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 |
407,349 |
C→T |
22.4% |
G44D (GGT→GAT) |
cobC ← |
predicted alpha‑ribazole‑5'‑P phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 407,349 | 0 | C | T | 22.4%
| 84.2
/ 16.2
| 62 | G44D (GGT→GAT) | cobC | predicted alpha‑ribazole‑5'‑P phosphatase |
| Reads supporting (aligned to +/- strand): ref base C (33/15); new base T (12/2); total (45/17) |
| Fisher's exact test for biased strand distribution p-value = 3.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.13e-01 |
CCAGTCGCGCGGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAGGGGGGTGGGCGC > minE/407287‑407413
|
ccAGTCGCGCGGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGt > 1:3092368/1‑68 (MQ=255)
ccAGTCGCGCGGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGt > 1:1430481/1‑68 (MQ=255)
ccAGTCGCGCGGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGt > 1:1679526/1‑68 (MQ=255)
cgcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTagcagc < 1:2381994/69‑1 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCGAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:2741610/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTagcagc < 1:2646383/68‑1 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTagcagc > 1:3287816/1‑68 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:2937462/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:2991959/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:2783692/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:259822/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:1961536/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:3375130/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:1133003/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:1318976/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:1422430/1‑69 (MQ=255)
gcgcgGTATGCTGTGCCCGTGCCAGTTCACTGCATAAAACCAGGTCAAAGGAAACATCATGTAGCAGCg > 1:3052592/1‑69 (MQ=255)
cTGTGCCCGTTCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGAtt > 1:1516843/1‑69 (MQ=255)
cTGTGCCCGTTCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGAtt > 1:2228324/1‑69 (MQ=255)
tCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGc < 1:762777/69‑1 (MQ=255)
tCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGc < 1:3172580/69‑1 (MQ=255)
tCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGc < 1:3157224/69‑1 (MQ=255)
ccAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGc > 1:1780337/1‑68 (MQ=255)
ccAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGc > 1:393517/1‑68 (MQ=255)
ccAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGc > 1:3331384/1‑68 (MQ=255)
aGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc < 1:357473/68‑1 (MQ=255)
cATAAAGCCAGATCAAAGGAAACACCATGTagcagc > 1:443141/1‑36 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGAtt > 1:2389980/1‑47 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc > 1:3146601/1‑59 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc > 1:696257/1‑59 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc > 1:1209717/1‑59 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc > 1:2753721/1‑59 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc > 1:1932976/1‑59 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgc > 1:2506150/1‑69 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgc > 1:2548901/1‑69 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgc > 1:2555042/1‑69 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgc > 1:2188714/1‑69 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgc > 1:2121989/1‑69 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgc > 1:2035066/1‑69 (MQ=255)
cATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgagc > 1:1305491/1‑69 (MQ=255)
aaaCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgcgcg > 1:1071600/1‑68 (MQ=255)
aaaCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgcgcg > 1:2883198/1‑68 (MQ=255)
aaaCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACcgcgcgcg > 1:203799/1‑68 (MQ=255)
aCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGTTTTTGCGCTTGCTCAATACCGCGCGCGGt < 1:3209984/68‑1 (MQ=255)
aCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGt < 1:3023967/68‑1 (MQ=255)
aCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGt < 1:1313358/68‑1 (MQ=255)
aCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGt < 1:508049/68‑1 (MQ=255)
aCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGt < 1:1454125/68‑1 (MQ=255)
aCCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGt < 1:1968432/68‑1 (MQ=255)
cAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc < 1:1870717/46‑1 (MQ=255)
cAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc < 1:1556760/46‑1 (MQ=255)
cAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc < 1:3078195/46‑1 (MQ=255)
cAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc < 1:274669/46‑1 (MQ=255)
cAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTc < 1:703643/46‑1 (MQ=255)
aaCACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCTCGCGCGGTCAGGGGGGTGGgcgc > 1:3280246/1‑69 (MQ=255)
aaCACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAggg > 1:1628202/1‑59 (MQ=255)
aaCACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAGGGGGGTggg > 1:1033839/1‑66 (MQ=255)
aaCACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAGGGGGGTGGgcgc > 1:2052010/1‑69 (MQ=255)
aaCACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAGGGGGGTGGgcgc > 1:2268726/1‑69 (MQ=255)
aaCACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAGGGGGGTGGgcgc > 1:2593462/1‑69 (MQ=255)
aaCACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAGGGGGGTGGgcgc > 1:2681197/1‑69 (MQ=255)
aaCACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAGGGGGGTGGgcgc > 1:589815/1‑69 (MQ=255)
|
CCAGTCGCGCGGTATGCTGTGCCCGTTCCAGTTCACTGCATAAAACCAGATCAAAGGAAACACCATGTAGCAGCGTATGCAGATTTTGCGCTTGCTCAATACCGCGCGCGGTCAGGGGGGTGGGCGC > minE/407287‑407413
|
| 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
