miRNA display CGI


Results 1 - 20 of 29 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
19253 5' -54.2 NC_004684.1 + 2300 0.67 0.815935
Target:  5'- cGACGCGGuGCUgACCGccgugcacgUCGGUGaCCAc -3'
miRNA:   3'- cCUGUGCC-UGAgUGGC---------AGCUACaGGU- -5'
19253 5' -54.2 NC_004684.1 + 9867 0.68 0.737855
Target:  5'- uGGAgGCGGGC-CACCGccUCGGgaUCCGg -3'
miRNA:   3'- -CCUgUGCCUGaGUGGC--AGCUacAGGU- -5'
19253 5' -54.2 NC_004684.1 + 11508 0.66 0.867041
Target:  5'- -uGCugGGACUCccggcACCGcUCGGUGggCCu -3'
miRNA:   3'- ccUGugCCUGAG-----UGGC-AGCUACa-GGu -5'
19253 5' -54.2 NC_004684.1 + 14744 0.66 0.84244
Target:  5'- aGGAUGCGGG---ACCGUCGcgGUUCc -3'
miRNA:   3'- -CCUGUGCCUgagUGGCAGCuaCAGGu -5'
19253 5' -54.2 NC_004684.1 + 15026 0.66 0.867041
Target:  5'- cGGCugGGACggCACCaucgaGUCGGUGcugcuggaUCCGa -3'
miRNA:   3'- cCUGugCCUGa-GUGG-----CAGCUAC--------AGGU- -5'
19253 5' -54.2 NC_004684.1 + 18459 0.72 0.494646
Target:  5'- aGGACgACGGcaccgaGCUggUGCUGUCGGUGUCCGg -3'
miRNA:   3'- -CCUG-UGCC------UGA--GUGGCAGCUACAGGU- -5'
19253 5' -54.2 NC_004684.1 + 18952 0.68 0.737855
Target:  5'- cGGCGCaGGAUgccagCGCggUGUCGAUGUCCu -3'
miRNA:   3'- cCUGUG-CCUGa----GUG--GCAGCUACAGGu -5'
19253 5' -54.2 NC_004684.1 + 21460 0.66 0.867041
Target:  5'- aGGACACcccGAC-CACCGaCGAggUGUUCAa -3'
miRNA:   3'- -CCUGUGc--CUGaGUGGCaGCU--ACAGGU- -5'
19253 5' -54.2 NC_004684.1 + 30697 0.67 0.819571
Target:  5'- cGACGuaccCGGACUCcgacccagucucgccGCCGUCGAUGgugguggCCu -3'
miRNA:   3'- cCUGU----GCCUGAG---------------UGGCAGCUACa------GGu -5'
19253 5' -54.2 NC_004684.1 + 34182 0.66 0.84244
Target:  5'- uGGGCcgcCGGGCUguCCGUCGccAUGgCCAc -3'
miRNA:   3'- -CCUGu--GCCUGAguGGCAGC--UACaGGU- -5'
19253 5' -54.2 NC_004684.1 + 35447 0.67 0.797325
Target:  5'- cGGACAgCGGGCg-ACCGUUGcgG-CCGg -3'
miRNA:   3'- -CCUGU-GCCUGagUGGCAGCuaCaGGU- -5'
19253 5' -54.2 NC_004684.1 + 37191 0.69 0.674711
Target:  5'- --cCAUGGACUCGCCGgguUUGGUGgCCAc -3'
miRNA:   3'- ccuGUGCCUGAGUGGC---AGCUACaGGU- -5'
19253 5' -54.2 NC_004684.1 + 41490 0.66 0.850863
Target:  5'- aGGugAUGGACa-ACCG--GGUGUCCAu -3'
miRNA:   3'- -CCugUGCCUGagUGGCagCUACAGGU- -5'
19253 5' -54.2 NC_004684.1 + 43936 0.7 0.620923
Target:  5'- cGGGCAUuggcucccaGGuCUCGCCGUCGAgg-CCGa -3'
miRNA:   3'- -CCUGUG---------CCuGAGUGGCAGCUacaGGU- -5'
19253 5' -54.2 NC_004684.1 + 46765 0.7 0.631699
Target:  5'- cGGACGCaGGCggcgcaggaACCGUCGAccGUCCGg -3'
miRNA:   3'- -CCUGUGcCUGag-------UGGCAGCUa-CAGGU- -5'
19253 5' -54.2 NC_004684.1 + 49129 0.68 0.748085
Target:  5'- cGGC-CGGGCgugccgUUGCCGUCGAUGgcggCCAc -3'
miRNA:   3'- cCUGuGCCUG------AGUGGCAGCUACa---GGU- -5'
19253 5' -54.2 NC_004684.1 + 49223 0.69 0.696024
Target:  5'- uGGACACcGACgCGCCGauuUCGAUGUugCCGa -3'
miRNA:   3'- -CCUGUGcCUGaGUGGC---AGCUACA--GGU- -5'
19253 5' -54.2 NC_004684.1 + 49707 0.66 0.850863
Target:  5'- cGGGCACGcGCUCGgCGgcgCGgcGUUCAa -3'
miRNA:   3'- -CCUGUGCcUGAGUgGCa--GCuaCAGGU- -5'
19253 5' -54.2 NC_004684.1 + 57535 0.66 0.867041
Target:  5'- gGGAUccgGCGGcaGCUCACCGgcggCGGUGaUCGa -3'
miRNA:   3'- -CCUG---UGCC--UGAGUGGCa---GCUACaGGU- -5'
19253 5' -54.2 NC_004684.1 + 57692 0.69 0.685392
Target:  5'- aGGACAC---CUCGCCGUCGAUGguuuuggUCAg -3'
miRNA:   3'- -CCUGUGccuGAGUGGCAGCUACa------GGU- -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.