BAC Information

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BAC

Clone NameMSMg01-162P13
Chromosome5 (Build37)
Map Location 12,441,305 - 12,441,944
singlet/doubletsinglet
Overlap geneSema3d
Upstream geneLOC100042858, LOC667974, EG667986, EG623898, EG668001, LOC668008, EG668011, LOC668017, EG668021, LOC623998, EG668043, LOC545732, LOC384144, LOC100041626, EG668059
Downstream geneLOC668015, LOC100042917, LOC668069, LOC433845, LOC625989, LOC670717, Sema3a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-162P13.T7 (MSMg01no162_p13.b1)MSMg01-162P13.TJ (MSMg01no162_p13.g1)
ACCAG361930AG361931
length729727
length of high quality
(start - end)
638 (43 - 680)290 (73 - 362)
definitionCHROMAT_FILE: MSMg01no162_p13.b1 PHD_FILE: MSMg01no162_p13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:30:27 2005CHROMAT_FILE: MSMg01no162_p13.g1 PHD_FILE: MSMg01no162_p13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:30:27 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGGATCCGCGGAA
TTCAGCTTGATTTCCTTATAATCACAATGACAGTGATCCGATAGTCTTAA
TTATTTTAAAGTAGTAAAGTATCATGTGTATTAGAAAAGCAGAGGTACTA
CTTTTCCTTTGTGGTTATTATAGTTTTTTATTTCCTGACTTGAGTCAAAA
TATGTAAAGGTTATTTTTGTACACACACACACACACACACACACACACAC
TTGAGAGTGAATCCTAAATCTCGGTGTTCTTGGTATTAAGTCTTCATGTC
TGAAAAATTACTGTATATGTTAATTATTGTTCCGTACAATATTAACAATT
CATCAGCTTGCCTTATCAATTTTAACAAGATTTTATAAATAAGCCACATC
AATTAAATTCACACAAAATTTTACATATCTTGTTTCTCAAATGAAAATTT
TAATGAGTTACCATCCATATAATAAGCTTTGTGCTTTTTATGTAACTTGG
GGAAATGGCATGGGGCTTCTTGAGTGTTAGATTGCGCTTTTGAATCTCTG
ATTTAGTGGAACAGTGTGTAAAATCTCATAATCAGAACACTCCCTATTGG
CTCCACATCTGAAGATACCCAAGGGTGCTGTTTGTCTCAGTGAACATCTG
GAGTAGATTATATGCAGCTAATTGGCTCCAGGTCAAGCTTATTACCGACA
GTATCATGCAGTACAACCTATGCAATTCN
TACTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXATACTTGGAATAACTCCTTAGAAAATAA
TTTTACTAATATGTTCATACATAAATAGTGAGATAAAAATATTCACCTAG
AGCCGGGTGTGGTGGTGCATGCCTTTAATCCCAGTCCTTGGGAGGCAGAG
GCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGCTCC
AGGACAGCCAGGGCTATAAAGAGAAACCCTGTCTTGAAAAACAATATATA
TATATTCGTCTAGCAGGTGTTCTTGATAATAATTCATAATATTTCTAATT
GCTTTACCACTTTATGTATTACCCGAAACCATGCGTCTTATCCTCTGGAT
GACTTTTACTTGTGTGTGTCCGATCCAAAAATAACTGAGCTTTCTTGGCA
ATTTCCAGGTGTGTATCAAACAAAAGGCCACAAAAGTCAAGGCAACAGTT
TGTCTTTGAAGCTTATCTTAGTGACAGAAATTGACAAATTATAGTCATTA
GAGTAAATATAAAATCGAACCAAGTCACTAGATGTACAGTAGAGTGTGTC
TGAACTTCTACAAACATATATTTATAAATGACTTATAAAGAAATAAATGT
GAATATGTTCACATTTAGAAATTCAATAGAAGAAATGTAGAATAAAGGAG
TTAATAAGAACAATTTTGGGAAGTAGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no162_p13.b1 MSMg01no162_p13.b1 CHROMAT_FILE:
MSMg01no162_p13.b1 PHD_FILE: MSMg01no162_p13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:30:27 2005
         (638 letters)



>mm_chr5_12441107_12442144
          Length = 1038

 Score = 1073 bits (555), Expect = 0.0
 Identities = 617/645 (95%), Gaps = 17/645 (2%)
 Strand = Plus / Plus

                                                                       
Query: 6   gaattcagcttgatttcc-ttataatcacaatgacagtgatccgatagtcttaattattt 64
           ||||||||||||||  || ||||| |||||||| |||||||| |||||||||||||||||
Sbjct: 199 gaattcagcttgatg-ccattatagtcacaatgtcagtgatcagatagtcttaattattt 257

                                                                       
Query: 65  taaagtagtaaagtatcatgtgtattagaaaagcagaggtactacttttcctttgtggtt 124
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 258 taaagtagtaaagtattatgtgtattagaaaagcagaggtactacttttcctttgtggtt 317

                                                                       
Query: 125 attatagttttttatttcctgacttgagtcaaaatatgtaaaggttatttttgtacacac 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 318 attatagttttttatttcctgacttgagtcaaaatatgtaaaggttatttttgtatacac 377

                                                                       
Query: 185 acacacacacacacacacacacacttgagagtgaatcctaaatctcggtgttcttggtat 244
           ||||| |   ||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 378 acaca-a---acacacacacacacttgagagtgaatcctaaatcttggtgttcttggtat 433

                                                                       
Query: 245 taagtcttcatgtctgaaaaa-ttactgtatatgttaattattgttccgta--------- 294
           ||||| ||||||||||||||| |||||||||||||||||||||||||||||         
Sbjct: 434 taagttttcatgtctgaaaaaattactgtatatgttaattattgttccgtatctaaaaaa 493

                                                                       
Query: 295 -caatattaacaattcatcagcttgccttatcaattttaacaagattttataaataagcc 353
            |||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 494 tcaatattaacaattcatcagcttgccttatcaattttaacaagattttgtaaataagcc 553

                                                                       
Query: 354 acatcaattaaattcacacaaaattttacatatcttgtttctcaaatgaaaattttaatg 413
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 554 acatcaattaaattcacataaaattttacatatcttgtttctcaaatgaaaattttaatg 613

                                                                       
Query: 414 agttaccatccatataataagctttgtgctttttatgtaacttggggaaatggcatgggg 473
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 614 agttaccatccatataataagctttgtgctttttatgtaacttggggaaatggcatgggg 673

                                                                       
Query: 474 cttcttgagtgttagattgcgcttttgaatctctgatttagtggaacagtgtgtaaaatc 533
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 674 cttcttgagtgttagattgtgcttttgaatctctgatttagtggaacagtgtgtaaaatc 733

                                                                       
Query: 534 tcataatcagaacactccctattggctccacatctgaagatacccaagggtgctgtttgt 593
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 734 tcataatcagaacactccctattggctccacatctgaagatacccaagggtgctgtttgt 793

                                                        
Query: 594 ctcagtgaacatctggagtagattatatgcagctaattggctcca 638
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 794 ctcagtgaacatctggagtagattatatgcagctaattggctcca 838


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: 4
Number of successful extensions: 4
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 638
Length of database: 1038
Length adjustment: 10
Effective length of query: 628
Effective length of database: 1028
Effective search space:   645584
Effective search space used:   645584
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)