miRNA display CGI


Results 1 - 20 of 46 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
23416 3' -54 NC_005259.1 + 50786 0.66 0.857656
Target:  5'- gCGCugGUagUCggACCaucgagguucuuguUCGgUCAGCGCGCa -3'
miRNA:   3'- gGCGugCA--AG--UGG--------------AGCgAGUUGCGUG- -5'
23416 3' -54 NC_005259.1 + 51523 0.66 0.856835
Target:  5'- aCGCGCGUg-ACCUCGUgcacggggccgggCAAgUGCACg -3'
miRNA:   3'- gGCGUGCAagUGGAGCGa------------GUU-GCGUG- -5'
23416 3' -54 NC_005259.1 + 40731 0.66 0.851857
Target:  5'- aCCGCAgccccUGgcuaUUCAUgUCGCUCAACGUc- -3'
miRNA:   3'- -GGCGU-----GC----AAGUGgAGCGAGUUGCGug -5'
23416 3' -54 NC_005259.1 + 9465 0.66 0.851857
Target:  5'- uCCGCACGgUCACgUCaGUguuguCGCGCa -3'
miRNA:   3'- -GGCGUGCaAGUGgAG-CGaguu-GCGUG- -5'
23416 3' -54 NC_005259.1 + 3728 0.66 0.85102
Target:  5'- uCCGCACccUCACCggUCGCacgaccuaucaggUCGACaGCGCc -3'
miRNA:   3'- -GGCGUGcaAGUGG--AGCG-------------AGUUG-CGUG- -5'
23416 3' -54 NC_005259.1 + 43774 0.66 0.843383
Target:  5'- -aGCACGUacUCGCCggGCaugagCAGCGCGg -3'
miRNA:   3'- ggCGUGCA--AGUGGagCGa----GUUGCGUg -5'
23416 3' -54 NC_005259.1 + 36239 0.66 0.843383
Target:  5'- gCCaGCGCGagCGCCUgCGUcggCAGCGcCACg -3'
miRNA:   3'- -GG-CGUGCaaGUGGA-GCGa--GUUGC-GUG- -5'
23416 3' -54 NC_005259.1 + 42631 0.66 0.843383
Target:  5'- gUCGCGCGUaggCACCUCgGCccCGAUGUggGCg -3'
miRNA:   3'- -GGCGUGCAa--GUGGAG-CGa-GUUGCG--UG- -5'
23416 3' -54 NC_005259.1 + 23219 0.66 0.843383
Target:  5'- -aGgACGggUACCgucCGCUCGACGC-Ca -3'
miRNA:   3'- ggCgUGCaaGUGGa--GCGAGUUGCGuG- -5'
23416 3' -54 NC_005259.1 + 56664 0.66 0.834691
Target:  5'- aCCGCGCG-UCACgg-GCUCGuUGCGCc -3'
miRNA:   3'- -GGCGUGCaAGUGgagCGAGUuGCGUG- -5'
23416 3' -54 NC_005259.1 + 40289 0.66 0.825792
Target:  5'- aCCGCGCcc-UGCCgaCGCUCAACGUcgACa -3'
miRNA:   3'- -GGCGUGcaaGUGGa-GCGAGUUGCG--UG- -5'
23416 3' -54 NC_005259.1 + 40801 0.66 0.825792
Target:  5'- gUCGUAgCGgUCAcCCUCGgggUCGACGCGCa -3'
miRNA:   3'- -GGCGU-GCaAGU-GGAGCg--AGUUGCGUG- -5'
23416 3' -54 NC_005259.1 + 62009 0.66 0.825792
Target:  5'- aCCGUGCGgugUACC-CGCUC-GCGCu- -3'
miRNA:   3'- -GGCGUGCaa-GUGGaGCGAGuUGCGug -5'
23416 3' -54 NC_005259.1 + 36054 0.67 0.816694
Target:  5'- cCCGCGCGagCACCaccugcugugUGCUCGuCGCGg -3'
miRNA:   3'- -GGCGUGCaaGUGGa---------GCGAGUuGCGUg -5'
23416 3' -54 NC_005259.1 + 26648 0.67 0.816694
Target:  5'- gCGUGCGcUCGgCagGUUCGGCGCACc -3'
miRNA:   3'- gGCGUGCaAGUgGagCGAGUUGCGUG- -5'
23416 3' -54 NC_005259.1 + 2763 0.67 0.816694
Target:  5'- -aGUACGacCACCUCcccgaGC-CGACGCACc -3'
miRNA:   3'- ggCGUGCaaGUGGAG-----CGaGUUGCGUG- -5'
23416 3' -54 NC_005259.1 + 31020 0.67 0.807406
Target:  5'- uCCaCACGUgaucgugccgaUCACCUCGCcgAACGCGu -3'
miRNA:   3'- -GGcGUGCA-----------AGUGGAGCGagUUGCGUg -5'
23416 3' -54 NC_005259.1 + 50528 0.67 0.807406
Target:  5'- cUCGaCGCGcUCGCCUCGggCGAggaaacCGCACg -3'
miRNA:   3'- -GGC-GUGCaAGUGGAGCgaGUU------GCGUG- -5'
23416 3' -54 NC_005259.1 + 63997 0.67 0.807406
Target:  5'- cUCGCGCGUgacggcauacCACCgCGCcCGAgGCGCg -3'
miRNA:   3'- -GGCGUGCAa---------GUGGaGCGaGUUgCGUG- -5'
23416 3' -54 NC_005259.1 + 10138 0.67 0.807406
Target:  5'- aCGCGCG--CGCCcgcCGUUCGcACGCACu -3'
miRNA:   3'- gGCGUGCaaGUGGa--GCGAGU-UGCGUG- -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.