Schema for xenoRefSeqAli
  Database: equCab1    Primary Table: xenoRefSeqAli    Row Count: 320,808   Data last updated: 2020-08-21
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type info description
bin 585smallint(5) unsigned range Indexing field to speed chromosome range queries.
matches 2545int(10) unsigned range Number of bases that match that aren't repeats
misMatches 610int(10) unsigned range Number of bases that don't match
repMatches 0int(10) unsigned range Number of bases that match but are part of repeats
nCount 0int(10) unsigned range Number of 'N' bases
qNumInsert 10int(10) unsigned range Number of inserts in query
qBaseInsert 1065int(10) unsigned range Number of bases inserted in query
tNumInsert 25int(10) unsigned range Number of inserts in target
tBaseInsert 49994int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_177261varchar(255) values Query sequence name
qSize 7320int(10) unsigned range Query sequence size
qStart 487int(10) unsigned range Alignment start position in query
qEnd 4707int(10) unsigned range Alignment end position in query
tName chr1varchar(255) values Target sequence name
tSize 179667691int(10) unsigned range Target sequence size
tStart 658int(10) unsigned range Alignment start position in target
tEnd 53807int(10) unsigned range Alignment end position in target
blockCount 26int(10) unsigned range Number of blocks in alignment
blockSizes 106,199,59,147,117,366,11,2...longblob   Size of each block
qStarts 487,593,792,851,998,1295,17...longblob   Start of each block in query.
tStarts 179613884,179620719,1796215...longblob   Start of each block in target.

Connected Tables and Joining Fields
        equCab1.all_est.qName (via xenoRefSeqAli.qName)
      equCab1.all_mrna.qName (via xenoRefSeqAli.qName)
      equCab1.refGene.name (via xenoRefSeqAli.qName)
      equCab1.refSeqAli.qName (via xenoRefSeqAli.qName)
      equCab1.xenoMrna.qName (via xenoRefSeqAli.qName)
      equCab1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      equCab1.xenoRefGene.name (via xenoRefSeqAli.qName)
      hgFixed.gbCdnaInfo.acc (via xenoRefSeqAli.qName)
      hgFixed.gbMiscDiff.acc (via xenoRefSeqAli.qName)
      hgFixed.gbSeq.acc (via xenoRefSeqAli.qName)
      hgFixed.gbWarn.acc (via xenoRefSeqAli.qName)
      hgFixed.imageClone.acc (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
5852545610001010652549994+-NM_17726173204874707chr11796676916585380726106,199,59,147,117,366,11,24,6,109,72,62,162,69,87,143,85,175,143,159,94,94,225,104,157,180,487,593,792,851,998,1295,1745,1829,1853,1859,1968,2040,2102,2273,2348,2453,2596,3035,3210,3656,3851,3945,4039,4264,4368,4527,179613884,179620719,179621568,179635395,179635921,179637639,179638032,179638143,179638778,179640834,179641723,179641889,17964729 ...
58515473180072883940067+-NM_177469477704748chr1179667691665381084701228,92,136,124,147,7,90,712,47,275,171,36,0,192,1131,1267,1391,1538,1545,1636,2351,2413,2699,4712,179559221,179559389,179568500,179569761,179574363,179580147,179597142,179597985,179598697,179598744,179599042,179601117,
3149126737300191907202411++NR_11100350533183865chrUn4059097533361842253361882762157,42,93,33,46,12,123,73,138,30,162,39,264,33,96,84,66,111,9,84,45,318,788,855,960,1024,1086,1136,1284,1400,1538,1610,1786,1869,2156,2194,2522,2952,3144,3531,3600,3820,336184225,336184957,336185015,336185129,336185217,336185288,336185343,336185491,336185614,336185764,336185836,336186016,33618612 ...
5851582265004100937860+-NM_0012058462070892036chr1179667691684841081911055,94,39,128,124,149,48,180,541,489,89,188,290,329,457,581,743,826,1006,1547,179559500,179560323,179560435,179568508,179569761,179574363,179597150,179597985,179598171,179598718,
9148178900211748195++NM_024410102601023chr9756433664318873343197834586,373,301,53,93,0,86,459,844,930,43188733,43188820,43197266,43197660,43197741,
731516194026772827170034+-NM_00110892328253572821chr11796676914451296168992844,100,86,65,104,53,1,119,85,96,75,68,114,73,93,18,64,6,30,10,17,38,49,21,81,69,124,33,357,401,501,587,652,756,809,810,929,1014,1110,1185,1253,1367,1440,1561,1611,1675,1681,1711,1721,1742,1780,1854,1954,2035,2253,27 ...179050792,179079976,179083351,179131632,179150516,179161927,179161985,179163970,179177307,179197216,179197422,179206241,17921689 ...
731478196028676423170068+-NM_00112736328433562822chr11796676914451296168992444,99,87,65,104,53,1,119,85,96,75,68,114,73,93,64,6,30,38,49,21,152,133,33,356,400,499,586,651,755,808,809,928,1013,1109,1184,1252,1366,1439,1610,1674,1680,1741,1779,1853,1954,2245,2789,179050792,179079976,179083350,179131632,179150516,179161927,179161985,179163970,179177307,179197216,179197422,179206241,17921689 ...
6141371179001434911326++NM_19914424625422441chr25353644643885571388744717285,153,91,69,60,12,26,200,78,44,66,83,111,68,95,44,65,542,837,1023,1115,1252,1325,1337,1428,1646,1724,1771,1927,2038,2154,2230,2327,2376,3885571,3885860,3886051,3886142,3886278,3886347,3886363,3886454,3886669,3886750,3886794,3886952,3887058,3887175,3887243,3887338, ...
6141375177001534510322++NM_00128257525916732570chr25353644643885573388744718279,8,153,91,69,60,12,26,200,78,44,66,83,111,68,95,44,65,673,954,966,1152,1244,1381,1454,1466,1557,1775,1853,1900,2056,2167,2283,2359,2456,2505,3885573,3885852,3885860,3886051,3886142,3886278,3886347,3886363,3886454,3886669,3886750,3886794,3886952,3887058,3887175,3887243, ...
731430193028676423170119+-NM_18314427923562771chr11796676914451296168992444,99,87,65,104,53,1,119,85,96,75,68,114,73,42,64,6,30,38,49,21,152,133,33,356,400,499,586,651,755,808,809,928,1013,1109,1184,1252,1366,1439,1559,1623,1629,1690,1728,1802,1903,2194,2738,179050792,179079976,179083350,179131632,179150516,179161927,179161985,179163970,179177307,179197216,179197422,179206241,17921689 ...

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.