BAC Information

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BAC

Clone NameMSMg01-480F21
ChromosomeY (Build37)
Map Location 2,795,534 - 2,795,987
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC100039450, 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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-480F21.T7 (MSMg01no480_f21.b1)MSMg01-480F21.TJ (MSMg01no480_f21.g1)
ACCAG561026AG561027
length729727
length of high quality
(start - end)		653 (77 - 729)543 (75 - 617)
definitionCHROMAT_FILE: MSMg01no480_f21.b1 PHD_FILE: MSMg01no480_f21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:00:39 2005CHROMAT_FILE: MSMg01no480_f21.g1 PHD_FILE: MSMg01no480_f21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:00:39 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
AACTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCAGAAGATGGGC
GGAATTCTTTCTTTATCCCTGAAGCCCGTTTTTTATTTGATTTTCTGGAA
TCCACCTTCTTGAGTTCTTTATATATATTTGATATTAGTGCCCTATCTGA
TTTAGGACAGTGAAAGATCCTTTCACAATCTTTTGGTGACCTTTTTGTCT
TATTGAAGGTGTCTTTTGCCTTACAAAAGATTTGCAGCTTTATGAGGTCC
CATTTGTCAATTCTAAATCTTACAATACAAGCCATTTTTCTTCTATTCAG
GAATTTTTCCCTGTTCCCATATCTTTTAGGCTTTTCCGCACTTTCTCCTC
TACAAGTTTCAGTGTCTCTGATTTTATGTGGAGCTCCTTGATCCACTTAC
ATTTGACCTTAGTACAAGGAGATAGGAATGGATTGATTCACATTCTTCTA
CATGATAACCACCAATTGTCCCAGCACTATTTGTTGAAAATGCAGTCTTT
TTTACACTGGATGGTTTTAGCTCCCTTGTAGATGATCAATTGACAATAGG
TGTGTGGGTTCATTTCTGGGTCTTCAATTCTATTCCATTGGTCTACTTCT
CTGTCACTATATCAGTACCATGCAGTTTTTTATCACAATTGCTCTGTAGT
AAAGCTTTGGGTCAGGCATGGTGATTGCACAAGAGGTTCTTTTATCCATG
AGAAGATTTTTTGCTATCCTAGGTTTTGT

ACGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXCAGAAATTCACCCTGTATACCAGGGTGGCGTCAAA
ATCAAAAATCTCCCTGCCTCTGCCTCCCAACGTCTGGGATTAAGGCATGT
GCCACCAGTGACTGACCCAACTTAAAACTTGAGATAGGTTCTCTCTGAAT
ATGCAGCTCACCAATGCCACTACCTCAGCTAGCCAGCAAGCTGTCTCCAC
CTACTCAGCACTGGTTGGCAGCCTGCATTTTAGAAGTGGATTCTAGGCCC
CCACTTTTATTTTCAAGGATTTTATTTTACTAAAACAGCCATCTCTCTAG
CCTCTTTCAAGGTTTGTTCTGTTGCTATAGACACTGCAATTTTTTGTTTG
TTTGTCTTTTGTTTGTTTGTTTTCCTTTTCTATTTCTCTAATCATGCCTA
AGTTTAGGCTCCTAAAATGCTTAGTGGTGGTTTTGCTTGTTTCCTTACAA
CAGCAAATTGGTTTTCTTGCTCACTTTACAATTTGCAGTTAATTTTGACA
TAGGCTTATTGCTGTGTTTTGTTTCTTTGGTTCTTTTTTTTTTTTTTTTT
TTGTTAATTTGCTGGGTTTGTTGTTTTTTGCTGGGTTTTTGTTTTTGTTT
TCACCACTGAAGATGAAATTCATAACTTTTAATGGTGCTTTACCACTGAG
CTACATCTTTAGTTAAACTTTAGTTTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no480_f21.g1 MSMg01no480_f21.g1 CHROMAT_FILE:
MSMg01no480_f21.g1 PHD_FILE: MSMg01no480_f21.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:00:39 2005
         (543 letters)



>mm_chrY_2795318_2796260
          Length = 943

 Score =  195 bits (101), Expect = 5e-54
 Identities = 376/493 (76%), Gaps = 62/493 (12%)
 Strand = Plus / Plus

                                                                       
Query: 1   accctgtataccagggtggcgtca-aaa-tcaaaaatctccctgcctctgcctcccaacg 58
           ||||| ||||||||||||||  || ||| ||| |||| ||||||| | | ||||  ||  
Sbjct: 217 accctttataccagggtggc--cacaaactcagaaatttccctgctttttcctcaaaa-- 272

                                                                       
Query: 59  tctg--gg-attaaggcatgtgccaccagtgactgacccaacttaaaacttgagataggt 115
            |||  || ||||||| ||||||||||| || | ||| |||||||||| |||||| ||| 
Sbjct: 273 -ctgcaggtattaaggaatgtgccaccactgtcagacacaacttaaaagttgagacagga 331

                                                                       
Query: 116 tctctctgaatatgcagctcaccaatgccacta-cctcagctagccagcaagctgtctcc 174
           | ||||||||| |||||||||| || ||||||| |||  |||||||||| | |||| |||
Sbjct: 332 tatctctgaatctgcagctcacaaacgccactagcct-ggctagccagccatctgtatcc 390

                                                                       
Query: 175 acctactcagcactggttggcagcctgca-ttttagaagtggattctaggccccca-ct- 231
           ||||||||||||||||   ||||  || | ||||| | ||||||||||| |||||| || 
Sbjct: 391 acctactcagcactggccagcagaatgtactttta-acgtggattctagacccccatctt 449

                                                                       
Query: 232 --tt---tat--tttcaagga----ttttattttactaaaacagccatctctctag-cct 279
             ||   |||  |||||||||        | ||||| |||||| |||||||||||| || 
Sbjct: 450 aattccatataatttcaaggaaaac----aatttaccaaaacaaccatctctctagaccc 505

                                                                       
Query: 280 ctt-tcaaggtttgttctgttgctatagacactgcaattttttgtttgtttgtcttttgt 338
           ||| |  || |||||||   |||| ||| |||| | | || || ||  |||         
Sbjct: 506 cttgt-gagatttgttc---tgctgtagtcactacca-ttattattaattt--------- 551

                                                                       
Query: 339 ttgtttgttttccttttctatttctctaatcatgcctaagtttaggctcctaaaatgctt 398
                        ||||||||| ||||||||||||||||||||||||||||||| || ||
Sbjct: 552 -------------ttttctattgctctaatcatgcctaagtttaggctcctaaagtgttt 598

                                                                       
Query: 399 agtggtggttttgcttgtttccttacaacagcaaattggttttcttgctcactttacaat 458
           |||| |||||||||||| |||||||||| || ||||||||||||||||||| |||||| |
Sbjct: 599 agtgctggttttgcttgcttccttacaatagaaaattggttttcttgctcagtttaca-t 657

                        
Query: 459 t-tgcagttaatt 470
           | | |||||||||
Sbjct: 658 tatacagttaatt 670


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: 12
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: 543
Length of database: 943
Length adjustment: 10
Effective length of query: 533
Effective length of database: 933
Effective search space:   497289
Effective search space used:   497289
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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