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 |
1,582,830 |
G→C |
40.9% |
T135T (ACC→ACG) |
ligA ← |
DNA ligase, NAD(+)‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,582,830 | 0 | G | C | 40.9%
| 31.8
/ 64.5
| 66 | T135T (ACC→ACG) | ligA | DNA ligase, NAD(+)‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (27/12); new base C (15/12); total (42/24) |
| Fisher's exact test for biased strand distribution p-value = 3.04e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.51e-01 |
ATGGCGCGAATAGTACGCACATTAGACGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCATCCAGC > minE/1582771‑1582890
|
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:66529/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:64265/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:638846/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:2176737/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:216592/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:2152940/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:1980104/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:3426917/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:1912434/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:3151415/69‑1 (MQ=255)
aTGGCGCGAATAGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:1672/69‑1 (MQ=255)
gcgcGAATAGTACGCACATTAGACGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTg < 1:2351466/69‑1 (MQ=255)
gcgcGAATAGTACGCACATTAGACGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTg < 1:1784621/69‑1 (MQ=255)
gcgcGAATAGTACGCACATTAGACGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTg < 1:1501187/69‑1 (MQ=255)
gcgcGAATAGTACGCACATTAGACGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTg < 1:1254119/69‑1 (MQ=255)
gcgcGAATAGTACGCACATTAGACGTGATATCTTCCCCGGTGGTGACATCGCCACGGGTCGCGGCACTg < 1:464270/69‑1 (MQ=255)
aGTACGCACATTAGACGTAATATCTTCCCCGGTGGTGCCATCGCCACGCGTCGCGGCa < 1:2837770/58‑1 (MQ=255)
aTTAGACGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTg < 1:1181614/52‑1 (MQ=255)
cGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg < 1:245243/69‑1 (MQ=255)
cGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg < 1:2920908/69‑1 (MQ=255)
atatCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATa > 1:2666041/1‑69 (MQ=255)
atatCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATa > 1:1431924/1‑69 (MQ=255)
atatCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATa > 1:2321115/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTGAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2052309/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTg > 1:2505117/1‑57 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCaa > 1:3361556/1‑64 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2428719/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:1025868/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2745757/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:3065531/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:3194908/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:3201362/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:3286332/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:3430094/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2427106/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:1724333/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:100997/1‑69 (MQ=255)
gtgCCATCGCCACGCGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2222910/1‑69 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATGCAGAATACTGACGGCAAGACCa > 1:1523961/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg < 1:1599731/48‑1 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg > 1:1772664/1‑48 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg > 1:3361236/1‑48 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg < 1:1383878/48‑1 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg < 1:1327514/48‑1 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg < 1:682526/48‑1 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAg > 1:2377276/1‑48 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:1174080/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:3326762/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:3314203/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:851031/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:963683/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:1654210/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:3160478/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:1990330/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2831245/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2818043/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2568902/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2491374/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCa > 1:2398192/1‑67 (MQ=255)
gCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGAACa > 1:1079094/1‑67 (MQ=255)
gCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCATCCAGc > 1:1751583/1‑67 (MQ=255)
gCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCATCCAGc > 1:1304398/1‑67 (MQ=255)
gCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCATCCAGc > 1:2737679/1‑67 (MQ=255)
gCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCATCCAGc > 1:107048/1‑67 (MQ=255)
gCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCATCCAGc > 1:2340336/1‑67 (MQ=255)
gCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCATCCAGc > 1:674260/1‑67 (MQ=255)
|
ATGGCGCGAATAGTACGCACATTAGACGTGATATCTTCCCCGGTGGTGCCATCGCCACGGGTCGCGGCACTGACTAAAACGCCATTTTCATACAGAATACTGACGGCAAGACCATCCAGC > minE/1582771‑1582890
|
| 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
