BAC Information

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BAC

Clone NameMSMg01-504O21
ChromosomeY (Build37)
Map Location 1,655,975 - 1,656,467
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 nameMSMg01-504O21.T7 (MSMg01no504_o21.b1)MSMg01-504O21.TJ (MSMg01no504_o21.g1)
ACCAG579690AG579691
length777776
length of high quality
(start - end)
591 (47 - 637)502 (79 - 580)
definitionCHROMAT_FILE: MSMg01no504_o21.b1 PHD_FILE: MSMg01no504_o21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:32:42 2005CHROMAT_FILE: MSMg01no504_o21.g1 PHD_FILE: MSMg01no504_o21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:32:42 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
ACTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCATATATATGACAGAGGCAACAGCATTGTGTCTGGCGTAAACGGG
CAAGATCTTCAGTCCCAGGCAATGGGCAAGTATGATATGGAGAGAATGGA
AGCCACTTAGACAGTGTGATCTAGCACAACAGGTCTACAGCCAGGTAGAA
GACAATACCTCTGAAGAGTCTGAGCATGACATCACTCAAGAAGAAGAGTA
GGAGGAAGCCTTCTTCCCAGGCCCTGGGGAATATTGTTGGCTGCAGAATT
TCTCACGAGTGGAAGGAAGGTAATGAGCCTGTCACCCATTGGAAGGCCAT
CATTCTAGGTCAACTGCCAACAAACCCTTCTCTTTATTTGGTGAAGTATG
ACGGAATTGACAGTGTCTACGGACAGGAGCTCCACAGCGATGAGAGGATT
TTAAATCTTAAGGTCTTGCCTCACAAAGTAGTTTCTACTCAGGTGAGGGA
TGTCCACCTCGCCAGCGCCCTGGTTTGCAGAGAGGTAAAACACAAATTTG
AGGGGAAAGATGGCTCTGAGGACAACTGGAGTGGGATGGTGCTAGCCCAG
GTGCCATTCTTACAGGACTATTTTTACATTTCCTACAAGAAGGATCCGGT
CCTCTACGTCTATCAGCTCCTGGATGACTACAAGGAAGGTAACCTCCACA
TCATTCCAGAGACCCCTCTGGCTGATGCGAGATCAGGTGATGACAATGAC
TTCTTTATAGGTTTCCTGGGTGCAGAA
NAACAATGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTCACAGCATGTAATTGCCCCCT
CCCACCAGAAACCAAAGTCACCTTGGTGGGACCAGGAGCAGTTCACCTGC
CTCTTCAGGTTGCTTTTGTTTAACTACCTTTGGAGACAGCAGTTGGAGCT
GCTGCTACCTGCTGGAAAGGTGGCTTCTAATGGGACAATTCATTGGTCTG
TAGAATTCAAACAATTTTGGACCCTATGAAAGTAATGGATTGTCCAAATG
CTCCCGGACTGAGAATCTTGGGGAAGCTCTAGGTTTTTTCTTAATCTGCA
ATGTCATTTAGACATTAGAGCAAGCAGAGATGATTTGCTCCTTCTCTTAG
GCAATCAGATTTTATCCTGGAAGACAACCGTTGTGAGCCTTGAGAGGGTT
TGCTGGAGGAGAAGGGATATTGACAGTGCTCTACCCAACCTGCAAGGCAC
ACAGCTAGACCTTGTTCCCTCTGATGCATAGAAGTGTCTGATGGTTTTAG
ATGGGATTCTTGATGAGGACAGAATCTGAGGAAAGGTTCCTGTAGAGAAA
TGAAGTGCAGTTATACAACCTAGAAAGTATATACCATTGATCATTGTGAG
CCTGAAACAGAAAGCACCCAAGCATTGGACCTAATGTATGATTGGTGAGA
CAGATTGAAGAGATTTTGTTTGTTTTGAATCTCTGTATAGTATGGAACAT
TGTCTCATGGGAAGGGGAGTGTGATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no504_o21.g1 MSMg01no504_o21.g1 CHROMAT_FILE:
MSMg01no504_o21.g1 PHD_FILE: MSMg01no504_o21.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:32:42 2005
         (502 letters)



>mm_chrY_1655693_1656592
          Length = 900

 Score =  464 bits (240), Expect = e-135
 Identities = 436/506 (86%), Gaps = 17/506 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   tcacagcatgtaattgccccctcccaccagaaaccaaagtcaccttggtgggaccaggag 60
           |||||||| |||| ||||  |||| | |||||  ||||||||||||||||||||||  | 
Sbjct: 775 tcacagcaggtaagtgcctgctcctaacagaagtcaaagtcaccttggtgggaccattat 716

                                                                       
Query: 61  cagttcacctgcctcttcaggttgcttttgtttaactacctttggagacagcagttggag 120
            || |||||||||||       ||||||||||||  | || |||||||||||||||||||
Sbjct: 715 aagatcacctgcctc-------tgcttttgtttaggtgccattggagacagcagttggag 663

                                                                       
Query: 121 ctgctgctacctgctggaaaggtggcttctaatgggacaattcattggtctgtagaattc 180
           | |||||||||||||||  || ||||||||||||| ||||| |||||||||| |||||||
Sbjct: 662 cagctgctacctgctggtgagttggcttctaatggaacaatgcattggtctgcagaattc 603

                                                                       
Query: 181 aaacaattttggaccctatgaaagtaatggattgtccaaatgctcccggactgagaatct 240
           |||||| ||||||||||||||||||||| ||||| ||||||||||| |||||||||||||
Sbjct: 602 aaacaagtttggaccctatgaaagtaatagattgcccaaatgctcctggactgagaatct 543

                                                                       
Query: 241 tggggaagct-ctaggttttttcttaatctgcaatgtcatttagacattagagcaagcag 299
           ||||||| || |||||  |||||||||||||||||| |||||||| ||| |||||||  |
Sbjct: 542 tggggaa-ctgctagggattttcttaatctgcaatggcatttagatattggagcaagtgg 484

                                                                       
Query: 300 agatgatttgctccttctcttaggcaatcagattttatcctggaagacaaccgttgtgag 359
           ||||| |||||||||||| ||||||| ||||| ||| || |||||||||| | |||||||
Sbjct: 483 agatgctttgctccttcttttaggcactcaga-tttgtcttggaagacaaactttgtgag 425

                                                                       
Query: 360 c-cttgagagggtttgctggaggagaagggatattgacagtgctctacccaacctgcaag 418
           |  |||||||||||||||||||||||||||||||||||||||||||| |||| ||||| |
Sbjct: 424 catttgagagggtttgctggaggagaagggatattgacagtgctctaaccaaactgcatg 365

                                                                       
Query: 419 gcacacagctagaccttgttccctctgat-gcatagaagtgtctgatggttttag-atgg 476
           |||||||||||||| |||||||||||| | |||||||| | ||||||||| || | ||| 
Sbjct: 364 gcacacagctagactttgttccctctg-tagcatagaattttctgatggtgtt-gcatg- 308

                                     
Query: 477 gattcttgatgaggacagaatctgag 502
            || |||| ||||||||| |||||||
Sbjct: 307 -atccttgctgaggacaggatctgag 283


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: 502
Length of database: 900
Length adjustment: 10
Effective length of query: 492
Effective length of database: 890
Effective search space:   437880
Effective search space used:   437880
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)