BAC Information

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BAC

Clone NameMSMg01-116B06
Chromosome6 (Build37)
Map Location 111,461,353 - 111,603,500
singlet/doubletdoublet
Overlap geneGrm7
Upstream genenone
Downstream gene1700054K19Rik, Lmcd1, D630042P16Rik, LOC619975, Cav3, Oxtr, LOC434076, EG434077, Rad18
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-116B06.T7 (MSMg01no116_b06.b1)MSMg01-116B06.TJ (MSMg01no116_b06.g1)
ACCAG327548AG327549
length704707
length of high quality
(start - end)		483 (76 - 558)508 (81 - 588)
definitionCHROMAT_FILE: MSMg01no116_b06.b1 PHD_FILE: MSMg01no116_b06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:22:13 2005CHROMAT_FILE: MSMg01no116_b06.g1 PHD_FILE: MSMg01no116_b06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:22:13 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(111,461,353 - 111,461,835)(111,602,993 - 111,603,500)
sequence
CCCCTAATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXATCC
GCGGAATTCCTACCCTATTCAAAGAAAAAAGAAAACAAAACAAACTAAAC
TAAACTAATAGAGCAGTGTGTCCATCATTACCCTTTATGTCAGGGACACA
ATGTGACTCTTTAGAAAGACGACCTCAGTGTAGTACTGCTCATTGGTACA
ATACATTATTTTATATGGTAGTATTAAGGGCTAAGTAATGATGAAGTACT
TCAGACTGAATGGGCACCCCAGTAGCTCCGCAAAAGTTCACTCTTAGTTT
TAGTCTGTCTCCTCAAATTAACCTTGATTTTCTGTTTCTGTTCTAGGAAA
GAATGAAGGATACTGCAACTTGCTCACTCCCCTATTGGCTGTTTTGTCTG
CATCTTCTTTCTGTAACACTCCCATAATAAGTTTGTGTCAAACAATCCTC
TTGCATCTGATTTTTGTCTGGAAAAAAACCTGTGAGATTTTCAGATGGAA
ATATCAATAAACCACATGACCTGTCTTCAACCTGCTTAGTATTGATTCAT
TCTGCAGTAATGGTTCCTCAAAGCCAAAGCTTCGGTGAGCTCATGAATGA
GCTATCTGGGGAACTGCATCTAAACACAATCAGTTTTCATTACGTTTCAC
AATTCAGCCCATGTTTTCTGACTTTATGCACAAATTTATTCCAACTGAGA
CCAT

TTTTTAACGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTGGACTGACACAGACTCA
GTTCTCATATCTGATGACAAGCAATGGGCAAAGCATAGTAAGTGCTGGGA
GGAACCAATGGGTACCACGACTCCCTCCAGCCGGGAATACTCAGCTGCTT
TTCATTACTCTACTGGATGTGCTTAAGTCAGTATCACCTCCCTCTGTTCC
ACAAGTTTATTTAATTGCTATTGACTACTGGTATGTATTGAGTTCAAGGT
CAGAAACCACAGTGCCAATTAGACAAACTGGTCTGATGAGAGAACAAGGG
AGAATGTTGTTCTCCTGTTTGAAGGGTATAACAGTGGTTATCATAATGTT
TCTCATCAATATAGCTCACTGGAAAGAACAGGGAGAGCAAGAGCACACCT
TTATGTAAGATGCTCAACTGATCATGGAATTACCGTGGAAAACAGCTCTC
ATTTATTACCAAGCAGTTACTTGCTGAGCACCGCGATAGGATCTTTATTG
GATTAGGATAGTTGAATCTGCTGGTTTTATAGAGATTGAAGTGCTTAAGA
AAAGACCCTCCCAGCACCACATCCCATGACAGAATGGGAGGCAAGGGACT
AGTCCTTCCACTATTACCATATCCTAACATGTACTGTGAGTTCATGAAAG
CTCAGCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no116_b06.b1 MSMg01no116_b06.b1 CHROMAT_FILE:
MSMg01no116_b06.b1 PHD_FILE: MSMg01no116_b06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:22:13 2005
         (483 letters)



>mm_chr6_111461153_111462035
          Length = 883

 Score =  911 bits (471), Expect = 0.0
 Identities = 480/483 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  tatgtcagggacacaatgtgactctttagaaagacgacctcagtgtagtactgctcattg 120
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 tatgtcagggagacaatgtgactctttagaaagacgacctcagtgtagtactgctcattg 320

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

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

                                                                       
Query: 241 aattaaccttgattttctgtttctgttctaggaaagaatgaaggatactgcaacttgctc 300
           |||||||||||||||||||||||||||||||||| || ||||||||||||||||||||||
Sbjct: 441 aattaaccttgattttctgtttctgttctaggaacgagtgaaggatactgcaacttgctc 500

                                                                       
Query: 301 actcccctattggctgttttgtctgcatcttctttctgtaacactcccataataagtttg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 actcccctattggctgttttgtctgcatcttctttctgtaacactcccataataagtttg 560

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

                                                                       
Query: 421 tggaaatatcaataaaccacatgacctgtcttcaacctgcttagtattgattcattctgc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 tggaaatatcaataaaccacatgacctgtcttcaacctgcttagtattgattcattctgc 680

              
Query: 481 agt 483
           |||
Sbjct: 681 agt 683


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: 483
Length of database: 883
Length adjustment: 10
Effective length of query: 473
Effective length of database: 873
Effective search space:   412929
Effective search space used:   412929
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= MSMg01no116_b06.g1 MSMg01no116_b06.g1 CHROMAT_FILE:
MSMg01no116_b06.g1 PHD_FILE: MSMg01no116_b06.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:22:13 2005
         (508 letters)



>mm_chr6_111602793_111603700
          Length = 908

 Score =  928 bits (480), Expect = 0.0
 Identities = 501/508 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tttggactgacacagactcagttctcatatctgatgacaagcaatgggcaaagcatagta 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 708 tttggactgacacagactcagttctcatatctgatgacaagcaatgggcaaagcatagta 649

                                                                       
Query: 61  agtgctgggaggaaccaatgggtaccacgactccctccagccgggaatactcagctgctt 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 648 agtgctgggaggaaccaatgggtaccacgactccctccagccgggaatactcagctgctt 589

                                                                       
Query: 121 ttcattactctactggatgtgcttaagtcagtatcacctccctctgttccacaagtttat 180
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 588 ttcattactctactggaggtgcttaagtcagtatcacctccctctgttccacaagtttat 529

                                                                       
Query: 181 ttaattgctattgactactggtatgtattgagttcaaggtcagaaaccacagtgccaatt 240
           |||| |||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 528 ttaactgctatcgactactggtatgtattgagttcaaggtcagaaaccacagtgccaatt 469

                                                                       
Query: 241 agacaaactggtctgatgagagaacaagggagaatgttgttctcctgtttgaagggtata 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 468 agacaaactggtctgatgagagaacaagggagaatgttgttctcctgtttgaaggatata 409

                                                                       
Query: 301 acagtggttatcataatgtttctcatcaatatagctcactggaaagaacagggagagcaa 360
           ||||||||||||||||||||||||||||||||||||||||||||| || |||||||||||
Sbjct: 408 acagtggttatcataatgtttctcatcaatatagctcactggaaaaaatagggagagcaa 349

                                                                       
Query: 361 gagcacacctttatgtaagatgctcaactgatcatggaattaccgtggaaaacagctctc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 348 gagcacacctttatgtaagatgctcaactgatcatggaattaccgtggaaaacagctctc 289

                                                                       
Query: 421 atttattaccaagcagttacttgctgagcaccgcgataggatctttattggattaggata 480
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 288 ttttattaccaagcagttacttgctgagcaccgcgataggatctttattggattaggata 229

                                       
Query: 481 gttgaatctgctggttttatagagattg 508
           ||||||||||||||||||||||||||||
Sbjct: 228 gttgaatctgctggttttatagagattg 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: 24
Number of extensions: 2
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: 508
Length of database: 908
Length adjustment: 10
Effective length of query: 498
Effective length of database: 898
Effective search space:   447204
Effective search space used:   447204
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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