miRNA display CGI


Results 1 - 19 of 19 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
23333 3' -55.7 NC_005259.1 + 58937 0.66 0.775384
Target:  5'- cGGGCGCGgugGCAg---CGUCGgCCUUGg -3'
miRNA:   3'- uCUUGCGCa--CGUacgaGCAGC-GGAGC- -5'
23333 3' -55.7 NC_005259.1 + 6565 0.66 0.775384
Target:  5'- --uGCGCG-GCGUGuCagGcCGCCUCGg -3'
miRNA:   3'- ucuUGCGCaCGUAC-GagCaGCGGAGC- -5'
23333 3' -55.7 NC_005259.1 + 56301 0.66 0.765468
Target:  5'- cAGAccACGUG-GCcgGaccCUCGUCGCCgUCGa -3'
miRNA:   3'- -UCU--UGCGCaCGuaC---GAGCAGCGG-AGC- -5'
23333 3' -55.7 NC_005259.1 + 50675 0.66 0.764469
Target:  5'- -cAGCGCGUcggugccgacgagGCGcUGCUCGUCGUCgCGc -3'
miRNA:   3'- ucUUGCGCA-------------CGU-ACGAGCAGCGGaGC- -5'
23333 3' -55.7 NC_005259.1 + 27722 0.66 0.755421
Target:  5'- uGGAACGCGUaCuUGUUCG-CGCC-CGc -3'
miRNA:   3'- -UCUUGCGCAcGuACGAGCaGCGGaGC- -5'
23333 3' -55.7 NC_005259.1 + 11126 0.66 0.745252
Target:  5'- -uGACG-GUGCGaGC-CGUCGCCUgCGg -3'
miRNA:   3'- ucUUGCgCACGUaCGaGCAGCGGA-GC- -5'
23333 3' -55.7 NC_005259.1 + 56216 0.66 0.734972
Target:  5'- aGGAuCG-GUGUAUGCcagUCGUCGCCg-- -3'
miRNA:   3'- -UCUuGCgCACGUACG---AGCAGCGGagc -5'
23333 3' -55.7 NC_005259.1 + 40836 0.67 0.714126
Target:  5'- uGGGcCGCGUGUugAUGCccugCGCCUCGa -3'
miRNA:   3'- -UCUuGCGCACG--UACGagcaGCGGAGC- -5'
23333 3' -55.7 NC_005259.1 + 14675 0.67 0.70358
Target:  5'- cGGGcCGCGUGCAcucgauucUGCUCGaccccCGCCgCGa -3'
miRNA:   3'- -UCUuGCGCACGU--------ACGAGCa----GCGGaGC- -5'
23333 3' -55.7 NC_005259.1 + 11801 0.68 0.650057
Target:  5'- cGGGCGCGacccGCuugaGCUCGUCGCUgUCGu -3'
miRNA:   3'- uCUUGCGCa---CGua--CGAGCAGCGG-AGC- -5'
23333 3' -55.7 NC_005259.1 + 26493 0.68 0.628466
Target:  5'- cGGAACGCc-GCGaGCUCGcCGCC-CGg -3'
miRNA:   3'- -UCUUGCGcaCGUaCGAGCaGCGGaGC- -5'
23333 3' -55.7 NC_005259.1 + 58690 0.68 0.606888
Target:  5'- ---uCGCGggGUcgGCUCGUCGCCg-- -3'
miRNA:   3'- ucuuGCGCa-CGuaCGAGCAGCGGagc -5'
23333 3' -55.7 NC_005259.1 + 27442 0.69 0.574697
Target:  5'- --cACGCGUcGCAUgaGCUCGUCGCg-CGg -3'
miRNA:   3'- ucuUGCGCA-CGUA--CGAGCAGCGgaGC- -5'
23333 3' -55.7 NC_005259.1 + 17330 0.69 0.564047
Target:  5'- cGAGgGUGUGCcgGUcaaCGUCGCCgUCGa -3'
miRNA:   3'- uCUUgCGCACGuaCGa--GCAGCGG-AGC- -5'
23333 3' -55.7 NC_005259.1 + 61255 0.7 0.491358
Target:  5'- cGggUGCGaGCAUGCgacCGUCGCugguCUCGa -3'
miRNA:   3'- uCuuGCGCaCGUACGa--GCAGCG----GAGC- -5'
23333 3' -55.7 NC_005259.1 + 67336 0.71 0.451801
Target:  5'- uAGAGCGCGUaccacGUAcGCUCGcCGaCCUCGc -3'
miRNA:   3'- -UCUUGCGCA-----CGUaCGAGCaGC-GGAGC- -5'
23333 3' -55.7 NC_005259.1 + 50288 0.73 0.378303
Target:  5'- gGGAACGuCGUGCAcgcucUGCcacUCGUCGUaCUCGg -3'
miRNA:   3'- -UCUUGC-GCACGU-----ACG---AGCAGCG-GAGC- -5'
23333 3' -55.7 NC_005259.1 + 32171 0.73 0.369696
Target:  5'- uAGuAGCGCGUGa--GCUCGcugcgCGCCUCGg -3'
miRNA:   3'- -UC-UUGCGCACguaCGAGCa----GCGGAGC- -5'
23333 3' -55.7 NC_005259.1 + 5841 0.98 0.007771
Target:  5'- cAGAACGUGcGCAUGCUCGUCGCCUCGg -3'
miRNA:   3'- -UCUUGCGCaCGUACGAGCAGCGGAGC- -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.