BAC Information

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BAC

Clone NameMSMg01-202D05
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 nameMSMg01-202D05.T7 (MSMg01no202_d05.b1)MSMg01-202D05.TJ (MSMg01no202_d05.g1)
ACCAG387448AG387449
length787711
length of high quality
(start - end)
669 (119 - 787)635 (77 - 711)
definitionCHROMAT_FILE: MSMg01no202_d05.b1 PHD_FILE: MSMg01no202_d05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:22:55 2005CHROMAT_FILE: MSMg01no202_d05.g1 PHD_FILE: MSMg01no202_d05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:22:55 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NNCCCCTTTTTTTTTTTNTNNNCCCNNCNTTTTTTTTTTCTCCTTTCCCC
GGGCCCCCCTAACCNCNNNCCCTCTATXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXCGCGGAATTCACTCTTACCCACTCCCATTCTC
GGGGTGAAATATTCAGGTGATGGGCAAGCAATGAATCATGAGCTGTCATG
CCATATCAGGTGCTGAAATGTCACGCTGCAGGTTATAAAAGCAGCGCAAT
TTTCCCGGTTCGGGATCTTCCTGATAAGCAAGCAATAAAGCTCTTACTGT
GGAAGATTCTAGTTTGTTGTATCTTTCTTGCCGGTCGAGCGGGACGCAAT
AGTGAATAGCTTTTACCTCCCTGCTGTTGCTCTCCTAGTACTGACCAGAA
ACTGAGGTGCCTTTTCCAGCAGACTGTGCTAGGACATAGTCATAGAACAC
ATCTTCCTTCGAAAGCAGCTTCTAGGCTTCATTGGAAAACCTTAAATCTG
TGAATATTGGGAACAGAGTCTGTACATAGCTCAGTTGACAGAGTGACTGC
CTAGCATTTAGGATGCCTAGGACTCAGTGATTAGTGCTGTCTTTACTTTA
TTGCCTTTAGTGGGTCTACTTATTATATTGTAATACACTTGGGATCATAG
AAAGGGATATCATGATGACCTAAGACCAAGACTGTCAATGATGTTGGTTA
GAGTCTTCTCTTGTATCCTCAGGCTAAAGAGACCTGATACCAGAGTGACT
CACATTACTGAGAAACTCAAGTTTCTATTTCATTTCA
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCATCAAAAAAATTGTATGAAGTTC
TCAAGGAATTAATTAATGTAGTCCTTAATATACAATGTCTTTACTGAACA
TATACAGACCACTTATATTTCAATCTCCTAAATAGCAACTCATTTTGTAG
CACTTACATTACATTAAGTGCAAAAGTAATCCAGAGATTATTTAAAATAA
AGAAGGATCAGGGGATATGGCCCAGAGACAATGCCATGTGTGTGTTCAAA
CATTCACCTACAACACCAGTGCTTATGATTTTGGGAGGGGCAGAGATAGG
AAGATGACTGTGTTTTCCTGAAAGCCAGCTCAGCAAGAAACCCAGTCACA
AGGGGATAAGTTATGTAGGAAAAGAGTAGATCACACTATACCCTTCCCTA
GCCTCTGAACTTACCTGTACAGTTCTCTATGCAGACTCACATAAATATGA
TTAAAATATGCAAGAGGTTATTTTGCATAGCTTATATTCAAAAGCAATGT
TGTTTTAGACTAGAAACCTGAGGACTTTATATCATTATAGTTCCTGGAGC
AAACTCCCAAGATATAGATGATGGGTATATCTTCTTACTGTGCAAAGGAA
ACCTCAGTTAAGTGTGTGTGTCAGTGACTCCAAACAGCTTTCCTCCTCTA
TGTTACTTTAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no202_d05.g1 MSMg01no202_d05.g1 CHROMAT_FILE:
MSMg01no202_d05.g1 PHD_FILE: MSMg01no202_d05.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:22:55 2005
         (635 letters)



>mm_chrY_1265963_1267000
          Length = 1038

 Score =  559 bits (289), Expect = e-163
 Identities = 550/651 (84%), Gaps = 41/651 (6%)
 Strand = Plus / Plus

                                                                       
Query: 1   catcaaaa-aaattgtatgaagttctcaaggaattaattaatgtagtccttaatatacaa 59
           |||||||| | |||||||||| |||||||||||||||| || ||||| |||||||||| |
Sbjct: 191 catcaaaatatattgtatgaaattctcaaggaattaatgaaagtagttcttaatatacca 250

                                                                       
Query: 60  tgtctttactgaacatatacagaccacttatatt-tcaatctcctaaatagcaactc--a 116
           ||||| |||||||||||||||||||||||||||| || |||||||||||| ||||||  |
Sbjct: 251 tgtctgtactgaacatatacagaccacttatattgtc-atctcctaaataacaactccta 309

                                                                       
Query: 117 ttttgtagcacttacattacattaagtgcaaaagtaatccagagattatttaaaataaag 176
              | ||||| || |||| ||||||| |||||||| |||||||||| |||||||||||||
Sbjct: 310 ---tatagcagtttcattgcattaagggcaaaagtcatccagagatcatttaaaataaag 366

                                                                       
Query: 177 aaggatcaggggatatggcccagag--acaatgcc-atgtgtgtgttcaaacattcacct 233
           ||||||||||  | ||||||||| |  | || ||| || ||| || ||| ||||||||||
Sbjct: 367 aaggatcaggcaagatggcccaggggta-aa-gccaat-tgtttggtcagacattcacct 423

                                                                       
Query: 234 acaacaccagtgcttatgattttgggaggggcagagataggaagatgactgtgttttcct 293
           | |||| ||||||| | ||  | |||||||||||||| || |||| |||||||  |||||
Sbjct: 424 ataacaacagtgctcagga--tggggaggggcagagacagaaagaagactgtggcttcct 481

                                                                       
Query: 294 gaaagccagc------------tcagcaagaaacccagtcacaaggggataagttatgta 341
           |||||| |||            |||||||||||||| |||| ||||| | || ||| |  
Sbjct: 482 gaaagcaagcctcactcctaggtcagcaagaaaccctgtcataagggaacaaatta-g-- 538

                                                                       
Query: 342 gga---aaagagtagatcacactatacccttccctagcctctgaacttacctgtacagtt 398
           |||   || ||| ||| |||||| |||| |||||| ||||||||| |||||||||||| |
Sbjct: 539 ggagtgaaggagcagaacacactgtacctttccctggcctctgaatttacctgtacaggt 598

                                                                       
Query: 399 ctctatgcagactcacataaatatgattaaaatatgcaagaggttattttgcatagctta 458
           || |||||| || |||||||||||||||||| ||| |||||||||| ||||||||| |||
Sbjct: 599 ctgtatgcacacacacataaatatgattaaagtatacaagaggttactttgcatagatta 658

                                                                       
Query: 459 tat-tcaaaagcaatgttgttttagactagaaacctgaggac-tttatatcattatagtt 516
           ||| | ||||||||||||||||||| ||||| |||||||||| ||||||||||||  | |
Sbjct: 659 tatgt-aaaagcaatgttgttttagcctagagacctgaggacttttatatcattaggggt 717

                                                                       
Query: 517 cctggagcaaactcccaagatatagatg---atgggtatatcttcttactgtgcaaagga 573
           |||||||||||||||| | ||||||| |   |||||||||||||||||||||||||||||
Sbjct: 718 cctggagcaaactccccatatataga-gagaatgggtatatcttcttactgtgcaaagga 776

                                                              
Query: 574 aacctcagttaagtgtgtgtgtcagtgactccaaacagctttcctcctcta 624
           |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 777 aacctcagttaagtgtgtgtgtcagtgactccaaacagctttcctcctcta 827


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: 11
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: 635
Length of database: 1038
Length adjustment: 10
Effective length of query: 625
Effective length of database: 1028
Effective search space:   642500
Effective search space used:   642500
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)