BAC Information

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BAC

Clone NameMSMg01-345L13
Chromosome5 (Build37)
Map Location 55,133,846 - 55,311,548
singlet/doubletdoublet
Overlap geneLOC666380
Upstream geneTbc1d19, Stim2, EG666377
Downstream geneEG666405
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-345L13.T7 (MSMg01no345_l13.b1)MSMg01-345L13.TJ (MSMg01no345_l13.g1)
ACCAG458477AG458478
length825727
length of high quality
(start - end)
121 (57 - 177)639 (85 - 723)
definitionCHROMAT_FILE: MSMg01no345_l13.b1 PHD_FILE: MSMg01no345_l13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:36:14 2005CHROMAT_FILE: MSMg01no345_l13.g1 PHD_FILE: MSMg01no345_l13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:36:14 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(55,311,434 - 55,311,548)(55,133,846 - 55,134,489)
sequence
NNNNNAAAATTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXCGCGGAATTCAGCAGTGTCCTCGCAGATTTCTGTCATGTTTCTG
TTTGCTGTTTCCCTTGCATTTAGTGTGTTATGAAGGTTCACCATCTACAA
GATTAGCTTTTTTTTAATGCTAATGGTTATCAATTATTTTTTGTTTTTTT
ACTGAAAGTCTCGTACCCATAATTCTGAAGTAATANCCCCTATATACTAG
NNTTAGTCTGNGACTTTTATTTTCTNNCTATTNNATTAAAACNAATCCTT
TNNNNNNTCTTTAATGTAACATGGGCGGGGGGGGGCTGCTTTNATTTNTT
TNTTTAAAAATAAAANNTTTTTTAAACCCCCCCNCCCNNNNGAAACTTAA
AAACTCCCCCTGGGGAAAATTTTTTTAAAGGGGGTGGGAAACACCCCCCA
AAAAGTTGTTTTTCTTTTTTTTTTTTTTTCTTTTNNNNNCCNNCNNNNNN
NNNTCNNNNNAACNNNNNNNCNNNNNNNCNNNNNACAAATAACATATTAA
TTTAACACCACACCAAACACCCCTTCCTTACAAAACTAAAAATAACCACT
CCTCCCAATTTAACAAATAAAAAAAACCCTCCTCAACAATATCTTATAAT
AATTTNCTCTACCACCACCTCACAAAACAATCATCTAATTACCTACACAT
TCCCCCTCCCTACNACCCAAANACCTTTCAATTACANCCCATCAAACAAC
CCCCACACCAACACACCATCTCCNCCTTCCTCCTCCTTTCCTTATTANAC
CTTTCCTCTTTGTCTTTGTTTTGTT
CCCTTTTATCTATGATAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCGGACAGACAGAAGC
GTTGTCTGCAGTTACTTATCCACTGCTAAAAGCACTAGTCTCCGAGAGAT
AGCTCACACAGACAGAAGCAAAAAGCAAAGAGAAGACATCAACTTGAGAA
AGTGCTTTTTAGATAGAAGGTTGGATAGACAGGCATAATAGAGATTGAAA
GAAGGTAGGTGTGAGTGGTCAGTATTCATTATGTACCAGAGCGACACTTG
TCAAATTTAATTTACCTGAAATTGGTGGAAAATTAATTGTGTTTATGGCC
ACAAATAACCTATCTGAAAAGCAATAATGATAACTATGCATTTCTCGAGG
GATAAATTTAGTCAATGAAATGCACAGCTTATAAAGTGAAAAATGGAAAA
CATTGATGAAAGAAATTAAACCAGTAACCTTGTAAGGCAGGTGGCAGAAC
AACTGTGCTAAGAAAGTAGAGCATACACACTGACTGTAGAAAAGTTGAAG
ATTGGGGAGAGAAGGAGATAGATAAACTGAGGATGTATAAAGATATCATA
GGGCAACCCAGTATTTATTAGCTAACTAAAAGCGGAAGTACCCAGAGAAA
ACAGTATTGGAATGGAGGTACTGTGGTTCAGGGGATAATCTGTCTCCAGA
AAACTATAGGTTATTAGACAAAAATCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no345_l13.b1 MSMg01no345_l13.b1 CHROMAT_FILE:
MSMg01no345_l13.b1 PHD_FILE: MSMg01no345_l13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:36:14 2005
         (121 letters)



>mm_chr5_55311230_55311748
          Length = 519

 Score =  203 bits (105), Expect = 3e-57
 Identities = 114/117 (97%), Gaps = 2/117 (1%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcagcagtgtcctcgcagatttctgtcatgtttctgtttgctgtttcccttgcatt 64
           ||||||||||||||||| ||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 319 gaattcagcagtgtcct-gcagatttctgtcatgtttctgtttcctgtttcccttgcatt 261

                                                                    
Query: 65  tagtgtgttatgaaggttcaccatctacaagattagcttttttttaatgctaatggt 121
           ||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 260 tagtgtgttatgaaggttcaccatctacaagattagc-tttttttaatgctaatggt 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: 4
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: 121
Length of database: 519
Length adjustment: 8
Effective length of query: 113
Effective length of database: 511
Effective search space:    57743
Effective search space used:    57743
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)
Query= MSMg01no345_l13.g1 MSMg01no345_l13.g1 CHROMAT_FILE:
MSMg01no345_l13.g1 PHD_FILE: MSMg01no345_l13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:36:14 2005
         (639 letters)



>mm_chr5_55133651_55134689
          Length = 1039

 Score = 1180 bits (610), Expect = 0.0
 Identities = 633/644 (98%), Gaps = 7/644 (1%)
 Strand = Plus / Plus

                                                                       
Query: 3   ggacagacagaagcgttgtctgcagttacttatccactgctaaaagcactagtctccgag 62
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 196 ggacagacagaggcgttgtctgcagttacttatccactgctaaaagcactagtctccgag 255

                                                                       
Query: 63  agatagctcacacagacagaagcaaaaagcaaagagaagacatcaacttgagaaagtgct 122
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 256 agatagctcacacagacagaagcaaaaagcaaagagaagacatcaacttgagaaagtgct 315

                                                                       
Query: 123 ttttagatagaaggttggatagacaggcataatagagattgaaagaaggtaggtgtgagt 182
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 316 ttttagatagaaggttggatagacaggcataatagagattgaaagaaggtaggtgtgagt 375

                                                                       
Query: 183 ggtcagtattcattatgtaccagagcgacacttgtcaaatttaatttacctgaaattggt 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 376 ggtcagtattcattatgtaccagagcgacacttgtcaaatttaatttacctgaaattggt 435

                                                                       
Query: 243 ggaaaattaattgtgtttatggccacaaataacctatctgaaaagcaataatgataacta 302
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 436 ggaaaattaattgtgtttatggccacaaataacctatctgaaaagcaataatgataacta 495

                                                                       
Query: 303 tgcatttctc--gagggataaatttagtcaatgaaatg-----cacagcttataaagtga 355
           ||||||||||  ||||||||||||||||||||||||||     ||||||||||||| |||
Sbjct: 496 tgcatttctcaagagggataaatttagtcaatgaaatgaaatgcacagcttataaactga 555

                                                                       
Query: 356 aaaatggaaaacattgatgaaagaaattaaaccagtaaccttgtaaggcaggtggcagaa 415
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 556 aaaatggaaaacattgatgaaagaaattaaaccagtaaccttgtaaggcaggtggcagaa 615

                                                                       
Query: 416 caactgtgctaagaaagtagagcatacacactgactgtagaaaagttgaagattggggag 475
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 616 caactgtgctaagaaagtagagcatacacactgactgtagaaaagttgaagattggggag 675

                                                                       
Query: 476 agaaggagatagataaactgaggatgtataaagatatcatagggcaacccagtatttatt 535
           |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 676 agaaggagatagataaactgaggatgtataaagatatcatagggcaacccagtacttatt 735

                                                                       
Query: 536 agctaactaaaagcggaagtacccagagaaaacagtattggaatggaggtactgtggttc 595
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 736 agctaactaaaagcggaagtacccagagaaaacagtattggaatggaggtactgtggttc 795

                                                       
Query: 596 aggggataatctgtctccagaaaactataggttattagacaaaa 639
           ||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 796 aggggataatccgtctccagaaaactataggttattagacaaaa 839


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: 31
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: 639
Length of database: 1039
Length adjustment: 10
Effective length of query: 629
Effective length of database: 1029
Effective search space:   647241
Effective search space used:   647241
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)