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 |
|
A2 F1 I2 R1
|
78 |
65.3 |
3016648 |
94.6% |
2853749 |
111.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,306,934 |
A→G |
intergenic (‑180/+38) |
mqo ← / ← yojI |
malate dehydrogenase, FAD/NAD(P)‑binding domain/microcin J25 efflux ABC transporter permease/ATPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,306,934 | 0 | A | G | 95.9%
| 174.3
/ ‑0.2
| 49 | intergenic (‑180/+38) | mqo/yojI | malate dehydrogenase, FAD/NAD(P)‑binding domain/microcin J25 efflux ABC transporter permease/ATPase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (31/16); minor base T (1/1); total (32/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.11e-01 |
TAACAACATTTAAATAATGTTTATAAATTATATTCTAATTTTAGAAACATTATAATTTCGTTGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGACCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCATTTCCAGCAGGCGGTCG > NC_000913/2306826‑2307068
|
tAACAACATTTAAATAATGTTTATAAATTATATTCTAATTTTAGAAACATTATAATTTCGTTGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGcgt < 1:421320/139‑1 (MQ=255)
acaacaTTTAAATAATGTTTATAAATTATATTCTAATTTTAGAAACATTATAATTTCGTTGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGcgtcg < 1:906822/139‑1 (MQ=255)
ttATATTCTAATTTTAGAAACATTATAATTTCGTTGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACgg > 2:883526/1‑139 (MQ=255)
ttAGAAACATTATAATTTCGTTGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGc > 1:507332/1‑139 (MQ=255)
aGAAACATTATAATTTCGTTGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCgg > 1:531350/1‑139 (MQ=255)
cGTTGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGcc > 1:834460/1‑139 (MQ=255)
ttGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg < 2:1399776/76‑1 (MQ=255)
ttGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg > 1:1399776/1‑76 (MQ=255)
attaattaTAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCa < 2:834460/139‑1 (MQ=255)
gggTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAg < 2:1168020/105‑1 (MQ=255)
gggTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAg > 1:1168020/1‑105 (MQ=255)
gggTTATTAGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAg > 2:84295/1‑139 (MQ=255)
attaGAAATGAAGGTATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg > 1:916378/1‑58 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg > 1:248842/1‑58 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg < 2:1109033/58‑1 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg < 1:1280449/58‑1 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg < 2:916378/58‑1 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg < 2:248842/58‑1 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg > 2:1280449/1‑58 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAg > 1:1109033/1‑58 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGcgtcg > 2:760950/1‑63 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGcgtcg < 1:760950/63‑1 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGc < 2:10172/89‑1 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGc > 1:10172/1‑89 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 2:415652/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 2:494238/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 2:1356666/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 2:730493/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 2:960439/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 1:102219/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 1:596652/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 1:518236/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 1:1116429/1‑139 (MQ=255)
attaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTACGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGcc > 1:1457279/1‑139 (MQ=255)
ttaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCg < 2:396195/101‑1 (MQ=255)
ttaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCg > 1:396195/1‑101 (MQ=255)
ttaGAAATGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGccc > 1:867573/1‑139 (MQ=255)
aGAAATGAAGGGATTTTTAGCATATTGTCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCAt > 1:400376/1‑139 (MQ=255)
aTGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATcgcg < 2:450144/103‑1 (MQ=255)
aTGAAGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATcgcg > 1:450144/1‑103 (MQ=255)
aaGGGATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCAt > 1:1304356/1‑139 (MQ=255)
gggATTTTTAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATAGTAGGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCAttt > 2:996280/1‑139 (MQ=255)
tttAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTgcg > 2:1164927/1‑128 (MQ=255)
tttAGCATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTgcg < 1:1164927/128‑1 (MQ=255)
cATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCATTTCCAGCAGGCgg < 2:1044700/139‑1 (MQ=255)
cATATTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCATTTCCAGCAGGCgg > 2:53274/1‑139 (MQ=255)
atatTGTCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCATTTCCAGCAGGCGGt < 2:400376/139‑1 (MQ=255)
atatTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCATTTCCAGCAGGCGGt < 2:518236/139‑1 (MQ=255)
atTGGCCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCATTTCCAGCAGGCGGTCg > 1:211365/1‑139 (MQ=255)
|
TAACAACATTTAAATAATGTTTATAAATTATATTCTAATTTTAGAAACATTATAATTTCGTTGATTAATTATAGGGTTATTAGAAATGAAGGGATTTTTAGCATATTGACCTGACGGCAGCAGTCCGCCAGGTCAGCGTCGTAATATTATGCCGTCCGGGCAACGGCATCACGCGAAGCGGCATCGCGCTCTTCGCCCGTCAGCTCGCTAAGTTGCCCATTGCGCATTTCCAGCAGGCGGTCG > NC_000913/2306826‑2307068
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
