BAC Information

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BAC

Clone NameMSMg01-162B12
ChromosomeY (Build37)
Map Location 1,656,008 - 1,656,294
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 nameMSMg01-162B12.T7 (MSMg01no162_b12.b1)MSMg01-162B12.TJ (MSMg01no162_b12.g1)
ACCAG361323AG361324
length725725
length of high quality
(start - end)
320 (43 - 362)290 (72 - 361)
definitionCHROMAT_FILE: MSMg01no162_b12.b1 PHD_FILE: MSMg01no162_b12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:29:23 2005CHROMAT_FILE: MSMg01no162_b12.g1 PHD_FILE: MSMg01no162_b12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:29:23 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCATGCTGGAAAAAACTGGAGAAAAGAAATCAGGATTTTTGTGGGCCAAG
GTCCATGACATAAGGCTTCAGATATCTAAATTGGCAAAGCTCATGCAGCC
AAGAAAAACCTTTACACAGACACCTAGAGTCTTGTGGCAATGAGCCAGGA
TCAAATTCACCATAACTATCCATATTTTAGCATTCCTTGTGCTATGATAA
TAAAGGACACAGCCTGAGTTCATATAAATCATTAGGTCTGCTTTTATTGG
GTTCTAACTTCCTGGGGCGGGGCTCTAAAGCAGGACAAATCTTTCCTCTG
ATCAGCAGAAGATTTATTTTGACCCACCCACCCTCGGGCACGCATGCAGA
GCTTAGAGAATGAGAACCCTGAACGGGCATAGAACCTCAAGAGATTAAGA
AAGAAATTGACTTCTGTTTGGTATTTGCCTGTCAGAGAGAGAAGCACTTA
AGGCAGGGTCATCTCTGCCTTTCATTGTTTCAGGACTCAACACTCTGCAA
CTTTGTTTCAATACCTTCTTTCTGTTAGCCATTAGCTTGCCTTTAGCCTC
CTAGACTCAGTGTTGCTGAGTGTGAAACAGATTATACTCCTGACAGCCTC
AGGAGCATGTAGATGCGTAATTCACACACAAGTACCAATTCAAATGTGTT
GTGACTGGCCAGCGTCTCACATGTC
TAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXAAACAATTTTGGACCCTATGAAAGTAATG
GATTGTCCAAATGCTTCCGGACTGAGAATCTTAGGGAAGCTCCATATTTT
TTCTTAATCTGCAATGTCATTTAGACATTAGAGCAAGCAGAGATGATTTG
CTCCTTCTCTTAGGCAATCAGATTTTATTCTGGAAGACAACCGTTGTGAG
CCTTGAGAGGGTTTGCTGGAGGAGAAGGGATATTGACAGTGCTCTACCCA
ACCTGCAAGGCACACAGCTAGACCTTGTTCCCTCTGATGCATAGAAGTAT
CTGATGGTATTATTTGTTATTCTCCGCCCCCCCCGAATCTGAGGAAAGGT
TCCTGTAGAGAAATGAAGCGCACTTATACAACCAAGAAAGTATATACCAT
TGATCATTGTGAGCCTGAAACAGAAAGCACCCAAGCATTGGACCTAATGT
ATGATTGGTGAGACAGATTGAAGAGATTTTGTTTATTTTGAATTCTCTGA
ATAGGTATGGATACATTGTCTCATGGGAAGGGGGAGTGTGGATTCCCTGT
GGTTACTAAAATAGAAGAAGTTGTAAACAGCCAATGGAAATGTGGCAAGT
CCAAGTGTATGCTGTGCATGAGCTACCAGTGTTCAGAAATGCTGAGCCAT
CACTTCAGATTCAATAAGATATTTA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no162_b12.g1 MSMg01no162_b12.g1 CHROMAT_FILE:
MSMg01no162_b12.g1 PHD_FILE: MSMg01no162_b12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:29:23 2005
         (290 letters)



>mm_chrY_1655808_1656497
          Length = 690

 Score =  288 bits (149), Expect = 2e-82
 Identities = 256/295 (86%), Gaps = 16/295 (5%)
 Strand = Plus / Minus

                                                                       
Query: 1   aaacaattttggaccctatgaaagtaatggattgtccaaatgcttcc-ggactgagaatc 59
           |||||| ||||||||||||||||||||| ||||| |||||||| ||| ||||||||||||
Sbjct: 487 aaacaagtttggaccctatgaaagtaatagattgcccaaatgc-tcctggactgagaatc 429

                                                                       
Query: 60  ttagggaa--gctcca--tattttttcttaatctgcaatgtcatttagacattagagcaa 115
           || |||||  |||  |   |  |||||||||||||||||| |||||||| ||| ||||||
Sbjct: 428 ttggggaactgct--aggga--ttttcttaatctgcaatggcatttagatattggagcaa 373

                                                                       
Query: 116 gcagagatgatttgctccttctcttaggcaatcagattt-tattctggaagacaaccgtt 174
           |  |||||| |||||||||||| ||||||| |||||||| | |  |||||||||| | ||
Sbjct: 372 gtggagatgctttgctccttcttttaggcactcagatttgtct--tggaagacaaacttt 315

                                                                       
Query: 175 gtgagc-cttgagagggtttgctggaggagaagggatattgacagtgctctacccaacct 233
           ||||||  |||||||||||||||||||||||||||||||||||||||||||| |||| ||
Sbjct: 314 gtgagcatttgagagggtttgctggaggagaagggatattgacagtgctctaaccaaact 255

                                                                  
Query: 234 gcaaggcacacagctagaccttgttccctctgat-gcatagaagtatctgatggt 287
           ||| ||||||||||||||| |||||||||||| | |||||||| | |||||||||
Sbjct: 254 gcatggcacacagctagactttgttccctctg-tagcatagaattttctgatggt 201


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: 290
Length of database: 690
Length adjustment: 9
Effective length of query: 281
Effective length of database: 681
Effective search space:   191361
Effective search space used:   191361
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)