BAC Information

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BAC

Clone NameMSMg01-440M12
Chromosome6 (Build37)
Map Location 8,680,691 - 8,681,157
singlet/doubletsinglet
Overlap geneIca1
Upstream geneEG667529, C1galt1, LOC100040661, Col28a1, BC020002, Rpa3, LOC100036521, LOC667028, A430035B10Rik, Glcci1
Downstream geneLOC100040238, Nxph1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-440M12.T7 (MSMg01no440_m12.b1)MSMg01-440M12.TJ (MSMg01no440_m12.g1)
ACCAG530816AG530817
length764758
length of high quality
(start - end)
470 (51 - 520)466 (77 - 542)
definitionCHROMAT_FILE: MSMg01no440_m12.b1 PHD_FILE: MSMg01no440_m12.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:07:21 2005CHROMAT_FILE: MSMg01no440_m12.g1 PHD_FILE: MSMg01no440_m12.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:07:21 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NNNGTCTCAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCTTCCTCTTCCCAACAATAATAAAAGCAATAATATCTGTAT
GCAATGGGTATTACCAGCTTGCAAACATCAAAGACTCCTCTGACCAAGAA
CTATGAATGAAATCACCTGATTTTTCCCCCAGCCAACTAAGGAGGTGAGT
GGACTCAGCAAGAGGAGAATGTCCTTGAGGAGGAAGGCCGATAATGCTTT
TGAGGTTAAGTGCTCGCCCATCCCAGTGGCAGTACGTCATCTTCACGGGT
GAGCTTACCGATTTTAGAGCTTAATGTTCTAGAGAAAAATAATGACACAG
AGGAAGCCTGATTGCATTTAGTAGATGCAAAAATGAGACTTAGGCTTAAG
TGTCCCCAGATGGTGTAGGCAGTGTGGGGAGCTTGACTCTAGGACACAGG
CTCCATACTCCTTCCTGTTTGCAGTCAGGGGCCGCAGCCGCCAGCTCTGC
CAGCGGTATCTCTTCTGAGGGTGTTAGTCTAGTCTTAGTGTAGCCCTCAA
GCAGGGAGGGAGAAAAAACCATACAGAGACCCCCAGGCCCAAAGGCCTCA
TCCTAGGAGAAGCAGAAGCGAAAGCCCAGCCGGAATTATGAGTTCCCTTC
CCAGGTGGGCCATGTTAATATATTAGGCTTTTCCCGTGGGCATTTTGGGC
ACAAAAATTTCCTGGGGTTGGGGGGCAACCCATCATAAAATACTGCTCTT
GTCTAAAAATTCTG
NNCCGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCTGATCTTTCCAAAACTTTTATCT
TGAATGGGTGTTGGATCTTGTCAAATGCTTTTTCTGCATCTAACAAGATG
ATCATGTGGTTTTTGTCTTTGAGTTTGTTTATATAATGGATTACATTGAT
GGATTTTCGTATATTAAACCATCCCTGCATCCCTGGAATAAAACCTACTT
GGTCAGGATGGATGATTTCTTTAATGTGTTCTTGGATTCGGTTAGCGAGA
ATTTTATTAAGGATTTTTGCATCTATATTCATAAGAGAAATTGGTCTGAA
GTTCTCTATCTTTGTTGGATCTTTCTGTGGTTTAGGTATCAGAGTAATAG
TGGCTTCATAAAATGAGTTGGGTAGAGTACCTTCTACTTCTATCTTGTGA
AATAGTTTGTGCAGAACTGGAATTAGATCTTCTTTGAAGGTCTGATAGAA
CTCTGCACTAAACCCATCTGGTCCTGGGCTTTTTTTGGCTGGGAGACTAT
TAATAACTGCTTCTATTTCTTTAGGGGATATGGGACTGTTTAAAAGGTCA
ACTTGAATCTGATTCCACTTTGGAACCCGGTATCTGTTCCAAAATTGGCC
CCTTTCCCCCAGTTTTTCCACATTTGCTGAAAAAAACCTTTTCGACAAAG
ATTCGATGCGTTTTTTCTATTCTTTCTCGGATCAGTTGTTAATCCTTTCT
ATACTCTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no440_m12.b1 MSMg01no440_m12.b1 CHROMAT_FILE:
MSMg01no440_m12.b1 PHD_FILE: MSMg01no440_m12.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:07:21 2005
         (470 letters)



>mm_chr6_8680487_8681357
          Length = 871

 Score =  841 bits (435), Expect = 0.0
 Identities = 459/467 (98%), Gaps = 1/467 (0%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcttcctcttcc-caacaataataaaagcaataatatctgtatgcaatgggtatta 63
           ||||||||||||  |  |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcttcctcaacaacaacaataataaaagcaataatatctgtatgcaatgggtatta 264

                                                                       
Query: 64  ccagcttgcaaacatcaaagactcctctgaccaagaactatgaatgaaatcacctgattt 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 ccagcttgcaaacatcaaagactcctctgaccaagaactatgaatgaaatcacctgattt 324

                                                                       
Query: 124 ttcccccagccaactaaggaggtgagtggactcagcaagaggagaatgtccttgaggagg 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 ttcccccagccaactaaggaggtgagtggactcagcaagaggagaatgtccttgaggagg 384

                                                                       
Query: 184 aaggccgataatgcttttgaggttaagtgctcgcccatcccagtggcagtacgtcatctt 243
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 aaggccaataatgcttttgaggttaagtgctcgcccatcccagtggcagtacgtcatctt 444

                                                                       
Query: 244 cacgggtgagcttaccgattttagagcttaatgttctagagaaaaataatgacacagagg 303
           ||||||||||||||||||||| |||||||||||  |||||||||||||||||||||||||
Sbjct: 445 cacgggtgagcttaccgatttcagagcttaatgagctagagaaaaataatgacacagagg 504

                                                                       
Query: 304 aagcctgattgcatttagtagatgcaaaaatgagacttaggcttaagtgtccccagatgg 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 aagcctgattgcatttagtagatgcaaaaatgagacttaggcttaagtgtccccagatgg 564

                                                                       
Query: 364 tgtaggcagtgtggggagcttgactctaggacacaggctccatactccttcctgtttgca 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 tgtaggcagtgtggggagcttgactctaggacacaggctccatactccttcctgtttgca 624

                                                          
Query: 424 gtcaggggccgcagccgccagctctgccagcggtatctcttctgagg 470
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 gtcaggggccgcagccgccagctctgccagcggtatctcttctgagg 671


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: 20
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: 470
Length of database: 871
Length adjustment: 10
Effective length of query: 460
Effective length of database: 861
Effective search space:   396060
Effective search space used:   396060
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)