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We currently have loaded the annotations from ten Pinus taeda UCD BAC sequences with detailed summaries in addition to ninety-three Pinus taeda Clemson BAC sequences.

» Pinus Taeda - 10 UCD BAC Sequences

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Individual Seq (GFF3) (FASTA)
All Sequences (GFF.ZIP) (FASTA.ZIP)
Genbank GI Range: [284517561 - 28451751]
The Pinus taeda genome is characterized by diverse and highly diverged repetitive sequences

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Summary of P. taeda BAC assemblies and whole genome shotgun sequences obtained in this study. The BAC contigs were linked and oriented using paired end reads from the subclone library.
BAC (Clone)	No. contigs	Total length (bp)^a	Coverage^b	%A	%C	%G	%T
BAC3 (Pt285I20)	9 (1 scaffold)	142,351	6.04x BAC	0.291	0.204	0.195	0.311
BAC12 (Pt314B2)	1 (1 scaffold)	70,964	11.57x BAC	0.322	0.186	0.185	0.307
BAC15 (Pt318P9)	1 (1 scaffold)	67,736	14.38x BAC	0.318	0.182	0.190	0.310
BAC17 (Pt321I16)	3 (1 scaffold)	88,546	8.16x BAC	0.303	0.187	0.188	0.323
BAC19 (Pt331B23)	3 (1 scaffold)	68,919	16.12x BAC	0.315	0.178	0.192	0.315
BAC20 (Pt293K22)	4 (1 scaffold)	61,768	15.78x BAC	0.377	0.185	0.188	0.289
BAC21 (Pt348K5)	3 (1 scaffold)	93,889	8.95x BAC	0.310	0.189	0.190	0.311
BAC31 (Pt737O1)	2 (2 scaffolds)	95,786	9.31x BAC	0.319	0.179	0.183	0.318
BAC37 (Pt930E21)	6 (1 scaffold)	128,689	6.68x BAC	0.312	0.193	0.189	0.306
BAC40 (Pt921B18)	4 (1 scaffold)	104,081	10.20x BAC	0.301	0.202	0.183	0.313
40-bp WGS reads	-	328,000,000	0.015x genome	0.304	0.208	0.202	0.287
42-bp WGS reads	-	538,000,000	0.024x genome	0.309	0.194	0.196	0.302
60-bp WGS reads	-	798,000,000	0.036x genome	0.301	0.204	0.201	0.293
^a Final length of BAC assembly after vector sequence was removed and linked contigs were joined with N blocks. ^b BAC coverage was calculated by dividing the total number of P20 bases by the total amount of pine sequence in each scaffold assembly. Genomic coverage of WGS reads was determined by dividing the total base pairs by the genome size, 2.2E10 bp.

» Pinus Taeda - 93 Clemson BAC Sequences

Individual Seq (GFF) (FASTA)
All Sequences (GFF.ZIP) (FASTA.ZIP)
Genbank GI Range: [297747385 - 297747474]
Adventures in the Enormous: A 1.8 Million Clone BAC Library for the 21.7 Gb Genome of Loblolly Pine


BAC	No. contigs	Total length (bp)^a	%A	%C	%G	%T
pita_AC241263_1	1	90,635	0.316	0.189	0.175	0.321
pita_AC241264_1	1	80,949	0.313	0.172	0.2	0.315
pita_AC241266_1	1	84,758	0.312	0.197	0.17	0.32
pita_AC241267_1	1	80,505	0.307	0.215	0.182	0.296
pita_AC241268_1	1	89,909	0.321	0.18	0.182	0.318
pita_AC241269_1	1	73,474	0.349	0.166	0.178	0.307
pita_AC241270_1	1	90,843	0.291	0.223	0.195	0.291
pita_AC241271_1	1	70,098	0.32	0.186	0.187	0.307
pita_AC241272_1	1	76,683	0.306	0.193	0.187	0.315
pita_AC241273_1	1	87,346	0.309	0.18	0.189	0.321
pita_AC241274_1	1	94,983	0.308	0.187	0.186	0.318
pita_AC241275_1	2	1,948	-0.054	-0.162	-0.145	-0.066
pita_AC241276_1	1	82,688	0.325	0.186	0.186	0.303
pita_AC241277_1	1	88,269	0.311	0.188	0.207	0.295
pita_AC241278_1	1	101,322	0.307	0.187	0.201	0.305
pita_AC241279_1	1	82,483	0.329	0.168	0.19	0.314
pita_AC241281_1	1	87,667	0.308	0.203	0.188	0.301
pita_AC241282_1	1	87,988	0.31	0.193	0.189	0.308
pita_AC241283_1	1	101,408	0.307	0.187	0.201	0.305
pita_AC241284_1	1	84,313	0.304	0.177	0.203	0.317
pita_AC241285_1	1	93,175	0.311	0.18	0.185	0.324
pita_AC241286_1	1	91,371	0.308	0.2	0.2	0.292
pita_AC241288_1	1	132,111	0.317	0.179	0.184	0.32
pita_AC241289_1	1	117,686	0.313	0.187	0.18	0.32
pita_AC241290_1	1	119,886	0.296	0.196	0.201	0.308
pita_AC241291_1	1	148,512	0.277	0.232	0.226	0.265
pita_AC241292_1	1	172,161	0.315	0.191	0.175	0.32
pita_AC241293_1	1	140,371	0.32	0.184	0.194	0.302
pita_AC241294_1	1	146,253	0.268	0.3	0.229	0.203
pita_AC241295_1	1	119,034	0.325	0.179	0.177	0.319
pita_AC241296_1	1	116,121	0.316	0.184	0.192	0.308
pita_AC241297_1	1	149,630	0.309	0.186	0.19	0.316
pita_AC241298_1	1	128,606	0.307	0.193	0.19	0.31
pita_AC241299_1	1	143,239	0.322	0.177	0.192	0.309
pita_AC241300_1	1	119,952	0.311	0.194	0.192	0.303
pita_AC241301_1	1	145,506	0.31	0.196	0.193	0.301
pita_AC241302_1	1	158,107	0.317	0.195	0.194	0.294
pita_AC241303_1	1	140,231	0.308	0.191	0.185	0.316
pita_AC241304_1	1	140,549	0.308	0.191	0.187	0.315
pita_AC241305_1	1	132,426	0.318	0.166	0.179	0.337
pita_AC241306_1	1	126,689	0.313	0.201	0.185	0.301
pita_AC241307_1	1	127,167	0.311	0.187	0.195	0.307
pita_AC241308_1	1	143,706	0.314	0.2	0.197	0.289
pita_AC241309_1	1	158,597	0.308	0.192	0.183	0.318
pita_AC241310_1	1	166,806	0.317	0.183	0.183	0.318
pita_AC241311_1	1	145,381	0.314	0.192	0.18	0.314
pita_AC241312_1	1	143,753	0.318	0.18	0.195	0.307
pita_AC241314_1	1	148,901	0.299	0.2	0.196	0.305
pita_AC241315_1	1	143,821	0.315	0.191	0.2	0.293
pita_AC241316_1	1	151,891	0.321	0.192	0.193	0.295
pita_AC241318_1	2	152,892	0.315	0.186	0.203	0.293
pita_AC241320_1	1	148,733	0.309	0.198	0.19	0.302
pita_AC241321_1	1	145,077	0.308	0.196	0.187	0.309
pita_AC241322_1	1	141,218	0.298	0.19	0.2	0.312
pita_AC241323_1	1	61,616	0.323	0.175	0.174	0.329
pita_AC241324_1	1	129,758	0.295	0.195	0.207	0.302
pita_AC241325_1	1	150,106	0.32	0.18	0.197	0.304
pita_AC241326_1	1	146,778	0.312	0.195	0.199	0.294
pita_AC241327_1	1	139,938	0.321	0.186	0.175	0.318
pita_AC241328_1	1	115,260	0.318	0.185	0.18	0.316
pita_AC241329_1	1	101,452	0.311	0.184	0.18	0.326
pita_AC241330_1	2	120,016	0.305	0.173	0.171	0.299
pita_AC241331_1	1	109,045	0.315	0.195	0.181	0.309
pita_AC241332_1	1	88,122	0.311	0.184	0.193	0.312
pita_AC241333_1	1	127,838	0.304	0.198	0.192	0.306
pita_AC241334_1	1	103,929	0.321	0.188	0.187	0.304
pita_AC241335_1	2	129,651	0.315	0.188	0.175	0.318
pita_AC241337_1	1	110,198	0.317	0.186	0.177	0.321
pita_AC241339_1	1	107,527	0.326	0.19	0.166	0.318
pita_AC241340_1	1	113,479	0.321	0.185	0.181	0.313
pita_AC241341_1	1	121,700	0.293	0.204	0.208	0.295
pita_AC241342_1	1	107,164	0.327	0.17	0.178	0.325
pita_AC241343_1	1	142,479	0.305	0.194	0.189	0.313
pita_AC241344_1	1	138,819	0.306	0.188	0.189	0.317
pita_AC241345_1	1	127,934	0.315	0.183	0.174	0.328
pita_AC241346_1	2	119,204	0.311	0.191	0.182	0.311
pita_AC241347_1	1	102,055	0.315	0.182	0.166	0.337
pita_AC241348_1	1	122,294	0.323	0.161	0.205	0.312
pita_AC241349_1	1	101,188	0.323	0.183	0.179	0.315
pita_AC241350_1	1	128,807	0.31	0.182	0.174	0.333
pita_AC241351_1	1	121,465	0.304	0.19	0.199	0.307
pita_AC241352_1	1	110,405	0.321	0.164	0.192	0.323
pita_AC241353_2	3	235,648	0.306	0.185	0.186	0.311
pita_AC241354_1	1	112,917	0.306	0.188	0.195	0.31
pita_AC241355_1	1	110,424	0.309	0.183	0.196	0.312
pita_AC241356_1	1	140,181	0.306	0.188	0.204	0.302
pita_AC241357_1	1	146,571	0.304	0.196	0.203	0.298
pita_AC241358_1	1	114,142	0.298	0.195	0.19	0.317
pita_AC241359_1	1	126,342	0.322	0.172	0.178	0.328
pita_AC241360_1	1	115,927	0.306	0.198	0.192	0.303
pita_AC241361_1	2	89,163	0.309	0.181	0.201	0.303
pita_AC241362_1	1	146,439	0.307	0.198	0.194	0.301

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» Pinus Taeda - 10 UCD BAC Sequences

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