BAC Information

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BAC

Clone NameMSMg01-170O09
Chromosome8 (Build37)
Map Location 53,809,461 - 53,940,658
singlet/doubletdoublet
Overlap geneLOC676688
Upstream geneLOC623872, LOC100040220, LOC623935, 1190028D05Rik
Downstream geneAga, Neil3, LOC100040107
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-170O09.T7 (MSMg01no170_o09.b1)MSMg01-170O09.TJ (MSMg01no170_o09.g1)
ACCAG367314AG367315
length725720
length of high quality
(start - end)
316 (47 - 362)350 (76 - 425)
definitionCHROMAT_FILE: MSMg01no170_o09.b1 PHD_FILE: MSMg01no170_o09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:40:59 2005CHROMAT_FILE: MSMg01no170_o09.g1 PHD_FILE: MSMg01no170_o09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:40:59 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(53,809,461 - 53,809,772)(53,940,371 - 53,940,658)
sequence
ACTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCTGTTGTTCCTATAACTCATTTACTTTGCCAGTGACTGGGATGAG
AGATATGATATTGTTGATTTTCTTCACAGCAAAGAAAGAGAACACTCTGA
AATTATGAAAGATACTGGAACTGAGTAGTCTAGAATAGAGAAGTTATACA
TCAGAAGGGGAAAGGAAAAGCATTCTGCTGTAAAGAGACTAATAGAAAAA
TCTTTAAACTATCAAAGTCCAAAGGCAACGGATTGTATCTTGGTCTAGAC
TTGCACATCAGGGGTTTTCCCCTTTTAAAATTTATTTGAATTGGTCTGAA
TTTTATAAATAATTTGTTGGGCCACCCCACACCCAATATGCTTTTCATTA
TATATTTCTTTGTATGTTTTATTGTTACTGATTACATAGAGATTGTCATT
TTATATGAAACAATTTGTTAAATTGTCTATTTCAAATACATTATATTGTT
GTAACTCACTGTCAAAACATCATGGGGCATATTTTGTGAATTTTCTCTGT
TTTTTTATTTGTTCCCTTGTTCTGTATGCCCTTCCATCATTTCGTATTAT
ATAAATAAAATTCTGCCACCTATGCCTGATTAACATATCTTGGAACATGT
ACCAATATACCTATTGCTACCAAACTCTCTTAGAATGTGAGGGAAGCTAT
AGCCTTATCGCCTTACCATGCCTAC
CGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTTTGAACACACCCATAAATTTATGG
TGTAAATAATGACACTGGTAACAAAACACCATTCATTCAATATTTCACTT
AAATCTTTAAATCAGCTTTTGTATATGTCAGAGGATTTTCTATAAATCTC
AACAGACTATAAAAGAAACTTCACTATGAATCAGAGACTTCTACTGAAAA
ACACAATCAATAAAAATACAGAGTTGTGGAGCCCAGTCCCTATGGGTACA
TTATAAAACACATACACCTATTGCTCAGAAAACACTGTCAAAGAAGAGGC
AGAAAAATTGTGATATTTTTTGCGCCCACCCGCCCTCACATTCGCTGTTG
CAAGATGGCACTGACATCCTGCGTTCTAAGTGGTAAACAAATAATCTGCA
CATGTGCCAAGGGTAGTTTTCCACCCCATGTGCTCTGCCTTCCCCGTGAC
GACAACTCGGCCGATGGGCTGCAGCCAATCAAGGAGTAATACGTCCTAGG
CAGAGAATAATTCTCCTTAAAAGGGACGGGGTTTCGCCATTCTCTCCTTT
GCTCTCTTGCTTTTGCTCTTGCACTCTTGTGCTCTGGCTCCTGAAGATGT
AAGCAATAAAGTTTTGCCACAGAAGATTCCGGTTTGTTGCGCTCTTCCTG
TCCGGCCGCGAGAACGCGGN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no170_o09.b1 MSMg01no170_o09.b1 CHROMAT_FILE:
MSMg01no170_o09.b1 PHD_FILE: MSMg01no170_o09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:40:59 2005
         (316 letters)



>mm_chr8_53809257_53809972
          Length = 716

 Score =  565 bits (292), Expect = e-165
 Identities = 307/312 (98%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctgttgttcctataactcatttactttgccagtgactgggatgagagatatgata 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattctgttgttcctataactcatttactttgccagtgactgggatgagagatatgata 264

                                                                       
Query: 65  ttgttgattttcttcacagcaaagaaagagaacactctgaaattatgaaagatactggaa 124
           |||||||||||||||||||||||||||||||||||||||||| ||||||||| |||||||
Sbjct: 265 ttgttgattttcttcacagcaaagaaagagaacactctgaaaatatgaaagacactggaa 324

                                                                       
Query: 125 ctgagtagtctagaatagagaagttatacatcagaaggggaaaggaaaagcattctgctg 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 ctgagtagtctagaatagagaagttatacatcagaaggggaaaggaaaagcattctgctg 384

                                                                       
Query: 185 taaagagactaatagaaaaatctttaaactatcaaagtccaaaggcaacggattgtatct 244
           |||||||||||||||||||||||||||||||||||||||||||| ||| |||||||||||
Sbjct: 385 taaagagactaatagaaaaatctttaaactatcaaagtccaaagacaaaggattgtatct 444

                                                                       
Query: 245 tggtctagacttgcacatcaggggttttccccttttaaaatttatttgaattggtctgaa 304
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 445 tggtctagacttgcacatcaggggttttccccttttaaaatttgtttgaattggtctgaa 504

                       
Query: 305 ttttataaataa 316
           ||||||||||||
Sbjct: 505 ttttataaataa 516


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: 14
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: 316
Length of database: 716
Length adjustment: 9
Effective length of query: 307
Effective length of database: 707
Effective search space:   217049
Effective search space used:   217049
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= MSMg01no170_o09.g1 MSMg01no170_o09.g1 CHROMAT_FILE:
MSMg01no170_o09.g1 PHD_FILE: MSMg01no170_o09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:40:59 2005
         (350 letters)



>mm_chr8_53940326_53941075
          Length = 750

 Score =  542 bits (280), Expect = e-158
 Identities = 286/288 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   tttgaacacacccataaatttatggtgtaaataatgacactggtaacaaaacaccattca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 333 tttgaacacacccataaatttatggtgtaaataatgacactggtaacaaaacaccattca 274

                                                                       
Query: 61  ttcaatatttcacttaaatctttaaatcagcttttgtatatgtcagaggattttctataa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 273 ttcaatatttcacttaaatctttaaatcagcttttgtatatgtcagaggattttctataa 214

                                                                       
Query: 121 atctcaacagactataaaagaaacttcactatgaatcagagacttctactgaaaaacaca 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 213 atctcaacagactataaaagaaacttcactatgaatcagagacttctactgaaaaacaca 154

                                                                       
Query: 181 atcaataaaaatacagagttgtggagcccagtccctatgggtacattataaaacacatac 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 153 atcaataaaaatacagagttgtggagcccagtccctatgggtacattataaaacacatac 94

                                                           
Query: 241 acctattgctcagaaaacactgtcaaagaagaggcagaaaaattgtga 288
           |||||||||||||||||||||||||||||| ||| |||||||||||||
Sbjct: 93  acctattgctcagaaaacactgtcaaagaaaagggagaaaaattgtga 46


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: 15
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: 350
Length of database: 750
Length adjustment: 9
Effective length of query: 341
Effective length of database: 741
Effective search space:   252681
Effective search space used:   252681
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)