Statistics: Genome Annotation

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Mus musculus Genome: Statistics -- Build 37.1

Summary of the GenBank source sequences, the contigs, and the features annotated on the sequence based on genomic sequence information available on Aug 19, 2008. Also summarizes the objects on each non-sequence-based map in the MapViewer.

These statistics are based on the assembly and annotation process documented here.

Resource	Scope
Cytogenetics	A cytogenetic resource of FISH-mapped, sequence-tagged clones
dbSNP	Database of SNPs and other genetic variation
Entrez Gene	Focal point for genes and associated information
RefSeq	Reference Sequence collection: genomic DNA, transcripts, and proteins
UniGene	Non-redundant gene-oriented clusters
UniSTS	STS markers

GenBank Source Sequences

Sequence type	Number used	Length	Total
HTG Phase 1	1	168495
HTG Phase 2	21	3.27974x10⁶
HTG Phase 3	19473	3.40791x10⁹
WGS	836	9.48395x10⁶	3.42084x10⁹

Framework Assemblies

Number of contigs generated	127
Genome Length	2,716,965,481

Contigs categorized by type of source sequence

Type of source sequence	Number used	Length (bp)
Draft only
Finished only	36	276,898,000
Draft and Finished	41	376,836,000

Contigs categorized by size

Range (kb)	Number	Length (bp)	% total
< 300	8	1,077,410	0.04
300 – 1000	7	4,365,100	0.17
1000 – 5000	30	83,946,500	3.27
> 5000	82	2,472,510,000	96.51

N50 Contig Length (Kb)

C57BL/6J	All	39,294
C57BL/6J	Mapped	39,294
129	All	92
129	Mapped	92
129/J	All	84
129/J	Mapped	-
129/Ola	All	47
129/Ola	Mapped	47
129/Sv	All	262
129/Sv	Mapped	262
129/SvEvTac	All	281
129/SvEvTac	Mapped	281
129/SvJ	All	273
129/SvJ	Mapped	229
129S7/SvEv	All	114
129S7/SvEv	Mapped	121
A/J	All	101
A/J	Mapped	101
AKR/J	All	192
AKR/J	Mapped	-
B6/CBAF1J	All	37
B6/CBAF1J	Mapped	37
BALB/c	All	701
BALB/c	Mapped	701
C3H	All	177
C3H	Mapped	177
Cast/Ei	All	200
Cast/Ei	Mapped	200
Celera	All	34,875
Celera	Mapped	34,908
NOD	All	326
NOD	Mapped	402
SJL/J	All	145
SJL/J	Mapped	145
Spret/Ei	All	180
Spret/Ei	Mapped	-
unknown	All	183
unknown	Mapped	186

Genes, Exons and Introns

Statistic	Evidence	count	min	max	avg
*Assembly: C57BL/6J*
Exons	RefSeq	228,023	1 bp	17,497 bp	299 bp
Exons	Model	411,124	2 bp	17,498 bp	306 bp
Introns	RefSeq	190,788	3 bp	814,726 bp	4,766 bp
Introns	Model	351,521	30 bp	1,041,985 bp	5,269 bp
Transcripts	RefSeq	30,222	62 bp	101,674 bp	2,362.88 bp
Transcripts per Gene	RefSeq	-	1	22	1
	EST	-	0	0	0
	mRNA	-	1	22	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	2,158	-	-	-
One-exon Transcripts	RefSeq	5,091	-	-	-
Exons per Gene	RefSeq	-	0	314	9
Exons per Transcript	RefSeq	-	1	313	7

Statistic	Evidence	count	min	max	avg
*Assembly: 129*
Exons	RefSeq	48	12 bp	3,569 bp	267 bp
Exons	Model	78	12 bp	3,582 bp	245 bp
Introns	RefSeq	40	84 bp	8,040 bp	1,913 bp
Introns	Model	65	79 bp	11,307 bp	2,069 bp
Transcripts	RefSeq	7	339 bp	3,847 bp	1,794 bp
Transcripts per Gene	RefSeq	-	1	1	1
	EST	-	0	0	0
	mRNA	-	1	1	1
	TPA	-	0	0	0
One-exon Transcripts	RefSeq	1	-	-	-
Exons per Gene	RefSeq	-	3	22	10
Exons per Transcript	RefSeq	-	1	22	6

Statistic	Evidence	count	min	max	avg
*Assembly: 129/J*
Exons	RefSeq	10	92 bp	632 bp	284 bp
Exons	Model	20	34 bp	632 bp	300 bp
Introns	RefSeq	8	796 bp	5,482 bp	2,150 bp
Introns	Model	16	796 bp	7,458 bp	2,276 bp
Transcripts	RefSeq	2	1,424 bp	1,434 bp	1,429 bp
Transcripts per Gene	RefSeq	-	1	1	1
	EST	-	0	0	0
	mRNA	-	1	1	1
	TPA	-	0	0	0
Exons per Gene	RefSeq	-	5	5	5
Exons per Transcript	RefSeq	-	5	5	5

Statistic	Evidence	count	min	max	avg
*Assembly: 129/Ola*
Exons	RefSeq	122	25 bp	4,815 bp	288 bp
Exons	Model	198	13 bp	6,305 bp	292 bp
Introns	RefSeq	110	78 bp	5,623 bp	1,146 bp
Introns	Model	175	60 bp	5,623 bp	1,432 bp
Transcripts	RefSeq	15	697 bp	9,477 bp	2,976.13 bp
Transcripts per Gene	RefSeq	-	1	3	1
	EST	-	0	0	0
	mRNA	-	1	3	1
	TPA	-	0	0	0
Exons per Gene	RefSeq	-	3	19	8
Exons per Transcript	RefSeq	-	2	29	10

Statistic	Evidence	count	min	max	avg
*Assembly: 129/Sv*
Exons	RefSeq	2,533	4 bp	6,557 bp	256 bp
Exons	Model	3,848	4 bp	6,953 bp	282 bp
Introns	RefSeq	2,194	3 bp	147,669 bp	2,189 bp
Introns	Model	3,329	30 bp	147,669 bp	2,141 bp
Transcripts	RefSeq	304	264 bp	16,381 bp	2,405.25 bp
Transcripts per Gene	RefSeq	-	1	10	1
	EST	-	0	0	0
	mRNA	-	1	10	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	12	-	-	-
One-exon Transcripts	RefSeq	29	-	-	-
Exons per Gene	RefSeq	-	0	89	9
Exons per Transcript	RefSeq	-	1	89	9

Statistic	Evidence	count	min	max	avg
*Assembly: 129/SvEvTac*
Exons	RefSeq	2,464	5 bp	9,675 bp	259 bp
Exons	Model	4,429	2 bp	9,907 bp	269 bp
Introns	RefSeq	2,138	30 bp	131,523 bp	2,515 bp
Introns	Model	3,893	31 bp	131,523 bp	2,558 bp
Transcripts	RefSeq	296	129 bp	10,743 bp	2,509.3 bp
Transcripts per Gene	RefSeq	-	1	5	1
	EST	-	0	0	0
	mRNA	-	1	5	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	37	-	-	-
One-exon Transcripts	RefSeq	54	-	-	-
Exons per Gene	RefSeq	-	0	46	8
Exons per Transcript	RefSeq	-	1	61	8

Statistic	Evidence	count	min	max	avg
*Assembly: 129/SvJ*
Exons	RefSeq	3,727	2 bp	76,097 bp	264 bp
Exons	Model	6,200	2 bp	8,348 bp	250 bp
Introns	RefSeq	3,082	30 bp	82,414 bp	1,459 bp
Introns	Model	5,337	33 bp	984,185 bp	2,556 bp
Transcripts	RefSeq	471	291 bp	76,097 bp	2,168.4 bp
Transcripts per Gene	RefSeq	-	1	5	1
	EST	-	0	0	0
	mRNA	-	1	5	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	36	-	-	-
One-exon Transcripts	RefSeq	60	-	-	-
Exons per Gene	RefSeq	-	0	64	7
Exons per Transcript	RefSeq	-	1	86	7

Statistic	Evidence	count	min	max	avg
*Assembly: 129S7/SvEv*
Exons	RefSeq	274	11 bp	3,130 bp	206 bp
Exons	Model	358	11 bp	3,136 bp	220 bp
Introns	RefSeq	213	65 bp	29,908 bp	1,943 bp
Introns	Model	302	59 bp	29,908 bp	2,011 bp
Transcripts	RefSeq	34	460 bp	6,804 bp	1,863.5 bp
Transcripts per Gene	RefSeq	-	1	2	1
	EST	-	0	0	0
	mRNA	-	1	2	1
	TPA	-	0	0	0
One-exon Transcripts	RefSeq	1	-	-	-
Exons per Gene	RefSeq	-	3	20	8
Exons per Transcript	RefSeq	-	1	20	7

Statistic	Evidence	count	min	max	avg
*Assembly: A/J*
Exons	RefSeq	27	52 bp	2,244 bp	337 bp
Exons	Model	56	2 bp	2,244 bp	307 bp
Introns	RefSeq	25	304 bp	11,773 bp	2,539 bp
Introns	Model	52	261 bp	11,773 bp	2,415 bp
Transcripts	RefSeq	2	4,823 bp	5,368 bp	5,095.5 bp
Transcripts per Gene	RefSeq	-	1	1	1
	EST	-	0	0	0
	mRNA	-	1	1	1
	TPA	-	0	0	0
Exons per Gene	RefSeq	-	0	0	0
Exons per Transcript	RefSeq	-	12	15	13

Statistic	Evidence	count	min	max	avg
*Assembly: AKR/J*
Exons	RefSeq	27	10 bp	1,676 bp	403 bp
Exons	Model	46	10 bp	1,676 bp	351 bp
Introns	RefSeq	18	214 bp	14,914 bp	3,664 bp
Introns	Model	30	214 bp	14,914 bp	3,377 bp
Transcripts	RefSeq	10	180 bp	2,072 bp	1,268.9 bp
Transcripts per Gene	RefSeq	-	1	2	1
	EST	-	0	0	0
	mRNA	-	1	2	1
	TPA	-	0	0	0
One-exon Transcripts	RefSeq	2	-	-	-
Exons per Gene	RefSeq	-	8	8	8
Exons per Transcript	RefSeq	-	1	8	2

Statistic	Evidence	count	min	max	avg
*Assembly: B6/CBAF1J*
Exons	RefSeq	24	55 bp	367 bp	135 bp
Exons	Model	29	55 bp	367 bp	135 bp
Introns	RefSeq	22	71 bp	11,853 bp	1,283 bp
Introns	Model	25	71 bp	11,853 bp	1,160 bp
Transcripts	RefSeq	2	730 bp	2,543 bp	1,636.5 bp
Transcripts per Gene	RefSeq	-	1	1	1
	EST	-	0	0	0
	mRNA	-	1	1	1
	TPA	-	0	0	0
Exons per Gene	RefSeq	-	5	19	12
Exons per Transcript	RefSeq	-	5	19	12

Statistic	Evidence	count	min	max	avg
*Assembly: BALB/c*
Exons	RefSeq	115	40 bp	2,329 bp	205 bp
Exons	Model	154	4 bp	2,329 bp	202 bp
Introns	RefSeq	85	83 bp	9,616 bp	911 bp
Introns	Model	118	51 bp	474,151 bp	5,441 bp
Transcripts	RefSeq	24	417 bp	2,329 bp	925 bp
Transcripts per Gene	RefSeq	-	1	2	1
	EST	-	0	0	0
	mRNA	-	1	2	1
	TPA	-	0	0	0
One-exon Transcripts	RefSeq	2	-	-	-
Exons per Gene	RefSeq	-	0	13	4
Exons per Transcript	RefSeq	-	1	13	4

Statistic	Evidence	count	min	max	avg
*Assembly: C3H*
Exons	RefSeq	85	38 bp	2,466 bp	299 bp
Exons	Model	114	3 bp	2,761 bp	335 bp
Introns	RefSeq	74	92 bp	20,342 bp	1,095 bp
Introns	Model	96	92 bp	20,342 bp	1,706 bp
Transcripts	RefSeq	12	562 bp	5,044 bp	2,378.17 bp
Transcripts per Gene	RefSeq	-	1	2	1
	EST	-	0	0	0
	mRNA	-	1	2	1
	TPA	-	0	0	0
One-exon Transcripts	RefSeq	1	-	-	-
Exons per Gene	RefSeq	-	2	30	9
Exons per Transcript	RefSeq	-	1	30	7

Statistic	Evidence	count	min	max	avg
*Assembly: Cast/Ei*
Exons	RefSeq	46	23 bp	3,607 bp	446 bp
Exons	Model	120	2 bp	3,607 bp	307 bp
Introns	RefSeq	24	212 bp	15,770 bp	4,376 bp
Introns	Model	83	43 bp	18,038 bp	3,084 bp
Transcripts	RefSeq	19	130 bp	3,699 bp	1,070.53 bp
Transcripts per Gene	RefSeq	-	1	1	1
	EST	-	0	0	0
	mRNA	-	1	1	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	2	-	-	-
One-exon Transcripts	RefSeq	9	-	-	-
Exons per Gene	RefSeq	-	1	8	3
Exons per Transcript	RefSeq	-	1	8	2

Statistic	Evidence	count	min	max	avg
*Assembly: Celera*
Exons	RefSeq	217,705	1 bp	17,106 bp	289 bp
Exons	Model	381,043	2 bp	17,106 bp	293 bp
Introns	RefSeq	182,993	3 bp	973,105 bp	4,728 bp
Introns	Model	320,802	30 bp	1,025,422 bp	5,106 bp
Transcripts	RefSeq	27,670	62 bp	101,674 bp	2,384.77 bp
Transcripts per Gene	RefSeq	-	1	19	1
	EST	-	0	0	0
	mRNA	-	1	19	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	1,836	-	-	-
One-exon Transcripts	RefSeq	4,591	-	-	-
Exons per Gene	RefSeq	-	0	313	9
Exons per Transcript	RefSeq	-	1	312	8

Statistic	Evidence	count	min	max	avg
*Assembly: NOD*
Exons	RefSeq	1,623	6 bp	4,942 bp	243 bp
Exons	Model	2,930	2 bp	7,352 bp	250 bp
Introns	RefSeq	1,428	6 bp	82,826 bp	2,382 bp
Introns	Model	2,584	30 bp	120,923 bp	2,338 bp
Transcripts	RefSeq	188	189 bp	11,120 bp	2,312.05 bp
Transcripts per Gene	RefSeq	-	1	4	1
	EST	-	0	0	0
	mRNA	-	1	4	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	2	-	-	-
One-exon Transcripts	RefSeq	11	-	-	-
Exons per Gene	RefSeq	-	0	70	10
Exons per Transcript	RefSeq	-	1	70	9

Statistic	Evidence	count	min	max	avg
*Assembly: SJL/J*
Exons	RefSeq	26	43 bp	3,655 bp	561 bp
Exons	Model	58	46 bp	3,665 bp	384 bp
Introns	RefSeq	19	103 bp	15,849 bp	2,921 bp
Introns	Model	43	103 bp	17,925 bp	3,288 bp
Transcripts	RefSeq	9	130 bp	3,729 bp	2,018.22 bp
Transcripts per Gene	RefSeq	-	1	3	1
	EST	-	0	0	0
	mRNA	-	1	3	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	1	-	-	-
One-exon Transcripts	RefSeq	1	-	-	-
Exons per Gene	RefSeq	-	1	7	3
Exons per Transcript	RefSeq	-	1	7	3

Statistic	Evidence	count	min	max	avg
*Assembly: Spret/Ei*
Exons	RefSeq	22	35 bp	1,004 bp	186 bp
Exons	Model	32	30 bp	1,004 bp	158 bp
Introns	RefSeq	9	359 bp	15,906 bp	5,124 bp
Introns	Model	25	340 bp	15,906 bp	5,242 bp
Transcripts	RefSeq	4	698 bp	1,004 bp	828.25 bp
Transcripts per Gene	RefSeq	-	1	1	1
	EST	-	0	0	0
	mRNA	-	1	1	1
	TPA	-	0	0	0
One-exon Transcripts	RefSeq	3	-	-	-
Exons per Transcript	RefSeq	-	1	10	3

Statistic	Evidence	count	min	max	avg
*Assembly: unknown*
Exons	RefSeq	1,319	6 bp	10,292 bp	267 bp
Exons	Model	2,319	3 bp	10,292 bp	263 bp
Introns	RefSeq	1,146	43 bp	85,135 bp	2,451 bp
Introns	Model	2,025	30 bp	85,135 bp	2,357 bp
Transcripts	RefSeq	151	387 bp	11,557 bp	2,429.83 bp
Transcripts per Gene	RefSeq	-	1	2	1
	EST	-	0	0	0
	mRNA	-	1	2	1
	TPA	-	0	0	0
One-exon Genes	RefSeq	8	-	-	-
One-exon Transcripts	RefSeq	18	-	-	-
Exons per Gene	RefSeq	-	0	42	9
Exons per Transcript	RefSeq	-	1	42	8

Object count: Clones, markers, genes, variation annotated on the sequence

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	ensGenes	ensRNA	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: C57BL/6J* Mapped (Not placed)
1	39,325 (331)	1,486 (36)	7 (5)	11,189 (100)	9,189 (28)	1,819 (28)	14,355 (184)	3,364 (51)	1,622 (29)	308,207 (1,661)	2,576 (17)	1,232,084 (5,297)	1,579 (23)	2,423 (26)	50,858 (1,775)	6,276 (35)	250,574 (1,956)	18,306 (60)
2	39,714	1,308	6	12,348	15,945	2,455	15,245	4,462	2,319	296,290	3,013	954,613	2,330	4,540	42,957	8,795	328,859	25,326
3	30,244	1,187 (1)	5 (1)	9,164 (5)	7,725	1,579	11,668 (1)	2,954 (1)	1,410	239,326 (82)	2,076	952,297 (369)	1,325 (1)	2,002 (1)	38,600 (15)	5,725	218,633 (7)	14,084
4	32,658 (2)	1,178 (11)	11 (2)	12,033 (14)	14,872 (7)	1,881 (4)	12,152 (16)	3,412 (6)	1,746 (4)	259,537 (225)	2,275 (2)	905,644 (426)	1,687 (2)	3,244 (2)	45,284 (180)	6,919	263,213 (179)	18,299 (3)
5	33,064 (30)	1,150 (2)	18 (2)	12,975 (2)	10,986 (2)	1,773 (10)	12,143 (61)	3,318 (20)	1,685 (16)	261,668 (521)	2,492 (4)	848,193 (806)	1,574 (4)	2,557 (4)	40,237 (201)	6,912	286,526 (317)	17,317
6	30,796	1,080	5	8,925	8,478	1,906	12,044	3,145	1,518	237,313	2,463	867,981	1,580	2,388	35,131	7,020	222,529	15,990
7	30,432 (27)	1,111 (2)	6 (2)	10,807 (6)	11,143	2,908 (12)	11,563 (56)	4,746 (12)	2,681 (8)	240,609 (353)	2,423 (1)	987,350 (896)	2,528 (7)	3,640 (7)	51,654 (281)	9,426	311,017 (198)	26,955
8	27,809 (175)	932 (4)	6 (4)	10,338 (59)	8,834 (7)	1,446 (21)	9,260 (241)	2,648 (26)	1,362 (21)	207,642 (1,056)	1,925 (3)	835,642 (4,137)	1,376 (15)	1,892 (15)	36,871 (1,473)	4,966	211,470 (633)	14,344 (18)
9	27,659 (39)	971 (26)	7 (2)	8,973 (16)	8,034 (4)	1,640 (11)	9,924 (55)	2,998 (18)	1,510 (8)	211,925 (545)	2,049 (4)	660,383 (750)	1,498 (8)	2,042 (9)	28,278 (87)	7,510 (6)	272,565 (439)	19,541 (8)
10	26,280	994	3	9,905	7,720	1,412	10,938	2,596	1,322	210,614	1,891	611,136	1,225	1,774	26,575	5,227	210,529	13,208
11	29,647	872	3	10,675	16,782	2,095	10,622	3,831	1,993	225,939	3,026	609,035	2,010	3,857	36,377	9,496	380,713	29,058
12	24,983	905	3	7,671	6,091	1,371	9,495	2,325	966	191,084	1,527	769,194	1,108	1,468	41,077	4,312	157,540	11,440
13	24,971 (36)	917 (18)	5 (2)	8,143 (37)	5,098 (34)	1,401 (11)	9,308 (14)	2,336 (26)	1,154 (16)	182,617 (740)	1,645 (6)	715,831 (1,896)	1,068 (7)	1,500 (9)	32,748 (130)	3,836 (32)	144,077 (2,932)	9,787 (176)
14	24,858	926	4	6,821	5,360	1,538	11,377	2,620	1,353	188,961	1,263	815,582	1,211	1,578	40,163	4,329	145,865	11,166
15	22,027	743	3	7,582	7,960	1,091	7,870	2,154	1,035	160,191	1,498	599,609	978	1,379	23,845	5,505	191,476	14,658
16	20,030	722 (1)	2 (1)	5,849	4,984	973	7,405	1,857	896	152,863 (1)	1,534	473,468	867	1,351	19,749	3,319	126,834	8,775
17	20,528 (16)	733 (3)	3 (3)	8,062 (77)	10,259 (73)	1,511 (13)	6,741 (72)	2,642 (17)	1,386 (11)	152,128 (778)	1,731 (9)	545,458 (2,531)	1,272 (6)	1,805 (6)	27,922 (142)	5,313 (3)	201,299 (453)	13,509 (23)
18	18,449	675	4	5,843	5,258	823	7,534	1,560	745	139,325	1,120	484,617	646	929	19,350	2,853	110,722	8,454
19	13,767	430	2	5,168	6,092	974	7,263	1,736	921	100,179	1,128	368,153	869	1,210	14,548	4,082	152,380	13,854
MT	2	1	1	1	17	37	123	1			61	240	38	38	7	6	5,203	153
X	19,977 (39)	1,229 (38)	21 (11)	6,355 (52)	4,061 (11)	1,847 (18)	7,259 (73)	2,993 (34)	1,531 (19)	254,111 (1,739)	2,099 (5)	536,102 (4,504)	1,269 (8)	2,208 (8)	46,259 (598)	4,125 (14)	133,215 (608)	12,060 (36)
Y	102 (264)	26 (428)	2 (102)	180 (1,620)	11 (6)	53 (739)	182 (10,068)	74 (1,460)	31 (834)	3,684 (78,471)	45 (881)	8,716 (65,095)	19 (169)	22 (174)	635 (18,196)	4 (8)	726 (4,283)	21 (17)
Un	(239)	(218)	(52)	(317)	(47)	(74)	(334)	(190)	(70)	(4,183)	(18)	(8,747)	(47)	(53)	(1,117)	(6)	(2,252)	(41)
*Total*	537,322 (1,198)	19,576 (788)	127 (189)	179,007 (2,305)	174,899 (219)	32,533 (941)	204,471 (11,175)	57,772 (1,861)	29,186 (1,036)	4,224,213 (90,355)	39,860 (950)	14,781,328 (95,454)	28,057 (297)	43,847 (314)	699,125 (24,195)	115,956 (104)	4,325,965 (14,257)	316,305 (382)

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: 129* Mapped (Not placed)
4	3	2	2	7	32	5	28	9	5	238	9	1,136	24	7	814	66
9	2	1	1	8	4	3	1	4	2	144	2	135	5	11	831	13
*Total*	5	3	3	15	36	8	29	13	7	382	11	1,271	29	18	1,645	79

Chrm	Clone	Comp	Contig	CpG	Genes_seq	MICER	Model	RefSeq RNA	Repeats	Variation	gbDNA	rnaMm	rnaRn
*Assembly: 129/J* Mapped (Not placed)
12	(1)	(1)	(1)	(11)	(2)	(7)	(4)	(2)	(101)	(2,455)	(137)	(3,464)	(52)
*Total*	(1)	(1)	(1)	(11)	(2)	(7)	(4)	(2)	(101)	(2,455)	(137)	(3,464)	(52)

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: 129/Ola* Mapped (Not placed)
3		1	1			1	12	1	1	24		227	11		21
10	2	2	2	13	21	3	7	6	3	239	3	341	26	23	438	53
11	11	2	2	28	20	4	16	10	6	333	5	766	36	13	363	52
19		1	1	10	3	4	1	6	5	59	3	277	23	21	336	21
*Total*	13	6	6	51	44	12	36	23	15	655	11	1,611	96	57	1,158	126

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: 129/Sv* Mapped (Not placed)
1		1	1		1	1	1	1	1	42	2	119	3	5	95	7
2	274	19	8	100	52	29	353	50	23	2,933	48	14,918	483	80	2,629	165
4	33	4	4	71	84	20	27	35	19	955	13	2,266	168	116	6,373	400
5	209	8	5	185	379	38	115	51	49	3,117	65	6,531	297	173	7,723	561
6	283	13	7	157	200	63	135	67	41	3,403	58	7,989	376	237	10,365	466
7	231	5	3	60	66	21	106	40	23	1,541	53	3,839	245	75	3,255	379
10	242 (1)	5 (3)	4 (2)	177 (11)	242 (1)	20 (2)	122 (6)	46 (5)	19 (2)	2,286 (75)	44 (4)	5,201 (359)	251 (15)	111 (6)	5,998 (404)	366 (3)
11	115	8	7	74	123	26	139	43	26	1,674	81	4,269	300	153	6,303	322
12	10	2	2	39	16	3	20	6	3	210	15	691	64	214	1,372	97
13		1	1				4	1		38	3	130	11		50
14	71	6	2	8	14	4	47	8	4	784	4	4,240	129	10	452	20
16	380	14	3	187	305	42	123	79	47	2,999	82	7,024	246	293	7,490	630
17	51 (1)	2 (1)	2 (1)	58 (11)	86	14 (5)	46 (11)	22 (8)	11 (3)	760 (107)	15 (1)	2,157 (1,061)	288 (76)	14 (47)	729 (30)	82 (5)
18		1	1	4	1	1	14	2	1	65		243	10		414	16
X	123	9	7	65	4	34	62	51	29	1,982	23	8,283	500	32	1,513	213
Y		1	1	10	5	3	4	4	3	373	3	646	26	1	328	6
*Total*	2,022 (2)	99 (4)	58 (3)	1,195 (22)	1,578 (1)	319 (7)	1,318 (17)	506 (13)	299 (5)	23,162 (182)	509 (5)	68,546 (1,420)	3,397 (91)	1,514 (53)	55,089 (434)	3,730 (8)

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: 129/SvEvTac* Mapped (Not placed)
1	95	7	4	60	26	22	86	39	20	1,637	38	10,603	555	31	2,029	125
2	60	4	2	25	86	4	40	5	4	789	7	3,112	99	9	394	7
3	112	1	1	12		1	16	2	1	155		4,663	2,055		38	2
4	12 (12)	1 (1)	1 (1)	7 (40)	1 (192)	5 (8)	32 (11)	7 (15)	5 (13)	341 (565)	6 (13)	3,187 (1,563)	262 (83)	(55)	178 (2,667)	(250)
5	154	5	2	81	44	12	91	19	12	1,563	13	5,321	156	30	1,003	66
6	10	1	1	1			4	1		150	3	595	16		12
8	44	4	3	26	35	8	70	8	8	834	20	4,350	154	19	1,304	85
10	412	13	6	249	265	56	189	105	54	3,457	96	9,413	313	295	9,687	500
11	128	4	4	74	351	30	65	53	25	1,444	23	5,044	340	112	3,364	204
13	10	2	1	12	28	1	39	6	1	302	1	841	28	2	190	16
15	(1)	(1)	(1)	(11)		(2)	(7)	(2)	(2)	(213)		(455)	(16)		(37)	(3)
16	414	14	4	236	127	18	187	46	20	2,999	57	10,893	435	96	3,434	271
17	105	6	2	42	25	41	51	37	34	1,151	17	5,719	352	67	1,251	116
19	46	2	2	47	152	13	24	26	12	599	26	1,431	84	104	3,946	268
X	413 (7)	20 (1)	11 (1)	166 (5)	124 (2)	87 (2)	126 (3)	162 (3)	83 (2)	5,675 (166)	108 (4)	20,542 (831)	743 (15)	423 (2)	14,686 (48)	1,359 (18)
*Total*	2,015 (20)	84 (3)	44 (3)	1,038 (56)	1,264 (194)	298 (12)	1,020 (21)	516 (20)	279 (17)	21,096 (944)	415 (17)	85,714 (2,849)	5,592 (114)	1,188 (57)	41,516 (2,752)	3,019 (271)

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: 129/SvJ* Mapped (Not placed)
1	1 (15)	3 (1)	3 (1)	8 (2)	7	3 (5)	3 (23)	6 (6)	3 (5)	126 (188)	3 (2)	650 (4,108)	33 (285)	19	628 (261)	36 (1)
2	65	2	2	63	146	17	39	28	17	1,107	11	2,321	181	103	2,923	266
3	174 (3)	9 (1)	7 (1)	106 (15)	153	31 (3)	167 (1)	62 (3)	29 (3)	2,527 (205)	32	12,319 (1,815)	452 (235)	210	4,978 (8)	309 (1)
4	41 (3)	5 (1)	3 (1)	71 (4)	59 (1)	9 (6)	12 (4)	14 (5)	9 (4)	628 (159)	16	3,152 (551)	184 (39)	46 (4)	1,688 (16)	95 (6)
5	128 (2)	7 (1)	7 (1)	110 (2)	59 (16)	32 (1)	78	46 (3)	28 (2)	2,169 (60)	45 (3)	7,528 (184)	268 (11)	82 (4)	2,667 (156)	229 (12)
6	58	5	4	33	8	24	40	17	9	971	22	3,113	123	52	1,118	135
7	8	5	5	35	11	13	20	17	12	508	28	2,103	144	12	2,171	569
8		1 (1)	1 (1)	4 (8)	25	1 (1)		2 (1)	1 (1)	62 (20)	(2)	154 (159)	6 (4)	(4)	163 (421)	10 (7)
9	37	2	1	36	47	4	19	13	4	641	9	848	53	32	822	105
10	25	2	2	47	94	5	24	9	5	421	9	816	57	18	494	76
11	82	9	7	87	163	24	76	40	27	1,589	47	4,398	227	158	5,163	433
12	26 (70)	4 (2)	4 (1)	62 (32)	14 (1)	12 (65)	48 (108)	21 (80)	13 (19)	607 (1,488)	22 (30)	4,728 (17,911)	278 (1,976)	53 (380)	2,484 (3,404)	168 (105)
14	199	7	4	112	45	71	190	97	52	2,627	25	25,130	1,560	200	2,744	285
15	27	1	1	32	51	11	27	20	12	249	9	551	33	71	2,231	170
17	829	29 (1)	5 (1)	577 (2)	1,441 (2)	236 (1)	418 (1)	358 (1)	205 (1)	6,597 (10)	236 (3)	38,410 (65)	2,643	1,381 (14)	30,457 (729)	2,392 (138)
19	16	1	1	27	90	6	5	10	9	585	11	860	81	32	1,355	200
X	95	5	3	24	15	2	27	4	1	1,275	4	3,959	161		142	24
*Total*	1,811 (93)	97 (8)	60 (7)	1,434 (65)	2,428 (20)	501 (82)	1,193 (137)	764 (99)	436 (35)	22,689 (2,130)	529 (40)	111,040 (24,793)	6,484 (2,550)	2,469 (406)	62,228 (4,995)	5,502 (270)

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: 129S7/SvEv* Mapped (Not placed)
3	4	1	1	5	1	1		1	1	126		167	11		108	4
4	126 (22)	4 (1)	3 (1)	40 (2)	1	15 (2)	76 (30)	17 (2)	11 (2)	723 (102)	2 (1)	7,939 (2,265)	1,175 (601)	2	6,534 (773)	1
5	9	1	1	9		4	9	4	3	230	1	346	22	14	187	7
8	1	1	1	2	6	1	5	2	1	68	1	116	39		73	4
12	11	2	2	27	44	7	15	17	7	197	10	1,009	77	32	1,621	186
17	9	1	1	7	5	4		5	4	182	6	243	17	18	437	37
18	4	1	1	18	16	4	9	7	4	244	7	738	55	20	715	23
Un	(10)	(1)	(1)	(11)	(145)	(1)	(15)	(1)	(1)	(411)	(2)	(1,169)	(61)		(41)
*Total*	164 (32)	11 (2)	10 (2)	108 (13)	73 (145)	36 (3)	114 (45)	53 (3)	31 (3)	1,770 (513)	27 (3)	10,558 (3,434)	1,396 (662)	86	9,675 (814)	262

Chrm	Clone	Comp	Contig	CpG	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: A/J* Mapped (Not placed)
13	11	1	1	5	3	7	4	2	172	10	1,320	78	8	37	6
*Total*	11	1	1	5	3	7	4	2	172	10	1,320	78	8	37	6

Chrm	Clone	Comp	Contig	CpG	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaMm
*Assembly: AKR/J* Mapped (Not placed)
Y	(2)	(3)	(3)	(18)	(9)	(23)	(16)	(10)	(919)	(13)	(4,776)	(6,905)	(311)
*Total*	(2)	(3)	(3)	(18)	(9)	(23)	(16)	(10)	(919)	(13)	(4,776)	(6,905)	(311)

Chrm	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: B6/CBAF1J* Mapped (Not placed)
7	1	1	7	10	2	1	4	2	107	1	164	5	10	380	24
*Total*	1	1	7	10	2	1	4	2	107	1	164	5	10	380	24

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: BALB/c* Mapped (Not placed)
6	93	3	1	22		22	56	27	19	836	9	4,025	252	186	3,499	97
7		1	1	1	10	6		9	5	62	21	695	63	51	4,889	478
*Total*	93	4	2	23	10	28	56	36	24	898	30	4,720	315	237	8,388	575

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: C3H* Mapped (Not placed)
3	31	1	1	42	304	11	17	18	12	495	8	768	63	42	2,540	67
*Total*	31	1	1	42	304	11	17	18	12	495	8	768	63	42	2,540	67

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: Cast/Ei* Mapped (Not placed)
9	12	1	1	32	39	6		15	6	484	7	1,548	73	87	3,480	220
Y	(13)	(3)	(3)	(11)	(2)	(14)	(133)	(22)	(13)	(893)	(12)	(1,221)	(8,680)		(393)
*Total*	12 (13)	1 (3)	1 (3)	32 (11)	39 (2)	6 (14)	(133)	15 (22)	6 (13)	484 (893)	7 (12)	1,548 (1,221)	73 (8,680)	87	3,480 (393)	220

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	craGenes	craRNA	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: Celera* Mapped (Not placed)
1	35,345	12,228	37	10,136	9,186	1,746	19,183	3,324	1,576	302,263	2,532	1,178,240	1,819	2,597	33,694	5,893	236,151	18,067
2	36,126	10,241	31	11,463	15,305	2,349	15,404	4,280	2,238	287,615	2,991	937,797	2,423	3,565	29,981	8,346	311,456	23,916
3	27,734	10,131	22	8,264	7,386	1,495	12,527	2,866	1,353	237,865	2,039	932,064	1,607	2,302	26,240	5,476	200,109	13,862
4	28,273	9,470	38	10,761	13,082	1,655	12,557	3,191	1,567	246,247	2,214	842,405	1,705	2,493	26,598	6,287	237,776	16,875
5	29,091	8,963	24	12,106	10,696	1,588	12,018	3,119	1,526	247,579	2,447	794,115	1,782	2,726	24,714	6,486	266,240	16,617
6	28,165	8,184	24	8,234	8,484	1,725	12,764	3,082	1,490	231,368	2,426	843,963	1,990	2,390	24,941	6,755	216,291	15,727
7	25,984	8,273	56	9,271	10,759	2,516	11,231	4,168	2,324	221,407	2,364	872,852	2,478	4,110	29,723	7,826	289,452	26,021
8	24,447	8,305	24	9,565	8,521	1,388	11,158	2,617	1,317	203,289	1,889	795,594	1,609	2,202	24,600	4,608	199,264	13,786
9	24,912	6,941	19	8,331	7,979	1,568	10,948	2,862	1,465	204,741	2,023	645,345	1,648	2,487	19,617	7,109	262,484	18,929
10	24,169	7,464	16	9,324	7,613	1,364	10,742	2,565	1,274	206,285	1,865	596,000	1,431	2,241	18,302	4,949	205,343	12,719
11	25,409	6,851	64	9,702	15,873	1,926	10,622	3,568	1,848	214,117	2,857	558,391	2,093	3,333	23,128	8,292	341,355	26,844
12	20,997	6,757	22	6,364	5,668	963	9,631	1,981	877	171,194	1,433	642,496	1,145	1,613	20,075	4,604	139,734	10,568
13	22,088	7,191	28	7,234	4,845	1,301	9,735	2,297	1,069	175,646	1,617	664,544	1,304	1,715	20,812	3,577	137,022	9,357
14	20,758	8,051	29	5,941	5,203	1,137	9,519	2,048	996	174,978	1,269	718,798	1,412	1,674	22,264	4,059	134,043	10,080
15	20,152	6,231	13	7,168	7,769	1,044	8,426	2,099	1,011	157,493	1,474	587,790	1,123	1,619	16,687	5,357	184,800	14,383
16	18,475	5,321	8	5,379	4,871	949	8,512	1,833	895	149,809	1,518	467,252	959	1,427	13,695	3,161	123,308	8,573
17	17,062	5,489	41	7,099	9,218	1,346	6,715	2,422	1,221	141,700	1,646	491,539	1,373	2,126	17,124	5,131	181,968	12,833
18	17,066	5,132	10	5,445	5,115	770	7,820	1,534	712	136,324	1,096	474,726	786	1,251	13,659	2,617	105,717	7,978
19	12,502	3,749	10	4,819	5,748	950	5,316	1,689	896	98,129	1,118	357,002	953	1,403	9,945	3,869	143,624	13,209
X	14,989	15,511	32	4,258	3,659	1,422	4,553	2,351	1,148	220,252	1,979	457,533	1,473	1,615	16,923	3,460	119,253	10,916
Y	52	242	3	109	9	34	68	50	12	2,693	41	2,701	32	30	264	4	673	21
Un	(1,160)	(21,703)	(12,482)	(4,506)	(3,486)	(1,314)	(3,698)	(6,330)	(855)	(114,536)	(369)	(522,618)	(607)	(514)	(56,422)	(6,955)	(19,991)	(2,092)
*Total*	473,796 (1,160)	160,725 (21,703)	551 (12,482)	160,973 (4,506)	166,989 (3,486)	29,236 (1,314)	209,449 (3,698)	53,946 (6,330)	26,815 (855)	4,030,994 (114,536)	38,838 (369)	13,861,147 (522,618)	31,145 (607)	44,919 (514)	432,986 (56,422)	107,866 (6,955)	4,036,063 (19,991)	301,281 (2,092)

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: NOD* Mapped (Not placed)
1	150	9	5	63	109	17	44	31	17	1,940	16	8,096	145	30	946	79
3	468 (116)	21 (2)	8 (2)	171 (45)	68 (39)	36 (18)	213 (44)	54 (35)	31 (20)	4,414 (650)	68 (14)	22,585 (4,282)	774 (1,767)	138 (130)	3,089 (2,862)	253 (362)
4	48 (45)	2 (1)	2 (1)	56 (5)	121 (418)	14 (3)	22 (31)	23 (3)	14 (3)	719 (263)	15 (1)	2,423 (5,528)	109 (1,631)	82	2,944 (230)	180 (6)
6	26	1	1	37	78	5	18	9	5	487	10	2,408	114		754	33
11	234 (3)	8 (2)	4 (2)	161 (15)	140 (4)	49 (2)	101 (8)	88 (3)	48	2,442 (206)	53 (3)	6,965 (1,327)	325 (287)	252	7,957 (172)	776 (107)
17	467	11	3	350	629	46	127	100	50	4,513	77	9,711	542	172	10,816	484
*Total*	1,393 (164)	52 (5)	23 (5)	838 (65)	1,145 (461)	167 (23)	525 (83)	305 (41)	165 (23)	14,515 (1,119)	239 (18)	52,188 (11,137)	2,009 (3,685)	674 (130)	26,506 (3,264)	1,805 (475)

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: SJL/J* Mapped (Not placed)
9	31	1	1	20	57	7	3	15	9	335	4	1,399	68	86	3,733	218
*Total*	31	1	1	20	57	7	3	15	9	335	4	1,399	68	86	3,733	218

Chrm	Comp	Contig	CpG	Genes_seq	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaMm
*Assembly: Spret/Ei* Mapped (Not placed)
Y	(2)	(2)	(16)	(5)	(7)	(4)	(495)	(3)	(1,131)	(400)	(10)
*Total*	(2)	(2)	(16)	(5)	(7)	(4)	(495)	(3)	(1,131)	(400)	(10)

Chrm	Clone	Comp	Contig	CpG	GeneTrap	Genes_seq	MICER	Model	RefSeq RNA	Repeats	STS	Variation	gbDNA	rnaHs	rnaMm	rnaRn
*Assembly: unknown* Mapped (Not placed)
1	49	2	2	20	5	2	21	3	2	480	1	1,380	57	11	554	19
2		1	1	2		1	8	1	1	39	2	522	22	19	305	13
4	34	6	5	56	32	14	46	25	14	1,075	17	4,199	159	28	932	73
5	41	2	2	47	62	7	47	11	6	1,032	21	2,703	94	26	1,323	34
6	140	7	6	64	9	30	130	48	28	1,445	47	8,950	332	95	2,358	220
7	257	8	6	126	421	40	180	68	40	2,879	60	7,439	206	201	7,948	517
9	58	3	2	32	6	8	44	11	6	562	7	2,256	45	40	1,483	117
10	88	3 (1)	2 (1)	37 (1)	23	7 (1)	35 (1)	14 (1)	7 (1)	808 (15)	10	3,009 (156)	97 (6)	42	784 (48)	92 (2)
11	78	7	5	94	518	20	81	43	19	1,200	25	3,152	238	184	13,860	362
12	6	3	3	6		16	23	25	5	404	6	5,949	520	538	415	12
15		1	1	3			2	1		43		258	7
16	16	1	1	18	3	1	7	3	1	225	3	723	23	2	142	4
17	20	3	3	17	1	8	10	9	8	344	11	1,212	206	6	352	20
18	13 (3)	1 (1)	1 (1)	7 (4)	12	3	21 (6)	4 (1)	3	149 (100)	17 (1)	398 (651)	18 (39)	6	903	79
19	37	2	2	41	35	5	22	18	5	551	6	1,925	85	65	427	108
X	9	4	3	13	44	5	15	8	5	481	21	701	33	28	700	61
*Total*	846 (3)	54 (2)	45 (2)	583 (5)	1,171	167 (1)	692 (7)	292 (2)	150 (1)	11,717 (115)	254 (1)	44,776 (807)	2,142 (45)	1,291	32,486 (48)	1,731 (2)

Object count: Genetic maps

Chrm	MGI	WI_GEN
1	1,894	547
2	1,698	546
3	1,095	379
4	1,604	362
5	1,513	428
6	1,585	378
7	1,640	350
8	1,166	354
9	1,182	364
10	1,126	311
11	1,996	355
12	1,015	283
13	1,159	308
14	968	262
15	938	270
16	811	211
17	1,425	250
18	606	231
19	579	132
MT	1
X	990	227
Y	18
*Total*	25,009	6,548

Object count: Physical maps

Chrm	WI/MRC-RH	WI_YAC
1	958	635
2	1,170	600
3	771	398
4	897	400
5	977	422
6	757	471
7	850	416
8	727	376
9	735	398
10	744	320
11	900	517
12	611	366
13	625	425
14	489	322
15	553	332
16	567	318
17	582	198
18	341	270
19	543	158
X	369	241
*Total*	14,166	7,583

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