miRNA display CGI


Results 1 - 18 of 18 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
23557 3' -53.5 NC_005261.1 + 15029 0.66 0.957205
Target:  5'- gGCGGGUGCCgggGGCGUagcggggggggucggGGUcgcgGCGGGgUCg -3'
miRNA:   3'- -UGCUCACGGa--CUGCA---------------CCA----CGUUCaAG- -5'
23557 3' -53.5 NC_005261.1 + 37147 0.66 0.942629
Target:  5'- cGCGcugcAGgcgGCCgcgGGCGUGGUGCuGGggCu -3'
miRNA:   3'- -UGC----UCa--CGGa--CUGCACCACGuUCaaG- -5'
23557 3' -53.5 NC_005261.1 + 87882 0.67 0.921768
Target:  5'- gACGGGcgcgGCCUaccGGCGgcugcUGGUGCAGGUg- -3'
miRNA:   3'- -UGCUCa---CGGA---CUGC-----ACCACGUUCAag -5'
23557 3' -53.5 NC_005261.1 + 87466 0.67 0.915917
Target:  5'- cGCGGuGUGCgCUGAgGgugcgGGUGCGGGcgCg -3'
miRNA:   3'- -UGCU-CACG-GACUgCa----CCACGUUCaaG- -5'
23557 3' -53.5 NC_005261.1 + 136385 0.68 0.900845
Target:  5'- gACGAGgUGCCgggacugggggcgGACGUGGUGUcGGa-- -3'
miRNA:   3'- -UGCUC-ACGGa------------CUGCACCACGuUCaag -5'
23557 3' -53.5 NC_005261.1 + 83195 0.68 0.890002
Target:  5'- cCGcAGcUGCCgcgUGACGUGGUcGCAGGUg- -3'
miRNA:   3'- uGC-UC-ACGG---ACUGCACCA-CGUUCAag -5'
23557 3' -53.5 NC_005261.1 + 43469 0.68 0.88291
Target:  5'- gGCGGGUG-CUGGCG-GaGUGCGAGg-- -3'
miRNA:   3'- -UGCUCACgGACUGCaC-CACGUUCaag -5'
23557 3' -53.5 NC_005261.1 + 83239 0.68 0.882188
Target:  5'- cACGAG-GCCgccGGCGUGGccguaaagaccuuUGCGAGUg- -3'
miRNA:   3'- -UGCUCaCGGa--CUGCACC-------------ACGUUCAag -5'
23557 3' -53.5 NC_005261.1 + 136893 0.68 0.868021
Target:  5'- gAUGaAGUGUaCUGGCGUGGUGUggGc-- -3'
miRNA:   3'- -UGC-UCACG-GACUGCACCACGuuCaag -5'
23557 3' -53.5 NC_005261.1 + 63344 0.68 0.867253
Target:  5'- uGCGAG-GCCcacggguucacggUGGCGcGGUGCGGGUg- -3'
miRNA:   3'- -UGCUCaCGG-------------ACUGCaCCACGUUCAag -5'
23557 3' -53.5 NC_005261.1 + 52475 0.69 0.860235
Target:  5'- gGCGcucGGUGCUgGcCGUGGUGCAGGa-- -3'
miRNA:   3'- -UGC---UCACGGaCuGCACCACGUUCaag -5'
23557 3' -53.5 NC_005261.1 + 130495 0.69 0.844011
Target:  5'- gGCGAGgGCCccgacGACGUGGcGCAGGcgCu -3'
miRNA:   3'- -UGCUCaCGGa----CUGCACCaCGUUCaaG- -5'
23557 3' -53.5 NC_005261.1 + 72054 0.69 0.835588
Target:  5'- gGCGGacGUGCCugUGACGUacgGCGAGUUCa -3'
miRNA:   3'- -UGCU--CACGG--ACUGCAccaCGUUCAAG- -5'
23557 3' -53.5 NC_005261.1 + 112082 0.71 0.741992
Target:  5'- gGCGAGggcGCC--ACGUGGUGCGcgguGUUCa -3'
miRNA:   3'- -UGCUCa--CGGacUGCACCACGUu---CAAG- -5'
23557 3' -53.5 NC_005261.1 + 125359 0.71 0.738976
Target:  5'- aACGAGccGCUcGACGUGGUGUcggucagcgacgacGAGUUCu -3'
miRNA:   3'- -UGCUCa-CGGaCUGCACCACG--------------UUCAAG- -5'
23557 3' -53.5 NC_005261.1 + 79408 0.71 0.731906
Target:  5'- cGCGGGUGCCUggagGACGUGGcGCGGc--- -3'
miRNA:   3'- -UGCUCACGGA----CUGCACCaCGUUcaag -5'
23557 3' -53.5 NC_005261.1 + 89252 0.72 0.711468
Target:  5'- uCGAGUGCCUGuCGU-GUGCGGGc-- -3'
miRNA:   3'- uGCUCACGGACuGCAcCACGUUCaag -5'
23557 3' -53.5 NC_005261.1 + 135518 1.1 0.003254
Target:  5'- gACGAGUGCCUGACGUGGUGCAAGUUCg -3'
miRNA:   3'- -UGCUCACGGACUGCACCACGUUCAAG- -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.