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 |
|
A11 F1 I1 R1
|
757 |
76.1 |
3598070 |
93.4% |
3360597 |
108.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,850,810 |
(C)5→4 |
intergenic (+117/‑50) |
sppA → / → ansA |
protease IV (signal peptide peptidase)/cytoplasmic L‑asparaginase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,850,806 | 0 | C | . | 98.4%
| 252.5
/ ‑2.5
| 63 | intergenic (+113/‑54) | sppA/ansA | protease IV (signal peptide peptidase)/cytoplasmic L‑asparaginase 1 |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base . (30/32); total (30/33) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.15e-01 |
TGCGCCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGA > NC_000913/1850676‑1850899
|
tGCGCCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt < 2:1667657/139‑1 (MQ=255)
tGCGCCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt < 2:1193625/139‑1 (MQ=255)
gcCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCAc < 1:1323913/139‑1 (MQ=255)
aCATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGtat > 2:1631700/1‑139 (MQ=255)
gTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGct < 1:1589393/139‑1 (MQ=255)
tACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCttt < 1:376764/137‑1 (MQ=255)
tACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCttt > 2:376764/1‑137 (MQ=255)
tGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGata < 1:1435475/139‑1 (MQ=255)
aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑cccctgc < 2:765073/108‑4 (MQ=255)
aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑cccctgc > 1:765073/1‑105 (MQ=255)
aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCAc < 2:1064292/113‑1 (MQ=255)
aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCAc > 1:1064292/1‑113 (MQ=255)
aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtc > 1:947611/1‑139 (MQ=255)
aGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtc > 2:50041/1‑139 (MQ=255)
ggCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt < 2:947611/139‑1 (MQ=255)
ccGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCTCCCCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt < 1:360681/139‑1 (MQ=255)
aCAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCatat < 1:50041/139‑1 (MQ=255)
aTCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGctc > 2:1093258/1‑117 (MQ=255)
aTCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGctc < 1:1093258/117‑1 (MQ=255)
ggCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATg < 1:1631700/139‑1 (MQ=255)
acaTTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCaaa > 1:228486/1‑139 (MQ=255)
caTTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCg > 2:752345/1‑111 (MQ=255)
caTTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCg < 1:752345/111‑1 (MQ=255)
tACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt > 2:1675212/1‑77 (MQ=255)
tACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt < 1:1675212/77‑1 (MQ=255)
aCGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt < 2:929279/76‑1 (MQ=255)
aCGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt > 1:929279/1‑76 (MQ=255)
gTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt > 2:376870/1‑106 (MQ=255)
gTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt < 1:376870/106‑1 (MQ=255)
cgacgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt < 1:198265/72‑1 (MQ=255)
cgacgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt > 2:198265/1‑72 (MQ=255)
cgacgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGta > 1:1473393/1‑78 (MQ=255)
cgacgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGta < 2:1473393/78‑1 (MQ=255)
cgacgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt > 2:426471/1‑104 (MQ=255)
cgacgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt < 1:426471/104‑1 (MQ=255)
acgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTg > 1:158734/1‑139 (MQ=255)
cgaATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGc < 2:158734/139‑1 (MQ=255)
tctTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt > 2:323389/1‑94 (MQ=255)
tctTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt < 1:323389/94‑1 (MQ=255)
ttCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACAcggg > 1:1001691/1‑139 (MQ=255)
gCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt > 2:555781/1‑55 (MQ=255)
gCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt < 1:555781/55‑1 (MQ=255)
gCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGa > 1:243902/1‑139 (MQ=255)
gCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTAACGTTGCCTACAcgggcg > 2:1055239/1‑136 (MQ=255)
gCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAAGTTACGTTGCCTACAcgggcg < 1:1055239/136‑1 (MQ=255)
tGTTTCGCCCCATATTTCCTTATCCTCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGct < 2:1725026/71‑1 (MQ=255)
tGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGct > 1:1725026/1‑71 (MQ=255)
gTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt < 1:1002654/52‑1 (MQ=255)
gTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCt > 2:1002654/1‑52 (MQ=255)
aTCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACg > 2:971588/1‑98 (MQ=255)
aTCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACg < 1:971588/98‑1 (MQ=255)
tCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGtata > 2:332056/1‑39 (MQ=255)
tCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGtata < 1:332056/39‑1 (MQ=255)
tCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACg > 2:1768656/1‑97 (MQ=255)
tCCGCATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACg < 1:1768656/97‑1 (MQ=255)
cATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcattca < 2:153958/61‑1 (MQ=255)
cATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcattca > 1:153958/1‑61 (MQ=255)
cATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt > 2:1177220/1‑59 (MQ=255)
cATAGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt < 1:1177220/59‑1 (MQ=255)
aGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt > 1:1594418/1‑56 (MQ=255)
aGTATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATAtcatt < 2:1594418/56‑1 (MQ=255)
tATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTaca < 2:1053073/97‑1 (MQ=255)
tATCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTaca > 1:1053073/1‑97 (MQ=255)
tCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACg > 1:778651/1‑86 (MQ=255)
tCAGGTGCGCT‑‑CCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACg < 2:778651/86‑1 (MQ=255)
|
TGCGCCAACATGCGTTAAGTCTTGTACTGAGTGGCCGACAGATCGTCGGCCACATTATTTTTTACGTCGACGAATCCTCTTCCCGCTGTTTCGCCCCATATTTCCTTATCCGCATAGTATCAGGTGCGCT‑CCCCCTGCCTCACGTATATACTTTTGCTCTTTCGATATCATTCATATCAATATCATGCAAAAGAAATCAATTTACGTTGCCTACACGGGCGGGA > NC_000913/1850676‑1850899
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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
