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
1431 5' -54.8 NC_001335.1 + 9836 0.66 0.775932
Target:  5'- gGGACCGUCG-GGUCggcgUCGACc----- -3'
miRNA:   3'- -CCUGGCAGCuCCAGa---GGCUGcucuuc -5'
1431 5' -54.8 NC_001335.1 + 36248 0.66 0.765963
Target:  5'- cGGCCGUCGAccgagaaccGGcCUCCGACaaucGGAAc -3'
miRNA:   3'- cCUGGCAGCU---------CCaGAGGCUGc---UCUUc -5'
1431 5' -54.8 NC_001335.1 + 33328 0.66 0.765963
Target:  5'- nGAUCGUUGA-GUCagCCGACGAGuuGa -3'
miRNA:   3'- cCUGGCAGCUcCAGa-GGCUGCUCuuC- -5'
1431 5' -54.8 NC_001335.1 + 18933 0.66 0.75586
Target:  5'- uGGACCGUUcccGG-CUCCacCGAGAAGg -3'
miRNA:   3'- -CCUGGCAGcu-CCaGAGGcuGCUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 41727 0.66 0.754843
Target:  5'- gGGugUGUCGGuccucgcugguguGGUCcCCGACGuaugGGAAGu -3'
miRNA:   3'- -CCugGCAGCU-------------CCAGaGGCUGC----UCUUC- -5'
1431 5' -54.8 NC_001335.1 + 22215 0.66 0.745634
Target:  5'- --cCCGgcCGAGGUCaUCGGCGAGAu- -3'
miRNA:   3'- ccuGGCa-GCUCCAGaGGCUGCUCUuc -5'
1431 5' -54.8 NC_001335.1 + 43704 0.67 0.735296
Target:  5'- -cACCGUCgcuGAGGUCU---ACGAGAAGg -3'
miRNA:   3'- ccUGGCAG---CUCCAGAggcUGCUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 12417 0.67 0.724857
Target:  5'- cGGuuUCGcCGAGGUUUCCGAgGAGu-- -3'
miRNA:   3'- -CCu-GGCaGCUCCAGAGGCUgCUCuuc -5'
1431 5' -54.8 NC_001335.1 + 28333 0.67 0.700523
Target:  5'- cGGCCGUCGAGuUCagcgcauacguaauUCCGA-GGGAGGg -3'
miRNA:   3'- cCUGGCAGCUCcAG--------------AGGCUgCUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 41540 0.68 0.68231
Target:  5'- uGGGCCG-CGcuugaccagaaAGGuacacaUCUCCGACGAGGc- -3'
miRNA:   3'- -CCUGGCaGC-----------UCC------AGAGGCUGCUCUuc -5'
1431 5' -54.8 NC_001335.1 + 34569 0.68 0.68231
Target:  5'- uGGGCCGgugccuacgccaUCGAGGaCUC--ACGAGAGGg -3'
miRNA:   3'- -CCUGGC------------AGCUCCaGAGgcUGCUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 36215 0.68 0.649871
Target:  5'- aGuCCG-CGAGGUCUUCG-CgGAGGAGg -3'
miRNA:   3'- cCuGGCaGCUCCAGAGGCuG-CUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 28495 0.68 0.628149
Target:  5'- gGGACCGuagUCGGauGGcCgaaCGACGAGGAGg -3'
miRNA:   3'- -CCUGGC---AGCU--CCaGag-GCUGCUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 16122 0.69 0.595614
Target:  5'- cGGcuGCCGcCGAGGagacCUCCGAgGAGAc- -3'
miRNA:   3'- -CC--UGGCaGCUCCa---GAGGCUgCUCUuc -5'
1431 5' -54.8 NC_001335.1 + 4509 0.69 0.584818
Target:  5'- uGGACCGggcaaUUGAGGUUcgagUCCuuGGCGGGGAGc -3'
miRNA:   3'- -CCUGGC-----AGCUCCAG----AGG--CUGCUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 41666 0.7 0.542096
Target:  5'- gGGGCCGgcu-GGUCUCucgCGACGAGAu- -3'
miRNA:   3'- -CCUGGCagcuCCAGAG---GCUGCUCUuc -5'
1431 5' -54.8 NC_001335.1 + 8495 0.7 0.542096
Target:  5'- cGACUG-CGGGGUCUUCGAucuccuccauacCGGGGAGc -3'
miRNA:   3'- cCUGGCaGCUCCAGAGGCU------------GCUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 33357 0.72 0.440862
Target:  5'- aGGCUGUCGAGGaaCUCgguugGACGAGGAGa -3'
miRNA:   3'- cCUGGCAGCUCCa-GAGg----CUGCUCUUC- -5'
1431 5' -54.8 NC_001335.1 + 2782 0.73 0.385505
Target:  5'- uGGACUGUcCGGGGUgUUCCGACGAa--- -3'
miRNA:   3'- -CCUGGCA-GCUCCA-GAGGCUGCUcuuc -5'
1431 5' -54.8 NC_001335.1 + 8625 0.74 0.339773
Target:  5'- aGGCCGUCGAGGguuuccgccucggCgaugCCGACGAGGc- -3'
miRNA:   3'- cCUGGCAGCUCCa------------Ga---GGCUGCUCUuc -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.