BAC Information

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BAC

Clone NameMSMg01-156J17
ChromosomeY (Build37)
Map Location 1,752,424 - 1,752,714
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401
Downstream geneLOC100039430, 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 nameMSMg01-156J17.T7 (MSMg01no156_j17.b1)MSMg01-156J17.TJ (MSMg01no156_j17.g1)
ACCAG357303AG357304
length750714
length of high quality
(start - end)
315 (46 - 360)288 (75 - 362)
definitionCHROMAT_FILE: MSMg01no156_j17.b1 PHD_FILE: MSMg01no156_j17.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:21:47 2005CHROMAT_FILE: MSMg01no156_j17.g1 PHD_FILE: MSMg01no156_j17.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:21:47 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTATTGTATCTTTTTTTATGATATGAAACATAACTCTCCCAAATTT
TCTAGATTTTAAACCTTCTTTACATTCTGTCCCTGCAATATGCTAATTTT
CCTTAGCTTGGCCATTCTGTCTGAGTTTTCTGACTAAGTACATTCTGGTG
TCTGAGAAGCCTTGATCATCTGTTAAACATTTTCTCACACAGGTTACATG
TATAGGGATGGTCAGCAATGTGGGTCAGCTGGTGCTTAATGAGGTGACAT
TTTTGAAGGAATGGTCTCCCACATTCAATACAGTTAAACAGGATTCTCTC
CTGTATAAAATCTTTTTTGTTCCACTCCCCCCCGCATTATGATTAAAGGT
TTTCTGGCAACAGGAACACCCACGCAGATTTATTTCTTAGTGAGTCAGAT
AATGTATTTTAAAATCTGAACGGTGTTTTTCTGTGTGTGAGGGTGCATGT
GTGTGTGTGTGTGTGTGTGTGATATCGCTCCCCAATCCTTCTCCCCCTTA
TTATTTATTCCCTCTCTTTCTCTCGTACTCTTTCTTCTCTCCTTCTCCTA
CCCCCTTTTCCGCCGCTTCCCCTTACTTTTACTCTCTTTCCTTTCCCCCC
CTTCTTTTTTCCTCCCTTTTCCCGCCTCCTCTTTTTTTTTCCTTCCCTTT
TTTTCCCCCCTTCTTTCCATTCTCCCCTCTTTTCCCTTGTCCTTTTTCCC

CGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXAAAGACTCATTTGGTCCCTGGAATGA
AGTTAACGGTCCCTCTGTAGGTTTAGAGAGGTCTAAAGGCTCTTCTGTGG
AAAGGGAAGATCCAAAAGGCTTAGGGAAGAAAGTGAGGAACTAAGTTGGG
CAGAAATTGCAAGTTCCAGAGGTGAGTCATTGGATATCACATGTCCTGGG
GTAGCTGTTGAAAATTTTTGTGCTCCTCATGCAAATGATGAATATCCTAG
AGCCCCCTGGGGAGGCAGCAATGTTTCTACAGAGCCTGTGTATTTGCTGA
AATCCTCAGAGATCCCTGGCCACATCTCACCAATCCTTGCTGTATTTTGA
GCAGGGTGGTTATATCCCTGCCACACTGGTAAAGATGGTGAGTCTGCTAC
TGTGTAGTGTGTAGATGTGGAGTGAGTTCCTATACCTTGTGTATGTAAAG
AAAGACTTGAAAACCTTTTGGAAGATGTAGAATGTTGGGTAGACCTTTGT
GGACATGTGGACAGATGTATGGTCCCCTTGTGCAGAGACCGGCCCTCACA
CATCCTTGAGCAGAATCAGAAGATCCTGCAGTCCTTTGTTCTGAGGATGA
CAGACCCAGAGGATTATGAGAACATCCATAGCATTGTGATGTATTCTTCA
TTGTCTGCGCTGAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no156_j17.b1 MSMg01no156_j17.b1 CHROMAT_FILE:
MSMg01no156_j17.b1 PHD_FILE: MSMg01no156_j17.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:21:47 2005
         (315 letters)



>mm_chrY_1752203_1752918
          Length = 716

 Score =  340 bits (176), Expect = 5e-98
 Identities = 264/294 (89%), Gaps = 7/294 (2%)
 Strand = Plus / Plus

                                                                       
Query: 22  tttttatgatatgaaacataactctcccaaattttctaga-ttttaaaccttctttacat 80
           |||||||||||  ||| ||||||||||||||||||||||| |||||| ||||||||| ||
Sbjct: 222 tttttatgatacaaaatataactctcccaaattttctagacttttaa-ccttctttatat 280

                                                                       
Query: 81  tctgtccctgcaatatgctaattttccttagcttggccattctgtctgagttttctgact 140
           |||||||||| |||||| |||||||||||||| |||  ||||||| ||||||| ||||||
Sbjct: 281 tctgtccctgaaatatggtaattttccttagcctgggaattctgtttgagtttcctgact 340

                                                                       
Query: 141 aagtacattctggtgtctgagaagccttgatcatctgttaaacattttctcacacaggtt 200
           | |||  ||||||||||||||||| ||||||| |||||||||| ||||||||||||||||
Sbjct: 341 atgtatgttctggtgtctgagaaggcttgatcgtctgttaaacgttttctcacacaggtt 400

                                                                       
Query: 201 acat-gtatagggatggtcagcaatgtgggtcagctggtgcttaatgaggtgacattttt 259
           |||| |||||||||||||||||||||||||||||||| || ||||||||||||||||| |
Sbjct: 401 acattgtatagggatggtcagcaatgtgggtcagctgttgtttaatgaggtgacatttct 460

                                                                 
Query: 260 gaaggaatggtctcccacatt-caatacagttaaacagga-ttctctcctgtat 311
           ||||||||||||||||| ||| || || |||||||  ||| |||||||||||||
Sbjct: 461 gaaggaatggtctcccaaatttcagtaaagttaaa--ggacttctctcctgtat 512


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: 6
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: 315
Length of database: 716
Length adjustment: 9
Effective length of query: 306
Effective length of database: 707
Effective search space:   216342
Effective search space used:   216342
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)