miRNA display CGI


Results 1 - 20 of 40 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
23281 5' -57.4 NC_005259.1 + 8823 0.69 0.498217
Target:  5'- cCGGGCCGGuGAguugacgcgcuGCGCCGAccAC-CACAGc -3'
miRNA:   3'- -GCUCGGCC-CU-----------UGCGGCU--UGcGUGUCu -5'
23281 5' -57.4 NC_005259.1 + 12559 0.66 0.707057
Target:  5'- --uGCCGGGGugGCC---CGC-CAGAu -3'
miRNA:   3'- gcuCGGCCCUugCGGcuuGCGuGUCU- -5'
23281 5' -57.4 NC_005259.1 + 13419 0.69 0.518349
Target:  5'- -uGGCCGGGGucgcCGCCGGGgcCGCGCuAGGc -3'
miRNA:   3'- gcUCGGCCCUu---GCGGCUU--GCGUG-UCU- -5'
23281 5' -57.4 NC_005259.1 + 15703 0.68 0.538797
Target:  5'- uCGAGCCGGucacGAugGCCaacauGGCGCGCGa- -3'
miRNA:   3'- -GCUCGGCC----CUugCGGc----UUGCGUGUcu -5'
23281 5' -57.4 NC_005259.1 + 17769 0.66 0.654543
Target:  5'- gCGcGCCGG----GCCGAGCGCACcGAg -3'
miRNA:   3'- -GCuCGGCCcuugCGGCUUGCGUGuCU- -5'
23281 5' -57.4 NC_005259.1 + 19875 0.71 0.394747
Target:  5'- --cGCCGGGAuCGCCGAcgcCGCGCccaAGAu -3'
miRNA:   3'- gcuCGGCCCUuGCGGCUu--GCGUG---UCU- -5'
23281 5' -57.4 NC_005259.1 + 20454 0.71 0.403575
Target:  5'- aCGAGCCGGGGugGCuCGGAUGacCGCc-- -3'
miRNA:   3'- -GCUCGGCCCUugCG-GCUUGC--GUGucu -5'
23281 5' -57.4 NC_005259.1 + 20524 0.66 0.707057
Target:  5'- cCGAGCaCGGGuGCGCUGcccgcAGCGUGguGGa -3'
miRNA:   3'- -GCUCG-GCCCuUGCGGC-----UUGCGUguCU- -5'
23281 5' -57.4 NC_005259.1 + 20665 0.67 0.612123
Target:  5'- gGGGCCGaGGACGCCauGAugugguCGCACGGc -3'
miRNA:   3'- gCUCGGCcCUUGCGG--CUu-----GCGUGUCu -5'
23281 5' -57.4 NC_005259.1 + 21226 0.7 0.421601
Target:  5'- cCGAGCCGaGuACGCCucggcAGCGCGCGGGu -3'
miRNA:   3'- -GCUCGGCcCuUGCGGc----UUGCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 25352 1.09 0.000988
Target:  5'- cCGAGCCGGGAACGCCGAACGCACAGAc -3'
miRNA:   3'- -GCUCGGCCCUUGCGGCUUGCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 25978 0.69 0.488282
Target:  5'- uGAGaCCGGGcAGCGCCGAG-GUgaacaACGGAa -3'
miRNA:   3'- gCUC-GGCCC-UUGCGGCUUgCG-----UGUCU- -5'
23281 5' -57.4 NC_005259.1 + 27475 0.67 0.639701
Target:  5'- gGGGCCGGGGucgguguggccacCGCCccACGCGCcGAg -3'
miRNA:   3'- gCUCGGCCCUu------------GCGGcuUGCGUGuCU- -5'
23281 5' -57.4 NC_005259.1 + 27893 0.67 0.601537
Target:  5'- aCGAuccacCUGGGGuCGCCGAGacCGCGCGGGu -3'
miRNA:   3'- -GCUc----GGCCCUuGCGGCUU--GCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 28007 0.71 0.386044
Target:  5'- cCGGGgCGGGGuCGCCGGgguuGCGCGCGu- -3'
miRNA:   3'- -GCUCgGCCCUuGCGGCU----UGCGUGUcu -5'
23281 5' -57.4 NC_005259.1 + 31073 0.66 0.707057
Target:  5'- uCGGGUCGGcGAGguucCCGAGCGCGuCGGGg -3'
miRNA:   3'- -GCUCGGCC-CUUgc--GGCUUGCGU-GUCU- -5'
23281 5' -57.4 NC_005259.1 + 32566 0.67 0.587812
Target:  5'- gCGAGCgCGGGGauaGCGuuGGgcagcgguuuacgcGCGUGCAGGa -3'
miRNA:   3'- -GCUCG-GCCCU---UGCggCU--------------UGCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 33987 0.66 0.654543
Target:  5'- uGAGCCGGGuauGCGgUGAGCuGCAacCGGc -3'
miRNA:   3'- gCUCGGCCCu--UGCgGCUUG-CGU--GUCu -5'
23281 5' -57.4 NC_005259.1 + 44458 0.66 0.665122
Target:  5'- uGAGaCCGGGGAUGCCGc-CGCcCuGGc -3'
miRNA:   3'- gCUC-GGCCCUUGCGGCuuGCGuGuCU- -5'
23281 5' -57.4 NC_005259.1 + 45383 0.72 0.320362
Target:  5'- cCGAGgaauuucUCGGGGucgcCGCCGAGCGCGCuGAu -3'
miRNA:   3'- -GCUC-------GGCCCUu---GCGGCUUGCGUGuCU- -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.