miRNA display CGI


Results 1 - 20 of 38 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
5566 3' -62.2 NC_001806.1 + 129862 1.08 0.001114
Target:  5'- cACCCCCCUCGGGGACGUGACCACGUGg -3'
miRNA:   3'- -UGGGGGGAGCCCCUGCACUGGUGCAC- -5'
5566 3' -62.2 NC_001806.1 + 1326 0.74 0.263025
Target:  5'- aACUUCCCgccgCGGGGGCGUGGCCAa--- -3'
miRNA:   3'- -UGGGGGGa---GCCCCUGCACUGGUgcac -5'
5566 3' -62.2 NC_001806.1 + 69119 0.73 0.281385
Target:  5'- uGCgCCCC-CGGGGACGcuaaUGGCgCGCGUGc -3'
miRNA:   3'- -UGgGGGGaGCCCCUGC----ACUG-GUGCAC- -5'
5566 3' -62.2 NC_001806.1 + 4173 0.73 0.303404
Target:  5'- cACCCgCCC-CGGGGGCGggggcccggcgccgGGCCACGg- -3'
miRNA:   3'- -UGGG-GGGaGCCCCUGCa-------------CUGGUGCac -5'
5566 3' -62.2 NC_001806.1 + 147039 0.72 0.321121
Target:  5'- gGCCgCCCgCGGGGACGgccccgGAagucuCCGCGUGg -3'
miRNA:   3'- -UGGgGGGaGCCCCUGCa-----CU-----GGUGCAC- -5'
5566 3' -62.2 NC_001806.1 + 119604 0.72 0.335268
Target:  5'- aGCCCCCCggCGGGGGCcgcuuuGUGGCCccaGCGc- -3'
miRNA:   3'- -UGGGGGGa-GCCCCUG------CACUGG---UGCac -5'
5566 3' -62.2 NC_001806.1 + 30621 0.71 0.355081
Target:  5'- cCCCCCCUCcgacucagggccggGGGGGCGcGGCCAgGgUGg -3'
miRNA:   3'- uGGGGGGAG--------------CCCCUGCaCUGGUgC-AC- -5'
5566 3' -62.2 NC_001806.1 + 69982 0.71 0.357332
Target:  5'- gGCCCUgguggUCGGGGACGcgcugagGGCCACGUGu -3'
miRNA:   3'- -UGGGGgg---AGCCCCUGCa------CUGGUGCAC- -5'
5566 3' -62.2 NC_001806.1 + 106484 0.71 0.36491
Target:  5'- cUCCCCgUCGGccucGACGUGGCC-CGUGg -3'
miRNA:   3'- uGGGGGgAGCCc---CUGCACUGGuGCAC- -5'
5566 3' -62.2 NC_001806.1 + 29192 0.71 0.383545
Target:  5'- cCCCCCCUCGaGaGGACGgggggagcgacgagGGCgACGUGu -3'
miRNA:   3'- uGGGGGGAGC-C-CCUGCa-------------CUGgUGCAC- -5'
5566 3' -62.2 NC_001806.1 + 110107 0.71 0.388301
Target:  5'- gGCCCCCUaCGGuGGAUGUGG--GCGUGg -3'
miRNA:   3'- -UGGGGGGaGCC-CCUGCACUggUGCAC- -5'
5566 3' -62.2 NC_001806.1 + 108731 0.71 0.388301
Target:  5'- cACCCCCC-CGGGGACGgcgaGACguuGCGa- -3'
miRNA:   3'- -UGGGGGGaGCCCCUGCa---CUGg--UGCac -5'
5566 3' -62.2 NC_001806.1 + 57902 0.7 0.412655
Target:  5'- cGCCCCCgCUUGGucguGGGaGUGACCcGCGUGg -3'
miRNA:   3'- -UGGGGG-GAGCC----CCUgCACUGG-UGCAC- -5'
5566 3' -62.2 NC_001806.1 + 89039 0.7 0.42098
Target:  5'- cCCCCCCgcaguacaccUUGGGGGCGcgcuugaggUGACCGuCGUGc -3'
miRNA:   3'- uGGGGGG----------AGCCCCUGC---------ACUGGU-GCAC- -5'
5566 3' -62.2 NC_001806.1 + 72490 0.7 0.446551
Target:  5'- cACCCCCUgCGGGG-CGaGAUCGCGg- -3'
miRNA:   3'- -UGGGGGGaGCCCCuGCaCUGGUGCac -5'
5566 3' -62.2 NC_001806.1 + 22288 0.69 0.455265
Target:  5'- aACCCgcgcgugguCCC-CGGGGACGUGGCgCugGa- -3'
miRNA:   3'- -UGGG---------GGGaGCCCCUGCACUG-GugCac -5'
5566 3' -62.2 NC_001806.1 + 5947 0.69 0.455265
Target:  5'- gACCgCCCCaaGGGGGCGgGGCCGCc-- -3'
miRNA:   3'- -UGG-GGGGagCCCCUGCaCUGGUGcac -5'
5566 3' -62.2 NC_001806.1 + 64121 0.69 0.500139
Target:  5'- gACCCCUCUCgccccaGGGcGAUGUGGCgcaugccgCGCGUGg -3'
miRNA:   3'- -UGGGGGGAG------CCC-CUGCACUG--------GUGCAC- -5'
5566 3' -62.2 NC_001806.1 + 88948 0.69 0.500139
Target:  5'- aACCCCgC-CGGGG-CGUGGuCCACGc- -3'
miRNA:   3'- -UGGGGgGaGCCCCuGCACU-GGUGCac -5'
5566 3' -62.2 NC_001806.1 + 54714 0.68 0.537396
Target:  5'- -aCgCCCUCGGGGACGcaGCCGgcCGUGc -3'
miRNA:   3'- ugGgGGGAGCCCCUGCacUGGU--GCAC- -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.