BAC Information

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BAC

Clone NameMSMg01-465I20
Chromosome6 (Build37)
Map Location 9,174,543 - 9,330,090
singlet/doubletdoublet
Overlap geneNxph1
Upstream geneBC020002, Rpa3, LOC100036521, LOC667028, A430035B10Rik, Glcci1, Ica1, LOC100040238
Downstream geneLOC330264
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-465I20.T7 (MSMg01no465_i20.b1)MSMg01-465I20.TJ (MSMg01no465_i20.g1)
ACCAG549705AG549706
length799742
length of high quality
(start - end)
314 (37 - 350)452 (64 - 515)
definitionCHROMAT_FILE: MSMg01no465_i20.b1 PHD_FILE: MSMg01no465_i20.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:40:42 2005CHROMAT_FILE: MSMg01no465_i20.g1 PHD_FILE: MSMg01no465_i20.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:40:42 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(9,329,778 - 9,330,090)(9,174,543 - 9,174,997)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCATAA
GTGGCCAACTTTGTCTACTCTGTAACTATCTTATCCCAGGCTTTCCTCCC
ATTGGTGTAGACTAAATATCATTGCAAGAGACCTGACTAAAAATAAAAGT
AAAATAGTAGTAAAATGAAATTATAAAGCTTCAGAGTTTATTTTTAGGAA
ATAATCGTATGAAAAGGATGGGTGTAAGCATTCTTATAGACATCATTTCT
TTCAAATATTGTCAATAAACAAGTGATTAGTTTAAAACCCTCAGGAGATT
GGAGGCCCCAGGGAGTGGAGAAGTCTGGGAGGGTGAGGGTGGGGATGATG
TTTTTTTTNTNTTNNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
NNNNNCCNNTTTTNNTTTTTTNTTTTTTTTTTTTTTTTTTTTTTTTTTCT
TTTTTCTTTTTTTCTTTTTTCCCTTTCCTTCTTTNTTCCTTTTTCCCCCT
TTTTTTTTTTTCCCCTTCCTTCTTCCCCTTCCCCCTTTCCCTCCCCCCCT
CCCCCCCTTTTTTTTTTCTTTTTTTCTTCCCCCTCCTTCTTTTCTCTTCT
TTCTTTTTTCTTCCTTTTTTTTTTCTCCTTTCTCTTTCTCCCCTCTCCCC
CTCTCTTTTTTTTTTTTTTTTTCTCTTTTTCCTCCTTCTTCCTTTCTCCT
CTTCCTTCTTTTCTCCCTTCCTCTCCGCTTCTTCCCTCTTCTCCTTTTCT
CTCTCTTTTTCCCTTCTTTTCTCTCTTCTCTTTTTTCTCTTCTTTCCCC
TGGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXTGTGTGAGAGTGGATAAGCACTGCTGTCCTGGGTCAC
TGGCGTACTTTCGCATCTGTCTCTTGCCTCTGTTTGGCATTTGACTCTGG
CTTTAATGCCAGGATCCTTTCCTCTCCCTCTATGCTTCAGCCTCTATGCA
GAAGGTTCCAGGCTACCATTGGATGCCTGAAGAACCTCCCTTGATTTGTT
AACCATTTTGAATTGTGTCCCAAGAATGAACATGCAAAAGTAATCTTTGA
TGGAATTTTAAATGCATCCATTTGTGTTTCTTTCTCAAGAGGCCGCGGTC
CCGCACCTGTCCTCTGCTCTGTAAGTTTGCAGAGTACTGTGAACAGAGGG
CTCATGAAGGGCTGCATCTTTTTCTTCAATGAATGGTGTTTCCAGGCATA
CTAATTTCATTTTCCTGACCTCACTTTAGGAAACATCATCAAAGGTAATG
GTCTTTGTTAGTTTGCTGTTGACTATGCTTCTGGACTTAAATAGAAAGGA
ATTTTATTATGTGCATTCTCCCCTGTAAGAAAGCTCCCACAATCTTGTCG
AACATAATAAACGCCACACCCAACTTTTCATCACATCCCACCTTTTAACA
CTCCCACCGGTACTCTAATTGAATCTTCTATTTTTTCCTTTCAATCCCCC
TTTTATTCGCCCGCAATCTTTTATTATTTTATCACTTCTATG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no465_i20.b1 MSMg01no465_i20.b1 CHROMAT_FILE:
MSMg01no465_i20.b1 PHD_FILE: MSMg01no465_i20.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:40:42 2005
         (314 letters)



>mm_chr6_9329637_9330355
          Length = 719

 Score =  514 bits (266), Expect = e-150
 Identities = 300/314 (95%), Gaps = 7/314 (2%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcataagtggccaactttgtctactctgtaactatcttatcccaggctttcctccc 64
           ||||||||||| ||  ||| |||||||||||||||||||||||||||||| |||||||||
Sbjct: 454 gaattcataagagggaaacattgtctactctgtaactatcttatcccaggttttcctccc 395

                                                                       
Query: 65  attggtgtagactaaatat-----cattgcaagagacctgactaaaaataaaagtaaaat 119
           |||||||||||||||||||     ||||||||||||||||||||||||||||||||||||
Sbjct: 394 attggtgtagactaaatatcattgcattgcaagagacctgactaaaaataaaagtaaaat 335

                                                                       
Query: 120 agtagtaaaatgaa-attataaagcttcagagtttatttttaggaaataatcgtatgaaa 178
           ||||||||||| || | |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 334 agtagtaaaattaaga-tataaagcttcagagtttatttttaggaaataatcgtatgaaa 276

                                                                       
Query: 179 aggatgggtgtaagcattcttatagacatcatttctttcaaatattgtcaataaacaagt 238
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 275 aggatgggtgtaagcattcttatagacatcatttctttcaaatattgtcaataaacaagt 216

                                                                       
Query: 239 gattagtttaaaaccctcaggagattggaggccccagggagtggagaagtctgggagggt 298
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 215 gattagtttaaaaccctcaggagactggaggccccagggagtggagaagtctgggagggt 156

                         
Query: 299 gagggtggggatga 312
           ||||||||||||||
Sbjct: 155 gagggtggggatga 142


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: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 314
Length of database: 719
Length adjustment: 9
Effective length of query: 305
Effective length of database: 710
Effective search space:   216550
Effective search space used:   216550
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= MSMg01no465_i20.g1 MSMg01no465_i20.g1 CHROMAT_FILE:
MSMg01no465_i20.g1 PHD_FILE: MSMg01no465_i20.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:40:42 2005
         (452 letters)



>mm_chr6_9174343_9175197
          Length = 855

 Score =  801 bits (414), Expect = 0.0
 Identities = 445/456 (97%), Gaps = 5/456 (1%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  ttgcctctgtttggcatttgactctggctttaatgccaggatcctttcctctccctctat 120
           ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ttgcctctgttgggcatttgactctggctttaatgccaggatcctttcctctccctctat 320

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

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

                                                                       
Query: 241 aattttaaatgcatccatttgtgtttctttctcaagaggccgcggtccc-gcacctgtcc 299
           |||||||||||||||||||||||||||||||||||||||| || | ||| ||||||||||
Sbjct: 441 aattttaaatgcatccatttgtgtttctttctcaagaggctgcag-ccctgcacctgtcc 499

                                                                       
Query: 300 tctgctctgtaagtttgcagagtactgtgaacagagggctcatgaagggctgcatctttt 359
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 500 tctgctctgtaagtttgcagagtactgtgaacagagggctcatgaagggctgcatctttt 559

                                                                       
Query: 360 tcttcaatgaatggtgtttccaggcatactaatttcattttcctgacctcactttaggaa 419
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 560 tcttgaatgaatggtgtttccaggcatactaatttcattttcctgacctcactttaggaa 619

                                               
Query: 420 acatcatcaaaggt-a--atggtctttgttagtttg 452
           |||||||||||||| |  ||  ||||||||||||||
Sbjct: 620 acatcatcaaaggttatcatcatctttgttagtttg 655


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: 19
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: 452
Length of database: 855
Length adjustment: 10
Effective length of query: 442
Effective length of database: 845
Effective search space:   373490
Effective search space used:   373490
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)