BAC Information

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BAC

Clone NameMSMg01-488H10
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,469
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 nameMSMg01-488H10.T7 (MSMg01no488_h10.b1)MSMg01-488H10.TJ (MSMg01no488_h10.g1)
ACCAG567180AG567181
length773742
length of high quality
(start - end)		82 (121 - 202)666 (77 - 742)
definitionCHROMAT_FILE: MSMg01no488_h10.b1 PHD_FILE: MSMg01no488_h10.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:11:24 2005CHROMAT_FILE: MSMg01no488_h10.g1 PHD_FILE: MSMg01no488_h10.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:11:24 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTTTCTTAAAATTTTGGTCGTTATTCTAGTCATTTCCCAAGAGGATCAGC
GGAAATCACTCTTTTCCACTCACATTCTCGGGGTGTAATATTGGTGTGAT
GGGCAAGCAATGAATCATGAGCTGTCATGCCATATCAGGTGCTGAAACAT
CTCGCTGCTGGTTATAAAAGCAGTGCCATTTTCCCGGATCGGGATCTTCC
TGATAAGCAAGCAATAAAGCTCTTGCTGAGGAAGATTCTGGTTTGTTGCA
TCTTTCTTGCTGGTCGAGCTGCACGCAATAAGTGGTGCCAAAACCCGGGA
ACTGTCATCACACCAGCGCATGGAAGATCCCTCATTCACGGGGCAGAATC
TTAACTGTGGCACAAAAGGCTCTACAAGGTACGTACAATCTTGAAATTTC
TCCAGAGTTAGAAACCCTTTTGATTGTTTGCATGGCGATTACACTTTTCC
TTTTGAGTTCGTCTTGTTTCCACCACTGGAACTGTTGACTGGTTCTTAGT
CTCATTCACGTCTGGACAGCATCTGGACAGCTACCAATTTCAGGTCCACC
CACGCCTGGACAGCTGCACTATGGGTAATCTTCCTTTCTATAGTAGGCGG
GTCTACTTTTCAGTCCTGAAGCTATGGTGGCTCTATACATCCGCCACTTA
AGATCTAATAACGTTATTTGGCCAGAGTAAATAGACCGTTGTCGCCCCCA
TGGTTATGCCTTGGTTCTAACACGCATTAGAACGGACGTTCCTCTTGGGG
AACTTATCTGTTCTTGGCATATT

CAATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAAAACAAACAAAATCTCTTCAATC
TGTCTCACCAATCATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCA
GGCTCACAATGATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTT
CATTTCTCTACCAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCC
CATCTAATACCATCAGACACTTCTATGCATCAGAGGGAACAAGGTCTAGC
TGTGTGCCTTGCAGGTTGGGTAGAGCACTGTCAATATCCCTTCTCCTCCA
GCAAAACCTCTCAAGGCTCACAACGGTTGTCTTCCAGGATAAAATCTGAT
TGCCTAAGAGAAGGAGCAAATCATCTCTGCTTGCTCTAATGTCTAAATGA
CATTGCAGATTAAGAAAAAACCTAGAGCTTCCCCAAGATTCTCAGTCCGG
GAGCATTTGGACAATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATT
CTACAGACCAATGAATTGTCCCATTAGAAGCCACCTTTCCAGCAGGTAGC
AGCAGCTCCAACTGCTGTCTCCAAAGGCAGTTAAACAAAAGCAACCTGAA
GAGGCAGGTGAACTGCTCCTGGTCCCACCAAGGTGACTTTGGTTTCTGGT
GGTAGGGGGCAATTACATGCTGTGAGAATTCTGTTCTGTTGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no488_h10.g1 MSMg01no488_h10.g1 CHROMAT_FILE:
MSMg01no488_h10.g1 PHD_FILE: MSMg01no488_h10.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:11:24 2005
         (666 letters)



>mm_chrY_1655631_1656691
          Length = 1061

 Score =  547 bits (283), Expect = e-160
 Identities = 561/661 (84%), Gaps = 32/661 (4%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaacaaacaaaatctcttcaatctgtctcaccaatcatacattaggtccaatg-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 caggttgggtagagcactgtcaatatcccttctcctccagcaaaacctctcaag-gctca 294
           ||| |||| ||||||||||||||||||||||||||||||||||| ||||||||  |||||
Sbjct: 431 cagtttggttagagcactgtcaatatcccttctcctccagcaaaccctctcaaatgctca 490

                                                                       
Query: 295 caacggttgtcttccaggataaaatctgattgcctaagagaaggagcaaatcatctctgc 354
           ||| | |||||||||| || ||| ||||| ||||||| |||||||||||| ||||||  |
Sbjct: 491 caaagtttgtcttccaagacaaa-tctgagtgcctaaaagaaggagcaaagcatctccac 549

                                                                       
Query: 355 ttgctctaatgtctaaatgacattgcagattaagaaaaaacctag-agcttccccaagat 413
           |||||| ||| |||||||| ||||||||||||||||||  ||||| || |||||||||||
Sbjct: 550 ttgctccaatatctaaatgccattgcagattaagaaaatccctagcag-ttccccaagat 608

                                                                       
Query: 414 tctcagtccgggagcatttggacaatccattactttcatagggtccaaaattgtttgaat 473
           ||||||||| ||||||||||| ||||| ||||||||||||||||||||| ||||||||||
Sbjct: 609 tctcagtccaggagcatttgggcaatctattactttcatagggtccaaacttgtttgaat 668

                                                                       
Query: 474 tctacagaccaatgaattgtcccattagaagccacctttccagcaggtagcagcagctcc 533
           ||| |||||||||| ||||| ||||||||||||| ||  ||||||||||||||| |||||
Sbjct: 669 tctgcagaccaatgcattgttccattagaagccaactcaccagcaggtagcagctgctcc 728

                                                                       
Query: 534 aactgctgtctccaaaggcagttaaacaaaagcaacctgaagaggcaggtgaactgctcc 593
           ||||||||||||||| ||||  ||||||||||||       ||||||||||| ||  |  
Sbjct: 729 aactgctgtctccaatggcacctaaacaaaagca-------gaggcaggtgatcttataa 781

                                                                       
Query: 594 tggtcccaccaaggtgactttggtttctggtggtagg-g--ggcaattacatgctgtgag 650
           ||||||||||||||||||||||  ||||| |  |||| |  |||| |||| |||||||||
Sbjct: 782 tggtcccaccaaggtgactttgacttctg-t--taggagcaggcacttacctgctgtgag 838

            
Query: 651 a 651
           |
Sbjct: 839 a 839


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: 11
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: 666
Length of database: 1061
Length adjustment: 10
Effective length of query: 656
Effective length of database: 1051
Effective search space:   689456
Effective search space used:   689456
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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