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 |
1,910,924 |
T→C |
42.5% |
P97P (CCA→CCG) |
ppdA ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,910,924 | 0 | T | C | 42.5%
| 26.2
/ 72.3
| 94 | P97P (CCA→CCG) | ppdA | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (21/33); new base C (16/24); total (37/57) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.38e-01 |
CGGTATTGCGCAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACTCACAAGGCAC > minE/1910857‑1910990
|
cGGTATTGCGCAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGt > 1:2936854/1‑68 (MQ=255)
cGGTATTGCGCAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGt > 1:2550867/1‑68 (MQ=255)
cGGTATTGCGCAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGt > 1:335567/1‑68 (MQ=255)
gcgcAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACaaa > 1:2820061/1‑69 (MQ=255)
gcgcAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACaaa > 1:2735427/1‑69 (MQ=255)
gcgcAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACaaa > 1:2551054/1‑69 (MQ=255)
gcgcAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACaaa > 1:1705980/1‑69 (MQ=255)
aGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGAcc < 1:2021236/69‑1 (MQ=255)
gCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCaa > 1:112782/1‑69 (MQ=255)
gCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCaa > 1:3055370/1‑69 (MQ=255)
aaagaaagCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATg > 1:973064/1‑68 (MQ=255)
aaagaaagCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATg > 1:2303311/1‑68 (MQ=255)
gaaagCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGa < 1:2764903/69‑1 (MQ=255)
gaaagCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGa < 1:2692431/69‑1 (MQ=255)
gaaagCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGa < 1:3371120/69‑1 (MQ=255)
gaaagCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGa < 1:465000/69‑1 (MQ=255)
gaaagCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGa < 1:1625426/69‑1 (MQ=255)
gaaagCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGa < 1:1516248/69‑1 (MQ=255)
gcGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCAt < 1:1808215/69‑1 (MQ=255)
gcGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCAt < 1:934098/69‑1 (MQ=255)
gcGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCAt < 1:1371946/69‑1 (MQ=255)
gcGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCAt < 1:87363/69‑1 (MQ=255)
gcGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCAt < 1:2349939/69‑1 (MQ=255)
gcGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCAt < 1:3204884/69‑1 (MQ=255)
gcGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCAt < 1:806485/69‑1 (MQ=255)
gcGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCAt < 1:3415834/69‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGTCACAAAGACCAATGGTGAACTg < 1:916835/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:3131297/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:1402965/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:2695357/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:1413104/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:2670677/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:2655279/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:2962210/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:3060780/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:1487689/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:192793/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:800105/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:3176602/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:2431483/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:1935261/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:639220/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:3199897/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:733690/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:3319926/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:3323984/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:3324080/61‑1 (MQ=255)
aGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:204776/61‑1 (MQ=255)
aGGTGGCAGGTCGCTCATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:634980/61‑1 (MQ=255)
tgtCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGAGAGGt < 1:1828081/69‑1 (MQ=255)
tgtCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGt < 1:832248/69‑1 (MQ=255)
tgtCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGt < 1:12538/69‑1 (MQ=255)
tgtCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGt < 1:1992735/69‑1 (MQ=255)
tgtCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGt < 1:210023/69‑1 (MQ=255)
tgtCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGt < 1:2554889/69‑1 (MQ=255)
tgtCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGt < 1:2557304/69‑1 (MQ=255)
gtCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGt < 1:2295838/68‑1 (MQ=255)
aGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGa < 1:1351542/50‑1 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGc > 1:2637591/1‑51 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGc < 1:2212556/51‑1 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGc > 1:69525/1‑51 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGc > 1:784382/1‑51 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGc > 1:1604195/1‑51 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGc > 1:2498016/1‑51 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGc > 1:1540468/1‑51 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGc > 1:1482033/1‑51 (MQ=255)
cGCTCATTTCGACTTCGGGCCAGAGTGGCACAAAGACCAATGGTGAACTg > 1:890950/1‑50 (MQ=255)
gCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGCCCAATGGTGAACTGCCATGACAGGt < 1:2811041/60‑1 (MQ=255)
cATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCcagc < 1:2475507/69‑1 (MQ=255)
cATTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTg < 1:2232081/46‑1 (MQ=255)
aattCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGcc > 1:1492638/3‑63 (MQ=255)
aTTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCcagc < 1:331873/68‑1 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:2739452/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:725684/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:1685608/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:1791411/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:1348940/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:1951906/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:2851086/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:29239/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:2731172/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:3128661/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:3242617/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGccc > 1:3259230/1‑64 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGcc > 1:1616782/1‑63 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGcc > 1:2025100/1‑63 (MQ=255)
aTTTCGACTTCGGGCCAGCGCGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTCGcc > 1:328058/1‑63 (MQ=255)
tCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCcagcag > 1:2916947/1‑67 (MQ=255)
tCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCagcagc > 1:2036855/1‑68 (MQ=255)
ttCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACt > 1:724978/1‑69 (MQ=255)
ttCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACt > 1:3270773/1‑69 (MQ=255)
ttCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACt > 1:154805/1‑69 (MQ=255)
cGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGt < 1:550278/46‑1 (MQ=255)
ggCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACTcac < 1:3002598/68‑1 (MQ=255)
cGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACTCACAAGGCAc < 1:3218381/69‑1 (MQ=255)
cGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACTCACAAGGCAc < 1:2119394/69‑1 (MQ=255)
cGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACTCACAAGGCAc < 1:3357710/69‑1 (MQ=255)
|
CGGTATTGCGCAGGCCAAAGAAAGCAAGCGAAGGTGTCAGGTCGCTCATTTCGACTTCGGGCCAGCGTGGCACAAAGACCAATGGTGAACTGCCATGACAGGTATTGGCCCCAGCAGCGGAACTCACAAGGCAC > minE/1910857‑1910990
|
| 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
