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 |
|
A3 F2 I1 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
834,230 |
T→G |
20.3% |
T896T (ACT→ACG) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 834,230 | 0 | T | G | 20.3%
| 103.4
/ 33.3
| 64 | T896T (ACT→ACG) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (27/24); new base G (4/9); total (31/33) |
| Fisher's exact test for biased strand distribution p-value = 2.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
GCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGG > Exported/834160‑834299
|
gCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACt < 1:2612768/71‑1 (MQ=255)
gCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACt < 1:2308008/71‑1 (MQ=255)
aGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTAc < 1:1073281/71‑1 (MQ=255)
aGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTAc < 1:4876532/71‑1 (MQ=255)
gTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTa > 1:5092015/1‑69 (MQ=255)
gTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTAc > 1:1805810/1‑70 (MQ=255)
atcTGATTCCAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAAc < 1:1531459/67‑1 (MQ=255)
atcTGATTCCAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAAc < 1:1759713/67‑1 (MQ=255)
atcTGATTCCAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAAc < 1:1171900/67‑1 (MQ=255)
tGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAAc < 1:3983531/66‑1 (MQ=255)
aTCCCAGGTAAAACCGCGCCACACATTATGGTCGTATAGCGCGATTATCCGGCGACTTACGAACGCtt < 1:1439717/68‑1 (MQ=255)
aTCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCtt < 1:1762731/68‑1 (MQ=255)
aTCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:1664951/1‑71 (MQ=255)
aTCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:3137129/1‑71 (MQ=255)
cAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACctct < 1:2961830/71‑1 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTa > 1:4131261/1‑71 (MQ=255)
aGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGc < 1:2274748/61‑1 (MQ=255)
aGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACctcgc < 1:1793489/71‑3 (MQ=255)
ggTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGaa > 1:4401786/1‑57 (MQ=255)
gTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCttt < 1:3205612/62‑1 (MQ=255)
aaaaCCTCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgg > 1:3373877/1‑71 (MQ=255)
aaaaCCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgg < 1:537943/71‑1 (MQ=255)
aaaaCCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgg > 1:3264816/1‑71 (MQ=255)
aaaaCCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgg > 1:4059875/1‑71 (MQ=255)
aaaaCCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgg > 1:2028724/1‑71 (MQ=255)
gcgcCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:2475642/1‑56 (MQ=255)
gcgcCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:2682170/1‑56 (MQ=255)
gcgcCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCt < 1:151129/71‑1 (MQ=255)
cacacaTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:1043999/1‑52 (MQ=255)
cacaTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACctc < 1:5323215/53‑1 (MQ=255)
acaTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACctct < 1:38355/53‑1 (MQ=255)
acaTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATg > 1:2989700/1‑68 (MQ=255)
caTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTa > 1:3775983/1‑53 (MQ=255)
aTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGaa > 1:2688210/1‑39 (MQ=255)
aTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGaa > 1:2117296/1‑39 (MQ=255)
aTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGaa > 1:4049950/1‑39 (MQ=255)
aTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGa > 1:1524131/1‑38 (MQ=255)
aTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAAc < 1:4409047/40‑1 (MQ=255)
aTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:4276509/1‑47 (MQ=255)
aTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:4700031/1‑47 (MQ=255)
aTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:1337985/1‑47 (MQ=255)
ttATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGaaa < 1:276779/71‑1 (MQ=255)
tGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTAt > 1:1417611/1‑49 (MQ=255)
gTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCgg < 1:2863443/71‑1 (MQ=255)
gTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCgg < 1:512139/71‑1 (MQ=255)
tCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGGGAAAATCGGt < 1:918393/71‑1 (MQ=255)
tCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGt < 1:2213556/71‑1 (MQ=255)
tCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGt < 1:4618116/71‑1 (MQ=255)
gTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTaa > 1:2423121/1‑71 (MQ=255)
agagCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATg > 1:1718139/1‑71 (MQ=255)
agagCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATg > 1:2292926/1‑71 (MQ=255)
gagCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATgg < 1:2770130/71‑1 (MQ=255)
gagCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATgg < 1:2331647/71‑1 (MQ=255)
agCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCGGGCCATTGATGGACAAACTTGGCAATGGc < 1:2732854/71‑1 (MQ=255)
cgcgATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAAt < 1:2180099/59‑1 (MQ=255)
cgATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGt > 1:2191912/1‑70 (MQ=255)
aTTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCgg < 1:3378964/58‑1 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGc > 1:3829941/1‑37 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTaa > 1:5053776/1‑60 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGt > 1:2175296/1‑67 (MQ=255)
ttATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAg > 1:4055910/1‑71 (MQ=255)
aTCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCt < 1:4876335/40‑1 (MQ=255)
aTCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAgg < 1:3738083/70‑1 (MQ=255)
cGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAgg < 1:4685043/67‑1 (MQ=255)
ggCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTg < 1:2770132/71‑1 (MQ=255)
aCTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGG‑AAAGGGATTGCCTgg < 1:419840/71‑1 (MQ=255)
ttACAAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAggg < 1:3928344/61‑1 (MQ=255)
|
GCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGATGGAGAAAATCGGTAATGGCGGTAAAGGGATTGCCTGG > Exported/834160‑834299
|
| 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
