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
16490 3' -55.6 NC_004084.1 + 30898 0.66 0.730232
Target:  5'- aACGGcgcGAUCUCCccggAGGAGGUcCUCGa -3'
miRNA:   3'- gUGUCuu-CUGGAGG----UCCUCCGuGAGC- -5'
16490 3' -55.6 NC_004084.1 + 11564 0.66 0.719638
Target:  5'- cCACAGGAGACgUUCAcGGAcgcGGCGaUCGu -3'
miRNA:   3'- -GUGUCUUCUGgAGGU-CCU---CCGUgAGC- -5'
16490 3' -55.6 NC_004084.1 + 25785 0.66 0.708956
Target:  5'- cCAUGGAAucCCUCCAGGuGGCGagCGa -3'
miRNA:   3'- -GUGUCUUcuGGAGGUCCuCCGUgaGC- -5'
16490 3' -55.6 NC_004084.1 + 24700 0.66 0.702511
Target:  5'- uCACAGAAGACgugcucgcaagcguaUUUCAGGAGGC--UCa -3'
miRNA:   3'- -GUGUCUUCUG---------------GAGGUCCUCCGugAGc -5'
16490 3' -55.6 NC_004084.1 + 27556 0.66 0.6982
Target:  5'- gCACA-AGGGCCUCCcggacggucgccAGGAGGCAgCgUCGc -3'
miRNA:   3'- -GUGUcUUCUGGAGG------------UCCUCCGU-G-AGC- -5'
16490 3' -55.6 NC_004084.1 + 18393 0.66 0.6982
Target:  5'- gCACAGAAG-CgUCCAGGcGGGCGaugUGa -3'
miRNA:   3'- -GUGUCUUCuGgAGGUCC-UCCGUga-GC- -5'
16490 3' -55.6 NC_004084.1 + 7085 0.66 0.676507
Target:  5'- gAC-GAAGAUCUCgCGGGc-GCACUCGa -3'
miRNA:   3'- gUGuCUUCUGGAG-GUCCucCGUGAGC- -5'
16490 3' -55.6 NC_004084.1 + 50586 0.67 0.64368
Target:  5'- uCACGGAAGAUCaCCucGAGGCAgUUCGu -3'
miRNA:   3'- -GUGUCUUCUGGaGGucCUCCGU-GAGC- -5'
16490 3' -55.6 NC_004084.1 + 27646 0.67 0.64368
Target:  5'- uCGCGuac-GCCUCgAGGAGGuCGCUCGa -3'
miRNA:   3'- -GUGUcuucUGGAGgUCCUCC-GUGAGC- -5'
16490 3' -55.6 NC_004084.1 + 18871 0.67 0.64368
Target:  5'- aCGCAGuuGAGAUCUCUGGaGAGGC-CUgGg -3'
miRNA:   3'- -GUGUC--UUCUGGAGGUC-CUCCGuGAgC- -5'
16490 3' -55.6 NC_004084.1 + 193 0.67 0.632704
Target:  5'- -cCAGAAGACgUUCCGGGAGcccGCACggccaUCGg -3'
miRNA:   3'- guGUCUUCUG-GAGGUCCUC---CGUG-----AGC- -5'
16490 3' -55.6 NC_004084.1 + 30849 0.67 0.621726
Target:  5'- aCGCugccuccuGgcGACCgUCCGGGAGGCcCUUGu -3'
miRNA:   3'- -GUGu-------CuuCUGG-AGGUCCUCCGuGAGC- -5'
16490 3' -55.6 NC_004084.1 + 34889 0.69 0.545639
Target:  5'- gGCGGGAGAUCUUCGaucccuggucGGA-GCACUCGa -3'
miRNA:   3'- gUGUCUUCUGGAGGU----------CCUcCGUGAGC- -5'
16490 3' -55.6 NC_004084.1 + 21519 0.7 0.482908
Target:  5'- cCGCAGAAcGCCUCgAGGAuGGCGaUCGc -3'
miRNA:   3'- -GUGUCUUcUGGAGgUCCU-CCGUgAGC- -5'
16490 3' -55.6 NC_004084.1 + 4871 0.7 0.472782
Target:  5'- aGCAGGAcGACCUCguucccgaagaaCAGGAGGCGuacgaggaguucCUCGa -3'
miRNA:   3'- gUGUCUU-CUGGAG------------GUCCUCCGU------------GAGC- -5'
16490 3' -55.6 NC_004084.1 + 20379 0.7 0.45286
Target:  5'- aCGCAGGauuuuucgaGGauGCCUCUGGuGAGGCGCUUGa -3'
miRNA:   3'- -GUGUCU---------UC--UGGAGGUC-CUCCGUGAGC- -5'
16490 3' -55.6 NC_004084.1 + 26291 0.71 0.414444
Target:  5'- aCGCAGucGACCUCCu---GGUGCUCGa -3'
miRNA:   3'- -GUGUCuuCUGGAGGuccuCCGUGAGC- -5'
16490 3' -55.6 NC_004084.1 + 10897 0.71 0.386981
Target:  5'- --aAGAGGACCgauUCgAGGAGGCGCUg- -3'
miRNA:   3'- gugUCUUCUGG---AGgUCCUCCGUGAgc -5'
16490 3' -55.6 NC_004084.1 + 45342 0.72 0.352279
Target:  5'- uCGCAGGAGAaguaCCagaaguggaAGGAGGCGCUCGa -3'
miRNA:   3'- -GUGUCUUCUgga-GG---------UCCUCCGUGAGC- -5'
16490 3' -55.6 NC_004084.1 + 20333 0.76 0.218341
Target:  5'- aCACAGGAGGCCgcugUUCAguGGAuGGCGCUCGa -3'
miRNA:   3'- -GUGUCUUCUGG----AGGU--CCU-CCGUGAGC- -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.