BAC Information

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BAC

Clone NameMSMg01-056D03
ChromosomeY (Build37)
Map Location 1,649,204 - 1,649,531
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, 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 nameMSMg01-056D03.T7 (MSMg01no056_d03.b1)MSMg01-056D03.TJ (MSMg01no056_d03.g1)
ACCAG283662AG283663
length714706
length of high quality
(start - end)
501 (73 - 573)423 (74 - 496)
definitionCHROMAT_FILE: MSMg01no056_d03.b1 PHD_FILE: MSMg01no056_d03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 16:57:47 2005CHROMAT_FILE: MSMg01no056_d03.g1 PHD_FILE: MSMg01no056_d03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 16:57:47 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
AACTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTCCCAAATGCCAGACAACCAAAATGGCAGCTTACACCAACTA
TAGTTAGAAGGTCCCCAAAACATACACCGAAAAAAAAATTCTTGGTCTCT
GTTCAATCAGAAATGATGCAATGATTCTCAAGAACCTAGAGACCCCAGGG
TGTTTAGAAATCAGATGGAATGTGTACATGCTCTTGGAGACAGGGGATGG
CCAGTCGATATGGCATGTGGAACAATAGGAGGGTGGACAGGGTTCAATGA
ATGAATGAATTAATAAATAAAAAAGAATACTGCCAAGTAACCACGCCCCA
TATACTCTAATTCTTTAATCATAATCCAAGAAAACACACATGTTCACATA
ACAGCACACTCAAAAATATAACTAAAAAATACACACACACATATAACTGA
GATTCCATGATTTTGAAGTTCATTTTACAAAGAAATACAGTGGAACAGAG
TTTTTCTTTTGTTCCATTAATTTACATACATTTGTTCTCCTAATCTACCC
AAAATATGGATTGTTCTCCATATAACAGGCCAAAATCTCCTAACATAGTT
TTTATCTGGCAAAATCTTCCCACATAATTTTATCTAGATCCACACCATTT
TATACCTTTCATTAAAACATAATCTGGGATTCATTTAGATATACTTTCAC
ATTATTTTTTAAAT
NCGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXTTTACAGATTACAAAAGAGGTCGAATA
TAAATGACATAGTCTTTAGTTGAATTGACCTTTTATAAATAGAAATTTGA
CAAAAAATAATATTTACTCTATGGGTGCTTTCATAAATAGAATGGTTTGC
ATGGAACAAGTTAGTATTGGAAGGATTAGAAGTTCGAAGCTATCCTTGGT
TACATTCTAAGTTGGGGCCAGCCTAGGCTATATGACATCCTGTCTGAAAA
TATGAAATTACTGGAACCAGTAGTTTATCTTTATGAATCCTCTACTTTGG
ATACTGAATCATGAGCAATATCAGAAGTACAAGGCCTATCAGTACCAGAA
AGTATAAAAAGAATTTCCCCAAACAAAAATAATTTAAGAGTTATTTTTAG
GGGCATGATTATGTTGCCAGGGAATAAAAGCACTTTGAGTTTAGAGTGGT
CAGTAATGAGGAGTGAGTATTGCTCTTACACTGGACTCACATTGGTTAGC
TCACAGTCACCTTTACCTTGAGGTTCAGGAGGCCTCTGGCAACTGTGGGC
ATGTGCATTTCCTTACATACATATGTACGTACGAACACTTACCCCCACCC
TCACTCACATAATTACACACACTCACACTTCAAACCTTTTAAATAATAAT
GAAAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no056_d03.b1 MSMg01no056_d03.b1 CHROMAT_FILE:
MSMg01no056_d03.b1 PHD_FILE: MSMg01no056_d03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 16:57:47 2005
         (501 letters)



>mm_chrY_1648652_1649549
          Length = 898

 Score =  331 bits (171), Expect = 8e-95
 Identities = 297/349 (85%), Gaps = 22/349 (6%)
 Strand = Plus / Minus

                                                                       
Query: 154 acatgctcttggagacaggggatggccagtcgatatggcatgtggaacaataggagggtg 213
           ||||||||||||||| ||||||||| |||| ||||||| |||| ||||| ||||||||||
Sbjct: 880 acatgctcttggagataggggatgggcagtagatatgggatgttgaacagtaggagggtg 821

                                                                       
Query: 214 gacagggttcaatgaatgaatgaattaataaataaaaaagaatactgccaagtaacca-c 272
           |||||||  |  || |||||||||||||| |||||||||||||| |||||||||||||  
Sbjct: 820 gacaggg--c--tggatgaatgaattaattaataaaaaagaatagtgccaagtaaccagg 765

                                                                       
Query: 273 gccccatatactctaattctttaatcataatccaagaaaacacacatgttcacataacag 332
           ||||| |||||||||||| |  ||||| ||||||||||||| ||||||| ||||||||| 
Sbjct: 764 gcccc-tatactctaattgtggaatcagaatccaagaaaactcacatgtacacataacaa 706

                                                                       
Query: 333 cacactcaaaaatataactaaaaaatacacacacacatataactgagattccatgatttt 392
           ||||||||||||              ||||||| || ||||||||| |||  ||||||||
Sbjct: 705 cacactcaaaaa--------------acacacatacctataactgaaattttatgatttt 660

                                                                       
Query: 393 gaagttcattttacaaagaaatacagtggaacagagtttttcttttgttccattaattta 452
           ||| ||||||||||||||||||||| | |||||  |||||||||||||||||||||||||
Sbjct: 659 gaaattcattttacaaagaaatacactagaaca-tgtttttcttttgttccattaattta 601

                                                            
Query: 453 catacatttgttctcctaatctacccaaaatatggattgttctccatat 501
           |||||||||| || |||| | ||||||||||| ||||||||||||||||
Sbjct: 600 catacatttg-tcccctactatacccaaaataaggattgttctccatat 553


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: 8
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: 501
Length of database: 898
Length adjustment: 10
Effective length of query: 491
Effective length of database: 888
Effective search space:   436008
Effective search space used:   436008
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)