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 |
4,123,875 |
G→A |
43.9% |
R255H (CGC→CAC) |
damX → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,123,875 | 0 | G | A | 43.9%
| 30.3
/ 82.7
| 66 | R255H (CGC→CAC) | damX | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (18/19); new base A (22/7); total (40/26) |
| Fisher's exact test for biased strand distribution p-value = 4.15e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCGCAATGGCAATGCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGAAAACGGAGCCGA > W3110S.gb/4123809‑4123940
|
ttCGCAATGGCAATGCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGccc < 1:4289794/70‑1 (MQ=255)
ttCGCAATGGCAATGCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGccc < 1:470367/70‑1 (MQ=255)
ttCGCAATGGCAATGCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGccc < 1:1493211/70‑1 (MQ=255)
atggcaatgCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCAccc < 1:573232/64‑1 (MQ=255)
atggcaatgCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCAccc < 1:818771/64‑1 (MQ=255)
gcaatgCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTcag < 1:4753481/71‑1 (MQ=255)
gcaatgCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTcag > 1:1177052/1‑71 (MQ=255)
gcaatgCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTcag > 1:759418/1‑71 (MQ=255)
gCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAgg > 1:2641234/1‑70 (MQ=255)
cATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCg > 1:1579417/1‑71 (MQ=255)
tCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGt < 1:2590045/71‑1 (MQ=255)
tCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGt < 1:2464725/71‑1 (MQ=255)
tCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGt < 1:134036/71‑1 (MQ=255)
tCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGt < 1:412502/71‑1 (MQ=255)
tCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGt < 1:1538831/71‑1 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGt > 1:819633/1‑58 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGt > 1:4745280/1‑58 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGa > 1:3445972/1‑71 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGa > 1:3065629/1‑71 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGa > 1:4488677/1‑71 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGa > 1:2208098/1‑71 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGa > 1:2071034/1‑71 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGa > 1:1540128/1‑71 (MQ=255)
gcgTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGa > 1:1194027/1‑71 (MQ=255)
tGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTg < 1:585846/71‑1 (MQ=255)
tGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTg < 1:123033/71‑1 (MQ=255)
gACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGAtt > 1:4012189/1‑69 (MQ=255)
gACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTg > 1:1352547/1‑70 (MQ=255)
acacGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGa < 1:3176995/70‑1 (MQ=255)
ggCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTcagca > 1:3303516/1‑54 (MQ=255)
gCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGaa < 1:3377345/71‑1 (MQ=255)
gCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGaa < 1:4739911/71‑1 (MQ=255)
gCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGa > 1:3458715/1‑70 (MQ=255)
gAAAACGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGaaaa < 1:682640/71‑1 (MQ=255)
aaaaCGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGt > 1:4787091/1‑45 (MQ=255)
aaaaCGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGt > 1:1530209/1‑45 (MQ=255)
aaCGCAAACCGCTGAACGTCCGTCCACTACGCGccc > 1:1796780/1‑36 (MQ=255)
aaCGCAAACCGCTGAACGTCCGTCCACTACGCGccc > 1:4430077/1‑36 (MQ=255)
aaCGCAAACCGCTGAACGTCCGTCCACTACGCGccc > 1:3499526/1‑36 (MQ=255)
aaCGCAAACCGCTGAACGTCCGTCCACTACGCGccc > 1:136106/1‑36 (MQ=255)
aaCGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAAc > 1:2658802/1‑71 (MQ=255)
aaCGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAAc > 1:3186819/1‑71 (MQ=255)
aaCGCAAACCGCTAAACGTCCGTCCACTACGCGccc > 1:496584/1‑36 (MQ=255)
cGCAAACCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCg < 1:3433788/71‑1 (MQ=255)
gCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCgc < 1:878710/71‑1 (MQ=255)
cAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGaaaaaa > 1:2735705/1‑66 (MQ=255)
aCCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCgcaag > 1:2724159/1‑70 (MQ=255)
aCCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTcagca > 1:2200860/1‑41 (MQ=255)
aCCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTcagca > 1:3895394/1‑41 (MQ=255)
aCCGCTGAACGTCCGTCCACTACGCACCCAGCTCGTcagca > 1:3460666/1‑41 (MQ=255)
ccGCTGAACGTCCGTCCACTACGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCgcaagc > 1:3527216/1‑70 (MQ=255)
cGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCgcaagcaa < 1:2379679/71‑1 (MQ=255)
tGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCgcaa > 1:4059266/1‑64 (MQ=255)
aaCGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTg < 1:2281317/71‑1 (MQ=255)
aaCGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTg < 1:3185737/71‑1 (MQ=255)
aCGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTg < 1:2735887/70‑1 (MQ=255)
cgtccgtcCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGaa < 1:594691/71‑1 (MQ=255)
ccgtccACTACGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGa > 1:2218942/1‑67 (MQ=255)
cgtccACTACGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGAAAACg < 1:2056586/71‑1 (MQ=255)
cgtccACTACGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGAAAACg < 1:199239/71‑1 (MQ=255)
tccACTACGCGCCCAGCTCGTCAGCAGGCGGTGAt > 1:350401/1‑35 (MQ=255)
tccACTACGCGCCCAGCTCGTCAGCAGGCGGTGAt > 1:1348373/1‑35 (MQ=255)
tccACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGAAAACg > 1:3536930/1‑69 (MQ=255)
aCGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGAAAACGGAGcc > 1:1247116/1‑68 (MQ=255)
aCGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCgcaa > 1:74563/1‑48 (MQ=255)
aCGCACCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGAAAAc > 1:3752038/1‑62 (MQ=255)
cgcaCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGAAAACGGAGCCGa < 1:3969918/69‑1 (MQ=255)
|
TTCGCAATGGCAATGCATCGCGTGACACGGCGAAAACGCAAACCGCTGAACGTCCGTCCACTACGCGCCCAGCTCGTCAGCAGGCGGTGATTGAACCGAAAAAACCGCAAGCAACCGTGAAAACGGAGCCGA > W3110S.gb/4123809‑4123940
|
| 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
