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 + 20524 0.66 0.707057
Target:  5'- cCGAGCaCGGGuGCGCUGcccgcAGCGUGguGGa -3'
miRNA:   3'- -GCUCG-GCCCuUGCGGC-----UUGCGUguCU- -5'
23281 5' -57.4 NC_005259.1 + 45630 0.69 0.488282
Target:  5'- cCGGGCCGGGcagcGCGCCGGugcCGC-CGuGAa -3'
miRNA:   3'- -GCUCGGCCCu---UGCGGCUu--GCGuGU-CU- -5'
23281 5' -57.4 NC_005259.1 + 67428 0.69 0.488282
Target:  5'- gGuGCCGGGcucACGCuUGAGCGCGuCGGGg -3'
miRNA:   3'- gCuCGGCCCu--UGCG-GCUUGCGU-GUCU- -5'
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 + 13419 0.69 0.518349
Target:  5'- -uGGCCGGGGucgcCGCCGGGgcCGCGCuAGGc -3'
miRNA:   3'- gcUCGGCCCUu---GCGGCUU--GCGUG-UCU- -5'
23281 5' -57.4 NC_005259.1 + 48602 0.68 0.528537
Target:  5'- uCGAGCgCGGGcgcuacCGCCGuGCGCACu-- -3'
miRNA:   3'- -GCUCG-GCCCuu----GCGGCuUGCGUGucu -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 + 50445 0.68 0.538797
Target:  5'- gCGGGCuCGGGGuCGCCGGucuCGCugAu- -3'
miRNA:   3'- -GCUCG-GCCCUuGCGGCUu--GCGugUcu -5'
23281 5' -57.4 NC_005259.1 + 51492 0.68 0.549125
Target:  5'- --cGCCGGGGAuaggucgacgcCGCCGAucucgACGCGCGuGAc -3'
miRNA:   3'- gcuCGGCCCUU-----------GCGGCU-----UGCGUGU-CU- -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 + 21226 0.7 0.421601
Target:  5'- cCGAGCCGaGuACGCCucggcAGCGCGCGGGu -3'
miRNA:   3'- -GCUCGGCcCuUGCGGc----UUGCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 57761 0.7 0.421601
Target:  5'- gCGAGCCGcGAGCGCCugcuGAaucuGCGCGuCGGAg -3'
miRNA:   3'- -GCUCGGCcCUUGCGG----CU----UGCGU-GUCU- -5'
23281 5' -57.4 NC_005259.1 + 55430 0.78 0.135206
Target:  5'- cCGAGCCGacGACGCCGAcgaacGCGUACAGGg -3'
miRNA:   3'- -GCUCGGCccUUGCGGCU-----UGCGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 45383 0.72 0.320362
Target:  5'- cCGAGgaauuucUCGGGGucgcCGCCGAGCGCGCuGAu -3'
miRNA:   3'- -GCUC-------GGCCCUu---GCGGCUUGCGUGuCU- -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 + 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 + 50392 0.71 0.412527
Target:  5'- aCGuGUCGcGGcuCGCCGAGCGCGCcGGu -3'
miRNA:   3'- -GCuCGGC-CCuuGCGGCUUGCGUGuCU- -5'
23281 5' -57.4 NC_005259.1 + 60592 0.71 0.412527
Target:  5'- gCGAGUCGGGugcCGUcauCGAGCaGCACAGGc -3'
miRNA:   3'- -GCUCGGCCCuu-GCG---GCUUG-CGUGUCU- -5'
23281 5' -57.4 NC_005259.1 + 63658 0.71 0.416142
Target:  5'- -uGGCCGGG-ACGCCGGacaccucgggcaccgGCGCGcCGGGg -3'
miRNA:   3'- gcUCGGCCCuUGCGGCU---------------UGCGU-GUCU- -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.