miRNA display CGI


Results 1 - 17 of 17 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
12199 5' -43.6 NC_003309.1 + 6928 0.66 0.999795
Target:  5'- gGCGGAACcGUUAUaggauuGAGCAGaaCGUCGg -3'
miRNA:   3'- -CGUUUUGuCGAUG------UUCGUUaaGCAGC- -5'
12199 5' -43.6 NC_003309.1 + 11984 0.66 0.999795
Target:  5'- cGCGcgGCAGCcGCGGcGCGcgccgCGUCGg -3'
miRNA:   3'- -CGUuuUGUCGaUGUU-CGUuaa--GCAGC- -5'
12199 5' -43.6 NC_003309.1 + 36281 0.66 0.999795
Target:  5'- gGCAGAGaucaAGCUuuc-GCAAcUCGUCGa -3'
miRNA:   3'- -CGUUUUg---UCGAuguuCGUUaAGCAGC- -5'
12199 5' -43.6 NC_003309.1 + 17286 0.66 0.999547
Target:  5'- cGCAAucgaauGCAGaCUGuCGGGCGAUUCG-Cu -3'
miRNA:   3'- -CGUUu-----UGUC-GAU-GUUCGUUAAGCaGc -5'
12199 5' -43.6 NC_003309.1 + 27960 0.66 0.999547
Target:  5'- aGCuccGCAGUUGCAucGCAGaugCGUCGc -3'
miRNA:   3'- -CGuuuUGUCGAUGUu-CGUUaa-GCAGC- -5'
12199 5' -43.6 NC_003309.1 + 49321 0.66 0.999474
Target:  5'- cGCuuAACGGUugcgaUACGAGCGAUccaaaauacugucgCGUCGa -3'
miRNA:   3'- -CGuuUUGUCG-----AUGUUCGUUAa-------------GCAGC- -5'
12199 5' -43.6 NC_003309.1 + 29604 0.66 0.99942
Target:  5'- aGCAAAACGGUggauuCGAGCGg--CGUgCGg -3'
miRNA:   3'- -CGUUUUGUCGau---GUUCGUuaaGCA-GC- -5'
12199 5' -43.6 NC_003309.1 + 42668 0.67 0.999262
Target:  5'- uGCucAACAGCgaacggGCcGGCGAUggcguccugUCGUCGu -3'
miRNA:   3'- -CGuuUUGUCGa-----UGuUCGUUA---------AGCAGC- -5'
12199 5' -43.6 NC_003309.1 + 35518 0.67 0.999069
Target:  5'- ---cGAgAGCUACGAGCAGUaccaccaacUCGcCGa -3'
miRNA:   3'- cguuUUgUCGAUGUUCGUUA---------AGCaGC- -5'
12199 5' -43.6 NC_003309.1 + 8842 0.67 0.999069
Target:  5'- cGCGaacGAACAGCcgcgcauucgcuUGCGuguGCGcgUCGUCGc -3'
miRNA:   3'- -CGU---UUUGUCG------------AUGUu--CGUuaAGCAGC- -5'
12199 5' -43.6 NC_003309.1 + 30991 0.68 0.997807
Target:  5'- cGC-GAGCGGCUACAAccGCAAccgCGUgCGa -3'
miRNA:   3'- -CGuUUUGUCGAUGUU--CGUUaa-GCA-GC- -5'
12199 5' -43.6 NC_003309.1 + 45585 0.69 0.994473
Target:  5'- cGCAGAGCccguauGCggACGAGCAugcCGUCGc -3'
miRNA:   3'- -CGUUUUGu-----CGa-UGUUCGUuaaGCAGC- -5'
12199 5' -43.6 NC_003309.1 + 11481 0.69 0.992315
Target:  5'- cGCGccGGCGGCUcgaacaaguucGCAcGUAGUUCGUCGc -3'
miRNA:   3'- -CGUu-UUGUCGA-----------UGUuCGUUAAGCAGC- -5'
12199 5' -43.6 NC_003309.1 + 35318 0.71 0.98397
Target:  5'- cGCAGAACaAGCUGCcuaucGGGCGggGUUCGaCGa -3'
miRNA:   3'- -CGUUUUG-UCGAUG-----UUCGU--UAAGCaGC- -5'
12199 5' -43.6 NC_003309.1 + 27248 0.72 0.973374
Target:  5'- ----cGCAGCcuucGCAcugAGCAAUUCGUCGu -3'
miRNA:   3'- cguuuUGUCGa---UGU---UCGUUAAGCAGC- -5'
12199 5' -43.6 NC_003309.1 + 34545 0.73 0.953961
Target:  5'- cGC-GAGCAGCguaGCGAGCAcc-CGUCGa -3'
miRNA:   3'- -CGuUUUGUCGa--UGUUCGUuaaGCAGC- -5'
12199 5' -43.6 NC_003309.1 + 37242 0.77 0.80841
Target:  5'- gGCAAGGCGgcGCUAC-AGCAGcgCGUCGa -3'
miRNA:   3'- -CGUUUUGU--CGAUGuUCGUUaaGCAGC- -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.