miRNA display CGI


Results 1 - 20 of 55 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
2789 3' -53 NC_001491.2 + 2563 0.79 0.390498
Target:  5'- cCAGACGCGCCCcuccaccgugugguACGGCAG-AGUCGCa -3'
miRNA:   3'- uGUUUGUGCGGG--------------UGCCGUUgUCAGUG- -5'
2789 3' -53 NC_001491.2 + 40111 0.75 0.586626
Target:  5'- cGCAGACACggacgcugcgacuGCCCGCuGCG-CAGUCGCg -3'
miRNA:   3'- -UGUUUGUG-------------CGGGUGcCGUuGUCAGUG- -5'
2789 3' -53 NC_001491.2 + 146924 0.74 0.608672
Target:  5'- -uGAACACGgCCugGGUGACGGUC-Ca -3'
miRNA:   3'- ugUUUGUGCgGGugCCGUUGUCAGuG- -5'
2789 3' -53 NC_001491.2 + 31017 0.74 0.619204
Target:  5'- cGCGAGCuguGCGCCCugGGgCuGCAGUCuGCg -3'
miRNA:   3'- -UGUUUG---UGCGGGugCC-GuUGUCAG-UG- -5'
2789 3' -53 NC_001491.2 + 85988 0.74 0.629746
Target:  5'- uCAAACGCGgCCacggGCGGCGGCGuGUCGCc -3'
miRNA:   3'- uGUUUGUGCgGG----UGCCGUUGU-CAGUG- -5'
2789 3' -53 NC_001491.2 + 115998 0.73 0.681262
Target:  5'- cCAGACaaACGCCCGCucccgggGGCAGCAG-CACc -3'
miRNA:   3'- uGUUUG--UGCGGGUG-------CCGUUGUCaGUG- -5'
2789 3' -53 NC_001491.2 + 23258 0.73 0.692725
Target:  5'- aACGGGCGCGCgCCGCcuGGCGGCAacUCACa -3'
miRNA:   3'- -UGUUUGUGCG-GGUG--CCGUUGUc-AGUG- -5'
2789 3' -53 NC_001491.2 + 123515 0.73 0.712363
Target:  5'- cGCGGGCGCGCagguacgCCGCGGCGGCugcGUgGCg -3'
miRNA:   3'- -UGUUUGUGCG-------GGUGCCGUUGu--CAgUG- -5'
2789 3' -53 NC_001491.2 + 101838 0.71 0.782876
Target:  5'- uCAAGCGCGCCCcCGGCGcgACcGUcCACc -3'
miRNA:   3'- uGUUUGUGCGGGuGCCGU--UGuCA-GUG- -5'
2789 3' -53 NC_001491.2 + 139696 0.71 0.801586
Target:  5'- uACcuGCGCGCCCGCGGCcGCAa--GCu -3'
miRNA:   3'- -UGuuUGUGCGGGUGCCGuUGUcagUG- -5'
2789 3' -53 NC_001491.2 + 121560 0.71 0.810701
Target:  5'- cGCGGGCACGCgCACGGCGuCGaugCGCu -3'
miRNA:   3'- -UGUUUGUGCGgGUGCCGUuGUca-GUG- -5'
2789 3' -53 NC_001491.2 + 97588 0.7 0.819645
Target:  5'- uACGAucGC-CGCCCGCGGagaGACguGGUCGCc -3'
miRNA:   3'- -UGUU--UGuGCGGGUGCCg--UUG--UCAGUG- -5'
2789 3' -53 NC_001491.2 + 148363 0.7 0.827539
Target:  5'- uACAGGCGCGCgaaCGCGGCcucggcccucgcgAACAGUC-Cg -3'
miRNA:   3'- -UGUUUGUGCGg--GUGCCG-------------UUGUCAGuG- -5'
2789 3' -53 NC_001491.2 + 72554 0.7 0.828407
Target:  5'- uCAAACugGUCCAUGGCcAC-GUCAg -3'
miRNA:   3'- uGUUUGugCGGGUGCCGuUGuCAGUg -5'
2789 3' -53 NC_001491.2 + 104205 0.7 0.83698
Target:  5'- cACAGACGCGCCUggaaucagcuugGCGGUgagAGCGGcCAUg -3'
miRNA:   3'- -UGUUUGUGCGGG------------UGCCG---UUGUCaGUG- -5'
2789 3' -53 NC_001491.2 + 137741 0.7 0.856735
Target:  5'- gGCGGGCggcggGCGCCCGCggguccccggggcggGGCGGC-GUCGCg -3'
miRNA:   3'- -UGUUUG-----UGCGGGUG---------------CCGUUGuCAGUG- -5'
2789 3' -53 NC_001491.2 + 144889 0.69 0.86922
Target:  5'- cCGGGgACGCCggCugGGCGGCAGcCGCc -3'
miRNA:   3'- uGUUUgUGCGG--GugCCGUUGUCaGUG- -5'
2789 3' -53 NC_001491.2 + 37621 0.69 0.86922
Target:  5'- ---cACugGCCCugacuuguGCGGCAGCGGgugcCACa -3'
miRNA:   3'- uguuUGugCGGG--------UGCCGUUGUCa---GUG- -5'
2789 3' -53 NC_001491.2 + 81516 0.69 0.86922
Target:  5'- cGCuGGgAUGCCCACGGguUAACGGUgGCg -3'
miRNA:   3'- -UGuUUgUGCGGGUGCC--GUUGUCAgUG- -5'
2789 3' -53 NC_001491.2 + 146506 0.69 0.876732
Target:  5'- aGCGGcCGCGgCCGCGGCAGCcuugcGUCGg -3'
miRNA:   3'- -UGUUuGUGCgGGUGCCGUUGu----CAGUg -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.