miRNA display CGI


Results 1 - 9 of 9 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
20761 5' -48.6 NC_004689.1 + 12771 0.67 0.982749
Target:  5'- cGGGAugccUCGGAACA----CGUCUCCc -3'
miRNA:   3'- aCUCUu---AGCCUUGUcuuaGCAGAGGc -5'
20761 5' -48.6 NC_004689.1 + 65556 0.67 0.978051
Target:  5'- gGAGAacAUCGGcguguagauuucGACGGcggUGUCUCCGg -3'
miRNA:   3'- aCUCU--UAGCC------------UUGUCuuaGCAGAGGC- -5'
20761 5' -48.6 NC_004689.1 + 3917 0.67 0.972469
Target:  5'- gGAGGguAUCGGGGCAGAGUC--CUCg- -3'
miRNA:   3'- aCUCU--UAGCCUUGUCUUAGcaGAGgc -5'
20761 5' -48.6 NC_004689.1 + 262 0.68 0.969323
Target:  5'- --cGGAUCGGAGCGGAAUUcugCUCgGc -3'
miRNA:   3'- acuCUUAGCCUUGUCUUAGca-GAGgC- -5'
20761 5' -48.6 NC_004689.1 + 27656 0.68 0.958364
Target:  5'- gUGAG-GUCGc-GCAGGG-CGUCUCCGa -3'
miRNA:   3'- -ACUCuUAGCcuUGUCUUaGCAGAGGC- -5'
20761 5' -48.6 NC_004689.1 + 31950 0.7 0.925561
Target:  5'- uUGAGAAUCGGAaccgcaccgcgcauuGCGGAuUCGaUgUCCu -3'
miRNA:   3'- -ACUCUUAGCCU---------------UGUCUuAGC-AgAGGc -5'
20761 5' -48.6 NC_004689.1 + 17168 0.7 0.903791
Target:  5'- -cAGGAUCGGcgGGCAgGGAUCGcUCUCCa -3'
miRNA:   3'- acUCUUAGCC--UUGU-CUUAGC-AGAGGc -5'
20761 5' -48.6 NC_004689.1 + 58888 0.71 0.889454
Target:  5'- gGGGAugGUCGGGcCGGGAUCGUCgUgCGg -3'
miRNA:   3'- aCUCU--UAGCCUuGUCUUAGCAG-AgGC- -5'
20761 5' -48.6 NC_004689.1 + 4664 1.1 0.006779
Target:  5'- aUGAGAAUCGGAACAGAAUCGUCUCCGc -3'
miRNA:   3'- -ACUCUUAGCCUUGUCUUAGCAGAGGC- -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.