BAC Information

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BAC

Clone NameMSMg01-411P04
Chromosome5 (Build37)
Map Location 134,766,459 - 134,766,949
singlet/doubletsinglet
Overlap geneGtf2i
Upstream geneLOC100039731, LOC666038, LOC100039750, Gats, Wbscr16, Gtf2ird2, Ncf1
Downstream geneLOC630424, Gtf2ird1, LOC100039820, Clip2, EG666071, Gm52, Rfc2, Lat2, Eif4h, LOC638081, Limk1, Eln, Wbscr28, Cldn13, Wbscr27, Cldn4, Cldn3, Abhd11, Stx1a, Wbscr22, Wbscr18, Vps37d, Mlxipl, Tbl2, Bcl7b, LOC100040069, Baz1b, Fzd9
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-411P04.T7 (MSMg01no411_p04.b1)MSMg01-411P04.TJ (MSMg01no411_p04.g1)
ACCAG508838AG508839
length757751
length of high quality
(start - end)
601 (49 - 649)482 (76 - 557)
definitionCHROMAT_FILE: MSMg01no411_p04.b1 PHD_FILE: MSMg01no411_p04.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:29:09 2005CHROMAT_FILE: MSMg01no411_p04.g1 PHD_FILE: MSMg01no411_p04.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:29:10 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
NNCCTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCAGAGATTTTTCTGCCCCTGCCTCCTGAGTGCTGGGACTAAAG
GCGTGCGCCACCACTGCCCGGCAGGATCTTGTAGATTCCTTTTTGTTATG
ATCACCTATCATGTAGCCCAAGCTGCCCTCAAACTCACGTTGTTGCTTAG
GATGACTTTGTCCTCGAAGTCCTCGCGTCGGTTACTGTGCCATATCATCT
GGTTTTATGTGGGGCTGAAGGTCAAACCCAGGGCTTCAAGCAAGCACGCT
GGACAGCCATTCTATACACTGACTGAATTATATCCCTAGTGAAACTGAGT
GTTTTCACTTTTTGAGACAGGATCATATGGGCCAGCCAGGCTTCAAACTC
TCAGAAATCCTCTTGCTTCGAACTTCCAGGCCCTAGTATTATAGATGAAA
GCCACTAAGCCTAACTCTTTATAATATATATATATATACTAATTACAGGG
ATTCTCTAAGTTCAGACTGGGCTAGAATTCTCTATGATGCTCAGTCTGAC
ATGAACTCCCAATCCTCCTGTCTCCGTCTCCTGAGTGCTGAGACTACAAG
CACATTCTATCATGTCCTGCATCTATTTACCTTTTACTTACTGAATTTGA
GGCACAGTCTCCCTGAGTGGTTTGAGGACTTGTCTGGNACATGTCTCTCT
GCTGGGCTTATCCCANCAAAGGGCTAACCCAAGATTCAGGGGAACACCTG
GGTACCA
CGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXCATGCATACTACCCAGGTGCCCTAG
CACTGAGACACTGCCAGCCCCAACCCCAGAAGGACTAAAAATGCTCTGGA
GGCCAAGATGGCAGGAACAGAGTTCAAAGCCTGCACAATGAAACTGGCTA
AAGAGGTAAGAAGGAAGACGAGAGAACTTGAAGGAACAGTAGGGAATTAA
ATGAATTAACTAAACAAGGCTATCTGCGAGCACTGCTGACCCTCGGGCCC
CTCACGCTTGGATCTTACAGACAGGTTTTATGGTTTTGCTTTGTCTGAGT
GTGATTTAGCGTAGACGCAGTGGCATTCGCATGCATGCCCTGACCCTGTC
CACAGGGCTGACGTACTTACTGATACAACACTGTAGCACATAACACATAG
CTCTCTAATGCCTGGGCACGGTAGCTCATGCCTCTAACCCTGGGGAGATT
GGGCTACCCTGGTCTACAGGGTCAGTTCCAGGCCAGCCAGGGATATACAG
AGAGACCTCACAAATCAAACAAAAAACCCTTCTACCTTCTCTCTGGTGTT
CTAACCCTAACCTTAACCTTATAANAGTTAAAGATTCCGAGAGGAAAGCT
TATCTATCCCTGTTTCCAGTCCAAGACGCAGCAGCTGATGAGACTCCTCT
GGGGAAACCTATCCCAGGTATAAGGAGCACAGTCAGCCGTGGGTCCAGGC
G
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no411_p04.g1 MSMg01no411_p04.g1 CHROMAT_FILE:
MSMg01no411_p04.g1 PHD_FILE: MSMg01no411_p04.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:29:10 2005
         (482 letters)



>mm_chr5_134766259_134767140
          Length = 882

 Score =  721 bits (373), Expect = 0.0
 Identities = 453/511 (88%), Gaps = 49/511 (9%)
 Strand = Plus / Plus

                                                                       
Query: 1   catgcatactacccaggtgccctagcactgagacactgccagccccaaccccagaaggac 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 catgcatactacccaggtgccctagcactgagacactgccagccccaaccccagaaggac 260

                                                                       
Query: 61  taaaaatgctctggaggccaagatggcaggaacagagttcaaagcctgcacaatgaaact 120
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 261 taaaaatgctctggaggccaagatggcaggaacagagttcaaagcctgcacaatgagact 320

                                                                       
Query: 121 ggctaaagaggtaagaaggaagacgagagaacttgaaggaacagtagggaattaaatgaa 180
           ||||||||||||||                    ||||||||||||||||||||||||||
Sbjct: 321 ggctaaagaggtaa--------------------gaaggaacagtagggaattaaatgaa 360

                                                                       
Query: 181 ttaactaaacaaggctatctgcgagcactgctgaccctcgggcccctcacgcttggatct 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 ttaactaaacaaggctatctgcgagcactgctgaccctcgggcccctcacgcttggatct 420

                                                                       
Query: 241 tacagacaggttttatggttttgctttgtctgagtgtgatttagcgtagacgcagtgg-- 298
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||  
Sbjct: 421 tacagacaggttttatggttttgctttgtctgagtgtgatttagcgtagacgcagtggct 480

                                                                       
Query: 299 ---------------------------cattcgcatgcatgccctgaccctgtccacagg 331
                                      ||||||||||||| |||||||| | ||||||||
Sbjct: 481 gctgctgccctggccttggcacagcaccattcgcatgcatcccctgaccttatccacagg 540

                                                                       
Query: 332 gctgacgtacttactgatacaacactgtagcacataacacatagctctctaatgcctggg 391
           ||||| ||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 gctgatgtatttactgatacaacactgtagcacataacacatagctctctaatgcctggg 600

                                                                       
Query: 392 cacggtagctcatgcctctaaccctggggagattgggctaccctggtctacagggtcagt 451
           || |||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 catggtagctcgtgcctctaaccctggggagattgggctaccctggtctacagggtcagt 660

                                          
Query: 452 tccaggccagccagggatatacagagagacc 482
           ||||||||||||||||||| |||||||||||
Sbjct: 661 tccaggccagccagggatacacagagagacc 691


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: 19
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 1
Length of query: 482
Length of database: 882
Length adjustment: 10
Effective length of query: 472
Effective length of database: 872
Effective search space:   411584
Effective search space used:   411584
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)