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 AL627075.13 and AL669955.6

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AL627075.13 Mouse DNA sequence from clone RP23-166L2 on chromosome 4, complete sequence [htgs_phase3]

Length: 194,998 bp

AL669955.6 Mouse DNA sequence from clone RP23-188F1 on chromosome 4, complete sequence [htgs_phase3]

Length: 114,881 bp

Alignment Summary

Join evaluation: green

Alignment count: 1

Go to Endhit Table

Alignment 1
Align ID: 1751
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 3 Fosmid bridging clones.
  0 BAC and 3 Fosmid concordant clones.
  0 BAC and 0 Fosmid discordant clones.

AL627075.13 >192999  aattcaaagacaaaaacatgatcatctccttagatgcttagaaagcattggacaaaatcc 193058 
AL669955.6  >1       ............................................................ 60     

AL627075.13 >193059  aacactcattcatgattaaagtcttagaaagatcaggaagtcaagaccaatacctaatta 193118 
AL669955.6  >61      ............................................................ 120    

AL627075.13 >193119  taataaaaacaatctacagcaaaccagtagccagcatcaaactaaatagagaaacctaga 193178 
AL669955.6  >121     ............................................................ 180    

AL627075.13 >193179  agcaatccaactaaaatcagggaatagacaaggctgcccactttctccctacctattcaa 193238 
AL669955.6  >181     ............................................................ 240    

AL627075.13 >193239  tatagtatttgatatcctaaccaaagcaattcgacatcaaaaggcgatcaaagggataca 193298 
AL669955.6  >241     ............................................................ 300    

AL627075.13 >193299  aattgtaaaggaagaagtcaaaatatcactatttgcagataatatgatagtttatataca 193358 
AL669955.6  >301     ............................................................ 360    

AL627075.13 >193359  tgacgctaaaaattccaccaggaaaccctaagtctgataaacagcttcggtgcagtagct 193418 
AL669955.6  >361     ............................................................ 420    

AL627075.13 >193419  gaatataaaattaactcaaacatatcaatggtctttctccacccaacgaataaacagact 193478 
AL669955.6  >421     ............................................................ 480    

AL627075.13 >193479  gagaaagaaattagggaacaacacccttcacaatagtcacaaataatataaaataccatt 193538 
AL669955.6  >481     ............................................................ 540    

AL627075.13 >193539  gtgtgtctctaactaaggaagtgaaagatctgtatgataagaacttcaagtctctggaga 193598 
AL669955.6  >541     ............................................................ 600    

AL627075.13 >193599  aagaaattaaagatctcagaagatggaaagatctcccatgctcatggattgacaagatca 193658 
AL669955.6  >601     ............................................................ 660    

AL627075.13 >193659  tcatggattgacaggatgaatgtagtaaaaatggctatcttgccaaaagcaatccaaaga 193718 
AL669955.6  >661     ............................................................ 720    

AL627075.13 >193719  tcagtgcaatccccatcaaaattccaactcaattcttcacagagttagaaagggcatttt 193778 
AL669955.6  >721     ............................................................ 780    

AL627075.13 >193779  gtaaattcatctagaataacacaaaacaaaacaaaacaaacaaacaaacaaaaaactatg 193838 
AL669955.6  >781     ............................................................ 840    

AL627075.13 >193839  acagcaaaaattcttctcatcaataaaagaacctctggtgaaatcaccatgtctgacctc 193898 
AL669955.6  >841     ............................................................ 900    

AL627075.13 >193899  aagctgtactacaaaaaaaaaaaaaaaaaaaaaaaaatgtgataaaacctgcacggtact 193958 
AL669955.6  >901     ............................................................ 960    

AL627075.13 >193959  ggtacaatgacagacaggtcaatcaatggaatagaattgaagacccagaaatgaacccat 194018 
AL669955.6  >961     ............................................................ 1020   

AL627075.13 >194019  acacctatgatcactagatcgttgacaaggagctaaaaccatccagttcaaaaaagacag 194078 
AL669955.6  >1021    ............................................................ 1080   

AL627075.13 >194079  cattttcaacaaatggtgctcgtacaatttgtggttatgtagaagaatgcaaattaatcc 194138 
AL669955.6  >1081    ............................................................ 1140   

AL627075.13 >194139  atacttatctccttgtactaaggtcatgtctaagttgatcaaggaactccacataaatgt 194198 
AL669955.6  >1141    ............................................................ 1200   

AL627075.13 >194199  agagacactgaaacttatagaggagaaagttgtgaaagccttgaagatatgggcacaggg 194258 
AL669955.6  >1201    ............................................................ 1260   

AL627075.13 >194259  gaaaaatttctgaacagaagagtattggcttgtgatttaagatcaaaaaaatcaacaaat 194318 
AL669955.6  >1261    ............................................................ 1320   

AL627075.13 >194319  gggaccacataaagttacaaagcttctgtaaggtaaaagacactgtcaataagacaaaaa 194378 
AL669955.6  >1321    ............................................................ 1380   

AL627075.13 >194379  atgccaccaacagattgggaaaaaatctttaccaatgctaaatcagataagggactaata 194438 
AL669955.6  >1381    ............................................................ 1440   

AL627075.13 >194439  gccaatatatattaagaagtcaagatggtggactccagaaaatgaaataaccctatttta 194498 
AL669955.6  >1441    ............................................................ 1500   

AL627075.13 >194499  aaaattgttgtacagagatatacgaagaattctaaactgaggaacactgaatggctgaga 194558 
AL669955.6  >1501    ............................................................ 1560   

AL627075.13 >194559  agcatctggaaaaatgttcaacattcttaatcatcagggaaatgaaagggaaaacaactc 194618 
AL669955.6  >1561    ............................................................ 1620   

AL627075.13 >194619  tgagattctacctcataccagtcagattggctaagataaaaaattcaggggacagtagat 194678 
AL669955.6  >1621    ............................................................ 1680   

AL627075.13 >194679  gttggcaaggatgtggaaaaagaggaacactcctccatttttggtgggattgcaagctgg 194738 
AL669955.6  >1681    ............................................................ 1740   

AL627075.13 >194739  tacaacccctctagaaatcagtctggcgtttcctcagaaaagtggatatggaagatcctg 194798 
AL669955.6  >1741    ............................................................ 1800   

AL627075.13 >194799  caatacctctcctgggcatatacccagaaaatgtcctaacttgtaataaggacacatgct 194858 
AL669955.6  >1801    ............................................................ 1860   

AL627075.13 >194859  ccactgtgttcatatctgccttatttataatagccagaagctggaaagaacccagatgtc 194918 
AL669955.6  >1861    ............................................................ 1920   

AL627075.13 >194919  cctcaaaagaagaatggatacagaaaatgtgacacatttacacaatgaagtactactcag 194978 
AL669955.6  >1921    ............................................................ 1980   

AL627075.13 >194979  ctattataaacagtgaattc 194998 
AL669955.6  >1981    .................... 2000

Switch Points

Type	Point1	Point2	Orient1	Orient2	Curator	Comment	Time
A	194998	2001	+	+	chenhc	Taxid 10090 chrom 4 Reference assembly	2008-11-20 16:52:00.926

Events

Id	Type	Date	Whodid	Comment
3365	ImportOldDb	09/02/2005 12:29:00	f_old_db
3366	ReSetShortOvlp	09/04/2008 10:31:48	dbo
168595	CreateSwitchPt	11/20/2008 16:52:00	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)
RP23-84D14				AL627075.13	99.28%	pos 37715 (F+)
RP24-113L7				AL627075.13	99.83%	pos 180563 (F+)
RP24-232F16				AL627075.13	99.08%	pos 60344 (F+)
RP24-232F16				AL627075.13	99.08%	pos 64772 (F+)
RP24-308I11				AL627075.13	99.07%	pos 112366 (F-)
RP24-323O12				AL627075.13	99.12%	pos 37800 (F+)
RP24-364M16	AL669955.6	99.3%	pos 12993 (R+)
RP24-394O3	AL669955.6	99.4%	pos 107691 (R+)

Fosmid Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
WI1-1121K20	AL627075.13	99.85%	pos 168700 (R+)	AL669955.6	100%	pos 16142 (F-)
WI1-2301H2	AL627075.13	100%	pos 63007 (R-)	AL627075.13	100%	pos 24553 (F+)
WI1-2371E4				AL627075.13	100%	pos 27818 (F+)
WI1-2425M14				AL627075.13	100%	pos 60524 (F+)
WI1-2447B9	AL669955.6	100%	pos 56121 (R-)	AL669955.6	100%	pos 16005 (F+)
WI1-2779A14	AL627075.13	99.67%	pos 97773 (R+)	AL627075.13	99.84%	pos 139788 (F-)
WI1-2891A4	AL627075.13	100%	pos 184602 (R+)	AL669955.6	100%	pos 28851 (F-)
WI1-313O11	AL669955.6	99.79%	pos 96616 (R-)	AL669955.6	100%	pos 57061 (F+)
WI1-394E12				AL627075.13	100%	pos 20656 (F-)
WI1-403M8	AL627075.13	100%	pos 24572 (R+)
WI1-454F1	AL627075.13	99.84%	pos 60401 (R+)	AL627075.13	99.69%	pos 98799 (F-)
WI1-588P4	AL627075.13	100%	pos 192274 (R+)	AL669955.6	100%	pos 37814 (F-)
WI1-719B23	AL669955.6	100%	pos 4719 (R-)
WI1-82H3	AL627075.13	100%	pos 22344 (R+)	AL627075.13	99.71%	pos 61546 (F-)
WI1-865B15	AL627075.13	100%	pos 71803 (R-)	AL627075.13	99.81%	pos 37815 (F+)
WI1-865P9	AL627075.13	99.7%	pos 37815 (R+)	AL627075.13	100%	pos 71779 (F-)
WI1-965E12	AL669955.6	100%	pos 24526 (R+)	AL669955.6	99.54%	pos 66713 (F-)

NCBI

Join Evaluation Legend

Curator Links

Alignment for AL627075.13 and AL669955.6

Alignment Summary

Alignment 1 of 1