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
11698 5' -55.8 NC_003102.1 + 71972 0.66 0.920322
Target:  5'- gCGACGCgCggagguaagaaACCGUUGCUGUUCGAa -3'
miRNA:   3'- -GCUGCG-Gaaga-------UGGUAGCGGCGAGCU- -5'
11698 5' -55.8 NC_003102.1 + 18304 0.66 0.918061
Target:  5'- cCGACGCCgacgaacCUGCCGcCGUCGCg--- -3'
miRNA:   3'- -GCUGCGGaa-----GAUGGUaGCGGCGagcu -5'
11698 5' -55.8 NC_003102.1 + 21059 0.66 0.912241
Target:  5'- aGACgGCCguccgaaaugCUGCCAcCGCCGCcccaagUCGAc -3'
miRNA:   3'- gCUG-CGGaa--------GAUGGUaGCGGCG------AGCU- -5'
11698 5' -55.8 NC_003102.1 + 108646 0.66 0.899893
Target:  5'- uGGCGUCaUUCUgAUCGUCGCCGUU-GAc -3'
miRNA:   3'- gCUGCGG-AAGA-UGGUAGCGGCGAgCU- -5'
11698 5' -55.8 NC_003102.1 + 53079 0.66 0.897312
Target:  5'- uGGCGCCgcucucgauuaugUCU-CUAaacUCGCCGCUCa- -3'
miRNA:   3'- gCUGCGGa------------AGAuGGU---AGCGGCGAGcu -5'
11698 5' -55.8 NC_003102.1 + 134553 0.67 0.886618
Target:  5'- gCGGCGCCaaaUUCUugcgACCGcCGCCGC-CGc -3'
miRNA:   3'- -GCUGCGG---AAGA----UGGUaGCGGCGaGCu -5'
11698 5' -55.8 NC_003102.1 + 48839 0.67 0.879642
Target:  5'- gGGCGUUUcgCcGCCGUCGCCGC-CGc -3'
miRNA:   3'- gCUGCGGAa-GaUGGUAGCGGCGaGCu -5'
11698 5' -55.8 NC_003102.1 + 108700 0.67 0.879642
Target:  5'- uGGCGUCaUUCUgAUCGUCGCCGUUgGc -3'
miRNA:   3'- gCUGCGG-AAGA-UGGUAGCGGCGAgCu -5'
11698 5' -55.8 NC_003102.1 + 71755 0.67 0.857413
Target:  5'- cCGACGgCg---ACCA-CGCUGCUCGGc -3'
miRNA:   3'- -GCUGCgGaagaUGGUaGCGGCGAGCU- -5'
11698 5' -55.8 NC_003102.1 + 41004 0.67 0.857413
Target:  5'- aCG-UGCCUUCUAUCGgucCGaCgGCUCGAc -3'
miRNA:   3'- -GCuGCGGAAGAUGGUa--GC-GgCGAGCU- -5'
11698 5' -55.8 NC_003102.1 + 32583 0.67 0.849588
Target:  5'- -cGCGUCUUCUucucaACCGUUGCCGCcCa- -3'
miRNA:   3'- gcUGCGGAAGA-----UGGUAGCGGCGaGcu -5'
11698 5' -55.8 NC_003102.1 + 22687 0.68 0.841567
Target:  5'- uGGCGCCga-UGCCGaccgcuUCGaCCGCUCa- -3'
miRNA:   3'- gCUGCGGaagAUGGU------AGC-GGCGAGcu -5'
11698 5' -55.8 NC_003102.1 + 60355 0.68 0.833354
Target:  5'- cCGcCGCCgccgCUGCCucuucuAUCGCCGCUUc- -3'
miRNA:   3'- -GCuGCGGaa--GAUGG------UAGCGGCGAGcu -5'
11698 5' -55.8 NC_003102.1 + 46016 0.68 0.833354
Target:  5'- cCGcCGCCgccgCUGCCucuucuAUCGCCGCUUc- -3'
miRNA:   3'- -GCuGCGGaa--GAUGG------UAGCGGCGAGcu -5'
11698 5' -55.8 NC_003102.1 + 87957 0.68 0.821552
Target:  5'- gCGACGCCUcCUGCCgccugagcuucggcGUCuuccuccGCUGCUUGAu -3'
miRNA:   3'- -GCUGCGGAaGAUGG--------------UAG-------CGGCGAGCU- -5'
11698 5' -55.8 NC_003102.1 + 134972 0.75 0.435233
Target:  5'- aGugGCCagCUcgcacgauugcgaACCGUCGCCGCUCa- -3'
miRNA:   3'- gCugCGGaaGA-------------UGGUAGCGGCGAGcu -5'
11698 5' -55.8 NC_003102.1 + 59352 0.81 0.194631
Target:  5'- uGcCGCCgUC-GCCGUCGCCGCUCGAa -3'
miRNA:   3'- gCuGCGGaAGaUGGUAGCGGCGAGCU- -5'
11698 5' -55.8 NC_003102.1 + 87879 1.09 0.003154
Target:  5'- uCGACGCCUUCUACCAUCGCCGCUCGAu -3'
miRNA:   3'- -GCUGCGGAAGAUGGUAGCGGCGAGCU- -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.