ChromoView - clone / Assembly sequencing status

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

TPF

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

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

AGP

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

# Clone ext/Contig Clone int Status/Date Acc/Fin Length Library OL Pos OL Qual OL details Cert
1 CH240-502L2
ctg_10_mhc_class_IIa
bBT502L2
EPN details
Analysed
14-DEC-12
FO393396.1
finished
157217 CHORI 240 Library 3' / 5'
157217 / 2001
- / -
2000
0
Identified
2013-07-06
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2 CH240-414K18
ctg_10_mhc_class_IIa
bBT414K18
EPN details
Analysed
11-JUN-11
FQ482119.6
finished
193594 CHORI 240 Library 3' / 5'
193594 / 2001
- / -
2000
0
Identified
2013-07-06
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3 CH240-305G8
ctg_10_mhc_class_IIa
bBT305G8
EPN details
Analysed
23-NOV-10
FQ482109.2
finished
108029 CHORI 240 Library 3' / 3'
108029 / 146732
- / -
2000
0
Identified
2013-07-06
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4 CH240-346M9
ctg_10_mhc_class_IIa
bBT346M9
EPN details
Analysed
08-DEC-10
FQ482110.1
finished
148732 CHORI 240 Library 5' / 5'
1 / 2001
- / -
2000
0
Identified
2013-07-06
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5 CH240-499O8
ctg_10_mhc_class_IIa
bBT499O8
EPN details
Analysed
13-NOV-10
FQ482126.2
finished
115850 CHORI 240 Library 3' / 5'
115850 / 2001
- / -
2000
0
Identified
2013-07-06
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6 CH240-294J24
ctg_10_mhc_class_IIa
bBT294J24
EPN details
Analysed
08-DEC-10
FQ482108.2
finished
7811 CHORI 240 Library 3' / 5'
7811 / 2002
- / -
2001
0
Identified
2013-07-06
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7 CH240-277E6
ctg_10_mhc_class_IIa
bBT277E6
EPN details
Analysed
29-MAY-13
FO681479.1
finished
111494 CHORI 240 Library        
  GAP (type-3) length 150000 bps                  
9 CH240-68G20
ctg_random
bBT68G20
EPN details
Indexed Manually Improved
13-JUN-13
FO681515.1
contiguous
167745 CHORI 240 Library        
10 CH240-259N1
ctg_random
bBT259N1
EPN details
Indexed Manually Improved
13-JUN-13
FO681512.1
contiguous
175276 CHORI 240 Library        
11 CH240-169N12
ctg_random
bBT169N12
EPN details
Indexed Manually Improved
27-JUN-13
FO681544.1
contiguous
79961 CHORI 240 Library        
12 CH240-47I7
ctg_random
bBT47I7
EPN details
Cleared for library making
09-NOV-12

-
- CHORI 240 Library        
  GAP (type-3) length 150000 bps                  
14 CH240-525O7
ctg_20_mhc_class_III
bBT525O7
EPN details
Indexed Manually Improved
28-MAY-13
FO681484.1
contiguous
168206 CHORI 240 Library        
15 CH240-197G11
ctg_20_mhc_class_III
bBT197G11
EPN details
Indexed Manually Improved
28-MAY-13
FO681483.1
contiguous
208480 CHORI 240 Library 5' / 5'
87383 / 1
- / -
87385
-0.01
Identified
2013-07-06
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16 CH240-132P22
ctg_20_mhc_class_III
bBT132P22
EPN details
Analysed
23-FEB-11
FQ482093.12
finished
216187 CHORI 240 Library 3' / 5'
216187 / 2001
- / -
2000
0
Identified
2013-07-06
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17 CH240-441L4
ctg_20_mhc_class_III
bBT441L4
EPN details
Analysed
01-MAR-11
FQ482120.8
finished
201429 CHORI 240 Library 3' / 5'
201429 / 2001
- / -
2000
0
Identified
2013-07-06
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18 CH240-57F1
ctg_20_mhc_class_III
bBT57F1
EPN details
Analysed
20-JAN-11
FQ482131.2
finished
81927 CHORI 240 Library 3' / 5'
81927 / 2001
- / -
2000
0
Identified
2013-07-06
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19 CH240-167E4
ctg_20_mhc_class_III
bBT167E4
EPN details
Analysed
20-JAN-11
FQ482097.2
finished
140450 CHORI 240 Library        
20 CH240-99G15
ctg_20_mhc_class_III
bBT99G15
EPN details
Indexed Clone Finished
28-MAY-13
FQ482136.15
unfinished
225954 CHORI 240 Library 3' / 5'
225954 / 55943
- / -
56065
0
Identified
2013-07-06
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21 CH240-388C17
ctg_20_mhc_class_III
bBT388C17
EPN details
Analysed
17-JAN-13
FO681394.1
finished
100304 CHORI 240 Library        
  GAP (type-3) length 20000 bps                  
23 CH240-369N12
ctg_30_mhc_class_III&I
bBT369N12
EPN details
Analysed
01-JUN-11
FQ482114.7
finished
153702 CHORI 240 Library 5' / 3'
1 / 49275
- / -
2001
0
Identified
2013-07-06
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24 CH240-510A19
ctg_30_mhc_class_III&I
bBT510A19
EPN details
Analysed
14-DEC-12
FQ482128.2
finished
51276 CHORI 240 Library 5' / 5'
1 / 2002
- / -
2001
0
Identified
2013-07-06
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25 CH240-264I3
ctg_30_mhc_class_III&I
bBT264I3
EPN details
Analysed
08-DEC-10
FQ482107.2
finished
130238 CHORI 240 Library 3' / 5'
130238 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
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26 CH240-458H23
ctg_30_mhc_class_III&I
bBT458H23
EPN details
Analysed
04-DEC-10
FQ482122.2
finished
51162 CHORI 240 Library 3' / 5'
51162 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
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27 CH240-512N8
ctg_30_mhc_class_III&I
bBT512N8
EPN details
Analysed
09-DEC-10
FQ482129.3
finished
196092 CHORI 240 Library 3' / 5'
196092 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
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28 CH240-63C13
ctg_30_mhc_class_III&I
bBT63C13
EPN details
Analysed
04-DEC-10
FQ482133.3
finished
49123 CHORI 240 Library 3' / 5'
49123 / 2001
- / -
2000
0
Identified
2013-07-06
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29 CH240-409I7
ctg_30_mhc_class_III&I
bBT409I7
EPN details
Analysed
14-JUN-11
FQ482118.7
finished
87974 CHORI 240 Library 3' / 5'
87974 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
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30 CH240-487I9
ctg_30_mhc_class_III&I
bBT487I9
EPN details
Analysed
05-JUL-11
FQ482125.7
finished
112930 CHORI 240 Library        
31 CH240-133L16
ctg_30_mhc_class_III&I
bBT133L16
EPN details
Analysed
14-DEC-12
FO393395.1
finished
155406 CHORI 240 Library 5' / 3'
1 / 53925
- / -
138136
0
Identified
2013-07-06
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32 CH240-358A21
ctg_30_mhc_class_III&I
bBT358A21
EPN details
Assigned to finisher
02-JUL-10
FQ482112.8
unfinished
192050 CHORI 240 Library        
33 CH240-93C3
ctg_30_mhc_class_III&I
bBT93C3
EPN details
Indexed Manually Improved
10-MAY-13
FQ482135.2
contiguous
248558 CHORI 240 Library        
  GAP (type-3) length 50000 bps                  
35 CH240-503O23
ctg_40_mhc_class_I
bBT503O23
EPN details
Analysed
20-JAN-11
FQ482127.3
finished
21020 CHORI 240 Library 3' / 5'
21020 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
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36 CH240-103G5
ctg_40_mhc_class_I
bBT103G5
EPN details
Analysed
07-DEC-10
FQ482089.2
finished
199550 CHORI 240 Library        
  GAP (type-3) length 12000 bps                  
38 CH240-271N5
ctg_50_mhc_class_I
bBT271N5
EPN details
Analysed
29-MAY-13
FO681480.1
finished
36285 CHORI 240 Library 3' / 5'
36285 / 12576
- / -
12575
0
Identified
2013-07-06
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39 CH240-252J17
ctg_50_mhc_class_I
bBT252J17
EPN details
Analysed
10-NOV-10
FQ482148.1
finished
144829 CHORI 240 Library 3' / 5'
144829 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
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40 CH240-352B12
ctg_50_mhc_class_I
bBT352B12
EPN details
Analysed
19-JAN-11
FQ482111.2
finished
64776 CHORI 240 Library        
41 CH240-203K5
ctg_50_mhc_class_I
bBT203K5
EPN details
Indexed Manually Improved
27-JUN-13
FO681519.1
contiguous
202339 CHORI 240 Library        

Statistics

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 (bBT47I7)

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