BAC Information

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BAC

Clone NameMSMg01-486C04
ChromosomeY (Build37)
Map Location 1,266,153 - 1,266,789
singlet/doubletsinglet
Overlap genenone
Upstream geneJarid1d, Eif2s3y, Tspy-ps, Uty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079
Downstream geneLOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-486C04.T7 (MSMg01no486_c04.b1)MSMg01-486C04.TJ (MSMg01no486_c04.g1)
ACCAG565410AG565411
length729730
length of high quality
(start - end)
606 (83 - 688)648 (83 - 730)
definitionCHROMAT_FILE: MSMg01no486_c04.b1 PHD_FILE: MSMg01no486_c04.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:08:21 2005CHROMAT_FILE: MSMg01no486_c04.g1 PHD_FILE: MSMg01no486_c04.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:08:21 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
GGGGACTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCAGAGAAG
GCGCGGAATTCACCAAGGATGCCGCCTATTCAGTGACATTCAGATTTACC
TCTAGTACTGTAAGAGAGATAATGAAAGAAATCAGGCATTACTATCTGTT
CCACAGAGTTAGAATTCTCAGGGCAAACTACTACCATATGCAAGAATTTA
CTATTATCTAGGAATAAGAAAGGTTGTGTTATAAGAAGAAACCAGAATAT
ATAATTAGAACTATAGATATTTGAGCTTCAAACATACACAGGAATTTGCA
ATGACCTAGGGGCCCGAGGTATTATATGATTGACTAGAAGAGGAACTATT
GCAAGGGCACAAAACCATTGCCTATGACTTCTAAGATTAAGCAAACCTTA
GGGAAGGCTACTTTTGATCCCAGTTTTTAACATTGAATTTTATCCCAATT
GGTCCCTGACAGTCCTTTGTAGGCATTCCTCTATTTTGTGTAAAAGTCAC
TTATAAGACTATTGCTCCCTTTGAGACAAATTACATTCAGATCCACACTC
CTTTGTGTCCTGTCTGTTTCTCAGCCTCTCTTCTTGTTAAATCCTTGCCC
ACCTTTACTCAGAATCCAAGATATGCCCATGGAGCAAGGACCCCAGTGAG
GTTTGTCTGTGGCAAGCTACCTTTCAGTTGACTAAAATATATCATATATA
TATACACTCCAGCTCTATTCAGGTACCCC
TGGGAGGCATGAGAGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCATCAAAAAAATTGTATG
AAGTTCTCAAGGAATTAATTAATGTAGTTCTTAATATACAATGTCTGTAC
TGAACATATACAGACCACTTATATTTCAATCTCCTAAATAGCAACTCATT
TTATAGCACTTACATTACATTAAGTGCAAAAGTAATCCAGAGATTATTTA
AAATAAAGAAGGATCAGGGGATATGGCCCAGAGACAATGCCAGGAGTGTG
TTCAAACATTCACCTACAACACCAGTGCTTAAGATTTTGGGAGGGGCAGA
GACAGGAAGATGATTGTGGCTTCCTGAAAGCCAGGCTCACTACCAGCTCA
GCAAGAAACCCAGTCACAAGGGGATAAGTTATGGAGGAAAAGAGTAGATC
ACACTATACCCTTCCCTAGCCTCTGAACTTACCTGTACAGTTCTCTATGC
AGACTCACATAAATATGATTAAAATATGCAAGAGGTTATTTTGCATAGCT
TATGTTCAAAAGCAGTGTTGTTTTAGACTAGAATCCTGAGGACTTTATAT
CATTATAGTTCCTGGAGCAAACTCCCAAGATATAGATGATGGGTATATCT
TCTTACTGTGCAAAGGAAACCTCAGTTAAGTGTGTGTGTCAGTGACTCCA
AACAGCTTTCCTCCTCTATGTTCCTTTAAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no486_c04.g1 MSMg01no486_c04.g1 CHROMAT_FILE:
MSMg01no486_c04.g1 PHD_FILE: MSMg01no486_c04.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:08:21 2005
         (648 letters)



>mm_chrY_1265953_1267001
          Length = 1049

 Score =  601 bits (311), Expect = e-176
 Identities = 562/653 (86%), Gaps = 33/653 (5%)
 Strand = Plus / Plus

                                                                       
Query: 1   catcaaaa-aaattgtatgaagttctcaaggaattaattaatgtagttcttaatatacaa 59
           |||||||| | |||||||||| |||||||||||||||| || |||||||||||||||| |
Sbjct: 201 catcaaaatatattgtatgaaattctcaaggaattaatgaaagtagttcttaatatacca 260

                                                                       
Query: 60  tgtctgtactgaacatatacagaccacttatatt-tcaatctcctaaatagcaactc--a 116
           |||||||||||||||||||||||||||||||||| || |||||||||||| ||||||  |
Sbjct: 261 tgtctgtactgaacatatacagaccacttatattgtc-atctcctaaataacaactccta 319

                                                                       
Query: 117 ttttatagcacttacattacattaagtgcaaaagtaatccagagattatttaaaataaag 176
              ||||||| || |||| ||||||| |||||||| |||||||||| |||||||||||||
Sbjct: 320 ---tatagcagtttcattgcattaagggcaaaagtcatccagagatcatttaaaataaag 376

                                                                       
Query: 177 aaggatcaggggatatggcccagag--acaatgccagga--gtgtgttcaaacattcacc 232
           ||||||||||  | ||||||||| |  | || ||||  |  || || ||| |||||||||
Sbjct: 377 aaggatcaggcaagatggcccaggggta-aa-gcca--attgtttggtcagacattcacc 432

                                                                       
Query: 233 tacaacaccagtgcttaagattttgggaggggcagagacaggaagatgattgtggcttcc 292
           || |||| ||||||| | ||  | ||||||||||||||||| |||| || ||||||||||
Sbjct: 433 tataacaacagtgctcagga--tggggaggggcagagacagaaagaagactgtggcttcc 490

                                                                       
Query: 293 tgaaagccaggctcactacc-agctcagcaagaaacccagtcacaaggggataagttatg 351
           ||||||| || |||||| || || |||||||||||||| |||| ||||| | || ||| |
Sbjct: 491 tgaaagcaagcctcact-cctaggtcagcaagaaaccctgtcataagggaacaaattagg 549

                                                                       
Query: 352 gag-gaaaagagtagatcacactatacccttccctagcctctgaacttacctgtacagtt 410
           ||| | || ||| ||| |||||| |||| |||||| ||||||||| |||||||||||| |
Sbjct: 550 gagtg-aaggagcagaacacactgtacctttccctggcctctgaatttacctgtacaggt 608

                                                                       
Query: 411 ctctatgcagactcacataaatatgattaaaatatgcaagaggttattttgcatagct-- 468
           || |||||| || |||||||||||||||||| ||| |||||||||| ||||||||| |  
Sbjct: 609 ctgtatgcacacacacataaatatgattaaagtatacaagaggttactttgcatagatta 668

                                                                       
Query: 469 tatgttcaaaagcagtgttgttttagactaga-atcctgaggac-tttatatcattatag 526
           |||||  ||||||| ||||||||||| ||||| | ||||||||| ||||||||||||  |
Sbjct: 669 tatgt--aaaagcaatgttgttttagcctagaga-cctgaggacttttatatcattaggg 725

                                                                       
Query: 527 ttcctggagcaaactcccaagatatagatg---atgggtatatcttcttactgtgcaaag 583
            ||||||||||||||||| | ||||||| |   |||||||||||||||||||||||||||
Sbjct: 726 gtcctggagcaaactccccatatataga-gagaatgggtatatcttcttactgtgcaaag 784

                                                                
Query: 584 gaaacctcagttaagtgtgtgtgtcagtgactccaaacagctttcctcctcta 636
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 785 gaaacctcagttaagtgtgtgtgtcagtgactccaaacagctttcctcctcta 837


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: 16
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: 648
Length of database: 1049
Length adjustment: 10
Effective length of query: 638
Effective length of database: 1039
Effective search space:   662882
Effective search space used:   662882
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)