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 |
4,093,241 |
C→A |
33.8% |
G207C (GGT→TGT) |
gntT ← |
gluconate transporter, high‑affinity GNT I system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,093,241 | 0 | C | A | 33.8%
| 113.9
/ 43.9
| 62 | G207C (GGT→TGT) | gntT | gluconate transporter, high‑affinity GNT I system |
| Reads supporting (aligned to +/- strand): ref base C (27/14); new base A (12/9); total (39/23) |
| Fisher's exact test for biased strand distribution p-value = 5.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.63e-01 |
AGGTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCGG > W3110S.gb/4093175‑4093310
|
agGTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTcc > 1:4619836/1‑71 (MQ=255)
agGTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTcc > 1:4840075/1‑71 (MQ=255)
gTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCgg < 1:3914487/71‑1 (MQ=255)
gTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCgg < 1:1703834/71‑1 (MQ=255)
cAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGaa < 1:3425335/70‑1 (MQ=255)
cAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGaa < 1:2101210/70‑1 (MQ=255)
cAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAAt > 1:3097561/1‑71 (MQ=255)
cAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAAt > 1:4627173/1‑71 (MQ=255)
aGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAAtt < 1:2751576/71‑1 (MQ=255)
aGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAAtt < 1:4680670/71‑1 (MQ=255)
gACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTg < 1:3934119/71‑1 (MQ=255)
gACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAATTg > 1:2931331/1‑71 (MQ=255)
cTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCtt < 1:2999338/71‑1 (MQ=255)
cTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCt < 1:670034/70‑1 (MQ=255)
gACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTc > 1:204591/1‑57 (MQ=255)
gACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTc > 1:4986590/1‑57 (MQ=255)
gACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTAt > 1:2604012/1‑71 (MQ=255)
aCGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCTGGAATTGGCTTATc < 1:5121220/71‑1 (MQ=255)
gCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTc > 1:905586/1‑54 (MQ=255)
aaaGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAAt > 1:5134244/1‑57 (MQ=255)
aaGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTcc > 1:5049005/1‑51 (MQ=255)
aGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGATACCt > 1:4179592/1‑71 (MQ=255)
gCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGATACCtt > 1:3338791/1‑71 (MQ=255)
ggCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCaa < 1:22229/71‑1 (MQ=255)
aTCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAacac > 1:4470631/1‑71 (MQ=255)
tctcTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCt < 1:4321719/51‑1 (MQ=255)
tctcTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACAcg > 1:2280444/1‑71 (MQ=255)
tctcTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACAcg > 1:296778/1‑71 (MQ=255)
tcttctTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTcc > 1:3380668/1‑39 (MQ=255)
tcttctTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAAt > 1:3447776/1‑44 (MQ=255)
tcttctTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACAcgc > 1:1391053/1‑70 (MQ=255)
tcttctACGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACAcgc > 1:4904/1‑70 (MQ=255)
cttcttCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGa < 1:3801310/41‑1 (MQ=255)
cttcttCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGATACCTTTCAACAcgc > 1:950647/1‑69 (MQ=255)
ttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGa > 1:3502966/1‑50 (MQ=255)
ttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGa > 1:1993464/1‑50 (MQ=255)
ttcGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAATTg > 1:1752095/1‑41 (MQ=255)
ttcGCTGAAGGTTTTCGCGCTGTAGAGAACTTCCGGAATTGGCTTATCGa > 1:3465587/1‑50 (MQ=255)
cGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCg < 1:3851316/68‑1 (MQ=255)
gCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTaa < 1:2004227/70‑1 (MQ=255)
aaGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccgg < 1:3058780/71‑1 (MQ=255)
ggTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGAt > 1:4955531/1‑42 (MQ=255)
gTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccggacc < 1:4207805/71‑1 (MQ=255)
gTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGa < 1:1214498/40‑1 (MQ=255)
gTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGa < 1:654214/40‑1 (MQ=255)
ttCGCGCTTTAGAGACCTTCCGGAATTGGCTTATc > 1:2233942/1‑35 (MQ=255)
ttCGCGCTGTAGAGACCTTCCGGAATTGGCTTATc > 1:828605/1‑35 (MQ=255)
ttCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGc > 1:1451243/1‑71 (MQ=255)
ttCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGc > 1:4214268/1‑71 (MQ=255)
gcgcTGTAGAGACATTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCgag < 1:2707454/71‑1 (MQ=255)
cgcTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCgaga < 1:2625757/71‑1 (MQ=255)
tGTAGAGACATTCCGGAATTGGCTTATCGATACCTTTCAACACGCGATCGTa < 1:4758766/52‑1 (MQ=255)
tAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCAc > 1:2332543/1‑71 (MQ=255)
agagACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACg > 1:4478037/1‑71 (MQ=255)
gagaCCTTCCGGAATTGGCTTATCGATACCTTTCaa > 1:3777984/1‑36 (MQ=255)
gagaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACgg > 1:3598658/1‑71 (MQ=255)
gagaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACgg > 1:4555149/1‑71 (MQ=255)
gagaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACg < 1:2205894/70‑1 (MQ=255)
gagaCATTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAg > 1:526731/1‑44 (MQ=255)
gaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTc > 1:4525278/1‑71 (MQ=255)
gaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTc > 1:1594330/1‑71 (MQ=255)
gaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTc > 1:1284793/1‑71 (MQ=255)
ccTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCgg < 1:1888529/71‑1 (MQ=255)
ccTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCgg < 1:1751004/71‑1 (MQ=255)
ccTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCgg < 1:3870140/71‑1 (MQ=255)
cTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCgaga < 1:5092353/59‑1 (MQ=255)
cTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCgg > 1:3044735/1‑70 (MQ=255)
|
AGGTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCGG > W3110S.gb/4093175‑4093310
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
