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 |
2,087,652 |
T→C |
44.7% |
A49A (GCT→GCC) |
yhaH → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,087,652 | 0 | T | C | 44.7%
| 2.0
/ 28.4
| 38 | A49A (GCT→GCC) | yhaH | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (5/16); new base C (13/4); total (18/20) |
| Fisher's exact test for biased strand distribution p-value = 2.75e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.22e-01 |
TTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTC > minE/2087585‑2087716
|
ttCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCt < 1:1624723/68‑1 (MQ=255)
ttCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCt < 1:1680653/68‑1 (MQ=255)
gTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCtggtgg > 1:2009448/1‑68 (MQ=255)
cAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGTTAGGCTGGCAACGTGCCGGTGGCGa < 1:1208343/69‑1 (MQ=255)
cAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGTTAGGCTGGCAACGTGCCGGTGGCGa < 1:2239594/69‑1 (MQ=255)
cAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGTTAGGCTGGCAACGTGCCGGTGGCGa < 1:1615437/69‑1 (MQ=255)
cAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGTTAGGCTGGCAACGTGCCGGTGGCGa < 1:1974608/69‑1 (MQ=255)
tcatcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAAGGCGATGGTGGCGAAGGCa > 1:51440/1‑69 (MQ=255)
tcatcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGGTGGTGGCGAAGGCa > 1:890512/1‑69 (MQ=255)
tcatcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCa < 1:1027391/69‑1 (MQ=255)
tcatcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCa > 1:2417298/1‑69 (MQ=255)
cGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTgacg < 1:651725/68‑1 (MQ=255)
cGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTgacg < 1:2853171/68‑1 (MQ=255)
cGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTgacg < 1:3366574/68‑1 (MQ=255)
tCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACaa < 1:790511/69‑1 (MQ=255)
tCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACaa < 1:1487476/69‑1 (MQ=255)
tCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCCGACGACaa < 1:1264850/69‑1 (MQ=255)
gctgctGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa < 1:1682146/68‑1 (MQ=255)
gctgctGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa < 1:1399122/68‑1 (MQ=255)
gctgctGGATAAAATGTTAGGCTAGCAACGCGCTGGTGTCGAAGGCACCCTGACGACAATCTACGGTa < 1:3045237/68‑1 (MQ=255)
ctgctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACaa < 1:3395913/58‑1 (MQ=255)
gATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGgtg > 1:226455/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGttttt > 1:1156277/1‑67 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTa > 1:545567/1‑68 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:991445/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:642873/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:655074/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:546701/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:2962421/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:2781389/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:2621435/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:2146295/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:1642130/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:1075019/1‑69 (MQ=255)
tGTTAGGCTGGCAACGTGCCGGTGGCGAAGGCATCCTGACGACAATCTACGGTATTCTGGTGTTTTTAc > 1:1071328/1‑69 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgt < 1:2807834/68‑1 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgt < 1:411926/68‑1 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgt < 1:2491862/68‑1 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgt < 1:1834012/68‑1 (MQ=255)
aGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCgt < 1:1558084/68‑1 (MQ=255)
gcgcTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTc > 1:1922068/1‑69 (MQ=255)
|
TTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTATTCTGGTGTTTTTACCGTGGTGGGCGGTTC > minE/2087585‑2087716
|
| 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
