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
8056 3' -54.9 NC_001973.1 + 5867 0.71 0.710319
Target:  5'- cCGGCGUcucgagagGCUGGUGCGgcgcagcgcgcgcgACGCGaACGAGa -3'
miRNA:   3'- -GCUGCGa-------CGACCACGU--------------UGUGC-UGCUC- -5'
8056 3' -54.9 NC_001973.1 + 7442 0.76 0.445199
Target:  5'- uCGcACGUgaGCUcggcGGUGCGGCGCGACGAGg -3'
miRNA:   3'- -GC-UGCGa-CGA----CCACGUUGUGCUGCUC- -5'
8056 3' -54.9 NC_001973.1 + 7734 0.68 0.886993
Target:  5'- uGACGCUGgagcaccGGUGCGGCGCGaaccGCGGc -3'
miRNA:   3'- gCUGCGACga-----CCACGUUGUGC----UGCUc -5'
8056 3' -54.9 NC_001973.1 + 8846 0.77 0.436152
Target:  5'- -cGCGCUGCUGGcgcgGCGACACGGgcuguuCGAGa -3'
miRNA:   3'- gcUGCGACGACCa---CGUUGUGCU------GCUC- -5'
8056 3' -54.9 NC_001973.1 + 14353 0.67 0.91259
Target:  5'- uGGCGUggucgGCgUGGUcgacGgGGCGCGGCGAGg -3'
miRNA:   3'- gCUGCGa----CG-ACCA----CgUUGUGCUGCUC- -5'
8056 3' -54.9 NC_001973.1 + 15355 0.68 0.86542
Target:  5'- gCGGCGUUGC-GGUGUcguACACGAacaCGGGc -3'
miRNA:   3'- -GCUGCGACGaCCACGu--UGUGCU---GCUC- -5'
8056 3' -54.9 NC_001973.1 + 22497 0.72 0.693243
Target:  5'- aCGAgGCUGCc-GUGCGuGCGCGACGAc -3'
miRNA:   3'- -GCUgCGACGacCACGU-UGUGCUGCUc -5'
8056 3' -54.9 NC_001973.1 + 24168 0.67 0.918402
Target:  5'- uGGCGCUGCcGcUGCGGcCGCGGCGc- -3'
miRNA:   3'- gCUGCGACGaCcACGUU-GUGCUGCuc -5'
8056 3' -54.9 NC_001973.1 + 25064 0.67 0.911399
Target:  5'- uCGACGCguucgcgcgccaGCUcaucaccgaccGGUGCAGCACGcucauCGAGa -3'
miRNA:   3'- -GCUGCGa-----------CGA-----------CCACGUUGUGCu----GCUC- -5'
8056 3' -54.9 NC_001973.1 + 30371 0.73 0.642327
Target:  5'- cCGGCGCgGCgacucgGGUGCGggccgGCGCGGCGGc -3'
miRNA:   3'- -GCUGCGaCGa-----CCACGU-----UGUGCUGCUc -5'
8056 3' -54.9 NC_001973.1 + 31210 0.66 0.943879
Target:  5'- aCGACGCaGCgcgGGUugaaCGACACGggcGCGAGc -3'
miRNA:   3'- -GCUGCGaCGa--CCAc---GUUGUGC---UGCUC- -5'
8056 3' -54.9 NC_001973.1 + 32846 0.68 0.886993
Target:  5'- uGACGCUGCucuUGGUuuuGUuuCGuCGACGGGg -3'
miRNA:   3'- gCUGCGACG---ACCA---CGuuGU-GCUGCUC- -5'
8056 3' -54.9 NC_001973.1 + 34470 0.73 0.605479
Target:  5'- uGGCGUUGgUGGUGCAGuuggcgcucacgaacUugGACGAGc -3'
miRNA:   3'- gCUGCGACgACCACGUU---------------GugCUGCUC- -5'
8056 3' -54.9 NC_001973.1 + 35688 0.73 0.621845
Target:  5'- gCGGCGC-GgUGGcgGCGauGCGCGACGAGg -3'
miRNA:   3'- -GCUGCGaCgACCa-CGU--UGUGCUGCUC- -5'
8056 3' -54.9 NC_001973.1 + 42588 0.72 0.693243
Target:  5'- uGACGgUGCUcgccaaggaGGUGCGGCGCGAgGGc -3'
miRNA:   3'- gCUGCgACGA---------CCACGUUGUGCUgCUc -5'
8056 3' -54.9 NC_001973.1 + 45972 0.68 0.880728
Target:  5'- cCGGCGCgcucgcccugcugucGCUGGUGCcgcgaugccGGCGCG-CGAGc -3'
miRNA:   3'- -GCUGCGa--------------CGACCACG---------UUGUGCuGCUC- -5'
8056 3' -54.9 NC_001973.1 + 46343 0.7 0.799138
Target:  5'- gCGcUGCUGCUGGUGCuguuuUugGcCGAGa -3'
miRNA:   3'- -GCuGCGACGACCACGuu---GugCuGCUC- -5'
8056 3' -54.9 NC_001973.1 + 53701 0.66 0.939261
Target:  5'- uCGGCGCcgagGCUGaccGUGUAgacgaGCACGAUGAa -3'
miRNA:   3'- -GCUGCGa---CGAC---CACGU-----UGUGCUGCUc -5'
8056 3' -54.9 NC_001973.1 + 59126 0.67 0.92931
Target:  5'- uCGugGCcaaGUUGGcGCGcauACGCGACGAu -3'
miRNA:   3'- -GCugCGa--CGACCaCGU---UGUGCUGCUc -5'
8056 3' -54.9 NC_001973.1 + 63088 0.68 0.872828
Target:  5'- uGAgGCUGUucacguUGGUGCAcGC-CGugGAGa -3'
miRNA:   3'- gCUgCGACG------ACCACGU-UGuGCugCUC- -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.