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 |
1,554,675 |
G→A |
30.9% |
S403S (TCG→TCA) |
dsdX → |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,554,675 | 0 | G | A | 30.9%
| 116.8
/ 58.6
| 123 | S403S (TCG→TCA) | dsdX | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base G (28/56); new base A (18/20); total (46/77) |
| Fisher's exact test for biased strand distribution p-value = 1.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
Only 100 of 123 total aligned reads displayed.
AGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATACTATAC > minE/1554610‑1554737
|
aGCCCGGAAATTATTGCGATTGGTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCtt > 1:1632413/1‑69 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGTTGCACTATCGTTACGGACTCGCtt > 1:1497731/1‑69 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCtt > 1:550662/1‑69 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCtt > 1:1713863/1‑69 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCtt > 1:1999635/1‑69 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCtt > 1:3435118/1‑69 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCt > 1:2490925/1‑68 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCt > 1:2281478/1‑68 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCt > 1:2004980/1‑68 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCt > 1:1970117/1‑68 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCt > 1:515684/1‑68 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGCACTCGCtt > 1:1349186/1‑69 (MQ=255)
aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTAAGGACTCGCt > 1:2531684/1‑68 (MQ=255)
aTTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:2409772/69‑1 (MQ=255)
aTTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:2256919/69‑1 (MQ=255)
aTTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:2213186/69‑1 (MQ=255)
aTTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:206245/69‑1 (MQ=255)
aTTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:364095/69‑1 (MQ=255)
aTTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:1746683/69‑1 (MQ=255)
aTTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:467597/69‑1 (MQ=255)
aTTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:1016768/69‑1 (MQ=255)
aTCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTgc < 1:2802810/69‑1 (MQ=255)
cAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGc < 1:2163767/54‑1 (MQ=255)
cAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGc < 1:1095238/54‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCTCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:2287596/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAATCaa < 1:2449068/51‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:290237/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:2405390/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:218779/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:2057330/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:2556132/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc > 1:600593/1‑69 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:2752924/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:1450808/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:3354189/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc > 1:843967/1‑69 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:1530467/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:1071691/69‑1 (MQ=255)
gCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCCCTACGCTc < 1:1718554/69‑1 (MQ=255)
cAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:1637104/68‑1 (MQ=255)
ggCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTgc > 1:1614906/1‑51 (MQ=255)
ggCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTgc > 1:1911052/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:429555/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:1052547/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:2436296/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:680091/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:2552921/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:2608977/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:3403662/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:747781/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:3061859/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:1893637/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:2274896/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:1722091/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:754875/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:1477988/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:218680/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:13576/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTg < 1:1824050/39‑1 (MQ=37)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAat > 1:2866675/1‑46 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:2047295/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:3158819/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:3213156/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:1987261/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:2896123/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:2029497/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:2033479/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:3370445/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:1103758/1‑51 (MQ=255)
ggCTGCACGATCGTTACGGACTCACTTTTCTGGCTGGTGAAGCAATATTgc > 1:530270/1‑51 (MQ=255)
cTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTa < 1:1137367/69‑1 (MQ=255)
aTCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:1293324/36‑1 (MQ=255)
aTCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:2475221/36‑1 (MQ=255)
aTCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCaa < 1:488546/36‑1 (MQ=255)
tCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAAt > 1:2280981/1‑69 (MQ=255)
tCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAAt > 1:3352781/1‑69 (MQ=255)
tCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAAt > 1:3274087/1‑69 (MQ=255)
tCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAAt > 1:1327541/1‑69 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTaaa < 1:3050678/66‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTaaa < 1:1817485/66‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTaaa < 1:2446928/66‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTaaa < 1:823617/66‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTaaa < 1:1118792/66‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTaaa < 1:2384946/66‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATAc < 1:3074268/69‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATAc < 1:2961740/69‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATAc < 1:2784239/69‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATAc < 1:1521750/69‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATAc < 1:1542047/69‑1 (MQ=255)
gTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGAGCTACGCTCAATGAAACATTTAAATAc < 1:1099012/69‑1 (MQ=255)
ttACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATAc < 1:1648238/68‑1 (MQ=255)
aCGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTc < 1:883154/48‑1 (MQ=255)
aCGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTa > 1:2752607/1‑61 (MQ=255)
aCGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTa > 1:2446453/1‑61 (MQ=255)
aCGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTa > 1:1288112/1‑61 (MQ=255)
aCGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTa > 1:1148778/1‑61 (MQ=255)
aCGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTa > 1:1072980/1‑61 (MQ=255)
aCGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTa > 1:1048618/1‑61 (MQ=255)
gACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATACTATAc < 1:784809/68‑1 (MQ=255)
cTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATAc < 1:1583915/61‑1 (MQ=255)
|
AGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATACTATAC > minE/1554610‑1554737
|
| 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
