miRNA display CGI


Results 1 - 20 of 41 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
11451 5' -64 NC_003085.1 + 43081 0.66 0.272875
Target:  5'- aCGGCCgaggaagaaaCGAccGGCCGccaGCAGCAcGCCGGg -3'
miRNA:   3'- -GUCGG----------GCU--UCGGCc--CGUCGU-CGGCCa -5'
11451 5' -64 NC_003085.1 + 40430 0.66 0.263654
Target:  5'- gCAGCCgCGGugugguguggaagAGCCGGGCggacuugaggagguAGUccucuaccgGGCCGGUg -3'
miRNA:   3'- -GUCGG-GCU-------------UCGGCCCG--------------UCG---------UCGGCCA- -5'
11451 5' -64 NC_003085.1 + 42021 0.66 0.262358
Target:  5'- uCGGCacggaCGAgggcgccuucucuccAGCCGGGUAGCAGuCCGc- -3'
miRNA:   3'- -GUCGg----GCU---------------UCGGCCCGUCGUC-GGCca -5'
11451 5' -64 NC_003085.1 + 31912 0.66 0.259781
Target:  5'- aGGCggaCGAGGCaCGGgaGCAGCAcCCGGUg -3'
miRNA:   3'- gUCGg--GCUUCG-GCC--CGUCGUcGGCCA- -5'
11451 5' -64 NC_003085.1 + 35301 0.66 0.253428
Target:  5'- -uGCUCGGcagcaGGUCGcGGCGGCuGUCGGUg -3'
miRNA:   3'- guCGGGCU-----UCGGC-CCGUCGuCGGCCA- -5'
11451 5' -64 NC_003085.1 + 38418 0.66 0.2528
Target:  5'- gUAGCCCGucacAAGuCCGGGCcugucucGGCGGUCGa- -3'
miRNA:   3'- -GUCGGGC----UUC-GGCCCG-------UCGUCGGCca -5'
11451 5' -64 NC_003085.1 + 1747 0.66 0.247204
Target:  5'- -cGCCCGucAGCaGGcGCAGCAGUCGa- -3'
miRNA:   3'- guCGGGCu-UCGgCC-CGUCGUCGGCca -5'
11451 5' -64 NC_003085.1 + 15182 0.66 0.241106
Target:  5'- aCGGCCCGGcugAGCCGGuGCgccAGC-GCCGc- -3'
miRNA:   3'- -GUCGGGCU---UCGGCC-CG---UCGuCGGCca -5'
11451 5' -64 NC_003085.1 + 335 0.66 0.241106
Target:  5'- aAGCCCGccGCCaagaaGGGCGGCAagggaugagcGCCGa- -3'
miRNA:   3'- gUCGGGCuuCGG-----CCCGUCGU----------CGGCca -5'
11451 5' -64 NC_003085.1 + 41335 0.66 0.240504
Target:  5'- aAGCCCGggGaCUuGGCcuucuacGGCAGgCCGGg -3'
miRNA:   3'- gUCGGGCuuC-GGcCCG-------UCGUC-GGCCa -5'
11451 5' -64 NC_003085.1 + 18095 0.67 0.220189
Target:  5'- gCGGCCgGGgucgagcuucuugucGGCgCGGGCGGgaCGGCCGGc -3'
miRNA:   3'- -GUCGGgCU---------------UCG-GCCCGUC--GUCGGCCa -5'
11451 5' -64 NC_003085.1 + 2840 0.67 0.217963
Target:  5'- -uGCCCGGcAGCCGGGCgaggagggcugAGCcauGCCGa- -3'
miRNA:   3'- guCGGGCU-UCGGCCCG-----------UCGu--CGGCca -5'
11451 5' -64 NC_003085.1 + 23187 0.67 0.215756
Target:  5'- uCAGgCCGAgGGCCaggacccugugaaGGCAGUGGCCGGg -3'
miRNA:   3'- -GUCgGGCU-UCGGc------------CCGUCGUCGGCCa -5'
11451 5' -64 NC_003085.1 + 8630 0.67 0.212482
Target:  5'- cCAGCCCGGccGCCGucaGGUacaGGcCGGCCGGg -3'
miRNA:   3'- -GUCGGGCUu-CGGC---CCG---UC-GUCGGCCa -5'
11451 5' -64 NC_003085.1 + 9084 0.67 0.212482
Target:  5'- cCAGCgCCaGAGGCgucagcgccgCGGGCAGCAG-CGGc -3'
miRNA:   3'- -GUCG-GG-CUUCG----------GCCCGUCGUCgGCCa -5'
11451 5' -64 NC_003085.1 + 22928 0.67 0.20712
Target:  5'- aAGCCCuccGAGGCCgcgucgacGGcGCGGCgaAGCCGGa -3'
miRNA:   3'- gUCGGG---CUUCGG--------CC-CGUCG--UCGGCCa -5'
11451 5' -64 NC_003085.1 + 9464 0.67 0.20712
Target:  5'- gAGCUCGAGGCCGGGCAauucgucCAGCg--- -3'
miRNA:   3'- gUCGGGCUUCGGCCCGUc------GUCGgcca -5'
11451 5' -64 NC_003085.1 + 41120 0.67 0.20659
Target:  5'- aGGCCC-AGGCCGaGcGCGGCAccccguacugcugGCCGGa -3'
miRNA:   3'- gUCGGGcUUCGGC-C-CGUCGU-------------CGGCCa -5'
11451 5' -64 NC_003085.1 + 23330 0.67 0.206062
Target:  5'- gCAGCCCGAguuccacGGCCGcgucguugaugauGGaGGCAGCCGuGUc -3'
miRNA:   3'- -GUCGGGCU-------UCGGC-------------CCgUCGUCGGC-CA- -5'
11451 5' -64 NC_003085.1 + 48679 0.67 0.201875
Target:  5'- uGGCCUGggGCCacaGCAGCAGgCCGc- -3'
miRNA:   3'- gUCGGGCuuCGGcc-CGUCGUC-GGCca -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.