BAC Information

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BAC

Clone NameMSMg01-397N23
Chromosome6 (Build37)
Map Location 104,645,523 - 104,784,372
singlet/doubletdoublet
Overlap geneCntn6
Upstream geneChl1, LOC100043345
Downstream geneLOC384470, LOC100043716, LOC100043350, Cntn4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-397N23.T7 (MSMg01no397_n23.b1)MSMg01-397N23.TJ (MSMg01no397_n23.g1)
ACCAG498110AG498111
length783764
length of high quality
(start - end)		399 (47 - 445)362 (73 - 434)
definitionCHROMAT_FILE: MSMg01no397_n23.b1 PHD_FILE: MSMg01no397_n23.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:10:26 2005CHROMAT_FILE: MSMg01no397_n23.g1 PHD_FILE: MSMg01no397_n23.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:10:26 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(104,645,523 - 104,645,917)(104,784,016 - 104,784,372)
sequence
CCCTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCCTTAGTTCTTCCCTTAAATTTTATCTTAACTAAATTGTGATTTT
ACTTTAAGGTGGCAGAAAGATATTTGAAGTAAATACTTGATAGAGAAAAA
TATATCCACCTGAAAGGAGACTCCTTTGAGGGAGGACCTGGTGTGAACAA
AGGCAAAATTGTATCTTGACTTTGATCTCTGTGCTATCAAAACACTTTAA
TATATGAATTATGAATTAATTCATAGTAACATTTTGCAACATCTATGATT
TAATAGCTAATAAGATTTGTGTGACTTTTAAGAGAAGGTGATTTCCTTCG
TGGCAGCTAATAGAAACCCTATTGTGATCACAAAGATCCCAGAGAAATGA
AGCCACCAATGAGTACCATTTACCTGAAATTGAAAACAAAGGTTAGGTGC
CAGGGATCTTAACAATATGGTCATAATGACTTCTAATTATCACTGAAAAC
ATGACTACTGATTCTGTATGTAAGAAAATGATGATGGGACTCCCATTCAA
AGGTTATACTTGGCCCCCAAAGTTTCCTTTACCCCTTTGAACACTGGTTT
TCCTTCTTTGACACTTAAAAGCCGCAATAAAAGGTATCTTGGCCCACTTA
AAATGGAAAAAAAGAAAACAATTTCTTTATTTTCCCCCTTTTATGTTCCC
ACAAAAATAAAAATCTCCAGGCCTCCTTTATCGTTTTTTTCTCCGAAAAA
ATATTATGGCCCTTTTCTTTCTCTACACCTCCC

ATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXATTTATTTTAGGTTTTATAGTTTGGTAG
AATACGTATTTTAAAACTATTTCTTTATAACTCTAAAATTTTCCTCATTT
CTTTGTTGTAATGTCTTTTACACTTCAAATTTTTGAAATTTGGATTCCCT
TTCTCTTTCTTTTGATTGCCTTGGTCAAAAATTTTGTTCTGTTTTGAAGA
ACTAACTCTTCATTGATTCTATTGCATATTTTGTTGTTTCAATTTTACTG
TTTTCAGCCCTGAGTTTTATAATTTCTTCCTATCTACTCTTGTTTTTCTT
TAAATCTTTCAAGTGTATTACATTATTAGTATGAGAAATCTTCAGTTTTT
GCGTGAGGTCATATATATTATTGAAATTGGGAATTACAAAAACCTTTTAG
GATTATCAAATTAAAATATTATATGTACCCTTACTAGAAAATCTTCCCAA
ATCTCCTTTGGCACTTAACTGGAAAAAACGCTTGCCAGCCCCCAGAAAAA
GCGGCCCCATTTTTAATATTCAAATTTTATGGGGCTGTTTTATTTTGACC
CGGCTTCCCCCTAGCTGGGAAGGGGTGTATAAAAAAGACTTCCCCTTAAC
TCTCCTTGTAACCCTGTGCTTCTCCTTCAAAATATCATCAATTCCCAGCC
GCTCTTTTTTATCCCTATCCTCCCTCTCCTTATCTTTCTTTTCTTATTTT
CCATGAATTATTCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no397_n23.b1 MSMg01no397_n23.b1 CHROMAT_FILE:
MSMg01no397_n23.b1 PHD_FILE: MSMg01no397_n23.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:10:26 2005
         (399 letters)



>mm_chr6_104645319_104646117
          Length = 799

 Score =  717 bits (371), Expect = 0.0
 Identities = 389/395 (98%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccttagttcttcccttaaattttatcttaactaaattgtgattttactttaaggt 64
           |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattccttagttcttgccttaaattttatcttaactaaattgtgattttactttaaggt 264

                                                                       
Query: 65  ggcagaaagatatttgaagtaaatacttgatagagaaaaatatatccacctgaaaggaga 124
           ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 265 ggcagaaagatatttgaagtaaatactcgatagagaaaaatatatccacctgaaaggaga 324

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

                                                                       
Query: 185 gtgctatcaaaacactttaatatatgaattatgaattaattcatagtaacattttgcaac 244
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 gtgctatcaaaccactttaatatatgaattatgaattaattcatagtaacattttgcaac 444

                                                                       
Query: 245 atctatgatttaatagctaataagatttgtgtgacttttaagagaaggtgatttccttcg 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 atctatgatttaatagctaataagatttgtgtgacttttaagagaaggtgatttccttcg 504

                                                                       
Query: 305 tggcagctaatagaaaccctattgtgatcacaaagatcccagagaaatgaagccaccaat 364
           ||||||||||||||||||||||||||||||||||||||||||||||| || |||||||||
Sbjct: 505 tggcagctaatagaaaccctattgtgatcacaaagatcccagagaaacgatgccaccaat 564

                                              
Query: 365 gagtaccatttacctgaaattgaaaacaaaggtta 399
           ||||||||||||||||||||||||||||| |||||
Sbjct: 565 gagtaccatttacctgaaattgaaaacaatggtta 599


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: 399
Length of database: 799
Length adjustment: 9
Effective length of query: 390
Effective length of database: 790
Effective search space:   308100
Effective search space used:   308100
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= MSMg01no397_n23.g1 MSMg01no397_n23.g1 CHROMAT_FILE:
MSMg01no397_n23.g1 PHD_FILE: MSMg01no397_n23.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:10:26 2005
         (362 letters)



>mm_chr6_104784016_104784777
          Length = 762

 Score =  636 bits (329), Expect = 0.0
 Identities = 350/357 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   atttattttaggttttatagtttggtagaatacgtattttaaaactatttctttataact 60
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 357 atttattttaggttttatagtttggtagaatacatattttaaaactatttctttataact 298

                                                                       
Query: 61  ctaaaattttcctcatttctttgttgtaatgtcttttacacttcaaatttttgaaatttg 120
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 297 ctaaaattttcctcatttttttgttgtaatgtcttttacacttcaaatttttgaaatttg 238

                                                                       
Query: 121 gattccctttctctttcttttgattgccttggtcaaaaattttgttctgttttgaagaac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 237 gattccctttctctttcttttgattgccttggtcaaaaattttgttctgttttgaagaac 178

                                                                       
Query: 181 taactcttcattgattctattgcatattttgttgtttcaattttactgttttcagccctg 240
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 177 caactcttcattgattctattgcatattttgttgtttcaattttactgttttcagccttg 118

                                                                       
Query: 241 agttttataatttcttcctatctactcttgtttttctttaaatctttcaagtgtattaca 300
           ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 117 agttttataatttcttcctatctactcttgtttttctttcaatctttcaagtgtattaca 58

                                                                    
Query: 301 ttattagtatgagaaatcttcagtttttgcgtgaggtcatatatattattgaaattg 357
           |||||| |||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 57  ttattaatatgagaaatcttcagttttggcgtgaggtcatatatattattgaaattg 1


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: 362
Length of database: 762
Length adjustment: 9
Effective length of query: 353
Effective length of database: 753
Effective search space:   265809
Effective search space used:   265809
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)


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