miRNA display CGI


Results 1 - 19 of 19 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
7205 3' -55.2 NC_001900.1 + 39898 0.66 0.644538
Target:  5'- gUGCAGCAGCGGuGuCGugUCGGcuucaucaGCGc -3'
miRNA:   3'- -AUGUCGUCGCCuC-GUugAGCUa-------CGCa -5'
7205 3' -55.2 NC_001900.1 + 14285 0.66 0.641145
Target:  5'- aGCAGUacagguucgaggacGGCGGuGCGcugaccgguCUCGAUGCGa -3'
miRNA:   3'- aUGUCG--------------UCGCCuCGUu--------GAGCUACGCa -5'
7205 3' -55.2 NC_001900.1 + 42352 0.66 0.633224
Target:  5'- gGCcGCAGCGGGGUAguuGC-CGAUGgGc -3'
miRNA:   3'- aUGuCGUCGCCUCGU---UGaGCUACgCa -5'
7205 3' -55.2 NC_001900.1 + 21165 0.66 0.621909
Target:  5'- cACGGCAGCGGcccAGCGA-UCGGacUGUGa -3'
miRNA:   3'- aUGUCGUCGCC---UCGUUgAGCU--ACGCa -5'
7205 3' -55.2 NC_001900.1 + 8922 0.66 0.610603
Target:  5'- cGCGGCAGCGGucCuGCUgGAcGCGg -3'
miRNA:   3'- aUGUCGUCGCCucGuUGAgCUaCGCa -5'
7205 3' -55.2 NC_001900.1 + 39161 0.67 0.599316
Target:  5'- cGCAgGUAGUcgaucgcucgcuGGAGCAuCUCGAUGCa- -3'
miRNA:   3'- aUGU-CGUCG------------CCUCGUuGAGCUACGca -5'
7205 3' -55.2 NC_001900.1 + 41775 0.67 0.599316
Target:  5'- -cCGGCGGCGaGGGCGAUggcugCGGUGgCGa -3'
miRNA:   3'- auGUCGUCGC-CUCGUUGa----GCUAC-GCa -5'
7205 3' -55.2 NC_001900.1 + 40508 0.67 0.565674
Target:  5'- -cCGGUccAGCGGAGcCAGCUCGAaGCc- -3'
miRNA:   3'- auGUCG--UCGCCUC-GUUGAGCUaCGca -5'
7205 3' -55.2 NC_001900.1 + 19317 0.67 0.554561
Target:  5'- cUACGGCGGUGGGGCcAACaCGGUGg-- -3'
miRNA:   3'- -AUGUCGUCGCCUCG-UUGaGCUACgca -5'
7205 3' -55.2 NC_001900.1 + 5923 0.67 0.554561
Target:  5'- -uCAGCucaGGCGGcacccgagcGCAGCUCGAUGCu- -3'
miRNA:   3'- auGUCG---UCGCCu--------CGUUGAGCUACGca -5'
7205 3' -55.2 NC_001900.1 + 48277 0.67 0.543514
Target:  5'- aGCAcGCGGUugGGAGCAcCUCGAucccuUGCGa -3'
miRNA:   3'- aUGU-CGUCG--CCUCGUuGAGCU-----ACGCa -5'
7205 3' -55.2 NC_001900.1 + 45884 0.69 0.43816
Target:  5'- -cCGGCGGgGGAGCAG-UCGGUaGCGg -3'
miRNA:   3'- auGUCGUCgCCUCGUUgAGCUA-CGCa -5'
7205 3' -55.2 NC_001900.1 + 1173 0.69 0.428261
Target:  5'- gGCGGCGGUGGAGCcgccggaagcGGC-CGggGCGg -3'
miRNA:   3'- aUGUCGUCGCCUCG----------UUGaGCuaCGCa -5'
7205 3' -55.2 NC_001900.1 + 32889 0.71 0.371769
Target:  5'- gUACuGC-GCGGGGCAcuGCUCGuUGCGa -3'
miRNA:   3'- -AUGuCGuCGCCUCGU--UGAGCuACGCa -5'
7205 3' -55.2 NC_001900.1 + 33608 0.71 0.369081
Target:  5'- gGCAGU-GCGGcaaggucaucgaucGGCAGCUCGAUcGCGUc -3'
miRNA:   3'- aUGUCGuCGCC--------------UCGUUGAGCUA-CGCA- -5'
7205 3' -55.2 NC_001900.1 + 34361 0.71 0.328726
Target:  5'- -cCGGCAGCGaGuGCAGCuUCGggGCGUu -3'
miRNA:   3'- auGUCGUCGC-CuCGUUG-AGCuaCGCA- -5'
7205 3' -55.2 NC_001900.1 + 1251 0.72 0.320571
Target:  5'- gGCGGCAGCGGAGCuGGCggCGGguucgGUGg -3'
miRNA:   3'- aUGUCGUCGCCUCG-UUGa-GCUa----CGCa -5'
7205 3' -55.2 NC_001900.1 + 40725 0.76 0.178353
Target:  5'- aACAGCcccucGCGGAGCuuCUCGAUGCc- -3'
miRNA:   3'- aUGUCGu----CGCCUCGuuGAGCUACGca -5'
7205 3' -55.2 NC_001900.1 + 21330 1.06 0.001118
Target:  5'- cUACAGCAGCGGAGCAACUCGAUGCGUg -3'
miRNA:   3'- -AUGUCGUCGCCUCGUUGAGCUACGCA- -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.