BAC Information

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BAC

Clone NameMSMg01-545A06
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,433
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 nameMSMg01-545A06.T7 (MSMg01no545_a06.b1)MSMg01-545A06.TJ (MSMg01no545_a06.g1)
ACCAG610178AG610179
length754748
length of high quality
(start - end)
331 (35 - 365)621 (64 - 684)
definitionCHROMAT_FILE: MSMg01no545_a06.b1 PHD_FILE: MSMg01no545_a06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:25:52 2005CHROMAT_FILE: MSMg01no545_a06.g1 PHD_FILE: MSMg01no545_a06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:25:52 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTATCCC
AATTGGTCTCTCCCAGTCCTTTGTAGGCATTCCTCTATTTTGTGTAAAAG
TCACTTATAAGACTAGTGCTCGCTTTGAGACAAATTACATTCAGATCAAC
CCTCTGTTTGGTCGTGTCAGTTTCTCAGCCCCTCTTCTTGACTAATCCTT
GCCTACCGGTACCCAGAACCCAAGTTATGCCAATGGATCGAGGACCTAAG
TGAGGTTTGTCTGTGGCAAGCTACTTTTCCTTTTACTAAAATTACATCAT
ATATATATATATATATATATATATATATATATATATATATATATATATAT
GTGTATATATATATATATATATATATATATATATATATATATATATATAT
ATATATGTACGCGATATAGTGATATAACTTGTGTTGTGGGTAGGGGGACG
CGAGTATTAGTCAAAGAGAGGGGGTGAGAGAGTGACACGAACACAGAGAG
GGTGGCTGTGAGTGTGTTTTGTCTCAGAGCGCGCACTAGTTATATGAGTG
ACTTTCACACAATATAGAGGAGTGTCTACAGAGGAGTGGGAGAGACACAG
TGAGATAGAATTGCGCGGATTCTCTCTCTATAGAGAGGTGTATGAGCGGG
CGCATATTTATGAGAGCTAATACTTCCCTACAAGTGTAAAAANGNGNGTG
NNCGNGCGNGCGCGCGCGCGTGCGCGGGCGCGCGCGGGGGGGGNGTGTGG
NNNC
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXAAAACAAACAAAATCCCTTCAATCTGTCTCACCAATC
ATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCTCACAATGAT
CAATGGTATATACTTTCTAGGTTGTATAACTGCACTTCATTTCTCTACCA
GGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCCCATCTAATACCAT
CAGACACTTCTATGCATCAGAGGTAACAATGTCTAGCTGTGTGCCTTGCA
GGTTGGGTAGAGCACTCGAAATATCCCTTCTCCTCCAGCAAACCCTCTCA
AGGCTCACAACGGTTGTCTTCCAGGATAAAATCTGATTGCCTAAGAGACG
GAGCAAATCATCTCTGCTTACTCTAATGTCTAAATGACATTGCAGATTAA
GAAAAAACCTAGAGCTTCCCCAAGATTCTCAGTCCGGGAGCATTTGGACA
ATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATTCTACAGACCAATG
AATTGTCCCATTAGAAGCCACCTTTCCAGCAGGTAGCAGCAGCTCCAACT
GCTGTCTCCAAAGGCAGTTAAACAAAAGCAACCTGAAGAGGCAGGTGAAC
TGCTCCTGGTCCCACCAAGGTGACTTTGGTTTCTGGTGGGAGGGGGCAAT
TACATGCTGTGAGAATTCTGTTCTGTTGATGTGCTCACCCACCAAAAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no545_a06.g1 MSMg01no545_a06.g1 CHROMAT_FILE:
MSMg01no545_a06.g1 PHD_FILE: MSMg01no545_a06.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:25:52 2005
         (621 letters)



>mm_chrY_1655631_1656646
          Length = 1016

 Score =  499 bits (258), Expect = e-145
 Identities = 527/624 (84%), Gaps = 30/624 (4%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaacaaacaaaatcccttcaatctgtctcaccaatcatacattaggtccaatg-cttgg 59
           ||||||||||||||  ||||||  ||||||| |||| || |||||||||||||| ||  |
Sbjct: 201 aaaacaaacaaaatgtcttcaaagtgtctcagcaattatgcattaggtccaatgtctcag 260

                                                                       
Query: 60  gtgctttctgtttcaggctcacaatgatcaatggtatatacttt-ctaggttgtataact 118
            |||| || | |||||||||||   ||| |||||| |||| ||| |||  ||||||||||
Sbjct: 261 -tgctctcagcttcaggctcac---gattaatggtttata-tttgctaccttgtataact 315

                                                                       
Query: 119 gcacttca-tttctctaccaggaacctttcctcagattctgtcctcatcaagaatcccat 177
           ||||| || ||| |||||| |||| ||| |||||||| ||||||||| |||| |||  ||
Sbjct: 316 gcactacagttt-tctacctggaaacttgcctcagatcctgtcctcagcaaggatc--at 372

                                                                       
Query: 178 -ctaataccatcagacacttctatgcat-cagaggtaacaatgtctagctgtgtgccttg 235
            | || ||||||||| | |||||||| | |||||| ||||| ||||||||||||||| ||
Sbjct: 373 gc-aacaccatcagaaaattctatgc-tacagagggaacaaagtctagctgtgtgccatg 430

                                                                       
Query: 236 caggttgggtagagcact--cgaaatatcccttctcctccagcaaaccctctcaag-gct 292
           ||| |||| |||||||||  |  ||||||||||||||||||||||||||||||||  |||
Sbjct: 431 cagtttggttagagcactgtc--aatatcccttctcctccagcaaaccctctcaaatgct 488

                                                                       
Query: 293 cacaacggttgtcttccaggataaaatctgattgcctaagagacggagcaaatcatctct 352
           ||||| | |||||||||| || ||| ||||| ||||||| ||| |||||||| |||||| 
Sbjct: 489 cacaaagtttgtcttccaagacaaa-tctgagtgcctaaaagaaggagcaaagcatctcc 547

                                                                       
Query: 353 gcttactctaatgtctaaatgacattgcagattaagaaaaaacctag-agcttccccaag 411
            ||| ||| ||| |||||||| ||||||||||||||||||  ||||| || |||||||||
Sbjct: 548 acttgctccaatatctaaatgccattgcagattaagaaaatccctagcag-ttccccaag 606

                                                                       
Query: 412 attctcagtccgggagcatttggacaatccattactttcatagggtccaaaattgtttga 471
           ||||||||||| ||||||||||| ||||| ||||||||||||||||||||| ||||||||
Sbjct: 607 attctcagtccaggagcatttgggcaatctattactttcatagggtccaaacttgtttga 666

                                                                       
Query: 472 attctacagaccaatgaattgtcccattagaagccacctttccagcaggtagcagcagct 531
           ||||| |||||||||| ||||| ||||||||||||| ||  ||||||||||||||| |||
Sbjct: 667 attctgcagaccaatgcattgttccattagaagccaactcaccagcaggtagcagctgct 726

                                                                       
Query: 532 ccaactgctgtctccaaaggcagttaaacaaaagcaacctgaagaggcaggtgaactgct 591
           ||||||||||||||||| ||||  ||||||||||||       ||||||||||| ||  |
Sbjct: 727 ccaactgctgtctccaatggcacctaaacaaaagca-------gaggcaggtgatcttat 779

                                   
Query: 592 cctggtcccaccaaggtgactttg 615
             ||||||||||||||||||||||
Sbjct: 780 aatggtcccaccaaggtgactttg 803


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: 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: 621
Length of database: 1016
Length adjustment: 10
Effective length of query: 611
Effective length of database: 1006
Effective search space:   614666
Effective search space used:   614666
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)