miRNA display CGI


Results 1 - 20 of 40 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
12807 3' -54.8 NC_003387.1 + 35109 0.69 0.528719
Target:  5'- --aCGGuUCGAGg-UCGGCGGCcUGCu -3'
miRNA:   3'- aaaGCCcAGCUCgaAGCCGUCGaACG- -5'
12807 3' -54.8 NC_003387.1 + 7955 0.67 0.650898
Target:  5'- -gUCGaGGUCGGGCcgcuucaCGGCgGGCgggUGCu -3'
miRNA:   3'- aaAGC-CCAGCUCGaa-----GCCG-UCGa--ACG- -5'
12807 3' -54.8 NC_003387.1 + 37461 0.67 0.628454
Target:  5'- -cUCGGcGUCGAccGaCUucUCGGCGGCgaccgUGCc -3'
miRNA:   3'- aaAGCC-CAGCU--C-GA--AGCCGUCGa----ACG- -5'
12807 3' -54.8 NC_003387.1 + 319 0.67 0.627331
Target:  5'- --gCGGGUCGAGgUggUCGGCcugguagucgauuGGCUcGCc -3'
miRNA:   3'- aaaGCCCAGCUCgA--AGCCG-------------UCGAaCG- -5'
12807 3' -54.8 NC_003387.1 + 52081 0.67 0.617231
Target:  5'- -aUCGGG-CGucGCUgccgCGGCGGCgacGCu -3'
miRNA:   3'- aaAGCCCaGCu-CGAa---GCCGUCGaa-CG- -5'
12807 3' -54.8 NC_003387.1 + 42738 0.67 0.606022
Target:  5'- --aCGGGUCGGGUgcgcccugCGGCGGauucuuaUGCg -3'
miRNA:   3'- aaaGCCCAGCUCGaa------GCCGUCga-----ACG- -5'
12807 3' -54.8 NC_003387.1 + 18405 0.68 0.583684
Target:  5'- --aCGGGUCG-GCcgCgGGCAGCgcggGCu -3'
miRNA:   3'- aaaGCCCAGCuCGaaG-CCGUCGaa--CG- -5'
12807 3' -54.8 NC_003387.1 + 35888 0.68 0.550512
Target:  5'- --gCGGcGU-GAGUUUCGGCAG-UUGCa -3'
miRNA:   3'- aaaGCC-CAgCUCGAAGCCGUCgAACG- -5'
12807 3' -54.8 NC_003387.1 + 16086 0.68 0.538489
Target:  5'- -cUCGGGggcgccgUCGGGCaucgCGGCGGCcaGCa -3'
miRNA:   3'- aaAGCCC-------AGCUCGaa--GCCGUCGaaCG- -5'
12807 3' -54.8 NC_003387.1 + 34438 0.67 0.650898
Target:  5'- --cCGGGUCGGcGCUggUCGaGUAGUgcgGCg -3'
miRNA:   3'- aaaGCCCAGCU-CGA--AGC-CGUCGaa-CG- -5'
12807 3' -54.8 NC_003387.1 + 51472 0.66 0.662099
Target:  5'- ---gGGGUCcgucGGCUUCGGUGGCguaccgGCc -3'
miRNA:   3'- aaagCCCAGc---UCGAAGCCGUCGaa----CG- -5'
12807 3' -54.8 NC_003387.1 + 16025 0.66 0.673271
Target:  5'- --cCGGGUCGAGauu---CAGCUUGCc -3'
miRNA:   3'- aaaGCCCAGCUCgaagccGUCGAACG- -5'
12807 3' -54.8 NC_003387.1 + 44923 0.66 0.706497
Target:  5'- ---aGGcGUUGcAGCUcggccugcaccUCgGGCAGCUUGCg -3'
miRNA:   3'- aaagCC-CAGC-UCGA-----------AG-CCGUCGAACG- -5'
12807 3' -54.8 NC_003387.1 + 44633 0.66 0.706497
Target:  5'- -cUCGGG-CGGGUUggcgccgacCGGCAGCggGUu -3'
miRNA:   3'- aaAGCCCaGCUCGAa--------GCCGUCGaaCG- -5'
12807 3' -54.8 NC_003387.1 + 9734 0.66 0.706497
Target:  5'- --aCGGGUCG-GCgucaaggUCGGCcaGGCUcacGCg -3'
miRNA:   3'- aaaGCCCAGCuCGa------AGCCG--UCGAa--CG- -5'
12807 3' -54.8 NC_003387.1 + 27937 0.66 0.695481
Target:  5'- -cUCGGGggGGGCUcggucggggcgcUCGGCGuGCUcgGCu -3'
miRNA:   3'- aaAGCCCagCUCGA------------AGCCGU-CGAa-CG- -5'
12807 3' -54.8 NC_003387.1 + 29612 0.66 0.695481
Target:  5'- ---aGGGUCGcgccgGGCgcCaGCGGCUUGCc -3'
miRNA:   3'- aaagCCCAGC-----UCGaaGcCGUCGAACG- -5'
12807 3' -54.8 NC_003387.1 + 49449 0.66 0.673271
Target:  5'- -gUCgGGGUCGucGUccauUUCGGCGGCcagGCg -3'
miRNA:   3'- aaAG-CCCAGCu-CG----AAGCCGUCGaa-CG- -5'
12807 3' -54.8 NC_003387.1 + 22495 0.66 0.673271
Target:  5'- --cCGGG-CGAcgGCcUCGGCGGCgcGCu -3'
miRNA:   3'- aaaGCCCaGCU--CGaAGCCGUCGaaCG- -5'
12807 3' -54.8 NC_003387.1 + 48831 0.66 0.673271
Target:  5'- -gUCaGGGUCGGGCagCGGCgccGGUUccgGCa -3'
miRNA:   3'- aaAG-CCCAGCUCGaaGCCG---UCGAa--CG- -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.