BAC Information

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BAC

Clone NameMSMg01-522G09
ChromosomeY (Build37)
Map Location 1,714,999 - 1,715,599
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401
Downstream geneLOC100039430, 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, LOC667236, EG631479, LOC667244
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-522G09.T7 (MSMg01no522_g09.b1)MSMg01-522G09.TJ (MSMg01no522_g09.g1)
ACCAG592966AG592967
length757770
length of high quality
(start - end)		648 (50 - 697)348 (82 - 429)
definitionCHROMAT_FILE: MSMg01no522_g09.b1 PHD_FILE: MSMg01no522_g09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:55:59 2005CHROMAT_FILE: MSMg01no522_g09.g1 PHD_FILE: MSMg01no522_g09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:56:00 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
NGGGCCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCTGTATCTTTGACGGGTCAGAGTTTCAGACTTCATGGTTGAA
AAGTTTAAATAAGACTGTGGGTATTCCTAGAGGGATGCCCTTGTTTTTAA
CATTTTTAAACTTTGTTAATTCAACAACAAGCGTCAGATGCTCCAGTCCA
TTAGTTGGTTGCAAATATCTGCAGCTGAATCCTTCACCTGCTAGTTTGAG
GTACATGTCTTAAACTTGTTGTAGTGTATGTACTAGATAATGAATCAAAA
TAATATCAAAAATATATTGCATATTGTAACTGAGAAATATAACGCTGGTT
CTAAGGGACCTATTCACATTCAGTTCAAGATATAGGTAATAAACAGTGTT
TCTCAATGTTTCTTAAAATGACTGTGGGTAACCTAAAGAAACAAAGCTAA
ACCAAACTAAACCAAAAGAAACACCCTCTTCTATACATTGTCTCATCTTC
TTCCAATTGACCAGTTCTTAAAAGCCATGCTCTTGAGTGTAACTACACAT
TGGAAGTGTCCTTCCCCTACTCTGATTCAGAATATCACTTTACATGAGCT
CAGATATCTTATTTTGTAATCTGAGTGAATGTGTGGCTTTGATATTAGTT
GATTGTTAATAGAAAGCACAAATTGTGTAGGAATGTGAATGAATGTTACA
GATGCCATTCCAATATCATTCCCATTGGAGGGAATAAGATAAAAGAATCA
TAATTCT

NNAACGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTACTCAAAGTCTTTGGAG
ACAACAGGGATTTTATTGGGTTCTCATGGAGAATGGGAGAGTGTTTGTGC
TCCATTAAAAAGGTACTCACATTCACTATTTTGATGCCTTTCTTTCTATT
TGAGTGTGCTTTGTACTTTTGTCTGCTATGTGTTGTGTTCTGTGTTCTTT
GTTACTAACTCTAGGGTTCTTACCATACTTGGAAAATGAAAGTCAGTTTG
AAAACCTTTCATATTTGTCCTCTGTATAGAAACCCTCTCTCTCTCTCTCT
CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT
CTCTCTCTCTCTCTCTCTCTCTCTCTTTTTTCTCTCCATCTCTCTTCTCT
CTTCTCTCCTTCTTTTTCTCTTTCTCTCCCTCTCCCCCTTTTTTTTCTCT
TTCTTCCTCTTTTTCCTTTTTCTTCTTTTTCTCTTCTTCTCCTCTTTTCT
TTTTCCTCCCCCTCTTTTTTCCTTTTCTTCTTTTTTTCTTTTTTTTTTCC
TCTCCTTTTCTTTCTTTTTTTTTTCTTTNTTTCTNCNTCTCTTCCTCTCT
TTTTCTTTTTTCTTCCTTCTCTTTTCTCTCNCTTTTTGCTCCTTTTTTTT
TGCTTTCCTCTTTCTTTCTTTTCTTTCTCTTTTNCGTCTCTGTTCCTTCT
CCTTTTTTCCCTTTCCTCTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no522_g09.b1 MSMg01no522_g09.b1 CHROMAT_FILE:
MSMg01no522_g09.b1 PHD_FILE: MSMg01no522_g09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:55:59 2005
         (648 letters)



>mm_chrY_1714596_1715646
          Length = 1051

 Score =  476 bits (246), Expect = e-138
 Identities = 514/610 (84%), Gaps = 28/610 (4%)
 Strand = Plus / Minus

                                                                        
Query: 27   cagagtttcagacttcatggttgaaaagtttaaata-agactgtgggtattcctagaggg 85
            ||||||||||||| || |||  ||  ||||| |||| ||||||| |||  ||||| ||||
Sbjct: 1004 cagagtttcagacatcttggcagagcagttt-aatagagactgttggtcctcctacaggg 946

                                                                        
Query: 86   atgcccttgtt-tttaacat-ttttaaactttgttaattcaacaacaagcgtcagatgct 143
            |||||| | || |||||||| |||||||||||||||||||||||||| | ||||||||||
Sbjct: 945  atgccc-tcttctttaacatcttttaaactttgttaattcaacaacaggggtcagatgct 887

                                                                        
Query: 144  ccagtccattagttggttgcaaatatctgcagctgaatccttcacctgctagtt------ 197
             ||||||||| ||||| |||||||||||||| ||||||  |||| ||| |||||      
Sbjct: 886  tcagtccattggttgggtgcaaatatctgcatctgaatttttcagctgttagttgggtca 827

                                                                        
Query: 198  tgaggtacatgtcttaaacttgttgtagt--gtatgtactagataatgaatcaaaataat 255
            | ||| |||| ||| |||||||||| |||  |||  || ||| |||||||| |||| |||
Sbjct: 826  ttaggaacatttctcaaacttgttgaagtgggta--taatagctaatgaatgaaaaaaat 769

                                                                        
Query: 256  atc-aaaaat--atattgcatattgtaactgagaaatataacgctggttctaagggacct 312
             || ||||||  |||||  | ||||||| |||||||||||| | ||||||||||| |  |
Sbjct: 768  ctctaaaaatacatattttacattgtaattgagaaatataatgttggttctaaggcaagt 709

                                                                        
Query: 313  attca-cattcagttcaagatataggtaataaacagtgtttctcaatgtttcttaaaatg 371
            ||| |  |||||| |||||| ||||| | ||||| ||||| |||| ||||||||| ||||
Sbjct: 708  att-aggattcaggtcaagagataggcattaaactgtgttcctcagtgtttcttataatg 650

                                                                        
Query: 372  actgtgggtaacct-aaagaaacaaagctaaaccaaactaaaccaaaagaaacaccctct 430
              ||||||||| || ||| |||||||||||| |||||||||||| ||||||||| |||||
Sbjct: 649  gttgtgggtaa-ctgaaataaacaaagctaagccaaactaaacctaaagaaacaacctct 591

                                                                        
Query: 431  tctatacattgtctcatcttcttccaattgaccagttcttaaaagccatgctctt-gagt 489
            |||||||||||||||||||||| |  ||| ||||||| ||||| ||||||||||| || |
Sbjct: 590  tctatacattgtctcatcttctactgattcaccagtttttaaaggccatgctcttgga-t 532

                                                                        
Query: 490  gtaactacacattggaagtgtccttcccctactctgattcagaatatcac--tttacatg 547
            |||||||||||||||||||||||||||||||||||||||||| |||  ||  |||||| |
Sbjct: 531  gtaactacacattggaagtgtccttcccctactctgattcagcata--accgtttacaag 474

                                                                        
Query: 548  agctcagatatcttattttgtaatctgagtgaatgtgtggctttgatattagttgattgt 607
            |||||| ||| |||||||||||||||||||||||||||| ||||||||||||||||||| 
Sbjct: 473  agctcatataccttattttgtaatctgagtgaatgtgtgactttgatattagttgattgc 414

                      
Query: 608  taatagaaag 617
            ||| ||||||
Sbjct: 413  taagagaaag 404


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: 8
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: 648
Length of database: 1051
Length adjustment: 10
Effective length of query: 638
Effective length of database: 1041
Effective search space:   664158
Effective search space used:   664158
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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