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
31065 5' -58.3 NC_006560.1 + 127697 0.66 0.852886
Target:  5'- ---aCGUCGCGgugcgugaCgGUGGUCCGCG-Cg -3'
miRNA:   3'- agagGUAGCGCa-------GgCACCAGGCGCaG- -5'
31065 5' -58.3 NC_006560.1 + 143563 0.66 0.852886
Target:  5'- cCUCCAgacagCGCGaCCGgggagggggGGUUCGCGa- -3'
miRNA:   3'- aGAGGUa----GCGCaGGCa--------CCAGGCGCag -5'
31065 5' -58.3 NC_006560.1 + 48442 0.66 0.852886
Target:  5'- gCUCCcggCGCGUCgGgagGGgcugcCCGCGUa -3'
miRNA:   3'- aGAGGua-GCGCAGgCa--CCa----GGCGCAg -5'
31065 5' -58.3 NC_006560.1 + 58917 0.66 0.835583
Target:  5'- gCUCCGUCGCGcCCGacgccgacucggGGUCCuCGa- -3'
miRNA:   3'- aGAGGUAGCGCaGGCa-----------CCAGGcGCag -5'
31065 5' -58.3 NC_006560.1 + 11748 0.66 0.829075
Target:  5'- --cCCGcagcggCGCGUCCG-GGUCgcaucgCGCGUCg -3'
miRNA:   3'- agaGGUa-----GCGCAGGCaCCAG------GCGCAG- -5'
31065 5' -58.3 NC_006560.1 + 107521 0.66 0.820787
Target:  5'- --gCCcUCGCGggCC-UGGcCCGCGUCg -3'
miRNA:   3'- agaGGuAGCGCa-GGcACCaGGCGCAG- -5'
31065 5' -58.3 NC_006560.1 + 4905 0.66 0.811482
Target:  5'- ---gCGUCGCGcucggggUCCG-GGUCCGgGUCc -3'
miRNA:   3'- agagGUAGCGC-------AGGCaCCAGGCgCAG- -5'
31065 5' -58.3 NC_006560.1 + 48863 0.67 0.803728
Target:  5'- --gCCAUCaGCGUCCGgggGGcgcccgucUCCGCGg- -3'
miRNA:   3'- agaGGUAG-CGCAGGCa--CC--------AGGCGCag -5'
31065 5' -58.3 NC_006560.1 + 23747 0.67 0.803728
Target:  5'- gUCgccgCCGUgCGCG-CCGUGGgCCuCGUCg -3'
miRNA:   3'- -AGa---GGUA-GCGCaGGCACCaGGcGCAG- -5'
31065 5' -58.3 NC_006560.1 + 34138 0.67 0.794973
Target:  5'- cCUCCccgGUCGCG-CUGUcuggaggggaggGGUCCGCGa- -3'
miRNA:   3'- aGAGG---UAGCGCaGGCA------------CCAGGCGCag -5'
31065 5' -58.3 NC_006560.1 + 20006 0.67 0.78518
Target:  5'- gCUCCA-CuCGUCCGggUGGUgccccuccgaggcCCGCGUCg -3'
miRNA:   3'- aGAGGUaGcGCAGGC--ACCA-------------GGCGCAG- -5'
31065 5' -58.3 NC_006560.1 + 78324 0.68 0.749257
Target:  5'- cUCgggCCAgCGCGUgC-UGGUCCGCGg- -3'
miRNA:   3'- -AGa--GGUaGCGCAgGcACCAGGCGCag -5'
31065 5' -58.3 NC_006560.1 + 147964 0.68 0.739786
Target:  5'- gCUCgCAgagcUCgGCGUCCGU-GUCgGCGUCg -3'
miRNA:   3'- aGAG-GU----AG-CGCAGGCAcCAGgCGCAG- -5'
31065 5' -58.3 NC_006560.1 + 42671 0.68 0.731184
Target:  5'- --gCCAUgGCGaUCCGguacacgggcagcggGGUCUGCGUCc -3'
miRNA:   3'- agaGGUAgCGC-AGGCa--------------CCAGGCGCAG- -5'
31065 5' -58.3 NC_006560.1 + 30583 0.68 0.730224
Target:  5'- --gCC-UCGCG-CCGcGGcCCGCGUCg -3'
miRNA:   3'- agaGGuAGCGCaGGCaCCaGGCGCAG- -5'
31065 5' -58.3 NC_006560.1 + 47436 0.68 0.730224
Target:  5'- cUUCUG-CGCGgCCGUGGgCCGCGUg -3'
miRNA:   3'- aGAGGUaGCGCaGGCACCaGGCGCAg -5'
31065 5' -58.3 NC_006560.1 + 28384 0.68 0.720582
Target:  5'- gUCUCCggCcCG-CCGuUGGUCCGCGg- -3'
miRNA:   3'- -AGAGGuaGcGCaGGC-ACCAGGCGCag -5'
31065 5' -58.3 NC_006560.1 + 48646 0.68 0.70109
Target:  5'- gCUCCG-CGCGUCCGUcgcggagcGGUacuaCCGCGa- -3'
miRNA:   3'- aGAGGUaGCGCAGGCA--------CCA----GGCGCag -5'
31065 5' -58.3 NC_006560.1 + 9855 0.69 0.651534
Target:  5'- cCUCCAUggcgGCGUCCGUGGggcaCCGgGg- -3'
miRNA:   3'- aGAGGUAg---CGCAGGCACCa---GGCgCag -5'
31065 5' -58.3 NC_006560.1 + 146926 0.7 0.631553
Target:  5'- aCUCCGggccUGCGUCUGggccugGGcCUGCGUCa -3'
miRNA:   3'- aGAGGUa---GCGCAGGCa-----CCaGGCGCAG- -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.