BAC Information

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BAC

Clone NameMSMg01-531K24
Chromosome6 (Build37)
Map Location 28,489,094 - 28,528,711
singlet/doubletdoublet
Overlap geneSnd1
Upstream geneGrm8, 6530409C15Rik, AA407452, LOC100041304, LOC384360, Gcc1, Arf5, Fscn3, Pax4, LOC100041350
Downstream geneLrrc4, LOC100041367, Lep, Rbm28, D330027H18Rik, Impdh1, 2310016C08Rik, AI507611, BC048651, Calu, Opn1sw, 4921511K06Rik, Flnc, Atp6v1f, EG668210, Crim2, Irf5, Tnpo3
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-531K24.T7 (MSMg01no531_k24.b1)MSMg01-531K24.TJ (MSMg01no531_k24.g1)
ACCAG600026AG600027
length764755
length of high quality
(start - end)		620 (50 - 669)620 (82 - 701)
definitionCHROMAT_FILE: MSMg01no531_k24.b1 PHD_FILE: MSMg01no531_k24.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:08:23 2005CHROMAT_FILE: MSMg01no531_k24.g1 PHD_FILE: MSMg01no531_k24.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:08:23 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(28,489,094 - 28,489,709)(28,528,092 - 28,528,711)
sequence
NNNNTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCCCATCCTGTCCACAGCCATCTGACCACAAATGTAAAGCTTC
ATTTTTGTCCTTTTTTCACTCGTCTGAATTGCAAGTCTTTATGACAGTTC
TATATGGCTTCTATTATTGTAGCTTTGTAGTAACTTTTGAGATAAAGAAA
CATGTGCTATCCAGTTTTGTTATTTTTGCCTATTTGGTGGCCCTTTGAGC
TCCAAAGTGAAAAATTTTTTAACATGTTTTTCTATTTCTGCAAGGCCAGA
TCAAACCGATGTCAAACAACCTGTCAGGCCACTTTGGGTGCTCATTTAAG
TAGTACATATAGTAAGCCATGAACAATACCAATTGGCTTGTTAGCTTACT
TTGTTTCTTAATACTATGGTAAAAATACCCTGACAAAACTTAAACAGTAA
ATGAATACTTCTGGTGTTCATTGGCTCTTCTAGCTTAGGCTACCAAATCC
ACATTCTAGTCACAATATATTTCCTAAGAACCACACAGGTTTGTGACAGC
AACACCTCACACCTGCTACTGATTTCTCTCCTAGCTTTTCTTTCCTCTTT
TAGCAAAACTGACTAAAAGCAACTCACAGGAAGTTTCTTTAGCTTATAGC
TCATCATGGCAGGGAAGTTGTAGTAGAGGAGCCCAAGGAACTAGNTTTAT
TGTATCTATAGTCAGAGCAAGGTACATTTGATGTGTGCATGCCAGTGCCC
AGGGCCTGCCTACT

NNNNTTCCCCCTTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCATGGGAGCTGGTTGGTGC
AGAGGCTGGAGGAGAAAAAGGCCCTCAGGCTGTGCAGAAGGTACAGCAAG
AAGCAGAGGCAAGGGATGTGGGGGTCAGGGTGCTGTGTTTAGCTTCTACA
TCAGATGAATAAAGGTGGAAGCACACCTTTAATTTACTTTCCACGTTTTG
AATTCTTAAATTAGCCCCAATTACTCGGCACATTCCCTCCTTCTGTGCCC
CACACACTCTGAAAACATACACAGCGTATCTGAGGAGCCTAAACCAGTGA
CAACGCAGACATTTTAAGGACAGTCAGGGAGATAGGAAGGCTGGTTAACA
GGCAGCAATGCCATCAGTGACGGGGGAACAGTGCACATTACAGTCCCAGA
TAAGTGATCCATGATGGTGACACCACTGCCTCCTGTGCTGTCTGCCAAAG
ATTTACTTTAAGAAAAGGACAGACAGACTGGAGAGATGCCTCAGCACTTA
AAAGCAATGCTGCTCTTCCAGAGGTCCTGAGTTCAATTCCTATAAGCCAC
ATAGTGGCTCACAACCATCTGATGCCCTCTTCTGGTATATCTGAAGACAG
TGCTCATATACATAAATAAATCTTTAAAGGTAAATAGATAAAAGAACAAC
CAAACAACCAAAAATTGCNAGAACCTTAAATTCTTAATTGTCTGCCACTT
TAATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no531_k24.b1 MSMg01no531_k24.b1 CHROMAT_FILE:
MSMg01no531_k24.b1 PHD_FILE: MSMg01no531_k24.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:08:23 2005
         (620 letters)



>mm_chr6_28488890_28489909
          Length = 1020

 Score = 1168 bits (604), Expect = 0.0
 Identities = 613/616 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcccatcctgtccacagccatctgaccacaaatgtaaagcttcatttttgtccttt 64
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 205 gaattcccatcctgtccacagccatctgaccacaaatgcaaagcttcatttttgtccttt 264

                                                                       
Query: 65  tttcactcgtctgaattgcaagtctttatgacagttctatatggcttctattattgtagc 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 tttcactcgtctgaattgcaagtctttatgacagttctatatggcttctattattgtagc 324

                                                                       
Query: 125 tttgtagtaacttttgagataaagaaacatgtgctatccagttttgttatttttgcctat 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 325 tttgtagtaacttttgagataaagaaacatgtgctatccagttttgttatttttgcctat 384

                                                                       
Query: 185 ttggtggccctttgagctccaaagtgaaaaattttttaacatgtttttctatttctgcaa 244
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 385 ttggtggccctttgagctccaaagtgaaaatttttttaacatgtttttctatttctgcaa 444

                                                                       
Query: 245 ggccagatcaaaccgatgtcaaacaacctgtcaggccactttgggtgctcatttaagtag 304
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 445 ggccagatcaaaccgatgtcaaacaacctatcaggccactttgggtgctcatttaagtag 504

                                                                       
Query: 305 tacatatagtaagccatgaacaataccaattggcttgttagcttactttgtttcttaata 364
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 505 tacatatagtaagccatgaacaataccaattggcttgttagcttactttgtttcttaata 564

                                                                       
Query: 365 ctatggtaaaaataccctgacaaaacttaaacagtaaatgaatacttctggtgttcattg 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 ctatggtaaaaataccctgacaaaacttaaacagtaaatgaatacttctggtgttcattg 624

                                                                       
Query: 425 gctcttctagcttaggctaccaaatccacattctagtcacaatatatttcctaagaacca 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 gctcttctagcttaggctaccaaatccacattctagtcacaatatatttcctaagaacca 684

                                                                       
Query: 485 cacaggtttgtgacagcaacacctcacacctgctactgatttctctcctagcttttcttt 544
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 685 cacaggtttgtgacagcaacacctcacacctgctactgatttctctcctagcttttcttt 744

                                                                       
Query: 545 cctcttttagcaaaactgactaaaagcaactcacaggaagtttctttagcttatagctca 604
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 745 cctcttttagcaaaactgactaaaagcaactcacaggaagtttctttagcttatagctca 804

                           
Query: 605 tcatggcagggaagtt 620
           ||||||||||||||||
Sbjct: 805 tcatggcagggaagtt 820


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: 31
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: 620
Length of database: 1020
Length adjustment: 10
Effective length of query: 610
Effective length of database: 1010
Effective search space:   616100
Effective search space used:   616100
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= MSMg01no531_k24.g1 MSMg01no531_k24.g1 CHROMAT_FILE:
MSMg01no531_k24.g1 PHD_FILE: MSMg01no531_k24.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:08:23 2005
         (620 letters)



>mm_chr6_28528067_28529087
          Length = 1021

 Score = 1168 bits (604), Expect = 0.0
 Identities = 616/620 (99%), Gaps = 1/620 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   catgggagctggttggtgcagaggctggaggagaaaaaggccctcaggctgtgcagaagg 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 645 catgggagctggttggtgcagaggctggaggagaaaaaggccctcaggctgtgcagaagg 586

                                                                       
Query: 61  tacagcaagaagcagaggcaagggatgtgggggtcagggtgctgtgtttagcttctacat 120
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 585 tacagcaagaagcagaggcaaggggtgtgggggtcagggtgctgtgtttagcttctacat 526

                                                                       
Query: 121 cagatgaataaaggtggaagcacacctttaatttactttccacgttttgaattcttaaat 180
           |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 525 cagatgaataaaggtggaagcacaccttcaatttactttccacgttttgaattcttaaat 466

                                                                       
Query: 181 tagccccaattactcggcacatt-ccctccttctgtgccccacacactctgaaaacatac 239
           ||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||||
Sbjct: 465 tagccccaattactcggcacattcccctccttctgtgccccccacactctgaaaacatac 406

                                                                       
Query: 240 acagcgtatctgaggagcctaaaccagtgacaacgcagacattttaaggacagtcaggga 299
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 405 acagcgtatctgaggagcctaaaccagtgacaacgcagacattttaaggacagtcaggga 346

                                                                       
Query: 300 gataggaaggctggttaacaggcagcaatgccatcagtgacgggggaacagtgcacatta 359
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 345 gataggaaggctggttaacaggcagcaatgccatcagtgacgggggaacagtgcacatta 286

                                                                       
Query: 360 cagtcccagataagtgatccatgatggtgacaccactgcctcctgtgctgtctgccaaag 419
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 285 cagtcccagataagtgatccatgatggtgacaccactgcctcctgtgctgtctgccaaag 226

                                                                       
Query: 420 atttactttaagaaaaggacagacagactggagagatgcctcagcacttaaaagcaatgc 479
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 225 atttactttaagaaaaggacagacagactggagagatgcctcagcacttaaaagcaatgc 166

                                                                       
Query: 480 tgctcttccagaggtcctgagttcaattcctataagccacatagtggctcacaaccatct 539
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 165 tgctcttccagaggtcctgagttcaattcctataagccacatagtggctcacaaccatct 106

                                                                       
Query: 540 gatgccctcttctggtatatctgaagacagtgctcatatacataaataaatctttaaagg 599
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 105 gatgccctcttctggtatatctgaagacagtgctcatatacataaataaatctttaaagg 46

                               
Query: 600 taaatagataaaagaacaac 619
           ||||||||||||||||||||
Sbjct: 45  taaatagataaaagaacaac 26


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: 29
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: 620
Length of database: 1021
Length adjustment: 10
Effective length of query: 610
Effective length of database: 1011
Effective search space:   616710
Effective search space used:   616710
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)


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