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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,502,074 |
T→C |
28.8% |
E258G (GAA→GGA) |
katG ← |
catalase/hydroperoxidase HPI(I) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,502,074 | 0 | T | C | 28.8%
| 82.8
/ 46.3
| 59 | E258G (GAA→GGA) | katG | catalase/hydroperoxidase HPI(I) |
| Reads supporting (aligned to +/- strand): ref base T (22/20); new base C (7/10); total (29/30) |
| Fisher's exact test for biased strand distribution p-value = 5.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.10e-01 |
CATTTGATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCGGTTCGCCGCT > W3110S.gb/3502006‑3502144
|
cATTTGATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTttct < 1:1035058/71‑1 (MQ=255)
cATTTGATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTttct > 1:4245014/1‑71 (MQ=255)
tttGATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTttcttc > 1:4149348/1‑71 (MQ=255)
gATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTtcgt < 1:3117681/70‑1 (MQ=255)
gATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTtcgt < 1:3443471/70‑1 (MQ=255)
gATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTtcgt < 1:3897427/70‑1 (MQ=255)
gATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTtcgt < 1:396550/70‑1 (MQ=255)
tCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGtt < 1:557118/70‑1 (MQ=255)
tCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTc < 1:2200269/71‑1 (MQ=255)
tCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTCCTTCGTCGtt < 1:3552703/70‑1 (MQ=255)
ggACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCa > 1:2604683/1‑70 (MQ=255)
ggACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTCCTTTGTCGTTCAt > 1:2275828/1‑71 (MQ=255)
aCCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTCCTTCGTCGTTCATGc > 1:2651880/1‑71 (MQ=255)
ccGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTttctt > 1:887559/1‑58 (MQ=255)
cGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGccc < 1:280246/71‑1 (MQ=255)
gggTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGcc > 1:1855380/1‑70 (MQ=255)
ggTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCg < 1:895705/70‑1 (MQ=255)
ggTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCg < 1:1025109/70‑1 (MQ=255)
tttACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAgg > 1:524449/1‑71 (MQ=255)
tttACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAgg > 1:807900/1‑71 (MQ=255)
ttACCCAGCGTATGACCACCGGCAATCAGCGCCACGGTTTCTTCGTCGTTCa > 1:186017/1‑52 (MQ=255)
ttACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCa > 1:4848375/1‑52 (MQ=255)
ttACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAgct > 1:992846/1‑69 (MQ=255)
ttACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTCCTTCGTCGTTCATGCCCATGTTGCCGAAgg < 1:336715/70‑1 (MQ=255)
cccAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTcgc < 1:1780338/71‑1 (MQ=255)
aGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCa > 1:4919149/1‑46 (MQ=255)
aGCGTATGACCACCCGCAATCAGCGCCACGGTTCCTTCGTCGTTCATGCCCATGTTGCCGAAGGTcgcgcg < 1:2419573/71‑1 (MQ=255)
gCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGccc < 1:2256298/50‑1 (MQ=255)
cGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGa > 1:1662719/1‑71 (MQ=255)
gTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGa > 1:2520136/1‑70 (MQ=255)
gTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGa > 1:1392579/1‑70 (MQ=255)
tATGACCACCCGCAATCAGCGCCACGGTTCCTTCGTCGtt < 1:626983/40‑1 (MQ=255)
tATGACCACCCGCAATCAGCGCCACGGTTCCTTCGTCGtt < 1:2583735/40‑1 (MQ=255)
tGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAgc > 1:4721288/1‑71 (MQ=255)
tGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAgc > 1:3170768/1‑71 (MQ=255)
tGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAg < 1:1204028/70‑1 (MQ=255)
tGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAg < 1:3284656/70‑1 (MQ=255)
tGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAg < 1:3526618/70‑1 (MQ=255)
tGACCACCCGCAATCAGCGCCACGGTTCCTTCGTCGTTCATGCCCATGTTGCCGAAGGTc > 1:965603/1‑60 (MQ=255)
gACCACCCGCAATCAGCGCCACGGTTCCTTCGTCttt < 1:201982/37‑1 (MQ=37)
gACCACCCGCAATCAGCGCCACGGTTCCTTCGTCGtt < 1:3631382/37‑1 (MQ=255)
ccaccCGCAATCAGCGCCACGGTTCCTTCGTCGTTCa > 1:4427999/1‑37 (MQ=255)
ccaccCGCAATCAGCGCCACGGTTCCTTCGTCGTTCa > 1:2220315/1‑37 (MQ=255)
ccaccCGCAATCAGCGCCACGGTTCCTTCGTCGTTCa > 1:2015283/1‑37 (MQ=255)
ccGCAATCAGCGCCACGGTTCCTTCGTCGTTCATGCCCa < 1:4459707/39‑1 (MQ=255)
tCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCg < 1:2307776/41‑1 (MQ=255)
tCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCg < 1:4837301/41‑1 (MQ=255)
tCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCg < 1:1442970/41‑1 (MQ=255)
tCAGCGCCACGGTTCCTTCGTCGTTCATGCCCATGTTGCCGa < 1:2461428/42‑1 (MQ=255)
tCAGCGCCACGGTTCCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGaa < 1:5077409/71‑1 (MQ=255)
aGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGaa > 1:4098791/1‑41 (MQ=255)
aGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAg > 1:3377251/1‑42 (MQ=255)
aGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAg > 1:312253/1‑42 (MQ=255)
aGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTcgcg > 1:2929432/1‑48 (MQ=255)
aGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTcgcg > 1:237870/1‑48 (MQ=255)
aGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAg > 1:2816007/1‑71 (MQ=255)
aGCGCCACGGTTCCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGaaa > 1:2514573/1‑70 (MQ=255)
cACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCGGtt > 1:4645824/1‑71 (MQ=255)
cACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCGGtt > 1:3060699/1‑71 (MQ=255)
aCGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAgct < 1:1443291/51‑1 (MQ=255)
aCGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAgct < 1:2563603/51‑1 (MQ=255)
aCGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAgct < 1:1082161/51‑1 (MQ=255)
aCGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCGGTTc > 1:410715/1‑71 (MQ=255)
tttCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGa < 1:3959507/42‑1 (MQ=255)
tttCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGa < 1:2207442/42‑1 (MQ=255)
tttCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCgg < 1:4526560/64‑1 (MQ=255)
tttCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCgg < 1:1813559/64‑1 (MQ=255)
tttCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCgg < 1:513396/64‑1 (MQ=255)
tttCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCGGTTcgccg > 1:2987917/1‑71 (MQ=255)
ttcttcGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAg > 1:5106252/1‑44 (MQ=255)
ttcttcGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAg > 1:933993/1‑44 (MQ=255)
tcttcGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCGGTTCGCCGCt > 1:1966203/1‑71 (MQ=255)
|
CATTTGATGTCGGACCGGCACCGTGGGTTTTACCCAGCGTATGACCACCCGCAATCAGCGCCACGGTTTCTTCGTCGTTCATGCCCATGTTGCCGAAGGTCGCGCGGATAGCTGCTGCCGCAGAAAGCGGTTCGCCGCT > W3110S.gb/3502006‑3502144
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
