BAC Information

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BAC

Clone NameMSMg01-444N16
ChromosomeY (Build37)
Map Location 1,792,007 - 1,792,417
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137
Downstream geneLOC100039450, 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, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-444N16.T7 (MSMg01no444_n16.b1)MSMg01-444N16.TJ (MSMg01no444_n16.g1)
ACCAG533923AG533924
length793753
length of high quality
(start - end)		259 (52 - 310)536 (75 - 610)
definitionCHROMAT_FILE: MSMg01no444_n16.b1 PHD_FILE: MSMg01no444_n16.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:12:53 2005CHROMAT_FILE: MSMg01no444_n16.g1 PHD_FILE: MSMg01no444_n16.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:12:53 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
TCCTCCTTCTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XCGCGGAATTCCTGGTCTTTTCCTGACTTTTATCATGAATGGGTGTTGGA
TTTCCTTAAATGATTTCTCAGCATCTAAGGAGATGATCATGTGGTTTTTG
TTTTTGAGTTTGCTTATATATAGTGGATTATGTTGATGTGTTTCCTTATA
TTAAAGCATCCCTGCATCCCTGGGATGAAGCCTACTTGATCATTATTGAT
GATCTTTGTGATATGTTCTTGGATTCAGTTTGCATGGACTTTATTGAATA
TTTTTTGCATCGGTATTCCGAATTTTTTTTTTTCTGAAGTCCTCTATTTT
GTTGTCACTTTATATGTTTTATTTATCACATTATCTGTGCCTCCCCTACA
ACGCTTCGTCTACTATATGTTTCCGCCTCTTATTTTGTGATTTCCCTCTG
TAACCTATTTTTTTACCCTTTCCCTCTTTTCTCTGTCTTGACTTATCTTT
TACTCTCACCACTCCTTGCGCTTTGCTCCCTTTCTCCTCCCTTTCCTCCC
GCCCCTTTTTTTTTTTCGACCTTTTTTCTCCCCCTTTTTCTTTTCCTTTT
TCCCTATACCCCCATGTCCCCTCTTTTTTCTCCCCCCTTCCCACCCCCTT
TTTTCTTCTTTACCCCCTTTTTCTCTCTTCATTTATATTTCCTCCCCTTC
TTTCCCCCCTATTTCTCCCTTCTCCCCCCCCTTTGTCTCGTTCTTTTTCC
TATTTTTCTATTTTTTTTCCCTTCTTATGCCTACCTATTTTTG

NCCGATGATAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXAGAAACATACAGAGGCTGTGTACTGC
AAGCAGGTCTTCTGCAAAAGCAATATATAATATAAGTACTAAAATTGATA
TCAGTGCTCTACAATATTCTATTCTATGTGATGAAATATCTCTCTCTCTC
TTTCTCTCTCTCTCTCTCAATATATATATTCCTCTAACACTTAGTATGAA
TAAAGATTCTCTTATATTCTCTCCTACAAAGGGGATGATATTGGCATGTC
ATCTGCAACATTCATTTTTTTTCCTACACAGTTTGTGCTTTCTCTTAGCA
ATCAACTAATATCTAAATCACACATTCACTCAGATTACAAAGTAAGGTAT
CTGAGCTCATGCAAACTGTTATTCTGAGTCAGAGTAGGGGGAGGACAATT
CCAAACTGTAGTTACATCCAAGAGCATGGACTTTAACAACTTGTGAATCA
GTAGAAGAAAAGACAATGTATAGACACGGTTGTTTCTTTTGGTTTGGTTT
GGTTTAGCTTTGCTTATTTCAGTTACCCACAATCATTATAAGAAACACAG
AGAAACACAGATTAATGCCTGTATCTTGAACTGAATGCAAACAGGGGTCT
TATAACCAACATTTTATTTCTGTTACAATATACAATATATATTTTTTAGA
GATTTTTTTTATTTATTAGCTATTATACCCACCGGCACAAGGTTAAGAAA
TAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no444_n16.g1 MSMg01no444_n16.g1 CHROMAT_FILE:
MSMg01no444_n16.g1 PHD_FILE: MSMg01no444_n16.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:12:53 2005
         (536 letters)



>mm_chrY_1791652_1792587
          Length = 936

 Score =  429 bits (222), Expect = e-124
 Identities = 369/424 (87%), Gaps = 24/424 (5%)
 Strand = Plus / Minus

                                                                       
Query: 119 tctctctctttctctctctctctctcaatatatatattcctctaacacttagtatgaata 178
           ||||||||| ||||||| |||||||||  |||| || |||||||||||| ||||||| ||
Sbjct: 766 tctctctctctctctctgtctctctca--atatctactcctctaacactcagtatgacta 709

                                                                       
Query: 179 aagattctcttatattctctcctacaaaggggatgatattggcatgtcatctgcaacatt 238
           | ||||||||||| |||||||||||||||||||||| ||| | |||||||||||||||||
Sbjct: 708 atgattctcttatcttctctcctacaaaggggatgacatttgaatgtcatctgcaacatt 649

                                                                       
Query: 239 cat----tttttttcctacacagtttgtgctttctcttagcaatcaactaatatctaaa- 293
           |||    ||||    |||||||| ||||||||||||||||||||||||||||||| ||| 
Sbjct: 648 catccactttt----ctacacaggttgtgctttctcttagcaatcaactaatatc-aaag 594

                                                                       
Query: 294 tcacacattcactcagattacaaagtaaggtatctgagctcatgcaaactgttattctga 353
           |||||| ||||||||||||||||| ||| |||||||| |||||||||| |||||||||||
Sbjct: 593 tcacactttcactcagattacaaaataatgtatctgaactcatgcaaattgttattctga 534

                                                                       
Query: 354 gtcagagtagggggaggacaattccaaa-ctgtagttacatccaagagcatggacttt-a 411
            |||||||||||| |||||| ||| ||| ||||||||||| |||||||||||| |||| |
Sbjct: 533 atcagagtaggggaaggacacttc-aaatctgtagttacacccaagagcatgg-ctttta 476

                                                                       
Query: 412 acaacttg-tgaatcagtagaagaaa--agacaatgtatagacac-ggttgtttcttttg 467
           | ||| || |||||||||||||  ||  |||||||||||||| |  ||||||||||||||
Sbjct: 475 a-aacctggtgaatcagtagaa--aatgagacaatgtataga-agaggttgtttcttttg 420

                                                                       
Query: 468 gtttggtttggtttagctttgcttatttcagttacccacaatcattataagaaacacaga 527
            |||||||||||||||||||| ||||||| ||||| | ||||||||| ||||||| | ||
Sbjct: 419 ctttggtttggtttagctttgtttatttctgttacacgcaatcattagaagaaactctga 360

               
Query: 528 gaaa 531
           ||||
Sbjct: 359 gaaa 356


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: 20
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: 536
Length of database: 936
Length adjustment: 10
Effective length of query: 526
Effective length of database: 926
Effective search space:   487076
Effective search space used:   487076
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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