ChromoView - clone / Assembly sequencing status

Human: Sub region GRC__HUMAN__PLACEHOLDER__1 (TPF updated: 2014-04-24)

TPF

# Clone ext/Contig Clone int Acc/Fin
1 WI2-2628M2
Hschr1_PLACEHOLDER_ctg1
fW2628M2
EPN details
FO681542.1
contiguous
  GAP (type-3) length unknown    
3 ABC12-47944800K6
Hschr1_PLACEHOLDER_ctg2
f12A47944800K6
EPN details

-
  GAP (type-3) length unknown    
5 CH17-7N6
Hschr1_PLACEHOLDER_ctg4
bMO7N6
AC244454.2
finished
6 CH17-471H1
Hschr1_PLACEHOLDER_ctg4
bMO471H1
AC244231.3
finished
7 CH17-304K16
Hschr1_PLACEHOLDER_ctg4
bMO304K16
AC245745.3
finished
8 CH17-403F22
Hschr1_PLACEHOLDER_ctg4
bMO403F22
EPN details
FP885538.15
contiguous
9 CH17-160P16
Hschr1_PLACEHOLDER_ctg4
bMO160P16

-
  GAP (type-2) length unknown    
11 CH17-469M11
Hschr1_PLACEHOLDER_ctg4
bMO469M11
AC246792.2
finished
  GAP (type-3) length unknown    
13 CH17-86J21
Hschr1_PLACEHOLDER_ctg5
bMO86J21
AC244132.2
finished
14 CH17-370K15
Hschr1_PLACEHOLDER_ctg5
bMO370K15
AC245455.3
finished
  GAP (type-3) length unknown    
16 CH17-1O22
Hschr1_PLACEHOLDER_ctg6
bMO1O22

-
17 CH17-399I22
Hschr1_PLACEHOLDER_ctg6
bMO399I22

-
18 CH17-40J24
Hschr1_PLACEHOLDER_ctg6
bMO40J24

-
19 CH17-290I17
Hschr1_PLACEHOLDER_ctg6
bMO290I17

-
20 CH17-399M16
Hschr1_PLACEHOLDER_ctg6
bMO399M16

-
21 CH17-365M14
Hschr1_PLACEHOLDER_ctg6
bMO365M14

-
  GAP (type-3) length unknown    
23 CH17-116H17
Hschr1_PLACEHOLDER_ctg7
bMO116H17
AC243898.3
finished
24 CH17-282E19
Hschr1_PLACEHOLDER_ctg7
bMO282E19
AC244471.2
finished
25 CH17-220A1
Hschr1_PLACEHOLDER_ctg7
bMO220A1
AC243546.2
finished
26 CH17-135E1
Hschr1_PLACEHOLDER_ctg7
bMO135E1
AC243509.2
finished
27 CH17-437O13
Hschr1_PLACEHOLDER_ctg7
bMO437O13
AC243971.2
finished
28 CH17-478A19
Hschr1_PLACEHOLDER_ctg7
bMO478A19
AC243424.2
finished
29 CH17-31N8
Hschr1_PLACEHOLDER_ctg7
bMO31N8
AC244129.2
finished

AGP

AGP_S AGP_E Rank Status Acc.ver Clone_S Clone_E Str
1 42214 1 A FO681542.1 1 42214 +
42215 92214 2 N 50000 contig no
92215 142214 3 N 50000 clone no
142215 192214 4 N 50000 contig no
192215 397658 5 FClick to retrieve finished assembled sequence in green bar: rank(s) 5 - 7 AC244454.2 1 205444 +
397659 576624 6 FClick to retrieve finished assembled sequence in green bar: rank(s) 5 - 7 AC244231.3 1 178966 -
576625 611735 7 FClick to retrieve finished assembled sequence in green bar: rank(s) 5 - 7 AC245745.3 1 35111 -
611736 726993 8 A FP885538.15 1 115258 -
726994 776993 9 N 50000 clone no
776994 826993 10 N 50000 contig yes
826994 1039623 11 FClick to retrieve finished assembled sequence in green bar: rank(s) 11 - 11 AC246792.2 1 212630 +
1039624 1089623 12 N 50000 contig no
1089624 1284293 13 FClick to retrieve finished assembled sequence in green bar: rank(s) 13 - 14 AC244132.2 1 194670 +
1284294 1425948 14 FClick to retrieve finished assembled sequence in green bar: rank(s) 13 - 14 AC245455.3 58453 200107 +
1425949 1475948 15 N 50000 contig no
1475949 1525948 16 N 50000 clone no
1525949 1575948 17 N 50000 clone yes
1575949 1625948 18 N 50000 clone yes
1625949 1675948 19 N 50000 clone yes
1675949 1725948 20 N 50000 clone yes
1725949 1775948 21 N 50000 clone no
1775949 1825948 22 N 50000 contig no
1825949 2063066 23 FClick to retrieve finished assembled sequence in green bar: rank(s) 23 - 29 AC243898.3 1 237118 +
2063067 2077144 24 FClick to retrieve finished assembled sequence in green bar: rank(s) 23 - 29 AC244471.2 1 14078 -
2077145 2151957 25 FClick to retrieve finished assembled sequence in green bar: rank(s) 23 - 29 AC243546.2 1 74813 -
2151958 2228033 26 FClick to retrieve finished assembled sequence in green bar: rank(s) 23 - 29 AC243509.2 53614 129689 +
2228034 2357083 27 FClick to retrieve finished assembled sequence in green bar: rank(s) 23 - 29 AC243971.2 112253 241302 +
2357084 2452973 28 FClick to retrieve finished assembled sequence in green bar: rank(s) 23 - 29 AC243424.2 108013 203902 +
2452974 2660862 29 FClick to retrieve finished assembled sequence in green bar: rank(s) 23 - 29 AC244129.2 1 207889 -

Details

# Clone ext/Contig Clone int Status/Date Acc/Fin Length Library OL Pos OL Qual OL details Cert
1 WI2-2628M2
Hschr1_PLACEHOLDER_ctg1
fW2628M2
EPN details
Indexed Clone Assigned
24-JUN-13
FO681542.1
contiguous
42214 Whitehead fosmid        
  GAP (type-3) length unknown                  
3 ABC12-47944800K6
Hschr1_PLACEHOLDER_ctg2
f12A47944800K6
EPN details
Streaked
17-JUN-13

-
- ABC12        
  GAP (type-3) length unknown                  
5 CH17-7N6
Hschr1_PLACEHOLDER_ctg4
bMO7N6
-
-
AC244454.2
finished
205444 CHORI-17 3' / 3'
205444 / 178966
- / -
23048
0.02
Identified
2014-04-09
fetch_ncbi...
humpub
 
6 CH17-471H1
Hschr1_PLACEHOLDER_ctg4
bMO471H1
-
-
AC244231.3
finished
202014 CHORI-17 5' / 3'
1 / 35111
- / -
172265
0
Identified
2014-04-09
fetch_ncbi...
humpub
 
7 CH17-304K16
Hschr1_PLACEHOLDER_ctg4
bMO304K16
-
-
AC245745.3
finished
207376 CHORI-17 5' / 3'
1 / 115258
- / -
99518
0
Identified
2014-04-09
fetch_ncbi...
humpub
 
8 CH17-403F22
Hschr1_PLACEHOLDER_ctg4
bMO403F22
EPN details
Assigned to finisher
31-JUL-13
FP885538.15
contiguous
214776 CHORI-17        
9 CH17-160P16
Hschr1_PLACEHOLDER_ctg4
bMO160P16
-
-

-
- CHORI-17        
  GAP (type-2) length unknown                  
11 CH17-469M11
Hschr1_PLACEHOLDER_ctg4
bMO469M11
-
-
AC246792.2
finished
212630 CHORI-17        
  GAP (type-3) length unknown                  
13 CH17-86J21
Hschr1_PLACEHOLDER_ctg5
bMO86J21
-
-
AC244132.2
finished
194670 CHORI-17 3' / 5'
194670 / 58453
- / -
58452
0.01
Identified
2014-04-09
fetch_ncbi...
humpub
 
14 CH17-370K15
Hschr1_PLACEHOLDER_ctg5
bMO370K15
-
-
AC245455.3
finished
200107 CHORI-17        
  GAP (type-3) length unknown                  
16 CH17-1O22
Hschr1_PLACEHOLDER_ctg6
bMO1O22
-
-

-
- CHORI-17        
17 CH17-399I22
Hschr1_PLACEHOLDER_ctg6
bMO399I22
-
-

-
- CHORI-17        
18 CH17-40J24
Hschr1_PLACEHOLDER_ctg6
bMO40J24
-
-

-
- CHORI-17        
19 CH17-290I17
Hschr1_PLACEHOLDER_ctg6
bMO290I17
-
-

-
- CHORI-17        
20 CH17-399M16
Hschr1_PLACEHOLDER_ctg6
bMO399M16
-
-

-
- CHORI-17        
21 CH17-365M14
Hschr1_PLACEHOLDER_ctg6
bMO365M14
-
-

-
- CHORI-17        
  GAP (type-3) length unknown                  
23 CH17-116H17
Hschr1_PLACEHOLDER_ctg7
bMO116H17
-
-
AC243898.3
finished
237118 CHORI-17 3' / 3'
237118 / 14078
- / -
189981
0.01
Identified
2014-04-09
fetch_ncbi...
humpub
 
24 CH17-282E19
Hschr1_PLACEHOLDER_ctg7
bMO282E19
-
-
AC244471.2
finished
204059 CHORI-17 5' / 3'
1 / 74813
- / -
30288
32.45
Identified
2014-04-09
fetch_ncbi...
humpub
Certificate submitted, not yet approved
25 CH17-220A1
Hschr1_PLACEHOLDER_ctg7
bMO220A1
-
-
AC243546.2
finished
112430 CHORI-17 5' / 5'
1 / 53614
- / -
39685
61.68
Identified
2014-04-09
fetch_ncbi...
humpub
Certificate submitted, not yet approved
26 CH17-135E1
Hschr1_PLACEHOLDER_ctg7
bMO135E1
-
-
AC243509.2
finished
129689 CHORI-17 3' / 5'
129689 / 112253
- / -
112244
0.05
Identified
2014-04-09
fetch_ncbi...
humpub
 
27 CH17-437O13
Hschr1_PLACEHOLDER_ctg7
bMO437O13
-
-
AC243971.2
finished
241302 CHORI-17 3' / 5'
241302 / 108013
- / -
108012
0
Identified
2014-04-09
fetch_ncbi...
humpub
 
28 CH17-478A19
Hschr1_PLACEHOLDER_ctg7
bMO478A19
-
-
AC243424.2
finished
203902 CHORI-17 3' / 3'
203902 / 207889
- / -
10605
0
Identified
2014-04-09
fetch_ncbi...
humpub
 
29 CH17-31N8
Hschr1_PLACEHOLDER_ctg7
bMO31N8
-
-
AC244129.2
finished
218494 CHORI-17        

Statistics

Clone Summary

Number of gaps
6
Gap types
type-2
1
type-3
5
Total clones
23
Clone HTGS Phases
contiguous
2
finished
13
Number of clones w/o accession
8
Clones w/o htgs phase
8
Non-htgs clonenames
ABC12-47944800K6 (f12A47944800K6), CH17-160P16 (project unknown), CH17-1O22 (project unknown), CH17-399I22 (project unknown), CH17-40J24 (project unknown), CH17-290I17 (project unknown), CH17-399M16 (project unknown), CH17-365M14 (project unknown)

Overlap Summary

Total overlap length of fin clones
744,580
Total finished length of fin clones w/ overlap
2,569,235
Total finished length of fin clones w/o overlap
1,824,655
Total overlap length of fin+unfin clones
844,098
Total finished length of fin+unfin clones w/ overlap
2,826,225
Total finished length of fin+unfin clones w/o overlap
1,982,127

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Other links

* quick link - http://q.sanger.ac.uk/kb2xaxlg