miRNA display CGI


Results 1 - 20 of 26 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
6888 3' -53.9 NC_001875.2 + 19132 0.66 0.921436
Target:  5'- -cGCUcGUGGGcCAAGC--GCUGgCCAg -3'
miRNA:   3'- caCGAaCACCC-GUUUGuuCGACgGGU- -5'
6888 3' -53.9 NC_001875.2 + 100256 0.66 0.915472
Target:  5'- -cGCUauugUGUGGGCGGcgcGCAaggaAGCcgccggGCCCAa -3'
miRNA:   3'- caCGA----ACACCCGUU---UGU----UCGa-----CGGGU- -5'
6888 3' -53.9 NC_001875.2 + 13071 0.66 0.914861
Target:  5'- --aCUUGUaaacgucGGGCGugAGCAGGCcGCCCAc -3'
miRNA:   3'- cacGAACA-------CCCGU--UUGUUCGaCGGGU- -5'
6888 3' -53.9 NC_001875.2 + 22618 0.66 0.896019
Target:  5'- cGUGUcucUGGGCAugcuacuuGCGAGCggUGCCCAu -3'
miRNA:   3'- -CACGaacACCCGUu-------UGUUCG--ACGGGU- -5'
6888 3' -53.9 NC_001875.2 + 47982 0.66 0.896019
Target:  5'- cGUGCgaGcgGGGCGu-CGAGCcGCCCu -3'
miRNA:   3'- -CACGaaCa-CCCGUuuGUUCGaCGGGu -5'
6888 3' -53.9 NC_001875.2 + 74653 0.66 0.896019
Target:  5'- cGUGCcaUGgccgGGGCuGGGCGAGCUGCgCu -3'
miRNA:   3'- -CACGa-ACa---CCCG-UUUGUUCGACGgGu -5'
6888 3' -53.9 NC_001875.2 + 68613 0.67 0.889023
Target:  5'- -cGUUUGUGGugacgggcgacGCGGGCGAcguaaagcugcGCUGCCCGc -3'
miRNA:   3'- caCGAACACC-----------CGUUUGUU-----------CGACGGGU- -5'
6888 3' -53.9 NC_001875.2 + 18190 0.67 0.889023
Target:  5'- gGUGCcgGcGGGCGuaGGCGugguGGUUGCCCAa -3'
miRNA:   3'- -CACGaaCaCCCGU--UUGU----UCGACGGGU- -5'
6888 3' -53.9 NC_001875.2 + 72147 0.67 0.889023
Target:  5'- -cGUU--UGGGcCAAACGAGUUGUCCGg -3'
miRNA:   3'- caCGAacACCC-GUUUGUUCGACGGGU- -5'
6888 3' -53.9 NC_001875.2 + 88688 0.67 0.889023
Target:  5'- -cGUUUGUGGGCAAccGCuuGGCggaaaGCCUg -3'
miRNA:   3'- caCGAACACCCGUU--UGu-UCGa----CGGGu -5'
6888 3' -53.9 NC_001875.2 + 100053 0.67 0.889023
Target:  5'- cUGUUUGUGGaGCuGACGGuGCUGCUgGg -3'
miRNA:   3'- cACGAACACC-CGuUUGUU-CGACGGgU- -5'
6888 3' -53.9 NC_001875.2 + 7325 0.67 0.881779
Target:  5'- -aGUUUGUGGaCGucAGCGAccuGCUGCCCGg -3'
miRNA:   3'- caCGAACACCcGU--UUGUU---CGACGGGU- -5'
6888 3' -53.9 NC_001875.2 + 68999 0.67 0.866563
Target:  5'- aGUGCcgcggGGGCAAGCAcgugguggcgcGCUGCCCc -3'
miRNA:   3'- -CACGaaca-CCCGUUUGUu----------CGACGGGu -5'
6888 3' -53.9 NC_001875.2 + 125748 0.67 0.858604
Target:  5'- aGUGUUUGUGGGCGgcuauuacggcGACAAcgaggccauGCUGCgCu -3'
miRNA:   3'- -CACGAACACCCGU-----------UUGUU---------CGACGgGu -5'
6888 3' -53.9 NC_001875.2 + 28881 0.67 0.858604
Target:  5'- -cGCUUG-GGGCGAaaacaACAAGCccgGCCg- -3'
miRNA:   3'- caCGAACaCCCGUU-----UGUUCGa--CGGgu -5'
6888 3' -53.9 NC_001875.2 + 66448 0.68 0.842017
Target:  5'- -aGCUUGUGGaGCAAAuacauguucccCAAGCcguuugcGCCCAc -3'
miRNA:   3'- caCGAACACC-CGUUU-----------GUUCGa------CGGGU- -5'
6888 3' -53.9 NC_001875.2 + 5380 0.68 0.842017
Target:  5'- cGUGUUcgGUgagacggaggaGGGCGucAACGAGCUGCUCGa -3'
miRNA:   3'- -CACGAa-CA-----------CCCGU--UUGUUCGACGGGU- -5'
6888 3' -53.9 NC_001875.2 + 78815 0.69 0.794192
Target:  5'- -cGCUUugcgcccguaguccGUGGGCAccACAGGCUGgCCGc -3'
miRNA:   3'- caCGAA--------------CACCCGUu-UGUUCGACgGGU- -5'
6888 3' -53.9 NC_001875.2 + 93750 0.69 0.758042
Target:  5'- -cGUUUGUGGGC-AACAAGCUcuuuguguacaaGCCg- -3'
miRNA:   3'- caCGAACACCCGuUUGUUCGA------------CGGgu -5'
6888 3' -53.9 NC_001875.2 + 127261 0.7 0.747962
Target:  5'- cGUGCgcaUGUcGGGCAuGC-GGCUGCUCGc -3'
miRNA:   3'- -CACGa--ACA-CCCGUuUGuUCGACGGGU- -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.