BAC Information

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BAC

Clone NameMSMg01-101N24
Chromosome9 (Build37)
Map Location 48,680,107 - 48,744,585
singlet/doubletdoublet
Overlap geneHtr3a, Htr3b
Upstream geneLOC100043303, D930028F11Rik, 4432416J03Rik, EG640268, EG434401, LOC667933, Rexo2, Rbm7, EG434402, Nnmt, Zbtb16
Downstream geneUsp28, LOC100042785, Zw10, EG629400, Tmprss5, EG235327, Drd2, Ankk1, Ttc12, Ncam1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-101N24.T7 (MSMg01no101_n24.b1)MSMg01-101N24.TJ (MSMg01no101_n24.g1)
ACCAG317171AG317172
length716712
length of high quality
(start - end)		665 (50 - 714)443 (78 - 520)
definitionCHROMAT_FILE: MSMg01no101_n24.b1 PHD_FILE: MSMg01no101_n24.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:00:15 2005CHROMAT_FILE: MSMg01no101_n24.g1 PHD_FILE: MSMg01no101_n24.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:00:15 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(48,743,923 - 48,744,585)(48,680,107 - 48,680,549)
sequence
NAACTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCAGAGGAGCCG
CGGAATTCCAGCATATATGCCCGCACGTGCGTGCACACACACAGAGGACG
CATCGCACTATACACACAGAGACTGCACATAAAGATGGGGGAGGAAGATG
AATAGTCGGGTTCTGGTTCCTTTATGTAAAGAGCTTTGAGAATCATCCTA
GCTCTAGATAGATGCAGCCTCCACACACCCCTCAACACAGTGCAGCTCTG
CCACATTCCCTGAGCTTTCCCTCAACCTGCCTGTGCCTCTTCTGACCAGG
CAGGGTGAGAGTCCCCAATTCCAGCAAAGACTTTTCCTTAAAGAATAAGA
ACAAGTAGCTCCTGGTTCATTCAGAGTGCTCCCCTCTATCACACAGAGTC
CCCGGTCCATCAGGAGCACCGGGTCCCATCAGATACTCTGAAGGATTTCT
GGTTCCAGTTCCGGTCCATCAACAACTCTCTTCGAACTCGGGATCAGATT
CACCAGAAGGAGGTGGAGTGGCTGGCCATCCTGTATCGCTTTGATCAGCT
GCTCTTCCGAATCTACCTTGCCGTGCTGGGGCTCTATACCGTCACCTTAT
GCTCTCTCTGGGCACTGTGGAGCAGAATGTGACAATGGAGACCGCTGGTC
TCACTTGATATGGGGTTACAACATGTAGGGAAAGCTGAACAGTGCTTGGA
GAGGGTCTGAAAAGAA

CCCCGATGCAGTGCGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXCACAGAAATGATAGAGCTGTGTATT
AAACATACAGCGTGATGTGAATGTAGGGCAATGAAGATCTTAAGTAGACC
ATGGCTCCCTGGAAGTGAGTCCAGATCATAACGGCTTGCAATTTGATGTG
AGTTGAACACCCAGCTCTGTGCTTCAAGTCTTTGGGCAAATTCAAGAAGG
CAGAAGAAATAGCTCCTGACCATAAGGCACGATCAGTCTAGCTAGAGACG
CCACGGGACACAAAGGAACCAGAGGATACTAGGTCAGGTAGGTCACTGAG
GTAGGGTATGAAACTTATACCTGGTCCTGTGGACTCCTACTGACGGCCTT
CAGTTTCTCTAGATTGGAAATTACATTAAATGAGACAGATGCACACCATG
GAAAGAGGGCCTTAGTGATGATCACCAAGGCCCCGGGGTGACCTTTCTCA
AGGTCAGGTCATGATTAAAAAAAAAGAAAAGTCTAACAGATAGCCCTGAG
CTGGCTAGTCCATGCCACTGGGGCTTGTGGCCAAGTCAGTGGCCTCTAAG
AGCTCAAATCTCCCTGTTCTGGTGGAGATGGAAAAAGTCTTTCCAGGCCG
AGAGCCTCTGTCCAATTGGGTAAGTGTTGAAATGAAGTACATTAAGTGCA
CAGTTAATACTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no101_n24.b1 MSMg01no101_n24.b1 CHROMAT_FILE:
MSMg01no101_n24.b1 PHD_FILE: MSMg01no101_n24.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:00:15 2005
         (665 letters)



>mm_chr9_48743721_48744785
          Length = 1065

 Score = 1243 bits (643), Expect = 0.0
 Identities = 658/663 (99%)
 Strand = Plus / Minus

                                                                       
Query: 3   ggaattccagcatatatgcccgcacgtgcgtgcacacacacagaggacgcatcgcactat 62
           |||||||||||||||| || |||||||||||||||||||||||||||||| |||||||||
Sbjct: 865 ggaattccagcatataagcacgcacgtgcgtgcacacacacagaggacgcgtcgcactat 806

                                                                       
Query: 63  acacacagagactgcacataaagatgggggaggaagatgaatagtcgggttctggttcct 122
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 805 acacacagagactgcacacaaagatgggggaggaagatgaatagtcgggttctggttcct 746

                                                                       
Query: 123 ttatgtaaagagctttgagaatcatcctagctctagatagatgcagcctccacacacccc 182
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 ttatgtaaagagctttgagaatcatcctagctctagatagatgcagcctccacacacccc 686

                                                                       
Query: 183 tcaacacagtgcagctctgccacattccctgagctttccctcaacctgcctgtgcctctt 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 tcaacacagtgcagctctgccacattccctgagctttccctcaacctgcctgtgcctctt 626

                                                                       
Query: 243 ctgaccaggcagggtgagagtccccaattccagcaaagacttttccttaaagaataagaa 302
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 ctgaccaggcagggtgagagtccccaattccagcaaagacttttccttaaagaataagaa 566

                                                                       
Query: 303 caagtagctcctggttcattcagagtgctcccctctatcacacagagtccccggtccatc 362
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 caagtagctcctggttcattcagagtgctcccctctatcacacagagtccccggtccatc 506

                                                                       
Query: 363 aggagcaccgggtcccatcagatactctgaaggatttctggttccagttccggtccatca 422
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 aggagcatcgggtcccatcagatactctgaaggatttctggttccagttccggtccatca 446

                                                                       
Query: 423 acaactctcttcgaactcgggatcagattcaccagaaggaggtggagtggctggccatcc 482
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 acaactctcttcgaactcgggatcagattcaccagaaggaggtggagtggctggccatcc 386

                                                                       
Query: 483 tgtatcgctttgatcagctgctcttccgaatctaccttgccgtgctggggctctataccg 542
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 tgtatcgctttgatcagctgctcttccgaatctaccttgccgtgctggggctctataccg 326

                                                                       
Query: 543 tcaccttatgctctctctgggcactgtggagcagaatgtgacaatggagaccgctggtct 602
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 tcaccttatgctctctctgggcactgtggagcagaatgtgacaatggagaccgctggtct 266

                                                                       
Query: 603 cacttgatatggggttacaacatgtagggaaagctgaacagtgcttggagagggtctgaa 662
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 cacttgatatggggttacaacatgtagggaaagctgaacagtgcttggagagggtctgaa 206

              
Query: 663 aag 665
           |||
Sbjct: 205 aag 203


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: 35
Number of extensions: 2
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: 665
Length of database: 1065
Length adjustment: 10
Effective length of query: 655
Effective length of database: 1055
Effective search space:   691025
Effective search space used:   691025
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= MSMg01no101_n24.g1 MSMg01no101_n24.g1 CHROMAT_FILE:
MSMg01no101_n24.g1 PHD_FILE: MSMg01no101_n24.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:00:15 2005
         (443 letters)



>mm_chr9_48679907_48680749
          Length = 843

 Score =  841 bits (435), Expect = 0.0
 Identities = 441/443 (99%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 accagaggatactaggtcaggtaggtcactgaggtagggtatgaaacttatacctggtcc 300
           ||||||||| |||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 441 accagaggacactaggtcaggtaggtcactgaggtagggtatgaaacttagacctggtcc 500

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

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

                                  
Query: 421 tcaaggtcaggtcatgattaaaa 443
           |||||||||||||||||||||||
Sbjct: 621 tcaaggtcaggtcatgattaaaa 643


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: 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: 443
Length of database: 843
Length adjustment: 10
Effective length of query: 433
Effective length of database: 833
Effective search space:   360689
Effective search space used:   360689
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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