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 |
|
A16 F20 I40 R1
|
12 |
45.4 |
1473824 |
96.3% |
1419292 |
148.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP009273 |
3,960,789 |
C→G |
T338R (ACA→AGA) |
rho → |
transcription termination factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 3,960,789 | 0 | C | G | 97.9%
| 144.5
/ ‑5.2
| 47 | T338R (ACA→AGA) | rho | transcription termination factor |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base G (25/21); minor base T (0/1); total (25/22) |
| Fisher's exact test for biased strand distribution p-value = 4.68e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.75e-01 |
GCCAACGCCCTGCATCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTACAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCA > CP009273/3960647‑3960929
|
gCCAACGCCCTGCATCCTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCaa < 2:592948/149‑1 (MQ=255)
gcAACGCCCTGCGTCGGTCGGACCGCTTTGTTTGTTCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAACATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAAc < 2:601428/148‑1 (MQ=255)
cAACGCCCTGCATCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTCTCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTCTAAAGGTAGAGGAAACa > 2:364258/1‑149 (MQ=255)
aaCGCCCTGCATCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGCGGACGGCAGCATGACAATTAAAGCGACCGCCCTTATCGAGTCCGGGTTTAAGACGGGCGAGGGTATCTACGAAGGGCTTAAAGGTAGAGGCAACAt > 2:429762/1‑149 (MQ=255)
aaCGCCCTGCATCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTAGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACAt > 1:475445/1‑149 (MQ=255)
aCGCGCTGCAACGTCCGAAACGCTGCGTTGGTGCTGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATg < 1:623008/149‑1 (MQ=255)
ctcccTGCATCGTCCCAAACGCTTCTTTGGGGCGTCGCGTAACGTGTAAGAGGGCGGCAGCCTGACCATTATCGCGATGGCGCTTTTCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATgg < 2:689590/147‑1 (MQ=255)
cccTGCATCGTCCGAAACGCTTCTTTGGTGCGGCGCGGAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGaa < 2:552740/149‑1 (MQ=255)
cTGCATCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGGCGGCGCTTATCGATACCGGTTCTAAGATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACAGGGAACt > 1:64798/1‑149 (MQ=255)
cATCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCa < 1:127485/149‑1 (MQ=255)
aTCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCAc > 1:687904/1‑149 (MQ=255)
tCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGGTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAAGCAACATGGAACTGCAcc > 1:52908/1‑149 (MQ=255)
cGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAGGGTAGAGGCAACATGGAACTGCACctctct > 1:299754/1‑149 (MQ=255)
gAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTCTAAAGGTAGAGGCAACATGGAACTGCACCtctctc > 1:409648/1‑149 (MQ=255)
gggttcttTGGTGCGTCGCGGAACGGGGAAGAGGGCGGAAGCCTGACCAATATCGCAACAGCGATTATCGTTACCGGTAATATCCAGGACAGAGCAATCACCGCGGAGTTGAAAGGTATATGCAACATGGAACTGCACCTCTCTCGTaa < 2:147256/146‑1 (MQ=255)
ttcttTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGAt > 2:150139/1‑149 (MQ=255)
tcttTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAGGGTAGAGGCAACGTGGAACTGCGCCTCTCTCGTAAGATc > 2:236922/1‑149 (MQ=255)
cttTGGGGCGGCGCGTAACGGGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCg < 2:131452/149‑1 (MQ=255)
tGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTg > 2:209239/1‑149 (MQ=255)
cggcgCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAATAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGaaaaa < 2:462406/149‑1 (MQ=255)
gcgTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGACAAAcgcg > 1:677649/1‑149 (MQ=255)
gAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGAGACCGGTTCTAAAATGGACGAAGTTATCTACCACGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCCCTCGTAAGATCGCTGAAAAACGCAGCCTCCCGGc > 2:558875/1‑149 (MQ=255)
agagGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAACAGCGTCTTCCCGGCTa > 1:644493/1‑149 (MQ=255)
agGGCGGCAACCTATCCATAAGCGCAATGGCGCTTATCGATACCGGTTCGAAAAGGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATc < 1:470574/149‑1 (MQ=255)
ggcggcAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACCTGCATGCGCTCTTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGa > 1:422012/1‑149 (MQ=255)
cggcAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCGCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGAcg > 1:703716/1‑148 (MQ=255)
cgcAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTa < 2:311449/148‑1 (MQ=255)
cATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTg < 1:209239/149‑1 (MQ=255)
cgACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGt < 1:426711/149‑1 (MQ=255)
gcTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGCCTACAACCGTTCTGGGACCCGTAacgaag > 1:60604/1‑149 (MQ=255)
aTACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTc > 2:448278/1‑149 (MQ=255)
tACCGGTTCTAAAATGGACGAAGTTCTCCACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCa < 1:141261/149‑1 (MQ=255)
tACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTaaa < 1:125544/136‑1 (MQ=255)
tACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTaaa > 2:125544/1‑136 (MQ=255)
tACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGAAAGGAAAAGCTGCTCa > 1:93890/1‑149 (MQ=255)
caccgcgtCTAAAATGCACGAGGTTACCTACGAACAGTTTAAAGGGAGAGGCACCACGGAACCGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCTGTAAAGAAGAGCTGCTCa < 2:475445/142‑1 (MQ=255)
tAAAATGGCCCAAGTTCTCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTATACCACTCTTAAAGAAGAGCTGCTCACGACTCAgg < 2:159804/149‑1 (MQ=255)
gaaaaTGGACGAAGTTATCGACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAgg < 2:320469/148‑1 (MQ=255)
gACGAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACt < 1:643249/149‑1 (MQ=255)
gAAGTTATCTACGAAGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAACAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCa > 2:284105/1‑149 (MQ=255)
caTCTACGAAGGGTTTAAAGGTAGAGGGAACATGGAACTGCACCTCTCTCGTAAGATCGCTGTAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCATGACTCAGGAAGAACTGCAGaaaa < 2:505769/148‑1 (MQ=255)
aaGAGTTTAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATc < 2:46982/149‑1 (MQ=255)
tttAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTgcg > 2:472573/1‑149 (MQ=255)
tttAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTAAAGGACGCGTCGTCCCGGCTATCGACTACAACCGTTCTGGTACCCGGAAAGAAGAGCTGCTAACGAATCAGGGAGAACGGCAGAAGATGTGGATCCTgcg > 2:553795/1‑149 (MQ=255)
tttAAAGGTAGAGGCAACATGGAACTGCACCTCCCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTCCCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTgcg < 1:24626/149‑1 (MQ=255)
ttAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTgcca > 2:635187/1‑147 (MQ=255)
tAAAGGTAGAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTCATCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCa > 1:500091/1‑149 (MQ=255)
|
GCCAACGCCCTGCATCGTCCGAAACGCTTCTTTGGTGCGGCGCGTAACGTGGAAGAGGGCGGCAGCCTGACCATTATCGCGACGGCGCTTATCGATACCGGTTCTAAAATGGACGAAGTTATCTACGAAGAGTTTAAAGGTACAGGCAACATGGAACTGCACCTCTCTCGTAAGATCGCTGAAAAACGCGTCTTCCCGGCTATCGACTACAACCGTTCTGGTACCCGTAAAGAAGAGCTGCTCACGACTCAGGAAGAACTGCAGAAAATGTGGATCCTGCGCA > CP009273/3960647‑3960929
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
