miRNA display CGI


Results 1 - 16 of 16 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
24079 5' -59.5 NC_005262.1 + 33990 0.66 0.584829
Target:  5'- cGUCGUgcguaacauGGGCGcGGaCgGCGUGACGCc -3'
miRNA:   3'- uCAGCA---------CCUGC-CCaGaCGCGCUGCGc -5'
24079 5' -59.5 NC_005262.1 + 43574 0.66 0.564106
Target:  5'- cAGaCGUGGGagguCGaGGUCaGCGCGaACGCa -3'
miRNA:   3'- -UCaGCACCU----GC-CCAGaCGCGC-UGCGc -5'
24079 5' -59.5 NC_005262.1 + 42120 0.66 0.561013
Target:  5'- --aCGUGGAUGgcuugggauaagccGGUCUaCGCGGCGCc -3'
miRNA:   3'- ucaGCACCUGC--------------CCAGAcGCGCUGCGc -5'
24079 5' -59.5 NC_005262.1 + 48483 0.66 0.553816
Target:  5'- --gCGUGGgcACGGG-CgGCGCGACgGCa -3'
miRNA:   3'- ucaGCACC--UGCCCaGaCGCGCUG-CGc -5'
24079 5' -59.5 NC_005262.1 + 22235 0.66 0.544603
Target:  5'- uGUUGUGGGCGuGGcccggaucguacacgCUGUGCGcAUGCGu -3'
miRNA:   3'- uCAGCACCUGC-CCa--------------GACGCGC-UGCGC- -5'
24079 5' -59.5 NC_005262.1 + 11637 0.67 0.513281
Target:  5'- cGUCGaGGcCGGGguagUUGCGCGcCGCc -3'
miRNA:   3'- uCAGCaCCuGCCCa---GACGCGCuGCGc -5'
24079 5' -59.5 NC_005262.1 + 53809 0.67 0.487593
Target:  5'- aGGUCGacagcGGcACGGGcaUCgagcugacgcaccgGCGCGGCGCGg -3'
miRNA:   3'- -UCAGCa----CC-UGCCC--AGa-------------CGCGCUGCGC- -5'
24079 5' -59.5 NC_005262.1 + 13087 0.67 0.474014
Target:  5'- uGUCGaGGAa-GGUCUGCGCcuucucGCGCGa -3'
miRNA:   3'- uCAGCaCCUgcCCAGACGCGc-----UGCGC- -5'
24079 5' -59.5 NC_005262.1 + 5579 0.68 0.442786
Target:  5'- aAGuUCGUGGuACGGG-CgGCGCcgcucuccgcaggcGACGCGg -3'
miRNA:   3'- -UC-AGCACC-UGCCCaGaCGCG--------------CUGCGC- -5'
24079 5' -59.5 NC_005262.1 + 13453 0.68 0.427158
Target:  5'- cGGUCGUcgcGGGCGcuucGUcCUGCGCGGCGgGc -3'
miRNA:   3'- -UCAGCA---CCUGCc---CA-GACGCGCUGCgC- -5'
24079 5' -59.5 NC_005262.1 + 32898 0.68 0.41812
Target:  5'- cGUCGgccaagccGGCGGcGUCgcacGCGCGACGCu -3'
miRNA:   3'- uCAGCac------CUGCC-CAGa---CGCGCUGCGc -5'
24079 5' -59.5 NC_005262.1 + 44902 0.7 0.326831
Target:  5'- aGGcCGUGGuCGGGaCUGgaUGCGGCGCa -3'
miRNA:   3'- -UCaGCACCuGCCCaGAC--GCGCUGCGc -5'
24079 5' -59.5 NC_005262.1 + 41292 0.72 0.269606
Target:  5'- --gCGUGGGCGacaucaaGGUaugGCGCGGCGCGa -3'
miRNA:   3'- ucaGCACCUGC-------CCAga-CGCGCUGCGC- -5'
24079 5' -59.5 NC_005262.1 + 17333 0.73 0.208832
Target:  5'- cGUCGUGGccggcgcggcauuCGGGUCcgGCGCGggcgGCGCGg -3'
miRNA:   3'- uCAGCACCu------------GCCCAGa-CGCGC----UGCGC- -5'
24079 5' -59.5 NC_005262.1 + 34126 0.76 0.143163
Target:  5'- gGGU--UGGGCGGG-CUGCGCgGGCGCGg -3'
miRNA:   3'- -UCAgcACCUGCCCaGACGCG-CUGCGC- -5'
24079 5' -59.5 NC_005262.1 + 53900 1.07 0.000727
Target:  5'- aAGUCGUGGACGGGUCUGCGCGACGCGc -3'
miRNA:   3'- -UCAGCACCUGCCCAGACGCGCUGCGC- -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.