miRNA display CGI


Results 1 - 8 of 8 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
1270 3' -57.2 NC_001317.1 + 17342 0.66 0.433661
Target:  5'- --aGCAGCGCUGCGuuuuccuccaucgUGCgCCGGUuUGa -3'
miRNA:   3'- uugCGUCGUGACGU-------------GCG-GGCCAuACc -5'
1270 3' -57.2 NC_001317.1 + 9561 0.67 0.37697
Target:  5'- -gUGCAGUACgagGCGCGCCCGu----- -3'
miRNA:   3'- uuGCGUCGUGa--CGUGCGGGCcauacc -5'
1270 3' -57.2 NC_001317.1 + 1 0.67 0.350122
Target:  5'- GGCGUggcggggaaAGCAUUGCGCGCCagaGGUGg-- -3'
miRNA:   3'- UUGCG---------UCGUGACGUGCGGg--CCAUacc -5'
1270 3' -57.2 NC_001317.1 + 17492 0.68 0.306883
Target:  5'- -uCGguGCACUGCACGaugccaaaaucaCCGGgucaAUGGc -3'
miRNA:   3'- uuGCguCGUGACGUGCg-----------GGCCa---UACC- -5'
1270 3' -57.2 NC_001317.1 + 2612 0.68 0.300605
Target:  5'- gAGCuGCAGCGCUGCAUGgUCGacgugAUGGa -3'
miRNA:   3'- -UUG-CGUCGUGACGUGCgGGCca---UACC- -5'
1270 3' -57.2 NC_001317.1 + 17298 0.7 0.212222
Target:  5'- aAACGCAGCGCUGC-UGaCCGGgAUGa -3'
miRNA:   3'- -UUGCGUCGUGACGuGCgGGCCaUACc -5'
1270 3' -57.2 NC_001317.1 + 6284 0.74 0.127336
Target:  5'- cGCGCAGCGcCUGCGCGaugCCGGUGa-- -3'
miRNA:   3'- uUGCGUCGU-GACGUGCg--GGCCAUacc -5'
1270 3' -57.2 NC_001317.1 + 24842 1.07 0.000367
Target:  5'- uAACGCAGCACUGCACGCCCGGUAUGGc -3'
miRNA:   3'- -UUGCGUCGUGACGUGCGGGCCAUACC- -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.