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 |
3,272,348 |
C→T |
40.5% |
G89S (GGT→AGT) |
garR ← |
tartronate semialdehyde reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,272,348 | 0 | C | T | 40.5%
| 49.6
/ 84.5
| 74 | G89S (GGT→AGT) | garR | tartronate semialdehyde reductase |
| Reads supporting (aligned to +/- strand): ref base C (20/24); new base T (14/16); total (34/40) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
AGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGG > W3110S.gb/3272284‑3272414
|
aGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCtt < 1:3831791/71‑1 (MQ=255)
gcgcTTCGCTGATTTCACGGCTTGCCAGCGGTGCGA‑A‑AACTCATATCGATCAATACCGTACCTGGCTTcgc < 1:3414188/71‑1 (MQ=255)
cgcTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTcg > 1:1563862/1‑71 (MQ=255)
gcTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTcgc < 1:955133/71‑1 (MQ=255)
gcTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTcgc < 1:1937233/71‑1 (MQ=255)
gcTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTcg > 1:3009037/1‑70 (MQ=255)
cGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCgcgc > 1:2799022/1‑69 (MQ=255)
cGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCt > 1:4235784/1‑71 (MQ=255)
cTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCt < 1:1855581/61‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGc > 1:3623648/1‑57 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTcgcg < 1:2025281/63‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:4286505/71‑1 (MQ=255)
aTTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaat < 1:3846851/71‑1 (MQ=255)
tttCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaata < 1:2084455/71‑1 (MQ=255)
aCGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGc < 1:24885/71‑1 (MQ=255)
cGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGcc < 1:942345/71‑1 (MQ=255)
gCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCAt > 1:4464487/1‑71 (MQ=255)
tGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCAtt < 1:4191695/69‑1 (MQ=255)
tGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCAtt < 1:2853476/69‑1 (MQ=255)
tGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCAtt < 1:4403066/69‑1 (MQ=255)
gCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATtct < 1:303/70‑1 (MQ=255)
ccAGCGGTGCGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATtctc < 1:2340183/70‑1 (MQ=255)
ggTGCGATAGAACTCATATCGATCAATACCGTACCTGGCtt > 1:1428847/1‑41 (MQ=255)
ggTGCGATAGAACTCATATCGATCAATACCGTACCTGGCtt > 1:3534902/1‑41 (MQ=255)
cGATAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGcc < 1:980483/71‑1 (MQ=255)
cGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCa < 1:4228658/56‑1 (MQ=255)
cGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGcc < 1:1365391/71‑1 (MQ=255)
aTAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGc < 1:542907/52‑1 (MQ=255)
aTACAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCAtt > 1:4455537/1‑56 (MQ=255)
tAGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCAcc < 1:3164881/71‑1 (MQ=255)
tAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaata > 1:590898/1‑47 (MQ=255)
tAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaaaa > 1:2971525/1‑45 (MQ=255)
tAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCaa > 1:3871551/1‑45 (MQ=255)
aGAATTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACct > 1:425994/1‑71 (MQ=255)
aGAACTCATATCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACct > 1:213590/1‑71 (MQ=255)
tCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCTATAATGCCATTCTCACCCAGCGCCAc < 1:2629840/64‑1 (MQ=255)
atatCGATCAATACCGTACTTGGCTTCGCGCCTTCaataa > 1:2307593/1‑40 (MQ=255)
atatCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAgcg > 1:3701452/1‑58 (MQ=255)
atatCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca < 1:4469871/70‑1 (MQ=255)
tatCGATCAATACCGTACTTGGCTTCGCGCCTTCa < 1:766385/35‑1 (MQ=255)
tatCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca < 1:3359703/69‑1 (MQ=255)
tatCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTca < 1:2733210/69‑1 (MQ=255)
atCGATCAATACCGTACCTGGCTTCGCGCCTTCaa > 1:531623/1‑35 (MQ=255)
atCGATCAATACCGTACCTGGCTTCGCGCCTTCaa < 1:677157/35‑1 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTcac > 1:2763330/1‑68 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:1917008/1‑70 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:4073580/1‑70 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:1231451/70‑1 (MQ=255)
tCGATCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:220741/70‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCAt > 1:180334/1‑43 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:3926279/70‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:327459/1‑70 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:1260960/1‑70 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:4135641/70‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:443558/70‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:1036198/71‑1 (MQ=255)
tCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATg < 1:2546328/71‑1 (MQ=255)
cGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt > 1:3867814/1‑69 (MQ=255)
gATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCttt < 1:2201046/63‑1 (MQ=255)
aTCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:856454/67‑1 (MQ=255)
aTCAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACAt < 1:818781/67‑1 (MQ=255)
aTCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAgg < 1:1801794/71‑1 (MQ=255)
cAATACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCAACCAGCGCAACCTCTTTCACATGAggg > 1:950629/1‑70 (MQ=255)
cAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCa > 1:4607606/1‑53 (MQ=255)
aaaTACCGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAggg > 1:3011130/2‑70 (MQ=255)
tACCGTACTTGGCTTCGCGCCTTTAATAATGCCATTCTCACCCAGCGCCAc > 1:1572644/1‑51 (MQ=255)
ccGTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCAc > 1:2120231/1‑49 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCa > 1:2809553/1‑48 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCAc > 1:2931494/1‑49 (MQ=255)
ccGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGttt < 1:4029368/71‑1 (MQ=255)
gTACTTGGCTTCGCGCCTTCAATAATGCCATTCTCa > 1:1246207/1‑36 (MQ=255)
gTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTgg < 1:4083854/71‑1 (MQ=255)
gTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTg > 1:4021327/1‑70 (MQ=255)
tACTTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTgg > 1:847428/1‑70 (MQ=255)
|
AGCGCTTCGCTGATTTCACGGCTTGCCAGCGGTGCGATAGAACTCATATCGATCAATACCGTACCTGGCTTCGCGCCTTCAATAATGCCATTCTCACCCAGCGCCACCTCTTTCACATGAGGGGAGTTTGG > W3110S.gb/3272284‑3272414
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
