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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
984,541 |
C→T |
60.5% |
S203N (AGT→AAT) |
ynfC ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 984,541 | 0 | C | T | 60.5%
| 36.4
/ 59.0
| 86 | S203N (AGT→AAT) | ynfC | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (19/15); new base T (24/28); total (43/43) |
| Fisher's exact test for biased strand distribution p-value = 5.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
CGACGGCGGGTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTGATTATTCAGTAAAGTA > minE/984479‑984597
|
cGACGGCGGGTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCat < 1:249999/69‑1 (MQ=255)
cGACGGCGGGTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCat < 1:2916391/69‑1 (MQ=255)
cggGTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTcac < 1:1066128/69‑1 (MQ=255)
cggGTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTcac < 1:2214899/69‑1 (MQ=255)
cggGTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTcac < 1:1149105/69‑1 (MQ=255)
cggGTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTcac < 1:3364587/69‑1 (MQ=255)
gggTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTcac < 1:1397194/68‑1 (MQ=255)
ttttACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGct > 1:2867468/1‑69 (MQ=255)
ttttACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGc > 1:1931957/1‑68 (MQ=255)
aCTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTg < 1:277640/68‑1 (MQ=255)
tcatcaACAATGATTATCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTa < 1:37699/67‑1 (MQ=255)
tcatcaACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTa < 1:3378546/67‑1 (MQ=255)
tcatcaACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTa < 1:37730/67‑1 (MQ=255)
tcatcaACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTa < 1:405760/67‑1 (MQ=255)
tcatcaACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTa < 1:1798517/67‑1 (MQ=255)
atcaACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTa < 1:2539783/65‑1 (MQ=255)
caacaaTGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTa < 1:3242995/68‑1 (MQ=255)
aaTGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTAcc > 1:979248/1‑66 (MQ=255)
aaTGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTAcc > 1:2823010/1‑66 (MQ=255)
aaTGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTAcc > 1:2716676/1‑66 (MQ=255)
aaTGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTAcc > 1:1822611/1‑66 (MQ=255)
aaTGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTAcc > 1:1425573/1‑66 (MQ=255)
aaTGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTAcc > 1:1372636/1‑66 (MQ=255)
aaTGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTAcc > 1:13207/1‑66 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGtttt > 1:1488789/1‑54 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:2944604/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:567020/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:2708958/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:1448393/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:2798012/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:1574649/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:1186564/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:3095754/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:2092890/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:2029581/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:1774971/1‑55 (MQ=255)
aTTAGCTGACAGTCCACCGGATTGGCGTGATTGTCATATTCACAGCTCTGTTTTa > 1:3312930/1‑55 (MQ=255)
aGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTg > 1:2230866/1‑68 (MQ=255)
aGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTg > 1:2320955/1‑68 (MQ=255)
aGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTg > 1:2366039/1‑68 (MQ=255)
aGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTg > 1:3177095/1‑68 (MQ=255)
aGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTg > 1:255475/1‑68 (MQ=255)
ggATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTGATTATTCagtaaagta > 1:1712197/1‑69 (MQ=255)
ggATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTGATTATTCagtaaagta > 1:3264719/1‑69 (MQ=255)
ggATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTGATTATTCagtaaagta > 1:2616298/1‑69 (MQ=255)
ggATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTGATTATTCagtaaagta > 1:811973/1‑69 (MQ=255)
ggATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTGATTATTCagtaaagta > 1:882477/1‑69 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:1211449/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:787155/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:2040011/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:1279261/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:3133574/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:214146/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:35404/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:1171162/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:2338312/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagta > 1:863770/1‑68 (MQ=255)
gATTGGCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaaagt > 1:2284392/1‑67 (MQ=255)
tggCGTGATTGTCATTTTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtat < 1:971934/59‑2 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:1143679/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:390160/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:109940/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:914786/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:426243/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:875034/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:1007696/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:337709/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:470669/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2681641/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:1981069/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2083869/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:211343/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2304998/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2339272/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:1563347/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2539130/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2678003/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:331545/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2738879/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2810282/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2841180/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2844847/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:28633/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:2864787/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:1348402/59‑1 (MQ=255)
tggCGTGATTGTCATATTCACAGCTCTGTTTTACATTTCCAACCCGTTGATTATTCagtaa < 1:3085286/59‑1 (MQ=255)
|
CGACGGCGGGTTTTACTCCTTCATCAACAATGATTAGCTGACAGTCCACCGGATTAGCGTGACTGTCATATTCACAGCTCTGTTTTACATTACCAACCCGTTGATTATTCAGTAAAGTA > minE/984479‑984597
|
| 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
