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 |
2,021,226 |
G→A |
40.2% |
V273I (GTT→ATT) |
yqhG → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,021,226 | 0 | G | A | 40.2%
| 30.4
/ 43.8
| 67 | V273I (GTT→ATT) | yqhG | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (17/23); new base A (21/6); total (38/29) |
| Fisher's exact test for biased strand distribution p-value = 5.72e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
CCGATTCCGCCCGCATTCATGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCGAACAGCGGCAGC > minE/2021161‑2021288
|
ccgATTCCGCCCGCATTCATGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGttt < 1:2282533/69‑1 (MQ=255)
cgATTCCGCCCGCATTCATGTTCGCTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGAtttt < 1:870518/69‑1 (MQ=255)
cgATTCCGCCCGCATTCATGTTCGCTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGAtttt < 1:662483/69‑1 (MQ=255)
cgATTCCGCCCGCATTCATGTTCGCTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGAtttt < 1:2322578/69‑1 (MQ=255)
cgATTCCGCCCGCATTCATGTTCGCTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGAtttt < 1:2389359/69‑1 (MQ=255)
cgATTCCGCCCGCATTCATGTTCGCTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGAtttt < 1:1559069/69‑1 (MQ=255)
cgATTCCGCCCGCATTCATGTTCGCTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGAtttt < 1:3006872/69‑1 (MQ=255)
cATGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAg > 1:385122/1‑67 (MQ=255)
tGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCa < 1:2747974/68‑1 (MQ=255)
tGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCa < 1:3194509/68‑1 (MQ=255)
tGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCa < 1:1147782/68‑1 (MQ=255)
tGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCa < 1:2218333/68‑1 (MQ=255)
tGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCa < 1:2066427/68‑1 (MQ=255)
tGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAACAACTGGTTTTACAGCGGCGCGAAGGCa < 1:2853518/68‑1 (MQ=255)
ttCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGt > 1:798981/1‑69 (MQ=255)
ttCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGt > 1:452349/1‑69 (MQ=255)
ttCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGt > 1:3278398/1‑69 (MQ=255)
ttCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGt > 1:1590493/1‑69 (MQ=255)
ttCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGt > 1:2042425/1‑69 (MQ=255)
aacGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:2144270/69‑1 (MQ=255)
aacGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:1903251/69‑1 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGTCGCGAAGGTAAg > 1:627198/1‑42 (MQ=37)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGc > 1:2143316/1‑53 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGc > 1:3134760/1‑53 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:686886/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:374932/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1188883/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1203318/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1254003/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:3077291/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1308938/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1008023/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:2820249/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:2757964/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:2678802/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:423368/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1770414/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:529859/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1710996/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1639990/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1587161/1‑54 (MQ=255)
aacGAAGAGCAAGAACTGATTTTACAGCGGCGCGAAGGTAAGTGGGAAATCGCt > 1:1582095/1‑54 (MQ=255)
acGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg > 1:3129057/1‑68 (MQ=255)
acGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg > 1:3186705/1‑68 (MQ=255)
acGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg > 1:319870/1‑68 (MQ=255)
acGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg > 1:2564911/1‑68 (MQ=255)
acGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg > 1:356520/1‑68 (MQ=255)
acGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATACGCCCg > 1:447652/1‑68 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGAttt > 1:2997223/1‑56 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGAttt > 1:1536322/1‑56 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGAttt > 1:1794792/1‑56 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGAtt > 1:2428068/1‑55 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:3395656/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:332785/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:310535/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:2419787/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:2113277/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:200589/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:1862315/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:1517575/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:1260445/66‑1 (MQ=255)
gAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCg < 1:1133637/66‑1 (MQ=255)
gCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCGAACAGc > 1:918591/1‑67 (MQ=255)
gAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCGAACAGCGGCAGc < 1:989201/69‑1 (MQ=255)
gAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCGAACAGCGGCAGc < 1:874137/69‑1 (MQ=255)
gAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCGAACAGCGGCAGc < 1:1371912/69‑1 (MQ=255)
aCTTGTTTTACAGCGGCGCGAAGGCAAGTTGTAAATCGCTGATTTTATCCGCCCg < 1:2500956/55‑1 (MQ=255)
|
CCGATTCCGCCCGCATTCATGTTCGTTTTACGCTGACCAATGGCAACAACGAAGAGCAAGAACTGGTTTTACAGCGGCGCGAAGGCAAGTGGGAAATCGCTGATTTTATCCGCCCGAACAGCGGCAGC > minE/2021161‑2021288
|
| 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
