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
12784 5' -57.5 NC_003387.1 + 1721 0.7 0.389231
Target:  5'- gCGGGCCGgGCGGCgCAUC-CCggugCUGAu -3'
miRNA:   3'- aGCUUGGUgCGCCG-GUAGaGGa---GGCU- -5'
12784 5' -57.5 NC_003387.1 + 2466 0.68 0.493995
Target:  5'- cUCGGuGCgCACGuCGGCCAcCUCCucgaUCCGGu -3'
miRNA:   3'- -AGCU-UG-GUGC-GCCGGUaGAGG----AGGCU- -5'
12784 5' -57.5 NC_003387.1 + 3489 0.68 0.504172
Target:  5'- gUCGAgcaGCCGCuCGGCCGcCUCgaCCGGc -3'
miRNA:   3'- -AGCU---UGGUGcGCCGGUaGAGgaGGCU- -5'
12784 5' -57.5 NC_003387.1 + 4033 0.72 0.292847
Target:  5'- -aGAACCGCGUGGCgGcCUCCuggggcgacgauUCCGAg -3'
miRNA:   3'- agCUUGGUGCGCCGgUaGAGG------------AGGCU- -5'
12784 5' -57.5 NC_003387.1 + 7078 0.68 0.460131
Target:  5'- uUCGGcGCCAgGCGGCCgAUCUUCgccucgccguacgCCGAc -3'
miRNA:   3'- -AGCU-UGGUgCGCCGG-UAGAGGa------------GGCU- -5'
12784 5' -57.5 NC_003387.1 + 7131 0.7 0.34666
Target:  5'- gUCGAucaGCCACGCgaGGCCcggCUCCUCgGc -3'
miRNA:   3'- -AGCU---UGGUGCG--CCGGua-GAGGAGgCu -5'
12784 5' -57.5 NC_003387.1 + 11394 0.69 0.444626
Target:  5'- aUCGGcGCCACGCuGGCCGcgaUCggCC-CCGAg -3'
miRNA:   3'- -AGCU-UGGUGCG-CCGGU---AGa-GGaGGCU- -5'
12784 5' -57.5 NC_003387.1 + 14813 0.7 0.34666
Target:  5'- cCGAGCCACGCGGgCAgcgggUCgcCCUCgGGg -3'
miRNA:   3'- aGCUUGGUGCGCCgGU-----AGa-GGAGgCU- -5'
12784 5' -57.5 NC_003387.1 + 15059 0.69 0.435086
Target:  5'- aCGAugCACucauGCGGCUAgCUCCUCgaCGAg -3'
miRNA:   3'- aGCUugGUG----CGCCGGUaGAGGAG--GCU- -5'
12784 5' -57.5 NC_003387.1 + 18324 0.69 0.407193
Target:  5'- cCGGcaACgGCGUGGCCGUCgugCCcgCCGGu -3'
miRNA:   3'- aGCU--UGgUGCGCCGGUAGa--GGa-GGCU- -5'
12784 5' -57.5 NC_003387.1 + 23302 0.75 0.175109
Target:  5'- gCGGGCCGCuGCGGCgGcCUCCUCCu- -3'
miRNA:   3'- aGCUUGGUG-CGCCGgUaGAGGAGGcu -5'
12784 5' -57.5 NC_003387.1 + 23927 0.67 0.545719
Target:  5'- gUCGAGCUGCcCGGCUggCUCgaCCGGg -3'
miRNA:   3'- -AGCUUGGUGcGCCGGuaGAGgaGGCU- -5'
12784 5' -57.5 NC_003387.1 + 24503 0.69 0.425664
Target:  5'- gUCGAGCCGuCGCGGCUgcgCUUg-CCGAg -3'
miRNA:   3'- -AGCUUGGU-GCGCCGGua-GAGgaGGCU- -5'
12784 5' -57.5 NC_003387.1 + 24677 0.67 0.545719
Target:  5'- gCGAGCCACuuGGUCGUCagCUcgCCGAg -3'
miRNA:   3'- aGCUUGGUGcgCCGGUAGagGA--GGCU- -5'
12784 5' -57.5 NC_003387.1 + 25438 0.7 0.389231
Target:  5'- -aGGGCCGCcaguGCGGCguUCUCCUCgCGc -3'
miRNA:   3'- agCUUGGUG----CGCCGguAGAGGAG-GCu -5'
12784 5' -57.5 NC_003387.1 + 25488 0.66 0.60984
Target:  5'- cUCG-ACCGCGCGuGUCAgCUCggCCGGg -3'
miRNA:   3'- -AGCuUGGUGCGC-CGGUaGAGgaGGCU- -5'
12784 5' -57.5 NC_003387.1 + 29163 0.68 0.504172
Target:  5'- cCG-ACCGaGCGGCCGUCguucgaUUCCGAg -3'
miRNA:   3'- aGCuUGGUgCGCCGGUAGag----GAGGCU- -5'
12784 5' -57.5 NC_003387.1 + 29436 0.71 0.338556
Target:  5'- gCGGcCCGCGCGGUCGcuaUCCUCgCGAu -3'
miRNA:   3'- aGCUuGGUGCGCCGGUag-AGGAG-GCU- -5'
12784 5' -57.5 NC_003387.1 + 31523 0.69 0.404465
Target:  5'- cUGuuCCACGCGGCCAgcacggcgugcaccUgCUCCUCgGAa -3'
miRNA:   3'- aGCuuGGUGCGCCGGU--------------A-GAGGAGgCU- -5'
12784 5' -57.5 NC_003387.1 + 32251 0.66 0.588304
Target:  5'- cCG-ACCGCcUGGCCGUCgCCgaggCCGAc -3'
miRNA:   3'- aGCuUGGUGcGCCGGUAGaGGa---GGCU- -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.