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 |
1,170,199 |
C→T |
48.5% |
R46R (CGC→CGT) |
gdhA → |
glutamate dehydrogenase, NADP‑specific |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,170,199 | 0 | C | T | 48.5%
| 3.3
/ 58.6
| 70 | R46R (CGC→CGT) | gdhA | glutamate dehydrogenase, NADP‑specific |
| Reads supporting (aligned to +/- strand): ref base C (12/24); new base T (7/27); total (19/51) |
| Fisher's exact test for biased strand distribution p-value = 2.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.67e-01 |
GCAAGCCGTTCGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTTG > minE/1170136‑1170266
|
gcAAGCCGTTCGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGAt < 1:932175/69‑1 (MQ=255)
gcAAGCCGTTCGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGAt < 1:2189208/69‑1 (MQ=255)
gcAAGCCGTTCGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGAt < 1:1054553/69‑1 (MQ=255)
gcAAGCCGTTCGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGAt < 1:1225099/69‑1 (MQ=255)
gcAAGCCGTTCGTGAAGT‑ATGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGAt < 1:3016157/68‑1 (MQ=255)
aaGCCGTTCGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGt < 1:2046233/69‑1 (MQ=255)
cGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTAc > 1:525626/1‑67 (MQ=255)
cGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTAc > 1:2391728/1‑67 (MQ=255)
cGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTAc > 1:141625/1‑67 (MQ=255)
cGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTAc > 1:1994602/1‑67 (MQ=255)
cGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTAc > 1:2648505/1‑67 (MQ=255)
cGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTAc > 1:1788722/1‑67 (MQ=255)
cGTGAAGTAATGACCACACTCTGGCCTTTTCTCGAACAAAATCCCAAATATCGTCAGATGTCATTAc > 1:602639/1‑67 (MQ=255)
gTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTACTGGAGCg < 1:1202320/68‑1 (MQ=255)
gTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTACTGGAGCg < 1:2614394/68‑1 (MQ=255)
gTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTACTGGAGCg < 1:2828766/68‑1 (MQ=255)
gTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTACTGGAGCg < 1:1741466/68‑1 (MQ=255)
gTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTACTGGAGCg < 1:2830381/68‑1 (MQ=255)
tAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCCAAATATCGTCAGATGTCATTACTGGAGCg < 1:709445/67‑1 (MQ=255)
aTGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTg > 1:484075/1‑69 (MQ=255)
aTGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTg > 1:2243489/1‑69 (MQ=255)
cacaCTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGa < 1:298435/69‑1 (MQ=255)
cacaCTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGa < 1:3127649/69‑1 (MQ=255)
cacaCTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGa < 1:276975/69‑1 (MQ=255)
cacaCTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGa < 1:3337504/69‑1 (MQ=255)
cacaCTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGa < 1:1546615/69‑1 (MQ=255)
cacaCTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGa < 1:110627/69‑1 (MQ=255)
cacaCTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGa < 1:1335055/69‑1 (MQ=255)
cacTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAAc < 1:3249411/69‑1 (MQ=255)
cacTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAAc < 1:2438054/69‑1 (MQ=255)
cacTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAAc < 1:2129622/69‑1 (MQ=255)
cacTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAAc < 1:1619628/69‑1 (MQ=255)
acTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAAc < 1:2271957/68‑1 (MQ=255)
tctGGCCTTTTCTTTAACAAAATCCCAAATATCGTCAGATGTCATTACTGGAGCg < 1:1243296/55‑1 (MQ=255)
cTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAgcgc > 1:2422019/1‑68 (MQ=255)
cTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAgcgc > 1:1862881/1‑68 (MQ=255)
cAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTgg < 1:2076667/69‑1 (MQ=255)
cAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTgg < 1:2509516/69‑1 (MQ=255)
cAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTgg < 1:2730289/69‑1 (MQ=255)
cAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTgg < 1:3386739/69‑1 (MQ=255)
cAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTgg < 1:2776312/69‑1 (MQ=255)
aaaaTATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTgg < 1:468876/68‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:3245315/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:1651554/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:1623525/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:3379030/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:132658/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:1281850/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:764162/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:84152/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:911869/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:1062403/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:321758/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:2163735/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:2054400/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:195119/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:2737896/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:2912476/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:2981991/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:1660934/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:222064/69‑1 (MQ=255)
tatCGTCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAATTTCGCGTAGTATgg < 1:3221520/69‑1 (MQ=255)
gCCAGATGTCCTTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGtt > 1:931455/1‑68 (MQ=255)
gCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTtg > 1:1427629/1‑69 (MQ=255)
gCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTtg > 1:1762327/1‑69 (MQ=255)
gCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTtg > 1:1934434/1‑69 (MQ=255)
gCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTtg > 1:63553/1‑69 (MQ=255)
gCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTtg > 1:653797/1‑69 (MQ=255)
gCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTtg > 1:1683097/1‑69 (MQ=255)
gCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTtg > 1:2537460/1‑69 (MQ=255)
|
GCAAGCCGTTCGTGAAGTAATGACCACACTCTGGCCTTTTCTTGAACAAAATCCAAAATATCGCCAGATGTCATTACTGGAGCGTCTGGTTGAACCGGAGCGCGTGATCCAGTTTCGCGTGGTATGGGTTG > minE/1170136‑1170266
|
| 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
