BAC Information

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BAC

Clone NameMSMg01-462O03
ChromosomeY (Build37)
Map Location 1,479,681 - 1,480,158
singlet/doubletsinglet
Overlap genenone
Upstream geneUty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2
Downstream geneUbe1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, 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
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-462O03.T7 (MSMg01no462_o03.b1)MSMg01-462O03.TJ (MSMg01no462_o03.g1)
ACCAG547665AG547666
length7441,147
length of high quality
(start - end)		486 (45 - 530)---
definitionCHROMAT_FILE: MSMg01no462_o03.b1 PHD_FILE: MSMg01no462_o03.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:37:02 2005CHROMAT_FILE: MSMg01no462_o03.g1 PHD_FILE: MSMg01no462_o03.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:37:02 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXATCCGCGG
AATTCTCTAGGATTTCTCCATATTCCCTACTCATGAAGTCCATATGTTAT
CATCTTACAAATTCCTATGAAAGTAATGAGGAGAAATTAACCTTTGTAAG
AAAAAAATCCGTTTTTCCTTCCGTGCTCCTGCTCCTGGAATGAAGACTCT
TAGACAACTTATTGACAAATGCCTGGGCCACAAACTGTGGCTCATTCCCA
AACTAACTCATTTAACCCAGTCAAACTAATCTATGTGTTCTACATGGTTA
GTTACATCTTTCATCCTCTTATTTAGCATTTTCCTCAATATCTCCCTTAG
CATATGCCCCAGCATCTGTCCCTGAATCTCCTTTTATTCTCCTACTATTT
CTCAGAATAGTCTCTTCCTCCCAGTGTCTCACCTCATATTTTATTCCTCA
GCTCATTGGTCATAGACTTTATTTTATTGACAGGTGTTGCTTATAAGAGA
TCCTCTCTACAAACTTTGGGGCACTAGGATCAACTAAATAACTCATTTAA
AATTCTTATTTTTATTTTTGTTCACGGGTGATTTGCATATGCCACATGGC
TGCACTACCTGCAAAGGTCATAATAAGAAGTCTTATCGCCCATACCTAGA
GACGGGTGTGAAGGTTACAAATTGTCCTGAAGTCTCCTTTGGTGTCCCCA
AAATGACACTCGCTTTGCTCCCCAAAGGGATAAACAATGGTTAC

ATTATTTTTACTTTTTTGTTTATTATTTGTACCGTATATCCGTGAAGAAG
ATGCAATACCCACAGAGACCAGGGAGTAGTACACGAGAGCGATAAAGAGC
GAAGATATATAGAAGAAAAGAGAAGGACTCATAAGGAAATACCATACATG
CCTATTCCTCTCTTCTCGGATGACATTGTATCTAGCGCATACCTCTACCT
CATTGTTAAATNCACATGTCCTGATTGACCTCACTACGATGCTCGAGTGG
TTGTCATACTTTATCTACCCGATCTTATACCGACACACTCCGCCAGCAGT
TTACATCTTATTTTTGTCCTTGCGTCTCTTCCCGCGCGGCATTNTCGTGG
GTGGGCGCGGATTATTAAGGGGCGTGGCATGGAGAAAAAAANNNNNCCCG
GCGCAAAAAGNAAAAAAAGGGGGGGGGTAAAAGGGACCCCGGGGGAGGGG
GGANACGCGGGCCCGGGGGGGTCCGTGGCTTGACCCACTTATATGTGAGG
GGGGGGGAAACCCCTAGAAAAATAAAAAAGGGGTGTTTCCCCCGCGGGAA
AAATNTATTCTCTCTCCCCCCCGGGGGGGGTCGCCCCGAAGAGAGGCTTT
CCATAAAAGAAGGGTGGGGTGCGCCCCCGCGCGAGGGGGGGCCCCTCCCT
CCTCGGGGGGGGGGGAGAGAGAAAAAAGGGGGCGCTCCCCCTCCTCTTCC
ACCAAATNGAAAAAAAACCCGCGGCCGGGGGGAGGAAGGAGAGAGGGAAA
NNNTTTTGTTCTCCCTTTNCTTTATNNNNCGTNNNNCGCCCGCCCCCCNN
NGCGGCGGCAAAAAAACAACACCCCCCCCCCGAAGAGAAAAAATTTTTTT
TTTGTGGGGGAGAAAAAAAAAAAAAAAAATTTCTCCGGGGGGGGGGGGGG
AGAAATAAAATAAAGAAGGAGGGGGGGCGGGGGGGGGGGGGGGCAAAAAA
AAGAATGATGTAGGGAGGGGGGGGGAAAAGACAAAAAAAATTTTAGTGTG
GGGGGGGAGGAGGGGGAAGAACGAAACAACCCCCGCCTTTTTTTTTTTTT
TTTTNNNCTCTAATAGAAANNAAAAAAAAAAGGTGGGGGGCGGTCACTGG
GGGNCGCCGGCCNCCAGCGAATTAAAAAGAGTTAAAATGATGGCGGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no462_o03.b1 MSMg01no462_o03.b1 CHROMAT_FILE:
MSMg01no462_o03.b1 PHD_FILE: MSMg01no462_o03.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:37:02 2005
         (486 letters)



>mm_chrY_1479476_1480361
          Length = 886

 Score =  897 bits (464), Expect = 0.0
 Identities = 475/480 (98%), Gaps = 4/480 (0%)
 Strand = Plus / Plus

                                                                       
Query: 6   gaattctctaggat--ttctccatattccctactcatgaagtccatatgttatcatctta 63
           ||||||||||||||  |||  |||||||||||||||||||||||||||||||||||||||
Sbjct: 206 gaattctctaggatagttc--catattccctactcatgaagtccatatgttatcatctta 263

                                                                       
Query: 64  caaattcctatgaaagtaatgaggagaaattaacctttgtaagaaaaaaatccgtttttc 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 caaattcctatgaaagtaatgaggagaaattaacctttgtaagaaaaaaatccgtttttc 323

                                                                       
Query: 124 cttccgtgctcctgctcctggaatgaagactcttagacaacttattgacaaatgcctggg 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 cttccgtgctcctgctcctggaatgaagactcttagacaacttattgacaaatgcctggg 383

                                                                       
Query: 184 ccacaaactgtggctcattcccaaactaactcatttaacccagtcaaactaatctatgtg 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 ccacaaactgtggctcattcccaaactaactcatttaacccagtcaaactaatctatgtg 443

                                                                       
Query: 244 ttctacatggttagttacatctttcatcctcttatttagcattttcctcaatatctccct 303
           |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 444 ttctacatggttagttacatctttcatcctcttacttagcattttcctcaatatctccct 503

                                                                       
Query: 304 tagcatatgccccagcatctgtccctgaatctccttttattctcctactatttctcagaa 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 tagcatatgccccagcatctgtccctgaatctccttttattctcctactatttctcagaa 563

                                                                       
Query: 364 tagtctcttcctcccagtgtctcacctcatattttattcctcagctcattggtcatagac 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 564 tagtctcttcctcccagtgtctcacctcatattttattcctcagctcattggtcatagac 623

                                                                       
Query: 424 tttattttattgacaggtgttgcttataagagatcctctctacaaactttggggcactag 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 624 tttattttattgacaggtgttgcttataagagatcctctctacaaactttggggcactag 683


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: 25
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: 486
Length of database: 886
Length adjustment: 10
Effective length of query: 476
Effective length of database: 876
Effective search space:   416976
Effective search space used:   416976
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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