BAC Information

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BAC

Clone NameMSMg01-322P05
ChromosomeY (Build37)
Map Location 1,655,339 - 1,655,989
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 nameMSMg01-322P05.T7 (MSMg01no322_p05.b1)MSMg01-322P05.TJ (MSMg01no322_p05.g1)
ACCAG441506AG441507
length737736
length of high quality
(start - end)
659 (46 - 704)616 (77 - 692)
definitionCHROMAT_FILE: MSMg01no322_p05.b1 PHD_FILE: MSMg01no322_p05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:06:01 2005CHROMAT_FILE: MSMg01no322_p05.g1 PHD_FILE: MSMg01no322_p05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:06:01 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTCTGCTGATCTGCACAGGAAAGCACAGAAATCTAGGACTATACAG
AAATATCCAGTTCCAGAGGAAAACAAAAAAAGAAACAGGGAGGAATTGGA
AAGTACAAATAAGAATTTGAATGTACAGATTGTAAATCCTGTCTCTGGGA
GTAATAATCAAGATACTTTGAAAGGAACAATCAAGCCATGTTTAAAAGAC
TGGACACACCATTTGGCATATGTTATATAAATCAGTAAAAATAATTAAAA
ATGTCTCATTAAAATTCACAACAGTCCCCTTAAGTTTTTTCTTCTGGTTT
TCTTCTTTAAATATCTTATTGAATCTGAAGTGATGGCTCAGCATTTCTGA
ACACTGGCAGCTCATGCACAGCATACACTTGGACTTGCCACATTTCCATT
GGCTGTTTACAACTTCTTCTATTTTAGTAACCACAGGGAATCCACACTCC
CCCTCCCATGAGATAATGTATCCATACCTATACAGAGAATTCAAAACAAA
CAAAATCTCTTCAATCTGTTTCACCAATCATACATTAGGTCCAATGCTTG
GGTGCTTTCTGTTTCAGGCTCACAATGATCAATGGTATATACTTTCTAGG
TTGTATAACTGCACTTCATTTCTCTACCAGGAACCTTTCCTCAGATTCTG
TCCTCATCAAGAATCCCATCTAATACCATCAGACACT
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCAGAGAAGTTGTACCTGCTTCCGT
CCCACCAGCAGTGGAGGAGTGTTCCTTTTTCTCCACATTTTCACGAACAT
GTGCTGTCATCTGAGGTTTTGATCTTAGCCAATTTGATTGGTGTAAAGTA
CAATCTCAGGGTTGTTTTGATTTGAATTAACCTGAGCACTAAGGACTTTA
AACATATCTTTAAGTGTTCCTTAGCCATTTTAGACTCTTCTGTCTTGACA
TCTCTATTTAGATATATACCCCATATTTGATTGGTTTATTTCGTTTCTTG
AGTTCTTTATATATTTTGGATATTAGCCCTTTATCAGATGTGAGGTTAGT
TGAGATTTTTTTCTCCACCCTGCAGGTTGATGATTAGTACCATTGCCTAT
ATGGTTTGCTTACAGAAGCTTTCCAGTTTCATGAGGTCACATTTATGAAT
TGATGATCTTAGAGCATGAGCCATGGGAGTAGTTTTTAGGACATTTACCT
CTCTGTGTCAATGAGTTTATCTTCTATTAGATTCAGTGGATCTTATTTTA
TGTTGATAATCTTGATCAACTTGAAACTGAGCTTTGTGCAAGGTGATAAG
TATGGATTTATTTTTATTTTTCAACATACAGACTGCAAATTAGAACAGCA
CCATTTATTGAAAATCCTTTCTTTTTCTCATCATAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no322_p05.b1 MSMg01no322_p05.b1 CHROMAT_FILE:
MSMg01no322_p05.b1 PHD_FILE: MSMg01no322_p05.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:06:01 2005
         (659 letters)



>mm_chrY_1655135_1656189
          Length = 1055

 Score =  460 bits (238), Expect = e-133
 Identities = 558/670 (83%), Gaps = 34/670 (5%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctctgctgatctgcacaggaaagcacag-aaatctaggactatacagaaatatcc 63
           |||||||||||||| ||||||||||| ||| || ||| |||||||||| |||||| || |
Sbjct: 205 gaattctctgctgaactgcacaggaaggcatagaaaaactaggactatccagaaaaatgc 264

                                                                       
Query: 64  agttccagaggaaaacaaaaaaag--aaacagg-gaggaattggaaag-tacaaataaga 119
           ||| |||   ||||| ||||| ||  ||| ||| |||||||||| |||  | ||||||| 
Sbjct: 265 agtccca---gaaaagaaaaacagaaaaaaaggagaggaattggtaagcaaaaaataag- 320

                                                                       
Query: 120 atttgaatgtacagattgtaaatcctgtctctgggagtaataatcaagata-ctttgaaa 178
              ||||||| | |||||||||||||||||||| || |||||||||||| | |||| |||
Sbjct: 321 ---tgaatgt-ctgattgtaaatcctgtctctgagaataataatcaagacaccttt-aaa 375

                                                                       
Query: 179 ggaacaatcaagccatgtttaaaag-actggacacaccatttggcatatgttatataaat 237
           |||||||| || |||||  |||||| ||| ||||||| || ||||| |||||||||||||
Sbjct: 376 ggaacaatgaaaccatgagtaaaagaactagacacacaatatggcaaatgttatataaat 435

                                                                       
Query: 238 cagtaaaaataattaaaaatgtctcattaaaattcacaacagtccccttaagttttttct 297
           ||||| ||| |||||||||||| ||||||||| | | || | |||||||| ||||| |||
Sbjct: 436 cagtagaaacaattaaaaatgtgtcattaaaaatgaaaatattccccttatgttttctct 495

                                                                       
Query: 298 tctggtttt-cttctttaaatatcttattgaatctgaagtgatggctcag-catttctga 355
           | ||||||| ||| ||||||| |||||||||||||| || ||| | |||| | |||||| 
Sbjct: 496 tgtggttttcctt-tttaaatgtcttattgaatctggagggattgatcagac-tttctgg 553

                                                                       
Query: 356 acactggcagctcatgcacagcatacacttggacttgccacat-ttccattggctgttta 414
           |||| | |||| ||| ||||||||||||||||||||||||| | ||||||||||| ||||
Sbjct: 554 acaccgccagcacatacacagcatacacttggacttgccac-tcttccattggctcttta 612

                                                                       
Query: 415 caacttcttctattttagtaaccacagggaat-ccacactccc-cctcccatgagataat 472
           ||||| | |||| || ||| ||||||||| || |||||||||| | ||||||| || |||
Sbjct: 613 caactccgtctacttcagtgaccacaggg-atgccacactccctcttcccatgggacaat 671

                                                                       
Query: 473 gtatccatacctatacagagaattcaaaacaaacaaaatctcttcaatctgtttcaccaa 532
           |||| |||||||||||||||||||||||||||||||||| |||||||  ||| ||| |||
Sbjct: 672 gtattcatacctatacagagaattcaaaacaaacaaaatgtcttcaaagtgtctcagcaa 731

                                                                       
Query: 533 tcatacattaggtccaatg-cttgggtgctttctgtttcaggctcacaatgatcaatggt 591
           | || |||||||||||||| ||  | |||| || | |||||||||||   ||| ||||||
Sbjct: 732 ttatgcattaggtccaatgtctcag-tgctctcagcttcaggctcac---gattaatggt 787

                                                                       
Query: 592 atatacttt-ctaggttgtataactgcacttca-tttctctaccaggaacctttcctcag 649
            |||| ||| |||  ||||||||||||||| || ||| |||||| |||| ||| ||||||
Sbjct: 788 ttata-tttgctaccttgtataactgcactacagttt-tctacctggaaacttgcctcag 845

                     
Query: 650 attctgtcct 659
           || |||||||
Sbjct: 846 atcctgtcct 855


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: 7
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: 659
Length of database: 1055
Length adjustment: 10
Effective length of query: 649
Effective length of database: 1045
Effective search space:   678205
Effective search space used:   678205
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)