miRNA display CGI


Results 1 - 20 of 69 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
24674 3' -57.9 NC_005264.1 + 983 0.68 0.722025
Target:  5'- --gGCGGCAGGuGGGcCUCCcccuCGCGGAc -3'
miRNA:   3'- ugaUGCCGUCU-CCUuGAGGc---GCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 2867 0.66 0.854712
Target:  5'- cGCUGCGGCugcGAucgaccGGGGCgCgGCGCGGc -3'
miRNA:   3'- -UGAUGCCGu--CU------CCUUGaGgCGCGCCu -5'
24674 3' -57.9 NC_005264.1 + 3380 0.67 0.796709
Target:  5'- --gGCGGC-GAGGGcuuCUCCGgaaCGCGGGg -3'
miRNA:   3'- ugaUGCCGuCUCCUu--GAGGC---GCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 3415 0.68 0.750831
Target:  5'- --cGCGGgGGAGGGACguagggCCGCGCc-- -3'
miRNA:   3'- ugaUGCCgUCUCCUUGa-----GGCGCGccu -5'
24674 3' -57.9 NC_005264.1 + 3797 0.71 0.572428
Target:  5'- aACUggGCGGUuguugcgaGGAGGuGCUCCcugcGCGCGGAg -3'
miRNA:   3'- -UGA--UGCCG--------UCUCCuUGAGG----CGCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 3948 0.68 0.750831
Target:  5'- --aAgGGUAGAGGAACguccuggCCGCGcCGGc -3'
miRNA:   3'- ugaUgCCGUCUCCUUGa------GGCGC-GCCu -5'
24674 3' -57.9 NC_005264.1 + 6539 0.68 0.760242
Target:  5'- --gGCGGCAG-GGGGCUUCG-GCaGGAg -3'
miRNA:   3'- ugaUGCCGUCuCCUUGAGGCgCG-CCU- -5'
24674 3' -57.9 NC_005264.1 + 13085 0.67 0.777816
Target:  5'- cCUugGGCuccGAGG-AUUCCgaacggaGCGCGGAc -3'
miRNA:   3'- uGAugCCGu--CUCCuUGAGG-------CGCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 13289 0.7 0.629488
Target:  5'- aGCgagGCGGgucguggagcucccCGGAGGAcggCCGCGCGGAg -3'
miRNA:   3'- -UGa--UGCC--------------GUCUCCUugaGGCGCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 13451 0.72 0.504248
Target:  5'- --cGCGGCGGcgccgaAGGGGCUCCuGCGgGGAc -3'
miRNA:   3'- ugaUGCCGUC------UCCUUGAGG-CGCgCCU- -5'
24674 3' -57.9 NC_005264.1 + 13492 0.67 0.822583
Target:  5'- aGCU-CGGgAGAGGucGACuUCCGCGaCGGc -3'
miRNA:   3'- -UGAuGCCgUCUCC--UUG-AGGCGC-GCCu -5'
24674 3' -57.9 NC_005264.1 + 23557 0.69 0.702434
Target:  5'- cGCUACcGCGGAugGGAGCUa-GUGCGGAu -3'
miRNA:   3'- -UGAUGcCGUCU--CCUUGAggCGCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 24314 0.67 0.785084
Target:  5'- gGCUACGcGCAGAGaGAGCguuUCuucgcgagugaaauCGCGCGGc -3'
miRNA:   3'- -UGAUGC-CGUCUC-CUUG---AG--------------GCGCGCCu -5'
24674 3' -57.9 NC_005264.1 + 25627 0.68 0.769545
Target:  5'- cACgGCGGCGGuGGGgccgcGCUCCGCGUu-- -3'
miRNA:   3'- -UGaUGCCGUCuCCU-----UGAGGCGCGccu -5'
24674 3' -57.9 NC_005264.1 + 25715 0.7 0.652604
Target:  5'- gGCgcggGCGGCAGcGGugcguACUCgGuCGCGGAg -3'
miRNA:   3'- -UGa---UGCCGUCuCCu----UGAGgC-GCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 29259 0.69 0.662634
Target:  5'- gACUGCGGCGcgcagauuGuuGGACUgUGCGCGGGc -3'
miRNA:   3'- -UGAUGCCGU--------CucCUUGAgGCGCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 30425 0.78 0.247191
Target:  5'- aGCUGCGGCGGAGGAGgUCuCGggggagcCGCGGGc -3'
miRNA:   3'- -UGAUGCCGUCUCCUUgAG-GC-------GCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 33884 0.7 0.652604
Target:  5'- cGCUcgagGCGGCGGuGGAACUCCuagaagacauG-GCGGAg -3'
miRNA:   3'- -UGA----UGCCGUCuCCUUGAGG----------CgCGCCU- -5'
24674 3' -57.9 NC_005264.1 + 43838 0.7 0.612404
Target:  5'- cCUGCGGUuauaaAGAagGGGGCUgCCGCGgGGAa -3'
miRNA:   3'- uGAUGCCG-----UCU--CCUUGA-GGCGCgCCU- -5'
24674 3' -57.9 NC_005264.1 + 46579 0.7 0.642558
Target:  5'- uCUGCGGCGGGguaacGGAugUCaCG-GCGGAg -3'
miRNA:   3'- uGAUGCCGUCU-----CCUugAG-GCgCGCCU- -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.