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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,491,691 |
C→T |
60.0% |
T163I (ACC→ATC) |
gyrB → |
DNA gyrase, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,491,691 | 0 | C | T | 60.0%
| 32.2
/ 62.7
| 55 | T163I (ACC→ATC) | gyrB | DNA gyrase, subunit B |
| Reads supporting (aligned to +/- strand): ref base C (8/14); new base T (24/9); total (32/23) |
| Fisher's exact test for biased strand distribution p-value = 1.18e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCGTCAGATCTACGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGACCGAGTTCGAATATGAAA > minE/2491625‑2491759
|
aCCGTCAGATCTACGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCgg < 1:3540583/70‑1 (MQ=255)
cGTCAGATCTACGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCAc > 1:745300/1‑71 (MQ=255)
cAGATCTACGAACACGCTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCAc > 1:1621672/1‑68 (MQ=255)
aGATCTACGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATg < 1:2761716/71‑1 (MQ=255)
aTCTACGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCa < 1:4005455/67‑1 (MQ=255)
cTACGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGc > 1:1027645/1‑71 (MQ=255)
cTACGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGc > 1:2036667/1‑71 (MQ=255)
cGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTg < 1:3895171/67‑1 (MQ=255)
gAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGt < 1:1153765/69‑1 (MQ=255)
acacGGTGTACCGCAGGCCCCGCTGGCTGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGTTTCt > 1:791873/1‑71 (MQ=255)
acGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCAc < 1:3032079/55‑1 (MQ=255)
cGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGc > 1:1492510/1‑71 (MQ=255)
tgtACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGcc > 1:77926/1‑69 (MQ=255)
tACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGcc < 1:421933/67‑1 (MQ=255)
tACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGc > 1:3263137/1‑71 (MQ=255)
tACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGTTTCTGGcc < 1:963817/67‑1 (MQ=255)
ccGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGTTTCTGGCCCAGCCt > 1:151114/1‑71 (MQ=255)
gCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTc > 1:2663975/1‑70 (MQ=255)
cAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGccc > 1:1234412/1‑63 (MQ=255)
ggCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAATAGGCACCATgg > 1:2435114/1‑47 (MQ=39)
ccccGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAAcc > 1:352412/1‑71 (MQ=255)
cccGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCa > 1:2292994/1‑41 (MQ=255)
ccGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGtt < 1:1409823/49‑1 (MQ=255)
gCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCg > 1:2440884/1‑45 (MQ=255)
gCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCg > 1:883391/1‑45 (MQ=255)
gCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCa > 1:821472/1‑71 (MQ=255)
gCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCa > 1:1520269/1‑71 (MQ=255)
gCTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCa > 1:3651940/1‑71 (MQ=255)
gCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGt < 1:2847427/46‑1 (MQ=255)
cTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTc > 1:1643259/1‑48 (MQ=255)
cTGGCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCAc > 1:2068723/1‑71 (MQ=255)
gCGGTTACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCaa > 1:3118686/1‑71 (MQ=255)
cGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGaa < 1:1763356/59‑1 (MQ=255)
cGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAAt < 1:2957954/71‑1 (MQ=255)
gTTACCGGCGAGACTGAAAAAATCGTCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCAcc < 1:2497756/66‑1 (MQ=255)
tACCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAAtg > 1:3548225/1‑68 (MQ=255)
aCCGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGAc > 1:1795757/1‑71 (MQ=255)
ccGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGAcc < 1:843172/71‑1 (MQ=255)
ccGGCGAGACTGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGAcc < 1:3082293/71‑1 (MQ=255)
ggCGAGACTGAAAAAACCTGCACCATGGTGCGTTTCTGGCCCAGCCTc < 1:3120276/48‑1 (MQ=255)
gaCTGAAAAAACCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAAtg > 1:528610/1‑59 (MQ=255)
gaCTGAAAAAACCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGACCGAGTTCg < 1:2489798/71‑1 (MQ=255)
tGAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCa < 1:997113/53‑1 (MQ=255)
gAAAAAATCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGACCGAGTTCGAata > 1:357823/1‑71 (MQ=255)
aaaaaaTCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAAt > 1:3648228/1‑53 (MQ=255)
aaaaaaCCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGACCGAGTTCGAatat > 1:3647949/1‑71 (MQ=255)
aaaaaTCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGAc > 1:2634856/1‑57 (MQ=255)
aaaaaTCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGAc > 1:2754138/1‑57 (MQ=255)
aaaaaCCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGACCGAGTTCGAata < 1:4127689/69‑1 (MQ=255)
aaaaCCGGCACCATGGTGCGTTTCTGGCCAAGCCTCGAAACCTTCACCAATGTGACCGAGTTCGAATATg > 1:2626996/1‑70 (MQ=255)
aaaCCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACTAAt < 1:3550337/50‑1 (MQ=255)
aaaCCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAAt < 1:4008491/50‑1 (MQ=255)
aaCCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGACCGAGTTCGAATATGaaa < 1:2443081/71‑1 (MQ=255)
aaCCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGACCGAGTTCGAATATGaaa < 1:1444822/71‑1 (MQ=255)
aCCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAAtg > 1:1198436/1‑49 (MQ=255)
|
ACCGTCAGATCTACGAACACGGTGTACCGCAGGCCCCGCTGGCGGTTACCGGCGAGACTGAAAAAACCGGCACCATGGTGCGTTTCTGGCCCAGCCTCGAAACCTTCACCAATGTGACCGAGTTCGAATATGAAA > minE/2491625‑2491759
|
| 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
