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 |
1,616,492 |
G→A |
65.3% |
T38T (ACC→ACT) |
eutJ ← |
predicted chaperonin, ethanolamine utilization protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,616,492 | 0 | G | A | 65.3%
| 10.8
/ 9.2
| 23 | T38T (ACC→ACT) | eutJ | predicted chaperonin, ethanolamine utilization protein |
| Reads supporting (aligned to +/- strand): ref base G (6/2); new base A (2/13); total (8/15) |
| Fisher's exact test for biased strand distribution p-value = 6.24e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGTCGAGGCATACCGCCACTGGCTGACCGTCGCGGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCGGGCGTCTGGTTACACAG > minE/1616431‑1616554
|
aGTCGAGGCATACCGCCACCGGCTGACCGTCGCGGTCGACAACCATCGACACCACATCGCAAGTg > 1:3184739/1‑65 (MQ=255)
aGTCGAGGCATACCGCCACCGGCTGACCGTCGCGGTCGACAACCATCGACACCACATCGCAAGTg > 1:2480433/1‑65 (MQ=255)
ccGCCACTGGCTGACCGTCGCGGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCa > 1:692588/1‑69 (MQ=255)
ccGCCACTGGCTGACCGTCGCGGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCa > 1:1612329/1‑69 (MQ=255)
tGACCGTCGCGGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCAGCCACAGCGga < 1:1901026/69‑1 (MQ=255)
gcgGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGt > 1:1128233/1‑69 (MQ=255)
gcgGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGt > 1:372783/1‑69 (MQ=255)
gcgGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGt > 1:1724607/1‑69 (MQ=255)
gcgGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGt > 1:1119644/1‑69 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:2071188/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:2111584/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:2480323/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:156069/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:3010285/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:3037729/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:3157800/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:1275880/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:3203010/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:3205924/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:1179188/69‑1 (MQ=255)
caTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:846060/69‑1 (MQ=255)
aTCGCAGGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCGGGCGTCTGGTTACACAg < 1:741766/69‑1 (MQ=255)
aTCGCAAGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCAGGCGTCTGGTTAcaca < 1:3382719/68‑1 (MQ=255)
|
AGTCGAGGCATACCGCCACTGGCTGACCGTCGCGGTCGACAACCATCGACACCACATCGCAGGTGCCCAGATCCACCCCCAGCCACAGCGGAGATTCCGTCGCGGCGGGCGTCTGGTTACACAG > minE/1616431‑1616554
|
| 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
