BAC Information

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BAC

Clone NameMSMg01-278H18
ChromosomeY (Build37)
Map Location 2,488,081 - 2,488,397
singlet/doubletsinglet
Overlap geneLOC667217
Upstream geneUbe1y1-ps2, LOC667137, 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
Downstream geneLOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-278H18.T7 (MSMg01no278_h18.b1)MSMg01-278H18.TJ (MSMg01no278_h18.g1)
ACCAG416097AG416098
length745748
length of high quality
(start - end)		302 (435 - 736)333 (385 - 717)
definitionCHROMAT_FILE: MSMg01no278_h18.b1 PHD_FILE: MSMg01no278_h18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:18:49 2005CHROMAT_FILE: MSMg01no278_h18.g1 PHD_FILE: MSMg01no278_h18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:18:49 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCAATCTGGAGATCAGGCTGGCCTTGAACTCATAAATTTGCCTGCCC
CTGCCTCTGCCTACCAAGAGCAGGGATAAAAGGTATGCACCACTACACTG
TCTTATTTATTATTCTGCTATTAACTTATTGTGTCTAGGTGGTTGTTTTC
AATCTATTTTGTTTTATTTTATTTTATGAGGCATTTTCTTTATTTTCATT
TCAAATGTTATCCCCTTCCCTGGTTTCCCCTCTGAAAACCCACTATGCCA
TCCCTCCTCTCAGTAATCATCTAAATACCCACTCCTACTTCCTAGTCCTG
ACATTCCCTTACTCNTTTCCCCAGACCCTCCTCTTGAACAGGAGCTTCAC
CTCTCACTGATGTCCAAATAGGCCATTAACATGCTACATGTTAGCTGCAG
CCATGGGCCCCGCCCTATGTACTCTTTGGTTGGTCTTTTTTTAATTGTAT
ATTTTCTTTATATACATTTCAAATGATGTCCGTTTTCAGTTTCCCACCCT
TCCAGAAACCCTCTATCCCATCCCCTCCCCACTCTTTCATGAGGGTCTTC
CTCCATCTGGATACCCATTCCCACATCGCATTGTGGTGGCTAGCAAGGTT
ACCTCTCTGTCTCCTCATCATTCTACAGCATATTGGTGATCCTGTGGATG
ATGGGGAACAGAACACTGGATTCTGACCATTGCAGAGTACCATCN

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXAGAAAACTGCAGAGGTTGCTTAC
TGCAAGAAGGTATTCTGCAAAAGCCATAGATGATAAAAGTACTGAAATAT
CTATCAGTGCTCTACAATATTATATTCTAGGTGATGAAATTTCTCTTTCT
CTCTGTCTCTGTGTCTCTGTGTCTCTGTCTCTATCTCTATGTCTGTCTGT
CTGTTTGTCTCTCTCTCTCTCTCTCTCTCTCTCTCAATTTCTATTTCTCT
AATACTTATTATGAATTATGATTCTTTTATCTTATTCCCTCCAATGGGAA
TGATATTGGAATGTTTTCTGTAACACTCACTCACATTCCTACACAATTTG
TGCTTTCTATTAACAATCAACTAATATCAAAATCACACATTCACTCAGAT
TACAAAATAAGATATCTGAGCTCATGTAAAGTGATATTCTGAATCAGAGT
AGGGGAAGGGCACTTCCAATGTGTAGTTTCACTCAAGAGCATGGCTTTTA
AGAACTGGTCAATTGGAAGAAGATGAGACAATGTATAGAAGAGGGTGTTT
CTTTTGGTTTAGTTTGGTTTAGCTTTGTTTCTTTAGGTTACCCACAGTCA
TTTTAAGAAACATTGAGAAACACTGTTTATTACCTATATCTTGAACTGAA
TGTGAATAGGTCCCTTAAAACCAACGTTATATTTCTCCGTTACAATAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no278_h18.g1 MSMg01no278_h18.g1 CHROMAT_FILE:
MSMg01no278_h18.g1 PHD_FILE: MSMg01no278_h18.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:18:49 2005
         (333 letters)



>mm_chrY_2487880_2488603
          Length = 724

 Score =  294 bits (152), Expect = 5e-84
 Identities = 282/330 (85%), Gaps = 17/330 (5%)
 Strand = Plus / Plus

                                                                       
Query: 2   ttcctacacaatttgt-gctttctattaacaatcaactaatatcaaaatcacacattcac 60
           |||||||||| ||| |  |||||| ||| |||||||||||||||||| ||||||||||||
Sbjct: 202 ttcctacacagttt-tcactttctcttaccaatcaactaatatcaaagtcacacattcac 260

                                                                       
Query: 61  tcagattacaaaataagatatctgagctcatgtaaagtgatattctgaatcagagtaggg 120
           ||||||||||||||||| |||| ||||||||||||| || ||||||||||||||||| ||
Sbjct: 261 tcagattacaaaataaggtatccgagctcatgtaaactgctattctgaatcagagtacgg 320

                                                                       
Query: 121 gaagggcacttccaatgtgtagtttcactcaagagcatggcttttaagaa-ctggtc-aa 178
            ||||  ||||||||||||||||| |||||||||||||||| |||| ||| |||| | ||
Sbjct: 321 aaaggatacttccaatgtgtagttacactcaagagcatggccttta-gaaactgg-cgaa 378

                                                                       
Query: 179 ttggaagaagatgagacaatgtatagaagagggtgtttcttttggtttagtttggtttag 238
           |  | ||||||||||||||||||||||||||| ||| |||||||||||     |||||||
Sbjct: 379 tcagtagaagatgagacaatgtatagaagaggttgtctcttttggttt-----ggtttag 433

                                                                       
Query: 239 ctttgtttcttt-aggttacccacagtcattttaagaaacattgagaaacactgtttatt 297
           |||||||| ||| || ||||||| | ||||| |||||||||     ||||| |||||| |
Sbjct: 434 ctttgtttattttag-ttacccaaaatcattataagaaacac----aaacagtgtttaat 488

                                         
Query: 298 acctatatcttgaactgaatgtgaataggt 327
            |||||||||| |||||||||  |||||||
Sbjct: 489 gcctatatcttcaactgaatgcaaataggt 518


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: 4
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: 333
Length of database: 724
Length adjustment: 9
Effective length of query: 324
Effective length of database: 715
Effective search space:   231660
Effective search space used:   231660
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)


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