BAC Information

Click to search

BAC

Clone NameMSMg01-306A08
Chromosome9 (Build37)
Map Location 112,023,037 - 112,201,248
singlet/doubletdoublet
Overlap geneArpp21, LOC100039341, LOC620760
Upstream geneLrrfip2, Mlh1, Epm2aip1, Lba1, Dclk3, LOC620615, Stac, 4930545L08Rik
Downstream geneLOC100043800, EG622110, LOC100039391, LOC100043801
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-306A08.T7 (MSMg01no306_a08.b1)MSMg01-306A08.TJ (MSMg01no306_a08.g1)
ACCAG430805AG430806
length756759
length of high quality
(start - end)
710 (47 - 756)292 (77 - 368)
definitionCHROMAT_FILE: MSMg01no306_a08.b1 PHD_FILE: MSMg01no306_a08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:46:39 2005CHROMAT_FILE: MSMg01no306_a08.g1 PHD_FILE: MSMg01no306_a08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:46:40 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(112,023,037 - 112,023,741)(112,200,958 - 112,201,248)
sequence
CCTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCACAATTTTCCTACCTCATTTTCCTCAGATGCTGGGGTTACAGGT
CTACACCCCTCAGGCCTGCCAGTCTTCTGTCTACTGTTTAATGACTGACA
GCCAGTGAAAACACCCTAACCCTTCCCATTGAGATCAGATGCTTCCTGAT
ATAGAAGACATCTTTGCCTACCTATTAATGCTATGTGATGCTAGTTTCTT
ACTCATTTCAGCTAACTCCTTCTGTCTTCAGGCCTCTGGCTTTTCTCTTC
TCATCTTTAAAGGGAGAATAGGTGGCCATCCACTATATACTCCAAAGTAT
ACAAGTTGTGTGTATAGAAGAAGATTGTGAACCAATTATCTTATAGCTCT
GATTTTTATGCCTATTTTATCTTTTGATTTGATTATATCATAAGATACTA
GTGTTCCCTCTTGCTACTAGAGTGTATAATATGTTCCCATACCTCAGGAA
GAAGGTGGAAGCAAAGAAAACATTGTATGGCTGTGGTTTTGCAATGCCAT
GGAATCAACATGAACTGTATTCTCACTTTCTAGTATGGTAGATGACCGAG
GGGAAGGGGCTGGGAGAGCCTAGAACTATTCTGCCTCATTGCTTAGCAAT
CAGTCATTTACTAATTGCACTCATTATTTGTGGTCATTTAACCTGTCTCT
CTGTCTCTGTCTCTCTCATTGTGTGTGTGTGTGTATGTGTGTGTGTGTGC
ATTTAN
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAATGTCTCATGCTCCGTTCTTCAA
AGGACATTTCACAAGTTATCTGATCTGACGCTCACTGACAGGGCCCATCA
GATGCTTGGCAGAACGAAACGTTCAGAAGAATTTCACAAGGTGAGTAAAC
TTGGATCTCAGAGTTTCAAAGAGGCTGCTATTTTCAGCTTGCTCCTTGTT
CTATTGGGAACTGATATTGTAGGGTTTAAGTGTTTACATAATGTGCCTGA
AGGCTGTAGGCAGAAAGATTGGCATGATCGCCACACCTACACCCACCATG
AGATAGGACGCCTGTGGTATTATTGTATCTACCACCCCCCCCAATTTTTT
TCTTTTTCTTTTTCAAACCATGATCTCACAAAGCCAAGGAACGAGCTCAT
ACTCAATGGAGTGTAAGCAAGTCTTGGACTCCTGCACCTCCTTGCCAATT
ATTAGGATTATAAAGGTGTGGCTTCCATAGCTAGCTTCTAAATTTGAGTA
TCCTGATTCAGGTATATTTCTTATGGATGCTGGTAAGTAAGTGGTGGTTG
CTTCCATATAGATTTCTTAATTATATTAGGCTTTTTAAAATCAGATCAAT
CTAAGTAGTAGATAAATAAAACAGAATAACATAAACAGAAAGAATTGGGT
ATATCAATTGATTGATATGGCCAACATTTGTTACGATTCATGGATATGTC
CAGTGCTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no306_a08.b1 MSMg01no306_a08.b1 CHROMAT_FILE:
MSMg01no306_a08.b1 PHD_FILE: MSMg01no306_a08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:46:39 2005
         (710 letters)



>mm_chr9_112022833_112023942
          Length = 1110

 Score = 1348 bits (697), Expect = 0.0
 Identities = 703/705 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 65  caggcctgccagtcttctgtctactgtttaatgactgacagccagtgaaaacaccctaac 124
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 caggcctgccagccttctgtctactgtttaatgactgacagccagtgaaaacaccctaac 324

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

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

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

                                                                       
Query: 305 acaagttgtgtgtatagaagaagattgtgaaccaattatcttatagctctgatttttatg 364
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 505 acaagttgtgtgtatagaagaagattgtgaactaattatcttatagctctgatttttatg 564

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

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

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

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

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

                                                        
Query: 665 ctctctcattgtgtgtgtgtgtgtatgtgtgtgtgtgtgcattta 709
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 865 ctctctcattgtgtgtgtgtgtgtatgtgtgtgtgtgtgcattta 909


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: 35
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: 710
Length of database: 1110
Length adjustment: 10
Effective length of query: 700
Effective length of database: 1100
Effective search space:   770000
Effective search space used:   770000
X1: 9 (17.8 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 9 (18.3 bits)
S2: 9 (18.1 bits)
Query= MSMg01no306_a08.g1 MSMg01no306_a08.g1 CHROMAT_FILE:
MSMg01no306_a08.g1 PHD_FILE: MSMg01no306_a08.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:46:40 2005
         (292 letters)



>mm_chr9_112200758_112201449
          Length = 692

 Score =  547 bits (283), Expect = e-160
 Identities = 289/291 (99%)
 Strand = Plus / Minus

                                                                       
Query: 1   aatgtctcatgctccgttcttcaaaggacatttcacaagttatctgatctgacgctcact 60
           |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 491 aatgtctcatgctccgttcttcaaaggacatttcacaagttatctgatctgatgctcact 432

                                                                       
Query: 61  gacagggcccatcagatgcttggcagaacgaaacgttcagaagaatttcacaaggtgagt 120
           ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 431 gacagggcccatcagatgcttggcagaacgaaacgttcaaaagaatttcacaaggtgagt 372

                                                                       
Query: 121 aaacttggatctcagagtttcaaagaggctgctattttcagcttgctccttgttctattg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 371 aaacttggatctcagagtttcaaagaggctgctattttcagcttgctccttgttctattg 312

                                                                       
Query: 181 ggaactgatattgtagggtttaagtgtttacataatgtgcctgaaggctgtaggcagaaa 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 311 ggaactgatattgtagggtttaagtgtttacataatgtgcctgaaggctgtaggcagaaa 252

                                                              
Query: 241 gattggcatgatcgccacacctacacccaccatgagataggacgcctgtgg 291
           |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 251 gattggcatgatcgccacacctacacccaccatgagataggacgcctgtgg 201


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: 15
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: 292
Length of database: 692
Length adjustment: 9
Effective length of query: 283
Effective length of database: 683
Effective search space:   193289
Effective search space used:   193289
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)