BAC Information

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BAC

Clone NameMSMg01-346M11
Chromosome2 (Build37)
Map Location 74,193,004 - 74,353,114
singlet/doubletdoublet
Overlap geneLnp
Upstream geneGpr155, Wipf1, Chrna1, Chn1, Atf2, Atp5g3, LOC667729, LOC100040172
Downstream geneLOC100040519, Evx2, Hoxd13, Hoxd12, Hoxd11, Hoxd10, Hoxd9, Hoxd8, 1700109F18Rik, Hoxd3, Hoxd4, LOC667804, Hoxd1, Mtx2, LOC667817, A330043C09Rik, LOC667739, LOC545423
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-346M11.T7 (MSMg01no346_m11.b1)MSMg01-346M11.TJ (MSMg01no346_m11.g1)
ACCAG459283AG459284
length719719
length of high quality
(start - end)		565 (63 - 627)628 (70 - 697)
definitionCHROMAT_FILE: MSMg01no346_m11.b1 PHD_FILE: MSMg01no346_m11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:37:33 2005CHROMAT_FILE: MSMg01no346_m11.g1 PHD_FILE: MSMg01no346_m11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:37:33 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(74,352,550 - 74,353,114)(74,193,004 - 74,193,631)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTC
CAAATTCCTCTGCTCACCTAATAAAGGAGAGCGTCTTTTAAAAAGTTGCA
ATGGTTTGCTTTATAGAAACAATCTTTCAAAAGAAATCAAATATACTTGG
AATAAACTTATTCTCAACTATGTGTTAACGTAGCTACAGTGTATGCAGTG
TATGGATTTTCAGAATAGAATACTTTGAGTCCTGTAATTGAAATTGAATA
TAAACTGGAATAAAATCAATATTCTTGAGACCTATTTTGATTGAATATTG
TGTATGGGTTCTTGCTGTTCCTTTTCAGAACATTTTCCTTTTGGTTTTTG
AAGATCTGAATTCCCTTTGATTGTTTATGAAACCTTTCTCCCCTTAAATA
TGGTAATCTCCTGTAGTACAGCTTATTTCAGAACAGCAGCCAGGCAGGAT
GCTCAGTGGACAAAGCCAATTGCTGCCAAGCCTGACTACTTGAGTTCAGC
TCCAAGGACTCACATGGTATAAGGAAAGAACTGACTTTAGAACGCTGTCC
TCTGACCTCCACACATTGACTTCATACATGTGCCCCCACCCCAGATAAAT
AATGTAATAACAAACCACATCTGGACAGTGAAGTTAGACTACTGAAAGCC
AAGATTCTCTGTTCTCTCCTTCTGCTGGCCACTGATGGAGACAGTATAAG
CTATTTAGGTTTCAGAAGG

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXTCTCCAACAGAAGGTTGGCCTGCAGAGGCTG
TTCTTCTCATTCTTGTCTGTTACTTCGTTTCCTTTCCACTGTTACTTTCT
TAAATTACCAAAATAAGCATGATCTATGGTTTCTCCTCTCTCAGGCAAGC
TTCTTTTTGTCTATCTATACAAGTTACTCTTTCCTTTTTTTTTTCATTGT
TAACCTCTGATACTTTCTCCTTAATCTATTCCCTTAGCGCCTCTAAATAA
TTTCTGTACCATATGAATTTCTTACATCAAAAAGAAAAGTCTACATGCTA
GAAAACATTGAAAATAAGCTATGCAATAAACATTTTAGCCTAAGATAAAA
GTATTTAATGATTTGGACTAATTGGGGATAGCCCAGTCAGAATTATAAAA
TATTTAAAAAGAAATATCCCATAAAATAAAAACTATTATAGCCAGTAAAG
GACAAAGGCTTGCAAATCATTGAAAGTAGAGATATTTGAAGACTTATTGT
AATGGATAGTCAATATTTTAAAGTTAGTATACTAACAACTTTGGGAGTAA
TTTTTTGCTTTTAAAGTATTCACAGACCATCTTTCTTTAAGTGCAAAATA
AACTAGAAAGATCCACACCCATATTTTCATAAATTTTGAGTTGCTTGAGC
CTACATTCATATAGCCCCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no346_m11.b1 MSMg01no346_m11.b1 CHROMAT_FILE:
MSMg01no346_m11.b1 PHD_FILE: MSMg01no346_m11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:37:33 2005
         (565 letters)



>mm_chr2_74352535_74353499
          Length = 965

 Score = 1038 bits (537), Expect = 0.0
 Identities = 558/565 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   ctcacctaataaaggagagcgtcttttaaaaagttgcaatggtttgctttatagaaacaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 580 ctcacctaataaaggagagcgtcttttaaaaagttgcaatggtttgctttatagaaacaa 521

                                                                       
Query: 61  tctttcaaaagaaatcaaatatacttggaataaacttattctcaactatgtgttaacgta 120
           |||||||||||||||||||||||||||||||||| ||||||||||||||||||| || ||
Sbjct: 520 tctttcaaaagaaatcaaatatacttggaataaaattattctcaactatgtgttcacata 461

                                                                       
Query: 121 gctacagtgtatgcagtgtatggattttcagaatagaatactttgagtcctgtaattgaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 460 gctacagtgtatgcagtgtatggattttcagaatagaatactttgagtcctgtaattgaa 401

                                                                       
Query: 181 attgaatataaactggaataaaatcaatattcttgagacctattttgattgaatattgtg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 400 attgaatataaactggaataaaatcaatattcttgagacctattttgattgaatattgtg 341

                                                                       
Query: 241 tatgggttcttgctgttccttttcagaacattttccttttggtttttgaagatctgaatt 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 340 tatgggttcttgctgttccttttcagaacattttccttttggtttttgaagatctgaatt 281

                                                                       
Query: 301 ccctttgattgtttatgaaacctttctccccttaaatatggtaatctcctgtagtacagc 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 ccctttgattgtttatgaaacctttctccccttaaatatggtaatctcctgtagtacagc 221

                                                                       
Query: 361 ttatttcagaacagcagccaggcaggatgctcagtggacaaagccaattgctgccaagcc 420
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 220 ttatttcagaacagcagccaggcagggtgctcagtggacaaagccaattgctgccaagcc 161

                                                                       
Query: 421 tgactacttgagttcagctccaaggactcacatggtataaggaaagaactgactttagaa 480
           |||||||| |||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 160 tgactactcgagttcagctccaaggactcacatggtagaaggaaagaactgactttagaa 101

                                                                       
Query: 481 cgctgtcctctgacctccacacattgacttcatacatgtgcccccaccccagataaataa 540
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 100 cgctgtcctctgacctccacacatggacttcatacatgtgcccccaccccagataaataa 41

                                    
Query: 541 tgtaataacaaaccacatctggaca 565
           |||||||||||||||||||||||||
Sbjct: 40  tgtaataacaaaccacatctggaca 16


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: 24
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= MSMg01no346_m11.g1 MSMg01no346_m11.g1 CHROMAT_FILE:
MSMg01no346_m11.g1 PHD_FILE: MSMg01no346_m11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:37:33 2005
         (628 letters)



>mm_chr2_74192804_74193831
          Length = 1028

 Score = 1176 bits (608), Expect = 0.0
 Identities = 623/628 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   tctccaacagaaggttggcctgcagaggctgttcttctcattcttgtctgttacttcgtt 60
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 201 tctccaacagaaggttggcctgcagaggctgttcttctcattcttgtctgttacttagtt 260

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

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

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

                                                                       
Query: 241 catatgaatttcttacatcaaaaagaaaagtctacatgctagaaaacattgaaaataagc 300
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 cagatgaatttcttacatcaaaaagaaaagtctacatgctagaaaacattgaaaataagc 500

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

                                                                       
Query: 361 agcccagtcagaattataaaatatttaaaaagaaatatcccataaaataaaaactattat 420
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 561 agcccagtcagaattataaaatattttaaaagaaatatcccataaaataaaaactattat 620

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

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

                                                                       
Query: 541 tttaaagtattcacagaccatctttctttaagtgcaaaataaactagaaagatccacacc 600
           ||||||||||||||||||||||||||||||||| |||||||||||||||| |||||||||
Sbjct: 741 tttaaagtattcacagaccatctttctttaagtacaaaataaactagaaaaatccacacc 800

                                       
Query: 601 catattttcataaattttgagttgcttg 628
           ||||||||||||||||||||||||||||
Sbjct: 801 catattttcataaattttgagttgcttg 828


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: 32
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: 628
Length of database: 1028
Length adjustment: 10
Effective length of query: 618
Effective length of database: 1018
Effective search space:   629124
Effective search space used:   629124
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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