BAC Information

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BAC

Clone NameMSMg01-476F09
ChromosomeY (Build37)
Map Location 1,605,079 - 1,605,314
singlet/doubletsinglet
Overlap geneLOC100039381
Upstream geneDdx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373
Downstream geneLOC667143, 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, LOC100039613, LOC100041537, LOC667227, LOC667236
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-476F09.T7 (MSMg01no476_f09.b1)MSMg01-476F09.TJ (MSMg01no476_f09.g1)
ACCAG557952AG557953
length763758
length of high quality
(start - end)
244 (73 - 316)239 (79 - 317)
definitionCHROMAT_FILE: MSMg01no476_f09.b1 PHD_FILE: MSMg01no476_f09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:55:25 2005CHROMAT_FILE: MSMg01no476_f09.g1 PHD_FILE: MSMg01no476_f09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:55:25 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
NTCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAAACAGGATCCGCG
GAATTCACTATTTCTCTGACAATTTGGGGCACCTGTGAGGAATTTTTTTT
CCTGATTTGATTATGTGAAATAGGAAGACCAACCCCAAATGTAGATCGTT
TGTTCTGTTGTAGAAACAACTGTAAAATATAAATTTCATTGATGTCAGTT
TTTTTTAATAAAAGTGTGTAGCTAGGACTAAATTCTAGTAGTTACAATCA
AGATAGTTTTTATGATCCTACACTGTTTCTGTCTTTTATTACAGTGTTTC
CTGAACACTGAGGTGTATATTTTATGGTGACCTCCCTTTTAGGACTGAAT
GTTAGAAGGTCCCTCAGGCTTTGCATATTATCTGGCTGGTAGATTAGAAA
GGAGATGGTTACAAGCAAAATTGGATGGATGAGCAGGTAGGCATTCCAAA
GAGCAAATGGTGCTTGACTAACCTCGTAAGCTATCTCCCTCTATTCTCTG
GGACTGGTTGTTGCTAGTCTATTTCTGTTTTTCCTTACATATCAGAATGA
TATTTCACCAGTGTTGCCCCTCCATGCCAGAACCCTTATTTTTAGTCTTA
TACCGGACCAAGCTTCCTTTCTTTTTCAGCCGATCTGCCTAGTTTTTCCT
TAAATTACCTTTCCCCCCAACTTGTAGCTCCTAAACCTGGCATTCCTCTT
GCTGGTTTCCTTCCCAACATTTTCGGAACCATTCTTGGTTCCCGTACTTT
TCTTTCCAAATAA
CGATTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAAAACAAACAAAATCTCTTCAATC
TGTCTCACCAATCATACATTAGGTCCAATGCTTGGGTGCTTTCTGTTTCA
GGCTCACAATGATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTT
CATTTCTCTACCAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCC
CATCTAATACCATCAGACACTTCTATGCATCAGAGGGAACAAGGTCTAGC
TGTGTGCCTTGCAGGTTTTTTTGAGCACTGTCAATATCCCTTCTCCTCCA
GCAAACCCTCTCAAGGCTCACAACGGTTGTCTTCCAGGATAAAATCTGAT
TGCCTAAGAGAAGGAGCAAATCATCTCTGCTTGCTCTAATGTCTAAATGA
CATTGCAGATTAAGAAAAAACCTAGAGCTTCCCCAAGATTCTCAGTCCGG
GAGCATTTGGACAATCCATTACTTTCATAGGGTCCAAAATTGTTTGAATT
CTACAGACCAATGAATTGTCCCATTAGAAGCCACCTTTCCAGCAGGTAGC
AGTAGCTCCAACTGCTGTCTCCAAAGGCAGTTAAACCAAACGTACCTGAA
GAGGTATGTTAACTGCTCCCCGCCCCCAACAAGGTGACTTTCGCTTTTTG
GTGGTAGGGTGCAATTCCCTTTTTTGATAACCCCCGCCCCCTTTATTTTT
TCTCCTTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no476_f09.g1 MSMg01no476_f09.g1 CHROMAT_FILE:
MSMg01no476_f09.g1 PHD_FILE: MSMg01no476_f09.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:55:25 2005
         (239 letters)



>mm_chrY_1604879_1605517
          Length = 639

 Score =  165 bits (85), Expect = 3e-45
 Identities = 202/245 (82%), Gaps = 18/245 (7%)
 Strand = Plus / Minus

                                                                       
Query: 1   aacaaacaaaatctcttcaatctgtctcaccaatcatacattaggtccaatgcttgggtg 60
           |||||||||||||||||||| ||||||||  ||| || || || || ||||| ||| |||
Sbjct: 436 aacaaacaaaatctcttcaagctgtctcaggaattatgcagtaagtacaatgtttgtgtg 377

                                                                       
Query: 61  ctttct--gtttcaggctcaca--atgatcaatggtatatactttctaggttgtataact 116
           |  |||  | ||||||| | ||  ||||| |||||| || |||| | || ||||||||||
Sbjct: 376 c--tcttagcttcaggc-c-catgatgataaatggtttacacttgccagcttgtataact 321

                                                                       
Query: 117 gcacttcatttctctaccaggaacctttcctcagattctgtcctcatcaagaa---tccc 173
           |||||||||||||||||| |||||| |||||||||| ||||| |  | |||||   ||||
Sbjct: 320 gcacttcatttctctacctggaacccttcctcagatcctgtctt--t-aagaaggatccc 264

                                                                       
Query: 174 at-ctaataccatcagacacttctatgcatc-agagggaacaaggtctagctgtgtgcct 231
           || | || |||||||||||||||||||| || |||| ||||||||||||||| |||||| 
Sbjct: 263 atgc-aacaccatcagacacttctatgc-tccagagagaacaaggtctagctttgtgccg 206

                
Query: 232 tgcag 236
           |||||
Sbjct: 205 tgcag 201


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: 2
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: 239
Length of database: 639
Length adjustment: 9
Effective length of query: 230
Effective length of database: 630
Effective search space:   144900
Effective search space used:   144900
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)