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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,456,196 |
G→A |
30.0% |
A385V (GCG→GTG) |
yfaQ ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,456,196 | 0 | G | A | 30.0%
| 56.1
/ 28.9
| 40 | A385V (GCG→GTG) | yfaQ | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (15/13); new base A (5/7); total (20/20) |
| Fisher's exact test for biased strand distribution p-value = 7.31e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.25e-01 |
CCATGATAATGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAGGCAATC > minE/1456133‑1456263
|
ccATGATAATGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGt > 1:1372266/1‑71 (MQ=255)
ccATGATAATGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCAccccc < 1:288163/69‑1 (MQ=255)
cATGATAATGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCAccccc < 1:1488925/68‑1 (MQ=255)
gATAATGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCACCCCCGTGGTc > 1:1034710/1‑71 (MQ=255)
aTAATGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCg > 1:2696480/1‑71 (MQ=255)
tAATGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCACCCCCGTGGTCg < 1:1700055/70‑1 (MQ=255)
aTGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCt < 1:3206561/70‑1 (MQ=255)
tGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTgg > 1:2698159/1‑71 (MQ=255)
gATCGCCTGCATAGATGAGAACCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAg > 1:589219/1‑69 (MQ=255)
tCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCa < 1:3176034/69‑1 (MQ=255)
tCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCACCCCCGTGGTCGCTGGCGAAGCAg > 1:3291672/1‑70 (MQ=255)
cGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCACCCCCGTGGTCGCTGGCGAAGCAGa > 1:544868/1‑70 (MQ=255)
gCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGaaa < 1:3707829/71‑1 (MQ=255)
gCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCACCCCCGTGGTCGCTGGCGAATCAGaaa < 1:2313187/71‑1 (MQ=255)
gCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCACCCCCGTGGTCGCTGGCGAATCAGaaa < 1:2317846/71‑1 (MQ=255)
gCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCACCCCCGTGGTCGCTGGCGAAGCAGaaa < 1:2849571/71‑1 (MQ=255)
cATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCg > 1:3245271/1‑51 (MQ=255)
cATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAacac < 1:2302881/69‑1 (MQ=255)
gATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCg > 1:1753/1‑71 (MQ=255)
tGAGATCCTGCGTCCAGGCGGTCATCGTTCGCACCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTg > 1:376724/1‑71 (MQ=255)
tCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGaaa > 1:2264076/1‑55 (MQ=255)
ccTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTg > 1:233338/1‑35 (MQ=255)
ccTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGa > 1:3541696/1‑52 (MQ=255)
tGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCgctgct > 1:3384096/1‑71 (MQ=255)
ggCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGa < 1:2760408/71‑1 (MQ=255)
ggCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGa > 1:81875/1‑71 (MQ=255)
gCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCgct < 1:3394022/59‑1 (MQ=255)
cGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAaca > 1:2687241/1‑44 (MQ=255)
gTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGt < 1:1065438/71‑1 (MQ=255)
gTCATCGTTCGCGCCCCCGTGGTCGCGGGCGAAGCAGAAACACGCTGCGTGGCgct < 1:247244/56‑1 (MQ=255)
tCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTc < 1:1115607/71‑1 (MQ=255)
cATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGt > 1:4064854/1‑69 (MQ=255)
aTCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAg < 1:3931030/71‑1 (MQ=255)
aTCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAg < 1:456724/71‑1 (MQ=255)
aTCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAg < 1:4136144/71‑1 (MQ=255)
aTCGTTCGCACCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGa < 1:1843789/64‑1 (MQ=255)
cGTTCGCACCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAgg > 1:1057479/1‑70 (MQ=255)
gTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAaca > 1:1657885/1‑36 (MQ=255)
gTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAGGc > 1:3607065/1‑70 (MQ=255)
ttCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAg < 1:2727985/67‑1 (MQ=255)
cgcgCCCCCGTGGTCGCTGGGGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAGGCAATc > 1:725821/1‑71 (MQ=255)
gcgcCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAGGCAATc < 1:4122207/70‑1 (MQ=255)
gcgcCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAGGCAATc < 1:1497945/70‑1 (MQ=255)
|
CCATGATAATGAACCGGATCGCCTGCATAGATGAGATCCTGCGTCCAGGCGGTCATCGTTCGCGCCCCCGTGGTCGCTGGCGAAGCAGAAACACGCTGCGTGGCGCTGCTGTCGGGGATGGTCAGGCAATC > minE/1456133‑1456263
|
| 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
