miRNA display CGI


Results 1 - 20 of 24 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
5954 3' -55.3 NC_001806.1 + 10405 0.66 0.930246
Target:  5'- gGCGGGAgccgggggguccCGCUGGCG-GGagugccgGCGAGAc- -3'
miRNA:   3'- -UGCUCU------------GCGACCGCaCCa------CGUUCUac -5'
5954 3' -55.3 NC_001806.1 + 5664 0.66 0.9249
Target:  5'- gGCGGGGCGCgagGGCG-GGUGgGu---- -3'
miRNA:   3'- -UGCUCUGCGa--CCGCaCCACgUucuac -5'
5954 3' -55.3 NC_001806.1 + 148190 0.66 0.91931
Target:  5'- cGCGGGGCGUccGGCGgGGgGCGGGcgGu -3'
miRNA:   3'- -UGCUCUGCGa-CCGCaCCaCGUUCuaC- -5'
5954 3' -55.3 NC_001806.1 + 111543 0.66 0.91931
Target:  5'- cACGGGugGCcgGGCGuUGG-GguGGAUc -3'
miRNA:   3'- -UGCUCugCGa-CCGC-ACCaCguUCUAc -5'
5954 3' -55.3 NC_001806.1 + 51279 0.66 0.91931
Target:  5'- cGCGAGcucccuGCgGCUGGCGcGGUGCcuGAc- -3'
miRNA:   3'- -UGCUC------UG-CGACCGCaCCACGuuCUac -5'
5954 3' -55.3 NC_001806.1 + 59167 0.66 0.91931
Target:  5'- uGCGGGACGCggagggGGCGUaugccGcUGCGAGGg- -3'
miRNA:   3'- -UGCUCUGCGa-----CCGCA-----CcACGUUCUac -5'
5954 3' -55.3 NC_001806.1 + 45329 0.66 0.91228
Target:  5'- gGCG-GGCGCgaugggaucgggGGCGcgcGGUGCGAGAc- -3'
miRNA:   3'- -UGCuCUGCGa-----------CCGCa--CCACGUUCUac -5'
5954 3' -55.3 NC_001806.1 + 42322 0.66 0.907399
Target:  5'- uCGGGGCGgggGGCGUGGggaaucGCGuAGGUGg -3'
miRNA:   3'- uGCUCUGCga-CCGCACCa-----CGU-UCUAC- -5'
5954 3' -55.3 NC_001806.1 + 34256 0.66 0.901083
Target:  5'- uGCGuGugGCUGGgggcuuauaUGUGGggucccggggGCGGGAUGg -3'
miRNA:   3'- -UGCuCugCGACC---------GCACCa---------CGUUCUAC- -5'
5954 3' -55.3 NC_001806.1 + 67219 0.66 0.901083
Target:  5'- gGCGGGgcGCGCUGGUGggccaGGUgaggcaggucgGCGGGGUGc -3'
miRNA:   3'- -UGCUC--UGCGACCGCa----CCA-----------CGUUCUAC- -5'
5954 3' -55.3 NC_001806.1 + 33826 0.66 0.901083
Target:  5'- cGCGGGGgGCcggagGGUGgaaggcaggggGGUGUAGGAUGg -3'
miRNA:   3'- -UGCUCUgCGa----CCGCa----------CCACGUUCUAC- -5'
5954 3' -55.3 NC_001806.1 + 143261 0.67 0.894528
Target:  5'- -gGGGAUGUgGGCGggGGUGCGcgggAGGUGu -3'
miRNA:   3'- ugCUCUGCGaCCGCa-CCACGU----UCUAC- -5'
5954 3' -55.3 NC_001806.1 + 11307 0.67 0.894528
Target:  5'- -gGAGGCGUUGGgGUGGgugucGUggGGUc -3'
miRNA:   3'- ugCUCUGCGACCgCACCa----CGuuCUAc -5'
5954 3' -55.3 NC_001806.1 + 133822 0.67 0.88774
Target:  5'- cCGGGGUGCUGGCGggaguaUGGgGCGAGggGg -3'
miRNA:   3'- uGCUCUGCGACCGC------ACCaCGUUCuaC- -5'
5954 3' -55.3 NC_001806.1 + 99726 0.67 0.88774
Target:  5'- -gGGGGCGCU-GUGUGGUGgGGGGc- -3'
miRNA:   3'- ugCUCUGCGAcCGCACCACgUUCUac -5'
5954 3' -55.3 NC_001806.1 + 16822 0.67 0.885658
Target:  5'- cAC-AGGCGCucggccucgcugggUGGUGUGGUGUggGAa- -3'
miRNA:   3'- -UGcUCUGCG--------------ACCGCACCACGuuCUac -5'
5954 3' -55.3 NC_001806.1 + 49862 0.67 0.873475
Target:  5'- gGCGAGGCGUUGGCcUGGUauaucacggGCGaugGGAUu -3'
miRNA:   3'- -UGCUCUGCGACCGcACCA---------CGU---UCUAc -5'
5954 3' -55.3 NC_001806.1 + 100803 0.69 0.761703
Target:  5'- cGCGAGACGCcGGCGacaGGUGgCGAaagggcgcGAUGg -3'
miRNA:   3'- -UGCUCUGCGaCCGCa--CCAC-GUU--------CUAC- -5'
5954 3' -55.3 NC_001806.1 + 21755 0.7 0.742257
Target:  5'- cGCGAGGCGCgGGCcGUcGG-GCGGGGUc -3'
miRNA:   3'- -UGCUCUGCGaCCG-CA-CCaCGUUCUAc -5'
5954 3' -55.3 NC_001806.1 + 3288 0.7 0.742257
Target:  5'- gGCGGGGCGCgucGGCGUGcGgcggcgGCGGGGa- -3'
miRNA:   3'- -UGCUCUGCGa--CCGCAC-Ca-----CGUUCUac -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.