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 |
1,365,663 |
C→T |
57.3% |
A213T (GCA→ACA) |
yohF ← |
predicted oxidoreductase with NAD(P)‑binding Rossmann‑fold domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,365,663 | 0 | C | T | 57.3%
| 19.2
/ 56.8
| 75 | A213T (GCA→ACA) | yohF | predicted oxidoreductase with NAD(P)‑binding Rossmann‑fold domain |
| Reads supporting (aligned to +/- strand): ref base C (24/8); new base T (28/15); total (52/23) |
| Fisher's exact test for biased strand distribution p-value = 4.51e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.47e-01 |
GAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATCCATGCC > minE/1365623‑1365726
|
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCTTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:1471097/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAAcgtc > 1:301062/1‑50 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTTGCAAGGGAATCGAAGGc > 1:331412/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAgg > 1:647112/1‑68 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:1752020/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2323380/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2472160/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2154892/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2962614/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:551474/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:422252/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2732158/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2902499/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:3096814/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:169701/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:850758/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2863770/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:1185278/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:1265902/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:1291156/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:660575/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:744984/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:1314389/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2853373/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:1428932/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:664550/1‑69 (MQ=255)
gAACAAAGCCATACCACCAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2830851/1‑69 (MQ=255)
gAACAAAGCCATACCACAAGGCTGGCAATCTCATGCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGc > 1:2226586/1‑69 (MQ=255)
cAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTcc > 1:496168/1‑69 (MQ=255)
cAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTcc > 1:404197/1‑69 (MQ=255)
caccaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCtt < 1:650568/69‑1 (MQ=255)
caccaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCtt < 1:522152/69‑1 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:2726649/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:581352/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:1025597/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:2237482/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:2195012/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:2087534/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:1843502/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:1776063/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:1765281/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:1559330/1‑44 (MQ=255)
accaGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAggg > 1:697191/1‑44 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCTGGCTTCACGTCGCTGTCATc > 1:2193881/1‑69 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCAt > 1:2694539/1‑68 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc < 1:2958009/69‑1 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc > 1:3433768/1‑69 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc < 1:3372547/69‑1 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc < 1:275974/69‑1 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc < 1:206069/69‑1 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc > 1:175267/1‑69 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc > 1:1131649/1‑69 (MQ=255)
ctcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc < 1:932974/69‑1 (MQ=255)
tcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATcc > 1:2313908/1‑69 (MQ=255)
tcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATcc > 1:914094/1‑69 (MQ=255)
tcATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATc < 1:1918656/68‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:2390474/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:3124065/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:1098010/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:110153/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:1299401/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:1304684/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:1314496/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:1431644/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:1781290/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:1907636/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:2000998/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:2157606/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:2487578/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:2514955/67‑1 (MQ=255)
gCGTTGTGCCAAAACGTCGCAAGGGAATCGAAGGCTCCGCGTCAGGCTTCACGTCGCCGccatccat < 1:3430756/67‑1 (MQ=255)
cGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATCCATGcc > 1:1756768/1‑69 (MQ=255)
cGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATCCATGcc > 1:162117/1‑69 (MQ=255)
cGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATCCATGcc > 1:735689/1‑69 (MQ=255)
cGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATCCATGcc > 1:88769/1‑69 (MQ=255)
|
GAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCGAAGGCTCCGCGTCGGGCTTCACGTCGCTGTCATCCATGCC > minE/1365623‑1365726
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
