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
12259 3' -58 NC_003309.1 + 18419 0.77 0.123888
Target:  5'- gCUGaCGAGCGCGACCGUGuagcgcgucuuGCGCUCGc -3'
miRNA:   3'- -GACaGCUCGUGUUGGCGC-----------CGCGAGCa -5'
12259 3' -58 NC_003309.1 + 9519 0.75 0.168953
Target:  5'- -cGUCGAGCGCGcgcACCgugaccugcacgcuuGCGGCGUUCGa -3'
miRNA:   3'- gaCAGCUCGUGU---UGG---------------CGCCGCGAGCa -5'
12259 3' -58 NC_003309.1 + 18732 0.73 0.217753
Target:  5'- uUGUCGAGCGugaucgucucgcCGGCUGCGGCGCggauaCGg -3'
miRNA:   3'- gACAGCUCGU------------GUUGGCGCCGCGa----GCa -5'
12259 3' -58 NC_003309.1 + 1794 0.72 0.241422
Target:  5'- --uUCGGGCACccagAACCGCGGCGCa--- -3'
miRNA:   3'- gacAGCUCGUG----UUGGCGCCGCGagca -5'
12259 3' -58 NC_003309.1 + 12004 0.71 0.305458
Target:  5'- -cGUCGAaagccugcugcccgcGCGCGgcaGCCGCGGCGCgcgccgCGUc -3'
miRNA:   3'- gaCAGCU---------------CGUGU---UGGCGCCGCGa-----GCA- -5'
12259 3' -58 NC_003309.1 + 3316 0.71 0.30996
Target:  5'- aUGUCGAGCGCGGaaaggCGCaGCGCgUCGa -3'
miRNA:   3'- gACAGCUCGUGUUg----GCGcCGCG-AGCa -5'
12259 3' -58 NC_003309.1 + 32016 0.7 0.317574
Target:  5'- aCUGgggacCGGGCGC-ACCGCGGCG-UCGc -3'
miRNA:   3'- -GACa----GCUCGUGuUGGCGCCGCgAGCa -5'
12259 3' -58 NC_003309.1 + 19944 0.7 0.344509
Target:  5'- --uUCGAcgcGCGCGaucgcuuccguuugcACCGCGGCGCUCa- -3'
miRNA:   3'- gacAGCU---CGUGU---------------UGGCGCCGCGAGca -5'
12259 3' -58 NC_003309.1 + 11843 0.69 0.383496
Target:  5'- uUGUCGAuguugguucGCGCGcccGCCGCGGCuuUCGa -3'
miRNA:   3'- gACAGCU---------CGUGU---UGGCGCCGcgAGCa -5'
12259 3' -58 NC_003309.1 + 16276 0.69 0.39235
Target:  5'- -aGUCGcGCACGAUCGCGuaGCagUCGUg -3'
miRNA:   3'- gaCAGCuCGUGUUGGCGCcgCG--AGCA- -5'
12259 3' -58 NC_003309.1 + 27482 0.68 0.448166
Target:  5'- -aGUCGAGCGCGGCgaaGaGGCGUUCu- -3'
miRNA:   3'- gaCAGCUCGUGUUGg--CgCCGCGAGca -5'
12259 3' -58 NC_003309.1 + 5148 0.68 0.448166
Target:  5'- -cGUCGccGCGCGccGCCGCGaGCGCaCGUa -3'
miRNA:   3'- gaCAGCu-CGUGU--UGGCGC-CGCGaGCA- -5'
12259 3' -58 NC_003309.1 + 44280 0.68 0.457891
Target:  5'- uCUGcCGcuuuGCACGagcGCCGCGGUuguGCUCGa -3'
miRNA:   3'- -GACaGCu---CGUGU---UGGCGCCG---CGAGCa -5'
12259 3' -58 NC_003309.1 + 43272 0.67 0.487721
Target:  5'- -cGUCGcAGCACu-CaaCGGCGCUCGg -3'
miRNA:   3'- gaCAGC-UCGUGuuGgcGCCGCGAGCa -5'
12259 3' -58 NC_003309.1 + 46312 0.67 0.487721
Target:  5'- -cGcCGAGCACGGCCuucugcgcacGCGaGCGCgCGUg -3'
miRNA:   3'- gaCaGCUCGUGUUGG----------CGC-CGCGaGCA- -5'
12259 3' -58 NC_003309.1 + 31421 0.67 0.518435
Target:  5'- gCUGgCGAccaguGCGCAGCCGCcGGCGUgcCGUu -3'
miRNA:   3'- -GACaGCU-----CGUGUUGGCG-CCGCGa-GCA- -5'
12259 3' -58 NC_003309.1 + 10727 0.67 0.518435
Target:  5'- gCUGcgCGAGCGCGagcgaaGCCuCGGCGCgcUCGa -3'
miRNA:   3'- -GACa-GCUCGUGU------UGGcGCCGCG--AGCa -5'
12259 3' -58 NC_003309.1 + 17304 0.66 0.549887
Target:  5'- --aUCGAGCACcuUCGCGcGCGCaaUCGa -3'
miRNA:   3'- gacAGCUCGUGuuGGCGC-CGCG--AGCa -5'
12259 3' -58 NC_003309.1 + 16003 0.66 0.560506
Target:  5'- aUG-CGAGCGCGAauugguCCGuCGGCGCggcugCGa -3'
miRNA:   3'- gACaGCUCGUGUU------GGC-GCCGCGa----GCa -5'
12259 3' -58 NC_003309.1 + 1292 0.66 0.566905
Target:  5'- gCUGUCGAcGCGCGcccaugccagucaGCauuguuucguacagCGCGGCGCugUCGUg -3'
miRNA:   3'- -GACAGCU-CGUGU-------------UG--------------GCGCCGCG--AGCA- -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.