miRNA display CGI


Results 1 - 20 of 22 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
28123 3' -50.8 NC_005887.1 + 10985 0.66 0.88239
Target:  5'- uGGACGcucGuCGAgGAUGGCGUGGugcucGGGUGCg -3'
miRNA:   3'- -CUUGU---C-GCUgUUGUUGCACU-----CCCACG- -5'
28123 3' -50.8 NC_005887.1 + 28232 0.66 0.857353
Target:  5'- uGAGCAGCGcgcGCAGCuuCGcGAGcGGcGCu -3'
miRNA:   3'- -CUUGUCGC---UGUUGuuGCaCUC-CCaCG- -5'
28123 3' -50.8 NC_005887.1 + 41354 0.66 0.848475
Target:  5'- --cCGGCGGCAGCAGCGcGcccGUGCg -3'
miRNA:   3'- cuuGUCGCUGUUGUUGCaCuccCACG- -5'
28123 3' -50.8 NC_005887.1 + 25491 0.66 0.848475
Target:  5'- -cGCAGCGGCGGCucgGACGaUGGcgcggcGGGUGg -3'
miRNA:   3'- cuUGUCGCUGUUG---UUGC-ACU------CCCACg -5'
28123 3' -50.8 NC_005887.1 + 32049 0.66 0.845761
Target:  5'- cAACAGCGGCAuuggccgagaagggAguGCGUucuuucGAGGGUGg -3'
miRNA:   3'- cUUGUCGCUGU--------------UguUGCA------CUCCCACg -5'
28123 3' -50.8 NC_005887.1 + 7364 0.67 0.839344
Target:  5'- cGGACGGCGACAcgacgacccACAGCGggcGGccGGG-GCc -3'
miRNA:   3'- -CUUGUCGCUGU---------UGUUGCa--CU--CCCaCG- -5'
28123 3' -50.8 NC_005887.1 + 40120 0.67 0.82037
Target:  5'- -cGCAG-GACGccuACAGCGUGc-GGUGCg -3'
miRNA:   3'- cuUGUCgCUGU---UGUUGCACucCCACG- -5'
28123 3' -50.8 NC_005887.1 + 14344 0.68 0.758576
Target:  5'- -cGCGGCGAUcgugaAGCAGCGUGccGG-GCa -3'
miRNA:   3'- cuUGUCGCUG-----UUGUUGCACucCCaCG- -5'
28123 3' -50.8 NC_005887.1 + 10738 0.68 0.752066
Target:  5'- cGAUGGCGACAuggaaucggacuggcGCGGCGgguacGAGGG-GCa -3'
miRNA:   3'- cUUGUCGCUGU---------------UGUUGCa----CUCCCaCG- -5'
28123 3' -50.8 NC_005887.1 + 17132 0.68 0.747699
Target:  5'- cGAGCAGCGGCAugACGGCGUccgcccaAGcGUGCc -3'
miRNA:   3'- -CUUGUCGCUGU--UGUUGCAc------UCcCACG- -5'
28123 3' -50.8 NC_005887.1 + 3324 0.69 0.713214
Target:  5'- -cGCGGCGACGaaguugcGCAGCGcGAGcGGcGCg -3'
miRNA:   3'- cuUGUCGCUGU-------UGUUGCaCUC-CCaCG- -5'
28123 3' -50.8 NC_005887.1 + 32821 0.69 0.691632
Target:  5'- cGAACAGCGGgc-CGACGUGAuGGccgccGUGCa -3'
miRNA:   3'- -CUUGUCGCUguuGUUGCACU-CC-----CACG- -5'
28123 3' -50.8 NC_005887.1 + 42072 0.7 0.680176
Target:  5'- -cGCGGCGACAcuCGACGUGGGccgcaggccGUGCu -3'
miRNA:   3'- cuUGUCGCUGUu-GUUGCACUCc--------CACG- -5'
28123 3' -50.8 NC_005887.1 + 38279 0.7 0.680176
Target:  5'- ---uGGCGACGacuucgcacGCAACGgucAGGGUGCc -3'
miRNA:   3'- cuugUCGCUGU---------UGUUGCac-UCCCACG- -5'
28123 3' -50.8 NC_005887.1 + 13667 0.7 0.680176
Target:  5'- aGAAC-GCGAuCAGCGGCGcGAcGGGUGg -3'
miRNA:   3'- -CUUGuCGCU-GUUGUUGCaCU-CCCACg -5'
28123 3' -50.8 NC_005887.1 + 6610 0.71 0.586572
Target:  5'- -cGCGGCGACAGCccCGUGAauucggcGGGgGCg -3'
miRNA:   3'- cuUGUCGCUGUUGuuGCACU-------CCCaCG- -5'
28123 3' -50.8 NC_005887.1 + 28623 0.72 0.564805
Target:  5'- cGGGCGGCGACGccuacaaauucaGCAgcccggcgcGCGUGAGcGUGCc -3'
miRNA:   3'- -CUUGUCGCUGU------------UGU---------UGCACUCcCACG- -5'
28123 3' -50.8 NC_005887.1 + 2595 0.72 0.553432
Target:  5'- cGACAGCGcCuugcGCAGCGUGcggcaguccGGGUGCa -3'
miRNA:   3'- cUUGUCGCuGu---UGUUGCACu--------CCCACG- -5'
28123 3' -50.8 NC_005887.1 + 5293 0.74 0.455106
Target:  5'- -uGCAGCGACAGgcuCGUGucGGUGCc -3'
miRNA:   3'- cuUGUCGCUGUUguuGCACucCCACG- -5'
28123 3' -50.8 NC_005887.1 + 26617 0.74 0.4145
Target:  5'- cGGCAGCGACAccGCAcCGUGGcacGaGGUGCa -3'
miRNA:   3'- cUUGUCGCUGU--UGUuGCACU---C-CCACG- -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.