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 AL772318.6 and AL954135.7

AL772318.6 Mouse DNA sequence from clone RP23-77I17 on chromosome 4 Contains the 3'end of a novel transcript (BC042782), a novel transcript (4930551L18Rik) and a novel transcript, complete sequence [htgs_phase3]

Length: 249,534 bp

AL954135.7 Mouse DNA sequence from clone RP23-231H10 on chromosome 4, complete sequence [htgs_phase3]

Length: 100,102 bp

Alignment Summary

Join evaluation: green

Alignment count: 1

Go to Endhit Table

Alignment 1
Align ID: 3722
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
  1 BAC and 6 Fosmid bridging clones.
  1 BAC and 6 Fosmid concordant clones.
  0 BAC and 0 Fosmid discordant clones.

AL772318.6 >247535  aggagctgaaggggtctgcaaccctataggtggaacaacaatatgaactaaccagttccc 247594 
AL954135.7 >1       ............................................................ 60     

AL772318.6 >247595  ccccagagcgtgtgtctctagctgcatatgtagcagaagatggcctagttgtccatcatt 247654 
AL954135.7 >61      ............................................................ 120    

AL772318.6 >247655  gggaagagaggccccttggtcttgcaaactttatatgccccagtacaggggaacaccagg 247714 
AL954135.7 >121     ............................................................ 180    

AL772318.6 >247715  gccaagaagtgagagtgggtaggtaggggatcagggtcaggggagggtatagggaacttt 247774 
AL954135.7 >181     ............................................................ 240    

AL772318.6 >247775  cgggatagcatttgaaatgtaaataaagaaaatatctaatttaaaaaaaggaataaggaa 247834 
AL954135.7 >241     ............................................................ 300    

AL772318.6 >247835  ctgtgctgtgccttgaagaaaaaacaaaaacaaaaacaacaaaaaaaaaaaaagcagtct 247894 
AL954135.7 >301     ............................................................ 360    

AL772318.6 >247895  atgacacaatcttcctctagggcaggtcggagcctcattgctctaatgtgaaatgaaccc 247954 
AL954135.7 >361     ............................................................ 420    

AL772318.6 >247955  agggaaggggaaatagtgtccctgaactccacacagacacttccagttcctatttgatcc 248014 
AL954135.7 >421     ............................................................ 480    

AL772318.6 >248015  tcagaacaggcatcagcccaacccagaaaagggcacagagtaaaaaggtcaccaagttct 248074 
AL954135.7 >481     ............................................................ 540    

AL772318.6 >248075  ttccataaagggtgtaagtgtaaatattctgagctttgaggaaggataaactaattgttg 248134 
AL954135.7 >541     ............................................................ 600    

AL772318.6 >248135  ctgcctccaccacccctcctcctcctcttccttctcttcttcctcctcctcctccatcac 248194 
AL954135.7 >601     ............................................................ 660    

AL772318.6 >248195  tcccttctccttacccctgccctcctatttctccttctttcttttccacatcttctcttt 248254 
AL954135.7 >661     ............................................................ 720    

AL772318.6 >248255  ttcctccccctctttataaaaattgtttggaagttccagaaatcaccgtcatcgtcacag 248314 
AL954135.7 >721     ............................................................ 780    

AL772318.6 >248315  gccatacagaaaagaagcctctgcactgttttgaaattatgacattggattttgacttgg 248374 
AL954135.7 >781     ............................................................ 840    

AL772318.6 >248375  gtttgaattttggctctgcttctgaatttggttacttctccagggatgtgataagacacc 248434 
AL954135.7 >841     ............................................................ 900    

AL772318.6 >248435  atgaccaagtcagcttataaaagaacacggttgtttatttggagcttatggtttcagagg 248494 
AL954135.7 >901     ............................................................ 960    

AL772318.6 >248495  gttaaggtccatggccattgtgctagggagcattggcagcatcaggcaagcatggcacta 248554 
AL954135.7 >961     ............................................................ 1020   

AL772318.6 >248555  gagtactagctgagaactcacatcttgatccataagtaggagggagggagaaagaggagg 248614 
AL954135.7 >1021    ............................................................ 1080   

AL772318.6 >248615  tgggcaatgagaaagagagagagggagaaggagagagctcaaatatatagcccatgggac 248674 
AL954135.7 >1081    ............................................................ 1140   

AL772318.6 >248675  cattcttatttgaaccacggttgtgaattcaaattgacaggccatgtgacatttggcaag 248734 
AL954135.7 >1141    ............................................................ 1200   

AL772318.6 >248735  ttatttaaactacccttcctttgtaaaataatcaaaatctacttcctatacttcataaga 248794 
AL954135.7 >1201    ............................................................ 1260   

AL772318.6 >248795  tagaaagagagactatcaggcaccatcgtctggtctgtgctctgccatttattcatagta 248854 
AL954135.7 >1261    ............................................................ 1320   

AL772318.6 >248855  tgactttcactaattaacttgctgtgcctcagtttcctcatctggataataaaagtgaca 248914 
AL954135.7 >1321    ............................................................ 1380   

AL772318.6 >248915  atagtactatgtatgtttcatttattattattgacaggtacctagtataagatgaatatt 248974 
AL954135.7 >1381    ............................................................ 1440   

AL772318.6 >248975  tggcaaatagtagctaaccattgctgccattcctcaatgaaaatgcaaaccaagaaacag 249034 
AL954135.7 >1441    ............................................................ 1500   

AL772318.6 >249035  aggcagaccagctctctggtagggccaggttctgctagggttcacttacaggtcaatttt 249094 
AL954135.7 >1501    ............................................................ 1560   

AL772318.6 >249095  aagtctgttctgtaggaagccatccagacgggctgtgtgaaaagatttctagttttctgc 249154 
AL954135.7 >1561    ............................................................ 1620   

AL772318.6 >249155  cccatgtgtggcactcccccatcatcagataagcgctttcataagccaagtccattttca 249214 
AL954135.7 >1621    ............................................................ 1680   

AL772318.6 >249215  tttcagcaaagatcctgtacacatgcacacacttggcagctgtgggctacaggccctgcg 249274 
AL954135.7 >1681    ............................................................ 1740   

AL772318.6 >249275  ttcttgcttgtgatttgagctatgttatcaatacttgtgaatgtaaactcgagagatcaa 249334 
AL954135.7 >1741    ............................................................ 1800   

AL772318.6 >249335  agctgtccaggtcacgaaggctaatatttaaattccagacttgcaggcacagctctgaaa 249394 
AL954135.7 >1801    ............................................................ 1860   

AL772318.6 >249395  ttccctggctctacatcaagtctttgtacagaaatcaagtcaagcatgcatttgacacag 249454 
AL954135.7 >1861    ............................................................ 1920   

AL772318.6 >249455  ttgtggggctctggagtgtgggtgtggtatgcattcagtagaaacttggggtctgcccag 249514 
AL954135.7 >1921    ............................................................ 1980   

AL772318.6 >249515  aatggaattctgtggaattc 249534 
AL954135.7 >1981    .................... 2000

Switch Points

Type	Point1	Point2	Orient1	Orient2	Curator	Comment	Time
A	249534	2001	+	+	chenhc	Taxid 10090 chrom 4 Reference assembly	2008-11-20 16:51:55.503

Events

Id	Type	Date	Whodid	Comment
7044	ImportOldDb	09/02/2005 17:04:00	f_old_db
7045	ReSetShortOvlp	09/04/2008 10:31:48	dbo
168487	CreateSwitchPt	11/20/2008 16:51:55	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-128A24				AL772318.6	99.49%	pos 78551 (F-)
C3H-174E2	AL772318.6	99.86%	pos 9618 (R-)
C3H-50B21	AL772318.6	99.75%	pos 44446 (R-)
C3H-91N11	AL772318.6	99.68%	pos 63978 (R-)
C3H-91N12	AL772318.6	99.47%	pos 63747 (R-)
CH29-14I18				AL954135.7	100%	pos 21159 (F+)
CH29-174L16	AL772318.6	99.03%	pos 190370 (R+)
CH29-1G15	AL772318.6	99.18%	pos 46922 (R-)
CH29-27B21				AL772318.6	99.71%	pos 190462 (F+)
CH29-525O8	AL954135.7	99.61%	pos 60709 (R-)	AL772318.6	99.85%	pos 150505 (F+)
CH29-536G11				AL772318.6	99.32%	pos 199147 (F+)
CH29-596O12	AL772318.6	99.22%	pos 202212 (R-)
CH29-606K21	AL954135.7	99.16%	pos 2065 (R+)
CH29-616M8				AL954135.7	99.51%	pos 60825 (F+)
RP24-145G15				AL954135.7	99.84%	pos 54302 (F-)
RP24-229L23				AL772318.6	100%	pos 81826 (F-)
RP24-267I8				AL772318.6	99.3%	pos 105799 (F+)
RP24-282B18	AL772318.6	99.27%	pos 90579 (R-)
RP24-338G12				AL772318.6	99.04%	pos 244815 (F-)
RP24-90F13	AL954135.7	99.61%	pos 55166 (R+)

Fosmid Ends

Clone	R			F
Clone	Accession	%id	Position (strand)	Accession	%id	Position (strand)
WI1-1139D3	AL772318.6	99.5%	pos 181647 (R+)	AL772318.6	100%	pos 220434 (F-)
WI1-1143L15	AL772318.6	100%	pos 70323 (R-)	AL772318.6	100%	pos 32072 (F+)
WI1-1178F10	AL954135.7	100%	pos 47764 (R-)
WI1-1208L24	AL954135.7	100%	pos 92126 (R-)	AL954135.7	99.82%	pos 53108 (F+)
WI1-121P24	AL772318.6	99.54%	pos 125976 (R-)
WI1-1230L16	AL954135.7	100%	pos 92089 (R-)	AL954135.7	99.85%	pos 53126 (F+)
WI1-1293E5	AL772318.6	100%	pos 200702 (R+)	AL772318.6	99.8%	pos 242638 (F-)
WI1-1339P7	AL772318.6	99.7%	pos 154110 (R+)	AL772318.6	99.85%	pos 193578 (F-)
WI1-1343J14				AL772318.6	99.42%	pos 192670 (F-)
WI1-1404C15	AL772318.6	99.19%	pos 211633 (R+)	AL954135.7	100%	pos 6417 (F-)
WI1-1404C15	AL772318.6	100%	pos 211633 (R+)	AL954135.7	100%	pos 6418 (F-)
WI1-1465H11				AL772318.6	99.53%	pos 143820 (F-)
WI1-1476C3	AL772318.6	99.24%	pos 26726 (R+)	AL772318.6	100%	pos 67085 (F-)
WI1-1564O6	AL772318.6	99.39%	pos 196131 (R+)
WI1-1567D1	AL954135.7	99.82%	pos 4228 (R-)	AL772318.6	99.55%	pos 214609 (F+)
WI1-1599D14	AL772318.6	100%	pos 41119 (R-)	AL772318.6	100%	pos 4473 (F+)
WI1-1599N5	AL772318.6	100%	pos 41119 (R-)	AL772318.6	100%	pos 4473 (F+)
WI1-1683E6	AL772318.6	100%	pos 97488 (R-)	AL772318.6	100%	pos 58386 (F+)
WI1-1683E8	AL772318.6	100%	pos 97488 (R-)
WI1-1715L10				AL954135.7	100%	pos 46554 (F-)
WI1-1722I23	AL954135.7	100%	pos 56223 (R+)	AL954135.7	99.85%	pos 94137 (F-)
WI1-1722K23	AL954135.7	100%	pos 56223 (R+)	AL954135.7	100%	pos 94150 (F-)
WI1-1739C14				AL772318.6	100%	pos 2172 (F-)
WI1-1774H7	AL954135.7	100%	pos 93998 (R-)	AL954135.7	100%	pos 54851 (F+)
WI1-1776F23	AL772318.6	99.82%	pos 181285 (R+)	AL772318.6	100%	pos 225647 (F-)
WI1-1832E15				AL772318.6	99.7%	pos 119878 (F-)
WI1-1886P16	AL954135.7	100%	pos 10535 (R+)	AL954135.7	99.54%	pos 51207 (F-)
WI1-197K21	AL772318.6	100%	pos 183023 (R-)	AL772318.6	99.72%	pos 142805 (F+)
WI1-197L18	AL772318.6	100%	pos 188894 (R+)	AL772318.6	100%	pos 227466 (F-)
WI1-2047J14	AL772318.6	100%	pos 219449 (R-)	AL772318.6	99.83%	pos 180293 (F+)
WI1-2068M6	AL772318.6	99.81%	pos 42653 (R-)	AL772318.6	99.51%	pos 1945 (F+)
WI1-211L24	AL954135.7	99.64%	pos 33255 (R-)	AL772318.6	100%	pos 244162 (F+)
WI1-2120I24	AL772318.6	100%	pos 175032 (R+)	AL772318.6	100%	pos 212273 (F-)
WI1-2271P21				AL772318.6	99.86%	pos 177951 (F+)
WI1-228K16	AL772318.6	100%	pos 68629 (R-)	AL772318.6	99.77%	pos 29864 (F+)
WI1-2318H20				AL954135.7	100%	pos 55942 (F-)
WI1-2403D23	AL772318.6	99.85%	pos 84909 (R+)	AL772318.6	99.73%	pos 122795 (F-)
WI1-2443F23	AL772318.6	99.81%	pos 244018 (R+)	AL954135.7	99.74%	pos 34111 (F-)
WI1-2479N3	AL954135.7	100%	pos 50032 (R+)	AL954135.7	100%	pos 91873 (F-)
WI1-2489A22				AL954135.7	99.16%	pos 69636 (F+)
WI1-2501K22	AL772318.6	99.81%	pos 114737 (R+)	AL772318.6	100%	pos 155801 (F-)
WI1-2526G14	AL772318.6	100%	pos 102117 (R-)	AL772318.6	99.02%	pos 58277 (F+)
WI1-2526G6	AL954135.7	99.17%	pos 92493 (R+)
WI1-2627O7	AL772318.6	100%	pos 137297 (R-)	AL772318.6	100%	pos 95799 (F+)
WI1-2631O7	AL772318.6	99.18%	pos 182500 (R-)
WI1-2660H23				AL772318.6	99.65%	pos 245270 (F-)
WI1-2660L23	AL772318.6	99.84%	pos 205659 (R+)
WI1-324J6	AL772318.6	99.56%	pos 60681 (R+)	AL772318.6	99.21%	pos 101751 (F-)
WI1-334F12	AL772318.6	99.58%	pos 107968 (R-)	AL772318.6	99.58%	pos 69893 (F+)
WI1-36C3	AL772318.6	99.28%	pos 197695 (R+)
WI1-417O22	AL772318.6	99.8%	pos 220054 (R+)	AL954135.7	99.83%	pos 14432 (F-)
WI1-435I22	AL772318.6	99.62%	pos 112261 (R+)
WI1-442I9	AL772318.6	99.85%	pos 211943 (R-)	AL772318.6	99.85%	pos 173389 (F+)
WI1-456A11	AL772318.6	100%	pos 137369 (R+)	AL772318.6	99.52%	pos 177646 (F-)
WI1-525N10	AL954135.7	100%	pos 46684 (R-)	AL954135.7	99.22%	pos 8002 (F+)
WI1-525P8	AL954135.7	100%	pos 46684 (R-)	AL954135.7	100%	pos 8000 (F+)
WI1-543H20	AL772318.6	100%	pos 211921 (R+)	AL954135.7	100%	pos 7392 (F-)
WI1-560K24	AL772318.6	99.42%	pos 149585 (R+)	AL772318.6	99.22%	pos 189141 (F-)
WI1-595H22				AL772318.6	100%	pos 151913 (F+)
WI1-796F19				AL772318.6	99.59%	pos 220829 (F-)

NCBI

Join Evaluation Legend

Curator Links

Alignment for AL772318.6 and AL954135.7

Alignment Summary

Alignment 1 of 1