BAC Information

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BAC

Clone NameMSMg01-197C09
ChromosomeY (Build37)
Map Location 1,578,319 - 1,578,832
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 nameMSMg01-197C09.T7 (MSMg01no197_c09.b1)MSMg01-197C09.TJ (MSMg01no197_c09.g1)
ACCAG384996AG384997
length6961,064
length of high quality
(start - end)		620 (35 - 654)---
definitionCHROMAT_FILE: MSMg01no197_c09.b1 PHD_FILE: MSMg01no197_c09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:16:55 2005CHROMAT_FILE: MSMg01no197_c09.g1 PHD_FILE: MSMg01no197_c09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:16:55 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTTGTTT
GCTTTTCTCTTGTTTCTCCAATTACAGCACCAAGATTCTTCATTTCCTTT
TGTTTTGCAAGATTCTCAAGGAATCTTAAATCCAGACTTTAGGGCAGTTA
TTTAAAATTCACACCTGGGGATTAATCTTCAGAAAATTATTTTTGGGAAA
AACATGTGATTATTTCAACATCTATAGTAGTGTGGGGGCATTATTCTCCC
TACGTCATGTACACTTAAGATCTTTAGATACCTCCTTCCCTGTGATAGCC
TTGCAGCTCACTGAGTGACATGTGCATTTGATGATAAATGATACTCATAC
TTTGAAGCACCTTACCATATCCTGTCACCCATATCATGTTCAACATAGCA
AGAACCACAAGTGAGTTGAAAAATACAAATATATTTTTTAGTGTCTTGAA
GCTATAATCCCCAAATTAATCAAAATATTATTTGGACTCTGTTACTTTAT
ACCAGTGTTTTTTTTAAGTGTACAAGTCCCAGGCCTTTTCTGTGACCCTT
TGCACAGGTTTACAGTGTCCTTTTACCATCTTCATCCTCCCCACTATCCT
CCATTGCTATCAGATCTCCCCCCTCCTGCTGCTCTTACTCTTCCAAAATA
CCTCCTATTTTTTAATGTCCCTTATTAAATTTATATTTTTACAATA

GAGAAAGAGAGATAAGCTACAACCGGAAAAAACCCGGGAAATGAGTTTCG
GTGAAGAGAAAAGAGAGACGGGGATAACGCCGGCCGGGATTAGCGTGAAT
TCAACATGGGATCCACCTCAATTGAGGGATATTGGAGTGTGGAGAATGGT
GAACCGGGGCCCGGGGCAATAAATTGCGCGTAGTCGGCCAGATAGGGCCC
CCAATGTTTATATACCCGCGTTATTTACACTCCCTTACCCTTTATATAGA
TTAGCTACGTAATGTTGCGATTTGTCAACCGCGCCCACAGCTGTGCCGCA
CGTGGGCAGAGTAAAACGGTGGGATGGGGAAAGATCGGCGCGCGCGGGGG
GCACAATATTCAGTAATTTAGTGGTCGGACCAATGCGATTATTAAAGAAG
GATTTGGGGAATGCCCAAAGACGCCTCCACGATAAGAATCGCTCTCCGGA
GAATAGCGACATGCCAGGGGCGCCGGAAGGCCGGTGATGTTGCGCCACCG
CACCCGCAAGACAGACGATAGGCGGAAGAAGTGGGGTGAAGAATAGTGTC
GAAGCTAGTAGGAAGAATAAACCCGCAGCACAAACTCACAGAGGGGACGG
GATTATTCGCCACCGATTTTCACGCGGCCACGATAGGCGACACGAAGGAG
TTTTGACCATCGGTACACAGTAATGAGTATCGCTTACATGGCGGCATTGC
CGANTTATTTTGTNAGCGACGCACGACGCATATAGGTAACTGGAATACGC
CGGCCCCGATTATCGAAAATACGCAATAATATAGGAATAATGACGGGCGG
CGCGAGGGGAAACGGCAGATTGAGGTGAAGAGGTAGTGAGCGGAGATAAG
GTCGGTATGCGAATTGGCGCGAAATTAGCGAGCCGGAAACAGGAGTGAAT
GAAAGGCGTCGAGTTCGCGTAGATGAATATCATGGCGACACACGTGTGGT
GGGATTAATCGCGCGGCGGGGGAAACAATATAAGATGGAAAACGGGGCGG
CATATTGTGGCTTAATGTGTGATGTAAGGGCTGAGACAACTGCGCGACAC
CTCATGTGAGCTGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no197_c09.b1 MSMg01no197_c09.b1 CHROMAT_FILE:
MSMg01no197_c09.b1 PHD_FILE: MSMg01no197_c09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:16:55 2005
         (620 letters)



>mm_chrY_1578014_1579033
          Length = 1020

 Score =  311 bits (161), Expect = 7e-89
 Identities = 424/537 (78%), Gaps = 57/537 (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 actgagtgacatgtgcatttgatgataaatgatactc--atactttgaagcacctt---- 329
           | |||||||| |||   ||||||||| ||| |||| |  | ||  ||||| |||||    
Sbjct: 486 attgagtgacttgt--ttttgatgattaataatacacaaagac--tgaagtaccttgtgg 541

                                                                       
Query: 330 accatatcctgtcacccatatcatgttcaacatagcaagaaccacaagtgagttgaaaaa 389
               ||||||||||||||||||| | |||| ||||||| | |||||        ||||||
Sbjct: 542 ----tatcctgtcacccatatcaagctcaaaatagcaacagccaca--------gaaaaa 589

                                                                       
Query: 390 tacaaatatattttttagtgtcttgaagct-ataatccccaaattaatc-aaaatattat 447
           |||||||| | ||| |||||||||||| || | ||||||||| |||||| |||| |||||
Sbjct: 590 tacaaataaactttatagtgtcttgaatctaaaaatccccaatttaatcaaaaacattat 649

                                                                       
Query: 448 ttggactctgttactttatacca--gtgttttttttaagtgtacaagtcccaggccttt- 504
           || |||| ||||| |||||| ||  |||     |||||||||||||||| | || |||| 
Sbjct: 650 ttagactttgttattttatatcaatgtg----ctttaagtgtacaagtcactgggctttg 705

                                                                       
Query: 505 tctgtgaccctttgcacaggtttacagtgtccttttaccatcttcatcctccccactatc 564
           | |||||| ||||||||| ||||| |||||||||| ||||||||||||||||||||||||
Sbjct: 706 t-tgtgactctttgcacatgtttatagtgtcctttaaccatcttcatcctccccactatc 764

                                                                    
Query: 565 ctccattgctatcagatctc-c-cccctcctgctgctcttactcttccaaaatacct 619
           ||||||| | ||| |  ||| | ||||| ||||||| ||||||||||||||||||||
Sbjct: 765 ctccatttccatctg--ctcacgcccctgctgctgcacttactcttccaaaatacct 819


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: 620
Length of database: 1020
Length adjustment: 10
Effective length of query: 610
Effective length of database: 1010
Effective search space:   616100
Effective search space used:   616100
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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