BAC Information

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BAC

Clone NameMSMg01-350D01
Chromosome13 (Build37)
Map Location 19,671,492 - 19,693,217
singlet/doubletdoublet
Overlap geneEpdr1
Upstream geneVps41, Amph, LOC624044, Tcrg-V4, LOC624071, Tcrg, Tcrg-C, Stard3nl
Downstream geneSfrp4, Txndc3, A530099J19Rik, Gpr141, LOC432730, Elmo1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-350D01.T7 (MSMg01no350_d01.b1)MSMg01-350D01.TJ (MSMg01no350_d01.g1)
ACCAG461862AG461863
length749752
length of high quality
(start - end)
576 (54 - 629)519 (81 - 599)
definitionCHROMAT_FILE: MSMg01no350_d01.b1 PHD_FILE: MSMg01no350_d01.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:42:02 2005CHROMAT_FILE: MSMg01no350_d01.g1 PHD_FILE: MSMg01no350_d01.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:42:02 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(19,671,492 - 19,672,063)(19,692,701 - 19,693,217)
sequence
NNNNNNTTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXCGCGGAATTCATAATGATCTAGCTAATGCTGGCAAAATTCTGAGCTT
TGGGAAAAAACCCCATCAGAAGTAGAAATATATACATGCATTGAATGTGC
AAGACAGATGATCTCACTTTTGGAGAATACTGTCTACACTAGTGAATGAA
GCCTTGAGAAATCTTTTACCATCCCTAATAATGCAATAACTGAGTGAGCT
GAAGAGACAGGAATTCACCCTATGTACTAGGGCTTGGTTGAAAGAAAAAG
TCCTCTAAAAAGTACAGTAATGACTTTCCTCTGCATAGCAATCCGTACAC
ATCTGCCTGCCTTTGGAGATGAGCATGAGACCTGTGCTTTCAGGGAGAGT
CATGAAATGTTCAAGAATGTGGAATAATTTCAGTAAGAAGGAGAGGGGAC
TCAGGGCGCAAAGGCAGGAAAAGACAAGGCCAAAGGCCAAAGGCTATCAC
TAGCCAAGCCAGATCAGATGGGAGAACCTCAAGGAGGAGTCAGGAATAGT
GGTGAGATAAAGGGTCAGGACAAACCAGAAGGCATTGTCTGCAGATGCAC
ACTGTCACCAGGTGGTTTTGGGTTTCTGGGCTTAGCTTGTTTCTAATAGA
AGGCTGGGTGTCTAAAGGAACTATCCCAGAGATCTAGCAGAACCTCCCTC
AGGGTAACAGATTCGTGTATCACTCTAGGTTCTGGTTAATTCACCGAAG
NNTTTTCGATGCAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXACTCAGCTTCCATTTGGAGA
GGAAGGGGAGGGGAAGGAGCAGAAATGTCTATTTTACCTCCTTTGAAGGT
CAGTAACCTTTTACCTACTCGGGTAAAGACACATGTGTGAGCCTTCACAT
CTAGTTGTGATGGCAAGCAGGAAGCAGTAACAGCTCATAAAAGGAGACTT
TCCTAGAACAATCCCTCTCTATGGACCATTTGAATGACAGTGAATTGAAA
ACTAGCTCACAATATACATACACAAGATAAATGGGATTCTTAAAAGTACT
GTGATGTCCCTTATGAATATTCTGTAACTGTTGATTAAAAGTTTCTCACT
AGCAAATATATCCCAATAGTACATAAAAAAAATACAGCAGAATCAAGAAA
CATTTATCAGGGGGATGCAAGGATAGTTTCTTTTTTTAAAATCTTAATAC
ACCTAAGACAAGGTATACATGAGAATATTCTTAGTTTGATGGAAAGACAA
TTGATCAAATTCAATAAACATGGTTTATAGAAGGTGGTTTGCAGGAAATG
ACACTACTTTCTTACCATTATAAATAAAGCTCATGCATTTTAATATGGAG
TTCATATTTCTTTCTGCCGCCTTAACTAAGAAACCTGGTTCTTTCTAATC
CCCCTTAATGATGCTGGTTCCTATATCCCAAAAAAGTGCTTCTAAGATTA
CT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no350_d01.b1 MSMg01no350_d01.b1 CHROMAT_FILE:
MSMg01no350_d01.b1 PHD_FILE: MSMg01no350_d01.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:42:02 2005
         (576 letters)



>mm_chr13_19671288_19672263
          Length = 976

 Score = 1067 bits (552), Expect = 0.0
 Identities = 567/572 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcataatgatctagctaatgctggcaaaattctgagctttgggaaaaaaccccatc 64
           |||||||||| |||| ||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcataacgatcaagccaatgctggcaaaattctgagctttgggaaaaaaccccatc 264

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

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

                                                                       
Query: 185 aactgagtgagctgaagagacaggaattcaccctatgtactagggcttggttgaaagaaa 244
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 385 aactgagtgagctgaagagacaggaattcaccctatgtactagggcttggttgaaagaga 444

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

                                                                       
Query: 305 tgcctttggagatgagcatgagacctgtgctttcagggagagtcatgaaatgttcaagaa 364
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 505 tgcctttggagatgagcatgagaactgtgctttcagggagagtcatgaaatgttcaagaa 564

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

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

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

                                           
Query: 545 cacactgtcaccaggtggttttgggtttctgg 576
           ||||||||||||||||||||||||||||||||
Sbjct: 745 cacactgtcaccaggtggttttgggtttctgg 776


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: 27
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: 576
Length of database: 976
Length adjustment: 10
Effective length of query: 566
Effective length of database: 966
Effective search space:   546756
Effective search space used:   546756
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= MSMg01no350_d01.g1 MSMg01no350_d01.g1 CHROMAT_FILE:
MSMg01no350_d01.g1 PHD_FILE: MSMg01no350_d01.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:42:02 2005
         (519 letters)



>mm_chr13_19692701_19693619
          Length = 919

 Score =  948 bits (490), Expect = 0.0
 Identities = 511/518 (98%), Gaps = 1/518 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   actcagcttccatttggagaggaaggggaggggaaggagcagaaatgtctattttacctc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 517 actcagcttccatttggagaggaaggggaggggaaggagcagaaatgtctattttacctc 458

                                                                       
Query: 61  ctttgaaggtcagtaaccttttacctactcgggtaaagacacatgtgtgagccttcacat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 457 ctttgaaggtcagtaaccttttacctactcgggtaaagacacatgtgtgagccttcacat 398

                                                                       
Query: 121 ctagttgtgatggcaagcaggaagcagtaacagctcataaaaggagactttcctagaaca 180
           ||||||||||||| |||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 397 ctagttgtgatggaaagcgggaagcagtaacagctcataaaaggagactttcctagaaca 338

                                                                       
Query: 181 atccctctctatggaccatttgaatgacagtgaattgaaaactagctcacaatatacata 240
           |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 337 atccctctatatggaccatttgaatgacagtgaattgaaaactagctcacaatatacata 278

                                                                       
Query: 241 cacaagataaatgggattcttaaaagtactgtgatgtcccttatgaatattctgtaactg 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 277 cacaagataaatgggattcttaaaagtactgtgatgtcccttatgaatattctgtaactg 218

                                                                       
Query: 301 ttgattaaaagtttctcactagcaaatatatcccaatagtacataaaaaaaatacagcag 360
           |||||||||||||||||||||||||||||||||||||||||||| |||||| ||||||||
Sbjct: 217 ttgattaaaagtttctcactagcaaatatatcccaatagtacatcaaaaaa-tacagcag 159

                                                                       
Query: 361 aatcaagaaacatttatcagggggatgcaaggatagtttctttttttaaaatcttaatac 420
           ||||||||||| ||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 158 aatcaagaaacgtttatcagggggatgcaaggatagtttcttttttttaaatcttaatac 99

                                                                       
Query: 421 acctaagacaaggtatacatgagaatattcttagtttgatggaaagacaattgatcaaat 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98  acctaagacaaggtatacatgagaatattcttagtttgatggaaagacaattgatcaaat 39

                                                 
Query: 481 tcaataaacatggtttatagaaggtggtttgcaggaaa 518
           ||||||||||||||||||||||||||||||||||||||
Sbjct: 38  tcaataaacatggtttatagaaggtggtttgcaggaaa 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: 22
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 519
Length of database: 919
Length adjustment: 10
Effective length of query: 509
Effective length of database: 909
Effective search space:   462681
Effective search space used:   462681
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)