BAC Information

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BAC

Clone NameMSMg01-135N04
Chromosome3 (Build37)
Map Location 49,510,545 - 49,647,474
singlet/doubletdoublet
Overlap genePcdh18
Upstream geneLOC100039404, EG666230, 4932443G14, LOC545519, LOC676568, LOC666247, LOC100039579, LOC100039587, LOC638779
Downstream geneLOC100039628, LOC639469, Slc7a11, EG621304, LOC100039667
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-135N04.T7 (MSMg01no135_n04.b1)MSMg01-135N04.TJ (MSMg01no135_n04.g1)
ACCAG342183AG342184
length704698
length of high quality
(start - end)		662 (43 - 704)626 (70 - 695)
definitionCHROMAT_FILE: MSMg01no135_n04.b1 PHD_FILE: MSMg01no135_n04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:52:02 2005CHROMAT_FILE: MSMg01no135_n04.g1 PHD_FILE: MSMg01no135_n04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:52:02 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(49,646,906 - 49,647,474)(49,510,545 - 49,511,170)
sequence
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAAT
TCTCCCTTCATACGCATGGAGCAAGTGACATGGAAAAACAGGGAAACTGA
GGGGTAGGGGTCCATTGAGCATTAATAGCCCACTTTGAATAAGCTGATAA
AATAATGTCATATGAATGGACAGTGGGAAAATTTAAGAAAGCTTGGAAAT
ATTAAAAAAACAAAAAATATCGATATTGCAAATTTCAAAAGATGTTGAAG
CTCAATAAGAAGAGAAAACAAAGTAGGAGTTATAAATAAATAACATAAAT
AAAATAATATATATGTAAGTAGGTAAAGAAATAAAGACATTTAGGAGTTA
GAGTTAAATGGGATTCAGTCATCTGGATATGTGGGATATCTGATCAAGCT
CCGATTGAATAGATTTCTCACAGGATGCTCAGAACATCAGGCAAAGTGGG
ACTCAGTGTGATGTTATAACAGGAAATGAAGACCCTGGAGATTCTACAGA
ATGTAAATATGGAAAGAGGCCAATTTTCTGGCTTGCTCAGACACTGAGCA
AAAACTCGGCTCATGAGTAAAAGAACAAACTCTACTTAGGAAGTAGAAAT
CAAGGAAATGTCAAAAACCATGATTTTCAAAGACAAAGAGACTAGGGAAG
GATAACAACCAGTACGGCTTGTTTATGCCAGATTGTATTACTATCAAAAT
TCAA

TGAAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXTTCATTCTCTGTCAATATTCCAGACCCCAAA
GAGCACGCACTGCCTCCTACTCTGCTAACAGCCTTTCCCAATTCTATTCA
TTCACTAACAGTGTTGAACAAATAGAGCAGCCTTCTTTCTTATGTATATG
GGCCTGAGCTCATTTCAAAAGCAGGTTACTTGGCTCAGGTCTGAAAGACG
TCTATGATCTATAGTACTGCTGTATAATTACTTCACTGCATAGAGAAGTT
TTTTAAATATTTTTCTATAAAGTTATCACCTCATTAAGCTAGGTATTTAT
GCCTTTTCTTTCCATTTAATCCCTTTTATTAGACTACTCAATTTCTAGGA
GAAATATTATCATCTGACTTGAAAATACATATGTATTCCTCAGGCTGTTT
TATTTCTTAACTTTGCATTATATTTTTAATATGCTCTGCTGAATTATGTT
ACCCTATAACAACTATAGAAAGCTCTTCTTTAAGGGGTGTTATTAGGAAG
TTTTCTTAGTTTCTGCTTTAAGTTGGCCCGAGAGATACATTTTCCAAGTC
CTGTCTGAAGCAAACAATATTATTAGAACAATTTTCTAATCTCCTTTTTT
TTCCTAAAGGTTAATAGTCTAGTTTCTGAAATAACCACTTAGAAAATG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no135_n04.b1 MSMg01no135_n04.b1 CHROMAT_FILE:
MSMg01no135_n04.b1 PHD_FILE: MSMg01no135_n04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:52:02 2005
         (662 letters)



>mm_chr3_49646413_49647474
          Length = 1062

 Score = 1100 bits (569), Expect = 0.0
 Identities = 569/569 (100%)
 Strand = Plus / Minus

                                                                        
Query: 93   ttgaataagctgataaaataatgtcatatgaatggacagtgggaaaatttaagaaagctt 152
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1062 ttgaataagctgataaaataatgtcatatgaatggacagtgggaaaatttaagaaagctt 1003

                                                                        
Query: 153  ggaaatattaaaaaaacaaaaaatatcgatattgcaaatttcaaaagatgttgaagctca 212
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1002 ggaaatattaaaaaaacaaaaaatatcgatattgcaaatttcaaaagatgttgaagctca 943

                                                                        
Query: 213  ataagaagagaaaacaaagtaggagttataaataaataacataaataaaataatatatat 272
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 942  ataagaagagaaaacaaagtaggagttataaataaataacataaataaaataatatatat 883

                                                                        
Query: 273  gtaagtaggtaaagaaataaagacatttaggagttagagttaaatgggattcagtcatct 332
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 882  gtaagtaggtaaagaaataaagacatttaggagttagagttaaatgggattcagtcatct 823

                                                                        
Query: 333  ggatatgtgggatatctgatcaagctccgattgaatagatttctcacaggatgctcagaa 392
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 822  ggatatgtgggatatctgatcaagctccgattgaatagatttctcacaggatgctcagaa 763

                                                                        
Query: 393  catcaggcaaagtgggactcagtgtgatgttataacaggaaatgaagaccctggagattc 452
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 762  catcaggcaaagtgggactcagtgtgatgttataacaggaaatgaagaccctggagattc 703

                                                                        
Query: 453  tacagaatgtaaatatggaaagaggccaattttctggcttgctcagacactgagcaaaaa 512
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 702  tacagaatgtaaatatggaaagaggccaattttctggcttgctcagacactgagcaaaaa 643

                                                                        
Query: 513  ctcggctcatgagtaaaagaacaaactctacttaggaagtagaaatcaaggaaatgtcaa 572
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 642  ctcggctcatgagtaaaagaacaaactctacttaggaagtagaaatcaaggaaatgtcaa 583

                                                                        
Query: 573  aaaccatgattttcaaagacaaagagactagggaaggataacaaccagtacggcttgttt 632
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 582  aaaccatgattttcaaagacaaagagactagggaaggataacaaccagtacggcttgttt 523

                                         
Query: 633  atgccagattgtattactatcaaaattca 661
            |||||||||||||||||||||||||||||
Sbjct: 522  atgccagattgtattactatcaaaattca 494


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: 37
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: 662
Length of database: 1062
Length adjustment: 10
Effective length of query: 652
Effective length of database: 1052
Effective search space:   685904
Effective search space used:   685904
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= MSMg01no135_n04.g1 MSMg01no135_n04.g1 CHROMAT_FILE:
MSMg01no135_n04.g1 PHD_FILE: MSMg01no135_n04.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:52:02 2005
         (626 letters)



>mm_chr3_49510345_49511370
          Length = 1026

 Score = 1203 bits (622), Expect = 0.0
 Identities = 625/626 (99%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 181 gtctatgatctatagtactgctgtataattacttcactgcatagagaagttttttaaata 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 381 gtctatgatctatagtactgctgtataattacttcactgcatagagaagtttttttaata 440

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

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

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

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

                                                                       
Query: 481 gttttcttagtttctgctttaagttggcccgagagatacattttccaagtcctgtctgaa 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 gttttcttagtttctgctttaagttggcccgagagatacattttccaagtcctgtctgaa 740

                                                                       
Query: 541 gcaaacaatattattagaacaattttctaatctccttttttttcctaaaggttaatagtc 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 gcaaacaatattattagaacaattttctaatctccttttttttcctaaaggttaatagtc 800

                                     
Query: 601 tagtttctgaaataaccacttagaaa 626
           ||||||||||||||||||||||||||
Sbjct: 801 tagtttctgaaataaccacttagaaa 826


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: 30
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: 626
Length of database: 1026
Length adjustment: 10
Effective length of query: 616
Effective length of database: 1016
Effective search space:   625856
Effective search space used:   625856
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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