miRNA display CGI


Results 1 - 20 of 49 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
18413 3' -52 NC_004681.1 + 67549 0.67 0.902504
Target:  5'- uGAUGGCuuguUCGAugGaGUCGGUGAuGUCCg -3'
miRNA:   3'- gCUGUCGc---AGCU--C-CAGCCACUuUAGG- -5'
18413 3' -52 NC_004681.1 + 65119 0.7 0.814315
Target:  5'- -uACGGCGUCcuuGGGGUUGGUGucuuuGAGUUCa -3'
miRNA:   3'- gcUGUCGCAG---CUCCAGCCAC-----UUUAGG- -5'
18413 3' -52 NC_004681.1 + 61239 0.67 0.909057
Target:  5'- gCGGCGGCGuUCGuuGGacacgaCGGUGAAGUUg -3'
miRNA:   3'- -GCUGUCGC-AGCu-CCa-----GCCACUUUAGg -5'
18413 3' -52 NC_004681.1 + 55939 0.7 0.785901
Target:  5'- --cCAGguaGUUGGGGUCGGUGAug-CCg -3'
miRNA:   3'- gcuGUCg--CAGCUCCAGCCACUuuaGG- -5'
18413 3' -52 NC_004681.1 + 53909 0.67 0.927125
Target:  5'- uGGCgAGCaGgauggCGAGGUgGGUGAggAAUCUg -3'
miRNA:   3'- gCUG-UCG-Ca----GCUCCAgCCACU--UUAGG- -5'
18413 3' -52 NC_004681.1 + 53814 0.73 0.650412
Target:  5'- gGAUGGCGaCGAGGUCGGcGAcGGUCa -3'
miRNA:   3'- gCUGUCGCaGCUCCAGCCaCU-UUAGg -5'
18413 3' -52 NC_004681.1 + 53638 0.75 0.511621
Target:  5'- aCGACGGCGcCcuGGUCGGUGucgucAUCCa -3'
miRNA:   3'- -GCUGUCGCaGcuCCAGCCACuu---UAGG- -5'
18413 3' -52 NC_004681.1 + 52640 0.81 0.248034
Target:  5'- gCGAUAGCGUCGaAGGcugccucggccaagUCGGUGAGGUCg -3'
miRNA:   3'- -GCUGUCGCAGC-UCC--------------AGCCACUUUAGg -5'
18413 3' -52 NC_004681.1 + 52037 0.66 0.951904
Target:  5'- uGugGGUGUCGAGGuauuccUCGacgcgcucccacGUGGAGUUCu -3'
miRNA:   3'- gCugUCGCAGCUCC------AGC------------CACUUUAGG- -5'
18413 3' -52 NC_004681.1 + 51400 0.7 0.795541
Target:  5'- uCGGCGGacucaccggccaUGUaGAGGUCGGUGAuGAUCUg -3'
miRNA:   3'- -GCUGUC------------GCAgCUCCAGCCACU-UUAGG- -5'
18413 3' -52 NC_004681.1 + 51357 0.72 0.661224
Target:  5'- aGACGGUggcgugGUUGGGG-CGGUaGAAGUCCu -3'
miRNA:   3'- gCUGUCG------CAGCUCCaGCCA-CUUUAGG- -5'
18413 3' -52 NC_004681.1 + 51000 0.68 0.888616
Target:  5'- --cCGGCGUCGAcGUCGG-GGAGcucuUCCa -3'
miRNA:   3'- gcuGUCGCAGCUcCAGCCaCUUU----AGG- -5'
18413 3' -52 NC_004681.1 + 50831 0.67 0.915347
Target:  5'- uCGAUGGUcaucccggGuUCGGGGUCGG-GGAGUUCg -3'
miRNA:   3'- -GCUGUCG--------C-AGCUCCAGCCaCUUUAGG- -5'
18413 3' -52 NC_004681.1 + 50099 0.69 0.849565
Target:  5'- aGACGGCG-CGcGGGaUGGUGGucUCCa -3'
miRNA:   3'- gCUGUCGCaGC-UCCaGCCACUuuAGG- -5'
18413 3' -52 NC_004681.1 + 48787 0.67 0.92137
Target:  5'- aGugAGgcCGUCGAGGgcgCGgGUGAcAUCUg -3'
miRNA:   3'- gCugUC--GCAGCUCCa--GC-CACUuUAGG- -5'
18413 3' -52 NC_004681.1 + 48748 0.71 0.756093
Target:  5'- cCGcCAGCGUgGAGG-CGGUGucauugCCg -3'
miRNA:   3'- -GCuGUCGCAgCUCCaGCCACuuua--GG- -5'
18413 3' -52 NC_004681.1 + 47126 0.66 0.942786
Target:  5'- uCGuCGGgGUCGGGcucGUCGGUGggGa-- -3'
miRNA:   3'- -GCuGUCgCAGCUC---CAGCCACuuUagg -5'
18413 3' -52 NC_004681.1 + 46823 0.67 0.915347
Target:  5'- uGACAGCGUCGAuGccgCGGaaguUGAAGUgCu -3'
miRNA:   3'- gCUGUCGCAGCUcCa--GCC----ACUUUAgG- -5'
18413 3' -52 NC_004681.1 + 45206 0.66 0.946096
Target:  5'- gCGACGGCGUCGGccccGGUcuugagcgagaccgCGGcGAGggCCu -3'
miRNA:   3'- -GCUGUCGCAGCU----CCA--------------GCCaCUUuaGG- -5'
18413 3' -52 NC_004681.1 + 44665 0.67 0.915347
Target:  5'- gCGGCGGCGaUGAGGguuuucuucaUgGGUGAAucUCCu -3'
miRNA:   3'- -GCUGUCGCaGCUCC----------AgCCACUUu-AGG- -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.