field | example | SQL type | info | description |
bin | 609 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
level | 1 | int(10) unsigned | range | Level of alignment |
tName | chr1 | varchar(255) | values | Target chromosome |
tStart | 3199684 | int(10) unsigned | range | Start on target |
tEnd | 3200138 | int(10) unsigned | range | End on target |
strand | - | char(1) | values | Orientation of query. + or - |
qName | HE566665 | varchar(255) | values | Query chromosome |
qStart | 278744 | int(10) unsigned | range | Start on query |
qEnd | 279210 | int(10) unsigned | range | End on query |
chainId | 144794 | int(10) unsigned | range | Associated chain Id with alignment details |
ali | 393 | int(10) unsigned | range | Bases in gap-free alignments |
score | 10745 | double | range | Score - a number proportional to 100x matching bases |
qOver | -1 | int(11) | range | Overlap with parent gap on query side. -1 for undefined |
qFar | -1 | int(11) | range | Distance from parent gap on query side. -1 for undefined |
qDup | 0 | int(11) | range | Bases with two or more copies in query. -1 for undefined |
type | top | varchar(255) | values | Syntenic type: gap/top/syn/nonsyn/inv |
tN | 0 | int(11) | range | Unsequenced bases on target. -1 for undefined |
qN | 0 | int(11) | range | Unsequenced bases on query. -1 for undefined |
tR | 45 | int(11) | range | RepeatMasker bases on target. -1 for undefined |
qR | 0 | int(11) | range | RepeatMasker bases on query. -1 for undefined |
tNewR | -1 | int(11) | range | Lineage specific repeats on target. -1 for undefined |
qNewR | -1 | int(11) | range | Lineage specific repeats on query. -1 for undefined |
tOldR | -1 | int(11) | range | Bases of ancient repeats on target. -1 for undefined |
qOldR | -1 | int(11) | range | Bases of ancient repeats on query. -1 for undefined |
tTrf | 0 | int(11) | range | Bases of tandem repeats on target. -1 for undefined |
qTrf | 0 | int(11) | range | Bases of tandem repeats on query. -1 for undefined |