BAC Information

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BAC

Clone NameMSMg01-072E03
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,287
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 nameMSMg01-072E03.T7 (MSMg01no072_e03.b1)MSMg01-072E03.TJ (MSMg01no072_e03.g1)
ACCAG295846AG295847
length697700
length of high quality
(start - end)
536 (40 - 575)465 (72 - 536)
definitionCHROMAT_FILE: MSMg01no072_e03.b1 PHD_FILE: MSMg01no072_e03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:19:56 2005CHROMAT_FILE: MSMg01no072_e03.g1 PHD_FILE: MSMg01no072_e03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:19:56 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCT
GTATCTTTGCCGGGTCAGAGTTTCAGACTTCATGGTTGAACAGTTTAAAT
GAGACTGTGGGTCTTCCTAGAGGGATACCCTTGTTTTTAACATTTTTTTA
AACTTTGTTAATTCAACAACAAGCGTCAGATGCTCCAGTCCATTAGTTGG
TTGCAAATATCTGCAGCTGAATCCTTCACCTGCTAGTTCCTAATGAGGTA
CATGTCTTAAACTTGTTGTAGTGTATGTACTAGATAATGAATCATAATAA
TATCAAAAATATATTGCATATTGTAACTGAGAAATATAACGTTGGTTCTA
AGGGACCTATTCACATTCAGTTCAAGATATAGGTAATAAACAGTGTTTCT
CAATGTTTCTTAAAATGACTGTGGGTAACCTAAAGAAACAAAGCTAAACC
AAACTAAACCAAAAGAAACACCCTCTTCTATACATTGTCTCATCTTCTTC
CAATTGACCAGTTCTTAAAAGCCATGCTCTTGAGTGAAACTACACATTGG
AAGTGACCTTCCCCTACTCTGATTCAGAATATCACTTTACATGAGCTCAG
ATATCTTATTTTGCAATCTGAGTGAATGTGTGACTTTGATATTAGTTGAT
TGTTAATATAAAGCACAAATTGTGTAGGAATGTGAATGAATGTTACT
AATGAAGTGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXAAAATAAACAAAATCTCTTCAATCTGTCT
CACCAATCATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCTC
ACAATGATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTTCATTT
CTCTACAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCCCATCTA
ATACCATCAGATACTTCTATGCATCAGAGGGAACAAGGTCTAGCTGTGTG
CCTTGCAGGTTGGGTAGAGCACTGTCAATATCCCTTCTCCTCCAGCAAAC
CCTCTCAAGGCTCACAACGGTTGTCTTCCAGAATAAAATCTGATTGCCTA
AGAGAAGGAGCAAATCATCTCTGCTTGCTCTAATGTCTAAATGACATTGC
AGATTAAGAAAAAACATGGAGCTTCCCTAAGATTCTCAGTCCGGAAGCAT
TTGGACAATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATTCTACAG
ACCATTGAATTGTCCCATTAGAAGTCAACTTTCCAGCAGGTAGCAGCAGC
TCCAACTGTTGTCTCCAAAGGCAGTTAAACAAAAGCAACCTGAAGAGGTA
GGTGAACTGCTCCTGTTCCCTCAAGGTGACTTTGGTTTCTGGTGGGAGGG

quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no072_e03.g1 MSMg01no072_e03.g1 CHROMAT_FILE:
MSMg01no072_e03.g1 PHD_FILE: MSMg01no072_e03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:19:56 2005
         (465 letters)



>mm_chrY_1655631_1656491
          Length = 861

 Score =  364 bits (188), Expect = e-105
 Identities = 398/472 (84%), Gaps = 26/472 (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-ggaagcatttggacaatccattactttcatagggtccaaa 461
           ||||||||||| ||| |||||||| ||||| |||||||||||||||||||||
Sbjct: 607 attctcagtccagga-gcatttgggcaatctattactttcatagggtccaaa 657


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: 465
Length of database: 861
Length adjustment: 10
Effective length of query: 455
Effective length of database: 851
Effective search space:   387205
Effective search space used:   387205
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)