BAC Information

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BAC

Clone NameMSMg01-352K22
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,209
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 nameMSMg01-352K22.T7 (MSMg01no352_k22.b1)MSMg01-352K22.TJ (MSMg01no352_k22.g1)
ACCAG463748AG463749
length809784
length of high quality
(start - end)
379 (71 - 449)383 (78 - 460)
definitionCHROMAT_FILE: MSMg01no352_k22.b1 PHD_FILE: MSMg01no352_k22.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:45:19 2005CHROMAT_FILE: MSMg01no352_k22.g1 PHD_FILE: MSMg01no352_k22.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:45:19 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
NTTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCGAGGATCCGCG
GAATTCTGTGGTTAATTTCCTTTGAAATGTCAGTCATGGGTCTTTGATGA
AGGCTTTGGTCCACAGTACAATGTTCATAGGTAGTACAATATGCTCTCTG
AAAAGTGATTGGAACCTGAGGGCTTTAATCAATGAGTTAATCAATCAATG
AATGTGCATGGAATGGGTAAAAAACTTGTAAATGAACGTGGTCATTTGGA
CATGTCTTCAAAGCTGTTTATTGTCTTTGTCCCTTCTTGTGTTAATGCTG
ACTAGCTGCCAATAAGTTGAACAGTTGTGCTGCTTCATGCCCCTTTCATA
TTCATGTGATCATGGATCCTTCTTTCATTTGTGATAGTAACATGTCAGGT
TCAGAGGAAACATGGCTTAATTCTTTAATTTTTTTTTCTAGAAACGGCAT
GCTAAGTGTAGAACCAATGTTACCTAGTTGTTGTAGTTGGAATATTCACC
CCCGGGATCTGTTGTCTTTGAGAACCAAGAACTTTTGTTGTTACCCCACC
CCTGTTTTTTTTTTTGATTCCCCATTGGTTTACAAAAAATTTTCACCCCT
TTTTACCCTCCCAATTTTTTTCCTTCACCTATACCGCCTCCTATCTTTTT
TATCTTTCTTTCTATCCCTTCTAATAATACAAACCAACTGCATCATCCTA
TCTTTCCCAAAATTTTTTTTATTATCTTCCCTATTCCTCCCTCCCTTTAT
TTTTTTTCCTACCATCCCCACTCTCCTATATTTTCTCCTTTCTTCTCCCC
CTTACACTG
NCCGATGAAAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXAAAATAAACAAAATCTCTTCAAT
CTGTCTCACCAATCATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTC
AGGCTCACAATGATCAATGGTATATACTTTCTAGGTTGTATAACTGCACT
TCATTTCTCTACAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCC
CATCTAATACCATCAGATACTTCTATGCATCAGAGGGAACAAGGTCTAGC
TGTGTGCCTTGCAGGTTGGGTAGAGCACTGTCAATATCCCTTCTCCTCCA
GCAAACCCTCTCAAGGCTCACAACGGTTGTCTTCCAGAATAAAATCTGAT
TGCCTAAGAGAAGGAGCAAATCATCTCTGCTTGCTCTAATGTCTAAATGA
CATTGCAGATTAAGAAAAAACATGGAGCTTCCCTAAGATTCTCAGTCCGG
AAGCATTTGGACAATCCATTACTTTCATAGGGCCCAAATTGTTTGAATTC
ACCAACCATGAATTGTCTCCTTAAAAACAACTTTTCAGGTAGCAACGGAA
GTTCAACTGTTGTTCCATAGGCGTTTAAATAAAATACCTTAAACATAGTG
GATTGTTCCTTGTTCCCCCAACGTATTTGTTTTTTGTCGGGTGGACATTC
ACCCTCTCTAAATCTTTTCCCCATTTTGCCTCCCTCTAATCCCTTTGGTA
TACAATATTTATTCCCCTTCAATTCCCTTCCTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no352_k22.g1 MSMg01no352_k22.g1 CHROMAT_FILE:
MSMg01no352_k22.g1 PHD_FILE: MSMg01no352_k22.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:45:19 2005
         (383 letters)



>mm_chrY_1655631_1656409
          Length = 779

 Score =  292 bits (151), Expect = 2e-83
 Identities = 329/391 (84%), Gaps = 20/391 (5%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaataaacaaaatctcttcaatctgtctcaccaatcatacattaggtccaatg-cttgg 59
           |||| ||||||||| |||||||  ||||||| |||| || |||||||||||||| | |  
Sbjct: 201 aaaacaaacaaaatgtcttcaaagtgtctcagcaattatgcattaggtccaatgtc-tca 259

                                                                       
Query: 60  gtgctttctgtttcaggctcacaatgatcaatggtatatacttt-ctaggttgtataact 118
           ||||| || | |||||||||||   ||| |||||| |||| ||| |||  ||||||||||
Sbjct: 260 gtgctctcagcttcaggctcac---gattaatggtttata-tttgctaccttgtataact 315

                                                                       
Query: 119 gcacttca-tttctcta-caggaacctttcctcagattctgtcctcatcaagaatcccat 176
           ||||| || ||| |||| | |||| ||| |||||||| ||||||||| |||| ||  |||
Sbjct: 316 gcactacagttt-tctacctggaaacttgcctcagatcctgtcctcagcaaggat--cat 372

                                                                       
Query: 177 -ctaataccatcagatacttctatgc-atcagagggaacaaggtctagctgtgtgccttg 234
            | || ||||||||| | |||||||| | |||||||||||| ||||||||||||||| ||
Sbjct: 373 gc-aacaccatcagaaaattctatgcta-cagagggaacaaagtctagctgtgtgccatg 430

                                                                       
Query: 235 caggttgggtagagcactgtcaatatcccttctcctccagcaaaccctctcaag-gctca 293
           ||| |||| ||||||||||||||||||||||||||||||||||||||||||||  |||||
Sbjct: 431 cagtttggttagagcactgtcaatatcccttctcctccagcaaaccctctcaaatgctca 490

                                                                       
Query: 294 caacggttgtcttccagaata-aaatctgattgcctaagagaaggagcaaatcatctctg 352
           ||| | ||||||||||  | | |||||||| ||||||| |||||||||||| ||||||  
Sbjct: 491 caaagtttgtcttcca--agacaaatctgagtgcctaaaagaaggagcaaagcatctcca 548

                                          
Query: 353 cttgctctaatgtctaaatgacattgcagat 383
           ||||||| ||| |||||||| ||||||||||
Sbjct: 549 cttgctccaatatctaaatgccattgcagat 579


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: 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: 383
Length of database: 779
Length adjustment: 9
Effective length of query: 374
Effective length of database: 770
Effective search space:   287980
Effective search space used:   287980
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)