BAC Information

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BAC

Clone NameMSMg01-481L08
Chromosome5 (Build37)
Map Location 57,782,335 - 57,920,507
singlet/doubletdoublet
Overlap geneLOC625721
Upstream geneLOC100041335, LOC100041349, LOC666455
Downstream geneEG666465, Pcdh7, LOC100041385
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-481L08.T7 (MSMg01no481_l08.b1)MSMg01-481L08.TJ (MSMg01no481_l08.g1)
ACCAG562050AG562051
length745776
length of high quality
(start - end)
499 (74 - 572)542 (101 - 642)
definitionCHROMAT_FILE: MSMg01no481_l08.b1 PHD_FILE: MSMg01no481_l08.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:02:26 2005CHROMAT_FILE: MSMg01no481_l08.g1 PHD_FILE: MSMg01no481_l08.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:02:26 2005
singlet/doubletdoubletdoublet
BLAST hituniqueplural
Map location.(57,782,335 - 57,782,728)(57,919,971 - 57,920,507)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCGAGAATAGGGCGGAANCAC
NNGGTNATGCCAGAAAAGAGGTGTCAGATAAAGCTAAAGAGTGATCAAAC
CTATCTTGGAGCTCTTAAAACATCATACTGGACAATATGATAACAAAGCC
TAGGACTTCAGTAATTTTCCTCAGTAAAAATGATTTATTTTTCTTTTAGT
TGCAATCACGAGTGCATAATTTCAAGTGGAGTTATTTTTATTGAACACTT
TGCACAAGAAAGTTGAAGACCTTGCCGAACTCTGAGAAGCATGTCAGCAC
AGCCATCCATTTACTGTGTTTTTTATACTGCTTTGCTCTGTTGGATTATA
TTATTGTTAAAGTTTAGTATAAAAACATTGCTGTATGCCTCAAGACAATA
TTTAGTTGGAATGCGACTGTTCACCAGCATTATTTAATAGCTTAATTCAT
TTAAAAAGTAAAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA
GAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGATAGCTATAAAAACCTGAA
TAATAATACAATGGTTTTACAAAATTGGCCCCATGGAAACCCTCAAAGCA
TCCAGGCAATTGCCAAAGCCATTGGGTGCCCTCCTCAGACTGATGGTAAG
GCTCTATTGTAGAAGAGAACGTTTACAAAACTTACATCAGTAAACATGGA
GAAGTTAAGCTAGTCTGTACTTACTTATGTCTACTTACAAGTCTG
TAGGGGNNNNNAAGAAANAANNNCCAATGAXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
TAAAGTGCTCCTATAAAATGCCTTTTCTGCTGTACCTTGACCTGTATAAC
ATCCAAATAGAGGCACTTGAGGAAGTTACAATGAATAAGGCTGAACATTT
GAGACACAAATATAGGAAATATACAAGAAATAAAAGGTAGAAATCTCCTT
ACTTTTCAAAATATTAAGTTTCTATTAAAGGAGAAGCTTAGCCAGATGGT
AAAATGGAAAAGGCCAAGGGCCCAGGGTCACAAGAGAGAGCCTGGCTAGT
GTTACTTTCTGCATTGGGTTCCTCTTCTCTGTTGATAAAAGAATCAAAGA
GCAGGAAGATTTCCCCCCCCCACCCCCCCCCACCCCGAGACTTCGAGACA
GGGTTTCTCTTTATAGTGCTGGCTGTCCTGGAACTCACTTTGTAGACCAG
GCTGGCCTCGAACTCAGATATCTGCCTGCCTCTGCCTCCTGAGTGCTGGG
ATTAAAGGTGTATGCCACCACACCTGAACAGTCTCGGTTTTAATTTTAGC
TTCTAAGAATAACTTTAGGCTATTGTTCTGAAAGTCGAAGCTCAGGCAAA
CGTCAGCATAAAGCTTTGACTTTCAGTTATAACACACTGAAGCCCAACTC
AGACCTGGGAAAACAAACATTTCATATTTTCTCTATATGTGCATGTTAGC
TTTTAACCTGTATATGTATGTATTTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no481_l08.b1 MSMg01no481_l08.b1 CHROMAT_FILE:
MSMg01no481_l08.b1 PHD_FILE: MSMg01no481_l08.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:02:26 2005
         (499 letters)



>mm_chr5_57782135_57783033
          Length = 899

 Score =  665 bits (344), Expect = 0.0
 Identities = 381/400 (95%), Gaps = 12/400 (3%)
 Strand = Plus / Plus

                                                                       
Query: 1   tcagataaagctaaagagtgatcaaacctatcttggagctcttaaaacatcatactggac 60
           |||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||||
Sbjct: 201 tcagataaagctaaagagtggtcaaacctatcttggagctcataaaacatcatactggac 260

                                                                       
Query: 61  aatatgataacaaagcctaggacttcagtaattttcctcagtaaaaatgatttatttttc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 aatatgataacaaagcctaggacttcagtaattttcctcagtaaaaatgatttatttttc 320

                                                                       
Query: 121 ttttagttgcaatcacgagtgcataatttcaagtggagttatttttattgaacactttgc 180
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 321 ttttagttgcaatcacgagtgcataatttcaaatggagttatttttattgaacactttgc 380

                                                                       
Query: 181 acaagaaagttgaagaccttgccgaactctgagaagcatgtcagcacagccatccattta 240
           ||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 381 acaagaaagttgaagaccttgccgaactctgagaagcatgtcagcacagtcatccattta 440

                                                                       
Query: 241 ctgtgtttttta------tactgctttgctctgttggattatattattgttaaagtttag 294
           |||||      |      ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ctgtg------aagaccatactgctttgctctgttggattatattattgttaaagtttag 494

                                                                       
Query: 295 tataaaaacattgctgtatgcctcaagacaatatttagttggaatgcgactgttcaccag 354
           ||||||||||||||||||||||||||| |||||||||||||||||| || ||||||||||
Sbjct: 495 tataaaaacattgctgtatgcctcaaggcaatatttagttggaatgtgattgttcaccag 554

                                                   
Query: 355 cattatttaatagcttaattcatttaaaaagtaaaaaaaa 394
           ||||||||||||||||||||||||||||||||||||||||
Sbjct: 555 cattatttaatagcttaattcatttaaaaagtaaaaaaaa 594


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 20
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 499
Length of database: 899
Length adjustment: 10
Effective length of query: 489
Effective length of database: 889
Effective search space:   434721
Effective search space used:   434721
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)
Query= MSMg01no481_l08.g1 MSMg01no481_l08.g1 CHROMAT_FILE:
MSMg01no481_l08.g1 PHD_FILE: MSMg01no481_l08.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:02:26 2005
         (542 letters)



>mm_chr5_57919971_57920908
          Length = 938

 Score = 1015 bits (525), Expect = 0.0
 Identities = 536/541 (99%), Gaps = 4/541 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   taaagtgctcctataaaatgccttttctgctgtaccttgacctgtataacatccaaatag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 537 taaagtgctcctataaaatgccttttctgctgtaccttgacctgtataacatccaaatag 478

                                                                       
Query: 61  aggcacttgaggaagttacaatgaataaggctgaacatttgagacacaaatataggaaat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 477 aggcacttgaggaagttacaatgaataaggctgaacatttgagacacaaatataggaaat 418

                                                                       
Query: 121 atacaagaaataaaaggtagaaatctccttacttttcaaaatattaagtttctattaaag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 417 atacaagaaataaaaggtagaaatctccttacttttcaaaatattaagtttctattaaag 358

                                                                       
Query: 181 gagaagcttagccagatggtaaaatggaaaaggccaagggcccagggtcacaagagagag 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 357 gagaagcttagccagatggtaaaatggaaaaggccaagggcccagggtcacaagagagag 298

                                                                       
Query: 241 cctggctagtgttactttctgcattgggttcctcttctctgttgataaaagaatcaaaga 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 297 cctggctagtgttactttctgcattgggttcctcttctctgttgataaaagaatcaaaga 238

                                                                       
Query: 301 gcaggaagatttcccccccccacccccccccaccccgagacttcgagacagggtttctct 360
           ||||||||||||||||||   ||||||||| |||||||||||| ||||||||||||||||
Sbjct: 237 gcaggaagatttcccccc---acccccccc-accccgagactttgagacagggtttctct 182

                                                                       
Query: 361 ttatagtgctggctgtcctggaactcactttgtagaccaggctggcctcgaactcagata 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 ttatagtgctggctgtcctggaactcactttgtagaccaggctggcctcgaactcagata 122

                                                                       
Query: 421 tctgcctgcctctgcctcctgagtgctgggattaaaggtgtatgccaccacacctgaaca 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tctgcctgcctctgcctcctgagtgctgggattaaaggtgtatgccaccacacctgaaca 62

                                                                       
Query: 481 gtctcggttttaattttagcttctaagaataactttaggctattgttctgaaagtcgaag 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  gtctcggttttaattttagcttctaagaataactttaggctattgttctgaaagtcgaag 2

            
Query: 541 c 541
           |
Sbjct: 1   c 1


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 30
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 542
Length of database: 938
Length adjustment: 10
Effective length of query: 532
Effective length of database: 928
Effective search space:   493696
Effective search space used:   493696
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)