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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
834,194 |
A→G |
18.4% |
P884P (CCA→CCG) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,194 | 0 | A | G | 18.4%
| 136.2
/ 25.0
| 65 | P884P (CCA→CCG) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (24/29); new base G (7/5); total (31/34) |
| Fisher's exact test for biased strand distribution p-value = 5.27e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.70e-01 |
GCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGAT > minE/834126‑834262
|
gcgcAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCcaca > 1:2600445/1‑71 (MQ=255)
gcgcAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCcaca < 1:877372/71‑1 (MQ=255)
aGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACAtt < 1:3157929/71‑1 (MQ=255)
aGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACAt > 1:747776/1‑70 (MQ=255)
ccGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACAt < 1:2032425/68‑1 (MQ=255)
ccGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTAt < 1:2250446/71‑1 (MQ=255)
cGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACAt < 1:3408732/67‑1 (MQ=255)
cTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACAt < 1:2183706/65‑1 (MQ=255)
cTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACAt < 1:13583/65‑1 (MQ=255)
ggATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCg > 1:3828412/1‑71 (MQ=255)
aTGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTa < 1:233607/63‑1 (MQ=255)
aaGACTGTAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAgcgc < 1:2203861/71‑1 (MQ=255)
aGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAgcgc > 1:3061287/1‑70 (MQ=255)
aCTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGAt < 1:1542809/71‑1 (MQ=255)
gAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTa < 1:3722169/69‑1 (MQ=255)
gAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTAt < 1:1140874/70‑1 (MQ=255)
gAAAAAAGGCGAGTGCGACCAGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTa < 1:3300199/69‑1 (MQ=255)
aaaaaaGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTa < 1:1007052/68‑1 (MQ=255)
aaaaaaGGCGAGTGCGACCTGATCCCAGGTAAAACCGAGCCACACAtt < 1:3055504/48‑1 (MQ=255)
aaaaaGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTa < 1:2253779/67‑1 (MQ=255)
aaaaaGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTa < 1:2411981/67‑1 (MQ=255)
aaaaaGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTa < 1:1219952/67‑1 (MQ=255)
aaaaGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATg > 1:2076887/1‑49 (MQ=255)
aaaaGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTAGt < 1:549649/54‑1 (MQ=255)
aaGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTag > 1:1314382/1‑54 (MQ=255)
ggCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGAc > 1:296099/1‑71 (MQ=255)
ggCGAATGCGATCTGATTCCAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTAc < 1:834024/71‑1 (MQ=255)
gCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACt < 1:3167794/71‑1 (MQ=255)
cGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACtt < 1:3174812/71‑1 (MQ=255)
gTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTAc > 1:92043/1‑70 (MQ=255)
tGCGATCTGATTCCAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGa < 1:3664380/71‑1 (MQ=255)
gACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTAc < 1:2486990/66‑1 (MQ=255)
ccTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTa < 1:588364/40‑1 (MQ=255)
ccTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCt > 1:953478/1‑71 (MQ=255)
cTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCtt < 1:2009306/71‑1 (MQ=255)
tGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCtt > 1:1517072/1‑70 (MQ=255)
gATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTa > 1:2449633/1‑71 (MQ=255)
attccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCtt < 1:2850084/65‑1 (MQ=255)
attccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTAc > 1:1821970/4‑71 (MQ=255)
aTCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAgc < 1:2495032/40‑1 (MQ=255)
aTCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc < 1:600680/71‑1 (MQ=255)
ttccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTAcc > 1:1029086/3‑71 (MQ=255)
ttccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTAcc < 1:708956/69‑1 (MQ=255)
ttccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTAcc > 1:3436047/3‑71 (MQ=255)
tccAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACct > 1:198545/2‑71 (MQ=255)
ccAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCgg > 1:1851382/1‑49 (MQ=255)
ccAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAAc < 1:223077/61‑1 (MQ=255)
cAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACctc > 1:1208483/1‑70 (MQ=255)
cAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACctcg > 1:1074586/1‑70 (MQ=255)
cAGGCAAAACCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACctcg > 1:2751193/1‑70 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGc < 1:1726855/48‑1 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGaa > 1:388248/1‑58 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTAc > 1:3209724/1‑66 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTa > 1:378712/1‑71 (MQ=255)
aGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTa > 1:3951602/1‑71 (MQ=255)
ggTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTAt > 1:3084154/1‑71 (MQ=255)
gTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACt > 1:799961/1‑50 (MQ=255)
aaaaCCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgg < 1:19573/71‑1 (MQ=255)
aaaaCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCgg > 1:2444626/1‑71 (MQ=255)
aaaCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGc > 1:186387/1‑71 (MQ=255)
aaaCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGc > 1:1980575/1‑71 (MQ=255)
aaCCGCGCCGAATATTGTGGCGGTGGAGCGCGACTACCCTGCTACGTATGAACGCTTTACCTCGCTCgggc > 1:1391442/1‑69 (MQ=255)
aCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACt < 1:3739987/45‑1 (MQ=255)
aCCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGccc < 1:2561972/71‑1 (MQ=255)
ccGCGCCACACATTATGGTCGTAGAGCGCGATTATca > 1:1461547/1‑36 (MQ=255)
cgcgCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCg > 1:1932590/1‑70 (MQ=255)
gcgcCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCt > 1:1281191/1‑71 (MQ=255)
cacacaTTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGAt < 1:3158329/70‑1 (MQ=255)
|
GCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGATCCCAGGTAAAACCGCGCCACACATTATGGTCGTAGAGCGCGATTATCCGGCGACTTACGAACGCTTTACCTCTATCGGCCCGCTGAT > minE/834126‑834262
|
| 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
