BAC Information

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BAC

Clone NameMSMg01-198B19
ChromosomeY (Build37)
Map Location 1,655,825 - 1,656,136
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 nameMSMg01-198B19.T7 (MSMg01no198_b19.b1)MSMg01-198B19.TJ (MSMg01no198_b19.g1)
ACCAG385569AG385570
length745753
length of high quality
(start - end)
330 (46 - 375)290 (77 - 366)
definitionCHROMAT_FILE: MSMg01no198_b19.b1 PHD_FILE: MSMg01no198_b19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:18:14 2005CHROMAT_FILE: MSMg01no198_b19.g1 PHD_FILE: MSMg01no198_b19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:18:14 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCAAAACAAACAAAATCTCTTCAATCTGTCTCACCAATCATACATTA
GGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCTCACAATGATCAATGGTA
TATACTTTCTAGGTTGTATAACTGCACTTCATTTCTCTACAGGAACCTTT
CCTCAGATTCTGTCCTCATCAAGAATCCCATCTAATACCATCAGACACTT
CTATGCATCAGAGGGAACAAGGTCTAGCTGTGTGCCTTGCAGTTTGGGTA
GAGCACTGTCAATATCCCTTCTCCTCCAGCAAACCCTCTCAAGGCTCACA
ACGGTTGTCTTCCAGAATAAAATCTGACTGCCTAAGAGAAGGAGCAAATC
ATCTCTGCTTGCTCTAATGCCTAAATGACATTGCAGATTAAGAAAAAACC
TAGAGCTTCCCTAAGATTCTCAGTCCGGGAGCATTTGGACAATCCATTAC
TTTCATAGGGTCCAAAATTGTTTGAATTCTACAGACCAATGAATTGTCCC
ATTAGAAGCCAACTTTCCAGCAGGTAGCAGCAGCTCCAACTGTTGTCTCC
AAAGGCAGTTAAACAAAAGCAACCTGAAGAGGCAGGTGAACTGCTCCTGG
TCCCACCAAGGTGACTTTGGTTTCTGGTGGGAGGGGGCTATTACATGCTG
TGAGAACTCTGCTCTGTTGATGTGCTCACCCACCAAAACACTCCN
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCAAGCCCAGGATCCGCTCAAGGAC
TACCTAGAATATTGGTGAAGGACAGCCAACAAAGTTGGATATTGCTTAGA
TATTTGCCAAGTCATTACTTGGAGGCACTTATAATAAAACAACATTGAAA
GAAGTCACAAAGATTCAATCACTTACTAATGTAAGGACAAGTTTGATGCA
TTTTTTCCAGGATGGTTCCTGAAGACTTAGTTTCCATGAACTTTTTGACT
AGGGACTGTGTCTAAATATTTAGAACTGTCACGGGAGTCACTACTGGGGT
TTGTGTTCCAATGGTTGTTGTGCGCCTCCCCCCGCCTGTGTGTGGGTGTG
TGAGTGCGTGTGTGTTTCCCCCCCCCAAAAAAAAAAAAAANNNTGGGGGG
GGGGGGTTTTCCTCACACCCTAACTTACCTCCCTCCCTTAAATTCTTATA
TTCACCTATTACCAATTTCACAAATTAACGTTTCTCTTACTTTTTTTCCG
TCCCCTTCCTTTTTTTTCCCATATCCACTTTACTCATATCCCTTTATTTT
TTTACCCTTTTTTATCTTTCCCCCTACCCTCTTTTCCCCCACTTTTTTTT
ATCTTTATTCTTTTCAATATTTTTTTTTAACCCTATTTTTTCTTAAATAA
CTCCCTCATATTATCCCTACCTTTATTCCCCTACATTTTATCTCTATTCC
CTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no198_b19.b1 MSMg01no198_b19.b1 CHROMAT_FILE:
MSMg01no198_b19.b1 PHD_FILE: MSMg01no198_b19.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:18:14 2005
         (330 letters)



>mm_chrY_1655621_1656347
          Length = 727

 Score =  263 bits (136), Expect = 1e-74
 Identities = 274/322 (85%), Gaps = 17/322 (5%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcaaaacaaacaaaatctcttcaatctgtctcaccaatcatacattaggtccaatg 64
           |||||||||||||||||||| |||||||  ||||||| |||| || ||||||||||||||
Sbjct: 205 gaattcaaaacaaacaaaatgtcttcaaagtgtctcagcaattatgcattaggtccaatg 264

                                                                       
Query: 65  -cttgggtgctttctgtttcaggctcacaatgatcaatggtatatacttt-ctaggttgt 122
            | |  ||||| || | |||||||||||   ||| |||||| |||| ||| |||  ||||
Sbjct: 265 tc-tcagtgctctcagcttcaggctcac---gattaatggtttata-tttgctaccttgt 319

                                                                       
Query: 123 ataactgcacttca-tttctcta-caggaacctttcctcagattctgtcctcatcaagaa 180
           ||||||||||| || ||| |||| | |||| ||| |||||||| ||||||||| |||| |
Sbjct: 320 ataactgcactacagttt-tctacctggaaacttgcctcagatcctgtcctcagcaagga 378

                                                                       
Query: 181 tcccat-ctaataccatcagacacttctatgc-atcagagggaacaaggtctagctgtgt 238
           |  ||| | || ||||||||| | |||||||| | |||||||||||| ||||||||||||
Sbjct: 379 t--catgc-aacaccatcagaaaattctatgcta-cagagggaacaaagtctagctgtgt 434

                                                                       
Query: 239 gccttgcagtttgggtagagcactgtcaatatcccttctcctccagcaaaccctctcaag 298
           ||| |||||||||| |||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 435 gccatgcagtttggttagagcactgtcaatatcccttctcctccagcaaaccctctcaaa 494

                                 
Query: 299 -gctcacaacggttgtcttcca 319
            |||||||| | ||||||||||
Sbjct: 495 tgctcacaaagtttgtcttcca 516


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: 330
Length of database: 727
Length adjustment: 9
Effective length of query: 321
Effective length of database: 718
Effective search space:   230478
Effective search space used:   230478
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)