miRNA display CGI


Results 1 - 20 of 28 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
7285 5' -59.5 NC_001900.1 + 781 0.66 0.475995
Target:  5'- cGCUGcGGC-CCGuggcaugucccGCCAGAGGCUgaaAUCGg -3'
miRNA:   3'- cCGAC-UCGcGGC-----------UGGUCUCCGG---UAGC- -5'
7285 5' -59.5 NC_001900.1 + 5392 0.73 0.158809
Target:  5'- gGGUUGGuGCaGUCGGCCuggauGAGGCCGUCa -3'
miRNA:   3'- -CCGACU-CG-CGGCUGGu----CUCCGGUAGc -5'
7285 5' -59.5 NC_001900.1 + 6379 0.7 0.260461
Target:  5'- cGGCU--GCGCCGACCagguugAGAGcGCCAgCGa -3'
miRNA:   3'- -CCGAcuCGCGGCUGG------UCUC-CGGUaGC- -5'
7285 5' -59.5 NC_001900.1 + 6614 0.66 0.466127
Target:  5'- uGGCUGuAG-GCCGGuuGGAuGCCGUUGa -3'
miRNA:   3'- -CCGAC-UCgCGGCUggUCUcCGGUAGC- -5'
7285 5' -59.5 NC_001900.1 + 6692 0.66 0.455396
Target:  5'- gGGCUGGcccGUGCCGugaacggugaacaGCCAGGGcuuGCuCAUCGg -3'
miRNA:   3'- -CCGACU---CGCGGC-------------UGGUCUC---CG-GUAGC- -5'
7285 5' -59.5 NC_001900.1 + 8712 0.7 0.267065
Target:  5'- aGGCcgucgGAGacccggcaGCCGACCAGAG-CCGUCc -3'
miRNA:   3'- -CCGa----CUCg-------CGGCUGGUCUCcGGUAGc -5'
7285 5' -59.5 NC_001900.1 + 9277 1.11 0.000237
Target:  5'- aGGCUGAGCGCCGACCAGAGGCCAUCGg -3'
miRNA:   3'- -CCGACUCGCGGCUGGUCUCCGGUAGC- -5'
7285 5' -59.5 NC_001900.1 + 10159 0.68 0.356981
Target:  5'- cGCUGAcaauCCGGCCuccgcuGAGGCCAUCa -3'
miRNA:   3'- cCGACUcgc-GGCUGGu-----CUCCGGUAGc -5'
7285 5' -59.5 NC_001900.1 + 11619 0.77 0.09177
Target:  5'- gGGUcGGGuCGCCGGCCGGAGuGCCuUCGg -3'
miRNA:   3'- -CCGaCUC-GCGGCUGGUCUC-CGGuAGC- -5'
7285 5' -59.5 NC_001900.1 + 12550 0.68 0.348731
Target:  5'- gGGCUGucGGUGCCGugCAucgccGcGCCGUCGa -3'
miRNA:   3'- -CCGAC--UCGCGGCugGUcu---C-CGGUAGC- -5'
7285 5' -59.5 NC_001900.1 + 13033 0.66 0.476988
Target:  5'- gGGCUGAGCcuaacuugacauccaCCGGgaGGGGGCCGUUc -3'
miRNA:   3'- -CCGACUCGc--------------GGCUggUCUCCGGUAGc -5'
7285 5' -59.5 NC_001900.1 + 15116 0.67 0.400247
Target:  5'- cGGCUggucGAGCGUCGGCCAcaccagccGAGGCaCGcuccccgaguUCGg -3'
miRNA:   3'- -CCGA----CUCGCGGCUGGU--------CUCCG-GU----------AGC- -5'
7285 5' -59.5 NC_001900.1 + 22879 0.66 0.485966
Target:  5'- cGGCUGc-UGaCCGaACCcggAGAGGUCAUCGg -3'
miRNA:   3'- -CCGACucGC-GGC-UGG---UCUCCGGUAGC- -5'
7285 5' -59.5 NC_001900.1 + 23200 0.66 0.446716
Target:  5'- gGGCUGcgcccgucAGgGCCGACCAGAaguGGUuccaCGUCu -3'
miRNA:   3'- -CCGAC--------UCgCGGCUGGUCU---CCG----GUAGc -5'
7285 5' -59.5 NC_001900.1 + 23401 0.71 0.217911
Target:  5'- aGGCcGAGUGgaCCGACCAGGGaGCCAc-- -3'
miRNA:   3'- -CCGaCUCGC--GGCUGGUCUC-CGGUagc -5'
7285 5' -59.5 NC_001900.1 + 23883 0.72 0.196364
Target:  5'- cGCcGAuaGCCGACCGGAGcCCGUCGu -3'
miRNA:   3'- cCGaCUcgCGGCUGGUCUCcGGUAGC- -5'
7285 5' -59.5 NC_001900.1 + 27177 0.74 0.15049
Target:  5'- aGGCUGGGCGUgGGCCAcGuuGCCcgCGa -3'
miRNA:   3'- -CCGACUCGCGgCUGGU-CucCGGuaGC- -5'
7285 5' -59.5 NC_001900.1 + 27469 0.71 0.235371
Target:  5'- gGGCcGAGcCGCaCGGCCuuGAgccGGCCGUCGg -3'
miRNA:   3'- -CCGaCUC-GCG-GCUGGu-CU---CCGGUAGC- -5'
7285 5' -59.5 NC_001900.1 + 28067 0.66 0.485966
Target:  5'- cGGCgUGAucuucGUGCCcGCCGGGGGCggCGUCa -3'
miRNA:   3'- -CCG-ACU-----CGCGGcUGGUCUCCG--GUAGc -5'
7285 5' -59.5 NC_001900.1 + 30555 0.67 0.382542
Target:  5'- cGCUG-GUGcCCGACguGAgccGGCCGUUGg -3'
miRNA:   3'- cCGACuCGC-GGCUGguCU---CCGGUAGC- -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.