUGUUg -3'
miRNA:   3'- -AC-CUCGGCCCGA---------------AGUCgUAgUUACAG- -5'
33419 3' -54.3 NC_007605.1 + 83720 0.67 0.931768
Target:  5'- cGaGGCCGGGCggaaggaGGCGUCAcuAUGUg -3'
miRNA:   3'- aCcUCGGCCCGaag----UCGUAGU--UACAg -5'
33419 3' -54.3 NC_007605.1 + 163163 0.67 0.931768
Target:  5'- gGGGGCCaGGCU--GGCAuuauaUCGGUGUa -3'
miRNA:   3'- aCCUCGGcCCGAagUCGU-----AGUUACAg -5'
33419 3' -54.3 NC_007605.1 + 99817 0.67 0.926451
Target:  5'- gUGGAGCCGGG----GGCAUcCGGUGcCu -3'
miRNA:   3'- -ACCUCGGCCCgaagUCGUA-GUUACaG- -5'
33419 3' -54.3 NC_007605.1 + 98203 0.67 0.926451
Target:  5'- cUGG-GCCGGGCU-CAGUGUgGAcGUg -3'
miRNA:   3'- -ACCuCGGCCCGAaGUCGUAgUUaCAg -5'
33419 3' -54.3 NC_007605.1 + 72357 0.67 0.909011
Target:  5'- gUGGAGCUGGGCcUCuaAGUA-CAG-GUCg -3'
miRNA:   3'- -ACCUCGGCCCGaAG--UCGUaGUUaCAG- -5'
33419 3' -54.3 NC_007605.1 + 59373 0.68 0.896159
Target:  5'- aGGAGgucucaaccuuCUGGGCUcgGGCcgCGGUGUCg -3'
miRNA:   3'- aCCUC-----------GGCCCGAagUCGuaGUUACAG- -5'
33419 3' -54.3 NC_007605.1 + 10697 0.68 0.882351
Target:  5'- gGGAGCCGGGCggcUCGGCu-------- -3'
miRNA:   3'- aCCUCGGCCCGa--AGUCGuaguuacag -5'
33419 3' -54.3 NC_007605.1 + 69539 0.68 0.875099
Target:  5'- gGGGGCUguaccuGGGCcauucCAGCAUCAuugcauGUGUCa -3'
miRNA:   3'- aCCUCGG------CCCGaa---GUCGUAGU------UACAG- -5'
33419 3' -54.3 NC_007605.1 + 114260 0.68 0.874361
Target:  5'- gUGG-GCUucuucuuGGGCUUCAGCA-CAAUGa- -3'
miRNA:   3'- -ACCuCGG-------CCCGAAGUCGUaGUUACag -5'
33419 3' -54.3 NC_007605.1 + 95728 0.69 0.859923
Target:  5'- aGGAGCCccGGGCggcUCAGgAUCAggGcCa -3'
miRNA:   3'- aCCUCGG--CCCGa--AGUCgUAGUuaCaG- -5'
33419 3' -54.3 NC_007605.1 + 101351 0.69 0.833043
Target:  5'- -aGAGCCcccuGGGCUugguucgccugaacUCGGCggCAAUGUCg -3'
miRNA:   3'- acCUCGG----CCCGA--------------AGUCGuaGUUACAG- -5'
33419 3' -54.3 NC_007605.1 + 104551 0.69 0.827066
Target:  5'- gGGGGCCGGGCgcgCucCGUCcuUGUCc -3'
miRNA:   3'- aCCUCGGCCCGaa-GucGUAGuuACAG- -5'
33419 3' -54.3 NC_007605.1 + 165805 0.69 0.817493
Target:  5'- uUGGGgugauccuguagcGCCGcGGUUUCAGCAUCAcagGUUa -3'
miRNA:   3'- -ACCU-------------CGGC-CCGAAGUCGUAGUua-CAG- -5'
33419 3' -54.3 NC_007605.1 + 80197 0.7 0.809503
Target:  5'- uUGGAGCCGcGGCUacggUgAGCAUCccuAUGg- -3'
miRNA:   3'- -ACCUCGGC-CCGA----AgUCGUAGu--UACag -5'
33419 3' -54.3 NC_007605.1 + 61940 0.74 0.568162
Target:  5'- cGGAGCCGGGC---GGCGUCAAa--- -3'
miRNA:   3'- aCCUCGGCCCGaagUCGUAGUUacag -5'
33419 3' -54.3 NC_007605.1 + 67702 0.75 0.497701
Target:  5'- aGGcacGGCCGGGCUaaUCAGCuUCGAgGUCu -3'
miRNA:   3'- aCC---UCGGCCCGA--AGUCGuAGUUaCAG- -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.