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 |
|
A20 F999 I0 R1
|
98 |
154.1 |
11406411 |
97.3% |
11098437 |
49.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,980,957 |
(G)6→7 |
coding (71/1386 nt) |
yifK → |
putative transporter YifK |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,980,951 | 1 | . | G | 98.7%
| 295.3
/ ‑2.8
| 75 | coding (65/1386 nt) | yifK | putative transporter YifK |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (38/36); total (39/36) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.50e-01 |
Only 100 of 105 total aligned reads displayed.
CCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTA > NC_000913/3980902‑3980995
|
ccAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCt < 2:4917541/50‑1 (MQ=255)
ccAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCt > 1:1618763/1‑50 (MQ=255)
ccAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCt < 2:541720/50‑1 (MQ=255)
cAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑g < 1:4472415/50‑1 (MQ=255)
cAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑g < 1:3521063/50‑1 (MQ=255)
cAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑g > 1:2832191/1‑50 (MQ=255)
cAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑g > 2:4739901/1‑50 (MQ=255)
cAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑g > 1:1707059/1‑50 (MQ=255)
agagCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gg < 1:3682758/50‑1 (MQ=255)
agagCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gg > 2:2474441/1‑50 (MQ=255)
agagCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gc > 2:2992501/1‑49 (MQ=255)
gagCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggg > 2:4223040/1‑50 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggg > 1:1781701/1‑50 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggg > 2:4021590/1‑50 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggg > 1:2182515/1‑50 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggg > 2:1870197/1‑50 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggg < 1:5394577/50‑1 (MQ=255)
agCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggg > 1:4423099/1‑50 (MQ=255)
gCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggggg < 2:2826832/50‑1 (MQ=255)
gCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggggg > 2:3439615/1‑50 (MQ=255)
cTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggggg > 2:3770317/1‑50 (MQ=255)
cTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggggg > 2:2301661/1‑50 (MQ=255)
cTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggggg < 1:1016290/50‑1 (MQ=255)
tACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggggggg > 2:2736199/1‑49 (MQ=255)
tACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggggggg > 1:5294522/1‑49 (MQ=255)
tACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggggggg < 2:4954112/50‑2 (MQ=255)
tACAGCGTGGGCTGCAAGCTCGACATATCGAACTCATCGCCCT‑ggggggg > 2:29735/1‑49 (MQ=255)
aCAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑ggggggg > 2:2796552/1‑48 (MQ=255)
cAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑gggggggc < 2:531370/49‑3 (MQ=255)
cGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCa < 1:599752/50‑1 (MQ=255)
gTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCAt > 2:3423723/1‑50 (MQ=255)
gTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCAt < 2:4515226/50‑1 (MQ=255)
gTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCAt > 1:2146829/1‑50 (MQ=255)
gTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCAt > 1:1213576/1‑50 (MQ=255)
tGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCAtt < 1:3579624/50‑1 (MQ=255)
tGGGCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCAtt < 2:2536014/50‑1 (MQ=255)
ggCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTgg > 2:2714790/1‑50 (MQ=255)
ggCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGCACCCTTTGc > 2:1067454/1‑50 (MQ=255)
gCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGc > 2:1454550/1‑50 (MQ=255)
gCTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGc > 1:1096480/1‑50 (MQ=255)
cTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCg > 1:5405922/1‑50 (MQ=255)
cTGGAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCg < 1:1288966/50‑1 (MQ=255)
ggAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTc > 2:4704925/1‑50 (MQ=255)
ggAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTc > 1:2653102/1‑50 (MQ=255)
ggAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTc > 2:2285776/1‑50 (MQ=255)
gAAGCTCGACATATCGATCTCAGCGCCCTGGGGGGGCACCATTGGCGTc < 1:3211920/49‑1 (MQ=255)
gAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCg < 2:2566457/50‑1 (MQ=255)
gAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCg < 1:2670008/50‑1 (MQ=255)
gAAGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCg < 2:4829773/50‑1 (MQ=255)
aaGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCgg > 2:913538/1‑50 (MQ=255)
aaGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCgg > 2:131730/1‑50 (MQ=255)
aGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGc < 1:2093005/50‑1 (MQ=255)
aGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGc > 1:3622315/1‑50 (MQ=255)
aGCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGc > 1:5359848/1‑50 (MQ=255)
gCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGcc < 2:5518237/50‑1 (MQ=255)
gCTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGcc > 1:2823288/1‑50 (MQ=255)
cTCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCt < 2:2246480/50‑1 (MQ=255)
tCGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTg > 2:2109993/1‑50 (MQ=255)
cGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGt > 1:3932621/1‑50 (MQ=255)
cGACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGt > 2:291971/1‑50 (MQ=255)
gACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTg < 2:5592354/48‑1 (MQ=39)
gACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGtt < 2:2724639/50‑1 (MQ=255)
gACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGtt > 1:5538219/1‑50 (MQ=255)
gACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGtt < 2:4188491/50‑1 (MQ=255)
gACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGtt > 2:3588663/1‑50 (MQ=255)
gACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGtt < 2:5168122/50‑1 (MQ=255)
gACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGt < 1:1221247/49‑1 (MQ=39)
gACATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGt < 1:4281024/49‑1 (MQ=39)
aCATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGttt < 2:1464808/50‑1 (MQ=255)
aCATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGttt < 2:2260726/50‑1 (MQ=255)
aCATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGtt > 1:4982578/1‑49 (MQ=39)
cATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTa > 2:719886/1‑50 (MQ=255)
cATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTa > 1:2832747/1‑50 (MQ=255)
cATATCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTa > 2:405416/1‑50 (MQ=255)
atatCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTAt < 2:2523355/50‑1 (MQ=255)
atatCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTAt > 1:2444554/1‑50 (MQ=255)
tatCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATg < 2:1619826/50‑1 (MQ=255)
tatCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATg < 2:5691569/50‑1 (MQ=255)
atCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATgg > 1:1763134/1‑50 (MQ=255)
tCGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATggg < 2:5616764/50‑1 (MQ=255)
cGAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATgggg > 2:5517584/1‑50 (MQ=255)
gAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATggggg > 1:2288497/1‑50 (MQ=255)
gAACTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATgggg < 2:2863887/49‑1 (MQ=39)
aaCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgc < 1:5653826/50‑1 (MQ=255)
aaCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgc < 2:3404350/50‑1 (MQ=255)
aaCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgc > 2:3305437/1‑50 (MQ=255)
aaCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgc > 2:1321997/1‑50 (MQ=255)
aCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgcc < 1:2968384/50‑1 (MQ=255)
aCTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgcc < 2:2319054/50‑1 (MQ=255)
cTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccg > 1:2418639/1‑50 (MQ=255)
cTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccg < 2:3726293/50‑1 (MQ=255)
cTCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccg > 2:5421285/1‑50 (MQ=255)
tCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc > 2:4737033/1‑50 (MQ=255)
tCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc > 2:4028239/1‑50 (MQ=255)
tCATCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc > 2:5288757/1‑50 (MQ=255)
aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc > 1:4899912/1‑48 (MQ=39)
aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGgccgc < 1:5484362/48‑1 (MQ=39)
aTCGCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCa < 2:3624065/50‑1 (MQ=255)
gCCCTGGGGGGGCACCATTTGCGTCGGCCTGTTTATGGGTGCCGCCAGTa > 2:1404454/1‑50 (MQ=255)
gCCCTGGGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTa < 2:5229945/50‑1 (MQ=255)
|
CCAGAGCTACAGCGTGGGCTGGAAGCTCGACATATCGAACTCATCGCCCT‑GGGGGGCACCATTGGCGTCGGCCTGTTTATGGGGGCCGCCAGTA > NC_000913/3980902‑3980995
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
