BAC Information

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BAC

Clone NameMSMg01-213H06
ChromosomeY (Build37)
Map Location 1,655,831 - 1,656,113
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 nameMSMg01-213H06.T7 (MSMg01no213_h06.b1)MSMg01-213H06.TJ (MSMg01no213_h06.g1)
ACCAG394441AG394442
length1,044721
length of high quality
(start - end)
---300 (72 - 371)
definitionCHROMAT_FILE: MSMg01no213_h06.b1 PHD_FILE: MSMg01no213_h06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:39:29 2005CHROMAT_FILE: MSMg01no213_h06.g1 PHD_FILE: MSMg01no213_h06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:39:29 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
ACCCAAGGCCCCCCCTTCCNNNCCCNNNCCNNNNNNNNNNNNNNNNCNCA
CACTCTAATAAAATTTGCNNNNCCGNNCNTAAATAACNNAANCTTNCCAA
CCTAATTNANNNCCCNCCCAAACAAAGCNNAAATACCCCCCCCCCCCCCN
NNNNNAAAAAACCCCCCCCCTTCCCNNNAAAAACCAAACCCCAAAAATAA
AAAATTCCCTGGTTCTCCCCTTGGTTNAACACCTTTTTAAATCTCAACCC
CCCCCATTCTCCCCCCAATATCCCCCTTCTACAAAAAATAAAAAAAAATC
TCCCCTTCTCCCCCCAAAAAAACAAAAGTTTTTTTTTTTTTTCTCCTTTC
TCCTCTCCACAACAAAAATNNCNCNNCNCTCCTCCATACCCTCTCTCCGT
CCAAAAAAATTTTTTTTTTAAAAAAAAAAATATCCTATCTTTTTCCCCAA
AAANAATTTTTTTTTTTTTTTTTTAAACCCCTCTCCTTTTTCTTTTTTTT
TTCTTGGGGGCTTCTTCTCTCTTCTCTCNCTACAACAAAAACACAAACTA
TGTCATTAATCACCCCCCCCCGCCCCTTTTTCCCTCTCCTTNCTTTNTNN
CCTTCCCTCCCCCACCCACCATTGACNCCACCCCCANCTCCNCCNCATTT
CCTTTATTCTTCTCTACTACTAACCCNNNNNNCNCCCNACAACCAATAAA
ACACTAATCCCCCNCNCCGANCTCTTCTTCCCCCCTCCTCTCTTTCTTTC
TTTTTTTTACAAAACAACAATATTTATTTCTCACCCCCCCACCCANTCTA
CCNCCCACCCCCCCCCCACACCCNAAANACAANATTGTGGAAANNNAATG
NAANAAATTCTTTCTNCCATNTTNNAGACCAAANAACCCCCNNNNNNNTA
TTTTTTNATTAATATTTTTTCTCCCCTCTTTTCTTCTTTTTCTNTTTTCT
TTTCCCCCCCCCCCCCCACAAACCCNCCTNTNCCAAAAAATCTTCTTTTT
TTTTTCCTCTCGTCTTATTCCTGATCTTTCTATGATTTCAGTTA
ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXAAAACAAACAAAATCTCTTCAATCTGTCT
CACCAATCATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCAGGCTC
ACAATGATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTTCATTT
CTCTACAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCCCATCTA
ATACCATCAGACACTTCTATGCATCAGAGGGAACAAGGTCTAGCTGTGTG
CCTTGCAGGTTGGGTAGAGCACTGTCAATATCCCTTCTCCTCCAGCAAAC
CCTCTCAAGGTTCACAACGCCTGCCCTTCAGATTCTGATTGCCTAAGATG
AGGAGCAAATCATCTCCGCCTGCTCTAATGTCTAAATGACATTGCAGATT
AAGAAAAAACCTAGAGCTTCCCTAAGATTCTCATTCCGGGAGCATTTGGA
CAATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATTCTACAGACCAA
TGAATTGTCCCATTATAAGCCAACTTTCCAGCATGTAGCACCAGCTCCAA
CTGTTGTCTCCAAAGGCAGTTAAACAAAAGCAACCTGAAGATTCATGTGA
ACTGCTCCTGGTCCCACCAAGGTGACTTTGGTTTCCGNTGGGAGGGGGCA
ATTACATGCTGTGAGAACTCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no213_h06.g1 MSMg01no213_h06.g1 CHROMAT_FILE:
MSMg01no213_h06.g1 PHD_FILE: MSMg01no213_h06.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:39:29 2005
         (300 letters)



>mm_chrY_1655631_1656326
          Length = 696

 Score =  230 bits (119), Expect = 7e-65
 Identities = 248/293 (84%), Gaps = 16/293 (5%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaaacaaacaaaatctcttcaatctgtctcaccaatcatacattaggtccaatg-cttgg 59
           |||||||||||||| |||||||  ||||||| |||| || |||||||||||||| | |  
Sbjct: 201 aaaacaaacaaaatgtcttcaaagtgtctcagcaattatgcattaggtccaatgtc-tca 259

                                                                       
Query: 60  gtgctttctgtttcaggctcacaatgatcaatggtatatacttt-ctaggttgtataact 118
           ||||| || | |||||||||||   ||| |||||| |||| ||| |||  ||||||||||
Sbjct: 260 gtgctctcagcttcaggctcac---gattaatggtttata-tttgctaccttgtataact 315

                                                                       
Query: 119 gcacttca-tttctcta-caggaacctttcctcagattctgtcctcatcaagaatcccat 176
           ||||| || ||| |||| | |||| ||| |||||||| ||||||||| |||| ||  |||
Sbjct: 316 gcactacagttt-tctacctggaaacttgcctcagatcctgtcctcagcaaggat--cat 372

                                                                       
Query: 177 -ctaataccatcagacacttctatgc-atcagagggaacaaggtctagctgtgtgccttg 234
            | || ||||||||| | |||||||| | |||||||||||| ||||||||||||||| ||
Sbjct: 373 gc-aacaccatcagaaaattctatgcta-cagagggaacaaagtctagctgtgtgccatg 430

                                                                
Query: 235 caggttgggtagagcactgtcaatatcccttctcctccagcaaaccctctcaa 287
           ||| |||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 431 cagtttggttagagcactgtcaatatcccttctcctccagcaaaccctctcaa 483


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: 5
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: 300
Length of database: 696
Length adjustment: 9
Effective length of query: 291
Effective length of database: 687
Effective search space:   199917
Effective search space used:   199917
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)