BAC Information

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BAC

Clone NameMSMg01-376A19
ChromosomeY (Build37)
Map Location 1,271,950 - 1,272,400
singlet/doubletsinglet
Overlap genenone
Upstream geneJarid1d, Eif2s3y, Tspy-ps, Uty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079
Downstream geneLOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-376A19.T7 (MSMg01no376_a19.b1)MSMg01-376A19.TJ (MSMg01no376_a19.g1)
ACCAG481459AG481460
length769768
length of high quality
(start - end)		413 (45 - 457)432 (71 - 502)
definitionCHROMAT_FILE: MSMg01no376_a19.b1 PHD_FILE: MSMg01no376_a19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:15:51 2005CHROMAT_FILE: MSMg01no376_a19.g1 PHD_FILE: MSMg01no376_a19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:15:51 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCAAGGCCCATACTTGAACATAATAAAAGCAGTATATAGCAAAACAGT
AGTCAACATCAAACTAAATGGAGAGAAACTAAACCCAATCCCACTAAAAT
CAGGGACTAGACAAGGCTGCCAATTTCTTCCTATCTATTCAATATATCAC
TTGAAATCCTAGCCAGAGCAATTAGACAACAGAAGTAGATCAAGGGAGCA
CCATGGTCCCTGGACCGGGGGATTCTGTGGACACCCACAAGGACCCACAC
AGGATCCTCCACGGGATCCTAAGACCTCTGGTGGGTGGAACACAGCGCCT
GGTCCAATCAAATTGCCCAGGACCCTAGACTGCACATTATTATTATGCAC
ATCAGATAGGCATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG
TGTGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNNNNNN
NNNNNNNNNNNNNNNNNNN

ATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXAGAAACATACAGAGGCTGTGTACTGCAAGC
AGGTCTTCTGCAAAAGCAATATATAATATAAGTACTAAAATTGATATCAG
TGCTCTACAATATTCTATTCTATGTGATGAAATCTCTCTCTCTCTTTCTC
TCTCTCTCTCTCTCAATATATATATTCCTCTAACACTTAGTATGAATAAA
AATACTCTTATATTCTCTCCTACAAAGGAGATGATATTGGCATGTCATCT
GCAACATTCATTCACTTTCCTACACAGTTTGTGCTTTCTCTTAGCAATCA
ACTAATATCTAAATCACACATGCACTCAGATTACAAAGTAAGGTATCTGA
GCTCATACAAACTGTTATTCTGAGTCAGAGTAGTTGGAGGACAATTCCAA
ACTGTAGTTACGTCCAAGAGCATGGACTTTAACAACTTGTGAATCAGTAG
AAGAGACAATGTATAGATGCGTTTGTTTCTTTTTGGTTGGTTTGGGTTAA
CTTATTGGGGTACCCCCCATCCTTATTAGATATACGCAGAAACCAAAATT
ATTGGCTGTATCTTGAATGGAATGGAACAGGGGCCTTTAAACAAAATAAT
ATTTTGGTAAAATAAACAAAATTAATTTTAAAAAGTTTTTTTATTATTAC
CTAATAAAACCCCCCGCACCCTGTTAAAAAATTATCCATAGGGCCCTCAG
AAAACTTTATTTATTTAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no376_a19.g1 MSMg01no376_a19.g1 CHROMAT_FILE:
MSMg01no376_a19.g1 PHD_FILE: MSMg01no376_a19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:15:51 2005
         (432 letters)



>mm_chrY_1271770_1272600
          Length = 831

 Score =  342 bits (177), Expect = 2e-98
 Identities = 376/469 (80%), Gaps = 55/469 (11%)
 Strand = Plus / Plus

                                                                       
Query: 1   agaaacatacagaggctgtgtactgcaagcaggtcttctgcaaaagcaat-----atata 55
           |||||| | |||||||||  |||||||| |||||||||||||||||||||     |||||
Sbjct: 181 agaaacctgcagaggctgcctactgcaatcaggtcttctgcaaaagcaatacacgatata 240

                                                                       
Query: 56  atataagtactaaaattgatatcagtgctctacaatattctattctatgtgatga----- 110
           | |||   ||| || ||  | ||||||||||||||     |||||||||||||||     
Sbjct: 241 a-ata---actgaattttctgtcagtgctctacaa-----tattctatgtgatgaaatct 291

                                                                       
Query: 111 -------aatctctctctctct-------------t-tctctctctctctctctcaatat 149
                  |||||||||||||||             | |||||||||||||||||||  ||
Sbjct: 292 ctctctcaatctctctctctctctctctctctctctctctctctctctctctctca--at 349

                                                                       
Query: 150 atatattcctctaacacttagtatgaataaaaatactcttatattctctcctacaaagga 209
           || || || |||||||||||||||||||||  || ||||||| |||||| ||||| ||| 
Sbjct: 350 atctactcttctaacacttagtatgaataatgattctcttatcttctctgctacatagg- 408

                                                                       
Query: 210 g-atgatattggcatgtcatctgcaacattcattcactttcctacacagtttgtgctttc 268
           | |||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 409 gcatgatattggaatgtcatctgcaacattcattcactttcctactcagtttgtgctttc 468

                                                                       
Query: 269 tcttagcaatcaactaatatctaaa-tcacacatgcactcagattacaaagtaaggtatc 327
           |||||| |||||||||||||| ||| |||||||| ||||||||||||||| |||||||||
Sbjct: 469 tcttaggaatcaactaatatc-aaagtcacacattcactcagattacaaaataaggtatc 527

                                                                       
Query: 328 tgagctcatacaaactgttattctgagtcagagtagttggag----gacaattccaaact 383
           | |||||||| || |||||||||||||| |||||    ||||    |||| ||||||  |
Sbjct: 528 ttagctcatataa-ctgttattctgagtgagagt----ggagaaaggacacttccaatgt 582

                                                            
Query: 384 gtagttacgtccaagagcatggactttaacaacttgtgaatcagtagaa 432
           ||||||||  ||||||| |||| |||||| |||| || || ||||||||
Sbjct: 583 gtagttacacccaagagtatggcctttaaaaactggtaaaacagtagaa 631


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: 24
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: 432
Length of database: 831
Length adjustment: 9
Effective length of query: 423
Effective length of database: 822
Effective search space:   347706
Effective search space used:   347706
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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