Table 1.
Summary of the I Element Copies in the Drosophila mojavensis Genome
| Copy | Acc. | Scaff. | Start S. | End S. | Start Q. | End Q. | Or. | Chr.arms | Region | N | % (ID) | % (ID Flanq.) | Leng. | Integ. |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| RII_DMJA1(RC)a | CH933806.1 | 6540 | 12533998 | 12539232 | − | 2(E) | Central | 0 | 5,382 | Comp. | ||||
| RII_DMJA2a | CH933808.1 | 6496 | 21912581 | 21918262 | 1785 | 1052 | − | 5(C) | Central | 1,027 | 0.999 | 0.433 | 4,505 | Comp. |
| RII_DMJA3 | CH933807.1 | 6500 | 11558188 | 11563761 | 1 | 5382 | + | 3(B) | Central | 321 | 0.9981 | 0.43 | 4,948 | Comp. |
| RII_DMJX1 | CH933815.1 | 6482 | 430575 | 438784 | 1 | 5382 | + | N/A | N/A | 5,092 | 0.996 | 0.447 | 2,808 | Comp. |
| RII_DMJX2 | CH935525.1 | 12 | 175 | 1389 | 1 | 4456 | − | N/A | N/A | 0 | 0.99 | B/# | 1,390 | Def. |
| RII_DMJX3 | CH937682.1 | 97 | 808 | 1490 | 4702 | 5382 | − | N/A | N/A | 0 | 0.99 | B/# | 681 | Def. |
| RII_DMJX4 | CH933809.1 | 6680 | 15471148 | 15472992 | 3547 | 5382 | + | 4(D) | Central | 0 | 0.997 | 0.39 | 1,848 | Def. |
| RII_DMJX5 | CH933813.1 | 6498 | 3343118 | 3344746 | 3755 | 5382 | + | N/A | N/A | 4049 | 0.996 | 0.391 | 1,629 | Def. |
| RII_DMJX6 | CH933808.1 | 6496 | 9570337 | 9570944 | 4774 | 5382 | + | 5(C) | Central | 0 | 0.998 | 0.417 | 609 | Def. |
| RII_DMJX7 | CH933814.1 | 6308 | 2487507 | 2487762 | 5128 | 5382 | − | X(A) | Telomeric | 0 | 0.984 | 0.385 | 256 | Def. |
Note.—Acc., accession number in GenBank; Scaff., scaffold; Start S., scaffold start hit; End S., scaffold end hit; Start Q., query start hit; End Q., query end hit; Or., orientation of the copy in genome; Chr.arms, chromosome arms and conventional numbering with Muller syntenic elements in parentheses; Region, chromosome region; N, number of unidentified nucleotides; % ID, nucleic percent ID to RC; % ID Flanq., nucleic percent ID the 5′-flanking region to RC flanking region; Leng., total alignment length; Integ., copy integrity: Comp., putatively complete; Def., defective copies; N/A, not annotated; #, not computed.
aSequence used in phylogeny (fig. 4).