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 |
1,602,908 |
G→A |
39.7% |
R232R (CGC→CGT) |
yfeX ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,602,908 | 0 | G | A | 39.7%
| 32.0
/ 44.3
| 69 | R232R (CGC→CGT) | yfeX | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (22/19); new base A (17/10); total (40/29) |
| Fisher's exact test for biased strand distribution p-value = 4.66e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGAGAGGTTTCCGGACG > minE/1602843‑1602976
|
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCg > 1:608602/1‑68 (MQ=255)
cgcgcgCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCg > 1:604395/1‑68 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGCCCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:2259127/1‑69 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:1051991/1‑69 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:2263172/1‑69 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:2528255/1‑69 (MQ=255)
cgcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:2524372/1‑69 (MQ=255)
gcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAAt < 1:3186270/69‑1 (MQ=255)
gcAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAAt < 1:2961535/69‑1 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGCCGAACAATCTTCAGccc > 1:569035/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:2079806/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:970749/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:213127/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:2142427/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:2518006/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:3244002/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:3314284/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:354087/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:362729/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:920619/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:962921/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1182025/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1552398/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1908525/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1415997/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:1215879/1‑69 (MQ=255)
gcAGAAGTACAGACCGTGAGTGCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGccc > 1:2044281/1‑69 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACaa > 1:240294/1‑52 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:673127/1‑69 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:643064/1‑69 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:935524/1‑69 (MQ=255)
tACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:2744181/1‑69 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCa > 1:1441776/1‑67 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAtc > 1:1966076/1‑69 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:714254/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:443523/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:2052418/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:3120329/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:2863794/1‑68 (MQ=255)
cAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCAt > 1:2201295/1‑68 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:119743/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:855566/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:713357/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:609600/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:1633577/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:3291963/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:1734659/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:2065976/69‑1 (MQ=255)
gCCACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:2758014/69‑1 (MQ=255)
gCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:2696782/69‑1 (MQ=255)
ccACTGGCGGTGCCGTACGGCAGGCTCTGACGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATc < 1:760614/68‑1 (MQ=255)
ggCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAAcgcg < 1:2577051/69‑1 (MQ=255)
gTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:1769768/69‑1 (MQ=255)
gTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:735695/69‑1 (MQ=255)
gTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:538159/69‑1 (MQ=255)
gTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:2691570/69‑1 (MQ=255)
gTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:2033776/69‑1 (MQ=255)
gTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:1808056/69‑1 (MQ=255)
gTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:3286268/69‑1 (MQ=255)
gCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGagag < 1:440030/68‑1 (MQ=255)
gCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGagag < 1:2477314/68‑1 (MQ=255)
gCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGagag < 1:2401491/68‑1 (MQ=255)
gCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGagag < 1:2579221/68‑1 (MQ=255)
gCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGagag < 1:3102995/68‑1 (MQ=255)
gCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGagag < 1:2534282/68‑1 (MQ=255)
ctctGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGAGAGGTTTc > 1:2247804/1‑68 (MQ=255)
ctctGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGAGAGGTTTc > 1:219563/1‑68 (MQ=255)
tGGCGAACAATCTTCATCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:1947815/51‑1 (MQ=255)
tGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGggtg < 1:1943768/51‑1 (MQ=255)
gCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGAGAGGTTTCCGGACg > 1:1478983/1‑69 (MQ=255)
gCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGAGAGGTTTCCGGACg > 1:1827220/1‑69 (MQ=255)
gCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGAGAGGTTTCCGGACg > 1:29954/1‑69 (MQ=255)
gCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGAGAGGTTTCCGGACg > 1:1008209/1‑69 (MQ=255)
|
CGCGCGCAGTAGGCGCAGAAGTACAGACCGTGAGTGCCACTGGCAGTGCCGTACGGCAGGCTCTGGCGAACAATCTTCAGCCCTTTGCCATCTTCTTTCAGATCAACGCGGGTGAGGTGAGAGGTTTCCGGACG > minE/1602843‑1602976
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
