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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,103,846 |
T→C |
30.3% |
Y5H (TAC→CAC) |
ompR → |
DNA‑binding response regulator in two‑component regulatory system with EnvZ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,103,846 | 0 | T | C | 30.3%
| 103.1
/ 64.6
| 76 | Y5H (TAC→CAC) | ompR | DNA‑binding response regulator in two‑component regulatory system with EnvZ |
| Reads supporting (aligned to +/- strand): ref base T (31/22); new base C (15/8); total (46/30) |
| Fisher's exact test for biased strand distribution p-value = 6.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
AGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACA > W3110S.gb/4103778‑4103913
|
aGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACt < 1:163228/69‑1 (MQ=255)
ttAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGAt > 1:2676024/1‑69 (MQ=255)
ttAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGAt > 1:3165773/1‑69 (MQ=255)
tAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGAt < 1:617886/68‑1 (MQ=255)
aaTACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGa < 1:2386615/63‑1 (MQ=255)
aaTACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCtg < 1:846081/68‑1 (MQ=255)
tACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCtggtg > 1:710344/1‑69 (MQ=255)
tACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCtggtg > 1:2317006/1‑69 (MQ=255)
tACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCtggtg > 1:271940/1‑69 (MQ=255)
tACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCtggtg > 1:598699/1‑69 (MQ=255)
tACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCtggtg > 1:403129/1‑69 (MQ=255)
tACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCtggt > 1:1054750/1‑68 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTc > 1:3646640/1‑62 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCtggtg > 1:414461/1‑67 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCtggtg > 1:3550139/1‑67 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCtggtgg > 1:2345046/1‑68 (MQ=255)
cGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc < 1:192652/68‑1 (MQ=255)
cGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc < 1:1586654/68‑1 (MQ=255)
cGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc < 1:619445/68‑1 (MQ=255)
cGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc < 1:2645028/68‑1 (MQ=255)
cGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc < 1:3097517/68‑1 (MQ=255)
cGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc < 1:603595/68‑1 (MQ=255)
gCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc < 1:2534332/67‑1 (MQ=255)
cAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgac > 1:1764235/1‑68 (MQ=255)
aaaTTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgac < 1:3691467/67‑1 (MQ=255)
aaaTTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgac < 1:3036390/67‑1 (MQ=255)
aaTTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacga < 1:438446/68‑1 (MQ=255)
aaTTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacga < 1:1572644/68‑1 (MQ=255)
aaTTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga < 1:2908401/68‑1 (MQ=255)
aaTTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATgacga < 1:103249/68‑1 (MQ=255)
ttgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCtgg > 1:287606/1‑53 (MQ=255)
ttgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacga > 1:1061953/1‑66 (MQ=255)
ttgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacga > 1:663922/1‑66 (MQ=255)
ttgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacga > 1:1100117/1‑66 (MQ=255)
ttgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacga > 1:2552281/1‑66 (MQ=255)
ttgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacga > 1:1709023/1‑66 (MQ=255)
gttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATgc > 1:735194/1‑69 (MQ=255)
cGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGa < 1:740758/41‑1 (MQ=255)
aCCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCg > 1:3092997/1‑50 (MQ=255)
aCCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCg > 1:630631/1‑50 (MQ=255)
aCCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCg > 1:1349399/1‑50 (MQ=255)
aCCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCg > 1:2963555/1‑50 (MQ=255)
aCCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCg > 1:2924411/1‑50 (MQ=255)
aCCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcg < 1:3690433/69‑1 (MQ=255)
aCCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcg < 1:912826/69‑1 (MQ=255)
tttGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcgtgc > 1:2583578/1‑69 (MQ=255)
tttGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcgtgc > 1:2466581/1‑69 (MQ=255)
acaaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCg < 1:2702991/38‑1 (MQ=255)
acaaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCg < 1:2020308/38‑1 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTc > 1:1196887/1‑36 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTc > 1:2414050/1‑36 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTc > 1:2376274/1‑36 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATgacgac < 1:12075/45‑1 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATgacgac < 1:1248125/45‑1 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATgacgac < 1:1559358/45‑1 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGAGGACGACATGCGCCTGCGTGCGCTGCTGGaa > 1:2325689/1‑69 (MQ=255)
caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGaa > 1:1202672/1‑69 (MQ=255)
caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGaa > 1:3324104/1‑69 (MQ=255)
caaacaaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGaa > 1:857086/1‑69 (MQ=255)
aacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCgct > 1:2915868/1‑60 (MQ=255)
aacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCgct > 1:2126381/1‑60 (MQ=255)
aacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCgct > 1:3151839/1‑60 (MQ=255)
aacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAAc > 1:3465860/1‑68 (MQ=255)
acaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTgcgc > 1:3709745/1‑58 (MQ=255)
acaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTgcgc > 1:1180300/1‑58 (MQ=255)
acaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt < 1:401592/69‑1 (MQ=255)
acaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt > 1:2455705/1‑69 (MQ=255)
acaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt < 1:3390938/69‑1 (MQ=255)
acaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGt > 1:3336717/1‑69 (MQ=255)
cAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAtctc > 1:1495251/1‑69 (MQ=255)
cAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAtctc < 1:600070/69‑1 (MQ=255)
cAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAtctc < 1:120799/69‑1 (MQ=255)
gagaACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTgg < 1:1236527/55‑1 (MQ=255)
gagaACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTgg < 1:1232007/55‑1 (MQ=255)
gaACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCg > 1:2709279/1‑68 (MQ=255)
gaACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCg > 1:3491993/1‑68 (MQ=255)
cTACAAGAATCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACa > 1:1075370/1‑69 (MQ=255)
tACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACa < 1:1339800/68‑1 (MQ=255)
|
AGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACA > W3110S.gb/4103778‑4103913
|
| 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
