BAC Information

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BAC

Clone NameMSMg01-360M20
Chromosome6 (Build37)
Map Location 105,660,168 - 105,848,698
singlet/doubletdoublet
Overlap geneLOC100043350, Cntn4
Upstream geneCntn6, LOC384470, LOC100043716
Downstream geneIl5ra, Trnt1, Crbn
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-360M20.T7 (MSMg01no360_m20.b1)MSMg01-360M20.TJ (MSMg01no360_m20.g1)
ACCAG469890AG469891
length784764
length of high quality
(start - end)		483 (46 - 528)498 (73 - 570)
definitionCHROMAT_FILE: MSMg01no360_m20.b1 PHD_FILE: MSMg01no360_m20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:55:39 2005CHROMAT_FILE: MSMg01no360_m20.g1 PHD_FILE: MSMg01no360_m20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:55:39 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(105,848,220 - 105,848,698)(105,660,168 - 105,660,661)
sequence
CTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCATGTACTGCCTGGGAGTCTTTGTGAGACACTTTTATAAAGTAAAG
ATAAAGGAAGCTTGGGGATTTGGATCAGTGGTAGTGTACTTGCCTAGCAT
GATCAAGGCCCAAGATAAGAAGGCAATTTTAATGTGCACATGGCTGGGCA
GATGTAATATGATAGCATTATATGTTGTATGAATGAAAAGAATAAAAAAT
ATCATAACAGACCACAGCTTTTGCCATTATTTGCATGCTATTCTTAGGAA
AAGGGCTGTGGGACTATTTGTTATTCATTTTTAATGGGCATAATTAAAAT
ATTGAAATTGCCAGATACCTATTATTTTAGACTCTGTTCCCTACTCGCTA
AGTCTAATTGAAGCTCCCCAATTTTATTAGATGGTATATATATATTATAT
ATGGTAAATACCACAAATATGGCTGGATAAGGCATGTATTAAAAATTAAA
CATTGCTGTCTAACAGATGAACTAATGTAGTTATCTTTCAGAATAAAATA
TCTCTATAATATTAAGTGTTTATCACATTTCTTTTTTAAAAGATCCCCTG
TGGGGTCCTACAATCCACCTCCAAATTAATAAAAAAATTGGAATTTTCCC
CCCCCATTTTTAGACGAATGATGGGTAATAAAAAATGGGGATAGGTTGTA
TATAATTCCCCTCCTTCTCCCCTACAAAACATATATACCGGGGGAGCCTT
TTTATATAAAGGTTTAACCCCCCCCCCGGCTAAN

GATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXTACTTTTTAAAATTGCCTGGAAGAAAAC
ACATACTTCCAAAACGGAAGTATTCATAATAGCTAGTCTTAAATACCTAC
TACACGGCAGATTTGGTGTCTTAAATTTAATTGTCCCTATTTGTCCCAAT
GTCAAGTTTTATTGTCAATTCTTGTTTACTGACGGGTAGAAGGAGACACA
GAAAGGACTGTGTACTCTGTATTTCAAAGATAGTGAATGACAGAGCCAGG
ACTATGGATGTCTTAGACCATTATCCTTAAGAACATGAGTATAGGCTGAA
GTGTAAGTTCTCCACCAAGAGGAATTTTCTCAAATAGGTGAGTTTTATAA
GTCTATCAGTATCCCAGACTGTGTCATATGCAGAACTCAGATTGTTTGCT
TGTAATGACAGACATTTATTGTGGTGAGGTGGACTGGAACTCTTCATGTA
TATGAGGCTTTCAATTGAAGTGTGGCTTAGATCTATTTAACATCCGAGCA
TAGGTCAAATCCTACGACACACTTAAAAATATAGAGAGCTGAGTGTAATG
TTCCCACAAAGAATGTGTCACTTTTATATCTAACCATTTCACATCCTGGA
AAAATTTTATAAAATAGAACTAATTTTTAGTTTTACACAGATTTTGCTTC
TTTGGGATTGATAAAGGGCACTTCATCCTAGCTTGTAAGTCCAAAATGTT
CCACCAAAATTTGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no360_m20.b1 MSMg01no360_m20.b1 CHROMAT_FILE:
MSMg01no360_m20.b1 PHD_FILE: MSMg01no360_m20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:55:39 2005
         (483 letters)



>mm_chr6_105847904_105848786
          Length = 883

 Score =  849 bits (439), Expect = 0.0
 Identities = 469/479 (97%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcatgtactgcctgggagtctttgtgagacacttttataaagtaaagataaaggaa 64
           |||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 795 gaattcatgtacagcatgggagtctttgtgagacacttttataaagtaaagataaaggaa 736

                                                                       
Query: 65  gcttggggatttggatcagtggtagtgtacttgcctagcatgatcaaggcccaagataag 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 735 gcttggggatttggatcagtggtagtgtacttgcctagcatgatcaaggcccaagataag 676

                                                                       
Query: 125 aaggcaattttaatgtgcacatggctgggcagatgtaatatgatagcattatatgttgta 184
           |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 675 aaggcaattttaatgtgcacatggctgggcagatgtaatatggtagcattatatgttgta 616

                                                                       
Query: 185 tgaatgaaaagaataaaaaatatcataacagaccacagcttttgccattatttgcatgct 244
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 615 tgaatgaaaagaataaaaaatatcataacagacgacagcttttgccattatttgcatgct 556

                                                                       
Query: 245 attcttaggaaaagggctgtgggactatttgttattcatttttaatgggcataattaaaa 304
           ||| ||||||||||||||||||||||||||||||  ||||||||||||||||||||||||
Sbjct: 555 atttttaggaaaagggctgtgggactatttgttaaacatttttaatgggcataattaaaa 496

                                                                       
Query: 305 tattgaaattgccagatacctattattttagactctgttccctactcgctaagtctaatt 364
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 495 tattgaaattgccagatacctattattttagactctgttccctactctctaagtctaatt 436

                                                                       
Query: 365 gaagctccccaattttattagatggtatatatatattatatatggtaaataccacaaata 424
           |||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 435 gaagctcccccattttattagatggtatatatatattatatatagtaaataccacaaata 376

                                                                      
Query: 425 tggctggataaggcatgtattaaaaattaaacattgctgtctaacagatgaactaatgt 483
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 375 tggctggataaggcatgtattaaaaattaaacattgctgtctaacagatgaactaatgt 317


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: 483
Length of database: 883
Length adjustment: 10
Effective length of query: 473
Effective length of database: 873
Effective search space:   412929
Effective search space used:   412929
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= MSMg01no360_m20.g1 MSMg01no360_m20.g1 CHROMAT_FILE:
MSMg01no360_m20.g1 PHD_FILE: MSMg01no360_m20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:55:39 2005
         (498 letters)



>mm_chr6_105659968_105660865
          Length = 898

 Score =  909 bits (470), Expect = 0.0
 Identities = 488/494 (98%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 gtcccaatgtcaagttttattgtcaattcttgtttactgacgggtagaaggagacacaga 180
           || ||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 321 gttccaatgtcaagttttattgtcaattcttgtttactgatgggtagaaggagacacaga 380

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

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

                                                                       
Query: 301 aattttctcaaataggtgagttttataagtctatcagtatcccagactgtgtcatatgca 360
           |||||||||||||||||||||||||||||||||||||||||||| |||| ||||||||||
Sbjct: 501 aattttctcaaataggtgagttttataagtctatcagtatcccaaactgcgtcatatgca 560

                                                                       
Query: 361 gaactcagattgtttgcttgtaatgacagacatttattgtggtgaggtggactggaactc 420
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 561 gaactcagattgtttgcttgtaattacagacatttattgtggtgaggtggactggaactc 620

                                                                       
Query: 421 ttcatgtatatgaggctttcaattgaagtgtggcttagatctatttaacatccgagcata 480
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 621 ttcatgtatatgaggctttcaattgaagtgtggcttagatctatttaacatctgagcata 680

                         
Query: 481 ggtcaaatcctacg 494
           ||||||||||||||
Sbjct: 681 ggtcaaatcctacg 694


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: 498
Length of database: 898
Length adjustment: 10
Effective length of query: 488
Effective length of database: 888
Effective search space:   433344
Effective search space used:   433344
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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