BAC Information

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BAC

Clone NameMSMg01-425C07
ChromosomeY (Build37)
Map Location 1,788,427 - 1,788,928
singlet/doubletsinglet
Overlap geneVmn2r-ps137
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430
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 nameMSMg01-425C07.T7 (MSMg01no425_c07.b1)MSMg01-425C07.TJ (MSMg01no425_c07.g1)
ACCAG518895AG518896
length732746
length of high quality
(start - end)		636 (40 - 675)504 (69 - 572)
definitionCHROMAT_FILE: MSMg01no425_c07.b1 PHD_FILE: MSMg01no425_c07.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:46:16 2005CHROMAT_FILE: MSMg01no425_c07.g1 PHD_FILE: MSMg01no425_c07.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:46:16 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCA
AAGACTCATTTGGTCCCTGGAATGAAGTTAAAGGTCCCTCTGTAGGTTTA
GAGAGGTCTAAAGGCTCTTCTGTGGAAAGGGAAGATCCAAAAGGCTTAGG
GAAGAAAGTGAGGAACTAAGTTGGGCAGAAATTGCAAGTTCCAGAGGTGA
GTCATTGGATATCACATGTCCTGGGGTAGCTGTTGAAAATTTTTGTGCTT
TTCATGCAAATGATGAATATCCTAGAGCTTCCTGGGGAGGCAGCAATGTT
TCTACAGAGCCTGTGTATTTGCTGAAATCCTCAGAGATCCCTGGTCAGAT
CTCAAAATCCTTGCTGTATTTTGAGCAGGGTGGTTATATCCCTGACACAC
TGGTAAAGATGGTGAGTCTGCTACTGTGTAGTGTGTAGATGTGGAGTGAG
TTCCTATACCTTGTGTATGTAAAGAAGGACTTGAAAACCTTTTGGAAGAT
GTAGAATGTTGGGTAGACCTTTGTGGACATGTGGACAGATGTATGGTCCC
CTTGTGCAGAGACTGGGACTCACACCTCCTTGAGCAGAATCAGAAGATCC
TGGAGTCCTTTGTTCTGAGGATGAAAGACCCAGAGGACTATGAGAACATT
CATAGCATTGTGATGTATTCATCATTGCCTGGGCTGAGATAGAAAGTTTC
AGAGGCCCCTGGGCAGATTGCAAAAGTGCTAG

ATGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXTGCAGTGTTTATGTCACCTTCCTCCATGACTC
ACATAGGACTAAGGGCATGGTCATGGCTGCTGTAGAGGTCTTCTCAATCT
TGGCATCCAGTACAGTGATGCTTGGATGCATCTTTACACCCAAGATCTAC
ATCATTGAAATAAGACCAGACTTGAATTCTATCCAAGGTGTCAGATAGAA
GTCAGATATCTGAACACATAGCTCAGGAATACTGTCAAATATTAATTTGG
TACATCTCTTTAAATTATTGACTTACACTGCATTTATCTTGTTTTGGAAT
AATTCACATTTATTCATCCAGTGATGTCTAGAAATATTTATCCACCAATC
TAATGTACATTCTCCATAAAATATTTACTCATTTACTTTCGTTTTTCCTT
TGGAAGAAATAAAGTTCTCAAATTTTTATTTCAATGTTATTCATCATTTT
TTTTTCATGAAGATTTCTGTCCTGCTATTTTCCAATTAAATTGGATTTGG
CAATTGAATCTATGACCTTGCATAGAAATTAAGTCCCAGGTCCAATAGGG
CTATAAATAAAAGTATCAGAGAAAAAAATCAACCTTAAGAATCTACCAAT
ATGAATTAAGACCACTTTTTCTTATTTTCCCGAAGAACATATTCCTGAAA
AAAAACCCCCTGTTTTTTTCACGGGCTCCAAAAAAAGGCTCCGGTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no425_c07.g1 MSMg01no425_c07.g1 CHROMAT_FILE:
MSMg01no425_c07.g1 PHD_FILE: MSMg01no425_c07.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:46:16 2005
         (504 letters)



>mm_chrY_1788227_1789128
          Length = 902

 Score =  787 bits (407), Expect = 0.0
 Identities = 480/505 (95%), Gaps = 4/505 (0%)
 Strand = Plus / Plus

                                                                       
Query: 1   tgcagtgtttatgtcaccttcctccatgactcacataggactaagggcatggtcatggct 60
           |||||||| ||||||||||||||||| | ||||||||| ||||||||||||||||||| |
Sbjct: 201 tgcagtgtctatgtcaccttcctccaagtctcacatagcactaagggcatggtcatggtt 260

                                                                       
Query: 61  gctgtagaggtcttctcaatcttggcatccagtacagtgatgcttggatgcatctttaca 120
           ||||||||||||||||||||||||||||||||| ||| ||||||||||||||||||||||
Sbjct: 261 gctgtagaggtcttctcaatcttggcatccagtgcagagatgcttggatgcatctttaca 320

                                                                       
Query: 121 cccaagatctacatcattgaaataagaccagacttgaattctatccaaggtgtcagatag 180
           ||||||||||| ||||||||||||||||||||||| ||||||||||||||| ||||||||
Sbjct: 321 cccaagatctatatcattgaaataagaccagacttaaattctatccaaggtttcagatag 380

                                                                       
Query: 181 aagtcagatatctgaacacatagctcaggaatactgtcaaatattaatttggtacatctc 240
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||| | 
Sbjct: 381 aagtcagatatctgaacacatagctcaggaatactgtcaaatattaagttggtacatata 440

                                                                       
Query: 241 tttaaattattgacttacactgcatttatcttgttttggaataattcacatttattcatc 300
           |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 441 tttaaattattgacttacactgcatttatcttgttttggaattattcacatttattcatc 500

                                                                       
Query: 301 cagtgatgtctagaaatatttatccaccaatctaatgtacattctccataaaatatttac 360
           |||| ||||||||||||||||||| ||||||||||||||||||||||||||||| |||||
Sbjct: 501 cagttatgtctagaaatatttatctaccaatctaatgtacattctccataaaatctttac 560

                                                                       
Query: 361 tcatttactttcgtt-tttcctttggaagaaataaagttctcaaatttttatttcaatgt 419
           |||||||||||| || |||||| ||||||||||||||||||||||||||||||  |||||
Sbjct: 561 tcatttactttc-ttctttcctctggaagaaataaagttctcaaatttttattaaaatgt 619

                                                                       
Query: 420 tattcatcatttttttttcatgaagatttctgtcctgctattttccaattaaattggatt 479
           ||||||||||||||||  ||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 620 tattcatcattttttt--catgaagatttctgtcctgttattttccaattaaattggatt 677

                                    
Query: 480 tggcaattgaatctatgaccttgca 504
           |||||||||||||||||||||||||
Sbjct: 678 tggcaattgaatctatgaccttgca 702


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: 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: 504
Length of database: 902
Length adjustment: 10
Effective length of query: 494
Effective length of database: 892
Effective search space:   440648
Effective search space used:   440648
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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