Alignment last updated: 11/20/2008 16:59:20

Join Legend

Serious alignment problem, requires review. (details...)
- Zero, or more than one, overlaps
- Half dove-tail >50 bp
- Alignment identity <98%
- Alignment length <50 bp
- >2 gaps, each gap >25 bp, not marked as an SSR
- >0 gaps, each gap >50 bp, not marked as an SSR
- >0 gaps, each gap >500 bp, not marked as an SSR
- >0 gaps, each gap >500 bp, marked as an SSR
Minor alignment problem. (details...)
- Exactly one overlap
- Half dove-tail >0 bp and <=50bp
- Alignment identity <99.1%
- Alignment length <2000 bp
- >0 gaps, each gap >25 bp, not marked as an SSR
- >0 gaps, each gap >50 bp, not marked as an SSR
- >0 gaps, each gap >500 bp, not marked as an SSR
- >0 gaps, each gap >500 bp, marked as an SSR
Excellent alignment, meets all defined criteria. (details...)
- Exactly one RuleInfo
- Half dove-tail <=0 bp
- Alignment identity >=99.1%
- Alignment length >=2000 bp
- <=0 gaps, each gap >25 bp, not marked as an SSR
- <=0 gaps, each gap >50 bp, not marked as an SSR
- <=0 gaps, each gap >500 bp, not marked as an SSR
- <=0 gaps, each gap >500 bp, marked as an SSR
Certificate submitted, not yet approved.
Certificate submitted and approved.
Valid, contained clone
Join not evaluated due to one accession not being finished.

Alignment for AL603867.7 and AL626769.18

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AL603867.7 Mouse DNA sequence from clone RP23-237G11 on chromosome 15, complete sequence [htgs_phase3]

Length: 112,729 bp

AL626769.18 Mouse DNA sequence from clone RP23-23A6 on chromosome 15, complete sequence [htgs_phase3]

Length: 221,087 bp

Alignment Summary

Join evaluation: green

Alignment count: 1

Go to Endhit Table

Alignment 1
Align ID: 3088
Total Length: 2000
Aligned Length: 2000
Percent Identity: 100
Number of Gaps: 0
Number of Mismatches: 0
Source: CtgOverlap Seq-Align
Valid Switchpoint: true (A)

Switch Points

Type	Point1	Point2	Orient1	Orient2	Curator	Comment	Time	Id	Alignment	Releases
A	112729	2001	+	+	chenhc	Taxid 10090 chrom 15 Primary assembly	2008-11-20 16:59:20.066	66126	3088	GRCm39, GRCm38, MGSCv37

Alignment 1 of 1

 AL603867.7 : + : 110730..112729
 AL626769.18 : + : 1..2000
 Mismatches = 0, Gaps = 0, Length = 2000
 Percent identity = 100%
 Score = 3965 bits (2000), Expect = 0
  8 BAC and 10 Fosmid bridging clones.
  8 BAC and 10 Fosmid concordant clones.
  0 BAC and 0 Fosmid discordant clones.

AL603867.7  >110730  gaattccaggacagccagggctatacagagaaaccctgtcttgaaaaaccaaaaagaaaa 110789 
AL626769.18 >1       ............................................................ 60     

AL603867.7  >110790  aaagaaaaagaaaagaaaccaaggatcaggtggggctggagggcagaggttaaggacaca 110849 
AL626769.18 >61      ............................................................ 120    

AL603867.7  >110850  cctttgcaactgtacactgtggctgtggtggtgtcacctgccagcagcctgaagaggttc 110909 
AL626769.18 >121     ............................................................ 180    

AL603867.7  >110910  cttcctgtttagggactcctcgcagataaagccaagtcctgatttcaccacaacaagcat 110969 
AL626769.18 >181     ............................................................ 240    

AL603867.7  >110970  ttcagaaccagatagaatgaaccggattagtgagtttattaagtgttgagacagagtcgt 111029 
AL626769.18 >241     ............................................................ 300    

AL603867.7  >111030  ggaagaagaggacagtgtgcacagaaagcaaggaggggggcagttttttaaagcgtttaa 111089 
AL626769.18 >301     ............................................................ 360    

AL603867.7  >111090  tttgtgtgtgtgtgtgtgcacgcgtgtgagtgtgtctgtgactatgtctgtgtctgtgtg 111149 
AL626769.18 >361     ............................................................ 420    

AL603867.7  >111150  tatatgtatgggtgcgtgtactatggtacacatgtgcttctgaaaagaccgtctgtggta 111209 
AL626769.18 >421     ............................................................ 480    

AL603867.7  >111210  aggagttggttcaatcccctccacatgtgggtctgaaggatggaactcgggttgcaaggc 111269 
AL626769.18 >481     ............................................................ 540    

AL603867.7  >111270  ctggtgggaggcaccttcgccagctgaacttcaggaagatgaacacctgctttggaggta 111329 
AL626769.18 >541     ............................................................ 600    

AL603867.7  >111330  atttggctattagtggctcgtggtccgattctggagtgaggggctctttccaccccattt 111389 
AL626769.18 >601     ............................................................ 660    

AL603867.7  >111390  ccccccctgtctgccatctttcattccttactcatacatttttccctggctttaggctga 111449 
AL626769.18 >661     ............................................................ 720    

AL603867.7  >111450  ggccttcttggtaatacagtctcgtttctaccacagccctgagagataataaataatacc 111509 
AL626769.18 >721     ............................................................ 780    

AL603867.7  >111510  agccccattttttttttaacaaatggaggagcagaaacctagacgaggaatacaggagag 111569 
AL626769.18 >781     ............................................................ 840    

AL603867.7  >111570  cccataagccaggctaactggggtgacaaagaagaaactgaggggaccgtggaacctgag 111629 
AL626769.18 >841     ............................................................ 900    

AL603867.7  >111630  ttccctgctaaaggagaggctgcttgcagatgtgcaagggtggctcatgggtgggggaaa 111689 
AL626769.18 >901     ............................................................ 960    

AL603867.7  >111690  ccccactgaggtaatgtagcttagcagcattgcttttgcccaaaagaaaaaaagatgcaa 111749 
AL626769.18 >961     ............................................................ 1020   

AL603867.7  >111750  gaaaatgatgcatactctagagtctgagacaggaggattgcaggttcaaggcccagttgg 111809 
AL626769.18 >1021    ............................................................ 1080   

AL603867.7  >111810  gctccagagccagaacatgatcagcctctgtgacttagtgacaccctgtctcaaaacaaa 111869 
AL626769.18 >1081    ............................................................ 1140   

AL603867.7  >111870  aaggacaaagagaacccaggctgtagctcagtgcaggaatgactgcctagcatgagcact 111929 
AL626769.18 >1141    ............................................................ 1200   

AL603867.7  >111930  gtggggtgcaaggtggaggagggggagaaagtgaggaaaggaaagaaagtgggggacagg 111989 
AL626769.18 >1201    ............................................................ 1260   

AL603867.7  >111990  agatgctggtggtgatgtcataaagaacagattcaaatgactaaggagctgggagaagta 112049 
AL626769.18 >1261    ............................................................ 1320   

AL603867.7  >112050  tcagtgagtgcagcccaggagggttccactcaggtctgcttaacacctcaagtggaccct 112109 
AL626769.18 >1321    ............................................................ 1380   

AL603867.7  >112110  cagagattagaaacatcctagataaaaatatggttacatcacctagccggccaaatcttg 112169 
AL626769.18 >1381    ............................................................ 1440   

AL603867.7  >112170  cagactatggtatctttgtggcctatctaatggaggcgtggaggaggcgtcagaaaggac 112229 
AL626769.18 >1441    ............................................................ 1500   

AL603867.7  >112230  accattgcgacagtcagagtgtactgtccaagctgcgatcacatcacagggctgtgccga 112289 
AL626769.18 >1501    ............................................................ 1560   

AL603867.7  >112290  tggctgatgtatggatgcatcctgaatgctctaatgtgggtatataaggagcgcttctcc 112349 
AL626769.18 >1561    ............................................................ 1620   

AL603867.7  >112350  gctgggcaaggtggggcgctcctgtcatcctggcacttgggaagctgaagcaggaggact 112409 
AL626769.18 >1621    ............................................................ 1680   

AL603867.7  >112410  gctgcgagttcaaggccatactgagtgctaggcaagcctttcttaaaacaaacagaaaaa 112469 
AL626769.18 >1681    ............................................................ 1740   

AL603867.7  >112470  aaaaagcatgccttgatcctgcgaaacaggctgtagtatttgtgagcattaaagtggctt 112529 
AL626769.18 >1741    ............................................................ 1800   

AL603867.7  >112530  tgaagacccattaagggagaactgtttcctcttggtcaagagaatggaaccttcctaagg 112589 
AL626769.18 >1801    ............................................................ 1860   

AL603867.7  >112590  cctatctaattacccgaaatatgagttaatccatcaggccagtcaatcagctggctaagg 112649 
AL626769.18 >1861    ............................................................ 1920   

AL603867.7  >112650  gattctcttttcccccttttccgcccctggctgcagattcacctaacaccatgctggaga 112709 
AL626769.18 >1921    ............................................................ 1980   

AL603867.7  >112710  aaatggaggaatacttattc 112729 
AL626769.18 >1981    .................... 2000

Events

Id	Type	Date	Whodid	Comment
5901	ImportOldDb	09/02/2005 15:34:00	f_old_db
5902	ReSetShortOvlp	09/04/2008 10:31:48	dbo
176883	CreateSwitchPt	11/20/2008 16:59:20	chenhc	tpf_builder 1.6 Toolkit wrapper version: built Nov 19 2008 using /netopt/ncbi_tools64/c++.by-date/20081119/GCC401-Release64/lib

BAC Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
C3H-108E7				AL626769.18	99.61%	pos 123971 (F+)
C3H-135G22	AL626769.18	99.48%	pos 96757 (R+)
C3H-135H21	AL626769.18	99.61%	pos 96804 (R+)
C3H-157P12	AL603867.7	100%	pos 65932 (R-)
C3H-176N19	AL626769.18	99.71%	pos 190434 (R+)
C3H-195C17	AL626769.18	100%	pos 195589 (R+)
C3H-19K15	AL603867.7	99.64%	pos 8453 (R-)
C3H-222D7	AL626769.18	99.1%	pos 125548 (R-)	AL603867.7	99.68%	pos 109279 (F+)
C3H-230J9	AL626769.18	99.25%	pos 56225 (R-)	AL603867.7	99%	pos 47307 (F+)
C3H-85C14	AL626769.18	99.44%	pos 169768 (R-)	AL626769.18	99.07%	pos 47236 (F+)
CH29-102H4	AL626769.18	99.1%	pos 47057 (R+)
CH29-136C9	AL603867.7	99.74%	pos 6543 (R-)
CH29-145A18	AL603867.7	100%	pos 110891 (R+)
CH29-145A18	AL626769.18	100%	pos 162 (R+)
CH29-169E4				AL626769.18	99.64%	pos 34892 (F+)
CH29-40L2				AL626769.18	100%	pos 13217 (F+)
CH29-527K4	AL626769.18	99.52%	pos 14865 (R+)	AL626769.18	99.75%	pos 215889 (F-)
CH29-584O23	AL626769.18	99.11%	pos 114191 (R+)
CH29-614K21	AL626769.18	99.87%	pos 138525 (R-)	AL603867.7	99.61%	pos 50741 (F+)
CH29-615K21	AL626769.18	99.65%	pos 138570 (R-)	AL603867.7	99.75%	pos 50696 (F+)
RP23-150J22				AL603867.7	99.42%	pos 1974 (F-)
RP23-26K13				AL626769.18	99.71%	pos 115271 (F+)
RP24-115K19				AL626769.18	99.02%	pos 92607 (F-)
RP24-159E11	AL626769.18	99.38%	pos 12168 (R+)
RP24-164P10	AL626769.18	99.16%	pos 207724 (R-)
RP24-215E13				AL603867.7	99.57%	pos 57375 (F-)
RP24-246E15				AL626769.18	99%	pos 56472 (F-)
RP24-268F9	AL603867.7	99.36%	pos 70922 (R+)	AL626769.18	99.71%	pos 149315 (F-)
RP24-271F10	AL626769.18	99.19%	pos 160087 (R-)	AL603867.7	99.46%	pos 100353 (F+)
RP24-296J20	AL603867.7	99.44%	pos 104076 (R+)	AL626769.18	99.29%	pos 158671 (F-)
RP24-305D7	AL603867.7	99.47%	pos 97625 (R+)	AL626769.18	100%	pos 170152 (F-)
RP24-400K3				AL626769.18	99.14%	pos 35504 (F+)

Fosmid Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
WI1-1027C19	AL626769.18	100%	pos 214142 (R-)	AL626769.18	100%	pos 173723 (F+)
WI1-1044C13	AL603867.7	100%	pos 77443 (R+)	AL626769.18	100%	pos 7021 (F-)
WI1-1057L11	AL626769.18	99.55%	pos 157758 (R+)
WI1-107O7				AL626769.18	100%	pos 198882 (F+)
WI1-1122D2	AL626769.18	100%	pos 98037 (R+)	AL626769.18	100%	pos 136160 (F-)
WI1-1173E3	AL626769.18	100%	pos 162228 (R-)	AL626769.18	100%	pos 122106 (F+)
WI1-1178P22	AL626769.18	99.44%	pos 211953 (R+)
WI1-1203F10	AL626769.18	99.82%	pos 218782 (R-)	AL626769.18	100%	pos 179971 (F+)
WI1-1223A24	AL626769.18	100%	pos 102451 (R+)	AL626769.18	100%	pos 142568 (F-)
WI1-1277B23				AL603867.7	100%	pos 1195 (F+)
WI1-1320G18	AL626769.18	99.78%	pos 8072 (R-)	AL603867.7	100%	pos 75598 (F+)
WI1-1335J7	AL626769.18	100%	pos 121734 (R+)
WI1-1378F23	AL603867.7	100%	pos 47831 (R+)	AL603867.7	100%	pos 82481 (F-)
WI1-1435A8				AL626769.18	100%	pos 156302 (F-)
WI1-148O6	AL603867.7	99.32%	pos 6635 (R+)	AL603867.7	99.56%	pos 42082 (F-)
WI1-1585M8	AL626769.18	99.55%	pos 159715 (R+)	AL626769.18	99.23%	pos 195837 (F-)
WI1-1651B11				AL603867.7	100%	pos 92279 (F+)
WI1-1651B19	AL626769.18	99.19%	pos 19936 (R-)	AL603867.7	99.33%	pos 92258 (F+)
WI1-1663B12	AL603867.7	100%	pos 110577 (R+)	AL626769.18	100%	pos 37117 (F-)
WI1-166J16	AL626769.18	100%	pos 19179 (R+)	AL626769.18	100%	pos 54919 (F-)
WI1-1683G8	AL603867.7	99.83%	pos 105895 (R+)	AL626769.18	99.84%	pos 36722 (F-)
WI1-1700J10	AL603867.7	99.85%	pos 105895 (R+)	AL626769.18	99.84%	pos 36722 (F-)
WI1-1701B7	AL626769.18	100%	pos 136085 (R+)	AL626769.18	100%	pos 180933 (F-)
WI1-1706I13	AL603867.7	100%	pos 99794 (R-)	AL603867.7	100%	pos 60295 (F+)
WI1-1709H17	AL603867.7	99.64%	pos 86585 (R-)	AL603867.7	100%	pos 48846 (F+)
WI1-1735L4	AL626769.18	100%	pos 40781 (R+)	AL626769.18	99.18%	pos 80827 (F-)
WI1-1776B13	AL603867.7	100%	pos 92810 (R+)	AL626769.18	100%	pos 25024 (F-)
WI1-1787G20	AL603867.7	99.82%	pos 57967 (R-)	AL603867.7	100%	pos 20158 (F+)
WI1-1810K10				AL603867.7	100%	pos 93957 (F-)
WI1-1878N2	AL626769.18	99.6%	pos 213888 (R-)	AL626769.18	99.01%	pos 176682 (F+)
WI1-1913K16	AL626769.18	100%	pos 95971 (R-)
WI1-1919G14	AL626769.18	100%	pos 95972 (R-)
WI1-1930P19	AL626769.18	99.34%	pos 157718 (R+)	AL626769.18	99.28%	pos 196118 (F-)
WI1-198D19				AL626769.18	99.3%	pos 149525 (F+)
WI1-2034E1	AL626769.18	100%	pos 164977 (R-)	AL626769.18	100%	pos 125795 (F+)
WI1-2046A8	AL603867.7	100%	pos 64197 (R+)	AL603867.7	99.62%	pos 104403 (F-)
WI1-2093O18	AL626769.18	100%	pos 141316 (R-)	AL626769.18	99.76%	pos 97225 (F+)
WI1-2121B17	AL603867.7	99.26%	pos 72531 (R-)	AL603867.7	99.06%	pos 28267 (F+)
WI1-2154B6	AL626769.18	100%	pos 106627 (R-)	AL626769.18	100%	pos 67596 (F+)
WI1-2154O7	AL626769.18	100%	pos 95435 (R+)	AL626769.18	99.74%	pos 133139 (F-)
WI1-215I1	AL626769.18	100%	pos 67782 (R+)	AL626769.18	99.65%	pos 107585 (F-)
WI1-2178B11	AL626769.18	99.82%	pos 115275 (R-)	AL626769.18	100%	pos 75058 (F+)
WI1-228I11	AL626769.18	99.35%	pos 165645 (R+)	AL626769.18	100%	pos 207911 (F-)
WI1-2291E23	AL626769.18	100%	pos 216421 (R-)	AL626769.18	100%	pos 172880 (F+)
WI1-2386P7	AL626769.18	100%	pos 91319 (R-)	AL626769.18	99.55%	pos 50644 (F+)
WI1-2389L6				AL626769.18	99.35%	pos 203096 (F+)
WI1-2479N5	AL626769.18	99.78%	pos 20361 (R+)	AL626769.18	99.6%	pos 61140 (F-)
WI1-2555H17	AL626769.18	100%	pos 54445 (R-)	AL626769.18	100%	pos 11231 (F+)
WI1-2568P19				AL626769.18	100%	pos 209266 (F+)
WI1-2630H12	AL603867.7	100%	pos 62401 (R+)
WI1-2822H20	AL626769.18	99.8%	pos 119922 (R-)	AL626769.18	100%	pos 75862 (F+)
WI1-2854I3	AL603867.7	100%	pos 69978 (R-)	AL603867.7	100%	pos 32340 (F+)
WI1-2865D2	AL626769.18	99.69%	pos 41092 (R-)	AL603867.7	100%	pos 109220 (F+)
WI1-325P15	AL603867.7	100%	pos 63370 (R+)	AL603867.7	100%	pos 104082 (F-)
WI1-393K4	AL603867.7	99.3%	pos 12149 (R+)
WI1-422A12	AL626769.18	100%	pos 151739 (R-)	AL626769.18	100%	pos 107407 (F+)
WI1-422C12				AL626769.18	100%	pos 107412 (F+)
WI1-509P10	AL626769.18	99.74%	pos 47200 (R+)	AL626769.18	99.51%	pos 88578 (F-)
WI1-524N7	AL626769.18	100%	pos 177250 (R-)	AL626769.18	100%	pos 135807 (F+)
WI1-534N1	AL626769.18	99.75%	pos 157069 (R+)	AL626769.18	99.79%	pos 200217 (F-)
WI1-539H14	AL626769.18	100%	pos 155799 (R-)	AL626769.18	99.78%	pos 116979 (F+)
WI1-573B20	AL626769.18	99.63%	pos 4605 (R-)	AL603867.7	100%	pos 82903 (F+)
WI1-603B11				AL626769.18	100%	pos 68441 (F+)
WI1-681A21				AL626769.18	99.65%	pos 69783 (F+)
WI1-707O1	AL626769.18	100%	pos 40883 (R-)	AL626769.18	100%	pos 4528 (F+)
WI1-817G7	AL603867.7	99.8%	pos 26042 (R+)	AL603867.7	100%	pos 69427 (F-)
WI1-876C19				AL603867.7	99.65%	pos 702 (F-)
WI1-934I5	AL603867.7	100%	pos 16205 (R+)	AL603867.7	100%	pos 57039 (F-)
WI1-934I5	AL603867.7	100%	pos 16205 (R+)
WI1-945K22	AL626769.18	99.37%	pos 53008 (R-)	AL626769.18	99.34%	pos 11133 (F+)
WI1-955D14	AL603867.7	100%	pos 81440 (R+)	AL626769.18	100%	pos 13414 (F-)
WI1-957M3	AL626769.18	99.83%	pos 79560 (R-)

Repeats

Too repeats, not showing repeat table.

Join Legend

Curator Links

Alignment for AL603867.7 and AL626769.18

Alignment Summary

Alignment 1 of 1