miRNA display CGI


Results 1 - 20 of 77 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
24343 3' -52.3 NC_005264.1 + 150168 0.75 0.650094
Target:  5'- gCGACGGACCcgugcgguUCUAGGUuucguGUGACGGGGg -3'
miRNA:   3'- -GUUGCCUGG--------AGAUCCGu----CGCUGUUUC- -5'
24343 3' -52.3 NC_005264.1 + 3617 0.68 0.951087
Target:  5'- aCggUGGGCgCUgUGGGCGGgGugGGGGu -3'
miRNA:   3'- -GuuGCCUG-GAgAUCCGUCgCugUUUC- -5'
24343 3' -52.3 NC_005264.1 + 36443 0.68 0.944036
Target:  5'- -cGCGGagacgacuuGCCUCUccucggcgaauccaaGGaGCAGCGGCAAGGc -3'
miRNA:   3'- guUGCC---------UGGAGA---------------UC-CGUCGCUGUUUC- -5'
24343 3' -52.3 NC_005264.1 + 37372 0.68 0.942175
Target:  5'- gAGCGaGCCUCcgagcaGGGC-GCGGCAGAGg -3'
miRNA:   3'- gUUGCcUGGAGa-----UCCGuCGCUGUUUC- -5'
24343 3' -52.3 NC_005264.1 + 83717 0.68 0.942175
Target:  5'- uGGCGG-CggCUAGGUacgcGGCGGCAGAGa -3'
miRNA:   3'- gUUGCCuGgaGAUCCG----UCGCUGUUUC- -5'
24343 3' -52.3 NC_005264.1 + 125837 0.69 0.937348
Target:  5'- gGACGGucaggguguuGCCgg-AGGCGGCGGCGAc- -3'
miRNA:   3'- gUUGCC----------UGGagaUCCGUCGCUGUUuc -5'
24343 3' -52.3 NC_005264.1 + 157360 0.69 0.925848
Target:  5'- uGGCGGGCCcuggccgugaugCUGGGCGGCGGgGcGGu -3'
miRNA:   3'- gUUGCCUGGa-----------GAUCCGUCGCUgUuUC- -5'
24343 3' -52.3 NC_005264.1 + 122702 0.69 0.915534
Target:  5'- gGGCGG-CCgUCUcGGCGGCGAgaCGAGGa -3'
miRNA:   3'- gUUGCCuGG-AGAuCCGUCGCU--GUUUC- -5'
24343 3' -52.3 NC_005264.1 + 98271 0.69 0.914937
Target:  5'- gCAAUGGACgUguucgcgCUGGGCAGCGugGu-- -3'
miRNA:   3'- -GUUGCCUGgA-------GAUCCGUCGCugUuuc -5'
24343 3' -52.3 NC_005264.1 + 121526 0.69 0.910073
Target:  5'- uCGGCGGGCCUCgcgcgacuucagcgcGGGgGGCGACuucccGAGa -3'
miRNA:   3'- -GUUGCCUGGAGa--------------UCCgUCGCUGu----UUC- -5'
24343 3' -52.3 NC_005264.1 + 16568 0.7 0.903125
Target:  5'- gGGCGGcGCCg--GGGCGGCGGCGc-- -3'
miRNA:   3'- gUUGCC-UGGagaUCCGUCGCUGUuuc -5'
24343 3' -52.3 NC_005264.1 + 69095 0.7 0.889734
Target:  5'- -cGCGGucgugGCCUCUAGGUccucgAGCGGCAc-- -3'
miRNA:   3'- guUGCC-----UGGAGAUCCG-----UCGCUGUuuc -5'
24343 3' -52.3 NC_005264.1 + 136246 0.7 0.875391
Target:  5'- gCGACGGACacggCUCaUGGGuUAGCGGCGAAa -3'
miRNA:   3'- -GUUGCCUG----GAG-AUCC-GUCGCUGUUUc -5'
24343 3' -52.3 NC_005264.1 + 24300 0.7 0.875391
Target:  5'- aCGGCGG-CCUCUGuGGCuacGCG-CAGAGa -3'
miRNA:   3'- -GUUGCCuGGAGAU-CCGu--CGCuGUUUC- -5'
24343 3' -52.3 NC_005264.1 + 130258 0.71 0.867874
Target:  5'- uUAAgGGGCCUCUAGGCcaaucAGgGGCcGGGa -3'
miRNA:   3'- -GUUgCCUGGAGAUCCG-----UCgCUGuUUC- -5'
24343 3' -52.3 NC_005264.1 + 135660 0.71 0.852177
Target:  5'- -cACGGACCUCUGGaGCuGCGGg---- -3'
miRNA:   3'- guUGCCUGGAGAUC-CGuCGCUguuuc -5'
24343 3' -52.3 NC_005264.1 + 123924 0.73 0.772092
Target:  5'- ---gGGACCgcggAGGCgAGCGACGAAGa -3'
miRNA:   3'- guugCCUGGaga-UCCG-UCGCUGUUUC- -5'
24343 3' -52.3 NC_005264.1 + 107127 0.74 0.691809
Target:  5'- -cGCGGACUccugUCUAGGCGGCGAgCuGAGc -3'
miRNA:   3'- guUGCCUGG----AGAUCCGUCGCU-GuUUC- -5'
24343 3' -52.3 NC_005264.1 + 55168 0.75 0.660568
Target:  5'- -uGCGG-CCUCUGGGC-GCGGCuGAAGg -3'
miRNA:   3'- guUGCCuGGAGAUCCGuCGCUG-UUUC- -5'
24343 3' -52.3 NC_005264.1 + 123298 0.76 0.587235
Target:  5'- -cGCGGgaACCgcgGGGCGGCGGCAGAGa -3'
miRNA:   3'- guUGCC--UGGagaUCCGUCGCUGUUUC- -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.