BAC Information

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BAC

Clone NameMSMg01-434O19
ChromosomeY (Build37)
Map Location 2,870,367 - 2,870,798
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-434O19.T7 (MSMg01no434_o19.b1)MSMg01-434O19.TJ (MSMg01no434_o19.g1)
ACCAG526349AG526350
length747744
length of high quality
(start - end)		483 (38 - 520)438 (70 - 507)
definitionCHROMAT_FILE: MSMg01no434_o19.b1 PHD_FILE: MSMg01no434_o19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:59:29 2005CHROMAT_FILE: MSMg01no434_o19.g1 PHD_FILE: MSMg01no434_o19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:59:29 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAAG
AAGCTATACACCAAAAAAAAAAAAAACACATTCTAATGAAAAAAATGAGC
TCTAGAGCTAAACAAAATTCTCAATTTAGGAATCTCAAAAGCCTGAGAAG
CAACTAAAGAAATGTTCAACATCCTCATTTATAGTGAAATACAAATCAAA
ACCACGCTGAGATTCCATCCTAAACCAATCAGAATGGTTGAGACCAAAAT
GTCAGGTGAAAATAGCTGCTAGAGCAAATGTAGATAAAAAAGAACACTTT
ATCTTTGCTAGTGGGATTGCAAAGTGTTTTCCAGATTCTATAATCTGGAA
AATATTCTGGCATTTCTTCACAAAATTGGAAATAAGTCTATCTGAATGTT
CATATATACAACTTCTGGGCATATACCCCCAAAATGCTCTACCATATCAT
GAGTAAACCTTCAGTGTTTACAGCAGCCTTAATTATAATAGTGGGGGTTC
AGGGACTATGCCGAACTTAGGAAATTAATCTGAACAGGTAAGAGAGTGCA
CCACAGACCCGGACAGCTTCTGGGACAGGCCAAGCACAGAACCGCTGAGG
CAGCACCTTTTTTCGGCCATAGAAAGCCCGGCAGCCTCCCCACCCAAAGG
AAAGGGATCCTGCCTGTTTCCGAAAGGCCCCAACCCCTCGGAAACAGCGG
GATGCCACCTTTGGGTTCTATTACCGCCTCCCAAAAATAATTAAATT

GCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXTCCTTTGCTTTTCTCTTGTTTCTCCAATTAC
TTCAGCAAGATTCTGCGTTGCCTTTTGTTTTGGAAGATTCTCGAGGAATC
CTAAATCCAGACTTTAGGGCAGTTATTAAAAATTCTTACTGGTCGTTCTG
ACAATGGTTTCCTCTTCTTTTTTTTTTTTTAATTAGATATTTTTTCATTT
ACATTTCCAATCCTATCCCAAAAGTCCTCCCATACCCACCTCAACCCCAC
CACCACCACCCCCATATCTTGTCGCTGGCATACCCCTGAACTAAGGCATA
TAAAGTTTGCAAGACTGATGAGCCTCTCTTTCCAATGATGTTCAACTAGT
CCGTCTTCTGATACAAATGCAGCCAGAAATACGAGCACTGATAAGTTGCT
AGAAAAATGAGCTCTGCGGGGTTTCTTTAGTTCATATTGTTGTTCCACTT
ATGGGATTGCAGACCCCTTTAGCTCCTTGGGAACCTTCTCTACCTCCTCC
CTTTCGGTCCCTGTGATTCATCCAATAGCTGACTGTGAGCATCCCCTTCT
GTGTTTGCTAGGCCATTGGATAACCTCCCCAAAAGACAGTTTAAATTCGG
GGCCCTTCCACCAAAAACTTTGCCCGTGTATGGCATGGGGGCTCAGGGTT
TTGATGCTGCATAATTGGTATGGTTCCCCTTCAAAATGTGAGTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no434_o19.g1 MSMg01no434_o19.g1 CHROMAT_FILE:
MSMg01no434_o19.g1 PHD_FILE: MSMg01no434_o19.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:59:29 2005
         (438 letters)



>mm_chrY_2870164_2871001
          Length = 838

 Score =  536 bits (277), Expect = e-156
 Identities = 395/439 (89%), Gaps = 11/439 (2%)
 Strand = Plus / Plus

                                                                       
Query: 4   tttgcttttctcttgtttctccaattacttcagcaagattctgcgttgccttttgttttg 63
           ||||||||||||||||||||||||||||  || ||||||||||| || ||||||||||||
Sbjct: 204 tttgcttttctcttgtttctccaattacagcaccaagattctgcatttccttttgttttg 263

                                                                       
Query: 64  gaagattctcgaggaatcctaaatccagactttagggcagttattaaaaattcttactgg 123
           |||||||||||| |||||||||||||||||||||||||||||||| ||||||||| ||||
Sbjct: 264 gaagattctcgatgaatcctaaatccagactttagggcagttatttaaaattcttgctgg 323

                                                                       
Query: 124 tcgttctgacaatggtttcctcttctttttttttttttaattagatattttttcatttac 183
           | ||||||||||||||||||||       |||||||| |||||| |||||||||||||||
Sbjct: 324 tggttctgacaatggtttcctc------attttttttaaattaggtattttttcatttac 377

                                                                       
Query: 184 atttccaatcctatcccaaaagtcctcccatacccacctcaaccccacc---accaccac 240
           ||||||||| ||||||||||||||| |||||||||||||||||| ||||   ||||||||
Sbjct: 378 atttccaatactatcccaaaagtccccccatacccacctcaaccacacccctaccaccac 437

                                                                       
Query: 241 ccccatatcttgtcgctggcatacccctgaactaaggcatataaagtttgcaagactgat 300
           | ||| |||||||| |||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 438 caccacatcttgtccctggcatacccctgaaataaggcatataaagtttgcaagactgat 497

                                                                       
Query: 301 gagcctctctttccaatgatgttcaactagtccgtcttctgatacaaatgcagccagaaa 360
           | | |||||||||||||||||  |||||||||| ||||||||||||| |||||| |||||
Sbjct: 498 ggggctctctttccaatgatgaccaactagtccatcttctgatacaactgcagctagaaa 557

                                                                       
Query: 361 tacgagcactgataagttgctagaaaaatgagctctgcg-gggtttctttagttcatatt 419
            | |||| |||||| |  |||||||||||||| |||| | ||||||||||||||||||||
Sbjct: 558 catgagctctgatatgcagctagaaaaatgagttctg-gagggtttctttagttcatatt 616

                              
Query: 420 gttgttccacttatgggat 438
           |||||||||||||||||||
Sbjct: 617 gttgttccacttatgggat 635


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: 9
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 438
Length of database: 838
Length adjustment: 9
Effective length of query: 429
Effective length of database: 829
Effective search space:   355641
Effective search space used:   355641
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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