miRNA display CGI


Results 1 - 20 of 29 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
31740 3' -61 NC_006938.1 + 17769 0.66 0.464772
Target:  5'- gUGgCACGGGCCucGGCCUuguugccggcgaaucGUGUCUUg -3'
miRNA:   3'- -ACgGUGCCCGGcuUCGGG---------------UACAGGGu -5'
31740 3' -61 NC_006938.1 + 59520 0.66 0.460934
Target:  5'- aUGCCAgccucgucCGGGCC-AGGCUCAcaacUGUUCCu -3'
miRNA:   3'- -ACGGU--------GCCCGGcUUCGGGU----ACAGGGu -5'
31740 3' -61 NC_006938.1 + 56804 0.66 0.460934
Target:  5'- aUGUCAUGGaaGCCcuGGCCCAUcgcaaagagcucGUCCCGa -3'
miRNA:   3'- -ACGGUGCC--CGGcuUCGGGUA------------CAGGGU- -5'
31740 3' -61 NC_006938.1 + 26523 0.66 0.460934
Target:  5'- gUGaCAgGGGCCGGG--UCAUGUCCCGc -3'
miRNA:   3'- -ACgGUgCCCGGCUUcgGGUACAGGGU- -5'
31740 3' -61 NC_006938.1 + 10897 0.66 0.451412
Target:  5'- -cCCACGGGUCuGGGCCCA-GUCgCu -3'
miRNA:   3'- acGGUGCCCGGcUUCGGGUaCAGgGu -5'
31740 3' -61 NC_006938.1 + 31427 0.66 0.451412
Target:  5'- cUGCgAgcCGGGCaggGGAGCCCAg--CCCAc -3'
miRNA:   3'- -ACGgU--GCCCGg--CUUCGGGUacaGGGU- -5'
31740 3' -61 NC_006938.1 + 24474 0.66 0.451412
Target:  5'- aUGgCACcgGGGCCGAAGagCCAgGUCUCGu -3'
miRNA:   3'- -ACgGUG--CCCGGCUUCg-GGUaCAGGGU- -5'
31740 3' -61 NC_006938.1 + 59639 0.66 0.448576
Target:  5'- cGCCgaaguaggucuugaACGaGGCCcacgacgcGAAGCCCcgGUCCUu -3'
miRNA:   3'- aCGG--------------UGC-CCGG--------CUUCGGGuaCAGGGu -5'
31740 3' -61 NC_006938.1 + 42799 0.66 0.414444
Target:  5'- aGCCucuUGGGCgCGAAGUUCAccuUGUCCg- -3'
miRNA:   3'- aCGGu--GCCCG-GCUUCGGGU---ACAGGgu -5'
31740 3' -61 NC_006938.1 + 32591 0.66 0.413543
Target:  5'- gUGCCacgaccaacccguACGGGCCGggGCacaaCGUggucaaGUUCCAc -3'
miRNA:   3'- -ACGG-------------UGCCCGGCuuCGg---GUA------CAGGGU- -5'
31740 3' -61 NC_006938.1 + 36640 0.67 0.39667
Target:  5'- gGUCACGGGCCGc-GCCg--GUCCa- -3'
miRNA:   3'- aCGGUGCCCGGCuuCGGguaCAGGgu -5'
31740 3' -61 NC_006938.1 + 54143 0.67 0.39667
Target:  5'- --aCAgGGuGCCGGgcucGGCCCA-GUCCCAc -3'
miRNA:   3'- acgGUgCC-CGGCU----UCGGGUaCAGGGU- -5'
31740 3' -61 NC_006938.1 + 8893 0.67 0.38797
Target:  5'- aUGCCAgCGGGCCGcguccAGGCcgCCAUGggaUCCAc -3'
miRNA:   3'- -ACGGU-GCCCGGC-----UUCG--GGUACa--GGGU- -5'
31740 3' -61 NC_006938.1 + 34566 0.67 0.379395
Target:  5'- gGCCA-GGGUCGGAGCgaAUG-CCCGg -3'
miRNA:   3'- aCGGUgCCCGGCUUCGggUACaGGGU- -5'
31740 3' -61 NC_006938.1 + 17400 0.67 0.370949
Target:  5'- -uCCAgGGGCUGcGAGCCgAaGUCCCGu -3'
miRNA:   3'- acGGUgCCCGGC-UUCGGgUaCAGGGU- -5'
31740 3' -61 NC_006938.1 + 26494 0.67 0.362632
Target:  5'- -cUCACGcuGCCGggGCCUcugGUCCCAc -3'
miRNA:   3'- acGGUGCc-CGGCuuCGGGua-CAGGGU- -5'
31740 3' -61 NC_006938.1 + 34397 0.68 0.339252
Target:  5'- gGCCAgCGGuggcauaugacucgGCCGAGGCCCcucuugugcagaucgAUGUCCUc -3'
miRNA:   3'- aCGGU-GCC--------------CGGCUUCGGG---------------UACAGGGu -5'
31740 3' -61 NC_006938.1 + 1430 0.68 0.330675
Target:  5'- cGCCACGGGCCGGGuGCaCUAccUGcCaCCGc -3'
miRNA:   3'- aCGGUGCCCGGCUU-CG-GGU--ACaG-GGU- -5'
31740 3' -61 NC_006938.1 + 11140 0.68 0.330675
Target:  5'- cUGUCACGGGCCGGuuguugccaccGCCC-UGgcCCCGu -3'
miRNA:   3'- -ACGGUGCCCGGCUu----------CGGGuACa-GGGU- -5'
31740 3' -61 NC_006938.1 + 7659 0.68 0.320745
Target:  5'- gGCCACGGuguccgggcaccugGCCGGAGCCCucg-CUCGc -3'
miRNA:   3'- aCGGUGCC--------------CGGCUUCGGGuacaGGGU- -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.