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Database: rn3 Primary Table: mgcFullMrna Row Count: 6,944 Data last updated: 2018-12-26
Format description: Summary info about a patSpace alignment
On download server: MariaDB table dump directory
| field | example | SQL type | info | description |
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| bin | 601 | smallint(5) unsigned | range | Indexing field to speed chromosome range queries. |
| matches | 1434 | int(10) unsigned | range | Number of bases that match that aren't repeats |
| misMatches | 0 | int(10) unsigned | range | Number of bases that don't match |
| repMatches | 0 | int(10) unsigned | range | Number of bases that match but are part of repeats |
| nCount | 0 | int(10) unsigned | range | Number of 'N' bases |
| qNumInsert | 0 | int(10) unsigned | range | Number of inserts in query |
| qBaseInsert | 0 | int(10) unsigned | range | Number of bases inserted in query |
| tNumInsert | 6 | int(10) unsigned | range | Number of inserts in target |
| tBaseInsert | 3541 | int(10) unsigned | range | Number of bases inserted in target |
| strand | - | char(2) | values | + or - for strand. First character query, second target (optional) |
| qName | BC079076 | varchar(255) | values | Query sequence name |
| qSize | 1459 | int(10) unsigned | range | Query sequence size |
| qStart | 0 | int(10) unsigned | range | Alignment start position in query |
| qEnd | 1434 | int(10) unsigned | range | Alignment end position in query |
| tName | chr1 | varchar(255) | values | Target sequence name |
| tSize | 268121971 | int(10) unsigned | range | Target sequence size |
| tStart | 2150618 | int(10) unsigned | range | Alignment start position in target |
| tEnd | 2155593 | int(10) unsigned | range | Alignment end position in target |
| blockCount | 7 | int(10) unsigned | range | Number of blocks in alignment |
| blockSizes | 345,142,144,264,261,134,144, | longblob | | Size of each block |
| qStarts | 25,370,512,656,920,1181,1315, | longblob | | Start of each block in query. |
| tStarts | 2150618,2151622,2152351,215... | longblob | | Start of each block in target. |
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Connected Tables and Joining Fields
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hgFixed.gbCdnaInfo.acc (via mgcFullMrna.qName)
hgFixed.gbSeq.acc (via mgcFullMrna.qName)
hgFixed.imageClone.acc (via mgcFullMrna.qName)
rn3.all_mrna.qName (via mgcFullMrna.qName)
rn3.dupSpMrna.dupMrnaID (via mgcFullMrna.qName)
rn3.dupSpMrna.mrnaID (via mgcFullMrna.qName)
rn3.mgcGenes.name (via mgcFullMrna.qName)
rn3.mrnaOrientInfo.name (via mgcFullMrna.qName)
rn3.mrnaRefseq.mrna (via mgcFullMrna.qName)
rn3.spMrna.mrnaID (via mgcFullMrna.qName)
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Sample Rows
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| bin | matches | misMatches | repMatches | nCount | qNumInsert | qBaseInsert | tNumInsert | tBaseInsert | strand | qName | qSize | qStart | qEnd | tName | tSize | tStart | tEnd | blockCount | blockSizes | qStarts | tStarts |
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| 601 | 1434 | 0 | 0 | 0 | 0 | 0 | 6 | 3541 | - | BC079076 | 1459 | 0 | 1434 | chr1 | 268121971 | 2150618 | 2155593 | 7 | 345,142,144,264,261,134,144, | 25,370,512,656,920,1181,1315, | 2150618,2151622,2152351,2153061,2153587,2155023,2155449, |
| 602 | 2240 | 0 | 0 | 0 | 0 | 0 | 6 | 14418 | - | BC088417 | 2427 | 161 | 2401 | chr1 | 268121971 | 2287980 | 2304638 | 7 | 1574,217,86,121,105,32,105, | 26,1600,1817,1903,2024,2129,2161, | 2287980,2293836,2295667,2296340,2300387,2303332,2304533, |
| 603 | 1833 | 0 | 0 | 0 | 0 | 0 | 10 | 39793 | + | BC097929 | 1888 | 0 | 1833 | chr1 | 268121971 | 2394946 | 2436572 | 11 | 183,175,158,181,122,106,159,127,135,127,360, | 0,183,358,516,697,819,925,1084,1211,1346,1473, | 2394946,2410228,2412554,2415185,2420857,2423588,2424823,2433080,2434115,2434623,2436212, |
| 604 | 4581 | 0 | 0 | 0 | 0 | 0 | 6 | 44626 | - | BC085788 | 4617 | 10 | 4591 | chr1 | 268121971 | 2568535 | 2617742 | 7 | 1492,1165,161,1501,188,40,34, | 26,1518,2683,2844,4345,4533,4573, | 2568535,2573194,2574562,2581605,2586348,2617623,2617708, |
| 630 | 3206 | 2 | 0 | 0 | 0 | 0 | 2 | 12800 | + | BC083823 | 3235 | 0 | 3208 | chr1 | 268121971 | 5975206 | 5991214 | 3 | 155,2041,1012, | 0,155,2196, | 5975206,5982672,5990202, |
| 643 | 1619 | 0 | 0 | 0 | 0 | 0 | 2 | 3 | - | BC099159 | 1642 | 0 | 1619 | chr1 | 268121971 | 7683756 | 7685378 | 3 | 310,1129,180, | 23,333,1462, | 7683756,7684067,7685198, |
| 645 | 1716 | 0 | 0 | 0 | 0 | 0 | 10 | 11008 | - | BC079397 | 1743 | 0 | 1716 | chr1 | 268121971 | 7956275 | 7968999 | 11 | 396,201,53,140,128,247,139,88,171,132,21, | 27,423,624,677,817,945,1192,1331,1419,1590,1722, | 7956275,7956864,7957394,7957731,7958656,7959638,7960216,7962636,7966754,7968105,7968978, |
| 648 | 1602 | 0 | 0 | 0 | 0 | 0 | 6 | 13188 | + | BC078933 | 1630 | 0 | 1602 | chr1 | 268121971 | 8289579 | 8304369 | 7 | 289,188,340,211,191,109,274, | 0,289,477,817,1028,1219,1328, | 8289579,8291593,8295339,8296499,8297054,8302714,8304095, |
| 648 | 1416 | 1 | 0 | 0 | 0 | 0 | 11 | 39904 | - | BC062046 | 1431 | 0 | 1417 | chr1 | 268121971 | 8316731 | 8358052 | 12 | 202,97,123,71,166,55,67,125,44,82,132,253, | 14,216,313,436,507,673,728,795,920,964,1046,1178, | 8316731,8319665,8329384,8330519,8338239,8339316,8339470,8339769,8341284,8346639,8351341,8357799, |
| 648 | 541 | 0 | 0 | 0 | 0 | 0 | 3 | 13946 | + | BC158616 | 1309 | 0 | 541 | chr1 | 268121971 | 8358163 | 8372650 | 4 | 178,105,151,107, | 0,178,283,434, | 8358163,8361897,8370890,8372543, |
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Note: all start coordinates in our database are 0-based, not
1-based. See explanation
here.
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US Server