BAC Information

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BAC

Clone NameMSMg01-113E03
Chromosome1 (Build37)
Map Location 196,560,190 - 196,709,417
singlet/doubletdoublet
Overlap genePlxna2
Upstream geneLOC667208, EG623172
Downstream geneCd34, Cd46, Crry, Cr2, EG635956, LOC623380
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-113E03.T7 (MSMg01no113_e03.b1)MSMg01-113E03.TJ (MSMg01no113_e03.g1)
ACCAG325450AG325451
length712715
length of high quality
(start - end)
468 (73 - 540)452 (67 - 518)
definitionCHROMAT_FILE: MSMg01no113_e03.b1 PHD_FILE: MSMg01no113_e03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:18:38 2005CHROMAT_FILE: MSMg01no113_e03.g1 PHD_FILE: MSMg01no113_e03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:18:38 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(196,708,950 - 196,709,417)(196,560,190 - 196,560,641)
sequence
TTGCGGCGCTAAACGACTCACTATTTCGCACGGAGGGCGGAATTCTTCTT
GTCCCGCAAAGAGTTTAGAGAACTATGTCTTGTTCACAGAGAATTACTGT
ACTCTGCTTTCATCAGCAAATTCCTATCCATACTTTAAAGTTGCAGCCCC
TTTCTTTTAAGGGACCTTCTAATTACATCAGGCCCACATACAGTAATCCC
TCCATCTCAAGAGTCTTTTACATTTTTTATATTCTTTGAGATTTTTACAT
GTGTAATGTATTTGATTATGCCCACCCTGTTTCTCCATCTCCAATCTCCC
AGACTCTCTTATTTTAATAACCCCAGTTTTTCTTTTTTCTTGATAATCGA
TTGAGTCCAATTACAGCTTCCTATAAGTATATGAGTGTGGGGCCATCCAC
AAAGACAGGCAATGCACTAGACGTTGATTCTCTGAAGAAAACTGACTCTC
AGTTGGTTCCCTCAACAACTATCAGTTGTTGGTTTTAAGCTAGGGGCAGG
GACTTGGTGCATCTTAAGAGTTTTACTGCAATCACAGGTATAAAGATCTT
TCAGCCTGATAATACAACGTAATCACAGACATCAGAGACTAGGACTAGGA
AATCTTTGAGTCAAAGGATTAGGGGATGGAGATGGCAGAACATTTGCCAC
ATCTATAAAATCTAGATTTTCAGATAAATATTTAAAAATAAATATTCCTG
GACGAAAAAGCA
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXTGGGAGATGCATCTGAATCTAACTTGGTTTTATT
CCCACTGTTCCTTCAGAGGGCATATCTTGGAAAAGTCATACAGATCTTCA
ATAGGGCTAAACAGCCAGAAGCTCAGCCTTGGGTAATAAGATGCTGTTAA
CCCTAGGTGTGATCTCAAACAGTGTCTTCAGAGTTAAGATGAAAGACCCT
GACCAGGACTAAACTCCATTGATGGCAGCTTAAATGTGTCCCTATTCACA
GCACTTTGAGACTGTGCCTCATGAATGTTCCCTGCCTTCCTGTTCACAGC
TCTTTCCCATACCTCACTCTTACTTCTGAGCTGCTGGTCCTGACCCTTCC
AGAGAAAAGGTCAGGGAGAGATCAGGGAGGTACACAGTTGAGACTGTCAC
AGATAGCTGTGATCTTCAGCCGGCCAGTGTTTTATTTTCATGGCTGGAAA
CGTGGTGACCTTGGGGATACCCACAGCATTTATAACTGGTTTCCACCAGG
TGGAGATGGTTTTCCTGCTGACAACATTTGTGCTCTGATTTTTCAGAAGT
TCCCTTAGTATCACCTTCAGGGACCCTTCTCAGGCAAGTTATAAAGTGCC
AGACTAAGCTTTCCTAGCTTGGCGGCCTGTGTAGAGCTTTCCTTGATTTT
GAGGAGAATCATGCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no113_e03.b1 MSMg01no113_e03.b1 CHROMAT_FILE:
MSMg01no113_e03.b1 PHD_FILE: MSMg01no113_e03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:18:38 2005
         (468 letters)



>mm_chr1_196708816_196709683
          Length = 868

 Score =  859 bits (444), Expect = 0.0
 Identities = 462/468 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   ctatgtcttgttcacagagaattactgtactctgctttcatcagcaaattcctatccata 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 602 ctatgtcttgttcacagagaattactgtactctgctttcatcagcaaattcctatccata 543

                                                                       
Query: 61  ctttaaagttgcagcccctttcttttaagggaccttctaattacatcaggcccacataca 120
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 542 ctttaaagttgcaacccctttcttttaagggaccttctaattacatcaggcccacataca 483

                                                                       
Query: 121 gtaatccctccatctcaagagtcttttacattttttatattctttgagatttttacatgt 180
           |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 482 gtaatccctccatctcaagagtcttttacattttctatattctttgagatttttacatgt 423

                                                                       
Query: 181 gtaatgtatttgattatgcccaccctgtttctccatctccaatctcccagactctcttat 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 422 gtaatgtatttgattatgcccaccctgtttctccatctccaatctcccagactctcttaa 363

                                                                       
Query: 241 tttaataaccccagtttttcttttttcttgataatcgattgagtccaattacagcttcct 300
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 362 cttaataaccccagtttttcttttttcttgataatcgattgagtccaattacagcttcct 303

                                                                       
Query: 301 ataagtatatgagtgtggggccatccacaaagacaggcaatgcactagacgttgattctc 360
           |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 302 ataagtatatgagtgtggggccatccacaaagacaggcaatgtactagacgttgattctc 243

                                                                       
Query: 361 tgaagaaaactgactctcagttggttccctcaacaactatcagttgttggttttaagcta 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 242 tgaagaaaactgactctcagttggttccctcaacaactatcagttgttggttttaagcta 183

                                                           
Query: 421 ggggcagggacttggtgcatcttaagagttttactgcaatcacaggta 468
           || |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 182 ggagcagggacttggtgcatcttaagagttttactgcaatcacaggta 135


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: 19
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: 468
Length of database: 868
Length adjustment: 10
Effective length of query: 458
Effective length of database: 858
Effective search space:   392964
Effective search space used:   392964
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= MSMg01no113_e03.g1 MSMg01no113_e03.g1 CHROMAT_FILE:
MSMg01no113_e03.g1 PHD_FILE: MSMg01no113_e03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:18:38 2005
         (452 letters)



>mm_chr1_196559990_196560841
          Length = 852

 Score =  843 bits (436), Expect = 0.0
 Identities = 448/452 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  ttggaaaagtcatacagatcttcaatagggctaaacagccagaagctcagccttgggtaa 120
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ttggaaaagtcgtacagatcttcaatagggctaaacagccagaagctcagccttgggtaa 320

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

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

                                                                       
Query: 241 tgagactgtgcctcatgaatgttccctgccttcctgttcacagctctttcccatacctca 300
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tgagcctgtgcctcatgaatgttccctgccttcctgttcacagctctttcccatacctca 500

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

                                                                       
Query: 361 gaggtacacagttgagactgtcacagatagctgtgatcttcagccggccagtgttttatt 420
            ||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 561 caggtacacagttgagactgtcacagatagctgtgatcttcagctggccagtgttttatt 620

                                           
Query: 421 ttcatggctggaaacgtggtgaccttggggat 452
           ||||||||||||||||||||||||||||||||
Sbjct: 621 ttcatggctggaaacgtggtgaccttggggat 652


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: 21
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: 452
Length of database: 852
Length adjustment: 10
Effective length of query: 442
Effective length of database: 842
Effective search space:   372164
Effective search space used:   372164
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)