BAC Information

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BAC

Clone NameMSMg01-339P08
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,362
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 nameMSMg01-339P08.T7 (MSMg01no339_p08.b1)MSMg01-339P08.TJ (MSMg01no339_p08.g1)
ACCAG454116AG454117
length742715
length of high quality
(start - end)		540 (53 - 592)537 (60 - 596)
definitionCHROMAT_FILE: MSMg01no339_p08.b1 PHD_FILE: MSMg01no339_p08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:28:54 2005CHROMAT_FILE: MSMg01no339_p08.g1 PHD_FILE: MSMg01no339_p08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:28:54 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NNNTTTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXCGCGGAATTCACTATTGTCTTTTAGTAGATTTCAATATCATATGAAGT
ACCAGAAAAATGAGTGAAAAATGACAGTGGTGAGATGTGTTTAGAATCAT
TAAATTACACACTTAAAAATAAATAAATCAATGGATTTATATAGTACATA
AATAAAACTCCAATAAAACTTCTGAAAAGGCTTAACTAAATGTGATGCTT
CTCATGTGAGTTGTTATTTGTCATAGCACCTGTGATTTAGCTGTTAATAG
TAGTGGGTTTTATTACTTATGAATCAGACACCAATACATCCATGAAGGGG
TAACACTCCATTCCCTCAGGAGAAATAAATCAATTAAAAGTCATTGGATT
AATTGATGAGAATTTTTTCTGGTTAAAGCTGACTTGGCAGGAAGTTGGAC
AGATTGGAGTGTCTCCCAGAAAGTGTAACACACATTAGAATGTAGGTGTT
GTGAGGCTATAAGACATATTCACTACTTGTCACCTATTATTGAGTATTCT
TGCTGTTGGAGGTACTTACCCTTCACTTCTGCCATGGAGGGAAGTGGGTC
TATACCTAGTCAGAAGGAGGAGATTGGGATGAATAATGTTTGTGTGGGTT
ATGGCACACGCAACAACTCTTTTGTGTTGGTATATTTCTTTACCCCAACT
TTCCATTTATCCTCCCCTAATGTATAATAATCCTTCTCTTAN

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXAAAACAAACAAAATCTCTTCAATCTGTTTCACCAATCATAC
ATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCTCACAATGATCAAT
GGTATATACTTTCTAGGTTGTATAACTGCACTTCATTTCTCTACCAGGAA
CCTTTCCTCAGATTCTGTCCTCATCAAGAATCCCATCTAATACCATCAGA
CACTTCTATGCATCAGAGGGAACAAGGTCTAGCTGTGTGCCTTGCAGGTT
GGGTAGAGCACTGTCAATATCCCTTCTCCTCCAGCAAACCCTCTCAAGGC
TCACAACGGTTGTCTTCCAGAATAAAATCTGATTGCCTAAGAGAAGGAGC
AAATCATCTCTGCTTGCTCTAAGGTCTAAATGACATTACAGATTAAGAAA
AAACCTAGAGCTTCCCTAAGATTCTCAGTCCGGGAGCATTTGGACAATCC
ATTACTTTCATAGGGTCCAAAATTGTTTGAATTCTACAGACCAATGAATT
GTCCCATTAGAAGCCAACTTTCCAGCAGGTAGCAGCAGCTCCAACTGTTG
TCTCCCAAGGCAGTTAAACAAAAAGAACCCTGAAAAGGCATGTGAACTGC
TCCTGGTCCCACCAAGGTGAATTTTGGTTTCTGGTGGGAAGGGGCAATTA
TATGCTGTGAAAACN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no339_p08.g1 MSMg01no339_p08.g1 CHROMAT_FILE:
MSMg01no339_p08.g1 PHD_FILE: MSMg01no339_p08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:28:54 2005
         (537 letters)



>mm_chrY_1655631_1656562
          Length = 932

 Score =  466 bits (241), Expect = e-135
 Identities = 467/545 (85%), Gaps = 21/545 (3%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaacaaacaaaatctcttcaatctgtttcaccaatcatacattaggtccaatg-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-atcagagggaacaaggtctagctgtgtgccttg 235
            | || ||||||||| | |||||||| | |||||||||||| ||||||||||||||| ||
Sbjct: 373 gc-aacaccatcagaaaattctatgcta-cagagggaacaaagtctagctgtgtgccatg 430

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

                                                                       
Query: 295 caacggttgtcttccagaata-aaatctgattgcctaagagaaggagcaaatcatctctg 353
           ||| | ||||||||||  | | |||||||| ||||||| |||||||||||| ||||||  
Sbjct: 491 caaagtttgtcttcca--agacaaatctgagtgcctaaaagaaggagcaaagcatctcca 548

                                                                       
Query: 354 cttgctctaaggtctaaatgacattacagattaagaaaaaacctag-agcttccctaaga 412
           ||||||| ||  |||||||| |||| |||||||||||||  ||||| || ||||| ||||
Sbjct: 549 cttgctccaatatctaaatgccattgcagattaagaaaatccctagcag-ttccccaaga 607

                                                                       
Query: 413 ttctcagtccgggagcatttggacaatccattactttcatagggtccaaaattgtttgaa 472
           |||||||||| ||||||||||| ||||| ||||||||||||||||||||| |||||||||
Sbjct: 608 ttctcagtccaggagcatttgggcaatctattactttcatagggtccaaacttgtttgaa 667

                                                                       
Query: 473 ttctacagaccaatgaattgtcccattagaagccaactttccagcaggtagcagcagctc 532
           |||| |||||||||| ||||| ||||||||||||||||  ||||||||||||||| ||||
Sbjct: 668 ttctgcagaccaatgcattgttccattagaagccaactcaccagcaggtagcagctgctc 727

                
Query: 533 caact 537
           |||||
Sbjct: 728 caact 732


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: 537
Length of database: 932
Length adjustment: 10
Effective length of query: 527
Effective length of database: 922
Effective search space:   485894
Effective search space used:   485894
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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