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
26693 3' -58.3 NC_005808.1 + 35860 0.66 0.462324
Target:  5'- -uUCCGCUAUUGaGcGCGGcggcccagcGCAGCGGCu -3'
miRNA:   3'- uuGGGCGAUGAC-CaCGCC---------CGUUGCUG- -5'
26693 3' -58.3 NC_005808.1 + 17521 0.66 0.462324
Target:  5'- gGGCgCGCUgcGCUGGgugGCGaugcugcccgauGGUAACGGCg -3'
miRNA:   3'- -UUGgGCGA--UGACCa--CGC------------CCGUUGCUG- -5'
26693 3' -58.3 NC_005808.1 + 30369 0.66 0.461313
Target:  5'- gAACCCGCcgcUGCUGuaggGUGGGUcggugauAACGGCg -3'
miRNA:   3'- -UUGGGCG---AUGACca--CGCCCG-------UUGCUG- -5'
26693 3' -58.3 NC_005808.1 + 9315 0.66 0.452266
Target:  5'- cGACCUgGCgGCgcacgucGGcgcgGCGGGCGGCGGCa -3'
miRNA:   3'- -UUGGG-CGaUGa------CCa---CGCCCGUUGCUG- -5'
26693 3' -58.3 NC_005808.1 + 13539 0.66 0.436425
Target:  5'- uGACCCGCUGaUGGccuacgagccgccgGUGGGUAuCGACc -3'
miRNA:   3'- -UUGGGCGAUgACCa-------------CGCCCGUuGCUG- -5'
26693 3' -58.3 NC_005808.1 + 2353 0.66 0.422829
Target:  5'- cGAUCUGUUGCUGG-GCaaacGGCAACGGu -3'
miRNA:   3'- -UUGGGCGAUGACCaCGc---CCGUUGCUg -5'
26693 3' -58.3 NC_005808.1 + 34198 0.66 0.422829
Target:  5'- uGCUCGCUGCccgacacGUGGGCGGCGAUu -3'
miRNA:   3'- uUGGGCGAUGacca---CGCCCGUUGCUG- -5'
26693 3' -58.3 NC_005808.1 + 39660 0.67 0.403856
Target:  5'- cGugCCGCgcgACgcGGUGUGGGC--CGGCa -3'
miRNA:   3'- -UugGGCGa--UGa-CCACGCCCGuuGCUG- -5'
26693 3' -58.3 NC_005808.1 + 32116 0.67 0.393653
Target:  5'- cGGCCCGUUcggGCcGGUGCugcgcgacuuccaGGGCGACGcCa -3'
miRNA:   3'- -UUGGGCGA---UGaCCACG-------------CCCGUUGCuG- -5'
26693 3' -58.3 NC_005808.1 + 4354 0.67 0.376428
Target:  5'- uGGCCguugCGUUGCcGGUGCGcgugaaGGCGACGGCc -3'
miRNA:   3'- -UUGG----GCGAUGaCCACGC------CCGUUGCUG- -5'
26693 3' -58.3 NC_005808.1 + 41597 0.67 0.367568
Target:  5'- -uCCCgGCcAgUGGcGCGGGCAGCGGg -3'
miRNA:   3'- uuGGG-CGaUgACCaCGCCCGUUGCUg -5'
26693 3' -58.3 NC_005808.1 + 36045 0.68 0.34186
Target:  5'- gGAUgCGCUGacgcCUGGcgauuCGGGCGACGACg -3'
miRNA:   3'- -UUGgGCGAU----GACCac---GCCCGUUGCUG- -5'
26693 3' -58.3 NC_005808.1 + 6340 0.68 0.333585
Target:  5'- gAACUCGCc-CUGGUGCgucuGGGUGGCGAa -3'
miRNA:   3'- -UUGGGCGauGACCACG----CCCGUUGCUg -5'
26693 3' -58.3 NC_005808.1 + 32461 0.68 0.325457
Target:  5'- cGCCCcCUACUgccgaGGUGgGGGCGGcCGAUg -3'
miRNA:   3'- uUGGGcGAUGA-----CCACgCCCGUU-GCUG- -5'
26693 3' -58.3 NC_005808.1 + 15049 0.68 0.325457
Target:  5'- uGCCCGCgu-UGaUGCGGGCAAuguuCGACu -3'
miRNA:   3'- uUGGGCGaugACcACGCCCGUU----GCUG- -5'
26693 3' -58.3 NC_005808.1 + 35186 0.68 0.324652
Target:  5'- cGCCCGCUGCUcuauacccuguccGGUcuguauuCGGGCGucaACGACg -3'
miRNA:   3'- uUGGGCGAUGA-------------CCAc------GCCCGU---UGCUG- -5'
26693 3' -58.3 NC_005808.1 + 31086 0.69 0.294426
Target:  5'- gGugCCGCUGCUcaccucGGUGCaGGcCGGCGAg -3'
miRNA:   3'- -UugGGCGAUGA------CCACGcCC-GUUGCUg -5'
26693 3' -58.3 NC_005808.1 + 8553 0.69 0.287038
Target:  5'- cAGCCgCGCcgAUg---GCGGGCAGCGACa -3'
miRNA:   3'- -UUGG-GCGa-UGaccaCGCCCGUUGCUG- -5'
26693 3' -58.3 NC_005808.1 + 39044 0.69 0.279796
Target:  5'- cAGCCCGCUGCUGcGcUGUucgGcGGCAGCuGGCa -3'
miRNA:   3'- -UUGGGCGAUGAC-C-ACG---C-CCGUUG-CUG- -5'
26693 3' -58.3 NC_005808.1 + 23176 0.7 0.25228
Target:  5'- cGGCCCcCUGCUGGUGCGacaGCAGCa-- -3'
miRNA:   3'- -UUGGGcGAUGACCACGCc--CGUUGcug -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.