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.

Curator Links

Add/Update certificate

Alignment for AL731725.8 and BX119980.3

AL731725.8 Mouse DNA sequence from clone RP23-146P19 on chromosome X Contains a CpG island, complete sequence [htgs_phase3]

Length: 213,743 bp

BX119980.3 Mouse DNA sequence from clone RP23-456I8 on chromosome X, complete sequence [htgs_phase3]

Length: 29,262 bp

Alignment Summary

Join evaluation: green

Alignment count: 1

Go to Endhit Table

Alignment 1
Align ID: 4153
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 1 Fosmid bridging clones.
  0 BAC and 1 Fosmid concordant clones.
  0 BAC and 0 Fosmid discordant clones.

AL731725.8 >211744  ggggtcaatagtttgaatgtaattaaaacattttaaaaagtatgaacatggtagtttata 211803 
BX119980.3 >1       ............................................................ 60     

AL731725.8 >211804  taaatggagtgtgcattcacataaaatcatgaagttaaacatacacaaactctttaaact 211863 
BX119980.3 >61      ............................................................ 120    

AL731725.8 >211864  atgttcatgtaaaaccagtaggttagtggtgcaattttattgttttatatattgatcaag 211923 
BX119980.3 >121     ............................................................ 180    

AL731725.8 >211924  aaaatatgaaaaaaatcctttaccattatacaagtaaatggtaatttatttgtattaatt 211983 
BX119980.3 >181     ............................................................ 240    

AL731725.8 >211984  aacacattgactaaagcatagatttcccatttacctttcgtaatatttccttaaagtcag 212043 
BX119980.3 >241     ............................................................ 300    

AL731725.8 >212044  ctgaaaagatttataattaaaacagattcacaaatacagatgttggtctgcacagcttgt 212103 
BX119980.3 >301     ............................................................ 360    

AL731725.8 >212104  gagagttcacttgtcaaagctttattactatgcagtgtcatggtttgtttggttccttct 212163 
BX119980.3 >361     ............................................................ 420    

AL731725.8 >212164  ttaatgatgcctgtaaaatgtatttagagcataagctgctttaatcatttttcctggggc 212223 
BX119980.3 >421     ............................................................ 480    

AL731725.8 >212224  attatactctatactatcagaaaaaaaactgccaaagtggctatttttttatggttgaca 212283 
BX119980.3 >481     ............................................................ 540    

AL731725.8 >212284  aaaaagatgtgccagaaaatagaattaaaacaaatgtatctgacttgcagagagaatagt 212343 
BX119980.3 >541     ............................................................ 600    

AL731725.8 >212344  gtgaaggaaattttcatcaaggtttttgagtacacaatgtgagaagctcacaaacaaagg 212403 
BX119980.3 >601     ............................................................ 660    

AL731725.8 >212404  agaaatatttccctactattttaagaaagcttgttgaacaagtctttttgcttagaaaac 212463 
BX119980.3 >661     ............................................................ 720    

AL731725.8 >212464  attttagattctgtatacttacacactttaaggaatttagaaaatgagagattatgtggt 212523 
BX119980.3 >721     ............................................................ 780    

AL731725.8 >212524  acttatgtgtcttaaggaagaattctcacatggtttttctttagggtttcattatttatt 212583 
BX119980.3 >781     ............................................................ 840    

AL731725.8 >212584  tccaactgaattccatttccttctaatggtgacaatttaagaaaatgaaaaagagaaaac 212643 
BX119980.3 >841     ............................................................ 900    

AL731725.8 >212644  attttaatttggatcaaaagcagataatataaccaatgatcctaaataccattttcctca 212703 
BX119980.3 >901     ............................................................ 960    

AL731725.8 >212704  atctttagccataacatttgaaatagatattttttgacattaaatagacaaatagtcaac 212763 
BX119980.3 >961     ............................................................ 1020   

AL731725.8 >212764  catatccaggattgtataaggtaggaaatattgtaacaacattgaaaagataagtgaaca 212823 
BX119980.3 >1021    ............................................................ 1080   

AL731725.8 >212824  agtatgataagacttgtttctttattaaaagagctcacaacaattatgcaatatttaaat 212883 
BX119980.3 >1081    ............................................................ 1140   

AL731725.8 >212884  ttggttgggacatactagatacatattagcagaaagtacaggtagagactaatttcacac 212943 
BX119980.3 >1141    ............................................................ 1200   

AL731725.8 >212944  tacttacataataactacacatgaatgaaagacattaatatatatgttacaaaatattat 213003 
BX119980.3 >1201    ............................................................ 1260   

AL731725.8 >213004  aatcatataatattacgttataagatattatatatgaatatttcagaagatgcatttttc 213063 
BX119980.3 >1261    ............................................................ 1320   

AL731725.8 >213064  tcttcccagtgctaagagttgtttaaactcagaggtctttaccactgagctggatcttta 213123 
BX119980.3 >1321    ............................................................ 1380   

AL731725.8 >213124  ctcctgtgtatctgagactgttcttaaacgtaaaatttgcttccaagttctgagaatgtg 213183 
BX119980.3 >1381    ............................................................ 1440   

AL731725.8 >213184  gatatgtaccattataccaaaagagaagaatttgtgccgtaagacaaatattctcaatga 213243 
BX119980.3 >1441    ............................................................ 1500   

AL731725.8 >213244  tataaatgaaaataaaattggtttcataaatatttccatatgacaaaacactgcactatt 213303 
BX119980.3 >1501    ............................................................ 1560   

AL731725.8 >213304  ctcacctaaataaatgataattggatatagaatgatggcagcatacaaaagtgtttcatt 213363 
BX119980.3 >1561    ............................................................ 1620   

AL731725.8 >213364  ataactatctgttacaatacaaaaagaaaaatatgtgcgctatttcatgaactaaaaaaa 213423 
BX119980.3 >1621    ............................................................ 1680   

AL731725.8 >213424  tcgtatggaaaatgggaaaatatatataaccaattaaatgtatggggaataaaaatagaa 213483 
BX119980.3 >1681    ............................................................ 1740   

AL731725.8 >213484  aatgcataacaatgttaaatagctttaatgttaaatgggaaaaaataaaacaaaattata 213543 
BX119980.3 >1741    ............................................................ 1800   

AL731725.8 >213544  gtatcatgtatatatcatgcatatgtcagcttattgacaaaaatgacaaaatattgacat 213603 
BX119980.3 >1801    ............................................................ 1860   

AL731725.8 >213604  aaaaggatggatgaaagcaaaactagatagatttaaataatgggatagattgggagttcc 213663 
BX119980.3 >1861    ............................................................ 1920   

AL731725.8 >213664  atgagagcctggactacatgtagaaattgtgtctaaaaaatgaaacaaatacacaaagga 213723 
BX119980.3 >1921    ............................................................ 1980   

AL731725.8 >213724  atttaaaaagaaaagaattc 213743 
BX119980.3 >1981    .................... 2000

Switch Points

Type	Point1	Point2	Orient1	Orient2	Curator	Comment	Time
A	213743	2001	+	+	chenhc	Taxid 10090 chrom X Reference assembly	2008-11-20 17:02:35.650

Events

Id	Type	Date	Whodid	Comment
7784	ImportOldDb	09/02/2005 19:13:00	f_old_db
7785	ReSetShortOvlp	09/04/2008 10:31:48	dbo
180082	CreateSwitchPt	11/20/2008 17:02:35	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)
CH29-30D12				AL731725.8	99.52%	pos 100624 (F+)
CH29-506D23	BX119980.3	99.87%	pos 2543 (R-)
CH29-624P11	AL731725.8	99.25%	pos 175731 (R-)
RP23-122B9				AL731725.8	99.59%	pos 155826 (F-)
RP23-129D15				AL731725.8	100%	pos 155830 (F-)
RP23-28M23	AL731725.8	99.3%	pos 189314 (R-)
RP24-98A16	AL731725.8	99.44%	pos 138306 (R-)

Fosmid Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
WI1-1064P15				AL731725.8	99.26%	pos 107338 (F+)
WI1-1366H19	AL731725.8	100%	pos 119936 (R+)	AL731725.8	100%	pos 159561 (F-)
WI1-1719B21	AL731725.8	100%	pos 57794 (R-)	AL731725.8	99.72%	pos 21803 (F+)
WI1-1916H22	BX119980.3	100%	pos 16913 (R+)
WI1-2196I13				BX119980.3	99.65%	pos 27001 (F-)
WI1-2742G4	AL731725.8	100%	pos 73362 (R+)	AL731725.8	99.83%	pos 117953 (F-)
WI1-2797E21	AL731725.8	100%	pos 189301 (R+)	BX119980.3	99.8%	pos 12792 (F-)

NCBI

Join Evaluation Legend

Curator Links

Alignment for AL731725.8 and BX119980.3

Alignment Summary

Alignment 1 of 1