BAC Information

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BAC

Clone NameMSMg01-425A04
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 nameMSMg01-425A04.T7 (MSMg01no425_a04.b1)MSMg01-425A04.TJ (MSMg01no425_a04.g1)
ACCAG518795AG518796
length721736
length of high quality
(start - end)		470 (41 - 510)495 (73 - 567)
definitionCHROMAT_FILE: MSMg01no425_a04.b1 PHD_FILE: MSMg01no425_a04.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:46:06 2005CHROMAT_FILE: MSMg01no425_a04.g1 PHD_FILE: MSMg01no425_a04.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:46:06 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTC
CTGGCAGGTTCCAGCAGCTAAAAGAAGGTTTTAGTCTGTTGGCTCCACTA
ACTGACTTCCAATTTACTCACTCCTCACCTCCCCAAGCCCCAAGAAGACT
TCCAGGGTCTCCAATTCCCTGGCCTTCCTGCTTTCTGTTAGAAGATAATT
CTGTTCAAACCCCTGCCCTTAGCGAAGTTCTCTGTTTTTCTCAGCAGAGA
ACTAAGTGGGAAAAATTGATTGTGAGCCTGGAAGCAGTACCTTCCTGAGT
CCAGTGAGGGTAACCTCCTCTTCTTACTCCTAAAGTAACACCTCCACCCC
TCCACCTTCTTCCCCACACAGGCCCCCAGCTCAAACAGTATTAATCATCT
TTCAACAGACAATTGACTACCTCTACTGAGACTTCTCCCTACCATGCTTC
CTCAAGAACCTTGCTTCCACAAGAACTCGGCTTGATGACTACCACAAAGC
ATACTGGGTAACAGGGTTTGGATAGCGGGAAAACAATCTCAGTCAAGGTC
CTTGCTGATTGGCAGCGTTTGCACATGTGTACTAAGGGTGAGAAAGGTTC
AACCCGTCGTCTGTCATTGAAGAGCAAAAAGGAGGTAGTATTTTAGCTGT
CACTATTATCTTAAAGATTTTTCCTTTTCCAGTTTTACCTACTAACTTGA
ATGCCCATAAATTCCCACCCC

TGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXTGACCAAGAGTAAGCTAATACACTATAT
AAAGCTGTACTGAGAAGCATTAAGAAGGCATTTATCTCACTCTGAACAGG
GCTAAGGTTGTTTCGACTTTATTGGCTTTATTCTTCTGGAGATTCTTGTC
AGGAATTGCGAGCATTTACCAGACCACAACAGGAAACCTTCCATATGTCT
CCTTTGGTGTCTGGGCATAGGATATGTGAGATGCATCAAGACTGATTAAA
GGTCATGTTCCCTAGATGTGAAACTGTTTCCAGGAATACGATGATATACA
AAAGGTCAGCTCCAGAATACATAGCATCAGGTCTTTCTTGGCCAATTAAA
ATTGGAGCCAAAATCTCAAGAGACAATGTATGTATTGGACAGACTTGCTG
CTATCACACAGGTCATGGCTTCAATTTCTAGCAATTACATTGTGACTGTT
TCTCTGTCTCTCTATCTGTCTCTCTGTCTCTCTGTCTCTCTGCCTCTCTC
TCTTTCCTTCTAACTTTCTCACTCTCCGTATTGCTATCTCTCTGGATCTT
CAGCCTCAGTCTGTGGTTTCTCTCTTTTCCTCTTACTCCCTGCCCTCCTT
TTTTTTTTCATTCCTCCCCGTTATCTCCATTCACTATACCGTCTGCTGGT
TTCCTCCTTTCTGTCTCTCTGAATGTCATTATTTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no425_a04.g1 MSMg01no425_a04.g1 CHROMAT_FILE:
MSMg01no425_a04.g1 PHD_FILE: MSMg01no425_a04.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:46:06 2005
         (495 letters)



>mm_chrY_1656854_1657749
          Length = 896

 Score =  267 bits (138), Expect = 1e-75
 Identities = 395/490 (80%), Gaps = 43/490 (8%)
 Strand = Plus / Minus

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

                                                                       
Query: 60  ttatctcactctgaacagggctaaggttgtttc-gactttattggctttattcttctgga 118
            || | |||||||| ||| |||||||||||||| | || |||||||||||| |||| || 
Sbjct: 471 gtaccacactctgaccagcgctaaggttgtttcag-ctgtattggctttatccttcaggg 413

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

                                                                       
Query: 173 atgtctc-ctttggtgtctgggcataggatatgtgagatgcatcaagactgattaaaggt 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---gacttgctgctatcacacaggtca-tggcttca 401
              | ||||  | | ||||   ||   || |||||||||||||| |||| | ||||||||
Sbjct: 182 ---aaaatgactttctatt---caatggaattgctgctatcacaaaggt-agtggcttca 130

                                                                       
Query: 402 atttctagcaattacattgtgactgt-t-tctctgtctctctatctgtctctctgtctct 459
           | | | ||||| |||||| || || | | ||||||||||| | ||||| | ||| | |||
Sbjct: 129 agtgcaagcaaatacatt-tggctatatctctctgtctctttgtctgtttttct-t-tct 73

                     
Query: 460 ctgtctctct 469
           ||||||||||
Sbjct: 72  ctgtctctct 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: 15
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: 495
Length of database: 896
Length adjustment: 10
Effective length of query: 485
Effective length of database: 886
Effective search space:   429710
Effective search space used:   429710
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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