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 |
2,198,249 |
C→T |
41.6% |
R256R (CGC→CGT) |
degS → |
serine endoprotease, periplasmic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,198,249 | 0 | C | T | 41.6%
| 27.8
/ 49.8
| 72 | R256R (CGC→CGT) | degS | serine endoprotease, periplasmic |
| Reads supporting (aligned to +/- strand): ref base C (35/7); new base T (20/10); total (55/17) |
| Fisher's exact test for biased strand distribution p-value = 1.58e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.16e-01 |
ATTCCTTTCCAGTTAGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTGCACGCGCAGGGCGGTGGTATAGATCAA > minE/2198187‑2198315
|
aTTCCTTTCCAGTTAGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTa < 1:26263/68‑1 (MQ=255)
ttCCTTTCCAGTTAGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTa < 1:77644/67‑1 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:2737701/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:1622527/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:87457/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:2082366/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:2425672/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:2494395/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:2709895/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:1012405/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:757694/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:3061288/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:752967/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:37240/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:422234/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:438323/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:549232/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:1348589/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:1493182/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:1275114/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:11703/1‑68 (MQ=255)
ttAGCGACCAAAATTATGGATAAACTGATCCGTGATGGCCGTGTGATCCGTGGCTAcattggcattgg > 1:113637/1‑68 (MQ=255)
tAGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggcg > 1:2486039/1‑69 (MQ=255)
tAGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggcg > 1:2184773/1‑69 (MQ=255)
aGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggcgg > 1:2671102/1‑69 (MQ=255)
aGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggcgg > 1:2507529/1‑69 (MQ=255)
aGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggcgg > 1:3009184/1‑69 (MQ=255)
aGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggcgg > 1:1800168/1‑69 (MQ=255)
aGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggcgg > 1:1645328/1‑69 (MQ=255)
aGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggcg > 1:2428023/1‑68 (MQ=255)
aaCCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGAc > 1:3083623/1‑68 (MQ=255)
cAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGAc > 1:2768212/1‑65 (MQ=255)
cAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGAc > 1:736118/1‑65 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcg > 1:1329095/1‑55 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:3231873/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:3237292/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:1126991/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:2551247/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:91353/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:466885/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:783800/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:204287/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:1581708/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:1432305/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTgag > 1:2285079/1‑66 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTga > 1:103645/1‑65 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTga > 1:894326/1‑65 (MQ=255)
aTTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTga > 1:1473696/1‑65 (MQ=255)
aTTATGGATAAGCTGATACGCGAAGGTCGCGTGATCCGCGGCTACATTgg > 1:21370/1‑50 (MQ=255)
ggATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGcac < 1:819860/68‑1 (MQ=255)
ggATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGcac < 1:3127900/68‑1 (MQ=255)
ggATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGcac < 1:2349419/68‑1 (MQ=255)
ggATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGcac < 1:1102579/68‑1 (MQ=255)
ggATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGcac < 1:962678/68‑1 (MQ=255)
gATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGcacca > 1:202966/1‑69 (MQ=255)
gATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGcacca > 1:3340877/1‑69 (MQ=255)
aaGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATcggc > 1:680751/1‑48 (MQ=255)
aaGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTg > 1:3336146/1‑69 (MQ=255)
aaGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTg > 1:2819922/1‑69 (MQ=255)
aaGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTg > 1:2706315/1‑69 (MQ=255)
aaGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTg > 1:1432970/1‑69 (MQ=255)
aaGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTg > 1:1481799/1‑69 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:1032583/57‑1 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:641597/57‑1 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:3213427/57‑1 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:3045935/57‑1 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:2715422/57‑1 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:2325445/57‑1 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:1934950/57‑1 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:1532048/57‑1 (MQ=255)
tGATCCGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:1318796/57‑1 (MQ=255)
tGATACGTGATGGCCGTGTGATCCGTGGCTACATTGGCATTGGTGGACGTGAGATCg < 1:982044/57‑1 (MQ=255)
cgcgGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTGCACGCGCAGGGCGGTGGTATAGATCaa < 1:3426088/69‑1 (MQ=255)
cgcgGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTGCACGCGCAGGGCGGTGGTATAGATCaa < 1:758788/69‑1 (MQ=255)
cgcgGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTGCACGCGCAGGGCGGTGGTATAGATCaa < 1:2489312/69‑1 (MQ=255)
cgcgGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTGCACGCGCAGGGCGGTGGTATAGATCaa < 1:1682039/69‑1 (MQ=255)
|
ATTCCTTTCCAGTTAGCAACCAAAATTATGGATAAGCTGATCCGCGATGGTCGCGTGATCCGCGGCTACATTGGTATCGGCGGACGTGAGATCGCACCACTGCACGCGCAGGGCGGTGGTATAGATCAA > minE/2198187‑2198315
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
