BAC Information

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BAC

Clone NameMSMg01-355P15
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 nameMSMg01-355P15.T7 (MSMg01no355_p15.b1)MSMg01-355P15.TJ (MSMg01no355_p15.g1)
ACCAG466232AG466233
length750756
length of high quality
(start - end)
552 (47 - 598)562 (77 - 638)
definitionCHROMAT_FILE: MSMg01no355_p15.b1 PHD_FILE: MSMg01no355_p15.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:49:34 2005CHROMAT_FILE: MSMg01no355_p15.g1 PHD_FILE: MSMg01no355_p15.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:49:34 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCCAAAAAAACTTGTAATATTTACTTTAAACAATTCATACGTTTAC
ACCCCACAGCACTTCTTCATAACTGTACTACCCTTGCTGAGATCCTTCTT
CTTCCCAAATAGTCCCTCTCTTATTTTTATAATGGTTCTCCTTTTCTTTG
TGTGTATATATGGAAACATCTCATGCAGGTGGTTGTATTGTACTCGTTGT
TAAGTTTTTGTGATCACAAGGTCTAAAGGACCACAATCTGGTCTTCAACA
ACACATATAAGAGCATCTGATCCTGAATTGCTCTTTTTCCTGAATCTACT
TCTCCAGTCAAGGGATCACAAACACCACTTTTGAAGTACTCTATTGAAAT
GGGATAAAATTGAAAATATTGTGCCGTATCTTCATCTGTTTCTACCTGAG
GTGATATATTCTCATGTTTTTCAAATGCTGGGCGCTGTACTATATGGACA
ACAGAAAATGGAAACATAATATGCTATATTAGTAAAAGGGAATAAAGTCT
TAATGATTTGAATTTCTCAGTAAATACTGCCCATGTGAATTTTTAAAACA
GCTTTGAAAAATGACATAATTACATACATGATATCCGGGATAGGTATAGA
TGATAAGCAACGTTTCCAAATTATATGGCCACCTGAATATCTTTACCTTT
ATTATAGAACAAATACTCCTCCAACTTAAAAAAGCTATGCCCATGAATAN

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCTGAATGCTTTAGCACCCCCTTCC
TTTGTTTAACTCTAATTTATCTCAGTAGTTTATATTTAAAAGCTATTTAC
TGTCAGAATATCCACTCTTTTCCTACAATAGGGGGTAACTTGTATTCTGG
CTAATTCTGTATTCACTGTGCTTTTCTGAATTTCCAGTTGGTCTTTTTAC
TTCTTTGAAAACATTAAATTTATGTACCAGAATAATCCTGCTAGGCATGA
AGAACTTGCTGCATGGTAAAATGGGTAGGAAATTATAAGTATCGATTCAG
ATAATATATACTTTTGAAAATTAGCTTCACATTTCTAATGTCCGCACAAC
ATAGCTTTCTTGATTTACGTTACATTTGCTATGTTTCACTCAGATAATCT
ATAAAGGCAAAATGAGTAGTGGTTTATAAATGAAGAAACGTCTGCTTTAA
GCATGATAATATTGAAAAGAAATTACAATTTTTCACTTTGAAATTAAATC
TCTGAAGATGATAACTTAACTTGTGTTTGGAAAAGATTTCTGTGAATTTT
TAAAAATATCATTATTAATATCAGCAGTATAAAGTTGTTCAAACAAAATG
ACTTTTATTCATTGTAAATTTAATAAAGAAAATAACTGAATAGTAGTGTG
AACACTATGCCCCTCCTTAGAAGTGGGAGCAAAACACCCTTGGAAAGGAG
TACAGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no355_p15.b1 MSMg01no355_p15.b1 CHROMAT_FILE:
MSMg01no355_p15.b1 PHD_FILE: MSMg01no355_p15.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:49:34 2005
         (552 letters)



>mm_chrY_1768266_1769218
          Length = 953

 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: 552
Length of database: 953
Length adjustment: 10
Effective length of query: 542
Effective length of database: 943
Effective search space:   511106
Effective search space used:   511106
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)