BAC Information

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BAC

Clone NameMSMg01-327O09
ChromosomeY (Build37)
Map Location 1,578,319 - 1,578,886
singlet/doubletsinglet
Overlap genenone
Upstream geneUty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2
Downstream geneLOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, 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
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-327O09.T7 (MSMg01no327_o09.b1)MSMg01-327O09.TJ (MSMg01no327_o09.g1)
ACCAG445136AG445137
length731733
length of high quality
(start - end)
673 (49 - 721)612 (80 - 691)
definitionCHROMAT_FILE: MSMg01no327_o09.b1 PHD_FILE: MSMg01no327_o09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:12:53 2005CHROMAT_FILE: MSMg01no327_o09.g1 PHD_FILE: MSMg01no327_o09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:12:53 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
NNTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTTGTTTGCTTTTCTCTTGTTTCTCCAATTACAGCACCAAGAT
TCTTCATTTCCTTTTGTTTTGGAAGATTCTCAAGGAATCCTAAATCCAGA
CTTTAGGGCAGTTATTTAAAATTCACACCTGGGGATTAATCTTCAGAAAA
TTATTTTTGGGAAAAACATGTGATTATTTCAACATCTATAGTAGTGTGGG
GGCATTATTCTCCCTACGTCATGTACACTTAAGATCTTTAGATACCTCCT
TCCCTGTGATAGCCTTGCAGCTCACTGAGTGACATGTGCATTTGATGATA
AATGATACACAAACTTTGAAGCACCTTACCATATCCTGTCACCCATATCA
TGTTCAACATAGCAAGACCTACAAGTGAGTTGAAAAATACAAATATATTT
TTTAGTGTCTTGAAGCTATAATCCCCAAATTAATCAAAATATTATTTGGA
CTCTGTTACTTTATACCAGTGTTTTTTTTAAGTGTACAAGTCGCAGGCCT
TTTCTGTGACCCTTTGCACAGGTTTACAGTGTCCTTTTACCATCTTCATC
CTCCCCACTATCCTCCATTGCTATCAGATCTCCCCCCTCCTGCTGCGCTT
ACTCTTCCAAAATACCTCCTATTTTTTAATGTCCCTTATTAAATTTATAT
TTTTACAATAGTCATTTTGAGTTTTACTTGT
NNCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXACTCCTAATCACTCCCATTCT
CGGGGTGAAATATTCAGGTGATGGGCAAGCAATGAATCAGGAGCTGTCAT
GCCATATCAGGTGCTGAAATGTCACGCTGCAGGTTATAAAAGCAGCGCCA
TTTTCCCGGTTCGGGATCTTCCTGATAAGCAAGCAATAAAGCTCTTGCTG
TGGAAGATTCTAGTTTGTTGTATCTTTCTTGCCGGTCGAGCGGGAAGCAA
TAGTGAATAGCTTTTACCTCCCTGCTGTTGCTCTCCTAGTACTGACCAGA
AACTGAGGTGCCATTTCCAGCAGACTGTGCTAGGACATAGTCATAGAACA
CATCTTCCTTCGAAAGCACCCCCCAGGCTTCATTGGAAAAAACTTAAATC
TGTGAATATTGGGAACAGAGTCTGTACATAGCTCAGTTGACAGAGTGACT
GCCTAGCATTTAGCATGCCTAGGACTCAGTCATTAGTGCTGTCTTTACTT
TATTGCCTTTGGTGGGTCTACTTATTATATTGTAATACACTTGGGATCAT
AGAAAGGGATATCATGATGACCTAAGACCAAGACTGTCAATGATGTTGGT
TAGAGTCTTCTCTTGTATCCTCAGGCTAAAGAGACCTGATACCAGAGTGA
CTCACATTACTGAGAAACTCAAGTTTCTATTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no327_o09.b1 MSMg01no327_o09.b1 CHROMAT_FILE:
MSMg01no327_o09.b1 PHD_FILE: MSMg01no327_o09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:12:53 2005
         (673 letters)



>mm_chrY_1578014_1579086
          Length = 1073

 Score =  358 bits (185), Expect = e-103
 Identities = 472/593 (79%), Gaps = 61/593 (10%)
 Strand = Plus / Plus

                                                                       
Query: 117 tttaaa---attcacacctggggattaatcttcagaaaattatttttggg--aa------ 165
           ||||||   |||| |||||||||||||||||||||||||||| |||||||  ||      
Sbjct: 306 tttaaatatattcccacctggggattaatcttcagaaaattacttttgggcaaacacatt 365

                                                                       
Query: 166 -aaacatgtgat---------tatttcaacatctatagtagtgtgggggcattattctcc 215
            ||||| | |||         |||||||||||||||||||| |||||  ||||||||| |
Sbjct: 366 caaacaagagatgggggtaaatatttcaacatctatagtagggtgggaacattattcttc 425

                                                                       
Query: 216 ctacgtcatgtacacttaagatctttagatacctccttccctgtgatagccttgcagctc 275
           |||| | |||||| |||| ||||| ||| || |||||||||| || |||||| ||| |||
Sbjct: 426 ctacctaatgtacccttacgatctctagctatctccttccctatggtagcctagcaactc 485

                                                                       
Query: 276 actgagtgacatgtgcatttgatgataaatgatacacaa--actttgaagcacctt---- 329
           | |||||||| |||   ||||||||| ||| ||||||||  ||  ||||| |||||    
Sbjct: 486 attgagtgacttgt--ttttgatgattaataatacacaaagac--tgaagtaccttgtgg 541

                                                                       
Query: 330 accatatcctgtcacccatatcatgttcaacatagcaaga-cctacaagtgagttgaaaa 388
               ||||||||||||||||||| | |||| ||||||| | || |||        |||||
Sbjct: 542 ----tatcctgtcacccatatcaagctcaaaatagcaacagcc-aca--------gaaaa 588

                                                                       
Query: 389 atacaaatatattttttagtgtcttgaagct-ataatccccaaattaatc-aaaatatta 446
           ||||||||| | ||| |||||||||||| || | ||||||||| |||||| |||| ||||
Sbjct: 589 atacaaataaactttatagtgtcttgaatctaaaaatccccaatttaatcaaaaacatta 648

                                                                       
Query: 447 tttggactctgttactttatacca--gtgttttttttaagtgtacaagtcgcaggccttt 504
           ||| |||| ||||| |||||| ||  |||     |||||||||||||||| | || ||||
Sbjct: 649 tttagactttgttattttatatcaatgtg----ctttaagtgtacaagtcactgggcttt 704

                                                                       
Query: 505 -tctgtgaccctttgcacaggtttacagtgtccttttaccatcttcatcctccccactat 563
            | |||||| ||||||||| ||||| |||||||||| |||||||||||||||||||||||
Sbjct: 705 gt-tgtgactctttgcacatgtttatagtgtcctttaaccatcttcatcctccccactat 763

                                                                       
Query: 564 cctccattgctatcagatctc-c-cccctcctgctgcgcttactcttccaaaatacctcc 621
           |||||||| | ||| |  ||| | ||||| ||||||| |||||||||||||||||||| |
Sbjct: 764 cctccatttccatctg--ctcacgcccctgctgctgcacttactcttccaaaataccttc 821

                                                                
Query: 622 tatt-ttttaatgtcccttattaaatttatatttttacaatagtcattttgag 673
           | || ||||| |||||||||||||| ||||| ||| | ||| |||||||||||
Sbjct: 822 ttttatttta-tgtcccttattaaaattataatttcaaaattgtcattttgag 873


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: 7
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 673
Length of database: 1073
Length adjustment: 10
Effective length of query: 663
Effective length of database: 1063
Effective search space:   704769
Effective search space used:   704769
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)