BAC Information

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BAC

Clone NameMSMg01-494P10
ChromosomeY (Build37)
Map Location 1,266,154 - 1,266,755
singlet/doubletsinglet
Overlap genenone
Upstream geneJarid1d, Eif2s3y, Tspy-ps, Uty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079
Downstream geneLOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-494P10.T7 (MSMg01no494_p10.b1)MSMg01-494P10.TJ (MSMg01no494_p10.g1)
ACCAG572119AG572120
length725731
length of high quality
(start - end)
609 (67 - 675)589 (67 - 655)
definitionCHROMAT_FILE: MSMg01no494_p10.b1 PHD_FILE: MSMg01no494_p10.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:19:56 2005CHROMAT_FILE: MSMg01no494_p10.g1 PHD_FILE: MSMg01no494_p10.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:19:56 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTGACT
ACCGCCATCTAGNCCCAGGGTTGTTTTGGTGGGAGATTATCATGATTGGT
TCTATTTCTTAAGGTGTTAAGGTGCTGTTTAGATGGTTTATCTTATGGAT
TTGGTATATGTCTAGATAATTGCATATTTCACTCGTCTTTTGCAGCGTTT
TTTTTAATTATTCATTACTTAAATATGAAGTTTATTCATTTCAAGTTTTT
TTTTCCAGGCTGCATTCCATGGAATATCTTTGGCTGAACTGGAATTTGCT
CTATATACGAGACTGACAAGGAATTTAGAGATTTTCCTGCCTCAGCATAA
TAAGTCCTGGGATTAAATGTGTGTTTGCCCCCATTCCCTGGCACCTAGGA
ATCAATTTTGAAGACTACTTACATACCTTCATATAGTTCAAACCTTATAA
TATTCCAAAATGGAAGCCTATCACAGTGATTCCTGCTTTTAACCAGAGGA
CTATGGGTCTTATGAAATCATATCTCTTTTGACTTCTAAGAAAGCCATAC
ATACATAGCCAATTTGAGGCCAGCCAGTGCTAATCAATACATTTTGGCCA
AAATGGAAAGAAAAAAAAAAAACACAAGTGAAAGTGCCTTTCTTATTTTA
AGAATGGGCTACATTATAATAACACACACACTCAATCACATTCAGACTCA
CAGAAACAGACAGACACGCCCAGAA
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXCATCAAAAAAATTGTATGAAGTTCTCAAGGAATTA
ATTAATGTAGTTCTTAATATACAATGTCTTTACTGAACATATACAGACCA
CTTATATTTCAATCTCCTAAATAGCAACTCATTTTATAGCACTTACATTA
CATTAAGTGCAAAAGTAATCCAGAGATTATTTAAAATAAAGAAGGATCAG
GGGATATGGCCCAGAGACAATGCCATGTGTGTGTTCAAACATTCACCTAC
AACACCAGTGCTTATGATTTTGGGAGGGGCAGAGATAGGAAGATGACTGT
GGCTTCCTGAAAGCCAGCTCAGCAAGAAACCCAGTCACAAGGGGATAAGT
TATGTAGGAAAAGAGTAGATCACACTATACCCTTCCCTAGCCTCTGAACT
TACCTGTACAGTTCTCTATGCAGACTCACATAAATATGATTAAAATATGC
AAGAGGTTATTTTGCATAGCTTATATTCAAAAGCAATGTTGTTTTAGACT
AGAAACCTGAGGACTTTATATCATTATAGTTTCTGGAGCAAACTCCCAAG
ATATAGATGATGGGTATATCTTCTTACTGTGCAAAGGAAACCTCAGTTAA
GTGTGTGTGTCAGTGACTCCAAACAGCTTTCCTCCTCTATGTTCCTTTAT
ATAGCATAGAATGATCTGTAAATAATGAAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no494_p10.g1 MSMg01no494_p10.g1 CHROMAT_FILE:
MSMg01no494_p10.g1 PHD_FILE: MSMg01no494_p10.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:19:56 2005
         (589 letters)



>mm_chrY_1265964_1266955
          Length = 992

 Score =  514 bits (266), Expect = e-150
 Identities = 518/614 (84%), Gaps = 37/614 (6%)
 Strand = Plus / Plus

                                                                       
Query: 1   atcaaaa-aaattgtatgaagttctcaaggaattaattaatgtagttcttaatatacaat 59
           ||||||| | |||||||||| |||||||||||||||| || |||||||||||||||| ||
Sbjct: 191 atcaaaatatattgtatgaaattctcaaggaattaatgaaagtagttcttaatataccat 250

                                                                       
Query: 60  gtctttactgaacatatacagaccacttatatt-tcaatctcctaaatagcaactc--at 116
           |||| |||||||||||||||||||||||||||| ||| ||||||||||| ||||||  ||
Sbjct: 251 gtctgtactgaacatatacagaccacttatattgtca-tctcctaaataacaactcctat 309

                                                                       
Query: 117 tttatagcacttacattacattaagtgcaaaagtaatccagagattatttaaaataaaga 176
              |||||| || |||| ||||||| |||||||| |||||||||| ||||||||||||||
Sbjct: 310 ---atagcagtttcattgcattaagggcaaaagtcatccagagatcatttaaaataaaga 366

                                                                       
Query: 177 aggatcaggggatatggcccagag--acaatgcca-tgtgtgtgttcaaacattcaccta 233
           |||||||||  | ||||||||| |  | || |||| | ||| || ||| |||||||||||
Sbjct: 367 aggatcaggcaagatggcccaggggta-aa-gccaat-tgtttggtcagacattcaccta 423

                                                                       
Query: 234 caacaccagtgcttatgattttgggaggggcagagataggaagatgactgtggcttcctg 293
            |||| ||||||| | |||   |||||||||||||| || |||| |||||||||||||||
Sbjct: 424 taacaacagtgctcaggatg--gggaggggcagagacagaaagaagactgtggcttcctg 481

                                                                       
Query: 294 aaagccagc------------tcagcaagaaacccagtcacaaggggataagttatgtag 341
           ||||| |||            |||||||||||||| |||| ||||| | || ||| | ||
Sbjct: 482 aaagcaagcctcactcctaggtcagcaagaaaccctgtcataagggaacaaattagggag 541

                                                                       
Query: 342 -gaaaagagtagatcacactatacccttccctagcctctgaacttacctgtacagttctc 400
            |||  ||| ||| |||||| |||| |||||| ||||||||| |||||||||||| ||| 
Sbjct: 542 tgaag-gagcagaacacactgtacctttccctggcctctgaatttacctgtacaggtctg 600

                                                                       
Query: 401 tatgcagactcacataaatatgattaaaatatgcaagaggttattttgcatagcttatat 460
           |||||| || |||||||||||||||||| ||| |||||||||| ||||||||| ||||||
Sbjct: 601 tatgcacacacacataaatatgattaaagtatacaagaggttactttgcatagattatat 660

                                                                       
Query: 461 -tcaaaagcaatgttgttttagactagaaacctgaggacttt-atatcattatagtttct 518
            | ||||||||||||||||||| ||||| ||||||||||||| |||||||||  | | ||
Sbjct: 661 gt-aaaagcaatgttgttttagcctagagacctgaggacttttatatcattaggggtcct 719

                                                                       
Query: 519 ggagcaaactcccaagatatagatga---tgggtatatcttcttactgtgcaaaggaaac 575
           ||||||||||||| | ||||||| ||   |||||||||||||||||||||||||||||||
Sbjct: 720 ggagcaaactccccatatataga-gagaatgggtatatcttcttactgtgcaaaggaaac 778

                         
Query: 576 ctcagttaagtgtg 589
           ||||||||||||||
Sbjct: 779 ctcagttaagtgtg 792


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: 9
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: 589
Length of database: 992
Length adjustment: 10
Effective length of query: 579
Effective length of database: 982
Effective search space:   568578
Effective search space used:   568578
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)