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 |
2,492,925 |
A→G |
25.7% |
A574A (GCA→GCG) |
gyrB → |
DNA gyrase, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,492,925 | 0 | A | G | 25.7%
| 64.3
/ 19.6
| 58 | A574A (GCA→GCG) | gyrB | DNA gyrase, subunit B |
| Reads supporting (aligned to +/- strand): ref base A (34/9); new base G (7/8); total (41/17) |
| Fisher's exact test for biased strand distribution p-value = 2.47e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCAGTACCAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCAGAAAAT > minE/2492862‑2492981
|
tCAGTACCAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATtgg < 1:11802/68‑1 (MQ=255)
ccAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCg > 1:2064188/1‑68 (MQ=255)
ccAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGa > 1:3184477/1‑69 (MQ=255)
ccAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGa > 1:717712/1‑69 (MQ=255)
ccAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGa > 1:1632798/1‑69 (MQ=255)
ccAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGa > 1:1563910/1‑69 (MQ=255)
ccAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGa > 1:2506860/1‑69 (MQ=255)
ccAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGa > 1:2603066/1‑69 (MQ=255)
ctctATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGc > 1:287667/1‑66 (MQ=255)
ctctATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGc > 1:3075082/1‑66 (MQ=255)
ctctATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGc > 1:1751075/1‑66 (MQ=255)
ctctATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGc > 1:648736/1‑66 (MQ=255)
ctctATCGCGCTGGACGGCGCAACGCTGCAAACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGc > 1:167798/1‑66 (MQ=255)
cgcgCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGaa > 1:2427792/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:3122200/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:2223759/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:267595/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:3189671/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:725153/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:739642/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:1582637/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:97016/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:1404583/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:1400622/1‑69 (MQ=255)
gACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTa > 1:1379139/1‑69 (MQ=255)
cGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTAt > 1:66919/1‑68 (MQ=255)
cGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTAt > 1:3183530/1‑68 (MQ=255)
cGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTAt > 1:2914662/1‑68 (MQ=255)
cGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTAt > 1:1631405/1‑68 (MQ=255)
cGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTAt > 1:3211778/1‑68 (MQ=255)
cGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTAt > 1:2793041/1‑68 (MQ=255)
gCACACCAACGCCAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAAcgc < 1:350869/69‑1 (MQ=255)
gCACACCAACGCCAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAAcgc < 1:1159763/69‑1 (MQ=255)
gCACACCAACGCCAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAAcgc < 1:3286607/69‑1 (MQ=255)
gCACACCAACGCCAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAAcgc < 1:2367122/69‑1 (MQ=255)
gCACACCAACGCCAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAAcgc < 1:3322203/69‑1 (MQ=255)
gCACACCAACGCCAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAAcgc < 1:374868/69‑1 (MQ=255)
gCACACCAACGCCAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAAcgc < 1:981838/69‑1 (MQ=255)
cacaCCAACGCCAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAAcgc < 1:310988/68‑1 (MQ=255)
aaCGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCa > 1:26627/1‑68 (MQ=255)
aaCGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCa > 1:2905026/1‑68 (MQ=255)
aaCGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCa > 1:1511550/1‑68 (MQ=255)
aaCGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCa > 1:2515853/1‑68 (MQ=255)
cGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCAGaa < 1:635604/69‑1 (MQ=255)
cGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCAGaa < 1:2153411/69‑1 (MQ=255)
cGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCAGaa < 1:2164694/69‑1 (MQ=255)
cGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCAGaa < 1:2219407/69‑1 (MQ=255)
cAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAACGCGACGCAGaaaa > 1:3217499/1‑68 (MQ=255)
cAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAACGCGACGCAGAAAAt > 1:2170665/1‑69 (MQ=255)
cAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAACGCGACGCAGAAAAt > 1:2562448/1‑69 (MQ=255)
cAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAACGCGACGCAGAAAAt > 1:1866227/1‑69 (MQ=255)
cAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAACGCGACGCAGAAAAt > 1:1690240/1‑69 (MQ=255)
cAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAACGCGACGCAGAAAAt > 1:1600848/1‑69 (MQ=255)
cAGTGCACCGGCGCTGGCTGGCGAAGCGTTAGAGAAACTGGTGTCTGAGTACAACGCGACGCAGAAAAt > 1:2709993/1‑69 (MQ=255)
gCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGc < 1:3024683/58‑1 (MQ=255)
gCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGc < 1:2015828/58‑1 (MQ=255)
gCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGc < 1:737614/58‑1 (MQ=255)
gCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGc < 1:1177094/58‑1 (MQ=255)
|
TCAGTACCAGATCTCTATCGCGCTGGACGGCGCAACGCTGCACACCAACGCCAGTGCACCGGCATTGGCTGGCGAAGCGTTAGAGAAACTGGTATCTGAGTACAACGCGACGCAGAAAAT > minE/2492862‑2492981
|
| 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
