BAC Information

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BAC

Clone NameMSMg01-486N18
Chromosome5 (Build37)
Map Location 22,217,657 - 22,366,350
singlet/doubletdoublet
Overlap geneLOC625174, Lhfpl3
Upstream genePmpcb, Dnajc2, Psmc2, Slc26a5, Reln, Dnaja1-ps, LOC100041982, Orc5l, LOC100042049, LOC668232, LOC100042067, LOC671222
Downstream geneEG625219, LOC100042101, LOC100042082, 4930580E04Rik, BC050254, Srpk2, Pus7, Rint1, 4933427G23Rik, Tomm7
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-486N18.T7 (MSMg01no486_n18.b1)MSMg01-486N18.TJ (MSMg01no486_n18.g1)
ACCAG565964AG565965
length738762
length of high quality
(start - end)		649 (83 - 731)510 (75 - 584)
definitionCHROMAT_FILE: MSMg01no486_n18.b1 PHD_FILE: MSMg01no486_n18.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:09:17 2005CHROMAT_FILE: MSMg01no486_n18.g1 PHD_FILE: MSMg01no486_n18.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:09:17 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(22,365,702 - 22,366,350)(22,217,657 - 22,218,166)
sequence
CCCAACCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCGAGGATG
GGCGGAATTCCATGGGAATTTCTCTTTGAGTTAGAAGTCAACTTCTGAAC
ACCTGCATCTGGGAAGATATATATCAAATGCCCTCAATTGTAATACCATC
CTGAAGGAGATTAGCCCTTCTAAAAGATGTGGGGAAATACCATCTTAGCT
TTAATCCAAAGAGCACCTTTGTGAGACAATTCCATTCGTACTGTGTACAC
ACCTGATTGCAGATAGTGAGGACAGACTAAGAGCATCATTTTCAATGGGT
CTTATAATTTTGTCAGTAACTTATTTCACATTTAAATGACCAAACAAAAA
TATTGCCAGAACCTAAACATAAAATCATTTCATTCTATTTTTAAAAGACA
ATCGAGCATTTTGGTTTCCATCAAAGCTATTCAGTTTAATAGTTTGTGTG
CTGTTTCCTGCTAGCTCCAATGCTGAGAGGCTGTTCATAATAGAAATATC
TATAAAAACAATCACACCAACTGAGTTTTACATGGAAATAGAGCATTGAA
CAGTTTCTATACAGTACAGAAATGGTTTTCCAAAAGAGGCTGCAAAAATA
CTTATAAAGCAGTAGAGGGAATTAGCTGAATGCAGTGGATTGACAAGCTA
TCAACAAAATAACACACATTTTTCATGAAAATGGCTAAATGACTATTTAC
TTGATGAACTGCAATGTAATGGTGCTGAAGGAGCCTTT

CATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXCTCGAAATACTTCAAGAAGGAACTCT
AGACATCCTTCAAGGATGAGCCTTCACAGTACCTCATGGTGGCCTCCATG
CAGTCCCTAAAGGAGGAGCCCTCACAATCACTGAAGGACTGCACACAGCG
AATCAAAAAGATGTCCTTGAATCCTTCAAGAAGAATCCTGTGGAGTCCCT
CCAGGAGGCACCATCAAAATCCCTCCAAGAGTAGTCATTACTGTTGCTCA
TGGAGTAGCCTACTAAGTACTTCAGATAGAAGCCTTCACGGTCCCTCAAG
GTGATACACTCGAAGTCCTTAAAGTATGAGCCCTCACAAACCCTCATGGA
GGACCCTTTGCAGTCCCTCAAGTAGGAGGCCTCACAGTCACTCAAGGACC
CCTCACAGAAATAAAAATAATGTTCTTAAAGACCTTCAAGAAGAATCCCT
CAGATTTCCTCAAGGAGGCACCCTCAAAATCCCTCCCAGTGTAGCCATTA
CTGTCGCTTATGGAGTAGTCTTCAAAGTACTTCAGTTAGAAGCCCTCGCA
TTCCCTCAAGGCAGAACCCTCGAAGTCCTTCAAGAATGAGCCCTCACAGT
ACCTCATGGAGGCCCCATGCAGTCCCTTAAGGAGTAGCCCTAACAGTCAC
TCTGGGAACCCACACAGCTCATCAAGGAGAAGTTCTCACAGTCCTTCAAG
AAGGAACCCTCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no486_n18.b1 MSMg01no486_n18.b1 CHROMAT_FILE:
MSMg01no486_n18.b1 PHD_FILE: MSMg01no486_n18.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:09:17 2005
         (649 letters)



>mm_chr5_22365502_22366550
          Length = 1049

 Score = 1247 bits (645), Expect = 0.0
 Identities = 648/649 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   agaagtcaacttctgaacacctgcatctgggaagatatatatcaaatgccctcaattgta 60
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 849 agaagtcaacttctgaacacctgcatctgggaagatatatagcaaatgccctcaattgta 790

                                                                       
Query: 61  ataccatcctgaaggagattagcccttctaaaagatgtggggaaataccatcttagcttt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 789 ataccatcctgaaggagattagcccttctaaaagatgtggggaaataccatcttagcttt 730

                                                                       
Query: 121 aatccaaagagcacctttgtgagacaattccattcgtactgtgtacacacctgattgcag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 729 aatccaaagagcacctttgtgagacaattccattcgtactgtgtacacacctgattgcag 670

                                                                       
Query: 181 atagtgaggacagactaagagcatcattttcaatgggtcttataattttgtcagtaactt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 669 atagtgaggacagactaagagcatcattttcaatgggtcttataattttgtcagtaactt 610

                                                                       
Query: 241 atttcacatttaaatgaccaaacaaaaatattgccagaacctaaacataaaatcatttca 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 609 atttcacatttaaatgaccaaacaaaaatattgccagaacctaaacataaaatcatttca 550

                                                                       
Query: 301 ttctatttttaaaagacaatcgagcattttggtttccatcaaagctattcagtttaatag 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 549 ttctatttttaaaagacaatcgagcattttggtttccatcaaagctattcagtttaatag 490

                                                                       
Query: 361 tttgtgtgctgtttcctgctagctccaatgctgagaggctgttcataatagaaatatcta 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 489 tttgtgtgctgtttcctgctagctccaatgctgagaggctgttcataatagaaatatcta 430

                                                                       
Query: 421 taaaaacaatcacaccaactgagttttacatggaaatagagcattgaacagtttctatac 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 429 taaaaacaatcacaccaactgagttttacatggaaatagagcattgaacagtttctatac 370

                                                                       
Query: 481 agtacagaaatggttttccaaaagaggctgcaaaaatacttataaagcagtagagggaat 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 369 agtacagaaatggttttccaaaagaggctgcaaaaatacttataaagcagtagagggaat 310

                                                                       
Query: 541 tagctgaatgcagtggattgacaagctatcaacaaaataacacacatttttcatgaaaat 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 309 tagctgaatgcagtggattgacaagctatcaacaaaataacacacatttttcatgaaaat 250

                                                            
Query: 601 ggctaaatgactatttacttgatgaactgcaatgtaatggtgctgaagg 649
           |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 249 ggctaaatgactatttacttgatgaactgcaatgtaatggtgctgaagg 201


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: 32
Number of extensions: 2
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: 649
Length of database: 1049
Length adjustment: 10
Effective length of query: 639
Effective length of database: 1039
Effective search space:   663921
Effective search space used:   663921
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= MSMg01no486_n18.g1 MSMg01no486_n18.g1 CHROMAT_FILE:
MSMg01no486_n18.g1 PHD_FILE: MSMg01no486_n18.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:09:17 2005
         (510 letters)



>mm_chr5_22217457_22218366
          Length = 910

 Score =  909 bits (470), Expect = 0.0
 Identities = 500/510 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   ctcgaaatacttcaagaaggaactctagacatccttcaaggatgagccttcacagtacct 60
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 201 ctcgaaatacttcaagaaggaactctagatatccttcaaggatgagccttcacagtacct 260

                                                                       
Query: 61  catggtggcctccatgcagtccctaaaggaggagccctcacaatcactgaaggactgcac 120
           |||||||||||||||||| ||||||||||||||||||||||||||||||||||| |||||
Sbjct: 261 catggtggcctccatgcaatccctaaaggaggagccctcacaatcactgaaggattgcac 320

                                                                       
Query: 121 acagcgaatcaaaaagatgtccttgaatccttcaagaagaatcctgtggagtccctccag 180
           ||||||||||||||| |||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 321 acagcgaatcaaaaaaatgtccttgaatccttcaagaagaatcctgcggagtccctccag 380

                                                                       
Query: 181 gaggcaccatcaaaatccctccaagagtagtcattactgttgctcatggagtagcctact 240
           |||||||||||||||||||||||||||||| ||||||||| |||||||||||||||||||
Sbjct: 381 gaggcaccatcaaaatccctccaagagtagacattactgtcgctcatggagtagcctact 440

                                                                       
Query: 241 aagtacttcagatagaagccttcacggtccctcaaggtgatacactcgaagtccttaaag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 aagtacttcagatagaagccttcacggtccctcaaggtgatacactcgaagtccttaaag 500

                                                                       
Query: 301 tatgagccctcacaaaccctcatggaggaccctttgcagtccctcaagtaggaggcctca 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tatgagccctcacaaaccctcatggaggaccctttgcagtccctcaagtaggaggcctca 560

                                                                       
Query: 361 cagtcactcaaggacccctcacagaaataaaaataatgttcttaaagaccttcaagaaga 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 cagtcactcaaggacccctcacagaaataaaaataatgttcttaaagaccttcaagaaga 620

                                                                       
Query: 421 atccctcagatttcctcaaggaggcaccctcaaaatccctcccagtgtagccattactgt 480
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 621 atccctcggatttcctcaaggaggcaccctcaaaatccctcccagtgtagccattacagt 680

                                         
Query: 481 cgcttatggagtagtcttcaaagtacttca 510
           |||||||||||||| |||||||||||||||
Sbjct: 681 cgcttatggagtagccttcaaagtacttca 710


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: 42
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: 510
Length of database: 910
Length adjustment: 10
Effective length of query: 500
Effective length of database: 900
Effective search space:   450000
Effective search space used:   450000
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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