BAC Information

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BAC

Clone NameMSMg01-263N01
ChromosomeY (Build37)
Map Location 1,655,769 - 1,656,292
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 nameMSMg01-263N01.T7 (MSMg01no263_n01.b1)MSMg01-263N01.TJ (MSMg01no263_n01.g1)
ACCAG405534AG405535
length744737
length of high quality
(start - end)
694 (51 - 744)528 (78 - 605)
definitionCHROMAT_FILE: MSMg01no263_n01.b1 PHD_FILE: MSMg01no263_n01.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:00:50 2005CHROMAT_FILE: MSMg01no263_n01.g1 PHD_FILE: MSMg01no263_n01.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:00:50 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NCCCCCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCAGAAGATAGACCAGTGGTGTGGGTAGCAGCAAAGTTCTTG
AGTCTCAAAGACAACAGATACCATGGCTCAATATTCCAACTACAACAACT
AGGTAACATTGGTTCTACACTTAGCATGCCGTTTCTAGAAAAAAAAATTA
AAGAATTAAGCAATGTTTCCTCTGAACCTGACATGTTACTATCACAAATG
AAAGAAGGATCCATGATCACATGAATATGAAAGGGGCATGAAGCAGCACA
ATTGTTCAAATTATTGGCAGCTAGTCAGCATTAACACAAGAAGGGACCAA
AGACAAAAAACAGCTTTGAAGACATGTCCAAATGACCGCGTTCATTTACA
AGTTTCTTACCCATTCCTTGTATATCCATTGATTGATTAACTCATTGATT
AAAGCCCTCATGTTCCAATGACTTTTCAGAGTGCATATTGTACTACCTAT
GAACATTGTACTGTGGACCAAAGCCTTCATCTAAGACCCATGACTGACAT
TTCAAAACAATTTAACCACAGAATTCTTTATTTGAAACAAAGTGATAAGA
TCCATCTATCTCTTCAAGGATATCTCTGTTTTGTTCAAAAAGGAGAAAAA
TGCAATCCAAGTTCAGGATCTTGATCCCTTATCCATGCATCTTAATCCCA
TAGGGGCTAGCCAGAATGTAAGGTCAGAAGTCTAAACTTCACCT
CCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAACAATTTTGGACCCTATGAAAGT
AATGGATTGTCCAAATGCTCCCGGACTGAGAATCTTAGGGAAGCTCTAGG
TTTTTTCTTAATCTGCAATGTCATTTAGACATTAGAGCAAGCAGAGATGA
TTTGCTCCTTCTCTTAGGCAATCAGATTTTATTCTGGAAGACAACCGTTG
TGAGCCTTGAGAGGGTTTGCTGGAGGAGAAGGGATATTGACAGTGCTCTA
CCCAAACTGCAAGGCACACAGCTAGACCTTGTTCCCTCTGATGCATAGAA
GTGTCTGATGGTATTAGATGGGATTCTTGATGAGGACAGAATCTGAGGAA
AGGTTCCTGTAGAGAAACGAAGTGCAGTTATACAACCTAGAAAGTATATA
CCATTGATCATTGTGAGCCTGAAACAGAAAGCACCCAAGCATTGGACCTA
ATGTATGATTGGTGAGACAGATTGAAGAGATTTTGTTTGTTTTGAATTCT
CTGTATAGGTATGGATACATTGTCTCATGGGAAGGGGGAGTGTGGATTCC
CTGTGGTTGCTAAAATAGAAGAAGTTGTAAACAGCGCATGGAAATGTGGC
AAGTCCAAGTGTATGCTGTGCATGAGCTGCCAGTGTTCAGAAATGCTGAG
CCTTCACTTCAGAATCAATAAGATATTTAAAGAAGAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no263_n01.g1 MSMg01no263_n01.g1 CHROMAT_FILE:
MSMg01no263_n01.g1 PHD_FILE: MSMg01no263_n01.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:00:50 2005
         (528 letters)



>mm_chrY_1655569_1656492
          Length = 924

 Score =  484 bits (250), Expect = e-141
 Identities = 464/538 (86%), Gaps = 24/538 (4%)
 Strand = Plus / Minus

                                                                       
Query: 1   acaattttggaccctatgaaagtaatggattgtccaaatgctcccggactgagaatctta 60
           |||| ||||||||||||||||||||| ||||| ||||||||||| |||||||||||||| 
Sbjct: 724 acaagtttggaccctatgaaagtaatagattgcccaaatgctcctggactgagaatcttg 665

                                                                       
Query: 61  gggaagct-ctaggttttttcttaatctgcaatgtcatttagacattagagcaagcagag 119
           ||||| || |||||  |||||||||||||||||| |||||||| ||| |||||||  |||
Sbjct: 664 gggaa-ctgctagggattttcttaatctgcaatggcatttagatattggagcaagtggag 606

                                                                       
Query: 120 atgatttgctccttctcttaggcaatcagattt-tattctggaagacaaccgttgtgagc 178
           ||| |||||||||||| ||||||| |||||||| | |  |||||||||| | ||||||||
Sbjct: 605 atgctttgctccttcttttaggcactcagatttgtct--tggaagacaaactttgtgagc 548

                                                                       
Query: 179 -cttgagagggtttgctggaggagaagggatattgacagtgctctacccaaactgcaagg 237
             |||||||||||||||||||||||||||||||||||||||||||| |||||||||| ||
Sbjct: 547 atttgagagggtttgctggaggagaagggatattgacagtgctctaaccaaactgcatgg 488

                                                                       
Query: 238 cacacagctagaccttgttccctctgat-gcatagaagtgtctgatggtattag-atggg 295
           ||||||||||||| |||||||||||| | |||||||| | ||||||||| || | |||  
Sbjct: 487 cacacagctagactttgttccctctg-tagcatagaattttctgatggtgtt-gcatg-- 432

                                                                       
Query: 296 attcttgatgaggacagaatctgaggaaaggttcctg-tagagaaac-gaagtgcagtta 353
           || |||| ||||||||| |||||||| ||| |||| | |||| |||| | ||||||||||
Sbjct: 431 atccttgctgaggacaggatctgaggcaagtttccaggtaga-aaactgtagtgcagtta 373

                                                                       
Query: 354 tacaacctag-aaagtatataccattgatcattgtgagcctgaaacagaaagcacccaag 412
           |||||  ||| ||| |||| |||||| |||   ||||||||||| | || |||||  | |
Sbjct: 372 tacaaggtagcaaa-tataaaccattaatc---gtgagcctgaagctgagagcactga-g 318

                                                                       
Query: 413 -cattggacctaatgtatgattggtgagacagattgaagagattttgtttgttttgaatt 471
            |||||||||||||| || |||| |||||||  ||||||| |||||||||||||||||||
Sbjct: 317 acattggacctaatgcataattgctgagacactttgaagacattttgtttgttttgaatt 258

                                                                     
Query: 472 ctctgtataggtatggatacattgtctcatgggaagggggagtgtgg-attccctgtg 528
           ||||||||||||||| |||||||||| ||||||||| |||||||||| || |||||||
Sbjct: 257 ctctgtataggtatgaatacattgtcccatgggaagagggagtgtggcat-ccctgtg 201


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: 7
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: 528
Length of database: 924
Length adjustment: 10
Effective length of query: 518
Effective length of database: 914
Effective search space:   473452
Effective search space used:   473452
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)