BAC Information

Click to search

BAC

Clone NameMSMg01-279M20
Chromosome3 (Build37)
Map Location 23,329,247 - 23,490,525
singlet/doubletdoublet
Overlap geneLOC100039548
Upstream geneLOC675593, LOC100040378, LOC623751
Downstream geneEG635702, EG665189
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-279M20.T7 (MSMg01no279_m20.b1)MSMg01-279M20.TJ (MSMg01no279_m20.g1)
ACCAG417062AG417063
length751756
length of high quality
(start - end)		699 (46 - 744)286 (77 - 362)
definitionCHROMAT_FILE: MSMg01no279_m20.b1 PHD_FILE: MSMg01no279_m20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:20:30 2005CHROMAT_FILE: MSMg01no279_m20.g1 PHD_FILE: MSMg01no279_m20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:20:30 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(23,489,831 - 23,490,525)(23,329,247 - 23,329,529)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCCATGCATATGCCTAGGCTGAAAGTCAAACCTGCTAAAATTTGACT
TGTGATTTTTGAGCAGTACAATAAGGAGAAAATGATATGCTTTTGGCATA
AACTACACTTAAATGTTGAGTTCAGATCTTTTATTGGAAAAGGAGCAATA
TGCTTCAGACTTTTCTCAAAGATGTAGGTGAGGGGAGTAAGTAGGTAGTA
CAAGTCTCAGAGGTCAGTCCAGCTTGTGATCAATGAGGAAAATCCTGGCA
CTCCCTGTGCTGCTTGGGTATGCCATTGGTAAATTACATCAGTTTAGTGC
ATTGCTAACAATGATACCTGCCACTTACCATGGGTTTGCTAAGCCATAAC
ACCATTGTAAGTTGAGAAGCAGCTGCATTTAATACATATTTAATACATAG
TCCTATACATTCATTTCAGTGACTCAAAAGATCCAAATCCTTGCAAATTA
AACATGGAAATAAAGTTTATTATTACAAACCAAGCATTTGTTCTAACTTC
GCCCCACAGAGTCCTCTGCCAGTATTTCTCTGGCACTTACTTCTTGCAAA
CTGGGAATCGTGCTGACTTTTTAAAAATGAGGAAGCTATTCTTCCTGATT
TATTGGCTATATCAGTAAAGAATAGATGAGCTGGCATGTGGAACAGATTA
GTCTTTATTCTTAATTTTATATTTTTCAGAATTTGAGCAGATTTTCAGGT
T

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAAGTCCCTACTGGATCATGATTCA
ATGACTCAAAGATGAGGTGCTATTTCTTTCCTTAATGTAACACAGCTAGA
TTATTGGGGACCTGGAGTTATTTATTAATGTGTTTGATACACTAAAACAA
TTGTATTTATACAATTTTGAAATATTGTTATGATTCTTTCCATTTCAACC
CTTTCATGGAAGACAAGGTTTCAAAATGCTGAGATTAAGACTTCTTAAAT
TTAGAGAAAAAGGGACAGGGAGAGACAGAGAGAAAGAAACAGAGAGGCAA
AGGCATGGATATTTATTAAGTGACACCTACATTTTAAAAGTCTATCACAC
TTCTCCCTACTTAGTAAGACAGCTGCTACTTCCAATGGCTTCAGCTTATG
GTTGAATAAAAATCAAATTCATGTTACCCTGAAGAAAAAATTTCAATTAC
ATAAAATGAATAAACCATGATGATAGAATGAACTGCCAGCTTATCCTATC
TCACAAAATTTGCACAAAATAATTGATATTATCATATTTTTCTGAATCTT
CATCTTAAGTCAGAGCTCANAATTATGTATTATAAAAAGCAAGACATTTT
TATATGCAGCTTTTAATTATCTGACAAATAACCTACATATTTCAGGGCTA
CACAAAATTTATCCCTGATATTGCTAGAAGTAACAAGCTTATTCTATTCA
TTTTAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no279_m20.b1 MSMg01no279_m20.b1 CHROMAT_FILE:
MSMg01no279_m20.b1 PHD_FILE: MSMg01no279_m20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:20:30 2005
         (699 letters)



>mm_chr3_23489627_23490725
          Length = 1099

 Score = 1297 bits (671), Expect = 0.0
 Identities = 689/695 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccatgcatatgcctaggctgaaagtcaaacctgctaaaatttgacttgtgatttt 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 899 gaattccatgcatatgcctaggctgaaagtcaaacctgctaaaatttgacttgtgatttt 840

                                                                       
Query: 65  tgagcagtacaataaggagaaaatgatatgcttttggcataaactacacttaaatgttga 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 839 tgagcagtacaataaggagaaaatgatatgcttttggcataaactacacttaaatgttga 780

                                                                       
Query: 125 gttcagatcttttattggaaaaggagcaatatgcttcagacttttctcaaagatgtaggt 184
           ||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 779 gttcagatcttttattggaaaaggagcaatatgtttcagacttttctcaaagatgtaggt 720

                                                                       
Query: 185 gaggggagtaagtaggtagtacaagtctcagaggtcagtccagcttgtgatcaatgagga 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 719 gaggggagtaagtaggtagtacaagtctcagaggtcagtccagcttgtgatcaatgagga 660

                                                                       
Query: 245 aaatcctggcactccctgtgctgcttgggtatgccattggtaaattacatcagtttagtg 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 659 aaatcctggcactccctgtgctgcttgggtatgccattggtaaattacatcagtttagtg 600

                                                                       
Query: 305 cattgctaacaatgatacctgccacttaccatgggtttgctaagccataacaccattgta 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 599 cattgctaacaatgatacctgccacttaccatgggtttgctaagccataacaccattgta 540

                                                                       
Query: 365 agttgagaagcagctgcatttaatacatatttaatacatagtcctatacattcatttcag 424
           |||||||||||||||||||||||||||||||||||||||||| |||||||||||| ||||
Sbjct: 539 agttgagaagcagctgcatttaatacatatttaatacatagttctatacattcatctcag 480

                                                                       
Query: 425 tgactcaaaagatccaaatccttgcaaattaaacatggaaataaagtttattattacaaa 484
           ||||||||||| |||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 479 tgactcaaaaggtccaaatccttgcaaattaaacatggaaataaagtttattatcacaaa 420

                                                                       
Query: 485 ccaagcatttgttctaacttcgccccacagagtcctctgccagtatttctctggcactta 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 419 ccaagcatttgttctaacttcgccccacagagtcctctgccagtatttctctggcactta 360

                                                                       
Query: 545 cttcttgcaaactgggaatcgtgctgactttttaaaaatgaggaagctattcttcctgat 604
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 359 cttcttgcaaactgggaatcatgctgactttttaaaaatgaggaagctattcttcctgat 300

                                                                       
Query: 605 ttattggctatatcagtaaagaatagatgagctggcatgtggaacagattagtctttatt 664
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 299 ttattggctatatcagtaaagaatagatgagctggcatgtggaacagattagtctttatt 240

                                              
Query: 665 cttaattttatatttttcagaatttgagcagattt 699
           |||||||||||||||||||||||||||||||||||
Sbjct: 239 cttaattttatatttttcagaatttgagcagattt 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: 32
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: 699
Length of database: 1099
Length adjustment: 10
Effective length of query: 689
Effective length of database: 1089
Effective search space:   750321
Effective search space used:   750321
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= MSMg01no279_m20.g1 MSMg01no279_m20.g1 CHROMAT_FILE:
MSMg01no279_m20.g1 PHD_FILE: MSMg01no279_m20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:20:30 2005
         (286 letters)



>mm_chr3_23329047_23329732
          Length = 686

 Score =  532 bits (275), Expect = e-155
 Identities = 281/283 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  gtaacacagctagattattggggacctggagttatttattaatgtgtttgatacactaaa 120
           | |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 gcaacatagctagattattggggacctggagttatttattaatgtgtttgatacactaaa 320

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

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

                                                      
Query: 241 agggagagacagagagaaagaaacagagaggcaaaggcatgga 283
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 agggagagacagagagaaagaaacagagaggcaaaggcatgga 483


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: 16
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: 286
Length of database: 686
Length adjustment: 9
Effective length of query: 277
Effective length of database: 677
Effective search space:   187529
Effective search space used:   187529
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)


| Home | SequenceCutter | Blast | Download |