miRNA display CGI


Results 1 - 20 of 25 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
23214 3' -58 NC_005259.1 + 58933 0.66 0.679881
Target:  5'- uCGGCGGGCGCGgugGCAGcGUCGgCCu- -3'
miRNA:   3'- -GCUGCUUGCGCa--UGUCcCGGUgGGca -5'
23214 3' -58 NC_005259.1 + 24784 0.66 0.679881
Target:  5'- cCGcCGuAUGCGcaGCAGGGCCAagaCCGa -3'
miRNA:   3'- -GCuGCuUGCGCa-UGUCCCGGUg--GGCa -5'
23214 3' -58 NC_005259.1 + 41355 0.66 0.669402
Target:  5'- aCGACGAACucccagcacaGCGUGCGGucgagcuuGGCCgguACCCa- -3'
miRNA:   3'- -GCUGCUUG----------CGCAUGUC--------CCGG---UGGGca -5'
23214 3' -58 NC_005259.1 + 60178 0.66 0.668353
Target:  5'- gCGGCGAACGCcUGCucgaccgaccGGGCCACgaucucgCCGa -3'
miRNA:   3'- -GCUGCUUGCGcAUGu---------CCCGGUG-------GGCa -5'
23214 3' -58 NC_005259.1 + 13811 0.66 0.648358
Target:  5'- cCGGCGAgcaccACGUGUGCGugaugaccgacGGGCacauuGCCCGg -3'
miRNA:   3'- -GCUGCU-----UGCGCAUGU-----------CCCGg----UGGGCa -5'
23214 3' -58 NC_005259.1 + 27999 0.66 0.648358
Target:  5'- -uGCGggUGCcgggGCGGGGUCGCCgGg -3'
miRNA:   3'- gcUGCuuGCGca--UGUCCCGGUGGgCa -5'
23214 3' -58 NC_005259.1 + 8388 0.66 0.648358
Target:  5'- uCGGCGAGagccucgGCGaGCcGGGCCACCuCGc -3'
miRNA:   3'- -GCUGCUUg------CGCaUGuCCCGGUGG-GCa -5'
23214 3' -58 NC_005259.1 + 45326 0.66 0.62726
Target:  5'- cCGcCGAACuGCGUGgccugcgccgcCuGGGCCGCCgCGUa -3'
miRNA:   3'- -GCuGCUUG-CGCAU-----------GuCCCGGUGG-GCA- -5'
23214 3' -58 NC_005259.1 + 31078 0.66 0.624095
Target:  5'- uCGGCGAgguucccgaGCGCGU-CGGGGaucaguccgaugagUCGCCCGa -3'
miRNA:   3'- -GCUGCU---------UGCGCAuGUCCC--------------GGUGGGCa -5'
23214 3' -58 NC_005259.1 + 58761 0.67 0.585176
Target:  5'- uCGGCGAACGaCGcUGCGGGcGCUguGCgCCGg -3'
miRNA:   3'- -GCUGCUUGC-GC-AUGUCC-CGG--UG-GGCa -5'
23214 3' -58 NC_005259.1 + 66003 0.67 0.585176
Target:  5'- uCGACGugguGCGCacccuCGGGGCCGCaCGUg -3'
miRNA:   3'- -GCUGCu---UGCGcau--GUCCCGGUGgGCA- -5'
23214 3' -58 NC_005259.1 + 43953 0.68 0.52326
Target:  5'- uCGGCGAugG---GCGGGGCCGCCg-- -3'
miRNA:   3'- -GCUGCUugCgcaUGUCCCGGUGGgca -5'
23214 3' -58 NC_005259.1 + 14325 0.68 0.513168
Target:  5'- uCGACGccgccgccCGCGUGC-GGGCCGCCg-- -3'
miRNA:   3'- -GCUGCuu------GCGCAUGuCCCGGUGGgca -5'
23214 3' -58 NC_005259.1 + 1341 0.69 0.493233
Target:  5'- aGAuCGAGCGCaacgGUGCcuacuGGGCCGCUCGc -3'
miRNA:   3'- gCU-GCUUGCG----CAUGu----CCCGGUGGGCa -5'
23214 3' -58 NC_005259.1 + 8666 0.69 0.483399
Target:  5'- gGGCugccACGCGggcaACGGGGCCGCCuCGa -3'
miRNA:   3'- gCUGcu--UGCGCa---UGUCCCGGUGG-GCa -5'
23214 3' -58 NC_005259.1 + 33105 0.69 0.473661
Target:  5'- -cGCGAGCGUGccUGUAGGGCCACgCGg -3'
miRNA:   3'- gcUGCUUGCGC--AUGUCCCGGUGgGCa -5'
23214 3' -58 NC_005259.1 + 44317 0.69 0.463063
Target:  5'- uGACGAGCGUGUugAGcGCCGCguagcugCCGg -3'
miRNA:   3'- gCUGCUUGCGCAugUCcCGGUG-------GGCa -5'
23214 3' -58 NC_005259.1 + 26515 0.69 0.454486
Target:  5'- cCGGCGAgaagaGCGCGgugaGCAGcuuGGCCACCaCGa -3'
miRNA:   3'- -GCUGCU-----UGCGCa---UGUC---CCGGUGG-GCa -5'
23214 3' -58 NC_005259.1 + 49986 0.7 0.435739
Target:  5'- gCGcACGGAuCGCGUGCGGacGGCUGCCCu- -3'
miRNA:   3'- -GC-UGCUU-GCGCAUGUC--CCGGUGGGca -5'
23214 3' -58 NC_005259.1 + 64615 0.7 0.417447
Target:  5'- aCGGCGAGCGCG-ACGGGcaGCagCGCCCa- -3'
miRNA:   3'- -GCUGCUUGCGCaUGUCC--CG--GUGGGca -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.