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 + 236596 0.69 0.633538
Target:  5'- -aGCCa-GCCUCG-GGGCUccgACACCCUu -3'
miRNA:   3'- gaCGGgaUGGGGCuCCCGA---UGUGGGA- -5'
13963 3' -61.3 NC_003521.1 + 234658 0.7 0.528781
Target:  5'- uCUGCgCCUgGCCCCGccaGGGGUUGCugCUc -3'
miRNA:   3'- -GACG-GGA-UGGGGC---UCCCGAUGugGGa -5'
13963 3' -61.3 NC_003521.1 + 234284 0.74 0.350582
Target:  5'- -cGCCCUGCCCUG-GGGCgggacgcagacCGCCCUc -3'
miRNA:   3'- gaCGGGAUGGGGCuCCCGau---------GUGGGA- -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 + 222095 0.7 0.516753
Target:  5'- -cGCCCUGCagcgccggcagcguCUCGAGGcGCUGCGCCg- -3'
miRNA:   3'- gaCGGGAUG--------------GGGCUCC-CGAUGUGGga -5'
13963 3' -61.3 NC_003521.1 + 210260 1.07 0.001909
Target:  5'- cCUGCCCUACCCCGAGGGCUACACCCUg -3'
miRNA:   3'- -GACGGGAUGGGGCUCCCGAUGUGGGA- -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 + 205590 0.66 0.764269
Target:  5'- gUGCCgUcucgcGCCCCGAGGacGCUcgauccgacccgcGCGCCCc -3'
miRNA:   3'- gACGGgA-----UGGGGCUCC--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 + 202550 0.68 0.662428
Target:  5'- gCUGCgCgccgGCCuCCuGGGGCUGCugACCCUg -3'
miRNA:   3'- -GACGgGa---UGG-GGcUCCCGAUG--UGGGA- -5'
13963 3' -61.3 NC_003521.1 + 200010 0.68 0.65281
Target:  5'- -gGCCCcGCCCCGAGGcgaauaGCUgaccGCGCCg- -3'
miRNA:   3'- gaCGGGaUGGGGCUCC------CGA----UGUGGga -5'
13963 3' -61.3 NC_003521.1 + 193403 0.76 0.242651
Target:  5'- gUGCCCUGgCCCGAGcgauGCUACAUCCa -3'
miRNA:   3'- gACGGGAUgGGGCUCc---CGAUGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 171532 0.67 0.710046
Target:  5'- -cGCCCUGugUCG-GGGCUGCGCgCUg -3'
miRNA:   3'- gaCGGGAUggGGCuCCCGAUGUGgGA- -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 + 170561 0.66 0.774026
Target:  5'- cCUGCgCCUG-CCCGu--GCUGCACCCc -3'
miRNA:   3'- -GACG-GGAUgGGGCuccCGAUGUGGGa -5'
13963 3' -61.3 NC_003521.1 + 170470 0.67 0.737972
Target:  5'- -gGCUCUACCCCGccGacaaGCUcaACGCCCUg -3'
miRNA:   3'- gaCGGGAUGGGGCucC----CGA--UGUGGGA- -5'
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 + 164986 0.69 0.595032
Target:  5'- -cGCCCaucuuCCCCGAGGGCgagauCGgCCg -3'
miRNA:   3'- gaCGGGau---GGGGCUCCCGau---GUgGGa -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 + 152357 0.68 0.681591
Target:  5'- gCUGCUCUgggGCCggCCG-GGGCggcGCGCCCUc -3'
miRNA:   3'- -GACGGGA---UGG--GGCuCCCGa--UGUGGGA- -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.