BAC Information

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BAC

Clone NameMSMg01-262N11
ChromosomeY (Build37)
Map Location 1,655,846 - 1,656,513
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 nameMSMg01-262N11.T7 (MSMg01no262_n11.b1)MSMg01-262N11.TJ (MSMg01no262_n11.g1)
ACCAG404832AG404833
length745782
length of high quality
(start - end)		681 (65 - 745)319 (74 - 392)
definitionCHROMAT_FILE: MSMg01no262_n11.b1 PHD_FILE: MSMg01no262_n11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:59:35 2005CHROMAT_FILE: MSMg01no262_n11.g1 PHD_FILE: MSMg01no262_n11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:59:35 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTCAAAGAGGATCCGCGGAATTC
AAAACATACCAAATCTCTTCAATCTGTTTCACCAATCATACATTAGGTCC
AATGCTTGGGTGCTTTCTGTTTCAGGCTCACAATGATCAATGGTATATAC
TTTCTAGGTTGTATAACTGCACTTCATTTCTCTACCAGGAACCTTTCCTC
AGATTCTGTCCTCATCAAGAATCCCATCTAATACCATCAGACACTTCTAT
GCATCAGAGGGAACAAGGTCTAGCTGTGTGCCTTGCAGGTTGGGTAGAGC
ACTGTCAATATCCCTTCTCCTCCAGCAAACCCTCTCAAGGCTCACAACGG
TTGTCATCCAGAATAAAATCTGATTGCCTAAGAGAAGGAGCAAATCATCT
CTGCTTGCTCTAATGTCTAAATGACATTACAGATTAAGAAAAAACCTAGA
GCTTCCCTAAGATTCTCAGTCCGGGAGCATTTGGACAATCCATTACTTTC
ATAGGGTCCAAAATTGTTTGAATTCTACAGACCAATGAATTGTCCCATTA
GAAGCCAACTTTCCAGCAGGTAGCAGCAGCTCCAACTGTTGTCTCCAAAG
GCAGTTAAACAAAAGCAACCTGAAGAGGCAGGTGAACTGCTCCTGGTCCC
ACCAAGGTGACTTTGGTTTCTGGTGGGAGGCGGCAATTACATGCTGTGAG
AACTCTGTTCTGTTGATGTGCTCACCCACCAAAACACTCCTCTTG

CGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXCAAGCCCAGGATCCGCTCAAGGACTAC
CTAGAATATTGGTGAAGGACAGGGAACAAAGTTGGATATTGCTTAGATAT
TTGCCAAGTCATTACTTGGAGGCACTTATAATAAAACAACATTGAAAGAA
GTCACAAAGATTCAATCACTTACTAATGTAAGGACAAGTTTGATGCATTT
TTTCCAGGATGGTTCCTGAAGACTTAGTTTCCATGAACTTTTTGACTAGG
GACTGTGTCTAAATATTTAGAACTGTCACGGGAGTCACTACTGGGGTTTG
TGTTCCAATGGCTGGTGTGCGTTTGTGTGTGTGTGTGTGTGGGTGTGTTA
GTGCCACATATTCCCCCCCCCCCTTTTTCAAACATTATAATTCAACCAAA
AATTCTCTACACCCACCATTTCTTTGACCGCCGCAATTTGCGTCCTATTT
AATTTCTATTCCTCCCCCCCCCAAAATTTATTTTCTTTATTTTCCTCCCC
TCGCGCCACAAATCCCTACTTATCTATTTTTATCCTTCCTCATTCCCCCA
CCATACTCAATTAAATACTCCATACTTTTTTAATTATCAATTAAAGCCCT
CACCCCTCTCCCTCCAATTTTCTTTTTCCTTTTTATTTTTTTTCTCCCCT
CCTCATAAATATCCTTTTACATCTAATATAATCTCCTCCCCTCCTTCCCA
CCCTATTTTTTTTTTAATTTATTTACATTCCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no262_n11.b1 MSMg01no262_n11.b1 CHROMAT_FILE:
MSMg01no262_n11.b1 PHD_FILE: MSMg01no262_n11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:59:35 2005
         (681 letters)



>mm_chrY_1655645_1656720
          Length = 1076

 Score =  536 bits (277), Expect = e-156
 Identities = 581/689 (84%), Gaps = 30/689 (4%)
 Strand = Plus / Plus

                                                                       
Query: 2   tcttcaatctgtttcaccaatcatacattaggtccaatg-cttgggtgctttctgtttca 60
           |||||||  ||| ||| |||| || |||||||||||||| | |  ||||| || | ||||
Sbjct: 202 tcttcaaagtgtctcagcaattatgcattaggtccaatgtc-tcagtgctctcagcttca 260

                                                                       
Query: 61  ggctcacaatgatcaatggtatatacttt-ctaggttgtataactgcacttca-tttctc 118
           |||||||   ||| |||||| |||| ||| |||  ||||||||||||||| || ||| ||
Sbjct: 261 ggctcac---gattaatggtttata-tttgctaccttgtataactgcactacagttt-tc 315

                                                                       
Query: 119 taccaggaacctttcctcagattctgtcctcatcaagaatcccat-ctaataccatcaga 177
           |||| |||| ||| |||||||| ||||||||| |||| ||  ||| | || |||||||||
Sbjct: 316 tacctggaaacttgcctcagatcctgtcctcagcaaggat--catgc-aacaccatcaga 372

                                                                       
Query: 178 cacttctatgc-atcagagggaacaaggtctagctgtgtgccttgcaggttgggtagagc 236
            | |||||||| | |||||||||||| ||||||||||||||| ||||| |||| ||||||
Sbjct: 373 aaattctatgcta-cagagggaacaaagtctagctgtgtgccatgcagtttggttagagc 431

                                                                       
Query: 237 actgtcaatatcccttctcctccagcaaaccctctcaag-gctcacaacggttgtcatcc 295
           ||||||||||||||||||||||||||||||||||||||  |||||||| | ||||| |||
Sbjct: 432 actgtcaatatcccttctcctccagcaaaccctctcaaatgctcacaaagtttgtcttcc 491

                                                                       
Query: 296 agaata-aaatctgattgcctaagagaaggagcaaatcatctctgcttgctctaatgtct 354
           |  | | |||||||| ||||||| |||||||||||| ||||||  ||||||| ||| |||
Sbjct: 492 a--agacaaatctgagtgcctaaaagaaggagcaaagcatctccacttgctccaatatct 549

                                                                       
Query: 355 aaatgacattacagattaagaaaaaacctag-agcttccctaagattctcagtccgggag 413
           ||||| |||| |||||||||||||  ||||| || ||||| |||||||||||||| ||||
Sbjct: 550 aaatgccattgcagattaagaaaatccctagcag-ttccccaagattctcagtccaggag 608

                                                                       
Query: 414 catttggacaatccattactttcatagggtccaaaattgtttgaattctacagaccaatg 473
           ||||||| ||||| ||||||||||||||||||||| ||||||||||||| ||||||||||
Sbjct: 609 catttgggcaatctattactttcatagggtccaaacttgtttgaattctgcagaccaatg 668

                                                                       
Query: 474 aattgtcccattagaagccaactttccagcaggtagcagcagctccaactgttgtctcca 533
            ||||| ||||||||||||||||  ||||||||||||||| |||||||||| ||||||||
Sbjct: 669 cattgttccattagaagccaactcaccagcaggtagcagctgctccaactgctgtctcca 728

                                                                       
Query: 534 aaggcagttaaacaaaagcaacctgaagaggcaggtgaactgctcctggtcccaccaagg 593
           | ||||  ||||||||||||       ||||||||||| ||  |  ||||||||||||||
Sbjct: 729 atggcacctaaacaaaagca-------gaggcaggtgatcttataatggtcccaccaagg 781

                                                                       
Query: 594 tgactttggtttctggtgggaggc-ggcaattacatgctgtgagaactctgttctgttga 652
           ||||||||  ||||| | |||| | |||| |||| |||||||||| || ||  || ||||
Sbjct: 782 tgactttgacttctgttaggag-caggcacttacctgctgtgagacctttgccctcttga 840

                                        
Query: 653 tgtgctcacccaccaaaacactcctcttg 681
           |||||||||||| |||| |||||||||||
Sbjct: 841 tgtgctcacccaacaaagcactcctcttg 869


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: 12
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: 681
Length of database: 1076
Length adjustment: 10
Effective length of query: 671
Effective length of database: 1066
Effective search space:   715286
Effective search space used:   715286
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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