miRNA display CGI


Results 1 - 16 of 16 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
11417 5' -54.8 NC_003085.1 + 36882 0.66 0.699832
Target:  5'- -cGGCACCaCCAUcaGCA-GCACcUGGGc -3'
miRNA:   3'- gaCUGUGG-GGUGa-CGUaCGUGuACCC- -5'
11417 5' -54.8 NC_003085.1 + 29762 0.66 0.666645
Target:  5'- --cGCGCCCCACcuCGUGCGCAcUGGc -3'
miRNA:   3'- gacUGUGGGGUGacGUACGUGU-ACCc -5'
11417 5' -54.8 NC_003085.1 + 46114 0.67 0.610807
Target:  5'- uCUGGCucaCCCA-UGCGUcGCGCAacUGGGg -3'
miRNA:   3'- -GACUGug-GGGUgACGUA-CGUGU--ACCC- -5'
11417 5' -54.8 NC_003085.1 + 6576 0.68 0.554334
Target:  5'- gUGACagcGCCCCAUccgcuugccguggUGCGUcaGCAgAUGGGg -3'
miRNA:   3'- gACUG---UGGGGUG-------------ACGUA--CGUgUACCC- -5'
11417 5' -54.8 NC_003085.1 + 8927 0.68 0.57745
Target:  5'- -cGACGCCuCCGaagUGCA-GCGCGUGGc -3'
miRNA:   3'- gaCUGUGG-GGUg--ACGUaCGUGUACCc -5'
11417 5' -54.8 NC_003085.1 + 45748 0.68 0.577449
Target:  5'- gCUGACGCCUCGCgugGCAcGUcgcgcuGCGUGGc -3'
miRNA:   3'- -GACUGUGGGGUGa--CGUaCG------UGUACCc -5'
11417 5' -54.8 NC_003085.1 + 727 0.7 0.440263
Target:  5'- cCUGACGCgCCGCUcacggacagGCgagagGUGCugGUGGGc -3'
miRNA:   3'- -GACUGUGgGGUGA---------CG-----UACGugUACCC- -5'
11417 5' -54.8 NC_003085.1 + 42719 0.7 0.470427
Target:  5'- -cGGCACCUCAg-GCGUGgGCGUcGGGg -3'
miRNA:   3'- gaCUGUGGGGUgaCGUACgUGUA-CCC- -5'
11417 5' -54.8 NC_003085.1 + 25776 0.7 0.450197
Target:  5'- gCUGcuGCGCgggCCCGCUGCGUGgACGccUGGGc -3'
miRNA:   3'- -GAC--UGUG---GGGUGACGUACgUGU--ACCC- -5'
11417 5' -54.8 NC_003085.1 + 11663 0.7 0.470426
Target:  5'- -aGACACCUCACUGCGcGCcgAUGGc -3'
miRNA:   3'- gaCUGUGGGGUGACGUaCGugUACCc -5'
11417 5' -54.8 NC_003085.1 + 3338 0.7 0.470426
Target:  5'- --cACGCCCCAgUUGCGcGaCGCAUGGGu -3'
miRNA:   3'- gacUGUGGGGU-GACGUaC-GUGUACCC- -5'
11417 5' -54.8 NC_003085.1 + 10468 0.71 0.405569
Target:  5'- uUGGCGCCCCucggcuggccgaccuGCUGCGcgGCGCAcUGGa -3'
miRNA:   3'- gACUGUGGGG---------------UGACGUa-CGUGU-ACCc -5'
11417 5' -54.8 NC_003085.1 + 12700 0.72 0.348326
Target:  5'- aUGACGCCacgCCGCUG-GUGCGC-UGGGa -3'
miRNA:   3'- gACUGUGG---GGUGACgUACGUGuACCC- -5'
11417 5' -54.8 NC_003085.1 + 42875 0.74 0.264002
Target:  5'- gCUGACGCaCCACgGCAaGCGgAUGGGg -3'
miRNA:   3'- -GACUGUGgGGUGaCGUaCGUgUACCC- -5'
11417 5' -54.8 NC_003085.1 + 4789 0.75 0.250577
Target:  5'- cCUGcguccaGCCCCACUGCGUGUGCAUcGGc -3'
miRNA:   3'- -GACug----UGGGGUGACGUACGUGUAcCC- -5'
11417 5' -54.8 NC_003085.1 + 44641 1.1 0.000746
Target:  5'- aCUGACACCCCACUGCAUGCACAUGGGc -3'
miRNA:   3'- -GACUGUGGGGUGACGUACGUGUACCC- -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.