BAC Information

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BAC

Clone NameMSMg01-293G18
ChromosomeY (Build37)
Map Location 2,890,679 - 2,890,995
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 nameMSMg01-293G18.T7 (MSMg01no293_g18.b1)MSMg01-293G18.TJ (MSMg01no293_g18.g1)
ACCAG421878AG421879
length740739
length of high quality
(start - end)
317 (34 - 350)59 (243 - 301)
definitionCHROMAT_FILE: MSMg01no293_g18.b1 PHD_FILE: MSMg01no293_g18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:28:49 2005CHROMAT_FILE: MSMg01no293_g18.g1 PHD_FILE: MSMg01no293_g18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:28:49 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCACTATTC
TCTGCTTGCAGTTGTAAATGCTCGTGAGAACAACGAACTCCCTTTTTCAG
ATGGAAAAGGGTCCCTGACAGACATGTCAGGAGAAACCGGCTGCCACCCT
TTGGGACATCCCTGGAGTTCTGAGGGAGTTCTAGGGATACCTGGAGATCT
CCTATCAGTGTGCCAAGTGAGAGTGTGCTCACTCGGCTGTCTGTTTCTGT
TACTGGGTGCCAAGTGAGTGTGTGCTTTCTTGGCCATCTTATTGGGGCCT
GGNCTTGGTTATTTTTATCTTTTTTGTGTATATTTTTTTTTCCCTGTATG
TGANCTTGATGCCGGNACGNATCCTATCATGNCCCTTGGACTGACCCTTG
ATCACCCCCCTGAAATAAAAAATAACACTCACGTTCTCGCTGTGGATGTC
TGAAATCGATTTTAGAGAACTTTCTGATCTACAGAATGGCCAGCTTTGAT
GATAGTTGGCCACTAGAGGGCACTCTTTGTTTGGTTCTGTTTTCAGCTCT
TATAGTTGTTTTACAGAGGGGACCAGTGTCTCAGCCAGATTACGTGCCAT
ACATTCTCATCTAGAAAAATTTATCACAGGATCCCCCCTCTCCCATCCTG
TTTATAGCCTTGGGTTTAAAAGAATAATCCAGGCTCCTCAGTCCTGGCCC
CCTGCCACCCAGAGGTGAAAAAAAAGATTAATACTGCCCT
AGGCCTGGCGGCCGCCTGGCTTCACCAGAAGGNGAACNANAGAAGGATTC
CCGAAAAACAGAAAGNAANNNAGNAGAANGGAANAAGGNCNCCNNACANC
ACATTTACCCCACNACAGGGCANANAAGCACAAANANNNAAGAANANACG
GAAACNNAAAAAGGNAAANNAAAAAAAAAAACAAAAACCCCCACCAACTN
CAAANNAAAAAAACACANTNAACNAAGAACCCNCAAGGATACTCGCAATT
TCCTGTATTCCCTACTCATGATGTCCATATGTTAGCATCTTACAAATTTG
AATGATTTTTTTTTGGAGAAAACAAAAGTCGCAAGGAAAAAAAATTTTTT
TTTTTCTCCGAACANNACCCCCAAAGGGCTGGGNCANAAANGGGGGNNCA
CCCCCAAAAANNCGAAAACNAACAGGCGGGGAGGGGGGGGNNCGCACANC
GCCAAGAACCCCGTTAACCAACAACGTAGCACCTTCCTAAACATCTCCCT
TAGCATATGTGCCAGCATCTGTCCCTGAATCTGTTTATTCCCCTAATATT
TCATAGAATACTCTCTTTTTGAAAAGCCTCACCTCATATTTTCTTCCTCA
GCTCATTTGTCATACCCATTATTTAACTGCTGATGATGTTTATTTTAGAG
CCCCAAAACTTGGGCGAACTAATAATAACTAAGTATCTCATTTCAAAATA
TACAACAGAAGGGTTCTGTGAATGTCCCATGGCTGCCAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no293_g18.b1 MSMg01no293_g18.b1 CHROMAT_FILE:
MSMg01no293_g18.b1 PHD_FILE: MSMg01no293_g18.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:28:49 2005
         (317 letters)



>mm_chrY_2890475_2891195
          Length = 721

 Score =  364 bits (188), Expect = e-105
 Identities = 284/317 (89%), Gaps = 4/317 (1%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcactattctctgcttgcagttgtaaatgctcgtgagaacaacgaactcccttttt 64
           ||||| ||||||||| | || |||||||| |||||||||||| ||||||| ||||| |  
Sbjct: 205 gaatttactattctcggtttacagttgtacatgctcgtgagagcaacgaaatccctctcc 264

                                                                       
Query: 65  cagatggaaaagggtccctgacagacatgtcaggagaaaccggctgccaccctttgggac 124
           ||||||||| |||||  ||||||||||||| |||||||||||||||||| ||| ||||||
Sbjct: 265 cagatggaagagggttactgacagacatgtgaggagaaaccggctgccagcctgtgggac 324

                                                                       
Query: 125 atccctggagttctgagggagttctagggatacctggagatctcctatcagtgtgccaag 184
           ||||| |||||||||||||||||| |||||||||||||||||||||||||| ||||||||
Sbjct: 325 atcccaggagttctgagggagttccagggatacctggagatctcctatcagggtgccaag 384

                                                                       
Query: 185 tgagagtgtgctcactcggctgtctgtttctgttactgggtgccaagtgagtgtgtgctt 244
            |||||||||||||||||| |||||||||||||||||||||||||||||||||| |||| 
Sbjct: 385 agagagtgtgctcactcggttgtctgtttctgttactgggtgccaagtgagtgtatgctc 444

                                                                       
Query: 245 tcttggccatcttattggggcctggncttggttatttttatcttttt-tgtgtatat-tt 302
           |||  |||||||||||||||||||| |||||||||| | |||||||| || |||||| ||
Sbjct: 445 tctcagccatcttattggggcctggtcttggttattgtaatctttttctgggtatatatt 504

                            
Query: 303 --ttttttccctgtatg 317
             |||||||||||||||
Sbjct: 505 gtttttttccctgtatg 521


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: 5
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: 317
Length of database: 721
Length adjustment: 9
Effective length of query: 308
Effective length of database: 712
Effective search space:   219296
Effective search space used:   219296
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)