ChromoView - clone / Assembly sequencing status

Human: Sub region GRC__HUMAN__ALT_REF_LOCI_1__19 (TPF updated: 2014-12-21)

TPF

# Clone ext/Contig Clone int Acc/Fin
1 CTD-2626G11
HSCHR19_1_CTG2
bK2626G11
AC010329.3
finished
2 CTC-352P4
HSCHR19_1_CTG2
bK352P4
AC008463.7
finished
3 CTD-2542C24
HSCHR19_1_CTG2
bK2542C24
AC008739.5
finished
  GAP (type-3) length unknown    
5 RP11-420K14
HSCHR19_2_CTG2
CONTAINER
bA420K14
AC092364.3
finished
6 ABC9-43816200N12
HSCHR19_2_CTG2
CONTAINED
f9A43816200N12
AC226770.1
finished
5 RP11-420K14
HSCHR19_2_CTG2
CONTAINER
bA420K14
AC092364.3
finished
  GAP (type-3) length unknown    
8 RP11-157B13
HSCHR19_3_CTG2
CONTAINER
bA157B13
AC073539.3
finished
9 ABC9-43919000A3
HSCHR19_3_CTG2
CONTAINED
f9A43919000A3
AC212997.3
finished
8 RP11-157B13
HSCHR19_3_CTG2
CONTAINER
bA157B13
AC073539.3
finished
  GAP (type-3) length unknown    
11 CTD-2518G19
HSCHR19_1_CTG3_1
CONTAINER
bK2518G19
AC010614.8
finished
12 ABC9-45924000L20
HSCHR19_1_CTG3_1
CONTAINED
f9A45924000L20
AC210437.3
finished
11 CTD-2518G19
HSCHR19_1_CTG3_1
CONTAINER
bK2518G19
AC010614.8
finished
  GAP (type-3) length unknown    
14 CTD-3093M3
Hschr19LRC_COX1_ctg3_1
bK3093M3
AC012314.8
finished
15 CH502-105G6
Hschr19LRC_COX1_ctg3_1
bCX105G6
EPN details
CU457734.2
finished
  GAP (type-2) length 5000 bps    
17 CH502-535A19
Hschr19LRC_COX1_ctg3_1
bCX535A19
EPN details
CU467002.2
finished
18 CH502-85G21
Hschr19LRC_COX1_ctg3_1
bCX85G21
EPN details
CU234142.1
finished
19 CH502-360G3
Hschr19LRC_COX1_ctg3_1
bCX360G3
EPN details
CU459007.1
finished
  GAP (type-2) length 100000 bps    
21 CTC-550B14
Hschr19LRC_COX1_ctg3_1
bK550B14
AC011476.8
finished
  GAP (type-3) length unknown    
23 LLNLR-273F8
HSCHR19_4_CTG2
llnlrE273F8
AC005390.1
finished
24 ABC9-43915000L14
HSCHR19_4_CTG2
f9A43915000L14
AC217140.4
finished
  GAP (type-3) length unknown    
26 LLNLF-116B1
HSCHR19_2_CTG3_1
llnlfE116B1
AC010504.7
finished
27 ABC7-42756300M20
HSCHR19_2_CTG3_1
f7A42756300M20
AC231987.2
finished
  GAP (type-3) length unknown    
29 CH17-20A21
HSCHR19_3_CTG3_1
CONTAINER
bMO20A21
AC243960.3
finished
30 ABC8-40961800K13
HSCHR19_3_CTG3_1
CONTAINED
f8A40961800K13
AC236970.3
finished
29 CH17-20A21
HSCHR19_3_CTG3_1
CONTAINER
bMO20A21
AC243960.3
finished
  GAP (type-3) length unknown    
32 LLNLR-298A4
HSCHR19_5_CTG2
CONTAINER
llnlrE298A4
AC004799.2
finished
33
HSCHR19_5_CTG2
CONTAINED
KF456467
KF456467.1
finished
32 LLNLR-298A4
HSCHR19_5_CTG2
CONTAINER
llnlrE298A4
AC004799.2
finished
34 ABC10-44635500N14
HSCHR19_5_CTG2
f10A44635500N14
AC212840.2
finished

AGP

AGP_S AGP_E Rank Status Acc.ver Clone_S Clone_E Str
1 145329 1 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 3 AC010329.3 1 145329 +
145330 221450 2 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 3 AC008463.7 1 76121 +
221451 398120 3 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 3 AC008739.5 1 176670 -
398121 448120 4 N 50000 contig no
448121 464510 5 FClick to retrieve finished assembled sequence in green bar: rank(s) 5 - 7 AC092364.3 1 16390 +
464511 506350 6 FClick to retrieve finished assembled sequence in green bar: rank(s) 5 - 7 AC226770.1 1 41840 +
506351 628069 7 FClick to retrieve finished assembled sequence in green bar: rank(s) 5 - 7 AC092364.3 48752 170470 +
628070 678069 8 N 50000 contig no
678070 746486 9 FClick to retrieve finished assembled sequence in green bar: rank(s) 9 - 11 AC073539.3 1 68417 +
746487 785863 10 FClick to retrieve finished assembled sequence in green bar: rank(s) 9 - 11 AC212997.3 1 39377 -
785864 870489 11 FClick to retrieve finished assembled sequence in green bar: rank(s) 9 - 11 AC073539.3 99588 184213 +
870490 920489 12 N 50000 contig no
920490 995153 13 FClick to retrieve finished assembled sequence in green bar: rank(s) 13 - 15 AC010614.8 1 74664 +
995154 1037234 14 FClick to retrieve finished assembled sequence in green bar: rank(s) 13 - 15 AC210437.3 1 42081 -
1037235 1086257 15 FClick to retrieve finished assembled sequence in green bar: rank(s) 13 - 15 AC010614.8 109573 158595 +
1086258 1136257 16 N 50000 contig no
1136258 1266435 17 FClick to retrieve finished assembled sequence in green bar: rank(s) 17 - 18 AC012314.8 1 130178 +
1266436 1448436 18 FClick to retrieve finished assembled sequence in green bar: rank(s) 17 - 18 CU457734.2 1 182001 +
1448437 1453436 19 N 5000 contig yes # ALIGN GENUS
1453437 1575187 20 FClick to retrieve finished assembled sequence in green bar: rank(s) 20 - 22 CU467002.2 1 121751 +
1575188 1692811 21 FClick to retrieve finished assembled sequence in green bar: rank(s) 20 - 22 CU234142.1 2001 119624 +
1692812 1839295 22 FClick to retrieve finished assembled sequence in green bar: rank(s) 20 - 22 CU459007.1 2001 148484 +
1839296 1939295 23 N 100000 contig yes # ALIGN GENUS
1939296 2126359 24 FClick to retrieve finished assembled sequence in green bar: rank(s) 24 - 24 AC011476.8 1 187064 +
2126360 2176359 25 N 50000 contig no
2176360 2193908 26 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 27 AC005390.1 1 17549 +
2193909 2230965 27 FClick to retrieve finished assembled sequence in green bar: rank(s) 26 - 27 AC217140.4 1 37057 +
2230966 2280965 28 N 50000 contig no
2280966 2294277 29 FClick to retrieve finished assembled sequence in green bar: rank(s) 29 - 30 AC010504.7 28954 42265 -
2294278 2328470 30 FClick to retrieve finished assembled sequence in green bar: rank(s) 29 - 30 AC231987.2 1 34193 -
2328471 2378470 31 N 50000 contig no
2378471 2516722 32 FClick to retrieve finished assembled sequence in green bar: rank(s) 32 - 34 AC243960.3 1 138252 +
2516723 2542981 33 FClick to retrieve finished assembled sequence in green bar: rank(s) 32 - 34 AC236970.3 1 26259 +
2542982 2612232 34 FClick to retrieve finished assembled sequence in green bar: rank(s) 32 - 34 AC243960.3 156170 225420 +
2612233 2662232 35 N 50000 contig no
2662233 2687638 36 FClick to retrieve finished assembled sequence in green bar: rank(s) 36 - 39 AC004799.2 1 25406 +
2687639 2687969 37 FClick to retrieve finished assembled sequence in green bar: rank(s) 36 - 39 KF456467.1 1 331 +
2687970 2690855 38 FClick to retrieve finished assembled sequence in green bar: rank(s) 36 - 39 AC004799.2 25738 28623 +
2690856 2725895 39 FClick to retrieve finished assembled sequence in green bar: rank(s) 36 - 39 AC212840.2 1 35040 +

Details

# Clone ext/Contig Clone int Status/Date Acc/Fin Length Library OL Pos OL Qual OL details Cert
1 CTD-2626G11
HSCHR19_1_CTG2
bK2626G11
-
-
AC010329.3
finished
187607 CIT-HSP-D2 3' / 5'
145329 / 1
- / -
41609
19.42
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
2 CTC-352P4
HSCHR19_1_CTG2
bK352P4
-
-
AC008463.7
finished
76121 CIT-HSP-C 3' / 3'
76121 / 176670
- / 1
58517
13.1
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
3 CTD-2542C24
HSCHR19_1_CTG2
bK2542C24
-
-
AC008739.5
finished
235532 CIT-HSP-D2        
  GAP (type-3) length unknown                  
5 RP11-420K14
HSCHR19_2_CTG2
CONTAINER
bA420K14
-
-
AC092364.3
finished
170470 RPCI-11.2 3' / 5'
16390 / 1
121719 / -
41840
29.96
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
6 ABC9-43816200N12
HSCHR19_2_CTG2
CONTAINED
f9A43816200N12
-
-
AC226770.1
finished
41840 ABC9 3' / 5'
41840 / 48752
- / 16390
41840
29.96
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
5 RP11-420K14
HSCHR19_2_CTG2
CONTAINER
bA420K14
-
-
AC092364.3
finished
170470 RPCI-11.2        
  GAP (type-3) length unknown                  
8 RP11-157B13
HSCHR19_3_CTG2
CONTAINER
bA157B13
-
-
AC073539.3
finished
184213 RPCI-11.1 3' / 3'
68417 / 39377
84626 / -
39377
26.8
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
9 ABC9-43919000A3
HSCHR19_3_CTG2
CONTAINED
f9A43919000A3
-
-
AC212997.3
finished
39377 ABC9 5' / 5'
1 / 99588
- / 68417
39377
26.8
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
8 RP11-157B13
HSCHR19_3_CTG2
CONTAINER
bA157B13
-
-
AC073539.3
finished
184213 RPCI-11.1        
  GAP (type-3) length unknown                  
11 CTD-2518G19
HSCHR19_1_CTG3_1
CONTAINER
bK2518G19
-
-
AC010614.8
finished
158595 CIT-HSP-D2 3' / 3'
74664 / 42081
49023 / -
42081
20.58
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
12 ABC9-45924000L20
HSCHR19_1_CTG3_1
CONTAINED
f9A45924000L20
-
-
AC210437.3
finished
42081 ABC9 5' / 5'
1 / 109573
- / 74664
42081
20.58
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
11 CTD-2518G19
HSCHR19_1_CTG3_1
CONTAINER
bK2518G19
-
-
AC010614.8
finished
158595 CIT-HSP-D2        
  GAP (type-3) length unknown                  
14 CTD-3093M3
Hschr19LRC_COX1_ctg3_1
bK3093M3
-
-
AC012314.8
finished
198017 CIT-HSP-D2 3' / 5'
130178 / 1
- / -
67566
0.69
Identified
2014-11-12
fetch_ncbi...
humpub
 
15 CH502-105G6
Hschr19LRC_COX1_ctg3_1
bCX105G6
EPN details
Submitted to EMBL
12-JAN-09
CU457734.2
finished
182001 CHORI-502        
  GAP (type-2) length 5000 bps                  
17 CH502-535A19
Hschr19LRC_COX1_ctg3_1
bCX535A19
EPN details
Submitted to EMBL
12-JAN-09
CU467002.2
finished
121751 CHORI-502 3' / 5'
121751 / 2001
- / -
2000
0
Identified
2014-11-12
fetch_ncbi...
humpub
 
18 CH502-85G21
Hschr19LRC_COX1_ctg3_1
bCX85G21
EPN details
Submitted to EMBL
12-JAN-09
CU234142.1
finished
119624 CHORI-502 3' / 5'
119624 / 2001
- / -
2000
0
Identified
2014-11-12
fetch_ncbi...
humpub
 
19 CH502-360G3
Hschr19LRC_COX1_ctg3_1
bCX360G3
EPN details
Submitted to EMBL
12-JAN-09
CU459007.1
finished
148484 CHORI-502        
  GAP (type-2) length 100000 bps                  
21 CTC-550B14
Hschr19LRC_COX1_ctg3_1
bK550B14
-
-
AC011476.8
finished
187064 CIT-HSP-C        
  GAP (type-3) length unknown                  
23 LLNLR-273F8
HSCHR19_4_CTG2
llnlrE273F8
-
-
AC005390.1
finished
39470 LLNLR 3' / 5'
17549 / 1
- / -
21891
6.43
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
24 ABC9-43915000L14
HSCHR19_4_CTG2
f9A43915000L14
-
-
AC217140.4
finished
37057 ABC9        
  GAP (type-3) length unknown                  
26 LLNLF-116B1
HSCHR19_2_CTG3_1
llnlfE116B1
-
-
AC010504.7
finished
42265 LLNLF 5' / 3'
28954 / 34193
- / -
28948
0.18
Identified
2014-11-12
fetch_ncbi...
humpub
 
27 ABC7-42756300M20
HSCHR19_2_CTG3_1
f7A42756300M20
-
-
AC231987.2
finished
34193 ABC7        
  GAP (type-3) length unknown                  
29 CH17-20A21
HSCHR19_3_CTG3_1
CONTAINER
bMO20A21
-
-
AC243960.3
finished
225420 CHORI-17 3' / 5'
138252 / 1
69251 / -
26259
46.74
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
30 ABC8-40961800K13
HSCHR19_3_CTG3_1
CONTAINED
f8A40961800K13
-
-
AC236970.3
finished
26259 ABC8 3' / 5'
26259 / 156170
- / 138252
26259
46.74
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
29 CH17-20A21
HSCHR19_3_CTG3_1
CONTAINER
bMO20A21
-
-
AC243960.3
finished
225420 CHORI-17        
  GAP (type-3) length unknown                  
32 LLNLR-298A4
HSCHR19_5_CTG2
CONTAINER
llnlrE298A4
-
-
AC004799.2
finished
36229 LLNLR 3' / 5'
25406 / 1
10492 / -
331
0.3
Identified
2014-11-12
fetch_ncbi...
humpub
 
33
HSCHR19_5_CTG2
CONTAINED
KF456467
-
-
KF456467.1
finished
331 - 3' / 5'
331 / 25738
- / 25406
331
0.3
Identified
2014-11-12
fetch_ncbi...
humpub
 
32 LLNLR-298A4
HSCHR19_5_CTG2
CONTAINER
llnlrE298A4
-
-
AC004799.2
finished
36229 LLNLR 3' / 5'
28623 / 1
- / -
7594
1.09
Identified
2014-11-12
fetch_ncbi...
humpub
Certificate approved
34 ABC10-44635500N14
HSCHR19_5_CTG2
f10A44635500N14
-
-
AC212840.2
finished
35040 ABC10        

Statistics

Clone Summary

Number of gaps
10
Gap types
type-2
2
type-3
8
Total clones
24
Clone HTGS Phases
finished
24
Number of clones w/o accession
0

Overlap Summary

Total overlap length of fin clones
339,127
Total finished length of fin clones w/ overlap
2,569,041
Total finished length of fin clones w/o overlap
2,229,914
Total overlap length of fin+unfin clones
339,127
Total finished length of fin+unfin clones w/ overlap
2,569,041
Total finished length of fin+unfin clones w/o overlap
2,229,914

Dovetails

# rank accession status length date
1 3 AC008739.5 unfinished 1 Sat, 20 Dec 2014 23:25
2 5 AC092364.3 unfinished 121,719 Sat, 20 Dec 2014 23:25
3 8 AC073539.3 unfinished 84,626 Sat, 20 Dec 2014 23:25
4 11 AC010614.8 unfinished 49,023 Sat, 20 Dec 2014 23:25
5 29 AC243960.3 unfinished 69,251 Sat, 20 Dec 2014 23:25
6 32 AC004799.2 unfinished 10,492 Sat, 20 Dec 2014 23:25

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Other links

* quick link - http://q.sanger.ac.uk/q7vu89xj