BAC Information

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BAC

Clone NameMSMg01-203H21
ChromosomeY (Build37)
Map Location 1,792,399 - 1,792,809
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 nameMSMg01-203H21.T7 (MSMg01no203_h21.b1)MSMg01-203H21.TJ (MSMg01no203_h21.g1)
ACCAG388237AG388238
length735734
length of high quality
(start - end)		372 (46 - 417)566 (77 - 642)
definitionCHROMAT_FILE: MSMg01no203_h21.b1 PHD_FILE: MSMg01no203_h21.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:24:40 2005CHROMAT_FILE: MSMg01no203_h21.g1 PHD_FILE: MSMg01no203_h21.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:24:40 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTGCACTACATCCATCTAGTCCCAGGGTTGTTTTGGTGGGAGATTA
TCATGATTGGTTCTATTTCTTAAGGTGTTAAGGTGCTGTTTAGATGGTTT
ATCTTATGGATTTGGTATATGTCTAGATAATTGCATATTTCACTCGTCTT
TCGCAGCGTTTTTTTTAATTATTCATTACTTAACTATGAAGTTTATTCAT
TTCAAGTTTTTTTTTCCAGGCTGCATTCCATGGAATATCTTTGGCTGAAC
TGGAATTTGCTCTATAGACGAGACTGACAAGGAATTTAGAGATTTTCCTG
CCTCAGCATAATAAGTCCTGGGATTAAATGTGTGTTTGCCCCCATTCCCT
GGCACCTAGGAATTAACCCCCCCGACTACTTACATACCTTCATATAGTTC
AAACCTTATAATATTCCAAAATGGAAGCCTATCACAGTGATTCCTGCTTT
TAACCAGAGGACTATGGGCCTTATGAAATCATATCTCTTTTGACTTCTAA
GATAGCCTTACATACCTAGCCAATTTGAGGCCTGCCAGTGCTAATCAATA
CATTTTGGCCAAAATGGAAAGAAAAAAAAACACAAGTGAAATGCGTCTTT
CTTAATTTACAAATGCGTCTATTTATAATTACTCACCCACTCTATCCCCT
TCATACTCTCTTCACACTACCTCCTCCCTTCCTAC

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTGGTCCAGAATAATTGAGACAGCA
GGTCCTCCTAAAGGGATACTCTCCTCTTCAGCCTCCTTCAGTCTTTCTCC
AATTCCCCAATGGTTCAGCAGATTCTGTCCATTGGTTGGTTGCAGACATA
TGCATCTGATTGTTTCAACTGCTCATTAGGTCTTCAGAAGTGCATTCATG
CTAGTATTCACATTACAATTATGTGAATTCAGAAGCCAGCAGAGTTCGTG
GACTGCAAGCAGGTCTTCTGAAAAAGCAATGCATGATATAATTACCTGAA
TTTTCTGGCAGTGCTCTTCAATATTGTGTTCTACGTGATGCAATATTCCA
CTCTCTTTCTCTATCTCTGTCCCTGTCTCTGTCCCTCTCTGTCTCTGTCT
CTCTCTGTCTCTTTGTCTCTCTCTCTCTGTCTCTCTGTATCTGTCTCTGT
CTCTGTCTCTGTCTCTGTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCT
CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCT
CTCTCTGTCTGTCTCTCTCAATATCTATTCCTCTAACACTCAATGTGACT
AATGATTCTCTTATCTTCTCTTCTACAAAGGGGATGTAATTTTACTGCCA
TCTGCAAATTGTTATTCTGAATCCGAATATGTAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no203_h21.g1 MSMg01no203_h21.g1 CHROMAT_FILE:
MSMg01no203_h21.g1 PHD_FILE: MSMg01no203_h21.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:24:40 2005
         (566 letters)



>mm_chrY_1792108_1793073
          Length = 966

 Score =  590 bits (305), Expect = e-172
 Identities = 388/419 (92%), Gaps = 15/419 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   tggtccagaataattgagacagcaggtcctcctaaagggatactctcctcttcagcctcc 60
           |||||| |||||||| ||||||||||||||||||||||||||| |||||||| |||||||
Sbjct: 702 tggtcctgaataattaagacagcaggtcctcctaaagggataccctcctcttaagcctcc 643

                                                                       
Query: 61  ttcagtctttctccaattc-cccaatggttcagcagattctgtccattggttggttgcag 119
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 642 ttcagtctttctccaattcacccaatggttcagcagattctgtccattggttggttgcag 583

                                                                       
Query: 120 acatatgcatctgattgtttcaactgctcattaggtcttcagaagtgcattcatgctagt 179
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 582 acatatgcatctgattgtttcaactgctcattaggtctgcagaagtgcattcatgctagt 523

                                                                       
Query: 180 attcacattacaattatgtgaattcagaagcca-gcaga-gttcgtggactgcaagcagg 237
           ||||||||||||||||||||||||||| || || ||||| ||| | ||||||||||||||
Sbjct: 522 attcacattacaattatgtgaattcaggag-cacgcagaggtt-gcggactgcaagcagg 465

                                                                       
Query: 238 tcttctgaaaaagcaatgcatgatataattacctgaattttctggcagtgctcttcaata 297
           ||||||| ||| |||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 464 tcttctgcaaaggcaatgcatgatataattacctgaattttctgtcagtgctcttcaata 405

                                                                       
Query: 298 ttgtgttctacgtgatgcaatattccactctctttctctatctctgtccctgtctct--g 355
           |||| ||||||||||||||||||||| ||||||||||||  |||||||  |||||||  |
Sbjct: 404 ttgtattctacgtgatgcaatattcctctctctttctct--ctctgtc--tgtctctctg 349

                                                                      
Query: 356 tccctctctgtctctgtctctctctgtctctttgtctct--ctctctctgtctctctgt 412
           ||  |||||  |||||||||||||||||||| |||||||  |||||||| |||||||||
Sbjct: 348 tctgtctct--ctctgtctctctctgtctctctgtctctgtctctctctctctctctgt 292


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: 103
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 566
Length of database: 966
Length adjustment: 10
Effective length of query: 556
Effective length of database: 956
Effective search space:   531536
Effective search space used:   531536
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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