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 |
|
A5 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,036,407 |
A→G |
10.2% |
E72E (GAA→GAG) |
hyaD → |
protein involved in processing of HyaA and HyaB proteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,036,407 | 0 | A | G | 10.2%
| 94.8
/ 4.8
| 39 | E72E (GAA→GAG) | hyaD | protein involved in processing of HyaA and HyaB proteins |
| Reads supporting (aligned to +/- strand): ref base A (21/14); new base G (2/2); total (23/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.92e-01 |
AACTTGCTGGGGTATGTCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTATCTCAGCGCGAAGAAAATGAGCCTG > W3110S.gb/1036339‑1036476
|
aaCTTGCTGGGGTATGTCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGctggaacc > 1:434328/1‑71 (MQ=255)
cTGGGGTATGTCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGctggaacctggaa < 1:1685055/70‑1 (MQ=255)
gggTATGTCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGctggaacc > 1:1261979/1‑62 (MQ=255)
gggTATGTCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACg < 1:3233774/69‑1 (MQ=255)
tGTCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGaa > 1:2634630/1‑71 (MQ=255)
tCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGctggaacctgga > 1:1194811/1‑59 (MQ=255)
tCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTg > 1:3422021/1‑65 (MQ=255)
tCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAAcc < 1:1012444/71‑1 (MQ=255)
cGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAAcc > 1:3605299/1‑70 (MQ=255)
gAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTa > 1:982732/1‑71 (MQ=255)
aaaGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTAt > 1:3592295/1‑71 (MQ=255)
aaaGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTAt > 1:1655346/1‑71 (MQ=255)
aGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCt > 1:4167758/1‑59 (MQ=255)
aGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGc > 1:280878/1‑71 (MQ=255)
aGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGc > 1:374201/1‑71 (MQ=255)
ccagccaTCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAAc < 1:1974383/61‑1 (MQ=255)
ccagccaTCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCgg < 1:4006113/70‑1 (MQ=255)
cagccaTCTGTTGATTCTCGATTCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCgg < 1:953967/69‑1 (MQ=255)
cagccaTCTGTTGATTCTCGATGCCATTGACTACGGGctggaacctggaa > 1:2680078/1‑50 (MQ=255)
ccaTCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGGCGGAGaa < 1:1535797/70‑1 (MQ=255)
caTCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACg < 1:2181393/71‑1 (MQ=255)
tCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGc > 1:2188904/1‑47 (MQ=255)
tCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGgaga < 1:2531899/66‑1 (MQ=255)
tGTTGATTCTCGATGCCATTGACTACGGGCAGGAGCCTGGAACGCTGCGAACCTATGCCGGAGAACGCAtt > 1:138675/1‑71 (MQ=255)
ttGATTCTCGATGCCATTGACTACGGGctggaacctg < 1:3300689/37‑1 (MQ=255)
ttGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTc < 1:2460463/70‑1 (MQ=255)
tGATTCTCGATGCCATTGACTACGGGCTGGAGCCTGGAACGCTGCGa < 1:2560776/47‑1 (MQ=255)
gATTCTCGATGCCATTGACTACGGGCTGGAGCCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCgg > 1:3588389/1‑71 (MQ=255)
gATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGc > 1:3643230/1‑44 (MQ=255)
gATTCTAGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCgg > 1:551198/1‑71 (MQ=255)
aTTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCgg < 1:64369/70‑1 (MQ=255)
tcGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTAt > 1:2897923/1‑71 (MQ=255)
cGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTAtc > 1:3769536/1‑71 (MQ=255)
gATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGaa > 1:626867/1‑54 (MQ=255)
ccATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGga < 1:4127065/47‑1 (MQ=255)
ttGACTACGGGCTGGAACCTGGAACGCTGCGAAcc < 1:3802217/35‑1 (MQ=255)
ttGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGc > 1:1571634/1‑40 (MQ=255)
ttGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGc > 1:1010579/1‑40 (MQ=255)
ttGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCg > 1:3594000/1‑56 (MQ=255)
gACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTc > 1:611700/1‑52 (MQ=255)
aCTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTATCTCAGcgcg > 1:3952530/1‑68 (MQ=255)
cTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCt > 1:3729583/1‑55 (MQ=255)
cGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTATCTCAGCGCGAAGaaa < 1:2573922/70‑1 (MQ=255)
gggCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTATCTCAGCGCGAAGAAAAt < 1:297807/71‑1 (MQ=255)
gCTGGAGCCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTATCTCAGCGCGAAGAAAATGa < 1:1498940/71‑1 (MQ=255)
aacctggaacGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTATCTCAGCGCGAAGAAAATGAGCCTg < 1:2353348/71‑1 (MQ=255)
|
AACTTGCTGGGGTATGTCGAAAGCGCCAGCCATCTGTTGATTCTCGATGCCATTGACTACGGGCTGGAACCTGGAACGCTGCGAACCTATGCCGGAGAACGCATTCCGGCTTATCTCAGCGCGAAGAAAATGAGCCTG > W3110S.gb/1036339‑1036476
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
