miRNA display CGI


Results 1 - 20 of 22 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
12120 5' -53.9 NC_003309.1 + 3153 0.66 0.815469
Target:  5'- cUUGgUCCuuGAGCGCC-GGGGCAUCcuucgGCCg -3'
miRNA:   3'- -AGCgAGG--CUUGUGGaCUCUGUAG-----CGG- -5'
12120 5' -53.9 NC_003309.1 + 43747 0.66 0.815469
Target:  5'- cCGC-CCGAugagGCAU---AGGCAUCGCCc -3'
miRNA:   3'- aGCGaGGCU----UGUGgacUCUGUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 5563 0.66 0.796347
Target:  5'- uUCGCgcgcgCCGAucGCGgCgGuGAgGUCGCCg -3'
miRNA:   3'- -AGCGa----GGCU--UGUgGaCuCUgUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 8507 0.66 0.796347
Target:  5'- cCGCUCacacGCACgCUGu-ACGUCGCCg -3'
miRNA:   3'- aGCGAGgcu-UGUG-GACucUGUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 48235 0.66 0.776533
Target:  5'- cUCGCucgaucgagccgUCCGAGCGCCgcuGACG-CGCg -3'
miRNA:   3'- -AGCG------------AGGCUUGUGGacuCUGUaGCGg -5'
12120 5' -53.9 NC_003309.1 + 10951 0.67 0.756116
Target:  5'- aCGCg-CGAGCGCCgucUGcGcCGUCGCCg -3'
miRNA:   3'- aGCGagGCUUGUGG---ACuCuGUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 30546 0.67 0.74571
Target:  5'- aUCGUaguaugaaCGAACGCCUGAuGACAcCgGCCg -3'
miRNA:   3'- -AGCGag------GCUUGUGGACU-CUGUaG-CGG- -5'
12120 5' -53.9 NC_003309.1 + 1876 0.67 0.744662
Target:  5'- cCGUUUCGAGCAaacagcCCUGAuugacccacgccuGAUAUCGCUc -3'
miRNA:   3'- aGCGAGGCUUGU------GGACU-------------CUGUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 33011 0.67 0.735187
Target:  5'- aUCGUUCCG-ACACUUGccGCAUcCGCa -3'
miRNA:   3'- -AGCGAGGCuUGUGGACucUGUA-GCGg -5'
12120 5' -53.9 NC_003309.1 + 30157 0.67 0.735187
Target:  5'- aCGCgaacgUCCGGACGgCgcagGGGAUAUgCGCCc -3'
miRNA:   3'- aGCG-----AGGCUUGUgGa---CUCUGUA-GCGG- -5'
12120 5' -53.9 NC_003309.1 + 15152 0.67 0.72456
Target:  5'- -gGCUCC-AGCugCUG-GAUGUCuGCCg -3'
miRNA:   3'- agCGAGGcUUGugGACuCUGUAG-CGG- -5'
12120 5' -53.9 NC_003309.1 + 43212 0.67 0.72456
Target:  5'- aCGCUUCGAGCAUCcGAu-CGUCGUUg -3'
miRNA:   3'- aGCGAGGCUUGUGGaCUcuGUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 47636 0.68 0.707369
Target:  5'- gCGCUCUugugccaaucggaagGAACGuCCUGcccGGuCGUCGCCg -3'
miRNA:   3'- aGCGAGG---------------CUUGU-GGAC---UCuGUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 35057 0.68 0.70304
Target:  5'- gUCGCaccgaucccgaCCGAGCGCCUGuG-CGaCGCCg -3'
miRNA:   3'- -AGCGa----------GGCUUGUGGACuCuGUaGCGG- -5'
12120 5' -53.9 NC_003309.1 + 15414 0.68 0.701956
Target:  5'- gCGC-CgGAACACCUucgcgccGAcGAgAUCGCCa -3'
miRNA:   3'- aGCGaGgCUUGUGGA-------CU-CUgUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 5267 0.69 0.648213
Target:  5'- cUCGCUCgacagguucuCGGGCACCa-GGACGcCGCCa -3'
miRNA:   3'- -AGCGAG----------GCUUGUGGacUCUGUaGCGG- -5'
12120 5' -53.9 NC_003309.1 + 14204 0.69 0.593001
Target:  5'- gUCGUUCUGAGcCGCCgcgaAGAgAUCGCUa -3'
miRNA:   3'- -AGCGAGGCUU-GUGGac--UCUgUAGCGG- -5'
12120 5' -53.9 NC_003309.1 + 20541 0.69 0.593001
Target:  5'- gUCGUUCCGucgaGCaUGAGGCG-CGCCg -3'
miRNA:   3'- -AGCGAGGCuug-UGgACUCUGUaGCGG- -5'
12120 5' -53.9 NC_003309.1 + 20177 0.7 0.549369
Target:  5'- uUCGCcgacaCGAGCACCUGcgauucGACGaCGCCg -3'
miRNA:   3'- -AGCGag---GCUUGUGGACu-----CUGUaGCGG- -5'
12120 5' -53.9 NC_003309.1 + 6252 0.72 0.465666
Target:  5'- cUCGUcgUCGAAC-CCUGcGAUGUCGCCu -3'
miRNA:   3'- -AGCGa-GGCUUGuGGACuCUGUAGCGG- -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.