miRNA display CGI


Results 1 - 20 of 21 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
23442 5' -58.2 NC_005259.1 + 21701 0.66 0.584454
Target:  5'- uUUCGAGGACGgGUCAGAcgaccgcccuGCcGCCCc- -3'
miRNA:   3'- -AAGUUCCUGUgCGGUCU----------CGaCGGGca -5'
23442 5' -58.2 NC_005259.1 + 9524 0.66 0.583378
Target:  5'- -gCGucGAC-CGCCgccgggucaccggAGAGCUGCCCGg -3'
miRNA:   3'- aaGUucCUGuGCGG-------------UCUCGACGGGCa -5'
23442 5' -58.2 NC_005259.1 + 25940 0.66 0.55239
Target:  5'- --uGAGcGCACGCCGGuGCccgGCCCGc -3'
miRNA:   3'- aagUUCcUGUGCGGUCuCGa--CGGGCa -5'
23442 5' -58.2 NC_005259.1 + 39105 0.66 0.55239
Target:  5'- gUUGAGGugcugcaauCGCGUCAcgacaucgguGAGCUGCCCGa -3'
miRNA:   3'- aAGUUCCu--------GUGCGGU----------CUCGACGGGCa -5'
23442 5' -58.2 NC_005259.1 + 64424 0.66 0.541814
Target:  5'- gUgAGGGAU-CGCCGacGAGCUGCCgGg -3'
miRNA:   3'- aAgUUCCUGuGCGGU--CUCGACGGgCa -5'
23442 5' -58.2 NC_005259.1 + 58359 0.66 0.541814
Target:  5'- ----cGGGCACGUCgcagaagucguAGAGCUGCuCCGa -3'
miRNA:   3'- aaguuCCUGUGCGG-----------UCUCGACG-GGCa -5'
23442 5' -58.2 NC_005259.1 + 9986 0.67 0.520875
Target:  5'- gUCGAGGugGCcaGCCGGGGaCUGaUCCGc -3'
miRNA:   3'- aAGUUCCugUG--CGGUCUC-GAC-GGGCa -5'
23442 5' -58.2 NC_005259.1 + 26327 0.67 0.510524
Target:  5'- cUCGGGGucgcacagauaGCACGCCcucgggccGAGCUGCgCGUa -3'
miRNA:   3'- aAGUUCC-----------UGUGCGGu-------CUCGACGgGCA- -5'
23442 5' -58.2 NC_005259.1 + 50547 0.67 0.510524
Target:  5'- -gCGAGGaaaccGCACGgCAGAauGCUGCCCu- -3'
miRNA:   3'- aaGUUCC-----UGUGCgGUCU--CGACGGGca -5'
23442 5' -58.2 NC_005259.1 + 4413 0.67 0.500259
Target:  5'- -aCGAGGGCcgccaccgcGCGCCcgaggucGAGCcGCCCGUg -3'
miRNA:   3'- aaGUUCCUG---------UGCGGu------CUCGaCGGGCA- -5'
23442 5' -58.2 NC_005259.1 + 63677 0.67 0.500259
Target:  5'- cUCGGGcaccGGCGCGCCGGGGaucugcgcCUGCCCa- -3'
miRNA:   3'- aAGUUC----CUGUGCGGUCUC--------GACGGGca -5'
23442 5' -58.2 NC_005259.1 + 37726 0.67 0.490087
Target:  5'- -cCGAGGcAC-CGCCGccgacGAGCUGCUCGa -3'
miRNA:   3'- aaGUUCC-UGuGCGGU-----CUCGACGGGCa -5'
23442 5' -58.2 NC_005259.1 + 36129 0.68 0.460173
Target:  5'- -gCAGuuGGGC-CGCCGG-GCUGUCCGUc -3'
miRNA:   3'- aaGUU--CCUGuGCGGUCuCGACGGGCA- -5'
23442 5' -58.2 NC_005259.1 + 52338 0.68 0.421855
Target:  5'- ----cGGACACGCCGGugugccGCUGUUCGUc -3'
miRNA:   3'- aaguuCCUGUGCGGUCu-----CGACGGGCA- -5'
23442 5' -58.2 NC_005259.1 + 55894 0.69 0.412579
Target:  5'- cUCGGGGGuCGCGCCGGGgucGCUGgCCa- -3'
miRNA:   3'- aAGUUCCU-GUGCGGUCU---CGACgGGca -5'
23442 5' -58.2 NC_005259.1 + 48888 0.69 0.39441
Target:  5'- cUCAAGGAcCGCGUCAagagcucaacGAGCUGCUgGg -3'
miRNA:   3'- aAGUUCCU-GUGCGGU----------CUCGACGGgCa -5'
23442 5' -58.2 NC_005259.1 + 16406 0.69 0.39441
Target:  5'- --gGGGGACGCaGCCcaccGAGgUGCCCGUc -3'
miRNA:   3'- aagUUCCUGUG-CGGu---CUCgACGGGCA- -5'
23442 5' -58.2 NC_005259.1 + 45015 0.69 0.385522
Target:  5'- -cCGGGGcCGCGCCGcccugcuucauGAGCUGCUCGc -3'
miRNA:   3'- aaGUUCCuGUGCGGU-----------CUCGACGGGCa -5'
23442 5' -58.2 NC_005259.1 + 49727 0.7 0.335042
Target:  5'- aUUCGGcGGGCG-GCgAGAGCUGCUCGUc -3'
miRNA:   3'- -AAGUU-CCUGUgCGgUCUCGACGGGCA- -5'
23442 5' -58.2 NC_005259.1 + 6658 0.7 0.327114
Target:  5'- gUCGAGGguguccgugACGCGC--GAGCUGCCCGc -3'
miRNA:   3'- aAGUUCC---------UGUGCGguCUCGACGGGCa -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.