BAC Information

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BAC

Clone NameMSMg01-341C19
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,326
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, 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, LOC667236, EG631479, LOC667244
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-341C19.T7 (MSMg01no341_c19.b1)MSMg01-341C19.TJ (MSMg01no341_c19.g1)
ACCAG455036AG455037
length751766
length of high quality
(start - end)		625 (36 - 660)501 (69 - 569)
definitionCHROMAT_FILE: MSMg01no341_c19.b1 PHD_FILE: MSMg01no341_c19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:30:21 2005CHROMAT_FILE: MSMg01no341_c19.g1 PHD_FILE: MSMg01no341_c19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:30:21 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTTTGA
CAACTATATAAATCTGTTCCTGTGACAGTTAGGACCTCTATTCTATATCA
TGAAAGAAATATCTGTGCAGAGGGGTTTTACTTCACCAAAGTGGACAAAT
ATAAATTTTATTAACTATCTTTTCAGAGTTATTTATTATCAGCTATCTTT
GTCTGGGCATCTCTAAGGGATAAAGTTTGATGTCTTGCTTTATCTATATA
TTATTCAGTAATTATGTTAGGGATATTATATACTTATTATAACTGACATA
CATTGTTCTGATAAATTAGAATAGAGCCTGGATAGCTATCTCAATATATT
TCAAAAGCCCAAGTACACATATTTCAGGGATTCATATCTAGGGGCTAAAC
AAATTAAGTACAGGACTGAAAAATATTATTTATGATAATTAAATCAATGG
AAAACATATTCTCACAAAAATATACTTACATATTTTTACTATATTTGTTT
TTAATCGTTGATAGCTAAAAGCAGGTGTTTTATCTGGGAAATGACCAAAG
CACTGGTGTGTCTAGTGCATAGATTATTTCTCAGCAAATAAAAAACAATG
AGAACTCCCACCTTATCCTCTCTTTCTCCATTTATTGTTCTCCCTCTGAT
ACACAGACGCAAAATTTTCAATTAATAAGAACTCCTCTGTAAGTATCAGG
AAAGTGCTACACACTACAAAACAAGCATTGGGAAATTTCCAGGACAATAC
N

AGTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXAAAACAAACAAAATCTCTTCAATCTGTTTCAC
CAATCATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCTCACA
ATGATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTTCATTTCTC
TACCAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCCCATCTAAT
ACCATCAGACACTTCTATGCATCAGAGGGAACAAGGTCTAGCTGTGTGCC
TTGCAGGTTGGGTAGAGCACTGTCAATATCCCTTCTCCTCCAGCAAACCC
TCTCAAGGCTCACAACGGTTGTCTTCCAGAATAAAATCTGATTGCCTAAG
AGAAGGAGCAAATCATCTCTGCTTGCTCTAATGTCTAAATGACATTACAG
ATTAAGAAAAAACCTAGAGCTTCCCTAAGATTCTCAGTCCGGGAGCATTT
GGACAATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATTCTACAGAC
CAATTAATTGTCCCATTAGAAGCCAACTTTTCAGCAGGTAGCAGCAGCTC
CAACTGTTGTCTCCAAAGGCAGTTAAACAAAGCAACCTTGAGAGGCAGGT
GAACTGCTCCTGGTCCCCCCAAGNNGATTTTGGTTTCTGGTGGGAAGGGG
GCAATACATGCTGGGAAAACCCTGTCCTGTGAAGGGGTTCCCCCCCAAAA
ACTCCTCTTTGGAAAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no341_c19.g1 MSMg01no341_c19.g1 CHROMAT_FILE:
MSMg01no341_c19.g1 PHD_FILE: MSMg01no341_c19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:30:21 2005
         (501 letters)



>mm_chrY_1655631_1656526
          Length = 896

 Score =  420 bits (217), Expect = e-121
 Identities = 434/509 (85%), Gaps = 21/509 (4%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaacaaacaaaatctcttcaatctgtttcaccaatcatacattaggtccaatg-cttgg 59
           |||||||||||||| |||||||  ||| ||| |||| || |||||||||||||| | |  
Sbjct: 201 aaaacaaacaaaatgtcttcaaagtgtctcagcaattatgcattaggtccaatgtc-tca 259

                                                                       
Query: 60  gtgctttctgtttcaggctcacaatgatcaatggtatatacttt-ctaggttgtataact 118
           ||||| || | |||||||||||   ||| |||||| |||| ||| |||  ||||||||||
Sbjct: 260 gtgctctcagcttcaggctcac---gattaatggtttata-tttgctaccttgtataact 315

                                                                       
Query: 119 gcacttca-tttctctaccaggaacctttcctcagattctgtcctcatcaagaatcccat 177
           ||||| || ||| |||||| |||| ||| |||||||| ||||||||| |||| ||  |||
Sbjct: 316 gcactacagttt-tctacctggaaacttgcctcagatcctgtcctcagcaaggat--cat 372

                                                                       
Query: 178 -ctaataccatcagacacttctatgc-atcagagggaacaaggtctagctgtgtgccttg 235
            | || ||||||||| | |||||||| | |||||||||||| ||||||||||||||| ||
Sbjct: 373 gc-aacaccatcagaaaattctatgcta-cagagggaacaaagtctagctgtgtgccatg 430

                                                                       
Query: 236 caggttgggtagagcactgtcaatatcccttctcctccagcaaaccctctcaag-gctca 294
           ||| |||| ||||||||||||||||||||||||||||||||||||||||||||  |||||
Sbjct: 431 cagtttggttagagcactgtcaatatcccttctcctccagcaaaccctctcaaatgctca 490

                                                                       
Query: 295 caacggttgtcttccagaata-aaatctgattgcctaagagaaggagcaaatcatctctg 353
           ||| | ||||||||||  | | |||||||| ||||||| |||||||||||| ||||||  
Sbjct: 491 caaagtttgtcttcca--agacaaatctgagtgcctaaaagaaggagcaaagcatctcca 548

                                                                       
Query: 354 cttgctctaatgtctaaatgacattacagattaagaaaaaacctag-agcttccctaaga 412
           ||||||| ||| |||||||| |||| |||||||||||||  ||||| || ||||| ||||
Sbjct: 549 cttgctccaatatctaaatgccattgcagattaagaaaatccctagcag-ttccccaaga 607

                                                                       
Query: 413 ttctcagtccgggagcatttggacaatccattactttcatagggtccaaaattgtttgaa 472
           |||||||||| ||||||||||| ||||| ||||||||||||||||||||| |||||||||
Sbjct: 608 ttctcagtccaggagcatttgggcaatctattactttcatagggtccaaacttgtttgaa 667

                                        
Query: 473 ttctacagaccaattaattgtcccattag 501
           |||| |||||||||  ||||| |||||||
Sbjct: 668 ttctgcagaccaatgcattgttccattag 696


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: 501
Length of database: 896
Length adjustment: 10
Effective length of query: 491
Effective length of database: 886
Effective search space:   435026
Effective search space used:   435026
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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