Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
910,895 |
C→T |
22.3% |
T45T (ACC→ACT) |
ycjV → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 910,895 | 0 | C | T | 22.3%
| 155.5
/ 36.0
| 72 | T45T (ACC→ACT) | ycjV | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (36/19); new base T (7/9); total (44/28) |
| Fisher's exact test for biased strand distribution p-value = 1.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.29e-01 |
TCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATG > minE/910828‑910964
|
tCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGaccacc > 1:3612166/1‑71 (MQ=255)
cAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCAccc > 1:749968/1‑71 (MQ=255)
cAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCAccc > 1:1536046/1‑71 (MQ=255)
aCCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTg < 1:833088/71‑1 (MQ=255)
ccTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTg > 1:2592759/1‑70 (MQ=255)
ggAAATTGCCGATAAAGAGTTCATTGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCa > 1:3473833/1‑71 (MQ=255)
gAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTgcgc < 1:3613000/69‑1 (MQ=255)
aaaTTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCAt > 1:136590/1‑70 (MQ=255)
ccGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGcc < 1:1439924/71‑1 (MQ=255)
tAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCggg > 1:1472186/1‑70 (MQ=255)
aaaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCt > 1:546779/1‑71 (MQ=255)
aaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCtt < 1:1452888/71‑1 (MQ=255)
aaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCtt < 1:1901000/71‑1 (MQ=255)
agagTTCATCGTGTTTGTCGGCCCGTCGTGCTGCGGTAAGTCGACCACCCTGCGCATGAt < 1:141095/60‑1 (MQ=255)
agagTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTg < 1:1790141/71‑1 (MQ=255)
gagTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTg < 1:3865765/70‑1 (MQ=255)
agTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTg > 1:2135672/1‑60 (MQ=255)
agTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTgag < 1:3901651/71‑1 (MQ=255)
agTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCCCATGATTGCCGGGCTTgag < 1:3612556/71‑1 (MQ=255)
gTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTgag > 1:1360738/1‑70 (MQ=255)
ttCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCAt < 1:90573/53‑1 (MQ=255)
ttCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCAt < 1:3753757/53‑1 (MQ=255)
ttCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCAt < 1:3304866/53‑1 (MQ=255)
tCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGcc > 1:2015063/1‑59 (MQ=255)
tCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGcc > 1:1330064/1‑59 (MQ=255)
aTCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGAt < 1:2932579/71‑1 (MQ=255)
gtgtTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAg > 1:1005817/1‑71 (MQ=255)
gtgtTTGTCGGACCGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCac > 1:1415278/1‑70 (MQ=9)
gtgtTTGTCGGACCGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCa < 1:631263/70‑1 (MQ=9)
tttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTgcgc < 1:810492/42‑1 (MQ=255)
tttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcgg > 1:2389796/1‑71 (MQ=255)
ttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGa > 1:2596682/1‑45 (MQ=255)
ttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggc > 1:3799680/1‑71 (MQ=255)
ttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggc > 1:734960/1‑71 (MQ=255)
tGTCGGCCCGTCGGGCTGCGGTAAGTCGCCCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcg > 1:3880915/1‑71 (MQ=255)
tGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGa > 1:3012446/1‑44 (MQ=255)
tGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTgaggag < 1:3271633/61‑1 (MQ=255)
tGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcgg > 1:2161284/1‑69 (MQ=255)
gTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcgg > 1:277638/1‑71 (MQ=255)
cGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcggc > 1:3742553/1‑70 (MQ=255)
cGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcggc > 1:2329500/1‑70 (MQ=255)
ggaccGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCAccagcggcg < 1:1592846/67‑1 (MQ=2)
ggaccGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCAccagcggcg < 1:1619946/67‑1 (MQ=2)
gCCCGTCGGGCTGCGGTAAGTCGACCCCCCTGCGCATGATAGc > 1:2104121/1‑43 (MQ=37)
ccGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGAt > 1:1711046/1‑69 (MQ=255)
ccGTCGGGCTGAGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGAt > 1:2792596/1‑69 (MQ=255)
cGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTg < 1:402850/71‑1 (MQ=255)
tctggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGtt > 1:2772037/4‑71 (MQ=9)
ctggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGtt > 1:3500159/3‑70 (MQ=16)
cGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGtt > 1:3393274/1‑70 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGtt < 1:2482425/69‑1 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGa > 1:3199998/1‑71 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGAATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGa > 1:405442/1‑71 (MQ=255)
ggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCAt > 1:884731/1‑71 (MQ=16)
gCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttca < 1:3264086/69‑3 (MQ=16)
gCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCAt < 1:2602541/70‑1 (MQ=255)
cTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttc < 1:3803538/67‑2 (MQ=255)
cTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttc < 1:1165107/67‑2 (MQ=255)
tGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGa > 1:3366709/1‑71 (MQ=255)
tGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGa > 1:757461/1‑71 (MQ=255)
tGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTga < 1:3523680/41‑1 (MQ=16)
tGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCg > 1:1239188/1‑70 (MQ=255)
gCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGAc > 1:3785816/1‑71 (MQ=255)
cGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCggtg < 1:1457940/71‑4 (MQ=255)
cGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCggt > 1:1997516/1‑68 (MQ=255)
cGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCggt > 1:3516723/1‑68 (MQ=255)
gTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGAGGCGATCTGTTGATCGACGGc < 1:1072535/71‑1 (MQ=255)
gTAAGTCGACAACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcggcg > 1:178822/1‑54 (MQ=255)
aaGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCa > 1:547885/1‑70 (MQ=255)
aaGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCa > 1:237389/1‑70 (MQ=255)
aGTCGACCACCCTGCGCATGATTGCCGGGCTTgag > 1:1078128/1‑35 (MQ=255)
aGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaaa > 1:3891566/1‑71 (MQ=255)
cGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg > 1:122709/1‑70 (MQ=255)
ccaccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg < 1:2317138/71‑1 (MQ=255)
|
TCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATG > minE/910828‑910964
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
