BAC Information

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BAC

Clone NameMSMg01-400E07
Chromosome5 (Build37)
Map Location 81,343,006 - 81,567,230
singlet/doubletdoublet
Overlap geneLOC100039506, Lphn3
Upstream geneLOC100039384
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-400E07.T7 (MSMg01no400_e07.b1)MSMg01-400E07.TJ (MSMg01no400_e07.g1)
ACCAG499932AG499933
length783788
length of high quality
(start - end)
212 (74 - 285)538 (72 - 609)
definitionCHROMAT_FILE: MSMg01no400_e07.b1 PHD_FILE: MSMg01no400_e07.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:13:31 2005CHROMAT_FILE: MSMg01no400_e07.g1 PHD_FILE: MSMg01no400_e07.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:13:31 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(81,567,084 - 81,567,230)(81,343,006 - 81,343,544)
sequence
NTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTGCACATTCTTTCTTTCCAAGTTTATTTTTATAATATGCCTAGTA
TATTTAGGGACACTTTATGTATCGGGTCCAAAAGCACTTGGAATGAAATT
AGATTCAGTTATAGTCCTATGAAGTGGGGCAAGATGTAGAAGCAAATGAA
AATTTCATATATATATATATGTATATATATATATATATATATATATATAT
ATATATATATATATATATATATAGATATATATATATGACTGTGTGATTAT
GGATTTCCTAGAAGGGTGTCACTTTATTTTTTTTTCTAAAAGTTTTTCGC
GTGTGTGTGTGAGTGAGAGAGCGAGAGAGTGAGTGTGTATGCGGAAGTGG
ATATATACAAAAACATAGAGAGAGAGAGAGAGAGAGAGTGTGCGAGCGCG
CGCGATATAGAGAGAGGGGTGCGCGCGCGCGTGCGTGAGAGAGAGAGACA
TACGCAGAGAGAGNGNNGGNCTNNGNGANNCNNGGNNGGTCTTTATTGGT
TATTGTTCCTTAAAGAAAGAAAATAGGTGCTGCCTCTTGCCGGGGTTCGG
ATATTTTACTTGTTGGCGTGTTTGTTTTTAAGATCCTTCCTATTCTAGTT
CGGTTCTCTCGGAAGTTCCTATTTTCTTGGTTGTGCTCCCCCTTATACCG
TTTTACTCGGCTCCTCCCCCTCTCTTGTTTTGTTTCCCCTGTTTCTTTTT
TTTTCTTACTCGCCCCCTTATCCCTTTTTATGA
TGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXTAGAAATTATAGGAAGAAACTAATCATAT
GAATAATTGAGACCTAAACATAAAAAATCTTAAAGAAAAATTAAGACTTT
ATCTTTTAACTTTATTGTTGAAATACTAATAAAAGAAGTGAAATATTTTC
ATGTCAACTGAAATTTAATTTGTAATTTTCTGGCTTAACTATGTACTGGG
AATGAACATCAGAAAATCTTGAAACAAAGGGCTTTTATGTTAGTCACTGC
TCACTGGCTGGTTCCAGCTCAGTTCTGTCTGCATAAATATATTCTTACTC
TTGAAACAGTCTTGTTCTCTTATCAGGCTGAAGGCACAGTTCAGGCACTG
AACGCTACTTAAAATCTATTTACAGAAGGGAAAGCATCAAGAAGTTCAGT
GTTAAAAGCTTCCAGGTTTTAATCAAGCTCTTTTAACTCCTAAAATCACA
GGGTCAAAACTGATCAAATGGTCAAAATATGTACTCAATTAATGAGATAT
ACAGTAAGTGAAATGGAATGACACAGGAGTGAGCAGGAAGGGACTCACAG
CATTATCTTACATGGAAAAGAGTCATCCAAAAGGTGGTTTTCATTATCAC
AGAAATGTCTTACTTGCCCTTCTTTGAATTTGCTTCTGTAACTAATATAC
CTATATTATCTATAATACCCCCACCCTATAATTCTTAAAATTGCCTGGTT
TTCTTTTGAATCCGAAAAACAGGAAGGGGTCTCTTCTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no400_e07.b1 MSMg01no400_e07.b1 CHROMAT_FILE:
MSMg01no400_e07.b1 PHD_FILE: MSMg01no400_e07.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:13:31 2005
         (212 letters)



>mm_chr5_81566898_81567509
          Length = 612

 Score =  277 bits (143), Expect = 4e-79
 Identities = 146/147 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   aagtttatttttataatatgcctagtatatttagggacactttatgtatcgggtccaaaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 333 aagtttatttttataatatgcctagtatatttagggacactttatgtatcgggtccaaaa 274

                                                                       
Query: 61  gcacttggaatgaaattagattcagttatagtcctatgaagtggggcaagatgtagaagc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 273 gcacttggaatgaaattagattcagttatagtcctatgaagtggggcaagatgtagaagc 214

                                      
Query: 121 aaatgaaaatttcatatatatatatat 147
           |||||| ||||||||||||||||||||
Sbjct: 213 aaatgagaatttcatatatatatatat 187


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: 63
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: 212
Length of database: 612
Length adjustment: 9
Effective length of query: 203
Effective length of database: 603
Effective search space:   122409
Effective search space used:   122409
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= MSMg01no400_e07.g1 MSMg01no400_e07.g1 CHROMAT_FILE:
MSMg01no400_e07.g1 PHD_FILE: MSMg01no400_e07.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:13:31 2005
         (538 letters)



>mm_chr5_81342806_81343744
          Length = 939

 Score =  988 bits (511), Expect = 0.0
 Identities = 532/539 (98%), Gaps = 1/539 (0%)
 Strand = Plus / Plus

                                                                       
Query: 1   tagaaattataggaagaaactaatcatatgaataattgagacctaaacataaaaaa-tct 59
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 201 tagaaattataggaagaaactaatcatatgaataattgagacctaaacataaaaaaatct 260

                                                                       
Query: 60  taaagaaaaattaagactttatcttttaactttattgttgaaatactaataaaagaagtg 119
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 taaagaaaaattaagactttatcttttaactttattgttgaaatactaataaaagaagtg 320

                                                                       
Query: 120 aaatattttcatgtcaactgaaatttaatttgtaattttctggcttaactatgtactggg 179
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 aaatattttcatgtcaactgaaatttaatttgtaattttctggcttaactatgtactggg 380

                                                                       
Query: 180 aatgaacatcagaaaatcttgaaacaaagggcttttatgttagtcactgctcactggctg 239
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 381 aatgaacatcagaaaatcttgaaacaaagggcttttatgtcagtcactgctcactggctg 440

                                                                       
Query: 240 gttccagctcagttctgtctgcataaatatattcttactcttgaaacagtcttgttctct 299
           ||||||||||| ||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 441 gttccagctcacttctgtctgcatagatatattcttactcttgaaacagtcttgttctct 500

                                                                       
Query: 300 tatcaggctgaaggcacagttcaggcactgaacgctacttaaaatctatttacagaaggg 359
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tatcaggctgaaggcacagttcaggcactgaacgctacttaaaatctatttacagaaggg 560

                                                                       
Query: 360 aaagcatcaagaagttcagtgttaaaagcttccaggttttaatcaagctcttttaactcc 419
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 aaagcatcaagaagttcaatgttaaaagcttccaggttttaatcaagctcttttaactcc 620

                                                                       
Query: 420 taaaatcacagggtcaaaactgatcaaatggtcaaaatatgtactcaattaatgagatat 479
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 taaaatcacagagtcaaaactgatcaaatggtcaaaatatgtactcaattaatgagatat 680

                                                                      
Query: 480 acagtaagtgaaatggaatgacacaggagtgagcaggaagggactcacagcattatctt 538
           ||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 acagtaagtgacatggaatgacacaggagtgagcaggaagggactcacagcattatctt 739


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: 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: 538
Length of database: 939
Length adjustment: 10
Effective length of query: 528
Effective length of database: 929
Effective search space:   490512
Effective search space used:   490512
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)