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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,629,792 |
T→C |
27.6% |
D467G (GAC→GGC) |
guaA ← |
GMP synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,629,792 | 0 | T | C | 27.6%
| 115.4
/ 56.3
| 76 | D467G (GAC→GGC) | guaA | GMP synthetase |
| Reads supporting (aligned to +/- strand): ref base T (27/28); new base C (8/13); total (35/41) |
| Fisher's exact test for biased strand distribution p-value = 4.48e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.78e-01 |
GTACGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACGCCTGGCTGAC > W3110S.gb/2629722‑2629862
|
gTACGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGt < 1:2738335/71‑1 (MQ=255)
gTACGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGCTTTCGACAGCACCCAGAGAGACAACCCAGt > 1:4315257/1‑71 (MQ=255)
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCa < 1:2867101/70‑1 (MQ=255)
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCAt < 1:3527571/71‑1 (MQ=255)
cGGCAGATGCGCCCAGTGTGCGGTCATAAAGCCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCAt < 1:2841793/71‑1 (MQ=255)
aGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACtt < 1:1511436/71‑1 (MQ=255)
aGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACt > 1:1135949/1‑70 (MQ=255)
aTGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTAc < 1:4174217/71‑1 (MQ=255)
tGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:2945542/1‑70 (MQ=255)
tGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:138968/1‑70 (MQ=255)
cgcCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGAc > 1:2164192/1‑71 (MQ=255)
gcCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGAcc < 1:153947/71‑1 (MQ=255)
ccAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCAt < 1:1269018/59‑1 (MQ=255)
ccAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCAt < 1:385507/59‑1 (MQ=255)
gtgtGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGc < 1:1883674/71‑1 (MQ=255)
tgCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACt > 1:51094/1‑56 (MQ=255)
cGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCAt < 1:3052416/70‑1 (MQ=255)
cGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCAt > 1:1089939/1‑70 (MQ=255)
cGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCAt < 1:1193715/70‑1 (MQ=255)
gTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATAc > 1:2428000/1‑51 (MQ=255)
gTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTAc > 1:1879649/1‑71 (MQ=255)
tCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACt < 1:4187055/51‑1 (MQ=255)
tCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCAt < 1:2590486/67‑1 (MQ=255)
cATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTa > 1:1966915/1‑68 (MQ=255)
cATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGc > 1:3115664/1‑71 (MQ=255)
aTAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACt < 1:3473253/49‑1 (MQ=255)
aTAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGc > 1:2469799/1‑70 (MQ=255)
aaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAAc > 1:4090520/1‑71 (MQ=255)
aaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAAc > 1:4132649/1‑71 (MQ=255)
aaGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAAc > 1:4138044/1‑71 (MQ=255)
gTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:3665922/71‑1 (MQ=255)
tCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg > 1:574413/1‑70 (MQ=255)
tCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGAcc < 1:3484535/50‑1 (MQ=255)
tCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGAcc < 1:3807205/50‑1 (MQ=255)
tCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCAt > 1:2621322/1‑52 (MQ=255)
cGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:3851775/1‑45 (MQ=255)
cGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:841780/1‑45 (MQ=255)
cGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTAc > 1:3265287/1‑45 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:3102453/71‑1 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:97328/71‑1 (MQ=255)
tGGTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:916742/71‑1 (MQ=255)
ggTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTa > 1:913363/1‑71 (MQ=255)
ggTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTa > 1:2389551/1‑71 (MQ=255)
gTTTCGACAGCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGt < 1:3179208/69‑1 (MQ=255)
ttCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCAt > 1:2329795/1‑51 (MQ=255)
ttCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGc > 1:4264128/1‑56 (MQ=255)
aGCACGCAGAGAGACAACCCAGTCATACTTACGATCATCGCCCAt < 1:4334498/45‑1 (MQ=255)
gCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGaa < 1:641004/71‑1 (MQ=255)
gCACGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGaa < 1:2471501/71‑1 (MQ=255)
aCGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAaca > 1:1562796/1‑71 (MQ=255)
cGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAacac < 1:2581379/71‑1 (MQ=255)
cGCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAacac < 1:2376701/71‑1 (MQ=255)
gCAGAGAGACAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAaca > 1:55500/1‑69 (MQ=255)
agagagACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:579704/49‑1 (MQ=255)
agagagACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACgg < 1:1727893/49‑1 (MQ=255)
gagagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGaa < 1:93684/64‑1 (MQ=255)
gagagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTg < 1:3579251/71‑1 (MQ=255)
gagagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTg < 1:242127/71‑1 (MQ=255)
gagagaCAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACTGAACGTACCGGCAGGAacac < 1:38508/67‑1 (MQ=255)
agagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGaa > 1:4525429/1‑49 (MQ=255)
agagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGa < 1:1468373/71‑1 (MQ=255)
gagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTAc > 1:2792638/1‑53 (MQ=255)
gagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTAc > 1:2269893/1‑53 (MQ=255)
gagaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAaca > 1:1340829/1‑64 (MQ=255)
agaCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAAc < 1:3723011/71‑1 (MQ=255)
aCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACTGAACGTACCGGCAGGAaca < 1:404214/61‑1 (MQ=255)
aCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAacac < 1:3384239/62‑1 (MQ=255)
aCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAaca < 1:449620/61‑1 (MQ=255)
aCAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAaca < 1:901057/61‑1 (MQ=255)
aCAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGaa > 1:3435116/1‑59 (MQ=255)
aCAACCCAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAaca < 1:3308536/61‑1 (MQ=255)
cAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACTcc < 1:857711/71‑1 (MQ=255)
cAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAAcaca > 1:1556534/1‑57 (MQ=255)
cAGCCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACGCCTGGCt > 1:1538906/1‑71 (MQ=255)
aGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTAc > 1:2495943/1‑43 (MQ=255)
aGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCg < 1:3996180/45‑1 (MQ=255)
gTCATACTTACGACCATCGCCCATTACGCCAACGGAAc > 1:480715/1‑38 (MQ=255)
gTCATACTTACGACCATCGCCCATTACGCCAACGGAAc > 1:2218138/1‑38 (MQ=255)
tCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGc > 1:340575/1‑45 (MQ=255)
tCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACGCCTGGCTGAc < 1:90140/71‑1 (MQ=255)
tCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACGCCTGGCTGAc < 1:1803434/71‑1 (MQ=255)
|
GTACGGCAGATGCGCCCAGTGTGCGGTCATAAAGTCGATGGTTTCGACAGCACGCAGAGAGACAACCCAGTCATACTTACGACCATCGCCCATTACGCCAACGGAACGTACCGGCAGGAACACAGTGAACGCCTGGCTGAC > W3110S.gb/2629722‑2629862
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
