miRNA display CGI


Results 1 - 20 of 68 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
13963 3' -61.3 NC_003521.1 + 166271 0.66 0.803276
Target:  5'- -cGCCCUcagacauacuuguccACCacguaCGAGGGCUcCACCa- -3'
miRNA:   3'- gaCGGGA---------------UGGg----GCUCCCGAuGUGGga -5'
13963 3' -61.3 NC_003521.1 + 18955 0.66 0.803276
Target:  5'- -cGCCCUACCCagcgacaacgaggaGGGGGUcgaggACGCgCCg -3'
miRNA:   3'- gaCGGGAUGGGg-------------CUCCCGa----UGUG-GGa -5'
13963 3' -61.3 NC_003521.1 + 112494 0.66 0.799912
Target:  5'- cCUGUaCCUG-CCCGAGgaccgcGGCUACACCa- -3'
miRNA:   3'- -GACG-GGAUgGGGCUC------CCGAUGUGGga -5'
13963 3' -61.3 NC_003521.1 + 208880 0.66 0.792264
Target:  5'- gUGCCUguuccuggACCCCGAGGaGCgcgaggucaucgcgcGCugCCUg -3'
miRNA:   3'- gACGGGa-------UGGGGCUCC-CGa--------------UGugGGA- -5'
13963 3' -61.3 NC_003521.1 + 16190 0.66 0.791408
Target:  5'- cCUGUCCgagugcugGCCCuuCGAGguGGCgGCGCCCUg -3'
miRNA:   3'- -GACGGGa-------UGGG--GCUC--CCGaUGUGGGA- -5'
13963 3' -61.3 NC_003521.1 + 153489 0.66 0.791408
Target:  5'- aUGCCCUugCCgCGca-GCUGCGCCUc -3'
miRNA:   3'- gACGGGAugGG-GCuccCGAUGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 170603 0.66 0.788832
Target:  5'- -aGCCCUGCUgcgcgccaagcgcuUCGAGGGCcg-ACCCg -3'
miRNA:   3'- gaCGGGAUGG--------------GGCUCCCGaugUGGGa -5'
13963 3' -61.3 NC_003521.1 + 127715 0.66 0.782777
Target:  5'- -cGCaCCUGgCCCGAGagccGCUccuGCACCCg -3'
miRNA:   3'- gaCG-GGAUgGGGCUCc---CGA---UGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 204504 0.66 0.782777
Target:  5'- aUGUCCccacGCCCCGAcugaGGG-UGCGCCCc -3'
miRNA:   3'- gACGGGa---UGGGGCU----CCCgAUGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 66610 0.66 0.774026
Target:  5'- cCUGCCCgacccgcgcgACCCCaacguGGGCgcgucGCACCUg -3'
miRNA:   3'- -GACGGGa---------UGGGGcu---CCCGa----UGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 170561 0.66 0.774026
Target:  5'- cCUGCgCCUG-CCCGu--GCUGCACCCc -3'
miRNA:   3'- -GACG-GGAUgGGGCuccCGAUGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 16803 0.66 0.774026
Target:  5'- -cGCCC-GCCCCGAccgccGGGCccgccGCugCCg -3'
miRNA:   3'- gaCGGGaUGGGGCU-----CCCGa----UGugGGa -5'
13963 3' -61.3 NC_003521.1 + 5910 0.66 0.765162
Target:  5'- aCUGCUgUACCgCGAGGGgCUACGaugacgguUCCg -3'
miRNA:   3'- -GACGGgAUGGgGCUCCC-GAUGU--------GGGa -5'
13963 3' -61.3 NC_003521.1 + 232554 0.66 0.765162
Target:  5'- gUGgCCUACUaCGGGGGCUGCugUg- -3'
miRNA:   3'- gACgGGAUGGgGCUCCCGAUGugGga -5'
13963 3' -61.3 NC_003521.1 + 55630 0.66 0.765162
Target:  5'- -gGCCC-ACaCCGAGGGCgucACGCuCCa -3'
miRNA:   3'- gaCGGGaUGgGGCUCCCGa--UGUG-GGa -5'
13963 3' -61.3 NC_003521.1 + 60734 0.66 0.765162
Target:  5'- gCUGCCCU-CCCUGgacGGGGUgACGCgCa -3'
miRNA:   3'- -GACGGGAuGGGGC---UCCCGaUGUGgGa -5'
13963 3' -61.3 NC_003521.1 + 205590 0.66 0.764269
Target:  5'- gUGCCgUcucgcGCCCCGAGGacGCUcgauccgacccgcGCGCCCc -3'
miRNA:   3'- gACGGgA-----UGGGGCUCC--CGA-------------UGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 35969 0.66 0.756193
Target:  5'- gUGCCCgagaUCCGGGuGGaCUACACCUc -3'
miRNA:   3'- gACGGGaug-GGGCUC-CC-GAUGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 138846 0.67 0.747127
Target:  5'- -gGCCUgcgGCCa-GAuGGGCUGCACCUUc -3'
miRNA:   3'- gaCGGGa--UGGggCU-CCCGAUGUGGGA- -5'
13963 3' -61.3 NC_003521.1 + 112979 0.67 0.747127
Target:  5'- cCUGCCCgacgggcugGCgCCGGGGcccuuccacgaGCUGCGCgCCUg -3'
miRNA:   3'- -GACGGGa--------UGgGGCUCC-----------CGAUGUG-GGA- -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.