BAC Information

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BAC

Clone NameMSMg01-056B15
Chromosome6 (Build37)
Map Location 52,025,946 - 52,156,543
singlet/doubletdoublet
Overlap geneLOC666391, Hoxa1, Hoxa2, Hoxa3, Hoxa4, Hoxa5, Hoxa6
Upstream geneEG625167, Nfe2l3, Hnrpa2b1, Cbx3, Snx10, LOC100041820, Skap2
Downstream geneHoxa7, Hoxa9, Hoxa10, Hoxa11, Hoxa13, Evx1, EG666487, 1700094M24Rik, EG545841, Hibadh, Tax1bp1, Jazf1, LOC666259, LOC666516
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-056B15.T7 (MSMg01no056_b15.b1)MSMg01-056B15.TJ (MSMg01no056_b15.g1)
ACCAG283594AG283595
length714710
length of high quality
(start - end)
247 (69 - 315)287 (67 - 353)
definitionCHROMAT_FILE: MSMg01no056_b15.b1 PHD_FILE: MSMg01no056_b15.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 16:57:40 2005CHROMAT_FILE: MSMg01no056_b15.g1 PHD_FILE: MSMg01no056_b15.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 16:57:40 2005
singlet/doubletdoubletdoublet
BLAST hituniqueplural
Map location.(52,025,946 - 52,026,192)(52,156,257 - 52,156,543)
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXACTTACAAACAAAAAAGAACTTTCAGAAAGATAAAGTCTACTTACCTG
CATCCCTAAGCAGTCGATTCCGGCTTCCTCTGAGATGGCTGCAAGCACTC
TCCCTGTTCTTAATGGAATGGAGCAATTGCTGCTCAAATCACCATTGTGA
AGGCATTACACAATTTTATCTGTCTGTATTCTATTTCTGCTTCACGTTGT
TGTTATATGGAAGCACTATATCAATGTGTTTTTTTTATCATTGCAAAGGC
AGATAAAATAGTTTATCTATTACAGCAAATTGCACAATTATACATATAAA
TCGTCTTTTTTTGCCTTCCGACTACCCCTGTACAGATAAAAAGCATTTTT
CACCTTTAAAACAAAACATTAATGAAAACCACTTCCAGTGTTCCCATTGC
CTCACACATAAATTATCTCTTAAGGGATCAGGTGCAGCGCGTATAGGGTT
GTTCGTCTTCTCAATACATCTTTGAGTTTGCCTTTCTAAACATTCTTGTT
GAGTTAGAACTCACGGAAATGTACAACTTTGTACCCAAAGGCACCCACTC
TTGACTCGTCCGTTCCTCCCTCCTTCCCCCAAACTGCACCTTTTGTCTTT
ACGCTAATACACCATTGCTTTTGTTCCTTATTATTAACCTATTTTTACAC
GAATTTTTTCCCCT
TGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXTTCCCCGAAATTCCACTTCAACCGCTACCTGACTCGGCGGCGCCGCA
TCGAGATCGCCAACCCGCTTTGCCTCACCGAGCGCCAGATCAAGATCTGG
TTCCAGAATCGGCGCATGAAATGGAAAAAGGAAAATAAACTCATCAACTC
CACGCAGGCCAGCGGGGAAGACTCTGAGGCCAAAGCGGGCGAGTAGACTC
CAGTGCAGGGACCAGGCCAGCGTTGTAACCTCTATTGGCTTTGCCCCCTG
GTGCCCTTGTCTGCTCCCCAAGTTTTATTCCAGCCTGCTTCTCCCGCAGC
TTATTTTATAAGCGCCCCCCGCTTTGCAAGCGCATTTACTTATTACAGAA
AACAAACAAACCAAACCCCACACACCCAACGTCAGCTGTGGGACAGACGC
ACTGTACACACAAACACACAGGTTTTCTCCCCAAGGCTGTCCAAGCTCGC
TTGCGAGGCCCGCGATGCACCCAGAATCGGCCCTGCTGCTGTGTTAGCGC
CTCTGCGCTCTGTGAGCCACAGACGCGGCATTGTGTGGTAAGAAGGAGCC
TCATGCTGCGCCCTGATTGGTGCCTGGGCTTTTCCGCCTTGTNTCCCTCT
CCTTTCAATTCTAAAGGGCATCGCCCAATCTGTTTCTGGTTACTGAAAAA
TAAGGGCCCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no056_b15.b1 MSMg01no056_b15.b1 CHROMAT_FILE:
MSMg01no056_b15.b1 PHD_FILE: MSMg01no056_b15.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 16:57:40 2005
         (247 letters)



>mm_chr6_52025746_52026392
          Length = 647

 Score =  447 bits (231), Expect = e-130
 Identities = 243/247 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   gaactttcagaaagataaagtctacttacctgcatccctaagcagtcgattccggcttcc 60
           ||||||||||||||||||||||||||||||||||||||||||||| |||||  |||||||
Sbjct: 201 gaactttcagaaagataaagtctacttacctgcatccctaagcagccgattatggcttcc 260

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

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

                                                                       
Query: 181 gttgttatatggaagcactatatcaatgtgttttttttatcattgcaaaggcagataaaa 240
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 381 gttgttatatggaagcactatagcaatgtgttttttttatcattgcaaaggcagataaaa 440

                  
Query: 241 tagttta 247
           |||||||
Sbjct: 441 tagttta 447


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: 9
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: 247
Length of database: 647
Length adjustment: 9
Effective length of query: 238
Effective length of database: 638
Effective search space:   151844
Effective search space used:   151844
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)
Query= MSMg01no056_b15.g1 MSMg01no056_b15.g1 CHROMAT_FILE:
MSMg01no056_b15.g1 PHD_FILE: MSMg01no056_b15.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 16:57:40 2005
         (287 letters)



>mm_chr6_52156057_52156743
          Length = 687

 Score =  532 bits (275), Expect = e-155
 Identities = 284/287 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   cacttcaaccgctacctgactcggcggcgccgcatcgagatcgccaacccgctttgcctc 60
           |||||||||||||||||||||||||||||||||||||||||||| ||| |||||||||||
Sbjct: 487 cacttcaaccgctacctgactcggcggcgccgcatcgagatcgctaacgcgctttgcctc 428

                                                                       
Query: 61  accgagcgccagatcaagatctggttccagaatcggcgcatgaaatggaaaaaggaaaat 120
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 427 accgagcgccagatcaagatctggttccagaatcggcgcatgaagtggaaaaaggaaaat 368

                                                                       
Query: 121 aaactcatcaactccacgcaggccagcggggaagactctgaggccaaagcgggcgagtag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 367 aaactcatcaactccacgcaggccagcggggaagactctgaggccaaagcgggcgagtag 308

                                                                       
Query: 181 actccagtgcagggaccaggccagcgttgtaacctctattggctttgccccctggtgccc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 307 actccagtgcagggaccaggccagcgttgtaacctctattggctttgccccctggtgccc 248

                                                          
Query: 241 ttgtctgctccccaagttttattccagcctgcttctcccgcagctta 287
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 247 ttgtctgctccccaagttttattccagcctgcttctcccgcagctta 201


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: 13
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: 287
Length of database: 687
Length adjustment: 9
Effective length of query: 278
Effective length of database: 678
Effective search space:   188484
Effective search space used:   188484
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)