BAC Information

Click to search

BAC

Clone NameMSMg01-066M12
Chromosome6 (Build37)
Map Location 51,609,958 - 51,702,051
singlet/doubletdoublet
Overlap genenone
Upstream geneLOC100040877, EG625167, Nfe2l3, Hnrpa2b1, Cbx3, Snx10, LOC100041820
Downstream geneSkap2, LOC666391, Hoxa1, Hoxa2, Hoxa3, Hoxa4, Hoxa5, Hoxa6, Hoxa7, Hoxa9, Hoxa10, Hoxa11, Hoxa13, Evx1, EG666487, 1700094M24Rik, EG545841, Hibadh, Tax1bp1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-066M12.T7 (MSMg01no066_m12.b1)MSMg01-066M12.TJ (MSMg01no066_m12.g1)
ACCAG291673AG291674
length691720
length of high quality
(start - end)
447 (69 - 515)136 (79 - 214)
definitionCHROMAT_FILE: MSMg01no066_m12.b1 PHD_FILE: MSMg01no066_m12.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:12:41 2005CHROMAT_FILE: MSMg01no066_m12.g1 PHD_FILE: MSMg01no066_m12.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:12:41 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(51,701,605 - 51,702,051)(51,609,958 - 51,610,092)
sequence
ATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCAAGGTTATTCCTAGAAAGGTTGAGAGCTTGTTCGCACATTAAGTTGG
AGCAGAGGTGCAAATGAAAGTGCTGTTTGCATTTCCTTCTCATCAAGGCT
AAATGAAACTGTGAGGAACAGTCAGATCCCACTTATTTCCAGGGAAGATA
AAGAAGTCAACGAACACCAACTCTCAAGAGTGAGACAGTGGTATAAGAAT
AACAACAGCCTTGTTGTGACTCCTATTGTCCCCAATCTGGCTTCGGGGTC
AGGATGCTATATAAAGCACATCCTTGTGGCATCTGGGAGCCACATGGAGC
CTCGTGACGTGCTGGTAGTGCTCTGCACAGACTGACACTTTCCAGGTGGT
GGGGCCTCTCTCTGAAGAGCGGCCATGTTTTAGGAAGGCTAATCATCAGA
GATGTGTCTCAGGGTAGCAATTCCTCCCCCTGTGCCATCAGTTCAAAGTC
AGACCCATTTCAAGGTTGATGGGCCAGGCTATCCCTGGGGAGAACTCATG
ATCCCTTTTCTGTTCATTTGAGGGATTTACGAATGCTTGATAGCCTTCAT
CTGATTGGAACCAATGAGGTTGGCGCATAGCTTAACAGATGTTGACCATC
CTGCGCTGCGCTGTTGTACCATCTCCTCCTCTGGCGTCTTG
CCCGATGATAGGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXCTTATTTCAAGTTCCCTGCAAA
GAGACTCCAGCCCATCCAGTTTCCTCTCTACTCTTTCCCCAACCTTAGCT
TAGGTCCTGGCCGTGGGTCCCCAGGAAGCTTGGGGTATTTCCTCTTAACT
TTTCTTCCTGGCTGTCTTGGTGCCTAGCTGAGGTTGACAGGTCTTTGACC
TGTCTGGAGAGGAATGACTCCGCCACGAAGGGACCAGAGAGCATAAGGTG
CCCTGACCCTGGTGACCTCTTGATTTATTTGGTGACTTCCAGGCAAGCGT
AGAGTATAAGGAAGCTGGTAGAGAGAGGTTGCGAAGTAGCGACATGGGTG
CTGTGGAGACTGAAGATAGAGGAGGTCATTCCCTGTGCTTGACTGTAGTC
TGCAGGTAGTTCTCTGTCCACACCCACAGCTCTCGGTTATCCCCTTGCTG
CCTCGGTGCATCGTGTGGGTGCCTTTCCCATATTTGGGCCCCATTACTCG
CACATGATCATTAGCACCTGTTTTTGCTCCCCTCATTGCAATATTTCTTT
CTCCTTCCCGCTATAGTTCCCTGTCTCATCCCTTCACCTTCATATTCCCA
CGGTTATGGGCCCCCCTAAAATTTTTTTCTCTCCATCGTCAGTCCGACTC
TCCCCCTAAGTCTGTATGCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no066_m12.b1 MSMg01no066_m12.b1 CHROMAT_FILE:
MSMg01no066_m12.b1 PHD_FILE: MSMg01no066_m12.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:12:41 2005
         (447 letters)



>mm_chr6_51701405_51702251
          Length = 847

 Score =  833 bits (431), Expect = 0.0
 Identities = 443/447 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   aaggttgagagcttgttcgcacattaagttggagcagaggtgcaaatgaaagtgctgttt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 647 aaggttgagagcttgttcgcacattaagttggagcagaggtgcaaatgaaagtgctgttt 588

                                                                       
Query: 61  gcatttccttctcatcaaggctaaatgaaactgtgaggaacagtcagatcccacttattt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 587 gcatttccttctcatcaaggctaaatgaaactgtgaggaacagtcagatcccacttattt 528

                                                                       
Query: 121 ccagggaagataaagaagtcaacgaacaccaactctcaagagtgagacagtggtataaga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 527 ccagggaagataaagaagtcaacgaacaccaactctcaagagtgagacagtggtataaga 468

                                                                       
Query: 181 ataacaacagccttgttgtgactcctattgtccccaatctggcttcggggtcaggatgct 240
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 467 ataacaacagtcttgttgtgactcctattgtccccaatctggcttcggggtcaggatgct 408

                                                                       
Query: 241 atataaagcacatccttgtggcatctgggagccacatggagcctcgtgacgtgctggtag 300
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 407 atataaagcacatccttgtggcatctgggagccacatggagcctcgcgacgtgctggtag 348

                                                                       
Query: 301 tgctctgcacagactgacactttccaggtggtggggcctctctctgaagagcggccatgt 360
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 347 cgctctgcacagactgacactttccaggtggtggggcctctctctgaagagcggccatgt 288

                                                                       
Query: 361 tttaggaaggctaatcatcagagatgtgtctcagggtagcaattcctccccctgtgccat 420
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 287 tttaggaaggctaatcatcggagatgtgtctcagggtagcaattcctccccctgtgccat 228

                                      
Query: 421 cagttcaaagtcagacccatttcaagg 447
           |||||||||||||||||||||||||||
Sbjct: 227 cagttcaaagtcagacccatttcaagg 201


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: 21
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: 447
Length of database: 847
Length adjustment: 10
Effective length of query: 437
Effective length of database: 837
Effective search space:   365769
Effective search space used:   365769
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= MSMg01no066_m12.g1 MSMg01no066_m12.g1 CHROMAT_FILE:
MSMg01no066_m12.g1 PHD_FILE: MSMg01no066_m12.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:12:41 2005
         (136 letters)



>mm_chr6_51609758_51610293
          Length = 536

 Score =  230 bits (119), Expect = 2e-65
 Identities = 131/135 (97%)
 Strand = Plus / Plus

                                                                       
Query: 1   cttatttcaagttccctgcaaagagactccagcccatccagtttcctctctactctttcc 60
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 201 cttatttcaagttccctgcagagagactccagcccatccagtttcctctctactctttcc 260

                                                                       
Query: 61  ccaaccttagcttaggtcctggccgtgggtccccaggaagcttggggtatttcctcttaa 120
           ||||||||||||||||||||||| ||||||| |||| |||||||||||||||||||||||
Sbjct: 261 ccaaccttagcttaggtcctggctgtgggtctccagtaagcttggggtatttcctcttaa 320

                          
Query: 121 cttttcttcctggct 135
           |||||||||||||||
Sbjct: 321 cttttcttcctggct 335


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: 6
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: 136
Length of database: 536
Length adjustment: 8
Effective length of query: 128
Effective length of database: 528
Effective search space:    67584
Effective search space used:    67584
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)