BAC Information

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BAC

Clone NameMSMg01-355P17
ChromosomeY (Build37)
Map Location 1,768,316 - 1,768,645
singlet/doubletsinglet
Overlap geneLOC100039430
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401
Downstream geneVmn2r-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 nameMSMg01-355P17.T7 (MSMg01no355_p17.b1)MSMg01-355P17.TJ (MSMg01no355_p17.g1)
ACCAG466236AG466237
length748750
length of high quality
(start - end)
572 (47 - 618)583 (76 - 658)
definitionCHROMAT_FILE: MSMg01no355_p17.b1 PHD_FILE: MSMg01no355_p17.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:49:35 2005CHROMAT_FILE: MSMg01no355_p17.g1 PHD_FILE: MSMg01no355_p17.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:49:35 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
ATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCCAAAATAACTTGTAATATTTACTTTAAACAATTCATACGTTTAC
ACCCCACAGCACTTCTTCATAACTGTACTACCCTTGCTGAGATCCTTCTT
CTTCCCAAATAGTCCCTCTCTTATTTTTATAATGGTTCTCCTTTTCTTTG
TGTGTATATATGGAAACATCTCATGCAGGTGGTTGTATTGTACTCGTTGT
TAAGTTTTTGTGATCACAAGGTCTAAAGGACCACAATCTGGTCTTCAACA
ACACATATAAGAGCATCTGATCCTGAATTGCTCTTTTTCCTGAATCTACT
TCTCCAGTCAAGGGATCACAAACACCACTTTTGAAGTACTCTATTGAAAT
GGGATAAAATTGAAAATATTGTGCCGTATCTTCATCTGTTTCTACCTGAG
GTGATATATTCTCATGTTTTTCAAATGCTGGGCGCTGTACTATATGGACA
ACAGAAAATGGAAACATAATATGCTATATTAGTAAAAGGGAATAAAGTTT
TAATGATTTGAATTTCTCAGTAAATACTGCCCATGTGAATTTTTAAAACA
GCTTTGAAAAATGACATAATTACATACATGATATCCGGCATAGGCATACA
TGAGAAGTAAGGTTTCCAAATTATAGGTCCACTGAATATCTTTACCTATA
TCATAGAAAAAAAACTTCCCCTACTTAAATAATTTATGCTCATGATTA
CCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXCTGAATGCTTTAGCACCCCCTTCCT
TTGTTTAACTCTAATTTATCTCAGTAGTTTATATTTAAAAGCTATTTACT
GTCAGAATATCCACTCTTTTCCTACAATAGGGGGTAACTTGTATTCTGGC
TAATTCTGTATTCACTGTGCTTTTCTGAATTTCCAGTTGGTCTTTTTACT
TCTTTGAAAACATTAAATTTATGTACCAGAATAATCCTGCTAGGCATGAA
GAACTTGCTGCATGGTATTATGGGTAGGAAATTATAAGTATCGATTCAGA
TAATATATACTTTTGAAAATTAGCTTCACATTTCTAATGTCCGCACAACA
TAGCTTTCTTGATTTACGTTACATTTGCTATGTTTCACTCAGATAATCTA
TAAAGGCAAAATGAGTAGTGGTTTATAAATGAAGAAACGTCTGCTTTAAG
CATGATAATATTGAAAAGAAATTACAATTTTTCACTTTGAAATTAAATCT
CTGAAGATGATAACTTAACTTGTGTTTGGAAAAGATTTCTGTGAATTTTT
AAAAATATCATTATTAATATCAGCAGTATAAAGTTGTTCAAACAAAATGA
CTTTTATTCATTGTAAATTTAATAATGAAAATAACTGAATAGTAGTGTGA
ACACTATGCCCCTCCTTAAAAGTGGGAGCAAAACACCTTGTGAGGAGTTN

quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no355_p17.b1 MSMg01no355_p17.b1 CHROMAT_FILE:
MSMg01no355_p17.b1 PHD_FILE: MSMg01no355_p17.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:49:35 2005
         (572 letters)



>mm_chrY_1768266_1769238
          Length = 973

 Score =  248 bits (128), Expect = 1e-69
 Identities = 284/340 (83%), Gaps = 17/340 (5%)
 Strand = Plus / Minus

                                                                       
Query: 17  aacttgtaatatttactttaaacaattcatacgtttacaccccacagcac-ttcttcata 75
           |||||||| |||||||||| |||||||||||| |||||| || |||| || |||||||||
Sbjct: 380 aacttgtattatttacttttaacaattcatacatttacatccaacagtactttcttcata 321

                                                                       
Query: 76  actgtactacccttgctgagatccttcttcttcccaaatagtccctc-tcttatttttat 134
           ||||||||||||||||||||| |||||||||||||| || |||| || ||| ||||||||
Sbjct: 320 actgtactacccttgctgagacccttcttcttcccagatggtcc-tcctctaatttttat 262

                                                                       
Query: 135 aatggttctccttttctttgtgtgtatatatggaaacatctcatgcaggtggttgtattg 194
            ||| |||||||||||||||||||||||| ||| ||| |||||||      ||  |||||
Sbjct: 261 gatgtttctccttttctttgtgtgtatatttgggaacttctcatg------gtcctattg 208

                                                                       
Query: 195 tactcgttgttaagtttttgtgatcacaaggtctaaaggaccacaatctggtcttcaac- 253
           |||| |||| || || |||||||||||||||| | ||||||| ||| |||| ||| ||| 
Sbjct: 207 tactagttgctatgtgtttgtgatcacaaggtttcaaggaccccaagctgggcttgaact 148

                                                                       
Query: 254 -aacacatata-ag-agcatctgatcct-gaattgctctttttcctgaatctacttctcc 309
            || | ||||| || ||| ||||| ||| ||||||||  | ||||||||||| | | |||
Sbjct: 147 caa-a-atatatagcagcgtctga-ccttgaattgctgatcttcctgaatctgcatatcc 91

                                                   
Query: 310 agtcaagggatcacaaacaccacttttgaagtactctatt 349
           | |||||||||||||||||| | || | ||||||||||||
Sbjct: 90  attcaagggatcacaaacactaattctaaagtactctatt 51


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: 3
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: 572
Length of database: 973
Length adjustment: 10
Effective length of query: 562
Effective length of database: 963
Effective search space:   541206
Effective search space used:   541206
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)