Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ (Aegista (Plectotropis) quelpartensis)



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¢Ã ±¹    ¸í: Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ

¢Ã ÇР   ¸í: Aegista (Plectotropis) quelpartensis Pilsbry & Hirase

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¢Ã °è    Åë: º¹Á·°­-ÁøÀ¯Æó¸ñ-´ÞÆØÀ̰ú

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1) äÁýÁ¤º¸

- äÁýÇã°¡: °íÀ¯Á¾

- ä Áý ÀÚ: °­¿ø´ëÇб³ ÀÌÁØ»ó


2) äÁýÇöȲ ¹× »ùÇÃó¸®

Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ Ã¤ÁýÇöȲ

»ùÇÃó¸®

äÁýÀÏ

°³Ã¼ ¼ö

DNAseq

RNAseq

Ç¥º»

2014.08.26

14 EA

13 EA (¹ß)

13 EA (³»Àå)

1 EA

3) QC Data

»ùÇÃÁ¾

DNA QC

RNA QC

Result

Concentration (ug/ul)

Total Conc. (ug)

Concentration (ug/ul)

RIN (>7)

Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ

162

17.8

393

9.5

pass

4) ±âÁ¸ NCBI Taxonomy À¯ÀüÁ¤º¸ ÇöȲ

À¯ÀüÁ¤º¸ Á¾·ù

Aegista ¼Ó À¯ÀüÀÚ¿ø

Aegista (Plectotropis) quelpartensis

À¯ÀüÀÚ¿ø 

Nucleotide

359

-

Protein

251

-

Genome

2

-

Gene

74

-


5) Sequencing ºÐ¼® °á°ú

 - Illumina DNA Sequncing °á°ú

Input information

¡¡

Region1

Region2

Region3

Region4

Total

raw data

Number Of Reads

101,887,398 

101,887,398 

17,581,833 

17,581,833 

238,938,462 

Number Of Bases

12,837,812,148 

12,837,812,148 

2,215,310,958 

2,215,310,958 

30,106,246,212 

error correction

Number Of Reads

97,446,876 

95,671,796 

8,807,996 

8,464,392 

210,391,060 

Number Of Bases

11,085,272,433 

10,725,990,135 

870,953,258 

825,183,376 

23,507,399,202 

pair reads

Number Of Reads

 

184,381,992 

 

12,007,658 

196,389,650 

Number Of Bases

 

20,914,197,839 

 

     1,240,872,266

22,155,070,105 

single reads

Number Of Reads

 

8,736,680 

 

 5,264,730

14,001,410 

Number Of Bases

 

897,064,729 

 

       455,264,368

1,352,329,097 

Assembly Results

Scaffold Metrics

> 1 bp*

> 100 bp

> 500 bp**

> 1000 bp

> 2000 bp

Number Of Scaffolds

2,277,010 

2,277,010 

519,523 

159,152 

19,123 

Number Of Bases

859,264,857 

859,264,857 

484,643,590 

233,650,081 

47,958,340 

Avg. Scaffold Size

377 

377 

932 

1,468 

2,507 

N50 Scaffold Size

587 

587 

976 

1,443 

2,421 

N80 Scaffold Size

231 

231 

659 

1,143 

2,135 

N90 Scaffold Size

152 

152 

576 

1,068 

2,063 

largest Scaffold Size

9,274 

9,274 

9,274 

9,274 

9,274 

Contig Metrics

> 1 bp*

> 100 bp

> 500 bp**

> 1000 bp

> 2000 bp

Number Of Contigs

21,566,578 

3,882,699 

245,566 

25,337 

621 

Number Of Bases

1,924,868,632 

927,402,447 

176,337,472 

31,720,840 

1,463,686 

Avg. Contig Size

89 

238 

718 

1,251 

2,356 

N50 Contig Size

91 

261 

703 

1,207 

2,262 

N80 Contig Size

49 

160 

564 

1,065 

2,094 

N90 Contig Size

47 

137 

529 

1,030 

2,046 

Largest Contig Size

8,119 

8,119 

8,119 

8,119 

8,119 

- Illumina RNA Sequncing °á°ú

Input information

¡¡

Region1

Region2

Region3

Region4

Total

raw data

Number Of Reads

101,851,586 

101,851,586 

17,769,443 

17,769,443 

239,242,058 

Number Of Bases

12,833,299,836 

12,833,299,836 

2,238,949,818 

2,238,949,818 

30,144,499,308 

error correction

Number Of Reads

100,576,427 

100,081,232 

16,991,601 

16,829,182 

234,478,442 

Number Of Bases

12,440,237,553 

12,420,785,646 

2,069,164,472 

2,044,321,924 

28,974,509,595 

pair reads

Number Of Reads

 

199,237,908 

 

33,153,936 

232,391,844 

Number Of Bases

 

24,713,305,393 

 

4,049,130,552 

28,762,435,945 

single reads

Number Of Reads

 

1,419,751 

 

    666,847

2,086,598 

Number Of Bases

 

147,717,806 

 

  64,355,844

212,073,650 

Assembly Results

Scaffold Metrics

> 1 bp*

> 100 bp

> 500 bp**

> 1000 bp

> 2000 bp

Number Of Scaffolds

319,952 

319,952 

39,978 

12,054 

2,597 

Number Of Bases

93,918,909 

93,918,909 

39,476,731 

20,394,949 

7,723,326 

Avg. Scaffold Size

293 

293 

987 

1,691 

2,973 

N50 Scaffold Size

392 

392 

1,028 

1,676 

2,903 

N80 Scaffold Size

164 

164 

652 

1,199 

2,267 

N90 Scaffold Size

131 

131 

570 

1,094 

2,125 

largest Scaffold Size

17,321 

17,321 

17,321 

17,321 

17,321 

Contig Metrics

> 1 bp*

> 100 bp

> 500 bp**

> 1000 bp

> 2000 bp

Number Of Contigs

2,954,097 

437,327 

27,246 

4,975 

614 

Number Of Bases

254,535,026 

98,293,159 

22,112,723 

7,339,704 

1,651,717 

Avg. Contig Size

86 

224 

811 

1,475 

2,690 

N50 Contig Size

91 

242 

790 

1,421 

2,580 

N80 Contig Size

52 

143 

586 

1,130 

2,162 

N90 Contig Size

47 

120 

540 

1,059 

2,095 

Largest Contig Size

8,859 

8,859 

8,859 

8,859 

8,859 

³ª) ¸êÁ¾À§±âÁ¾ µ¿¹° Genome Survey

 

°Ë¼ö¿ë  »ùÇà DNA ³óµµ ¹× ÃÑ ¾ç, È®ÁõÇ¥º» ÇöȲǥ

¡¡Sample¸í

³óµµ(ng/ul)

Volume(ul)

DNA ÃÑ·®(ug)

O.D A260/280

È®ÁõÇ¥º»

äÁýÇã°¡ÀÏ

äÁýÀÏ

Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ

104

996

103

1.72

¡Û

°íÀ¯Á¾

2014.8.26


(2) À¯Àüü ¼­¿­È®º¸ : ÇöÀç 20Á¾ È®º¸

Sample

±¸ºÐ

raw data size

trim data size

ºñ°í

Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ

DNA

30,106,246,212

23,507,399,202

¡¡

RNA

30,144,499,308

28,974,509,595

¡¡


(3) ±âŸºÐ¼®

A. Genome Size estimation

»ù Çà ¸í

Kmer size

Kmer total

Pk depth

Genome_size

Coverage(X)

Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ

23

15,894,434,088

147

108,125,401 

188.462

B. ¹Ýº¹¼­¿­

- ½ÃÄö½ÌÀÌ ¿Ï·áµÈ Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ DNA ¹× RNAÀÇ contigs Áß 1kb ÀÌ»óÀÇ contigsÀÇ ¹Ýº¹¼­¿­À» Ž»ö(Left; Repeat masking results of DNA contigs, Right; Repeat masking results of RNA contigs).

sequences: 26,032

 

sequences: 7,108

total length: 32,608,921 bp (32,608,921 bp excl N/X-runs)

 

total length: 11,220,308 bp (11,220,308 bp excl N/X-runs)

GC level: 40.72%

 

GC level: 44.87%

bases masked: 54749 bp (0.17%)

 

bases masked: 7823 bp (0.07%)

 

number of

elements

length

occupied

percentage

of sequence

 

 

number of

elements

length

occupied

percentage

of sequence

SINEs:          

5

229 bp

0.00%

 

SINEs:          

0

0 bp

0.00%

 

ALUs      

0

0 bp

0.00%

 

 

ALUs      

0

0 bp

0.00%

 

MIRs      

2

95 bp

0.00%

 

 

MIRs      

0

0 bp

0.00%

LINEs:          

105

25,847 bp

0.08%

 

LINEs:          

12

1,931 bp

0.02%

 

LINE1     

7

395 bp

0.00%

 

 

LINE1     

2

87 bp

0.00%

 

LINE2     

3

134 bp

0.00%

 

 

LINE2     

1

115 bp

0.00%

 

L3/CR1    

14

879 bp

0.00%

 

 

L3/CR1    

3

160 bp

0.00%

LTR elements:   

17

2,171 bp

0.01%

 

LTR elements:   

4

577 bp

0.01%

 

ERVL      

0

0 bp

0.00%

 

 

ERVL      

0

0 bp

0.00%

 

ERVL-MaLRs

0

0 bp

0.00%

 

 

ERVL-MaLRs

1

66 bp

0.00%

 

ERV_classI 

13

1,802 bp

0.00%

 

 

ERV_classI 

2

203 bp

0.00%

 

ERV_classII

1

39 bp

0.00%

 

 

ERV_classII

0

0 bp

0.00%

DNA elements:   

179

20,437 bp

0.06%

 

DNA elements:   

28

4,899 bp

0.04%

 

hAT-Charlie 

61

7,320 bp

0.02%

 

 

hAT-Charlie 

15

3,017 bp

0.03%

 

TcMar-Tigger

29

3,092 bp

0.01%

 

 

TcMar-Tigger

2

105 bp

0.00%

Unclassified:   

2

102 bp

0.00%

 

Unclassified:   

0

0 bp

0.00%

Total interspersed repeats:

 

48,786 bp

0.15%

 

Total interspersed repeats:

 

7,407 bp

0.07%

Small RNA:

52

5,963 bp

0.02%

 

Small RNA:

2

416 bp

0.00%

Satellites:

0

0 bp

0.00%

 

Satellites:

0

0 bp

0.00%

Simple repeats:

0

0 bp

0.00%

 

Simple repeats:

0

0 bp

0.00%

Low complexity:

0

0 bp

0.00%

 

Low complexity:

0

0 bp

0.00%



D. Mito-genome Map


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(4) Microsatellite È帱º

A. SSR statistics

Motif(-mer)

2

3

4

5

6

7

8

9

10

Total

Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ

4,423

1,950

566

11

3

1

2

1

-

6,957


B. ¹ÙÄڵ弭¿­

>Á¦ÁÖ¹è²ÅÅÐ´ÞÆØÀÌ(Aegista quelpartensis)

TTATATATATTATTTGGTGTATGATGTGGTATAGTAGGATCTGGTTTATCAATATTAATTCGTATAGAACTAGGGACTTGTAATGTATTAAGGGATAGTCATTTTTTTAATGTAATCGTTACAGCTCATGCATTTGTAATAATTTTTTTTATAGTAATACCTATTATAATTGGAGGTTTTGGAAATTGAATAGTTCCTTTATTAATTGGAGCTCCTGATATAAGTTTTCCACGAATAAATAATATAAGCTTTTGATTATTACCTCCTTCATTTATTTTATTAATTTCTAGAAGGTTAGTTGAGGGTGGAGCTGGTACTGGATGAACAGTATATCCACCTTTAAGTTCTATTGTAGGTCATAGAGGAGCCTCAGTAGATTTAGCCATTTTTTCTCTGCATTTGGCTGGTATATCTTCAATTCTAGGTGCTATTAATTTTATTACAACAATTTTTAATATGCGTAGTCCAGGAATTTCATTAGAACGAATAAGTTTATTTGTATGATCTATTTTAATTACTGTATTTTTATTACTTTTATCTTTACCTGTTTTAGCAGGTGCTATTACTATATTGCTTACTGATCGAAATTTTAATACTTCTTTCTTTGATCCTGCAGGCGGAGGAGATCCAATTTTATATCAGCATTT


Lozekia deubeli : family ºÎÅÍ ´Ù¸§

Baudinella thielei :¡¡superfamily ºÎÅÍ ´Ù¸§


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