miRNA display CGI


Results 1 - 14 of 14 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
23375 3' -60.9 NC_005259.1 + 24053 0.66 0.478594
Target:  5'- gUCGUCGGcGCGGUGcuCAaUCUCGuGCa- -3'
miRNA:   3'- -AGCGGCC-CGCCACu-GUgAGAGC-CGau -5'
23375 3' -60.9 NC_005259.1 + 32098 0.66 0.453748
Target:  5'- --aCCGGGCGGUGGCgggaaauaGCUCUCaccguugaucaccuuGGCg- -3'
miRNA:   3'- agcGGCCCGCCACUG--------UGAGAG---------------CCGau -5'
23375 3' -60.9 NC_005259.1 + 21384 0.66 0.44905
Target:  5'- gUCGCCGaGGCGGUgcaacgcgcauggGACGCccguagacCUgGGCUAc -3'
miRNA:   3'- -AGCGGC-CCGCCA-------------CUGUGa-------GAgCCGAU- -5'
23375 3' -60.9 NC_005259.1 + 60531 0.67 0.413364
Target:  5'- -gGCCGGGcCGG-GACgcagccGCUCgUCGGCa- -3'
miRNA:   3'- agCGGCCC-GCCaCUG------UGAG-AGCCGau -5'
23375 3' -60.9 NC_005259.1 + 38627 0.67 0.404499
Target:  5'- aUCGa-GGGCGGUGACGCcgagUUGGCg- -3'
miRNA:   3'- -AGCggCCCGCCACUGUGag--AGCCGau -5'
23375 3' -60.9 NC_005259.1 + 60324 0.67 0.387133
Target:  5'- --aCCGGGCGuGuUGACGCUCaaggCGGCg- -3'
miRNA:   3'- agcGGCCCGC-C-ACUGUGAGa---GCCGau -5'
23375 3' -60.9 NC_005259.1 + 40563 0.68 0.378636
Target:  5'- gCGCCcGcGCGGUGuuGCUgUCGGCg- -3'
miRNA:   3'- aGCGGcC-CGCCACugUGAgAGCCGau -5'
23375 3' -60.9 NC_005259.1 + 11036 0.68 0.345922
Target:  5'- uUCGCCGGGUGGUcaccgcauGACguGCcgaUCGGCUc -3'
miRNA:   3'- -AGCGGCCCGCCA--------CUG--UGag-AGCCGAu -5'
23375 3' -60.9 NC_005259.1 + 14173 0.69 0.307951
Target:  5'- cUCGCCGGGCgGGUGGCAaccgCUCacccccgagcaGGCc- -3'
miRNA:   3'- -AGCGGCCCG-CCACUGUga--GAG-----------CCGau -5'
23375 3' -60.9 NC_005259.1 + 4510 0.69 0.307951
Target:  5'- gCGCCGGGa-GUGGCGCUgcgCGGCa- -3'
miRNA:   3'- aGCGGCCCgcCACUGUGAga-GCCGau -5'
23375 3' -60.9 NC_005259.1 + 58787 0.7 0.279929
Target:  5'- gCGCCGgucgaGGCGGUGAUugcCUCGGCg- -3'
miRNA:   3'- aGCGGC-----CCGCCACUGugaGAGCCGau -5'
23375 3' -60.9 NC_005259.1 + 32696 0.71 0.218784
Target:  5'- -aGCCGGGCGGUGguucguacacugGCACUCUCccgagugaGGUg- -3'
miRNA:   3'- agCGGCCCGCCAC------------UGUGAGAG--------CCGau -5'
23375 3' -60.9 NC_005259.1 + 68796 0.74 0.151428
Target:  5'- aCGCCgGGGCGGUGucggugcccgguacAUGCUCUCGGUc- -3'
miRNA:   3'- aGCGG-CCCGCCAC--------------UGUGAGAGCCGau -5'
23375 3' -60.9 NC_005259.1 + 56026 0.8 0.050124
Target:  5'- cUCGCCGGGCGG-GACuucCUCgggCGGCUGc -3'
miRNA:   3'- -AGCGGCCCGCCaCUGu--GAGa--GCCGAU- -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.