miRNA display CGI


Results 1 - 18 of 18 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
32842 3' -44.8 NC_007346.1 + 274081 0.66 1
Target:  5'- gAUGCGGUGacGCGauGCGUCCgUAUuucgacggGUGCg -3'
miRNA:   3'- -UACGCCAUauUGC--UGUAGG-AUA--------UAUG- -5'
32842 3' -44.8 NC_007346.1 + 232509 0.66 1
Target:  5'- -aGCGcgcuuGCGACAUCCccgGUAUGCc -3'
miRNA:   3'- uaCGCcauauUGCUGUAGGa--UAUAUG- -5'
32842 3' -44.8 NC_007346.1 + 98292 0.66 1
Target:  5'- -gGCGGUucaaaaaacGCGGCAUCCUGa---- -3'
miRNA:   3'- uaCGCCAuau------UGCUGUAGGAUauaug -5'
32842 3' -44.8 NC_007346.1 + 194395 0.67 1
Target:  5'- -aGCGGgugaUAUAAUGuCGUCuCUGUAUAUg -3'
miRNA:   3'- uaCGCC----AUAUUGCuGUAG-GAUAUAUG- -5'
32842 3' -44.8 NC_007346.1 + 369921 0.67 1
Target:  5'- --uCGGUGUGAUGACAUUUgg-GUACu -3'
miRNA:   3'- uacGCCAUAUUGCUGUAGGauaUAUG- -5'
32842 3' -44.8 NC_007346.1 + 277665 0.68 1
Target:  5'- -cGCGGU-UAACGACAUCg-AUcgACg -3'
miRNA:   3'- uaCGCCAuAUUGCUGUAGgaUAuaUG- -5'
32842 3' -44.8 NC_007346.1 + 216660 0.69 1
Target:  5'- cUGCGGUAguacccaaaaaauAgGACGUCC-AUGUGCa -3'
miRNA:   3'- uACGCCAUau-----------UgCUGUAGGaUAUAUG- -5'
32842 3' -44.8 NC_007346.1 + 14248 0.66 1
Target:  5'- -cGCGGUuauugugucacuGUAACGACugcacaauAUCUUAUAUAa -3'
miRNA:   3'- uaCGCCA------------UAUUGCUG--------UAGGAUAUAUg -5'
32842 3' -44.8 NC_007346.1 + 167585 0.66 1
Target:  5'- uUGCGaGUAUAugGCGGCAUCg---AUGCa -3'
miRNA:   3'- uACGC-CAUAU--UGCUGUAGgauaUAUG- -5'
32842 3' -44.8 NC_007346.1 + 210536 0.68 1
Target:  5'- aAUGCGGUGguaAACGACAUcgcCCgucuUACa -3'
miRNA:   3'- -UACGCCAUa--UUGCUGUA---GGauauAUG- -5'
32842 3' -44.8 NC_007346.1 + 67860 0.67 1
Target:  5'- -gGUGGUAUGcCGGCGUCCa------ -3'
miRNA:   3'- uaCGCCAUAUuGCUGUAGGauauaug -5'
32842 3' -44.8 NC_007346.1 + 251352 0.69 0.999999
Target:  5'- aAUGCGcc-UGACGACAUCCUGg---- -3'
miRNA:   3'- -UACGCcauAUUGCUGUAGGAUauaug -5'
32842 3' -44.8 NC_007346.1 + 315501 0.69 0.999999
Target:  5'- uUGCGGUcGUGAUGuGCAUCUUucUGUGCa -3'
miRNA:   3'- uACGCCA-UAUUGC-UGUAGGAu-AUAUG- -5'
32842 3' -44.8 NC_007346.1 + 278891 0.7 0.999998
Target:  5'- aGUGCGGUAuUGGCGuuuGCAucaucaagacgcuUCUUGUAUACg -3'
miRNA:   3'- -UACGCCAU-AUUGC---UGU-------------AGGAUAUAUG- -5'
32842 3' -44.8 NC_007346.1 + 270546 0.7 0.999998
Target:  5'- aAUGCGGUcguacuGUGAUGAgCAUgaCUGUGUGCg -3'
miRNA:   3'- -UACGCCA------UAUUGCU-GUAg-GAUAUAUG- -5'
32842 3' -44.8 NC_007346.1 + 170852 0.71 0.999988
Target:  5'- uUGUGGUAUGGCaGCAUCCaUAUuuaaAUGCu -3'
miRNA:   3'- uACGCCAUAUUGcUGUAGG-AUA----UAUG- -5'
32842 3' -44.8 NC_007346.1 + 272423 0.76 0.997617
Target:  5'- uUGUGGUagaugGUGGCGAUGUgCUAUGUGCa -3'
miRNA:   3'- uACGCCA-----UAUUGCUGUAgGAUAUAUG- -5'
32842 3' -44.8 NC_007346.1 + 392996 1.1 0.068462
Target:  5'- cAUGCGGUAUAACGACAUCCUAUAUACa -3'
miRNA:   3'- -UACGCCAUAUUGCUGUAGGAUAUAUG- -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.