BAC Information

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BAC

Clone NameMSMg01-394N20
ChromosomeY (Build37)
Map Location 1,656,022 - 1,656,467
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 nameMSMg01-394N20.T7 (MSMg01no394_n20.b1)MSMg01-394N20.TJ (MSMg01no394_n20.g1)
ACCAG495820AG495821
length771781
length of high quality
(start - end)		361 (69 - 429)453 (77 - 529)
definitionCHROMAT_FILE: MSMg01no394_n20.b1 PHD_FILE: MSMg01no394_n20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:40:24 2005CHROMAT_FILE: MSMg01no394_n20.g1 PHD_FILE: MSMg01no394_n20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:40:24 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
CTTCAATAAXXXXXXXXXXXXXXXXXXXXXXXXXTTTCCAGAGGATCCGC
GGAATTCAGAAAATTTACCAGTGGTGAGGGTAGCAGCAAAGTTCTTGAGT
CTCAAAGACAACAGATACCGTGGCTGAATATTCCAACTACAACAACTAGG
TAACATTGGTTCTACACTTAGCATGCCGTTTCTAGAAAAAAAATTAAAGA
ATTAAGCCATGTTTCCTCTGAACCTGACATGTTACTATCACAAATGAAAG
AAGGATCCATGATCACATGAATATGAAAGGCGCATGAAGCAGCAAAATTG
TTCAACTTATTGGCAGCTAGTCTGTATTAACACAAGAAGGGACAAAGACA
ATAAACAGCTTTGAAGACCTGTCCAAATGACCACGTTCATTTACAAGTTT
TTTACCCATTCCATGCACATCCATTGATTGATTAACTCATTGATTAAAGC
CCTCAGGCTCCAATCACTTTTCAGAGAGCATATTGTACTACCTATGAACA
TTGCACTGTGGTACTAAGCCTTTCATCAAGGACCCCTGACTGGAATTTTC
AAATCATCTTATCCTCAGAAATCCTCTATTTGATACAATGCGATAAGAAC
TCTTCCATCTTCTTCAGGGATATCTTCCGTTTTGTTCAAAAAAATCCAAA
AAGCAATGTTTACTCTAGGATATTGGACTCCTATTCCTGGATCCTAAAAC
CCCTAGGGTTTCAAACCTAAATTTATGGTCCGAAATCTATAATTTCCCCT
TTTCCACAATTAATTTCTGAA

NNCCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCACAGCATGTAATTGCCCCCTAC
CACCAGAAACCAAAGTCACCTTGGTGGGACCAGGAGCAGTTCACCTGCCT
CTTCAGGTTGCTTTTGTTTAACTGCCTTTGGAGACAGCAGTTGGAGCTGC
TGCTACCTGCTGGAAAGGTGGCTTCTAATGGGACAATTCATTGGTCTGTA
GAATTCAAACAATTTTGGACCCTATGAAAGTAATGGATTGTCCAAATGCT
CCGGGACTGAGAATCTTGGGGAAGCTCTAGGTTTTTTCTTAATCTGCAAT
GTCATTTAGACATTAGAGCAAGCAGAGATGATTTGCTCCTTCTCTTAGGC
AATCAGATTTTATCCTGGAAGACAACCGTTGTGAGCCTTGAGAGGGTTTG
CTGGAGGAGAAGGGATATTGACAGTGCTCTACCCAACCTGCAAGGCACAC
AGCTAGACCTTGTTCCCTCTGATGCATAGAAGTGTCTGATGGGATTAGAT
GGGATTCTTGATGAGGACCGAATCCGAGGGAAGGGTCCCTGGGTAAAAAA
TGAACTGCAGTTATTCCCCCCAATAAGTTTATCCCTTTGATCCTTGGGAA
CCCGAAAAAAAAAGCCCCAAGCTTTGGCCTCATGTTGAATTGGGGAACAA
ATGACCACATTCTTTTTTTTTTATATCCTCCTACTACCCATACCTTTACC
CCTTCTCCCTATATTCCTCTCCTTTTTCTCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no394_n20.g1 MSMg01no394_n20.g1 CHROMAT_FILE:
MSMg01no394_n20.g1 PHD_FILE: MSMg01no394_n20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:40:24 2005
         (453 letters)



>mm_chrY_1655748_1656600
          Length = 853

 Score =  447 bits (231), Expect = e-130
 Identities = 398/459 (86%), Gaps = 19/459 (4%)
 Strand = Plus / Minus

                                                                       
Query: 1   tcacagcatgtaattgcc--c-cctaccaccagaaaccaaagtcaccttggtgggaccag 57
           |||||||| |||| ||||  | ||||  | |||||  |||||||||||||||||||||| 
Sbjct: 720 tcacagcaggtaagtgcctgctccta--a-cagaagtcaaagtcaccttggtgggaccat 664

                                                                       
Query: 58  gagcagttcacctgcctcttcaggttgcttttgtttaactgcctttggagacagcagttg 117
            |  || |||||||||||       ||||||||||||  |||| ||||||||||||||||
Sbjct: 663 tataagatcacctgcctc-------tgcttttgtttaggtgccattggagacagcagttg 611

                                                                       
Query: 118 gagctgctgctacctgctggaaaggtggcttctaatgggacaattcattggtctgtagaa 177
           |||| |||||||||||||||  || ||||||||||||| ||||| |||||||||| ||||
Sbjct: 610 gagcagctgctacctgctggtgagttggcttctaatggaacaatgcattggtctgcagaa 551

                                                                       
Query: 178 ttcaaacaattttggaccctatgaaagtaatggattgtccaaatgctccgggactgagaa 237
           ||||||||| ||||||||||||||||||||| ||||| ||||||||||| ||||||||||
Sbjct: 550 ttcaaacaagtttggaccctatgaaagtaatagattgcccaaatgctcctggactgagaa 491

                                                                       
Query: 238 tcttggggaagct-ctaggttttttcttaatctgcaatgtcatttagacattagagcaag 296
           |||||||||| || |||||  |||||||||||||||||| |||||||| ||| |||||||
Sbjct: 490 tcttggggaa-ctgctagggattttcttaatctgcaatggcatttagatattggagcaag 432

                                                                       
Query: 297 cagagatgatttgctccttctcttaggcaatcagattttatcctggaagacaaccgttgt 356
             |||||| |||||||||||| ||||||| ||||| ||| || |||||||||| | ||||
Sbjct: 431 tggagatgctttgctccttcttttaggcactcaga-tttgtcttggaagacaaactttgt 373

                                                                       
Query: 357 gagc-cttgagagggtttgctggaggagaagggatattgacagtgctctacccaacctgc 415
           ||||  |||||||||||||||||||||||||||||||||||||||||||| |||| ||||
Sbjct: 372 gagcatttgagagggtttgctggaggagaagggatattgacagtgctctaaccaaactgc 313

                                                  
Query: 416 aaggcacacagctagaccttgttccctctgat-gcatag 453
           | ||||||||||||||| |||||||||||| | ||||||
Sbjct: 312 atggcacacagctagactttgttccctctg-tagcatag 275


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: 9
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: 453
Length of database: 853
Length adjustment: 10
Effective length of query: 443
Effective length of database: 843
Effective search space:   373449
Effective search space used:   373449
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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