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 I2 R1
|
97 |
53.3 |
2484976 |
94.5% |
2348302 |
111.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,763,869 |
(T)7→8 |
coding (1285/1617 nt) |
yfjL ← |
CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,763,862 | 1 | . | T | 96.6%
| 195.6
/ ‑0.8
| 59 | coding (1292/1617 nt) | yfjL | CP4‑57 putative defective prophage, DUF4297/DUF1837 polymorphic toxin family protein |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base T (29/28); total (30/29) |
| 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 |
ATTAGAGTCGTAGCCCACGAACAGAACAAACGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGA‑TTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCAAAGCTGATCACCTT > NC_000913/2763735‑2763991
|
aTTAGAGTCGTAGCCCACGAACAGAACAAACGTTAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGA‑ttttt‑t‑ttgcg < 2:113746/139‑5 (MQ=255)
aTTAGAGTCGTAGCCCACGAACAGAACAAACGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGA‑ttttt‑t‑ttgcg < 1:353207/139‑5 (MQ=255)
tAGAGTCGTAGCCCACGAACAGAACAAACGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑Tgcgcg > 1:984868/1‑139 (MQ=255)
tAGAGTCGTAGCCCACGAACAGAACAAACGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑Tgcgcg < 2:771482/139‑1 (MQ=255)
tCGTAGCCCACGAACAGAACAAACGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTa > 2:873867/1‑139 (MQ=255)
gTAGCCCACGAACAGAACAAACGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATc > 2:139598/1‑139 (MQ=255)
aaaCGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTc < 1:873867/139‑1 (MQ=255)
aaaCGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGA‑TTTTTGT‑TGCGCGCGGTATCGATGCAATCCGAAATGTc < 1:536582/139‑1 (MQ=255)
aaCGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTcc < 2:984868/139‑1 (MQ=255)
aaCGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTcc < 1:261117/139‑1 (MQ=255)
aTCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTg > 2:1112539/1‑139 (MQ=255)
cGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGAt < 1:139598/139‑1 (MQ=255)
cGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGA‑TTTTT‑TGTGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGAt > 2:404035/1‑139 (MQ=255)
gCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGt > 2:855865/1‑122 (MQ=255)
gCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGt < 1:855865/122‑1 (MQ=255)
cATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTAtct > 1:415742/1‑139 (MQ=255)
cATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTAtct > 1:773189/1‑139 (MQ=255)
cATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATCCAATCCGAAATGTCCTCGTACAACTGATCCCGTAtct > 2:789664/1‑139 (MQ=255)
cGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCg > 1:1101389/1‑139 (MQ=255)
gAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCgg > 2:565210/1‑139 (MQ=255)
aaaGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑Tgcgcg < 2:463909/86‑1 (MQ=255)
aaaGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑Tgcgcg > 1:463909/1‑86 (MQ=255)
gCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGc < 1:999133/139‑1 (MQ=255)
ccATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCa < 2:1127600/139‑1 (MQ=255)
ccATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCa < 1:1189229/139‑1 (MQ=255)
ccATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCa < 2:1226558/139‑1 (MQ=255)
aTCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTc < 2:235588/97‑1 (MQ=255)
aTCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTc > 1:235588/1‑97 (MQ=255)
aTCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCATATCTCCGGCAATCTGACGGCAAt > 2:593014/1‑139 (MQ=255)
tCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGa < 2:569146/122‑1 (MQ=255)
tCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGa > 1:569146/1‑122 (MQ=255)
tCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTc > 1:69849/1‑139 (MQ=255)
aTGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑Tgcgcg < 2:1002633/56‑1 (MQ=255)
aTGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑Tgcgcg > 1:1002633/1‑56 (MQ=255)
tGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCa > 1:182518/1‑139 (MQ=255)
tGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCg < 2:1199123/68‑1 (MQ=255)
tGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCg > 1:1199123/1‑68 (MQ=255)
aaGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGa < 2:674561/54‑1 (MQ=255)
aaGCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGa > 1:674561/1‑54 (MQ=255)
gCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGc < 2:1101389/139‑1 (MQ=255)
gCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGc < 2:773189/139‑1 (MQ=255)
gCAGGTAGTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGc < 1:404035/139‑1 (MQ=255)
gTTATCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCa < 2:415742/139‑1 (MQ=255)
tCGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCATATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCAAAGc < 1:593014/139‑1 (MQ=255)
cGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAAt < 2:316215/46‑1 (MQ=255)
cGTCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAAt > 1:316215/1‑46 (MQ=255)
tCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCaa < 2:373239/133‑1 (MQ=255)
tCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCaa > 1:373239/1‑133 (MQ=255)
tCTTTAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCAAAGCTGa > 2:57956/1‑139 (MQ=255)
tttAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCa < 2:170831/92‑1 (MQ=255)
tttAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCa > 1:170831/1‑92 (MQ=255)
tttAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCAAAGCTGATc < 1:57956/139‑1 (MQ=255)
tttAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCAAAGCTGATc > 2:1140875/1‑139 (MQ=255)
ttAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACgg > 1:120318/1‑89 (MQ=255)
ttAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACgg < 2:120318/89‑1 (MQ=255)
tAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTcc > 1:540659/1‑51 (MQ=255)
tAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTcc < 2:540659/51‑1 (MQ=39)
tAATGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCAAAGCTGATCAc > 1:117253/1‑139 (MQ=255)
tGTCGAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCAAAGCTGATCACCtt > 2:1232166/1‑139 (MQ=255)
gAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCa > 1:1041152/1‑83 (MQ=255)
gAGGATTTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCa < 2:1041152/83‑1 (MQ=255)
|
ATTAGAGTCGTAGCCCACGAACAGAACAAACGTGAAACGATCGAGGTGAGCATCGAAAGGTTGGCTGCCATCAAGAATTTCGTCAATGTCGTGGCGAAGCAGGTAGTTATCGTCTTTAATGTCGAGGA‑TTTTT‑T‑TGCGCGCGGTATCGATGCAATCCGAAATGTCCTCGTACAACTGATCCCGTATCTCCGGCAATCTGACGGCAATGTTAATATCAGTCACCAACTCGCTGAAGCCAATCCAAAGCTGATCACCTT > NC_000913/2763735‑2763991
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
