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 AL929178.7 and AL844893.9

AL929178.7 Mouse DNA sequence from clone RP23-77M17 on chromosome 2, complete sequence [htgs_phase3]

Length: 100,057 bp

AL844893.9 Mouse DNA sequence from clone RP23-355H24 on chromosome 2 Contains the Rhoe gene for ras homolog gene family member E, a pyrophosphatase (Pyp) pseuodgene, part of a novel gene and a CpG island, complete sequence [htgs_phase3]

Length: 175,570 bp

Alignment Summary

Join evaluation: green

Alignment count: 1

Go to Endhit Table

Alignment 1
Align ID: 2299
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.

AL929178.7 >98058   gaattccacaccacctcaagttgtgcatgaatacacgagagaagaaagatggaagcattt 98117  
AL844893.9 >1       ............................................................ 60     

AL929178.7 >98118   ctatctactaggtagtctagtgtgtaggtctcaacagtagagtcctggctggaagtagag 98177  
AL844893.9 >61      ............................................................ 120    

AL929178.7 >98178   caaggggtaccaactaattagaggaggatttggggagcgttggagggtttggggagcatc 98237  
AL844893.9 >121     ............................................................ 180    

AL929178.7 >98238   aagtgggtcatagctgtttttctctaaaagctgctttaacagggcttcttggaaaggcag 98297  
AL844893.9 >181     ............................................................ 240    

AL929178.7 >98298   gaaatgaacatcagccaaccagtcaataagtagatcttacatgctggcttcctgttcatc 98357  
AL844893.9 >241     ............................................................ 300    

AL929178.7 >98358   ctgattaacctgtgacatctccagtgtagatcagtactgaaggctgaaaccagaatggag 98417  
AL844893.9 >301     ............................................................ 360    

AL929178.7 >98418   aaataactggctgacagcctgctcagagttctccttagacagtgaccttctcctgaccag 98477  
AL844893.9 >361     ............................................................ 420    

AL929178.7 >98478   cctcacctctgttctgagcattattttggaactgagctgacagagtgcaagagagttgtc 98537  
AL844893.9 >421     ............................................................ 480    

AL929178.7 >98538   ttccccacgatcggcaacaagcagatggactgaggagaggtttacagtaagggaaagcaa 98597  
AL844893.9 >481     ............................................................ 540    

AL929178.7 >98598   tgtatagaataatagaagcagctattggtcacttgcaagatgatgcataaaagaatatca 98657  
AL844893.9 >541     ............................................................ 600    

AL929178.7 >98658   agccaggcctggtggctcacgcctttaatcccagcactcgggaggcagaggcaggcagat 98717  
AL844893.9 >601     ............................................................ 660    

AL929178.7 >98718   ttctgagttcgaggccagcctggtctacagagtgagttccaggacagccagggctacaca 98777  
AL844893.9 >661     ............................................................ 720    

AL929178.7 >98778   gagaaacgctgtctggaaacaaccaagggggaaaaaaaaaaaagaatatcaagcaaaggc 98837  
AL844893.9 >721     ............................................................ 780    

AL929178.7 >98838   ttccacacatttcaaaccctcagggtataaccaggacctaacaagaaggataaaagggct 98897  
AL844893.9 >781     ............................................................ 840    

AL929178.7 >98898   atttcagcttaataagaccagaagtactgccatatgacatatggataacaaagtcgctgc 98957  
AL844893.9 >841     ............................................................ 900    

AL929178.7 >98958   atatttgtcacctatgggcaagtgaatatacccatagtcacaaagcagcacacagaggca 99017  
AL844893.9 >901     ............................................................ 960    

AL929178.7 >99018   cataaacacacatacctacacggatacacaagcataaacagagtcataaaaagagaacct 99077  
AL844893.9 >961     ............................................................ 1020   

AL929178.7 >99078   cacacactgacacatacagagacagacagacacaaaactcacacacacacacacacacac 99137  
AL844893.9 >1021    ............................................................ 1080   

AL929178.7 >99138   acacacacacacacacacacacacacacacacagaggcagtctaaagcctgaatttgtga 99197  
AL844893.9 >1081    ............................................................ 1140   

AL929178.7 >99198   actcctaggaaatggcccctttcttcaagttgttttactatccaatctttagcttttgat 99257  
AL844893.9 >1141    ............................................................ 1200   

AL929178.7 >99258   ctgcctaattgtacagggtaaaagatcaaactcatattttatcatctctaaactccaagc 99317  
AL844893.9 >1201    ............................................................ 1260   

AL929178.7 >99318   ctacacaagtctcttcctatttaaactgaactttagcaatggcttaaaaatgcctctact 99377  
AL844893.9 >1261    ............................................................ 1320   

AL929178.7 >99378   tacatcccactgacccaaaccataaattagcaggaagttcttagccatgttcccagatag 99437  
AL844893.9 >1321    ............................................................ 1380   

AL929178.7 >99438   aatctaacactaagaaagggaggctagatattaggaaataatttataatatgccacctcg 99497  
AL844893.9 >1381    ............................................................ 1440   

AL929178.7 >99498   ttacccagttttaaacaggtaatactggtgcttttcaagtacagtctctagaagagacct 99557  
AL844893.9 >1441    ............................................................ 1500   

AL929178.7 >99558   ccagaaaaggctaaaggctcctgtccagaggccttggggtcctgatccaagggctgcata 99617  
AL844893.9 >1501    ............................................................ 1560   

AL929178.7 >99618   tagatccactgacaattcactgagtgtctccagaataggatgactaagggaagaaagaga 99677  
AL844893.9 >1561    ............................................................ 1620   

AL929178.7 >99678   agggaggataaaataagtttaaataagttcaaatttattaaaaccctggaagtatatcgt 99737  
AL844893.9 >1621    ............................................................ 1680   

AL929178.7 >99738   gtggaaattttagtactgtaagcagcttggcacatatgagcagaagtccctagaagccat 99797  
AL844893.9 >1681    ............................................................ 1740   

AL929178.7 >99798   ttcttagcctattgtagaaacatacccaccagccccacaaacacaaacacatacattcct 99857  
AL844893.9 >1741    ............................................................ 1800   

AL929178.7 >99858   atacccagctacctacttgccttcaacacacacacacacacacacacacacacacacaca 99917  
AL844893.9 >1801    ............................................................ 1860   

AL929178.7 >99918   cacacacacacacacacagcataagcccacagtcttgcaagctcacaactagaatttctc 99977  
AL844893.9 >1861    ............................................................ 1920   

AL929178.7 >99978   atgctgatgctgtgagttcacataatgggacctgtggacaacagctcttgtttgagaaat 100037 
AL844893.9 >1921    ............................................................ 1980   

AL929178.7 >100038  actgtcctttcataaaagat 100057 
AL844893.9 >1981    .................... 2000

Switch Points

Type	Point1	Point2	Orient1	Orient2	Curator	Comment	Time
A	100057	2001	+	+	chenhc	Taxid 10090 chrom 2 Reference assembly	2008-11-20 16:49:44.190

Events

Id	Type	Date	Whodid	Comment
4409	ImportOldDb	09/02/2005 14:07:00	f_old_db
4410	ReSetShortOvlp	09/04/2008 10:31:48	dbo
165830	CreateSwitchPt	11/20/2008 16:49:44	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-210J22	AL929178.7	99.1%	pos 67619 (R-)
CH29-502L17				AL844893.9	99.13%	pos 106987 (F+)
CH29-519F21	AL844893.9	99.44%	pos 161832 (R+)
CH29-576D4				AL844893.9	99.58%	pos 34586 (F-)
CH29-589C11	AL844893.9	99.46%	pos 30034 (R-)
CH29-601O10	AL844893.9	99.4%	pos 161629 (R+)
RP23-134F24	AL844893.9	99.42%	pos 9202 (R+)
RP23-297P12				AL929178.7	99.16%	pos 1983 (F-)
RP23-38C9				AL844893.9	100%	pos 152155 (F-)
RP23-397E13				AL844893.9	99.01%	pos 152183 (F+)
RP24-152B15				AL844893.9	99.38%	pos 55828 (F+)
RP24-176M15	AL844893.9	99.85%	pos 113600 (R-)
RP24-328G3				AL844893.9	99.05%	pos 72833 (F+)
RP24-330G10				AL844893.9	99.08%	pos 1603 (F+)
RP24-356M5	AL929178.7	99.36%	pos 43382 (R-)
RP24-362I12	AL844893.9	99.64%	pos 78619 (R+)
RP24-64C23				AL844893.9	99.01%	pos 117965 (F+)
RP24-74C9	AL844893.9	99.79%	pos 24735 (R+)

Fosmid Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
WI1-1013B20				AL844893.9	100%	pos 94420 (F-)
WI1-1061P15	AL844893.9	99.46%	pos 46274 (R+)	AL844893.9	100%	pos 87699 (F-)
WI1-1185A8	AL844893.9	100%	pos 105179 (R-)	AL844893.9	100%	pos 61341 (F+)
WI1-1302B11	AL929178.7	99.77%	pos 1976 (R+)
WI1-1309L6	AL844893.9	99.73%	pos 69415 (R+)	AL844893.9	100%	pos 107655 (F-)
WI1-1456N15				AL844893.9	99.69%	pos 113196 (F+)
WI1-158O22	AL929178.7	99.85%	pos 36998 (R+)	AL929178.7	99.85%	pos 74871 (F-)
WI1-1678P10				AL844893.9	100%	pos 114225 (F+)
WI1-1767M7	AL844893.9	100%	pos 159998 (R-)	AL844893.9	99.83%	pos 114812 (F+)
WI1-1787L8				AL929178.7	99.42%	pos 8724 (F-)
WI1-1787L8				AL929178.7	100%	pos 8685 (F-)
WI1-1876A6	AL844893.9	100%	pos 58954 (R-)
WI1-1931B9	AL844893.9	99.8%	pos 81046 (R-)
WI1-1931P3	AL844893.9	100%	pos 81771 (R+)
WI1-2087L16	AL929178.7	99.3%	pos 78897 (R-)	AL929178.7	100%	pos 37292 (F+)
WI1-2126F10				AL844893.9	100%	pos 47589 (F-)
WI1-2162M21				AL844893.9	100%	pos 46036 (F-)
WI1-2389B21	AL844893.9	100%	pos 144741 (R-)
WI1-2402I19	AL844893.9	100%	pos 89151 (R-)	AL844893.9	99.83%	pos 49312 (F+)
WI1-257B8	AL844893.9	100%	pos 153703 (R-)	AL844893.9	99.84%	pos 115676 (F+)
WI1-2596M14	AL844893.9	100%	pos 5191 (R+)	AL844893.9	100%	pos 46219 (F-)
WI1-2798I20	AL929178.7	99%	pos 93619 (R-)
WI1-2833P16	AL844893.9	99.51%	pos 30936 (R+)	AL844893.9	99.55%	pos 74654 (F-)
WI1-460M6	AL929178.7	100%	pos 80095 (R-)	AL929178.7	100%	pos 38647 (F+)
WI1-54O20	AL929178.7	99.85%	pos 43385 (R-)	AL929178.7	99.61%	pos 3979 (F+)
WI1-761M10	AL844893.9	99.68%	pos 118461 (R+)
WI1-856K10	AL929178.7	100%	pos 21216 (R-)
WI1-970K14	AL929178.7	100%	pos 21305 (R+)

NCBI

Join Evaluation Legend

Curator Links

Alignment for AL929178.7 and AL844893.9

Alignment Summary

Alignment 1 of 1