BAC Information

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BAC

Clone NameMSMg01-236L03
Chromosome6 (Build37)
Map Location 60,811,035 - 60,967,931
singlet/doubletdoublet
Overlap geneMmrn1
Upstream geneEG627108, EG434019, LOC671300, EG627178, LOC100041706, LOC100041717, A530053G22Rik, LOC667066, LOC100041726, Snca, ENSMUSG00000064018
Downstream geneLOC100041756, LOC100041764, C130092O11Rik, LOC100042694
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-236L03.T7 (MSMg01no236_l03.b1)MSMg01-236L03.TJ (MSMg01no236_l03.g1)
ACCAG401877AG401878
length721780
length of high quality
(start - end)		554 (36 - 589)295 (76 - 370)
definitionCHROMAT_FILE: MSMg01no236_l03.b1 PHD_FILE: MSMg01no236_l03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:54:19 2005CHROMAT_FILE: MSMg01no236_l03.g1 PHD_FILE: MSMg01no236_l03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:54:19 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(60,811,035 - 60,811,575)(60,967,640 - 60,967,931)
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTCGAGAATCCGCGG
AATTCTTACAAAATCTTCCTTAAGGTTTAAGGTACCTATTTTTCTATATA
GCATCACCACAAGACAGTACATCTTCGTAGATCTGCTCCAAAGGGGTATG
CTATTACTTAATGATTGTTATATGTGTTTAATAATAACAGAAAAAATATT
AAAAGCAGGAATCTTTCCTAAAATGAATCCCTTACAGCCTTGCTTAATAA
GGATGCACCTGTCACAGATTATATAATAATACAAAGCAGACCATTCAGGA
TGATCACCTGCTAGTTATTAGCTTGTCCCATTATAGCTCCTGACATATAT
GTTTCTTTAATCTTGTTTTAGGAGCAATGTTTTATCTTTTCGGAATGTTG
GCAAATTATTATGCTTCTTTAAATTTGTTTTAGTAATTTAATGGCAGCTT
TTGCTTTATCACACATTGTGTGTTATTGTTCCTCTTGCTTAGAATAACCA
ATTACTGGTGCTGGTCAGATGTCTCAGGGAGTTAAGGTGCTTGCCACCAT
CACTGATGACCTGAGTTCATTGCCAGAGACTTTTAAATAGAAGATGACAA
AGAACTGTTCACACACATGCATTTACACACACACACCGAGAGAGAGAGAG
AGAGATAGAGAGAGGTGGACGACAGAGCAAATACCATATAATACCAGTTA
CTGGAAAGCTCTTTCATGTGN

CAATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTTTAGGGCCGAGGCCTGCTCTCTGT
TGCCTGGTAATAAAAGCTCTAATTTCACCCTTTATGCATGGAGGTCTGTA
ACTTTCCCACCTGCAGGATAGCAACAGATGCTAATTAAGAATGTGAAAGG
AGAGTTCCGGCTTCAGTGCCCACTGCCTCTGCTCCTAGCTTGTCTGCAGC
CTGTTTCCCCTAAACTGGAACTTCCGGATCCGGACAAATCCCTGGAAATG
GCATGGCAGAGGAGGTACCTTCCTGAGAAACACCTGAAGCAGTCAGGTGA
TTTTGTGATCTGCTTTTTTTTGACCTCACTCTCTATCCAGTATCAATGCC
AGTAATAGTGTGTGTGTGTGGCCCCTCCAAATTAACTATTTTTCCGCCCC
CCGCCCCCCCCTTTTTTTTTTTCTTTTTTTCCCCCTCCCCCCTTAACCCC
ACTTTTCCAACCCTTATTTTTTTTTTCTCCCCCCCCCTCCCCCCCCCCTT
TTTTCCCCCCCCACTTTTTTCCCATTTTTTCCCCCCCCCCTTTTTTTTCC
CTCCTTCCCCCCCCTTTTTTTTTTTTCCCCCCCTTTTTTTCCCTTTCCTC
ATTTTTATTTTTCATTACCATTTATTATGCCCATTCCCCCCCCCTTTTTT
TCTCCCCTTTATTTTCCTCTCTCCCCTTTTTTTATTTTTCTCCCCATTTT
CTTTTCTCCTTCCCTTTCTTTTTTCTTTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no236_l03.b1 MSMg01no236_l03.b1 CHROMAT_FILE:
MSMg01no236_l03.b1 PHD_FILE: MSMg01no236_l03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:54:19 2005
         (554 letters)



>mm_chr6_60810822_60811775
          Length = 954

 Score = 1000 bits (517), Expect = 0.0
 Identities = 535/541 (98%)
 Strand = Plus / Plus

                                                                       
Query: 14  ggaattcttacaaaatcttccttaaggtttaaggtacctatttttctatatagcatcacc 73
           ||||||||||||| ||| || |||||||||||||||||||||||||||||||||||||||
Sbjct: 214 ggaattcttacaagatcatcattaaggtttaaggtacctatttttctatatagcatcacc 273

                                                                       
Query: 74  acaagacagtacatcttcgtagatctgctccaaaggggtatgctattacttaatgattgt 133
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 274 acaagacagtacatcttcgtagatctgctccaaaggggtatgctattacttaatgattgt 333

                                                                       
Query: 134 tatatgtgtttaataataacagaaaaaatattaaaagcaggaatctttcctaaaatgaat 193
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 334 tatatgtgtttaataataacagaaaaaatattaaaagcaggaatctttcctaaaatgaat 393

                                                                       
Query: 194 cccttacagccttgcttaataaggatgcacctgtcacagattatataataatacaaagca 253
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 394 cccttacagccttgcttaataaggatgcacctgtcacagattatataataatacaaagca 453

                                                                       
Query: 254 gaccattcaggatgatcacctgctagttattagcttgtcccattatagctcctgacatat 313
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 454 gaccattcaggatgatcacctgctagttattagcttgtcccattatagctcctgacatat 513

                                                                       
Query: 314 atgtttctttaatcttgttttaggagcaatgttttatcttttcggaatgttggcaaatta 373
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 514 atgtttctttaatcttgttttaggagcaatgttttatcttttcagaatgttggcaaatta 573

                                                                       
Query: 374 ttatgcttctttaaatttgttttagtaatttaatggcagcttttgctttatcacacattg 433
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 574 ttatgcttctttaaatttgttttagtaatttaatggcagcttttgctttatcacacattg 633

                                                                       
Query: 434 tgtgttattgttcctcttgcttagaataaccaattactggtgctggtcagatgtctcagg 493
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 634 tgtgttattgttcctcttgcttagaataaccaattactggtgctggccagatgtctcagg 693

                                                                       
Query: 494 gagttaaggtgcttgccaccatcactgatgacctgagttcattgccagagacttttaaat 553
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 694 gagttaaggtgcttgccaccaacactgatgacctgagttcattgccagagacttttaaat 753

            
Query: 554 a 554
           |
Sbjct: 754 a 754


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: 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: 554
Length of database: 954
Length adjustment: 10
Effective length of query: 544
Effective length of database: 944
Effective search space:   513536
Effective search space used:   513536
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= MSMg01no236_l03.g1 MSMg01no236_l03.g1 CHROMAT_FILE:
MSMg01no236_l03.g1 PHD_FILE: MSMg01no236_l03.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:54:19 2005
         (295 letters)



>mm_chr6_60967440_60968134
          Length = 695

 Score =  534 bits (276), Expect = e-156
 Identities = 288/292 (98%)
 Strand = Plus / Minus

                                                                       
Query: 1   tttagggccgaggcctgctctctgttgcctggtaataaaagctctaatttcaccctttat 60
           |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 492 tttagggccgaggcctgctctctgttgcctggtaataaaagctctaatttgaccctttat 433

                                                                       
Query: 61  gcatggaggtctgtaactttcccacctgcaggatagcaacagatgctaattaagaatgtg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 432 gcatggaggtctgtaactttcccacctgcaggatagcaacagatgctaattaagaatgtg 373

                                                                       
Query: 121 aaaggagagttccggcttcagtgcccactgcctctgctcctagcttgtctgcagcctgtt 180
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 372 aaaggagagttccggcttcagtgcccactgcctctgctcctagcttggctgcagcctgtt 313

                                                                       
Query: 181 tcccctaaactggaacttccggatccggacaaatccctggaaatggcatggcagaggagg 240
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 312 tcccctaaactggaacttccggatccggacaagtccctggaaatggcatggcagaggagg 253

                                                               
Query: 241 taccttcctgagaaacacctgaagcagtcaggtgattttgtgatctgctttt 292
           ||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 252 taccttcctgagaaacacctgaagcagccaggtgattttgtgatctgctttt 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: 12
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: 295
Length of database: 695
Length adjustment: 9
Effective length of query: 286
Effective length of database: 686
Effective search space:   196196
Effective search space used:   196196
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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