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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,952,864 |
G→A |
9.3% |
intergenic (‑173/+95) |
leuQ ← / ← rsmC |
tRNA‑Leu/16S RNA m2G1207 methylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,952,864 | 0 | G | A | 9.3%
| 121.4
/ 2.2
| 43 | intergenic (‑173/+95) | leuQ/rsmC | tRNA‑Leu/16S RNA m2G1207 methylase |
| Reads supporting (aligned to +/- strand): ref base G (19/20); new base A (2/2); total (21/22) |
| 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 |
AAATGTCCATCAGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCGTTCACGCCGCA > minE/2952795‑2952933
|
aaaTGTCCATCAGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGgc < 1:3931403/71‑1 (MQ=255)
aaaTGTCCATCAGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGgc > 1:1764167/1‑71 (MQ=255)
cATCAGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCtt < 1:3172218/71‑1 (MQ=255)
aTCAGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTa > 1:3616736/1‑71 (MQ=255)
aTCAGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTa > 1:1612340/1‑71 (MQ=255)
cAGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGTGGCAGATGCCAGATGCGACGCTGGCGCGTCTTAt > 1:4035718/1‑70 (MQ=255)
aGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCt < 1:1496207/71‑1 (MQ=255)
gAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTgg > 1:5601990/1‑71 (MQ=255)
aaaCTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGc > 1:2654080/1‑71 (MQ=255)
aaCTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGcc > 1:3093730/1‑71 (MQ=255)
gCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACg > 1:824589/1‑70 (MQ=255)
gCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACg < 1:1793427/70‑1 (MQ=255)
cGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACg > 1:4445936/1‑69 (MQ=255)
aGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCt < 1:1797335/71‑1 (MQ=255)
aGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCt < 1:1054707/71‑1 (MQ=255)
ggTTTGGTATGCATGCGGTGGCAGATGCCAGATGCGACGCTGGCGCGTCt < 1:5191639/50‑1 (MQ=255)
tgcatgcGGTGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAg < 1:5685050/70‑1 (MQ=255)
tgcatgcGGGGGCGGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAgg > 1:80829/1‑71 (MQ=255)
tgcatgcGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAgg > 1:593047/1‑71 (MQ=255)
tgcatgcGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAgg > 1:4770255/1‑71 (MQ=255)
catgcGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCt > 1:4773053/1‑39 (MQ=255)
catgcGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGtt > 1:1131947/1‑71 (MQ=255)
catgcGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGta > 1:1015345/1‑70 (MQ=255)
cGGGGTCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTg < 1:3284808/70‑1 (MQ=255)
cGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTg < 1:1742415/70‑1 (MQ=255)
cGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGt < 1:4345284/71‑1 (MQ=255)
gggCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGt < 1:3067244/68‑1 (MQ=255)
ttatgccagatgcGACGCTGACGCGTCTTATCTGGCCTACAAAGGGCTAACGTGCAGGttt < 1:3389087/59‑1 (MQ=18)
agatgccagatgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCg > 1:211415/1‑70 (MQ=255)
gatgccagatgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGa < 1:4228620/71‑1 (MQ=255)
atgccagatgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGa > 1:5637732/1‑70 (MQ=255)
atgccagatgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGAt < 1:5553128/71‑1 (MQ=255)
gccagatgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGAt > 1:1271032/1‑69 (MQ=255)
ccagatgcGACGCTGACGCGTCTTATCTGGCCTACAAAGGGCTAACGTGCAGGt > 1:5415070/1‑54 (MQ=18)
ccagatgcGACGCTGACGCGTCTTATCTGGCCTACAAAGGGCTAACGTGCAGGt > 1:4547068/1‑54 (MQ=18)
agatgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTg < 1:1369373/56‑1 (MQ=255)
agatgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTg < 1:1362622/56‑1 (MQ=255)
gatgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCg < 1:1307967/71‑1 (MQ=255)
atgcGACGCTGACGCGTCTTATCTGGCCTACAAAGGGCTAACGTGCAgg < 1:3086673/49‑1 (MQ=18)
tgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCGtt < 1:1007146/71‑1 (MQ=255)
tgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCGtt < 1:5002663/71‑1 (MQ=255)
tgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCGtt > 1:1321382/1‑71 (MQ=255)
tgcGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCGt > 1:4442983/1‑70 (MQ=255)
cGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGtt < 1:3756413/48‑1 (MQ=255)
cGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCGTTc < 1:2463774/70‑1 (MQ=255)
gcgcGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAgg < 1:5446323/47‑1 (MQ=255)
gcgcGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATa < 1:4034977/54‑1 (MQ=255)
gcgcGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATa < 1:3914212/54‑1 (MQ=255)
gcgcGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATa < 1:3854165/54‑1 (MQ=255)
gcgcGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCGTTCACGCCGCa < 1:1038300/70‑1 (MQ=255)
|
AAATGTCCATCAGGAAACTAGCGTGCAGGTTTGGTATGCATGCGGGGGCAGATGCCAGATGCGACGCTGGCGCGTCTTATCTGGCCTACGAAGGGCTAACGTGCAGGTTTTGTAGGTCGGATAAGGCGTTCACGCCGCA > minE/2952795‑2952933
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
