BAC Information

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BAC

Clone NameMSMg01-396O16
Chromosome19 (Build37)
Map Location 59,961,775 - 60,118,128
singlet/doubletdoublet
Overlap geneRab11fip2, LOC100043087
Upstream gene6430537H07Rik, 4930506M07Rik, LOC668626, Vax1, LOC668627, Kcnk18, Slc18a2, Pdzd8, LOC100034727, LOC100043073, Emx2os, Emx2
Downstream geneLOC100043091, LOC100043093, D19Ertd737e, 4933412A08Rik, Prlhr, 2700078E11Rik, Nanos1, Eif3s10, 1810055E12Rik, Sfxn4, Prdx3, Gprk5, LOC671322
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-396O16.T7 (MSMg01no396_o16.b1)MSMg01-396O16.TJ (MSMg01no396_o16.g1)
ACCAG497378AG497379
length783767
length of high quality
(start - end)		239 (62 - 300)222 (72 - 293)
definitionCHROMAT_FILE: MSMg01no396_o16.b1 PHD_FILE: MSMg01no396_o16.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:09:10 2005CHROMAT_FILE: MSMg01no396_o16.g1 PHD_FILE: MSMg01no396_o16.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:09:10 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(60,117,894 - 60,118,128)(59,961,775 - 59,961,994)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCATAT
TTGTGCACACAAGGATCAGAGGAGTTTTGTAGGTTATAGGTACATGATTA
AAAGGAAGGGAACGTAAGGACTCTGGAGCAGCTTAAAGTAGGCAATGTGC
CAGAGAAGTTGGATGAGAACTCACTTTCTAAAGGAAGGACTATTTAGATC
AAAATAGAGTCAGGCAAGCTAAGGAGCAAGAGACCACATGAAAGAGAGAT
CTGTTTGGGAGTTGGTGGATAGGAAGGGTGCTAGTAGATGAAGATGNTCG
NNNNNNTTTTTTTTTTTNNNNNGNNNNCNNNNNNNNNNNNNNNNNNNTTT
NCTCCCTCTCCTCCCTTCTTCCTCCCCCCTCTTTCCTTCCTTTTCCCTTT
TCCCCCCCCCCCTTTTTTTTTTTTTTTTTTTCCCTGCCTCTTCTCTCTCC
TCCCTCCTCTTCCCTTCCTCCTCCTCGCTCCTTTCTCCTTCTCTTTTTCC
TTTCTCTTTCCCTTCCTTTTCCCCTTGTTTCCCCCTTCTCTTCTCCCCCT
TCTTCTTTCCTTCTCCTTCTCCTTTTTCTGCCTTCTTGTTGTCTCCTCTC
TCTTCTTCTTTTTCTCTCCTCCCCCTCCCCCCCCCTTGTGTGTTTTGCTC
TTTTCTCTCTTTTTTTTTTCCCCTCTCCCCTCCTCTTCTCTCTTCCCCCC
CTCCCCGCTCCTTGCCCTCCTCCTGTTTTTCCCCTCTCCCGTCCCTCTTC
TTCTCCCCCCCTCTTGCCTTCTCTCTTTTCCTC

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXTCCACTACAGTTATTTGGAAAGTGGCGAT
GTATCCACCTGATCTGTTCAACAGGAGCTTTGGCTATCATCTTGTCACCT
TTGTATTATCCATTATGAGTCTCTACCAGGTATTATGCATCTCCCTGAAC
CCCTTAACGTATCAAGAGAAAATATATGCAAGCTCGTGTGTGTGTCTGTG
TGTGTGTGTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTNNNNNNNNN
NNNANTTTTTTTTTTTTTNNNNNNNNNTNNNNNNTTTNTNNTTTTTTTTT
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTNTTTTTTTTTTTTTTTTTTTT
TCTCCCTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTT
TTCCTTTCTTTCCCTTTTTTCTTTTCCTTTTCTCCTTTCTTTTTCTCTTT
TCTTCTCCTTTCTTTCTTTTCCCTCTTTCTTTCTCCCCCTTTCTTTTTTT
CTCTTTTTCCTTTTCTTCCCTCCTTTTCTCTTCTCTTTCTTTTCTCCCTT
TTTCTTCCTCCTTTTCTTTTTCTTCCTTTCTCTTCTCTTTTTCTTCCTCT
TCTCTCTTTTTTTNTCCCCCTTTTTTCCCTCCTTTTCTTCTCTTCTTTTT
TTCCTCCTCCCCTTTTTTCTCCCTCTCCTCCTTTCTCCCCCTCCTTCTCT
TTTCTCTTTTTATCCTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no396_o16.b1 MSMg01no396_o16.b1 CHROMAT_FILE:
MSMg01no396_o16.b1 PHD_FILE: MSMg01no396_o16.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:09:10 2005
         (239 letters)



>mm_chr19_60117694_60118332
          Length = 639

 Score =  455 bits (235), Expect = e-132
 Identities = 235/235 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   aggatcagaggagttttgtaggttataggtacatgattaaaaggaagggaacgtaaggac 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 435 aggatcagaggagttttgtaggttataggtacatgattaaaaggaagggaacgtaaggac 376

                                                                       
Query: 61  tctggagcagcttaaagtaggcaatgtgccagagaagttggatgagaactcactttctaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 375 tctggagcagcttaaagtaggcaatgtgccagagaagttggatgagaactcactttctaa 316

                                                                       
Query: 121 aggaaggactatttagatcaaaatagagtcaggcaagctaaggagcaagagaccacatga 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 315 aggaaggactatttagatcaaaatagagtcaggcaagctaaggagcaagagaccacatga 256

                                                                  
Query: 181 aagagagatctgtttgggagttggtggataggaagggtgctagtagatgaagatg 235
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 255 aagagagatctgtttgggagttggtggataggaagggtgctagtagatgaagatg 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: 11
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: 239
Length of database: 639
Length adjustment: 9
Effective length of query: 230
Effective length of database: 630
Effective search space:   144900
Effective search space used:   144900
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)

Query= MSMg01no396_o16.g1 MSMg01no396_o16.g1 CHROMAT_FILE:
MSMg01no396_o16.g1 PHD_FILE: MSMg01no396_o16.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:09:10 2005
         (222 letters)



>mm_chr19_59961575_59962196
          Length = 622

 Score =  418 bits (216), Expect = e-121
 Identities = 219/220 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   tccactacagttatttggaaagtggcgatgtatccacctgatctgttcaacaggagcttt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 tccactacagttatttggaaagtggcgatgtatccacctgatctgttcaacaggagcttt 260

                                                                       
Query: 61  ggctatcatcttgtcacctttgtattatccattatgagtctctaccaggtattatgcatc 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ggctatcatcttgtcacctttgtattatccattatgagtctctaccaggtattatgcatc 320

                                                                       
Query: 121 tccctgaaccccttaacgtatcaagagaaaatatatgcaagctcgtgtgtgtgtctgtgt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 tccctgaaccccttaacgtatcaagagaaaatatatgcaagctcgtgtgtgtgtctgtgt 380

                                                   
Query: 181 gtgtgtgtctgtgtgtgtgtgtgtgtgtgtgtgtgtgtgt 220
           |||||||| |||||||||||||||||||||||||||||||
Sbjct: 381 gtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgt 420


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: 41
Number of extensions: 15
Number of successful extensions: 15
Number of sequences better than 10.0: 1
Number of HSP's gapped: 13
Number of HSP's successfully gapped: 1
Length of query: 222
Length of database: 622
Length adjustment: 9
Effective length of query: 213
Effective length of database: 613
Effective search space:   130569
Effective search space used:   130569
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)


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