miRNA display CGI


Results 1 - 17 of 17 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
19023 3' -56.7 NC_004684.1 + 54516 0.66 0.71061
Target:  5'- aGGcuCCCCGGCGgCGgcCUCGgcgGUGg -3'
miRNA:   3'- aCCu-GGGGCCGC-GCauGAGCaagUAC- -5'
19023 3' -56.7 NC_004684.1 + 51520 0.66 0.71061
Target:  5'- aGGGCCgCUGGCGgccaCGUGCUCGa----- -3'
miRNA:   3'- aCCUGG-GGCCGC----GCAUGAGCaaguac -5'
19023 3' -56.7 NC_004684.1 + 47406 0.66 0.700122
Target:  5'- aGGACCaCCGGUGCcUGCUgGaggUgGUGg -3'
miRNA:   3'- aCCUGG-GGCCGCGcAUGAgCa--AgUAC- -5'
19023 3' -56.7 NC_004684.1 + 45836 0.66 0.678968
Target:  5'- -cGGCCUCGGCG-GUcaugccgcGCUCGUUgAUGg -3'
miRNA:   3'- acCUGGGGCCGCgCA--------UGAGCAAgUAC- -5'
19023 3' -56.7 NC_004684.1 + 6207 0.66 0.678968
Target:  5'- aUGGcCUCCGGCGCGauCUCGgcCAg- -3'
miRNA:   3'- -ACCuGGGGCCGCGCauGAGCaaGUac -5'
19023 3' -56.7 NC_004684.1 + 52825 0.67 0.67152
Target:  5'- gGuGGCCCCGGCGCaccagguguccagcgGUACgccgucaUCGUUgGUGc -3'
miRNA:   3'- aC-CUGGGGCCGCG---------------CAUG-------AGCAAgUAC- -5'
19023 3' -56.7 NC_004684.1 + 24038 0.67 0.646945
Target:  5'- aGGugCCCGGCGCGg---UGaUCAa- -3'
miRNA:   3'- aCCugGGGCCGCGCaugaGCaAGUac -5'
19023 3' -56.7 NC_004684.1 + 52437 0.67 0.625515
Target:  5'- cGGACCUCGGCuCG-GCUCGgcgcagUCAg- -3'
miRNA:   3'- aCCUGGGGCCGcGCaUGAGCa-----AGUac -5'
19023 3' -56.7 NC_004684.1 + 20038 0.68 0.593434
Target:  5'- -aGACCCCGccaucaGCGCGgugaACgCGUUCGUGg -3'
miRNA:   3'- acCUGGGGC------CGCGCa---UGaGCAAGUAC- -5'
19023 3' -56.7 NC_004684.1 + 56270 0.68 0.569015
Target:  5'- gUGGAUcaacaggucauaggCCUGGUcgGCGUGCUCGUUguUGa -3'
miRNA:   3'- -ACCUG--------------GGGCCG--CGCAUGAGCAAguAC- -5'
19023 3' -56.7 NC_004684.1 + 45405 0.68 0.551126
Target:  5'- cGGACCCUGGCGCaccaccuuGgcCUCGgugUCGc- -3'
miRNA:   3'- aCCUGGGGCCGCG--------CauGAGCa--AGUac -5'
19023 3' -56.7 NC_004684.1 + 33378 0.69 0.509783
Target:  5'- cGcGACCCCGcguaGCGCGUgaucgagcaGCUUGUUCAc- -3'
miRNA:   3'- aC-CUGGGGC----CGCGCA---------UGAGCAAGUac -5'
19023 3' -56.7 NC_004684.1 + 58802 0.69 0.499645
Target:  5'- cGaGGCCaCCGGCGCGUucauGCUCGgcaggcUCAUc -3'
miRNA:   3'- aC-CUGG-GGCCGCGCA----UGAGCa-----AGUAc -5'
19023 3' -56.7 NC_004684.1 + 2133 0.7 0.450409
Target:  5'- cUGGACCUgcgugcguuCGGCGCGUcggugaACUCGgcguugacggUCAUGg -3'
miRNA:   3'- -ACCUGGG---------GCCGCGCA------UGAGCa---------AGUAC- -5'
19023 3' -56.7 NC_004684.1 + 66768 0.7 0.440882
Target:  5'- gGcGACCUCGGCGCGgUACUCGccgcccUUGUGg -3'
miRNA:   3'- aC-CUGGGGCCGCGC-AUGAGCa-----AGUAC- -5'
19023 3' -56.7 NC_004684.1 + 64718 0.71 0.421255
Target:  5'- cGGugCCCGGCGCugaaaugGUGCUUGaccgUCAg- -3'
miRNA:   3'- aCCugGGGCCGCG-------CAUGAGCa---AGUac -5'
19023 3' -56.7 NC_004684.1 + 39070 1.09 0.001044
Target:  5'- uUGGACCCCGGCGCGUACUCGUUCAUGa -3'
miRNA:   3'- -ACCUGGGGCCGCGCAUGAGCAAGUAC- -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.