BAC Information

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BAC

Clone NameMSMg01-342I08
Chromosome5 (Build37)
Map Location 16,790,958 - 16,968,143
singlet/doubletdoublet
Overlap geneLOC668142, LOC100041749, LOC100041832
Upstream geneCacna2d1, LOC668121, Hgf, EG668131, LOC626390
Downstream geneSpeer4f, EG630927, Sema3c, Cd36, Gnat3, Gnai1, LOC100041818
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-342I08.T7 (MSMg01no342_i08.b1)MSMg01-342I08.TJ (MSMg01no342_i08.g1)
ACCAG456053AG456054
length714730
length of high quality
(start - end)		550 (38 - 587)464 (65 - 528)
definitionCHROMAT_FILE: MSMg01no342_i08.b1 PHD_FILE: MSMg01no342_i08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:32:03 2005CHROMAT_FILE: MSMg01no342_i08.g1 PHD_FILE: MSMg01no342_i08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:32:04 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(16,790,958 - 16,791,503)(16,967,680 - 16,968,143)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAAC
CAATTTCCTAAGACATGAATTACCAAGAAATCTGTAGTTCCTGAGGTCAG
TGAACAAAGCAAGGTTGTATAAAATGAAGCATAGGTTTGTAGTTAATCAG
AAATCTCTTAAGCACATTTAGTTTGAATTTCAGTCTCCCAAAACATGAAA
CTATAAGAACGCAAGAGTTCTATCCCATTTGTAATTTCTCTTTACTATTT
AAATGTGATGCCATGCTAGAAGGTAGCTCAGCTTTAGAGTGCTTGCCCAG
TATCCATAAAGTTCTGGGCTTGACCACAATACATGTAAGAGAATAGAATA
AAATAAAATTATATTCTTATATCAAAATGTAAAATAAAGACAAAAAATGA
GCAAATAAACATAGAAGTAACACTACCAAATCTAAGAGAAGGATTCCAGA
AAATAGAGATCATGAAGACATAACCTGCTTTATAAAACAATCACCATACA
GAATGAAACTAGGTAAAGTTAGTGAGAAGTGTTAGAAAAGACAGAAATAA
AGAATGGCTGAAGGTAGTAGGAATTAATATCTTTCATGAAAACAACAAAT
AATTAACCAGATGATCACCAATTGAATTGAGTGTCATGTGGTGGTTGCCC
CAAAACTAAACAATCTTTTTCACTTTCAAAATAAATCAATGGATTTAAGT
CACGAAATTGGGGG

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXATGGCCAAGACTAATAGATTTTTCATGGCAGAAACT
CATTAACTTTCTAGAGATCTCTCCATTATCTAAAAGGCTTGCTTGGCCTT
TTGATTTATTGATATAGCTTGACCTTCCAATTGACTTGTTCATGTTCTAA
CTGATGATTCCTCTCCTCACCATTGACAGCTAAGGCTCAAGAAAAATTTA
CAATTGATATAAAACTACTTTTATTCTTTTTATTTTTATAATGTTAGACC
AAAATTCAGAACCATATGTATCTTTATTTATATATTTATCCTAAAGATCT
GTGTTCTTCAAACTCACCACAAATAACTTGAAAATAAGTTATGTAATTAA
TTGGAATTACAATTCTGGCTTATACATGCTAAAATATCTATGCATAAAAA
TGTTAGCATCTGGAAATAAATAAATTAAGATTTATAGTTCATTGAAGCCA
TTGTTACTTTGATTTTGTAACAATCATAGGTTTCACTAGGGACAATAAGT
CAATTGATCCTTTAACTCCAAAAACAAACTATACCATTTTTTAAATTCGC
TTTTATTTAAAAATAGATTAATCTTTTTATACAAACATTCCCAACTAACG
GTTTTTCTTTCCCCCACCTTTTTCAAGAAACCTTTCTAACTTCCCCCCTC
CCCGAACCATCATCCCCCTTCCTTCTCCCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no342_i08.b1 MSMg01no342_i08.b1 CHROMAT_FILE:
MSMg01no342_i08.b1 PHD_FILE: MSMg01no342_i08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:32:03 2005
         (550 letters)



>mm_chr5_16790754_16791703
          Length = 950

 Score = 1033 bits (534), Expect = 0.0
 Identities = 543/546 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcaaccaatttcctaagacatgaattaccaagaaatctgtagttcctgaggtcagt 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcaaccaatttcctaagacatgaattaccaagaaatctgtagttcctgaggtcagt 264

                                                                       
Query: 65  gaacaaagcaaggttgtataaaatgaagcataggtttgtagttaatcagaaatctcttaa 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 gaacaaagcaaggttgtataaaatgaagcataggtttgtagttaatcagaaatctcttaa 324

                                                                       
Query: 125 gcacatttagtttgaatttcagtctcccaaaacatgaaactataagaacgcaagagttct 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 gcacatttagtttgaatttcagtctcccaaaacatgaaactataagaacgcaagagttct 384

                                                                       
Query: 185 atcccatttgtaatttctctttactatttaaatgtgatgccatgctagaaggtagctcag 244
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 atcccatttgtaatttctgtttactatttaaatgtgatgccatgctagaaggtagctcag 444

                                                                       
Query: 245 ctttagagtgcttgcccagtatccataaagttctgggcttgaccacaatacatgtaagag 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 ctttagagtgcttgcccagtatccataaagttctgggcttgaccacaatacatgtaagag 504

                                                                       
Query: 305 aatagaataaaataaaattatattcttatatcaaaatgtaaaataaagacaaaaaatgag 364
           |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 505 aatagaataaaataaaattatattcttatatcaaaacgtaaaataaagacaaaaaatgag 564

                                                                       
Query: 365 caaataaacatagaagtaacactaccaaatctaagagaaggattccagaaaatagagatc 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 caaataaacatagaagtaacactaccaaatctaagagaaggattccagaaaatagagatc 624

                                                                       
Query: 425 atgaagacataacctgctttataaaacaatcaccatacagaatgaaactaggtaaagtta 484
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 625 atgaagacataacctgctttataaaacaatcaccatacagaatgaaactaggcaaagtta 684

                                                                       
Query: 485 gtgagaagtgttagaaaagacagaaataaagaatggctgaaggtagtaggaattaatatc 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 gtgagaagtgttagaaaagacagaaataaagaatggctgaaggtagtaggaattaatatc 744

                 
Query: 545 tttcat 550
           ||||||
Sbjct: 745 tttcat 750


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: 26
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: 550
Length of database: 950
Length adjustment: 10
Effective length of query: 540
Effective length of database: 940
Effective search space:   507600
Effective search space used:   507600
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= MSMg01no342_i08.g1 MSMg01no342_i08.g1 CHROMAT_FILE:
MSMg01no342_i08.g1 PHD_FILE: MSMg01no342_i08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:32:04 2005
         (464 letters)



>mm_chr5_16967480_16968343
          Length = 864

 Score =  859 bits (444), Expect = 0.0
 Identities = 459/464 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   atggccaagactaatagatttttcatggcagaaactcattaactttctagagatctctcc 60
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 664 atggccaagactaatagatttttcatggcagaaactcattaactttctagagatttctcc 605

                                                                       
Query: 61  attatctaaaaggcttgcttggccttttgatttattgatatagcttgaccttccaattga 120
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 604 attatctaaaagacttgcttggccttttgatttattgatatagcttgaccttccaattga 545

                                                                       
Query: 121 cttgttcatgttctaactgatgattcctctcctcaccattgacagctaaggctcaagaaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 544 cttgttcatgttctaactgatgattcctctcctcaccattgacagctaaggctcaagaaa 485

                                                                       
Query: 181 aatttacaattgatataaaactacttttattctttttatttttataatgttagaccaaaa 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 484 aatttacaattgatataaaactacttttattctttttatttttataatgttagaccaaaa 425

                                                                       
Query: 241 ttcagaaccatatgtatctttatttatatatttatcctaaagatctgtgttcttcaaact 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 424 ttcagaaccatatgtatctttatttatatatttatcctaaagatctgtgttcttcaaact 365

                                                                       
Query: 301 caccacaaataacttgaaaataagttatgtaattaattggaattacaattctggcttata 360
           ||||||||||||||||||||||| | ||||||||||||||||||||||||||||||||||
Sbjct: 364 caccacaaataacttgaaaataaatcatgtaattaattggaattacaattctggcttata 305

                                                                       
Query: 361 catgctaaaatatctatgcataaaaatgttagcatctggaaataaataaattaagattta 420
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 304 catgctaaaatatctatgcataaaaatgttagcatctggagataaataaattaagattta 245

                                                       
Query: 421 tagttcattgaagccattgttactttgattttgtaacaatcata 464
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 244 tagttcattgaagccattgttactttgattttgtaacaatcata 201


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: 464
Length of database: 864
Length adjustment: 10
Effective length of query: 454
Effective length of database: 854
Effective search space:   387716
Effective search space used:   387716
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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