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 |
2,627,454 |
C→T |
32.1% |
intergenic (+194/‑77) |
rpoH → / → livJ |
RNA polymerase, sigma 32 (sigma H) factor/leucine/isoleucine/valine transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,627,454 | 0 | C | T | 32.1%
| 112.7
/ 62.9
| 125 | intergenic (+194/‑77) | rpoH/livJ | RNA polymerase, sigma 32 (sigma H) factor/leucine/isoleucine/valine transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (55/29); new base T (29/11); total (85/40) |
| Fisher's exact test for biased strand distribution p-value = 5.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 133 total aligned reads displayed.
ATAGCTATTCCAATATCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATGGGGA > minE/2627387‑2627522
|
aTAGCTATTCCAATATCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTc > 1:3237733/1‑68 (MQ=255)
cTATTCCAATATCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGc > 1:1828418/1‑68 (MQ=255)
cTATTCCAATATCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGc > 1:1281061/1‑68 (MQ=255)
cTATTCCAATATCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGc > 1:448190/1‑68 (MQ=255)
atCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaa > 1:2876972/1‑68 (MQ=255)
atCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaa > 1:1287900/1‑68 (MQ=255)
atCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaa > 1:1317310/1‑68 (MQ=255)
atCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGT‑GTCATGCATAAAACGaaa > 1:1224754/1‑68 (MQ=255)
tCATAAAAATGGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:2713451/69‑1 (MQ=255)
tCATAAAAATGGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:2555497/69‑1 (MQ=255)
tCATAAAAATGGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:1699114/69‑1 (MQ=255)
tCATAAAAATGGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:2919187/69‑1 (MQ=255)
tCATAAAAATGGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:876819/69‑1 (MQ=255)
tCATAAAAATGGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:2068140/69‑1 (MQ=255)
tCATAAAAATGGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:2287792/69‑1 (MQ=255)
tCATAAAAATGGGGTATGTTTTAGCAGAGTATCCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:1612487/69‑1 (MQ=255)
tCATAAAAATGAGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGCTACGTATAAAACGAAAt < 1:2389189/69‑1 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACg > 1:3366619/1‑65 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaaa > 1:2458237/1‑68 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaaa > 1:2019809/1‑68 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaaa > 1:1107181/1‑68 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaaa > 1:1723230/1‑68 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaaa > 1:2753797/1‑68 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaaa > 1:3310123/1‑68 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaaa > 1:1081325/1‑68 (MQ=255)
tCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGaaa > 1:3134148/1‑68 (MQ=255)
aaaaTGGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGt > 1:2676513/1‑69 (MQ=255)
aaaaTCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGt > 1:600934/1‑69 (MQ=255)
aaaaTCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGt > 1:1920309/1‑69 (MQ=255)
aaaaTCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGt > 1:1387801/1‑69 (MQ=255)
aaaaTCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGt > 1:2931057/1‑69 (MQ=255)
aaaaTCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGt > 1:3023615/1‑69 (MQ=255)
aaaaTCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGt > 1:221873/1‑69 (MQ=255)
aTCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGc > 1:2314334/1‑68 (MQ=255)
aTGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaac < 1:1109529/69‑1 (MQ=255)
aTGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaac < 1:841115/69‑1 (MQ=255)
tGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaac > 1:2609688/1‑68 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:2688931/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:3109676/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:859805/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:134756/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:2862916/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac < 1:2807280/69‑1 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:171611/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:604550/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:540370/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac < 1:500255/69‑1 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac < 1:2395650/69‑1 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac > 1:2508800/1‑69 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaa < 1:408182/68‑1 (MQ=255)
ttttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaa < 1:2001540/68‑1 (MQ=255)
tttAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAaacaac < 1:1933772/68‑1 (MQ=255)
agagTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCacaa < 1:2214616/69‑1 (MQ=255)
agagTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCacaa < 1:2450874/69‑1 (MQ=255)
agagTATGCTGCTAAAGCACGGGTACTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCacaa < 1:792363/69‑1 (MQ=255)
tATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacaca < 1:405143/69‑1 (MQ=255)
tATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacaca < 1:1172861/69‑1 (MQ=255)
tATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacaca < 1:2966794/69‑1 (MQ=255)
tATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacaca < 1:538671/69‑1 (MQ=255)
tATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacaca < 1:840056/69‑1 (MQ=255)
tATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacaca < 1:2846393/69‑1 (MQ=255)
tATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacaca < 1:512482/69‑1 (MQ=255)
tgctgcTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacacac > 1:417262/1‑68 (MQ=255)
tgctgcTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacacac > 1:183490/1‑68 (MQ=255)
tgctgcTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacacac > 1:3399875/1‑68 (MQ=255)
tgctgcTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacacac > 1:2976067/1‑68 (MQ=255)
tgctgcTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacacac > 1:3022089/1‑68 (MQ=255)
tgctgcTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAacacac > 1:3033120/1‑68 (MQ=255)
ctgctAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGt < 1:1831317/68‑1 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTg > 1:2963701/1‑36 (MQ=16)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACTTCACAacacac > 1:2554691/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAataca > 1:878634/1‑56 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:1130596/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:1777977/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:550690/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:1728420/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:1582422/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:1499013/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:1343352/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:2539198/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:861104/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:370838/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:2642287/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:2659112/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:309436/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:3286560/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:327869/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacacac > 1:3173566/1‑57 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATCACAacaca > 1:2934237/1‑56 (MQ=255)
cACGGGTAGCTACGTATAAAACGAAATAAAGTGCTGCACAACAACATAACAacacac > 1:3193433/1‑57 (MQ=255)
aCGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAacaaca < 1:2439125/45‑1 (MQ=255)
ggTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAgaagaa < 1:1119225/69‑1 (MQ=255)
ggTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAgaagaa < 1:2593001/69‑1 (MQ=255)
gTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATggg > 1:2352766/1‑69 (MQ=255)
cATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATGGGGa < 1:1902732/69‑1 (MQ=255)
cATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATGGGGa < 1:1699310/69‑1 (MQ=255)
cATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATGGGGa < 1:2172956/69‑1 (MQ=255)
cATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATGGGGa < 1:2235898/69‑1 (MQ=255)
cATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATGGGGa < 1:258502/69‑1 (MQ=255)
cATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATGGGGa < 1:2774974/69‑1 (MQ=255)
|
ATAGCTATTCCAATATCATAAAAATCGGGTATGTTTTAGCAGAGTATGCTGCTAAAGCACGGGTAGTCATGCATAAAACGAAATAAAGTGCTGAAAAACAACATCACAACACACGTAATAACCAGAAGAATGGGGA > minE/2627387‑2627522
|
| 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
