BAC Information

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BAC

Clone NameMSMg01-337A10
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 nameMSMg01-337A10.T7 (MSMg01no337_a10.b1)MSMg01-337A10.TJ (MSMg01no337_a10.g1)
ACCAG451904AG451905
length751763
length of high quality
(start - end)		640 (46 - 685)492 (76 - 567)
definitionCHROMAT_FILE: MSMg01no337_a10.b1 PHD_FILE: MSMg01no337_a10.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:25:16 2005CHROMAT_FILE: MSMg01no337_a10.g1 PHD_FILE: MSMg01no337_a10.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:25:16 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTAACCAAGAGTAAGCTAATACACTATATAAAGCTGTACTGAGAAG
CCTTAAGAAGGCAGGTATCTCACTCTGACCAGGGCTAAGGTTGTTTCGAC
TGTATTGGCTTTATTCTTCTGGAGATTCTTGTCAGGAATGGCGTCCTTTT
ACCAGACCACAACAGGAAACCTTCCATATGTCTCCTTTGGTGTCTGGGCA
TAGGATATGTGAGATGCATCAAGACTGATTAAAGGTCATGTTCCCTAGAT
GTGAAACTGTTTCCAGGAATACGATGGTATACACAAGGTCAACTCCAGAA
TACATAGCATCAGGTCTTTCTTGGCCAATTCAAAATTGGAGCCAAAATCT
CAAGAGACAATGTATGTGTTGACAGACTTGCTGCTATCACACAGGTCGTG
GCTTCAATTTCCAGCAATTACATTGTGACTGTTTCTCTGTCTCTCTATCT
GTCTCTCTGTCTCTCTGTCTCTCTGTCTCTCTGCCTCTCTCTCTTTCCTT
CTAACTTCCCCACTCTCTGTATTGCTATCTCTCTGTATCTCAGTCTCAGT
CTGTGTTTCTCTCTTTCCCTCTCACTCCCTGCCCCCCCTTTCTTTCTCAT
CCTCCCTGTAATTCCAGCAGCATATGCTGCTGTATCCTCTTCTGTCCTCT
GATGTATTACATATAAGAAGTGTTCATGCCAACTGTAATGTTCACAAACA
N

CATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTAAAATAAATGTGTTTTTTTAATTT
GAAGTTGGTAGAGGTTTTTGTTTTTTTTTTTTAATTTACATTTTTAAGTT
TCAGTATATTCTAAAATATATGTGCTTATATGCACTGTAGAAAATATCTA
TGTGATGTAAGGAGACATTAATCAAATCTACTAAATTGCTTTCTGGAATT
CAGTTAGCTTTAGACACTGACAGCTGTGATGATTTAAGATAGGCAGCAGA
GTGCTCACAGTATCACTAAGAGATGAACATTAGCTTGTTGTCATATTCAC
CCACACTCACACATACATAAACACACACAAACACACACACACACATAAAC
ACACACAACACTCACACAAACACACACGCACTCACACACCCACACACACA
CACACACACAAGCGCACACCAGCCATTGGAACACAAACCCCAGTAGTGAC
TCCCGTGACAGTTCTAAATATTTAGACACAGTCCCTAGTCAAAAAGTTCA
TGGAAACTAAGTCTTCCGGAACCATCCTGGAAATAATTCATCAAACTTGT
CCCTTAATTAATAAGTGATTGAAACTTTGTGACTTCTTTCCAGGTGGTTT
TATTATAAACGGCCCCCAAGTAATGATTTTGGCAAAACCTAACCATATTC
CAACTTTTTCCCCGCCCCTTCCCTATATTCTTGTAATCCCTTGACGGACT
CTCGGCTTGTAAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no337_a10.b1 MSMg01no337_a10.b1 CHROMAT_FILE:
MSMg01no337_a10.b1 PHD_FILE: MSMg01no337_a10.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:25:16 2005
         (640 letters)



>mm_chrY_1656850_1657889
          Length = 1040

 Score =  302 bits (156), Expect = 6e-86
 Identities = 403/490 (82%), Gaps = 31/490 (6%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctaaccaagagtaagctaatacactatataaagc-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: 640
Length of database: 1040
Length adjustment: 10
Effective length of query: 630
Effective length of database: 1030
Effective search space:   648900
Effective search space used:   648900
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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