BAC Information

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BAC

Clone NameMSMg01-262F08
ChromosomeY (Build37)
Map Location 1,656,065 - 1,656,300
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 nameMSMg01-262F08.T7 (MSMg01no262_f08.b1)MSMg01-262F08.TJ (MSMg01no262_f08.g1)
ACCAG404465AG404466
length749732
length of high quality
(start - end)
241 (46 - 286)133 (79 - 211)
definitionCHROMAT_FILE: MSMg01no262_f08.b1 PHD_FILE: MSMg01no262_f08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:58:57 2005CHROMAT_FILE: MSMg01no262_f08.g1 PHD_FILE: MSMg01no262_f08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:58:58 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
TCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCCCAGAAACGCGGA
ATTCAAACAATTTTGTCCCCTATGAAAGTAATGGATTGTCCAAATGCTCC
CGGACTGAGAATCTTAGGGAAGCTCTAGGTTTTTTCTTAATCTGTAATGT
CATTTAGATATTAGAGCAAGCCGAGATGATTTGCTCCTTCTCTTAGGCAA
TCAGATTTTATTCTGGAAGACAACCGTTGTGAGCCTTGAGAGGGTTTGCT
GGAGGAGAAGGGATATTGACAGTGCTCTACCCAACCTGCAAGGAACACAG
CTAGACCTTGTTCCCTCTGATGTCTTAGAAGTGTCTGATGGTATTATATG
GGATTCTTGATGAGTACAGAATCCGACGAACGGATCCTGGTATAGAAATG
AAGTGTAGTTATACAACCTACTAACGTTATTCCATTGATCATTGTTACCC
AGAATAAGAATGTACTCAATCTTTGTATTTTATGTCTGATTGCTTGAAAC
AGATTGAACATATTTATGCTATTTATAGACCCCTTTGTATTATTTTATTC
ATATTTTTGTTTTTTGATATTTTTTTACTGTTTTTTTCTCCTATATCACT
CAGTCTATTTTTAAACTCTTATACTTTTCCTTGCTTTTCGTTTATTTTTT
TTTCTATACTTTACTTCCTCTTTTTGTTTTTTTATTTTACCTTCTATTTT
TTTATTTTAATTTTTTTATATTCTGTCCCTCTACTGTCCTTTATTTTTT
CCGATGCAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXAGATAGCTTTAGACACTGACAGCTG
TGATGATTTAAGATAGGCAGCAGAGTGCTCACAGCATCACTAAGAGATGA
ACATTAGCTTGCTGTCATATTCACCCACACTCACACATACATAAACACAC
ACAAACACACACACACACATAAACACACACAACACTCACACAAACACACA
CGCACTCATACACCCACACACACACACACACTCACAAACGCATACCAGCC
ATTGGAACACAAACCCCAGTAGTGACTCCCGTGACAGCTCTAAATATTTA
GACACAGTCCCTAGTCAAAAAGTCCATGTAAACTACTTCTTCAAGAACCA
TCCTGGAAAAAATGTATCTAACTCGTCCTTACTTTATCAAGTGATTGAAA
CTTTGTGACTTCTTCCAATGTCGCTTAATCATAAATGACTCCAAGTAATG
ACTTGTTAAATATCTAATACATATCCAACTTTGTTCCCTGTCTCTCCCTA
ATATTCTAGGTAGCCCTTGAGCGGATCCTGAGTTTGAAATATCACAAGAA
TGTTACCCTGTACACCACCACAGTCACCTCTTCGTCATTATTAAGAGAGA
TCGTGACCACCCATTGCCAAACATCTACATCATAGCTCTGCAACCTCCTA
CTGACACACCTTAGACCAATGCTACTGCTTAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no262_f08.b1 MSMg01no262_f08.b1 CHROMAT_FILE:
MSMg01no262_f08.b1 PHD_FILE: MSMg01no262_f08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:58:57 2005
         (241 letters)



>mm_chrY_1655862_1656502
          Length = 641

 Score =  250 bits (129), Expect = 7e-71
 Identities = 211/239 (88%), Gaps = 6/239 (2%)
 Strand = Plus / Minus

                                                                       
Query: 4   gaattcaaacaattttgtcccctatgaaagtaatggattgtccaaatgctcccggactga 63
           |||||||||||| ||||  ||||||||||||||| ||||| ||||||||||| |||||||
Sbjct: 439 gaattcaaacaagtttggaccctatgaaagtaatagattgcccaaatgctcctggactga 380

                                                                       
Query: 64  gaatcttagggaagct-ctaggttttttcttaatctgtaatgtcatttagatattagagc 122
           ||||||| ||||| || |||||  ||||||||||||| |||| |||||||||||| ||||
Sbjct: 379 gaatcttggggaa-ctgctagggattttcttaatctgcaatggcatttagatattggagc 321

                                                                       
Query: 123 aagccgagatgatttgctccttctcttaggcaatcagattt-tattctggaagacaaccg 181
           |||  |||||| |||||||||||| ||||||| |||||||| | |  |||||||||| | 
Sbjct: 320 aagtggagatgctttgctccttcttttaggcactcagatttgtct--tggaagacaaact 263

                                                                      
Query: 182 ttgtgagc-cttgagagggtttgctggaggagaagggatattgacagtgctctacccaa 239
           ||||||||  |||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 262 ttgtgagcatttgagagggtttgctggaggagaagggatattgacagtgctctaaccaa 204


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: 4
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: 241
Length of database: 641
Length adjustment: 9
Effective length of query: 232
Effective length of database: 632
Effective search space:   146624
Effective search space used:   146624
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)