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
31778 3' -56.1 NC_006938.1 + 27 0.67 0.675055
Target:  5'- --uGGCUcGACCaCCGUCGAcGcGGAGaguGCCa -3'
miRNA:   3'- gauCCGA-CUGG-GGCAGCU-C-CUUC---UGG- -5'
31778 3' -56.1 NC_006938.1 + 1658 0.66 0.717343
Target:  5'- -gGGGCcGACCuCCGaCGAcaaGGAcaAGGCCu -3'
miRNA:   3'- gaUCCGaCUGG-GGCaGCU---CCU--UCUGG- -5'
31778 3' -56.1 NC_006938.1 + 2181 1.12 0.000732
Target:  5'- cCUAGGCUGACCCCGUCGAGGAAGACCu -3'
miRNA:   3'- -GAUCCGACUGGGGCAGCUCCUUCUGG- -5'
31778 3' -56.1 NC_006938.1 + 2329 0.79 0.146655
Target:  5'- --cGGCggggagGACUCCGUCGAGGAcgaggucaaccAGACCa -3'
miRNA:   3'- gauCCGa-----CUGGGGCAGCUCCU-----------UCUGG- -5'
31778 3' -56.1 NC_006938.1 + 5129 0.66 0.706866
Target:  5'- --cGGCccagGACCCUGUCucuucggaGAcGGGAGACUg -3'
miRNA:   3'- gauCCGa---CUGGGGCAG--------CU-CCUUCUGG- -5'
31778 3' -56.1 NC_006938.1 + 5346 0.67 0.675055
Target:  5'- aUAGGCgaucACCUCccagacguugGUCGuGGGAGACCc -3'
miRNA:   3'- gAUCCGac--UGGGG----------CAGCuCCUUCUGG- -5'
31778 3' -56.1 NC_006938.1 + 9609 0.69 0.526021
Target:  5'- -gGGGCUGACuCCCGcuggaccuUCGAcuGGGACCu -3'
miRNA:   3'- gaUCCGACUG-GGGC--------AGCUccUUCUGG- -5'
31778 3' -56.1 NC_006938.1 + 17655 0.66 0.731875
Target:  5'- -gAGGCUccgaucagGACCUCGaaguccgccgucagCGAGGAcaGGGCCg -3'
miRNA:   3'- gaUCCGA--------CUGGGGCa-------------GCUCCU--UCUGG- -5'
31778 3' -56.1 NC_006938.1 + 17765 0.67 0.685711
Target:  5'- ---cGCUcGACUCCGUCGccGggGACUg -3'
miRNA:   3'- gaucCGA-CUGGGGCAGCucCuuCUGG- -5'
31778 3' -56.1 NC_006938.1 + 19927 0.73 0.35422
Target:  5'- --cGGCUu-CCCCGUCGgcguggaggacuccAGGGAGGCCu -3'
miRNA:   3'- gauCCGAcuGGGGCAGC--------------UCCUUCUGG- -5'
31778 3' -56.1 NC_006938.1 + 22173 0.69 0.526021
Target:  5'- -cAGGCcGACgagCCCGUCGAGGcgaACCa -3'
miRNA:   3'- gaUCCGaCUG---GGGCAGCUCCuucUGG- -5'
31778 3' -56.1 NC_006938.1 + 22793 0.66 0.727741
Target:  5'- --cGGCcuUGACaCCGUCGAGGucccgguuGGGCUg -3'
miRNA:   3'- gauCCG--ACUGgGGCAGCUCCu-------UCUGG- -5'
31778 3' -56.1 NC_006938.1 + 23084 0.68 0.589226
Target:  5'- --cGGCUGGCCCUGgUCGuccgucGGAGGAgUg -3'
miRNA:   3'- gauCCGACUGGGGC-AGCu-----CCUUCUgG- -5'
31778 3' -56.1 NC_006938.1 + 23236 0.67 0.675055
Target:  5'- aUGGGCgGACCCU-UCGAGuGGucggcGACCg -3'
miRNA:   3'- gAUCCGaCUGGGGcAGCUC-CUu----CUGG- -5'
31778 3' -56.1 NC_006938.1 + 23459 0.75 0.253975
Target:  5'- -cGGcGCUGuCCgCGUCGAGGAAGAgCu -3'
miRNA:   3'- gaUC-CGACuGGgGCAGCUCCUUCUgG- -5'
31778 3' -56.1 NC_006938.1 + 25582 0.68 0.620318
Target:  5'- cCUGGGCUucuucGCCgCCGUgucaacacucaacUGAGGAGGACa -3'
miRNA:   3'- -GAUCCGAc----UGG-GGCA-------------GCUCCUUCUGg -5'
31778 3' -56.1 NC_006938.1 + 28605 0.69 0.56794
Target:  5'- -cAGGCgaucGACCuCCGUCuGAaGGAGGCCc -3'
miRNA:   3'- gaUCCGa---CUGG-GGCAG-CUcCUUCUGG- -5'
31778 3' -56.1 NC_006938.1 + 28702 0.67 0.675055
Target:  5'- uUGGGCgUGACCaCCaccuccUCGGGGuuGGCCc -3'
miRNA:   3'- gAUCCG-ACUGG-GGc-----AGCUCCuuCUGG- -5'
31778 3' -56.1 NC_006938.1 + 30798 0.68 0.589226
Target:  5'- --cGGCUGugCCU--UGAGGAGGAUg -3'
miRNA:   3'- gauCCGACugGGGcaGCUCCUUCUGg -5'
31778 3' -56.1 NC_006938.1 + 33324 0.67 0.653638
Target:  5'- -aAGcGC--GCCggGUCGAGGAAGACCg -3'
miRNA:   3'- gaUC-CGacUGGggCAGCUCCUUCUGG- -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.