BAC Information

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BAC

Clone NameMSMg01-485A21
Chromosome5 (Build37)
Map Location 48,161,118 - 48,313,101
singlet/doubletdoublet
Overlap genenone
Upstream geneLOC100040865
Downstream geneLOC100040876, Slit2, 4933428G09Rik, Kcnip4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-485A21.T7 (MSMg01no485_a21.b1)MSMg01-485A21.TJ (MSMg01no485_a21.g1)
ACCAG564592AG564593
length733747
length of high quality
(start - end)		554 (80 - 633)487 (85 - 571)
definitionCHROMAT_FILE: MSMg01no485_a21.b1 PHD_FILE: MSMg01no485_a21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:06:51 2005CHROMAT_FILE: MSMg01no485_a21.g1 PHD_FILE: MSMg01no485_a21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:06:51 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(48,312,548 - 48,313,101)(48,161,118 - 48,161,604)
sequence
TCGTGNNTNNTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXCGCGGAATTCATCCCAGATACGCCAAAATGTAAAGGCAGTGTG
CGGTGATAGAGTGGATATCAGTGTCTAGAACTGACAGCATATTTTATTCA
TTTCCCATGACTTTAGTCTTGTTATTGTCTGAGTCTAAATCTCCTCGTCT
TAAAATCAGAAATGTTGCAATATTATAGACATATTTATTCTCAGTCAGGT
TAGGCTTTCCTGTTCCTAGCATATCTGCATTTCTATACATTAGGAATGTA
TATTCACCAGAATTCACTTATGTGTTGCCAATTGGACTGGAAGTTATTCC
ACTATACCAGTTTGTTAAAAGCAAAATTCTAAACAAAGTTTACTCAGAGA
TGTTGGGAAATAACACTAAAATATGATAGCTATTTGAAAACTTCTATAAA
GGTCAGGCAAGCATTTAAACTGCCAACACATTCTATGATCTAGAAAGTGA
CAATGCTATCAGGACACCCACAGAGAAACCTGTTTTCACTTTGTAGTAAA
TATTTTTTCCTCACAAAAAGCTTGTTGAAAGAAAAGAAAACTGCCCAAAT
GTAGAGGAAGTGAAGCAACATTGGTATTTAATTAAAAAGAAATTAGTCAT
GCTGATGATGAAGGAAGGGGATTTCCCATACACACTTGAGAAACTGAANG
CAAGGACATGAACCAGCCAATAAAACCAAACTT

NNNNNNNNNCCAATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXATTGCAATCTTCCTTT
CTGAAAACGCCTTCAGACATTTTATCCCTTTTGGAGGCATTTAAACTGAA
ACGCAGAAAAATATCCCAAACTCATTTTATCAGTCACCTACCCAAGGATT
TAGAGTCATAACATTACAACATTTGAAGGCAGATGGTCTAAAACAAAGAA
AACACGTTAGGCTGCCTGTTTGGCTCTTCATAAATGGAAATAGCTTGTCC
ATCTTAAAGAAAGTAGATAAGAAGTGCATTGCAGTATATTCACCCAGTAC
ATTAGTGTTCTAATTAATGCAGTGAAGATGTGTGGTATAATAAGACAGAA
AATTCTGTAGGATTTTTGAAAGTTTGGGTCCTTGAAAAACATAAAATAAA
TACGAGGATGATATTTTCTCTCAAAGATATTTAGGGAAGAAAAAAAATAC
ATCTGAAATATGGAAGGTTGGAAATCTGGAGTGCTGATAAAAGGCATAGA
GTCAGAAAGACTGATGAATGTTAAGCACAGAGAAGTTTGGGAACTGATGG
CTACTTTCTGGATTACCATGAGTGTTTATAGTGGACTATGGGCAACTGAT
TCCACTAAGAAAANGTCTCTGGAATTCCCTGAACAAACAGCATCATGTAT
AGGCAAAGTGCAAAAGTTGGGGTCAACAGCACTGGTAAAAACAGGAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no485_a21.b1 MSMg01no485_a21.b1 CHROMAT_FILE:
MSMg01no485_a21.b1 PHD_FILE: MSMg01no485_a21.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:06:51 2005
         (554 letters)



>mm_chr5_48312348_48313301
          Length = 954

 Score = 1040 bits (538), Expect = 0.0
 Identities = 550/554 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   ccaaaatgtaaaggcagtgtgcggtgatagagtggatatcagtgtctagaactgacagca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 754 ccaaaatgtaaaggcagtgtgcggtgatagagtggatatcagtgtctagaactgacagca 695

                                                                       
Query: 61  tattttattcatttcccatgactttagtcttgttattgtctgagtctaaatctcctcgtc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 694 tattttattcatttcccatgactttagtcttgttattgtctgagtctaaatctcctcatc 635

                                                                       
Query: 121 ttaaaatcagaaatgttgcaatattatagacatatttattctcagtcaggttaggctttc 180
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 634 ttaaaatcagaaatgttgcaatattatagacatatttattctcagtcaggttagtctttc 575

                                                                       
Query: 181 ctgttcctagcatatctgcatttctatacattaggaatgtatattcaccagaattcactt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 574 ctgttcctagcatatctgcatttctatacattaggaatgtatattcaccagaattcactt 515

                                                                       
Query: 241 atgtgttgccaattggactggaagttattccactataccagtttgttaaaagcaaaattc 300
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 514 atgtgttgccaattggactggaagtcattccactataccagtttgttaaaagcaaaattc 455

                                                                       
Query: 301 taaacaaagtttactcagagatgttgggaaataacactaaaatatgatagctatttgaaa 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 454 taaacaaagtttactcagagatgttgggaaataacactaaaatatgatagctatttgaaa 395

                                                                       
Query: 361 acttctataaaggtcaggcaagcatttaaactgccaacacattctatgatctagaaagtg 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 394 acttctataaaggtcaggcaagcatttaaactgccaacacattctatgatctagaaagtg 335

                                                                       
Query: 421 acaatgctatcaggacacccacagagaaacctgttttcactttgtagtaaatattttttc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 334 acaatgctatcaggacacccacagagaaacctgttttcactttgtagtaaatattttttc 275

                                                                       
Query: 481 ctcacaaaaagcttgttgaaagaaaagaaaactgcccaaatgtagaggaagtgaagcaac 540
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 274 ctcacaaaaagcttgttgaaagagaagaaaactgcccaaatgtagaggaagtgaagcaac 215

                         
Query: 541 attggtatttaatt 554
           ||||||||||||||
Sbjct: 214 attggtatttaatt 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: 27
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: 554
Length of database: 954
Length adjustment: 10
Effective length of query: 544
Effective length of database: 944
Effective search space:   513536
Effective search space used:   513536
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= MSMg01no485_a21.g1 MSMg01no485_a21.g1 CHROMAT_FILE:
MSMg01no485_a21.g1 PHD_FILE: MSMg01no485_a21.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:06:51 2005
         (487 letters)



>mm_chr5_48160918_48161804
          Length = 887

 Score =  934 bits (483), Expect = 0.0
 Identities = 486/487 (99%)
 Strand = Plus / Plus

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

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

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

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

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

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

                                                                       
Query: 361 aataaatacgaggatgatattttctctcaaagatatttagggaagaaaaaaaatacatct 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 561 aataaatacgaggatgatattttctctcaaagatatttagggaagaaaaaaaacacatct 620

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

                  
Query: 481 tgaatgt 487
           |||||||
Sbjct: 681 tgaatgt 687


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: 23
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: 487
Length of database: 887
Length adjustment: 10
Effective length of query: 477
Effective length of database: 877
Effective search space:   418329
Effective search space used:   418329
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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