BAC Information

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BAC

Clone NameMSMg01-529F09
Chromosome9 (Build37)
Map Location 28,000,429 - 28,159,938
singlet/doubletdoublet
Overlap geneOpcml
Upstream geneIgsf9b, Spata19, LOC666440, LOC100041202
Downstream geneHnt, LOC625222
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-529F09.T7 (MSMg01no529_f09.b1)MSMg01-529F09.TJ (MSMg01no529_f09.g1)
ACCAG598240AG598241
length766752
length of high quality
(start - end)		609 (53 - 661)595 (83 - 677)
definitionCHROMAT_FILE: MSMg01no529_f09.b1 PHD_FILE: MSMg01no529_f09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:05:15 2005CHROMAT_FILE: MSMg01no529_f09.g1 PHD_FILE: MSMg01no529_f09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:05:15 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(28,000,429 - 28,001,033)(28,159,466 - 28,159,938)
sequence
NNNNTTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXCGCGGAATTCTTAATGTATAATGGATTTAAATGTAAGCTTCACCACAT
ACTAGCTATTGAGTATTGAGTAATCCCTTTGGACCCCAGTTTTCCATCTC
TAAACTGGATGCAATAACGTAACTACTCATTAGGATCATACAAGGATTAC
ATTATCATATATTTAAAGATTCACAGGTATGCCTGCTGCTCACCAAGCTC
TTCAAAAGCCCTCGAAGTGGTTACTGCCACAGTGCTATGCCCACTGGGAC
TGAACATACTTTCTACCTATGAGAGTCTCGTGGACTGGAGGCCAGTTTAT
GTAGTTTCATGAATTTTAGGTTTACTTCATTTTCATGGTAGTAGCACCAT
TATGAGGGTCTCTCTCAGTCATGTTACAAGTTCAAATTATTTTGGTAGGA
GGGTGGAAGACACTTAGCAGACCCTGGCAGCTCTATAAAGCAATGCATGC
TGAGCCCCACGCAGTTGCTCAGCAGCCCTCTCTGAAATGCAGCTCATTCT
AAGGTTTCTAAAGTGGAGAGCAGATCCTGCTGTCCCTCTTCTCAGTGTGT
TCCTTTAGCAAAGCATGTCAGCGTGAGATGTTCTGTAAGCACACGATGGC
AATGGGTTGGTGACCACGAGAGTAATTGCTGCCTATGGGTTGCCAGTCAG
AAAAAGCAAACTCACCACTTGGCATCCCTGGGAATGTTTCCTGTGAGGGA
AACTGACTGATGCCCC

NNNCCCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCTTAGTCAGAACAAACAC
CTCCTCCTGATATTAATGGATGACCACAAAATAATTGACTTGAAACAACC
TCAAATCATCTAATCAGAGATTCTGTGAATAGAAACTCAATTAAGACATC
TACTTATGGTTTCATAACAATGCAATCAAGTCAGGGGTGGACTAAGCCAG
GTTCTTTTCTGAGTCTGAGTCTTCTTCAAGTTTAATGCAGACTGGTAGAC
TTCAGTTCTTTGAATGAATGAAACTAAGGTTCCCGTTCTCTCCTTTAAAA
ATCCCTTTTATTTTCATGAGCATGAGTGTTTTACTTACATGTATGTCTGT
CATGTGCATGCAGTTACCCACAAGACTAGATGAGGATTAGAGATCCCATG
ATACTAAAGATACAGTTTCGAGCCACCATGTAGGTGATGGCAATTGAACC
CAGGTCTCATGGAAAAGCAGTTCATGCTCTTACCTACTTTCAAGTCACTA
AAATTTCCATTCTTGTGCTAGCTGAAAGCAATTCACTACTGTTAGCTACG
GTAGCCACCCAAAGACACTTACCACAAACTATCTACTCCACAACTCTCAG
CATACCTGTTGGCTCATCTGAGCTTGCCAAGAGAAACCTCTCTCATTATA
AATCAGTCTCTTCCCAAGGTCTGAAATAGGTGGGGATAGTATAAGTGCGA
TG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no529_f09.b1 MSMg01no529_f09.b1 CHROMAT_FILE:
MSMg01no529_f09.b1 PHD_FILE: MSMg01no529_f09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:05:15 2005
         (609 letters)



>mm_chr9_28000225_28001233
          Length = 1009

 Score = 1162 bits (601), Expect = 0.0
 Identities = 604/605 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcttaatgtataatggatttaaatgtaagcttcaccacatactagctattgagtat 64
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcttaatgtagaatggatttaaatgtaagcttcaccacatactagctattgagtat 264

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

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

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

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

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

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

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

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

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

                
Query: 605 ttggt 609
           |||||
Sbjct: 805 ttggt 809


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: 29
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: 609
Length of database: 1009
Length adjustment: 10
Effective length of query: 599
Effective length of database: 999
Effective search space:   598401
Effective search space used:   598401
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= MSMg01no529_f09.g1 MSMg01no529_f09.g1 CHROMAT_FILE:
MSMg01no529_f09.g1 PHD_FILE: MSMg01no529_f09.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:05:15 2005
         (595 letters)



>mm_chr9_28159466_28160460
          Length = 995

 Score =  891 bits (461), Expect = 0.0
 Identities = 470/473 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   cttagtcagaacaaacacctcctcctgatattaatggatgaccacaaaataattgacttg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 473 cttagtcagaacaaacacctcctcctgatattaatggatgaccacaaaataattgacttg 414

                                                                       
Query: 61  aaacaacctcaaatcatctaatcagagattctgtgaatagaaactcaattaagacatcta 120
           |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 413 aaacaacctcaaatcatctaatcagagaatctgtgaatagaaactcaattaagacatcta 354

                                                                       
Query: 121 cttatggtttcataacaatgcaatcaagtcaggggtggactaagccaggttcttttctga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 353 cttatggtttcataacaatgcaatcaagtcaggggtggactaagccaggttcttttctga 294

                                                                       
Query: 181 gtctgagtcttcttcaagtttaatgcagactggtagacttcagttctttgaatgaatgaa 240
           |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 293 gtctgagttttcttcaagtttaatgcagactggtagacttcagttctttgaatgaatgaa 234

                                                                       
Query: 241 actaaggttcccgttctctcctttaaaaatcccttttattttcatgagcatgagtgtttt 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 233 actaaggttcccgttctctcctttaaaaatcccttttattttcatgagcatgagtgtttt 174

                                                                       
Query: 301 acttacatgtatgtctgtcatgtgcatgcagttacccacaagactagatgaggattagag 360
           ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 173 acttacatgtatgtctgtcatgtgcatgcagttacccacaagactggatgaggattagag 114

                                                                       
Query: 361 atcccatgatactaaagatacagtttcgagccaccatgtaggtgatggcaattgaaccca 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113 atcccatgatactaaagatacagtttcgagccaccatgtaggtgatggcaattgaaccca 54

                                                                
Query: 421 ggtctcatggaaaagcagttcatgctcttacctactttcaagtcactaaaatt 473
           |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 53  ggtctcatggaaaagcagttcatgctcttacctactttcaagtcactaaaatt 1


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: 21
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: 595
Length of database: 995
Length adjustment: 10
Effective length of query: 585
Effective length of database: 985
Effective search space:   576225
Effective search space used:   576225
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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