BAC Information

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BAC

Clone NameMSMg01-336B07
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,326
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 nameMSMg01-336B07.T7 (MSMg01no336_b07.b1)MSMg01-336B07.TJ (MSMg01no336_b07.g1)
ACCAG451186AG451187
length745748
length of high quality
(start - end)		518 (40 - 557)500 (69 - 568)
definitionCHROMAT_FILE: MSMg01no336_b07.b1 PHD_FILE: MSMg01no336_b07.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:24:03 2005CHROMAT_FILE: MSMg01no336_b07.g1 PHD_FILE: MSMg01no336_b07.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:24:03 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCC
ACTGTACTGGAGCATCAAGTACAATGGGAACAGAGAGTAGGGGCTGGTCC
TGGGAAAGAGAAAGGGGCCAATCAGTCATTTTATCCTTCCTCTCAGGTAG
CAGTTTATTTTGGTTCAAGAAACAAATATACTTTCTTTCAATGAATTTTA
TAAGTGAACAGGAAATATTTCCATCTCTCAGAACTGCCTGTGGAAATTTT
ATTGTGGTTATAGGAGTTTTTTGGGGTCTATTTTCCGAAGAACAATTAAA
GCCAGGTATGTTTAAACATATCTGTATTAGCACCAACACGGAATGCTGAA
CCGCAACACTCTATCACTTCCTAGAGAATACATAACATACTAAGTGCCTA
CCTCAACACTAAAATGAAGTGAAATAAAATCAAACAAATGTACCTTCGAT
AATTGTATCTAGTGCATTGGGAAGTTTATAAGATAATGAATCAAAAAATT
CAATTATCTTTATGATAAAAATAATTAGAAATGTTAAGAAGGTTAAACAA
TTACTACAAGAAGGGGGAGGGAGAGACCTGGGTGAGAAACCACACACGGG
AGGGGTAGGAGATGGAACTTGGATCCAGTTCCGGGGGGGGGGTCGGGGTA
AATAAGAATGGGCTTTGTTTGAAAAATACTCCCCCCAAAAAGAGGGGNCG
NATTAATTGGGTCCTTTCTCTCGGGTCGAAGAGGTGGGGCTAAAC

AGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXAAAATAAACAAAATCTCTTCAATCTGTCTCAC
CAATCATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCTCACA
ATGATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTTCATTTCTC
TACAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCCCATCTAATA
CCATCAGATACTTCTATGCATCAGAGGGAACAAGGTCTAGCTGTGTGCCT
TGCAGGTTGGGTAGAGCACTGTCAATATCCCTTCTCCTCCAGCAAACCCT
CTCAAGGCTCACAACGGTTGTCTTCCAGAATAAAATCTGATTGCCTAAGA
GAAGGAGCAAATCATCTCTGCTTGCTCTAATGTCTAAATGACATTGCAGA
TTAAGAAAAAACATGGAGCTTCCCTAAGATTCTCAGTCCGGAAGCATTTG
GACAATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATTCTACAGACC
AATGAATTGTCCCATTAGAAGCCAACTTTCCAGCAGGTAGCAGCAGCTCC
AACTGTTGTCTCCAAAGGCAGTTAAACAAAAGCAACCTGAAGAGGCAGGT
GAAATGCTCCTGGTCCAACCAAGTGGACTTTGGGTTCTGGCGGGAGGGGG
CCAATTAATTGTTGGTAAAACCCCGTTTTCTGTGAAGTGCCCCCCCCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no336_b07.g1 MSMg01no336_b07.g1 CHROMAT_FILE:
MSMg01no336_b07.g1 PHD_FILE: MSMg01no336_b07.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:24:03 2005
         (500 letters)



>mm_chrY_1655631_1656526
          Length = 896

 Score =  408 bits (211), Expect = e-118
 Identities = 433/511 (84%), Gaps = 26/511 (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 cttgctctaatgtctaaatgacattgcagattaagaaaaaacatggagc--ttccctaag 410
           ||||||| ||| |||||||| ||||||||||||||||||  | |  |||  ||||| |||
Sbjct: 549 cttgctccaatatctaaatgccattgcagattaagaaaatccct--agcagttccccaag 606

                                                                       
Query: 411 attctcagtcc-ggaagcatttggacaatccattactttcatagggtccaaaattgtttg 469
           ||||||||||| ||| |||||||| ||||| ||||||||||||||||||||| |||||||
Sbjct: 607 attctcagtccagga-gcatttgggcaatctattactttcatagggtccaaacttgtttg 665

                                          
Query: 470 aattctacagaccaatgaattgtcccattag 500
           |||||| |||||||||| ||||| |||||||
Sbjct: 666 aattctgcagaccaatgcattgttccattag 696


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: 8
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: 500
Length of database: 896
Length adjustment: 10
Effective length of query: 490
Effective length of database: 886
Effective search space:   434140
Effective search space used:   434140
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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