BAC Information

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BAC

Clone NameMSMg01-439P01
ChromosomeY (Build37)
Map Location 1,635,524 - 1,635,686
singlet/doubletsinglet
Overlap geneLOC100039381
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373
Downstream geneLOC667143, LOC100039401, 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 nameMSMg01-439P01.T7 (MSMg01no439_p01.b1)MSMg01-439P01.TJ (MSMg01no439_p01.g1)
ACCAG530174AG530175
length848732
length of high quality
(start - end)
185 (45 - 229)554 (75 - 628)
definitionCHROMAT_FILE: MSMg01no439_p01.b1 PHD_FILE: MSMg01no439_p01.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:06:11 2005CHROMAT_FILE: MSMg01no439_p01.g1 PHD_FILE: MSMg01no439_p01.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:06:12 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CAATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTAAGTTGTACCTCTCAAAAAGTTAAGCTGGAGACACAGGAAGAAGA
GAAATTTTAAGGAAATAGTCAAACTTGGGCCATATCCACATTGGCTTCTT
TGTTTTCTTAACAAATAGCCAGCCTGTCATTACAGATGGGTGTGTTTGTG
TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCNNNNCNNNNNNNTTCTCT
GCCCCCACACCTAAACCAACCCATACTCTCGCCTATCCATACTATTCCCC
TATGGCCAGCAGGTATTTTCCAGATGCCCCCCCCCCCTCGCTGGCGGAAC
CCCCGATGTCCCTCGCAAGACGCCCGCACATCCTCGTTTTCCCCTCTTTC
TTCTCCCTCGTCTGCTCTATCCTCCCCCCTCGCTCTAGTGCGCACCGCAT
CCACCGCCCCTTTCACTCTCTCGCGCACCCATCTCCCAGCCCGTTCTTTC
CACTTTATATACCACAGTGAGCGCTTCCACCATTTCCGCATCTTTACCTT
CCTTTTCCCCTCTCCTCTCCGCCCGTCGCCTCCCGCTTTCCCTCCTTCCA
CTTATTTCCTACATCACCTCGCCCCACCCATTCCCCTATCAACACTTCCC
TACCTTTCCCCCCCAAAACATTCTAATCCCCCCGCTCCTTCCCCCCCCCG
CTTTTACCCCCTTCCCCGTCCCCCTCCTTCTTCCCGCCACCAATACTACT
ATATTTCTCCCTACCTCCTCCTCTCTTAATCTAACCTTTTCTATGACCCT
CCCCTCTGCCATTTCTCGCCCTCCATATACCTTACCTATCCGCCTTCC
ATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXACTCCTAGTCACTCCCATTCTCCCAT
TCTCGGGGTGAAATATTCAGGTGATGGGCAATCAATGAATCAGGAGCTGT
CATGCCATATCAGGTACTGAAATGTCACGCTGCAGGTTATAAAAGCAGCG
CCATTTTCCCGGTTCGGGATCTTCCTGATAAGCAAGCAATAAAGCTCTTG
CTGTGGAAGATTCTAGTTTGTTGTATCTTTCTTGCCGGTCGAGCGGGACG
CAATAGTGAATAGCTTTTACCTCCCTGCTGTTGCTCTCCTAGTACTGACC
AGAAACTGAGGTGCCATTTCAAGCAGACTGTTCTAGGACATAGTCATAGA
ACACATCTTCCTTCGAAAGCAGCTTCTAGGCTTCATTGGAAAACCTTAAA
TCTGTGAATATTGGGAACAGAGTCTGTACATAGCTCAGTTGACAGAGTGA
CTGCCTAGCATTTAGGATGCCTAGGACTCAGTGATTAGTGCTGTCTTTAC
TTTATTGCCTTTAGGGCGTCTACTTATTTTATTGTAATACACTTGGGATC
ATAGAAAGGGATATCATGATGACCTAAGACCAAGATTGTCAATGATGTTG
GTTAGAGTCTTCTCTTGTATCCCCACGCTAAAGAGACCTGATACCACAGC
GATTCTCATTACTGAGAAATTCCCGTTCCCAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no439_p01.b1 MSMg01no439_p01.b1 CHROMAT_FILE:
MSMg01no439_p01.b1 PHD_FILE: MSMg01no439_p01.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:06:11 2005
         (185 letters)



>mm_chrY_1635357_1635941
          Length = 585

 Score =  174 bits (90), Expect = 3e-48
 Identities = 148/170 (87%), Gaps = 14/170 (8%)
 Strand = Plus / Minus

                                                                       
Query: 23  ctcaaaaagttaagctggagacaca-ggaagaagagaaa-ttt-taaggaaatagtcaaa 79
           |||||||||| |||| |||||| || ||||||| ||||| ||| |  ||||||||| |||
Sbjct: 330 ctcaaaaagtgaagcaggagac-catggaagaatagaaagtttct--ggaaatagttaaa 274

                                                                       
Query: 80  cttgggccatatccacattggcttctttgttttcttaacaaatagccagcctgtcatta- 138
           ||||||||||||||||||||||||||||| |||||||||||||||||||||    | || 
Sbjct: 273 cttgggccatatccacattggcttctttggtttcttaacaaatagccagcc----actaa 218

                                                             
Query: 139 c-aga-tggg-tgtgtttgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgt 185
           | ||| | || ||||| |||||||||||||||||||||||||||||||||
Sbjct: 217 ctagaataggatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgt 168


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: 28
Number of extensions: 15
Number of successful extensions: 15
Number of sequences better than 10.0: 1
Number of HSP's gapped: 12
Number of HSP's successfully gapped: 1
Length of query: 185
Length of database: 585
Length adjustment: 8
Effective length of query: 177
Effective length of database: 577
Effective search space:   102129
Effective search space used:   102129
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)