BAC Information

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BAC

Clone NameMSMg01-367D08
Chromosome2 (Build37)
Map Location 106,453,759 - 106,640,817
singlet/doubletdoublet
Overlap genenone
Upstream genePax6os1, Pax6, Elp4, LOC100043394, Immp1l, LOC100043402, Dph4, LOC668765, Dcdc5, 9330126M15
Downstream geneC130023O10Rik, LOC677260, 2700007P21Rik, LOC383739, Fshb, Kcna4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-367D08.T7 (MSMg01no367_d08.b1)MSMg01-367D08.TJ (MSMg01no367_d08.g1)
ACCAG474736AG474737
length767720
length of high quality
(start - end)		477 (52 - 528)551 (58 - 608)
definitionCHROMAT_FILE: MSMg01no367_d08.b1 PHD_FILE: MSMg01no367_d08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:04:17 2005CHROMAT_FILE: MSMg01no367_d08.g1 PHD_FILE: MSMg01no367_d08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:04:18 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(106,640,357 - 106,640,817)(106,453,759 - 106,454,311)
sequence
NTTTTTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XCGCGGAATTCTGTTGGAATTTTAGCTATACCACAACTCCAGTAACTGTG
GGTACTGCCAGGGCCCAGACTATAGACATGGAGCACTTCACAGCAACAGC
AGCTTCCTGTAAGATCCACCCTGCCCCCCACCCGATCTCTCCAAAGGTCT
GAGACAGTTATTTATGGTTAGTATTACTGCACTACCCTGGATGAGTCCAG
GGCCTTGCACATGCTGGGCAAGTGTTCCACTACTGAATTAGAGCCACAGT
CCCCCAAGTATTTAGCTTCTGTTTTCCTAGAATTTTCCATAGTTATTTGT
GGAAGGCTCAATCTGTTACAAGCTTAGATTTCCGTAACTGAATGAAACAA
CAACAATATCATTTTTGAAGACTTCAAAACCCATAACTATAAGTTGTGTA
GACAGGCGCACGCACACACACACACACACACACACACACACAAATACATG
TGTGCCTTCTTACAAGAAACAGCTAAGGGCAAAGAACCCAGATGTCCCTC
AACAGAGGAATGGATTCAGAAAATGGAGTACATTTACCCAATAGAGTATT
ACTCAGTATTAAAAACAATAAATTCTTGAAATTCTTAGGGCAATGGGATG
GATTATAAAAAACATCCCTGAGGGAGTAACCCCCTCTCAAAAGAAACACC
CTGGAATGGCCTTACCGGTAAGTGGGAATAACCCCCAAACTTATTAATAC
CCAATTGGGAAAAAACT

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXAATTTCACTTGCCCCAGTGCAAGGTCACCTTGTAATAAAAGCT
AGGGTTGGAGCACACGCCATGACCCACGTGTAGCAGCTTCTCCAGCCCAC
ATGGCTATTCAATGCTTAAGATCAGGAGCACTTGACAGCAGGCCTAGGGA
ACCTCCTGTAACTCAGATGAGTTGTCGAGAAAATACATGACTTTGTGGAA
CTTTACCCTAGGCAGTTCGGCAAGGGCCTGGCATTAATACCCCAATGAAT
AACAACTAGAGCACTTTATGATTGTGTGTATTTGATGGCATGACTGTCTC
CCATCAAGCTCCAACACAGGTTTGAAAACAAATACAGCAACGATGCAAGT
CCAGGGCAGTGCCACCATGAGCTACATGTACAGTGTCACTCATTGTAGTA
GCCATGTTGGAAATGGAAAAAGAAACAACAGAAATTAAATTTCATAATCG
GAGTTATTTGACCCACTCTTTGCAAAGCCCTATCTGTCCTTGAGCATGTG
ATCCATACAATGTATCGGCACAGTCTACATGCTTTGCTTGTTTCATCACA
CTGTCTGCAGAGCCTAGTGTGCACTCCACATTTGTTAGCACCTCTCACAT
TACATGGGTTACACTCTACCGCTCAGTGGCCAAGCATGGCAAGTGTCCCC
AGCTGGACAACGTGGCTCCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no367_d08.b1 MSMg01no367_d08.b1 CHROMAT_FILE:
MSMg01no367_d08.b1 PHD_FILE: MSMg01no367_d08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:04:17 2005
         (477 letters)



>mm_chr2_106639963_106640839
          Length = 877

 Score =  806 bits (417), Expect = 0.0
 Identities = 454/473 (95%), Gaps = 12/473 (2%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctgttggaattttagctataccacaactccagtaactgtgggtactgccagggcc 64
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 855 gaattctgttggaattttagccataccacaactccagtaactgtgggtactgccagggcc 796

                                                                       
Query: 65  cagactatagacatggagcacttcacagcaacagcagcttcctgtaagatccaccctgcc 124
           ||||||| |||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 795 cagactacagacatggagcacttcacagcaacagcagctttctgtaagatccaccctgcc 736

                                                                       
Query: 125 ccccacccgatctctccaaaggtctgagacagttatttatggttagtattactgcactac 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 735 ccccacccgatctctccaaaggtctgagacagttatttatggttagtattactgcactac 676

                                                                       
Query: 185 cctggatgagtccagggccttgcacatgctgggcaagtgttccactactgaattagagcc 244
           | |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 675 catggatgagtccagggccttgcacatgctgggcaagtgttccactactgaattagagac 616

                                                                       
Query: 245 acagtcccccaagtatttagcttctgttttcctagaattttccatagttatttgtggaag 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 615 acagtcccccaagtatttagcttctgttttcctagaattttccatagttatttgtggaag 556

                                                                       
Query: 305 gctcaatctgttacaagcttagatttccgtaactgaatgaaacaacaacaatatcatttt 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 555 gctcaatctgttacaagcttagatttccgtaactgaatgaaacaacaacaatatcatttt 496

                                                                       
Query: 365 tgaagacttcaaaacccataactataagttgtgtagacaggcgcacgcacacacacacac 424
           ||||||| |||||||||||||||||||||||||||||||||||   |          |||
Sbjct: 495 tgaagacctcaaaacccataactataagttgtgtagacaggcg--tg----------cac 448

                                                                
Query: 425 acacacacacacacacaaatacatgtgtgccttcttacaagaaacagctaagg 477
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 447 acacacacacacacacaaatacatgtgtgccttcttacaagaaacagctaagg 395


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: 31
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 477
Length of database: 877
Length adjustment: 10
Effective length of query: 467
Effective length of database: 867
Effective search space:   404889
Effective search space used:   404889
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= MSMg01no367_d08.g1 MSMg01no367_d08.g1 CHROMAT_FILE:
MSMg01no367_d08.g1 PHD_FILE: MSMg01no367_d08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:04:18 2005
         (551 letters)



>mm_chr2_106453559_106454511
          Length = 953

 Score = 1035 bits (535), Expect = 0.0
 Identities = 548/553 (99%), Gaps = 2/553 (0%)
 Strand = Plus / Plus

                                                                       
Query: 1   aatttcacttgccccagtgcaaggtcaccttgtaataaaagctagggttggagcacacgc 60
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 201 aatttcacttgccccagtgcaaggtcaccttgtaataaaagctaggattggagcacacgc 260

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

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

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

                                                                       
Query: 241 aataacaactagagcactttatgattgtgtgtatttgatggcatgact--gtctcccatc 298
           ||||||||||||||||||||||||||||||||||||||||||||||||  ||||||||||
Sbjct: 441 aataacaactagagcactttatgattgtgtgtatttgatggcatgactctgtctcccatc 500

                                                                       
Query: 299 aagctccaacacaggtttgaaaacaaatacagcaacgatgcaagtccagggcagtgccac 358
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 aagctccaacacaggtttgaaaacaaatacagcaacgatgcaagtccagggcagtgccac 560

                                                                       
Query: 359 catgagctacatgtacagtgtcactcattgtagtagccatgttggaaatggaaaaagaaa 418
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 561 catgagctacatgtacagtgtcacgcattgtagtagccatgttggaaatggaaaaagaaa 620

                                                                       
Query: 419 caacagaaattaaatttcataatcggagttatttgacccactctttgcaaagccctatct 478
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 caacagaaattaaatttcataatcggagttatttgacccactctttgcaaagccctatct 680

                                                                       
Query: 479 gtccttgagcatgtgatccatacaatgtatcggcacagtctacatgctttgcttgtttca 538
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 681 gtccttgagcatgtgatccatacaatgtatcggtacagtctacatgctttgcttgtttca 740

                        
Query: 539 tcacactgtctgc 551
           |||||||||||||
Sbjct: 741 tcacactgtctgc 753


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: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 551
Length of database: 953
Length adjustment: 10
Effective length of query: 541
Effective length of database: 943
Effective search space:   510163
Effective search space used:   510163
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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