BAC Information

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BAC

Clone NameMSMg01-342N12
Chromosome5 (Build37)
Map Location 42,727,615 - 42,869,454
singlet/doubletdoublet
Overlap genenone
Upstream geneLOC208522, Rab28, Bapx1, A230054D04Rik, LOC384308, LOC100040588
Downstream geneEG636612, LOC433883, EG665934, Cpeb2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-342N12.T7 (MSMg01no342_n12.b1)MSMg01-342N12.TJ (MSMg01no342_n12.g1)
ACCAG456298AG456299
length712731
length of high quality
(start - end)
549 (53 - 601)475 (66 - 540)
definitionCHROMAT_FILE: MSMg01no342_n12.b1 PHD_FILE: MSMg01no342_n12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:32:28 2005CHROMAT_FILE: MSMg01no342_n12.g1 PHD_FILE: MSMg01no342_n12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:32:28 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(42,727,615 - 42,728,161)(42,868,980 - 42,869,454)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCTACAT
GCGTATATTGAATAAATGCTAAAAATTACACACACAGACACACACACACA
CAGGTATTGTTTTAAAATAAACTTTTATTTTAAATATCCTTAAATCATTA
AAATAAATGGTAAAGTGATATAAGTGCTTATAGACCCAGGACCAGTTAAA
ATCTCCCAGGTAGAAAGAGGTGAGTGGGATGCTTCGGAAACCTTGTTTTA
AAGAACACTTTGTAGTTGATGCCCAGGAGCTTGCTTTTCTATCTAAATAA
TAAATTGTTCCCACCTTCCAGGAAACAGACTGTGGGAGACTCTGAATACT
GAAAAACAAGGTCAAGTTCAGTACTTACACAAGAGGTTGGAGTGGTCAAT
GAGGAGAAGACTTTACCCTATGTCAGTGAGAGATGCTAATTCAGACTAAT
GCCATGGCTTATCCATCTTAGCTGGCTTCTCCCTTCCCTGCAGATGTTTC
TTGTTGCCGTTTTTTCAAAAGCATTGCTGGTGATTTATTTGCTCAAATGC
ATGACCACTAGCTTGTTTTGCTCCTGATGAATGATTTATTCATGATATAT
GGCCATCTGTTATGCACAGGAGACAGGGNTGCTTTATATTATTTTTGCCC
TTATTTGTTGGAGCAGGTACACAGTATGGAGTAAGAAAAATCTTCCGCTA
TAGGTATGTGTG
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXACATTGAGTTTTACTTTACAATCATTCTGGGTAGA
ATTGGATTACTGTGAACAGTTGGTTATTGGTATCGATTCAAGTTTCTTAG
AACTCTGCAGGGTACTGAGAAAAACCTCAGCCAACTGTAGATTCTTGAAT
GTGTTCTCAGTCAACATGGCTCACAAGGAAAAGCACTAAGAATACAAGTG
CAAATTCAAAGTTTCTGTCCAAAACACTATAAATGAAAAGCCTTACTTGG
TTTGGATTCTCTGGGTCTAATCTGCCCATTTTATATGAAGTGCAGCAACT
ATGTGGGCCTTCAATTATAAAGTGAAATGGAAAAACACATTATTATCATA
TTTCTATAATTAAATATATTGGAATGTAACAATAGCCTTTTTGATTCCAG
TCAACTCTGATAATCATCCAAACAAACAAACAACCACAAAAAACAAAACA
AACAAACAAACAAAAGCTTAGGAAAATATAGAAGAAAATATCAGCAGTAC
AATCAAGTTCACTAGAGTTGAGATCCCAAACTGGCTTATGCATCTTAATA
TCAGTGAAGACGAGGTACACCAAGGAGGCAAATAATAATTCAAATAAATT
GTAAAAGCAATCCCTCAGAATACTATAAAACCGACCTGGAAATTTGTTTA
AATATTACCCTTTACCTTAACGGAAGGATAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no342_n12.b1 MSMg01no342_n12.b1 CHROMAT_FILE:
MSMg01no342_n12.b1 PHD_FILE: MSMg01no342_n12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:32:28 2005
         (549 letters)



>mm_chr5_42727413_42728361
          Length = 949

 Score = 1035 bits (535), Expect = 0.0
 Identities = 545/549 (99%), Gaps = 2/549 (0%)
 Strand = Plus / Plus

                                                                       
Query: 1   gtatattgaataaatgctaaaaattacacacacagacacacacacacacaggtattgttt 60
           |||||||||||||||||||||||||||||||||||  |||||||||||||||||||||||
Sbjct: 203 gtatattgaataaatgctaaaaattacacacacag--acacacacacacaggtattgttt 260

                                                                       
Query: 61  taaaataaacttttattttaaatatccttaaatcattaaaataaatggtaaagtgatata 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 taaaataaacttttattttaaatatccttaaatcattaaaataaatggtaaagtgatata 320

                                                                       
Query: 121 agtgcttatagacccaggaccagttaaaatctcccaggtagaaagaggtgagtgggatgc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 agtgcttatagacccaggaccagttaaaatctcccaggtagaaagaggtgagtgggatgc 380

                                                                       
Query: 181 ttcggaaaccttgttttaaagaacactttgtagttgatgcccaggagcttgcttttctat 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ttcggaaaccttgttttaaagaacactttgtagttgatgcccaggagcttgcttttctat 440

                                                                       
Query: 241 ctaaataataaattgttcccaccttccaggaaacagactgtgggagactctgaatactga 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ctaaataataaattgttcccaccttccaggaaacagactgtgggagactctgaatactga 500

                                                                       
Query: 301 aaaacaaggtcaagttcagtacttacacaagaggttggagtggtcaatgaggagaagact 360
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 501 aaaacaaggtcaagttcagtacttacacaagaggttggagtggtcaatgaggagaagaat 560

                                                                       
Query: 361 ttaccctatgtcagtgagagatgctaattcagactaatgccatggcttatccatcttagc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 561 ttaccctatgtcagtgagagatgctaattcagactaatgccatggcttatccatcttagt 620

                                                                       
Query: 421 tggcttctcccttccctgcagatgtttcttgttgccgttttttcaaaagcattgctggtg 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 tggcttctcccttccctgcagatgtttcttgttgccgttttttcaaaagcattgctggtg 680

                                                                       
Query: 481 atttatttgctcaaatgcatgaccactagcttgttttgctcctgatgaatgatttattca 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 atttatttgctcaaatgcatgaccactagcttgttttgctcctgatgaatgatttattca 740

                    
Query: 541 tgatatatg 549
           |||||||||
Sbjct: 741 tgatatatg 749


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: 29
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 549
Length of database: 949
Length adjustment: 10
Effective length of query: 539
Effective length of database: 939
Effective search space:   506121
Effective search space used:   506121
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)
Query= MSMg01no342_n12.g1 MSMg01no342_n12.g1 CHROMAT_FILE:
MSMg01no342_n12.g1 PHD_FILE: MSMg01no342_n12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:32:28 2005
         (475 letters)



>mm_chr5_42868852_42869726
          Length = 875

 Score =  919 bits (475), Expect = 0.0
 Identities = 475/475 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   acattgagttttactttacaatcattctgggtagaattggattactgtgaacagttggtt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 603 acattgagttttactttacaatcattctgggtagaattggattactgtgaacagttggtt 544

                                                                       
Query: 61  attggtatcgattcaagtttcttagaactctgcagggtactgagaaaaacctcagccaac 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 543 attggtatcgattcaagtttcttagaactctgcagggtactgagaaaaacctcagccaac 484

                                                                       
Query: 121 tgtagattcttgaatgtgttctcagtcaacatggctcacaaggaaaagcactaagaatac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 483 tgtagattcttgaatgtgttctcagtcaacatggctcacaaggaaaagcactaagaatac 424

                                                                       
Query: 181 aagtgcaaattcaaagtttctgtccaaaacactataaatgaaaagccttacttggtttgg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 423 aagtgcaaattcaaagtttctgtccaaaacactataaatgaaaagccttacttggtttgg 364

                                                                       
Query: 241 attctctgggtctaatctgcccattttatatgaagtgcagcaactatgtgggccttcaat 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 363 attctctgggtctaatctgcccattttatatgaagtgcagcaactatgtgggccttcaat 304

                                                                       
Query: 301 tataaagtgaaatggaaaaacacattattatcatatttctataattaaatatattggaat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 303 tataaagtgaaatggaaaaacacattattatcatatttctataattaaatatattggaat 244

                                                                       
Query: 361 gtaacaatagcctttttgattccagtcaactctgataatcatccaaacaaacaaacaacc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 243 gtaacaatagcctttttgattccagtcaactctgataatcatccaaacaaacaaacaacc 184

                                                                  
Query: 421 acaaaaaacaaaacaaacaaacaaacaaaagcttaggaaaatatagaagaaaata 475
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 183 acaaaaaacaaaacaaacaaacaaacaaaagcttaggaaaatatagaagaaaata 129


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: 26
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: 475
Length of database: 875
Length adjustment: 10
Effective length of query: 465
Effective length of database: 865
Effective search space:   402225
Effective search space used:   402225
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)