BAC Information

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BAC

Clone NameMSMg01-169B04
ChromosomeY (Build37)
Map Location 1,593,207 - 1,593,526
singlet/doubletsinglet
Overlap geneLOC667137
Upstream geneDdx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2
Downstream geneLOC100039373, 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 nameMSMg01-169B04.T7 (MSMg01no169_b04.b1)MSMg01-169B04.TJ (MSMg01no169_b04.g1)
ACCAG366057AG366058
length742720
length of high quality
(start - end)
318 (45 - 362)45 (236 - 280)
definitionCHROMAT_FILE: MSMg01no169_b04.b1 PHD_FILE: MSMg01no169_b04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:38:41 2005CHROMAT_FILE: MSMg01no169_b04.g1 PHD_FILE: MSMg01no169_b04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:38:41 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTATATATGACAGAGGCAACAGCATTGTGTCTGGCGTAAACGGGCAA
GATCTTCAGTCCCAGGCAATGAGCAAGTATGATATTTGAAGGGAATGGAA
GCCACAAGACAGTGTGATCTACCACAACAGGTCTACAGCCAGGTAGAAGA
CAATACATCTGAAGAGTCTGAGCATGACATCACTCAAGAAGAAGAGTAGG
AGGAAGCCTTCTTCCCAGGCCCTGGGGAATATTGTTGGCTGCAGAATTTC
TCACGGGTGGAAGGAAGGTAATGAGCCTGTCACCCATTGGAAGGCCATCA
TTCTAGGTTTTTTGTTAACACCCCCTCCTCTTTATTTGGTGAAGTATGAC
GGAATTGACAGTGTCTACGGACAGGAGCTCCACAGCGATGAGAGGATTTT
AAATCTTAAGGTCTTGCCTCACAAAGTAGTTTTTCCTCAGGTGAGGGATG
TCCACCTCGCAGGCGCACTGGTTGGCAGAGAGGTACAACACAAATTTGAG
GGGAAAGATGGCTCTGAGGACAACTGGAGTGGGATGGTGCTAGCCCAGGT
GCCATTCTTACAGGACTATTTTTACATTTCCTACAAGAAGGATCCGGTCC
TCTACGTCTATCAGCTCCTGGATGACTACAAGGAAGGTAACCTCCCCATC
ATTTCAGAGAACCCCTCTGGCTGAGGCGAGATCAGGTGATAA
AGTCATGATATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTCTGTATAGGAATGGATACTTTGTCT
CATGGAAAAGGGAAGGGGGAATTCCCTGGGGTTACTAAAATAAAAAAAGT
TGAAAACAGCCAAGGAAAAGGGGGCAAGTCCAAGGGAATGCTGTGCATGA
GCTGCCAGGGTTCAAAAAGGCTGAGCCATCACTTCAAATTCATTAAAATA
TTTAAAGAAAAAAACCAAAAAAAAAAACTTAGGGGAACTGTTGGGAATTT
TAAGGAAACATTTTTAATTATTTTAACTGATTAATATAACATAGGCCAAA
GGGGGGGTCCAGTTTTTTATTCTTGCCCCCCCCCCCCCTTCCAAAGAATC
TTGATAATAACTCCCAAAGACGGGATTAACAATACAGAACATTCAAATCC
TTATTGGAACTTTCCAATCCCTCCCGGTTTCTTTTTTTTTTTTCCTCCTC
GGAAATTGGAAATTCCGGAATAGCCCTAAATTTCGGGGCTTTCCTGGGCA
AATCAGCCAATAATTCTCCCCTCCCGGGCTTGGATCCCCAAACCCGGAAA
TTAACGCCCTTCTCAACCAAAATCTCCCCCCTTTTTTTTCAAAATTTCCT
GCCCCCAAAGTTCTTGAAAAAAAAAATGGGGGCAACCCCAACAAAATTTC
ACCCCCCAAAAATTGGCGAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no169_b04.b1 MSMg01no169_b04.b1 CHROMAT_FILE:
MSMg01no169_b04.b1 PHD_FILE: MSMg01no169_b04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:38:41 2005
         (318 letters)



>mm_chrY_1592883_1593600
          Length = 718

 Score =  294 bits (152), Expect = 5e-84
 Identities = 273/324 (84%), Gaps = 24/324 (7%)
 Strand = Plus / Minus

                                                                       
Query: 11  tatatatgacagaggcaacagcattgtgtctggcgtaaacgggcaagatcttcagtccca 70
           |||||||| |||||||||||||||||| |||||  |||| |||||||||| |||  | ||
Sbjct: 644 tatatatggcagaggcaacagcattgtatctggtttaaatgggcaagatcgtcaaacgca 585

                                                                       
Query: 71  ggcaatgagcaagtatgatatttga----agggaatgga-agccacaagacagtg----- 120
           ||||||| |||||| ||||| ||||    |  |||| || |||||||||||||||     
Sbjct: 584 ggcaatgggcaagtttgatacttgaacaca--gaat-gatagccacaagacagtggacca 528

                                                                       
Query: 121 ----tgat-----ctaccacaacaggtctacagccaggtagaagacaatacatctgaaga 171
               || |     |||||||| |||||||||||||| ||||||| |||||| ||||||||
Sbjct: 527 gggttgctgtggcctaccacaccaggtctacagccatgtagaaggcaatacctctgaaga 468

                                                                       
Query: 172 gtctgagcatgacatcactcaagaagaaga-gtaggaggaagccttcttcccaggccctg 230
           | |||||||||||||| ||||||||||||| | ||||||||||||||||||||||| |||
Sbjct: 467 ggctgagcatgacatccctcaagaagaagacg-aggaggaagccttcttcccaggctctg 409

                                                                       
Query: 231 gggaatattgttggctgcagaatttctcacgggtggaaggaaggtaatgagcctgtcacc 290
            ||||||||||  |||||||||||||||| || |||||||||||||||||||||||||||
Sbjct: 408 aggaatattgtcagctgcagaatttctcatggttggaaggaaggtaatgagcctgtcacc 349

                                   
Query: 291 cattggaaggccatcattctaggt 314
           ||||||||||||||  ||||||||
Sbjct: 348 cattggaaggccattgttctaggt 325


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: 5
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: 318
Length of database: 718
Length adjustment: 9
Effective length of query: 309
Effective length of database: 709
Effective search space:   219081
Effective search space used:   219081
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)