BAC Information

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BAC

Clone NameMSMg01-411C14
Chromosome13 (Build37)
Map Location 45,725,101 - 45,933,103
singlet/doubletdoublet
Overlap geneAtxn1
Upstream geneJarid2, Dtnbp1, Hsp25-ps1, LOC100039502, LOC667204, LOC100039533, Mylip, Gmpr
Downstream gene5033430I15Rik, ENSMUSG00000062282, Gm1574, Rbm24, Cap2, C78339, Nup153, Kif13a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-411C14.T7 (MSMg01no411_c14.b1)MSMg01-411C14.TJ (MSMg01no411_c14.g1)
ACCAG508239AG508240
length746751
length of high quality
(start - end)
486 (72 - 557)506 (77 - 582)
definitionCHROMAT_FILE: MSMg01no411_c14.b1 PHD_FILE: MSMg01no411_c14.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:28:07 2005CHROMAT_FILE: MSMg01no411_c14.g1 PHD_FILE: MSMg01no411_c14.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:28:07 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(45,725,101 - 45,725,585)(45,932,598 - 45,933,103)
sequence
TCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCATAGTTTCCATGCCTCAAGCTCTCCATATCAAGATCCAGGTCAGA
AACTTCTATCTCTCAGCCTCCAGATTAGGATCACTGGTGAGCCTTCCAGT
TCTGGATTGTAGTTCATTACAGATATAGTCAAGTTGACAACCAGAGATAG
CCACTACAGCTATGTAAGAGGTCCTTTATTTGGAAATCCTCCTGCCCCTG
CACAGTGAGATAGCTTTCTCTGGGGACTCTGTTCCTTGATTTTATCTTTC
TACCAATTTTCCTGGTTTTTTGGCTCCATATTGAGAACAATTAACGGATG
CTAAGCTGTGTAAGGGTAGTGGAGGAGGCTGACATTAATGAAGGCTTGGG
TCAGAAGGACCCAAGGCTCAACTCCTGTTCCCTGGTCTCTCTGTCATTTG
ACAGGAGCCTCTAAAAACCCTCCTAGCTCACTGGCCACTGGACCTGCATC
TCCTTTACTCCTTCCCCCTTTGCAAGTGTGAAGCTGACCTTACTCTGTTA
TTTTTTGTTTGTTTGTTTGGCTGGTTGCCTTCGCTTTTTTCTATTTTCCT
TCCTTTGTTTATTTTCTTCTGCCCTGTTTCTCCTTCTCTTCTTTTTTTTT
TTTCCCCACTTTTCTCGTTCATTCGTTTCTGTCCCTTTCCCCCTTGTCCC
TCTTTCCACCCTCTATTCCCCCTCCTTTTCCTTTCCCTTCTTTCCC
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCCCCATCTGACTTTCCTCTCAGTT
CGAGTCGGGTATAGCCTGGCAGGCTCCCTTAGGAACTGAGCAAAATCGAA
CTGGCTAGCTCCTTAGCTTGTCCCACCCCTCCTCAAGAAAAATTAATTTC
GTTGCTACTGCGTGAGACGATTTCTCTGTCTTTCAGCATGGAAACTTGAA
TGTGGGTTCTCCTGCTAGGCAGTCACTTGTTGCTGGTGACTGATTTGTTG
AAGAGTTGCTGATTTCTATTGTGCGGAATTGGTTTCTTCCTTTTTTTCTT
TTTTCCGGAGTTCCTTAAGTTCCTAGTCTGGTGTTTGGAAGAAAAGATAA
TTTAATGTAGGCTATTTGTTTTATTGCGTTCAATAATCAAAAAGTAACAT
TTCTGGCAGGGGCAACACTGGGAGAGGAAATACTTTGAAAGTATAAACCT
GTTTTCAAAAAGATGCGATCAAGCACTTGCCTGTAAAAAGGTGCAGAATG
AATCAATGGTGGCATGTGTCAGCCAATTAAAGGTTCTGTTGGCTTACTGC
ACGGATTTTGCCATAATTTTATTGCTTGCGAAGACCATTCATGTTTTCTC
ATTATGCCCCAAAACACTGCATCTTTTCCTGACGGTAAATATTGATGAAC
TATGTCCATGGGCCGCTGTTGTTTTTAAAAATTGCCCCCCGTATTCTTTT
N
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no411_c14.b1 MSMg01no411_c14.b1 CHROMAT_FILE:
MSMg01no411_c14.b1 PHD_FILE: MSMg01no411_c14.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:28:07 2005
         (486 letters)



>mm_chr13_45724901_45725786
          Length = 886

 Score =  884 bits (457), Expect = 0.0
 Identities = 478/485 (98%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 ctggttttttggctccatattgagaacaattaacggatgctaagctgtgtaagggtagtg 300
           |||||   ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ctggtcagttggctccatattgagaacaattaacggatgctaagctgtgtaagggtagtg 500

                                                                       
Query: 301 gaggaggctgacattaatgaaggcttgggtcagaaggacccaaggctcaactcctgttcc 360
           ||||||||||||||||||||||||||||||||||||| | ||||||||||||||||||||
Sbjct: 501 gaggaggctgacattaatgaaggcttgggtcagaagggctcaaggctcaactcctgttcc 560

                                                                       
Query: 361 ctggtctctctgtcatttgacaggagcctctaaaaaccctcctagctcactggccactgg 420
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 561 ctggtctctctgtcatttgacaggagcctctaaaaaccctcctagctccctggccactgg 620

                                                                       
Query: 421 acctgcatctcctttactccttccccctttgcaagtgtgaagctgaccttactctgttat 480
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 acctgtatctcctttactccttccccctttgcaagtgtgaagctgaccttactctgttat 680

                
Query: 481 ttttt 485
           |||||
Sbjct: 681 ttttt 685


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: 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: 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)
Query= MSMg01no411_c14.g1 MSMg01no411_c14.g1 CHROMAT_FILE:
MSMg01no411_c14.g1 PHD_FILE: MSMg01no411_c14.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:28:07 2005
         (506 letters)



>mm_chr13_45932398_45933303
          Length = 906

 Score =  919 bits (475), Expect = 0.0
 Identities = 499/507 (98%), Gaps = 2/507 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   ccccatctgactttcctctcagttcgagtcgggtatagcctggcaggctcccttaggaac 60
           |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 706 ccccatctgactttcctctcagttcgagtcgggtatagcctggcaggctcgcttaggaac 647

                                                                       
Query: 61  tgagcaaaatcgaactggctagctccttagcttgtcccacccctcctcaagaaaaattaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 646 tgagcaaaatcgaactggctagctccttagcttgtcccacccctcctcaagaaaaattaa 587

                                                                       
Query: 121 tttcgttgctactgcgtgagacgatttctctgtctttcagcatggaaacttgaatgtggg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 586 tttcgttgctactgcgtgagacgatttctctgtctttcagcatggaaacttgaatgtggg 527

                                                                       
Query: 181 ttctcctgctaggcagtcacttgttgctggtgactgatttgttgaagagttgctgatttc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 526 ttctcctgctaggcagtcacttgttgctggtgactgatttgttgaagagttgctgatttc 467

                                                                       
Query: 241 tattgtgcggaattggtttcttcctttttttcttttttccggagttccttaagttcctag 300
           || ||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 466 tagtgtgcggaattggtttcttcctttttttcttttttcctgagttccttaagttcctag 407

                                                                       
Query: 301 tctggtgtttggaagaaaagataatttaatgtaggctatttgttttattgcgttcaataa 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 406 tctggtgtttggaagaaaagataatttaatgtaggctatttgttttattgcgtccaataa 347

                                                                       
Query: 361 tcaaaaagtaacatttctggcaggggcaacactgggagaggaaatactttgaaagtataa 420
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 346 tcaaaaagtaacatttccggcaggggcaacactgggagaggaaatactttgaaagtataa 287

                                                                       
Query: 421 acctgttttcaaaaagatgcg-atcaagcacttgcctgtaaaaaggtgcagaatgaatca 479
           ||||||||||||||||||| | ||||||||||||||||||||||||||||||||||||||
Sbjct: 286 acctgttttcaaaaagatg-gaatcaagcacttgcctgtaaaaaggtgcagaatgaatca 228

                                      
Query: 480 atggtggcatgtgtcagccaattaaag 506
            ||||||||||||||||||||||||||
Sbjct: 227 gtggtggcatgtgtcagccaattaaag 201


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: 506
Length of database: 906
Length adjustment: 10
Effective length of query: 496
Effective length of database: 896
Effective search space:   444416
Effective search space used:   444416
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)