BAC Information

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BAC

Clone NameMSMg01-545L08
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,433
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546, Rhoay-ps2, LOC100039568, LOC100041505, LOC100039581, LOC676356, LOC667217, LOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-545L08.T7 (MSMg01no545_l08.b1)MSMg01-545L08.TJ (MSMg01no545_l08.g1)
ACCAG610705AG610706
length738732
length of high quality
(start - end)		668 (39 - 706)653 (69 - 721)
definitionCHROMAT_FILE: MSMg01no545_l08.b1 PHD_FILE: MSMg01no545_l08.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:26:45 2005CHROMAT_FILE: MSMg01no545_l08.g1 PHD_FILE: MSMg01no545_l08.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:26:45 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAG
TAAGAATGTTGCCTATTCAGTGGCATTCAGAATTGCCTCTGGTATTATAC
TACCACTTTGAATAAAAGCTAAGTCACTGCCCTACACAAGAATTTATCAT
CATCTAGGATGAAGGAAGTTTGAGACCTAAGGAGGAAGCAGAGTACATAT
TTAGAACTATAGATAGCTGAGTTCCACCCATATACACGTATTTACAATGG
CCTAGGGGGAAGGTGGTCTATACAATAGACTAAAATAGGAACTATAGCAA
GGGCACGAAGCCCTTGACCCTGGCTTCTAAGATTATGTGGATATTTGGTG
GAGCTCTTTTTGATCCCAGTTGTTAACAGTGAATTTTATCCCAGGTGTTT
CCTGTGAGAACTTCTGAGTTTGTATTCCTCCGTTTTCTGTAAGAATCCAG
TAACCTCTTTGTACCTTGCTTGTGTGTCACCCAACTTTCCTATTCTCTTC
TGTATAAAAAGTTTGATGCTCAATTTGACACATTACATTCAGATTCTACA
CAACCTCTTCTCTGTGTATCTATCTATCATTTCATCCAACGCTTTGCCCA
CCTGTGACTAGAGATCCGTTCCACGCAGACAAAGGGGCCCAGAGTGTCTG
CAGCATTCTGCTTAGTGGTTAGTTCCCCATGGTTTCATGCTTTCTCATAG
AGAACTCAGAACCACAAGCACATGGATGGCAGTATCAA

ATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXAAAACAAACAAAATCTCTTCAATCTGTCTCAC
CAATCATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCTCACA
ATGATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTTCATTTCTC
TACCAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCCCATCTAAT
ACCATCAGACACTTCTATGCATCAGAGGGTACAAGGTCTAGCTGTGTGCC
TTGCAGGTTGGGTAGAGCACTGTCAATATCCCTTCTCCTCCAGCAAACCC
TCTCAAGGCTCACAACGGTTGTCTTCCAGGATAAAATCTGATTGCCTAAG
AGAAGGAGCAAATCATCTCTGCTTGCTCTAATGTCTAAATGACATTGCAG
ATTAAGAAAAAACCTAGAGCTTCCCCAAGATTCTCAGTCCGGGAGCATTT
GGACAATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATTCTACAGAC
CAATGAATTGTCCCATTAGAAGCCACCTTTCCAGCAGGTAGCAGCAGCTC
CAACTGCTGTCTCCAAAGGCAGTTAAACAAAAGCAACCTGAAGAGGCAGG
TGAACTGCTCCTGGTCCCACCAAGGTGACTTTGGTTTCTGGTGGGAGGGG
GCAATTACATGCTGTATGAATTCTGTTCTGTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no545_l08.g1 MSMg01no545_l08.g1 CHROMAT_FILE:
MSMg01no545_l08.g1 PHD_FILE: MSMg01no545_l08.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:26:45 2005
         (653 letters)



>mm_chrY_1655631_1656678
          Length = 1048

 Score =  542 bits (280), Expect = e-158
 Identities = 532/622 (85%), Gaps = 26/622 (4%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaacaaacaaaatctcttcaatctgtctcaccaatcatacattaggtccaatg-cttgg 59
           |||||||||||||| |||||||  ||||||| |||| || |||||||||||||| | |  
Sbjct: 201 aaaacaaacaaaatgtcttcaaagtgtctcagcaattatgcattaggtccaatgtc-tca 259

                                                                       
Query: 60  gtgctttctgtttcaggctcacaatgatcaatggtatatacttt-ctaggttgtataact 118
           ||||| || | |||||||||||   ||| |||||| |||| ||| |||  ||||||||||
Sbjct: 260 gtgctctcagcttcaggctcac---gattaatggtttata-tttgctaccttgtataact 315

                                                                       
Query: 119 gcacttca-tttctctaccaggaacctttcctcagattctgtcctcatcaagaatcccat 177
           ||||| || ||| |||||| |||| ||| |||||||| ||||||||| |||| ||  |||
Sbjct: 316 gcactacagttt-tctacctggaaacttgcctcagatcctgtcctcagcaaggat--cat 372

                                                                       
Query: 178 -ctaataccatcagacacttctatgc-atcagagggtacaaggtctagctgtgtgccttg 235
            | || ||||||||| | |||||||| | ||||||| |||| ||||||||||||||| ||
Sbjct: 373 gc-aacaccatcagaaaattctatgcta-cagagggaacaaagtctagctgtgtgccatg 430

                                                                       
Query: 236 caggttgggtagagcactgtcaatatcccttctcctccagcaaaccctctcaag-gctca 294
           ||| |||| ||||||||||||||||||||||||||||||||||||||||||||  |||||
Sbjct: 431 cagtttggttagagcactgtcaatatcccttctcctccagcaaaccctctcaaatgctca 490

                                                                       
Query: 295 caacggttgtcttccaggataaaatctgattgcctaagagaaggagcaaatcatctctgc 354
           ||| | |||||||||| || ||| ||||| ||||||| |||||||||||| ||||||  |
Sbjct: 491 caaagtttgtcttccaagacaaa-tctgagtgcctaaaagaaggagcaaagcatctccac 549

                                                                       
Query: 355 ttgctctaatgtctaaatgacattgcagattaagaaaaaacctag-agcttccccaagat 413
           |||||| ||| |||||||| ||||||||||||||||||  ||||| || |||||||||||
Sbjct: 550 ttgctccaatatctaaatgccattgcagattaagaaaatccctagcag-ttccccaagat 608

                                                                       
Query: 414 tctcagtccgggagcatttggacaatccattactttcatagggtccaaaattgtttgaat 473
           ||||||||| ||||||||||| ||||| ||||||||||||||||||||| ||||||||||
Sbjct: 609 tctcagtccaggagcatttgggcaatctattactttcatagggtccaaacttgtttgaat 668

                                                                       
Query: 474 tctacagaccaatgaattgtcccattagaagccacctttccagcaggtagcagcagctcc 533
           ||| |||||||||| ||||| ||||||||||||| ||  ||||||||||||||| |||||
Sbjct: 669 tctgcagaccaatgcattgttccattagaagccaactcaccagcaggtagcagctgctcc 728

                                                                       
Query: 534 aactgctgtctccaaaggcagttaaacaaaagcaacctgaagaggcaggtgaactgctcc 593
           ||||||||||||||| ||||  ||||||||||||       ||||||||||| ||  |  
Sbjct: 729 aactgctgtctccaatggcacctaaacaaaagca-------gaggcaggtgatcttataa 781

                                 
Query: 594 tggtcccaccaaggtgactttg 615
           ||||||||||||||||||||||
Sbjct: 782 tggtcccaccaaggtgactttg 803


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: 10
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: 653
Length of database: 1048
Length adjustment: 10
Effective length of query: 643
Effective length of database: 1038
Effective search space:   667434
Effective search space used:   667434
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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