BAC Information

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BAC

Clone NameMSMg01-328E08
Chromosome12 (Build37)
Map Location 57,789,495 - 57,971,753
singlet/doubletdoublet
Overlap genePax9, Slc25a21
Upstream geneGarnl1, Brms1l, LOC100039915, LOC382600, LOC382601, Mbip, EG621837, E030019B13Rik, Titf1, LOC100039993, Nkx2-9
Downstream geneAU021838, LOC100040044, Foxa1, 4921506M07Rik, EG217600, BC042761
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-328E08.T7 (MSMg01no328_e08.b1)MSMg01-328E08.TJ (MSMg01no328_e08.g1)
ACCAG445412AG445413
length729734
length of high quality
(start - end)
376 (43 - 418)371 (78 - 448)
definitionCHROMAT_FILE: MSMg01no328_e08.b1 PHD_FILE: MSMg01no328_e08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:13:22 2005CHROMAT_FILE: MSMg01no328_e08.g1 PHD_FILE: MSMg01no328_e08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:13:23 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(57,971,401 - 57,971,753)(57,789,495 - 57,789,865)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCAAAGAGGATCCGCGGA
ATTCGCAACACTTCCCACAGGAACAGAGAAGGAACTATTTAGGCATGTTA
GATATGCCCTGTGCTATCAGCCTTATCTGCTCTATGAGTTATAAACTAGA
TCTAAATTAGGGCTTGTTCGACTTCAAGGGGCCATGGAACACTTTACAAA
GTCTTTGGAGTGGAGGGATTCAGAAGGGATCAGAGTGTGCAACAGCAGAC
CTTCTTCCCAAATGGAGGACAGATGGAGCCACCATAGGTGTATTACCTGG
TGTCTCCACCAGAACCTACGGTCAGCAGTATTTGTAAGGGAGCATCAGGT
GGCTGGCTTTTCCTTCCTTTTGTCACAGCTCAATCTAGACAAAGTTCAAA
CCCAGCCAGAGGCCGCACACCTCTGGCATAGAACAAAGAAACAAACCACA
TGCCATAATGATCTCTGTACATACAAAAGTCTGTTTCAAAGGCCAGACAG
TAATGGCCGTGGACTTGACTCATGAGATGCCCCCTCCTGAGCCCTCACTA
AAATCCAGGGCCAAACTGTGTTTTCTGGACCTTGGCCCATTTTCTGATTT
CTAGTGATGTAAATATACTTATCTCAGGAATGGGCACAGGTAAATGTGGA
TTGTGAGAATCCTGAATTGATTAGTGTCCGGAGGCTTATAGGTCAGAAAT
GCTAATACCCCGAGAAATCTTTCCCTCTC
GAATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCCTGTGGTCCACAGCCAAAGCAA
GTCTCCCAATCCAGGAAAAATCGCTTTCTCTTCGCTTGATTGCCACGTCT
CCCAGAGCCCACTAAAGTCATTTTGTCATTATGTTTTAAACATGAAATAG
TTCATCTCTACGCTGTCTTCAGGGTAATGCAAGGAGGGGATGACTTGAAA
TGGATTCTCCATGCATCTCCAGGAAAGGAAGGCGGTGGTAGCAGGGACTC
CGCAGAGAAAGCAGCTAACTTTATCTAACACGGGCACTTTCAGGTCACTC
GGGCCCACTAGCTGTGCTAATAATCAGTCCTAATTGTATTGTTTCAGGGC
ATCTCCCGATTTTGTTCCCACCACAGTGCTCCGGTGACCCACGGAGAAAC
ACATAACAGATGCCAGTACAGATCCCCAGAAAAGTGAATATTTTCTGTGC
TTTGGTTGACATGTTAACATGTCATCCCGCGTACTGGTCATGCCAGCCGT
TCTATATATTGAGCCGCAGAACAAAATTTCTTCTGGTCCCGCCTTGGCCA
TCTTTTTGCTATGAAGTTGGTTTTCTCGTTGAAAGATTCTTTGGCTCCCC
TTCCTGGCTGCATTTTGTCGTTTTTGTTCCCTGCTATATATTCTCTATAT
TTTTTTTCCTAATATAACTTTCCGATAAATCATG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no328_e08.b1 MSMg01no328_e08.b1 CHROMAT_FILE:
MSMg01no328_e08.b1 PHD_FILE: MSMg01no328_e08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:13:22 2005
         (376 letters)



>mm_chr12_57971179_57971954
          Length = 776

 Score =  675 bits (349), Expect = 0.0
 Identities = 352/353 (99%)
 Strand = Plus / Minus

                                                                       
Query: 23  ccacaggaacagagaaggaactatttaggcatgttagatatgccctgtgctatcagcctt 82
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 575 ccacaggaacagagaaggaactatttaggcatgttagatatgccctgtgctatcagcctt 516

                                                                       
Query: 83  atctgctctatgagttataaactagatctaaattagggcttgttcgacttcaaggggcca 142
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 515 atctgctctatgagttataaactagatctaaattagggcttgttcgacttcaaggggcca 456

                                                                       
Query: 143 tggaacactttacaaagtctttggagtggagggattcagaagggatcagagtgtgcaaca 202
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 455 tggaacactttacaaagtctttggagtggagggattcagaagggatcagagtgtgcaaca 396

                                                                       
Query: 203 gcagaccttcttcccaaatggaggacagatggagccaccataggtgtattacctggtgtc 262
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 395 gcagaccttcttcccaaatggaggacagatggagccaccataggtgtattacctggtgtc 336

                                                                       
Query: 263 tccaccagaacctacggtcagcagtatttgtaagggagcatcaggtggctggcttttcct 322
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 335 tccaccagaacctacgggcagcagtatttgtaagggagcatcaggtggctggcttttcct 276

                                                                
Query: 323 tccttttgtcacagctcaatctagacaaagttcaaacccagccagaggccgca 375
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275 tccttttgtcacagctcaatctagacaaagttcaaacccagccagaggccgca 223


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: 17
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: 376
Length of database: 776
Length adjustment: 9
Effective length of query: 367
Effective length of database: 767
Effective search space:   281489
Effective search space used:   281489
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= MSMg01no328_e08.g1 MSMg01no328_e08.g1 CHROMAT_FILE:
MSMg01no328_e08.g1 PHD_FILE: MSMg01no328_e08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:13:23 2005
         (371 letters)



>mm_chr12_57789295_57790065
          Length = 771

 Score =  694 bits (359), Expect = 0.0
 Identities = 368/371 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   cctgtggtccacagccaaagcaagtctcccaatccaggaaaaatcgctttctcttcgctt 60
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 201 cctgtggtccacagccaaagcaagtctcccaatccaggaaaaatcgctttctcttcactt 260

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

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

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

                                                                       
Query: 241 actttatctaacacgggcactttcaggtcactcgggcccactagctgtgctaataatcag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 actttatctaacacgggcactttcaggtcactcgggcccactagctgtgctaataatcag 500

                                                                       
Query: 301 tcctaattgtattgtttcagggcatctcccgattttgttcccaccacagtgctccggtga 360
           |||||||||||||||||||||||||||||||||||||||||||| | |||||||||||||
Sbjct: 501 tcctaattgtattgtttcagggcatctcccgattttgttcccactatagtgctccggtga 560

                      
Query: 361 cccacggagaa 371
           |||||||||||
Sbjct: 561 cccacggagaa 571


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: 15
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: 371
Length of database: 771
Length adjustment: 9
Effective length of query: 362
Effective length of database: 762
Effective search space:   275844
Effective search space used:   275844
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)