BAC Information

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BAC

Clone NameMSMg01-337A11
ChromosomeY (Build37)
Map Location 1,656,916 - 1,657,389
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 nameMSMg01-337A11.T7 (MSMg01no337_a11.b1)MSMg01-337A11.TJ (MSMg01no337_a11.g1)
ACCAG451906AG451907
length736744
length of high quality
(start - end)		673 (46 - 718)547 (74 - 620)
definitionCHROMAT_FILE: MSMg01no337_a11.b1 PHD_FILE: MSMg01no337_a11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:25:16 2005CHROMAT_FILE: MSMg01no337_a11.g1 PHD_FILE: MSMg01no337_a11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:25:16 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTAACCAATACCAAGCTAATACACTATATAAAGCTGTACTGAGAAG
CCTTAAGAAGGCAGGTATCTCACTCTGACCAGGGCTAAGGTTGTTTCGAC
TGTATTGGCTTTATTCTTCTGGAGATTCTTGTCAGGAATGGCGTCCTTTT
ACCAGACCACAACAGGAAACCTTCCATATGTCTCCTTTGGTGTCTGGGCA
TAGGATATGTGAGATGCATCAAGACTGATTAAAGGTCATGTTCCCTAGAT
GTGAAACTGTTTCCAGGAATACGATGGTATACACAAGGTCAACTCCAGAA
TACATAGCATCAGGTCTTTCTTGGCCAATTCAAAATTGGAGCCAAAATCT
CAAGAGACAATGTATGTGTTGACAGACTTGCTGCTATCACACAGGTCGTG
GCTTCAATTTCCAGCAATTACATTGTGACTGTTTCTCTGTCTCTCTATCT
GTCTCTCTGTCTCTCTGTCTCTCTGTCTCTCTGCCTCTCTCTCTTTCCTT
CTAACTTCCCCACTCTCTGTATTGCTATCTCTCTGTATCTCAGTCTCAGT
CTGTGTTTCTCTCTTTCCCTCTCACTCCCTGCCCCCCCTTTCTTTCTCAT
CCTCCCTGTAATTCCAGCAGCATATGCTGCTGTATCCTCTTCTGTCCTCT
GATGTATTACATATAAGAAGTGTCCATGCCAACTGT

AATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXTAAAATAAATGTGTTTTTTTAATTTGA
AGTTGGTAGAGGTTTTTGTTTTTTTTTTTTAATTTACATTTTTAAGTTTC
AGTATATTCTAAAATATATGTGCTTATATGCACTGTAGAAAATATCTATG
TGATGTAAGGAGACATTAATCAAATCTACTAAATTGCTTTCTGGAATTCA
GTTAGCTTTAGACACTGACAGCTGTGATGATTTAAGATAGGCAGCAGAGT
GCTCACAGTATCACTAAGAGATGAACATTAGCTTGTTGTCATATTCACCC
ACACTCACACATACATAAACACACACAAACACACACACACACATAAACAC
ACACAACACTCACACAAACACACACGCACTCACACACCCACACACACACA
CACACACAAGCGCACACCAGCCATTGGAACACAAACCCCAGTAGTGACTC
CCGTGACAGTTCTAAATATTTAGACACAGTCCCTAGTCAAAAAGTTCATG
GAAACTAAGTCTTCAGGAACCATCCTGGAAAAAATTCATCAAACTTGTCC
TTACATTAGTAAGTGATTGAATCTTTGTGACTTCTTTCAATGTTGTTTTA
TTATAAGTGCCTCCAAGTAATGACTTGTCAAATATCTATACCATATCCCA
TTTTGTTCCCTGTCCTTCCACAATATTCTAGGGAGTCCTTGAAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no337_a11.b1 MSMg01no337_a11.b1 CHROMAT_FILE:
MSMg01no337_a11.b1 PHD_FILE: MSMg01no337_a11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:25:16 2005
         (673 letters)



>mm_chrY_1656850_1657922
          Length = 1073

 Score =  294 bits (152), Expect = 1e-83
 Identities = 402/490 (82%), Gaps = 31/490 (6%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctaaccaataccaagctaatacactatataaagc-tgtactgagaagccttaaga 63
           ||||||| ||||  || ||||||| |||||| ||||||| | ||||||||||| ||||||
Sbjct: 540 gaattctgaccaggactaagctaacacactacataaagcat-tactgagaagcattaaga 482

                                                                       
Query: 64  aggcaggtatctcactctgaccagggctaaggttgtttc-gactgtattggctttattct 122
            |||||||| | |||||||||||| |||||||||||||| | ||||||||||||||| ||
Sbjct: 481 tggcaggtaccacactctgaccagcgctaaggttgtttcag-ctgtattggctttatcct 423

                                                                       
Query: 123 tctggagattcttgtcaggaatggcgt-ccttttaccaga-ccacaacaggaaaccttcc 180
           || || ||||| |||||| |||||  | |||  || |||| |||||||||||||||||||
Sbjct: 422 tcaggggattc-tgtcagaaatgg-atacctgatatcagatccacaacaggaaaccttcc 365

                                                                       
Query: 181 atatgtctc-ctttggtgtctgggcataggatatgtgagatgcatcaagactgattaaag 239
           ||||||||| |||| | ||||||||||||||||| |||||||||||| || |||||||| 
Sbjct: 364 atatgtctctcttt-gagtctgggcataggatatatgagatgcatcaggaatgattaaac 306

                                                                       
Query: 240 gtcatgttccctagatgtgaaac--tgtttccaggaatacgatggtatacacaaggtcaa 297
            ||||||||||||||| ||||||  | ||| |||| || | ||| ||| |||||||||| 
Sbjct: 305 ttcatgttccctagatatgaaaccat-ttt-cagggatcctatgatatccacaaggtcag 248

                                                                       
Query: 298 ctccagaatacatagcatcaggtctttcttggccaattc-aaaattggagccaaaatctc 356
           ||||| | ||| ||| |||| |||||||||||||||||| |||||| || |||| |||| 
Sbjct: 247 ctccatactacgtagaatcatgtctttcttggccaattcaaaaatt-gacccaacatctt 189

                                                                       
Query: 357 aagagacaatg--tatgtgttgaca---gacttgctgctatcacacaggtcgtggcttca 411
           ||   | ||||  | | | ||  ||   || |||||||||||||| |||| |||||||||
Sbjct: 188 aa---aaaatgactttctatt--caatggaattgctgctatcacaaaggtagtggcttca 134

                                                                       
Query: 412 atttccagcaattacattgtgactgt-t-tctctgtctctctatctgtctctctgtctct 469
           | | | ||||| |||||| || || | | ||||||||||| | ||||| | ||| | |||
Sbjct: 133 agtgcaagcaaatacatt-tggctatatctctctgtctctttgtctgtttttct-t-tct 77

                     
Query: 470 ctgtctctct 479
           ||||||||||
Sbjct: 76  ctgtctctct 67


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: 10
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: 673
Length of database: 1073
Length adjustment: 10
Effective length of query: 663
Effective length of database: 1063
Effective search space:   704769
Effective search space used:   704769
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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