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 |
|
A11 F212 I1 R1
|
174 |
80.0 |
3892211 |
96.7% |
3763768 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,867,164 |
C→T |
A130T (GCG→ACG) |
rpoS ← |
RNA polymerase, sigma S (sigma 38) factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,867,164 | 0 | C | T | 93.0%
| 217.0
/ 6.3
| 71 | A130T (GCG→ACG) | rpoS | RNA polymerase, sigma S (sigma 38) factor |
| Reads supporting (aligned to +/- strand): ref base C (2/3); new base T (27/39); total (29/42) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.35e-01 |
TTTGGTTCATAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTT > NC_000913/2867068‑2867260
|
tttGGTTCATAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACcgtgcg < 1:787700/100‑1 (MQ=255)
tttGGTTCATAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACcgtgcg < 1:334549/100‑1 (MQ=255)
ggTTCATAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGACGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGAt > 2:1554416/1‑100 (MQ=255)
ggTTCATAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGAt < 2:534356/100‑1 (MQ=255)
tCATAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAg < 2:611351/100‑1 (MQ=255)
cATAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGc > 2:863406/1‑100 (MQ=255)
tAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGccc > 2:459715/1‑100 (MQ=255)
tAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGccc > 2:459870/1‑100 (MQ=255)
aTCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCa < 1:176533/100‑1 (MQ=255)
aTCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCa > 2:708148/1‑100 (MQ=255)
cGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAgg < 2:343394/100‑1 (MQ=255)
cGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAgg < 1:1740085/100‑1 (MQ=255)
gCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGt < 1:1001240/100‑1 (MQ=255)
gCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGt > 2:982809/1‑100 (MQ=255)
gCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGt < 2:989375/100‑1 (MQ=255)
cccGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGtt < 1:908009/100‑1 (MQ=255)
cccGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGtt > 1:1289865/1‑100 (MQ=255)
cGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGc < 2:1668916/100‑1 (MQ=255)
cGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGCGCGGATCAGCCCCAGGTTGc < 1:1818119/100‑1 (MQ=255)
gTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGcc > 2:862090/1‑100 (MQ=255)
tCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCct > 2:216615/1‑100 (MQ=255)
cAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCctc > 1:622428/1‑100 (MQ=255)
tCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCctct < 1:1600036/98‑1 (MQ=255)
tCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTc < 1:1411704/100‑1 (MQ=255)
tCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTc < 2:816533/100‑1 (MQ=255)
cGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCg < 1:459713/100‑1 (MQ=255)
cGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCg < 1:459868/100‑1 (MQ=255)
cGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCg < 1:708147/100‑1 (MQ=255)
gTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGa < 2:1204490/100‑1 (MQ=255)
tGGCGAATCCACCAGGTTGCGTATGTTGCGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATaa < 2:715381/100‑1 (MQ=255)
ggCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAg < 2:323835/100‑1 (MQ=255)
cGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGt > 1:1387623/1‑100 (MQ=255)
aTCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCa < 1:1108488/100‑1 (MQ=255)
ccaccaGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGc > 1:1083995/1‑100 (MQ=255)
caGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACg < 1:636338/100‑1 (MQ=255)
aGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGc < 2:571056/100‑1 (MQ=255)
cGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGAcc > 2:249401/1‑100 (MQ=255)
cGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGAcc > 2:1845982/1‑100 (MQ=255)
aTGTTGAGAGGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACg > 1:1473439/1‑100 (MQ=255)
tGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGa > 2:698917/1‑100 (MQ=255)
gTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGAt < 1:1112555/100‑1 (MQ=255)
gTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGAt < 2:1199404/100‑1 (MQ=255)
gTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGAt > 2:1479943/1‑100 (MQ=255)
gTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGAt > 2:1478391/1‑100 (MQ=255)
tGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGAtt > 1:385172/1‑99 (MQ=255)
tGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTg < 1:20423/100‑1 (MQ=255)
gagaAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGc < 1:703331/100‑1 (MQ=255)
gaAGCGGAGACCACGTTCCTGGTCAAAGTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGcc < 2:357524/99‑1 (MQ=255)
gaAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCa < 2:1904123/100‑1 (MQ=255)
gaAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCa < 1:541320/100‑1 (MQ=255)
gaAGCGGAAACCACGTTCCGGGTCAAACTTCACTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCa > 2:1307573/1‑100 (MQ=255)
aGCGGAAACCGCGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATa < 1:910334/100‑1 (MQ=255)
ggAAACCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAAcg > 1:543657/1‑100 (MQ=255)
aaaCCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAAcggc > 2:1375881/1‑100 (MQ=255)
aaaCCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAAcggc < 1:167081/100‑1 (MQ=255)
aCCACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAAcggcgg > 2:1007255/1‑100 (MQ=255)
aCCACGTTCCGGGTCAAACTTCTCTACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAAcggcgg < 1:1478383/100‑1 (MQ=255)
aCCACGTTCCGGGTCAAACTTCTCTACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAAcggcgg < 1:1479935/100‑1 (MQ=255)
ccACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCggg > 1:1119540/1‑100 (MQ=255)
ccACGTTCCGGGTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGGCCATCAACGCCAGACCACGATTTCCATAAcggcg > 1:1620929/1‑98 (MQ=255)
gggTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTa < 1:1381931/100‑1 (MQ=255)
ggTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTac > 2:137004/1‑100 (MQ=255)
gTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTacc < 1:944074/100‑1 (MQ=255)
gTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTacc < 2:781692/100‑1 (MQ=255)
gTCAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTacc < 2:1083996/100‑1 (MQ=255)
cAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTaccac < 2:961673/100‑1 (MQ=255)
cAAACTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTaccac > 1:754098/1‑100 (MQ=255)
cTTCTCTACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACTCCAGACCACGATTGACCTAAAGGCGGGCAATTTTTAacaaca > 1:182892/1‑98 (MQ=255)
ctACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCa < 1:195901/99‑1 (MQ=255)
tACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAg < 1:884987/100‑1 (MQ=255)
tACCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACAACCAGACGCAAg < 2:1276267/100‑1 (MQ=255)
aCCGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGt < 1:702981/100‑1 (MQ=255)
ccGTGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGtt > 2:582192/1‑100 (MQ=255)
|
TTTGGTTCATAATCGCCCGTTCAATCGTCTGGCGAATCCACCAGGTTGCGTATGTTGAGAAGCGGAAACCACGTTCCGGGTCAAACTTCTCTACCGCGCGGATCAGCCCCAGGTTGCCCTCTTCGATAAGGTCCAGCAACGCCAGACCACGATTGCCATAACGGCGGGCAATTTTTACCACCAGACGCAAGTT > NC_000913/2867068‑2867260
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
