ChromoView - clone / Assembly sequencing status

B.taurus: Sub region MHC_hap2 (TPF updated: 2013-07-05)

TPF

# Clone ext/Contig Clone int Acc/Fin
1 CH240-350N7
ctg_11_mhc_class_IIa
bBT350N7
EPN details
FO681516.1
finished
2 CH240-172H15
ctg_11_mhc_class_IIa
bBT172H15
EPN details
FQ482098.2
finished
3 CH240-110I6
ctg_11_mhc_class_IIa
bBT110I6
EPN details
FQ482090.5
finished
4 CH240-126O4
ctg_11_mhc_class_IIa
bBT126O4
EPN details
FQ482091.6
finished
5 CH240-414K14
ctg_11_mhc_class_IIa
bBT414K14
EPN details
FQ790216.2
finished
6 CH240-131G8
ctg_11_mhc_class_IIa
bBT131G8
EPN details
FQ482092.6
finished
7 CH240-145K3
ctg_11_mhc_class_IIa
bBT145K3
EPN details
FQ482094.3
finished
8 CH240-227K23
ctg_11_mhc_class_IIa
bBT227K23
EPN details
FQ482101.2
finished
9 CH240-364F20
ctg_11_mhc_class_IIa
bBT364F20
EPN details
FQ482113.1
finished
  GAP (type-3) length 150000 bps    
11 CH240-224M22
ctg_21_mhc_class_III
bBT224M22
EPN details
FQ482100.2
contiguous
12 CH240-5B21
ctg_21_mhc_class_III
bBT5B21
EPN details
FQ482132.2
unfinished
13 CH240-250C15
ctg_21_mhc_class_III
bBT250C15
EPN details
FQ482104.1
contiguous
  GAP (type-3) length 150000 bps    
15 CH240-127A16
ctg_31_mhc_class_I
bBT127A16
EPN details
FO538764.1
finished
16 CH240-22F10
ctg_31_mhc_class_I
bBT22F10
EPN details
FQ482102.7
unfinished
17 CH240-470G19
ctg_31_mhc_class_I
bBT470G19
EPN details
FQ482123.4
unfinished
18 CH240-165G21
ctg_31_mhc_class_I
bBT165G21
EPN details
FO681493.1
finished
  GAP (type-3) length 150000 bps    
20 CH240-405I18
ctg_41_mhc_class_I
bBT405I18
EPN details
FO393397.2
finished
21 CH240-216F21
ctg_41_mhc_class_I
bBT216F21
EPN details
FQ482099.6
contiguous
22 CH240-165A9
ctg_41_mhc_class_I
bBT165A9
EPN details
FQ482095.2
finished
23 CH240-100M12
ctg_41_mhc_class_I
bBT100M12
EPN details
FQ482088.3
unfinished

AGP

AGP_S AGP_E Rank Status Acc.ver Clone_S Clone_E Str
1 98878 1 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 5 FO681516.1 1 98878 +
98879 316767 2 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 5 FQ482098.2 1 217889 +
316768 374024 3 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 5 FQ482090.5 8916 66172 +
374025 603267 4 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 5 FQ482091.6 2001 231243 +
603268 619264 5 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 5 FQ790216.2 2001 17997 +
619265 624264 6 N 5000 No overlap in database    
624265 677737 7 FClick to retrieve finished assembled sequence in green bar: rank(s) 7 - 8 FQ482092.6 1 53473 +
677738 762552 8 FClick to retrieve finished assembled sequence in green bar: rank(s) 7 - 8 FQ482094.3 2001 86815 +
762553 767552 9 N 5000 No overlap in database    
767553 779352 10 FClick to retrieve finished assembled sequence in green bar: rank(s) 10 - 11 FQ482101.2 1 11800 +
779353 953178 11 FClick to retrieve finished assembled sequence in green bar: rank(s) 10 - 11 FQ482113.1 1 173826 +
953179 1103178 12 N 150000 contig no
1103179 1287016 13 A FQ482100.2 1 183838 +
1287017 1337016 14 N 50000 clone yes
1337017 1487219 15 A FQ482104.1 1 150203 +
1487220 1637219 16 N 150000 contig no
1637220 1717488 17 FClick to retrieve finished assembled sequence in green bar: rank(s) 17 - 17 FO538764.1 1 80269 +
1717489 1767488 18 N 50000 clone yes
1767489 1817488 19 N 50000 clone yes
1817489 2030087 20 FClick to retrieve finished assembled sequence in green bar: rank(s) 20 - 20 FO681493.1 1 212599 +
2030088 2180087 21 N 150000 contig no
2180088 2358010 22 FClick to retrieve finished assembled sequence in green bar: rank(s) 22 - 22 FO393397.2 1 177923 +
2358011 2395785 23 A FQ482099.6 173916 211690 +
2395786 2400785 24 N 5000 No overlap in database    
2400786 2455902 25 FClick to retrieve finished assembled sequence in green bar: rank(s) 25 - 25 FQ482095.2 1 55117 +
2455903 2505902 26 N 50000 clone no

Details

# Clone ext/Contig Clone int Status/Date Acc/Fin Length Library OL Pos OL Qual OL details Cert
1 CH240-350N7
ctg_11_mhc_class_IIa
bBT350N7
EPN details
Analysed
14-JUN-13
FO681516.1
finished
200631 CHORI 240 Library 3' / 5'
98878 / 1
- / -
101859
0
Identified
2013-07-06
find_overl...
humpub
 
2 CH240-172H15
ctg_11_mhc_class_IIa
bBT172H15
EPN details
Analysed
29-MAY-13
FQ482098.2
finished
217889 CHORI 240 Library 3' / 5'
217889 / 8916
- / -
8915
0
Identified
2013-07-06
find_overl...
humpub
 
3 CH240-110I6
ctg_11_mhc_class_IIa
bBT110I6
EPN details
Analysed
05-FEB-11
FQ482090.5
finished
66172 CHORI 240 Library 3' / 5'
66172 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
humpub
 
4 CH240-126O4
ctg_11_mhc_class_IIa
bBT126O4
EPN details
Analysed
01-MAR-11
FQ482091.6
finished
231243 CHORI 240 Library 3' / 5'
231243 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
humpub
 
5 CH240-414K14
ctg_11_mhc_class_IIa
bBT414K14
EPN details
Analysed
15-FEB-11
FQ790216.2
finished
17997 CHORI 240 Library        
6 CH240-131G8
ctg_11_mhc_class_IIa
bBT131G8
EPN details
Analysed
24-FEB-11
FQ482092.6
finished
53473 CHORI 240 Library 3' / 5'
53473 / 2001
- / -
2000
0
Identified
2013-07-06
find_overl...
humpub
 
7 CH240-145K3
ctg_11_mhc_class_IIa
bBT145K3
EPN details
Analysed
19-JAN-11
FQ482094.3
finished
86815 CHORI 240 Library        
8 CH240-227K23
ctg_11_mhc_class_IIa
bBT227K23
EPN details
Analysed
20-JAN-11
FQ482101.2
finished
24341 CHORI 240 Library 3' / 5'
11800 / 1
- / -
12574
1.87
Identified
2013-07-06
find_overl...
humpub
 
9 CH240-364F20
ctg_11_mhc_class_IIa
bBT364F20
EPN details
Analysed
07-DEC-10
FQ482113.1
finished
173826 CHORI 240 Library        
  GAP (type-3) length 150000 bps                  
11 CH240-224M22
ctg_21_mhc_class_III
bBT224M22
EPN details
Assigned to finisher
23-SEP-10
FQ482100.2
contiguous
183838 CHORI 240 Library        
12 CH240-5B21
ctg_21_mhc_class_III
bBT5B21
EPN details
Assigned to finisher
23-SEP-10
FQ482132.2
unfinished
200281 CHORI 240 Library        
13 CH240-250C15
ctg_21_mhc_class_III
bBT250C15
EPN details
Assigned to finisher
29-JUN-10
FQ482104.1
contiguous
150203 CHORI 240 Library        
  GAP (type-3) length 150000 bps                  
15 CH240-127A16
ctg_31_mhc_class_I
bBT127A16
EPN details
Analysed
02-FEB-13
FO538764.1
finished
80269 CHORI 240 Library        
16 CH240-22F10
ctg_31_mhc_class_I
bBT22F10
EPN details
Assigned to finisher
23-SEP-10
FQ482102.7
unfinished
208841 CHORI 240 Library        
17 CH240-470G19
ctg_31_mhc_class_I
bBT470G19
EPN details
Assigned to finisher
17-DEC-10
FQ482123.4
unfinished
198338 CHORI 240 Library 5' / 3'
187712 / 212599
- / -
187941
0.2
Identified
2013-07-06
find_overl...
humpub
 
18 CH240-165G21
ctg_31_mhc_class_I
bBT165G21
EPN details
Analysed
01-JUN-13
FO681493.1
finished
212599 CHORI 240 Library        
  GAP (type-3) length 150000 bps                  
20 CH240-405I18
ctg_41_mhc_class_I
bBT405I18
EPN details
Analysed
02-FEB-13
FO393397.2
finished
177923 CHORI 240 Library 3' / 5'
177923 / 173916
- / -
173915
0
Identified
2013-07-06
find_overl...
humpub
 
21 CH240-216F21
ctg_41_mhc_class_I
bBT216F21
EPN details
Assigned to finisher
13-OCT-10
FQ482099.6
contiguous
211690 CHORI 240 Library        
22 CH240-165A9
ctg_41_mhc_class_I
bBT165A9
EPN details
Analysed
29-MAY-13
FQ482095.2
finished
55117 CHORI 240 Library 5' / 5'
1 / 50651
- / -
54868
2.92
Identified
2013-07-06
find_overl...
humpub
 
23 CH240-100M12
ctg_41_mhc_class_I
bBT100M12
EPN details
Assigned to finisher
14-JUN-11
FQ482088.3
unfinished
170919 CHORI 240 Library        

Statistics

Clone Summary

Number of gaps
3
Gap types
type-3
3
Total clones
20
Clone HTGS Phases
contiguous
3
finished
13
unfinished
4
Number of clones w/o accession
0

Overlap Summary

Total overlap length of fin clones
129,348
Total finished length of fin clones w/ overlap
1,598,295
Total finished length of fin clones w/o overlap
1,468,947
Total overlap length of fin+unfin clones
546,072
Total finished length of fin+unfin clones w/ overlap
2,922,405
Total finished length of fin+unfin clones w/o overlap
2,376,333

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