BAC Information

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BAC

Clone NameMSMg01-410A06
ChromosomeY (Build37)
Map Location 1,751,829 - 1,752,291
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401
Downstream geneLOC100039430, 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 nameMSMg01-410A06.T7 (MSMg01no410_a06.b1)MSMg01-410A06.TJ (MSMg01no410_a06.g1)
ACCAG507364AG507365
length741738
length of high quality
(start - end)
642 (52 - 693)550 (80 - 629)
definitionCHROMAT_FILE: MSMg01no410_a06.b1 PHD_FILE: MSMg01no410_a06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:26:37 2005CHROMAT_FILE: MSMg01no410_a06.g1 PHD_FILE: MSMg01no410_a06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:26:37 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NAGGGGTCAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XCGCGGAATTCTACGTTGTTTCCCACTGTCTTTCATTATCTGTGTTATCC
ACACACTTTTTTTGTATTAGTAATAAAAGAAATGAGTATTTCTTTGACAT
TTGTATCCATACCTATGTTTTTGTTTGACATCTGTGTTCACAGCAATGTT
TTCTTAGACACTATACTCTGGTTTCAGGTACCATGGACTATGATTTAAAT
CTTCACTTATCTCAGGAGAGATGTAAAATGCTATTAGGGCTCTTGAAGTC
AGAAAGAATTAATATTCATGGCATAGTTTCAGTGGCTATAATGTTCACCG
CCATAGAATACCAAAACAAAGATTCAGGTAAATTTATGAACAACATGATA
AGATTGTGTCTTCCTTCAGTGTAAGCAAGGTAGTTGTCACCTCAGTTTCT
CCCTTGACATTGTCTATTTTCAAGGAAGCTTGGGGAACACAAGAAGACCT
GAAAGCCAACACAAACCTTAGAAACTTGTAAGCATTTGAAGTCCACTTAC
AGATCTCACTGTCCATACTAGTTATCCATCTCTCTGGAAGTAAAAGAGAG
CAGTAAAGTGACTTTGATTATTTTGGCTTTTATTACACACACTGGACTTT
TTAAATGATTGAATACTACTCCTGTGCCTAAAGGGTTGTACAATTTGTGA
TTTCCTAATTTTACATGAGTATAGCAGTTTTCTCTATAGAA
NNCCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCTTTAGCTCTGAGGCCCG
TTTTTTATTTGATTTTCTGGAATCCACCTTCTTGAGTTCTTTATATATAT
TTGATATTAGTGCCCTATCTGATTTAGGACAGTGAAAGATCCTTTCACAA
TCTTTTGGTGACCTTTTTGTCTTATTGAAGGTGTCTTTTGCCTTACAAAA
GATTTGCAGCTTTATGAGGTCCCATTTGTCAATTCTAAATCTTACAATAC
AAGCCATTTTTCTTCTATTCAGGAATTTTTCCCTGTTCCCATATCTTTGA
GGCTTTTCCGCACTTTCTCCTCTACAAGTTTCAGTGTCTCTGATTTTATG
TGGAGCTCCTTGATCCACTTACATTTGACCTTAGTACAAGGAGATAGGAA
TGGATTGATTCACATTCTTCTACATGATAACCACCAATTGTCCCAGCACT
ATTTGTTGAAAATGCAGTCTTTTTTACACTGGATGGTTTTAGCTCCCTTG
TAGATGATCAATTGACAATAGGTGTGTGGGTTCATTTCTGGGTCTTCAAT
TCTATTCCATTGGNCTACTTCTCTGTCACTATATCAGTACCATGCAGTTT
TTTATCATCATTGCTCTGTAGCAAAGCTTTGGGTCAGGCATGGTGAATGC
ATTTGAGGCTTTTTTATCCCTGAAAAAATTTCTTGCTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no410_a06.b1 MSMg01no410_a06.b1 CHROMAT_FILE:
MSMg01no410_a06.b1 PHD_FILE: MSMg01no410_a06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:26:37 2005
         (642 letters)



>mm_chrY_1751701_1752743
          Length = 1043

 Score =  466 bits (241), Expect = e-135
 Identities = 411/471 (87%), Gaps = 12/471 (2%)
 Strand = Plus / Minus

                                                                       
Query: 166 tctggtttcaggtaccatggactatgatttaaatcttcact-tatctcaggagagatgta 224
           |||||| |||||||||| | |||||||||| | |||||||| | |||||| |||||||||
Sbjct: 591 tctggtgtcaggtaccacgaactatgatttcattcttcactgtttctcagaagagatgta 532

                                                                       
Query: 225 aaatgctattagggctcttgaagtcagaaagaattaatattcatggcatagtttcagtgg 284
           |||| ||||| |||| |||||||||| ||||||||||||||||||||||||||||||| |
Sbjct: 531 aaatactatttgggcccttgaagtcaaaaagaattaatattcatggcatagtttcagtag 472

                                                                       
Query: 285 ctataatgttcaccgccatagaataccaaaacaaagattcaggtaaatttatgaacaaca 344
           ||||||| || | |||||||||| ||||||||||||| || ||||| ||||||||||| |
Sbjct: 471 ctataattttgatcgccatagaagaccaaaacaaagaatcgggtaagtttatgaacaaga 412

                                                                       
Query: 345 tgataagattgtgtcttccttcagtgtaagcaaggtagttgtcacctc-agtttctccct 403
           ||| |||| |||||||||||| ||| | | ||  |||||||||||| | |||||     |
Sbjct: 411 tgagaagactgtgtcttccttgagtcttaccactgtagttgtcaccccgagttt-----t 357

                                                                       
Query: 404 tgacattgtctattttcaaggaagcttggggaacacaagaagacctgaaagccaacacaa 463
           |  ||||||  |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 356 t--cattgtaaattttcaaggaagcttggggaacacaagaagacctgaaagccaacacaa 299

                                                                       
Query: 464 accttagaaacttgtaagcatttgaagtccacttacagatctcactgtccatactag-tt 522
           |||| || |||||||||||||||||||||||||| ||| |||| ||||||| ||| | ||
Sbjct: 298 acctaaggaacttgtaagcatttgaagtccacttgcagttctccctgtccacact-gttt 240

                                                                       
Query: 523 atccatctctctggaagtaaaagagagcagtaaagtgactttgattattttggcttttat 582
           |||||||||| |||||||| |||| |||||||||||||||||||||||||||||||||||
Sbjct: 239 atccatctctgtggaagtacaagaaagcagtaaagtgactttgattattttggcttttat 180

                                                              
Query: 583 tacacacactggact-ttttaaatgattgaatactactcctgtgcctaaag 632
           ||||||||||| | | ||||||| |  || || | ||||||||||||||||
Sbjct: 179 tacacacactgaaatcttttaaacgggtgcatgccactcctgtgcctaaag 129


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: 13
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: 642
Length of database: 1043
Length adjustment: 10
Effective length of query: 632
Effective length of database: 1033
Effective search space:   652856
Effective search space used:   652856
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)