BAC Information

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BAC

Clone NameMSMg01-378J17
Chromosome3 (Build37)
Map Location 49,549,074 - 49,689,741
singlet/doubletdoublet
Overlap genePcdh18
Upstream geneEG666230, 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 nameMSMg01-378J17.T7 (MSMg01no378_j17.b1)MSMg01-378J17.TJ (MSMg01no378_j17.g1)
ACCAG483414AG483415
length770768
length of high quality
(start - end)		503 (50 - 552)512 (79 - 590)
definitionCHROMAT_FILE: MSMg01no378_j17.b1 PHD_FILE: MSMg01no378_j17.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:19:08 2005CHROMAT_FILE: MSMg01no378_j17.g1 PHD_FILE: MSMg01no378_j17.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:19:08 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(49,549,074 - 49,549,573)(49,689,230 - 49,689,741)
sequence
NNNTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCTTCTCCGGTGATGAACATGTTGCTTCTGTAGTCAGAGGATG
GCGAGGGCAGCGGGGGCATCCAGCACTGGTCAGAGTGGCCCAGGACTCTG
CACTCCTCCGTACATAGCCTCATTGCTGAGAACAAACAAAGCAAGGAGAG
TCCGTTATTAAACAAGGCATCATCCATAGCAATGGGAAATGTCATCTTAT
TCTTAAGGTAGAAAGAGGTTTTGTGCTAGAATCATAATGTTAATCTGTTG
TTAGGCACATTAGATAGGCTACGGTTATATGTTTCAGTTGTATGTTGGCT
CTCTGGACCAGATGTCATGTTTGTGCTATAGTCTTCCGTTTAATAAAAGA
AAGCGAATAATCATTTTTAGTGGTCAATAGTAAATTTCAGAAATATAATA
CGGAGTTCATTATTTATATGTGAACATGTCCAAACAAAGCTAAGGCTTAG
GTAATCCAACAAACGATGAACATAAACTGTACAACAGCAACAGCTGGAAA
TAGAGCTGAGGGCGAGCTCTTCAATTCTGAATATACCANGGCATCTCTGT
AAAGAATTTTTTGCTGTCTTGAAATAAAGAATTGGGCTGCACTGGAAACT
CAGTTCTCTGGGTAAAGCCCTAAAATTTCTTCCAACCTCCTTCCTCCCTC
CTTCCTCCTTCCTACTTCATACNTCCTTCCTTCTTCCTCCCCCCCCCCCC
CCCCTTCGGTTGGGGGGCCC

NNCCGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTTCAGACCATACAAAGATCA
GTGCTAAAAAAGAAAAAACTCTCAGTGCTAACTGCATAATGTCATGCTAC
TCTGGCAGGGCTATTTATCCCAGGCAAACATGTATCTATAGCTAAGGACC
TGCCATAAAAATAACAAATAGGAAGACAAGAAAGTAATTCCACTTTGCAA
CTTCCCAGGGGGAACTAAAAATATATCCATCAAATGAAGTCATATTCCTA
AAAGCCAAAGAAAGCACCTGCCAAGACTATTGAACAAGACTCTGTCCTTA
TGTTCTAGGACGATAGAAAAACCACACAGTTCCCACATATAAAAGTTGTT
GCTGCTGTCCTGTGACTGCTGAGACATAAGATGACATAGACATCTTAGAA
ACAAGCCCAACTCTACCAAGAGCTGCTATGTTTTCTTTGTTTTTTTTTCC
CTTTTTAAAAAATTATATAAAGAACTCAAGAAGGTGGACTCCAAAAAAAT
CAAATAACCCCATTAAAAATGGGGCTCAGAGCTAAACAAAGAATTCTCAC
CTGAGGAATACCGAATGGCTGAGAAGCACCTGAAAAAATGTCAGCATCCT
TAATTCAGGAAATGCAAATCAAAACACCCCTGAGAATTCATCTCCACCAC
TCCAAATGGCTAAGATCAAAAATTCCGTGACACCCAATGCTGATGGAGAA
GTGGAGAAAAAAGAAAAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no378_j17.b1 MSMg01no378_j17.b1 CHROMAT_FILE:
MSMg01no378_j17.b1 PHD_FILE: MSMg01no378_j17.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:19:08 2005
         (503 letters)



>mm_chr3_49548871_49549773
          Length = 903

 Score =  959 bits (496), Expect = 0.0
 Identities = 499/500 (99%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattcttctccggtgatgaacatgttgcttctgtagtcagaggatggcgagggcagcg 63
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 ggaattcttctccggggatgaacatgttgcttctgtagtcagaggatggcgagggcagcg 263

                                                                       
Query: 64  ggggcatccagcactggtcagagtggcccaggactctgcactcctccgtacatagcctca 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 ggggcatccagcactggtcagagtggcccaggactctgcactcctccgtacatagcctca 323

                                                                       
Query: 124 ttgctgagaacaaacaaagcaaggagagtccgttattaaacaaggcatcatccatagcaa 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 ttgctgagaacaaacaaagcaaggagagtccgttattaaacaaggcatcatccatagcaa 383

                                                                       
Query: 184 tgggaaatgtcatcttattcttaaggtagaaagaggttttgtgctagaatcataatgtta 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 tgggaaatgtcatcttattcttaaggtagaaagaggttttgtgctagaatcataatgtta 443

                                                                       
Query: 244 atctgttgttaggcacattagataggctacggttatatgtttcagttgtatgttggctct 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 atctgttgttaggcacattagataggctacggttatatgtttcagttgtatgttggctct 503

                                                                       
Query: 304 ctggaccagatgtcatgtttgtgctatagtcttccgtttaataaaagaaagcgaataatc 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 ctggaccagatgtcatgtttgtgctatagtcttccgtttaataaaagaaagcgaataatc 563

                                                                       
Query: 364 atttttagtggtcaatagtaaatttcagaaatataatacggagttcattatttatatgtg 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 564 atttttagtggtcaatagtaaatttcagaaatataatacggagttcattatttatatgtg 623

                                                                       
Query: 424 aacatgtccaaacaaagctaaggcttaggtaatccaacaaacgatgaacataaactgtac 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 624 aacatgtccaaacaaagctaaggcttaggtaatccaacaaacgatgaacataaactgtac 683

                               
Query: 484 aacagcaacagctggaaata 503
           ||||||||||||||||||||
Sbjct: 684 aacagcaacagctggaaata 703


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: 26
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: 503
Length of database: 903
Length adjustment: 10
Effective length of query: 493
Effective length of database: 893
Effective search space:   440249
Effective search space used:   440249
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= MSMg01no378_j17.g1 MSMg01no378_j17.g1 CHROMAT_FILE:
MSMg01no378_j17.g1 PHD_FILE: MSMg01no378_j17.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:19:08 2005
         (512 letters)



>mm_chr3_49689107_49690018
          Length = 912

 Score =  990 bits (512), Expect = 0.0
 Identities = 512/512 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttttcagaccatacaaagatcagtgctaaaaaagaaaaaactctcagtgctaactgcata 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 635 ttttcagaccatacaaagatcagtgctaaaaaagaaaaaactctcagtgctaactgcata 576

                                                                       
Query: 61  atgtcatgctactctggcagggctatttatcccaggcaaacatgtatctatagctaagga 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 575 atgtcatgctactctggcagggctatttatcccaggcaaacatgtatctatagctaagga 516

                                                                       
Query: 121 cctgccataaaaataacaaataggaagacaagaaagtaattccactttgcaacttcccag 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 515 cctgccataaaaataacaaataggaagacaagaaagtaattccactttgcaacttcccag 456

                                                                       
Query: 181 ggggaactaaaaatatatccatcaaatgaagtcatattcctaaaagccaaagaaagcacc 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 455 ggggaactaaaaatatatccatcaaatgaagtcatattcctaaaagccaaagaaagcacc 396

                                                                       
Query: 241 tgccaagactattgaacaagactctgtccttatgttctaggacgatagaaaaaccacaca 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 395 tgccaagactattgaacaagactctgtccttatgttctaggacgatagaaaaaccacaca 336

                                                                       
Query: 301 gttcccacatataaaagttgttgctgctgtcctgtgactgctgagacataagatgacata 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 335 gttcccacatataaaagttgttgctgctgtcctgtgactgctgagacataagatgacata 276

                                                                       
Query: 361 gacatcttagaaacaagcccaactctaccaagagctgctatgttttctttgttttttttt 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275 gacatcttagaaacaagcccaactctaccaagagctgctatgttttctttgttttttttt 216

                                                                       
Query: 421 ccctttttaaaaaattatataaagaactcaagaaggtggactccaaaaaaatcaaataac 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 215 ccctttttaaaaaattatataaagaactcaagaaggtggactccaaaaaaatcaaataac 156

                                           
Query: 481 cccattaaaaatggggctcagagctaaacaaa 512
           ||||||||||||||||||||||||||||||||
Sbjct: 155 cccattaaaaatggggctcagagctaaacaaa 124


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: 26
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: 512
Length of database: 912
Length adjustment: 10
Effective length of query: 502
Effective length of database: 902
Effective search space:   452804
Effective search space used:   452804
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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