BAC Information

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BAC

Clone NameMSMg01-271F01
Chromosome11 (Build37)
Map Location 41,278,605 - 41,438,872
singlet/doubletdoublet
Overlap geneHspd1, LOC100039292
Upstream geneLOC382508, LOC432549, Mat2b, Hmmr, Nudcd2, Ccng1, LOC100039256, LOC100039285
Downstream geneGabrg2, Gabra1, Gabra6, Gabrb2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-271F01.T7 (MSMg01no271_f01.b1)MSMg01-271F01.TJ (MSMg01no271_f01.g1)
ACCAG410904AG410905
length809737
length of high quality
(start - end)		266 (45 - 310)667 (71 - 737)
definitionCHROMAT_FILE: MSMg01no271_f01.b1 PHD_FILE: MSMg01no271_f01.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:10:10 2005CHROMAT_FILE: MSMg01no271_f01.g1 PHD_FILE: MSMg01no271_f01.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:10:10 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(41,438,615 - 41,438,872)(41,278,605 - 41,279,271)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTTAAGGAGGATCATTCTTGTTATATAGAAGACTATCTGTATGCTTA
CAAGTCTAAATGTGAATGACTTCAGAGATATAGACATATATTGCGTATAT
GCATTCAAACTACAAGTATATGGAAAGAATATGGTATACTATAATTCTTT
CATAGATCTTCTGCCTACCAGGAAATTTATTATAAGAAATATAAATCTTG
AAAGTAGCAGAAACAATAGAAAAATAATAGCATTCACTGGTCAAGGTTAA
TAAATATCAAAGAACTATANCGTGATTTAGGTGTGCCCCAAAATTATGTG
GCGGGGNNNNGTCTATTTTTATTGGTGCAACACACAAAAAAAAAAAAACC
GCCTTTTCTTTTTTTTTGCTTTTCCGAGCCTGGAAATATAACCTATTTCC
TATCGAAGGGGGGGGTGNNNNNNNNNCCGTTTTGTTTGATCTTTTCCACC
AACCTTTGAGNNNAATTATTTCTTGGATGAAAAGGCCCCCGGGAAAAAAA
CGTGGCCCTTTTGGGAACCCCAAAATCCCCCAGNGGAAGGGGGCTTTCCC
CCATTTTGATTTTNNCATCGGNNNNAAAGAAAAAAAATTTTNNNNNNNNN
NNNNNNNNNTTTAANNNAAATATATATGNNNAAGGNNGGGGAGGGCACCT
CACTTTTTGNNNNNNNNNNNNNCCCCCCCCCNNNNNNNNNNNNNNNNNAT
TTGGNNNNNNNNNCNNNNNNNNNNNNNNNNNCNNNNNNNNNNNNGGGGGG
TGGGGGGGG

CTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXCTCTATGGAAGAATTAGGAGAAAGATTAAA
GGAGCAGAGCTTAAGGTGATGGAAACCCCACAGGAAGACCAAGAGTGACA
ACTAACGTGGATTCCTGGGAGTTCTCAGAGACTAAGCCACCAACCGAAGA
GCATACCAGGACTTGTCTGAGGCTCCTGACACATATGTAGTAGAGGACTG
CCTTGTCTGGCCTCAGGCTGAAAGGATGTGTCTAATCCTATAGAGATTTG
ATGCCCCATGGAAAGAGGATGGCAGAGGTTCAGAGGAACATGGTCTCAAA
GGTGAAATGGGGATGGTTAAAGAGCTCTGGCAGGAGATGATCATAATGGA
GGAGGCAATATTTGAGATATAAATAAATAAAATAATTAACCTAAAAAAAT
AGTAAGATTCTCTTTTCCAGAAACAGTTACTTAAATGATTCCGTCAGGCA
CACTGGATAATATAGATAAGCAGGCTTAGAGAGTGCCACAGTTCTGTCTC
CCTAAATTTTCCCTTCTGCAAAGTTGATGTGCAATATACTACAGTATCTG
GATTTATTACACATGGATGCCTGCTAAAAATCTGGGACCAGTGTATGACA
AACAAAGTAATAACTCTAATGTGTTTAGTATTCAGTTGTCACAACACAGT
TATTAAAACCAATACTTAGTGTTTTTATTCCCTCTAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no271_f01.b1 MSMg01no271_f01.b1 CHROMAT_FILE:
MSMg01no271_f01.b1 PHD_FILE: MSMg01no271_f01.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:10:10 2005
         (266 letters)



>mm_chr11_41438411_41439076
          Length = 666

 Score =  491 bits (254), Expect = e-143
 Identities = 257/258 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcttaaggaggatcattcttgttatatagaagactatctgtatgcttacaagtcta 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 462 gaattcttaaggaggatcattcttgttatatagaagactatctgtatgcttacaagtcta 403

                                                                       
Query: 65  aatgtgaatgacttcagagatatagacatatattgcgtatatgcattcaaactacaagta 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 402 aatgtgaatgacttcagagatatagacatatattgcgtatatgcattcaaactacaagta 343

                                                                       
Query: 125 tatggaaagaatatggtatactataattctttcatagatcttctgcctaccaggaaattt 184
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 342 tatggaaagaatatggtatactatgattctttcatagatcttctgcctaccaggaaattt 283

                                                                       
Query: 185 attataagaaatataaatcttgaaagtagcagaaacaatagaaaaataatagcattcact 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 282 attataagaaatataaatcttgaaagtagcagaaacaatagaaaaataatagcattcact 223

                             
Query: 245 ggtcaaggttaataaata 262
           ||||||||||||||||||
Sbjct: 222 ggtcaaggttaataaata 205


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: 266
Length of database: 666
Length adjustment: 9
Effective length of query: 257
Effective length of database: 657
Effective search space:   168849
Effective search space used:   168849
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= MSMg01no271_f01.g1 MSMg01no271_f01.g1 CHROMAT_FILE:
MSMg01no271_f01.g1 PHD_FILE: MSMg01no271_f01.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:10:10 2005
         (667 letters)



>mm_chr11_41278405_41279471
          Length = 1067

 Score = 1274 bits (659), Expect = 0.0
 Identities = 665/667 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   ctctatggaagaattaggagaaagattaaaggagcagagcttaaggtgatggaaacccca 60
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 201 ctctatggaagaattaggagaaagattaaaggagcagagcttaaggggatggaaacccca 260

                                                                       
Query: 61  caggaagaccaagagtgacaactaacgtggattcctgggagttctcagagactaagccac 120
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 261 caggaagaccaagagtgacaactaacatggattcctgggagttctcagagactaagccac 320

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

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

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

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

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

                                                                       
Query: 421 ccgtcaggcacactggataatatagataagcaggcttagagagtgccacagttctgtctc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ccgtcaggcacactggataatatagataagcaggcttagagagtgccacagttctgtctc 680

                                                                       
Query: 481 cctaaattttcccttctgcaaagttgatgtgcaatatactacagtatctggatttattac 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 cctaaattttcccttctgcaaagttgatgtgcaatatactacagtatctggatttattac 740

                                                                       
Query: 541 acatggatgcctgctaaaaatctgggaccagtgtatgacaaacaaagtaataactctaat 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 acatggatgcctgctaaaaatctgggaccagtgtatgacaaacaaagtaataactctaat 800

                                                                       
Query: 601 gtgtttagtattcagttgtcacaacacagttattaaaaccaatacttagtgtttttattc 660
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 801 gtgtttagtattcagttgtcacaacacagttattaaaaccaatacttagtgtttttattc 860

                  
Query: 661 cctctag 667
           |||||||
Sbjct: 861 cctctag 867


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: 33
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: 667
Length of database: 1067
Length adjustment: 10
Effective length of query: 657
Effective length of database: 1057
Effective search space:   694449
Effective search space used:   694449
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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