miRNA display CGI


Results 1 - 20 of 31 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
25614 3' -50.8 NC_005337.1 + 71974 1.12 0.005512
Target:  5'- aCCUCCUGCAGUACGUGUCCAAGAACAu -3'
miRNA:   3'- -GGAGGACGUCAUGCACAGGUUCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 127111 0.79 0.514209
Target:  5'- gCCUCCUGCGGguccACGggGUCCGAGGcggACAu -3'
miRNA:   3'- -GGAGGACGUCa---UGCa-CAGGUUCU---UGU- -5'
25614 3' -50.8 NC_005337.1 + 47692 0.77 0.587073
Target:  5'- --gCCUGCGGUcCGUGUCCGAGAuCGu -3'
miRNA:   3'- ggaGGACGUCAuGCACAGGUUCUuGU- -5'
25614 3' -50.8 NC_005337.1 + 28308 0.74 0.774795
Target:  5'- aCCUCCUcgucGCGc-GCGUcGUCCAGGAACAg -3'
miRNA:   3'- -GGAGGA----CGUcaUGCA-CAGGUUCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 60094 0.73 0.793977
Target:  5'- aUCUCCUGCGGacagGCGgacuugcacaUGUCCGAGAAg- -3'
miRNA:   3'- -GGAGGACGUCa---UGC----------ACAGGUUCUUgu -5'
25614 3' -50.8 NC_005337.1 + 43852 0.73 0.821536
Target:  5'- aCCUCCUGCAGUucauggucACGg--CCAcGAACGu -3'
miRNA:   3'- -GGAGGACGUCA--------UGCacaGGUuCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 49189 0.73 0.821536
Target:  5'- gCUCgUGCGGUACGUGgCCAAccaccGGACGc -3'
miRNA:   3'- gGAGgACGUCAUGCACaGGUU-----CUUGU- -5'
25614 3' -50.8 NC_005337.1 + 38608 0.72 0.838989
Target:  5'- gCCguaCCUGCGuaagggcuccauGUGCGUGUUCAAGAugGc -3'
miRNA:   3'- -GGa--GGACGU------------CAUGCACAGGUUCUugU- -5'
25614 3' -50.8 NC_005337.1 + 5854 0.71 0.900061
Target:  5'- aCCUcgcuggCCUGCGGcUGCGUGg-CGAGAGCGg -3'
miRNA:   3'- -GGA------GGACGUC-AUGCACagGUUCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 77262 0.7 0.918939
Target:  5'- uCCagCCggcgGgAGUACGUGUCCAcGAACc -3'
miRNA:   3'- -GGa-GGa---CgUCAUGCACAGGUuCUUGu -5'
25614 3' -50.8 NC_005337.1 + 125527 0.7 0.926399
Target:  5'- gCUCgUGCGGUACGgcgccgacauccgcgCCAAGGACGa -3'
miRNA:   3'- gGAGgACGUCAUGCaca------------GGUUCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 101697 0.69 0.945231
Target:  5'- uCUUCCgGCAGUGCaccGUGUCgGAGGcccGCAc -3'
miRNA:   3'- -GGAGGaCGUCAUG---CACAGgUUCU---UGU- -5'
25614 3' -50.8 NC_005337.1 + 24840 0.68 0.965192
Target:  5'- gCUCgaGCGGcGCGUGcUCGAGGACGu -3'
miRNA:   3'- gGAGgaCGUCaUGCACaGGUUCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 117624 0.67 0.979155
Target:  5'- aCCUCCUcaGGUACGUGauUCCAaaaaacaggaagcAGAACc -3'
miRNA:   3'- -GGAGGAcgUCAUGCAC--AGGU-------------UCUUGu -5'
25614 3' -50.8 NC_005337.1 + 116315 0.67 0.979388
Target:  5'- cCCUCCauggaGCGGUGCGUGcugCUgcGGGCGc -3'
miRNA:   3'- -GGAGGa----CGUCAUGCACa--GGuuCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 2053 0.67 0.981399
Target:  5'- uCCUCCcucgggaUGgAGgcgaGCGUGUCCGcGAGCGc -3'
miRNA:   3'- -GGAGG-------ACgUCa---UGCACAGGUuCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 2899 0.67 0.981613
Target:  5'- uCCggCUGCAG-ACcacGUCCAGGAGCGg -3'
miRNA:   3'- -GGagGACGUCaUGca-CAGGUUCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 66554 0.67 0.981613
Target:  5'- aCCUCCUGCGcccGCG-GcCCGAGAAg- -3'
miRNA:   3'- -GGAGGACGUca-UGCaCaGGUUCUUgu -5'
25614 3' -50.8 NC_005337.1 + 23462 0.67 0.983653
Target:  5'- gCUgCUGCA--ACGUGUCCGacuccgacguggAGAACGu -3'
miRNA:   3'- gGAgGACGUcaUGCACAGGU------------UCUUGU- -5'
25614 3' -50.8 NC_005337.1 + 113668 0.66 0.987214
Target:  5'- uCCUCCUGUGGacACGUcGUCCGAccGAAa- -3'
miRNA:   3'- -GGAGGACGUCa-UGCA-CAGGUU--CUUgu -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.