BAC Information

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BAC

Clone NameMSMg01-052C16
Chromosome18 (Build37)
Map Location 20,077,668 - 20,166,198
singlet/doubletdoublet
Overlap geneDsc3
Upstream geneLOC665624, LOC665629
Downstream geneDsc2, Dsc1, Dsg1c, Dsg1a, Dsg1b, Dsg4, LOC435558, Dsg3, Tpi-rs10, Dsg2, Ttr, LOC100040823, B4galt6, D030074E01Rik, Rnf125, Rnf138
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-052C16.T7 (MSMg01no052_c16.b1)MSMg01-052C16.TJ (MSMg01no052_c16.g1)
ACCAG280725AG280726
length720724
length of high quality
(start - end)		613 (37 - 649)634 (66 - 699)
definitionCHROMAT_FILE: MSMg01no052_c16.b1 PHD_FILE: MSMg01no052_c16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 16:52:42 2005CHROMAT_FILE: MSMg01no052_c16.g1 PHD_FILE: MSMg01no052_c16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 16:52:42 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(20,077,668 - 20,078,208)(20,165,897 - 20,166,198)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAAGA
CAGCTGTCCAAGACTGCTGGTTACTTTCATATTTTTAGTTTTCTACTTTT
GTCTTAAAACATCACAACCAAGGCAACTTTTAACTGCAAGTAGTCCAGGC
TATGGAAGACTCCCCCTAGTGCTGCACTTGGACCAGCAAGCCAGCACATC
CTAAACTGTGCCAGAGAGTGTCACCAACTGGAACCAAGTGTTCAAATATC
TGAGCCTGTGGTGGGCATTATTATTCAGGCCACTACAGGAGGACTACTGT
AGTAAACCAAGTTCAAGTTCATGGCTGAGGTAAATGGCTTCCAGGGATGG
CTGCATACCAAAACATTGTGGGGAATCTTCAAAATGATGGATTCCTAGGG
TTCCAAATTAAATCATTCTAGAGTTGATTTTCTTCCTTGAATGTATATGT
TAAAGTTCAGTTTAGAAATAAATAGATATGTGAGATACATGAACCTCTTC
ACCACGGTCCTTTAAATCACATCTTATGAGTCTATGTGCTAGGTTCTTAG
TTTTAGCCTGTTATACCTCCTGTGTTTCTCTCTCTCTCTCTCTCTCTCTC
TCTCTCTCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTC
TGTCTGTCTGTCTATATTCCATACATGTAATATATGGGTAACTATGGTGT
CATCCCTGAAGCATCTACCA

GTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXTTACTGGAAAGTGTGGATAAATATATTTTCTGATA
AATTCCTACACAACTACTAGGAAGACTGATATCTCATTTCCAGTATTTTG
AAAAATATTATATATAGTTATTTTATGTATATGAGTGGTTGTCATGTTCA
CCAAGTTTGTACCTGATGCCCACAGAAGCGAGAAAAAAGAGTTGAATTTG
AATCTGGAGTTACAGACAGTTGTGGCTGCTGAGAAATAAAGCCCTATCTT
TTTCAAGAACAGAAAATACTTTTAACCACTAAGTCATCATCTCTCTAGTG
CCTTCCCTCTTAAATGTTCATAAAGGACCACTGAGTTGAATTTATGAAAG
AGTGGGACTCTGGATGTATTCTTACATAGATGAAGTTGGGAGCAAGATAA
TTGGAGAGGAAGAGTGGGATGCAGATATGACCTAAGTACATTGTATTCAT
TGATGAGATTTTCAGACCATACTAAAAAGATTTTAAAATCTCAGCCAGTC
TTGGTGTTGTCAGGCTAAGGAAAGAGAATCAGTGTGAGTTCAGTCATGAG
ATACAAAGTGAGTTCCAGACTATCCTGGGCTGCCTAATAGGACTCTACTC
AGAAAAAAAAAAAAAAAAAAAAGCCAAAATATCCCAGAACAAATAGCACA
TCAAAAAACAACACATACAAACAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no052_c16.b1 MSMg01no052_c16.b1 CHROMAT_FILE:
MSMg01no052_c16.b1 PHD_FILE: MSMg01no052_c16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 16:52:42 2005
         (613 letters)



>mm_chr18_20077464_20078476
          Length = 1013

 Score =  977 bits (505), Expect = 0.0
 Identities = 532/541 (98%)
 Strand = Plus / Plus

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

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

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

                                                                       
Query: 185 tcaccaactggaaccaagtgttcaaatatctgagcctgtggtgggcattattattcaggc 244
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 385 tcaccaactggaaccaagtgttcaaatatctgagcctgtggggggcattattattcaggc 444

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

                                                                       
Query: 305 ccagggatggctgcataccaaaacattgtggggaatcttcaaaatgatggattcctaggg 364
           |||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 505 ccagggatagctgcataccaaaacattgtgggaaatcttcaaaatgatggattcctaggg 564

                                                                       
Query: 365 ttccaaattaaatcattctagagttgattttcttccttgaatgtatatgttaaagttcag 424
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 565 ttccaaattaaatcattctaaagttgattttcttccttgaatgtatatgttaaagttcag 624

                                                                       
Query: 425 tttagaaataaatagatatgtgagatacatgaacctcttcaccacggtcctttaaatcac 484
           ||||||| |||||||||||||||||||| |||||||||||||||| ||||||||||||||
Sbjct: 625 tttagaattaaatagatatgtgagatacgtgaacctcttcaccacagtcctttaaatcac 684

                                                                       
Query: 485 atcttatgagtctatgtgctaggttcttagttttagcctgttatacctcctgtgtttctc 544
           ||| ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 685 atcctatgagtctatgtgctaggttcttagttttagcctgttatacctcgtgtgtttctc 744

            
Query: 545 t 545
           |
Sbjct: 745 t 745


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: 23
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: 613
Length of database: 1013
Length adjustment: 10
Effective length of query: 603
Effective length of database: 1003
Effective search space:   604809
Effective search space used:   604809
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= MSMg01no052_c16.g1 MSMg01no052_c16.g1 CHROMAT_FILE:
MSMg01no052_c16.g1 PHD_FILE: MSMg01no052_c16.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 16:52:42 2005
         (634 letters)



>mm_chr18_20165897_20166930
          Length = 1034

 Score =  584 bits (302), Expect = e-171
 Identities = 302/302 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttactggaaagtgtggataaatatattttctgataaattcctacacaactactaggaaga 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 302 ttactggaaagtgtggataaatatattttctgataaattcctacacaactactaggaaga 243

                                                                       
Query: 61  ctgatatctcatttccagtattttgaaaaatattatatatagttattttatgtatatgag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 242 ctgatatctcatttccagtattttgaaaaatattatatatagttattttatgtatatgag 183

                                                                       
Query: 121 tggttgtcatgttcaccaagtttgtacctgatgcccacagaagcgagaaaaaagagttga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 182 tggttgtcatgttcaccaagtttgtacctgatgcccacagaagcgagaaaaaagagttga 123

                                                                       
Query: 181 atttgaatctggagttacagacagttgtggctgctgagaaataaagccctatctttttca 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 122 atttgaatctggagttacagacagttgtggctgctgagaaataaagccctatctttttca 63

                                                                       
Query: 241 agaacagaaaatacttttaaccactaagtcatcatctctctagtgccttccctcttaaat 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 62  agaacagaaaatacttttaaccactaagtcatcatctctctagtgccttccctcttaaat 3

             
Query: 301 gt 302
           ||
Sbjct: 2   gt 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: 17
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: 634
Length of database: 1034
Length adjustment: 10
Effective length of query: 624
Effective length of database: 1024
Effective search space:   638976
Effective search space used:   638976
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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