BAC Information

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BAC

Clone NameMSMg01-482M01
ChromosomeY (Build37)
Map Location 2,861,903 - 2,862,479
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-482M01.T7 (MSMg01no482_m01.b1)MSMg01-482M01.TJ (MSMg01no482_m01.g1)
ACCAG562843AG562844
length748639
length of high quality
(start - end)
633 (77 - 709)575 (53 - 627)
definitionCHROMAT_FILE: MSMg01no482_m01.b1 PHD_FILE: MSMg01no482_m01.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:03:43 2005CHROMAT_FILE: MSMg01no482_m01.g1 PHD_FILE: MSMg01no482_m01.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:03:44 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCGCACAGGATCCGCGG
AATTCACTAATTATCGCTACCTCTTCAGTGACATTCAGATTTACCTCTAG
TACAGTAAGAGAGATAATGAAAGAAATCAGGCATTACTATTTGCTCCACA
GAGTTAGAATTCTCAGGGCAAAATACTACCATGTGCAAGAATTTACTATT
ATCTAGGAATAAGGAAGGTTGTGTTATAAGAAGAAACCAGAATAGATACT
TAGAACTATAGAGAGTTGATTTTCAAACATACAAGGAATTTACAATGACC
TAGGGGGTTCGGGTTCTATATGATAGACTAGAAGAGGAACTATTGCAAGG
GCACAAAACCATTGCCTATGACTTCTAAGATTAAGCAAACCTTAGGGAAG
GCTACTTTTTTTTTTGATCCCAGTTTTTAACATTGAATTTTATCCCAATT
GTTCCCTGCCAGACCTTTGTAGGCATTCCTCTATTTTGTGTAAAAGTCAC
TTATAAGGCTACTGCTCCCTTTGAGACAAATTACATTCAGATCCACACTC
CTTTGTGTCCTGTCTGTTTCTCAGCCTCCCTTCTTGGCAAATCCTTGCCC
ACCTGTACTCAGAACCTGAGCTATGCTCATGGAGCAAGGACCCACGTGAG
GTTTGTCTGTGGCAAGCTACCTTTCAGTTGACTAANATTATATCATATAT
ATATATACACTCCAGCTCTATTCAGGTACCCCAGAAGAAGGCATTAAN
CCCATTTTGACTTGGCANGTGAANNANAGCAGGTAAGGCTATTGGGCGTA
NAAACAAACTGAAGACTANTCTTCATTTTCCTTTACCTTGTTTTGAAAGG
CCAGATTTCCAAAATTTGTATATATAGGCGTCAAAGTGCTTCCAAATCCA
GAGGCTCCTCTCAACCTCAGAAGAGCTGGTACTTCAAACATAATTCAGGG
ACGGCTGTGTTTATGTATGTGTTGTTTTGGTATAGGAAGGTAAGCTCTAA
CTATATTTCAGTATTATCTCAAAGCACATGTGCAGTGTGGACTGTCCTTG
AAGATGATGTACTCANCCTTACAAATTTACTGGGGCCTAAGGAAACATGT
CTTCTATATTTTTTATATATAAATTTTATTTTTTATTTATTTATTTTTTC
ATTGTTGAATATTGAATGCAGAGCTTCTTTGTGTANCATTAAAATATAAN
TCCAGTCAGGCGAAAAGTATTTCATTAATATTTGCAAAAAAAAAAATTTT
ATATATCTTGTTGTATTACCAACCAANAACAAAATCTCCAGTAACTAATG
ATAATTANAATGCAAATTCTGAAAAANTAATTGGATATACACTGTAATAT
GTTCAAACTTATTATTTCCTTCTTAGTGTAAGTATTGAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no482_m01.g1 MSMg01no482_m01.g1 CHROMAT_FILE:
MSMg01no482_m01.g1 PHD_FILE: MSMg01no482_m01.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:03:44 2005
         (575 letters)



>mm_chrY_2861705_2862679
          Length = 975

 Score =  746 bits (386), Expect = 0.0
 Identities = 527/589 (89%), Gaps = 26/589 (4%)
 Strand = Plus / Plus

                                                                       
Query: 1   aacaaactgaagactantcttcattttcctttaccttgttttgaaaggccagatttccaa 60
           |||||||||||||| | ||||||||||||||||||| |||||||||||||| ||||||||
Sbjct: 199 aacaaactgaagaccagtcttcattttcctttacctggttttgaaaggccatatttccaa 258

                                                                       
Query: 61  aatttgtatatataggcgtcaaagtgcttccaaatccagaggctcctctcaacctcagaa 120
           |||||| ||||||||||| | |||||||||||||||||||||||||||||||||||||||
Sbjct: 259 aatttgcatatataggcgcctaagtgcttccaaatccagaggctcctctcaacctcagaa 318

                                                                       
Query: 121 gagctggtacttcaaacataattcagggacggctgtgtttatgtatgtgttgttttggta 180
           |||||||||||||| |||| |||||||||           | ||||||||||||||| ||
Sbjct: 319 gagctggtacttcagacatgattcaggga-----------aggtatgtgttgttttgata 367

                                                                       
Query: 181 taggaaggtaagctctaa--ctatatttcagtattatctcaaagcacatgtgcagtgtgg 238
           ||||||||||||||||||  || ||| ||||||||||||||||||||||||||| | |||
Sbjct: 368 taggaaggtaagctctaactctgtatctcagtattatctcaaagcacatgtgcaatttgg 427

                                                                       
Query: 239 actgtccttgaagatgatgtactcanccttacaaatttactggggcctaaggaaacatgt 298
           |||| ||||||| |||| ||||||| ||||||||||||||||| ||||||||||||||||
Sbjct: 428 actggccttgaaaatgaagtactcagccttacaaatttactggagcctaaggaaacatgt 487

                                                                       
Query: 299 cttctatattttttata-tataaattttattttttatttatttattttttcattgttgaa 357
           |||||||| |||||||| | ||||||||||||||||||||||||||||||||||||||||
Sbjct: 488 cttctatactttttatact-taaattttattttttatttatttattttttcattgttgaa 546

                                                                       
Query: 358 tattgaatgcagagcttctttgtgtancattaaaatataantccagtcaggcgaaaagta 417
            ||||||| ||||||||||||||||| ||||||||||||| |||||||||| ||||||||
Sbjct: 547 gattgaatccagagcttctttgtgtagcattaaaatataagtccagtcaggtgaaaagta 606

                                                                       
Query: 418 tttcattaatatttgcaaaaaaaa-aa--------att--ttatatatcttgttgtatta 466
           |||||||||||||||||||||||| ||        |||  ||||||||||||||||||||
Sbjct: 607 tttcattaatatttgcaaaaaaaataataataataattgtttatatatcttgttgtatta 666

                                                                       
Query: 467 ccaaccaanaacaaaatctccagtaactaatgataattanaatgcaaattctgaaaaant 526
           ||||| || |||| |||| |||||||||||| ||||||| ||||||||||||||| |  |
Sbjct: 667 ccaactaagaacagaatcgccagtaactaattataattagaatgcaaattctgaagaggt 726

                                                            
Query: 527 aattggatatacactgtaatatgttcaaacttattatttccttcttagt 575
           ||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 727 aattggagatacactgtaatatgttcaaacttattatttccttcttagt 775


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: 20
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 575
Length of database: 975
Length adjustment: 10
Effective length of query: 565
Effective length of database: 965
Effective search space:   545225
Effective search space used:   545225
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)