BAC Information

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BAC

Clone NameMSMg01-128O06
ChromosomeY (Build37)
Map Location 1,588,647 - 1,589,231
singlet/doubletsinglet
Overlap genenone
Upstream geneDdx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2
Downstream geneLOC667137, 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, LOC100039613, LOC100041537, LOC667227, LOC667236
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-128O06.T7 (MSMg01no128_o06.b1)MSMg01-128O06.TJ (MSMg01no128_o06.g1)
ACCAG337045AG337046
length696793
length of high quality
(start - end)
568 (76 - 643)52 (81 - 132)
definitionCHROMAT_FILE: MSMg01no128_o06.b1 PHD_FILE: MSMg01no128_o06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:42:08 2005CHROMAT_FILE: MSMg01no128_o06.g1 PHD_FILE: MSMg01no128_o06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:42:08 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
GGACTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCACTATTGTACTCTAGAAGATTTCAATATCATATGAAGTACCA
GAAAATGTGTGAAAAATTACAGTGGCCAAATGTATTTAGAAACGTTAAAC
TACACACTTAAAAATAAATAAATCAATGGATTTATTTAGGATATAAATAA
AACTCCAATAAAACTTCTGAAAAGGCTTAACCAAATGTGATGATTCTCAT
GTGAGTTGTTATTTGTCATAGCACCTGTGATTTAGCTGTTAATAGTAGTG
GGTTTTATTACTTATGAATCAGACACCAATACATCCATGAAGGGGTAACA
CTCCATTCCCTCAGGATAAAGAAATCAATTAAAAGTCATTGGATTTTTTG
ATGAGAATTTTTCTGGTCAAAGCTGAGTTGGCAGGAAGTTGGACAGATTG
GGGTGTCTCCCAGTAAGTGTAACACACATTAGAATGTAGGTGTTGTGAGG
CTATAAGACATATTCACTACTTGTCACCTATTATTGAGTATTCTTGCTGG
AGGAGGTACTTACCCTTCACTTCTGCCATAACTAGACAGAAGGAGGAGAT
TGTGATGAGTAATGTTTGTGTGGGTTATGGAGTAGGATAAATCTTAATGT
GCTGGGATTTTATTTATCTCCAACTTGACAATATAGTGCCACCTTA
NNNCCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCAGGGACAAAAAATGGAAAT
CCATGGGTAGGGAAGTGGGGGGGGGGGAGTGCCATCCCTCCTTTTTTCCC
CGTTGTCTCCGTCCGCTTGCCCCTCTCTCCCCTCCGTTGGGCCGGCGTGC
GGGTGTTTGCGTGGTTTTGGCCCAGAGGGTTGTTGTTGCTTTTTGGCGTT
TTATTCTTTCATTTGTTTTTTCTTTGTTACTATCCCCTTCTTTTTTTTAC
TCTCTTTATACTCCCCCCTTTTACTGTAAACCTTTTTTTCTTATTCTACC
GATTTCTCTGTAGGTGGGCCGACGTTTCGTACCCCCGCCTCGCACTCTCG
CGTCTTGTTTATGATCTGCGGCGGGGCGTTGTTTCGTCTTGGTCCACCCT
CGATTGTATGTTTAGTGCCTCCTAGTTTCATCCCCGCGCCCACCGCTTAT
CTTCTGTTGTATTGCACGACTACGAAGACGATTATATCATTTTATTACAT
CTTCGCCACATATCGACAGAATTAAGTATCATAATAAATGACAAAGAACA
TTAAAATCGTAATAAAAAGAAATCTGCAGTAATAAACGCAAACAGCCCGC
CAGTATAACAACATAACACTCACTTTCCGCCCCGACCTCACCTAGCAACA
CATCACATCACCATAATACGCACACCCACCATTCATCCACCACTTCTTTT
AATAATTATTAATCTCGATTATGTATAGTACTTATCATTTATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no128_o06.b1 MSMg01no128_o06.b1 CHROMAT_FILE:
MSMg01no128_o06.b1 PHD_FILE: MSMg01no128_o06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:42:08 2005
         (568 letters)



>mm_chrY_1588449_1589421
          Length = 973

 Score =  462 bits (239), Expect = e-134
 Identities = 491/591 (83%), Gaps = 38/591 (6%)
 Strand = Plus / Plus

                                                                       
Query: 1   gatttcaatatcatatgaagtaccagaaaatgtgtgaaa----aattaca-gtggccaaa 55
           ||||||||||||||| |||||| ||||||||| | ||||    ||  | | |||   |||
Sbjct: 199 gatttcaatatcataagaagtagcagaaaatgagggaaaatggaagga-aggtg--aaaa 255

                                                                       
Query: 56  tgtatttagaaacgttaaactacacacttaaaaataaataaatcaatggatttatttagg 115
           ||| ||||||| | ||| | ||||||||||||||||||||  ||||||||||| ||||| 
Sbjct: 256 tgtgtttagaatcattacattacacacttaaaaataaatatgtcaatggatttctttagt 315

                                                                       
Query: 116 atataaataaaactccaataaaacttctgaaaaggcttaaccaaatgtgatga-ttctca 174
           || ||||| | ||| ||||||| || ||||||||||||  |||| |||||| | ||||| 
Sbjct: 316 atgtaaattatacttcaataaagctgctgaaaaggcttggccaactgtgat-acttctcg 374

                                                                       
Query: 175 tgtgagttgttatttgtcatagcacctgtgatttagctgttaatagtagtgggttttatt 234
           ||||||||| ||| |||||||||| ||||||| |||||||||||||||||||||||||||
Sbjct: 375 tgtgagttggtatgtgtcatagcatctgtgatgtagctgttaatagtagtgggttttatt 434

                                                                       
Query: 235 acttatgaatcagacaccaatacatccatgaaggggtaacactcca-ttccctcaggata 293
           ||  |||||||||||||||||| | |||||||||| |||||||||  ||||||||||| |
Sbjct: 435 acagatgaatcagacaccaatataaccatgaagggataacactccccttccctcaggaga 494

                                                                       
Query: 294 aagaaatcaattaaaagtcattggattttttgatgagaatttttctggtcaaagctgagt 353
           ||||||| || ||||| ||||||||||| |||||||| ||||||||||||| ||||||||
Sbjct: 495 aagaaatgaagtaaaattcattggatttcttgatgaggatttttctggtcatagctgagt 554

                                                                       
Query: 354 tggcaggaagttggacagattggggtgtctccc----agtaagtgtaacacacattagaa 409
           |||||||||||| || ||||||||||| | |||    ||||||||||||||||| |||||
Sbjct: 555 tggcaggaagttagatagattggggtgccccccccccagtaagtgtaacacacactagaa 614

                                                                       
Query: 410 tgt--aggtgttgtgaggctataagacatattcactacttgtcacctattattgagtatt 467
           |||  ||||  |||||||||||| |||||||||||| | |||||||||||||| || |||
Sbjct: 615 tgtggaggt--tgtgaggctataggacatattcacttcatgtcacctattattaagaatt 672

                                                                       
Query: 468 cttgctggaggaggtacttacccttcacttctgccat--aa----------cta------ 509
            ||||||| | ||||| ||||||||| ||| || |||  ||          |||      
Sbjct: 673 tttgctggtgaaggtagttacccttcccttatgtcatgcaagaaattgagtctatgcaga 732

                                                              
Query: 510 gacagaag-gaggagattgtgatgagtaatgtttgtgtgggttatggagta 559
           |||||||| |||||||| ||| |||||||||||||||||||||||||||||
Sbjct: 733 gacagaagagaggagatggtgttgagtaatgtttgtgtgggttatggagta 783


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: 9
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: 568
Length of database: 973
Length adjustment: 10
Effective length of query: 558
Effective length of database: 963
Effective search space:   537354
Effective search space used:   537354
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)