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[Overview] [RefSeq] [Assembly & SNP] [Alignment]

Assembly Name:  20110601C-009410

Length: 951

Sequence [FASTA format sequence]
CATTTAGGAA ATGCTCAAGT CTAGTTTGAA GGACCTGCTG ACCAGTGAGT GCAGAGAAGC
AGTGGAGTAA CAACATCTAG AGGGTGATTT GAGGAGAAAC AGAAGCATTT TGGCTTCATA
CCCTCTCTGG GCCTGGTTTC CAGAAATCAT CATACCTGCA GCAGAAGGAA AATGGCTGAA
TTGAAGTACA TTTCTGGATT TGGGAATGAG TGTGCCTCAG AGGACCCTCG CTGCCCAGGT
GCCCTGCCAG AAGGACAGAA TAATCCTCAA GTATGCCCCT ACAATCTGTA TGCTGAGCAG
CTCTCAGGAT CGGCTTTCAC TTGTCCAAGG AGCACCAACA AGAGAAGCTG GCTTTATAGG
ATTCTACCTT CAGTTTCTCA CAAGCCTTTT GAATCCGTCG ACCAAGGCCA TGTCACTCAC
AACTGGGATG AAGTGGGTCC TGATCCTAAC CAGCTGCGAT GGAAACCATT TGAGATTCCA
AAAGCCTCTC AGAAGAAAGT GGACTTCGTG AGTGGCCTGC ACACCTTGTG TGGAGCTGGA
GACATCAGGT CTAACAATGG GCTTGCTGTC CACATTTTCC TCTGCAACAC CTCCATGGAC
CGAAGATGCT TTTACAATTC AGATGGGGAC TTCTTGATTG TTCCCCAGAA AGGGAAACTT
CTCATTTACA CCGAATTTGG CAAGATGCTC GTTCAGCCCA AGGAGATCTG CGTCATTCAG
AGAGGAATGC GGTTCAGCAT AGATGTCTTT GAGGAGACCA GGGGCTACAT CCTGGAGGTC
TATGGTATCC ACTTTGAGTT GCCTGACTTG GGACCAATAG GAGCCAATGG CTTTGCCAAT
CCTCGTGATT TCTTGATACC TGTTGCCTGG TATGAAGATC TCCAAGTGCC AGGTGGTTTT
ACTGTGATTA ATAAATTAAC GGGCAAGTTG TTTGCTGCCA AACAGGATGT C


SNP mapping information
SNP IDRel.Chr.Location (cM)


Assembly Overview:      TOP
Change score limit to  


BLAST on RefSeq (Human):      TOP

LocusDefinitionScoreE valueFL
Contig/Assembly ProteinHGDhomogentisate 1,2-dioxygenase [Homo sapiens]. 520e-148O


BLAST on RefSeq (Mouse):      TOP
LocusDefinitionScoreE valueFL
Contig/Assembly ProteinHgdhomogentisate 1,2-dioxygenase [Mus musculus]. 516e-147O


BLAST on RefSeq (Dog):      TOP
LocusDefinitionScoreE valueFL
Contig/Assembly ProteinLOC478578PREDICTED: similar to Homogentisate 1,2-dioxygenase (Homogentisicase) (Homogentisate oxygenase) (Homogentisic acid oxidase) [Canis familiaris]. 515e-146O


BLAST on RefSeq (Cattle):      TOP
LocusDefinitionScoreE valueFL
Contig/Assembly ProteinHGDhomogentisate 1,2-dioxygenase [Bos taurus]. 521e-148O


BLAST on RefSeq (Pig):      TOP
LocusDefinitionScoreE valueFL
Contig/Assembly ProteinHGDPREDICTED: homogentisate 1,2-dioxygenase [Sus scrofa]. 541e-154O


Assembly Members: 6      TOP
LibraryPlateLoc.Read NameAccessionFull Seq.
LVR010056C01LVR01_0056_C01.bBP442829 
LVR010082F08LVR01_0082_F08.bBP446000 
LVRM10008G06LVRM1_0008_G06.bBP140466 
LVRM10130E09LVRM1_0130_E09.bBP451948 
LVRM10153B05LVRM1_0153_B05.bBP449247 
LVRM10201F11LVRM1_0201_F11.bCJ007120 AK346492

  

SNP: 1      TOP
Loc.AlleleIndividualsFreq.TypeAA Change
WesternMeishan
312A020.333MSTCA/S
G220.667TCG/S


Alignment:      TOP

20110601C-009410 : ............................................................
---------+---------+---------+---------+---------+---------+ 0
LVRM1_0201_F11.b : xxxxxxxxxxxxxxxxxxxxxxxxxx
LVR01_0082_F08.b : gcxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
LVRM1_0008_G06.b : xxxxxxxxxxxxxxxxxxxx
LVRM1_0153_B05.b : agttgtcxxxxxxxxxxxxxxxx
LVR01_0056_C01.b : taaaagcatttxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
LVRM1_0130_E09.b :
20110601C-009410 : ....................CATTTAGGAAATGCTCAAGTCTAGTTTGAAGGACCTGCTG
---------+---------+---------+---------+---------+---------+ 40
LVRM1_0201_F11.b : xxxxxxxxxxxxxxxxxxxxCATTTAGGAAATGCTCAAGTCTAGTTTGAAGGACCTGCTG
LVR01_0082_F08.b : xxxxxxxxxxxxxxxxxxxxxxxxxxGGAAATGCTCAAGTCTAGTTTGAAGGACCTGCTG
LVRM1_0008_G06.b : xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGTTTGAAGGACCTGCTG
LVRM1_0153_B05.b : xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxgtctaGTTTGAAGGACCTGCTG
LVR01_0056_C01.b : xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGTTTGAAGGACCTGCTG
LVRM1_0130_E09.b : nagttgtcxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
20110601C-009410 : ACCAGTGAGTGCAGAGAAGCAGTGGAGTAACAACATCTAGAGGGTGATTTGAGGAGAAAC
---------+---------+---------+---------+---------+---------+ 100
LVRM1_0201_F11.b : ACCAGTGAGTGCAGAGAAGCAGTGGAGTAACAACATCTAGAGGGTGATTTGAGGAGAAAC
LVR01_0082_F08.b : ACCAGTGAGTGCAGAGAAGCAGTGGAGTAACAACATCTAGAGGGTGATTTGAGGAGAAAC
LVRM1_0008_G06.b : ACCAGTGAGTGCAGAGAAGCAGTGGAGTAACAACATCTAGAGGGTGATTTGAGGAGAAAC
LVRM1_0153_B05.b : ACCAGTGAGTGCAGAGAAGCAGTGGAGTAACAACATCTAGAGGGTGATTTGAGGAGAAAC
LVR01_0056_C01.b : ACCAGTGAGTGCAGAGAAGCAGTGGAGTAACAACATCTAGAGGGTGATTTGAGGAGAAAC
LVRM1_0130_E09.b : xxxxGTGAGTGCAGAGAAGCAGTGGAGTAACAACATCTAGAGGGTGATTTGAGGAGAAGC
20110601C-009410 : AGAAGCATTTTGGCTTCATACCCTCTCTGGGCCTGGTTTCCAGAAATCATCATACCTGCA
---------+---------+---------+---------+---------+---------+ 160
LVRM1_0201_F11.b : AGAAGCATTTTGGCTTCATACCCTCTCTGGGCCTGGTTTCCAGAAATCATCATACCTGCA
LVR01_0082_F08.b : AGAAGCATTTTGGCTTCATACCCTCTCTGGGCCTGGTTTCCAGAAATCATCATACCTGCA
LVRM1_0008_G06.b : AGAAGCATTTTGGCTTCATACCCTCTCTGGGCCTGGTTTCCAGAAATCATCATACCTGCA
LVRM1_0153_B05.b : AGAAGCATTTTGGCTTCATACCCTCTCTGGGCCTGGTTTCCAGAAATCATCATACCTGCA
LVR01_0056_C01.b : AGAAGCATTTTGGCTTCATACCCTCTCTGGGCCTGGTTTCCAGAAATCATCATACCTGCA
LVRM1_0130_E09.b : AGAAGCATTTTGGCTTCATACCCTCTCTGGGCCTGGTTTCCAGAAATCATCATACCTGCA
20110601C-009410 : GCAGAAGGAAAATGGCTGAATTGAAGTACATTTCTGGATTTGGGAATGAGTGTGCCTCAG
---------+---------+---------+---------+---------+---------+ 220
LVRM1_0201_F11.b : GCAGAAGGAAAATGGCTGAATTGAAGTACATTTCTGGATTTGGGAATGAGTGTGCCTCAG
LVR01_0082_F08.b : GCAGAAGGAAAATGGCTGAATTGAAGTACATTTCTGGATTTGGGAATGAGTGTGCCTCAG
LVRM1_0008_G06.b : GCAGAAGGAAAATGGCTGAATTGAAGTACATTTCTGGATTTGGGAATGAGTGTGCCTCAG
LVRM1_0153_B05.b : GCAGAAGGAAAATGGCTGAATTGAAGTACATTTCTGGATTTGGGAATGAGTGTGCCTCAG
LVR01_0056_C01.b : GCAGAAGGAAAATGGCTGAATTGAAGTACATTTCTGGATTTGGGAATGAGTGTGCCTCAG
LVRM1_0130_E09.b : GCAGAAGGAAAATGGCTGAATTGAAGTACATTTCTGGATTTGGGAATGAGTGTGCCTCAG
20110601C-009410 : AGGACCCTCGCTGCCCAGGTGCCCTGCCAGAAGGACAGAATAATCCTCAAGTATGCCCCT
---------+---------+---------+---------+---------+---------+ 280
LVRM1_0201_F11.b : AGGACCCTCGCTGCCCAGGTGCCCTGCCAGAAGGACAGAATAATCCTCAAGTATGCCCCT
LVR01_0082_F08.b : AGGACCCTCGCTGCCCAGGTGCCCTGCCAGAAGGACAGAATAATCCTCAAGTATGCCCCT
LVRM1_0008_G06.b : AGGACCCTCGCTGCCCAGGTGCCCTGCCAGAAGGACAGAATAATCCTCAAGTATGCCCCT
LVRM1_0153_B05.b : AGGACCCTCGCTGCCCAGGTGCCCTGCCAGAAGGACAGAATAATCCTCAAGTATGCCCCT
LVR01_0056_C01.b : AGGACCCTCGCTGCCCAGGTGCCCTGCCAGAAGGACAGAATAATCCTCAAGTATGCCCCT
LVRM1_0130_E09.b : AGGACCCTCGCTGCCCAGGTGCCCTGCCAGAAGGACAGAATAATCCTCAAGTATGCCCCT
20110601C-009410 : ACAATCTGTATGCTGAGCAGCTCTCAGGATCGGCTTTCACTTGTCCAAGGAGCACCAACA
---------+---------+---------+---------+---------+---------+ 340
LVRM1_0201_F11.b : ACAATCTGTATGCTGAGCAGCTCTCAGGATCAGCTTTCACTTGTCCAAGGAGCACCAACA
LVR01_0082_F08.b : ACAATCTGTATGCTGAGCAGCTCTCAGGATCGGCTTTCACTTGTCCAAGGAGCACCAACA
LVRM1_0008_G06.b : ACAATCTGTATGCTGAGCAGCTCTCAGGATCGGCTTTCACTTGTCCAAGGAGCACCAACA
LVRM1_0153_B05.b : ACAATCTGTATGCTGAGCAGCTCTCAGGATCAGCTTTCACTTGTCCAAGGAGCACCAACA
LVR01_0056_C01.b : ACAATCTGTATGCTGAGCAGCTCTCAGGATCGGCTTTCACTTGTCCAAGGAGCACCAACA
LVRM1_0130_E09.b : ACAATCTGTATGCTGAGCAGCTCTCAGGATCGGCTTTCACTTGTCAAAGGAGCACCAACA
20110601C-009410 : AGAGAAGCTGGCTTTATAGGATTCTACCTTCAGTTTCTCACAAGCCTTTTGAATCCGTCG
---------+---------+---------+---------+---------+---------+ 400
LVRM1_0201_F11.b : AGAGAAGCTGGCTTTATAGGATTCTACCTTCAGTTTCTCACAAGCCTTTTGAATCCGTCG
LVR01_0082_F08.b : AGAGAAGCTGGCTTTATAGGATTCTACCTTCAGTTTCTCACAAGCCTTTTGAATCCGTCG
LVRM1_0008_G06.b : AGAGAAGCTGGCTTTATAGGATTCTACCTTCAGTTTCTCACAAGCCTTTTGAATCCGTCG
LVRM1_0153_B05.b : AGAGAAGCTGGCTTTATAGGATTCTACCTTCAGTTTCTCACAAGCCTTTTGAATCCGTCG
LVR01_0056_C01.b : AGAGAAGCTGGCTTTATAGGATTCTACCTTCAGTTTCTCACAAGCCTTTTGAATCCGTCG
LVRM1_0130_E09.b : AGAGGAGCTGGCTTTATAGGATTCTACCTTCAGTTTCTCACAAGCCTTTTGAATCCGTCG
20110601C-009410 : ACCAAGGCCATGTCACTCACAACTGGGATGAAGTGGGTCCTGATCCTAACCAGCTGCGAT
---------+---------+---------+---------+---------+---------+ 460
LVRM1_0201_F11.b : ACCAAGGCCATGTCACTCACAACTGGGATGAAGTGGGTCCTGATCCTAACCAGCTGCGAT
LVR01_0082_F08.b : ACCAAGGCCATGTCACTCACAACTGGGATGAAGTGGGTCCTGATCCTAACCAGCTGCGAT
LVRM1_0008_G06.b : ACCAAGGCCATGTCACTCACAACTGGGATGAAGTGGGTCCTGATCCTAACCAGCTGCGAT
LVRM1_0153_B05.b : ACCAAGGCCATGTCACTCACAACTGGGATGAAGTGGGTCCTGATCCTAACCAGCTGCGAT
LVR01_0056_C01.b : ACCAAGGCCATGTCACTCACAACTGGGATGAAGTGGGTCCTGATCCTAACCAGCTGCGAT
LVRM1_0130_E09.b : ACCAAGGCCATGTCACTCACAACTGGGATGAAGTGGGTCCTGATCCTAACCAGCTGCGAT
20110601C-009410 : GGAAACCATTTGAGATTCCAAAAGCCTCTCAGAAGAAAGTGGACTTCGTGAGTGGCCTGC
---------+---------+---------+---------+---------+---------+ 520
LVRM1_0201_F11.b : GGAAACCATTTGAGATTCCAAAAGCCTCTCAGAAGAAAGTGGACTTCGTGAGTGGCCTGC
LVR01_0082_F08.b : GGAAACCATTTGAGATTCCAAAAGCCTCTCAGAAGAAAGTGGACTTCGTGAGTGGCCTGC
LVRM1_0008_G06.b : GGAAACCATTTGAGATTCCAAAAGCCTCTCAGAAGAAAGTGGACTTCGTGAGTGGCCTGC
LVRM1_0153_B05.b : GGAAACCATTTGAGATTCCAAAAGCCTCTCAGAAGAAAGTGGACTTCGTGAGTGGCCTGC
LVR01_0056_C01.b : GGAAACCATTTGAGATTCCAAAAGCCTCTCAGAAGAAAGTGGACTTCGTGAGTGGCCTGC
LVRM1_0130_E09.b : GGAAACCATTTGAGATTCCAAAAGCCTCTCAGAAGAAAGTGGACTTCGTGAGTGGCCTGC
20110601C-009410 : ACACCTTGTGTGGAGCTGGAGACATCAGGTCTAACAATGGGCTTGCTGTCCACATTTTCC
---------+---------+---------+---------+---------+---------+ 580
LVRM1_0201_F11.b : ACACCTTGTGTGGAGCTGGAGACATCAGGTCTAACAATGGGCTTGCTGTCCACATTTTCC
LVR01_0082_F08.b : ACACCTTGTGTGGAGCTGGAGACATCAGGTCTAACAATGGGCTTGCTGTCCACATTTTCC
LVRM1_0008_G06.b : ACACCTTGTGTGGAGCTGGAGACATCAGGTCTAACAATGGGCTTGCTGTCCACATTTTCC
LVRM1_0153_B05.b : ACACCTTGTGTGGAGCTGGAGACATCAGGTCTAACAATGGGCTTGCTGTCCACATTTTCC
LVR01_0056_C01.b : ACACCTTGTGTGGAGCTGGAGACATCAGGTCTAACAATGGGCTTGCTGTCCACATTTTCC
LVRM1_0130_E09.b : ACACCTTGTGTGGAGCTGGAGACATCAGGTCTAACAATGGGCTTGCTGTCCACATTTTCC
20110601C-009410 : TCTGCAACACCTCCATGGACCGAAGATGCTTTTACAATTCAGATGGGGACTTCTTGATTG
---------+---------+---------+---------+---------+---------+ 640
LVRM1_0201_F11.b : TCTGCAACACCTCCATGGACCGAAGATGCTTTTACAATTCAGATGGGGACTTCTTGATTG
LVR01_0082_F08.b : TCTGCAACACCTCCATGGACCGAAGATGCTTTTACAATTCAGATGGGGACTTCTTGATTG
LVRM1_0008_G06.b : TCTGCAACACCTCCATGGACCGAAGATGCTTTTACAATTCAGATGGGGACTTCTTGATTG
LVRM1_0153_B05.b : TCTGCAACACCTCCATGGACCGAAGATGCTTTTACAATTCAGATGGGGACTTCTTGATTG
LVR01_0056_C01.b : TCTGCAACACCTCCATGGACCGAAGATGCTTTTACAATTCAGATGGGGACTTCTTGATTG
LVRM1_0130_E09.b : TCTGCAACACCTCCATGGACCGAAGATGCTTTTACAATTCAGATGGGGACTTCTTGACTG
20110601C-009410 : TTCCCCAGAAAGGGAAACTTCTCATTTACACCGAATTTGGCAAGATGCTCGTTCAGCCCA
---------+---------+---------+---------+---------+---------+ 700
LVRM1_0201_F11.b : TTCCCCAGAAAGGGAAACTTCTCATTTACACCGAATTTGGCAAGATGCTCGTTCAGCCCA
LVR01_0082_F08.b : TTCCCCAGAAAGGGAAACTTCTCATTTACACCGAATTTGGCAAGATGCTCGTTCAGCCCA
LVRM1_0008_G06.b : TTCCCCAGAAAGGGAAACTTCTCATTTACACCGAATTTGGGCAGATGCTCGTTCAGCCCA
LVRM1_0153_B05.b : TTCCCCAGAAAGGGAAACTTCTCATTTACACCGAATTTGGCAAGATGCTCGTTCAGCCCA
LVR01_0056_C01.b : TTCCCCAGAAAGGGAAACTTCTCATTTACACCGAATTTGGCAAGATGCTCGTTCAGCCCA
LVRM1_0130_E09.b : TTCCCCAGAAAGGGAAACTTCTCATTTACACCGAATTTGGCAAGATGCTCGTTCAGCCCA
20110601C-009410 : AGGAGATCTGCGTCATTCAGAGAGGAATGCGGTTCAGCATAGATGTCTTTGAGGAGACCA
---------+---------+---------+---------+---------+---------+ 760
LVRM1_0201_F11.b : AGGAGATCTGCGTCATTCAGAGAGGAATGCGGTTCAGCATAGATGTCTTTGANGAGACCA
LVR01_0082_F08.b : AGGAGATCTGCGTCATTCAGAGAGGAATGCGGTTCAGCATAGATGTCTTTGAGGAGACCA
LVRM1_0008_G06.b : AGGAGATCTGCGTCATTCAGAGAGGAATGCGGGTCAGCATAGATGTCTTTGAGGAGACCC
LVRM1_0153_B05.b : AGGAGATCTGCGTCATTCAGAGAGGAATGCGGTTCAGCATAGATGTCTTTGAGGAGACCA
LVR01_0056_C01.b : AGGAGATCTGCGTCATTCAGAGAGGAATGCGGTTCAGCATAGATGTCTTTGAGGAGACCA
LVRM1_0130_E09.b : AGGAGATCTGCGTCATTCAGAGAGGAATGCGGTTCAGCATAGATGTCTTTGAGGAGACCA
20110601C-009410 : GGGGCTACATCCTGGAGGTCTATGGTATCCACTTTGAGTTGCCTGACTTGGGACCAATAG
---------+---------+---------+---------+---------+---------+ 820
LVRM1_0201_F11.b : GGG
LVR01_0082_F08.b : GGGGCTACATCCTGGAGGTCTATGGTATCCACTTTGAGTTGCCTGACTTGGGACCAATAG
LVRM1_0008_G06.b : AGGGCTACATGCTGan
LVRM1_0153_B05.b : GGGGCTACATCCT
LVR01_0056_C01.b : GGGGCTACATCCTGGAGGTCTATGGTATCCACTTTGAGTTGCCTGACTTGGGACCAATAG
LVRM1_0130_E09.b : GGGGCTACATCCTGGAGGTCTATGGTATCCACTTTGAGTTTGCTGACTTGGGACCNATAG
20110601C-009410 : GAGCCAATGGCTTTGCCAATCCTCGTGATTTCTTGATACCTGTTGCCTGGTATGAAGATC
---------+---------+---------+---------+---------+---------+ 880
LVRM1_0201_F11.b :
LVR01_0082_F08.b : GAGCCAATGGCTTTGGCAATCCTCGTGATTTCTTGATACCTGTTGCCTGGTATGAAGATC
LVRM1_0008_G06.b :
LVRM1_0153_B05.b :
LVR01_0056_C01.b : GAGCCAATGGCTTGGCCAATCCTCGTGATTTCTTGATACCTGTTGCCTGGTATGAAGATC
LVRM1_0130_E09.b : GAGCCAATG
20110601C-009410 : TCCAAGTGCCAGGTGGTTTTACTGTGATTAATAAATTAACGGGCAAGTTGTTTGCTGCCA
---------+---------+---------+---------+---------+---------+ 940
LVRM1_0201_F11.b :
LVR01_0082_F08.b : TCCAAGTGCCAGGTGGTTTTACTGGTGATAATAAAATACCAGGCAAGTTGTTTGCTGCCA
LVRM1_0008_G06.b :
LVRM1_0153_B05.b :
LVR01_0056_C01.b : TCCNAGTGCCAGGTGGTTTTACTGTGATTAATAAATACAAGGGCAAGTTGTTTGCTGCCA
LVRM1_0130_E09.b :
20110601C-009410 : AACAGGATGTC.................................................
---------+---------+---------+---------+---------+---------+ 951
LVRM1_0201_F11.b :
LVR01_0082_F08.b : AACAGGATGTCtccn
LVRM1_0008_G06.b :
LVRM1_0153_B05.b :
LVR01_0056_C01.b : AACAGGATGTCtccccattcaatggtgttggctggcatgggaattacaccccctacaagt
LVRM1_0130_E09.b :
20110601C-009410 : ............................................................
---------+---------+---------+---------+---------+---------+ 951
LVRM1_0201_F11.b :
LVR01_0082_F08.b :
LVRM1_0008_G06.b :
LVRM1_0153_B05.b :
LVR01_0056_C01.b : acaactttggaaaacttcatgggtcatcaactcaatggccttttaaccatgccgaaccca
LVRM1_0130_E09.b :
20110601C-009410 : ............................................................
---------+---------+---------+---------+---------+---------+ 951
LVRM1_0201_F11.b :
LVR01_0082_F08.b :
LVRM1_0008_G06.b :
LVRM1_0153_B05.b :
LVR01_0056_C01.b : tccatttttccccgaatttgaactggccaagtcctgttccgcccctgggcggtggcccat
LVRM1_0130_E09.b :
20110601C-009410 : ............................................................
---------+---------+---------+---------+---------+---------+ 951
LVRM1_0201_F11.b :
LVR01_0082_F08.b :
LVRM1_0008_G06.b :
LVRM1_0153_B05.b :
LVR01_0056_C01.b : ccccctgaattttttttcaattcttcccccacccccggggggggggggggggtttc
LVRM1_0130_E09.b :