BAC Information

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BAC

Clone NameMSMg01-415J07
Chromosome3 (Build37)
Map Location 25,715,901 - 25,887,596
singlet/doubletdoublet
Overlap geneNlgn1
Upstream geneLOC100039592, LOC621017
Downstream geneLOC229152, Spata16
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-415J07.T7 (MSMg01no415_j07.b1)MSMg01-415J07.TJ (MSMg01no415_j07.g1)
ACCAG511606AG511607
length714731
length of high quality
(start - end)		569 (41 - 609)494 (72 - 565)
definitionCHROMAT_FILE: MSMg01no415_j07.b1 PHD_FILE: MSMg01no415_j07.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:34:00 2005CHROMAT_FILE: MSMg01no415_j07.g1 PHD_FILE: MSMg01no415_j07.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:34:00 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(25,887,032 - 25,887,596)(25,715,901 - 25,716,394)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTC
TTAGTTTACGCTTCTCAGTTCAGTGTGCCTTGACTAAGGATGGTTCAGCT
CATTCGTTCCAGACAGCAGCTAGTCCAGATAGAAAGGGGCCTGTTTTCTC
TTTATTTATTGATCTTTGACAGCGACTGATTAGAATCATGGACTGTTGGT
TCAAATAGACTTCCATGAAACTAAAATCAGATGCATTTACTTCACAGATG
GGCAAACTAAAAATGGCTTGAAATGTAGTCCCTTATCCAAGAGCAGATTT
GTGATTTGCGCTCTTTACACTGAGTTTACTCAGAACTAGCTAGATGGTGA
ATGCTTTCTGAATGGTTGACTCTATAAGACAGTGGATTATGAAGGTGTTT
AAAAAGAATTTCTCTCTGAAGACTGATAGCTTGATTTTGTAAGTTTTAAC
CAAGAGAAGGTTTATGCCTATTCATTAAAAACTGAACTTGAGCTATGGGA
ACCCACATGAAAAACTGTTTTCCCTCTTCAGATAAGTTTAAACTATAAAT
AGTATTTTTCACCCCCATATAGAGTTGGCCCTTGTTCCCAAATATCTGTG
ACTTAATGCTAATACACTCTCCTCCACTTATGGGTTCCAGGCCCCTAAAT
TCTTGCTCACCCCTGCCTCCTGCGTGCTGGTTCCCTACTCTTTCCACCGT
GACTAAACCACTTT

ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXCACAGCATTTCAGCACCAATTTTCACACA
AAAAGTTAAGCCCTCTGTGTAAATTCAGTTAATTTCCCAATAAAGTTTCT
AAAATAAAATGATCAAATCAGAATATGTAGAACACTAGGAAAAGGGACAT
GAGTATTTCACAGTCCATTTGCACACAAGAGAATGGTTTGTGACTTATAC
AGAATTTGGAGATGAGGATAATATGTATCTAAGTTTTACATACAGAATAC
AAATACCGAACAAGCTTATTAAGAAATGCTTTTTTAGGAGACAATGAATA
GTTAGGATTAAGTCCTAAATGAGACTACAAACAAGTTAAGCAAGATTCCA
TATTATTTGAATGTAATTCAAAATAGATACATGCCAAGATGTTGAAATAA
AACATATTTTTAAAACCTCACAAAAATGTCCAGAGGGAAATATGTTCTTT
CAAGCATTCTCTTTATATATATTTCTATACTTTTTAAGCTATGGATTTTA
GAAAAATCTATGTGTTGACCACATAGAGCACATGTATATACTATTAAGAG
CACAGGAATGTGCTCTACTGGAGAGAGAGGACAGATAGACATATACATAT
ATATATAGATACCTAGCTACCCATCCTTCCCTTTTCTTCCTTCTTTCTCT
CTCCCCTCCTCTTCCTGTTTTTATATCCCCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no415_j07.b1 MSMg01no415_j07.b1 CHROMAT_FILE:
MSMg01no415_j07.b1 PHD_FILE: MSMg01no415_j07.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:34:00 2005
         (569 letters)



>mm_chr3_25886829_25887797
          Length = 969

 Score = 1023 bits (529), Expect = 0.0
 Identities = 556/565 (98%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattcttagtttacgcttctcagttcagtgtgccttgactaaggatggttcagctcat 63
           |||||||||||  || ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 768 ggaattcttaggctaggcttctcagttcagtgtgccttgactaaggatggttcagctcat 709

                                                                       
Query: 64  tcgttccagacagcagctagtccagatagaaaggggcctgttttctctttatttattgat 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 708 tcgttccagacagcagctagtccagatagaaaggggcctgttttctctttatttattgat 649

                                                                       
Query: 124 ctttgacagcgactgattagaatcatggactgttggttcaaatagacttccatgaaacta 183
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 648 ctttgacagagactgattagaatcatggactgttggttcaaatagacttccatgaaacta 589

                                                                       
Query: 184 aaatcagatgcatttacttcacagatgggcaaactaaaaatggcttgaaatgtagtccct 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 588 aaatcagatgcatttacttcacagatgggcaaactaaaaatggcttgaaatgtagtccct 529

                                                                       
Query: 244 tatccaagagcagatttgtgatttgcgctctttacactgagtttactcagaactagctag 303
           ||||||||||||||||||||||||||||||   |||||||||||||||||||||||||||
Sbjct: 528 tatccaagagcagatttgtgatttgcgctcaggacactgagtttactcagaactagctag 469

                                                                       
Query: 304 atggtgaatgctttctgaatggttgactctataagacagtggattatgaaggtgtttaaa 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 468 atggtgaatgctttctgaatggttgactctataagacagtggattatgaaggtgtttaaa 409

                                                                       
Query: 364 aagaatttctctctgaagactgatagcttgattttgtaagttttaaccaagagaaggttt 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 408 aagaatttctctctgaagactgatagcttgattttgtaagttttaaccaagagaaggttt 349

                                                                       
Query: 424 atgcctattcattaaaaactgaacttgagctatgggaacccacatgaaaaactgttttcc 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 348 atgcctattcattaaaaactgaacttgagctatgggaacccacatgaaaaactgttttcc 289

                                                                       
Query: 484 ctcttcagataagtttaaactataaatagtatttttcacccccatatagagttggccctt 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 288 ctcttcagataagtttaaactataaatagtatttttcacccccatatagagttggtcctt 229

                                    
Query: 544 gttcccaaatatctgtgacttaatg 568
           |||||| ||||||||||||||||||
Sbjct: 228 gttccctaatatctgtgacttaatg 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: 28
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: 569
Length of database: 969
Length adjustment: 10
Effective length of query: 559
Effective length of database: 959
Effective search space:   536081
Effective search space used:   536081
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= MSMg01no415_j07.g1 MSMg01no415_j07.g1 CHROMAT_FILE:
MSMg01no415_j07.g1 PHD_FILE: MSMg01no415_j07.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:34:00 2005
         (494 letters)



>mm_chr3_25715701_25716594
          Length = 894

 Score =  924 bits (478), Expect = 0.0
 Identities = 490/494 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  atttcccaataaagtttctaaaataaaatgatcaaatcagaatatgtagaacactaggaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 atttcccaataaagtttctaaaataaaatgatcaaatcagaatatgtagaacactaggaa 320

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

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

                                                                       
Query: 241 aagcttattaagaaatgcttttttaggagacaatgaatagttaggattaagtcctaaatg 300
           ||||  ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 aagcaaattaagaaatgcttttttaggagacaatgaatagttaggattaagtcctaaatg 500

                                                                       
Query: 301 agactacaaacaagttaagcaagattccatattatttgaatgtaattcaaaatagataca 360
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 501 agactacaaacaagttaagcaagattccatattatttgaatctaattcaaaatagataca 560

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

                                                                       
Query: 421 atgttctttcaagcattctctttatatatatttctatactttttaagctatggattttag 480
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 621 atgttctttcaagcattctctttatatatatttctatactttttaagttatggattttag 680

                         
Query: 481 aaaaatctatgtgt 494
           ||||||||||||||
Sbjct: 681 aaaaatctatgtgt 694


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: 23
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: 494
Length of database: 894
Length adjustment: 10
Effective length of query: 484
Effective length of database: 884
Effective search space:   427856
Effective search space used:   427856
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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