BAC Information

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BAC

Clone NameMSMg01-358N02
ChromosomeY (Build37)
Map Location 2,890,679 - 2,891,043
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 nameMSMg01-358N02.T7 (MSMg01no358_n02.b1)MSMg01-358N02.TJ (MSMg01no358_n02.g1)
ACCAG468382AG468383
length716717
length of high quality
(start - end)		379 (35 - 413)633 (66 - 698)
definitionCHROMAT_FILE: MSMg01no358_n02.b1 PHD_FILE: MSMg01no358_n02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:53:11 2005CHROMAT_FILE: MSMg01no358_n02.g1 PHD_FILE: MSMg01no358_n02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:53:11 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCACTATT
CTCGGTTTGCATTTGTACATGCTCTTGAGAGCAATGAACTCCCTCTCCCA
GATGGAAGAGAGTTACTGACAGACATGTGAGGAGAAACCGGCTGCCACCT
TTGGGACATCCCAGGAGTTCTGAGGGAGTCCCAGAGATACCTGGAGATCT
CCTATCAGGGTGCCAAATGAGAGTGTGCTCACTCGGCTGTCTGTTTTTGT
TACTGGGTGCCAAGTGAGTGTGTGCTCTCTAGACCATCTTATTGGGGCCT
GGTCTTGGTTATTGTAATCTTTTTGTGTGCATATATTGGTTTTTCCCCTG
TATGCAATTCTGATGATGGGACCAACTATTAGCATGCCCCTTGGACTGAC
CCTTGTGAACAGGACTGAAATTAAGACTAAGACTCACATTCTCTTGCTGT
ATGTCTGATATAGATTTTACAGAACTTTCTGCTCTACTGAATGGCCAGCT
TTGATGTTAGTCGGGCATCAGAGGGCAACCTTGGGTTGGTTCTGTTTTCA
GCTCTCTAGTTGTTTTACAGAGGGGTCCCAGTGCCTCAGCCCGATTTTGT
GGCCCTTCCCTTCTCTTCTTAGCAAAAATTTATCCCCAGGCATCCCCCCC
CTCTTCCCCTTCCGGGTTTAAGCCCCATCGGTTCTAAAAGTAATAAATAC
CCGGGTTTTCCCCCGG

GGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXAGAAGAAAGACCAGAGGTGTGGGTAGCAGCAAAGT
TCTTGAGTCTCAAGGACAACAGATACTGTGGCTGAATATTCCAACTACAA
CAACTAGGTAACATTGGGTCTACACTTAGCATGCCTTTTCTAGAAAAAAA
AATTAAAGAATTAAGCCATGTTTCCTCTAAACCTGACATGTTACTATCAG
AAATGAAAGAAGTATCCATGATCACATGAATATGAAAGGGGCATGAAGCA
CCACAACTGTTCAACTTATGGGCAGCTAGTCAGCATTAACACAAGAAGGG
ACCAAAGACAATAAACAGCTTTGAAGACATGTCCAAATGACCACGTTCAT
TTACAAGTTTCTTACCCATTCCATGAACATCCATTGATTGATTAACTCAT
TGATTAAAGCACTCAGGTACCAATCACTTTTCAGAGTGCATATTGTACTA
CCTATGAATGTTGTACTGTGGACCAAAGCCTTCATCAAAGACCCATGACT
GACATTTCAAAACAATTTAACCACAGAATTCTTTATTTGACACAAAGTGA
TAGGATCCATCTATCTCTTCAAGGATATCTCTGTTTTGTTCAAAAAGACC
AAAAATGCAATGCAAGTTTAGGATCTTGATCCCCTATCCATGCATCTTAA
ACCCATAGGGGCTAGCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no358_n02.b1 MSMg01no358_n02.b1 CHROMAT_FILE:
MSMg01no358_n02.b1 PHD_FILE: MSMg01no358_n02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:53:11 2005
         (379 letters)



>mm_chrY_2890475_2891254
          Length = 780

 Score =  501 bits (259), Expect = e-146
 Identities = 340/367 (92%), Gaps = 5/367 (1%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcactattctcggtttgcatttgtacatgctcttgagagcaatgaactccctctcc 64
           ||||| |||||||||||||| || |||||||||||| ||||||||| ||| |||||||||
Sbjct: 205 gaatttactattctcggtttacagttgtacatgctcgtgagagcaacgaaatccctctcc 264

                                                                       
Query: 65  cagatggaagagagttactgacagacatgtgaggagaaaccggctgcca-cctttgggac 123
           |||||||||||| |||||||||||||||||||||||||||||||||||| ||| ||||||
Sbjct: 265 cagatggaagagggttactgacagacatgtgaggagaaaccggctgccagcctgtgggac 324

                                                                       
Query: 124 atcccaggagttctgagggagtcccagagatacctggagatctcctatcagggtgccaa- 182
           |||||||||||||||||||||| |||| ||||||||||||||||||||||||||||||| 
Sbjct: 325 atcccaggagttctgagggagttccagggatacctggagatctcctatcagggtgccaag 384

                                                                       
Query: 183 atgagagtgtgctcactcggctgtctgtttttgttactgggtgccaagtgagtgtgtgct 242
           | |||||||||||||||||| ||||||||| |||||||||||||||||||||||| ||||
Sbjct: 385 a-gagagtgtgctcactcggttgtctgtttctgttactgggtgccaagtgagtgtatgct 443

                                                                       
Query: 243 ctct-agaccatcttattggggcctggtcttggttattgtaatctttttgtgtgcatata 301
           |||| || ||||||||||||||||||||||||||||||||||||||||| || | |||||
Sbjct: 444 ctctcag-ccatcttattggggcctggtcttggttattgtaatctttttctgggtatata 502

                                                                       
Query: 302 ttggtttttcccctgtatgcaattctgatgatgggaccaactattagcatgccccttgga 361
           ||| ||||| ||||||||| || | ||||||||||||| |||||||||||||||||||||
Sbjct: 503 ttgtttttttccctgtatgtaactatgatgatgggaccgactattagcatgccccttgga 562

                  
Query: 362 ctgaccc 368
           |||||||
Sbjct: 563 ctgaccc 569


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: 9
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 379
Length of database: 780
Length adjustment: 9
Effective length of query: 370
Effective length of database: 771
Effective search space:   285270
Effective search space used:   285270
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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