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 |
1,363,569 |
A→C |
25.3% |
A353A (GCA→GCC) |
metG → |
methionyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,363,569 | 0 | A | C | 25.3%
| 94.7
/ 33.6
| 71 | A353A (GCA→GCC) | metG | methionyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base A (24/29); new base C (11/7); total (35/36) |
| Fisher's exact test for biased strand distribution p-value = 2.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGATGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTGG > minE/1363508‑1363636
|
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGcc > 1:1959627/3‑69 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGcc > 1:2582510/3‑69 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGcc > 1:1300954/3‑69 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGcc > 1:1347536/3‑69 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGcc > 1:2505751/3‑69 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGcc > 1:236707/3‑69 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGcc > 1:3405702/3‑69 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGc > 1:2371615/3‑68 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGc > 1:1790585/3‑68 (MQ=255)
aaaTGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGc > 1:1696437/3‑68 (MQ=255)
aaaTGTCCAAGTCTCGCAGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCCGACAGcc > 1:2040622/3‑69 (MQ=255)
aGATGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCAGACAGcc < 1:440392/69‑1 (MQ=255)
aGATGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCAGACAGcc < 1:816966/69‑1 (MQ=255)
aGATGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCAGACAGcc < 1:2803512/69‑1 (MQ=255)
tCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCAGACAGCCTGCGt < 1:1751602/69‑1 (MQ=255)
tCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCAGACAGCCTGCGt < 1:492309/69‑1 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGAGAGCCTGCGTtactactac < 1:1788614/45‑1 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac > 1:2497810/1‑45 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac < 1:387958/45‑1 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac > 1:2989953/1‑45 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac > 1:3091139/1‑45 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac > 1:3018303/1‑45 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac < 1:1788455/45‑1 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac < 1:733294/45‑1 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac < 1:797293/45‑1 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac < 1:137118/45‑1 (MQ=255)
aCCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac < 1:2376738/45‑1 (MQ=255)
aCCTCGCTGAATCATTTTGACGCAGACAGCCTGCGTtactactac < 1:2156542/45‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGATACTCTCTTCGCGCATtgat < 1:2067024/69‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCAt > 1:2180013/1‑65 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:2949547/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:278289/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:2920472/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:985034/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat < 1:3095406/69‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat < 1:427771/69‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat < 1:443707/69‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:480946/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:868116/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:932088/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:977979/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:1054434/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat < 1:1660486/69‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat < 1:2043516/69‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:208346/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:1872226/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:2168578/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:1832235/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat < 1:1831774/69‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:2183868/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:1549429/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat < 1:1519261/69‑1 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:2568113/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:2655664/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATtgat > 1:2746314/1‑69 (MQ=255)
tGGCTGAATCATTTTGACGCAGACAGCCTGCGTAACTACTACACTGCGaaa > 1:1126227/1‑51 (MQ=255)
ggCTGAATCATTTTGACGCCGACAGCCTGCGCTACTACTACACCGCCAAACTGTCTTCGCGCATtgatg < 1:2744765/69‑1 (MQ=255)
ggCTGAATCATTTTGACGCCGACAGCCTGCGCTACTACTACACCGCCAAACTGTCTTCGCGCATtgatg < 1:727663/69‑1 (MQ=255)
ggCTGAATCATTTTGACGCCGACAGCCTGCGCTACTACTACACCGCCAAACTGTCTTCGCGCATtgatg < 1:926494/69‑1 (MQ=255)
ggCTGAATCATTTTGACGCCGACAGCCTGCGCTACTACTACACCGCCAAACTGTCTTCGCGCATtgatg < 1:2272733/69‑1 (MQ=255)
ggCTGAATCATTTTGACGCCGACAGCCTGCGCTACTACTACACCGCCAAACTGTCTTCGCGCATtgatg < 1:2436936/69‑1 (MQ=255)
ggCTGAATCATTTTGACGCCGACAGCCTGCGCTACTACTACACCGCCAAACTGTCTTCGCGCATtgatg < 1:2535844/69‑1 (MQ=255)
ggCTGAATCATTTTGACGCCGACAGCCTGCGCTACTACTACACCGCCAAACTGTCTTCGCGCATtgatg < 1:2806270/69‑1 (MQ=255)
aTCATTTTGACGCAGAAAGCCTGCGTtactactac < 1:3214143/35‑1 (MQ=255)
cAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTgg < 1:2119294/69‑1 (MQ=255)
cAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTgg < 1:3210351/69‑1 (MQ=255)
cAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTgg < 1:3143572/69‑1 (MQ=255)
cAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTgg < 1:2313909/69‑1 (MQ=255)
cAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTgg < 1:1447670/69‑1 (MQ=255)
cAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTgg < 1:1256509/69‑1 (MQ=255)
cAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTgg < 1:1227216/69‑1 (MQ=255)
|
AGATGTCCAAGTCTCGCGGCACCTTTATTAAAGCCAGCACCTGGCTGAATCATTTTGACGCAGACAGCCTGCGTTACTACTACACTGCGAAACTCTCTTCGCGCATTGATGATATCGATCTCAACCTGG > minE/1363508‑1363636
|
| 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
