miRNA display CGI


Results 1 - 20 of 49 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
1658 3' -55.4 NC_001347.2 + 1972 0.76 0.560771
Target:  5'- -cGGGGACGgcG-GCGgGGACGACGu -3'
miRNA:   3'- gaCCCCUGCuuCuUGCgCCUGCUGUg -5'
1658 3' -55.4 NC_001347.2 + 2113 0.72 0.746779
Target:  5'- -cGGGGGCGc-GAuuugcgugccuaACGCGGACGcGCACg -3'
miRNA:   3'- gaCCCCUGCuuCU------------UGCGCCUGC-UGUG- -5'
1658 3' -55.4 NC_001347.2 + 2362 0.66 0.973401
Target:  5'- gCUGGGcgcgcuGGCGcuGGGACGCGaGuCGGCGCc -3'
miRNA:   3'- -GACCC------CUGCu-UCUUGCGC-CuGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 8193 0.68 0.932016
Target:  5'- -cGGGGugGGacgAGAGC-CGGuaggacaGCGGCGCa -3'
miRNA:   3'- gaCCCCugCU---UCUUGcGCC-------UGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 12139 0.67 0.954268
Target:  5'- uCUGaGGACGAGG-ACuCGGACGAUgACg -3'
miRNA:   3'- -GACcCCUGCUUCuUGcGCCUGCUG-UG- -5'
1658 3' -55.4 NC_001347.2 + 17221 0.67 0.953117
Target:  5'- uUGGcGGACGAugaggagcagggagAGGAUGauGACGACAg -3'
miRNA:   3'- gACC-CCUGCU--------------UCUUGCgcCUGCUGUg -5'
1658 3' -55.4 NC_001347.2 + 30954 0.71 0.801064
Target:  5'- cCUGGGGuaACGAgcGGAGCGCgacccauuucaaGGuCGGCGCa -3'
miRNA:   3'- -GACCCC--UGCU--UCUUGCG------------CCuGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 33762 0.67 0.957967
Target:  5'- -cGGGGcCGuuuGGAACGCGuuucgcuugauaGAaCGACACg -3'
miRNA:   3'- gaCCCCuGCu--UCUUGCGC------------CU-GCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 36914 0.66 0.973401
Target:  5'- uUGGGcGCGAcgcGGACGCa-GCGACACg -3'
miRNA:   3'- gACCCcUGCUu--CUUGCGccUGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 39513 0.81 0.299914
Target:  5'- --aGGGGCGggGGGCGCGG-CGACAUg -3'
miRNA:   3'- gacCCCUGCuuCUUGCGCCuGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 40031 0.66 0.975912
Target:  5'- -cGGGGAaaaGAGGAAguucccgGgGGACGGCAg -3'
miRNA:   3'- gaCCCCUg--CUUCUUg------CgCCUGCUGUg -5'
1658 3' -55.4 NC_001347.2 + 40098 0.71 0.818096
Target:  5'- -cGGGGGCGAGGGACGaCGGcccugGgGAcCGCg -3'
miRNA:   3'- gaCCCCUGCUUCUUGC-GCC-----UgCU-GUG- -5'
1658 3' -55.4 NC_001347.2 + 40672 0.7 0.850197
Target:  5'- -cGGGGACGggGGuuGCGCugGGGcCGGgGCu -3'
miRNA:   3'- gaCCCCUGCuuCU--UGCG--CCU-GCUgUG- -5'
1658 3' -55.4 NC_001347.2 + 40729 0.75 0.60007
Target:  5'- uUGGGGACGggGAcaguuugcgGCGCGGACc---- -3'
miRNA:   3'- gACCCCUGCuuCU---------UGCGCCUGcugug -5'
1658 3' -55.4 NC_001347.2 + 43678 0.66 0.975912
Target:  5'- -aGGGGGC-AGGAACacccuuGCGGAuUGACAUu -3'
miRNA:   3'- gaCCCCUGcUUCUUG------CGCCU-GCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 48499 0.68 0.910501
Target:  5'- -cGGGcacagacGACGAAGAggACGaGGACGACAa -3'
miRNA:   3'- gaCCC-------CUGCUUCU--UGCgCCUGCUGUg -5'
1658 3' -55.4 NC_001347.2 + 52058 0.67 0.957967
Target:  5'- aCU-GGGACGAGGAGgaggaggcgucCGCGGcccGCGAgCGCa -3'
miRNA:   3'- -GAcCCCUGCUUCUU-----------GCGCC---UGCU-GUG- -5'
1658 3' -55.4 NC_001347.2 + 63062 0.66 0.964739
Target:  5'- aUGGGuGGCGGAGGACugccgGCGGGugugggcuCGGCAa -3'
miRNA:   3'- gACCC-CUGCUUCUUG-----CGCCU--------GCUGUg -5'
1658 3' -55.4 NC_001347.2 + 67007 0.69 0.890731
Target:  5'- gCUGGGGggccaacgccggcuGCGGAGAcaGCuGCGGcgguccucGCGACGCu -3'
miRNA:   3'- -GACCCC--------------UGCUUCU--UG-CGCC--------UGCUGUG- -5'
1658 3' -55.4 NC_001347.2 + 67775 0.72 0.765341
Target:  5'- -aGGGGA-GGAGAgccuacagACG-GGACGACACa -3'
miRNA:   3'- gaCCCCUgCUUCU--------UGCgCCUGCUGUG- -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.