BAC Information

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BAC

Clone NameMSMg01-292M06
ChromosomeY (Build37)
Map Location 1,796,391 - 1,796,674
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137
Downstream geneLOC100039450, 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, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-292M06.T7 (MSMg01no292_m06.b1)MSMg01-292M06.TJ (MSMg01no292_m06.g1)
ACCAG421399AG421400
length745738
length of high quality
(start - end)
313 (45 - 357)603 (76 - 678)
definitionCHROMAT_FILE: MSMg01no292_m06.b1 PHD_FILE: MSMg01no292_m06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:27:55 2005CHROMAT_FILE: MSMg01no292_m06.g1 PHD_FILE: MSMg01no292_m06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:27:55 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCCAGAAAGCAATTTAGTAGATTTGATTAATGTCTCCTTACATCACAT
AGATATTTTCTACAGTGCATATAAGCACATATATTTTAGAATATACTGAA
ACTTAAAAATGTAAATTAAAAAAAAAACAAAAACCTCTACCAACTTCAAA
TTAAAAAAACACATTTATTTTAGAATTCTCTAGGATACTCGCAATTTCCT
GTATTCCCTACTCATGATGTCCATATGTTAGCATCTTACAAATTTGTATG
ACAATAATGAGGAGAAAATAAAATTTGTAAGGAAAAAAAAAGACAGTTTT
GTCTTATATTACTTATTACCACCCGCCTGGGCCACAAACTGTGGCTTATT
CCCAGAATAACGTATTTAACACATTCAAAATATTTTATGTTTTGTTCATT
TTTAGTTACCCCTTTATCTATTTACTTAGCATCTTCCTAAATATCTCCCT
TAGCATATGTGCCATCATCTGTCCCTGAATCTGTTTATTCTCCTAATATT
TCATAGAATACTCTCTTTTTGAAAAGTCTCACCTCATATTTTCTTCCTCA
GCTCATTTGTCATACACATTATTTAATTGACAGATGATGTTTATAAGAGA
GTCTCAAAATTTGGGGCACTAATAACAACTAAATATCTCATTTAAAATAT
ATAAAGTAGGTTTTGTGTATGCCACATGGCTTCAGTACTTGTGAT
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXCATGACAACCAGGGCTAAACAGAGA
ATCCCTGCCTCGAAAAAACAAAAAACAATAAACAAATAAAGAGAAAATGA
ATGACACACAGGCATACAGAAGAGGACTGGTCCCAAAGACAGCTCTGTCC
TAAATATACTAGAGCACATTGCTTCACAAAATGAATTCTGAACATGCTCT
CACATAGTGCATTTGAATATACTTTCTAGGTTAACCCCATATGATCACAA
GAAACAAAAGGTAACAAGAAGATCAGAGTCAGAAGTATATCTCAGACTCA
TGTCAAAGACAGTCTGGGAGGCAAACCATGCTTCGGTTTTCAAAGTTCCA
GAGAGTGGTTCTCCACCTTTTTAATACTGCGGTTCCTTCATATATATACT
TCCTTATGCTGTGTGGTGCCCCAACCGTAAAACTATTTTTTGCTGCTTCA
TAACTGAAATGTCCTACTGATATGAATTGTAACATACATTTCTGACATAC
AGATAGTCTTAGACAACTCCTGTGAAATTTGTCACAAGGACTAGCAACCT
ACAGGTTGCCAACCACAGTGCCAGCAACTAGGAAAACTAGCCAGCCCCTT
GATTTTTACAATGTTGCCTTCCGTAACTGTGGTAGAATAGATGTGCTCTA
TTTTAGTGTTCTAAGCATGTGAGGATCTGCACCACTAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no292_m06.b1 MSMg01no292_m06.b1 CHROMAT_FILE:
MSMg01no292_m06.b1 PHD_FILE: MSMg01no292_m06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:27:55 2005
         (313 letters)



>mm_chrY_1796180_1796891
          Length = 712

 Score =  188 bits (97), Expect = 5e-52
 Identities = 242/295 (82%), Gaps = 17/295 (5%)
 Strand = Plus / Plus

                                                                       
Query: 8   ttccagaaagcaatttagtagatttgattaatgtctccttacatcacatagatattttct 67
           ||||||||||||  ||| | || |||| || ||||| || |||||||| | |||||||||
Sbjct: 212 ttccagaaagcagcttacttgagttgacta-tgtcttctaacatcacaaaaatattttct 270

                                                                       
Query: 68  acagt-g-cata-t-aagcacatatattttagaatatactgaaacttaaaaatgtaaatt 123
           || || | |||| | || |||||||||||||||| |||| ||||||| |||||| |||| 
Sbjct: 271 acggtagacataatgaa-cacatatattttagaaaatacagaaacttgaaaatggaaatg 329

                                                                       
Query: 124 aaaaaaaaaacaaaaacctctaccaacttc--aaattaaaaaaacacatttattttagaa 181
            |||||||  |      ||||||  ||||   || |||||||  ||||||||||||||||
Sbjct: 330 gaaaaaaattc------ctctactgacttttgaatttaaaaa--cacatttattttagaa 381

                                                                       
Query: 182 ttctctaggatactcgcaatttcctgtattccctactcatgatgtccatatgttagcatc 241
           ||||||||| || | |||||||||  ||| |||||||||||| |||||||||||||||||
Sbjct: 382 ttctctagggtatttgcaatttcccatataccctactcatgacgtccatatgttagcatc 441

                                                                  
Query: 242 ttacaaatttgtatgacaataatgaggagaaaataaaatttgtaaggaaaaaaaa 296
           ||||||||||||||| ||||||||||||| || |||  ||| |||| ||||||||
Sbjct: 442 ttacaaatttgtatggcaataatgaggagtaattaacctttttaag-aaaaaaaa 495


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: 6
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: 313
Length of database: 712
Length adjustment: 9
Effective length of query: 304
Effective length of database: 703
Effective search space:   213712
Effective search space used:   213712
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)