BAC Information

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BAC

Clone NameMSMg01-297P02
Chromosome5 (Build37)
Map Location 29,578,992 - 29,579,501
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 nameMSMg01-297P02.T7 (MSMg01no297_p02.b1)MSMg01-297P02.TJ (MSMg01no297_p02.g1)
ACCAG425130AG425131
length759764
length of high quality
(start - end)
511 (75 - 585)494 (72 - 565)
definitionCHROMAT_FILE: MSMg01no297_p02.b1 PHD_FILE: MSMg01no297_p02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:34:30 2005CHROMAT_FILE: MSMg01no297_p02.g1 PHD_FILE: MSMg01no297_p02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:34:30 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCTGAAAGGGCGCGG
AATTCATAAATACTACCTTAAAAGGAAAGGCTTATTATGTTTAAATTCTA
CTCTGATAGTGTTGTTAATAAGTTGCCGGGTGCTCCGGGTATCTGCTCTG
CACTGCCCTCCCAAGAATGTTGTGAGGGGTTCTTTGCCTCCTGCTGTCTC
CTTGCACGCCATCCTTTCTTTCCACAGATCATTGGGAATTGTGTGTCAAT
CTTAGTCTTGAGCTCTGCTTTGCCTGTGATGTCCAGAACACTGGGTAAGT
TTGACTGAGAAATGCTCAGTAAAGTCCTTGGTTTTATAGATAACTTTTTA
AAATCTCTTTAACTTTTTTGCTTTGTAAATTCTTCTTTTTAATTACCTTT
AAAATATAATATTATATTATTCTATAGTTCAATTGTGTATAGGGGCATAC
CAAAGCAAACAAAGACCTTTTTTTTAAGCACTTAAACATTCCTTTCCCAA
ACAATAGACTTTTTTTTTCTTACTTCATTCATAAGTTGGGCTTTTGAATC
TTCTAGTGAGGAAACTGTGACTTTAAAAAAACACTTCAGTGCCTAGAAAA
TATTAAAAAAAAATCCATGTATGAATATATTTCCAAATGTATAGTGTAAT
GTGTGCTTTTTAAAAATTAGAACTTGTAATCTTGTTTTAAGCTGTTTTGA
GCTCATGAAAATACAGCTGACCATGCTGTTGTGCATTCCCTGGGAGCATA
CACCACAGG
CGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXTATTTCCGAAATTCTCACCTGAGGAATACTGAATGGCTG
AGAAGCGCCTGAAAAAAAATGCTCAGCATCCTTAATCATCAGAGAAGTGC
TCCATTTTATAATAGGATTATTTGGTTCCTGGAGTCTAACTTCTTGAGTT
CTTTGTATATATTGGATATTAGCCCTCCATCGGATTTAGAATTGGTAAAT
ATCTTTTCTCAATCTGTTGGTTGCCTTTTTGTCTTATTGACAGTGTCCTT
TGCCTTGCCGAAGCTTTCTAATTTTATGAGGTCCCATTTGTCATACACAA
GCCATTGCTATTCTGTTTAGCGATTTTTTACCCTGTGCCCATATCTTCAA
GGCTCTTCACCACTTTCTTCTCTATAAATTTCAGTGTCTCTGGTTTTATG
TGGAGTTCTTTGATCCACGTAGACTTCATCTTTGTACAAGGAGATAAGAA
CGGATCAATTTACATTCTTCTACATGATAACCACCGGTTGAGCCAACACC
ATTTGTTGAAAATGCTGCCTTTAATCCACTGGATGGTTTTAGCTCCTATG
TTAAATATCAAGTAACCATAGGTGTGCGCGTTCATTTTCTGGGCCTTCAA
TTATATTCCATTGATTTACCTGTCATTGTACCAATACCATGCTTTTTTTT
TTTTTATCTCAATTGCTCTGCAATACTTTTTGGAGGCCTTGACGGTGATT
CCCCCAAAATTTGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no297_p02.b1 MSMg01no297_p02.b1 CHROMAT_FILE:
MSMg01no297_p02.b1 PHD_FILE: MSMg01no297_p02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:34:30 2005
         (511 letters)



>mm_chr5_29578980_29579889
          Length = 910

 Score =  926 bits (479), Expect = 0.0
 Identities = 503/511 (98%), Gaps = 1/511 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   gaaaggcttattatgtttaaattctactctgatagtgttgttaataagttgccgggtgct 60
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 522 gaaaggcttattatgtttaaattctactctgatagtgttgttaagaagttgccgggtgct 463

                                                                       
Query: 61  ccgggtatctgctctgcactgccctcccaagaatgttgtgaggggttctttgcctcctgc 120
           |||||||||||||||||||||||||||||||| || | ||||||||||||||||||||||
Sbjct: 462 ccgggtatctgctctgcactgccctcccaagagtgct-tgaggggttctttgcctcctgc 404

                                                                       
Query: 121 tgtctccttgcacgccatcctttctttccacagatcattgggaattgtgtgtcaatctta 180
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 403 tgtctccttgcaagccatcctttctttccacagatcattgggaattgtgtgtcaatctta 344

                                                                       
Query: 181 gtcttgagctctgctttgcctgtgatgtccagaacactgggtaagtttgactgagaaatg 240
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 343 gtcttgagctctgctttgcctgtgatgtccagaacactgggtaagtttgactaagaaatg 284

                                                                       
Query: 241 ctcagtaaagtccttggttttatagataactttttaaaatctctttaacttttttgcttt 300
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 283 ctcagtaaagtccatggttttatagataactttttaaaatctctttaacttttttgcttt 224

                                                                       
Query: 301 gtaaattcttctttttaattacctttaaaatataatattatattattctatagttcaatt 360
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 223 gtaaattcttttttttaattacctttaaaatataatattatattattctatagttcaatt 164

                                                                       
Query: 361 gtgtataggggcataccaaagcaaacaaagaccttttttttaagcacttaaacattcctt 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 163 gtgtataggggcataccaaagcaaacaaagaccttttttttaagcacttaaacattcctt 104

                                                                       
Query: 421 tcccaaacaatagactttttttttcttacttcattcataagttgggcttttgaatcttct 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 103 tcccaaacaatagactttttttttcttacttcattcataagttgggcttttgaatcttct 44

                                          
Query: 481 agtgaggaaactgtgactttaaaaaaacact 511
           |||||||||||||||||||||||||||||||
Sbjct: 43  agtgaggaaactgtgactttaaaaaaacact 13


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: 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: 511
Length of database: 910
Length adjustment: 10
Effective length of query: 501
Effective length of database: 900
Effective search space:   450900
Effective search space used:   450900
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)