BAC Information

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BAC

Clone NameMSMg01-354E16
Chromosome9 (Build37)
Map Location 104,795,051 - 104,958,971
singlet/doubletdoublet
Overlap geneCpne4, Mrpl3
Upstream geneNphp3, Ube1dc1, Acad11, Ccrl1, Hmgb1-rs16, Acpp, LOC100040921
Downstream geneNudt16, 1700080E11Rik, Nek11, Aste1, Atp2c1, EG434434, LOC664981, Pik3r4, E330026B02Rik, EG665033, 1110001D15Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-354E16.T7 (MSMg01no354_e16.b1)MSMg01-354E16.TJ (MSMg01no354_e16.g1)
ACCAG464958AG464959
length750763
length of high quality
(start - end)		565 (69 - 633)475 (76 - 550)
definitionCHROMAT_FILE: MSMg01no354_e16.b1 PHD_FILE: MSMg01no354_e16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:47:24 2005CHROMAT_FILE: MSMg01no354_e16.g1 PHD_FILE: MSMg01no354_e16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:47:24 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(104,958,414 - 104,958,971)(104,795,051 - 104,795,525)
sequence
NTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGC
GGAATTCCAGTTCTAGGGTATTAAACACCATAGTGCCTGAGACAGTGCTG
AAGAAGAACCATGGCATACACCTTCCGGGACTTCCCAGAGAACCCATCGA
GACAATGACTACAGGGTTCATAGGCCTAAACTTGACACACAGTAATAAAC
TGCTTCTTGTGCGGNTGTACCAGTCTGCCATTATTGATCCACACTCAGAC
CATAATAGTTCATGAAGGCTCTGTACCTTGTTAACATTCTAAGCGTGCAC
AGCCTATATTTTAACCATCATCACACCTCTGAGATTAGACCCAGGACACT
GAGCTGTCCAGAATGATCTAGAGTAATGGTCTAACTTCATCTGTGCTTTC
TCTATAGTGAAAGCAGTTGAAAGTTTCCAGACACTATGCACCGTCTCTAG
GAGCTGACATTTGTCATCTCTTGTGGTCCTCACAGTAACAGTGTGCAGTG
AGGCCTAACTTTTCCTCTTATAGAATTATATCACTTAGAGAAGAGGCTAG
AGCACTCATGAACATAGCAAGTGGCAGAGCCAGGATTTATCCTCAGAGCC
TGAGTCCTTAACCATTTCAGAATGACTGCTCTTGGTGAATAAAATGTGGC
TTCCCCGGAGGAAGCATAGTCCTCTCTGACTGTCAGCACAGAGATCACAA
TCACAGTCAGGGCCTGAACGAACTACTGTGAACCCGATGCCCCTGAGACC


NCCGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTCTCTCCTCCACTACCTTCTCTCTA
TCCTTCTTTCTTTCCTATCTAGTGTTAAAGGGTTGAATGGTTGGAAGAAG
GGTGGAGAACGGTGGAAGAAAGAAGAACCCACAAAGTAGCAAAGCCAGCT
ACAGTGCACTGAAGTTATTTGTCTGACTGTATTCTTACTTTCTAGTTCAA
AGAAAAGGAGATGGGGTGTTTATATACCAAGTTCACCCATCCTTGTTTGA
AAGCTGTTCCCAAAAGTGTAGTTCTTCCCACTTCCTGTTTTGTGTATCTG
TGGGCAGGAAGTACGAGTGACAAGCATTTTCTCTTCCTAGGTGACTCAGC
TATAGTCCAGATTAGACCAGATTAAAAGTAGATAAAAGCAGGTTTATTAG
GAGTCACCTCTAGGGTGGGTTCACTGATCTCAGGGCTGGGTGTCAGTGAA
GTCACACATCCAGGCTAAAGCAAGGGGGTTTTACAGAGTGATGAAGTGCC
AGCCAGGAGCTGGGATTGTGTCTATACATAGTTAAAAACTGAGCTGCTGG
GTGGACACTCCTGGGTGGGTTGACTGAAGCCCGAGATGAGGAGTGTTGAC
AGGTTATCCCATGTTTTTTTCTATGGGTGGGGGAATTTTTTTTTGTGGTT
TGTCGGAAAGAATTCCTCTCTGTTGGTTTTCACTTTTTGCAAGGAAGGAT
ACCGGCCCCCCCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no354_e16.b1 MSMg01no354_e16.b1 CHROMAT_FILE:
MSMg01no354_e16.b1 PHD_FILE: MSMg01no354_e16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:47:24 2005
         (565 letters)



>mm_chr9_104958414_104959378
          Length = 965

 Score = 1073 bits (555), Expect = 0.0
 Identities = 557/558 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   tattaaacaccatagtgcctgagacagtgctgaagaagaaccatggcatacaccttccgg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 558 tattaaacaccatagtgcctgagacagtgctgaagaagaaccatggcatacaccttccgg 499

                                                                       
Query: 61  gacttcccagagaacccatcgagacaatgactacagggttcataggcctaaacttgacac 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 498 gacttcccagagaacccatcgagacaatgactacagggttcataggcctaaacttgacac 439

                                                                       
Query: 121 acagtaataaactgcttcttgtgcggntgtaccagtctgccattattgatccacactcag 180
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 438 acagtaataaactgcttcttgtgcggttgtaccagtctgccattattgatccacactcag 379

                                                                       
Query: 181 accataatagttcatgaaggctctgtaccttgttaacattctaagcgtgcacagcctata 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 378 accataatagttcatgaaggctctgtaccttgttaacattctaagcgtgcacagcctata 319

                                                                       
Query: 241 ttttaaccatcatcacacctctgagattagacccaggacactgagctgtccagaatgatc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 318 ttttaaccatcatcacacctctgagattagacccaggacactgagctgtccagaatgatc 259

                                                                       
Query: 301 tagagtaatggtctaacttcatctgtgctttctctatagtgaaagcagttgaaagtttcc 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 258 tagagtaatggtctaacttcatctgtgctttctctatagtgaaagcagttgaaagtttcc 199

                                                                       
Query: 361 agacactatgcaccgtctctaggagctgacatttgtcatctcttgtggtcctcacagtaa 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 198 agacactatgcaccgtctctaggagctgacatttgtcatctcttgtggtcctcacagtaa 139

                                                                       
Query: 421 cagtgtgcagtgaggcctaacttttcctcttatagaattatatcacttagagaagaggct 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 138 cagtgtgcagtgaggcctaacttttcctcttatagaattatatcacttagagaagaggct 79

                                                                       
Query: 481 agagcactcatgaacatagcaagtggcagagccaggatttatcctcagagcctgagtcct 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 78  agagcactcatgaacatagcaagtggcagagccaggatttatcctcagagcctgagtcct 19

                             
Query: 541 taaccatttcagaatgac 558
           ||||||||||||||||||
Sbjct: 18  taaccatttcagaatgac 1


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: 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: 565
Length of database: 965
Length adjustment: 10
Effective length of query: 555
Effective length of database: 955
Effective search space:   530025
Effective search space used:   530025
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= MSMg01no354_e16.g1 MSMg01no354_e16.g1 CHROMAT_FILE:
MSMg01no354_e16.g1 PHD_FILE: MSMg01no354_e16.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:47:24 2005
         (475 letters)



>mm_chr9_104794851_104795725
          Length = 875

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

                                                                       
Query: 1   tctctcctccactaccttctctctatccttctttctttcctatctagtgttaaagggttg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 tctctcctccactaccttctctctatccttctttctttcctatctagtgttaaagggttg 260

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

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

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

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

                                                                       
Query: 301 attttctcttcctaggtgactcagctatagtccagattagaccagattaaaagtagataa 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 attttctcttcctaggtgactcagctatagtccagattagaccagattaaaagtagataa 560

                                                                       
Query: 361 aagcaggtttattaggagtcacctctagggtgggttcactgatctcagggctgggtgtca 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 aagcaggtttattaggagtcacctctagggtgggttcactgatctcagggctgggtgtca 620

                                                                  
Query: 421 gtgaagtcacacatccaggctaaagcaagggggttttacagagtgatgaagtgcc 475
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 gtgaagtcacacatccaggctaaagcaagggggttttacagagtgatgaagtgcc 675


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: 23
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)


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