BAC Information

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BAC

Clone NameMSMg01-076J14
Chromosome6 (Build37)
Map Location 104,666,293 - 104,828,414
singlet/doubletdoublet
Overlap geneCntn6
Upstream geneChl1, LOC100043345
Downstream geneLOC384470, LOC100043716, LOC100043350, Cntn4
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-076J14.T7 (MSMg01no076_j14.b1)MSMg01-076J14.TJ (MSMg01no076_j14.g1)
ACCAG299137AG299138
length683689
length of high quality
(start - end)
305 (47 - 351)242 (78 - 319)
definitionCHROMAT_FILE: MSMg01no076_j14.b1 PHD_FILE: MSMg01no076_j14.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:25:38 2005CHROMAT_FILE: MSMg01no076_j14.g1 PHD_FILE: MSMg01no076_j14.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:25:38 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(104,828,133 - 104,828,414)(104,666,293 - 104,666,534)
sequence
CTTCTCAATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCAAGAGGATCC
GCGGAATTCCAGGGTTCCCAGGACTACTCAATAAGTTGTTGAAAACTCTG
AACATGTATTAATATGATAATTTTGTGCCAGTCTATTTTAATGAATTAAA
ATTCAAGAGACTTGAGTGCTCAGATCTCCTGAGCACGGTATCTCCCTGCT
CTCTACAGGCAAGACATGTACTTTGAGTTGAGTTATATTCTCACAGAAAT
ACCCGAGTTGTGTTTACAAGTGCAGACTCTGGTCTTGTGGTTTCTGGCTG
CAATATTGTGTTGGGTATTTTTCCTTGGCTGGTTTTTGTTTTCACTTTGA
GATGCCAAGATTTATAGATCGTATTAGCTATATTCCTTGCACATTTGGTA
CAAATGGTGCGTTGCATCACGTAACAATATATATCATAAGCTCATACTTT
AGTAGCCCCTATAACTACCTGCTATATATTTGCCCATTGTGTGCCTAGAC
TTGCTCACTACTCTCTGTACTATCCACCATCGCGACTAACATACTTCCCT
ACCCCTTTTATATCCGCCCTGAAACGCCCCTACCACGAATTACCCCTACA
TATCTCTATCTCTATATCCATATCCATATCCATATCTATACCACAATCAC
ACCTATATCCATATCTCTATCTACCCCTACATG
AAAACCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXACTGAGGGAGTGAAGAAAATTAC
AGTGTAAGGTCCCAAGATTATAGGTTGATGGATACAAAGATCTCTTGGGC
ACTAGCAGCAACCTGTAATTTTTGTGAAGTGGAAAAGGTTATGTTGCTTT
CACAAAGCTAAGGCATGTTTCTTTGCTCTAAAAGACCTTGAATGAGGATC
CCTAAACGGAGACATGGCACTAGGAATTCGTTCAAGATTGTCTTTATTTC
ACAAAGTGTCCAAAAGGTAATAGTCAGCGAGAATAGGTGAATCCCAATTA
CATCGTATCCTTCTTTTTATGTTGAGTACAATTTTCCTATCTAGACACCT
CTGCGGTTCACACTGAACTCCTTGTGCGTCTATTTGATGGAGATGGAAGG
GTAGACTACAGTGAGGTAGAGAGAGACTTGACTAATGCCACCTACAACAA
AGATATCCCATGTACTGTACAATGTCCTCCGCAACACTATGCTACCAACC
AAAAGAACTATTCCGCACCTCTGACAACCTGACTAAGAATCTCTAAGTAT
CCTTTTCATCTTGATAGCTCACCTGCATCCTGCATGTCCGTTTTCGCAAC
ACCTACCCCTAGCTACCTAACCCCACTGAACTACGATAC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no076_j14.b1 MSMg01no076_j14.b1 CHROMAT_FILE:
MSMg01no076_j14.b1 PHD_FILE: MSMg01no076_j14.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:25:38 2005
         (305 letters)



>mm_chr6_104827910_104828614
          Length = 705

 Score =  507 bits (262), Expect = e-148
 Identities = 277/282 (98%)
 Strand = Plus / Minus

                                                                       
Query: 24  aggactactcaataagttgttgaaaactctgaacatgtattaatatgataattttgtgcc 83
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 aggactactcaataagttgttgaaaactctgaacatgtattaatatgataattttgtgcc 446

                                                                       
Query: 84  agtctattttaatgaattaaaattcaagagacttgagtgctcagatctcctgagcacggt 143
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 445 agtctattttaatgaattaaaattcaagagacttgagtgctcagatctcctgagcaccgt 386

                                                                       
Query: 144 atctccctgctctctacaggcaagacatgtactttgagttgagttatattctcacagaaa 203
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 atctccctgctctctacaggcaagacatgtactttgagttgagttatattctcacagaaa 326

                                                                       
Query: 204 tacccgagttgtgtttacaagtgcagactctggtcttgtggtttctggctgcaatattgt 263
           ||| ||||||||||||||||||| ||||||||||||||||||||||||||| ||||||||
Sbjct: 325 tactcgagttgtgtttacaagtgtagactctggtcttgtggtttctggctgtaatattgt 266

                                                     
Query: 264 gttgggtatttttccttggctggtttttgttttcactttgag 305
           ||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 265 gttgggtatttttccttggttggtttttgttttcactttgag 224


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: 10
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: 305
Length of database: 705
Length adjustment: 9
Effective length of query: 296
Effective length of database: 696
Effective search space:   206016
Effective search space used:   206016
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= MSMg01no076_j14.g1 MSMg01no076_j14.g1 CHROMAT_FILE:
MSMg01no076_j14.g1 PHD_FILE: MSMg01no076_j14.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:25:38 2005
         (242 letters)



>mm_chr6_104666093_104666734
          Length = 642

 Score =  437 bits (226), Expect = e-127
 Identities = 238/242 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   actgagggagtgaagaaaattacagtgtaaggtcccaagattataggttgatggatacaa 60
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 actgagcgagtgaagaaaattacagtgtaaggtcccaagattataggttgatggatacaa 260

                                                                       
Query: 61  agatctcttgggcactagcagcaacctgtaatttttgtgaagtggaaaaggttatgttgc 120
           |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 agatctctcgggcactagcagcaacctgtaatttttgtgaagtggaaaaggttatgttgc 320

                                                                       
Query: 121 tttcacaaagctaaggcatgtttctttgctctaaaagaccttgaatgaggatccctaaac 180
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 tttcagaaagctaaggcatgtttctttgctctaaaagaccttgaatgaggatccctaaac 380

                                                                       
Query: 181 ggagacatggcactaggaattcgttcaagattgtctttatttcacaaagtgtccaaaagg 240
           ||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ggagacatggcactaggaatttgttcaagattgtctttatttcacaaagtgtccaaaagg 440

             
Query: 241 ta 242
           ||
Sbjct: 441 ta 442


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: 242
Length of database: 642
Length adjustment: 9
Effective length of query: 233
Effective length of database: 633
Effective search space:   147489
Effective search space used:   147489
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)