miRNA display CGI


Results 1 - 20 of 39 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
21219 5' -53.3 NC_004778.3 + 47924 0.76 0.479511
Target:  5'- gUUCACCGAcAUgGugGACAGCGGCGc -3'
miRNA:   3'- -AGGUGGCUuUGaCugCUGUCGUCGCu -5'
21219 5' -53.3 NC_004778.3 + 81839 0.66 0.964262
Target:  5'- gCCGCC---AUUGGCGgaucgggaGCGGCGGCGGu -3'
miRNA:   3'- aGGUGGcuuUGACUGC--------UGUCGUCGCU- -5'
21219 5' -53.3 NC_004778.3 + 119946 0.66 0.960743
Target:  5'- uUCCGCCGcacgugaaccuGugUGACGACGcGCAGgcaGAg -3'
miRNA:   3'- -AGGUGGCu----------UugACUGCUGU-CGUCg--CU- -5'
21219 5' -53.3 NC_004778.3 + 100844 0.66 0.948775
Target:  5'- gCCGCCGAug--GACGGCagaauuuugAGguGCGGa -3'
miRNA:   3'- aGGUGGCUuugaCUGCUG---------UCguCGCU- -5'
21219 5' -53.3 NC_004778.3 + 309 0.66 0.948775
Target:  5'- cCCACCuGAGcgcguGCUGGCGcaagaauuugUAGCAGCGGu -3'
miRNA:   3'- aGGUGG-CUU-----UGACUGCu---------GUCGUCGCU- -5'
21219 5' -53.3 NC_004778.3 + 75149 0.67 0.934603
Target:  5'- gCCGCCGggGCgGGCucacuGGCcGCAGCu- -3'
miRNA:   3'- aGGUGGCuuUGaCUG-----CUGuCGUCGcu -5'
21219 5' -53.3 NC_004778.3 + 38634 0.67 0.929378
Target:  5'- uUCCAUUGugGCUG-CgGGCAGUAGCGu -3'
miRNA:   3'- -AGGUGGCuuUGACuG-CUGUCGUCGCu -5'
21219 5' -53.3 NC_004778.3 + 118108 0.67 0.9239
Target:  5'- gCCAUCGAGGaguUUGAcaaaauCGGCGGCGGCGc -3'
miRNA:   3'- aGGUGGCUUU---GACU------GCUGUCGUCGCu -5'
21219 5' -53.3 NC_004778.3 + 111251 0.68 0.912188
Target:  5'- cCCACCacGGAACUGGCuuuGAUAGCAauGCGc -3'
miRNA:   3'- aGGUGG--CUUUGACUG---CUGUCGU--CGCu -5'
21219 5' -53.3 NC_004778.3 + 116758 0.68 0.905956
Target:  5'- gCCGCCGGucggcuGACUGGCGACGuGUAcGCu- -3'
miRNA:   3'- aGGUGGCU------UUGACUGCUGU-CGU-CGcu -5'
21219 5' -53.3 NC_004778.3 + 5053 0.73 0.643612
Target:  5'- gUCGCCGcgcGACUGGCGGCGugguauaaccGCGGCGAc -3'
miRNA:   3'- aGGUGGCu--UUGACUGCUGU----------CGUCGCU- -5'
21219 5' -53.3 NC_004778.3 + 28010 0.71 0.756594
Target:  5'- aCCugCGAGcaacGCaUGGCGcucaACGGCGGCGAg -3'
miRNA:   3'- aGGugGCUU----UG-ACUGC----UGUCGUCGCU- -5'
21219 5' -53.3 NC_004778.3 + 87698 0.71 0.766367
Target:  5'- aCCAaCGAaaucaAACUGACGAcCAGCAGCc- -3'
miRNA:   3'- aGGUgGCU-----UUGACUGCU-GUCGUCGcu -5'
21219 5' -53.3 NC_004778.3 + 57219 0.68 0.899477
Target:  5'- gCCGaCGGAGCUGugGACucgaccGGCcGCGAa -3'
miRNA:   3'- aGGUgGCUUUGACugCUG------UCGuCGCU- -5'
21219 5' -53.3 NC_004778.3 + 26731 0.68 0.899477
Target:  5'- aCCGCCGcAAACgccGCGGCcuGCAGCGc -3'
miRNA:   3'- aGGUGGC-UUUGac-UGCUGu-CGUCGCu -5'
21219 5' -53.3 NC_004778.3 + 39597 0.68 0.90532
Target:  5'- aUCaCGCCGucGCUGACcgccacgGACAGUccGGCGGg -3'
miRNA:   3'- -AG-GUGGCuuUGACUG-------CUGUCG--UCGCU- -5'
21219 5' -53.3 NC_004778.3 + 83705 1.1 0.004017
Target:  5'- gUCCACCGAAACUGACGACAGCAGCGAu -3'
miRNA:   3'- -AGGUGGCUUUGACUGCUGUCGUCGCU- -5'
21219 5' -53.3 NC_004778.3 + 1266 0.66 0.956993
Target:  5'- gCUugUGGg---GACGACGGCGGCGu -3'
miRNA:   3'- aGGugGCUuugaCUGCUGUCGUCGCu -5'
21219 5' -53.3 NC_004778.3 + 14359 0.66 0.953005
Target:  5'- aUCGCUGAcgAAgUGGUGACAGCAGCc- -3'
miRNA:   3'- aGGUGGCU--UUgACUGCUGUCGUCGcu -5'
21219 5' -53.3 NC_004778.3 + 71263 0.66 0.953005
Target:  5'- -gCAuUCGGAcACggcGGCGGCGGCGGCGAc -3'
miRNA:   3'- agGU-GGCUU-UGa--CUGCUGUCGUCGCU- -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.