BAC Information

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BAC

Clone NameMSMg01-201N04
Chromosome5 (Build37)
Map Location 55,343,182 - 55,343,435
singlet/doubletsinglet
Overlap genenone
Upstream geneStim2, EG666377, LOC666380
Downstream geneEG666405
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-201N04.T7 (MSMg01no201_n04.b1)MSMg01-201N04.TJ (MSMg01no201_n04.g1)
ACCAG387218AG387219
length762752
length of high quality
(start - end)
279 (46 - 324)263 (77 - 339)
definitionCHROMAT_FILE: MSMg01no201_n04.b1 PHD_FILE: MSMg01no201_n04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:22:20 2005CHROMAT_FILE: MSMg01no201_n04.g1 PHD_FILE: MSMg01no201_n04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:22:20 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCAGAGAGCAGATGTGGAAAAAATTGCCTAGGGACTTTTTCCCTATC
TGTGGCCTAGACCATGGGAGACTTTTTCCCAGACCCTTTACAATCTGTAG
ATCCTATCTTTATGGAAGATGCCAGGTACAATCTATCTAGAGAACCAATT
TCATCGAGGATCCCACATGTACTTTACAAAAGGTTTTTTATGTAGTCATT
TCTTAATCTTTATCATGTACAAAAGATTGAGTTAATTATCACCAAAAGAA
TTTCACCAAATTGTGTTGTGTCAAATTGCTNATANATTACTTATGTGAAG
AAACCCCCAAATTTTGCCCGCGCGGCGCCCCCGNNNTGTTGAACTACAAT
GCCTTTTTGCTTTCCCCACATCTTCGCTTGCATTGGTGGNCCACAAGCTC
CCACAGCAGTGAGGACCAAAGGAAAAAAACCTGGAAGGAATTCTTTTGCC
TTCGGCTTTTTGTTCCAGGAAANGNNNNNNTTTTGGAACCACCCTTTCCC
CNAAAACAGGTTTTGGATGTCCCTTTTAAATTCAATACCCCCCCAATACC
AAAAATATTGGGGCCNCCCGCTTTCCTTGGGGCTTTCCCCCAATGTATGT
TTTGGGCGGGGNNTTTTTTTTCTTCAGNNNNNNNNNAAAAAAAAAAAAAT
CGGGNNNTGNNCCNNNTNNNNNNNNNNNNNNNNNNTNTNNNNTNNNCNNN
NTTTTTTATTTG
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCAAATAAGCTGGCTCTGAAGTGTG
AGAGCATATGCAAAACTTCTGGAAAATGCACAGCACCCAAAGAAAATATT
CAAAGAGAGTTTCACTATTTTTAAAAATATTTTACTAATTATTTTAAATC
ATTGCCCCCAATTTGCATTTAAACCAACATTTCTGGNATTTCATATCTAA
AATGTCAGAGAGTTAAAAAACTGTGTCTTAAAATCATGAAATGAAAAATA
AATCTTTTATCTTGTTTAAACTTACTTTTAAACCATAATCAAAGAAAAAT
AAGGATTTGTTTTTCAAAAACTTTGCTCAACCACTGAAATGAGGTGAATG
AAAGATAGAACNNCCTAGAACAAAGCAGCATGGATCTAGNNNNNNTTNNN
NNNNNANACTNTCTTTATTTTACCCACGGNNCCGGAAAACNCCCAATAAC
CACCTTTCTCTTTTCCCCCTAATATTTTTTTTTATTTNNCNCCGGCCCCC
AGAGAAAACATGGGGANTAGTTCAGGNNNNNNNNNNNNNCNTNTTCCCTT
NTNNNNNNCNNNNCTCTTTCGTCTATCTAGCTCGGGCNCCCCCCCCCCCC
CCTCTTCCCCTTTTTGTTTACTCACCCCTCCCCCCCTGTCCCCCTCCTCC
TTCTCCTCTATGTTTGTGGAATAACCACACAACACCGAACACAAAAAGAA
AA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no201_n04.g1 MSMg01no201_n04.g1 CHROMAT_FILE:
MSMg01no201_n04.g1 PHD_FILE: MSMg01no201_n04.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:22:20 2005
         (263 letters)



>mm_chr5_55342979_55343639
          Length = 661

 Score =  427 bits (221), Expect = e-124
 Identities = 248/260 (95%), Gaps = 7/260 (2%)
 Strand = Plus / Plus

                                                                       
Query: 1   caaataagctggctctgaagtgtgagagcatatgcaaaacttctggaaaatgcacagcac 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 caaataagctggctctgaagtgtgagagcatatgcaaaacttctggaaaatgcacagcac 263

                                                                       
Query: 61  ccaaagaaaatattcaaagagagtttcacta-tttttaaaaatattttactaattatttt 119
           |||||||||||||||    |||||||||||| ||||| ||||||||||||||||||||||
Sbjct: 264 ccaaagaaaatattc----agagtttcactatttttttaaaatattttactaattatttt 319

                                                                       
Query: 120 aaatcattgcccccaatttgcatttaaaccaacatttctggnatttcatatctaaaatgt 179
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 320 aaatcattgcccccaatttgcatttaaaccaacatttctggtatttcatatctaaaatgt 379

                                                                       
Query: 180 cagagagttaaaaaactgtgtcttaaaatcatgaaatgaaaaataaatcttttatcttgt 239
           |||||||||||||||||||  |||||||||||||||||||||| ||||||||||||||||
Sbjct: 380 cagagagttaaaaaactgt--cttaaaatcatgaaatgaaaaaaaaatcttttatcttgt 437

                               
Query: 240 ttaaacttacttttaaacca 259
           ||| |||||||||| |||||
Sbjct: 438 ttagacttacttttgaacca 457


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: 9
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: 263
Length of database: 661
Length adjustment: 9
Effective length of query: 254
Effective length of database: 652
Effective search space:   165608
Effective search space used:   165608
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)