Join Evaluation Legend

Serious alignment problem, requires review. (details...)
- Zero, or more than one, overlaps
- Half dove-tail >50 bp
- Alignment identity <98%
- Alignment length <100 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.

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Alignment for AL663097.14 and BX000695.5

AL663097.14 Mouse DNA sequence from clone RP23-75I15 on chromosome 11 Contains a CpG island, complete sequence [htgs_phase3]

Length: 107,243 bp

BX000695.5 Mouse DNA sequence from clone RP23-458E19 on chromosome 11, complete sequence [htgs_phase3]

Length: 28,710 bp

Alignment Summary

Join evaluation: green

Alignment count: 1

Go to Endhit Table

Alignment 1
Align ID: 3398
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)

Alignment 1 of 1

 Mismatches = 0, Gaps = 0, Length = 2000
 Percent identity = 100%
 Score = 3965 bits (2000), Expect = 0
  0 BAC and 0 Fosmid bridging clones.
  0 BAC and 0 Fosmid concordant clones.
  0 BAC and 0 Fosmid discordant clones.

AL663097.14 >105244  caaaagattggatttctctttctggctcaattcttgatatatttttaaagtactaatcaa 105303 
BX000695.5  >1       ............................................................ 60     

AL663097.14 >105304  gcttcaagggcaagctccaaggtctccttccttttgatgtcctccttgatcccctgcagc 105363 
BX000695.5  >61      ............................................................ 120    

AL663097.14 >105364  agaattaattgatccctctgtgtttttatagctctctgtttatatctctgtaacaaaagc 105423 
BX000695.5  >121     ............................................................ 180    

AL663097.14 >105424  ttcaaagggaatccaatgtctctgagtagaaggcctgatgggactacgggaaaagcagat 105483 
BX000695.5  >181     ............................................................ 240    

AL663097.14 >105484  ggatgcaagagaaagcccaaggagaaaagacctgctcctctcacagctggaacagtgaag 105543 
BX000695.5  >241     ............................................................ 300    

AL663097.14 >105544  ggggagtttaggagtttatggccccagcttttctgcctcttaggagtagtgattggaatg 105603 
BX000695.5  >301     ............................................................ 360    

AL663097.14 >105604  agagtagaattgcaacaaatgaggtaaaaatacagcagaatataatttgccttggtgaga 105663 
BX000695.5  >361     ............................................................ 420    

AL663097.14 >105664  aagtgaggttcctaagaagtcttctttttagaaatgctgttaaacagtctggagggcaaa 105723 
BX000695.5  >421     ............................................................ 480    

AL663097.14 >105724  ggcaggcaggcagcagacagacagacagacagacaaatgatacaggtgggggtcattgca 105783 
BX000695.5  >481     ............................................................ 540    

AL663097.14 >105784  tctgagacactggacgctcagtggaataagttcagcagataggaagcctccaggaaaagg 105843 
BX000695.5  >541     ............................................................ 600    

AL663097.14 >105844  aaaagatccaaatatacccaatgaagcagacccttctagttttgtatatcagaaacacac 105903 
BX000695.5  >601     ............................................................ 660    

AL663097.14 >105904  atgccctcgtaaattccaagatatcaaacacagtgatgggcgtcctccatctgcaggaag 105963 
BX000695.5  >661     ............................................................ 720    

AL663097.14 >105964  agctaagtgatacaaagatagctgagaaaatgtgttgattgcaaaattattacatgcaaa 106023 
BX000695.5  >721     ............................................................ 780    

AL663097.14 >106024  caatgaacagtggctttggaaagaggtttcctactttgaagctgtagccttaatacctgt 106083 
BX000695.5  >781     ............................................................ 840    

AL663097.14 >106084  agctacatggtttgaagatgccagtgtaccaccatgaatactgatgccatgctgctgaga 106143 
BX000695.5  >841     ............................................................ 900    

AL663097.14 >106144  tgtatgagaactgtttgttcaatagggttccttgagagtcatctgtgaagttctcacagt 106203 
BX000695.5  >901     ............................................................ 960    

AL663097.14 >106204  caccatgttagcatttgcaaagaaaaaaaaatgagagatgtgaacacttctatgtagttt 106263 
BX000695.5  >961     ............................................................ 1020   

AL663097.14 >106264  ctacaagcacagtattcaactgtaaatgttatattcagtctctgctgatatgtctttgta 106323 
BX000695.5  >1021    ............................................................ 1080   

AL663097.14 >106324  cactttcccttcatttcatttgtttattctagttactaatccagtatctgagctgggtga 106383 
BX000695.5  >1081    ............................................................ 1140   

AL663097.14 >106384  tataaaatcaacctaagttatagggtataatatgaccaatataggttcaaatattcttca 106443 
BX000695.5  >1141    ............................................................ 1200   

AL663097.14 >106444  tatggcctgttataaataatgtcaataagtaagaatatatatttcttcataaatggactg 106503 
BX000695.5  >1201    ............................................................ 1260   

AL663097.14 >106504  tgagacctactgtataatacctatcatatgtaaaaccttacccaaatgagaacagatttt 106563 
BX000695.5  >1261    ............................................................ 1320   

AL663097.14 >106564  ttaatagaaacagatgtaaaagacttaaaaagttacatttttttcaaaaaccattaaatc 106623 
BX000695.5  >1321    ............................................................ 1380   

AL663097.14 >106624  agttaataatcctgtgtgcacattcacattccaagtattttattatcatagtatataaca 106683 
BX000695.5  >1381    ............................................................ 1440   

AL663097.14 >106684  tttgtcaaccactatctataataaatctttaatatttgtaatagaaaaatcatttccaga 106743 
BX000695.5  >1441    ............................................................ 1500   

AL663097.14 >106744  tacaacttcacttttgaagatcacaaacataaagaatatgctttgtatcagactttccat 106803 
BX000695.5  >1501    ............................................................ 1560   

AL663097.14 >106804  taaagaggaatttgttcaattttaacacttaacattcctccctcagattttcatcttaga 106863 
BX000695.5  >1561    ............................................................ 1620   

AL663097.14 >106864  agatgtggctaaagccttggcattgtccccctttttgtggaatttttaacaagaaaagtc 106923 
BX000695.5  >1621    ............................................................ 1680   

AL663097.14 >106924  atttaatgttcccagctcactgagctgttctgtggaatcttgaaagacaagaatgagagc 106983 
BX000695.5  >1681    ............................................................ 1740   

AL663097.14 >106984  catgtgggtggtggagacctgacttgtaaagttccagagagaattttgagagtcttttaa 107043 
BX000695.5  >1741    ............................................................ 1800   

AL663097.14 >107044  tgacactacagagctatctgctatttttagttaagagtctgtggttctagttagctgggg 107103 
BX000695.5  >1801    ............................................................ 1860   

AL663097.14 >107104  ctgaagagtcaggtgtgattaacaagatattagaactgctgaagtaaaaccattgatgtt 107163 
BX000695.5  >1861    ............................................................ 1920   

AL663097.14 >107164  ctgtgataatgcttgctggtcagctggaacagagaaatcagtggtgattaagaagggaac 107223 
BX000695.5  >1921    ............................................................ 1980   

AL663097.14 >107224  gccttcactgaggtgaattc 107243 
BX000695.5  >1981    .................... 2000

Switch Points

Type	Point1	Point2	Orient1	Orient2	Curator	Comment	Time
A	107243	2001	+	+	chenhc	Taxid 10090 chrom 11 Reference assembly	2008-11-20 16:56:37.223

Events

Id	Type	Date	Whodid	Comment
6485	ImportOldDb	09/02/2005 15:51:00	f_old_db
6486	ReSetShortOvlp	09/04/2008 10:31:48	dbo
174227	CreateSwitchPt	11/20/2008 16:56:37	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-170J2	BX000695.5	99%	pos 12071 (R+)
CH29-14N18				AL663097.14	99.25%	pos 49698 (F+)
CH29-511A3	BX000695.5	99.6%	pos 12217 (R+)
CH29-530K23	AL663097.14	100%	pos 81775 (R+)
CH29-556F9	BX000695.5	99.39%	pos 2504 (R+)
CH29-582H9				AL663097.14	99.39%	pos 49630 (F-)
RP24-165G20				BX000695.5	99.65%	pos 11998 (F+)
RP24-217J16				AL663097.14	99.27%	pos 50225 (F-)
RP24-340G3	AL663097.14	99.14%	pos 90743 (R-)

Fosmid Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
WI1-1086L13	BX000695.5	100%	pos 25171 (R+)
WI1-1781G14	AL663097.14	99.28%	pos 104219 (R+)
WI1-2046G18				BX000695.5	100%	pos 20190 (F+)
WI1-2279P14	AL663097.14	99.16%	pos 50548 (R-)	AL663097.14	100%	pos 5051 (F+)
WI1-2479G7	AL663097.14	99.7%	pos 49730 (R+)	AL663097.14	100%	pos 91158 (F-)
WI1-2627D8	BX000695.5	100%	pos 16084 (R+)
WI1-349F9	AL663097.14	100%	pos 62952 (R+)	AL663097.14	100%	pos 104924 (F-)
WI1-89E2				AL663097.14	100%	pos 6509 (F-)

NCBI

Join Evaluation Legend

Curator Links

Alignment for AL663097.14 and BX000695.5

Alignment Summary

Alignment 1 of 1