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 |
1,005,190 |
G→A |
32.1% |
N135N (AAC→AAT) |
pntA ← |
pyridine nucleotide transhydrogenase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,005,190 | 0 | G | A | 32.1%
| 76.9
/ 43.1
| 87 | N135N (AAC→AAT) | pntA | pyridine nucleotide transhydrogenase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (18/41); new base A (22/6); total (40/47) |
| Fisher's exact test for biased strand distribution p-value = 3.05e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATTTGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATACGC > minE/1005125‑1005238
|
aTTTGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTc > 1:300208/1‑69 (MQ=255)
aTTTGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTc > 1:2077038/1‑69 (MQ=255)
aTTTGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTc > 1:2446057/1‑69 (MQ=255)
ttGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGc < 1:2462719/69‑1 (MQ=255)
ttGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGc < 1:3432698/69‑1 (MQ=255)
tGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGcc > 1:906170/1‑69 (MQ=255)
tGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGcc > 1:298412/1‑69 (MQ=255)
tGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGcc > 1:2696105/1‑69 (MQ=255)
tGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGcc > 1:2680242/1‑69 (MQ=255)
tGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGcc > 1:2204175/1‑69 (MQ=255)
tGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGc > 1:2848273/1‑68 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCa > 1:1624577/1‑62 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAg > 1:2660288/1‑67 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAg > 1:1056274/1‑67 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAg > 1:2404956/1‑67 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAg > 1:794419/1‑67 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAg > 1:1734478/1‑67 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCt < 1:2274202/69‑1 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCt < 1:191143/69‑1 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCt < 1:1796381/69‑1 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCt < 1:1393198/69‑1 (MQ=255)
aaaGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCt < 1:725214/69‑1 (MQ=255)
aagaagCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCtt < 1:309007/69‑1 (MQ=255)
aagaagCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCt < 1:2794472/68‑1 (MQ=255)
agaagCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTa > 1:2834042/1‑69 (MQ=255)
agaagCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTa > 1:2056257/1‑69 (MQ=255)
agaagCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTa > 1:1585948/1‑69 (MQ=255)
agaagCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTa > 1:3164750/1‑69 (MQ=255)
agaagCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTa > 1:212901/1‑69 (MQ=255)
agaagCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTa > 1:1188059/1‑69 (MQ=255)
aTTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCg < 1:1738027/69‑1 (MQ=255)
aTTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCg < 1:2228729/69‑1 (MQ=255)
aTTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCg < 1:531238/69‑1 (MQ=255)
aTTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCg < 1:2472177/69‑1 (MQ=255)
aTTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCg < 1:541037/69‑1 (MQ=255)
aTTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCg < 1:353794/69‑1 (MQ=255)
aTTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCg < 1:2938090/69‑1 (MQ=255)
aTTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTACGTCCAGCg < 1:1940453/69‑1 (MQ=255)
ttCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCg < 1:2578804/68‑1 (MQ=255)
tCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGAt < 1:2205871/69‑1 (MQ=255)
tCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGAt < 1:555458/69‑1 (MQ=255)
tCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGAt < 1:3376590/69‑1 (MQ=255)
tCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGAt < 1:1140180/69‑1 (MQ=255)
tCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGAt < 1:2816637/69‑1 (MQ=255)
tCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGAt < 1:2820674/69‑1 (MQ=255)
cATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGAtt > 1:2412029/1‑69 (MQ=255)
cATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGAt < 1:2684363/68‑1 (MQ=255)
ccGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:138815/69‑1 (MQ=255)
ccGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:452579/69‑1 (MQ=255)
ccGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:3313042/69‑1 (MQ=255)
ccGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:3257720/69‑1 (MQ=255)
ccGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:702933/69‑1 (MQ=255)
ccGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:1612221/69‑1 (MQ=255)
ccGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:2431537/69‑1 (MQ=255)
ccGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:208897/69‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:1817727/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:1714366/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:1639762/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:2829099/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:543056/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:2270897/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:613629/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:329080/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:1482921/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:334053/67‑1 (MQ=255)
acaaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:2135637/67‑1 (MQ=255)
caaTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:1653243/66‑1 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGAtt > 1:1744825/1‑53 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:577205/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:776197/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:622967/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:726596/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:1180428/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:1065958/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:1355164/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:444372/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:334847/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:1504576/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:3132635/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:303456/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:1981900/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:2094517/1‑69 (MQ=255)
aaTGGCGCGATAACCGGCGATATTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcg > 1:2178057/1‑69 (MQ=255)
aTGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcgc > 1:1404169/1‑69 (MQ=255)
aTGGCGCGATAACCGGCGATGTTCACCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATAcgc > 1:2134559/1‑69 (MQ=255)
gcgATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTgcgc < 1:733974/53‑1 (MQ=255)
cGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTgaga < 1:325161/48‑1 (MQ=255)
|
ATTTGCCCGGTAAAGAAGCGCCCAAATTCATGTGCCGCTTCAACAATGGCGCGATAACCGGCGATGTTCGCCATCGAGCTTAGTGCGTCCAGCGATTGTGCGCGTGAGATACGC > minE/1005125‑1005238
|
| 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
