BAC Information

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BAC

Clone NameMSMg01-351E20
ChromosomeY (Build37)
Map Location 1,769,197 - 1,769,644
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430
Downstream geneVmn2r-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 nameMSMg01-351E20.T7 (MSMg01no351_e20.b1)MSMg01-351E20.TJ (MSMg01no351_e20.g1)
ACCAG462707AG462708
length740761
length of high quality
(start - end)		462 (54 - 515)489 (83 - 571)
definitionCHROMAT_FILE: MSMg01no351_e20.b1 PHD_FILE: MSMg01no351_e20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:43:31 2005CHROMAT_FILE: MSMg01no351_e20.g1 PHD_FILE: MSMg01no351_e20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:43:31 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NNNNAACTTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXCGCGGAATTCTAGAAAGTCCCAGAGAGCTGGGATGTGAGAGGCGCCT
GGAACTCGGTGGTGATCTTAGCCGAACTGCCCAACAGTGGGGAGATGGAA
CCTGGAAAGACCACCTCCAGTTAATAGACAGGGCCCCTAGTGTCTCTAAC
AACTACTGACTGAGACACATGCAGATAATTAGAGGTAATCATTGGACGCA
TACAGAAGAGTTAGAGAAAAATTTGAAAGAACTGAAGAAGATGACAACCC
CATAGGATTACCAGGAGTGTCAATTAACCCAAACTCCCAGGAAGATCTGA
GAGACTAAGCCACCAGACAAAGAGCATACTTGGGCTATTCCATGGCCCCT
GGCACATATGTGGCAGAGTACTGCTTTTTCCAGCCCAGTGGGAAACGATA
GACTGAATTCTGAAGAGACTTGATGCATCAGGGATGCTGCTGTGGGATAT
GTTGAGGTGAGATGGGGTGGGNGNNNNTNNNNNNNNNNTNNNNNNTNNNN
TNNNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
TTTTTTTTTTTTTTTTTNTTTTTNTTTTTNTTTTTTTTTTNNNTTNTTTN
TTTTTTTTTTTTTTTTTTTTTTTTNNTTTTTTTTTTTTTTTTTTTNTTTT
TNTTTTTTTTTTTTTTTTTTGTGTTTTTTTTTTTTCCTTT

NNTTTTTCGATGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXACCCTGTATACCAGGGTG
GCGTCAAAATCAAAAATCTCCCTGCCTCTGCCTCCCAACGTCTGGGATTA
AGGCATGTGCCACCAGTGACTGACCCAACTTAAAACTTGAGATAGGTTCT
CTCTGAATATGCAGCTCACCAATGCCACTACCTCAGCTAGCCAGCAAGCT
GTCTCCACCTACTCAGCACTGGTTGGCAGCCTGCATTTTAGAAGTGGATT
CTAGGCCCCCACTTTTATTTTCAAGGAAAACATTTTACTAAAACAGCCAT
CTCTCTAGCCTCTCTTCAAGGTTTGTTCTGTTGCTATAGACACTGCAATT
TTTTGTTTGTTTGTCTTTTGTTTGTTTGTTTTCTTTTTCTATTTCTCTAA
TCATGCCTAAGTTTAGGCTCCTAAAATGCTTAGTGGTGGTTTTGCTTGTT
TCCTTACAACAGCAAATTGGTTTTCTTGCTCACTTTACAATTTGCAGNTA
ATTTTGACATAAGCTTATTGCTGTGTTTTGTTTCTTTGGGTCTTTTTTTT
TTTTTTTTTTTTGTTAAATTGGTGGGGTTGCGGGTTTTTGCTGGGTTTTT
GTTTTTGGTTTCCCCCCTGAAAAAAAAAATCTTAACTTTTCTAGGGCGTT
ATCACCGAAGGAAATCCTTAATTATACCTTATNTTTTGAAAGCTGGAGCA
CAAAATCCTCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no351_e20.g1 MSMg01no351_e20.g1 CHROMAT_FILE:
MSMg01no351_e20.g1 PHD_FILE: MSMg01no351_e20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:43:31 2005
         (489 letters)



>mm_chrY_1769119_1770006
          Length = 888

 Score =  455 bits (235), Expect = e-132
 Identities = 403/481 (83%), Gaps = 49/481 (10%)
 Strand = Plus / Minus

                                                                       
Query: 1   accctgtataccagggtggcgtcaaaatcaaaaatctccctgcctctgcctcccaac-gt 59
           ||||||||||||||||| || ||||| ||| |||||||||||||| ||||||||||| | 
Sbjct: 526 accctgtataccagggttgcctcaaactcagaaatctccctgcctttgcctcccaactg- 468

                                                                       
Query: 60  ctgggattaaggcatgtgccaccagtgactgacccaacttaaaacttgagataggttctc 119
           ||||| |||||||||||||||||| |||||| ||||||||||||||||||| ||| ||||
Sbjct: 467 ctggggttaaggcatgtgccaccactgactgtcccaacttaaaacttgagacaggatctc 408

                                                                       
Query: 120 tctgaatatgcagctcaccaatgccacta-cctcagctagccagcaagctgtctccacct 178
           ||||||| || | |||||||||||||||| |||  |||||||||||||||||||||||||
Sbjct: 407 tctgaatctggacctcaccaatgccactagcct-ggctagccagcaagctgtctccacct 349

                                                                       
Query: 179 actcagcactgg--ttggcagcctgca-ttttagaagtggattctaggcccccacttt-- 233
           ||||||||||||  |  ||||| | || ||||| |||||||||||||||||||| |||  
Sbjct: 348 actcagcactgggct--gcagcatacattttta-aagtggattctaggcccccattttaa 292

                                                                       
Query: 234 -----tat--tttcaaggaaaacattttactaaaacagccatctctctag--cctctctt 284
                |||  ||| ||||||| || ||||| |||||||||||||||||||  ||||| | 
Sbjct: 291 ttccatataatttgaaggaaagcactttaccaaaacagccatctctctagcacctctgt- 233

                                                                       
Query: 285 caaggtttgttctgttgctatagacactgcaattttttgtttgtttgtcttttgtttgtt 344
             ||||||||||||||||| |||   ||||               || |||       ||
Sbjct: 232 -gaggtttgttctgttgctgtag---ctgc---------------tgcctt-------tt 199

                                                                       
Query: 345 tgttttctttttctatttctctaatcatgcctaagtttaggctcctaaaatgcttagtgg 404
           | |||||||||||| ||||||||||||||||||||||||||||||||||||||||| || 
Sbjct: 198 t-ttttctttttctttttctctaatcatgcctaagtttaggctcctaaaatgcttaatgt 140

                                                                       
Query: 405 tggttttgcttgtttccttacaacagcaaattggttttcttgctcactttacaatttgca 464
           |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 139 tggttttgcttgtttccttacaacagcaaattgggtttcttgctcactttacaatttgca 80

            
Query: 465 g 465
           |
Sbjct: 79  g 79


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: 14
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: 489
Length of database: 888
Length adjustment: 10
Effective length of query: 479
Effective length of database: 878
Effective search space:   420562
Effective search space used:   420562
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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