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 |
1,864,336 |
G→A |
16.7% |
intergenic (+83/+65) |
ygcP → / ← ygcQ |
predicted anti‑terminator regulatory protein/predicted flavoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,864,336 | 0 | G | A | 16.7%
| 225.0
/ 32.9
| 96 | intergenic (+83/+65) | ygcP/ygcQ | predicted anti‑terminator regulatory protein/predicted flavoprotein |
| Reads supporting (aligned to +/- strand): ref base G (51/28); new base A (6/10); total (57/39) |
| Fisher's exact test for biased strand distribution p-value = 5.39e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.96e-01 |
CCAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGTTATTG > minE/1864268‑1864406
|
ccAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGAc > 1:3527311/1‑71 (MQ=255)
cAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGAcg > 1:400592/1‑71 (MQ=255)
aaTTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGAcgc < 1:840684/71‑1 (MQ=255)
cgtgattttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCGGATGCGACGCTTAAcgc < 1:3529163‑M2/22‑1 (MQ=255)
aTTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGAcgcg > 1:351447/1‑71 (MQ=255)
aTTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGAcgcg > 1:603614/1‑71 (MQ=255)
ttGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGt > 1:2226349/1‑71 (MQ=255)
gtgattttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGt > 1:1139882‑M2/48‑71 (MQ=255)
tGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGa > 1:789276/1‑65 (MQ=255)
gattttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTc > 1:2433217‑M2/46‑70 (MQ=255)
gattttgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTc > 1:1099010‑M2/46‑70 (MQ=255)
attttgtaggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCt > 1:1342290‑M2/45‑70 (MQ=255)
aaTTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCt > 1:2518750/1‑70 (MQ=255)
aTTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTa > 1:3074421/1‑71 (MQ=255)
tttGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTAt > 1:360383/1‑71 (MQ=255)
tttGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTAt > 1:883636/1‑71 (MQ=255)
ttgtaggtcggataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTAt < 1:2019613‑M2/29‑1 (MQ=255)
tgtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATc < 1:3765823‑M2/30‑1 (MQ=255)
tGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTAt > 1:1662009/1‑69 (MQ=255)
gtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCa < 1:1576870‑M2/31‑1 (MQ=255)
gtaggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCa < 1:1235923‑M2/31‑1 (MQ=255)
gtaggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCa < 1:2287383‑M2/31‑1 (MQ=255)
taggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAgg < 1:2784971‑M2/33‑1 (MQ=255)
taggtcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAg < 1:2708781‑M2/32‑1 (MQ=255)
gTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAgg > 1:2157464/1‑71 (MQ=255)
gTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAg < 1:2989546/70‑1 (MQ=255)
tttGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGc < 1:3588221/71‑1 (MQ=255)
tttGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGc < 1:3592590/71‑1 (MQ=255)
aggtcggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGc > 1:1841386‑M2/38‑71 (MQ=255)
ttGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGcc > 1:1392949/1‑71 (MQ=255)
tGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTc > 1:247178/1‑60 (MQ=255)
tGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGcc < 1:1587570/70‑1 (MQ=255)
tGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGcc > 1:2537266/1‑70 (MQ=255)
tcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTa > 1:1208360‑M2/35‑71 (MQ=255)
tcggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCAGCGTCTTATCAGGCCTa > 1:1896200‑M2/35‑71 (MQ=255)
gATTTGTAGGCCGCACGTCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCt < 1:111699/70‑1 (MQ=255)
cggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTAt > 1:287855‑M2/34‑62 (MQ=255)
cggataaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTAc > 1:2838742‑M2/34‑71 (MQ=255)
tttGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTAc < 1:2371164/70‑1 (MQ=255)
ggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTacg < 1:2167983‑M2/39‑2 (MQ=255)
ggataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTacg > 1:1834397‑M2/33‑70 (MQ=255)
gataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCtacgc < 1:3770279‑M2/40‑3 (MQ=255)
gataaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCtacgc < 1:3496256‑M2/40‑3 (MQ=255)
ataaggcgtttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCctatc > 1:2039726‑M2/31‑67 (MQ=255)
taaggcgtttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCtacgc > 1:2336942‑M2/30‑67 (MQ=255)
taaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCtacgc > 1:2597252‑M2/30‑67 (MQ=255)
gTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGAc > 1:1623181/1‑49 (MQ=255)
gTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCa > 1:3770073/1‑60 (MQ=255)
gTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCa > 1:1590822/1‑60 (MQ=255)
aaggcgtttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCtacgc > 1:2146674‑M2/29‑66 (MQ=255)
ggCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTccc < 1:1629385/71‑1 (MQ=255)
cGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAg > 1:732232/1‑55 (MQ=255)
cGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTAc > 1:3056204/1‑61 (MQ=255)
cGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCa > 1:2858827/1‑70 (MQ=255)
tttatgccgcatccgacatcaaCGCCTGATGCGACGCTTAAcgcg < 1:243830‑M2/23‑1 (MQ=255)
tttacgccgcatccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCa < 1:617188‑M2/31‑1 (MQ=255)
tttacgccgcatccgacatcaaCGCCTGATGCGACGCTTGCcgcg < 1:1168714‑M2/23‑1 (MQ=255)
gCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAgg > 1:2418114/1‑71 (MQ=255)
cACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGc > 1:734301/1‑71 (MQ=255)
cACGCCACATCCGACATTCAGCGCCTGATGCGACGCTT‑ACGCGTCTTATCAGGCCTACAAGTCCCCAGGc < 1:2034244/70‑1 (MQ=255)
cGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGc > 1:2341777/1‑69 (MQ=255)
cacaTCCGACATTCAGCGCCTGATGCGACGCTTGAcgc < 1:1811832/38‑1 (MQ=255)
cacaTCCGACATTCAGCGCCTGATGCGACGCTTGAc < 1:2593669/36‑1 (MQ=255)
cgcatccgacatcaaCGCCTGATGCGACGCTTAACGCGTCTTATc < 1:3845228‑M2/30‑1 (MQ=255)
caTCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAgg > 1:3739030/1‑63 (MQ=255)
caTCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAAcc > 1:3650948/1‑71 (MQ=255)
caTCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAAcc < 1:2492146/71‑1 (MQ=255)
aTCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCg < 1:679890/71‑1 (MQ=255)
tCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGt < 1:1094792/71‑1 (MQ=255)
atccgacatcaaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCctatc < 1:2678970‑M2/39‑3 (MQ=255)
ccGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCg > 1:2859123/1‑69 (MQ=255)
ccGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCg > 1:1193454/1‑69 (MQ=255)
cGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAg < 1:1254918/71‑1 (MQ=255)
cATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGCACCGTAgg > 1:3225905/1‑69 (MQ=255)
cgcCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGatcat > 1:2132657/1‑71 (MQ=255)
cgcCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGatcat > 1:1793332/1‑71 (MQ=255)
gcCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGatcat < 1:3569313/70‑1 (MQ=255)
ccTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGatcatc < 1:3288067/70‑1 (MQ=255)
tGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAg > 1:2222349/1‑57 (MQ=255)
tGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGAATCATCCgg > 1:753821/1‑71 (MQ=255)
aTGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCa > 1:314985/1‑58 (MQ=255)
aTGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCa > 1:1529196/1‑58 (MQ=255)
gCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAg > 1:3050439/1‑53 (MQ=255)
cGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAaca > 1:673367/1‑71 (MQ=255)
cGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAac < 1:1981698/70‑1 (MQ=255)
gACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAgg < 1:2369542/56‑1 (MQ=255)
aCGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACg > 1:3018643/1‑71 (MQ=255)
cGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGat > 1:718480/1‑56 (MQ=255)
cGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGt < 1:1460937/71‑1 (MQ=255)
cGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGt > 1:1096374/1‑71 (MQ=255)
gCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGatcatc > 1:1955922/1‑59 (MQ=255)
gCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGtt < 1:1230760/71‑1 (MQ=255)
cTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGtt < 1:1915051/70‑1 (MQ=255)
cTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGTTa < 1:3132409/71‑1 (MQ=255)
ttGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGTTAt > 1:1958384/1‑71 (MQ=255)
tGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGTTAtt > 1:2900330/1‑71 (MQ=255)
gACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGTTAtt < 1:2168834/70‑1 (MQ=255)
gACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGTTAtt < 1:2041684/70‑1 (MQ=255)
gACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGTTATTg > 1:2323090/1‑71 (MQ=255)
gACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGCATCATCCGGCAACACGTTAt < 1:3271461/69‑1 (MQ=255)
|
CCAATTGAATTTGGTTTGATTTGTAGGCCGCACGCCACATCCGACATTCAGCGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAAGTCCCCAGGCCAGAACCGTAGGCAGGATCATCCGGCAACACGTTATTG > minE/1864268‑1864406
|
| 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
