BAC Information

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BAC

Clone NameMSMg01-179B22
ChromosomeY (Build37)
Map Location 2,870,367 - 2,870,650
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-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
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-179B22.T7 (MSMg01no179_b22.b1)MSMg01-179B22.TJ (MSMg01no179_b22.g1)
ACCAG373000AG373001
length731729
length of high quality
(start - end)
329 (35 - 363)292 (65 - 356)
definitionCHROMAT_FILE: MSMg01no179_b22.b1 PHD_FILE: MSMg01no179_b22.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:52:03 2005CHROMAT_FILE: MSMg01no179_b22.g1 PHD_FILE: MSMg01no179_b22.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:52:03 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCACTAAA
ACTCTGGGAATTTGGGGCACTTATGAGGAATATTTTTTTTCCTGACTTGA
TTATGTGAGATAGCAAGACCAACCCCAAATGTAGATCGTTTGTTCTGTTG
TAGAAACAACTCTACAATATAAATTTCATTGATGTTATTTTTTTAATAAA
AGTGTGTAGCTAGGACTAAATTCTAGTAGTTTCAATCAAGATAGTTTTTA
TGATCTTACACTGTTTCTGTCTTTTATTACAGTGTTTTCTGAACACTGAG
GTAGAGATTTGATGGTGACCTCCCTTGTAGGACTGAATGTTAGAAGGTCC
CTTTTTTTTTGCACCATCACCTCCCTGCAAGTCTCTGTATTTGTTTCCAT
CTGCTGCACGACGATACTTCTGAGATGATGAATGAGCAAGATACAGATCT
GTGAGTATAGCAAAATGTCAACAAGAGTCATTTAACTTCTATACTCCTTT
AGTAGAATAGTAGTATTTGGTCTTTCCTAGATCCTTGGCATTTCTAGTTT
CAGGTTCTTGGTCATTCAAGAATTCTTGAGTATGGATTCCACTTAATGAT
ATCTGTGATTGTATATGCTTGGCACAGGTAATGCCCCTATTATTATATTT
GCTCTTGGACTCCGTGTGTTATCTATTATTGTTGCTCCCACATTTTCCAC
ATACCTTATTTTTAATTCCCCTCCCTTACCC
GGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXTCCTTTGCTTTTCTCTTGTTTCTCCAATTACTTCAG
CAAGATTCTGCATTGCCTTTTGTTTTGGAAGATTCTCGAGGAATCCTAAA
TCCAGACTTTAGGGCAGTTATTTAAAATTCTTACTGGTCGTTCTGACAAT
GGATTCCTCTTCTTCTTTTTTTTTTTAATTAGATATTTTTTCATTTACAT
TTCCAATCCTATCCCAAAAGTCCCCCCATACCCACCTCAACCCCACCACC
ACCACCACCATATCTTGTCGCTGGCATACCCCTGAACTAAGGCATATAAA
GTTTGTTTGGCTGACGCCCCCTCTCTTTCCAATGATGTTCAACTAGTCCG
TCTTCTGATACCAATGCAGCCAGAAATACGAGCACTGATAAGTTGCTAGA
AAAATGAGCTCTGTGGGGTTTCTTTAGTTCATATTGTTGTTCCACTTATG
GGATTGCAGACCCCTTAAGTTCCTTGGGTACCTTCTCTACCTCCTCCATT
TCGGTCCCTGTGATTCATCCAATAGCTTACTGTGAGCATCCACTTCTGTG
TTTGCTAGGTCATGGCATAGCCTCACTAGAGACAGCTAAATCTGGGTCCT
TCTCTGAAAACTTGCCAGTGGATGCAATGGTGCCAGTGTTTGTTCGCTGA
TTTTGGCATGCTTATCTATCATTGTATCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no179_b22.g1 MSMg01no179_b22.g1 CHROMAT_FILE:
MSMg01no179_b22.g1 PHD_FILE: MSMg01no179_b22.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:52:03 2005
         (292 letters)



>mm_chrY_2870164_2870855
          Length = 692

 Score =  393 bits (203), Expect = e-114
 Identities = 265/291 (91%), Gaps = 10/291 (3%)
 Strand = Plus / Plus

                                                                       
Query: 4   tttgcttttctcttgtttctccaattacttcagcaagattctgcattgccttttgttttg 63
           ||||||||||||||||||||||||||||  || |||||||||||||| ||||||||||||
Sbjct: 204 tttgcttttctcttgtttctccaattacagcaccaagattctgcatttccttttgttttg 263

                                                                       
Query: 64  gaagattctcgaggaatcctaaatccagactttagggcagttatttaaaattcttactgg 123
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 264 gaagattctcgatgaatcctaaatccagactttagggcagttatttaaaattcttgctgg 323

                                                                       
Query: 124 tcgttctgacaatggattcctcttcttctttttttttttaattagatattttttcattta 183
           | ||||||||||||| |||||| |       ||||||| |||||| ||||||||||||||
Sbjct: 324 tggttctgacaatggtttcctcat-------tttttttaaattaggtattttttcattta 376

                                                                       
Query: 184 catttccaatcctatcccaaaagtccccccatacccacctcaaccccacc---accacca 240
           |||||||||| |||||||||||||||||||||||||||||||||| ||||   |||||||
Sbjct: 377 catttccaatactatcccaaaagtccccccatacccacctcaaccacacccctaccacca 436

                                                              
Query: 241 ccaccatatcttgtcgctggcatacccctgaactaaggcatataaagtttg 291
           |||||| |||||||| |||||||||||||||| ||||||||||||||||||
Sbjct: 437 ccaccacatcttgtccctggcatacccctgaaataaggcatataaagtttg 487


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: 6
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: 292
Length of database: 692
Length adjustment: 9
Effective length of query: 283
Effective length of database: 683
Effective search space:   193289
Effective search space used:   193289
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)