miRNA display CGI


Results 1 - 20 of 77 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
11558 3' -58.8 NC_003085.1 + 29394 0.65 0.521531
Target:  5'- gCGGAGUugcugcgCCAGcgcGGCCa-GCCCAugGCGg -3'
miRNA:   3'- -GCUUCG-------GGUU---CCGGcaCGGGUugCGC- -5'
11558 3' -58.8 NC_003085.1 + 20761 0.66 0.512212
Target:  5'- uGcuGCCCGgcuucGGGCUGUGCCgCAucCGCu -3'
miRNA:   3'- gCuuCGGGU-----UCCGGCACGG-GUu-GCGc -5'
11558 3' -58.8 NC_003085.1 + 27651 0.66 0.512212
Target:  5'- cCGAacuGGCC--GGGuCCGUGCCCugccagAugGCGa -3'
miRNA:   3'- -GCU---UCGGguUCC-GGCACGGG------UugCGC- -5'
11558 3' -58.8 NC_003085.1 + 728 0.66 0.512212
Target:  5'- gCGAcGUCC-GGGCgGUGCUCgAGCGCc -3'
miRNA:   3'- -GCUuCGGGuUCCGgCACGGG-UUGCGc -5'
11558 3' -58.8 NC_003085.1 + 21104 0.66 0.51015
Target:  5'- gGAAGCCCAGagauugcGGCUGccGUCCGcgucgaaGCGCGc -3'
miRNA:   3'- gCUUCGGGUU-------CCGGCa-CGGGU-------UGCGC- -5'
11558 3' -58.8 NC_003085.1 + 11599 0.66 0.506038
Target:  5'- aCGggGCagggcggcgcgaaGGGGCUGUGCaggggcugcuaCCAGCGCGc -3'
miRNA:   3'- -GCuuCGgg-----------UUCCGGCACG-----------GGUUGCGC- -5'
11558 3' -58.8 NC_003085.1 + 36428 0.66 0.506038
Target:  5'- aCGGAGCCgGgacucaccgugcggaGGGCgGcGCCuCAugGCGa -3'
miRNA:   3'- -GCUUCGGgU---------------UCCGgCaCGG-GUugCGC- -5'
11558 3' -58.8 NC_003085.1 + 15305 0.66 0.501939
Target:  5'- --uGGCCCGGGGCguCGaGCCCAuagagguaggGCGUGa -3'
miRNA:   3'- gcuUCGGGUUCCG--GCaCGGGU----------UGCGC- -5'
11558 3' -58.8 NC_003085.1 + 30092 0.66 0.498875
Target:  5'- gGAAGCCgcggacgacgucgcCAAGGCC--GCCCAGgGCc -3'
miRNA:   3'- gCUUCGG--------------GUUCCGGcaCGGGUUgCGc -5'
11558 3' -58.8 NC_003085.1 + 23532 0.66 0.495819
Target:  5'- uGAAGacaugcagaugcuccUCCAGGGCgcUGCUCGGCGCGg -3'
miRNA:   3'- gCUUC---------------GGGUUCCGgcACGGGUUGCGC- -5'
11558 3' -58.8 NC_003085.1 + 31626 0.66 0.491758
Target:  5'- gCGggGCCUGAaGUCGUGCCUGA-GCc -3'
miRNA:   3'- -GCuuCGGGUUcCGGCACGGGUUgCGc -5'
11558 3' -58.8 NC_003085.1 + 10594 0.66 0.491758
Target:  5'- aCGAggcAGCCC-AGGCUGagacaUGgCCAAUGCa -3'
miRNA:   3'- -GCU---UCGGGuUCCGGC-----ACgGGUUGCGc -5'
11558 3' -58.8 NC_003085.1 + 3971 0.66 0.491758
Target:  5'- uGGAGCCagacGGCCGcGCUUgcgAGCGCGa -3'
miRNA:   3'- gCUUCGGguu-CCGGCaCGGG---UUGCGC- -5'
11558 3' -58.8 NC_003085.1 + 4496 0.66 0.490745
Target:  5'- aGGAGCaCCGucGGGCaccggaguagaugCGcGCCCAGCGUGc -3'
miRNA:   3'- gCUUCG-GGU--UCCG-------------GCaCGGGUUGCGC- -5'
11558 3' -58.8 NC_003085.1 + 45869 0.66 0.481673
Target:  5'- gCGGAGCCgGugGGGCUGUcugucuGCCacaGGCGCa -3'
miRNA:   3'- -GCUUCGGgU--UCCGGCA------CGGg--UUGCGc -5'
11558 3' -58.8 NC_003085.1 + 22957 0.66 0.481673
Target:  5'- gCGAAGCCgGAcGaGCCG-GCCCAGucUGCc -3'
miRNA:   3'- -GCUUCGGgUU-C-CGGCaCGGGUU--GCGc -5'
11558 3' -58.8 NC_003085.1 + 19412 0.66 0.481673
Target:  5'- -aAGGCCCAGGGCgGcGCCaccugguuCGGCGUGu -3'
miRNA:   3'- gcUUCGGGUUCCGgCaCGG--------GUUGCGC- -5'
11558 3' -58.8 NC_003085.1 + 12742 0.66 0.481673
Target:  5'- aGggGCCgGAGGUgGUGCgugUCGAgGUGg -3'
miRNA:   3'- gCuuCGGgUUCCGgCACG---GGUUgCGC- -5'
11558 3' -58.8 NC_003085.1 + 31861 0.66 0.481673
Target:  5'- gCGAgcGGCC--GGGCCGcuucGCCCAACcGCa -3'
miRNA:   3'- -GCU--UCGGguUCCGGCa---CGGGUUG-CGc -5'
11558 3' -58.8 NC_003085.1 + 1549 0.66 0.47567
Target:  5'- uGcuGUCgCGAGGCCGUGCgCGucgccugcaguugcgGCGCGg -3'
miRNA:   3'- gCuuCGG-GUUCCGGCACGgGU---------------UGCGC- -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.