BAC Information

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BAC

Clone NameMSMg01-088H15
ChromosomeY (Build37)
Map Location 1,649,989 - 1,650,226
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, 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, EG631479, LOC667244
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-088H15.T7 (MSMg01no088_h15.b1)MSMg01-088H15.TJ (MSMg01no088_h15.g1)
ACCAG307223AG307224
length711698
length of high quality
(start - end)
48 (127 - 174)236 (104 - 339)
definitionCHROMAT_FILE: MSMg01no088_h15.b1 PHD_FILE: MSMg01no088_h15.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:40:57 2005CHROMAT_FILE: MSMg01no088_h15.g1 PHD_FILE: MSMg01no088_h15.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:40:57 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCACACAGTTCGATTCTTTTCAACTGCTTAAGAGCAGGAATGCCTCAATG
CTACAGGAACCCCAGGAACCCAGGGAGGACTGCTTAAATACACCCCAGCA
CTGGAGAGGGCTATGCGTCCTGCTAGGGTTGTTCAGTCTGCACACATGTA
AATTTGCATGCACCCACTCAAGAGGGGTTGGCGCCAGATTTGGTCTAGCA
CCTGCTCAGTGGTGTTGTTTACTGCGATGGTGTACCGGAGACCAGCACCA
TCTTTTAGCTGCTGCCTGCCTACGGCATGAACAGATTTTTTTTTTTTAAC
TACTTGCTTGTACTGATCTTCCCCTGCTTTGTGTTACCAGACTGCGAATT
CTGTTTATCTACTGAATTTGTCTGACTCATGTGGAATAAGGATTTACTTG
TACCCAACTCCGTTTGCCACATCCACTTTTCAGGAATGAAAAAAATCACA
TACTCCATCTACCAACATGGGAGACATTATTTTATGATACGCAGTTTTCC
CCACGAGTGGAATGACAAGACCACCAAAACCCTCCCTTAGAACAGGCACC
AATGATCCGAAAGTTACTATTCTCTATCCCATGACAACCAGTGCCACTAA
GTTTATAAGTCTCTGCACAACGACAATATGGCTTGATCTATTCATTGAAA
CAGTGTCAGCC
GXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXAGAAACATACAGAGGCTGTGTACTGCAAGCAGGTCTTCTGTTTAAC
GACTATATAATATAAGTACTAAAATTGATATCAGTGCTCTACAATATTCT
ATTCTATGTGATGAAATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAATA
TATATATTCCTCTAACACTTAGTATGAATAAAAATTCTCTTATATTCTCT
CCTACAAAGGAGATGATATTGGCATGTCATCTGCAACATTCATTCACTTT
CCTACACAGTTTGTGCTTTCTCTTAGCAATCAACTAATATCTAAATCACA
CATGCTCTCAGATTACAAAGTAAGGTATCTGAGCTCATACAAACTGTTAT
TCTGAGTCAGAGTAGTTGGAGGACAATTCCAAACTGTATTTACGTCCAAG
AGCATGGACTTTAACAACTTGTGAATCAGTAGAAGAGACAATGTATATAT
GCGTATGTTTCTTTTGGTTTGGTTTGGTTAAGCTTATTGTGGTTACCCAT
AATCATTATAAGAAATACAGAGAAACACATTTTAATGCCTGTATTTTGAA
CTGAATGCATTCTGGGCCCTTTATAACCAACACTATATTTCTGTTACAAT
ATCCAATACAACTTTTTAAAGATTTCTTTTATTTATTACCTATTATAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no088_h15.g1 MSMg01no088_h15.g1 CHROMAT_FILE:
MSMg01no088_h15.g1 PHD_FILE: MSMg01no088_h15.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:40:57 2005
         (236 letters)



>mm_chrY_1649791_1650426
          Length = 636

 Score =  228 bits (118), Expect = 2e-64
 Identities = 206/246 (83%), Gaps = 25/246 (10%)
 Strand = Plus / Plus

                                                                       
Query: 8   tataagtactaaaattga--tatcagtgctctacaatattctattctatgtgatgaaa-- 63
           |||||||||| ||||  |  |||||||| ||||||||||||| ||||| |||||||||  
Sbjct: 199 tataagtactgaaat--atctatcagtgttctacaatattcttttctaggtgatgaaatt 256

                                                                       
Query: 64  ---------tctctctctctctctctctctctctctctcaatatata-tattcctctaac 113
                    ||||||||||||||||||||||||||||||||||   | || |||||||||
Sbjct: 257 ctctctctctctctctctctctctctctctctctctctcaata---actactcctctaac 313

                                                                       
Query: 114 acttagtatgaataaaaattctcttatattc--tctcctacaaaggagatgatattggca 171
           || |||||||||| |  |||||||||| |||  ||||  ||||||| | ||||||||| |
Sbjct: 314 acatagtatgaatgatgattctcttatcttctgtctc--acaaaggggttgatattggaa 371

                                                                       
Query: 172 tgtcatctgcaacattcattcactttcctacacagtttgtg-ctttctcttagcaatcaa 230
            ||||||||||||||||||||||||||||||||||||| |  ||||||||||||||||||
Sbjct: 372 cgtcatctgcaacattcattcactttcctacacagttt-tcactttctcttagcaatcaa 430

                 
Query: 231 ctaata 236
           ||||||
Sbjct: 431 ctaata 436


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: 16
Number of extensions: 9
Number of successful extensions: 9
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 236
Length of database: 636
Length adjustment: 9
Effective length of query: 227
Effective length of database: 627
Effective search space:   142329
Effective search space used:   142329
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)