BAC Information

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BAC

Clone NameMSMg01-127B23
Chromosome5 (Build37)
Map Location 100,400,647 - 100,401,176
singlet/doubletsinglet
Overlap geneHnrpd
Upstream genePrkg2, LOC100041680, Rasgef1b, A930011G23Rik, LOC100040738, LOC666364, LOC100040763, LOC100040774
Downstream gene4930524J08Rik, Hnrpdl, Enoph1, BC062109, LOC666417, Sec31a, LOC100041797, Lin54, Cops4, Plac8, Coq2, Hpse, Hel308, Mrps18c, Ccdc98, A230097K15Rik
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-127B23.T7 (MSMg01no127_b23.b1)MSMg01-127B23.TJ (MSMg01no127_b23.g1)
ACCAG335755AG335756
length694695
length of high quality
(start - end)
527 (50 - 576)288 (81 - 368)
definitionCHROMAT_FILE: MSMg01no127_b23.b1 PHD_FILE: MSMg01no127_b23.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:39:46 2005CHROMAT_FILE: MSMg01no127_b23.g1 PHD_FILE: MSMg01no127_b23.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:39:46 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
TTCCCTCTATAAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGCG
CGGAATTCACTGTGTATACCCACTGTCCTCAAGCTCCCAAAGAGTCTGCC
TCCTGAAAGGAGGGAAGTCTCTAGTCTTCCTGGGAAAACTGGGAGGATGT
TTTCAACCTAGTTATCTTTTTTATGCAGGTTGATTTTGGTTTCCTTTGAA
GTTTGAGATTTAACATAAAAGAATTTAAAATCTTGCTTTGAAAATATATG
CTCTTTTATGTGTTAGTCTTGCATCCTTTTTAGCACTTAGCTTTAAAAAG
TGTAATATAGAAAAAAACTTACTAATTGTCTGTTTAATAGTGGGCAGCTA
ATATCGGTGTGTAGATTTTACTGATGATTTTTTTTTTGATTAGCTAAACA
ATACAGTTTTAAATAGTTAAAACGCACTTTTCAAATGCCATTAACCACAT
CAGATACAAGTTTTGTTATTGTCAAGGGTTTGTCAGGCTATTTCCAGGAT
AGTTTTTATATATATGGCATATGTATATCCCTACTGACAGTTGTCCAGGG
TTAAAAAGTAATGGCCTCATTCTTAGAAATAGCATGATGATGTTTAAAAT
AAACCCTAATTTCTAAGGAAAATGTTAATTAATACGTGCCAGGGAGATTT
TACTAGAGTTTATCATTGTAGCATTTTACAAGTTGAGCTTTAAT
CTCCCACCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCTCCTCCTCCTCCTCCTC
CTCCTCCTCCCCTCCTCCTCCTTTTCCTCTTCCTCCTCCTCCTCTTCTTC
CTCCTCTCCCTCCTCTTTCTCTTTCACCTTCTCTTCTTCCTTCTCTCCCT
CCTTTTCCTCTTCCTCCTCCTCTTCTTCCTCCTCTCCCTCCTCTTCCTCT
TTCACCTCTTCCTCTTCTTCCTTCTCTCCCTCCTCTTCCTCCTCATCCTC
CCCATTTTCCCCCTCCTCCTCCTTCTTTATTTTTTTTTGAGGGGTGAGGT
CACAAGAGTGGTGGGTAGATTTGGGAGGCCTGCCCAGCGAGTGTGATGAC
GTGCATTATGTGAAATTCCCAAACCACAAAAATATAGTGTCAGGCAAAAA
AAGAGAATGCTGAATCTGTAAAGGCATTTTCTCAATTGAGGCTCCCTCCT
CTCTGGTGACTCTAGCTTGTGTCAAGCTGACAAAATAGTCTGAAGAGTGT
TATTACTTACTAAGATAGAGTCTCACACTGAACCCAGAGCTTTCCAATTC
AGCCAGTCTAGTTATCCAGTTCACCCTGAATGATTCCTTGTTTCATCCCA
CCAAGTGCTGGGATTACAGATGAGACTGCTTCGCATTTTGGCGAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no127_b23.b1 MSMg01no127_b23.b1 CHROMAT_FILE:
MSMg01no127_b23.b1 PHD_FILE: MSMg01no127_b23.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:39:46 2005
         (527 letters)



>mm_chr5_100400445_100401376
          Length = 932

 Score =  936 bits (484), Expect = 0.0
 Identities = 517/530 (97%), Gaps = 5/530 (0%)
 Strand = Plus / Minus

                                                                       
Query: 3   ggaattcactgtgtatacccactgtcctcaagctcccaaagagtctgcctcctgaaagga 62
           ||||||||||||||| ||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 732 ggaattcactgtgtagaccaactgtcctcaagctcccaaagagtctgcctcctgaaagga 673

                                                                       
Query: 63  gggaagtctctagtcttcctgggaaaactgggaggatgttttcaacctagttatcttttt 122
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 672 gggaagtctctagtcttcctgggaaaactgggaggatgttttcaacctagttatcttttt 613

                                                                       
Query: 123 tatgcaggttgattttggtttcctttgaagtttgagatttaacataaaagaatttaaaat 182
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 612 tatgcaggttgatttcggtttcctttgaagtttgagatttaacataaaagaatttaaaat 553

                                                                       
Query: 183 cttgctttgaaaatatatgctcttttatgtgttagtcttgcatcctttttagcacttagc 242
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 552 cttgctttgaaaatatatgctcttttatgtgttagtcttgcatcctttttagcacttagc 493

                                                                       
Query: 243 tttaaaaagtgtaatatagaaaaaaacttac----taattgtctgtttaatagtgggcag 298
           |||||||||||||||||||||||||||||||    |||||| ||||||||||||||||||
Sbjct: 492 tttaaaaagtgtaatatagaaaaaaacttactgagtaattgcctgtttaatagtgggcag 433

                                                                       
Query: 299 ctaatatcggtgtgtagattttactgatga-ttttttttttgattagctaaacaatacag 357
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 432 ctaatatcggtgtgtagattttactgatgatttttttttttgattagctaaacaatacag 373

                                                                       
Query: 358 ttttaaatagttaaaacgcacttttcaaatgccattaaccacatcagatacaagttttgt 417
           |||||||||||||||| | | |||||||||||||||||||||||||||||||||||||||
Sbjct: 372 ttttaaatagttaaaaagtagttttcaaatgccattaaccacatcagatacaagttttgt 313

                                                                       
Query: 418 tattgtcaagggtttgtcaggctatttccaggatagtttttatatatatggcatatgtat 477
           ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 312 tattgtcaagggtttgtcaggctatttccaggatagtttttatatatatggtatatgtat 253

                                                             
Query: 478 atccctactgacagttgtccagggttaaaaagtaatggcctcattcttag 527
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 252 atccctactgacagttgtccagggttaaaaagtaatggcctcattcttag 203


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: 27
Number of extensions: 4
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 527
Length of database: 932
Length adjustment: 10
Effective length of query: 517
Effective length of database: 922
Effective search space:   476674
Effective search space used:   476674
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)