BAC Information

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BAC

Clone NameMSMg01-366I04
Chromosome13 (Build37)
Map Location 46,878,217 - 47,021,673
singlet/doubletdoublet
Overlap geneKif13a
Upstream geneAtxn1, 5033430I15Rik, ENSMUSG00000062282, Gm1574, Rbm24, Cap2, C78339, Nup153
Downstream geneLOC544928, Nhlrc1, Tpmt, Aof1, Dek, LOC100039761, Ibrdc2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-366I04.T7 (MSMg01no366_i04.b1)MSMg01-366I04.TJ (MSMg01no366_i04.g1)
ACCAG474206AG474207
length756751
length of high quality
(start - end)		560 (51 - 610)528 (81 - 608)
definitionCHROMAT_FILE: MSMg01no366_i04.b1 PHD_FILE: MSMg01no366_i04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:03:23 2005CHROMAT_FILE: MSMg01no366_i04.g1 PHD_FILE: MSMg01no366_i04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:03:23 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(47,021,209 - 47,021,673)(46,878,217 - 46,878,744)
sequence
NGGGGCTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCCTGTCGGTTCCCGGCTTGACCAAGGGAACCGAAGACAACT
GCAAATCGGCAGTTATGCCAGAGGCCCTCGCCTTGGAGAGCTGTGGGAAG
GAAGAGGAAAAATATTTTCAACGCTCTGTGGTAATCGCAGAGGTGTGTGC
TTGGCCTTTGTGTACACTGTATCATTTGTAAATCTCCCACTTCTGTCTTG
CTGGAGACTGTGCACTCCCTGAATGAAGCCAGGTACCTTGTGTTGATTCC
CCTTGTGCCCGAGGCCCCATACAGCGCCTGGCGCATAACAGCTGCCATAT
GACGAGAACACAAGGAGCTATAGCTGCCACCCACGGTGCAGGTGCGGAGG
CAGCTGGCTGGCATCGGGCTGCTCGTATATAGGCTCACTTTGCAAGGGTG
AGGTCAAAGTCCTTTATTAAGGGAGGTGGAAACATTGCTGCCACAGATCA
CTTCCGGGCAGTTCTCTGTGGCGGAATGTGCGGTGAGGAGTGGGACATGC
TGATGCAGCAGTTTACCTTCGGCACAGATTGAATGAGAATCCCGTCTGCC
ATATGTGTGGGGTGTGTCGTGCTGTATGCCATGCATAGTCGTCTTCTCAA
CCCTGCTGGCAGCATCCCTCCCCTCCCTGTTCTCTTTTCCTTCCTGATTT
TGTNNCCCTTAATTGGATTTTATGAGAAAAGGGCTTACGCAGCTCATATT
ATTTTT

NNTTCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAATGTGTAGACCAGGCCAGC
CTTGAATTTACATGAGAAATCTGAATACTTCTGCTCTCCAGAGGTGTACA
CCACTATGCCCAGCTCCCTCCACCATCCCCACCCTAAATCAGTTTTAACT
CAACAGGTAAAGCTATTTTAAAAAAACTATAAACAAGGGCTAGAGACATG
GCTCAGTGGTTGAGAATACTGGTTGTTCTTCCAGAGGACCCAGGTTTGAT
TCCCAGCACTCAAAAGGTGATTCAAGAATCTTTTTCTGGCTTCCACGGGC
ACCAGGCACACCATGCTGCACAGACATACACATAATCAGAACACCCATAC
ACATAATGTGAAATAATAACAAATTTAAAAACTGCAAAGAATTCTTATAA
AACTCTCGAAATCGGGACTGTTTAGCAAAGCTGATGATTTTCTTTGTGGA
AGTCAAACTTAAGTTACCTGAACTCCATGTTTTATCTGACACTGGAGGTG
GACAGAGCCACAGTTTTATTGCAGGAAGAAACTCTGAGAATTAGAGTCTA
CTTCATCATTTTAGATGAGGAAGAATTCGGTGTTTAAGTGAACCAGAAGT
GGATGGAGGACCTGGGTCTCCTGACTCTGAGTCTTGTGCTCACCCCAACT
ACCCACTCCTGTGGCCACTCTAAGAGTCCTTGGCTCTGCTAAGGACTGGC
T
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no366_i04.b1 MSMg01no366_i04.b1 CHROMAT_FILE:
MSMg01no366_i04.b1 PHD_FILE: MSMg01no366_i04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:03:23 2005
         (560 letters)



>mm_chr13_47020714_47021673
          Length = 960

 Score =  868 bits (449), Expect = 0.0
 Identities = 461/465 (99%)
 Strand = Plus / Minus

                                                                       
Query: 96  ggaaggaagaggaaaaatattttcaacgctctgtggtaatcgcagaggtgtgtgcttggc 155
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 960 ggaaggaagaggaaaaatattttcaacgctctgtggtaatcgcagaggtgtgtgcttggc 901

                                                                       
Query: 156 ctttgtgtacactgtatcatttgtaaatctcccacttctgtcttgctggagactgtgcac 215
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 900 ctttgtgtacactgtatcatttgtaaatctcccacttctgtcttgctggagactgtgtac 841

                                                                       
Query: 216 tccctgaatgaagccaggtaccttgtgttgattccccttgtgcccgaggccccatacagc 275
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 840 tccctgaatgaagccaggtaccttgtgttgattccccttgtgcccgaggccccatacagc 781

                                                                       
Query: 276 gcctggcgcataacagctgccatatgacgagaacacaaggagctatagctgccacccacg 335
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 780 gcctggcgcataacagctgccatatgacgagaacacaaggagctatagctgccacccacg 721

                                                                       
Query: 336 gtgcaggtgcggaggcagctggctggcatcgggctgctcgtatataggctcactttgcaa 395
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 720 gtgcaggtgcggaggcagctggctggcatcgggctgctcgtatataggctcactttgcaa 661

                                                                       
Query: 396 gggtgaggtcaaagtcctttattaagggaggtggaaacattgctgccacagatcacttcc 455
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 660 gggtgaggtcaaagtcctttattaagggaggtggaaacattgctgccacagatcacttcc 601

                                                                       
Query: 456 gggcagttctctgtggcggaatgtgcggtgaggagtgggacatgctgatgcagcagttta 515
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 600 gggcagttctctgtggcggaatgtgcggtgaggagtgggacatgctgacgcagcagttta 541

                                                        
Query: 516 ccttcggcacagattgaatgagaatcccgtctgccatatgtgtgg 560
           |||| ||| ||||||||||||||||||||||||||||||||||||
Sbjct: 540 ccttgggcgcagattgaatgagaatcccgtctgccatatgtgtgg 496


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: 22
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: 560
Length of database: 960
Length adjustment: 10
Effective length of query: 550
Effective length of database: 950
Effective search space:   522500
Effective search space used:   522500
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= MSMg01no366_i04.g1 MSMg01no366_i04.g1 CHROMAT_FILE:
MSMg01no366_i04.g1 PHD_FILE: MSMg01no366_i04.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:03:23 2005
         (528 letters)



>mm_chr13_46878017_46878944
          Length = 928

 Score = 1021 bits (528), Expect = 0.0
 Identities = 528/528 (100%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 ttcaagaatctttttctggcttccacgggcaccaggcacaccatgctgcacagacataca 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ttcaagaatctttttctggcttccacgggcaccaggcacaccatgctgcacagacataca 500

                                                                       
Query: 301 cataatcagaacacccatacacataatgtgaaataataacaaatttaaaaactgcaaaga 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 cataatcagaacacccatacacataatgtgaaataataacaaatttaaaaactgcaaaga 560

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

                                                                       
Query: 421 agtcaaacttaagttacctgaactccatgttttatctgacactggaggtggacagagcca 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 agtcaaacttaagttacctgaactccatgttttatctgacactggaggtggacagagcca 680

                                                           
Query: 481 cagttttattgcaggaagaaactctgagaattagagtctacttcatca 528
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 cagttttattgcaggaagaaactctgagaattagagtctacttcatca 728


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: 27
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: 528
Length of database: 928
Length adjustment: 10
Effective length of query: 518
Effective length of database: 918
Effective search space:   475524
Effective search space used:   475524
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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