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 |
917,710 |
A→G |
42.2% |
M351V (ATG→GTG) |
tyrR → |
DNA‑binding transcriptional dual regulator, tyrosine‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 917,710 | 0 | A | G | 42.2%
| 22.4
/ 58.4
| 79 | M351V (ATG→GTG) | tyrR | DNA‑binding transcriptional dual regulator, tyrosine‑binding |
| Reads supporting (aligned to +/- strand): ref base A (20/25); new base G (13/20); total (33/46) |
| Fisher's exact test for biased strand distribution p-value = 8.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.77e-01 |
TCGATGTGCGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATCTGCCGCCGCTACGTG > minE/917651‑917773
|
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:634230/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:2973223/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:2896463/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:321532/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:3371836/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:2815591/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:345080/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:2807296/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:605067/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:2380771/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:224365/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:635347/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:1991520/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:740692/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:943962/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:1429303/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:884957/69‑1 (MQ=255)
tCGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:1738367/69‑1 (MQ=255)
cGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:2407366/68‑1 (MQ=255)
cGATGTGCGGGTGATTTGTGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCGTGTTCCGTg < 1:2349441/68‑1 (MQ=255)
gtgCGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAt > 1:2259164/1‑69 (MQ=255)
gtgCGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAt > 1:2952146/1‑69 (MQ=255)
gtgCGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAt > 1:626970/1‑69 (MQ=255)
gtgCGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAt > 1:1486329/1‑69 (MQ=255)
gtgCGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAt > 1:1579937/1‑69 (MQ=255)
tgCGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtc > 1:2405215/1‑69 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:1003429/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:1756661/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:2816061/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:709676/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:440509/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:45562/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:5714/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:2425072/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:1867054/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:853125/69‑1 (MQ=255)
cGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:2334471/69‑1 (MQ=255)
gTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCtat > 1:617157/1‑69 (MQ=255)
gTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCtat > 1:2393750/1‑69 (MQ=255)
gTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCtat > 1:659823/1‑69 (MQ=255)
gTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCtat > 1:2198352/1‑69 (MQ=255)
gTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCtat > 1:1278041/1‑69 (MQ=255)
gTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCtat > 1:73697/1‑69 (MQ=255)
gTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCtat > 1:1153553/1‑69 (MQ=255)
gTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCtat > 1:3149126/1‑69 (MQ=255)
tGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATctct < 1:539718/61‑1 (MQ=255)
tGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATctct < 1:1093484/61‑1 (MQ=255)
tGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATctct < 1:2357736/61‑1 (MQ=255)
tGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATctct < 1:250000/61‑1 (MQ=255)
tGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATctct < 1:2810508/61‑1 (MQ=255)
tGCGCTACGCAGAAGAATCTGGTCGAACTGGTGC‑AAAAGGCATGTTCCGTGAAGATCTCTATTATCGTc < 1:645481/69‑1 (MQ=255)
cgcTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATctct < 1:3018031/59‑1 (MQ=255)
agaagaATCTGGTCGAACTGGTGCAAATAGGCATGTTCCGTGAAGATctct < 1:1831427/51‑1 (MQ=255)
gaagaaTCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGtt < 1:973405/69‑1 (MQ=255)
agaaTCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:2874251/47‑1 (MQ=255)
agaaTCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:2757799/47‑1 (MQ=255)
agaaTCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:2030204/47‑1 (MQ=255)
agaaTCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:2464525/47‑1 (MQ=255)
aaTCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGAtctc < 1:311916/45‑1 (MQ=255)
gTCGAACTGGTGCAAAAAGGCTTGTTCCGTGTAGATctct < 1:2337536/40‑1 (MQ=38)
aCTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATCTgcc > 1:2237824/1‑69 (MQ=255)
gCAAAAAGGGGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:3325988/1‑59 (MQ=38)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:296683/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:119124/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:161346/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:2015573/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:2075421/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:639544/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:3163122/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:2397321/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:316465/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:253411/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:2590350/1‑59 (MQ=255)
gCAAAAAGGCGTGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATc > 1:2816749/1‑59 (MQ=255)
aaGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCt > 1:682776/1‑49 (MQ=255)
aaGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATCTGCCGCCGCTACGTg > 1:2949419/1‑69 (MQ=255)
aaGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATCTGCCGCCGCTACGTg > 1:454828/1‑69 (MQ=255)
aaGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATCTGCCGCCGCTACGTg > 1:1474998/1‑69 (MQ=255)
aaGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATCTGCCGCCGCTACGTg > 1:442316/1‑69 (MQ=255)
|
TCGATGTGCGGGTGATTTGCGCTACGCAGAAGAATCTGGTCGAACTGGTGCAAAAAGGCATGTTCCGTGAAGATCTCTATTATCGTCTGAACGTGTTGACGCTCAATCTGCCGCCGCTACGTG > minE/917651‑917773
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
