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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,159,054 |
Δ1 bp |
coding (565/918 nt) |
oxyR → |
oxidative and nitrosative stress transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,159,051 | 0 | G | . | 98.0%
| 211.0
/ ‑2.2
| 51 | coding (562/918 nt) | oxyR | oxidative and nitrosative stress transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base . (27/23); total (28/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
GGTGAAAGAGAGCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCAGGGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCG > NC_000913/4158933‑4159185
|
ggTGAAAGAGAGCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTgg < 2:164277/139‑1 (MQ=255)
ggTGAAAGAGAGCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTgg > 2:499645/1‑139 (MQ=255)
aaaGAGAGCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGa < 1:157705/139‑1 (MQ=255)
agagagCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATg > 2:334513/1‑139 (MQ=255)
agCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCa < 1:620629/139‑1 (MQ=255)
gCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGa > 1:822536/1‑132 (MQ=255)
gCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGa < 2:822536/132‑1 (MQ=255)
gCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCAc > 1:1075492/1‑139 (MQ=255)
gCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCAc > 1:154747/1‑139 (MQ=255)
ttGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCAAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGAt < 2:679908/139‑1 (MQ=255)
gCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCaa < 2:973225/139‑1 (MQ=255)
ccGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTgg < 1:978264/108‑1 (MQ=255)
ccGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTgg > 2:978264/1‑108 (MQ=255)
ttgttTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATggg > 2:602884/1‑139 (MQ=255)
gCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCgggg < 1:602884/139‑1 (MQ=255)
cTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCAgggaaa < 1:1030855/69‑4 (MQ=255)
cTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCAGGGaaa > 2:1030855/1‑69 (MQ=255)
tatctatGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATg > 2:868401/1‑139 (MQ=255)
tctatGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTg > 2:530557/1‑94 (MQ=255)
tctatGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTg < 1:530557/94‑1 (MQ=255)
aGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGcgcg < 2:514890/91‑1 (MQ=255)
aGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGcgcg > 1:514890/1‑91 (MQ=255)
gATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATacaca > 2:143816/1‑139 (MQ=255)
aTCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAActgc < 1:387738/59‑1 (MQ=255)
aTCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAActgc > 2:387738/1‑59 (MQ=255)
tCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACt > 1:560976/1‑139 (MQ=255)
cACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCAggg > 1:819991/1‑48 (MQ=255)
cACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCAggg < 2:819991/48‑1 (MQ=255)
cACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACt > 1:489327/1‑138 (MQ=255)
cACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACt < 2:489327/138‑1 (MQ=255)
aCCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTgcg < 1:841198/84‑1 (MQ=255)
aCCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTgcg > 2:841198/1‑84 (MQ=255)
aCCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGAt < 1:32851/88‑1 (MQ=255)
aCCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGAt > 2:32851/1‑88 (MQ=255)
aCCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATTGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTc > 1:740545/1‑139 (MQ=255)
aCCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTc > 1:398605/1‑139 (MQ=255)
aCCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGCCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTc > 1:852858/1‑139 (MQ=255)
ccGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCcg > 1:837460/1‑139 (MQ=255)
aCCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCgggg < 2:398680/107‑1 (MQ=255)
aCCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCgggg > 1:398680/1‑107 (MQ=255)
aCCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGc > 2:294686/1‑139 (MQ=255)
aCCGCGAATGCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCAGGGCGGATGAAGATACACACTTCCGCGCGACCAGc > 1:648984/1‑139 (MQ=255)
gCGTACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAAct < 2:978966/139‑1 (MQ=255)
tACCGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTg < 2:398605/139‑1 (MQ=255)
ccGATGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTgcg < 2:837460/139‑1 (MQ=255)
aTGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCg > 2:87826/1‑87 (MQ=255)
aTGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCg < 1:87826/87‑1 (MQ=255)
tGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCggg > 1:1005138/1‑88 (MQ=255)
tGGCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCggg < 2:1005138/88‑1 (MQ=255)
ggCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTgg > 2:541403/1‑124 (MQ=255)
ggCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTgg < 1:541403/124‑1 (MQ=255)
ggCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACa > 2:598239/1‑139 (MQ=255)
ggCCGATCTGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACa < 1:334513/139‑1 (MQ=255)
tGGCA‑GGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTggcg < 2:154747/139‑1 (MQ=255)
|
GGTGAAAGAGAGCGAAGCATTCATTGAAGTGCCGTTGTTTGATGAGCCAATGTTGCTGGCTATCTATGAAGATCACCCGTGGGCGAACCGCGAATGCGTACCGATGGCCGATCTGGCAGGGGAAAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCG > NC_000913/4158933‑4159185
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
