BAC Information

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BAC

Clone NameMSMg01-178L01
Chromosome14 (Build37)
Map Location 93,919,825 - 94,061,327
singlet/doubletdoublet
Overlap genePcdh9
Upstream geneLOC638252, LOC668566
Downstream geneLOC100043356
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-178L01.T7 (MSMg01no178_l01.b1)MSMg01-178L01.TJ (MSMg01no178_l01.g1)
ACCAG372699AG372700
length731732
length of high quality
(start - end)		675 (45 - 719)560 (75 - 634)
definitionCHROMAT_FILE: MSMg01no178_l01.b1 PHD_FILE: MSMg01no178_l01.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:51:32 2005CHROMAT_FILE: MSMg01no178_l01.g1 PHD_FILE: MSMg01no178_l01.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:51:32 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(93,919,825 - 93,920,495)(94,060,820 - 94,061,327)
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTGAGGAGTATTTTTGGGAGCACAATGTCATAAATCGTTCAGTTCTA
TTTTCCCAGCACATAACTGGAATCTAGGCGACAGCACATAATTGGAAAGT
TCTCTTTAACTGCTTTCTAAGGTATTTTCAGTTTTGTTTGTCTCCAGTCA
ATTTAAATATAACCCTTAATAGGTTTGGTCGAAAACCATTTTATTTACTC
CTATCACACAGATAAAATATCCAAATTCTTTAACATGGTGGACAAGGTTC
CATCCTGAGCCTTCCACATCTATCTCTGCCAGGTTGACTGAGAGCCCCAT
TGGGTAGCTCTGGGTTGACTTACATTAATCCAACAAATGCAGGCATCTGC
TTGACCTCTTTATACAACCAACTCCCTTTCCTTCCCTCCTCATCCCCCCT
GAGTCTTCTTTCCCTTCATCTTTTACTGCTTTTCTCTATTTGTTTACTCT
TTTATAAGAACCTGGTTTCAAACTAACTATGTCCTTGTATTTGCCCTGCT
ACTTGTAGCTCACGATCCTACACGAGACAGAGCCTATCACGTCTTCTGGG
TATTTTCAGAGCCATTTATTGTCTTCTGTTTTAATAATTCTGTGCGCTGT
AATTGCTTGTTTACACGTCTGCCTTCCTGATTAGGTAACAGCTTTCCGTA
CCTCTATTGATTTTTGTTCCATAGTGCTTAA

CCATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXATGGTTTCATGTAAGCCTTCTGAAAA
CTTAGTTACACTACAGGTTTTATTTATGCTTTACTTTAAAATTTTTAAAT
CAGAACATAGGATAAAGATTAGAAAGTTATTTGTTTTAACTTGGAAATAT
TCTTTTAAAATATAGTATAAAATTTAAAAATACACCTGTTATCAAGGACT
GATCTTTAAATAATGTATGCTTTCCATATGTGCATGTATAATGCATATAT
GTATGTGTATATGTATGCATGTATATATACAGTTGTGATTATGTCTCATA
AGTGAAGAAAGTTTGTTTGGGAGCATATGGAAGAGCCTGGTATGTGTCAG
GATGCTGTTAAGATATCATAAACTGATGGATGCTGTACTGAAATCATGCC
TCACTCTATGTGATTTCTGAAATTCATGTTAAACACAATATAGGCCTCAT
GAGTGCATAGGCACATGCAACAGCCCAATGTGGGTGGCTGCAAAGGGAAA
GGCCAGATAGATAGTCCAATGGTCAATGTTCAGATTCATGTGTCATGCTC
CAAAACAATTCTGAATATATTCAAGTGGAGTCAAGAATAAATTAATAAGC
CCAGCAATTAAAAGTGGTGTCAGAGAGAAAACACAGGACCAAAAAGAAGT
TCACAGATGATTAAGTGGTTTCTTATGAAGGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no178_l01.b1 MSMg01no178_l01.b1 CHROMAT_FILE:
MSMg01no178_l01.b1 PHD_FILE: MSMg01no178_l01.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:51:32 2005
         (675 letters)



>mm_chr14_93919621_93920695
          Length = 1075

 Score = 1297 bits (671), Expect = 0.0
 Identities = 671/671 (100%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattctgaggagtatttttgggagcacaatgtcataaatcgttcagttctattttccca 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattctgaggagtatttttgggagcacaatgtcataaatcgttcagttctattttccca 264

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

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

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

                                                                       
Query: 245 tggacaaggttccatcctgagccttccacatctatctctgccaggttgactgagagcccc 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 tggacaaggttccatcctgagccttccacatctatctctgccaggttgactgagagcccc 504

                                                                       
Query: 305 attgggtagctctgggttgacttacattaatccaacaaatgcaggcatctgcttgacctc 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 attgggtagctctgggttgacttacattaatccaacaaatgcaggcatctgcttgacctc 564

                                                                       
Query: 365 tttatacaaccaactccctttccttccctcctcatcccccctgagtcttctttcccttca 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 tttatacaaccaactccctttccttccctcctcatcccccctgagtcttctttcccttca 624

                                                                       
Query: 425 tcttttactgcttttctctatttgtttactcttttataagaacctggtttcaaactaact 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 tcttttactgcttttctctatttgtttactcttttataagaacctggtttcaaactaact 684

                                                                       
Query: 485 atgtccttgtatttgccctgctacttgtagctcacgatcctacacgagacagagcctatc 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 atgtccttgtatttgccctgctacttgtagctcacgatcctacacgagacagagcctatc 744

                                                                       
Query: 545 acgtcttctgggtattttcagagccatttattgtcttctgttttaataattctgtgcgct 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 acgtcttctgggtattttcagagccatttattgtcttctgttttaataattctgtgcgct 804

                                                                       
Query: 605 gtaattgcttgtttacacgtctgccttcctgattaggtaacagctttccgtacctctatt 664
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 805 gtaattgcttgtttacacgtctgccttcctgattaggtaacagctttccgtacctctatt 864

                      
Query: 665 gatttttgttc 675
           |||||||||||
Sbjct: 865 gatttttgttc 875


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: 34
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: 675
Length of database: 1075
Length adjustment: 10
Effective length of query: 665
Effective length of database: 1065
Effective search space:   708225
Effective search space used:   708225
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= MSMg01no178_l01.g1 MSMg01no178_l01.g1 CHROMAT_FILE:
MSMg01no178_l01.g1 PHD_FILE: MSMg01no178_l01.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:51:32 2005
         (560 letters)



>mm_chr14_94060368_94061327
          Length = 960

 Score =  982 bits (508), Expect = 0.0
 Identities = 508/508 (100%)
 Strand = Plus / Minus

                                                                       
Query: 53  tgctttactttaaaatttttaaatcagaacataggataaagattagaaagttatttgttt 112
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 960 tgctttactttaaaatttttaaatcagaacataggataaagattagaaagttatttgttt 901

                                                                       
Query: 113 taacttggaaatattcttttaaaatatagtataaaatttaaaaatacacctgttatcaag 172
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 900 taacttggaaatattcttttaaaatatagtataaaatttaaaaatacacctgttatcaag 841

                                                                       
Query: 173 gactgatctttaaataatgtatgctttccatatgtgcatgtataatgcatatatgtatgt 232
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 840 gactgatctttaaataatgtatgctttccatatgtgcatgtataatgcatatatgtatgt 781

                                                                       
Query: 233 gtatatgtatgcatgtatatatacagttgtgattatgtctcataagtgaagaaagtttgt 292
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 780 gtatatgtatgcatgtatatatacagttgtgattatgtctcataagtgaagaaagtttgt 721

                                                                       
Query: 293 ttgggagcatatggaagagcctggtatgtgtcaggatgctgttaagatatcataaactga 352
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 720 ttgggagcatatggaagagcctggtatgtgtcaggatgctgttaagatatcataaactga 661

                                                                       
Query: 353 tggatgctgtactgaaatcatgcctcactctatgtgatttctgaaattcatgttaaacac 412
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 660 tggatgctgtactgaaatcatgcctcactctatgtgatttctgaaattcatgttaaacac 601

                                                                       
Query: 413 aatataggcctcatgagtgcataggcacatgcaacagcccaatgtgggtggctgcaaagg 472
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 600 aatataggcctcatgagtgcataggcacatgcaacagcccaatgtgggtggctgcaaagg 541

                                                                       
Query: 473 gaaaggccagatagatagtccaatggtcaatgttcagattcatgtgtcatgctccaaaac 532
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 540 gaaaggccagatagatagtccaatggtcaatgttcagattcatgtgtcatgctccaaaac 481

                                       
Query: 533 aattctgaatatattcaagtggagtcaa 560
           ||||||||||||||||||||||||||||
Sbjct: 480 aattctgaatatattcaagtggagtcaa 453


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: 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)


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