miRNA display CGI


Results 1 - 20 of 31 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
30567 5' -62.6 NC_006548.1 + 28607 0.66 0.267393
Target:  5'- cGGGuaGCGCcgcGACCuGGCCGGcGCCGa -3'
miRNA:   3'- aCCUgcCGCGua-CUGG-CCGGUC-CGGU- -5'
30567 5' -62.6 NC_006548.1 + 15978 0.66 0.263387
Target:  5'- cGGACcuugugguccuccauGGCGCcgcgGAUUGGgUAGGCCAg -3'
miRNA:   3'- aCCUG---------------CCGCGua--CUGGCCgGUCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 27351 0.66 0.247849
Target:  5'- aGGAgCGGCaguugaccgaGCAUuuCCGGgCGGGCCGu -3'
miRNA:   3'- aCCU-GCCG----------CGUAcuGGCCgGUCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 36874 0.66 0.247849
Target:  5'- cGGccaGGCGCAUaaGGCCGcGCCuGGCg- -3'
miRNA:   3'- aCCug-CCGCGUA--CUGGC-CGGuCCGgu -5'
30567 5' -62.6 NC_006548.1 + 20079 0.67 0.234883
Target:  5'- aGGcCGGCGCAuugagcuuggggUGGCCGaugacgaGCgGGGCCu -3'
miRNA:   3'- aCCuGCCGCGU------------ACUGGC-------CGgUCCGGu -5'
30567 5' -62.6 NC_006548.1 + 5567 0.67 0.217919
Target:  5'- --uAC-GCGCA-GGCCaGGCCGGGCCGg -3'
miRNA:   3'- accUGcCGCGUaCUGG-CCGGUCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 12405 0.67 0.212317
Target:  5'- cUGGuuGGUGCcgagggcGGCCGGauaCAGGCCGg -3'
miRNA:   3'- -ACCugCCGCGua-----CUGGCCg--GUCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 29882 0.67 0.206839
Target:  5'- uUGGGCuGCGCugcAUGACUGGuCCGGcGCUg -3'
miRNA:   3'- -ACCUGcCGCG---UACUGGCC-GGUC-CGGu -5'
30567 5' -62.6 NC_006548.1 + 984 0.67 0.206298
Target:  5'- gGGuCGGCGCggGAucucaacCUGcGCCAGGCUg -3'
miRNA:   3'- aCCuGCCGCGuaCU-------GGC-CGGUCCGGu -5'
30567 5' -62.6 NC_006548.1 + 32392 0.68 0.201483
Target:  5'- -cGAUGGCaucaGCcUGGCCGGCCAG-CCGu -3'
miRNA:   3'- acCUGCCG----CGuACUGGCCGGUCcGGU- -5'
30567 5' -62.6 NC_006548.1 + 6862 0.68 0.201483
Target:  5'- cGGAUGcaggcuGCGCAguucggUGACCGGCUccGGcGCCAa -3'
miRNA:   3'- aCCUGC------CGCGU------ACUGGCCGG--UC-CGGU- -5'
30567 5' -62.6 NC_006548.1 + 26338 0.68 0.191134
Target:  5'- cUGGAuguCGGUcaGCGUuuCCGGCCGGGUCu -3'
miRNA:   3'- -ACCU---GCCG--CGUAcuGGCCGGUCCGGu -5'
30567 5' -62.6 NC_006548.1 + 37333 0.68 0.188121
Target:  5'- aGG--GGCGCGUcGCCacgcugccgacuagcGGCCAGGCCGa -3'
miRNA:   3'- aCCugCCGCGUAcUGG---------------CCGGUCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 36894 0.68 0.186136
Target:  5'- -cGugGGCGCAccgcaACCGGCugcugCAGGCCGu -3'
miRNA:   3'- acCugCCGCGUac---UGGCCG-----GUCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 13963 0.68 0.181253
Target:  5'- aGGGCuucGCGCcgGGucUUGGCCAGGUCAa -3'
miRNA:   3'- aCCUGc--CGCGuaCU--GGCCGGUCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 24383 0.69 0.158511
Target:  5'- uUGGGCaGGCGCuc-GCCGGCCcagacccGGCCc -3'
miRNA:   3'- -ACCUG-CCGCGuacUGGCCGGu------CCGGu -5'
30567 5' -62.6 NC_006548.1 + 12581 0.69 0.154283
Target:  5'- cUGGuCGGCGCcgGAU--GCCgAGGCCAg -3'
miRNA:   3'- -ACCuGCCGCGuaCUGgcCGG-UCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 6506 0.69 0.150158
Target:  5'- aGGGCGGCGCGgguuACgGGCUcGGUCGa -3'
miRNA:   3'- aCCUGCCGCGUac--UGgCCGGuCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 21255 0.7 0.134643
Target:  5'- ---cCGGCaGCcUGGgCGGCCAGGCCGu -3'
miRNA:   3'- accuGCCG-CGuACUgGCCGGUCCGGU- -5'
30567 5' -62.6 NC_006548.1 + 20401 0.7 0.134643
Target:  5'- -aGGCGGCGCAgGAucUCGGUCAGaGCCGu -3'
miRNA:   3'- acCUGCCGCGUaCU--GGCCGGUC-CGGU- -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.