BAC Information

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BAC

Clone NameMSMg01-539J09
Chromosome1 (Build37)
Map Location 195,808,064 - 196,005,148
singlet/doubletdoublet
Overlap genenone
Upstream geneSyt14, AA408296, Irf6, A130010J15Rik, Traf3ip3, Hsd11b1, G0s2, Lamb3, Camk1g, LOC667208
Downstream geneEG623172, Plxna2, Cd34, Cd46, Crry, Cr2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-539J09.T7 (MSMg01no539_j09.b1)MSMg01-539J09.TJ (MSMg01no539_j09.g1)
ACCAG606043AG606044
length766759
length of high quality
(start - end)		624 (51 - 674)486 (78 - 563)
definitionCHROMAT_FILE: MSMg01no539_j09.b1 PHD_FILE: MSMg01no539_j09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:18:35 2005CHROMAT_FILE: MSMg01no539_j09.g1 PHD_FILE: MSMg01no539_j09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:18:36 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(196,004,653 - 196,005,148)(195,808,064 - 195,808,549)
sequence
NTCTTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCTATTTCTTCAACCAAGTCACAGTAGGAAGGAAATCAGCAC
ATAGTCACTAGCTGAAATTAATAAAAGTAGAAGTAACATCAGAGAAAGTA
AACATTGAATTAACATCAGAGAAAGTAAAGATTAATTTTGCCACAAGGGT
GGGCAAAGTGGGTGAGAGAGTATGGCAGAGGCTGTTCACATCATGGTACA
ACAGGAGGAAGATAGCAAGACAGGAAGTGGGCTATGATAAAATATTTCGT
ATAATAAATAAATCCTTAAAAAAGAGAAAGAAAAAGAAAATGTTTTGCTG
GAGAGATGGCTCCGCAGTTAAGAGCACTAACTGTTCTTCTGAAGGCCCTG
AGTTCAAAACCCAGCAACCACATGGTAACTTAAAATGATCCATAATGAGA
TCTGATGTCCTCTTCCGGGGTGTCTGAAGACAGCTACAGTATACTTACAT
ATAATAAATAAATAAATCTTAAAAAAAGAAAGATAACATATTTCCAAAAA
TCTATGTGAGAAACTTCCAAGCCTCATGTCCTAAAGGTCTCCCCACTGTC
TCCCCAAATAGCACCACCTACTGGGAAATAACCAATCAGAATATGAGCCT
ATAACATTTCAGTTTCAAGCCATGTAAATGTGTAGAGTAGGACATCAAGA
TGGAGGTCAGAGGAGATTGTTTCTATTTGCAACTCTATGACTAANGTAAT
TGTAGCTGGCAATTAN

CTTTTATGTTAGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCCATGATTTACTTAATACCTTCT
GCATGATTGCCTTCCTGACTGATTCAGAGAAATAAAGCCAGAGAGATTCA
AGGAAGGAGGAGATGAGCACTTCTTCCTCCTCAGTATAGATTATTCAGGA
ATGCTGTCACCCCTCCATCCTAAGGCACCTTGCTACTTTGGGGATATAGC
TCAGTGACACGGTGCCAAAGCACCTTGCTGCTGAAAATTCATCTATGAAG
CTGCAGGTGTAAGAAAAGGGGGAACAAAGCTTTGCCCTTCCCAGATGTCT
CCCTGGGAGAAATCAACAAAGCTTGAAGGAATGAACATCGTCTCCCATCA
AGAATTTTGTGTTATAAGATGCAAGACTGAGGAGAAAGAAGCCCTTAAAT
ATCAGTTTCCAAGATGACATTGTATGCATTAATTACCAAATCTTTACATG
CCTTGTTAGCCCGCTTAGAGACCAGGATATACCTCTGATTCCCAGATCCT
AAAAAGCCTCCAAGCTCAGGGGAAATGAGCTTTGGTCCAATTTTGTCAAT
GCGTGGCATATTGTGTTGCTAATCTCTTACAGTGGATTTCTGCTAATTAC
ATACATTAATTATAAGGAAGTCCAGGGCTGTTATGCCCATTCTAAAGTCC
AGCGCCCATCATAGGTTATATATCCCGGATGTGTGAGGGTCTACTCATTA
CTTAGGGGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no539_j09.b1 MSMg01no539_j09.b1 CHROMAT_FILE:
MSMg01no539_j09.b1 PHD_FILE: MSMg01no539_j09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:18:35 2005
         (624 letters)



>mm_chr1_196004653_196005676
          Length = 1024

 Score =  920 bits (476), Expect = 0.0
 Identities = 491/496 (98%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattctatttcttcaaccaagtcacagtaggaaggaaatcagcacatagtcactagct 63
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 496 ggaattctatttcctcaaccaagtcacagtaggaaggaaatcagcacatagtcactagct 437

                                                                       
Query: 64  gaaattaataaaagtagaagtaacatcagagaaagtaaacattgaattaacatcagagaa 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 436 gaaattaataaaagtagaagtaacatcagagaaagtaaacattgaattaacatcagagaa 377

                                                                       
Query: 124 agtaaagattaattttgccacaagggtgggcaaagtgggtgagagagtatggcagaggct 183
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 376 agtaaagattaattttgccacaagggtgggtaaagtgggtgagagagtatggcagaggct 317

                                                                       
Query: 184 gttcacatcatggtacaacaggaggaagatagcaagacaggaagtgggctatgataaaat 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 316 gttcacatcatggtacaacaggaggaagatagcaagacaggaagtgggctatgataaaat 257

                                                                       
Query: 244 atttcgtataataaataaatccttaaaaaagagaaagaaaaagaaaatgttttgctggag 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 256 atttcgtataataaataaatccttaaaaaagagaaagaaaaagaaaatgttttgctggag 197

                                                                       
Query: 304 agatggctccgcagttaagagcactaactgttcttctgaaggccctgagttcaaaaccca 363
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 196 agatggctcagcagttaagagcactaactgttcttctgaaggccctgagttcaaaaccca 137

                                                                       
Query: 364 gcaaccacatggtaacttaaaatgatccataatgagatctgatgtcctcttccggggtgt 423
           |||||||||||||||||||||| ||||||||||||||||||||||||||||| |||||||
Sbjct: 136 gcaaccacatggtaacttaaaacgatccataatgagatctgatgtcctcttctggggtgt 77

                                                                       
Query: 424 ctgaagacagctacagtatacttacatataataaataaataaatcttaaaaaaagaaaga 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 76  ctgaagacagctacagtatacttacatataataaataaataaatcttaaaaaaagaaaga 17

                           
Query: 484 taacatatttccaaaa 499
           ||||||||||||||||
Sbjct: 16  taacatatttccaaaa 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: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 624
Length of database: 1024
Length adjustment: 10
Effective length of query: 614
Effective length of database: 1014
Effective search space:   622596
Effective search space used:   622596
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= MSMg01no539_j09.g1 MSMg01no539_j09.g1 CHROMAT_FILE:
MSMg01no539_j09.g1 PHD_FILE: MSMg01no539_j09.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:18:36 2005
         (486 letters)



>mm_chr1_195807864_195808749
          Length = 886

 Score =  932 bits (482), Expect = 0.0
 Identities = 485/486 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   ccatgatttacttaataccttctgcatgattgccttcctgactgattcagagaaataaag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 ccatgatttacttaataccttctgcatgattgccttcctgactgattcagagaaataaag 260

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

                                                                       
Query: 121 ggaatgctgtcacccctccatcctaaggcaccttgctactttggggatatagctcagtga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 ggaatgctgtcacccctccatcctaaggcaccttgctactttggggatatagctcagtga 380

                                                                       
Query: 181 cacggtgccaaagcaccttgctgctgaaaattcatctatgaagctgcaggtgtaagaaaa 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 cacggtgccaaagcaccttgctgctgaaaattcatctatgaagctgcaggtgtaagaaaa 440

                                                                       
Query: 241 gggggaacaaagctttgcccttcccagatgtctccctgggagaaatcaacaaagcttgaa 300
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ggggggacaaagctttgcccttcccagatgtctccctgggagaaatcaacaaagcttgaa 500

                                                                       
Query: 301 ggaatgaacatcgtctcccatcaagaattttgtgttataagatgcaagactgaggagaaa 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 ggaatgaacatcgtctcccatcaagaattttgtgttataagatgcaagactgaggagaaa 560

                                                                       
Query: 361 gaagcccttaaatatcagtttccaagatgacattgtatgcattaattaccaaatctttac 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 gaagcccttaaatatcagtttccaagatgacattgtatgcattaattaccaaatctttac 620

                                                                       
Query: 421 atgccttgttagcccgcttagagaccaggatatacctctgattcccagatcctaaaaagc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 atgccttgttagcccgcttagagaccaggatatacctctgattcccagatcctaaaaagc 680

                 
Query: 481 ctccaa 486
           ||||||
Sbjct: 681 ctccaa 686


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: 22
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 486
Length of database: 886
Length adjustment: 10
Effective length of query: 476
Effective length of database: 876
Effective search space:   416976
Effective search space used:   416976
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)


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