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 |
1,699,098 |
C→T |
36.4% |
F326F (TTC→TTT) |
csiE → |
stationary phase inducible protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,699,098 | 0 | C | T | 36.4%
| 39.3
/ 36.3
| 63 | F326F (TTC→TTT) | csiE | stationary phase inducible protein |
| Reads supporting (aligned to +/- strand): ref base C (26/14); new base T (11/12); total (37/26) |
| Fisher's exact test for biased strand distribution p-value = 1.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.60e-01 |
GGATTTGAAAGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGAAAAACAGATTATTCTTCTTACCGGG > minE/1699033‑1699158
|
ggATTTGAAAGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGt < 1:516141/69‑1 (MQ=255)
tGAAAGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTg < 1:930618/69‑1 (MQ=255)
tGAAAGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTg < 1:3224477/69‑1 (MQ=255)
tGAAAGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTg < 1:573378/69‑1 (MQ=255)
gAAAGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTg < 1:3086634/68‑1 (MQ=255)
gAAAGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTg < 1:3106256/68‑1 (MQ=255)
aGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCt < 1:1686863/68‑1 (MQ=255)
aCGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAg > 1:1338400/1‑68 (MQ=255)
aCGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAg > 1:3007300/1‑68 (MQ=255)
cGGCGTCCATCTTTCTGATGAGGAAGGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAgg > 1:1474800/1‑68 (MQ=255)
cGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATTCAgg > 1:122002/1‑68 (MQ=255)
cGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAgg > 1:1236708/1‑68 (MQ=255)
cGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAgg > 1:1995739/1‑68 (MQ=255)
gCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGaa < 1:2726659/68‑1 (MQ=255)
tCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAAc > 1:840798/1‑68 (MQ=255)
tCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACg > 1:1343292/1‑69 (MQ=255)
cATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGAt > 1:445025/1‑69 (MQ=255)
cATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGAt > 1:3333019/1‑69 (MQ=255)
cATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGAt > 1:288099/1‑69 (MQ=255)
cATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGAt > 1:2185535/1‑69 (MQ=255)
tCTTTCTGATGAGGAAAGTGGTCTGGTCGCGTTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATc > 1:2409344/1‑68 (MQ=255)
tCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGAt > 1:802418/1‑67 (MQ=255)
tCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATc > 1:1658932/1‑68 (MQ=255)
tCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATc > 1:307662/1‑68 (MQ=255)
tCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATc > 1:1485925/1‑68 (MQ=255)
tCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATc > 1:2772686/1‑68 (MQ=255)
tCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATc > 1:1888167/1‑68 (MQ=255)
cTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTg > 1:2100424/1‑69 (MQ=255)
cTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTg > 1:1522807/1‑69 (MQ=255)
cTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTg > 1:1893693/1‑69 (MQ=255)
cTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTg > 1:2236664/1‑69 (MQ=255)
cTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTg > 1:2365187/1‑69 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:2849114/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:2347926/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:2903541/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:3040980/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:316880/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:774549/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:2547270/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:2519207/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:1879509/1‑59 (MQ=255)
tttCTGATGAGGAAAGCGGTCTGGTCGCGGTGAATTTTGGt > 1:1559450/1‑41 (MQ=37)
tttCTGATGAGCAAAGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGaa > 1:2086869/1‑59 (MQ=255)
tgatgaAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTg < 1:1637531/39‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:948341/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:2631683/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:1523948/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:1581362/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:1700660/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:1718305/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:1870099/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:197341/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:2140985/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:2158215/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:2966101/69‑1 (MQ=255)
aaGCGGTCTGGTCGCGGTGATTTTTGGTGCCTGGCTAATGCAGGAAAACGACCTGCATGAGAAACAGat < 1:2472251/69‑1 (MQ=255)
gTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGAAAAACAGATTATTCTTCTTACCggg < 1:3154899/69‑1 (MQ=255)
gTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGAAAAACAGATTATTCTTCTTACCggg < 1:178383/69‑1 (MQ=255)
gTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGAAAAACAGATTATTCTTCTTACCggg < 1:2205071/69‑1 (MQ=255)
gTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGAAAAACAGATTATTCTTCTTACCggg < 1:2223506/69‑1 (MQ=255)
gTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGAAAAACAGATTATTCTTCTTACCggg < 1:1170872/69‑1 (MQ=255)
gATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGaaa > 1:692972/1‑44 (MQ=255)
gATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGaaa > 1:2475609/1‑44 (MQ=255)
|
GGATTTGAAAGTGAATACGGCGTCCATCTTTCTGATGAGGAAAGTGGTCTGGTCGCGGTGATTTTCGGTGCCTGGCTAATGCAGGAAAACGATCTGCATGAAAAACAGATTATTCTTCTTACCGGG > minE/1699033‑1699158
|
| 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
