BAC Information

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BAC

Clone NameMSMg01-521L13
ChromosomeY (Build37)
Map Location 1,656,916 - 1,657,383
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 nameMSMg01-521L13.T7 (MSMg01no521_l13.b1)MSMg01-521L13.TJ (MSMg01no521_l13.g1)
ACCAG592450AG592451
length739750
length of high quality
(start - end)		474 (76 - 549)531 (75 - 605)
definitionCHROMAT_FILE: MSMg01no521_l13.b1 PHD_FILE: MSMg01no521_l13.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:55:08 2005CHROMAT_FILE: MSMg01no521_l13.g1 PHD_FILE: MSMg01no521_l13.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:55:08 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
NNAAACCAATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCTGTAGGCTTCCTTATATTCATGGGCATGTGTTTCTTTAGGT
TTGACAAGTTTTCTTCTATAATTTTTTTGAAGATATGTGCTGGCCCTTTA
ACTTGAAAATCTTCATTCTCATCTACTCCTATTACCAGTAGGTTTGGACT
TCACATTGTGTCCTGGATTTCCTGGATATTTGAGATAACATCTTTTGCAT
TTTGTATTTTATTTGATTGTTGTTCCAATATTCTCTATGGAATCTTCTGC
ATCTGTCATTCTCTCTTCCATGTCTTGTATTCTGGTGCTGATGCTCGCAT
CTATGGTTCCAGATTTCTTGCCTAGGTATTCTATCTCCAGTGTTGCCTTA
CTTTGGGTTTTCTTTATTGTGTCTACTTCACTTTTTAGGTCTTGGATGGT
TTTACTCAATTCCATCACCTGTTTGGTCGTGTTTTCCTTCAATACTTTAA
GGTTTTTTTTTTTTTTTGTGCTTCCTCTTAAGGTTCTACCTATTTAGCAG
TGTTCTCCTGTATTTCTTTAAGTGAGTTTTTAAAGTCCTTCTTGATGTCC
TCTACCTTCAACCTGAGATATGCTTTTAAATATGGGACTACCTTTTCGGG
TGTTTTTGCGTTTCCAGGACTGGATGAGGTGGGAGTGCTGTAATTCTTAT
GATGGTGAGTGGTCTTGGTTTCTGTTAGTAAGATTCTTA

ACCATGATGTGNGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTGACCAAGAGTAAGCTAATACACTAT
ATAAAGCTGTACTGAGAAGCATTAAGAAGGCAGGTATCTCACTCTGAACA
GGGCTAAGGTTGTTTCGACTGTATTGGCTTTATTCTTCTGGAGATTCTTG
TCAGGAATTGCGAGCATTTACCAGACCACAACAGGAAACCTTCCATATGT
CTCCTTTGGTGTTTGGGCATAGGATATGTGAGATGCATCAAGACTGATTA
AAGGTCATGTTCCCTAGATGTGAAACTGTTTCCAGGAATACGATGATATA
CAAAAGGTCAGCTCCAGAATACATAGCATCAGGTCTTTCTTGGCCAATTA
AAATTGGAGCCAAAATCTCAAGAGACAATGTATGTATTGGACAGACTTGC
TGCTATCACACAGGTCGTGGCTTCAATTTCCAGCAATTACATTGTGACTG
TTTCTCTGTCTCTCTATCTGTCTCTCTGTCTCTCTGTCTCTCTGCCTCTC
TCTCTTTCCTTCTAACTTTCCCACTCTCTCTATTGCTATCTCTCTGTATC
TCAGTCTCAGTCTGTGTTTCTCTCTTTCCCTCTCACTCCCGGCCCCCCTT
TCTTTCTCATCCTCCCTGTAATTCCAGCAGCATATGCTGCTGTATCCTCT
TCTGTCCTTTGATGTATTACATATATGAAGTGTCCATGCCAACTGTAATG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no521_l13.g1 MSMg01no521_l13.g1 CHROMAT_FILE:
MSMg01no521_l13.g1 PHD_FILE: MSMg01no521_l13.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:55:08 2005
         (531 letters)



>mm_chrY_1656854_1657785
          Length = 932

 Score =  288 bits (149), Expect = 6e-82
 Identities = 397/489 (81%), Gaps = 41/489 (8%)
 Strand = Plus / Minus

                                                                       
Query: 1   tgaccaagagtaagctaatacactatataaagc-tgtactgagaagcattaagaaggcag 59
           |||||| || |||||||| |||||| ||||||| | |||||||||||||||||| |||||
Sbjct: 530 tgaccaggactaagctaacacactacataaagcat-tactgagaagcattaagatggcag 472

                                                                       
Query: 60  gtatctcactctgaacagggctaaggttgtttc-gactgtattggctttattcttctgga 118
           ||| | |||||||| ||| |||||||||||||| | ||||||||||||||| |||| || 
Sbjct: 471 gtaccacactctgaccagcgctaaggttgtttcag-ctgtattggctttatccttcaggg 413

                                                                       
Query: 119 gattcttgtcaggaattgcgagcat---t--taccaga-ccacaacaggaaaccttccat 172
           ||||| ||||| ||| ||   | ||   |  || |||| |||||||||||||||||||||
Sbjct: 412 gattc-tgtca-gaaatg---g-atacctgatatcagatccacaacaggaaaccttccat 359

                                                                       
Query: 173 atgtctc-ctttggtgtttgggcataggatatgtgagatgcatcaagactgattaaaggt 231
           ||||||| |||| | || |||||||||||||| |||||||||||| || ||||||||  |
Sbjct: 358 atgtctctcttt-gagtctgggcataggatatatgagatgcatcaggaatgattaaactt 300

                                                                       
Query: 232 catgttccctagatgtgaaac--tgtttccaggaatacgatgatatacaaaaggtcagct 289
           |||||||||||||| ||||||  | ||| |||| || | ||||||| || ||||||||||
Sbjct: 299 catgttccctagatatgaaaccat-ttt-cagggatcctatgatatccacaaggtcagct 242

                                                                       
Query: 290 ccagaatacatagcatcaggtctttcttggccaatt--aaaattggagccaaaatctcaa 347
           ||| | ||| ||| |||| |||||||||||||||||  |||||| || |||| |||| ||
Sbjct: 241 ccatactacgtagaatcatgtctttcttggccaattcaaaaatt-gacccaacatcttaa 183

                                                                       
Query: 348 gagacaatg--tatgtattggaca---gacttgctgctatcacacaggtcgtggcttcaa 402
              | ||||  | | ||||   ||   || |||||||||||||| |||| ||||||||||
Sbjct: 182 ---aaaatgactttctatt---caatggaattgctgctatcacaaaggtagtggcttcaa 129

                                                                       
Query: 403 tttccagcaattacattgtgactgt-t-tctctgtctctctatctgtctctctgtctctc 460
            | | ||||| |||||| || || | | ||||||||||| | ||||| | ||| | ||||
Sbjct: 128 gtgcaagcaaatacatt-tggctatatctctctgtctctttgtctgtttttct-t-tctc 72

                    
Query: 461 tgtctctct 469
           |||||||||
Sbjct: 71  tgtctctct 63


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: 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: 531
Length of database: 932
Length adjustment: 10
Effective length of query: 521
Effective length of database: 922
Effective search space:   480362
Effective search space used:   480362
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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