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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,211,240 |
C→T |
25.4% |
G38S (GGT→AGT) ‡ |
cspC ← |
stress protein, member of the CspA‑family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,211,240 | 0 | C | T | 25.4%
| 210.9
/ 66.3
| 114 | G38S (GGT→AGT) ‡ | cspC | stress protein, member of the CspA‑family |
| Reads supporting (aligned to +/- strand): ref base C (37/48); new base T (8/21); total (45/69) |
| Fisher's exact test for biased strand distribution p-value = 1.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
Only 100 of 127 total aligned reads displayed.
CCTTTCTGGCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTT > minE/1211173‑1211308
|
ccTTTCTGGCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTg < 1:773513/71‑1 (MQ=255)
ccTTTCTGGCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTg < 1:575558/71‑1 (MQ=255)
tCTGGCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGa > 1:626907/1‑69 (MQ=255)
tCTGGCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGa < 1:2718993/69‑1 (MQ=255)
tCTGGCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGa > 1:2660368/1‑69 (MQ=255)
gCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCATCCAGAGTTTTGAAGCCATTACCCTGGATAGc < 1:4264330/69‑1 (MQ=255)
gCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCg < 1:1299178/70‑1 (MQ=255)
cGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGgag < 1:3148808/71‑1 (MQ=255)
cGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGgag < 1:1933932/71‑1 (MQ=255)
gTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGa > 1:63875/1‑62 (MQ=255)
gTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGgag > 1:3579978/1‑70 (MQ=255)
gTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATAACCCTGGa > 1:321761/1‑62 (MQ=255)
tCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAccc < 1:2603352/57‑1 (MQ=255)
tCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGgag > 1:854272/1‑69 (MQ=255)
tCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGga > 1:1729316/1‑68 (MQ=255)
tGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAgtg > 1:57372/1‑71 (MQ=255)
gtgaTTTCGAACTCTACGCGCTGACCTTCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAgtg < 1:3133154/68‑1 (MQ=255)
aaTTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAgtg < 1:5304883/69‑1 (MQ=255)
aaTTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTa < 1:1780813/71‑1 (MQ=255)
aaTTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTa > 1:5393203/1‑71 (MQ=255)
aaTTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTa < 1:5534542/71‑1 (MQ=255)
aTTTCGAACTCTACGCGCTGACCTTCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTAc > 1:1514981/1‑71 (MQ=255)
aTTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTa < 1:5208823/70‑1 (MQ=255)
tttCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACg < 1:1315390/71‑1 (MQ=255)
tttCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACg < 1:394843/71‑1 (MQ=255)
tCGAACTCTACGCGCTGACCTTCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGa < 1:2607437/70‑1 (MQ=255)
tCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:2481993/1‑47 (MQ=255)
aaCTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAgtg < 1:4910506/62‑1 (MQ=255)
aaCTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAaca > 1:202511/1‑70 (MQ=255)
aaCTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAaca > 1:2992507/1‑70 (MQ=255)
aCTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:5322828/1‑43 (MQ=255)
aCTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:3794890/1‑43 (MQ=255)
aaCGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTgg > 1:532067/1‑43 (MQ=255)
aaCGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGa > 1:2265028/1‑44 (MQ=255)
aaCGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCtt > 1:4738548/1‑71 (MQ=255)
aCGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGgag < 1:4306100/51‑1 (MQ=255)
ctttCTGACCTTCGTCCAGAGATTTGTAACCATCGTTCTGGATAGCAGAGAAgt > 1:3540719/3‑54 (MQ=255)
cGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:2389265/1‑37 (MQ=255)
cGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:148853/1‑37 (MQ=255)
cGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:5516915/1‑37 (MQ=255)
cGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:1834766/1‑37 (MQ=255)
cGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:5339600/1‑37 (MQ=255)
cGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTtg < 1:1692410/71‑1 (MQ=255)
tttCTGACCTTCGTCCAGAGATTTGTAACCATCGTTCTGGATAGCAgaga < 1:3311892/49‑1 (MQ=255)
gTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTAcc > 1:2607791/1‑36 (MQ=255)
cgcTGACCTTCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTtgc < 1:5022279/68‑1 (MQ=255)
tCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTtgctg > 1:4519688/1‑71 (MQ=255)
cTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTtgctgc > 1:1254573/1‑71 (MQ=255)
tGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGAt < 1:5508843/38‑1 (MQ=255)
tGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTtgctgc > 1:468109/1‑70 (MQ=255)
gACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCa > 1:5551196/1‑71 (MQ=255)
gACCTTCAGCAAGAGTTTTAAAACCATTAGTCTGGa > 1:2001823/1‑36 (MQ=16)
ttCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTa < 1:3684160/47‑1 (MQ=255)
ttCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTa < 1:1258506/47‑1 (MQ=255)
ttCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTa < 1:138043/47‑1 (MQ=255)
ttCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTa < 1:4446477/47‑1 (MQ=255)
tCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGc > 1:3933927/1‑71 (MQ=255)
tCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGc > 1:2276753/1‑71 (MQ=255)
tCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCtt < 1:1788695/58‑1 (MQ=255)
tCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCtt < 1:5328213/58‑1 (MQ=255)
tCAGCAAGAGTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCtt < 1:3821948/58‑1 (MQ=255)
cAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGgaga > 1:1257439/1‑39 (MQ=255)
cAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTa > 1:574708/1‑45 (MQ=255)
cAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAg < 1:3489174/69‑1 (MQ=255)
cAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAg < 1:1528557/69‑1 (MQ=255)
cAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGc < 1:1600824/70‑1 (MQ=255)
aGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCg < 1:2632015/71‑1 (MQ=255)
ccAGAGTTTTGAAGCCATTACCCTGGATAGCGgag < 1:3270136/35‑1 (MQ=255)
aagagTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAg > 1:2641007/2‑71 (MQ=255)
agagTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGact < 1:2794389/71‑3 (MQ=255)
agagTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAg > 1:5312850/1‑70 (MQ=255)
agTTTTAAATCCATTAGTCTGGATTGCAGAGAAGTGTACGAac < 1:2637403/43‑1 (MQ=16)
gTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAAt < 1:5075619/71‑1 (MQ=255)
gTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAAt > 1:2661813/1‑71 (MQ=255)
gTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAAt > 1:2186337/1‑71 (MQ=255)
gTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAAt < 1:2078635/71‑1 (MQ=255)
gTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAAt < 1:5394219/71‑1 (MQ=255)
gTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAAt < 1:1547175/71‑1 (MQ=16)
tttAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGccg < 1:5545042/55‑2 (MQ=16)
ttGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGa < 1:1533115/70‑1 (MQ=255)
ttGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGa < 1:2205268/70‑1 (MQ=255)
tGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAg > 1:1975074/1‑71 (MQ=255)
gAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATc > 1:661413/1‑42 (MQ=255)
aaaccATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAAcc < 1:663283/68‑1 (MQ=12)
aGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGcc > 1:431655/1‑70 (MQ=255)
ccATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCttt > 1:1058512/1‑41 (MQ=19)
ccATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCaaa < 1:2245700/71‑1 (MQ=255)
cATTGCTCTGGATGGCGGTGAAATGGACGAAAACGTCTTTGCTGCCATCATCAGGa > 1:3652710/1‑56 (MQ=2)
cATTGCTCTGGATGGCGGTGAAATGGACGAAAACGTCTTTGCTGCCATCATCAGGa > 1:2481815/1‑56 (MQ=2)
cATTGCTCTGGATGGCGGTGAAATGGACGAAAACGTCTTTGCTGCCATCATCAGGAGTGATAAAGCCaaa < 1:951577/70‑1 (MQ=9)
cATTGCTCTGGATGGCGGTGAAATGGACGAAAACGTCTTTGCTGCCATCATCAGGAGTGATAAAGCCaaa < 1:5092732/70‑1 (MQ=9)
cATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGa > 1:2581149/1‑56 (MQ=12)
aTTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAAc > 1:597120/1‑71 (MQ=255)
aTTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAAc > 1:3805245/1‑71 (MQ=255)
ttACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCaa < 1:3383326/67‑1 (MQ=255)
aCCCTGGATAGCGGAGAAGTGTACGAACACATCtt < 1:1814370/35‑1 (MQ=255)
aCCCTGGATAGCGGAGAAGTGTACGAACACATCtt < 1:2290882/35‑1 (MQ=255)
aCCCTGGATAGCGGAGAAGTGTACGAACACATCtt < 1:2382160/35‑1 (MQ=255)
cccTGGATAGCGGAGAAGTGTACGAACACATCTTTGATGCCATCAGCCGGAGTAATGAAGCCAAAACCtt > 1:4280542/1‑70 (MQ=255)
cccTGGATAGCGGAGAAGTGTAAGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCtt < 1:4050024/70‑1 (MQ=255)
|
CCTTTCTGGCCGTCCTGAATTTCGAACTCAACGTTCTGACCTTCAGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTT > minE/1211173‑1211308
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
