BAC Information

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BAC

Clone NameMSMg01-405A09
Chromosome6 (Build37)
Map Location 77,172,052 - 77,353,424
singlet/doubletdoublet
Overlap geneCtnna2, Lrrtm1
Upstream geneLOC100042952, LOC668153, EG668155, LOC100042956
Downstream geneLOC668169, EG434050, Pap, Reg3d, Reg3a
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-405A09.T7 (MSMg01no405_a09.b1)MSMg01-405A09.TJ (MSMg01no405_a09.g1)
ACCAG503552AG503553
length779859
length of high quality
(start - end)		493 (50 - 542)146 (80 - 225)
definitionCHROMAT_FILE: MSMg01no405_a09.b1 PHD_FILE: MSMg01no405_a09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:19:54 2005CHROMAT_FILE: MSMg01no405_a09.g1 PHD_FILE: MSMg01no405_a09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:19:54 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(77,352,936 - 77,353,424)(77,172,052 - 77,172,195)
sequence
NNTTCAATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCTTTGAACTGCCTGCAGAGGAAACAGATAAACCAGCTTTTCC
TCAATGTAACCCATGGATGAAGACATTTAAGACAAAATTAGCCTTGTAAT
ATACCATGCTTATTATTGCATTTTTGCTAGGTCACTTACTATATAAAACT
GTACACCTGTAATCATGTAACACTTCAGGTTACATTACCACAACTCTAGA
ACAAAACTGCTGTAAAGAATCCTCATTTTAGATCATGCCCACAGGACATA
ATTTGATCAAGATCACACTTAGGAATTCACAGAGCTTCTGTTCTGGGTCA
CCTTTATTTTCCCTGACCACCGTTTCATCAGGTGCACACCTACAGAAACC
TAGACACCCCACTAACTACATAGGACTTTGTTGGTATACGGTGGTCAATT
GCTCCCATAGAACTCATTCTGGAAGCAGAACCAAAAGCTTAATTCGAGTT
CTATGACTTAGCTCAATGTCTGTCATACACAGGGCAGGGAGATAACAAGA
TGCTCAGTCATGGAGAATGAAGAGGATTCCAGTGATATCATAGGGAGCAG
AGAGACCTAGATAGCAAAAGGATATTTGATGATAAACATGATGTGTGGTG
GGTGTGTGAAANAAAAAAAGAAAAAAANNNNNNNNNTNNTTTTTTTNNTT
TNTTTGTTTNNTTTNNTTTTTTTNNNTTTTNTTTTTTTTTTTTNTNGTTT
GTTATTTATATTATATTAATTATTTATAA

NTTCCGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXATTGAAACAGAAAGGAGAAAA
AAGTAGATTTGGAAGTGTGAGAGAAAGTGAGAAGGTGGTAGCTCAGGAGG
TATGGCCAAAGAAAAGAGTTGAATTGAGAAACGTGTGTGTGTGTGTGTGT
GTGTGTGTGTGTGTGTGTGTGTGCCCCCCTTTCCCCCCCTTTCTTCCCCT
TCCTTTTTTTTTTCTCCTTTTCTTCCCCTTCTCCCCCTCTTTTCCTTTCT
CCCCTTTTTTCTCCCCCCCCCCTTTTTTTTTTTTCCTTTCCTTCCCTCTC
CCCCCCCTCCCCTCTTTTTTTTCTTCCCCTTTTCTTCTTCTCCCTTTTTT
CCTTCCTCTTCCTTTTTCCTCCCTTTTTCCTCCCTCTTTTCTCTCCCCCC
CCCTTTTCTTTTCTCTTCTTTCTTCTCTTTCCCTCTCTCCCCTTCTCCCC
CTTCTCCTTTTTTTTTTTTTCCTTTCTTTCCTCCTTTCTTTCTTTTCCCT
CTCTTTCCCTTTTTTTCCTCCCCTTCTTTTTCCTCTTTCCCCCCTTCTCC
CTTTTCCTTCCCTCTTTTTCTTCTCCTTCCTCCCTTTTTCTTCCTCCTTT
TCCCTTCTTTTTTTCCTTCTTTCCTCTCCCCCCTTTTCCCTCTTCTCTCT
TCCTCCCTCTCCCTTCTCTCTCCTCCCCTTGCTCCCTCTTTTTTTTCCCT
CTTTTCCCCTTTCCCCTTTTTTTCTCTCCCTCCCTNCCTCTCTTCTTTTT
TTTCTCTCCCCTCCTCTCTCCCCCTCCCTTTTCTTTTTCCTCCCCCCTCC
TCCTCTTTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no405_a09.b1 MSMg01no405_a09.b1 CHROMAT_FILE:
MSMg01no405_a09.b1 PHD_FILE: MSMg01no405_a09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:19:54 2005
         (493 letters)



>mm_chr6_77352732_77353624
          Length = 893

 Score =  899 bits (465), Expect = 0.0
 Identities = 483/489 (98%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctttgaactgcctgcagaggaaacagataaaccagcttttcctcaatgtaaccca 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 693 gaattctttgaactgcctgcagaggaaacagataaaccagcttttcctcaatgtaaccca 634

                                                                       
Query: 65  tggatgaagacatttaagacaaaattagccttgtaatataccatgcttattattgcattt 124
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 633 tggatgaagacatttaagacaaaattagccttgtaatacaccatgcttattattgcattt 574

                                                                       
Query: 125 ttgctaggtcacttactatataaaactgtacacctgtaatcatgtaacacttcaggttac 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 573 ttgctaggtcacttactatataaaactgtacacctgtaatcatgtaacacttcaggttac 514

                                                                       
Query: 185 attaccacaactctagaacaaaactgctgtaaagaatcctcattttagatcatgcccaca 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 513 attaccacaactctagaacaaaactgctgtaaagaatcctcattttagatcatgcccacg 454

                                                                       
Query: 245 ggacataatttgatcaagatcacacttaggaattcacagagcttctgttctgggtcacct 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 453 ggacataatttgatcaagatcacacttaggaattcacagagcttctgttctgggtcacct 394

                                                                       
Query: 305 ttattttccctgaccaccgtttcatcaggtgcacacctacagaaacctagacaccccact 364
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 393 ttattttccctgaccaccgtttcaccaggtgcacacctacagaaacctagacaccccact 334

                                                                       
Query: 365 aactacataggactttgttggtatacggtggtcaattgctcccatagaactcattctgga 424
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 333 aactacataggactttgttggtatacggtgatcaattgctcccatagaactcattctgga 274

                                                                       
Query: 425 agcagaaccaaaagcttaattcgagttctatgacttagctcaatgtctgtcatacacagg 484
           |||||||||||||||||||||||||||||||| ||||||||||||| |||||||||||||
Sbjct: 273 agcagaaccaaaagcttaattcgagttctatggcttagctcaatgtgtgtcatacacagg 214

                    
Query: 485 gcagggaga 493
           |||||||||
Sbjct: 213 gcagggaga 205


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: 23
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: 493
Length of database: 893
Length adjustment: 10
Effective length of query: 483
Effective length of database: 883
Effective search space:   426489
Effective search space used:   426489
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= MSMg01no405_a09.g1 MSMg01no405_a09.g1 CHROMAT_FILE:
MSMg01no405_a09.g1 PHD_FILE: MSMg01no405_a09.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:19:54 2005
         (146 letters)



>mm_chr6_77171852_77172397
          Length = 546

 Score =  279 bits (144), Expect = 7e-80
 Identities = 144/144 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   attgaaacagaaaggagaaaaaagtagatttggaagtgtgagagaaagtgagaaggtggt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 attgaaacagaaaggagaaaaaagtagatttggaagtgtgagagaaagtgagaaggtggt 260

                                                                       
Query: 61  agctcaggaggtatggccaaagaaaagagttgaattgagaaacgtgtgtgtgtgtgtgtg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 agctcaggaggtatggccaaagaaaagagttgaattgagaaacgtgtgtgtgtgtgtgtg 320

                                   
Query: 121 tgtgtgtgtgtgtgtgtgtgtgtg 144
           ||||||||||||||||||||||||
Sbjct: 321 tgtgtgtgtgtgtgtgtgtgtgtg 344


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: 39
Number of extensions: 17
Number of successful extensions: 17
Number of sequences better than 10.0: 1
Number of HSP's gapped: 15
Number of HSP's successfully gapped: 1
Length of query: 146
Length of database: 546
Length adjustment: 8
Effective length of query: 138
Effective length of database: 538
Effective search space:    74244
Effective search space used:    74244
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)


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