BAC Information

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BAC

Clone NameMSMg01-375A09
Chromosome18 (Build37)
Map Location 40,553,122 - 40,687,908
singlet/doubletdoublet
Overlap geneKctd16
Upstream geneNr3c1, Pabpc2, LOC100041939, Yipf5
Downstream geneEG225416, LOC677182
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-375A09.T7 (MSMg01no375_a09.b1)MSMg01-375A09.TJ (MSMg01no375_a09.g1)
ACCAG480678AG480679
length768760
length of high quality
(start - end)		488 (55 - 542)490 (85 - 574)
definitionCHROMAT_FILE: MSMg01no375_a09.b1 PHD_FILE: MSMg01no375_a09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:14:28 2005CHROMAT_FILE: MSMg01no375_a09.g1 PHD_FILE: MSMg01no375_a09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:14:28 2005
singlet/doubletdoubletdoublet
BLAST hituniqueplural
Map location.(40,687,424 - 40,687,908)(40,553,122 - 40,553,396)
sequence
NNNNNAAAATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXCGCGGAATTCTCCAGCCTCCAGGAAAATGGGAGTGTTACCTTCCAT
TGTTCTGGCCACTATCACTCTTAAAAGAAAATTGGACAACCTAATTTTAA
TGCATCTTGTCACAGTACCATGCATCTCAATATTTCACAAGGATATTTGA
ATATTTTAGGATTTGGGCAAGATAATTCATAAAATAGCTAATGAAGTCTA
TATGTTATTTCAAGATCCTGGAAGAAGGTGGGACTGATGCAGCTCAGATA
GAGCCAATATGAAATTTAGAAATTAAACACAGAAGTTCACTGTCTTCTTG
GAAGCACTCAAACTACCTTTTCCCCAAAACCATAGCTGAAGCAAGGGTAT
GAAATTAAGGTAGAGGGAGCTGCAAGCACGGGGCTCTCCACCATGGCACT
CCTTCTGAGGCATGCTCACAAACGTTAAGAAGTCTTGAAAGATCTATCAG
AGGTCAGTTCTGTAAGGTAATGTGTTCTGGGATCTTTTTATAGAGAACAA
AAGTACCCCAAATACCCTGGCGCTTCAAAGTAAAACATTCACTTCTAATT
TGTGAAGGTTTCACACTGGTTAGAGGCTTTTCCCTGAACAAGAAAGTGGA
TTCTAATTGATTTGGACCAACGCGAAAAAAAAATAATTTCTCTCCAAAAA
AAAGCTACCTTATTATATTTAAAAAAAAAAGCCTCCCTTCCCCTTTGGAA
ATAATAAAAAAAATGGTG

NTTTTTCTTCTATGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAATGTTACTGAATACT
TCGGGACATATGGAGAAACTTGGAGTCTGTGGAACACTGAGTATTCACAA
GTGAGAAGGACTTAGATAACCAGTTTGAGCTTGCTAAGGAGAGTATGCAG
AGCAGGAAGTGATGCTAGTGACTAAGCCTCTGGAGTAAAAGCAAGGCAGC
ATTTTTCCAGAAAGAAATTTACACTTCTTTCTCTGGAGGCCTGCAGCTAA
TTGCACAGTTCCTAGTCATATGGAATTTGGAGGTTGCTTGTTTCAAAATG
AGTCTTCTAAGAGTGATATGTACCTACTTGATTTGATGGTTTTTAATTCC
TCATGGATCAAACCGTGTGCATATTACCAGTGCATATGGGATTAAATATA
AACATGGATTTGAAAGATCAATTTAAAATATACTTTTGGCATCGTTTTAA
ATTCAGACATGTACTTATTATATATATGTGCTATGTGCTGGCTAGNCTTT
TCTCTCTCTCTCTCTCTCTCTCTTTTTTGGTTTTGGTTTTTCCAGACAGG
GTTTTCCTGGTGTAACCTGGGTGGCCCTGGACATCCTTTGTAGACCAACC
TGGGCCTTGAACCCAAAATCCCCTGCGCCCTGCCTTCCCCTGGTTGGGTT
AAATGGGGGGTCCACCCCCCGCCCGCTGGTTTACTATACCCTCCCCTCTT
CTATACCCCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no375_a09.b1 MSMg01no375_a09.b1 CHROMAT_FILE:
MSMg01no375_a09.b1 PHD_FILE: MSMg01no375_a09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:14:28 2005
         (488 letters)



>mm_chr18_40687221_40688108
          Length = 888

 Score =  915 bits (473), Expect = 0.0
 Identities = 482/485 (99%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattctccagcctccaggaaaatgggagtgttaccttccattgttctggccactatca 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 688 ggaattctccagcctccaggaaaatgggagtgttaccttccattgttctggccactatca 629

                                                                       
Query: 64  ctcttaaaagaaaattggacaacctaattttaatgcatcttgtcacagtaccatgcatct 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 628 ctcttaaaagaaaattggacaacctaattttaatgcatcttgtcacagtaccatgcatct 569

                                                                       
Query: 124 caatatttcacaaggatatttgaatattttaggatttgggcaagataattcataaaatag 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 568 caatatttcacaaggatatttgaatattttaggatttgggcaagataattcataaaatag 509

                                                                       
Query: 184 ctaatgaagtctatatgttatttcaagatcctggaagaaggtgggactgatgcagctcag 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 508 ctaatgaagtctatatgttatttcaagatcctggaagaaggtgggactgatgcagctcag 449

                                                                       
Query: 244 atagagccaatatgaaatttagaaattaaacacagaagttcactgtcttcttggaagcac 303
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 448 atagagccaatatgaaatttagaaattaaacacagaagttcactgtcttcttagaagcac 389

                                                                       
Query: 304 tcaaactaccttttccccaaaaccatagctgaagcaagggtatgaaattaaggtagaggg 363
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 388 tcaaactacctttcccccaaaaccatagctgaagcaagggtatgaaattaaggtagaggg 329

                                                                       
Query: 364 agctgcaagcacggggctctccaccatggcactccttctgaggcatgctcacaaacgtta 423
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 328 agctgcaagcacggggctctccaccatggcactccttctgaggcatgctcacaaacatta 269

                                                                       
Query: 424 agaagtcttgaaagatctatcagaggtcagttctgtaaggtaatgtgttctgggatcttt 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 268 agaagtcttgaaagatctatcagaggtcagttctgtaaggtaatgtgttctgggatcttt 209

                
Query: 484 ttata 488
           |||||
Sbjct: 208 ttata 204


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: 24
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: 488
Length of database: 888
Length adjustment: 10
Effective length of query: 478
Effective length of database: 878
Effective search space:   419684
Effective search space used:   419684
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= MSMg01no375_a09.g1 MSMg01no375_a09.g1 CHROMAT_FILE:
MSMg01no375_a09.g1 PHD_FILE: MSMg01no375_a09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:14:28 2005
         (490 letters)



>mm_chr18_40552922_40553811
          Length = 890

 Score =  516 bits (267), Expect = e-150
 Identities = 273/275 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   aatgttactgaatacttcgggacatatggagaaacttggagtctgtggaacactgagtat 60
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 aatgttattgaatacttcgggacatatggagaaacttggagtctgtggaacactgagtat 260

                                                                       
Query: 61  tcacaagtgagaaggacttagataaccagtttgagcttgctaaggagagtatgcagagca 120
           |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 261 tcacaagtgagaaggacttagataaccactttgagcttgctaaggagagtatgcagagca 320

                                                                       
Query: 121 ggaagtgatgctagtgactaagcctctggagtaaaagcaaggcagcatttttccagaaag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 ggaagtgatgctagtgactaagcctctggagtaaaagcaaggcagcatttttccagaaag 380

                                                                       
Query: 181 aaatttacacttctttctctggaggcctgcagctaattgcacagttcctagtcatatgga 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 aaatttacacttctttctctggaggcctgcagctaattgcacagttcctagtcatatgga 440

                                              
Query: 241 atttggaggttgcttgtttcaaaatgagtcttcta 275
           |||||||||||||||||||||||||||||||||||
Sbjct: 441 atttggaggttgcttgtttcaaaatgagtcttcta 475


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: 490
Length of database: 890
Length adjustment: 10
Effective length of query: 480
Effective length of database: 880
Effective search space:   422400
Effective search space used:   422400
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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