BAC Information

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BAC

Clone NameMSMg01-059P12
ChromosomeY (Build37)
Map Location 1,655,339 - 1,655,884
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 nameMSMg01-059P12.T7 (MSMg01no059_p12.b1)MSMg01-059P12.TJ (MSMg01no059_p12.g1)
ACCAG286523AG286524
length694766
length of high quality
(start - end)
587 (48 - 634)66 (89 - 154)
definitionCHROMAT_FILE: MSMg01no059_p12.b1 PHD_FILE: MSMg01no059_p12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:02:36 2005CHROMAT_FILE: MSMg01no059_p12.g1 PHD_FILE: MSMg01no059_p12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:02:36 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
NTATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCTCTGCTGATCCGCACAGGAAAGCACAGAAATCTAGGACTATAC
AGAAATATCCAGTTCCAGAGAAGAAAAAAAAAAAAAAAGAAACAGGGAGG
AATTGGAAAGTACAAATAAGAATTTGAATGTACAGATTGTAAATCCTGTC
TCTGGGAGTAATAATCAAGATACTTTGAAAGGAACAATCAAGCCATGTTT
AAAAGACTGGACACACCATTTGGCATATGTTATATAAATCAGTAAAAATA
ATTAAAAATGTCTCATTAAAATTCACAACAATCCCCTTAAGTTTTTTCTT
CCGGTTTTCTTCTTTAAATATCTTATTGAATCTGAAGTGATGGCTCAGCA
TTTCTGAACACTGGCAGCTCATGCACAGCATACACTTGGACTTGCCACAT
TTCCATTGGCTGTTTACAACTTCTTCTATTTTAGTAACCACGGGGAATCC
ACACTCCCCCTTCCCATGAGACAATGTATCCATACCTATACAGAGAATTC
AAAACAAACAAAATCTCTTCAATCTGTCTCACCAAACATACATTAGGTCC
AATGCTTGGGTGCTTTCTGTTTCAGGCTCACAATGATCAATGGTATATAC
TTTCTAGGTTGTATAACTGCACTTCATTTCTCTACAGGAACCTT
NCCCATACTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXCCCCTCAAATGTTTCCACAAAAATGAATTGA
ATTTTGGACGTTGTGTAAACTTTCCCACAATCCTCTGGTTTTAAAATTTG
GTGTCTATCTCGTCGTGTCGTCTCTCGTCTGTGTGCGCGCCCCNCCCCNN
CCCCNNTTTCCCTTCCTCCCCCCCTCTCCTTCCCTTTCCCTCCCTCCCCT
CCCCCCCCTTCTCCCCCCCCCCCCCTCTCCCCCCTCCCCCCCCCTCTCTT
TCCTTNTTCCCCCTTCCTTTCCCCTCCCCTCCTTCCCTCCCCCCCCTTCC
CCCCCCCTCCCCCTTCCCCCCCCCCCCCCCCCCCCCCCCCCTCCTCCCCC
CTCCCTCCCTCCCCTCCCCTCTCCCTCTCCCCCCCCCCCCCCCTATACCT
CCCTTTCTCCCCCTCCCCTCCTCCCCCCCTCCCCCCCCCCCTCTCCCCCC
CCCCCCCCCCCCCCCCCCCCCCTTTCTCTCCTCTCCCTCCCCCCCCTCCT
CCCCTCCTCCTTCCCCCTCTACCTCCCCTCCCCCCCCCTCCTCCCCTCCT
CTCTTTCCCTTCTCTCCCTCCCCCCCCCCTCCCCCCCTCCCTCTCCCCCC
TCCCCCCCCCCCTTTCCCTCTTCCCCCCCCCTCCCCTCCCCCCCCCCCCC
CCCCCCTTCCCCCCCTCCCTCCCCCCCTCCTCCCCCCCCCTCCCCCCCTC
CCCCCCCCCCTCCCCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no059_p12.b1 MSMg01no059_p12.b1 CHROMAT_FILE:
MSMg01no059_p12.b1 PHD_FILE: MSMg01no059_p12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:02:36 2005
         (587 letters)



>mm_chrY_1655135_1656114
          Length = 980

 Score =  416 bits (215), Expect = e-120
 Identities = 471/561 (83%), Gaps = 23/561 (4%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctctgctgatccgcacaggaaagcacag-aaatctaggactatacagaaatatcc 63
           |||||||||||||| | ||||||||| ||| || ||| |||||||||| |||||| || |
Sbjct: 205 gaattctctgctgaactgcacaggaaggcatagaaaaactaggactatccagaaaaatgc 264

                                                                       
Query: 64  agttccagagaagaaaaaaaaaaaaaaagaaacagggaggaattggaaag-tacaaataa 122
           ||| ||||| |||||||| | ||||||||     | |||||||||| |||  | ||||||
Sbjct: 265 agtcccagaaaagaaaaacagaaaaaaag-----gagaggaattggtaagcaaaaaataa 319

                                                                       
Query: 123 gaatttgaatgtacagattgtaaatcctgtctctgggagtaataatcaagata-ctttga 181
           |    ||||||| | |||||||||||||||||||| || |||||||||||| | |||| |
Sbjct: 320 g----tgaatgt-ctgattgtaaatcctgtctctgagaataataatcaagacaccttt-a 373

                                                                       
Query: 182 aaggaacaatcaagccatgtttaaaag-actggacacaccatttggcatatgttatataa 240
           |||||||||| || |||||  |||||| ||| ||||||| || ||||| |||||||||||
Sbjct: 374 aaggaacaatgaaaccatgagtaaaagaactagacacacaatatggcaaatgttatataa 433

                                                                       
Query: 241 atcagtaaaaataattaaaaatgtctcattaaaattcacaacaatccccttaagtttttt 300
           ||||||| ||| |||||||||||| ||||||||| | | || | |||||||| ||||| |
Sbjct: 434 atcagtagaaacaattaaaaatgtgtcattaaaaatgaaaatattccccttatgttttct 493

                                                                       
Query: 301 cttccggtttt-cttctttaaatatcttattgaatctgaagtgatggctcag-catttct 358
           |||  |||||| ||| ||||||| |||||||||||||| || ||| | |||| | |||||
Sbjct: 494 cttgtggttttcctt-tttaaatgtcttattgaatctggagggattgatcagac-tttct 551

                                                                       
Query: 359 gaacactggcagctcatgcacagcatacacttggacttgccacat-ttccattggctgtt 417
           | |||| | |||| ||| ||||||||||||||||||||||||| | ||||||||||| ||
Sbjct: 552 ggacaccgccagcacatacacagcatacacttggacttgccac-tcttccattggctctt 610

                                                                       
Query: 418 tacaacttcttctattttagtaaccacggggaat-ccacactcccccttcccatgagaca 476
           ||||||| | |||| || ||| ||||| ||| || |||||||||| ||||||||| ||||
Sbjct: 611 tacaactccgtctacttcagtgaccacaggg-atgccacactccctcttcccatgggaca 669

                                                                       
Query: 477 atgtatccatacctatacagagaattcaaaacaaacaaaatctcttcaatctgtctcacc 536
           |||||| |||||||||||||||||||||||||||||||||| |||||||  ||||||| |
Sbjct: 670 atgtattcatacctatacagagaattcaaaacaaacaaaatgtcttcaaagtgtctcagc 729

                                
Query: 537 aaacatacattaggtccaatg 557
           ||  || ||||||||||||||
Sbjct: 730 aattatgcattaggtccaatg 750


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: 587
Length of database: 980
Length adjustment: 10
Effective length of query: 577
Effective length of database: 970
Effective search space:   559690
Effective search space used:   559690
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)