miRNA display CGI


Results 1 - 20 of 303 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
28929 3' -53.7 NC_006146.1 + 6473 1.13 0.002994
Target:  5'- cCACGGCCCACUGCAAGAAACAGGACCg -3'
miRNA:   3'- -GUGCCGGGUGACGUUCUUUGUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 65040 0.86 0.145668
Target:  5'- cCAgGGCCCACUGCGAGGAGCGGcACUg -3'
miRNA:   3'- -GUgCCGGGUGACGUUCUUUGUCcUGG- -5'
28929 3' -53.7 NC_006146.1 + 116044 0.78 0.409547
Target:  5'- cCACGGCCCGCUGCuGGGGAUGGcGCa -3'
miRNA:   3'- -GUGCCGGGUGACGuUCUUUGUCcUGg -5'
28929 3' -53.7 NC_006146.1 + 131715 0.78 0.436276
Target:  5'- uGCGGCCUGCUGaugggcaccuGAGAGACAcGGACCu -3'
miRNA:   3'- gUGCCGGGUGACg---------UUCUUUGU-CCUGG- -5'
28929 3' -53.7 NC_006146.1 + 123604 0.78 0.444489
Target:  5'- --aGGCCCgggaggagucccgGCUGCAGGAcguucuGCAGGACCu -3'
miRNA:   3'- gugCCGGG-------------UGACGUUCUu-----UGUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 92089 0.78 0.445407
Target:  5'- gGCGGCCCggccuggggcuGCUGCuGGGggGCGGGcCCg -3'
miRNA:   3'- gUGCCGGG-----------UGACG-UUCuuUGUCCuGG- -5'
28929 3' -53.7 NC_006146.1 + 100692 0.77 0.473422
Target:  5'- uCGCGGCCCucggcacccggcGCUGCGGGGGugGgugugGGACCg -3'
miRNA:   3'- -GUGCCGGG------------UGACGUUCUUugU-----CCUGG- -5'
28929 3' -53.7 NC_006146.1 + 159048 0.77 0.473422
Target:  5'- --gGGCCCGCcccaaGCccGAGAAGCAGGGCCc -3'
miRNA:   3'- gugCCGGGUGa----CG--UUCUUUGUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 137804 0.77 0.482956
Target:  5'- gGCGGCCacccgGCUGCcccAGAGccGCAGGGCCg -3'
miRNA:   3'- gUGCCGGg----UGACGu--UCUU--UGUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 61359 0.77 0.492582
Target:  5'- aGCGuGCCCguguACUGCgAGGAGGgAGGACCg -3'
miRNA:   3'- gUGC-CGGG----UGACG-UUCUUUgUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 124517 0.76 0.512091
Target:  5'- -uCGGCCCug-GCGAGGGACGgGGGCCu -3'
miRNA:   3'- guGCCGGGugaCGUUCUUUGU-CCUGG- -5'
28929 3' -53.7 NC_006146.1 + 56237 0.76 0.541927
Target:  5'- aGCgGGUCCGCggggGC-GGAGGCGGGGCCg -3'
miRNA:   3'- gUG-CCGGGUGa---CGuUCUUUGUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 103912 0.76 0.541927
Target:  5'- cCACGGCaCCACUGCAAGAAuu--GACUc -3'
miRNA:   3'- -GUGCCG-GGUGACGUUCUUugucCUGG- -5'
28929 3' -53.7 NC_006146.1 + 44196 0.76 0.552003
Target:  5'- gCGCGGCUgCACUGCAgccGGggGCGGuGCCu -3'
miRNA:   3'- -GUGCCGG-GUGACGU---UCuuUGUCcUGG- -5'
28929 3' -53.7 NC_006146.1 + 156515 0.76 0.552003
Target:  5'- aCGCGGCCCggaggggaGCgggagGCGAGAuccCGGGACCc -3'
miRNA:   3'- -GUGCCGGG--------UGa----CGUUCUuu-GUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 84082 0.75 0.572317
Target:  5'- --aGGCCCACggGCGAGAAugGGGcgggcucaugGCCa -3'
miRNA:   3'- gugCCGGGUGa-CGUUCUUugUCC----------UGG- -5'
28929 3' -53.7 NC_006146.1 + 120801 0.75 0.582542
Target:  5'- -cCGGUCCGCgugGCcGGAcaAGCGGGGCCg -3'
miRNA:   3'- guGCCGGGUGa--CGuUCU--UUGUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 64699 0.75 0.592803
Target:  5'- aCACcaGGCCCug-GCAGGAGGCccGGGACCc -3'
miRNA:   3'- -GUG--CCGGGugaCGUUCUUUG--UCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 168596 0.75 0.613407
Target:  5'- gAUGGCCUggaACUGUcGGAAGgAGGGCCu -3'
miRNA:   3'- gUGCCGGG---UGACGuUCUUUgUCCUGG- -5'
28929 3' -53.7 NC_006146.1 + 129070 0.74 0.623734
Target:  5'- cCACGGCCCgGgUGUuuucacAGAAAgGGGACCg -3'
miRNA:   3'- -GUGCCGGG-UgACGu-----UCUUUgUCCUGG- -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.