miRNA display CGI


Results 1 - 20 of 22 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
25744 3' -47.7 NC_005337.1 + 95354 0.66 0.999587
Target:  5'- gGAGcGCCGAGUCGccGAAGgcgaacagcgacGGCCGcgCGa -3'
miRNA:   3'- aCUC-CGGCUUAGU--CUUU------------UUGGCuaGU- -5'
25744 3' -47.7 NC_005337.1 + 23564 0.66 0.999008
Target:  5'- --cGGCCGGGagCAGGAGAguGuuGAUCAu -3'
miRNA:   3'- acuCCGGCUUa-GUCUUUU--UggCUAGU- -5'
25744 3' -47.7 NC_005337.1 + 16245 0.67 0.99852
Target:  5'- gGAGGCCGGcgguGUCcauaAAAGGCCGuUCAu -3'
miRNA:   3'- aCUCCGGCU----UAGuc--UUUUUGGCuAGU- -5'
25744 3' -47.7 NC_005337.1 + 873 0.67 0.998208
Target:  5'- cGcGGCCGGG-CGGAAGAgcgcGCCGAgCAg -3'
miRNA:   3'- aCuCCGGCUUaGUCUUUU----UGGCUaGU- -5'
25744 3' -47.7 NC_005337.1 + 873 0.67 0.998208
Target:  5'- cGcGGCCGGG-CGGAAGAgcgcGCCGAgCAg -3'
miRNA:   3'- aCuCCGGCUUaGUCUUUU----UGGCUaGU- -5'
25744 3' -47.7 NC_005337.1 + 113634 0.67 0.997842
Target:  5'- cGAGGCCGAcgaaaAGAAGGACaCGGc-- -3'
miRNA:   3'- aCUCCGGCUuag--UCUUUUUG-GCUagu -5'
25744 3' -47.7 NC_005337.1 + 125743 0.67 0.997842
Target:  5'- aGAGGCgGAGcgCgcgugaccgAGAAGGACCuGAUCAa -3'
miRNA:   3'- aCUCCGgCUUa-G---------UCUUUUUGG-CUAGU- -5'
25744 3' -47.7 NC_005337.1 + 88415 0.67 0.997594
Target:  5'- cGGGGCUGAagAUC-GAGGAgcuucccgcggacgcGCCGGUCGc -3'
miRNA:   3'- aCUCCGGCU--UAGuCUUUU---------------UGGCUAGU- -5'
25744 3' -47.7 NC_005337.1 + 110932 0.68 0.996922
Target:  5'- aUGAGGCCcaaGAGUguGGGcGACCGcGUCu -3'
miRNA:   3'- -ACUCCGG---CUUAguCUUuUUGGC-UAGu -5'
25744 3' -47.7 NC_005337.1 + 82208 0.68 0.996922
Target:  5'- --cGGCCGGcgGUC-GAAGAGCCGAa-- -3'
miRNA:   3'- acuCCGGCU--UAGuCUUUUUGGCUagu -5'
25744 3' -47.7 NC_005337.1 + 68503 0.68 0.996352
Target:  5'- gGGGGCgCGGacagcgccggcGUCAGGAAcACCGAgUCGg -3'
miRNA:   3'- aCUCCG-GCU-----------UAGUCUUUuUGGCU-AGU- -5'
25744 3' -47.7 NC_005337.1 + 74225 0.68 0.995698
Target:  5'- uUGcGGCgGAugAUCGGGAGGGCgGGUCGc -3'
miRNA:   3'- -ACuCCGgCU--UAGUCUUUUUGgCUAGU- -5'
25744 3' -47.7 NC_005337.1 + 60236 0.69 0.990851
Target:  5'- cUGGGGCUgGggUCGGAGccggagucgGAGCCGGagUCGg -3'
miRNA:   3'- -ACUCCGG-CuuAGUCUU---------UUUGGCU--AGU- -5'
25744 3' -47.7 NC_005337.1 + 51218 0.69 0.989498
Target:  5'- cUGGGGauCCGGAgCAGG--GACCGGUCGg -3'
miRNA:   3'- -ACUCC--GGCUUaGUCUuuUUGGCUAGU- -5'
25744 3' -47.7 NC_005337.1 + 12973 0.7 0.980264
Target:  5'- cGAGG-CGggUCGGAGgcGAGCCGGc-- -3'
miRNA:   3'- aCUCCgGCuuAGUCUU--UUUGGCUagu -5'
25744 3' -47.7 NC_005337.1 + 15910 0.71 0.977852
Target:  5'- aGGGcGCCGGAggCAGAGcGACCGAa-- -3'
miRNA:   3'- aCUC-CGGCUUa-GUCUUuUUGGCUagu -5'
25744 3' -47.7 NC_005337.1 + 119718 0.71 0.977852
Target:  5'- cGAGGCCGGAUCGcacGAGGAACUcg-CGg -3'
miRNA:   3'- aCUCCGGCUUAGU---CUUUUUGGcuaGU- -5'
25744 3' -47.7 NC_005337.1 + 8012 0.72 0.95827
Target:  5'- uUGAGGCCGAuguUCAGGAGugaguggGACCuguUCAu -3'
miRNA:   3'- -ACUCCGGCUu--AGUCUUU-------UUGGcu-AGU- -5'
25744 3' -47.7 NC_005337.1 + 50909 0.73 0.940863
Target:  5'- cUGGGGCUGGG--AGAGGAACCGGUg- -3'
miRNA:   3'- -ACUCCGGCUUagUCUUUUUGGCUAgu -5'
25744 3' -47.7 NC_005337.1 + 19401 0.74 0.912517
Target:  5'- aUGGGGCCGAaggcgccgauGUCGGA--GACgCGGUCGc -3'
miRNA:   3'- -ACUCCGGCU----------UAGUCUuuUUG-GCUAGU- -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.