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 |
|
A8 F1 I2 R1
|
97 |
53.3 |
2484976 |
94.5% |
2348302 |
111.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,426,751 |
G→A |
A13V (GCC→GTC) |
hisJ ← |
histidine ABC transporter periplasmic binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,426,751 | 0 | G | A | 97.7%
| 144.0
/ ‑4.8
| 43 | A13V (GCC→GTC) | hisJ | histidine ABC transporter periplasmic binding protein |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (19/23); total (19/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGATCGATATCGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGGCCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATC > NC_000913/2426624‑2426866
|
cAGATCGATATCGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGaccagaaccaga < 1:962699/139‑1 (MQ=255)
aTCGATATCGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCagagag > 2:12449/1‑139 (MQ=255)
aTCGATATCGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCagagag > 2:1176780/1‑139 (MQ=255)
aTCGATATCGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCagagag > 1:215541/1‑139 (MQ=255)
tatCGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGa < 2:1030865/139‑1 (MQ=255)
tCGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATa > 2:683784/1‑139 (MQ=255)
cGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAg < 2:1184320/139‑1 (MQ=255)
aaGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCa < 2:921311/118‑1 (MQ=255)
aaGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCa > 1:921311/1‑118 (MQ=255)
aGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCAc < 1:1176780/139‑1 (MQ=255)
aGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCAc < 2:316535/139‑1 (MQ=255)
aGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGttttt < 1:658173/139‑1 (MQ=255)
gCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATa < 1:683784/139‑1 (MQ=255)
tgtgAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGt > 2:142603/1‑139 (MQ=255)
gAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCt < 2:215541/139‑1 (MQ=255)
tGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGAc > 2:375858/1‑139 (MQ=255)
tGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGAc < 1:506473/139‑1 (MQ=255)
tGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGAc < 1:886006/139‑1 (MQ=255)
gATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCa > 1:417768/1‑94 (MQ=255)
gATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCa < 2:417768/94‑1 (MQ=255)
gcgcATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGGCCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTtat < 2:659124/139‑1 (MQ=255)
tAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGa < 2:11570/139‑1 (MQ=255)
gtcgggtcggTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCagagag < 1:125238/81‑1 (MQ=255)
gtcgggtcggTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCagagag > 2:125238/1‑81 (MQ=255)
ggtcggTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTtat > 1:572236/1‑127 (MQ=255)
ggtcggTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTtat < 2:572236/127‑1 (MQ=255)
gtcggTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTAc < 2:38520/139‑1 (MQ=255)
gTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAg > 1:1108126/1‑113 (MQ=255)
gTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAg < 2:1108126/113‑1 (MQ=255)
aTGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTAc > 2:1139645/1‑129 (MQ=255)
aTGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTAc < 1:1139645/129‑1 (MQ=255)
aTGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTa > 2:596813/1‑139 (MQ=255)
aTGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTa > 2:638011/1‑139 (MQ=255)
gATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGAt < 1:671398/67‑1 (MQ=255)
gATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGAt > 2:671398/1‑67 (MQ=255)
gATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATa < 2:35339/85‑1 (MQ=255)
gATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATa > 1:35339/1‑85 (MQ=255)
gATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACtt > 1:127323/1‑139 (MQ=255)
ttttGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCg < 1:142603/139‑1 (MQ=255)
ttGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTg > 1:1023204/1‑139 (MQ=255)
ggAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCa < 2:325818/40‑1 (MQ=255)
ggAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGACCa > 1:325818/1‑40 (MQ=255)
aaCGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCAt < 1:638011/139‑1 (MQ=255)
aCGCCGCAGTTGCGCTGGAGAAGACCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATc < 2:127323/139‑1 (MQ=255)
|
CAGATCGATATCGAAGCCAACCAGTTCGCCTTGTGAATTTTTTGATTCAAATGGCGCATAGGTCGGGTCGGTACCGATGCGGATGTTTTGCGGAATCGCAGCAAACGCCGCAGTTGCGCTGGAGAAGGCCAGAACCAGAGAGAGCGATAGCACCAGTTTTTTCATAATGTCCTCAACTGACAGTCTTTTTATAGGGAATATTTACAGGTTTGTTACACTTATCGTGCCATAAAATTGACCATC > NC_000913/2426624‑2426866
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
