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. 2020 Jan 7;11:3. doi: 10.1186/s13100-019-0199-7

Correction to: Nested plant LTR retrotransposons target specific regions of other elements, while all LTR retrotransposons often target palindromes and nucleosome-occupied regions: in silico study

Pavel Jedlicka 1, Matej Lexa 2, Ivan Vanat 2, Roman Hobza 1, Eduard Kejnovsky 1,
PMCID: PMC6947867  PMID: 31921362

Correction to: Mobile DNA

https://doi.org/10.1186/s13100-019-0186-z

Following publication of the original article [1], the authors spotted an error in Table 2.

  • t-test pvalue in penultimate row = “0.61” should not be bold

  • the asterisks with significance levels should be as follows: “(* for p < 0.1, ** for p < 0.01 and *** for p < 0.001)”

Table 2.

Palindromes within sequences flanking the insertion site. We used the paldpl program to detect approximate palindromes of at least 3 bp with no more than 30% mismatches or indels. This analysis was done in native flanking sequences identified in plant genomes and their randomized (permutated) counterparts, to control for base content effects. We carried out a paired t-test for difference in calculated stem lengths of the native and randomized palindromes. Significant values after Benjamini-Hochberg correction for multiple family testing are marked with an asterisk and printed in bold (* for p < 0.1, ** for p < 0.01 and *** for p < 0.001). Three families with increased mean palindrome stem length after randomization are marked with a tilde

Group Count Palindrome length Paired t-test p-value
native random
ALL 14,813 5.5 5.4 0.000004***
nested 830 5.2 5.3 0.50~
non-nested 13,983 5.5 5.4 0.000001***
Ale 1314 5.5 5.5 0.93
Alesia 21 5.8 5.7 0.75
Angela 91 5.3 5.3 0.93
Athila 1088 5.5 5.3 0.008**
Bianca 443 6.0 6.1 0.97~
Bryco 29 5.8 5.9 0.95~
CRM 482 5.3 5.2 0.53
Galadriel 49 5.4 5.1 0.40
Ikeros 348 5.5 5.3 0.10
Ivana 1018 5.5 5.3 0.008**
Ogre 1520 5.5 5.4 0.64
Phygy 285 5.3 5.3 0.94
Reina 852 5.4 5.4 0.67
Retand 2078 5.4 5.3 0.37
Sire 1225 5.4 5.2 0.001**
Tcn1 1947 5.5 5.4 0.001**
TAR 477 5.5 5.4 0.14
Tekay 1029 5.4 5.4 0.61
Tork 517 5.6 5.8 0.05*~

The original article has been corrected. The correct presentation of Table 2 is shown below.

Reference

  • 1.Jedlicka, et al. Nested plant LTR retrotransposons target specific regions of other elements, while all LTR retrotransposons often target palindromes and nucleosome-occupied regions: in silico study. Mobile DNA. 2019;10:50. doi: 10.1186/s13100-019-0186-z. [DOI] [PMC free article] [PubMed] [Google Scholar]

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