BAC Information

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BAC

Clone NameMSMg01-110J17
ChromosomeY (Build37)
Map Location 1,266,148 - 1,266,748
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 nameMSMg01-110J17.T7 (MSMg01no110_j17.b1)MSMg01-110J17.TJ (MSMg01no110_j17.g1)
ACCAG323488AG323489
length721769
length of high quality
(start - end)		593 (59 - 651)78 (74 - 151)
definitionCHROMAT_FILE: MSMg01no110_j17.b1 PHD_FILE: MSMg01no110_j17.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:14:15 2005CHROMAT_FILE: MSMg01no110_j17.g1 PHD_FILE: MSMg01no110_j17.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:14:15 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CAAGTTNNTCTTATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXCGCGGAATTCCATCAAAAACATTGTAAGAAGTTCTCAAGGAA
TTAATTAATGTAGTTCTTAATATACAATGTCTTTACTGAACATATACAGA
CCACTTATATTTCAATCTCCTAAATAGCAACTCATTTTATAGCACTTACA
TTACATTAAGTGCAAAAGTAATCCAGAGATTATTTAAAATAAAGAAGGAT
CAGGGGATATGGCCCAGAGACAATGCCATGTGTGTGTTCAAACATTCACC
TACAACACCAGTGCTTATGATTTTGGGAGGGGCAGAGACAGGAAGATGAC
TGTGGCTTCCTGAAAGCCAGCTCAGCAAGAAACCCAGTCACAAGGGGATA
AGTTATGGAGGAAAAGAGTAGATCACACTATACCCTTCCCTAGCCTCTGA
ACTTACCTGTACAGTTCTCTATGCAGACTCACATAAATATGATTAAAATA
TGCAAGAGGTTATTTTGCATAGCTTATATTCAAAAGCAATGTTGTTTTAG
ACTAGAAACCTGAGGACTTTATATCATTATAGTTCCTGGAGCAAACTCCC
AAGATATAGATGATGGGTATATCTTCTTACTGTGCAAAGGAAACCTCAGT
TAAGTGTGTGTGTCAGTGACTCCATACAGCTTTTCCTCCTCTATGTTCCT
TTATATAGCATAGAATGATCT

CAATACAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXCCAGAAATCAAATGCTTCAACAGAAATGAATTGAA
TTTTGGACGTTGTGTAAACTTTTAAAACAATCCTCTGGTTTTAAAATTTG
GTGTGTGTGTGTGTAGCCTGTAGTGCCTAGTGTCCCCCCCCCCACACCAC
CACACCCATAACAACACACCACACATAACAACAAACCCACAACAAACCAC
AAACTCCAAAAACAAACACTCCACCCTACCACACCCCCCCCCCATCCACC
CCAAAACCACCCACCCCACCCCTTACATTCACCCCAAAAAAAAAAACAAA
CACCACAAACAACACACCCAAACAACACACCCCCACCCCCCACCCCCACA
CAAACCCTACCACACAACAATTAACAAACCTCCCCCCCCCACAAACACAC
AACACTAACCAACCCTACAAACACACCCCCCACACAACCCCCCACAAAAC
AACCACAAACACAACCCACACAAACCAAACACAAACACCCAACACCACAA
AACACACACAAAACAAAAACACCAACCCCTCAACACACCCAAACACCACA
CCACCCAAACCCCCCCCCAATAACACCACACAACCATAACAAACACCACA
CAAAAAACCTAAACCCCCCCACTTTCCCCCCCCCCCCCCCCCCACTTACC
AAAACCCACTCCTAACCACACCCTACCCACCCCCCCCCACTCACAAACCC
ACCCCACCCCATACCCCCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no110_j17.b1 MSMg01no110_j17.b1 CHROMAT_FILE:
MSMg01no110_j17.b1 PHD_FILE: MSMg01no110_j17.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:14:15 2005
         (593 letters)



>mm_chrY_1265953_1266948
          Length = 996

 Score =  528 bits (273), Expect = e-154
 Identities = 519/613 (84%), Gaps = 37/613 (6%)
 Strand = Plus / Plus

                                                                       
Query: 6   aattccatcaaaa-acattgtaagaagttctcaaggaattaattaatgtagttcttaata 64
           ||||||||||||| | |||||| ||| |||||||||||||||| || |||||||||||||
Sbjct: 196 aattccatcaaaatatattgtatgaaattctcaaggaattaatgaaagtagttcttaata 255

                                                                       
Query: 65  tacaatgtctttactgaacatatacagaccacttatatt-tcaatctcctaaatagcaac 123
           ||| |||||| |||||||||||||||||||||||||||| ||| ||||||||||| ||||
Sbjct: 256 taccatgtctgtactgaacatatacagaccacttatattgtca-tctcctaaataacaac 314

                                                                       
Query: 124 tc--attttatagcacttacattacattaagtgcaaaagtaatccagagattatttaaaa 181
           ||  ||   |||||| || |||| ||||||| |||||||| |||||||||| ||||||||
Sbjct: 315 tcctat---atagcagtttcattgcattaagggcaaaagtcatccagagatcatttaaaa 371

                                                                       
Query: 182 taaagaaggatcaggggatatggcccagag--acaatgcca-tgtgtgtgttcaaacatt 238
           |||||||||||||||  | ||||||||| |  | || |||| | ||| || ||| |||||
Sbjct: 372 taaagaaggatcaggcaagatggcccaggggta-aa-gccaat-tgtttggtcagacatt 428

                                                                       
Query: 239 cacctacaacaccagtgcttatgattttgggaggggcagagacaggaagatgactgtggc 298
           |||||| |||| ||||||| | |||   ||||||||||||||||| |||| |||||||||
Sbjct: 429 cacctataacaacagtgctcaggatg--gggaggggcagagacagaaagaagactgtggc 486

                                                                       
Query: 299 ttcctgaaagccagc------------tcagcaagaaacccagtcacaaggggataagtt 346
           ||||||||||| |||            |||||||||||||| |||| ||||| | || ||
Sbjct: 487 ttcctgaaagcaagcctcactcctaggtcagcaagaaaccctgtcataagggaacaaatt 546

                                                                       
Query: 347 atggag-gaaaagagtagatcacactatacccttccctagcctctgaacttacctgtaca 405
           | |||| |||  ||| ||| |||||| |||| |||||| ||||||||| |||||||||||
Sbjct: 547 agggagtgaag-gagcagaacacactgtacctttccctggcctctgaatttacctgtaca 605

                                                                       
Query: 406 gttctctatgcagactcacataaatatgattaaaatatgcaagaggttattttgcatagc 465
           | ||| |||||| || |||||||||||||||||| ||| |||||||||| ||||||||| 
Sbjct: 606 ggtctgtatgcacacacacataaatatgattaaagtatacaagaggttactttgcataga 665

                                                                       
Query: 466 ttatat-tcaaaagcaatgttgttttagactagaaacctgaggacttt-atatcattata 523
           |||||| | ||||||||||||||||||| ||||| ||||||||||||| |||||||||  
Sbjct: 666 ttatatgt-aaaagcaatgttgttttagcctagagacctgaggacttttatatcattagg 724

                                                                       
Query: 524 gttcctggagcaaactcccaagatatagatga---tgggtatatcttcttactgtgcaaa 580
           | ||||||||||||||||| | ||||||| ||   |||||||||||||||||||||||||
Sbjct: 725 ggtcctggagcaaactccccatatataga-gagaatgggtatatcttcttactgtgcaaa 783

                        
Query: 581 ggaaacctcagtt 593
           |||||||||||||
Sbjct: 784 ggaaacctcagtt 796


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: 593
Length of database: 996
Length adjustment: 10
Effective length of query: 583
Effective length of database: 986
Effective search space:   574838
Effective search space used:   574838
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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