miRNA display CGI


Results 1 - 12 of 12 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
22940 3' -56.8 NC_005137.2 + 2325 0.66 0.87119
Target:  5'- aACGCGcUCGUGgagGCGUGcAUGGcCGUa -3'
miRNA:   3'- -UGCGC-AGCACag-CGCACaUGCC-GCAa -5'
22940 3' -56.8 NC_005137.2 + 51418 0.66 0.87119
Target:  5'- uACGUG-CGUGUCGUcguuuGUGUGCGGa--- -3'
miRNA:   3'- -UGCGCaGCACAGCG-----CACAUGCCgcaa -5'
22940 3' -56.8 NC_005137.2 + 26809 0.66 0.87119
Target:  5'- uGCGuCGUCGUGUucgcgcugcgaCGCGcacgcuUGUACGaGCGUc -3'
miRNA:   3'- -UGC-GCAGCACA-----------GCGC------ACAUGC-CGCAa -5'
22940 3' -56.8 NC_005137.2 + 85253 0.66 0.856045
Target:  5'- -gGCGUCGcUGUCGUca--GCGGCGUa -3'
miRNA:   3'- ugCGCAGC-ACAGCGcacaUGCCGCAa -5'
22940 3' -56.8 NC_005137.2 + 31725 0.66 0.840086
Target:  5'- uCGCGUCGUuUCGCGUGcguauaGCcGCGUUc -3'
miRNA:   3'- uGCGCAGCAcAGCGCACa-----UGcCGCAA- -5'
22940 3' -56.8 NC_005137.2 + 17850 0.67 0.814744
Target:  5'- -gGCGUCGUGUCaaGCGUcggGUAUuGCGUUu -3'
miRNA:   3'- ugCGCAGCACAG--CGCA---CAUGcCGCAA- -5'
22940 3' -56.8 NC_005137.2 + 96493 0.68 0.740478
Target:  5'- uGCGCGUCGUGUCcacggGCGcuaUGacuaGCGGCGc- -3'
miRNA:   3'- -UGCGCAGCACAG-----CGC---ACa---UGCCGCaa -5'
22940 3' -56.8 NC_005137.2 + 87251 0.69 0.710809
Target:  5'- -gGCGUUGUuaacgGcCGCGUGcACGGCGUUc -3'
miRNA:   3'- ugCGCAGCA-----CaGCGCACaUGCCGCAA- -5'
22940 3' -56.8 NC_005137.2 + 117138 0.69 0.680535
Target:  5'- cACGCGUCGcGUUG-GUGggaUGCGGCGg- -3'
miRNA:   3'- -UGCGCAGCaCAGCgCAC---AUGCCGCaa -5'
22940 3' -56.8 NC_005137.2 + 63450 0.7 0.649899
Target:  5'- cGCGCGUUGUGccCGCGagcgACGGCGa- -3'
miRNA:   3'- -UGCGCAGCACa-GCGCaca-UGCCGCaa -5'
22940 3' -56.8 NC_005137.2 + 102764 0.7 0.649899
Target:  5'- cACGUG-CGg--UGCGUGUugGGCGUUc -3'
miRNA:   3'- -UGCGCaGCacaGCGCACAugCCGCAA- -5'
22940 3' -56.8 NC_005137.2 + 56495 1.05 0.00375
Target:  5'- aACGCGUCGUGUCGCGUGUACGGCGUUa -3'
miRNA:   3'- -UGCGCAGCACAGCGCACAUGCCGCAA- -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.