BAC Information

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BAC

Clone NameMSMg01-540M12
Chromosome1 (Build37)
Map Location 87,959,394 - 87,960,087
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC100040213, LOC100039794, EG665338, Sp110, Sp140, Sp100, A630001G21Rik, Cab39, Itm2c, 4933407L21Rik, Gpr55, Spata3, 2810459M11Rik
Downstream genePsmd1, Htr2b, Armc9, B3gnt7, EG383538, Ncl, Snord82, Nmur1, 1700019O17Rik, LOC100040414, Ptma, Pde6d, Cops7b, Nppc, 4930429A22Rik, EG620213
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-540M12.T7 (MSMg01no540_m12.b1)MSMg01-540M12.TJ (MSMg01no540_m12.g1)
ACCAG606952AG606953
length741741
length of high quality
(start - end)		698 (44 - 741)592 (81 - 672)
definitionCHROMAT_FILE: MSMg01no540_m12.b1 PHD_FILE: MSMg01no540_m12.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:20:10 2005CHROMAT_FILE: MSMg01no540_m12.g1 PHD_FILE: MSMg01no540_m12.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:20:11 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
GCTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCGAGGATCCGCGGA
ATTCACTATAGTTCACACTGACCTTCAATTCACAGAGCTCCCTGGCCTCT
GCCTTCTGAATGATCGACCACATCCGGCCAGACTTCTGCCTTTTGAAACG
TAAAATGTACAGTATTAGCAGTTCCAGGTGTCAAGTTTTAAGTCTTATGG
GGGTTCTGGATGTAGTTCAGTAAAGTGTTGCTTATCTAGCATGCATGAGG
CCCTGGTTCAGTTGTCAGCGCTGCAAAAAACAGATATTGTGGTGCACACC
TGTAATCCCCCACATTCCCCAATCAGACCTTGATCAGAAGTTCCAGGACC
TCCTCAGCTACAAAGAAAGCTTGCAGACCACCTGGGCTATTGTATAGGAT
CCCCCACCCCATTCTCATTGTTTATTTATGATAGACTAGTTCATTCATTA
TCATAATAAAGTACTGTGAAGTTTTTGTATTTTAGAGACAGGCTTTCTAT
TTTTAAAGAGGTATTTATTACTTATTTGTGTGTGTCTATGTGCCCATGAG
TATAGGTACCTGTGGAGGCCAAAAGAGAGCATCAAACCCCCTGGAGCTGG
AGTTACAAGTAGTTGTGAGCTACTCGATGTGGGTGCTCAGAATTGTACTT
GGGTTCTCTGGAAGCTTAACCACTAAAGGCAACTCTCCGAACTGCCACCA
ACCCAGCCTTTTTAAGACAGGGTCTCACAATTGACTCCTCC

TTCCATGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTGATACAGTAACTGGTCAG
AAGCCCATGCTTCAGGTCACAGGCCTTCGAGAGGCAGTGGGGGAAGGGGG
GGAGGGGCAGGGGACCTACTACTGCTGTCAAACTGTCTTCCAAGTATGTA
TGTCAGTCCCGTCCTCAACCTTGGCCAGAGATGCTTCCCTCTGCCGTGGT
CAGCAGCTAATGCAGAGACTCAAGTCAGAGTTATTAGAGTAAGTGACTGT
GAGCCCTAAACCAGACGTCTCATCATCCTCCACCCCTCACTAAGGTTAAG
GACCATCTGAGAGGAAGCGCAGGAGGGACTTGTAAGAGGCAGAGGATGAG
GGGGCAGGCTGTAAAATGTCTTCCACACACGACGCAGCCCTGGTGCTCAT
AAGCTCACCACAGCCGTTACCTGCACACGGTCAAGCCAACACGGTCGGCC
AACATTCCAGCAGGCAGCTTTAACTGGACTCACTTGAGGAGTGGGGAAGG
AGAGAAAGACAAGACAGACAGACAGACAGACAGACATGATGTGGGAAGGA
AGAGGACATGTTACGGAACCTGGAGGTAAGCTGGGGGTAGATTGATCATG
TTGTTTACATGTATGGACTTGTCAAAGAATAAATAAAATTTACTTTAGGA
TGATATAATTCACACACGGACTGTACTATTATCCCCAAATN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no540_m12.b1 MSMg01no540_m12.b1 CHROMAT_FILE:
MSMg01no540_m12.b1 PHD_FILE: MSMg01no540_m12.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:20:10 2005
         (698 letters)



>mm_chr1_87959190_87960287
          Length = 1098

 Score = 1274 bits (659), Expect = 0.0
 Identities = 686/695 (98%), Gaps = 2/695 (0%)
 Strand = Plus / Plus

                                                                       
Query: 5   ggaattcactatagttcacactgaccttcaattcacagagctccctggcctctgccttct 64
           ||||||||||||||  || ||||||||| |||||||||||||||||||||||||||||||
Sbjct: 205 ggaattcactatagaccagactgaccttgaattcacagagctccctggcctctgccttct 264

                                                                       
Query: 65  gaatgatcgaccacatccggccagacttctgccttttgaaacgtaaaatgtacagtatta 124
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 gaatgatcgaccacacccggccagacttctgccttttgaaacgtaaaatgtacagtatta 324

                                                                       
Query: 125 gcagttccaggtgtcaagttttaagtcttatgggggttctggatgtagttcagt-aaagt 183
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 325 gcagttccaggtgtcaagttttaagtcttatgggggttctggatgtagttcagttaaagt 384

                                                                       
Query: 184 gttgcttatctagcatgcatgaggccctggttcagttgtcagcgctgcaaaaaacagata 243
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 385 gttgcttatctagcatgcatgagaccctggttcagttgtcagcgctgcaaaaaacagata 444

                                                                       
Query: 244 ttgtggtgcacacctgtaatcccccacattccccaatcagaccttgatcagaagttccag 303
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 445 ttgtggtgcacacctgtaatcccccgcattccccaatcagaccttgatcagaagttccag 504

                                                                       
Query: 304 gacctcctcagctacaaagaaagcttgcagaccacctgggctattgtataggatccccca 363
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 gacctcc-cagctacaaagaaagcttgcagaccacctgggctattgtataggatccccca 563

                                                                       
Query: 364 ccccattctcattgtttatttatgatagactagttcattcattatcataataaagtactg 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 564 ccccattctcattgtttatttatgatagactagttcattcattatcataataaagtactg 623

                                                                       
Query: 424 tgaagtttttgtattttagagacaggctttctatttttaaagaggtatttattacttatt 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 624 tgaagtttttgtattttagagacaggctttctatttttaaagaggtatttattacttatt 683

                                                                       
Query: 484 tgtgtgtgtctatgtgcccatgagtataggtacctgtggaggccaaaagagagcatcaaa 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 684 tgtgtgtgtctatgtgcccatgagtataggtacctgtggaggccaaaagagagcatcaaa 743

                                                                       
Query: 544 ccccctggagctggagttacaagtagttgtgagctactcgatgtgggtgctcagaattgt 603
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 744 ccccctggagctggagttacaagtagttgtgagctactcgatgtgggtgctcagaattgt 803

                                                                       
Query: 604 acttgggttctctggaagcttaaccactaaaggcaactctccgaactgccaccaacccag 663
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 804 acttgggttctctggaagcttaaccactaaaggcaactctccgaactgccaccaacccag 863

                                              
Query: 664 cctttttaagacagggtctcacaattgactcctcc 698
           |||||||||||||||||||||||||||||||||||
Sbjct: 864 cctttttaagacagggtctcacaattgactcctcc 898


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: 30
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 698
Length of database: 1098
Length adjustment: 10
Effective length of query: 688
Effective length of database: 1088
Effective search space:   748544
Effective search space used:   748544
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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