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 |
555,561 |
G→C |
33.9% |
T162T (ACC→ACG) |
moeB ← |
molybdopterin synthase sulfurylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 555,561 | 0 | G | C | 33.9%
| 55.7
/ 39.0
| 56 | T162T (ACC→ACG) | moeB | molybdopterin synthase sulfurylase |
| Reads supporting (aligned to +/- strand): ref base G (29/8); new base C (5/14); total (34/22) |
| Fisher's exact test for biased strand distribution p-value = 3.48e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGTACCTT > minE/555496‑555611
|
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:571485/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:1709407/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:637982/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:2660852/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:2501468/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:1342046/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:1578065/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:197783/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTg > 1:2177682/1‑69 (MQ=255)
gCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTACTGATAAGTAAAGACGGTg > 1:2951479/1‑69 (MQ=255)
cATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGa > 1:2282100/1‑69 (MQ=255)
cATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGa > 1:1366356/1‑69 (MQ=255)
cATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGa > 1:1268109/1‑69 (MQ=255)
cATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGa > 1:1238294/1‑69 (MQ=255)
aCCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGAc < 1:293081/68‑1 (MQ=255)
aCCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGAc < 1:174719/68‑1 (MQ=255)
caaacGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCAt > 1:2024660/1‑69 (MQ=255)
caaacGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCAt > 1:1143387/1‑69 (MQ=255)
caaacGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCAt > 1:1724050/1‑69 (MQ=255)
cGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGa < 1:1477269/69‑1 (MQ=255)
cGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGa < 1:2935658/69‑1 (MQ=255)
cTAAGGCAGTGATAGCACGGTTCGCCGTCCTGATAAGTGAAGACCGTGAt < 1:1574206/50‑1 (MQ=37)
tgATAGCACGGTTCGCCGTCCTGATAAGTGAAGACCGTGAt < 1:1862351/40‑1 (MQ=25)
gTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGc > 1:2971881/1‑68 (MQ=255)
gTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGc > 1:1764776/1‑68 (MQ=255)
gTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGc > 1:126520/1‑68 (MQ=255)
gTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGc > 1:2772746/1‑68 (MQ=255)
gTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGc > 1:3085591/1‑68 (MQ=255)
gTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGc > 1:3173403/1‑68 (MQ=255)
gTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGc > 1:3436078/1‑68 (MQ=255)
tCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGt < 1:1342001/69‑1 (MQ=255)
tCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGt < 1:804407/69‑1 (MQ=255)
tCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGt < 1:3396860/69‑1 (MQ=255)
tCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGt < 1:739646/69‑1 (MQ=255)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:3286226/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:3297646/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:3074155/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:3055848/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:77179/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:837120/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:2664772/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:2655228/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:256270/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:2519359/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:2471984/36‑1 (MQ=37)
cGTCCTGATAAGTGAAGACCGTGATTTGCCCTTCCa < 1:1175198/36‑1 (MQ=37)
gTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGTACCtt > 1:3045963/1‑69 (MQ=255)
gTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGTACCtt > 1:194711/1‑69 (MQ=255)
gTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGTACCtt > 1:696539/1‑69 (MQ=255)
gTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGTACCtt > 1:1367404/1‑69 (MQ=255)
cTGATAAGTAAAGACGGTGATTTGACCTTCCATACg > 1:1641317/1‑36 (MQ=255)
aaGACCGTGATTTGCCCTTCCATACGAATTGCCGCGCCGGAAACCa > 1:1923185/1‑46 (MQ=39)
aaGACCGTGATTTGCCCTTCCATACGAATTGCCGCGCCGGAAACCAg > 1:2550149/1‑47 (MQ=39)
aaGACCGTGATTTGCCCTTCCATACGAATTGCCGCGCCGGAAACCAg > 1:2341024/1‑47 (MQ=39)
aaGACCGTGATTTGCCCTTCCATACGAATTGCCGCGCCGGAAACCAg > 1:1393604/1‑47 (MQ=39)
aaGACCGTGATTTGCCCTTCCATACGAATTGCCGCGCCGGAAACCAg > 1:1314686/1‑47 (MQ=39)
|
GCATTTTCACCAAACAAACGGCTAAGGCAGCGATAGCACGGTTCACCGTCCTGATAAGTAAAGACGGTGATTTGACCTTCCATACGAATTGCCGCGCCGGAAACCAGCGGTACCTT > minE/555496‑555611
|
| 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
