miRNA display CGI


Results 1 - 20 of 21 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
23493 5' -60.7 NC_005259.1 + 3497 0.66 0.545188
Target:  5'- gCCUCACGCGaccaUGUGCGCcgccGCGuucaACGGg -3'
miRNA:   3'- gGGAGUGCGCgc--GCACGCG----CGC----UGUC- -5'
23493 5' -60.7 NC_005259.1 + 66247 0.66 0.545188
Target:  5'- gCCaUCgACGCaGCGCGgcccGCGCcggGCGGCGGc -3'
miRNA:   3'- gGG-AG-UGCG-CGCGCa---CGCG---CGCUGUC- -5'
23493 5' -60.7 NC_005259.1 + 63994 0.66 0.543173
Target:  5'- uUCCUCGCGCGUGaCGgcauaccaccgcGCccgagGCGCGGCGa -3'
miRNA:   3'- -GGGAGUGCGCGC-GCa-----------CG-----CGCGCUGUc -5'
23493 5' -60.7 NC_005259.1 + 26643 0.66 0.54116
Target:  5'- gCCUgGCGUGCGCucggcagguucgGCGCacccgGCGGCAGc -3'
miRNA:   3'- gGGAgUGCGCGCGca----------CGCG-----CGCUGUC- -5'
23493 5' -60.7 NC_005259.1 + 20771 0.66 0.535137
Target:  5'- cCCCgccCAC-CGgGUG-GCGCGuCGACAGc -3'
miRNA:   3'- -GGGa--GUGcGCgCGCaCGCGC-GCUGUC- -5'
23493 5' -60.7 NC_005259.1 + 44237 0.66 0.525151
Target:  5'- gCCCgcCGCGC-CGCccGCGCGCGAgAa -3'
miRNA:   3'- -GGGa-GUGCGcGCGcaCGCGCGCUgUc -5'
23493 5' -60.7 NC_005259.1 + 14223 0.66 0.525151
Target:  5'- aCCCg-GCGCGCGuCGUGCGUaucGgGcCGGg -3'
miRNA:   3'- -GGGagUGCGCGC-GCACGCG---CgCuGUC- -5'
23493 5' -60.7 NC_005259.1 + 14321 0.66 0.524157
Target:  5'- gCCCUCGacgccgcCGCcCGCGUGCGgGCcgccGACGc -3'
miRNA:   3'- -GGGAGU-------GCGcGCGCACGCgCG----CUGUc -5'
23493 5' -60.7 NC_005259.1 + 31822 0.66 0.5054
Target:  5'- aCCCcacCGCGCcCGCGUcgaucuucucGCGCGUGACc- -3'
miRNA:   3'- -GGGa--GUGCGcGCGCA----------CGCGCGCUGuc -5'
23493 5' -60.7 NC_005259.1 + 25862 0.66 0.5054
Target:  5'- -aCUCGaugUGCGgGCGUGUGCcaGCGAaCAGg -3'
miRNA:   3'- ggGAGU---GCGCgCGCACGCG--CGCU-GUC- -5'
23493 5' -60.7 NC_005259.1 + 32869 0.66 0.499536
Target:  5'- aCCUCgACGCGCGCGgugaucgauucaccGgGgGCGAgGGu -3'
miRNA:   3'- gGGAG-UGCGCGCGCa-------------CgCgCGCUgUC- -5'
23493 5' -60.7 NC_005259.1 + 66349 0.66 0.495644
Target:  5'- gUCCUCAaagGaCGCaGCGaucUGCGCGUGGCAc -3'
miRNA:   3'- -GGGAGUg--C-GCG-CGC---ACGCGCGCUGUc -5'
23493 5' -60.7 NC_005259.1 + 25519 0.67 0.485974
Target:  5'- gCCCUCGaccguggcauCGCGUGgGUGC-UGgGACGGa -3'
miRNA:   3'- -GGGAGU----------GCGCGCgCACGcGCgCUGUC- -5'
23493 5' -60.7 NC_005259.1 + 29408 0.67 0.476395
Target:  5'- gCCUCgGCGaGCuCGUGCGCGCacACAGg -3'
miRNA:   3'- gGGAG-UGCgCGcGCACGCGCGc-UGUC- -5'
23493 5' -60.7 NC_005259.1 + 19192 0.67 0.457525
Target:  5'- gCCCUCGacaGCGaGCucgugGUGCGgGCGGCGa -3'
miRNA:   3'- -GGGAGUg--CGCgCG-----CACGCgCGCUGUc -5'
23493 5' -60.7 NC_005259.1 + 66017 0.69 0.33799
Target:  5'- aCCCUCGgggcCGCaCGUGuUGCGCGCGAg-- -3'
miRNA:   3'- -GGGAGU----GCGcGCGC-ACGCGCGCUguc -5'
23493 5' -60.7 NC_005259.1 + 59393 0.7 0.33037
Target:  5'- gCCUC-CGCGCGCGa--GCGUGACc- -3'
miRNA:   3'- gGGAGuGCGCGCGCacgCGCGCUGuc -5'
23493 5' -60.7 NC_005259.1 + 6506 0.71 0.254931
Target:  5'- gCCCacaUCGacCGaCGC-CGUGCGCGCGACAa -3'
miRNA:   3'- -GGG---AGU--GC-GCGcGCACGCGCGCUGUc -5'
23493 5' -60.7 NC_005259.1 + 12807 0.73 0.194219
Target:  5'- aCgCUguCGCGCGCacGCGCGCGugAGg -3'
miRNA:   3'- -GgGAguGCGCGCGcaCGCGCGCugUC- -5'
23493 5' -60.7 NC_005259.1 + 51663 0.74 0.162502
Target:  5'- gCCgCGCGgGCGCGUcgggcacggGCGCGCGAUGGu -3'
miRNA:   3'- gGGaGUGCgCGCGCA---------CGCGCGCUGUC- -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.