miRNA display CGI


Results 1 - 20 of 36 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
18235 3' -55.7 NC_004680.1 + 53819 1.1 0.001072
Target:  5'- gCGCGACAACGCCGGCGAGAACGUGAGg -3'
miRNA:   3'- -GCGCUGUUGCGGCCGCUCUUGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 47779 0.76 0.241336
Target:  5'- uGCGAacgggaGACuCCGGCG-GAACGUGAGg -3'
miRNA:   3'- gCGCUg-----UUGcGGCCGCuCUUGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 9397 0.74 0.294128
Target:  5'- aGCGAgAGCGUCGGuUGAGGcgcacgaguugcaGCGUGAGg -3'
miRNA:   3'- gCGCUgUUGCGGCC-GCUCU-------------UGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 12233 0.73 0.340758
Target:  5'- gGCGGCAGCGCCGGaCGGGuuGAUGUu-- -3'
miRNA:   3'- gCGCUGUUGCGGCC-GCUC--UUGCAcuc -5'
18235 3' -55.7 NC_004680.1 + 46175 0.73 0.365578
Target:  5'- aCGUGuGCucgGugGUCGGCGAGGGCGUGGu -3'
miRNA:   3'- -GCGC-UG---UugCGGCCGCUCUUGCACUc -5'
18235 3' -55.7 NC_004680.1 + 9636 0.72 0.400563
Target:  5'- uGCGGgccgUAACGCUGGUGAGcaguugucGCGUGAGg -3'
miRNA:   3'- gCGCU----GUUGCGGCCGCUCu-------UGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 55447 0.71 0.418838
Target:  5'- aGCGAaGugGCCGGCGAGuucCGgGGGg -3'
miRNA:   3'- gCGCUgUugCGGCCGCUCuu-GCaCUC- -5'
18235 3' -55.7 NC_004680.1 + 48097 0.71 0.436659
Target:  5'- gCGCGugGgcggaugucaugaGCGCCGGCGAcaagggggaGggUGUGAa -3'
miRNA:   3'- -GCGCugU-------------UGCGGCCGCU---------CuuGCACUc -5'
18235 3' -55.7 NC_004680.1 + 56598 0.71 0.456855
Target:  5'- gGCgGACAGCGCUGGUGuG-GCGUGGc -3'
miRNA:   3'- gCG-CUGUUGCGGCCGCuCuUGCACUc -5'
18235 3' -55.7 NC_004680.1 + 8314 0.71 0.466647
Target:  5'- uGCGGCccGAC-CCGGCGGGAACGa--- -3'
miRNA:   3'- gCGCUG--UUGcGGCCGCUCUUGCacuc -5'
18235 3' -55.7 NC_004680.1 + 25711 0.7 0.476546
Target:  5'- uGCGGCGucgGCGaCGGCGGGGAUGccGAGg -3'
miRNA:   3'- gCGCUGU---UGCgGCCGCUCUUGCa-CUC- -5'
18235 3' -55.7 NC_004680.1 + 25831 0.7 0.486548
Target:  5'- gGCGGCGGcCGCCaccacGGCGAGAccACG-GAGc -3'
miRNA:   3'- gCGCUGUU-GCGG-----CCGCUCU--UGCaCUC- -5'
18235 3' -55.7 NC_004680.1 + 26097 0.7 0.517125
Target:  5'- cCGCGGCccCGCCGGCuGGAACGc--- -3'
miRNA:   3'- -GCGCUGuuGCGGCCGcUCUUGCacuc -5'
18235 3' -55.7 NC_004680.1 + 32745 0.7 0.527489
Target:  5'- aGCGugGGUGuuGGCGGGuggauccGCGUGGGg -3'
miRNA:   3'- gCGCugUUGCggCCGCUCu------UGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 21645 0.69 0.53793
Target:  5'- gCGCGGugcCGuUGCCGuGCGcGAACGUGGGg -3'
miRNA:   3'- -GCGCU---GUuGCGGC-CGCuCUUGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 13868 0.69 0.552664
Target:  5'- cCGCGACAGCaaCGGCGAcugGGACGguaacggcauccgcaUGAGg -3'
miRNA:   3'- -GCGCUGUUGcgGCCGCU---CUUGC---------------ACUC- -5'
18235 3' -55.7 NC_004680.1 + 11879 0.69 0.569646
Target:  5'- uGCaGACGGCGCCccGGgGAGAGCGg--- -3'
miRNA:   3'- gCG-CUGUUGCGG--CCgCUCUUGCacuc -5'
18235 3' -55.7 NC_004680.1 + 20847 0.69 0.569646
Target:  5'- aGCGAuCGACGCUGGCGgcGGAACa---- -3'
miRNA:   3'- gCGCU-GUUGCGGCCGC--UCUUGcacuc -5'
18235 3' -55.7 NC_004680.1 + 9525 0.69 0.569646
Target:  5'- uGCuGCggUGgCGGCGAagaacauuGAGCGUGAGa -3'
miRNA:   3'- gCGcUGuuGCgGCCGCU--------CUUGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 18588 0.69 0.580326
Target:  5'- aGCGAuCGACuCCGGgGAGAuguugcgcaacGCGUGAa -3'
miRNA:   3'- gCGCU-GUUGcGGCCgCUCU-----------UGCACUc -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.