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 |
2,087,666 |
C→T |
50.0% |
T54I (ACC→ATC) |
yhaH → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,087,666 | 0 | C | T | 50.0%
| ‑4.1
/ 81.9
| 58 | T54I (ACC→ATC) | yhaH | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (13/16); new base T (15/14); total (28/30) |
| Fisher's exact test for biased strand distribution p-value = 7.93e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCGCCGCCTG > minE/2087599‑2087730
|
atcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCt < 1:1160262/71‑1 (MQ=255)
atcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCt < 1:1718860/71‑1 (MQ=255)
cTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTga > 1:2107860/1‑71 (MQ=255)
aCGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTgacga > 1:1870671/1‑70 (MQ=255)
cGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACa < 1:3506990/71‑1 (MQ=255)
gTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGTGAAGGCACCCTGACGACaa < 1:2933982/71‑1 (MQ=255)
tCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATc > 1:1884559/1‑71 (MQ=255)
cGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATc < 1:2078660/70‑1 (MQ=255)
tGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTAc < 1:3219448/71‑1 (MQ=255)
gCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACg > 1:866703/1‑71 (MQ=255)
gggCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCAtcc > 1:1140223/1‑52 (MQ=255)
gggCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTAt > 1:1847813/1‑71 (MQ=255)
tgctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATc < 1:2522821/59‑1 (MQ=255)
tgctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTg > 1:1375785/1‑71 (MQ=255)
tgctgGATAAAATGTTAGGCTGGCAACGCGCTGGGGGCGAAGGCACCCTGACGACAATCTACGGTATTc < 1:1294701/69‑1 (MQ=255)
gctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTa < 1:47548/60‑1 (MQ=255)
tgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGgtg > 1:1471453/1‑71 (MQ=255)
tgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTga > 1:2448509/1‑48 (MQ=255)
ggATAAGATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGgtgt > 1:3818/1‑71 (MQ=255)
gATAAAATGTTAGGCTTGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGgtg < 1:1098831/69‑1 (MQ=255)
gATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGtt > 1:508157/1‑71 (MQ=255)
aTAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGttt > 1:3499719/1‑71 (MQ=255)
aaaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTga < 1:991775/42‑1 (MQ=255)
aaaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTa > 1:3533259/1‑71 (MQ=255)
aaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGttttt < 1:1114170/69‑1 (MQ=255)
aaTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGttttt < 1:2589095/69‑1 (MQ=255)
aTGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAcc < 1:3018038/71‑1 (MQ=255)
ttAGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgtg > 1:2952382/1‑71 (MQ=255)
tAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACa < 1:3783319/41‑1 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgtgg < 1:1441087/70‑1 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTa < 1:2625455/45‑1 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTa < 1:3777413/45‑1 (MQ=255)
gCAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTg < 1:3342894/49‑1 (MQ=255)
gCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgtg > 1:172173/1‑63 (MQ=255)
cAACGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGt > 1:2527548/1‑71 (MQ=255)
cAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGt < 1:2697472/71‑1 (MQ=255)
aaCGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGtt > 1:1441953/1‑71 (MQ=255)
aCGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:433353/1‑56 (MQ=255)
aCGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCgg > 1:3827355/1‑68 (MQ=255)
aCGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCgg > 1:1370214/1‑68 (MQ=255)
aCGCGCTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCgg > 1:702810/1‑68 (MQ=255)
cgcTGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTa < 1:177989/52‑1 (MQ=255)
cTGGTGGCGAAGGCACCCTGACGACAATCTACTGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGtt < 1:3399400/70‑1 (MQ=255)
tggtggCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGtttt > 1:3429698/1‑47 (MQ=255)
tggtggCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGtttt > 1:2639621/1‑47 (MQ=255)
gtggCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTccgc > 1:1249732/1‑71 (MQ=255)
gtggCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTccg < 1:3309672/70‑1 (MQ=255)
gtggCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTccg < 1:8150/70‑1 (MQ=255)
ggCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgtg > 1:473384/1‑50 (MQ=255)
gCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTAcc < 1:2887599/46‑1 (MQ=255)
gCGAAGGCACCCTGACGACAATCTACGGGATTCTGGTGTTTTTAcc < 1:2892368/46‑1 (MQ=255)
cGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCgccgcc < 1:718166/71‑1 (MQ=255)
cGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCgccgcc < 1:939856/71‑1 (MQ=255)
cGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCgccgcc > 1:2947938/1‑71 (MQ=255)
agAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCgg > 1:1352860/2‑56 (MQ=255)
gAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTc < 1:1877075/58‑1 (MQ=255)
gAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCa < 1:1452325/59‑1 (MQ=255)
aGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCGCCGCCTg > 1:3430486/1‑70 (MQ=255)
aGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGtt > 1:2787890/1‑60 (MQ=255)
|
ATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTCAGTTCCGCCGCCTG > minE/2087599‑2087730
|
| 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
