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 |
1,824,257 |
T→C |
32.6% |
F29S (TTT→TCT) |
nadE → |
NAD synthetase, NH3/glutamine‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,824,257 | 0 | T | C | 32.6%
| 55.4
/ 42.8
| 49 | F29S (TTT→TCT) | nadE | NAD synthetase, NH3/glutamine‑dependent |
| Reads supporting (aligned to +/- strand): ref base T (17/16); new base C (5/11); total (22/27) |
| Fisher's exact test for biased strand distribution p-value = 2.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.24e-01 |
CAAATAATAAAGGCGCTGGGCGCAAAACCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAGCGGCGGTCAGGA > W3110S.gb/1824187‑1824326
|
caaATAATAAAGGCGCTGGGCGCAAAACCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGAttt < 1:3069693/71‑1 (MQ=255)
taaAGGCGCTGGGCGCAAAACCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGaaa < 1:1899240/71‑1 (MQ=255)
taaAGGCGCTGGGCGCAAAACCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGaaa < 1:2385446/71‑1 (MQ=255)
aaGGCGCTGGGCGCAAAACCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGAAAAg < 1:2941629/71‑1 (MQ=255)
aGGCGCTGGGCGCAAAACCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGc < 1:2667409/71‑1 (MQ=255)
gcgcTGGGCGCAAAACCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTa < 1:2196547/71‑1 (MQ=255)
aaaaCCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACtt < 1:258848/71‑1 (MQ=255)
aaaCCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACtt > 1:667235/1‑70 (MQ=255)
aaCCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTAt > 1:2188528/1‑71 (MQ=255)
aCCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTAt > 1:206878/1‑70 (MQ=255)
aCCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGCTACCTGCAAACTTATc > 1:1056423/1‑71 (MQ=255)
aCCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGCTACCTGCAAACTTATc < 1:4610065/71‑1 (MQ=255)
cGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGCTACCTGCAAACTTATCCg > 1:577994/1‑71 (MQ=255)
tAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCAtt > 1:727318/1‑70 (MQ=255)
tAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGCTAc > 1:3329101/1‑49 (MQ=255)
tGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGaa < 1:2341195/39‑1 (MQ=255)
tGCTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTa < 1:2122606/68‑1 (MQ=255)
cTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCaaa > 1:2984871/1‑51 (MQ=255)
cTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCa > 1:1361350/1‑71 (MQ=255)
cTGAAGAGGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAAt < 1:3320409/69‑1 (MQ=255)
gAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAg < 1:561753/38‑1 (MQ=255)
aaGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTAc > 1:694873/1‑41 (MQ=255)
agGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGCTACCTGCa < 1:1122691/43‑1 (MQ=255)
agGAAATTCGTCGTAGTGTCGATTCTCTGAAAAGCTACCTGCa < 1:896442/43‑1 (MQ=255)
gAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATc < 1:274291/62‑1 (MQ=255)
gAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGc > 1:2611925/1‑70 (MQ=255)
aaaTTCGTCGTAGTGTCGATTCTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTc > 1:2274889/1‑71 (MQ=255)
ttCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGtt > 1:611087/1‑49 (MQ=255)
ttCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGt < 1:256943/48‑1 (MQ=255)
gtcgtAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATc < 1:3328475/71‑1 (MQ=255)
gtAGTGTCGATTTTCTGAAAAGCTACCTGCGAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAgc > 1:2424171/1‑71 (MQ=255)
gtAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAgc > 1:117021/1‑71 (MQ=255)
gtAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAgc > 1:4278517/1‑71 (MQ=255)
gtAGTGTCGATTCTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAgc < 1:2752517/71‑1 (MQ=255)
gtgtCGATTTTCTGAAAAGCTACCTGCAAACTTATc < 1:2743159/36‑1 (MQ=255)
gtgtCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTa < 1:334592/45‑1 (MQ=255)
tttCGATTTTCTGAAAAGCTACCTCCAAACTTATCCGTTCa < 1:869447/39‑1 (MQ=38)
tgtCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCAc < 1:2530103/50‑1 (MQ=255)
tgtCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGAt < 1:2979472/63‑1 (MQ=255)
tgtCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAg < 1:4083911/66‑1 (MQ=255)
gtCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGtt < 1:695043/38‑1 (MQ=255)
tCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCa > 1:2301514/1‑39 (MQ=255)
tCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAAt > 1:2449044/1‑45 (MQ=255)
tCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTgg > 1:3535353/1‑51 (MQ=255)
tCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGAt < 1:3712394/61‑1 (MQ=255)
tCGATTCTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAGCGGCGGt > 1:4137774/1‑71 (MQ=255)
gATTTTCTGAAAATCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGa > 1:2174692/1‑58 (MQ=255)
gATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCggg < 1:3693432/57‑1 (MQ=255)
gATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAGCGGCGGt > 1:1341912/1‑69 (MQ=255)
gATTCTCTGAAAAGCTACCTGCAAACATATCCGTTCATTAAATCACTGGTGCTCGGGATCAGCGGCGGTc < 1:4354453/70‑1 (MQ=255)
ttttCTGAAAAGCTACCTGCAAACTTATCCGTTCATTaa < 1:3785552/39‑1 (MQ=255)
ttttCTGAAAAGCTACCTGCAAACTTATCCGTTCATTaa < 1:3409563/39‑1 (MQ=255)
ttttCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAgcggc < 1:2782074/64‑1 (MQ=255)
ttttCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAgcggc < 1:2186641/64‑1 (MQ=255)
tttCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCa > 1:1588235/1‑42 (MQ=255)
ttCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAGCGGCGGTCAGGa > 1:2694644/1‑70 (MQ=255)
|
CAAATAATAAAGGCGCTGGGCGCAAAACCGCAGATTAATGCTGAAGAGGAAATTCGTCGTAGTGTCGATTTTCTGAAAAGCTACCTGCAAACTTATCCGTTCATTAAATCACTGGTGCTCGGGATCAGCGGCGGTCAGGA > W3110S.gb/1824187‑1824326
|
| 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
