BAC Information

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BAC

Clone NameMSMg01-079F19
ChromosomeY (Build37)
Map Location 1,655,731 - 1,656,294
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 nameMSMg01-079F19.T7 (MSMg01no079_f19.b1)MSMg01-079F19.TJ (MSMg01no079_f19.g1)
ACCAG300459AG300460
length726723
length of high quality
(start - end)
628 (37 - 664)568 (65 - 632)
definitionCHROMAT_FILE: MSMg01no079_f19.b1 PHD_FILE: MSMg01no079_f19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:27:58 2005CHROMAT_FILE: MSMg01no079_f19.g1 PHD_FILE: MSMg01no079_f19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:27:58 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXTTCGAGAATCCGCGGAATTCAGTA
AGAATGTTACCTGTAACAACCAGAGTTACCTCTAGTATTATAAGAGAGAT
TGTGACAGCCATTGCTATATACTACATAGAGTTAGAAATCTCAGGACAAC
TTTAGGAAAGTATGTTTAGAATATTTGTTATACTTATGCATGGCAGGCTA
CATTAGTTGTTAGTAGAAAGATTCCCCCATACAATCCCTCTCATATACAG
GAATTTACAATGGTTTAGGAAATAACTTGTGCTGTGGTTTGAGGGGGAAC
AACAGTTTTGAATTATTCATGAGAAGATTAGCTAGAAAGAAACTCCCTAA
TTAGAACCATGGCTTGAGTGTGAAATCCATTTGCATGGTGTGATCATAAA
GTGTTCAAACCTAGCTTCAAAGAATATAGCTGACTTTAGAGAAGAATTCA
TTTCAGTTATTTTATTGCTCAGTCCCTGCCAGTCATTATGTTTTTATTGC
TCTATTTTGGACATGAGTCTTTAAGAATTCAGTAACCTCATTTACCTGGC
TGATTTGAAAACCAACTTCCCTATTTGTTTCTATATTAATAATCTGATGA
TTTCTTTGAGAAATTACATTCAGATACAGCAACCCCTCTGTGTTTGTATC
TGATTGACACTTATATGTCAGCTTCCTGCCCACCTATACCAGGACAATGA
TTTCTCCCAGAGATTGAGGAGGGCTG
TGAGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXAAACAATTTTGGACCCTATGAAAGTAATGGATTGTC
CAAATGCTCCCGGACTGAGAATCTTAGGGAAGCTCTAGGTTTTTTCTTAA
TCTGCAATGTCATTTAGACATTAGAGCAAGCAGAGATGATTTGCTCCTTC
TCTTAGGCAATCAGATTTTATTCTGGAAGACAACCGTTGTGAGCCTTGAG
AGGGTTTGCTGGAGGAGAAGGGATATTGACAGTGCTCTACCCAAACTGCA
AGGCACACAGCTAGACCTTGTTCCCTCTGATGCATAGAAGTGTCTGATGG
TATTAGATGGGATTCTTGATGAGGACAGAATCTGAGGAAAGGTTCCTGTA
GAGAAATGAAGCGCAGTTATACAACCTAGAAAGTATATACCATTGATCAT
TGTGAGCCTGAAACAGAAAGCACCCAAGCATTGGACCTAATGTATGATTG
GTGAGACAGATTGAAGAGATTTTGTTTGTTTTGAATTCTCTGTATAGGTA
TGGATACATTGTCTCATGGGAAGGGGGAGTGTGGATTCCCTGTGGTTACT
AAAATAGAAGAAGTTGTAAACAGCCAATGGAAATGTGGCAAGTCCAAGTG
TATGCTGTGCATGACCTGCCAGCGTTCAGAAATGCTGAGCCATCCCTTCA
GATTCAAAAAGATATTTAAAGAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no079_f19.g1 MSMg01no079_f19.g1 CHROMAT_FILE:
MSMg01no079_f19.g1 PHD_FILE: MSMg01no079_f19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:27:58 2005
         (568 letters)



>mm_chrY_1655531_1656494
          Length = 964

 Score =  507 bits (262), Expect = e-147
 Identities = 497/578 (85%), Gaps = 24/578 (4%)
 Strand = Plus / Minus

                                                                       
Query: 1   aaacaattttggaccctatgaaagtaatggattgtccaaatgctcccggactgagaatct 60
           |||||| ||||||||||||||||||||| ||||| ||||||||||| |||||||||||||
Sbjct: 764 aaacaagtttggaccctatgaaagtaatagattgcccaaatgctcctggactgagaatct 705

                                                                       
Query: 61  tagggaagct-ctaggttttttcttaatctgcaatgtcatttagacattagagcaagcag 119
           | ||||| || |||||  |||||||||||||||||| |||||||| ||| |||||||  |
Sbjct: 704 tggggaa-ctgctagggattttcttaatctgcaatggcatttagatattggagcaagtgg 646

                                                                       
Query: 120 agatgatttgctccttctcttaggcaatcagattt-tattctggaagacaaccgttgtga 178
           ||||| |||||||||||| ||||||| |||||||| | |  |||||||||| | ||||||
Sbjct: 645 agatgctttgctccttcttttaggcactcagatttgtct--tggaagacaaactttgtga 588

                                                                       
Query: 179 gc-cttgagagggtttgctggaggagaagggatattgacagtgctctacccaaactgcaa 237
           ||  |||||||||||||||||||||||||||||||||||||||||||| |||||||||| 
Sbjct: 587 gcatttgagagggtttgctggaggagaagggatattgacagtgctctaaccaaactgcat 528

                                                                       
Query: 238 ggcacacagctagaccttgttccctctg-atgcatagaagtgtctgatggtattag-atg 295
           ||||||||||||||| |||||||||||| | |||||||| | ||||||||| || | || 
Sbjct: 527 ggcacacagctagactttgttccctctgta-gcatagaattttctgatggtgtt-gcat- 471

                                                                       
Query: 296 ggattcttgatgaggacagaatctgaggaaaggttcc-tgtagagaaa-tgaagcgcagt 353
            ||| |||| ||||||||| |||||||| ||| ||||  ||||| ||| || || |||||
Sbjct: 470 -gatccttgctgaggacaggatctgaggcaagtttccaggtaga-aaactgtagtgcagt 413

                                                                       
Query: 354 tatacaacctag-aaagtatataccattgatcattgtgagcctgaaacagaaagcaccca 412
           |||||||  ||| ||| |||| |||||| |||   ||||||||||| | || |||| |  
Sbjct: 412 tatacaaggtagcaaa-tataaaccattaatc---gtgagcctgaagctgagagca-ctg 358

                                                                       
Query: 413 ag-cattggacctaatgtatgattggtgagacagattgaagagattttgtttgttttgaa 471
           || |||||||||||||| || |||| |||||||  ||||||| |||||||||||||||||
Sbjct: 357 agacattggacctaatgcataattgctgagacactttgaagacattttgtttgttttgaa 298

                                                                       
Query: 472 ttctctgtataggtatggatacattgtctcatgggaagggggagtgtgg-attccctgtg 530
           ||||||||||||||||| |||||||||| ||||||||| |||||||||| || |||||||
Sbjct: 297 ttctctgtataggtatgaatacattgtcccatgggaagagggagtgtggcat-ccctgtg 239

                                                 
Query: 531 gttactaaaatagaagaagttgtaaacagccaatggaa 568
           || ||| || |||| | ||||||||| |||||||||||
Sbjct: 238 gtcactgaagtagacggagttgtaaagagccaatggaa 201


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: 6
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: 568
Length of database: 964
Length adjustment: 10
Effective length of query: 558
Effective length of database: 954
Effective search space:   532332
Effective search space used:   532332
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)