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 F1 I2 R1
|
780 |
68.3 |
3343050 |
93.5% |
3125751 |
102.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,553,337 |
C→T |
P146L (CCG→CTG) |
uxuB → |
D‑mannonate oxidoreductase, NAD‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,553,337 | 0 | C | T | 97.6%
| 126.7
/ ‑6.3
| 42 | P146L (CCG→CTG) | uxuB | D‑mannonate oxidoreductase, NAD‑dependent |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (19/22); minor base A (0/1); total (19/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCCGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGATGTCCTGCGATA > NC_000913/4553205‑4553459
|
aTCCGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGAt < 2:1482763/139‑1 (MQ=255)
ggAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAg < 1:1560262/139‑1 (MQ=255)
gAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGc < 1:1621144/139‑1 (MQ=255)
cgcgATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGa < 1:68837/128‑1 (MQ=255)
cgcgATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGa > 2:68837/1‑128 (MQ=255)
gcgATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGt < 2:393056/139‑1 (MQ=255)
cgATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTc < 1:795854/139‑1 (MQ=255)
cGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCAc < 1:629702/98‑1 (MQ=255)
cGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCAc > 2:629702/1‑98 (MQ=255)
cAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCAAAGTCCGCGATTGGTTACa < 1:1241029/139‑1 (MQ=255)
cGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCg < 1:1470867/113‑1 (MQ=255)
cGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCg < 2:7050/113‑1 (MQ=255)
cGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCg > 2:1470867/1‑113 (MQ=255)
cGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCg > 1:7050/1‑113 (MQ=255)
aCGGACACGGAAGAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCAGCTGATCAAGTACGTTCTGGTAAGCCCGGCTGCGCCGAAGTCCGCGATTGGTTACATCGTCGTAGCGTtgcgtctgc < 1:1375562/139‑1 (MQ=255)
gTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGaa < 2:848030/98‑1 (MQ=255)
gTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGaa > 1:848030/1‑98 (MQ=255)
tCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCcgcg > 1:486790/1‑104 (MQ=255)
tCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCcgcg < 2:486790/104‑1 (MQ=255)
aCGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGa > 1:1413900/1‑85 (MQ=255)
aCGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGa < 2:1413900/85‑1 (MQ=255)
aCGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTg > 1:422484/1‑139 (MQ=255)
aGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGc > 2:549302/1‑59 (MQ=255)
aGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGc < 1:549302/59‑1 (MQ=255)
cTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGa < 2:265652/89‑1 (MQ=255)
cTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGa > 1:265652/1‑89 (MQ=255)
cTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGtt > 2:227979/1‑139 (MQ=255)
aTGCGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTAc > 2:419519/1‑139 (MQ=255)
cGGCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGt > 2:1355934/1‑139 (MQ=255)
gCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGa > 1:313727/1‑139 (MQ=255)
gCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGa < 2:313727/139‑1 (MQ=255)
gCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGa > 1:24421/1‑139 (MQ=255)
gCAAGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGa > 2:73189/1‑139 (MQ=255)
aaGCGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAATCCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGATg < 1:1392053/139‑1 (MQ=255)
cgctCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACg < 2:1085377/127‑1 (MQ=255)
cGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCg > 2:1079061/1‑91 (MQ=255)
cGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCg < 1:1079061/91‑1 (MQ=255)
cGGTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACg > 1:1085377/1‑130 (MQ=255)
ggTCAACTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGATGTCCt < 1:419519/139‑1 (MQ=255)
cTGGATCTCAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGATGTCCTGCGATa < 2:422484/139‑1 (MQ=255)
tctcAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTtgcgtc < 1:342164/86‑1 (MQ=255)
tctcAATAACCTGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTtgcgtc > 2:342164/1‑86 (MQ=255)
|
ATCCGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAGTCCGCGATTGGTTACATCGTCGAAGCGTTGCGTCTGCGTCGTGAAAAAGGGTTGAAAGCGTTTACGGTGATGTCCTGCGATA > NC_000913/4553205‑4553459
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
