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 |
2,145,423 |
A→G |
58.9% |
R428R (CGT→CGC) |
yhbX ← |
predicted hydrolase, inner membrane |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,145,423 | 0 | A | G | 58.9%
| 26.6
/ 46.2
| 68 | R428R (CGT→CGC) | yhbX | predicted hydrolase, inner membrane |
| Reads supporting (aligned to +/- strand): ref base A (12/16); new base G (18/22); total (30/38) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGGACATGATATGCCTGCTGGCTAGCCTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTG > minE/2145355‑2145491
|
gggACATGATATGCCTGCTGGCTAGCCTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCa > 1:2338051/1‑69 (MQ=255)
gggACATGATATGCCTGCTGGCTAGCCTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCa > 1:1445993/1‑69 (MQ=255)
cATGATATGCCTGCTGGCTAGCCTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGt > 1:1334688/1‑68 (MQ=255)
atatGCCTGCTGGCTAGCCTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAg > 1:1520177/1‑69 (MQ=255)
ccTGCTGGCTAGCCTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGTTCACGTTCCAGGCCGt > 1:1939936/1‑69 (MQ=255)
ccTGCTGGCTAGCCTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCg > 1:2517230/1‑68 (MQ=255)
cTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGtt > 1:2978084/1‑47 (MQ=255)
cTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATa > 1:1535790/1‑69 (MQ=255)
cTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATa > 1:3373193/1‑69 (MQ=255)
cTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATa > 1:496754/1‑69 (MQ=255)
tGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATg < 1:3178175/68‑1 (MQ=255)
tGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATg < 1:811022/68‑1 (MQ=255)
tGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATg < 1:1311972/68‑1 (MQ=255)
tGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATg < 1:2824079/68‑1 (MQ=255)
tGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATg < 1:175037/68‑1 (MQ=255)
tGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATg < 1:2029968/68‑1 (MQ=255)
tGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATg < 1:243379/68‑1 (MQ=255)
tGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATg < 1:2954537/68‑1 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTg > 1:3187981/1‑43 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:3092807/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:2930753/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:206927/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:2275118/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:2029014/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:2373793/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:1928378/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:2441623/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:1882856/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:1752293/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:160833/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:1515577/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:2626975/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:953134/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:96534/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGt > 1:1098259/1‑45 (MQ=255)
gAAAATAGACGTTCTTCTTCGTAGGGTCGCGTTACAGGCCGTg > 1:2139477/1‑43 (MQ=255)
tAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGa > 1:1567792/1‑69 (MQ=255)
tAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGa > 1:981637/1‑69 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:2425720/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:2782737/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:380538/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:432975/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:802504/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:807696/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:863514/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:978187/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1966949/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1080788/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1084859/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1250179/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1468966/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1631719/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1645407/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1655453/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:1918762/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:2061929/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:22104/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:2232075/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGTTCCAGGCCGTGGTCGGCa < 1:2217809/40‑1 (MQ=255)
gTTCTTCTTCGTAGGGTCGCGATCCAGGCCGTGGTCGGCa < 1:41026/40‑1 (MQ=38)
cttcttcGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCtttt < 1:2806559/67‑1 (MQ=255)
cttcttcGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCtttt < 1:2814283/67‑1 (MQ=255)
tcttcGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTtaat < 1:2912348/68‑1 (MQ=255)
tcttcGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTtaat < 1:192631/68‑1 (MQ=255)
tcttcGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCCTTtaat < 1:179079/68‑1 (MQ=255)
tcttcGTAGGGTCACGTTCCAGGCCGGGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTtaat < 1:3349559/68‑1 (MQ=255)
cttcGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCtttt < 1:2818164/64‑1 (MQ=255)
cttcGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTtaat < 1:3414376/67‑1 (MQ=255)
tCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAAc > 1:291103/1‑68 (MQ=255)
tCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAAc > 1:1224422/1‑68 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:3424088/69‑1 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:2403227/69‑1 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:2737431/69‑1 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:554980/69‑1 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:652235/69‑1 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:105394/69‑1 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:2475674/69‑1 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:306468/69‑1 (MQ=255)
aCGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTg < 1:3108163/69‑1 (MQ=255)
|
GGGACATGATATGCCTGCTGGCTAGCCTCCCTGCCTCCATGAAAATAGACGTTCTTCTTCGTAGGGTCACGTTCCAGGCCGTGGTCGGCAAAATACATGACCGAGGCGCGGCGATCTTTTAATAATTCAAAAACCTG > minE/2145355‑2145491
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
