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 |
|
A28 F1 I1 R1
|
15 |
45.6 |
2893554 |
96.7% |
2798066 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,164,088 |
A→G |
K1078R (AAG→AGG) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,164,088 | 0 | A | G | 97.7%
| 169.7
/ NA
| 43 | K1078R (AAG→AGG) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (19/23); minor base C (1/0); total (20/23) |
| Fisher's exact test for biased strand distribution p-value = 4.65e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTG > REL606/4164015‑4164158
|
cTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGa > 1:588508/1‑76 (MQ=255)
gCGGTTAAAGGCCGTATCCAGCCTGGTGACAAGTTGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCa > 2:1242751/1‑76 (MQ=255)
gCGGTTAAACGCGGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCa < 2:505888/76‑1 (MQ=255)
cGGTGAGACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGTTAACAAGGGTGTAATTTCTAGGATCaa < 1:1421344/76‑1 (MQ=255)
cGGTGACACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGTTAACAAGGGTGTAATTTCTAGGATCaa < 1:1421328/76‑1 (MQ=255)
aaCGCCGTCTCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTACGATCAACCCGAt > 2:763405/1‑76 (MQ=255)
cGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCg < 2:734117/76‑1 (MQ=255)
gCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGa < 2:1325886/76‑1 (MQ=255)
gTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGa < 2:1133074/76‑1 (MQ=255)
tATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGat > 1:1047351/1‑76 (MQ=255)
tATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGat < 2:1074147/76‑1 (MQ=255)
tATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCCAGCATCAACCCGATCGAAGat > 1:1366154/1‑76 (MQ=255)
ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATg < 2:700446/76‑1 (MQ=255)
ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATg > 1:828872/1‑76 (MQ=255)
cAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGc < 1:851325/76‑1 (MQ=255)
aGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGcc > 1:1037757/1‑76 (MQ=255)
ccTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCtt < 2:370971/76‑1 (MQ=255)
tGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTAc < 1:638140/76‑1 (MQ=255)
tGACAAGATGCCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGAt > 1:1338307/1‑76 (MQ=255)
aCAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGa < 2:407055/76‑1 (MQ=255)
cAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGaa < 1:1111735/76‑1 (MQ=255)
aaGATGGCNGCTCGGCACGNTAACAAGGGTGTAATTTCTAGGNTCAACCCGATCGAAGATATGCCTTACGATGaaa < 2:1207261/76‑1 (MQ=255)
aaGATGGCAGGTCGTCACGGTAACAAGGGTGTANTTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGaaa > 2:1226057/1‑76 (MQ=255)
aaGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTNCTAGGATGAAGCCGATCGAAGATATGCCTTACGANGaaa > 1:182552/1‑76 (MQ=255)
tGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACgg < 1:961331/76‑1 (MQ=255)
ggCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCTATCGAAGATATGCCTTACGATGAAAACGGt < 2:777522/76‑1 (MQ=255)
ggCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGt < 2:428240/76‑1 (MQ=255)
gCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTa < 1:1062288/76‑1 (MQ=255)
cAGGTCGTCACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTAc < 2:852333/76‑1 (MQ=255)
gtcgtcACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGcc < 1:323766/76‑1 (MQ=255)
cgtcACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCgg > 1:1229156/1‑76 (MQ=255)
gtcACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGt < 1:801138/76‑1 (MQ=255)
tcACGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTa < 2:628254/76‑1 (MQ=255)
cGGTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGNACGCCGGTAGAc < 1:21828/76‑1 (MQ=255)
gTAACAAGGGTGTAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGGACGCCGGTAGACAt > 2:93507/1‑76 (MQ=255)
tAACAAGGGTGTAATTTCTAGGATCAACCCGATCGANGATATGCTTTCCGCTCAAAACGGTACGCCGGTAGNCATc > 1:168251/1‑76 (MQ=255)
cAAGGGTGTAATTACTAGGATCAACCCGATCGANGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTa > 2:1224869/1‑76 (MQ=255)
gtAATTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAAcc > 1:382593/1‑76 (MQ=255)
aaTTTCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCg > 2:1144624/1‑76 (MQ=255)
tttCTAGGATCACCCCGATCGAAGATATGCCTNACTATGAANACGGTCCGCCGGTAGACATNGTACTGAACCCGCt > 2:1188617/1‑76 (MQ=255)
tttCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCt > 1:603009/1‑76 (MQ=255)
ttCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTg > 2:705066/1‑76 (MQ=255)
ttCTAGGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTg > 1:1134646/1‑76 (MQ=255)
|
CTGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTG > REL606/4164015‑4164158
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
