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 |
2,097,921 |
C→T |
67.3% |
V242I (GTC→ATC) |
garL ← |
alpha‑dehydro‑beta‑deoxy‑D‑glucarate aldolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,097,921 | 0 | C | T | 67.3%
| 42.6
/ 29.0
| 58 | V242I (GTC→ATC) | garL | alpha‑dehydro‑beta‑deoxy‑D‑glucarate aldolase |
| Reads supporting (aligned to +/- strand): ref base C (14/5); new base T (17/22); total (31/27) |
| Fisher's exact test for biased strand distribution p-value = 4.90e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTGTTGCGGTGGTGGTTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCATTCCAGATAACGACGCGCATCGGCTTCGA > minE/2097859‑2097989
|
ttgttgCGGTGGTGGTTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACg > 1:2562841/1‑64 (MQ=255)
ttgttgCGGTGGTGGTTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACg > 1:623677/1‑64 (MQ=255)
ttgttgCGGTGGTGGTTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACg > 1:2230860/1‑64 (MQ=255)
gttgCGGTGGTGGTTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCgag < 1:3306153/67‑1 (MQ=255)
gttgCGGTGGTGGTTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCgag < 1:976501/67‑1 (MQ=255)
ggtggtTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGcc > 1:3124601/1‑68 (MQ=255)
ggtggtTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGcc > 1:1979741/1‑68 (MQ=255)
gtggtTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGa < 1:1559194/69‑1 (MQ=255)
gtggtTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGa < 1:1823144/69‑1 (MQ=255)
gtTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACa > 1:858181/1‑68 (MQ=255)
ttttAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCcaca > 1:319387/1‑68 (MQ=255)
ttttAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCCACaa > 1:396805/1‑69 (MQ=255)
ttttAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCCACaa > 1:1193086/1‑69 (MQ=255)
ttttAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCCACaa > 1:2119134/1‑69 (MQ=255)
aGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCa > 1:3118493/1‑69 (MQ=255)
aGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCa > 1:277335/1‑69 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:2156562/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:2482155/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:2203022/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:542563/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:277093/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:2805958/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:3017684/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:3169717/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:1122660/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:1941076/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:193402/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:1870005/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:799086/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:1749663/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:841261/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:1641866/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:1478178/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCAAAAACGTcgc < 1:1751369/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTCCCGACAGCCACAAACGTcgc < 1:2238422/60‑1 (MQ=255)
cAGTTTCTGAGTGGCAGAGCGGAAGATGCCGAGATCGCTACCGACAGCCACAAACGTcgc < 1:662172/60‑1 (MQ=255)
tCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCATTCCAGAt < 1:475778/69‑1 (MQ=255)
tGAGTGGCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:1737885/53‑1 (MQ=255)
gCAGAGCGGATGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:97994/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACCGCCACAAACGTcgca > 1:1196846/1‑47 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:493725/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:879925/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:2692846/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:382977/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:664944/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:3225814/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:3143848/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:3039775/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:1824136/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:1399795/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:1388502/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:1226909/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:1099951/1‑68 (MQ=255)
gCAGAGCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAac > 1:130264/1‑64 (MQ=255)
gCAGAGAGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTCGCACCCCATTCCAGATAacgacg > 1:2197797/1‑68 (MQ=255)
agagCGGAAGATGCCGAGATCGCTGCCGACAGCCACAAACGTcgc < 1:2834954/45‑1 (MQ=255)
gACGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCATTCCAGATAACGACGCGCATCGGCTTc > 1:2763067/1‑69 (MQ=255)
gACGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCATTCCAGATAACGACGCGCATCGGCTTc > 1:2442894/1‑69 (MQ=255)
cGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCATTCCAGATAACGACGCGCATCGGCTTCGa > 1:491191/1‑69 (MQ=255)
cGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCATTCCAGATAACGACGCGCATCGGCTTCGa > 1:1055495/1‑69 (MQ=255)
|
TTGTTGCGGTGGTGGTTATTTTTTAAAGGTATCAGCCAGTTTCTGAGTGGCAGAGCGGAAGACGCCGAGATCGCTGCCGACAGCCACAAACGTCGCGCCCCATTCCAGATAACGACGCGCATCGGCTTCGA > minE/2097859‑2097989
|
| 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
