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 F999 I1 R1
|
226 |
132.7 |
9745491 |
85.7% |
8351885 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,537,405 |
+GC |
intergenic (+61/‑394) |
b3407 → / → feoA |
hypothetical protein/ferrous iron transport protein A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,537,404 | 1 | . | C | 98.6%
| 170.6
/ ‑3.8
| 69 | intergenic (+60/‑395) | b3407/feoA | hypothetical protein/ferrous iron transport protein A |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (21/47); total (21/48) |
| 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 |
| * | NC_000913 | 3,537,404 | 2 | . | G | 98.6%
| 174.8
/ ‑3.5
| 69 | intergenic (+60/‑395) | b3407/feoA | hypothetical protein/ferrous iron transport protein A |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (21/47); total (21/48) |
| 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 |
GGGCAAAAAACGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CA‑‑CCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCATTTTTA > NC_000913/3537329‑3537468
||
gggCAAAAAACGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑Ca > 1:4002281/1‑76 (MQ=255)
gggCAAAAAACGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑Ca > 2:2878587/1‑76 (MQ=255)
tgCAAAAAACGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CA‑‑c > 2:3041947/2‑76 (MQ=255)
ggCAAAAAACGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CA‑‑c < 2:713511/76‑1 (MQ=255)
cAAAAAACGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CA‑‑cgc < 2:4377369/76‑3 (MQ=255)
aaaaaaCGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CA‑‑cgcc < 1:4849180/76‑4 (MQ=255)
aaaaaaCGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CA‑‑cgcc < 2:2546973/76‑4 (MQ=255)
aaaaaaCGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGCAGGGCAGATAAAGCGTT‑‑CA‑‑cgcc > 1:2673450/1‑73 (MQ=255)
gTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTg < 2:2917401/76‑1 (MQ=37)
tAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGc < 1:2820820/76‑1 (MQ=37)
tAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGc < 1:2976323/76‑1 (MQ=37)
tAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGc < 2:2979591/76‑1 (MQ=37)
aaCGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCaa < 1:4364844/76‑1 (MQ=25)
acccccGTACGTGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCaac < 1:303693/73‑1 (MQ=21)
aCGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCaac < 2:4188871/76‑1 (MQ=25)
cGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCaacg > 1:1018778/1‑76 (MQ=25)
gagcGTTCTGGGGTACGGTTGGAATTTGCTCGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCaacga < 2:1866286/73‑1 (MQ=12)
gCCCGTACTGGCCTACGGTTGGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCaacgg < 1:2887173/76‑2 (MQ=25)
gTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGc < 1:4382326/76‑1 (MQ=25)
gTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGc < 2:3680454/76‑1 (MQ=25)
aCTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCt > 2:1700362/1‑76 (MQ=25)
tGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCttc > 2:4004602/1‑75 (MQ=25)
ggCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGc < 2:2215673/76‑1 (MQ=25)
ccgaCGGGTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCt < 2:296946/73‑1 (MQ=21)
ccTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCt < 2:2544883/76‑1 (MQ=25)
cTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTg < 2:1731013/76‑1 (MQ=25)
cTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTg < 2:2867886/76‑1 (MQ=25)
cTACGGTTCGAATTTGCACGAAATCGGAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTg < 2:4395866/76‑1 (MQ=25)
tACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGa < 1:2742892/76‑1 (MQ=25)
tACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGa > 1:175180/1‑76 (MQ=25)
ggTTGGAATTTGAACGAAATCGTAGGGAAGATAAGGCGTT‑‑CACGCCGCATCTGGNNACGAACGCCTTGCCTGACAt < 1:265855/76‑1 (MQ=21)
ggTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACAt > 2:2782120/1‑76 (MQ=25)
ggTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACAt < 1:1870658/76‑1 (MQ=25)
ggTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACAt > 2:3571238/1‑76 (MQ=25)
ggTTCGAATTTGCACGAAAGCGAAGGGCAGACAAAGCGTT‑‑CACGCCGCATCTCGCAACGAACGCCTTGCCTGACaa > 1:2148667/1‑75 (MQ=255)
gTTCGAATTTGCACTAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATa < 1:851999/76‑1 (MQ=25)
ttCGACTTTGCACGAAATCGTAGGGCCGATAAGCCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATaa < 1:38666/76‑1 (MQ=25)
cGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATaaaa < 1:4356463/76‑1 (MQ=25)
gAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAg < 2:3179850/76‑1 (MQ=25)
gAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAg < 2:3914725/76‑1 (MQ=25)
aaTTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGt < 2:582900/76‑1 (MQ=25)
aaTTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGt < 2:2862630/76‑1 (MQ=25)
aaTTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTCCCTGACATAAAAgg > 2:299648/1‑75 (MQ=25)
aTTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTg > 1:2382783/1‑76 (MQ=25)
aTTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTg < 2:2753211/76‑1 (MQ=25)
tttGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGc < 1:2227012/76‑1 (MQ=25)
ttGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTccc > 2:28955/1‑76 (MQ=25)
ttGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGcc < 1:3355120/76‑1 (MQ=25)
ttGCACGAAATCGGAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGcc < 1:2095496/76‑1 (MQ=25)
tGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCg < 1:1109822/76‑1 (MQ=25)
aCGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGgag < 1:432183/76‑1 (MQ=25)
aCGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGgag < 1:1355778/76‑1 (MQ=25)
cGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGgaga < 1:1101043/76‑1 (MQ=25)
cGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGgaga < 2:3277835/76‑1 (MQ=25)
cGAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGCGCCGgaga > 2:4846197/1‑76 (MQ=25)
gAAATCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGaa < 2:3169628/76‑1 (MQ=25)
gAAATCGTAGGGCAGAGAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGaa < 2:922704/76‑1 (MQ=25)
gAAATCGGAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGaa < 2:1060853/76‑1 (MQ=25)
aaaTCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAat < 2:2171669/76‑1 (MQ=25)
aaaTCGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAat < 1:3322797/76‑1 (MQ=25)
aaTCGGAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAata < 2:4156898/76‑1 (MQ=25)
cGTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCNGGAGAATAtct > 2:4150730/1‑76 (MQ=25)
gTAGGGCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATAtctc > 1:2758650/1‑76 (MQ=37)
gggggAGATAAGGGGTTCGCG‑‑CCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCg < 2:527055/75‑1 (MQ=37)
gggCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCgg < 1:2501034/76‑1 (MQ=37)
ggCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGc > 1:4543958/1‑76 (MQ=37)
gCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCa < 1:4563627/76‑1 (MQ=37)
gCAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCa > 1:3068975/1‑76 (MQ=37)
cAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCAt > 1:4082192/1‑76 (MQ=37)
cAGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCAt > 1:4076746/1‑76 (MQ=37)
aGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCAtt > 1:4636547/1‑76 (MQ=37)
aGATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCAtt > 2:1246484/1‑76 (MQ=37)
gATAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCAttt < 2:1351950/76‑1 (MQ=38)
tAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCAttttt > 1:4358422/1‑76 (MQ=38)
tAAGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCAttttt < 1:701616/76‑1 (MQ=38)
aaGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCATTTTTa > 1:1222007/1‑76 (MQ=38)
aaGGCGTT‑‑CACGCCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCATTTTTa < 2:1726284/76‑1 (MQ=38)
||
GGGCAAAAAACGTTAAACGCCCGTACTGGCCTACGGTTCGAATTTGCACGAAATCGTAGGGCAGATAAGGCGTT‑‑CA‑‑CCGCATCTGGCAACGAACGCCTTGCCTGACATAAAAGTGCCGGAGAATATCTCCGGCATTTTTA > NC_000913/3537329‑3537468
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
