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 |
2,569,389 |
T→C |
35.1% |
intergenic (‑195/‑342) |
mtlA ← / → yibI |
fused mannitol‑specific PTS enzyme IIABC components/predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,569,389 | 0 | T | C | 35.1%
| 47.8
/ 42.5
| 74 | intergenic (‑195/‑342) | mtlA/yibI | fused mannitol‑specific PTS enzyme IIABC components/predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (32/16); new base C (14/12); total (46/28) |
| Fisher's exact test for biased strand distribution p-value = 3.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.64e-01 |
TCGACGGCCTTTTGTGTGATATCAATCACATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCATTTAAA > minE/2569324‑2569454
|
tCGACGGCCTTTTGTGTGATATCAATCACATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTtc > 1:295474/1‑68 (MQ=255)
tCGACGGCCTTTTGTGTGATATCAATCACATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTtc > 1:1240241/1‑68 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:1263072/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:2990831/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:3158782/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:3162857/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:1422686/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:2707026/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:627967/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:1225041/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:227148/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:108492/68‑1 (MQ=255)
tgtgATATCAGTCACATAAATGTAGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:2134542/68‑1 (MQ=255)
atcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACaa > 1:47797/1‑55 (MQ=255)
atcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTaa > 1:672710/1‑68 (MQ=255)
atcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTaa > 1:14034/1‑68 (MQ=255)
atcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTaa > 1:707349/1‑68 (MQ=255)
atcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTaa > 1:1450704/1‑68 (MQ=255)
atcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTaa > 1:177219/1‑68 (MQ=255)
atcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTaa > 1:2189671/1‑68 (MQ=255)
tcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTaa > 1:52824/1‑67 (MQ=255)
tcaatcaCATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTaa > 1:719218/1‑67 (MQ=255)
aTAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGcaac < 1:2052887/68‑1 (MQ=255)
aTAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGcaac < 1:3414286/68‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:2487985/47‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:704003/47‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:89151/47‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:932580/47‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:944231/47‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:1016466/47‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:1750456/47‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:1135078/47‑1 (MQ=255)
aaTATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:119985/47‑1 (MQ=255)
atatAGGGGGT‑‑AGAGGTAATTGACGTGACGTTCATCACAAAACg < 1:2874033/44‑1 (MQ=38)
ataGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGcaac < 1:1562275/62‑1 (MQ=255)
taGGGGGTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCtt < 1:830985/46‑1 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:1961062/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:1108059/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:818856/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:1108178/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:1177982/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:582951/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:1348522/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:451795/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:3378825/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:3297281/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:1922197/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:2154126/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:2783331/1‑52 (MQ=38)
gggggTAGAGAGGTAATTGACGTGATGCTCATCACAAAATGCTTGTGTaaaa > 1:284309/1‑52 (MQ=38)
agagagGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGAtttt > 1:4866/1‑67 (MQ=255)
agagagGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTc > 1:336799/1‑68 (MQ=255)
ggTAATTTACGTTACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaa > 1:546808/1‑69 (MQ=255)
ggTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaa > 1:1585401/1‑69 (MQ=255)
ggTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaa < 1:2773487/69‑1 (MQ=255)
ggTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaa > 1:656360/1‑68 (MQ=255)
gTAATTGACGTGCCGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaaa > 1:3186254/1‑69 (MQ=255)
gTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaaa > 1:1526874/1‑69 (MQ=255)
gTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaaa > 1:101484/1‑69 (MQ=255)
gTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaaa > 1:1608997/1‑69 (MQ=255)
gTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaaa > 1:3173288/1‑69 (MQ=255)
gTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTaaa < 1:552662/68‑1 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAAt > 1:3209167/1‑69 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAAt > 1:2047654/1‑69 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAAt > 1:39578/1‑69 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAAt > 1:35644/1‑69 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAAt > 1:2960755/1‑69 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAAt > 1:1418759/1‑69 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAAt > 1:1731960/1‑69 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAAt > 1:3430206/1‑69 (MQ=255)
aaTTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATATTCGCTAAAAAt > 1:2948409/1‑69 (MQ=255)
ttGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATg > 1:167361/1‑68 (MQ=255)
tgacgtgacgTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGc < 1:2952990/69‑1 (MQ=255)
tgacgtgacgTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGc > 1:31724/1‑69 (MQ=255)
gacgtgacgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGc > 1:92958/1‑68 (MQ=255)
gacgtgacgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCa > 1:1319858/1‑69 (MQ=255)
gacgtgacgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCa > 1:2494515/1‑69 (MQ=255)
acgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCATTTaaa < 1:693114/69‑1 (MQ=255)
acgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCATTTaaa > 1:1779690/1‑69 (MQ=255)
acgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCATTTaaa < 1:57489/69‑1 (MQ=255)
acgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCATTTaaa > 1:1383932/1‑69 (MQ=255)
acgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCATTTaaa < 1:1071301/69‑1 (MQ=255)
acgtTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCAGCGATTTTCGCTAAAAATGGCATTTaaa < 1:406137/69‑1 (MQ=255)
|
TCGACGGCCTTTTGTGTGATATCAATCACATAAATATAGGGGGTAGAGAGGTAATTGACGTGACGTTCATCACAAAACGCTTGTGTAAAAAAGCAACAAGGCGGCGATTTTCGCTAAAAATGGCATTTAAA > minE/2569324‑2569454
|
| 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
