BAC Information

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BAC

Clone NameMSMg01-393C09
Chromosome2 (Build37)
Map Location 73,672,942 - 73,835,991
singlet/doubletdoublet
Overlap geneAtf2, Atp5g3, LOC667729
Upstream geneSp3, Hspe1-ps5, Gtpbp9, LOC620110, Sp9, 1700023B02Rik, Scrn3, Gpr155, Wipf1, Chrna1, Chn1
Downstream geneLOC100040172, Lnp, LOC100040519, Evx2, Hoxd13, Hoxd12, Hoxd11, Hoxd10, Hoxd9, Hoxd8, 1700109F18Rik, Hoxd3, Hoxd4, LOC667804, Hoxd1, Mtx2, LOC667817
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-393C09.T7 (MSMg01no393_c09.b1)MSMg01-393C09.TJ (MSMg01no393_c09.g1)
ACCAG494516AG494517
length766776
length of high quality
(start - end)		556 (36 - 591)418 (64 - 481)
definitionCHROMAT_FILE: MSMg01no393_c09.b1 PHD_FILE: MSMg01no393_c09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:57 2005CHROMAT_FILE: MSMg01no393_c09.g1 PHD_FILE: MSMg01no393_c09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:37:57 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(73,835,440 - 73,835,991)(73,672,942 - 73,673,359)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCATTTA
GAGGTTCATTCTAGGGCTTTCCTTAAACGTACATTGATTTCCTAAATTCC
TGTCTGAGATAAGAGTGTGAATGGTAGCCACCCACCTACCCTCTCAGGGG
TCCAGCAAGGGCCACTGATAGGACTTGTAACTCCAGCATAGTGACCCTGA
CATTTGAAAGAGAAGCAGGAGCAGGATGTCTCTGCCCTTCTCCCTTGAAG
CAGGATGCAGAAGCGTTCTGACTCTCAGAACTGGTTCCTGTGATGCTCAC
TTCAGAGACGACGAATCCAGAACAAAGGAAGTCAGGTTGAAGTGTACACC
ATGAGGTCCTAGCTCTATGTCCAATACTCCTGCATACCTACTGCCCCCTT
GCTGATTTTAACTTTAAAATGCAGAAGTTTCCCTGTTTCTGTATTTTGTT
CCCAAGGGCTCTTGGACCACATAAAACTTGTACTTGATATGTATGTTTTT
CTCCTGTTAATCTGTCTTTCATTACATAAGCCAATGCTGTGAGCTGGGTG
CTGAGTGATAGAAAGATATTACTTTCTCCCCCCTGTATAGCAAATCTCTC
ANATTCACAGTCCATAGCAGATAANACAGCTCGCGTGTGTTTTGCTCCTC
TCCAGGAAAGTTACTGTGCTACCATCAGAAACCCGCTTGGGGAATTGTGT
AAAGAACGGTTTATATTTCTCCAAAAAGGTCCCCCCTCTGGTTTCCTTTA
TATCTTTGAAAAACAA

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXTGCTGAACATGAGGTTCCATGCAGGGCCCAGCTAAGT
TTATGTAGGTTTCTGAACATTTGCCAAGATGCCCTCTGTCAGCTTTTAGT
AGAAACCCCCTGCAGAAAAACCACTGTGTGCAAAGATATTTCTTGGTTTG
TCACACAAGTCTTAAAGAAAACACAGTGGAAGAACTCACTTTATAAAACC
TGAACAGAACTCGAAGGTGATTAACATCTTACTCTAAGGAGTGTTTTTTT
TTTCTTTTTAAATTATAAACATTCAGGAAAGTTACATTTATTAAAAGAGT
AATATAAAAATAATTATTTATGGTTTATGGAGTTAGTGATAAATCCCTTA
AGCCTAAATTTCATGAGACCTAGTTTAATTTTGTAGAAATTCATATATTC
TGAGGATTCTTCTACAGTGTTTAAAAGTACTAGATAATCGTAGATATTTG
TGAGTCTCTTCTTATTTCTATATCACATTTTTAGTCTTGTTATAAACCAG
AAGCTTTATTAATCTGGACACTGAATATCATGTTTTAAGAAAAATTATTA
CATTTATTTATTAATTGTCTTTTCTGGGATTTTTCATCGTGGGTAGACCC
TATTCTTCCCCTCCCTTCTCCCTAATAACCTTACTCATATATAATCTGTT
TATACAGTTTGTATGGCTACATATTTCCTCTCTATATTTTTTCTCCGATT
TTCTGGAATTCTTTATATTTATGCCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no393_c09.b1 MSMg01no393_c09.b1 CHROMAT_FILE:
MSMg01no393_c09.b1 PHD_FILE: MSMg01no393_c09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:57 2005
         (556 letters)



>mm_chr2_73835373_73836328
          Length = 956

 Score = 1052 bits (544), Expect = 0.0
 Identities = 550/552 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcatttagaggttcattctagggctttccttaaacgtacattgatttcctaaattc 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 619 gaattcatttagaggttcattctagggctttccttaaacgtacattgatttcctaaattc 560

                                                                       
Query: 65  ctgtctgagataagagtgtgaatggtagccacccacctaccctctcaggggtccagcaag 124
           |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 559 ctgtctgagataagagtgtgaatggtagccacccacctaccctctcagggttccagcaag 500

                                                                       
Query: 125 ggccactgataggacttgtaactccagcatagtgaccctgacatttgaaagagaagcagg 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 499 ggccactgataggacttgtaactccagcatagtgaccctgacatttgaaagagaagcagg 440

                                                                       
Query: 185 agcaggatgtctctgcccttctcccttgaagcaggatgcagaagcgttctgactctcaga 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 439 agcaggatgtctctgcccttctcccttgaagcaggatgcagaagcgttctgactctcaga 380

                                                                       
Query: 245 actggttcctgtgatgctcacttcagagacgacgaatccagaacaaaggaagtcaggttg 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 379 actggttcctgtgatgctcacttcagagacgacgaatccagaacaaaggaagtcaggttg 320

                                                                       
Query: 305 aagtgtacaccatgaggtcctagctctatgtccaatactcctgcatacctactgccccct 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 319 aagtgtacaccatgaggtcctagctctatgtccaatactcctgcatacctactgccccct 260

                                                                       
Query: 365 tgctgattttaactttaaaatgcagaagtttccctgtttctgtattttgttcccaagggc 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 259 tgctgattttaactttaaaatgcagaagtttccctgtttctgtattttgttcccaagggc 200

                                                                       
Query: 425 tcttggaccacataaaacttgtacttgatatgtatgtttttctcctgttaatctgtcttt 484
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 199 tcttggaccacataaaacttgtacttgatgtgtatgtttttctcctgttaatctgtcttt 140

                                                                       
Query: 485 cattacataagccaatgctgtgagctgggtgctgagtgatagaaagatattactttctcc 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 139 cattacataagccaatgctgtgagctgggtgctgagtgatagaaagatattactttctcc 80

                       
Query: 545 cccctgtatagc 556
           ||||||||||||
Sbjct: 79  cccctgtatagc 68


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: 25
Number of extensions: 2
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: 556
Length of database: 956
Length adjustment: 10
Effective length of query: 546
Effective length of database: 946
Effective search space:   516516
Effective search space used:   516516
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= MSMg01no393_c09.g1 MSMg01no393_c09.g1 CHROMAT_FILE:
MSMg01no393_c09.g1 PHD_FILE: MSMg01no393_c09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:37:57 2005
         (418 letters)



>mm_chr2_73672742_73673559
          Length = 818

 Score =  801 bits (414), Expect = 0.0
 Identities = 417/418 (99%)
 Strand = Plus / Plus

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

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

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

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

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

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

                                                                     
Query: 361 tttaattttgtagaaattcatatattctgaggattcttctacagtgtttaaaagtact 418
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 561 tttaattttgtagaaattcatagattctgaggattcttctacagtgtttaaaagtact 618


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: 22
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: 418
Length of database: 818
Length adjustment: 9
Effective length of query: 409
Effective length of database: 809
Effective search space:   330881
Effective search space used:   330881
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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