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 |
2,863,452 |
A→G |
29.6% |
P373P (CCA→CCG) |
hflX → |
predicted GTPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,863,452 | 0 | A | G | 29.6%
| 58.1
/ 27.7
| 64 | P373P (CCA→CCG) | hflX | predicted GTPase |
| Reads supporting (aligned to +/- strand): ref base A (21/24); new base G (11/8); total (32/32) |
| Fisher's exact test for biased strand distribution p-value = 5.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.94e-01 |
GCTTTTTCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGA > minE/2863389‑2863513
|
gCTTTTTCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCa < 1:899222/69‑1 (MQ=255)
gCTTTTTCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCa < 1:734596/69‑1 (MQ=255)
gCTTTTTCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCa < 1:514537/69‑1 (MQ=255)
gCTTTTTCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCa < 1:3166002/69‑1 (MQ=255)
gCTTTTTCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCa < 1:187785/69‑1 (MQ=255)
cTTTTTCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCATCTGCCACCGCa < 1:1055125/68‑1 (MQ=255)
tttttCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAgg < 1:2205923/69‑1 (MQ=255)
tttttCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAgg < 1:2172608/69‑1 (MQ=255)
tttttCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAgg < 1:176796/69‑1 (MQ=255)
ttttCAGGCTTTGACGGGGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAgg < 1:746617/68‑1 (MQ=255)
tttCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCa < 1:2385807/65‑1 (MQ=255)
gCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGt > 1:2417473/1‑69 (MQ=255)
gCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGt > 1:1862517/1‑69 (MQ=255)
gCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGt > 1:1851809/1‑69 (MQ=255)
gCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGt > 1:1351995/1‑69 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:2690075/69‑1 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:1172859/69‑1 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:1955753/69‑1 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:1345896/69‑1 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:2317449/69‑1 (MQ=255)
gCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCa < 1:2298353/37‑1 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAg > 1:480932/1‑36 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:161298/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:2728995/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:2166537/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:3131461/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:1370601/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAACGGCGTCTgaga > 1:203482/1‑51 (MQ=255)
gcagcaTACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCaa < 1:1430466/68‑1 (MQ=255)
gcagcaTACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCaa < 1:2084463/68‑1 (MQ=255)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTa > 1:350162/1‑51 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:1355996/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:1628336/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:526767/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:2739706/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:971609/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:2691715/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:2437332/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:1715876/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:2281596/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:1043125/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGa < 1:2625580/69‑1 (MQ=255)
caTACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGa < 1:3191018/68‑1 (MQ=255)
caTACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGa < 1:589439/68‑1 (MQ=255)
tACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGaaaa < 1:2019209/69‑1 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGaaaaa > 1:2894471/1‑68 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:459042/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:757783/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:1312595/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:2931011/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:447038/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:3346106/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:3317135/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:318484/1‑69 (MQ=255)
gCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:2848947/69‑1 (MQ=255)
gCGTCTGCCACAGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg > 1:1431696/1‑69 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:2181522/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:849140/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:803378/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:1943021/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:634910/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:2226142/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:3261932/68‑1 (MQ=255)
tCTGACGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:229727/68‑1 (MQ=255)
|
GCTTTTTCAGGCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGA > minE/2863389‑2863513
|
| 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
