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
23364 5' -54.2 NC_005259.1 + 8371 0.66 0.801151
Target:  5'- -cGGCGGCGGC-CucGGCAUcgGCg- -3'
miRNA:   3'- caCCGUCGCUGuGuuCCGUGuaUGga -5'
23364 5' -54.2 NC_005259.1 + 41687 0.66 0.791373
Target:  5'- cGUGGCcaccGCGcACAC-AGGCaugcagccgccGCAUACCg -3'
miRNA:   3'- -CACCGu---CGC-UGUGuUCCG-----------UGUAUGGa -5'
23364 5' -54.2 NC_005259.1 + 55107 0.66 0.791373
Target:  5'- aUGGCGGCGAaaaauGCAccGGCugcCGUGCCg -3'
miRNA:   3'- cACCGUCGCUg----UGUu-CCGu--GUAUGGa -5'
23364 5' -54.2 NC_005259.1 + 51758 0.66 0.791373
Target:  5'- -cGGCAGCGuuGCGCucGGCGagcGCCUu -3'
miRNA:   3'- caCCGUCGC--UGUGuuCCGUguaUGGA- -5'
23364 5' -54.2 NC_005259.1 + 23133 0.66 0.781427
Target:  5'- -cGGCAGCGAUgugACGuGGUGCGagACCa -3'
miRNA:   3'- caCCGUCGCUG---UGUuCCGUGUa-UGGa -5'
23364 5' -54.2 NC_005259.1 + 63832 0.66 0.771323
Target:  5'- -cGcGCAGCGuuuCGAGGCaagcGCGUACCg -3'
miRNA:   3'- caC-CGUCGCuguGUUCCG----UGUAUGGa -5'
23364 5' -54.2 NC_005259.1 + 60344 0.66 0.771323
Target:  5'- -aGGCGGCGAUcagguCGAGGC-CcUGCCc -3'
miRNA:   3'- caCCGUCGCUGu----GUUCCGuGuAUGGa -5'
23364 5' -54.2 NC_005259.1 + 51364 0.66 0.761074
Target:  5'- gGUGGCAcCGGCACAccGCGCGUguaguggacGCCc -3'
miRNA:   3'- -CACCGUcGCUGUGUucCGUGUA---------UGGa -5'
23364 5' -54.2 NC_005259.1 + 63737 0.67 0.750689
Target:  5'- -cGGUAGCGACAUcucggcGGGCACGaACa- -3'
miRNA:   3'- caCCGUCGCUGUGu-----UCCGUGUaUGga -5'
23364 5' -54.2 NC_005259.1 + 54200 0.67 0.740183
Target:  5'- -aGGCGGCGGCcCuugacGGGCugGaUACCg -3'
miRNA:   3'- caCCGUCGCUGuGu----UCCGugU-AUGGa -5'
23364 5' -54.2 NC_005259.1 + 48453 0.67 0.740183
Target:  5'- -cGGCAGCGcguuccaccgcGCGCcGGGuCGCGUcgGCCUg -3'
miRNA:   3'- caCCGUCGC-----------UGUGuUCC-GUGUA--UGGA- -5'
23364 5' -54.2 NC_005259.1 + 58410 0.67 0.729565
Target:  5'- -cGGCGGCGAucagagaucCACcGGGCAgAUugCg -3'
miRNA:   3'- caCCGUCGCU---------GUGuUCCGUgUAugGa -5'
23364 5' -54.2 NC_005259.1 + 52160 0.67 0.729565
Target:  5'- -aGGCAGCG-C-CGAGGCGCucAUGCa- -3'
miRNA:   3'- caCCGUCGCuGuGUUCCGUG--UAUGga -5'
23364 5' -54.2 NC_005259.1 + 43922 0.68 0.664188
Target:  5'- -gGGCAGCGACgACAccGCGC-UACUg -3'
miRNA:   3'- caCCGUCGCUG-UGUucCGUGuAUGGa -5'
23364 5' -54.2 NC_005259.1 + 18795 0.69 0.635374
Target:  5'- gGUGGCAGgGACGCcgcacccucaagaccAAGGUGCuGUAUCUg -3'
miRNA:   3'- -CACCGUCgCUGUG---------------UUCCGUG-UAUGGA- -5'
23364 5' -54.2 NC_005259.1 + 28339 0.69 0.59769
Target:  5'- uUGGCGGCGAaauCGAGGcCACgGUGCUg -3'
miRNA:   3'- cACCGUCGCUgu-GUUCC-GUG-UAUGGa -5'
23364 5' -54.2 NC_005259.1 + 6698 0.69 0.585554
Target:  5'- aGUGGC-GCGACACGaucaaccggcagcAGGCACucauCCg -3'
miRNA:   3'- -CACCGuCGCUGUGU-------------UCCGUGuau-GGa -5'
23364 5' -54.2 NC_005259.1 + 14089 0.7 0.564711
Target:  5'- cGUGcGCAGCGAgGuCGAGGgugcggaaaCGCAUGCCa -3'
miRNA:   3'- -CAC-CGUCGCUgU-GUUCC---------GUGUAUGGa -5'
23364 5' -54.2 NC_005259.1 + 53522 0.72 0.439609
Target:  5'- cGUGGcCAGCGGCACG-GGCucgGUGCCc -3'
miRNA:   3'- -CACC-GUCGCUGUGUuCCGug-UAUGGa -5'
23364 5' -54.2 NC_005259.1 + 25608 0.75 0.315876
Target:  5'- -gGGCAGCGAggaugACAAGGCGCucUACCa -3'
miRNA:   3'- caCCGUCGCUg----UGUUCCGUGu-AUGGa -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.