Table 3.

Deletions in nuclear organelle DNA

Integrant/deletion sizea
Position of deletion and of direct repeatsb
Position and structure of inverted repeatsc
Parallel losses
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(131_{p}^{Os10}(-69)\) \end{document} 8534Tttactttttttcag-----gTTACTTTTTTTCA8616 8587-8619 (13/23)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(121_{p}^{Os4}(-69)\) \end{document}
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(131_{p}^{Os10}(-16)\) \end{document} 57005ATTctttttttttaga ataCTTTTTTTTTAGA57036 57008-57061 (20/43)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(6.1_{p}^{Os1}(-18)\) \end{document} 57005ATTCTTtttttttaga atacttttTTTTTAGA57036 57017-57068 (24/52)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(92_{pm}^{Os1}(-15)\) \end{document} 57005ATTCTTtttttttaga atacTTTTTTTTTAGA57036
Unique losses
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(131_{p}^{Os10}(-14)\) \end{document} 122921AtgctccaccgcttgTGC122936 122917-122940 (7/13)
122918-122937 (7/16)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(131_{p}^{Os10}(-34)\) \end{document} 19671GaggaagatcggaattagcaattgataaaaaagaaAGGA19709 19661-19683 (7/13)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(131_{p}^{Os10}(-37)\) \end{document} 45241CataatgaaaacgcaatttctgtttttcttgaagacgaATA45281 45247-45267 (7/13)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(131_{p}^{Os10}(-18)\) \end{document} 92552TtgcaggctgcaactcgccTGCA92574 1692553-92574 (9/20)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(24_{p}^{Os4}(-13)\) \end{document} 2CCAatatcttgcttcaGCAAGATAT26 134519-36 (20/47)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(271_{m}^{At2}(-213)\) \end{document} 305456Actctaccaattg-----ttccaccCTCGTCCAAT305679 3005546-3005576 (8/16)
3005593-3005609 (7/14)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(271_{m}^{At2}(-51)\) \end{document} 121312Tcttcttccttcttcc-----tcgagaCT.CTTCCT121371 121336-121368 (9/16)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(271_{m}^{At2}(-70)\) \end{document} 162645TCTTattgtg-----gatagctcttG162719 162664-162693 (11/25)
162701-162725 (9/19)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(271_{m}^{At2}(-48)\) \end{document} 78599GTGAggaacg-----gcagacgtgaA78651 78588-78609 (8/17)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(27_{m}^{Os4}(-23)\) \end{document} 258872ATAAGCTTTaccggttaaaccttataagctttG258904 258874-258902 (6/14)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(27_{m}^{Os4}(-202)\) \end{document} 310215GACcaacctcgct-----ctaactCAAC310423 310344-310384 (13/24)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(27_{m}^{Os4}(-37)\) \end{document} 311575Aggaaactagcacttt-----aatgatGGAA.CTAG311620 311554-311579 (8/15)
[TeX:] \batchmode \documentclass[fleqn,10pt,legalpaper]{article} \usepackage{amssymb} \usepackage{amsfonts} \usepackage{amsmath} \pagestyle{empty} \begin{document} \(27_{m}^{Os4}(-114)\) \end{document} 161943ATGCccaggg-----gaaaaaatgcA162061 161935-161955 (8/16)
162009-162034 (8/17)

a Name of the locus and size of the deletion (in parentheses).

b Nucleotides in lower case are absent in NUMTs or NUPTs, but present in organellar DNA (positions in organellar DNA are indicated in superscript). Direct repeats are underlined.

c Positions of inverted repeats are given relative to organelle DNA, together with the length/number of bonds in resulting stem-loop structures (in parentheses).