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 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
429,850 |
T→C |
10.2% |
Y8H (TAT→CAT) |
yajD → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 429,850 | 0 | T | C | 10.2%
| 102.8
/ 4.7
| 39 | Y8H (TAT→CAT) | yajD | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (19/16); new base C (2/2); total (21/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCTTGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGTT > W3110S.gb/429782‑429919
|
tCTTGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCAt > 1:1279875/1‑71 (MQ=255)
cgcgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGa > 1:615350/1‑69 (MQ=255)
cgcgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGa < 1:3644221/69‑1 (MQ=255)
gcgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAg < 1:287686/71‑1 (MQ=255)
cgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGc < 1:1408397/71‑1 (MQ=255)
aCCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGc < 1:910744/70‑1 (MQ=255)
aCCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGc < 1:2775210/70‑1 (MQ=255)
cccTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTa > 1:208068/1‑71 (MQ=255)
cTAGATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGa < 1:2830779/60‑1 (MQ=255)
cTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGc > 1:1340125/1‑67 (MQ=255)
cTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATc < 1:685337/71‑1 (MQ=255)
aCATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTa > 1:186915/1‑46 (MQ=255)
cATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGAGCgg > 1:3582688/1‑52 (MQ=255)
cAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCAt > 1:432862/1‑71 (MQ=255)
aGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTAt > 1:3736451/1‑57 (MQ=255)
aGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCAtt < 1:2349259/71‑1 (MQ=255)
aCTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa < 1:2695387/70‑1 (MQ=255)
tttCATGGCTATCATCCCAAAAAACTATGCGCGGTTa > 1:431513/1‑37 (MQ=255)
tttCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATc > 1:2501066/1‑70 (MQ=255)
ttCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTa > 1:118638/1‑71 (MQ=255)
ggCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATc > 1:4367590/1‑64 (MQ=255)
gCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGt < 1:3796396/70‑1 (MQ=255)
gCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTg > 1:537231/1‑71 (MQ=255)
atcatcCCAAAAAACTATGCGCGGTTAGAAAGCGGc < 1:2301180/36‑1 (MQ=255)
atcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaaa > 1:2300896/1‑43 (MQ=255)
atcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaa > 1:730222/1‑52 (MQ=255)
tcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTg > 1:1777155/1‑70 (MQ=255)
ccAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCg < 1:1265398/70‑1 (MQ=255)
cAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAg > 1:497685/1‑42 (MQ=255)
cAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCg > 1:1156934/1‑69 (MQ=255)
aaaaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGt < 1:49880/70‑1 (MQ=255)
aaaaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCCATCCGTGGGTCTGCGGTc > 1:381118/1‑71 (MQ=255)
aaaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCg < 1:4382379/71‑1 (MQ=255)
aaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCt > 1:2526193/1‑71 (MQ=255)
aaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCt < 1:2493697/71‑1 (MQ=255)
aaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCg > 1:62687/1‑64 (MQ=255)
aaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTg < 1:2016122/71‑1 (MQ=255)
aCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGt < 1:3384799/71‑1 (MQ=255)
cTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGtt < 1:4534586/71‑1 (MQ=255)
|
TCTTGGGAAACTGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGCTGTT > W3110S.gb/429782‑429919
|
| 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
