Schema for xenoRefSeqAli
  Database: choHof1    Primary Table: xenoRefSeqAli    Row Count: 889,220   Data last updated: 2020-08-18
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
fieldexampleSQL type description
bin 73smallint(5) unsigned Indexing field to speed chromosome range queries.
matches 2831int(10) unsigned Number of bases that match that aren't repeats
misMatches 366int(10) unsigned Number of bases that don't match
repMatches 0int(10) unsigned Number of bases that match but are part of repeats
nCount 0int(10) unsigned Number of 'N' bases
qNumInsert 22int(10) unsigned Number of inserts in query
qBaseInsert 824int(10) unsigned Number of bases inserted in query
tNumInsert 20int(10) unsigned Number of inserts in target
tBaseInsert 149556int(10) unsigned Number of bases inserted in target
strand +-char(2) + or - for strand. First character query, second target (optional)
qName NM_001106465varchar(255) Query sequence name
qSize 5085int(10) unsigned Query sequence size
qStart 1064int(10) unsigned Alignment start position in query
qEnd 5085int(10) unsigned Alignment end position in query
tName scaffold_0varchar(255) Target sequence name
tSize 197267int(10) unsigned Target sequence size
tStart 37271int(10) unsigned Alignment start position in target
tEnd 190024int(10) unsigned Alignment end position in target
blockCount 32int(10) unsigned Number of blocks in alignment
blockSizes 642,173,26,141,172,39,39,11...longblob Size of each block
qStarts 1064,1706,1879,2072,2213,24...longblob Start of each block in query.
tStarts 7243,72331,84322,111462,157...longblob Start of each block in target.

Connected Tables and Joining Fields
        choHof1.all_mrna.qName (via xenoRefSeqAli.qName)
      choHof1.xenoMrna.qName (via xenoRefSeqAli.qName)
      choHof1.xenoRefFlat.name (via xenoRefSeqAli.qName)
      choHof1.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
732831366002282420149556+-NM_001106465508510645085scaffold_01972673727119002432642,173,26,141,172,39,39,111,10,12,7,14,86,53,77,80,9,150,58,29,60,81,97,30,22,15,64,123,160,206,93,318,1064,1706,1879,2072,2213,2476,2539,2609,2727,2737,2749,2763,2778,2865,2929,3009,3089,3133,3287,3349,3378,3440,3556,3655,3702,373 ...7243,72331,84322,111462,157184,157453,157524,157585,157701,157712,157726,157733,157747,157833,157886,157963,158045,158088,158238 ...
732945353002554122149455+-NM_001163348517913405179scaffold_01972673727119002434642,173,26,139,172,75,39,54,130,56,74,33,46,36,145,58,30,40,155,76,30,22,15,64,123,155,24,29,36,15,175,93,78,240,1340,1982,2155,2182,2321,2561,2646,2777,2832,2963,3028,3105,3138,3184,3228,3385,3447,3477,3519,3676,3754,3801,3829,3845,3910,403 ...7243,72331,84322,111464,157184,157431,157524,157649,157703,157833,157889,157963,157997,158045,158088,158238,158296,158328,158368 ...
732815349002454022149589+-NM_001163349504413405044scaffold_01972673727119002434642,173,26,3,174,75,39,54,130,56,74,33,46,36,145,58,30,40,155,76,30,22,15,64,123,155,24,29,36,15,175,93,78,240,1340,1982,2155,2181,2184,2426,2511,2642,2697,2828,2893,2970,3003,3049,3093,3250,3312,3342,3384,3541,3619,3666,3694,3710,3775,389 ...7243,72331,84322,84378,157182,157431,157524,157649,157703,157833,157889,157963,157997,158045,158088,158238,158296,158328,158368, ...
732937351002554223149465+-NM_001163350517013405170scaffold_01972673727119002435642,173,27,64,60,176,75,39,54,130,56,74,33,46,36,145,58,30,40,155,76,30,22,15,64,123,155,24,29,36,15,175,93,78,240,1340,1982,2155,2184,2248,2308,2552,2637,2768,2823,2954,3019,3096,3129,3175,3219,3376,3438,3468,3510,3667,3745,3792,3820,3836,390 ...7243,72331,84322,95036,97281,157180,157431,157524,157649,157703,157833,157889,157963,157997,158045,158088,158238,158296,158328,1 ...
732947353002570722149453+-NM_030699534713405347scaffold_01972673727119002434642,173,26,141,172,75,39,54,130,56,74,33,46,36,145,58,30,40,155,76,30,22,15,64,123,155,24,29,36,15,175,93,78,240,1340,1982,2155,2348,2489,2729,2814,2945,3000,3131,3196,3273,3306,3352,3396,3553,3615,3645,3687,3844,3922,3969,3997,4013,4078,420 ...7243,72331,84322,111462,157184,157431,157524,157649,157703,157833,157889,157963,157997,158045,158088,158238,158296,158328,158368 ...
732878350002554222149525+-NM_133488511013405110scaffold_01972673727119002434642,173,27,64,176,75,39,54,130,56,74,33,46,36,145,58,30,40,155,76,30,22,15,64,123,155,24,29,36,15,175,93,78,240,1340,1982,2155,2184,2248,2492,2577,2708,2763,2894,2959,3036,3069,3115,3159,3316,3378,3408,3450,3607,3685,3732,3760,3776,3841,396 ...7243,72331,84322,95036,157180,157431,157524,157649,157703,157833,157889,157963,157997,158045,158088,158238,158296,158328,158368, ...
731851189001211813149145+-NM_00108036930188372995scaffold_01972673883919002418642,173,27,66,178,16,87,24,40,94,170,25,91,51,16,206,36,98,837,1479,1652,1679,1745,1940,2007,2095,2129,2172,2286,2457,2487,2578,2633,2650,2860,2897,7243,72331,84322,95034,157180,157384,157447,157539,157574,157616,157728,157898,157927,158019,158072,158088,158294,158330,
5852421030019112+-NM_0013128171133218572scaffold_1530894438169920562165,180,218,392,2382,2559,
58513944000000++NM_001312775982130313scaffold_1531705960535055331183,130,5350,
5852359200175181+-NM_00131279150041443scaffold_1490004729152319312261,66,41,377,2798,3140,

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