BAC Information

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BAC

Clone NameMSMg01-261J10
ChromosomeY (Build37)
Map Location 1,883,884 - 1,884,367
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210
Downstream geneUbe1y1-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, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-261J10.T7 (MSMg01no261_j10.b1)MSMg01-261J10.TJ (MSMg01no261_j10.g1)
ACCAG403931AG403932
length776730
length of high quality
(start - end)		394 (47 - 440)471 (75 - 545)
definitionCHROMAT_FILE: MSMg01no261_j10.b1 PHD_FILE: MSMg01no261_j10.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:58:01 2005CHROMAT_FILE: MSMg01no261_j10.g1 PHD_FILE: MSMg01no261_j10.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:58:01 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTGCGAATACGCGGA
ATTCAAACAGAGCTGTCACCAAAAGATAGAGACAAAGATAGAGGAAAGTT
ATAGAAAAAGATAGAGACAAAGATACAGACAAAGATAGAATCCTACCTCC
AAGCAGGGTCTCTGAGAATTGGGGTAGGCCACAAATCATGGTGGAGAAGC
CCCCAAATGTAAGACCTCAGAAGCTGGGCCTCCTCTCAAGTCCTGGAATG
AGCTGGCCAGCACCCCAATGACCCAAGAGAAAACCACAACTGACGCAAAC
TGCAAGAGTTTTTACTATTAGCTGGCTGAGGACAAAGTCACTCTGCCTAG
CAGGGCAGGGGAGTTTGACACCGAGCTGTGACAGTAAGGGGCTTTTAACA
GCTAGCTGAGGAATTGGGAGGAGTTGGGAGGAGAGTTGGGTAGGATTTTC
TTCTCTTCTTTATTTTCCCCTTTCTTGTTCCCCCCTTCTCTCATTTTTTA
TCTTCCCTTATTTCTTGTCTATACATGTTTCTCCATTTTCTTATTCACAT
CTCCTTATCTTCCCCTTCTTTTTTTGGATAATCGCCCCGTTATCCTTTTA
TCGTCATTCACTTACAATGGTATCCGTTTTTTTTTTTTTTTTTTTTCTCT
CAACCTCTTTTCTTCTCTCATCTTTATTTTATACCCCTTTACCTCCCTTC
TTCCACTTTTTCTTTCTTTTATTCTTCCTTTTTTTCTTATCCTTTCTCTA
ACATCCCCACCCCCCTTATATTTTCN

CATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTTGTGAGATGATGTCATCACAGAGGG
AACCAATGGGCTAGAAAGAGAAAAGAGAGAGCCAAACTCCCTTTCATAAT
TAAAACTTTTCTATAACAGCATTATTAAATTATTTTTATATGTAAGTCAT
ATCCCTCCTGACCCATTCAATTTCTTCCAAATATATTCACACCTGGGGAT
TAATCTTCAGAAAATTATTCTTGGGAAACACATGTGATTATTTCAACATC
TATAGTAGTGTGGGGGCATTATTCTCCCTACGTCATGTACACTTAATATC
TTTAGATACCTCCTTCCCTGTGATAGCCTTGCAGCTCACTGAGTGACATG
TGCATTTGATGATAAATGATACACAAACATTGAAGCACCTTACCATATCC
TGTCACCCATATCATGTACAACATAGCAAGAACCACACCTGAGTTGAAAA
ATACAAATATATTTTATAGTGTCTTGAAGCTAAAATCCCCAAATTAATCA
AAATATTATTTGGACTCTGTTACTTTATACCAGTGTTTTTTTAAGTGTAC
AAGTCGCAGGCCTTTTCTGTGACCCTTTGCACAGGTTTATAGTGTCCTTT
TTACCAATCTTCATCCTCCCCCACTATCCTCCCATTGGGATCAAATCCCC
CCCCGGTTGCTGCGGCTTACTCTTCCCAAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no261_j10.g1 MSMg01no261_j10.g1 CHROMAT_FILE:
MSMg01no261_j10.g1 PHD_FILE: MSMg01no261_j10.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:58:01 2005
         (471 letters)



>mm_chrY_1883700_1884570
          Length = 871

 Score =  470 bits (243), Expect = e-137
 Identities = 419/491 (85%), Gaps = 30/491 (6%)
 Strand = Plus / Plus

                                                                       
Query: 1   ttgtgagatgatgtcatcacag-agggaaccaatgggctagaaagagaaaagagagagcc 59
           |||| ||||| ||||||||||| ||||| ||||||||||||||||| ||||||| |||||
Sbjct: 185 ttgtcagatgttgtcatcacagaagggatccaatgggctagaaagacaaaagagggagcc 244

                                                                       
Query: 60  aaactccctttcataattaaaacttttctataacagcattattaaattatttttatatgt 119
           ||||||||||||||||||||| |||||||||||||||| ||||  ||  ||||||| |||
Sbjct: 245 aaactccctttcataattaaaccttttctataacagcactatt-gat--tttttatttgt 301

                                                                       
Query: 120 aagtcatatccctcctgacccattcaattt-cttccaaatatattcacacctggggatta 178
             |||||||||||||||||||| || |||| ||||||||||||||| |||||||| ||||
Sbjct: 302 tggtcatatccctcctgacccaatc-atttacttccaaatatattcccacctgggaatta 360

                                                                       
Query: 179 atcttcagaaaattattctt---gggaaacacat-----------------gtgattatt 218
           |||||||||||||||  |||   |||||||||||                 |||| ||||
Sbjct: 361 atcttcagaaaatta--ctttgggggaaacacattcaaacaagagatgaaggtgaatatt 418

                                                                       
Query: 219 tcaacatctatagtagtgtgggggcattattctccctacgtcatgtacacttaatatctt 278
           |||||||||||||||||||||||| |||||||| ||||| |||||||| ||||| |||| 
Sbjct: 419 tcaacatctatagtagtgtgggggtattattcttcctacctcatgtacccttaagatctc 478

                                                                       
Query: 279 tagatacctccttccctgtgatagccttgcagctcactgagtgacatgtgcatttgatga 338
           ||| |||||||||||||||||||| || |||||||||||| |||||||||  ||||||||
Sbjct: 479 tagctacctccttccctgtgatagtctagcagctcactgactgacatgtgtttttgatga 538

                                                                       
Query: 339 taaatgatacacaaacattgaagcaccttaccatatcctgtcacccatatcatg-tacaa 397
           | ||||||| ||||| | ||||||| ||| |||||||||||||||||||||| | | |||
Sbjct: 539 ttaatgatatacaaagactgaagcagcttgccatatcctgtcacccatatcaagct-caa 597

                                                                       
Query: 398 catagcaagaaccacacctgagttgaaaaatacaaatatattttatagtgtcttgaagct 457
            ||||||| | ||| |  ||||| |||||||||||||| |||||||||||||||||||||
Sbjct: 598 aatagcaacagccatatgtgagtagaaaaatacaaataaattttatagtgtcttgaagct 657

                      
Query: 458 aaaatccccaa 468
           |||||||||||
Sbjct: 658 aaaatccccaa 668


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: 13
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: 471
Length of database: 871
Length adjustment: 10
Effective length of query: 461
Effective length of database: 861
Effective search space:   396921
Effective search space used:   396921
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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