miRNA display CGI


Results 1 - 13 of 13 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
12778 3' -58.3 NC_003387.1 + 11386 0.66 0.537611
Target:  5'- uUGCGGcgaucGGCGCCacgcuggccgcgaucGGCCCCgaggugcugUCGUCGGUg -3'
miRNA:   3'- cACGCC-----UUGUGG---------------CCGGGG---------AGUAGUCA- -5'
12778 3' -58.3 NC_003387.1 + 31349 0.66 0.532335
Target:  5'- -cGCGGGucgaacaGCACCGGCCagggcagCGUCGGc -3'
miRNA:   3'- caCGCCU-------UGUGGCCGGgga----GUAGUCa -5'
12778 3' -58.3 NC_003387.1 + 8056 0.66 0.512463
Target:  5'- -gGC-GAGCACCGgcaGCCCCUCGgcCAGg -3'
miRNA:   3'- caCGcCUUGUGGC---CGGGGAGUa-GUCa -5'
12778 3' -58.3 NC_003387.1 + 27340 0.66 0.502127
Target:  5'- --uCGGAGCACCaGGCCCUcaaCAUCAa- -3'
miRNA:   3'- cacGCCUUGUGG-CCGGGGa--GUAGUca -5'
12778 3' -58.3 NC_003387.1 + 24857 0.67 0.471694
Target:  5'- gGUGCGuGGugGCUGGCUcgaCCUCGggCGGUg -3'
miRNA:   3'- -CACGC-CUugUGGCCGG---GGAGUa-GUCA- -5'
12778 3' -58.3 NC_003387.1 + 38688 0.67 0.442222
Target:  5'- aGUGCGGGuGCGCCGGauuCUCCUCGg-GGUa -3'
miRNA:   3'- -CACGCCU-UGUGGCC---GGGGAGUagUCA- -5'
12778 3' -58.3 NC_003387.1 + 26846 0.68 0.413821
Target:  5'- -cGgGGAGCACCaGGCCgCUCGgcaacugCAGg -3'
miRNA:   3'- caCgCCUUGUGG-CCGGgGAGUa------GUCa -5'
12778 3' -58.3 NC_003387.1 + 47400 0.69 0.369072
Target:  5'- -cGCGGGGCaACCGGCCCCg------- -3'
miRNA:   3'- caCGCCUUG-UGGCCGGGGaguaguca -5'
12778 3' -58.3 NC_003387.1 + 8940 0.69 0.360529
Target:  5'- -aGCGGGcgACGCCGGUCCUggugUCGUCcuGGUa -3'
miRNA:   3'- caCGCCU--UGUGGCCGGGG----AGUAG--UCA- -5'
12778 3' -58.3 NC_003387.1 + 37531 0.7 0.297236
Target:  5'- -aGCGGccgGGCGCgGGCCuCCUCGUCGa- -3'
miRNA:   3'- caCGCC---UUGUGgCCGG-GGAGUAGUca -5'
12778 3' -58.3 NC_003387.1 + 16564 0.71 0.26897
Target:  5'- -gGCGGugAGCAuCCGGCCgaccgCCUCGUCGGg -3'
miRNA:   3'- caCGCC--UUGU-GGCCGG-----GGAGUAGUCa -5'
12778 3' -58.3 NC_003387.1 + 18915 0.72 0.224775
Target:  5'- -aGCGGGAUGCCcuGCgCCUCAUCGGg -3'
miRNA:   3'- caCGCCUUGUGGc-CGgGGAGUAGUCa -5'
12778 3' -58.3 NC_003387.1 + 50198 1.07 0.000659
Target:  5'- cGUGCGGAACACCGGCCCCUCAUCAGUc -3'
miRNA:   3'- -CACGCCUUGUGGCCGGGGAGUAGUCA- -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.