ChromoView - clone / Assembly sequencing status

Human: Sub region 22p (TPF updated: 2013-05-17)

TPF

# Clone ext/Contig Clone int Acc/Fin
1 RP11-297D8
Ctg7
bA297D8
EPN details
AL592183.10
finished
  GAP (type-4) length 50000 bps    
3 SC22CB-42D1
Ctg12
cB42D1
EPN details
CU013544.1
finished
4 SC22CB-22C4
Ctg12
cB22C4
EPN details
CT867976.7
finished
  GAP (type-4) length 50000 bps    
6 RP11-298A19
Ctg25
bA298A19
EPN details
AL592170.21
finished
7 RP11-441E2
Ctg25
bA441E2
EPN details
AC133123.3
finished
  GAP (type-4) length 50000 bps    
9 RP11-356L9
Ctg26
bA356L9
EPN details
AL603926.6
finished
  GAP (type-4) length 50000 bps    
11 RP3-433O3
Ctg30
dJ433O3
EPN details
AL929347.8
finished
  GAP (type-4) length 50000 bps    
13 RP11-426M5
Ctg34
bA426M5
EPN details
AL591856.26
finished
  GAP (type-4) length 50000 bps    
15 RP3-376K6
Ctg36
dJ376K6
EPN details
BX294002.19
finished
  GAP (type-3) length 50000 bps    
17 RP11-512A4
Ctg45
bA512A4
EPN details
AL671532.13
finished
18 RP11-78N10
Ctg45
bA78N10
EPN details
AL355000.11
finished
  GAP (type-3) length 20000 bps    
20 RP11-242C23
Ctg45
bA242C23
EPN details
CT476828.7
finished
  GAP (type-4) length 50000 bps    
22 SC22CB-20A11
Ctg49
cB20A11
EPN details
CT476830.1
finished
  GAP (type-3) length 20000 bps    
24 SC22CB-31G2
Ctg49
cB31G2
EPN details
CT867977.4
finished
25 SC22CB-32A1
Ctg49
cB32A1
EPN details
CT867978.2
finished
26 SC22CB-73C9
Ctg49
cB73C9
EPN details
CT954328.2
finished
  GAP (type-3) length 50000 bps    
28 RP11-565G5
Ctg68
bA565G5
EPN details
AL590523.5
finished
  GAP (type-3) length 95000 bps    
30 RP11-474C22
Ctg68
bA474C22
EPN details
AL354822.8
finished
  GAP (type-3) length 50000 bps    
32 RP11-337M7
Ctg69
bA337M7
EPN details
AL592188.60
finished
  GAP (type-3) length 50000 bps    
34 RP11-144A16
Ctg128
bA144A16
EPN details
AL590491.13
finished
  GAP (type-3) length 50000 bps    
36 SC22CB-105A1
Ctg128
cB105A1
EPN details
CT963082.1
finished
  GAP (type-3) length 50000 bps    
  GAP (type-3) length 50000 bps    
39 RP11-111E21
from_chr13
bA111E21
EPN details
AL137218.5
finished
  GAP (type-3) length 50000 bps    
41 RP11-186M12
from_chr13
bA186M12
EPN details
AL162851.10
finished
  GAP (type-3) length 50000 bps    
43 RP11-348N17
from_chr13
bA348N17
EPN details
AL163540.11
finished
  GAP (type-3) length 50000 bps    
45 RP11-438N17
from_chr13
bA438N17
EPN details
BX546479.5
finished
  GAP (type-3) length 50000 bps    
47 RP11-509J10
from_chr13
bA509J10
EPN details
BX546448.4
finished

AGP

AGP_S AGP_E Rank Status Acc.ver Clone_S Clone_E Str
1 179198 1 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 1 AL592183.10 1 179198 +
179199 229198 2 N 50000 contig no
229199 275139 3 FClick to retrieve finished assembled sequence in green bar: rank(s) 3 - 4 CU013544.1 1 45941 +
275140 298479 4 FClick to retrieve finished assembled sequence in green bar: rank(s) 3 - 4 CT867976.7 1 23340 -
298480 348479 5 N 50000 contig no
348480 535340 6 FClick to retrieve finished assembled sequence in green bar: rank(s) 6 - 7 AL592170.21 1 186861 -
535341 647415 7 FClick to retrieve finished assembled sequence in green bar: rank(s) 6 - 7 AC133123.3 1 112075 -
647416 697415 8 N 50000 contig no
697416 877870 9 FClick to retrieve finished assembled sequence in green bar: rank(s) 9 - 9 AL603926.6 1 180455 +
877871 927870 10 N 50000 contig no
927871 1056244 11 FClick to retrieve finished assembled sequence in green bar: rank(s) 11 - 11 AL929347.8 1 128374 +
1056245 1106244 12 N 50000 contig no
1106245 1285937 13 FClick to retrieve finished assembled sequence in green bar: rank(s) 13 - 13 AL591856.26 1 179693 +
1285938 1335937 14 N 50000 contig no
1335938 1350945 15 FClick to retrieve finished assembled sequence in green bar: rank(s) 15 - 15 BX294002.19 1 15008 +
1350946 1400945 16 N 50000 contig no
1400946 1610595 17 FClick to retrieve finished assembled sequence in green bar: rank(s) 17 - 18 AL671532.13 1 209650 +
1610596 1829393 18 FClick to retrieve finished assembled sequence in green bar: rank(s) 17 - 18 AL355000.11 579 219376 +
1829394 1849393 19 N 20000 contig no
1849394 1978513 20 FClick to retrieve finished assembled sequence in green bar: rank(s) 20 - 20 CT476828.7 1 129120 +
1978514 2028513 21 N 50000 contig no
2028514 2066134 22 FClick to retrieve finished assembled sequence in green bar: rank(s) 22 - 22 CT476830.1 1 37621 +
2066135 2086134 23 N 20000 contig no
2086135 2111520 24 FClick to retrieve finished assembled sequence in green bar: rank(s) 24 - 26 CT867977.4 2001 27386 -
2111521 2132564 25 FClick to retrieve finished assembled sequence in green bar: rank(s) 24 - 26 CT867978.2 19609 40652 -
2132565 2173095 26 FClick to retrieve finished assembled sequence in green bar: rank(s) 24 - 26 CT954328.2 1 40531 +
2173096 2223095 27 N 50000 contig no
2223096 2378492 28 FClick to retrieve finished assembled sequence in green bar: rank(s) 28 - 28 AL590523.5 1 155397 +
2378493 2473492 29 N 95000 contig no
2473493 2634639 30 FClick to retrieve finished assembled sequence in green bar: rank(s) 30 - 30 AL354822.8 1 161147 +
2634640 2684639 31 N 50000 contig no
2684640 2846441 32 FClick to retrieve finished assembled sequence in green bar: rank(s) 32 - 32 AL592188.60 1 161802 +
2846442 2896441 33 N 50000 contig no
2896442 3070807 34 FClick to retrieve finished assembled sequence in green bar: rank(s) 34 - 34 AL590491.13 1 174366 +
3070808 3120807 35 N 50000 contig no
3120808 3155281 36 FClick to retrieve finished assembled sequence in green bar: rank(s) 36 - 36 CT963082.1 1 34474 +
3155282 3205281 37 N 50000 contig no
3205282 3255281 38 N 50000 contig no
3255282 3392999 39 FClick to retrieve finished assembled sequence in green bar: rank(s) 39 - 39 AL137218.5 1 137718 +
3393000 3442999 40 N 50000 contig no
3443000 3615544 41 FClick to retrieve finished assembled sequence in green bar: rank(s) 41 - 41 AL162851.10 1 172545 +
3615545 3665544 42 N 50000 contig no
3665545 3832110 43 FClick to retrieve finished assembled sequence in green bar: rank(s) 43 - 43 AL163540.11 1 166566 +
3832111 3882110 44 N 50000 contig no
3882111 4054404 45 FClick to retrieve finished assembled sequence in green bar: rank(s) 45 - 45 BX546479.5 1 172294 +
4054405 4104404 46 N 50000 contig no
4104405 4276553 47 FClick to retrieve finished assembled sequence in green bar: rank(s) 47 - 47 BX546448.4 1 172149 +

Details

# Clone ext/Contig Clone int Status/Date Acc/Fin Length Library OL Pos OL Qual OL details Cert
1 RP11-297D8
Ctg7
bA297D8
EPN details
Submitted to EMBL
12-JAN-09
AL592183.10
finished
179198 RPCI-11.2        
  GAP (type-4) length 50000 bps                  
3 SC22CB-42D1
Ctg12
cB42D1
EPN details
Submitted to EMBL
12-JAN-09
CU013544.1
finished
45941 SC22cB 3' / 3'
45941 / 23340
- / -
20351
0.47
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
4 SC22CB-22C4
Ctg12
cB22C4
EPN details
Submitted to EMBL
12-JAN-09
CT867976.7
finished
43691 SC22cB        
  GAP (type-4) length 50000 bps                  
6 RP11-298A19
Ctg25
bA298A19
EPN details
Submitted to EMBL
12-JAN-09
AL592170.21
finished
186861 RPCI-11.2 5' / 3'
1 / 112075
- / -
2005
0
Identified
2008-04-22
find_overl...
humpub
 
7 RP11-441E2
Ctg25
bA441E2
EPN details
Submitted to EMBL
12-JAN-09
AC133123.3
finished
114080 RPCI-11.2        
  GAP (type-4) length 50000 bps                  
9 RP11-356L9
Ctg26
bA356L9
EPN details
Cancelled
07-SEP-10
AL603926.6
finished
180455 RPCI-11.2        
  GAP (type-4) length 50000 bps                  
11 RP3-433O3
Ctg30
dJ433O3
EPN details
Cancelled
11-APR-11
AL929347.8
finished
128374 RPCI-3        
  GAP (type-4) length 50000 bps                  
13 RP11-426M5
Ctg34
bA426M5
EPN details
Submitted to EMBL
12-JAN-09
AL591856.26
finished
179693 RPCI-11.2        
  GAP (type-4) length 50000 bps                  
15 RP3-376K6
Ctg36
dJ376K6
EPN details
Submitted to EMBL
12-JAN-09
BX294002.19
finished
15008 RPCI-3        
  GAP (type-3) length 50000 bps                  
17 RP11-512A4
Ctg45
bA512A4
EPN details
Submitted to EMBL
12-JAN-09
AL671532.13
finished
211173 RPCI-11.2 3' / 5'
209650 / 579
1217 / 578
311
9.47
Identified
2008-07-04
find_overl...
humpub
 
18 RP11-78N10
Ctg45
bA78N10
EPN details
Submitted to EMBL
12-JAN-09
AL355000.11
finished
219376 RPCI-11.1        
  GAP (type-3) length 20000 bps                  
20 RP11-242C23
Ctg45
bA242C23
EPN details
Submitted to EMBL
12-JAN-09
CT476828.7
finished
129120 RPCI-11.1        
  GAP (type-4) length 50000 bps                  
22 SC22CB-20A11
Ctg49
cB20A11
EPN details
Submitted to EMBL
12-JAN-09
CT476830.1
finished
37621 SC22cB        
  GAP (type-3) length 20000 bps                  
24 SC22CB-31G2
Ctg49
cB31G2
EPN details
Submitted to EMBL
12-JAN-09
CT867977.4
finished
27386 SC22cB 5' / 3'
2001 / 40652
- / -
2000
0.05
Identified
2014-11-12
fetch_ncbi...
humpub
 
25 SC22CB-32A1
Ctg49
cB32A1
EPN details
Submitted to EMBL
12-JAN-09
CT867978.2
finished
40652 SC22cB 5' / 5'
19609 / 1
11244 / -
8397
4.17
Identified
2006-11-08
find_overl...
gjc
 
26 SC22CB-73C9
Ctg49
cB73C9
EPN details
Submitted to EMBL
12-JAN-09
CT954328.2
finished
40531 SC22cB        
  GAP (type-3) length 50000 bps                  
28 RP11-565G5
Ctg68
bA565G5
EPN details
Submitted to EMBL
12-JAN-09
AL590523.5
finished
155397 RPCI-11.2        
  GAP (type-3) length 95000 bps                  
30 RP11-474C22
Ctg68
bA474C22
EPN details
Submitted to EMBL
12-JAN-09
AL354822.8
finished
161147 RPCI-11.2        
  GAP (type-3) length 50000 bps                  
32 RP11-337M7
Ctg69
bA337M7
EPN details
Submitted to EMBL
12-JAN-09
AL592188.60
finished
161802 RPCI-11.2        
  GAP (type-3) length 50000 bps                  
34 RP11-144A16
Ctg128
bA144A16
EPN details
Submitted to EMBL
14-DEC-07
AL590491.13
finished
174366 RPCI-11.1        
  GAP (type-3) length 50000 bps                  
36 SC22CB-105A1
Ctg128
cB105A1
EPN details
Submitted to EMBL
12-JAN-09
CT963082.1
finished
34474 SC22cB        
  GAP (type-3) length 50000 bps                  
  GAP (type-3) length 50000 bps                  
39 RP11-111E21
from_chr13
bA111E21
EPN details
Submitted to EMBL
12-JAN-09
AL137218.5
finished
137718 RPCI-11.1        
  GAP (type-3) length 50000 bps                  
41 RP11-186M12
from_chr13
bA186M12
EPN details
Submitted to EMBL
12-JAN-09
AL162851.10
finished
172545 RPCI-11.1        
  GAP (type-3) length 50000 bps                  
43 RP11-348N17
from_chr13
bA348N17
EPN details
Submitted to EMBL
12-JAN-09
AL163540.11
finished
166566 RPCI-11.2        
  GAP (type-3) length 50000 bps                  
45 RP11-438N17
from_chr13
bA438N17
EPN details
Submitted to EMBL
12-JAN-09
BX546479.5
finished
172294 RPCI-11.2        
  GAP (type-3) length 50000 bps                  
47 RP11-509J10
from_chr13
bA509J10
EPN details
Submitted to EMBL
12-JAN-09
BX546448.4
finished
172149 RPCI-11.2        

Statistics

Clone Summary

Number of gaps
21
Gap types
type-3
14
type-4
7
Total clones
26
Clone HTGS Phases
finished
26
Number of clones w/o accession
0

Overlap Summary

Total overlap length of fin clones
33,064
Total finished length of fin clones w/ overlap
3,287,618
Total finished length of fin clones w/o overlap
3,254,554
Total overlap length of fin+unfin clones
33,064
Total finished length of fin+unfin clones w/ overlap
3,287,618
Total finished length of fin+unfin clones w/o overlap
3,254,554

Dovetails

# rank accession status length date
1 17 AL671532.13 unfinished 1,217 Sat, 20 Dec 2014 23:34
2 18 AL355000.11 unfinished 578 Sat, 20 Dec 2014 23:34
3 25 CT867978.2 unfinished 11,244 Sat, 20 Dec 2014 23:34

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Other links

* quick link - http://q.sanger.ac.uk/pp9i15b0