BAC Information

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BAC

Clone NameMSMg01-413D11
Chromosome18 (Build37)
Map Location 77,594,587 - 77,789,602
singlet/doubletdoublet
Overlap geneLoxhd1, Rnf165
Upstream geneEG639576, EG664805, LOC620139, Ier3ip1, Hdhd2, Katnal2, Pias2, EG639653, St8sia5
Downstream gene8030462N17Rik, 4930465K10Rik, Ccdc5, Atp5a1, Pstpip2, 5430411K18Rik, Cd33l3, Slc14a1, Slc14a2, EG620155
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-413D11.T7 (MSMg01no413_d11.b1)MSMg01-413D11.TJ (MSMg01no413_d11.g1)
ACCAG509802AG509803
length729752
length of high quality
(start - end)
502 (60 - 561)230 (318 - 547)
definitionCHROMAT_FILE: MSMg01no413_d11.b1 PHD_FILE: MSMg01no413_d11.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:30:50 2005CHROMAT_FILE: MSMg01no413_d11.g1 PHD_FILE: MSMg01no413_d11.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:30:50 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(77,594,587 - 77,595,088)(77,789,374 - 77,789,602)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCTGC
ATATTCTCCCATGGGTTTTTTGGTGAGCAATGGGAATTAAGAACCTTCAG
CCTGTCTAAGCCAAGGCTTGGCGTGAGTCGGCTCCCAAGTGGCTCACATC
AGTGGAGTTTGGGACTTGGGTTAAGGGATAAAGTCATCCCAATAAAGAAG
TAGATGTGGGAGTCAGCCAATGGTGTCCCCCCTCTCTCTCTGCCAGTGGC
CCGGTATCGTGTGACTGTATGCACAGGGGAACTTGAAGGTGCAGGAACTG
ATGCCAATGTCTATCTCTGCCTTTTTGGTGATGTGGGGGACACAGGGGAG
CGGCTGCTTTACAACTGCAGGAACAACACTGACCTGTTTGAGAAAGGCAA
TGTAAGTATTGAGGTTGTGCACCTCTCCCCCAGCCCACCTCTGCTTTCTC
CTCTCTGAAGCAGAGTTGATGGCAGGCGCTGGGACCTCAGCAGTGAGGTA
ACATTTGTCCAGATGAGGGTAGTGGGGCTTGGGGAGTCATTTTGGCTCAC
TGTCATTTGCTAACATCCATGGCAGCTACAGGGCTGACTTCGCTGGTGGA
GACTTAGAGGTGAAAGGCGTTTGTTGACTTCTTCGCTCTTTCCTTTTTTT
ACCCCTTTCTTGGTGATTGTGATTTTGAACGTGATGTGCTAGTGTTATAC
TGTTTTGATCCAACCCCATGGTCCTCTTG
TGTGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXAGTTCTTAACCCCTGGATTTTCTGCCTTCTTTTCT
CTTTTCTGTCCTCTGTGTCCCGTGATGCCCTCACCCTGCCATAGCAGATT
CCTGAGATAACTACCCCAACAGAGAGGCAGAGGCCATTAGCCAGGTACAC
CTCCAGGCCTAACCATGCCACCCATGCTAACACGTCAAGCCAGTTACAGA
ACTTGGGTCCACACACTACTTATCACTGTCCTCAGGGCTCTGCTGTTTCC
AAGAACCTTTGTGGGTACAGACGGAGAGGTGGTGGTGGATGCCCCTGCTG
ATTGATTGATGTGCTCTCTGTCACAAGGCCTCTGAGCAATCGTACAGGCT
GGAGAGCGTATCCAGGAGGAGGTGGATCTTAAGCTGGGACAGAAGGTCTA
CTCTGTGTCTGCGGGAAGTGGGAGAAAGGGGGCACTGAGTATAGAGACCA
TGTAAGGGGCATTAGGAAGTTATTGGGTCTAGTGGGTCCAGTCCTAGGGT
CTGAACATCAGGTTTGAGCACAGTCTATGAAGGGGGAAAGCTTGCCCCAG
GCATTGGTCCTTAGCCCTGCTGATGGGGCCACTCCACCTCTGTTATTTTT
TTTTGTGGTAGGAAAGAGAGGAAATGAACTTATTTCCCGTTGCCTTTGTT
TTATGTAAGTATCCTAAACCAGCTGGTGGGATCCAGATTACCCTCCCGTT
CT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no413_d11.b1 MSMg01no413_d11.b1 CHROMAT_FILE:
MSMg01no413_d11.b1 PHD_FILE: MSMg01no413_d11.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:30:50 2005
         (502 letters)



>mm_chr18_77594387_77595288
          Length = 902

 Score =  940 bits (486), Expect = 0.0
 Identities = 498/502 (99%)
 Strand = Plus / Plus

                                                                       
Query: 1   catgggttttttggtgagcaatgggaattaagaaccttcagcctgtctaagccaaggctt 60
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 catgggttttttggtgagcgatgggaattaagaaccttcagcctgtctaagccaaggctt 260

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

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

                                                                       
Query: 181 ctgccagtggcccggtatcgtgtgactgtatgcacaggggaacttgaaggtgcaggaact 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ctgccagtggcccggtatcgtgtgactgtatgcacaggggaacttgaaggtgcaggaact 440

                                                                       
Query: 241 gatgccaatgtctatctctgcctttttggtgatgtgggggacacaggggagcggctgctt 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gatgccaatgtctatctctgcctttttggtgatgtgggggacacaggggagcggctgctt 500

                                                                       
Query: 301 tacaactgcaggaacaacactgacctgtttgagaaaggcaatgtaagtattgaggttgtg 360
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 501 tacaactgcaggaacaacaccgacctgtttgagaaaggcaatgtaagtattgaggttgtg 560

                                                                       
Query: 361 cacctctcccccagcccacctctgctttctcctctctgaagcagagttgatggcaggcgc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 cacctctcccccagcccacctctgctttctcctctctgaagcagagttgatggcaggcgc 620

                                                                       
Query: 421 tgggacctcagcagtgaggtaacatttgtccagatgagggtagtggggcttggggagtca 480
           ||||||||||||||||||||||||| |||||||||||||| |||||||||||||||||||
Sbjct: 621 tgggacctcagcagtgaggtaacatctgtccagatgaggggagtggggcttggggagtca 680

                                 
Query: 481 ttttggctcactgtcatttgct 502
           ||||||||||||||||||||||
Sbjct: 681 ttttggctcactgtcatttgct 702


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: 26
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: 502
Length of database: 902
Length adjustment: 10
Effective length of query: 492
Effective length of database: 892
Effective search space:   438864
Effective search space used:   438864
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= MSMg01no413_d11.g1 MSMg01no413_d11.g1 CHROMAT_FILE:
MSMg01no413_d11.g1 PHD_FILE: MSMg01no413_d11.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:30:50 2005
         (230 letters)



>mm_chr18_77789174_77789803
          Length = 630

 Score =  420 bits (217), Expect = e-122
 Identities = 226/229 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   cagacggagaggtggtggtggatgcccctgctgattgattgatgtgctctctgtcacaag 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 429 cagacggagaggtggtggtggatgcccctgctgattgattgatgtgctctctgtcacaag 370

                                                                       
Query: 61  gcctctgagcaatcgtacaggctggagagcgtatccaggaggaggtggatcttaagctgg 120
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 369 gcctctgagcaatcgtacaggctggagagggtatccaggaggaggtggatcttaagctgg 310

                                                                       
Query: 121 gacagaaggtctactctgtgtctgcgggaagtgggagaaagggggcactgagtatagaga 180
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 309 gacagaaggtctactctgtgtctgtgggaagtgggagaaagggggcactgagtatagaga 250

                                                            
Query: 181 ccatgtaaggggcattaggaagttattgggtctagtgggtccagtccta 229
           ||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 249 ccatgtaaggggcattaggaagttattgggtctagtgggtccaatccta 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: 10
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: 230
Length of database: 630
Length adjustment: 9
Effective length of query: 221
Effective length of database: 621
Effective search space:   137241
Effective search space used:   137241
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)