ChromoView - clone / Assembly sequencing status

B.taurus: Sub region MHC_hap1 (TPF updated: 2013-07-05)

TPF

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# Clone ext/Contig Clone int Acc/Fin
1 CH240-502L2
ctg_10_mhc_class_IIa
bBT502L2
FO393396.1
finished
2 CH240-414K18
ctg_10_mhc_class_IIa
bBT414K18
FQ482119.6
finished
3 CH240-305G8
ctg_10_mhc_class_IIa
bBT305G8
FQ482109.2
finished
4 CH240-346M9
ctg_10_mhc_class_IIa
bBT346M9
FQ482110.1
finished
5 CH240-499O8
ctg_10_mhc_class_IIa
bBT499O8
FQ482126.2
finished
6 CH240-294J24
ctg_10_mhc_class_IIa
bBT294J24
FQ482108.2
finished
7 CH240-277E6
ctg_10_mhc_class_IIa
bBT277E6
FO681479.1
finished
  GAP (type-3) length 150000 bps    
9 CH240-68G20
ctg_random
bBT68G20
FO681515.1
contiguous
10 CH240-259N1
ctg_random
bBT259N1
FO681512.1
contiguous
11 CH240-169N12
ctg_random
bBT169N12
FO681544.1
contiguous
12 CH240-47I7
ctg_random
bBT47I7

-
  GAP (type-3) length 150000 bps    
14 CH240-525O7
ctg_20_mhc_class_III
bBT525O7
FO681484.1
contiguous
15 CH240-197G11
ctg_20_mhc_class_III
bBT197G11
FO681483.1
contiguous
16 CH240-132P22
ctg_20_mhc_class_III
bBT132P22
FQ482093.12
finished
17 CH240-441L4
ctg_20_mhc_class_III
bBT441L4
FQ482120.8
finished
18 CH240-57F1
ctg_20_mhc_class_III
bBT57F1
FQ482131.2
finished
19 CH240-167E4
ctg_20_mhc_class_III
bBT167E4
FQ482097.2
finished
20 CH240-99G15
ctg_20_mhc_class_III
bBT99G15
FQ482136.15
unfinished
21 CH240-388C17
ctg_20_mhc_class_III
bBT388C17
FO681394.1
finished
  GAP (type-3) length 20000 bps    
23 CH240-369N12
ctg_30_mhc_class_III&I
bBT369N12
FQ482114.7
finished
24 CH240-510A19
ctg_30_mhc_class_III&I
bBT510A19
FQ482128.2
finished
25 CH240-264I3
ctg_30_mhc_class_III&I
bBT264I3
FQ482107.2
finished
26 CH240-458H23
ctg_30_mhc_class_III&I
bBT458H23
FQ482122.2
finished
27 CH240-512N8
ctg_30_mhc_class_III&I
bBT512N8
FQ482129.3
finished
28 CH240-63C13
ctg_30_mhc_class_III&I
bBT63C13
FQ482133.3
finished
29 CH240-409I7
ctg_30_mhc_class_III&I
bBT409I7
FQ482118.7
finished
30 CH240-487I9
ctg_30_mhc_class_III&I
bBT487I9
FQ482125.7
finished
31 CH240-133L16
ctg_30_mhc_class_III&I
bBT133L16
FO393395.1
finished
32 CH240-358A21
ctg_30_mhc_class_III&I
bBT358A21
FQ482112.8
unfinished
33 CH240-93C3
ctg_30_mhc_class_III&I
bBT93C3
FQ482135.2
contiguous
  GAP (type-3) length 50000 bps    
35 CH240-503O23
ctg_40_mhc_class_I
bBT503O23
FQ482127.3
finished
36 CH240-103G5
ctg_40_mhc_class_I
bBT103G5
FQ482089.2
finished
  GAP (type-3) length 12000 bps    
38 CH240-271N5
ctg_50_mhc_class_I
bBT271N5
FO681480.1
finished
39 CH240-252J17
ctg_50_mhc_class_I
bBT252J17
FQ482148.1
finished
40 CH240-352B12
ctg_50_mhc_class_I
bBT352B12
FQ482111.2
finished
41 CH240-203K5
ctg_50_mhc_class_I
bBT203K5
FO681519.1
contiguous

AGP

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AGP_S AGP_E Rank Status Acc.ver Clone_S Clone_E Str
1 157217 1 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 7 FO393396.1 1 157217 +
157218 348811 2 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 7 FQ482119.6 2001 193594 +
348812 454840 3 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 7 FQ482109.2 2001 108029 +
454841 601572 4 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 7 FQ482110.1 1 146732 -
601573 715422 5 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 7 FQ482126.2 2001 115850 +
715423 721233 6 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 7 FQ482108.2 2001 7811 +
721234 830726 7 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 7 FO681479.1 2002 111494 +
830727 980726 8 N 150000 contig no
980727 1148471 9 A FO681515.1 1 167745 +
1148472 1153471 10 N 5000 No overlap in database    
1153472 1328747 11 A FO681512.1 1 175276 +
1328748 1333747 12 N 5000 No overlap in database    
1333748 1413708 13 A FO681544.1 1 79961 +
1413709 1463708 14 N 50000 clone no
1463709 1613708 15 N 150000 contig no
1613709 1781914 16 A FO681484.1 1 168206 +
1781915 1786914 17 N 5000 No overlap in database    
1786915 1908012 18 A FO681483.1 87383 208480 -
1908013 2124199 19 FClick to retrieve finished assembled sequence in green bar: rank(s) 19 - 22 FQ482093.12 1 216187 +
2124200 2323628 20 FClick to retrieve finished assembled sequence in green bar: rank(s) 19 - 22 FQ482120.8 2001 201429 +
2323629 2403555 21 FClick to retrieve finished assembled sequence in green bar: rank(s) 19 - 22 FQ482131.2 2001 81927 +
2403556 2542005 22 FClick to retrieve finished assembled sequence in green bar: rank(s) 19 - 22 FQ482097.2 2001 140450 +
2542006 2592005 23 N 50000 clone yes
2592006 2692309 24 FClick to retrieve finished assembled sequence in green bar: rank(s) 24 - 24 FO681394.1 1 100304 +
2692310 2712309 25 N 20000 contig no
2712310 2866011 26 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 33 FQ482114.7 1 153702 -
2866012 2915286 27 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 33 FQ482128.2 1 49275 -
2915287 3043523 28 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 33 FQ482107.2 2002 130238 +
3043524 3092685 29 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 33 FQ482122.2 2001 51162 +
3092686 3286777 30 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 33 FQ482129.3 2001 196092 +
3286778 3333900 31 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 33 FQ482133.3 2001 49123 +
3333901 3419874 32 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 33 FQ482118.7 2001 87974 +
3419875 3530804 33 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 33 FQ482125.7 2001 112930 +
3530805 3535804 34 N 5000 No overlap in database    
3535805 3691210 35 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 35 FO393395.1 1 155406 +
3691211 3741210 36 N 50000 clone yes
3741211 3989768 37 A FQ482135.2 1 248558 +
3989769 4039768 38 N 50000 contig no
4039769 4060788 39 FClick to retrieve finished assembled sequence in green bar: rank(s) 39 - 40 FQ482127.3 1 21020 +
4060789 4258338 40 FClick to retrieve finished assembled sequence in green bar: rank(s) 39 - 40 FQ482089.2 2001 199550 +
4258339 4270338 41 N 12000 contig no
4270339 4306623 42 FClick to retrieve finished assembled sequence in green bar: rank(s) 42 - 44 FO681480.1 1 36285 +
4306624 4438877 43 FClick to retrieve finished assembled sequence in green bar: rank(s) 42 - 44 FQ482148.1 12576 144829 +
4438878 4501653 44 FClick to retrieve finished assembled sequence in green bar: rank(s) 42 - 44 FQ482111.2 2001 64776 +
4501654 4506653 45 N 5000 No overlap in database    
4506654 4708992 46 A FO681519.1 1 202339 +

Details

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Statistics

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Clone Summary

Number of gaps
5
Gap types
type-3
5
Total clones
36
Clone HTGS Phases
contiguous
7
finished
26
unfinished
2
Number of clones w/o accession
1
Clones w/o htgs phase
1
Non-htgs clonenames
CH240-47I7 (project unknown)

Overlap Summary

Total overlap length of fin clones
48,578
Total finished length of fin clones w/ overlap
3,037,387
Total finished length of fin clones w/o overlap
2,988,809
Total overlap length of fin+unfin clones
330,164
Total finished length of fin+unfin clones w/ overlap
4,705,956
Total finished length of fin+unfin clones w/o overlap
4,375,792

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Other links

* quick link - http://q.sanger.ac.uk/m27avy8f