BAC Information

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BAC

Clone NameMSMg01-110I11
ChromosomeY (Build37)
Map Location 2,477,985 - 2,478,168
singlet/doubletsinglet
Overlap geneLOC667217
Upstream geneUbe1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, 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
Downstream geneLOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-110I11.T7 (MSMg01no110_i11.b1)MSMg01-110I11.TJ (MSMg01no110_i11.g1)
ACCAG323431AG323432
length715716
length of high quality
(start - end)		439 (47 - 485)627 (90 - 716)
definitionCHROMAT_FILE: MSMg01no110_i11.b1 PHD_FILE: MSMg01no110_i11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:14:08 2005CHROMAT_FILE: MSMg01no110_i11.g1 PHD_FILE: MSMg01no110_i11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:14:09 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NCCGTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCCGC
GGAATTCTAATTTAAAAGTTATATTCACTATGCAGAATGTATTTTGAGCT
TGTCTAGGGCATTTGAATATGAATTTCTTTCCTGTTATGTTTATTTTTCC
TTTGTGACTTGAAGTTGAAAGTACTCAGAGAAGAAAAAACAAACAAAGAA
AAAAAAACAAAGAGTTATCTAAAACTACTTCTCATTATCTCACTTTCTGT
AAATTGAGATTTCTGATGTTGAAGAGGAATGAAGTGAGTGTGCAGATTTT
GTCCACATAATTCCTAAAAGAAAGTGCAATAGTCATGTTCCACAAACACA
TGTATTCGACACCCCAATGAAATTGCATGGGTACTGGATAAATCCAGGCA
GTTAGGCAGAGGGCCTTAAAGTCTGTTACCACAAAAGATCAAATGTGTTT
TTGAGTGTTTATGTGAGTATTAGTATGGGTTTCACCCCCCCTCCTCCCTC
TCTCCTTCCTTCTCTTTCCTTTTCCTTTTTTTTTCTCTTTTTCCTTCTTT
TTTTTTTTCCTTTCCCCCCCTTTTTCTCTTCCTTTTCTTCCCCTTCTTTT
ATTCCTTTTCTCTCTCTTTTTTTATTCACCCTTCTCCTTTTCTTTTTCTC
CCTCTTTCATTTTTACCTTCCCCCCGCCTTTTCTTCCCCCCTTTTCCTTT
TTCCCTTTTATCTTT

NAACCTATTTNNNNACGATGAAGTXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTCATAACCCC
ATGGGACAAAAAATAGTTGATCCTGCTCTTTATACTTTAAAAAATTGTAT
ATATAACCTCGTTCTTTATATTTTCAAAATAGTAATGGTTTGAGACAATA
ATTTGGTATTTATAGAGAATGTGCACGTCTATTGCCTGAGCTTTTGTCCC
CGCCGGCAAGAACACACTCAGGACAACCGGAATCTTCTGCGGCAAAGCTT
TTACTGCTTACTTATCAGGAGGGAAAACCCCAAACTGGGAAAATGGTGCT
GCTTATATAGCCTGCAGAGTGACATTTCAGCACCTGATTTGGCGTGACAG
CTCCTGATTCGTTGCTCGCCTATCGCCCCATTACTACGTCGTGAGATGGT
CTGTAACTAGGCATGAGCTCACTCTTGCACTTACATATAAGGCTTGTTTA
CTAGTTAGGCGCAGTGGCAGCCAGCAACATCTTATAATGGCAATTGTGTG
ATTGCTCACGGAATGGCTCTCCACATCTCCCCCTTTTTATTTTATTAAAA
TTTGAGGCTGGTCTAGGCCTCTGCAGTCATGTCTATCTGCTGTGGCTCCT
GTCTTAGGTCATTCCTCCAATGTCACAGCCTTTCCTGTCATAGGGTAACC
CTATCACCACCAAGTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no110_i11.b1 MSMg01no110_i11.b1 CHROMAT_FILE:
MSMg01no110_i11.b1 PHD_FILE: MSMg01no110_i11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:14:08 2005
         (439 letters)



>mm_chrY_2477622_2478460
          Length = 839

 Score =  226 bits (117), Expect = 2e-63
 Identities = 168/185 (90%), Gaps = 2/185 (1%)
 Strand = Plus / Minus

                                                                       
Query: 164 aagagttatctaaaactacttctcattatctcactttctgtaaattgagatttctgatgt 223
           ||||||||| |||||||| ||||||||||||| || |||||||||||| |||||| | ||
Sbjct: 547 aagagttatataaaactatttctcattatctccctctctgtaaattgacatttctaaagt 488

                                                                       
Query: 224 tgaagaggaatgaagtgagtgtgcagattttgtccacataattcctaaaagaaagtgcaa 283
           |||||||||||||||||||||||||||||||||||||||| |||||||||||| | ||||
Sbjct: 487 tgaagaggaatgaagtgagtgtgcagattttgtccacatacttcctaaaagaaggagcaa 428

                                                                       
Query: 284 tagtcatgttccacaaacacatgtattc-gacaccccaatgaaattgcatgggtactgga 342
           |||||||||||||||||||||||||| | ||||  |||||||||||||| |||| |||| 
Sbjct: 427 tagtcatgttccacaaacacatgtat-cagacataccaatgaaattgcaggggtcctggc 369

                
Query: 343 taaat 347
           |||||
Sbjct: 368 taaat 364


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: 6
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: 439
Length of database: 839
Length adjustment: 9
Effective length of query: 430
Effective length of database: 830
Effective search space:   356900
Effective search space used:   356900
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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