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 |
2,863,467 |
T→C |
26.3% |
R378R (CGT→CGC) |
hflX → |
predicted GTPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,863,467 | 0 | T | C | 26.3%
| 77.8
/ 27.2
| 72 | R378R (CGT→CGC) | hflX | predicted GTPase |
| Reads supporting (aligned to +/- strand): ref base T (23/30); new base C (11/8); total (34/38) |
| Fisher's exact test for biased strand distribution p-value = 2.99e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.73e-01 |
GCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATGGAGGAGGACGGCAGCGTAAG > minE/2863399‑2863535
|
gCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGt > 1:1851809/1‑69 (MQ=255)
gCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGt > 1:1862517/1‑69 (MQ=255)
gCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGt > 1:1351995/1‑69 (MQ=255)
gCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGt > 1:2417473/1‑69 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:1172859/69‑1 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:1955753/69‑1 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:2317449/69‑1 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:2690075/69‑1 (MQ=255)
gAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt < 1:1345896/69‑1 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:1370601/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:2166537/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:161298/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:2728995/1‑54 (MQ=255)
gAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGt > 1:3131461/1‑54 (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 > 1:971609/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:2437332/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:2691715/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:2281596/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:2739706/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:526767/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:1715876/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:1355996/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:1043125/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTAt > 1:1628336/1‑52 (MQ=39)
gcaTACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGa < 1:2625580/69‑1 (MQ=255)
caTACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGa < 1:589439/68‑1 (MQ=255)
caTACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGa < 1:3191018/68‑1 (MQ=255)
tACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGaaaa < 1:2019209/69‑1 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGaaaaa > 1:2894471/1‑68 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:459042/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:447038/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:757783/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:3346106/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:3317135/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:318484/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:2931011/1‑69 (MQ=255)
cATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAag > 1:1312595/1‑69 (MQ=255)
gCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:2848947/69‑1 (MQ=255)
gCGTCTGCCACAGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg > 1:1431696/1‑69 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:3261932/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:2226142/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:2181522/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:1943021/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:634910/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:803378/68‑1 (MQ=255)
tCTGCCGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:849140/68‑1 (MQ=255)
tCTGACGCCGCAGGAAGGGCGCCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtgga < 1:229727/68‑1 (MQ=255)
ccGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATggaggag < 1:125611/69‑1 (MQ=255)
ccGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATggaggag < 1:2790894/69‑1 (MQ=255)
ccGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATggaggag < 1:546713/69‑1 (MQ=255)
ccGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATggaggag < 1:2578659/69‑1 (MQ=255)
aaGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATggaggag < 1:1317458/62‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGaa > 1:1673478/1‑43 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg > 1:1892409/1‑51 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:104012/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:1625643/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:3333273/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:3318150/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg > 1:2212987/1‑51 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:1038482/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:3314114/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg > 1:3154337/1‑51 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg > 1:1183226/1‑51 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg > 1:2965185/1‑51 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:2940876/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:2644809/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:224288/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGtg < 1:2807002/51‑1 (MQ=255)
aGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATACAAAAAGAGtg > 1:1742270/1‑51 (MQ=255)
gCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATggaggag < 1:2491115/58‑1 (MQ=255)
gCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATggaggag < 1:1275195/58‑1 (MQ=255)
cGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATggaggag < 1:2235929/57‑1 (MQ=255)
tCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATGGAGGAGGACGGCAGCGTAAg < 1:2872836/69‑1 (MQ=255)
tCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATGGAGGAGGACGGCAGCGTAAg < 1:541108/69‑1 (MQ=255)
tCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATGGAGGAGGACGGCAGCGTAAg < 1:1621776/69‑1 (MQ=255)
tCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATGGAGGAGGACGGCAGCGTAAg < 1:1668146/69‑1 (MQ=255)
tCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATGGAGGAGGACGGCAGCGTAAg < 1:1556007/69‑1 (MQ=255)
tCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATGGAGGAGGACGGCAGCGTAAg < 1:3341340/69‑1 (MQ=255)
|
GCTTTGACGGAGCGGCTTTCCGGCGAGGTGGCGCAGCATACATTGCGTCTGCCACCGCAGGAAGGGCGTCTGAGAAGTCGTTTTTATCAGCTTCAGGCAATAGAAAAAGAGTGGATGGAGGAGGACGGCAGCGTAAG > minE/2863399‑2863535
|
| 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
