BAC Information

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BAC

Clone NameMSMg01-409F09
Chromosome3 (Build37)
Map Location 12,869,291 - 13,039,016
singlet/doubletdoublet
Overlap geneLOC668037
Upstream geneEG621965, LOC100039798, EG668033
Downstream geneLOC100039823, LOC100039861, 0710005M24Rik, LOC100041679, LOC100041667, LOC100039882
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-409F09.T7 (MSMg01no409_f09.b1)MSMg01-409F09.TJ (MSMg01no409_f09.g1)
ACCAG506845AG506846
length805793
length of high quality
(start - end)		464 (47 - 510)376 (58 - 433)
definitionCHROMAT_FILE: MSMg01no409_f09.b1 PHD_FILE: MSMg01no409_f09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:25:39 2005CHROMAT_FILE: MSMg01no409_f09.g1 PHD_FILE: MSMg01no409_f09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:25:40 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(12,869,291 - 12,869,750)(13,038,641 - 13,039,016)
sequence
TTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCCACAATAAAGTTAAATTTTATAGCCAAACAAGTTGAATTTTATA
GCAAGGTATAGAGTGTAATCCACCTCCTGCTCCAACTGCTAGCTCCCTCT
TGAACTGTGCTGAGCAGATAAAGCAAAGCTGTGATAAACTCCTTCTCTCA
CACTGGAATAGATTCAGAGTTCTTAGTGTAAATGTGGGTAGTTTACTTTT
CTTTTCCAGATATCAAGCCCTAACTATCTTGGGCAAAATCTCTGCTTCTA
ATATTGTAACAGGAAAACAAACCAACAAACCAACAAAAAACAAAGGAGTG
TACCTTATTGAAATAAACATAAAGGATCAGCGATAGCCTAGAGGTTGATT
TTCCTTTCTGACATCAGCGGTATAATTCAGATGAACAATACTGTTTATAT
ATTTGTAAGTTTGGTATAAGCTAGTTACAGTTCATCAAACTAAAATCATA
GAAATAGCTGCCTATAAGCCAAAGGTTGAACCCCATATTAATTTGGAGAT
AAGTGCTACAAAATAAGTTAATGAATTTTCTTTTATTTTTGAAATTGTAA
CATAATTACATAATTTCCCTCATTCCCCCCCTCTCCTGTGACTATTCTAT
ATACCCCCCCTTTTTCTCTTTCACAAATATTAAGTTTCCCTCCTAACTTT
TTTTACACTAAAAATTGTCATGCTATAATTAGCCTACATTCTCCTCTTTG
GTTTCGACTTATCCCAATCTCCTTTGTTTAACATAAAACCCTTATATTAA
AAAAN

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXCCAAGAAGTATTTACTGCTAAGACAAAGGATCCTTATGTTACA
TAAAAAACACAATTACAATAACTAAAATGGGTAAGATTTTGGTTTTGTAG
CCTTTCATTGCATATGAAATAAAAATTTAAAAAATGTGTAGACTGAAGTG
TTTGCCATATGGCTGGTTAGGCACATTTAATATGTATATATTATGTAACT
ATCTTTGTTATTAATCTTTGCCCGTGGTTTACTCATTTACACATTTAAAG
TCCAGTCATGGCCTCCTCACACACTATTCAAAAGCATTGCTGTGTAGACT
TACATACCTCATTATATATTTATTTAGAAGAAGCACTTCCTGTAAAGTCT
TACTTTCCAAGTTCCAACATGATTGAAATATAACAAAGACTACCACAATA
TTTGACCATGTTCTTTCATATAATTAGGCAAGAAGTTGTATGATGGATTG
TGCCTGTGTAAAAAAAAACCATTCCTTTTCTTCAGAATAGAATCTTCCCA
CTGAATATTGTACCGATGTTTTAATGTCTATTTACAAAAAATAACTGGGT
TGCTTCCCAGTATCTTCCCACTAATTCTTATTGAACGCTCCTTTCCTCCT
TCTGATGTAATTTTTCTATCCTTCTATACCTCTCATATACTATAATTTAC
TCACCTACTTTCCTACCTTTTCTTTCTCTATACTTATTACTTACTCATCT
TTACTCCTCCTTTCCTCTACCTATTATTATCTCTTAATTCCCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no409_f09.b1 MSMg01no409_f09.b1 CHROMAT_FILE:
MSMg01no409_f09.b1 PHD_FILE: MSMg01no409_f09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:25:39 2005
         (464 letters)



>mm_chr3_12869087_12869950
          Length = 864

 Score =  843 bits (436), Expect = 0.0
 Identities = 454/460 (98%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccacaataaagttaaattttatagccaaacaagttgaattttatagcaaggtata 64
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 205 gaattccacaataaagttaaattttatagccacacaagttgaattttatagcaaggtata 264

                                                                       
Query: 65  gagtgtaatccacctcctgctccaactgctagctccctcttgaactgtgctgagcagata 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 gagtgtaatccacctcctgctccaactgctagctccctcttgaactgtgctgagcagata 324

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

                                                                       
Query: 185 aatgtgggtagtttacttttcttttccagatatcaagccctaactatcttgggcaaaatc 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 aatgtgggtagtttacttttcttttccagatatcaagccctaactatcttgggcaaaatc 444

                                                                       
Query: 245 tctgcttctaatattgtaacaggaaaacaaaccaacaaaccaacaaaaaacaaaggagtg 304
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 445 tctgcttctaatattgtaacaggaaaacaaaccaacaaacaaacaaaaaacaaaggagtg 504

                                                                       
Query: 305 taccttattgaaataaacataaaggatcagcgatagcctagaggttgattttcctttctg 364
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 505 taccttattgaaataaacataaaggatcagagatagcctagaggttgattttcctttctg 564

                                                                       
Query: 365 acatcagcggtataattcagatgaacaatactgtttatatatttgtaagtttggtataag 424
           ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||| ||
Sbjct: 565 acatcagcggtataattcagatgaacaatactgtttacatatttgtaagtttggtatgag 624

                                                   
Query: 425 ctagttacagttcatcaaactaaaatcatagaaatagctg 464
           |||||||||||||||||||||||||||||| |||||||||
Sbjct: 625 ctagttacagttcatcaaactaaaatcataaaaatagctg 664


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: 464
Length of database: 864
Length adjustment: 10
Effective length of query: 454
Effective length of database: 854
Effective search space:   387716
Effective search space used:   387716
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= MSMg01no409_f09.g1 MSMg01no409_f09.g1 CHROMAT_FILE:
MSMg01no409_f09.g1 PHD_FILE: MSMg01no409_f09.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:25:40 2005
         (376 letters)



>mm_chr3_13038441_13039216
          Length = 776

 Score =  634 bits (328), Expect = 0.0
 Identities = 364/376 (96%)
 Strand = Plus / Minus

                                                                       
Query: 1   ccaagaagtatttactgctaagacaaaggatccttatgttacataaaaaacacaattaca 60
           ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 576 ccaagaagtatttactgctaagacaaaagatccttatgttacataaaaaacacaattaca 517

                                                                       
Query: 61  ataactaaaatgggtaagattttggttttgtagcctttcattgcatatgaaataaaaatt 120
           |||||||||||||||||||||||||||||||| |||||  |||||||| |||||||||||
Sbjct: 516 ataactaaaatgggtaagattttggttttgtatccttttgttgcatataaaataaaaatt 457

                                                                       
Query: 121 taaaaaatgtgtagactgaagtgtttgccatatggctggttaggcacatttaatatgtat 180
           |   ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 456 ttttaaatgtgtagactgaagtgtttgccatatggctggttaggcacatttaatatgtat 397

                                                                       
Query: 181 atattatgtaactatctttgttattaatctttgcccgtggtttactcatttacacattta 240
           ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 396 atattatgtaactatctttgttattaatctttgcctgtggtttactcatttacacattta 337

                                                                       
Query: 241 aagtccagtcatggcctcctcacacactattcaaaagcattgctgtgtagacttacatac 300
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 336 aagtccagtcatgtcctcctcacacactattcaaaagcattgctgtgtagacttacatac 277

                                                                       
Query: 301 ctcattatatatttatttagaagaagcacttcctgtaaagtcttactttccaagttccaa 360
           ||||||||||||||||||||||| |||||||||||||||||||||| |||||||||||||
Sbjct: 276 ctcattatatatttatttagaaggagcacttcctgtaaagtcttaccttccaagttccaa 217

                           
Query: 361 catgattgaaatataa 376
           ||||||||||||||||
Sbjct: 216 catgattgaaatataa 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: 16
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: 376
Length of database: 776
Length adjustment: 9
Effective length of query: 367
Effective length of database: 767
Effective search space:   281489
Effective search space used:   281489
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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