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 |
|
A127 F1 I1 R1
|
15 |
330.5 |
20417406 |
95.5% |
19498622 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,367,986 |
G→A |
R317C (CGC→TGC) |
rpoA ← |
DNA‑directed RNA polymerase subunit alpha |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,367,986 | 0 | G | A | 98.9%
| 1452.2
/ NA
| 377 | R317C (CGC→TGC) | rpoA | DNA‑directed RNA polymerase subunit alpha |
| Reads supporting (aligned to +/- strand): ref base G (2/0); major base A (162/209); minor base C (0/4); total (164/213) |
| Fisher's exact test for biased strand distribution p-value = 1.37e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
Only 100 of 388 total aligned reads displayed.
CCTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGG > REL606/3367913‑3368058
|
ccTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGcaca > 2:7106903/1‑76 (MQ=255)
cTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACAt < 1:4075961/76‑1 (MQ=255)
ttCTCAGTAAAACCTTACCCTGGAATCCGGTTACTGGCCAGCAATGCTTGCCGGTGGCCAGTTTTCCAGGCACAtc > 2:589476/1‑75 (MQ=255)
tctcAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGACAGTTTTCCAGGCACATGc > 2:6745319/1‑76 (MQ=255)
ctcAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGcc > 1:9687154/1‑76 (MQ=255)
cAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCa < 1:6827540/76‑1 (MQ=255)
aGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCag < 1:1647082/76‑1 (MQ=255)
gTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCaga < 1:5919019/76‑1 (MQ=255)
tAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCagag > 2:5573743/1‑76 (MQ=255)
aaaaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAgaga > 2:1431557/1‑76 (MQ=255)
aaaaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAgaga < 2:9938724/76‑1 (MQ=255)
aaaaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAgaga > 1:986159/1‑76 (MQ=255)
aaaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGAc < 2:1312013/76‑1 (MQ=255)
aaCCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACa < 2:5339094/76‑1 (MQ=255)
cTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTc > 2:1045445/1‑76 (MQ=255)
cTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTc < 1:927439/76‑1 (MQ=255)
cTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTc > 2:2615722/1‑76 (MQ=255)
tAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTccc > 1:4735492/1‑75 (MQ=255)
aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCAc > 1:9575892/1‑76 (MQ=255)
aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCAc < 2:4208220/76‑1 (MQ=255)
aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCAc > 2:8671878/1‑76 (MQ=255)
aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCAc > 1:5326467/1‑76 (MQ=255)
aaCCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCAc > 1:869639/1‑76 (MQ=255)
tgtgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGa < 1:3537755/76‑1 (MQ=255)
tgtgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGa > 2:7648936/1‑76 (MQ=255)
gtgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGaa > 1:307481/1‑76 (MQ=255)
gtgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGaa < 1:3911849/76‑1 (MQ=255)
gtgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGACCACGGGaa > 2:7485279/1‑76 (MQ=255)
tgATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAg > 2:493872/1‑76 (MQ=255)
gATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCGAGGCACATGCCCAGAGACAGTCCACGGGAAGc < 1:1414615/76‑1 (MQ=255)
gATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGc < 1:8176903/76‑1 (MQ=255)
aTCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGcc > 2:6905081/1‑76 (MQ=255)
aTCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGcc > 2:929821/1‑76 (MQ=255)
tCCTGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCa < 2:2698770/76‑1 (MQ=255)
tCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCa < 2:1774008/76‑1 (MQ=255)
tCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCa > 2:6361044/1‑76 (MQ=255)
ccGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAg < 1:9127710/76‑1 (MQ=255)
ccGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAg > 2:5197686/1‑76 (MQ=255)
ggTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCa > 2:7312652/1‑76 (MQ=255)
ggTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCa < 1:258328/76‑1 (MQ=255)
gTTCCTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCAc < 2:3685516/76‑1 (MQ=255)
gTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCAc < 2:7586319/76‑1 (MQ=255)
ttACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACg > 2:6987854/1‑76 (MQ=255)
ttACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACg > 1:6118907/1‑76 (MQ=255)
tACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGt > 2:5072625/1‑76 (MQ=255)
tACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGt < 1:2893603/76‑1 (MQ=255)
aCTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTc > 2:852256/1‑76 (MQ=255)
cTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCt > 2:6801551/1‑76 (MQ=255)
cTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCt < 2:5667405/76‑1 (MQ=255)
tCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCtt < 1:8068153/76‑1 (MQ=255)
aagTCAGCGAGGCTTGCCGGTGGCCAGTTTCCCAGGCACACGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCtt < 2:8059568/74‑1 (MQ=255)
cGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCttt < 1:1006152/76‑1 (MQ=255)
cGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCttt > 1:3381001/1‑76 (MQ=255)
cGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCttt > 2:379310/1‑76 (MQ=255)
gTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTa < 2:9092997/76‑1 (MQ=255)
gTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTa < 2:8895714/76‑1 (MQ=255)
tCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTaa > 2:2414357/1‑76 (MQ=255)
tCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTaa < 2:6531798/76‑1 (MQ=255)
tCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTaa > 2:4436038/1‑76 (MQ=255)
ccAGAGACGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTaa < 2:8635932/75‑1 (MQ=255)
cAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAAt > 2:1948904/1‑76 (MQ=255)
aGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAAtc > 1:2028337/1‑76 (MQ=255)
aGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAAtc < 1:1196144/76‑1 (MQ=255)
gCGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAAtct > 1:5754507/1‑76 (MQ=255)
cGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAAtctc > 2:7179119/1‑76 (MQ=255)
cGATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAAtctc > 1:4968086/1‑76 (MQ=255)
gATGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCa > 2:10063429/1‑76 (MQ=255)
aTGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAg > 2:6031166/1‑76 (MQ=255)
aTGCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAg < 2:1609598/76‑1 (MQ=255)
gCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTa < 1:3788015/76‑1 (MQ=255)
gCTTGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTa > 1:2816044/1‑76 (MQ=255)
gCTCGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTa < 1:8390710/76‑1 (MQ=255)
ttGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAag < 1:10168013/76‑1 (MQ=255)
ttGCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAag < 1:4342424/76‑1 (MQ=255)
ttGCCGCTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAag < 1:2432687/76‑1 (MQ=255)
tGCGGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAaga < 1:9417034/76‑1 (MQ=255)
gCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAagcg > 1:7478530/1‑74 (MQ=255)
gCCGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAagag > 2:3944819/1‑76 (MQ=255)
ccGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAgaga > 1:5575826/1‑76 (MQ=255)
ccGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAgaga > 1:9339449/1‑76 (MQ=255)
cGGTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAt > 1:7308603/1‑76 (MQ=255)
ggTGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAtt < 1:7042047/76‑1 (MQ=255)
tGGCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAtttt < 2:9569200/76‑1 (MQ=255)
ggCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAttttt > 1:7869695/1‑76 (MQ=255)
gCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAtttttt < 2:466695/76‑1 (MQ=255)
gCCAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGAtttttt < 2:9776356/76‑1 (MQ=255)
cAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAc > 1:9967195/1‑76 (MQ=255)
cAGTTTTCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTAc < 1:4427662/76‑1 (MQ=255)
ttttCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCaa < 1:4634419/76‑1 (MQ=255)
ttttCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCaa > 2:5825899/1‑76 (MQ=255)
tttCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAg < 1:6456497/76‑1 (MQ=255)
tCCAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGt > 2:4522964/1‑76 (MQ=255)
ccAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGtt < 1:8917003/76‑1 (MQ=255)
ccAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGtt > 2:2133033/1‑76 (MQ=255)
ccAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGtt < 2:3024580/76‑1 (MQ=255)
cAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTa < 2:2299711/76‑1 (MQ=255)
cAGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTa < 1:6316186/76‑1 (MQ=255)
aGGCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAg < 2:3307988/76‑1 (MQ=255)
ggCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAgg < 1:509039/76‑1 (MQ=255)
ggCACATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAgg < 2:938462/76‑1 (MQ=255)
|
CCTTCTCAGTAAAACCTTAACCTGTGATCCGGTTACTCGTCAGCGATGCTTGCCGGTGGCCAGTTTTCCAGGCGCATGCCCAGAGACAGTCCACGGGAAGCCAGCACGTCTTTAATCTCAGTAAGAGATTTTTTACCAAGGTTAGG > REL606/3367913‑3368058
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
