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 |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,488,439 |
T→A |
K116I (AAA→ATA) |
emrK ← |
EmrKY‑TolC multidrug resistance efflux pump, membrane fusion protein component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,488,439 | 0 | T | A | 93.0%
| 289.6
/ 11.9
| 100 | K116I (AAA→ATA) | emrK | EmrKY‑TolC multidrug resistance efflux pump, membrane fusion protein component |
| Reads supporting (aligned to +/- strand): ref base T (5/2); new base A (68/25); total (73/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.47e-01 |
Only 100 of 105 total aligned reads displayed.
ATCTTCTAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTTTATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTAT > W3110S.gb/2488381‑2488502
|
aTCTTCTAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAg > 1:1480349/1‑70 (MQ=255)
aTCTTCTAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAg > 1:3188256/1‑70 (MQ=255)
aTCTTCTAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAg > 1:2444163/1‑70 (MQ=255)
aTCTTCTAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAg > 1:1649780/1‑70 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGGGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:2142826/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:10079/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:220924/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:3969807/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:2364587/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:468327/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:2048537/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:2032389/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:1930064/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:3502935/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:806948/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:2594124/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:936541/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:869790/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:1236528/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:2718838/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATACGAGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:2793013/1‑69 (MQ=255)
ttctAAAGATTGTTGATACTGAATAAGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGta > 1:2119591/1‑69 (MQ=255)
gttgATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGtt > 1:3421745/1‑71 (MQ=255)
gttgATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGtt > 1:1834077/1‑71 (MQ=255)
gttgATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGtt > 1:1219183/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGtata > 1:3981535/1‑44 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGtata > 1:2310532/1‑44 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGtata > 1:1283252/1‑44 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGtata > 1:2415410/1‑44 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:3654432/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:2983094/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:2779724/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:3466156/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:1227718/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:905767/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:1507276/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:1512260/1‑71 (MQ=255)
gATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGc > 1:1673039/1‑71 (MQ=255)
cTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTAtt > 1:2302383/1‑60 (MQ=255)
cTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTAtt > 1:2731669/1‑60 (MQ=255)
cTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTAtt > 1:2681311/1‑60 (MQ=255)
cTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTAtt > 1:2950957/1‑60 (MQ=255)
cTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTAtt > 1:640127/1‑60 (MQ=255)
cTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTAtt > 1:1811825/1‑60 (MQ=255)
cTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTAtt > 1:2136378/1‑60 (MQ=255)
cTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTAtt > 1:2172541/1‑60 (MQ=255)
tACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAata < 1:1745716/71‑1 (MQ=255)
tACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAata > 1:3381882/1‑71 (MQ=255)
tACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAata > 1:2544891/1‑71 (MQ=255)
tACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAata < 1:606925/71‑1 (MQ=255)
tACGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAata > 1:507187/1‑71 (MQ=255)
cGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATAtt > 1:822102/1‑71 (MQ=255)
cGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATAtt > 1:3721572/1‑71 (MQ=255)
cGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATAtt > 1:4093641/1‑71 (MQ=255)
cGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATAtt > 1:3964129/1‑71 (MQ=255)
cGTGCTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATAtt > 1:1013557/1‑71 (MQ=255)
cTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGc < 1:2643043/70‑1 (MQ=255)
cTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGc < 1:2400992/70‑1 (MQ=255)
cTGAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGc < 1:2641087/70‑1 (MQ=255)
gAAGCGACTTCGGCACTGTATTGTTTATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGc > 1:278969/1‑68 (MQ=255)
gAAGCGACTTCGGCACTGTATTGTTTATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGc > 1:912854/1‑68 (MQ=255)
gAAGCGACTTCGGCACTGTATTGTTTATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGc > 1:2817187/1‑68 (MQ=255)
gAAGCGACTTCGGCACTGTATTGTTTATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGc > 1:651430/1‑68 (MQ=255)
gAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCg < 1:3551663/56‑1 (MQ=255)
gAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCg < 1:3851810/56‑1 (MQ=255)
gAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCg < 1:2273431/56‑1 (MQ=255)
gAAGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCg < 1:1595506/56‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:2106225/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:441159/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:3659232/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:2406640/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:3624793/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:3677868/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:3227244/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:2974410/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:3182596/35‑1 (MQ=255)
aaGCGACTTCGGCACTGTATTGTATATCCTGTAAg < 1:299304/35‑1 (MQ=255)
aGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGaa > 1:2760164/1‑56 (MQ=255)
aGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGaa > 1:2330035/1‑56 (MQ=255)
aGCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGaa > 1:3171062/1‑56 (MQ=255)
gCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGaa > 1:2701/1‑69 (MQ=255)
gCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGaa > 1:2281912/1‑69 (MQ=255)
gCGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGaa > 1:1633498/1‑69 (MQ=255)
cGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTg > 1:2093874/1‑63 (MQ=255)
cGACTTCGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGatta < 1:2436273/71‑1 (MQ=255)
cGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTAttttt < 1:2453777/70‑1 (MQ=255)
cGGCACTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTAttttt < 1:3331741/70‑1 (MQ=255)
aCTGTATTGTTTATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCtt < 1:1553939/71‑1 (MQ=255)
aCTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCtt < 1:1148032/71‑1 (MQ=255)
aCTGTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCtt < 1:415807/71‑1 (MQ=255)
gTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAg > 1:50184/1‑65 (MQ=255)
gTATTGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTAt > 1:1385031/1‑71 (MQ=255)
ttGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTa > 1:2019953/1‑67 (MQ=255)
ttGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTa > 1:1988752/1‑67 (MQ=255)
ttGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTa > 1:309090/1‑67 (MQ=255)
ttGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTa > 1:3969413/1‑67 (MQ=255)
ttGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTa > 1:2601940/1‑67 (MQ=255)
ttGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTa > 1:1259869/1‑67 (MQ=255)
ttGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTa > 1:2468677/1‑67 (MQ=255)
ttGTATATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTa > 1:2425356/1‑67 (MQ=255)
|
ATCTTCTAAAGATTGTTGATACTGAATACGTGCTGAAGCGACTTCGGCACTGTATTGTTTATCCTGTAAGTATAGTTTATTCGTTTGCCGAACAATATTTGCCAGATTATTTTTAGCTTTAT > W3110S.gb/2488381‑2488502
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
