ChromoView - clone / Assembly sequencing status

Human: Sub region GRC__HUMAN__ALT_REF_LOCI_1__11 (TPF updated: 2017-11-23)

TPF

Help

# Clone ext/Contig Clone int Acc/Fin
1 RP11-47K5
Hschr11_1_ctg1_1
CONTAINER
bA47K5
EPN details
AC009638.9
finished
2 ABC10-45523400D1
Hschr11_1_ctg1_1
CONTAINED
f10A45523400D1
AC203610.2
finished
1 RP11-47K5
Hschr11_1_ctg1_1
CONTAINER
bA47K5
EPN details
AC009638.9
finished
  GAP (type-3) length unknown    
4 RP11-444K7
HG142_HG150_NOVEL_test
bA444K7
EPN details
AC022882.5
finished
5 ABC9-45432900N15
HG142_HG150_NOVEL_test
f9A45432900N15
AC208786.2
finished
  GAP (type-3) length unknown    
7 ABC7-42515900E16
HG151_NOVEL_test
f7A42515900E16
AC213223.1
finished
8 RP11-100N3
HG151_NOVEL_test
bA100N3
EPN details
AP001803.4
finished
  GAP (type-3) length unknown    
10 RP11-410I24
Hschr11_1_ctg2
bA410I24
EPN details
AP003050.4
finished
11 ABC27-1383D18
Hschr11_1_ctg2
f27A1383D18
AC240134.3
finished
  GAP (type-3) length unknown    
13 ABC14-50997500E11
Hschr11_1_ctg3
f14A50997500E11
AC225595.1
finished
14 CMB9-65A1
Hschr11_1_ctg3
cmb9E65A1
AP005140.4
finished
  GAP (type-3) length unknown    
16 RP11-494M8
Hschr11_1_ctg5
CONTAINER
bA494M8
EPN details
AC044810.7
finished
17 ABC10-1605870K7
Hschr11_1_ctg5
CONTAINED
f10A1605870K7
AC209551.4
finished
16 RP11-494M8
Hschr11_1_ctg5
CONTAINER
bA494M8
EPN details
AC044810.7
finished
  GAP (type-3) length unknown    
19 RP13-25N22
Hschr11_1_ctg6
CONTAINER
bB25N22
EPN details
AP006285.2
finished
20 ABC10-44565900B4
Hschr11_1_ctg6
CONTAINED
f10A44565900B4
AC211344.3
finished
19 RP13-25N22
Hschr11_1_ctg6
CONTAINER
bB25N22
EPN details
AP006285.2
finished
  GAP (type-3) length unknown    
22 RP11-19N21
Hschr11_1_ctg7
CONTAINER
bA19N21
AC013791.9
finished
23
Hschr11_1_ctg7
CONTAINED
KF455305
KF455305.1
finished
22 RP11-19N21
Hschr11_1_ctg7
CONTAINER
bA19N21
AC013791.9
finished
24
Hschr11_1_ctg7
CONTAINED
KF455306
KF455306.1
finished
22 RP11-19N21
Hschr11_1_ctg7
CONTAINER
bA19N21
AC013791.9
finished
25 HSAC001228
Hschr11_1_ctg7
HSAC001228
AC001228.1
finished
  GAP (type-3) length unknown    
27 RP13-46H24
Hschr11_1_ctg8
bB46H24
EPN details
AC137894.5
finished
28 CTD-2647G13
Hschr11_1_ctg8
bK2647G13
AC138374.2
finished
  GAP (type-3) length unknown    
30 CMB9-76D16
HSCHR11_2_CTG8
CONTAINER
cmb9E76D16
AP000648.5
finished
31
HSCHR11_2_CTG8
CONTAINED
KC877457
KC877457.1
finished
30 CMB9-76D16
HSCHR11_2_CTG8
CONTAINER
cmb9E76D16
AP000648.5
finished
32 RP11-121L10
HSCHR11_2_CTG8
CONTAINER
bA121L10
EPN details
AP002364.4
finished
33
HSCHR11_2_CTG8
CONTAINED
KF455441
KF455441.1
finished
32 RP11-121L10
HSCHR11_2_CTG8
CONTAINER
bA121L10
EPN details
AP002364.4
finished
34 ABC11-49531800H3
HSCHR11_2_CTG8
CONTAINED
f11A49531800H3
AC217954.1
finished
32 RP11-121L10
HSCHR11_2_CTG8
CONTAINER
bA121L10
EPN details
AP002364.4
finished
  GAP (type-3) length unknown    
36 RP11-736I10
Hschr11_1_ctg3_1
CONTAINER
bA736I10
EPN details
AP000790.4
finished
37 ABC12-47954600P3
Hschr11_1_ctg3_1
CONTAINED
f12A47954600P3
AC226593.3
finished
36 RP11-736I10
Hschr11_1_ctg3_1
CONTAINER
bA736I10
EPN details
AP000790.4
finished

AGP

Help

AGP_S AGP_E Rank Status Acc.ver Clone_S Clone_E Str
1 34263 1 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 3 AC009638.9 1 34263 +
34264 75179 2 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 3 AC203610.2 1 40916 +
75180 163343 3 FClick to retrieve finished assembled sequence in green bar: rank(s) 1 - 3 AC009638.9 69447 157610 +
163344 213343 4 N 50000 contig no
213344 380293 5 FClick to retrieve finished assembled sequence in green bar: rank(s) 5 - 6 AC022882.5 1 166950 +
380294 414341 6 FClick to retrieve finished assembled sequence in green bar: rank(s) 5 - 6 AC208786.2 1 34048 +
414342 464341 7 N 50000 contig no
464342 498234 8 FClick to retrieve finished assembled sequence in green bar: rank(s) 8 - 9 AC213223.1 1 33893 -
498235 655750 9 FClick to retrieve finished assembled sequence in green bar: rank(s) 8 - 9 AP001803.4 1857 159372 +
655751 705750 10 N 50000 contig no
705751 858465 11 FClick to retrieve finished assembled sequence in green bar: rank(s) 11 - 12 AP003050.4 1 152715 +
858466 891919 12 FClick to retrieve finished assembled sequence in green bar: rank(s) 11 - 12 AC240134.3 1 33454 -
891920 941919 13 N 50000 contig no
941920 979328 14 FClick to retrieve finished assembled sequence in green bar: rank(s) 14 - 15 AC225595.1 1 37409 -
979329 1037493 15 FClick to retrieve finished assembled sequence in green bar: rank(s) 14 - 15 AP005140.4 54437 112601 +
1037494 1087493 16 N 50000 contig no
1087494 1145597 17 FClick to retrieve finished assembled sequence in green bar: rank(s) 17 - 19 AC044810.7 1 58104 +
1145598 1188497 18 FClick to retrieve finished assembled sequence in green bar: rank(s) 17 - 19 AC209551.4 1 42900 -
1188498 1292423 19 FClick to retrieve finished assembled sequence in green bar: rank(s) 17 - 19 AC044810.7 90372 194297 +
1292424 1342423 20 N 50000 contig no
1342424 1367933 21 FClick to retrieve finished assembled sequence in green bar: rank(s) 21 - 23 AP006285.2 1 25510 +
1367934 1405060 22 FClick to retrieve finished assembled sequence in green bar: rank(s) 21 - 23 AC211344.3 1 37127 +
1405061 1538400 23 FClick to retrieve finished assembled sequence in green bar: rank(s) 21 - 23 AP006285.2 56928 190267 +
1538401 1588400 24 N 50000 contig no
1588401 1636407 25 FClick to retrieve finished assembled sequence in green bar: rank(s) 25 - 30 AC013791.9 126563 174569 -
1636408 1636785 26 FClick to retrieve finished assembled sequence in green bar: rank(s) 25 - 30 KF455305.1 1 378 -
1636786 1640380 27 FClick to retrieve finished assembled sequence in green bar: rank(s) 25 - 30 AC013791.9 122590 126184 -
1640381 1640767 28 FClick to retrieve finished assembled sequence in green bar: rank(s) 25 - 30 KF455306.1 1 387 -
1640768 1641041 29 FClick to retrieve finished assembled sequence in green bar: rank(s) 25 - 30 AC013791.9 121929 122202 -
1641042 1885295 30 FClick to retrieve finished assembled sequence in green bar: rank(s) 25 - 30 AC001228.1 1 244254 +
1885296 1935295 31 N 50000 contig no
1935296 2100295 32 FClick to retrieve finished assembled sequence in green bar: rank(s) 32 - 33 AC137894.5 1 165000 +
2100296 2237475 33 FClick to retrieve finished assembled sequence in green bar: rank(s) 32 - 33 AC138374.2 59245 196424 +
2237476 2287475 34 N 50000 contig no
2287476 2313724 35 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 42 AP000648.5 1 26249 +
2313725 2314283 36 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 42 KC877457.1 1 559 +
2314284 2394757 37 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 42 AP000648.5 26809 107282 +
2394758 2399237 38 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 42 AP002364.4 1 4480 +
2399238 2399611 39 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 42 KF455441.1 1 374 -
2399612 2445782 40 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 42 AP002364.4 4855 51025 +
2445783 2486933 41 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 42 AC217954.1 1 41151 -
2486934 2591271 42 FClick to retrieve finished assembled sequence in green bar: rank(s) 35 - 42 AP002364.4 61366 165703 +
2591272 2641271 43 N 50000 contig no
2641272 2777084 44 FClick to retrieve finished assembled sequence in green bar: rank(s) 44 - 46 AP000790.4 1 135813 +
2777085 2815238 45 FClick to retrieve finished assembled sequence in green bar: rank(s) 44 - 46 AC226593.3 1 38154 -
2815239 2822438 46 FClick to retrieve finished assembled sequence in green bar: rank(s) 44 - 46 AP000790.4 169745 176944 +

Details

Help

# Clone ext/Contig Clone int Status/Date Acc/Fin Length Library OL Pos OL Qual OL details Cert
1 RP11-47K5
Hschr11_1_ctg1_1
CONTAINER
bA47K5
-
-
AC009638.9
finished
157610 RPCI-11.1 3' / 5'
34263 / 1
88164 / -
40916
16.41
Identified
2016-02-24
fetch_ncbi...
humpub
Certificate approved
2 ABC10-45523400D1
Hschr11_1_ctg1_1
CONTAINED
f10A45523400D1
-
-
AC203610.2
finished
40916 ABC10 3' / 5'
40916 / 69447
- / 34263
40916
16.41
Identified
2016-02-24
fetch_ncbi...
humpub
Certificate approved
1 RP11-47K5
Hschr11_1_ctg1_1
CONTAINER
bA47K5
-
-
AC009638.9
finished
157610 RPCI-11.1        
  GAP (type-3) length unknown                  
4 RP11-444K7
HG142_HG150_NOVEL_test
bA444K7
-
-
AC022882.5
finished
174469 RPCI-11.2 3' / 5'
166950 / 1
- / -
7519
0.08
Identified
2016-02-24
fetch_ncbi...
humpub
 
5 ABC9-45432900N15
HG142_HG150_NOVEL_test
f9A45432900N15
-
-
AC208786.2
finished
34048 ABC9        
  GAP (type-3) length unknown                  
7 ABC7-42515900E16
HG151_NOVEL_test
f7A42515900E16
-
-
AC213223.1
finished
33893 ABC7 5' / 5'
1 / 1857
- / -
1856
0.27
Identified
2016-02-24
fetch_ncbi...
humpub
 
8 RP11-100N3
HG151_NOVEL_test
bA100N3
-
-
AP001803.4
finished
159372 RPCI-11.1        
  GAP (type-3) length unknown                  
10 RP11-410I24
Hschr11_1_ctg2
bA410I24
-
-
AP003050.4
finished
152715 RPCI-11.2 3' / 3'
152715 / 33454
- / -
7582
0.3
Identified
2016-02-24
fetch_ncbi...
humpub
 
11 ABC27-1383D18
Hschr11_1_ctg2
f27A1383D18
-
-
AC240134.3
finished
41046 ABC27        
  GAP (type-3) length unknown                  
13 ABC14-50997500E11
Hschr11_1_ctg3
f14A50997500E11
-
-
AC225595.1
finished
37409 ABC14 5' / 5'
1 / 54437
- / 20680
33728
11.25
Identified
2016-02-23
fetch_ncbi...
humpub
Certificate approved
14 CMB9-65A1
Hschr11_1_ctg3
cmb9E65A1
-
-
AP005140.4
finished
112601 CMB9        
  GAP (type-3) length unknown                  
16 RP11-494M8
Hschr11_1_ctg5
CONTAINER
bA494M8
-
-
AC044810.7
finished
194297 RPCI-11.2 3' / 3'
58104 / 42900
103926 / -
42900
33.54
Identified
2016-02-24
fetch_ncbi...
humpub
Certificate approved
17 ABC10-1605870K7
Hschr11_1_ctg5
CONTAINED
f10A1605870K7
-
-
AC209551.4
finished
42900 ABC10 5' / 5'
1 / 90372
- / 58104
42900
33.54
Identified
2016-02-24
fetch_ncbi...
humpub
Certificate approved
16 RP11-494M8
Hschr11_1_ctg5
CONTAINER
bA494M8
-
-
AC044810.7
finished
194297 RPCI-11.2        
  GAP (type-3) length unknown                  
19 RP13-25N22
Hschr11_1_ctg6
CONTAINER
bB25N22
-
-
AP006285.2
finished
190267 RPCI-13.1 3' / 5'
25510 / 1
133340 / -
37127
20.62
Identified
2016-02-24
fetch_ncbi...
humpub
Certificate approved
20 ABC10-44565900B4
Hschr11_1_ctg6
CONTAINED
f10A44565900B4
-
-
AC211344.3
finished
37127 ABC10 3' / 5'
37127 / 56928
- / 25510
37127
20.62
Identified
2016-02-24
fetch_ncbi...
humpub
Certificate approved
19 RP13-25N22
Hschr11_1_ctg6
CONTAINER
bB25N22
-
-
AP006285.2
finished
190267 RPCI-13.1        
  GAP (type-3) length unknown                  
22 RP11-19N21
Hschr11_1_ctg7
CONTAINER
bA19N21
-
-
AC013791.9
finished
174569 RPCI-11.1 5' / 3'
126563 / 378
126184 / -
378
0.26
Identified
2016-02-24
fetch_ncbi...
humpub
 
23
Hschr11_1_ctg7
CONTAINED
KF455305
-
-
KF455305.1
finished
378 - 5' / 3'
1 / 126184
- / 48007
378
0.26
Identified
2016-02-24
fetch_ncbi...
humpub
 
22 RP11-19N21
Hschr11_1_ctg7
CONTAINER
bA19N21
-
-
AC013791.9
finished
174569 RPCI-11.1 5' / 3'
122590 / 387
122202 / -
387
0.26
Identified
2016-02-24
fetch_ncbi...
humpub
 
24
Hschr11_1_ctg7
CONTAINED
KF455306
-
-
KF455306.1
finished
387 - 5' / 3'
1 / 122202
- / 51980
387
0.26
Identified
2016-02-24
fetch_ncbi...
humpub
 
22 RP11-19N21
Hschr11_1_ctg7
CONTAINER
bA19N21
-
-
AC013791.9
finished
174569 RPCI-11.1 5' / 5'
121929 / 1
1 / -
120249
2.37
Identified
2016-02-24
fetch_ncbi...
humpub
Certificate approved
25 HSAC001228
Hschr11_1_ctg7
HSAC001228
-
-
AC001228.1
finished
244254 -        
  GAP (type-3) length unknown                  
27 RP13-46H24
Hschr11_1_ctg8
bB46H24
-
-
AC137894.5
finished
165000 RPCI-13.1 3' / 5'
165000 / 59245
- / -
59236
0.09
Identified
2016-02-24
fetch_ncbi...
humpub
 
28 CTD-2647G13
Hschr11_1_ctg8
bK2647G13
-
-
AC138374.2
finished
196424 CIT-HSP-D2        
  GAP (type-3) length unknown                  
30 CMB9-76D16
HSCHR11_2_CTG8
CONTAINER
cmb9E76D16
-
-
AP000648.5
finished
149744 CMB9 3' / 5'
26249 / 1
122936 / -
559
0.18
Identified
2016-02-24
fetch_ncbi...
humpub
 
31
HSCHR11_2_CTG8
CONTAINED
KC877457
-
-
KC877457.1
finished
559 - 3' / 5'
559 / 26809
- / 26249
559
0.18
Identified
2016-02-24
fetch_ncbi...
humpub
 
30 CMB9-76D16
HSCHR11_2_CTG8
CONTAINER
cmb9E76D16
-
-
AP000648.5
finished
149744 CMB9 3' / 5'
107282 / 1
- / -
42462
0.01
Identified
2016-02-24
fetch_ncbi...
humpub
 
32 RP11-121L10
HSCHR11_2_CTG8
CONTAINER
bA121L10
-
-
AP002364.4
finished
165703 RPCI-11.1 3' / 3'
4480 / 374
160849 / -
374
0.27
Identified
2016-02-24
agp2oracle
humpub
 
33
HSCHR11_2_CTG8
CONTAINED
KF455441
-
-
KF455441.1
finished
374 - 5' / 5'
1 / 4855
- / 4480
374
0.27
Identified
2016-02-24
agp2oracle
humpub
 
32 RP11-121L10
HSCHR11_2_CTG8
CONTAINER
bA121L10
-
-
AP002364.4
finished
165703 RPCI-11.1 3' / 3'
51025 / 41151
- / -
41151
0
Identified
2017-08-09
agp2oracle
humpub
 
34 ABC11-49531800H3
HSCHR11_2_CTG8
CONTAINED
f11A49531800H3
-
-
AC217954.1
finished
41151 ABC11 5' / 5'
1 / 61366
- / -
41151
0
Identified
2017-08-09
agp2oracle
humpub
 
32 RP11-121L10
HSCHR11_2_CTG8
CONTAINER
bA121L10
-
-
AP002364.4
finished
165703 RPCI-11.1        
  GAP (type-3) length unknown                  
36 RP11-736I10
Hschr11_1_ctg3_1
CONTAINER
bA736I10
-
-
AP000790.4
finished
176944 RPCI-11.3 3' / 3'
135813 / 38154
- / -
38154
0
Identified
2017-08-11
agp2oracle
humpub
 
37 ABC12-47954600P3
Hschr11_1_ctg3_1
CONTAINED
f12A47954600P3
-
-
AC226593.3
finished
38154 ABC12 5' / 5'
1 / 169745
- / -
38154
0
Identified
2017-08-11
agp2oracle
humpub
 
36 RP11-736I10
Hschr11_1_ctg3_1
CONTAINER
bA736I10
-
-
AP000790.4
finished
176944 RPCI-11.3        

Statistics

Help

Clone Summary

Number of gaps
10
Gap types
type-3
10
Total clones
27
Clone HTGS Phases
finished
27
Number of clones w/o accession
0

Overlap Summary

Total overlap length of fin clones
250,856
Total finished length of fin clones w/ overlap
2,762,311
Total finished length of fin clones w/o overlap
2,511,455
Total overlap length of fin+unfin clones
250,856
Total finished length of fin+unfin clones w/ overlap
2,762,311
Total finished length of fin+unfin clones w/o overlap
2,511,455

AGP errors

# rank accession seq_start seq_end strand error date
1 29 AC013791.9 126,563 122,202 1 For sequence AC013791.9 chr_length = -4360 which is less than 1! (start = 126563 end = 122202) This sequence may be redundant, or its overlaps are wrong Thu, 23 Nov 2017 23:05

Dovetails

Help

# rank accession status length date
1 1 AC009638 unfinished 88,164 Thu, 23 Nov 2017 23:05
2 14 AP005140 unfinished 58,165 Thu, 23 Nov 2017 23:05
3 16 AC044810 unfinished 103,926 Thu, 23 Nov 2017 23:05
4 19 AP006285 unfinished 133,340 Thu, 23 Nov 2017 23:05
5 22 AC013791 unfinished 126,184 Thu, 23 Nov 2017 23:05
6 30 AP000648 unfinished 122,936 Thu, 23 Nov 2017 23:05
7 32 AP002364 unfinished 160,849 Thu, 23 Nov 2017 23:05

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