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 |
1,446,918 |
A→G |
20.9% |
L155L (TTG→CTG) ‡ |
rcsC ← |
hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,446,918 | 0 | A | G | 20.9%
| 76.4
/ 14.2
| 57 | L155L (TTG→CTG) ‡ | rcsC | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| Reads supporting (aligned to +/- strand): ref base A (27/18); new base G (3/9); total (30/27) |
| Fisher's exact test for biased strand distribution p-value = 4.98e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01 |
GAGGTTACTGCCGCTATCATCTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGC > minE/1446850‑1446980
|
gagGTTACTGCCGCTATCATCTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCaa > 1:326980/1‑69 (MQ=255)
gagGTTACTGCCGCTATCATCTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCaa > 1:2028747/1‑69 (MQ=255)
tACTGCCGCTATCATCTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCgg > 1:81750/1‑69 (MQ=255)
ccacTATCATCTTGTGGTGCATTTCGATATTTATTAATGCGTTCATGCAAAGCTTTTAGCGCGGTATcg > 1:660573/4‑69 (MQ=255)
ccacTATCATCTTGTGGTGCATTTCGATATTTATTAATGCGTTCATGCAAAGCTTTTAGCGCGGTATcg > 1:257754/4‑69 (MQ=255)
ccacTATCATCTTGTGGTGCATTTCGATATTTATTAATGCGTTCATGCAAAGCTTTTAGCGCGGTATcg > 1:2967954/4‑69 (MQ=255)
atcatcTTGTGGTGCATTTCGATATTTATTGATGCGTTCATTCAAAGCTTTCAACGCGGTATCGCGTTc < 1:387167/69‑1 (MQ=255)
atcatcTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTc < 1:1632747/69‑1 (MQ=255)
atcatcTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTc < 1:262971/69‑1 (MQ=255)
ggtgCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCa < 1:679354/67‑1 (MQ=255)
ggtgCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCa < 1:1377598/67‑1 (MQ=255)
ggtgCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCa < 1:1544184/67‑1 (MQ=255)
tttCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACg < 1:2217886/68‑1 (MQ=255)
tttCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACg < 1:2265205/68‑1 (MQ=255)
tCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGt < 1:453586/42‑1 (MQ=255)
tCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGt < 1:898782/42‑1 (MQ=255)
tattGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACTGAAAt > 1:2834587/1‑69 (MQ=255)
tattGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAAt > 1:273225/1‑69 (MQ=255)
tattGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAAt > 1:971666/1‑69 (MQ=255)
tattGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAAt > 1:164158/1‑69 (MQ=255)
tattGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAAt > 1:1783441/1‑69 (MQ=255)
tattGATGCGTTCATGAAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAAt > 1:1458808/1‑69 (MQ=255)
gCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCa < 1:469778/68‑1 (MQ=255)
gCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCa < 1:2664995/68‑1 (MQ=255)
gCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCa < 1:2586856/68‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:375211/69‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:402467/69‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:1808958/69‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:2098380/69‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:911026/69‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:1136186/69‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:1186051/69‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:2342544/69‑1 (MQ=255)
cGTTCATGCAAAGCTTTTAGCGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATg < 1:2165350/69‑1 (MQ=255)
cATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCa > 1:1886050/1‑67 (MQ=255)
cAAAGCTTTCAAGGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:3250166/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCg > 1:2034187/1‑49 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:2195370/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:2097131/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:2925166/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:1209611/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:260632/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:2323391/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:3260769/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:1624132/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:3313343/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGa > 1:3398357/1‑50 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGc > 1:1018556/1‑57 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGc > 1:1552555/1‑57 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGc > 1:3273707/1‑57 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGc > 1:2848789/1‑57 (MQ=255)
cAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGc > 1:2801863/1‑57 (MQ=255)
cAAAGATTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGa > 1:2136643/1‑46 (MQ=255)
aGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATc < 1:3015883/69‑1 (MQ=255)
aGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATc < 1:2629766/69‑1 (MQ=255)
aGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATc < 1:205354/69‑1 (MQ=255)
aGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATc < 1:2098497/69‑1 (MQ=255)
aGCTTTCAACGCGGTATCCCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATc < 1:1967251/69‑1 (MQ=255)
cTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGc > 1:2152154/1‑69 (MQ=255)
|
GAGGTTACTGCCGCTATCATCTTGTGGTGCATTTCGATATTTATTGATGCGTTCATGCAAAGCTTTCAACGCGGTATCGCGTTCCACTGGCATATCACGCAGACCGAAATTGGCCATGCAGAGGTTATCGC > minE/1446850‑1446980
|
| 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
