BAC Information

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BAC

Clone NameMSMg01-373F12
Chromosome9 (Build37)
Map Location 29,256,508 - 29,436,668
singlet/doubletdoublet
Overlap geneHnt
Upstream geneOpcml, LOC625222
Downstream geneSnx19, LOC666478
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-373F12.T7 (MSMg01no373_f12.b1)MSMg01-373F12.TJ (MSMg01no373_f12.g1)
ACCAG479396AG479397
length723726
length of high quality
(start - end)		427 (11 - 437)270 (60 - 329)
definitionCHROMAT_FILE: MSMg01no373_f12.b1 PHD_FILE: MSMg01no373_f12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:12:17 2005CHROMAT_FILE: MSMg01no373_f12.g1 PHD_FILE: MSMg01no373_f12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:12:17 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(29,256,508 - 29,256,923)(29,436,401 - 29,436,668)
sequence
CCTTTTTCGAGAGGATCCGCGGAATTCCAGGTTTATCATCTGTTTGGTAT
CATGCATATTGATAACCATCTAATGGCAAGTGACTTACTGTTTTTCTGCT
GATGTTATTTTTAAAAATTGGAAACATAACACAATGGGAAAATTCATGTT
GAGGGAAGACACTTAAAATTAGAGTAGAAGCATGACCATAGGTAACACGG
CCTCTGCCATGCCTTGCCGGGCTGCCAATCAAGAAGATTGATGCTCCTTT
AATCCCAGCACTCGGGAGGCAGAGGCAGGTGGATTTCTGAGTTCGAGGCC
AGGCTAGCCTGGTCTACAGAGTGAGTTCCAGGACAGTCAGGGCTATACAG
AGAAACCCTGTCTCGAAAAACCAAAGCAGAAGAAGAAGAAGAAGAAGAAG
AAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGANGAAGATGAA
NATTATAGAAACCTTTTTTTATATTTTTAATTGTTTGTTTTTAATTTTTT
GATATTATTATTTTGATTATATTTTCTATGTTATTATAAATTTATATTAT
GTTTTGATTTTTTTAATTTTTTTTTTAAATTATTTTTTTTAAATTTATGG
TTTATATATTGTTTTAATCATTATTTTTTTTTCTATTTTCCACCTTTCTC
TCTATTGTCTCCTCTTTTCATTTTTCGTCTATTCTGCTCCCTCTTTCTTG
TTACTTTTCTCTCACTATTTTTA

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXTCCTCACTCAGCAGGTGTCATTGAACAAGTACACAGGGGGA
TGGAGGAGGTTTGTGGTAGAGCACACATTTCTGTGAAGGGAAAGAGGGCG
GAAGTCCTTTTGGTAGATGTGAGCATACGTAGTGCATTTCAGGATGATAA
GGAGACTGATGTGTCTGGTGCAGAAGAACACCGATAAGGTAGGGGAGATA
TGAGGAGCGAATGAGGACCATCTCACTGCAATCTGGATGACTAGAAGCTG
CTGTTTTTTTCTGAGAGGNGACCAGGANGGNCACTTNNCAAACAGCCTCT
CTGGTTGCTCTCTGGTAGCAAGAANGGAAGCAAGGAGGCCCATGCAGACC
ACCAGAGGGTAGTAGAAGCTTAAATTCAGCAGGTGAGGCTTCTCTAAGGG
ATTGGTGGCCAATATAAACCACCCGAAGGCAGCAAGGGAGACCTAGGGTT
CAAGGTACCATCATTTTTTCCCCTGTCTTCCTATCTACCTAATAATGGGA
ATTGGTTCATTTTTTTCATTCCCTAGCTGCATGGCTCCCAGAGGGTGTCC
TGTCTATTGCTATTCTCTTGTAAACGATCCCAACTCCTTTTTTTTCTTCG
TTTATCCCCACCTCCTCCCCTCCTTCCTTCTTGTTCAAGCCCCTTCCCCT
TTTCTCTTGGATTTCATTCTCTCTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no373_f12.b1 MSMg01no373_f12.b1 CHROMAT_FILE:
MSMg01no373_f12.b1 PHD_FILE: MSMg01no373_f12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:12:17 2005
         (427 letters)



>mm_chr9_29256297_29257123
          Length = 827

 Score =  750 bits (388), Expect = 0.0
 Identities = 409/416 (98%)
 Strand = Plus / Plus

                                                                       
Query: 12  gaattccaggtttatcatctgtttggtatcatgcatattgataaccatctaatggcaagt 71
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 212 gaattccaggtttataatctgtttggtatcatgcatattgataaccatctaatggcaagt 271

                                                                       
Query: 72  gacttactgtttttctgctgatgttatttttaaaaattggaaacataacacaatgggaaa 131
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 272 gacttactgttttcctgctgatgttatttttaaaaattggaaacataacacaatgggaaa 331

                                                                       
Query: 132 attcatgttgagggaagacacttaaaattagagtagaagcatgaccataggtaacacggc 191
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 332 attcatgttgaaggaagacacttaaaattagagtagaagcatgaccataggtaacacggc 391

                                                                       
Query: 192 ctctgccatgccttgccgggctgccaatcaagaagattgatgctcctttaatcccagcac 251
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 392 ctctgccataccttgccgggctgccaatcaagaagattgatgctcctttaatcccagcac 451

                                                                       
Query: 252 tcgggaggcagaggcaggtggatttctgagttcgaggccaggctagcctggtctacagag 311
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 452 tcgggaggcagaggcaggtggatttctgagttcgaggccaggctagcctggtctacagag 511

                                                                       
Query: 312 tgagttccaggacagtcagggctatacagagaaaccctgtctcgaaaaaccaaagcagaa 371
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||  ||||
Sbjct: 512 tgagttccaggacagccagggctatacagagaaaccctgtctcgaaaaaccaaaaaagaa 571

                                                                   
Query: 372 gaagaagaagaagaagaagaagaagaagaagaagaagaagaagaagaagaagaaga 427
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 572 gaagaagaagaagaagaagaagaagaagaagaagaagaagaagaagaagaagaaga 627


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: 103
Number of extensions: 34
Number of successful extensions: 34
Number of sequences better than 10.0: 1
Number of HSP's gapped: 33
Number of HSP's successfully gapped: 1
Length of query: 427
Length of database: 827
Length adjustment: 9
Effective length of query: 418
Effective length of database: 818
Effective search space:   341924
Effective search space used:   341924
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= MSMg01no373_f12.g1 MSMg01no373_f12.g1 CHROMAT_FILE:
MSMg01no373_f12.g1 PHD_FILE: MSMg01no373_f12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:12:17 2005
         (270 letters)



>mm_chr9_29436201_29436870
          Length = 670

 Score =  458 bits (237), Expect = e-133
 Identities = 260/268 (97%)
 Strand = Plus / Minus

                                                                       
Query: 1   tcctcactcagcaggtgtcattgaacaagtacacagggggatggaggaggtttgtggtag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 468 tcctcactcagcaggtgtcattgaacaagtacacagggggatggaggaggtttgtggtag 409

                                                                       
Query: 61  agcacacatttctgtgaagggaaagagggcggaagtccttttggtagatgtgagcatacg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 408 agcacacatttctgtgaagggaaagagggcggaagtccttttggtagatgtgagcataca 349

                                                                       
Query: 121 tagtgcatttcaggatgataaggagactgatgtgtctggtgcagaagaacaccgataagg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||| ||||| ||||
Sbjct: 348 tagtgcatttcaggatgataaggagactgatgtgtctggtgcagaagaataccgagaagg 289

                                                                       
Query: 181 taggggagatatgaggagcgaatgaggaccatctcactgcaatctggatgactagaagct 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 288 taggggagatatgaggagcgaatgaggaccatctcactgcaatctggatgactagaagct 229

                                       
Query: 241 gctgtttttttctgagaggngaccagga 268
           |||| |   |||||||||| ||||||||
Sbjct: 228 gctggtgacttctgagaggtgaccagga 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: 11
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: 270
Length of database: 670
Length adjustment: 9
Effective length of query: 261
Effective length of database: 661
Effective search space:   172521
Effective search space used:   172521
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)


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