BAC Information

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BAC

Clone NameMSMg01-424L12
ChromosomeY (Build37)
Map Location 2,869,836 - 2,870,136
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-424L12.T7 (MSMg01no424_l12.b1)MSMg01-424L12.TJ (MSMg01no424_l12.g1)
ACCAG518572AG518573
length750738
length of high quality
(start - end)
551 (43 - 593)286 (333 - 618)
definitionCHROMAT_FILE: MSMg01no424_l12.b1 PHD_FILE: MSMg01no424_l12.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:45:44 2005CHROMAT_FILE: MSMg01no424_l12.g1 PHD_FILE: MSMg01no424_l12.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:45:44 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCCAGAGGATCCGCGG
AATTCTTTTGTTCTCCCTGTTTTTGGTTTGTGGTTTTTGCCTTTATAAGC
CTGTAAAAAGTTTGGGCTGGGGTTGATCTCCCCTGCCCCCTGCGCGGTGC
ATGAGTATCATCCCCAGCACGCTGGCTTGAGTGATCCTTTGTTGTTTGTG
TGTTTGTGTGCCATTAAAGTCTTGTATAGTTACAGCGAGTTCGGCCTCAG
TGTCCTATGGGGTGCGTGCTTCCCTGAGAAGGGACTCCCCGCGGGGGTCT
TTCAGTAGGTTTTCTGTATTTTTTTTGTATTACATGGCAAAAAAAAAAAA
AAAAGATTTATTATATTCATTTCCTTCCGTCTTGGTGTTTAAGGCATATA
TAATGCAATTGAAGACTGCACATTCGGATTATTAACAGTTTCATACCAAG
TTCCAAATTTAACATACCACGAAATGAGAAAGCGTACAATATATATTCCA
ATCATGAATAAGCAAATGAATGTAGGGAAATAGTTTTCAGGTACTAAGAT
ACATAGCTATTAAGACATGATCATAACAATTTATATCAGAGGATATTATC
CTAACCCCTATGACATAAATTTCCTCTCGGTTGTATACTCTCACAGGATA
TAAGGTTCTTTCCCGAAAAAAGTAATGGCTGCTTTTATCCCCCTTAATGC
AAGTTGAGCTACTGTATTATGATACCCCTCTAAGAATTTTGGTAGGAAAA

NCCACGATGAAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXATCACATAAAAACAGACAGAAGA
AGTAGGAATAAAGACATATTTGGGCAAGATGAATAGTGAAGTAGAGATTA
GAGCAAGCAGAAAGGACTGAGGAGATAGCTCACTGCTTAGGCCCACTGAT
TGCTTTTGCACAGGACCAGGGTTCAATTTCTAACATCCACATGGATGTTC
ACAACCACCTGCAATTCTAGTTCTAGACGATCTGATGACCTCTTTGGACA
ACACACACACACACACACACACATTTTTTTTCACACACACACACACACAC
ACACACACACACACACACACACATATACTCACCCACAGAGAAAAAAAATC
ATTTAGAAAACAATTACAAAAACAAAAAGGAGTCAAGTATAATTTTATTC
CCCTTTTTCACCAGCACTCAGAAGCAGGCTAAACTCTGTAAGTTGAATGA
CTGCCTAGCTGATAGGTGTGTTTTCATAATTTTATTCTTCTTTTTTTTTT
TTTTTTGGATTTTAGGACTATTTCAGCATTTGTTTAAAGATTCCAGATTT
TTTTTTTATTTACTTTTTCTAATGTTTTAGGATTTTTTCGGCTTTTTAAG
ATTTTACAGTTTTCATTGTTTTTTTTTTTGGGGGGGGTGCCCGAAGGCAT
AGTCCCTTGCGTTTCTTAAACTCTAAGGTCTCAATGTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no424_l12.g1 MSMg01no424_l12.g1 CHROMAT_FILE:
MSMg01no424_l12.g1 PHD_FILE: MSMg01no424_l12.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:45:44 2005
         (286 letters)



>mm_chrY_2869668_2870353
          Length = 686

 Score =  348 bits (180), Expect = e-100
 Identities = 262/306 (85%), Gaps = 34/306 (11%)
 Strand = Plus / Minus

                                                                       
Query: 10  cacacacacacacacacacacaca-cacacacatatactcacccacagagaaaaaaaatc 68
           |||| ||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 469 caca-acacacacacacacacacatcacacacatatactcacccacagagaaaaaaaatc 411

                                                                       
Query: 69  atttagaaaacaattacaaaaacaaaaaggagtcaagtataattttattccccttt--tt 126
            ||||||||||||||| | |||||||||||||||||||||| ||||||||||||||  | 
Sbjct: 410 ctttagaaaacaattatacaaacaaaaaggagtcaagtatagttttattcccctttaat- 352

                                                                       
Query: 127 caccagcactcagaagcaggctaaactctgtaagttgaatgactgcctagctgataggtg 186
            ||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 351 -accagcactcagaagcaggctaaacactgtaagttgaatgactgcctagctgataggtg 293

                                                                       
Query: 187 tgttttcataattttattcttctttt-ttttt---------------tttttttggat-- 228
           |||||||| ||||||||| ||||||| |||||               |||||||||    
Sbjct: 292 tgttttcagaattttatttttcttttctttttcttttccttttcttttttttttgg--gg 235

                                                                       
Query: 229 -----tttaggactatttcagcatttgtttaaagattccagatttttttttt---attta 280
                |||||||||||||||| |||||||||||||||| || ||||||||||   |||||
Sbjct: 234 gggggtttaggactatttcagtatttgtttaaagattctagtttttttttttttgattta 175

                 
Query: 281 cttttt 286
           ||||||
Sbjct: 174 cttttt 169


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: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 286
Length of database: 686
Length adjustment: 9
Effective length of query: 277
Effective length of database: 677
Effective search space:   187529
Effective search space used:   187529
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)