Christos Noutsos; Erik Richly; Dario Leister

Table 3.

Deletions in nuclear organelle DNA

Integrant/deletion size^a	Position of deletion and of direct repeats^b	Position and structure of inverted repeats^c
Parallel losses
$\text{[math]}$	⁸⁵³⁴Tttactttttttcag-----gTTACTTTTTTTCA⁸⁶¹⁶	8587-8619 (13/23)
$\text{[math]}$
$\text{[math]}$	⁵⁷⁰⁰⁵ATTctttttttttaga ataCTTTTTTTTTAGA⁵⁷⁰³⁶	57008-57061 (20/43)
$\text{[math]}$	⁵⁷⁰⁰⁵ATTCTTtttttttaga atacttttTTTTTAGA⁵⁷⁰³⁶	57017-57068 (24/52)
$\text{[math]}$	⁵⁷⁰⁰⁵ATTCTTtttttttaga atacTTTTTTTTTAGA⁵⁷⁰³⁶
Unique losses
$\text{[math]}$	¹²²⁹²¹AtgctccaccgcttgTGC¹²²⁹³⁶	122917-122940 (7/13)
		122918-122937 (7/16)
$\text{[math]}$	¹⁹⁶⁷¹GaggaagatcggaattagcaattgataaaaaagaaAGGA¹⁹⁷⁰⁹	19661-19683 (7/13)
$\text{[math]}$	⁴⁵²⁴¹CataatgaaaacgcaatttctgtttttcttgaagacgaATA⁴⁵²⁸¹	45247-45267 (7/13)
$\text{[math]}$	⁹²⁵⁵²TtgcaggctgcaactcgccTGCA⁹²⁵⁷⁴	1692553-92574 (9/20)
$\text{[math]}$	²CCAatatcttgcttcaGCAAGATAT²⁶	134519-36 (20/47)
$\text{[math]}$	³⁰⁵⁴⁵⁶Actctaccaattg-----ttccaccCTCGTCCAAT³⁰⁵⁶⁷⁹	3005546-3005576 (8/16)
		3005593-3005609 (7/14)
$\text{[math]}$	¹²¹³¹²Tcttcttccttcttcc-----tcgagaCT.CTTCCT¹²¹³⁷¹	121336-121368 (9/16)
$\text{[math]}$	¹⁶²⁶⁴⁵TCTTattgtg-----gatagctcttG¹⁶²⁷¹⁹	162664-162693 (11/25)
		162701-162725 (9/19)
$\text{[math]}$	⁷⁸⁵⁹⁹GTGAggaacg-----gcagacgtgaA⁷⁸⁶⁵¹	78588-78609 (8/17)
$\text{[math]}$	²⁵⁸⁸⁷²ATAAGCTTTaccggttaaaccttataagctttG²⁵⁸⁹⁰⁴	258874-258902 (6/14)
$\text{[math]}$	³¹⁰²¹⁵GACcaacctcgct-----ctaactCAAC³¹⁰⁴²³	310344-310384 (13/24)
$\text{[math]}$	³¹¹⁵⁷⁵Aggaaactagcacttt-----aatgatGGAA.CTAG³¹¹⁶²⁰	311554-311579 (8/15)
$\text{[math]}$	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).

Generation and evolutionary fate of insertions of organelle DNA in the nuclear genomes of flowering plants

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