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 |
|
A13 F999 I0 R1
|
92 |
76.2 |
6048880 |
97.1% |
5873462 |
49.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,093,223 |
A→G |
V72V (GTT→GTC) |
rhaM ← |
L‑rhamnose mutarotase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,093,223 | 0 | A | G | 98.8%
| 335.0
/ ‑4.8
| 84 | V72V (GTT→GTC) | rhaM | L‑rhamnose mutarotase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base G (27/56); minor base T (1/0); total (28/56) |
| Fisher's exact test for biased strand distribution p-value = 3.33e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
GGTTAGCGGGCATAACATCGGTCATATATTTCCACCAACGTTGGCAAACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTCAATCT > NC_000913/4093177‑4093269
|
ggTTAGCGGGCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACa < 1:3661659/50‑1 (MQ=255)
gTTAGCGGGCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACAt > 1:770532/1‑50 (MQ=255)
ttAGCGGGCATAACATCGGTCATATATTTCCCCCCACTTCGGCCTACATc > 1:5611926/1‑50 (MQ=19)
aGCGGGCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCa < 1:1941667/49‑1 (MQ=255)
aGCGGGCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAg > 1:4418896/1‑50 (MQ=255)
gCGGGCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGt > 1:3921286/1‑50 (MQ=255)
gCGGGCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGt < 1:893487/50‑1 (MQ=255)
gggCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGc > 1:5368852/1‑50 (MQ=255)
gggCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGc < 1:3264772/50‑1 (MQ=255)
gCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTg > 1:1896414/1‑50 (MQ=255)
gCATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTg < 1:5725482/50‑1 (MQ=255)
cATAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTgg < 1:4432227/50‑1 (MQ=255)
aTAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGc < 1:5826766/50‑1 (MQ=255)
aTAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGc < 1:2406141/50‑1 (MQ=255)
tAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGc > 1:810738/1‑49 (MQ=255)
tAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCa < 1:351578/50‑1 (MQ=255)
tAACATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCa < 1:5124014/50‑1 (MQ=255)
aaCATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCaa > 1:5156955/1‑50 (MQ=255)
aCATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAAc < 1:2959185/50‑1 (MQ=255)
aCATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAAc < 1:3366616/50‑1 (MQ=255)
cATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAAcc > 1:5497396/1‑50 (MQ=255)
cATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAAcc > 1:264658/1‑50 (MQ=255)
cATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAAcc < 1:5347791/50‑1 (MQ=255)
cATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAAcc < 1:640020/50‑1 (MQ=255)
cATCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAAcc < 1:1646614/50‑1 (MQ=255)
aTCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCg > 1:2019748/1‑50 (MQ=255)
aTCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCg > 1:5379792/1‑50 (MQ=255)
tCGGTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGc < 1:4382695/50‑1 (MQ=255)
ggTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCAt < 1:1990121/50‑1 (MQ=255)
ggTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCAt < 1:1975431/50‑1 (MQ=255)
gTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCAtt < 1:3849651/50‑1 (MQ=255)
gTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCAtt < 1:2196712/50‑1 (MQ=255)
gTCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCAtt > 1:932612/1‑50 (MQ=255)
tCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTc > 1:5069859/1‑50 (MQ=255)
tCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTc < 1:5617134/50‑1 (MQ=255)
tCATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTc < 1:199294/50‑1 (MQ=255)
cATATATTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTc > 1:5049854/1‑49 (MQ=255)
atatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTcc < 1:5117123/49‑1 (MQ=255)
atatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTcc < 1:671890/49‑1 (MQ=255)
atatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTc > 1:5754084/1‑48 (MQ=255)
atatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCa < 1:657080/50‑1 (MQ=255)
atatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCa < 1:3768591/50‑1 (MQ=255)
atatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCa < 1:3708391/50‑1 (MQ=255)
atatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCa < 1:2653708/50‑1 (MQ=255)
tatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAg < 1:4599960/50‑1 (MQ=255)
tatatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAg < 1:4270001/50‑1 (MQ=255)
atatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGc > 1:1378312/1‑50 (MQ=255)
atatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGc > 1:1607617/1‑50 (MQ=255)
atatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGc > 1:1917243/1‑50 (MQ=255)
tatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGc < 1:635456/49‑1 (MQ=255)
tatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGc < 1:3081897/49‑1 (MQ=255)
tatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGc < 1:2426720/49‑1 (MQ=255)
tatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCg > 1:2322931/1‑50 (MQ=255)
tatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCg > 1:2485304/1‑50 (MQ=255)
tatTTCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCg > 1:4001166/1‑50 (MQ=255)
tttCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGt < 1:5768996/49‑1 (MQ=255)
tCCACCAACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttc < 1:2660884/49‑1 (MQ=255)
ccaccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttct < 1:4259417/49‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttcttc < 1:3465994/50‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttcttc < 1:353246/50‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttcttc < 1:3275561/50‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttctt < 1:5360991/49‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttctt < 1:5535799/49‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttctt < 1:735368/49‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttctt < 1:1649812/49‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttctt < 1:211915/49‑1 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttctt > 1:312442/1‑49 (MQ=255)
caccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttctt > 1:1687661/1‑49 (MQ=255)
accaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCa < 1:2710624/50‑1 (MQ=255)
accaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCa < 1:1537252/50‑1 (MQ=255)
ccaACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGttctt > 1:1527572/1‑47 (MQ=255)
caACGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGa < 1:3872241/50‑1 (MQ=255)
aaCGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGAt > 1:2660157/1‑50 (MQ=255)
aaCGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGAt < 1:5070449/50‑1 (MQ=255)
aaCGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGAt < 1:4133401/50‑1 (MQ=255)
aCGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGAtt < 1:2711949/50‑1 (MQ=255)
aCGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGAtt < 1:5634669/50‑1 (MQ=255)
cGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTc < 1:1705334/50‑1 (MQ=255)
cGTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTc < 1:1271150/50‑1 (MQ=255)
gTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTc > 1:2286451/1‑49 (MQ=255)
gTTGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTCa < 1:1823035/50‑1 (MQ=255)
ttGGCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTCaa < 1:508825/50‑1 (MQ=255)
gCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTCAAtct > 1:4926283/1‑50 (MQ=255)
gCAGACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTCAAtc < 1:3056839/49‑1 (MQ=255)
|
GGTTAGCGGGCATAACATCGGTCATATATTTCCACCAACGTTGGCAAACATCAGTGCTGGCAACCGCATTCCAGCGTTCTTCAGATTCAATCT > NC_000913/4093177‑4093269
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
