Schema for xenoRefSeqAli
  Database: petMar3    Primary Table: xenoRefSeqAli    Row Count: 200,903   Data last updated: 2020-08-20
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 122int(10) unsigned range Number of bases that match that aren't repeats
misMatches 46int(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 21int(10) unsigned range Number of 'N' bases
qNumInsert 1int(10) unsigned range Number of inserts in query
qBaseInsert 37int(10) unsigned range Number of bases inserted in query
tNumInsert 1int(10) unsigned range Number of inserts in target
tBaseInsert 640int(10) unsigned range Number of bases inserted in target
strand +-char(2) values + or - for strand. First character query, second target (optional)
qName NM_001102113varchar(255) values Query sequence name
qSize 911int(10) unsigned range Query sequence size
qStart 207int(10) unsigned range Alignment start position in query
qEnd 433int(10) unsigned range Alignment end position in query
tName PIZI01000001v1varchar(255) values Target sequence name
tSize 27620446int(10) unsigned range Target sequence size
tStart 4514int(10) unsigned range Alignment start position in target
tEnd 5343int(10) unsigned range Alignment end position in target
blockCount 2int(10) unsigned range Number of blocks in alignment
blockSizes 144,45,longblob   Size of each block
qStarts 207,388,longblob   Start of each block in query.
tStarts 27615103,27615887,longblob   Start of each block in target.

Connected Tables and Joining Fields
        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)
      petMar3.all_est.qName (via xenoRefSeqAli.qName)
      petMar3.all_mrna.qName (via xenoRefSeqAli.qName)
      petMar3.xenoRefFlat.name (via xenoRefSeqAli.qName)
      petMar3.xenoRefGene.name (via xenoRefSeqAli.qName)

Sample Rows
 
binmatchesmisMatchesrepMatchesnCountqNumInsertqBaseInserttNumInserttBaseInsertstrandqNameqSizeqStartqEndtNametSizetStarttEndblockCountblockSizesqStartstStarts
585122460211371640+-NM_001102113911207433PIZI01000001v127620446451453432144,45,207,388,27615103,27615887,
65692545802187501218128+-NM_03248574865722726PIZI01000041v110869411936563393851651351,54,201,132,60,141,81,87,96,114,201,93,93,572,713,965,1256,1421,1631,1835,1916,2015,2111,2339,2540,2633,1484246,1485124,1487460,1490862,1491671,1493543,1494549,1496688,1497774,1499742,1500835,1502619,1503685,
58675831300524451023532+-NM_00110866652731133629PIZI01000001v12762044618019120479411168,150,123,36,3,102,111,66,63,147,102,113,281,431,557,593,596,3104,3221,3311,3380,3527,27415652,27417002,27417471,27417796,27418217,27418509,27428507,27429042,27429147,27438252,27440153,
58675231900524451023532+-NM_00126560260083043820PIZI01000001v12762044618019120479411168,146,127,36,3,102,111,66,63,150,99,304,472,618,748,784,787,3295,3412,3502,3571,3721,27415652,27417002,27417467,27417796,27417839,27418509,27428507,27429042,27429147,27438252,27440156,
58684836400623041123391+-NM_00130141255312453761PIZI01000001v12762044618019120479412168,150,123,36,3,102,141,111,66,63,147,102,245,413,563,689,725,728,1778,3236,3353,3443,3512,3659,27415652,27417002,27417471,27417796,27418217,27418509,27422370,27428507,27429042,27429147,27438252,27440153,
6359794060222276817482+-NM_0026332337841767PIZI01000043v110770264664727666661659239,166,144,192,155,118,165,138,90,84,323,489,759,951,1106,1224,1539,1677,4104099,4105682,4106373,4109137,4110393,4116388,4117702,4120718,4122898,
58684836400623041123391+-NM_00801754551693685PIZI01000001v12762044618019120479412168,150,123,36,3,102,141,111,66,63,147,102,169,337,487,613,649,652,1702,3160,3277,3367,3436,3583,27415652,27417002,27417471,27417796,27418217,27418509,27422370,27428507,27429042,27429147,27438252,27440153,
58678030600624271123514+-NM_20523041361503663PIZI01000001v12762044618019420479412168,146,127,33,3,102,33,54,111,63,150,96,150,318,464,597,630,633,750,1767,3141,3348,3417,3567,27415652,27417002,27417467,27417799,27417839,27418509,27418837,27422454,27428507,27429147,27438252,27440156,
58686433600523041223388+-NM_0010879034100573561PIZI01000001v12762044618019720478513159,150,123,2,37,3,102,141,111,66,63,150,93,57,216,366,489,491,528,531,1584,3042,3159,3249,3318,3468,27415661,27417002,27417471,27417672,27417795,27417839,27418509,27422370,27428507,27429042,27429147,27438252,27440156,
58689627000723441223431+-NM_001032624360303510PIZI01000001v12762044618019720479413168,150,125,36,2,103,36,63,111,66,63,150,93,0,168,318,444,480,482,594,1611,2991,3108,3198,3267,3417,27415652,27417002,27417471,27417796,27417899,27418508,27418831,27422448,27428507,27429042,27429147,27438252,27440156,

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