BAC Information

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BAC

Clone NameMSMg01-546F21
Chromosome16 (Build37)
Map Location 48,733,555 - 48,734,212
singlet/doubletsinglet
Overlap geneTrat1
Upstream geneEG667741, EG639644, EG637273, Dppa4, Dppa2, EG433023, Morc1
Downstream geneEG667501, Retnlb, Retnla, Retnlg, 2310047C04Rik, C330027C09Rik, Myh15, 1700026J12Rik, LOC386061, EG216818, LOC628903, Ift57
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-546F21.T7 (MSMg01no546_f21.b1)MSMg01-546F21.TJ (MSMg01no546_f21.g1)
ACCAG611209AG611210
length761739
length of high quality
(start - end)
664 (30 - 693)675 (65 - 739)
definitionCHROMAT_FILE: MSMg01no546_f21.b1 PHD_FILE: MSMg01no546_f21.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:27:38 2005CHROMAT_FILE: MSMg01no546_f21.g1 PHD_FILE: MSMg01no546_f21.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:27:38 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
GCCGCTATACGACTCCTATAGTTCGAGGATCCGCGGAATTCACTCATTAG
TCTGAGATGGCCTGGAGCTAACAGTGTTCTCTCTACCTCAGCCTCCTGCA
TGCTGGGTCACAGCAATACCTCTCCATGCTGTGCTGAGGTTTATTGAGTT
AACTGTTTGGGAGACAATGTGGGATAAGCCTTTAGAATCTAAGGGGTATA
CCTACTTTTGGTCCAATTGCTGACCTTTCAGAGATCTGACCTATGGAAAT
TAACAATACAAAACCTTATCTTTAAATATTTAATTCCCCTTTAAGCACTT
AACACAAAAAAGAAACTAGATAAGTATCCAGACATGTCTTGGAACATTCT
CATTAAAATATTATTTGTGAACACATTAAATAGAAGCTTGAAGTAATTTA
AGTAGTCTTCAAACTCCTTTAAATGAATTATGATTTAATCATAAATGAGA
TACAATGCAGACATCAGAATTTTGAGACAGACTTGGGATGAAGCTCAGGA
TGGAGCACTCGTCTTTCATCTGAAAGACCCTGTGTTTGCTGCCCAGAATC
ATCAAATACAAAGCTGAATACAGGTTAATATAGTTAAATGTAGTAGAACT
AAAGCCATAGTCTCTTGATACACAAAGAGAATTTAAATAATATGCACAAT
CCCCTACTTTTAAGTTAAATCAGAAAAAAGAAAAGGCTGATACACATAGA
TGGTTATGTCCAGTNAAATATCCAAAAACACAGAGAAAGTTATTCATATT
GATTATCTCTG
GGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXAATGAAAATGAAGGCACAACATACCCAAATCAATGG
TACACAATGAAAGCAGTGATAAGAGGAAAATTTAGAATGCTAAGTGCTTT
CATAAAGAAATTAGAAATACCAGCAACTTAAAATTTTCAGTACACCTGAA
AGCTCTAGAAAAAAAAAAAAAAAAAGAAGAATCAAGCACACCAAAGAGGA
GTAAAAGACAGGAAATAACCAAAATCTGGGCTACTTTGTTAAATATCAAG
TGATAATATGTGTGTGTGTGTTAATTTTTGGGTCTTCAATTCTATTCCAT
TGATCTTCCTGCCTGTCTCTGTACCAATAACATACAGTTTTTATCACTAT
TGCTCTGTAATACAGCTTGAAGTCAGCTATGGTGATTCCACCAGAAATTC
TTTTATTGTTGAGAATAGTTTTTGCTATTCTGTTTTTTTGTTTTTGTTTT
TCCAAATGAATTTGCAAATTGCTCTTTATAACTCTACGAAGAATTAATTT
GGAATTTTGATAGAAATTGCATTGAATCTGTAAATTGCTTTTGGCAAGAT
AGCCATTTTTGCTATACTAATCCTGCCAATCCATCAGCATGGGAGACCTT
TCCATCTGAGATCTTCGATTTCTTTCTTCAGAAACTTGAAGTTCTTGTCA
TACAGATCTTTCACTTGCTTGGTTAGAGTCACACCAAGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no546_f21.b1 MSMg01no546_f21.b1 CHROMAT_FILE:
MSMg01no546_f21.b1 PHD_FILE: MSMg01no546_f21.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:27:38 2005
         (664 letters)



>mm_chr16_48733350_48734412
          Length = 1063

 Score = 1228 bits (635), Expect = 0.0
 Identities = 653/659 (99%), Gaps = 1/659 (0%)
 Strand = Plus / Plus

                                                                       
Query: 6   ggaattcactcattagtctgagatggcctggagctaacagtgttctctctacctcagcct 65
           ||||||||||||||| |||||||||||||||||||||||  |||||||||||||||||||
Sbjct: 206 ggaattcactcattaatctgagatggcctggagctaacacagttctctctacctcagcct 265

                                                                       
Query: 66  cctgcatgctgggtcacagcaatacctctccatgctgtgctgaggtttattgagttaact 125
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 266 cctgcatgctgggtcacagcaatacctctccatgctgtgctgaggtttattgagttaact 325

                                                                       
Query: 126 gtttgggagacaatgtgggataagcctttagaatctaaggggtatacctacttttggtcc 185
           ||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 326 gtttgggagacaatgtgggataagcctttagaatctaaggggtatgcctacttttggtcc 385

                                                                       
Query: 186 aattgctgacctttcagagatctgacctatggaaattaacaatacaaaaccttatcttta 245
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 386 aattgttgacctttcagagatctgacctatggaaattaacaatacaaaaccttatcttta 445

                                                                       
Query: 246 aatatttaattcccctttaagcacttaacacaaaaaagaaactagataagtatccagaca 305
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 446 aatatttaattcccctttaagcacttaacacaaaaaagaaactagataagtatccagaca 505

                                                                       
Query: 306 tgtcttggaacattctcattaaaatattatttgtgaacacattaaatagaagcttgaagt 365
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 506 tgtcttggaacattctcattaaaatattatttgtgaacacattaaatagaagcttgaagt 565

                                                                       
Query: 366 aatttaagtagtcttcaaactcctttaaatgaattatgatttaatcataaatgagataca 425
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 566 aatttaagtagtcttcaaactcctttaaatgaattatgatttaatcataaatgagataca 625

                                                                       
Query: 426 atgcagacatcagaattttgagacagacttgggatgaagctcaggatggagcactcgtct 485
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 626 atgcagacatcagaattttgagacagacttgggatgaagctcaggatggagcactcgtct 685

                                                                       
Query: 486 ttcatctgaaagaccctgtgtttgctgcccagaatcatcaaatacaaagctgaatacagg 545
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 686 ttcatctgaaagaccctgtgtttgctgcccagaatcatcaaatacaaagctgaatacagg 745

                                                                       
Query: 546 ttaatatagttaaatgtagtagaactaaagccatagtctcttgatacacaaagagaattt 605
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 746 ttaatatagttaaatgtagtagaactaaagccatagtctcttgatacacaaagagaattt 805

                                                                      
Query: 606 aaataatatgcacaatcccctacttttaagttaaatcagaaaaaagaaaaggctgatac 664
           ||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 806 aaataatatgcacaatcccctacttttaagttaaatcagaaaaaa-aaaaggctgatac 863


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: 33
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: 664
Length of database: 1063
Length adjustment: 10
Effective length of query: 654
Effective length of database: 1053
Effective search space:   688662
Effective search space used:   688662
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)