miRNA display CGI


Results 1 - 20 of 39 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
30712 3' -54.2 NC_006552.1 + 5141 0.66 0.822095
Target:  5'- -gGgCUGCGcUCGAgGCCUg-CGGCGGUc -3'
miRNA:   3'- ugUgGAUGU-AGCU-CGGAaaGCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 50461 0.66 0.812841
Target:  5'- cGCGCCgcggUGC-UCG-GCCUUgaUCuGCGGCa -3'
miRNA:   3'- -UGUGG----AUGuAGCuCGGAA--AGcCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 36017 0.66 0.809087
Target:  5'- aACACCaGCAUUGAGCUgcacgaacuggcgUUC-GUGGCu -3'
miRNA:   3'- -UGUGGaUGUAGCUCGGa------------AAGcCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 14782 0.66 0.8034
Target:  5'- cCAUCUGgGUgGgcGGCCUgaUUGGCGGCc -3'
miRNA:   3'- uGUGGAUgUAgC--UCGGAa-AGCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 47212 0.66 0.79378
Target:  5'- -aGCCaacGCGUCcgGGGCCa-UCGGCGGUa -3'
miRNA:   3'- ugUGGa--UGUAG--CUCGGaaAGCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 5094 0.66 0.792808
Target:  5'- uAUGCCUGCAUCGAGgggaaccgucccaCCgcgaacccaUGGUGGCg -3'
miRNA:   3'- -UGUGGAUGUAGCUC-------------GGaaa------GCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 11398 0.66 0.783992
Target:  5'- gGCACCgg-GUCGuGCUcUUUGGcCGGCu -3'
miRNA:   3'- -UGUGGaugUAGCuCGGaAAGCC-GCCG- -5'
30712 3' -54.2 NC_006552.1 + 19194 0.67 0.774048
Target:  5'- cGCACCUu--UUGGGCCgggaaGGCGcGCa -3'
miRNA:   3'- -UGUGGAuguAGCUCGGaaag-CCGC-CG- -5'
30712 3' -54.2 NC_006552.1 + 16091 0.67 0.774048
Target:  5'- gGCACCgcugccccACGUC-AGCCg--CGGCGcGCu -3'
miRNA:   3'- -UGUGGa-------UGUAGcUCGGaaaGCCGC-CG- -5'
30712 3' -54.2 NC_006552.1 + 29079 0.67 0.771036
Target:  5'- cCugCUGCGcgccaguguucuguUCGGuguugucuGCCUgaUCGGCGGCa -3'
miRNA:   3'- uGugGAUGU--------------AGCU--------CGGAa-AGCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 36466 0.67 0.763959
Target:  5'- -gAUCUGCGggaAGCCggcCGGCGGCg -3'
miRNA:   3'- ugUGGAUGUagcUCGGaaaGCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 32832 0.67 0.743388
Target:  5'- cGCGCaCUGCGUCguuGAGCCagUCGGCcacguccuGGUc -3'
miRNA:   3'- -UGUG-GAUGUAG---CUCGGaaAGCCG--------CCG- -5'
30712 3' -54.2 NC_006552.1 + 13209 0.67 0.73293
Target:  5'- cACGCCaGCAgcgaGAGCUUgccgCGGCGcGCc -3'
miRNA:   3'- -UGUGGaUGUag--CUCGGAaa--GCCGC-CG- -5'
30712 3' -54.2 NC_006552.1 + 15208 0.68 0.711723
Target:  5'- -gGCCUACuacguUCGAGCCga-CGGCacGCg -3'
miRNA:   3'- ugUGGAUGu----AGCUCGGaaaGCCGc-CG- -5'
30712 3' -54.2 NC_006552.1 + 62085 0.68 0.711723
Target:  5'- cCACagUugAUCGAGCCUcagcgcuccgcUUCGuaaGCGGCg -3'
miRNA:   3'- uGUGg-AugUAGCUCGGA-----------AAGC---CGCCG- -5'
30712 3' -54.2 NC_006552.1 + 39970 0.68 0.700997
Target:  5'- gGCGCCguugACGUUGAGCUgcgacgCuGUGGCg -3'
miRNA:   3'- -UGUGGa---UGUAGCUCGGaaa---GcCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 52318 0.68 0.690205
Target:  5'- uGCGCCU-CggCGA-CC--UCGGCGGCg -3'
miRNA:   3'- -UGUGGAuGuaGCUcGGaaAGCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 63133 0.69 0.669556
Target:  5'- cGCGCCgGCGUCGugcgcGGCCUgcUgaucgaacucgacgcCGGCGGCa -3'
miRNA:   3'- -UGUGGaUGUAGC-----UCGGA--Aa--------------GCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 49463 0.69 0.668466
Target:  5'- gACGCgCUGCAUguAGCCggcaucCGGCGGUg -3'
miRNA:   3'- -UGUG-GAUGUAgcUCGGaaa---GCCGCCG- -5'
30712 3' -54.2 NC_006552.1 + 20449 0.69 0.668466
Target:  5'- -gGCCUcguucgGC-UCGGGCCgaccgUCGGCGGa -3'
miRNA:   3'- ugUGGA------UGuAGCUCGGaa---AGCCGCCg -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.