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 |
1,516,230 |
T→C |
59.2% |
intergenic (‑215/+44) |
cvpA ← / ← dedD |
membrane protein required for colicin V production/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,516,230 | 0 | T | C | 59.2%
| 10.7
/ 27.3
| 44 | intergenic (‑215/+44) | cvpA/dedD | membrane protein required for colicin V production/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (11/7); new base C (13/13); total (24/20) |
| Fisher's exact test for biased strand distribution p-value = 5.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGC > minE/1516165‑1516290
|
gCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTatg < 1:2872324/69‑3 (MQ=255)
gCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAgg < 1:1923785/69‑1 (MQ=255)
aTGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGa > 1:2079937/1‑69 (MQ=255)
aTGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGa > 1:3069683/1‑69 (MQ=255)
aTGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGa > 1:2334916/1‑69 (MQ=255)
aTGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGa > 1:1542502/1‑69 (MQ=255)
aTGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGa > 1:165644/1‑69 (MQ=255)
aTGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGa > 1:2514363/1‑69 (MQ=255)
aTGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGa > 1:2473092/1‑69 (MQ=255)
cGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGAcgc > 1:434621/1‑69 (MQ=255)
cGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGAcgc > 1:389857/1‑69 (MQ=255)
tGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGt > 1:2731005/1‑68 (MQ=255)
tGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGt > 1:2585682/1‑68 (MQ=255)
gcgTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCa < 1:1205899/68‑1 (MQ=255)
gcgTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCa < 1:1731852/68‑1 (MQ=255)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:374672/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:2873095/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:3326974/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:3168003/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:1885099/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:561681/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:1830008/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:612660/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:1651708/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:147323/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:1457175/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:1443978/1‑69 (MQ=21)
gCCTTATCCGACCTACGGCTCTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAg > 1:1279956/1‑69 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:51339/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:663647/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:961474/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:3170951/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:1254729/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:3050464/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:3017230/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:257830/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:2397845/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:1872313/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:184224/69‑1 (MQ=21)
cTACCCCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:1713975/69‑1 (MQ=21)
cTACACCTGCACAGGCCTGATAAGATGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGTGtat < 1:1341058/69‑1 (MQ=21)
ccTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCg < 1:886418/61‑1 (MQ=255)
ccTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGc < 1:2503991/67‑1 (MQ=255)
ccTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGc < 1:1612176/67‑1 (MQ=255)
|
GCATCGGGCAATGCGTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTCTACCCCTGCGTAGGCCTGATAAGACGCGCCAGCGTCGCATCAGGCAAGACCGTATTAATTCGGCGTATAGC > minE/1516165‑1516290
|
| 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
