miRNA display CGI


Results 1 - 20 of 32 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
24406 5' -59.9 NC_005264.1 + 40617 0.66 0.772915
Target:  5'- gGGUCCUGCgaaaUAAGCCCUuccccgcgccgucgcGaCGCGGaGGg -3'
miRNA:   3'- -CCGGGACGa---GUUCGGGA---------------U-GUGCC-CCa -5'
24406 5' -59.9 NC_005264.1 + 57891 0.66 0.760019
Target:  5'- gGGCCaCgagGCUCGGcGCUUggcacgGCugGGGGUu -3'
miRNA:   3'- -CCGG-Ga--CGAGUU-CGGGa-----UGugCCCCA- -5'
24406 5' -59.9 NC_005264.1 + 103846 0.66 0.760019
Target:  5'- cGCCaaGCUUcuGGGCCCgGC-CGGGGg -3'
miRNA:   3'- cCGGgaCGAG--UUCGGGaUGuGCCCCa -5'
24406 5' -59.9 NC_005264.1 + 116404 0.66 0.741235
Target:  5'- cGGCUCUcGCU-GAGCCCgcggcaggucGCugGGGGc -3'
miRNA:   3'- -CCGGGA-CGAgUUCGGGa---------UGugCCCCa -5'
24406 5' -59.9 NC_005264.1 + 39997 0.66 0.731703
Target:  5'- cGGCCCcGCcCGGGCCCgaacuCGCGGa-- -3'
miRNA:   3'- -CCGGGaCGaGUUCGGGau---GUGCCcca -5'
24406 5' -59.9 NC_005264.1 + 159024 0.66 0.731703
Target:  5'- cGGCCCcGCcCGGGCCCgaacuCGCGGa-- -3'
miRNA:   3'- -CCGGGaCGaGUUCGGGau---GUGCCcca -5'
24406 5' -59.9 NC_005264.1 + 63256 0.66 0.724982
Target:  5'- aGGCCCUccagaauccgcaccgGCUCGagagaggacaaccGGCCCcAguCGGGGg -3'
miRNA:   3'- -CCGGGA---------------CGAGU-------------UCGGGaUguGCCCCa -5'
24406 5' -59.9 NC_005264.1 + 16165 0.66 0.722089
Target:  5'- cGGCaaUGCc---GCCCUGCGCGGaGGUc -3'
miRNA:   3'- -CCGggACGaguuCGGGAUGUGCC-CCA- -5'
24406 5' -59.9 NC_005264.1 + 37442 0.67 0.71143
Target:  5'- aGGCUCUGCUCAAGCgauccauggagcaCCa--GCGGGa- -3'
miRNA:   3'- -CCGGGACGAGUUCG-------------GGaugUGCCCca -5'
24406 5' -59.9 NC_005264.1 + 42893 0.67 0.683972
Target:  5'- aGCCCU-CUCcgaccuuccccccgcGGCCCgcgACACGGGGc -3'
miRNA:   3'- cCGGGAcGAGu--------------UCGGGa--UGUGCCCCa -5'
24406 5' -59.9 NC_005264.1 + 81627 0.67 0.682984
Target:  5'- cGGCCgaUGCUCAuauGCCU--CGCGGuGGUg -3'
miRNA:   3'- -CCGGg-ACGAGUu--CGGGauGUGCC-CCA- -5'
24406 5' -59.9 NC_005264.1 + 110817 0.67 0.682984
Target:  5'- gGGCCUagcGUUCGGGUCUga-GCGGGGUc -3'
miRNA:   3'- -CCGGGa--CGAGUUCGGGaugUGCCCCA- -5'
24406 5' -59.9 NC_005264.1 + 143629 0.67 0.682984
Target:  5'- cGGCCCUGCU----CCCUGCACaccauGGGc -3'
miRNA:   3'- -CCGGGACGAguucGGGAUGUGc----CCCa -5'
24406 5' -59.9 NC_005264.1 + 18414 0.67 0.673088
Target:  5'- cGGCCg-GCgcaggCGcGCCCUcucgcucgGCGCGGGGUc -3'
miRNA:   3'- -CCGGgaCGa----GUuCGGGA--------UGUGCCCCA- -5'
24406 5' -59.9 NC_005264.1 + 109959 0.67 0.670112
Target:  5'- cGGCCCUGCUgauggcagguaccgCGAGCCUgcccGCuCGGGu- -3'
miRNA:   3'- -CCGGGACGA--------------GUUCGGGa---UGuGCCCca -5'
24406 5' -59.9 NC_005264.1 + 119928 0.68 0.623285
Target:  5'- cGGCCCcGUgucgCGGGCC--GCugGGGGg -3'
miRNA:   3'- -CCGGGaCGa---GUUCGGgaUGugCCCCa -5'
24406 5' -59.9 NC_005264.1 + 902 0.68 0.623285
Target:  5'- cGGCCCcGUgucgCGGGCC--GCugGGGGg -3'
miRNA:   3'- -CCGGGaCGa---GUUCGGgaUGugCCCCa -5'
24406 5' -59.9 NC_005264.1 + 153330 0.69 0.573632
Target:  5'- aGGCCagUGUUCGuguGCuCCUuCACGGGGg -3'
miRNA:   3'- -CCGGg-ACGAGUu--CG-GGAuGUGCCCCa -5'
24406 5' -59.9 NC_005264.1 + 147985 0.69 0.563795
Target:  5'- uGGCCCUGg-CAAGCCuCUGCACGa--- -3'
miRNA:   3'- -CCGGGACgaGUUCGG-GAUGUGCccca -5'
24406 5' -59.9 NC_005264.1 + 67029 0.69 0.554002
Target:  5'- cGGCCUUGCgCAGGCCCccgACguaagGCGGcGGa -3'
miRNA:   3'- -CCGGGACGaGUUCGGGa--UG-----UGCC-CCa -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.