BAC Information

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BAC

Clone NameMSMg01-523N19
Chromosome5 (Build37)
Map Location 29,578,982 - 29,579,507
singlet/doubletsinglet
Overlap geneLmbr1
Upstream genePrr8, Shh, LOC100039258, Rnf32, EG664949
Downstream geneEG620572, Gm1040, Hlxb9, LOC619355, Ube3c, LOC100039363, EG332993, Dnajb6, EG433865, LOC100039405, LOC100034662, LOC100039369, Il6, Tyms, EG242914, Gm444, Hadha, Hadhb, Gpr113, EG384325, D5Wsu178e
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-523N19.T7 (MSMg01no523_n19.b1)MSMg01-523N19.TJ (MSMg01no523_n19.g1)
ACCAG594076AG594077
length761767
length of high quality
(start - end)
567 (66 - 632)505 (75 - 579)
definitionCHROMAT_FILE: MSMg01no523_n19.b1 PHD_FILE: MSMg01no523_n19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:57:55 2005CHROMAT_FILE: MSMg01no523_n19.g1 PHD_FILE: MSMg01no523_n19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:57:55 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
AAACATCTGCGGTTGCTAAACGACTCACTATTTCGAGAGGATCCGCGGAA
TCATAAATATTCCTTTAAAGGGAAAGGCTTATTATGTTTAAATTCTACTC
TGATAGTGTTGTTAATTAAGTTGCCGGGTGCTCCGGGTATCTGCTCTGCA
CTGCCCTCCCAAGAATGTTGTGAGGGGTTCTTTGCCTCCTGCTGTCTCCT
TGCACGCCATCCTTTCTTTCCACAGATCATTGGGAATTGTGTGTCAATCT
TAGTCTTGAGCTCTGCTTTGCCTGTGATGTCCAGAACACTGGGTAAGTTT
GACTGAGAAATGCTCAGTAAAGTCCATGGTTTTATAGATAACTTTTTAAA
ATCTCTTTAACTTTTTTGCTTTGTAAATTCTTCTTTTTAATTACCTTTAA
AATATAATATTATATTATTCTATAGTTCAATTGTGTATAGGGGCATACCA
AAGCAAACAAAGACCTTTTTTTTAAGCACTTAAACATTCCTTTCCCAAAC
AATAGACTTTTTTTTTCTTACTTCATTCATAAGTTGGGCTTTTGAATCTT
CTAGTGAGGAAACTGTGACTTTAAAAAAACACTTCAGTGCCTAAAAAATA
TTAAAAAAAAATCCATGTATGAATATATTTCCAAATGTATAGTGTAATGT
GTGCTTTTAAAAAATAGAAACTTGTAAACTTGTTTTAAGCTGTTTTGAGC
TCATGAAAATACAGCTGAACATGGTGTTGTGCAGTCCCTGGGAGCATACA
CCATCTGACAG
ATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTCAGCTAAGGAATATTGAATGACTGA
GAAACACCTGAAAAAATGTTCAACATCCTTAATCATCAGGGAAATGTAAA
TCAAAACAGCCCTGAGATTCCACCTCACACCAGTCAGAATGGCTAAGATC
AAAAATTCAGGTGACAGCAGATGCTGGCAAGGATGTGGAGAAAGAAGAAC
ACTTCTGCATTGTTAGTGGGATTGCAAGCCTGTACAACCACTCTGGAAAT
AAGTCCGGCGGTTCCTCAGAAAATTGGACATAGTACTACCAGAGGATCCA
GCAATACCTCTTCTGGGCATATATCCAGAAGATGTTCCAACTGCTAATAA
GAACACATGCTCTTCTATGTTCATAGCAGCCTTATTTATAATAGCCAGAA
GCTGAAAAGAACCCAGATGCCCCTCAACAGAGGAATGGATACAGAAAATG
TGGTACATTTACACAATGGAGTACTACTCAGCTATTAAAAACAATTAATT
TATGATATTCTTAGGCAAATGGATGGATCTGGAGGGTATCATCCTGAGTG
AGGGTACCCAATCACAAAAGAACTCACATGATATGCACTCACTGATAAGT
GGATATTATCCCAGAAACTTATAATACCCTAGATACAATTTGCAAAACAC
TTGAAACTTAAAAAGGAAAGTCCAAGAGGGAACACTTTGCCCCTTCCTAA
AATTGAGAACAAAATCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no523_n19.b1 MSMg01no523_n19.b1 CHROMAT_FILE:
MSMg01no523_n19.b1 PHD_FILE: MSMg01no523_n19.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:57:55 2005
         (567 letters)



>mm_chr5_29578980_29579944
          Length = 965

 Score =  959 bits (496), Expect = 0.0
 Identities = 520/528 (98%), Gaps = 2/528 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   taaagggaaaggcttattatgtttaaattctactctgatagtgttgttaattaagttgcc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||  ||||||||
Sbjct: 528 taaagggaaaggcttattatgtttaaattctactctgatagtgttgttaa-gaagttgcc 470

                                                                       
Query: 61  gggtgctccgggtatctgctctgcactgccctcccaagaatgttgtgaggggttctttgc 120
           ||||||||||||||||||||||||||||||||||||||| || | |||||||||||||||
Sbjct: 469 gggtgctccgggtatctgctctgcactgccctcccaagagtgct-tgaggggttctttgc 411

                                                                       
Query: 121 ctcctgctgtctccttgcacgccatcctttctttccacagatcattgggaattgtgtgtc 180
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 410 ctcctgctgtctccttgcaagccatcctttctttccacagatcattgggaattgtgtgtc 351

                                                                       
Query: 181 aatcttagtcttgagctctgctttgcctgtgatgtccagaacactgggtaagtttgactg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 350 aatcttagtcttgagctctgctttgcctgtgatgtccagaacactgggtaagtttgacta 291

                                                                       
Query: 241 agaaatgctcagtaaagtccatggttttatagataactttttaaaatctctttaactttt 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 290 agaaatgctcagtaaagtccatggttttatagataactttttaaaatctctttaactttt 231

                                                                       
Query: 301 ttgctttgtaaattcttctttttaattacctttaaaatataatattatattattctatag 360
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 230 ttgctttgtaaattcttttttttaattacctttaaaatataatattatattattctatag 171

                                                                       
Query: 361 ttcaattgtgtataggggcataccaaagcaaacaaagaccttttttttaagcacttaaac 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 170 ttcaattgtgtataggggcataccaaagcaaacaaagaccttttttttaagcacttaaac 111

                                                                       
Query: 421 attcctttcccaaacaatagactttttttttcttacttcattcataagttgggcttttga 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 110 attcctttcccaaacaatagactttttttttcttacttcattcataagttgggcttttga 51

                                                           
Query: 481 atcttctagtgaggaaactgtgactttaaaaaaacacttcagtgccta 528
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50  atcttctagtgaggaaactgtgactttaaaaaaacacttcagtgccta 3


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: 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: 567
Length of database: 965
Length adjustment: 10
Effective length of query: 557
Effective length of database: 955
Effective search space:   531935
Effective search space used:   531935
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)