BAC Information

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BAC

Clone NameMSMg01-404H18
Chromosome2 (Build37)
Map Location 146,714,545 - 146,883,716
singlet/doubletdoublet
Overlap geneGm114, Xrn2
Upstream geneNat5, Crnkl1, 4930529M08Rik, LOC100043563, Insm1, A230067G21Rik, LOC668918
Downstream geneNkx2-4, Nkx2-2, LOC100043816, LOC668919, LOC668920, Pax1, LOC640914, A530006G24Rik, LOC100043820, Foxa2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-404H18.T7 (MSMg01no404_h18.b1)MSMg01-404H18.TJ (MSMg01no404_h18.g1)
ACCAG503142AG503143
length764762
length of high quality
(start - end)		493 (37 - 529)543 (66 - 608)
definitionCHROMAT_FILE: MSMg01no404_h18.b1 PHD_FILE: MSMg01no404_h18.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:19:10 2005CHROMAT_FILE: MSMg01no404_h18.g1 PHD_FILE: MSMg01no404_h18.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:19:10 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(146,714,545 - 146,715,033)(146,883,325 - 146,883,716)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCATA
GTTTACTGGCAATAGTTGCTGTGTGCAGCAACATTGTATTACAGTAATAA
TCTGGACTGTAGCGGAGCTGGCTAATTCATTAAGTGGGAGTGCATGTTTA
TCAGTGGTAGGAGTTGACATCCATGTTTATGCTTCCTTTCCCTCCTTCCC
TCTCAACTTTATTACTCATATGCAACATGTCTAACTCACACCTCTTCTGC
AGGATGCAGTGCAGGCAGGAATTAACTCGGGGACAGCTATGTCAAGAGGA
TTGTATCAACCAGCAACAATCTTTATGGGCCGCCAAATGTCAGCCATCTC
AAGCATTGAAGATTTCAGTACAGAGCTGAAATCTAACCAACCCACAAAGA
ACTTTTCAATCTCTGACCCACATTCACACCAACAGACAGCCCAGAGCAGC
TGTGTGACAGACAGCTGTGTAGTGCAGACTAATGGTGACACACAGTGCTT
ATATAAGTCTGACAAAATACATGGAAAGACATCTCTTCAGACTGGTGAGA
AGGCGCCAGTCACAAGCTATGTATTGTCTGCAAAACAAAAACTTCTTTGT
TTGGAAATAGAAAGCTCCCACCTCCCACCAGGAAGAATTTATCTGAAGGC
AAAAGGCCGCGGGATTCCCTTCCCCCGCACGGGAAAAATAATTCCTCCAA
AAACATTTCCTTGTTTTAAGGGTGGCGGTCTCGCCGCAACACAGGGTTCT
TAATAAAAAATCGT

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXCCTGAAGACCCAAAACCCCAATGGAACTGATAGAC
TTAGTAAAGATACAGGATATAAAAATCAACACACACACACACAATGAGAA
AGAGAGAGAAAAGAGGGGGGACAAAGAGACAAAGAGACAATACCCCCCAA
CCCCCAATTACTAACAAACTCTTGCTGAAAAACAAATTTTAAAAAGCAGT
CTCATATGGCTAAAAGAAATGGCTCAGTAGTTAAAGGCACTTGCTGCTCT
TTGCAGAGGACCTGTACCCACACCAGGCAGCTCACAACCACTATAACTCT
AGTTCCAGAGGATCCAGCATCTCTTTCTAACATCCTCAGGTACTTGCACA
AACATTCAAGCACACACACATAAAAAACATTTTTTAGAGGCCATATCATC
CCCAATATTCAATGTTTTACAGGAGGAAAAACTAGGAATAAATTAAACTA
AGAAAGTAAAATATATCTGCTATCAAAATGCTGACAGTGACAAAAAGTTC
ACGATATACAAAAAGGTAGAGATATATCCCAAGCTCAAGAAACAGAGCCT
TTAATATTGCTACAATGTTCATATTACCAAAAGCAGTCTAAAGGTATAAA
ACAATAGGCATGAAACTACAAATACCATTCTTCCTAGGATTATGAAAAAA
AAATCCCTAAACCACTTGGGGAACCATAGAAAAAAAAGGATCCTGAGGCA
AACCCACCAAAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no404_h18.b1 MSMg01no404_h18.b1 CHROMAT_FILE:
MSMg01no404_h18.b1 PHD_FILE: MSMg01no404_h18.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:19:10 2005
         (493 letters)



>mm_chr2_146714341_146715233
          Length = 893

 Score =  922 bits (477), Expect = 0.0
 Identities = 486/489 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccatagtttactggcaatagttgctgtgtgcagcaacattgtattacagtaataa 64
           ||||||||||||| | ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattccatagttcattggcaatagttgctgtgtgcagcaacattgtattacagtaataa 264

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

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

                                                                       
Query: 185 tgcaacatgtctaactcacacctcttctgcaggatgcagtgcaggcaggaattaactcgg 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 tgcaacatgtctaactcacacctcttctgcaggatgcagtgcaggcaggaattaactcgg 444

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

                                                                       
Query: 305 cagccatctcaagcattgaagatttcagtacagagctgaaatctaaccaacccacaaaga 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 cagccatctcaagcattgaagatttcagtacagagctgaaatctaaccaacccacaaaga 564

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

                                                                       
Query: 425 acagctgtgtagtgcagactaatggtgacacacagtgcttatataagtctgacaaaatac 484
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 625 acagctgtgtagtgcagactaatggtgacacacagtgcttaaataagtctgacaaaatac 684

                    
Query: 485 atggaaaga 493
           |||||||||
Sbjct: 685 atggaaaga 693


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: 25
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: 493
Length of database: 893
Length adjustment: 10
Effective length of query: 483
Effective length of database: 883
Effective search space:   426489
Effective search space used:   426489
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= MSMg01no404_h18.g1 MSMg01no404_h18.g1 CHROMAT_FILE:
MSMg01no404_h18.g1 PHD_FILE: MSMg01no404_h18.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:19:10 2005
         (543 letters)



>mm_chr2_146883325_146884267
          Length = 943

 Score =  758 bits (392), Expect = 0.0
 Identities = 392/392 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   cctgaagacccaaaaccccaatggaactgatagacttagtaaagatacaggatataaaaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 392 cctgaagacccaaaaccccaatggaactgatagacttagtaaagatacaggatataaaaa 333

                                                                       
Query: 61  tcaacacacacacacacaatgagaaagagagagaaaagaggggggacaaagagacaaaga 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 332 tcaacacacacacacacaatgagaaagagagagaaaagaggggggacaaagagacaaaga 273

                                                                       
Query: 121 gacaataccccccaacccccaattactaacaaactcttgctgaaaaacaaattttaaaaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 272 gacaataccccccaacccccaattactaacaaactcttgctgaaaaacaaattttaaaaa 213

                                                                       
Query: 181 gcagtctcatatggctaaaagaaatggctcagtagttaaaggcacttgctgctctttgca 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 212 gcagtctcatatggctaaaagaaatggctcagtagttaaaggcacttgctgctctttgca 153

                                                                       
Query: 241 gaggacctgtacccacaccaggcagctcacaaccactataactctagttccagaggatcc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 152 gaggacctgtacccacaccaggcagctcacaaccactataactctagttccagaggatcc 93

                                                                       
Query: 301 agcatctctttctaacatcctcaggtacttgcacaaacattcaagcacacacacataaaa 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 92  agcatctctttctaacatcctcaggtacttgcacaaacattcaagcacacacacataaaa 33

                                           
Query: 361 aacattttttagaggccatatcatccccaata 392
           ||||||||||||||||||||||||||||||||
Sbjct: 32  aacattttttagaggccatatcatccccaata 1


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: 543
Length of database: 943
Length adjustment: 10
Effective length of query: 533
Effective length of database: 933
Effective search space:   497289
Effective search space used:   497289
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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