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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,106,393 |
T→C |
63.0% |
E200E (GAA→GAG) |
ydiP ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,106,393 | 0 | T | C | 63.0%
| 37.4
/ 35.3
| 62 | E200E (GAA→GAG) | ydiP | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base T (12/11); new base C (27/12); total (39/23) |
| Fisher's exact test for biased strand distribution p-value = 2.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.52e-01 |
ACGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAATTATTATTCAGATAGAAAAGAATATCTTTTATCAG > minE/1106327‑1106452
|
aCGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGtt > 1:1508647/1‑68 (MQ=255)
aCGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGtt > 1:2297967/1‑68 (MQ=255)
aCGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGtt > 1:2167171/1‑68 (MQ=255)
aCGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGtt > 1:1183106/1‑68 (MQ=255)
aCGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGt > 1:2135125/1‑67 (MQ=255)
aCGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGt > 1:2225232/1‑67 (MQ=255)
aCGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGt > 1:1262301/1‑67 (MQ=255)
ctctTTGGTAAGTTCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGt < 1:2566143/69‑1 (MQ=255)
ctctTTGGTAAATTCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGt < 1:3015321/69‑1 (MQ=255)
ctctTTGGTAAATTCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGt < 1:995735/69‑1 (MQ=255)
ctctTTGGTAAATTCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGt < 1:2890692/69‑1 (MQ=255)
ctctTTGGTAAATTCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGt < 1:175633/69‑1 (MQ=255)
ctctTTGGTAAATTCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGt < 1:2994561/69‑1 (MQ=255)
ctctTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGt > 1:3187407/1‑69 (MQ=255)
ttCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTcgc > 1:2575699/1‑68 (MQ=255)
ttCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTcgc > 1:1130043/1‑68 (MQ=255)
tCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGa < 1:1949635/69‑1 (MQ=255)
tCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGa < 1:997251/69‑1 (MQ=255)
tCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGa < 1:1160667/69‑1 (MQ=255)
tCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGa < 1:1190818/69‑1 (MQ=255)
tCATGGCAGATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGa < 1:854626/69‑1 (MQ=255)
gCAAATATAACTGACGCTTGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAatt < 1:2209756/69‑1 (MQ=255)
gCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAatt < 1:962640/69‑1 (MQ=255)
gCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAatt < 1:419639/69‑1 (MQ=255)
gCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAatt < 1:1377028/69‑1 (MQ=255)
gCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAatt < 1:3235771/69‑1 (MQ=255)
atatAACTGACGCTTGCACGAAATTTTTTCGATAACTGCTCTAAAGt < 1:1789762/47‑1 (MQ=255)
tataACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGAtt > 1:2333636/1‑50 (MQ=255)
tataACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAattatta > 1:1452256/1‑68 (MQ=255)
tataACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAattatta > 1:2072349/1‑68 (MQ=255)
tataACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAattatta > 1:670315/1‑68 (MQ=255)
tataACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAattatta > 1:2384549/1‑68 (MQ=255)
tataACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAattatta > 1:2460932/1‑68 (MQ=255)
tataACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAattatta > 1:1100436/1‑68 (MQ=255)
gACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAATTATTATTCAGAt > 1:1479240/1‑68 (MQ=255)
ggCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAATTATTATTCAGATAGAAAAg < 1:2924802/69‑1 (MQ=255)
ggCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAATTATTATTCAGATAGAAAAg > 1:2548172/1‑69 (MQ=255)
gCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAatt < 1:2713888/50‑1 (MQ=255)
aCGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCTATAATTATTATTCAGATAGAAAAGAat < 1:2178334/69‑1 (MQ=255)
aCGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAATTATTATTCAGATAGAAAAGAat < 1:2552538/69‑1 (MQ=255)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:3430624/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:3292492/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:3433844/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:3198622/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:453095/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:3165004/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:786233/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:791446/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2479274/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2207677/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:1129167/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:1164573/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:1449660/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:1516426/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:1554698/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:1892164/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2965619/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2233833/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2258073/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2623292/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2639995/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2642030/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2686879/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2710343/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2712280/1‑40 (MQ=39)
aTTTTTTCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:2794380/1‑40 (MQ=39)
aTTTTTGCGATAACTGCTCTAAAGTGATTTTTTCGCGATagt > 1:436085/1‑40 (MQ=255)
gATAACTGTTCTAAAGTGATTTTTTCGCGATAATTATTATTCAGATAGAAAAGAATATCTTTTATCAg < 1:2186830/68‑1 (MQ=255)
gATAACTGTTCTAAAGTGATTTTTTCGCGATAATTATTATTCAGATAGAAAAGAATATCTTTTATCAg < 1:2036556/68‑1 (MQ=255)
|
ACGATACTCTTTGGTAAATTCATGGCAAATATAACTGACGCTGGCACGAAATTTTTTCGATAACTGTTCTAAAGTGATTTTTTCGCGATAATTATTATTCAGATAGAAAAGAATATCTTTTATCAG > minE/1106327‑1106452
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
