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 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
264,681 |
A→G |
34.8% |
P193P (CCA→CCG) |
thiL → |
thiamin‑monophosphate kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 264,681 | 0 | A | G | 34.8%
| 43.0
/ 36.5
| 66 | P193P (CCA→CCG) | thiL | thiamin‑monophosphate kinase |
| Reads supporting (aligned to +/- strand): ref base A (21/22); new base G (11/12); total (32/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
TGCAGGTTGCCGATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATCGATCTCT > minE/264626‑264742
|
tGCAGGTTGCCGATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTAttt < 1:2121360/69‑1 (MQ=255)
tGCAGGTTGCCGATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTAttt < 1:651493/69‑1 (MQ=255)
tGCAGGTTGCCGATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTAttt < 1:3116952/69‑1 (MQ=255)
tGCAGGTTGCCGATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTAttt < 1:3223385/69‑1 (MQ=255)
gATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggca > 1:2117721/1‑68 (MQ=255)
gATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggca > 1:778256/1‑68 (MQ=255)
gATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggca > 1:235038/1‑68 (MQ=255)
gATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggca > 1:176353/1‑68 (MQ=255)
gATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggc > 1:1075671/1‑67 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:1417450/69‑1 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:1453255/69‑1 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:478853/69‑1 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:1625237/69‑1 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:2585835/69‑1 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:507498/69‑1 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:1878919/69‑1 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:1185909/69‑1 (MQ=255)
aTGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg < 1:1117959/69‑1 (MQ=255)
gCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcaggca > 1:2534668/1‑69 (MQ=255)
aTGCTGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGcgcg < 1:3122812/69‑1 (MQ=255)
aTGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGcgcg < 1:2558106/69‑1 (MQ=255)
aTGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGcgcg < 1:2500467/69‑1 (MQ=255)
aTGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGcgcg < 1:956933/69‑1 (MQ=255)
aTGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGcgcg < 1:1565049/69‑1 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAgggg > 1:831445/1‑52 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:2018596/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:822534/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:697626/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:1781843/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:422017/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:3049892/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:2614291/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:2618405/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCt > 1:143247/1‑69 (MQ=255)
ggACTACTTGATCAAACGTCATATCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGa > 1:3066101/1‑66 (MQ=255)
ctTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAgg > 1:2000304/1‑44 (MQ=255)
ctTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCaaa > 1:849850/1‑69 (MQ=255)
ctTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCaaa > 1:2789525/1‑69 (MQ=255)
tGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGggcagg > 1:2900218/1‑48 (MQ=255)
tGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCaaa > 1:1483407/1‑67 (MQ=255)
tGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCaaa > 1:3332862/1‑67 (MQ=255)
tGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCaaa > 1:42071/1‑67 (MQ=255)
tGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCaaa > 1:1297452/1‑67 (MQ=255)
tGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCaaa > 1:1034550/1‑67 (MQ=255)
tGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCaaa > 1:2243192/1‑67 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:2738004/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:197743/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:2405977/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:1080055/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:2461575/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:559322/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:1357874/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:1743962/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:389836/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:1642911/69‑2 (MQ=255)
aaaCGTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:2713268/69‑2 (MQ=255)
cGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCAt > 1:2653703/1‑68 (MQ=255)
cGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATc > 1:2437295/1‑69 (MQ=255)
cGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATc > 1:2708732/1‑69 (MQ=255)
cGTCATCTCCGTCCATCGCCGCGTATTTTAAAGGGGCAGGCACTgcgc > 1:949600/1‑48 (MQ=255)
gTCATCTCCGTCCGTCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGct < 1:2917084/65‑2 (MQ=255)
gTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATCg < 1:1729436/69‑1 (MQ=255)
gTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATCg < 1:1347707/69‑1 (MQ=255)
gTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATCg < 1:2688720/69‑1 (MQ=255)
gTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATCg < 1:2194457/69‑1 (MQ=255)
tcCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATCTAtctct > 1:3287369/1‑69 (MQ=255)
|
TGCAGGTTGCCGATGCTAAAGATGCGGACTACTTGATCAAACGTCATCTCCGTCCATCGCCGCGTATTTTACAGGGGCAGGCACTGCGCGATCTGGCAAATTCAGCCATCGATCTCT > minE/264626‑264742
|
| 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
