This track shows the NCBI clone end predictions from the -NCBI Clone DB database. Libraries with more than 20,000 clones are included in this track display.
Bacterial artificial chromosomes (BACs) are a key part of many large-scale sequencing projects. A BAC typically consists of 50 - 300 kb of DNA. During the early phase of a sequencing project, it is common to sequence a single read (approximately 500 bases) off each end of a large number of BACs. Later on in the project, these BAC end reads can be mapped to the genome sequence.
These BAC end pairs can be useful for validating the assembly over relatively long ranges. In some cases, the BACs are useful biological reagents. This track can also be used for determining which BAC @@ -37,49 +37,49 @@
The mappings of these BAC end sequences are taken directly from the NCBI Clone DB FTP site ftp.ncbi.nih.gov/repository/clone/reports/Mus_musculus/ *.GCF_000001635.22.103.*.gff files.
UCSC filtered the NCBI Clone DB mapped ends to drop ends that mapped to a region that was three times longer than the median size of the clones in the library. Only libraries with more than 20,000 clones are included in this track display.
Click through on displayed items to the Clone DB database information, including -Clone DB distributor references.
| library name |
total clones |
total end sequences |
NCBI mapped ends |
UCSC filtered ends |
UCSC dropped |
percent dropped |
|---|---|---|---|---|---|---|
| B6Ng01 | 128,007 | 253,638 | 98,478 | 95,837 | 2,641 | 2.68 |
| bMQ | 129,826 | 244,222 | 75,671 | 72,540 | 3,131 | 4.14 |
| C3H | 86,696 | 169,665 | 43,690 | 42,378 | 1,312 | 3.00 |
| CH29 | 93,023 | 340,272 | 52,320 | 50,621 | 1,699 | 3.25 |
| DN | 180,218 | 665,070 | 106,463 | 100,472 | 5,991 | 5.63 |
| MHPN | 118,658 | 208,707 | 61,942 | 58,582 | 3,360 | 5.42 |
| MHPP | 67,769 | 112,081 | 30,594 | 28,550 | 2,044 | 6.68 |
| MSMg01 | 175,178 | 337,471 | 83,677 | 78,772 | 4,905 | 5.86 |
| RP23 | 175,999 | 553,274 | 85,082 | 83,062 | 2,020 | 2.37 |
| RP24 | 163,859 | 294,217 | 52,470 | 50,849 | 1,621 | 3.09 |
| WI1 | 907,213 | 1,822,723 | 337,591 | 324,259 | 13,332 | 3.95 |
| B6Ng01 | 128,007 | 253,638 | 98,478 | 95,837 | 2,641 | 2.68 |
| bMQ | 129,826 | 244,222 | 75,671 | 72,540 | 3,131 | 4.14 |
| C3H | 86,696 | 169,665 | 43,690 | 42,378 | 1,312 | 3.00 |
| CH29 | 93,023 | 340,272 | 52,320 | 50,621 | 1,699 | 3.25 |
| DN | 180,218 | 665,070 | 106,463 | 100,472 | 5,991 | 5.63 |
| MHPN | 118,658 | 208,707 | 61,942 | 58,582 | 3,360 | 5.42 |
| MHPP | 67,769 | 112,081 | 30,594 | 28,550 | 2,044 | 6.68 |
| MSMg01 | 175,178 | 337,471 | 83,677 | 78,772 | 4,905 | 5.86 |
| RP23 | 175,999 | 553,274 | 85,082 | 83,062 | 2,020 | 2.37 |
| RP24 | 163,859 | 294,217 | 52,470 | 50,849 | 1,621 | 3.09 |
| WI1 | 907,213 | 1,822,723 | 337,591 | 324,259 | 13,332 | 3.95 |
Additional information about the clone, including how it can be obtained, may be found at the -NCBI Clone Registry. To view the registry entry for a specific clone, open the details page for the clone and click on its name at the top of the page.