miRNA display CGI


Results 1 - 20 of 57 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
11579 3' -54.6 NC_003085.1 + 42867 0.68 0.599656
Target:  5'- cCCGGcc-CGGCCGGgGGCGUGuCGAg -3'
miRNA:   3'- aGGCUuaaGCCGGUCgUCGCGUuGCU- -5'
11579 3' -54.6 NC_003085.1 + 34450 0.69 0.501606
Target:  5'- -gCGAcgUCGGCCAGCaugAGCGUcucuggGACGc -3'
miRNA:   3'- agGCUuaAGCCGGUCG---UCGCG------UUGCu -5'
11579 3' -54.6 NC_003085.1 + 45833 0.69 0.501606
Target:  5'- gUCCcuc-UCGGCCAGcCAGuCGCGGCGc -3'
miRNA:   3'- -AGGcuuaAGCCGGUC-GUC-GCGUUGCu -5'
11579 3' -54.6 NC_003085.1 + 11981 0.69 0.522888
Target:  5'- -gCGGAUugguccucUUGGCCuGCGGCaGCAGCGGc -3'
miRNA:   3'- agGCUUA--------AGCCGGuCGUCG-CGUUGCU- -5'
11579 3' -54.6 NC_003085.1 + 37185 0.69 0.53366
Target:  5'- uUCaCGGGgaCGGCCAGUuucacGGCGcCAGCGGc -3'
miRNA:   3'- -AG-GCUUaaGCCGGUCG-----UCGC-GUUGCU- -5'
11579 3' -54.6 NC_003085.1 + 21473 0.69 0.544509
Target:  5'- gCCGAcaagggCGGCCugcGCGGCGUggUGGa -3'
miRNA:   3'- aGGCUuaa---GCCGGu--CGUCGCGuuGCU- -5'
11579 3' -54.6 NC_003085.1 + 8065 0.68 0.566412
Target:  5'- aCCGAGUcaggcaUGGCCGGUacaugagcggAGCGCAACa- -3'
miRNA:   3'- aGGCUUAa-----GCCGGUCG----------UCGCGUUGcu -5'
11579 3' -54.6 NC_003085.1 + 31137 0.68 0.57745
Target:  5'- gCCGAGUUCGuGC--GUAGCGCGGCc- -3'
miRNA:   3'- aGGCUUAAGC-CGguCGUCGCGUUGcu -5'
11579 3' -54.6 NC_003085.1 + 26810 0.68 0.599656
Target:  5'- aCgGGAUUCGGCCAGUgaugccccuGCGCGccagGCGu -3'
miRNA:   3'- aGgCUUAAGCCGGUCGu--------CGCGU----UGCu -5'
11579 3' -54.6 NC_003085.1 + 29992 0.7 0.480713
Target:  5'- aCCGGAUggggagCGGCCcugGGCGGCcuugGCGACGu -3'
miRNA:   3'- aGGCUUAa-----GCCGG---UCGUCG----CGUUGCu -5'
11579 3' -54.6 NC_003085.1 + 32138 0.7 0.460253
Target:  5'- -aCGGGggCGGCUGGUGGCGCggUGGg -3'
miRNA:   3'- agGCUUaaGCCGGUCGUCGCGuuGCU- -5'
11579 3' -54.6 NC_003085.1 + 22933 0.71 0.420777
Target:  5'- cUCCGAGgcCGcGUCGaCGGCGCGGCGAa -3'
miRNA:   3'- -AGGCUUaaGC-CGGUcGUCGCGUUGCU- -5'
11579 3' -54.6 NC_003085.1 + 3694 0.78 0.153729
Target:  5'- gUUgGGAUgCGGCCAcGCAGCGCGACGu -3'
miRNA:   3'- -AGgCUUAaGCCGGU-CGUCGCGUUGCu -5'
11579 3' -54.6 NC_003085.1 + 29093 0.74 0.278006
Target:  5'- cUCCGggUUgccCGGCguCAGCAGCgGCGACGc -3'
miRNA:   3'- -AGGCuuAA---GCCG--GUCGUCG-CGUUGCu -5'
11579 3' -54.6 NC_003085.1 + 26908 0.73 0.323549
Target:  5'- aCCGuc-UCGGCgGGCAGCGCcaugccugucAGCGAc -3'
miRNA:   3'- aGGCuuaAGCCGgUCGUCGCG----------UUGCU- -5'
11579 3' -54.6 NC_003085.1 + 48383 0.72 0.374427
Target:  5'- cCUGAGcgCGGCgAGCAGCGCcGCa- -3'
miRNA:   3'- aGGCUUaaGCCGgUCGUCGCGuUGcu -5'
11579 3' -54.6 NC_003085.1 + 26969 0.71 0.401821
Target:  5'- gUCCGAGcUCGGCCugcGCAGC-CGGCu- -3'
miRNA:   3'- -AGGCUUaAGCCGGu--CGUCGcGUUGcu -5'
11579 3' -54.6 NC_003085.1 + 27590 0.71 0.401821
Target:  5'- cCCGGccaGUUCGGCCAccuucggccugcGCGGUGUGugGAg -3'
miRNA:   3'- aGGCU---UAAGCCGGU------------CGUCGCGUugCU- -5'
11579 3' -54.6 NC_003085.1 + 34775 0.71 0.401821
Target:  5'- cUUCGggUUCGGCaggcGCAGUaCGACGAg -3'
miRNA:   3'- -AGGCuuAAGCCGgu--CGUCGcGUUGCU- -5'
11579 3' -54.6 NC_003085.1 + 42541 0.71 0.411232
Target:  5'- cCCGcuucgccUCGGCCAGC-GCGCgGGCGAg -3'
miRNA:   3'- aGGCuua----AGCCGGUCGuCGCG-UUGCU- -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.