BAC Information

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BAC

Clone NameMSMg01-416J17
Chromosome6 (Build37)
Map Location 63,711,566 - 63,870,962
singlet/doubletdoublet
Overlap geneGrid2
Upstream geneGA_x5J8B7W6GG0-4757855-4757501, LOC667099
Downstream geneAtoh1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-416J17.T7 (MSMg01no416_j17.b1)MSMg01-416J17.TJ (MSMg01no416_j17.g1)
ACCAG512384AG512385
length703719
length of high quality
(start - end)
603 (62 - 664)554 (83 - 636)
definitionCHROMAT_FILE: MSMg01no416_j17.b1 PHD_FILE: MSMg01no416_j17.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:35:16 2005CHROMAT_FILE: MSMg01no416_j17.g1 PHD_FILE: MSMg01no416_j17.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:35:17 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(63,711,566 - 63,712,165)(63,870,410 - 63,870,962)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCCT
AATTATTTCATACACAGACAAAATAATTGATATACACAGTCAGAAAAAAA
TCAATTTGTGATAAAAATGGAGGACAGAATGTTGTGGTACTTAAATATTT
ACGGTTTTTTTTCCCATTTTCTCTATGGCTTTAAACACTTATTAAACTCA
AAGGAAGCTATAGTAGGGTTCTTCAGACATATTAAAAATAACCTTGTAAA
ATCCTTTCTGAGAACAGTCCCTATCTTTCTCAATTTATCCTTCATTGAGT
TTCAGCGATGACTAGCTGAAGGGAGTGCTTAGTGATCGGAGTAAAGTGAG
TATATTGCCAGACAGGTGATTAAAGAAAGTTAACCATGTCTTTCTCAGTT
ACTTCCTCTGGGCTCTTTATTCTTTTTCAGATGAAATATCTCCTTTCAAA
TCAGGGACACTGTGCAAAATAGGAATGGATCTGAGATGACACACATCCTA
AGCTCCTATCCTGGCTCTGATCCTTTTTAACTATCAGACATTAGACAGTC
ACTGAACTTCCTGAGCCTATTTCCTCGTGTGAAAAATGAAGGGGCTGGAA
GAGAATGATCCTGAAATTACCCTCCTTTTATGCTGTAACAATGCAGTAGC
CCCCTTTTGTCGCTCTCAGCCTTTCAAATTTGAGAAATTCTCGCTCTATG
TTT
CATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGGAAAACAGGCTGGGGTC
AGTAAGTTGCTTCTACATAGCTCTCTTCACTTTGAATCACTTTTATAATT
GATGTCTTCAATTTTCATTTTCTCAGTTTCTGCTGTCTTCACAGAGCAAA
AGGCCATTCTTTTTATTTATGAAATAACCTCTTCTTCATCCTTTATTTTC
TCATGTGTCCACCCATCTATACTTGACTCCTGATGATCCTATGTGCATAG
GCTAGTCAGCCTGTGTCCTTGGTTCTTAGGAAACAACTGAAATTTGAATA
AAGCTATAATGTAAATGAATTGCTTTTCTTGTATATTGAGTTGTCATGAG
GTAGTTTTAATATTATAAGAGTCGGAAGATCTGGTCAGACAAGTGAATCA
GAAAGGTAGTTTGGTCCCTAAACTTAACAAAACCCCACCAGTCAACTACA
AATTAAACAAGGAAGAAGGGGGTTAGAAAAAGAGGAAGAAGCAGAAGAAA
GGGAACTTTAACTTTTAATTCTGAGTGTTTGACCCATTAGATACACACAT
GCAAACACCACACACACACACACACACACACACACACACACACACACACA
CACACATATACTTCCCCTCTCTCCAACCCCTACTCCTTATANAGAGATAG
AGATAGAGAGAGAGAAAGC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no416_j17.b1 MSMg01no416_j17.b1 CHROMAT_FILE:
MSMg01no416_j17.b1 PHD_FILE: MSMg01no416_j17.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:35:16 2005
         (603 letters)



>mm_chr6_63711366_63712368
          Length = 1003

 Score = 1098 bits (568), Expect = 0.0
 Identities = 592/600 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   acacagacaaaataattgatatacacagtcagaaaaaaatcaatttgtgataaaaatgga 60
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 201 acacagacaaaataattgatatacatagtcagaaaaaaatcaatttgtgataaaaatgga 260

                                                                       
Query: 61  ggacagaatgttgtggtacttaaatatttacggttttttttcccattttctctatggctt 120
           |||||||||||||||||||||||||||||| | |||||||| ||||||||||||||||||
Sbjct: 261 ggacagaatgttgtggtacttaaatatttatgttttttttttccattttctctatggctt 320

                                                                       
Query: 121 taaacacttattaaactcaaaggaagctatagtagggttcttcagacatattaaaaataa 180
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 taaacatttattaaactcaaaggaagctatagtagggttcttcagacatattaaaaataa 380

                                                                       
Query: 181 ccttgtaaaatcctttctgagaacagtccctatctttctcaatttatccttcattgagtt 240
           ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ccttgtagaatcctttctgagaacagtccctatctttctcaatttatccttcattgagtt 440

                                                                       
Query: 241 tcagcgatgactagctgaagggagtgcttagtgatcggagtaaagtgagtatattgccag 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tcagcgatgactagctgaagggagtgcttagtgatcggagtaaagtgagtatattgccag 500

                                                                       
Query: 301 acaggtgattaaagaaagttaaccatgtctttctcagttacttcctctgggctctttatt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 acaggtgattaaagaaagttaaccatgtctttctcagttacttcctctgggctctttatt 560

                                                                       
Query: 361 ctttttcagatgaaatatctcctttcaaatcagggacactgtgcaaaataggaatggatc 420
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 ctttttcagatgaaatatcgcctttcaaatcagggacactgtgcaaaataggaatggatc 620

                                                                       
Query: 421 tgagatgacacacatcctaagctcctatcctggctctgatcctttttaactatcagacat 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 tgagatgacacacatcctaagctcctatcctggctctgatcctttttaactatcagacat 680

                                                                       
Query: 481 tagacagtcactgaacttcctgagcctatttcctcgtgtgaaaaatgaaggggctggaag 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 tagacagtcactgaacttcctgagcctatttcctcgtgtgaaaaatgaaggggctggaag 740

                                                                       
Query: 541 agaatgatcctgaaattaccctccttttatgctgtaacaatgcagtagcccccttttgtc 600
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 741 agaatgatcctgaaattaccctccttttatgttgtaacaatgcagtagcccccttttgtc 800


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: 30
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: 603
Length of database: 1003
Length adjustment: 10
Effective length of query: 593
Effective length of database: 993
Effective search space:   588849
Effective search space used:   588849
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= MSMg01no416_j17.g1 MSMg01no416_j17.g1 CHROMAT_FILE:
MSMg01no416_j17.g1 PHD_FILE: MSMg01no416_j17.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:35:17 2005
         (554 letters)



>mm_chr6_63870254_63871206
          Length = 953

 Score = 1025 bits (530), Expect = 0.0
 Identities = 548/554 (98%), Gaps = 1/554 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   ggaaaacaggctggggtcagtaagttgcttctacatagctctcttcactttgaatcactt 60
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 709 ggaaaacaggctggggtcagtaagttgcttctacatagctctcttcactttgaatcgctt 650

                                                                       
Query: 61  ttataattgatgtcttcaattttcattttctcagtttctgctgtcttcacagagcaaaag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 649 ttataattgatgtcttcaattttcattttctcagtttctgctgtcttcacagagcaaaag 590

                                                                       
Query: 121 gccattctttttatttatgaaataacctcttcttcatcctttattttctcatgtgtccac 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 589 gccattctttttatttatgaaataacctcttcttcatcctttattttctcatgtgtccac 530

                                                                       
Query: 181 ccatctatacttgactcctgatgatcctatgtgcataggctagtcagcctgtgtccttgg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 529 ccatctatacttgactcctgatgatcctatgtgcataggctagtcagcctgagtccttgg 470

                                                                       
Query: 241 ttcttaggaaacaactgaaatttgaataaagctataatgtaaatgaattgcttttcttgt 300
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 469 gtcttaggaaacaactgaaatttgaataaagctataatgtaaatgaattgcttttcttgt 410

                                                                       
Query: 301 atattgagttgtcatgaggtagttttaatattataagagtcggaagatctggtcagacaa 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 409 atattgagttgtcatgaggtagttttaatattataagagtcggaagatctggtcagacaa 350

                                                                       
Query: 361 gtgaatcagaaaggtagtttggtccctaaacttaacaaaaccccaccagtcaactacaaa 420
           ||||||||| ||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 349 gtgaatcaggaaggtagtttggtccctaaacttaacaaa-ccccaccagtcaactacaaa 291

                                                                       
Query: 421 ttaaacaaggaagaagggggttagaaaaagaggaagaagcagaagaaagggaactttaac 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 290 ttaaacaaggaagaagggggttagaaaaagaggaagaagcagaagaaagggaactttaac 231

                                                                       
Query: 481 ttttaattctgagtgtttgacccattagatacacacatgcaaacaccacacacacacaca 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 230 ttttaattctgagtgtttgacccattagatacacacatgcaaacaccacacacacacaca 171

                         
Query: 541 cacacacacacaca 554
            |||||||||||||
Sbjct: 170 tacacacacacaca 157


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: 34
Number of extensions: 8
Number of successful extensions: 7
Number of sequences better than 10.0: 1
Number of HSP's gapped: 6
Number of HSP's successfully gapped: 1
Length of query: 554
Length of database: 953
Length adjustment: 10
Effective length of query: 544
Effective length of database: 943
Effective search space:   512992
Effective search space used:   512992
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)