BAC Information

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BAC

Clone NameMSMg01-090H23
Chromosome4 (Build37)
Map Location 99,876,568 - 99,951,365
singlet/doubletdoublet
Overlap geneRor1
Upstream geneAtg4c, LOC665212, LOC638890, LOC100042589, Foxd3, Alg6, Itgb3bp, BC020077, Pgm2
Downstream geneUbe2u, LOC277707, LOC621573, Cachd1, LOC100039747, Raver2, Jak1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-090H23.T7 (MSMg01no090_h23.b1)MSMg01-090H23.TJ (MSMg01no090_h23.g1)
ACCAG308712AG308713
length759727
length of high quality
(start - end)
184 (75 - 258)386 (78 - 463)
definitionCHROMAT_FILE: MSMg01no090_h23.b1 PHD_FILE: MSMg01no090_h23.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:43:40 2005CHROMAT_FILE: MSMg01no090_h23.g1 PHD_FILE: MSMg01no090_h23.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:43:40 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(99,876,568 - 99,876,750)(99,950,980 - 99,951,365)
sequence
CCTCAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCCAAAATCCGCG
GAATTCAGGCCCTGTTCGAAGAGCAAGGTGAGGTAGGAGAGGGGGAAGCA
CTCTGAGCTGTGGTAGGGCTTGTATCAATTGTTCTGTCCTGACCAAAGTC
CCTTCCCTACCTACCCTGGGCCCTGGGCTTATCCTCTCTTGCCTGCCCTT
GACGCTCCCTCTTTTCCTTCCCCCCTCTCCTCCTTATCTTCCTTCCCTCC
CTCCCTCTTTCTCTCCTTCTATTCCCTCCTTTTCTCCCCCCCCTCCCTTC
ATTTCCCCTTCACTCTCCCACTTTTTTTTACCACCAACCCCACAACATAT
CTTCCTATTTCTTTTTTTTTTTTCCCCCCCCCCCCCCCCTCTATTTCCTA
CTCCATAACATATCTCCCACTTATTTTAAAAAATAAACAAAACCCCTCGT
CGGCGGTCCCCTCCTCCATTTCTCTCCTCACGTCCCTTACTATCCTCTTT
TTTATTCTCTATATATCAATCTTAATTAATACTAATTCATTAAATATATT
CTTTTCTTATCTTTAATTTCTATATAATTATTCATACCAAATAATCATTC
TTAATAATCCATATCTTTCATACCATAAAATACTTATCACTTTATCTCTT
CTCATTTTTTCATATCTCCATAATACTATATTTCTTCATATTCTTCTTCT
TATTACATTCCCACCCTTCTTTACTTATTACCTGTTTATATCTCTATCAA
TCTCTCCTT
NNCCGATAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCTAAGGTATTGAATACATGAAAG
CTATGAAGAGCAATTACCATTGATAGTGGCAGAGTCTTGCAGGTTTGAGC
ACTAGCACTCTCATGATCTGAGGACAGAAAAGAAGATATAAACAGTGGAA
TAGTGTCAGAAACAGGGAGAAAAGGAGCAGAACCACACAATGTTGATGAT
AATGGAGATCGCTTGGGGACGTACTTTGAGTATACACTATATACTTATAT
GAAGGTGTGATCCCCAGATGTTGGTAAGGGAAGGTGCTGTGAGATTTTAA
GAGGGGATGCCTAGTAGGATCTCCTTGGATCTGTGGAGTATGCCCTGAAA
AGAAATCATGAGACCTCTGCTTCTCAATCTCCTCGGATTCCTGGTCAAAT
TGTGACCATTTACTCCCACATATCCTACCGCCTAAGCCACCCAAGACCTA
TACCAGTATAGCAAGCAAATGTCAGTCATGGTCCTGGTTTTGGACCTTCA
AACATGTGAGCTTATTTGACTTTCTGTATCAAGCTAGTTGCCTCATTATT
TGTTGTACCGAATCAAATCTGACTGATAAAGCTAGACGAGGCATTCCGGA
GATTAAGACTTCTCTTGTTGGTAGTGAAATCTCCTCTGCGGTCCGGATTA
TTATCTTGCCCAGTTACTGGACATTAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no090_h23.b1 MSMg01no090_h23.b1 CHROMAT_FILE:
MSMg01no090_h23.b1 PHD_FILE: MSMg01no090_h23.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:43:40 2005
         (184 letters)



>mm_chr4_99876368_99876951
          Length = 584

 Score =  339 bits (175), Expect = 9e-98
 Identities = 181/183 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   aaggtgaggtaggagagggggaagcactctgagctgtggtagggcttgtatcaattgttc 60
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 201 aaggtgaggtaggagagggggaagcactctgagatgtggtagggcttgtatcaattgttc 260

                                                                       
Query: 61  tgtcctgaccaaagtcccttccctacctaccctgggccctgggcttatcctctcttgcct 120
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 tgtcctgcccaaagtcccttccctacctaccctgggccctgggcttatcctctcttgcct 320

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

              
Query: 181 ctc 183
           |||
Sbjct: 381 ctc 383


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: 10
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: 184
Length of database: 584
Length adjustment: 8
Effective length of query: 176
Effective length of database: 576
Effective search space:   101376
Effective search space used:   101376
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= MSMg01no090_h23.g1 MSMg01no090_h23.g1 CHROMAT_FILE:
MSMg01no090_h23.g1 PHD_FILE: MSMg01no090_h23.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:43:40 2005
         (386 letters)



>mm_chr4_99950780_99951565
          Length = 786

 Score =  638 bits (330), Expect = 0.0
 Identities = 372/386 (96%)
 Strand = Plus / Minus

                                                                       
Query: 1   ctaaggtattgaatacatgaaagctatgaagagcaattaccattgatagtggcagagtct 60
           ||||||||||||||||||||||||| ||||||||| ||||||||||||||||||||||||
Sbjct: 586 ctaaggtattgaatacatgaaagctgtgaagagcagttaccattgatagtggcagagtct 527

                                                                       
Query: 61  tgcaggtttgagcactagcactctcatgatctgaggacagaaaagaagatataaacagtg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 526 tgcaggtttgagcactagcactctcatgatctgaggacagaaaagaagatataaacagtg 467

                                                                       
Query: 121 gaatagtgtcagaaacagggagaaaaggagcagaaccacacaatgttgatgataatggag 180
           |||||||||||||||||||||||| ||||||| |||||||||||||||||||||||||||
Sbjct: 466 gaatagtgtcagaaacagggagaagaggagcaaaaccacacaatgttgatgataatggag 407

                                                                       
Query: 181 atcgcttggggacgtactttgagtatacactatatacttatatgaaggtgtgatccccag 240
           ||| |||||||| ||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 406 atcacttggggatgtactttgagtatacactaaatacttatatgaaggtgtgatccccag 347

                                                                       
Query: 241 atgttggtaagggaaggtgctgtgagattttaagaggggatgcctagtaggatctccttg 300
           |||||||||||||||||||||||||| ||||||||||||||  ||||  |||| ||||||
Sbjct: 346 atgttggtaagggaaggtgctgtgagcttttaagaggggatatctagcgggatatccttg 287

                                                                       
Query: 301 gatctgtggagtatgccctgaaaagaaatcatgagacctctgcttctcaatctcctcgga 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 286 gatctgtggagtatgccctgaaaagaaatcatgagacctctgcttctcaatctcctctga 227

                                     
Query: 361 ttcctggtcaaattgtgaccatttac 386
           ||||||||||||||||||||||||||
Sbjct: 226 ttcctggtcaaattgtgaccatttac 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: 386
Length of database: 786
Length adjustment: 9
Effective length of query: 377
Effective length of database: 777
Effective search space:   292929
Effective search space used:   292929
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)