BAC Information

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BAC

Clone NameMSMg01-260C13
Chromosome1 (Build37)
Map Location 20,208,538 - 20,429,838
singlet/doubletdoublet
Overlap genePkhd1
Upstream geneTcfap2b, LOC100040198, LOC226901
Downstream geneIl17a, Il17f, Mcm3, Paqr8, Efhc1, Tram2, LOC100040291, Tmem14a, Gsta3, EG632802, EG241041, LOC100040309, Ndg1, BC099381, LOC100040319, AU024076, Kcnq5
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-260C13.T7 (MSMg01no260_c13.b1)MSMg01-260C13.TJ (MSMg01no260_c13.g1)
ACCAG402900AG402901
length762775
length of high quality
(start - end)
284 (98 - 381)245 (79 - 323)
definitionCHROMAT_FILE: MSMg01no260_c13.b1 PHD_FILE: MSMg01no260_c13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:56:10 2005CHROMAT_FILE: MSMg01no260_c13.g1 PHD_FILE: MSMg01no260_c13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:56:10 2005
singlet/doubletdoubletdoublet
BLAST hituniqueplural
Map location.(20,208,538 - 20,208,821)(20,429,698 - 20,429,838)
sequence
CTCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCATGATGATTCCCCCTTACTGGTGGCTTACTACAATTACAGGTGT
GAGATTCCCTGCCTGGCAGACTTCCTGATTCTTAGGAACCTTCTTCCTCT
CTCCAGGAGGGAGTGTTTCAATTAGGAGAAAACAGCTAAGCAACACAGAA
AACCAGTATGCTATGATACTTACACTTTTAAAATACTTTCAGTAAAATAT
CCCTCTGTGAGAGTGATTCTAGGAGATGCTGGCTTTTAATAGTTCTAATT
TTTAGAACATAACCAGTGGAATTAATCTCTCTGAGAAATATTATTCAGCC
GTAAGAACTTCTAGCTTCGTAATACTTCTCTAACTTTTGTGACTCCAGTT
AAATAAAATGTTGATTATACCCCAACTCATATATTTCTGATAGATTTACA
TGGGAATATTTACTATAAATAATCATATAGAATGAATCATATACTGATAT
ATATGTGTTAATATTTATATAGTATGGATGTGTGTATACGTATACGTATT
TGTATATTGCCCTTTCGTTCTTTTCTGAAGTTGGAACATAACACATTATA
AGAGATTCACATATCCATGTTCTTTGATTTCTTCTAGTCTTTCTGGGATA
TTGAGCTTCTAGAATTTTTTTTATCAAATCAAACTAACTATACAATACCA
CTAACGCCCATATGGTAACAATTCACCNCATATACATTAAATAGAAAATA
CATAATATATAA
NCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXCATAAGGTCCCAAGAAGCAGCT
TAATTAAGTCTGCACAGGAAAGTATTAACAAGGAGTTTTGAAAATCACCT
GTAACTTCTTTTGCCTTGGATGTCTTTGGGTTGTGAGCCTCTTCCTGGTG
ACAGGCTAACGTAACTTTCATCATGAGAAACGGTGAATCACTGAGAGAAT
TTGTAATCTAATTAGAACTTGACTTTTGTTTGTGTCAGTGCATGTGTGTT
GGAGTGTGTGTGGAGATTGTGAGTTTTTTTATTAGATATTCTGTTTCTAT
CATATGTTACAACTGTTTTATAACACCCCCCAATCAATCAGATGGTATTA
TGTACAACCTCTAGTACCACCCCTCCTTAAACTGACTCAATATTTGACTT
CTCATTTTTAATGTAATCCGACCATGACATTTTTGACATCATAGCTCAAT
TATTGAATTATTCCATAGGGAAAATAATAACCTTGCTGTTAAATGAGATT
ATTGTGTACAGAATTTAAACTGATTGAATGTTTATATCGTATGAAACTTC
CCATACTTGCATTTATTTCTGCACATCCTTTTACTTTTATTGTAACTTAT
TTCGTGCTCTCGCCCTCTGTTGTGTGTTCTATGTTTATCACCCCATTTCA
CTCCCACTTTCTTGTTACTCCCCTATGTTCTGTGATCTCCCTCTTCACTC
TCTTCTTTTCCCCCTCTTTTATTCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no260_c13.b1 MSMg01no260_c13.b1 CHROMAT_FILE:
MSMg01no260_c13.b1 PHD_FILE: MSMg01no260_c13.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:56:10 2005
         (284 letters)



>mm_chr1_20208338_20209021
          Length = 684

 Score =  495 bits (256), Expect = e-144
 Identities = 277/284 (97%)
 Strand = Plus / Plus

                                                                       
Query: 1   tgtgagattccctgcctggcagacttcctgattcttaggaaccttcttcctctctccagg 60
           ||||||||||||||||||| | ||||||||||||||| ||||||||||||||||||||||
Sbjct: 201 tgtgagattccctgcctggaaaacttcctgattcttatgaaccttcttcctctctccagg 260

                                                                       
Query: 61  agggagtgtttcaattaggagaaaacagctaagcaacacagaaaaccagtatgctatgat 120
           |||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 261 agggagtgtttcaattaggagaaaacagctaagcaacacagaaaaccactatgctatgat 320

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

                                                                       
Query: 181 gctggcttttaatagttctaatttttagaacataaccagtggaattaatctctctgagaa 240
           |||||||||||||||||||||||||||||||||||||||||||||||| | | |||||||
Sbjct: 381 gctggcttttaatagttctaatttttagaacataaccagtggaattaaacacactgagaa 440

                                                       
Query: 241 atattattcagccgtaagaacttctagcttcgtaatacttctct 284
           ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 atattattcagccgtaagaacttctagcttcgtaatacttctct 484


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: 284
Length of database: 684
Length adjustment: 9
Effective length of query: 275
Effective length of database: 675
Effective search space:   185625
Effective search space used:   185625
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= MSMg01no260_c13.g1 MSMg01no260_c13.g1 CHROMAT_FILE:
MSMg01no260_c13.g1 PHD_FILE: MSMg01no260_c13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:56:10 2005
         (245 letters)



>mm_chr1_20429498_20430142
          Length = 645

 Score =  273 bits (141), Expect = 8e-78
 Identities = 141/141 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   cataaggtcccaagaagcagcttaattaagtctgcacaggaaagtattaacaaggagttt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 341 cataaggtcccaagaagcagcttaattaagtctgcacaggaaagtattaacaaggagttt 282

                                                                       
Query: 61  tgaaaatcacctgtaacttcttttgccttggatgtctttgggttgtgagcctcttcctgg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 281 tgaaaatcacctgtaacttcttttgccttggatgtctttgggttgtgagcctcttcctgg 222

                                
Query: 121 tgacaggctaacgtaactttc 141
           |||||||||||||||||||||
Sbjct: 221 tgacaggctaacgtaactttc 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: 6
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: 245
Length of database: 645
Length adjustment: 9
Effective length of query: 236
Effective length of database: 636
Effective search space:   150096
Effective search space used:   150096
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)