BAC Information

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BAC

Clone NameMSMg01-278F15
ChromosomeY (Build37)
Map Location 1,792,304 - 1,792,585
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137
Downstream geneLOC100039450, 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, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-278F15.T7 (MSMg01no278_f15.b1)MSMg01-278F15.TJ (MSMg01no278_f15.g1)
ACCAG415998AG415999
length719717
length of high quality
(start - end)		653 (67 - 719)288 (77 - 364)
definitionCHROMAT_FILE: MSMg01no278_f15.b1 PHD_FILE: MSMg01no278_f15.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:18:39 2005CHROMAT_FILE: MSMg01no278_f15.g1 PHD_FILE: MSMg01no278_f15.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:18:39 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCAGAAGTCACCAGAGTTCGTGGACTGCAAGCAGGTCTTCTGAAAAA
GCAATGCATGATATAATTACCTGAATTTTCTGTCAGTGCTCTTCAATATT
GTGTCTACGTGATGCAATATTCCACTCTCTTTCTCTATCTCTGTCTCTGT
CTCTGTCCCTCTCTGTCTCTGTCTCTCTCTGTCTCTTTGTCTCTCTGTCT
CTCTGTCTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGT
CTCTGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTCTCTCTCTCT
CTGTCTCTCTCTCTCTGTCTCTCTCAATATCTATTCCTCTAACACTCAGT
ATGACTAATGATTCTCTTCTCTTCTCTTCTACAAAGGGGATGATATTTTA
ATGTCATCTGCAAATTGTTATTCTGAATCGGAGTAGGGAAAGGACACTTT
AAATCTGTTGTTACACCCAAGAGCATGGCTTTTAAAACCTGGTGAATCAG
TAGAAGATGAGACAATGTATAGAAGAGGTTGCTTCTTTTGCTTTGGTTTG
GTTTAACTTTGTTTATTTCTGTTACACGCAATCATTAGAAGAAACTCTGA
GAAATACTGCCTAATGCAAATTTCCTGAAGGCAAATAGGTACCTCAGAAC
CAAAATTATATTTTCAGTT

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCAAGCCCAGGATCTGCTCAAGGAC
TACCTAGAATATTGGTGAAGCGCCAGGGAACAAAGTTGGATATTGCTTAG
GTATTTGCCAAGTCATTACTTGGAGGCACTTATAATAAAACAACATTGAA
AGAAGTCACAAAGATTCAATCACTTACTAATGTAAGGACAAGTTTGATGC
ATTTTTTCCAGGATGGTATGTTCCTGAAGACTTAGTTTCCATGAACTTTT
TGACTAGGGACTGTGTCTAAATATTTAGGACTGTCATGGGAGTCACTACT
GGGGTTTGTGTTCCTATGGCTGGCGTGCGTTTGTGTGTGTGTGTGTGGGT
GTGTGAGTGCGTGTGTGTTTGTGTGAGTGTTGTGTGTGTTTATGTGTGTG
TGTNNNNTCCTNNCCNNANANCCTCCCCCCCATCACTCTTCCCCAACACT
TTTCCCTTTTTCTTTCTCCCCCCCATAATAATTTACCCACCTTATTCTCC
TCATAATCTATTTATTTTTTACCATCCACACACTCCTTCCATTTATTTAC
ATCTTCCCCTTTTTTTTATTTTTTCTCATTTTTCCTCCCTCCTTTTTAAC
CTTCCATTAATTTCTAACTTTCCCCTCCCCATTTTTCATACCATATTTAT
TACCTCTCTTTTCAATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no278_f15.b1 MSMg01no278_f15.b1 CHROMAT_FILE:
MSMg01no278_f15.b1 PHD_FILE: MSMg01no278_f15.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:18:39 2005
         (653 letters)



>mm_chrY_1792265_1793318
          Length = 1054

 Score =  236 bits (122), Expect = 4e-66
 Identities = 272/390 (69%), Gaps = 109/390 (27%)
 Strand = Plus / Minus

                                                                       
Query: 9   ggactgcaagcaggtcttctgaaaaagcaatgcatgatataattacctgaattttctgtc 68
           ||||||||||||||||||||| ||| ||||||||||||||||||||||||||||||||||
Sbjct: 321 ggactgcaagcaggtcttctgcaaaggcaatgcatgatataattacctgaattttctgtc 262

                                                                       
Query: 69  agtgctcttcaatattgt-gtctacgtgatgcaatattccactctctttctctatctctg 127
           ||||||||||||||||||  |||||||||||||||||||| |||||||||||        
Sbjct: 261 agtgctcttcaatattgtattctacgtgatgcaatattcctctctctttctc-------- 210

                                                                       
Query: 128 tctctgtctctgtccctctctgtctctgtctctctctgtctctttgtctctctgtctctc 187
           ||||||  |||||  |||||||  ||||||||||||||||              ||||||
Sbjct: 209 tctctg--tctgt--ctctctg--tctgtctctctctgtc--------------tctctc 170

                                                                       
Query: 188 tgtctctctgtctctgtctctgtctctgtctctgtctctgtctctgtctctgtctctctc 247
           ||||||||||||||||||||                                        
Sbjct: 169 tgtctctctgtctctgtctc---------------------------------------- 150

                                                                       
Query: 248 tctctctctctctctctctctctctgtctctctctctctgtctctctctctctgtctctc 307
                                                   ||||||||||||||||||||
Sbjct: 149 ----------------------------------------tctctctctctctgtctctc 130

                                                                       
Query: 308 tcaatatctattcctctaacactcagtatgactaatgattctcttctcttctcttctaca 367
           |||||||||| |||||||||||||||||||||||||||||||||| |||||||| |||||
Sbjct: 129 tcaatatctactcctctaacactcagtatgactaatgattctcttatcttctctcctaca 70

                                         
Query: 368 aaggggatgatattttaatgtcatctgcaa 397
           |||||||||| |||| ||||||||||||||
Sbjct: 69  aaggggatgacatttgaatgtcatctgcaa 40


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: 56
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 653
Length of database: 1054
Length adjustment: 10
Effective length of query: 643
Effective length of database: 1044
Effective search space:   671292
Effective search space used:   671292
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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