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 |
1,682,068 |
A→G |
38.1% |
V969A (GTG→GCG) |
yfhM ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,682,068 | 0 | A | G | 38.1%
| 55.2
/ 69.5
| 105 | V969A (GTG→GCG) | yfhM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (25/40); new base G (24/16); total (49/56) |
| Fisher's exact test for biased strand distribution p-value = 4.39e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.21e-02 |
Only 100 of 105 total aligned reads displayed.
GCCAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTACCACCACGTTTCAGCTCATCAC > minE/1682004‑1682122
|
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:2286254/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:1981859/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:3175825/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:587748/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:734382/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:186881/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:2113659/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:2122726/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:785354/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:1425819/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:3325467/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:331349/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:1191081/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:447262/69‑1 (MQ=255)
gCCAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:1222846/69‑1 (MQ=255)
gCCAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGAc < 1:3418734/69‑1 (MQ=255)
gCCAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGAc < 1:1162639/69‑1 (MQ=255)
gCCAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGAc < 1:1868801/69‑1 (MQ=255)
gCCAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGAc < 1:1856670/69‑1 (MQ=255)
gCCAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGAc < 1:1350059/69‑1 (MQ=255)
gCCAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGAc < 1:766335/69‑1 (MQ=255)
ccAATTGGCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGAc < 1:217824/68‑1 (MQ=255)
cAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACaa < 1:2395666/69‑1 (MQ=255)
cAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACaa < 1:2988268/69‑1 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:2272582/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:31148/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:272667/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:56315/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:2455394/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:2006159/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:2851411/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:1999259/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:1799897/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:3276041/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAata > 1:1155144/3‑68 (MQ=255)
ttggCAGTGTAACCGAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAat > 1:1905426/3‑67 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:312276/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:962471/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:3316970/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:1360707/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:3300227/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:3111897/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:3246139/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:1627865/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:740418/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:717767/69‑1 (MQ=255)
gtgtAACCGAGCCTTCGACCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:1906723/69‑1 (MQ=255)
tgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGGCTGCTGCACGACAATATTGACGt < 1:2213315/68‑1 (MQ=255)
tgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:529428/68‑1 (MQ=255)
tgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:769540/68‑1 (MQ=255)
tgtAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:2484589/68‑1 (MQ=255)
tAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAatat > 1:421539/1‑60 (MQ=255)
tAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTg > 1:3168738/1‑67 (MQ=255)
tAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTg > 1:2107193/1‑67 (MQ=255)
tAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTg > 1:1075079/1‑67 (MQ=255)
tAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTg > 1:953588/1‑67 (MQ=255)
tAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTg > 1:1797827/1‑67 (MQ=255)
tAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTg > 1:2809154/1‑67 (MQ=255)
aCCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTg < 1:492243/69‑1 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACaa > 1:1586086/1‑52 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:667579/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:1344907/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:879937/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:1456291/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:609203/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:581672/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:3059795/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:2469486/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:2476055/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:2858981/1‑64 (MQ=255)
gAGCCTTCGCCCTGTTCATTGAGCGTTACCGGCAGCGCCTGCTGCGCGACAATATTGACGTGAt > 1:2555819/1‑64 (MQ=255)
ccTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:1925855/58‑1 (MQ=255)
ccTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTac < 1:981432/69‑1 (MQ=255)
ccTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTac < 1:3421364/69‑1 (MQ=255)
ccTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTac < 1:889435/69‑1 (MQ=255)
ccTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTac < 1:1986259/69‑1 (MQ=255)
ccTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTac < 1:1959678/69‑1 (MQ=255)
cTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTac < 1:1474594/68‑1 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccacc > 1:3244854/1‑69 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccacc > 1:1174895/1‑69 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccacc > 1:1267509/1‑69 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccacc > 1:1372858/1‑69 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccacc > 1:2574950/1‑69 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccacc > 1:2511478/1‑69 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccacc > 1:2407671/1‑69 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccacc > 1:1519550/1‑69 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTaccac > 1:3319446/1‑68 (MQ=255)
ttCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGAAAATATTGACGt > 1:1028295/1‑47 (MQ=255)
cGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt > 1:1941281/1‑45 (MQ=255)
cGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt > 1:1889510/1‑45 (MQ=255)
cGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt > 1:606360/1‑45 (MQ=255)
cGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt > 1:2907923/1‑45 (MQ=255)
cGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt > 1:2964691/1‑45 (MQ=255)
cGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt > 1:3216376/1‑45 (MQ=255)
gAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGt < 1:1215284/41‑1 (MQ=255)
gCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACTGGCGGTTTACCACCACGTTTc < 1:3317094/68‑1 (MQ=255)
ttACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTACCACCACGTTTCAGCt < 1:2047640/69‑1 (MQ=255)
gCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTACCACCACGTTTCAGCTCATCAc < 1:1811356/69‑1 (MQ=255)
gCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTACCACCACGTTTCAGCTCATCAc < 1:1509339/69‑1 (MQ=255)
gCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTACCACCACGTTTCAGCTCATCAc < 1:942947/69‑1 (MQ=255)
|
GCCAATCGGCAGTGTAACCGAGCCTTCGCCCTGTTCGTTGAGCGTTACCGGCAGCGCCTGCTGCACGACAATATTGACGTGATTGACCGGCGGTTTACCACCACGTTTCAGCTCATCAC > minE/1682004‑1682122
|
| 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
