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 |
1,916,684 |
T→C |
34.8% |
intergenic (‑670/‑15) |
nudH ← / → mutH |
nucleotide hydrolase/methyl‑directed mismatch repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,916,684 | 0 | T | C | 34.8%
| 57.3
/ 49.7
| 86 | intergenic (‑670/‑15) | nudH/mutH | nucleotide hydrolase/methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base T (48/8); new base C (10/20); total (58/28) |
| Fisher's exact test for biased strand distribution p-value = 1.59e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAACAACGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTGAAGAACA > minE/1916619‑1916745
|
gAACAACGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCaa > 1:3141162/1‑69 (MQ=255)
gAACAACGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCaa > 1:3177256/1‑69 (MQ=255)
gAACAACGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCaa > 1:2151195/1‑69 (MQ=255)
acGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTAt > 1:2908822/1‑69 (MQ=255)
acGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTAt > 1:2346379/1‑69 (MQ=255)
acGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTAt > 1:803924/1‑69 (MQ=255)
acGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTAt > 1:3301992/1‑69 (MQ=255)
acGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTAt > 1:1341945/1‑69 (MQ=255)
tgtgGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGa < 1:474802/69‑1 (MQ=255)
tgGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACa > 1:92395/1‑69 (MQ=255)
tgGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACa > 1:101285/1‑69 (MQ=255)
tgGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACa > 1:2445237/1‑69 (MQ=255)
tgGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACa > 1:2433666/1‑69 (MQ=255)
tgGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACa > 1:2101336/1‑69 (MQ=255)
tgGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACa > 1:3418467/1‑69 (MQ=255)
tgGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACa > 1:1330235/1‑69 (MQ=255)
aaGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTccc < 1:2603994/69‑1 (MQ=255)
ttCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGctc > 1:37389/1‑69 (MQ=255)
ttCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGctc > 1:631529/1‑69 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGt > 1:1592006/1‑40 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:1418056/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:1127522/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:860819/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:2985867/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:2214855/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:2163831/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:1292838/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:1297283/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:1690955/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:460846/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtcctcc > 1:1503157/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCtccacc > 1:2723886/1‑68 (MQ=255)
tAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCCCCCACTGCTCTCtcctcc > 1:881156/1‑68 (MQ=255)
aTTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTccc > 1:667774/1‑67 (MQ=255)
aTTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGa > 1:1210185/1‑69 (MQ=255)
aTTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGa > 1:2768986/1‑69 (MQ=255)
aTTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGa > 1:2548065/1‑69 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:2730219/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:2880963/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:3010641/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:3128750/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:3138081/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:3152564/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:605753/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:437791/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:43882/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:2624804/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:1241095/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:1304840/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:131458/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:1334172/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:134028/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:2104235/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:216172/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:2613348/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:2530109/52‑1 (MQ=255)
aTTGCTGTTTGTTTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCa < 1:2815240/52‑1 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:2380709/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:910714/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:22995/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:3171726/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:1192827/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:301289/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:855861/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:1584090/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:1569370/1‑67 (MQ=255)
tgtttgttTTTTAACCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAAc > 1:3007337/1‑67 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCACCCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:1232807/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGTCCACTGCTCTCTCCTCCCGAAACTgaag > 1:300075/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAATCTgaag > 1:592373/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:809776/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:1044380/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:61939/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:532003/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:605133/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:512358/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:31049/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:230377/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTgaag > 1:2356256/1‑68 (MQ=255)
tgtttTTTAATCAAGGTATCATGACATGTCCCAACCTCGACCACTGCTCTCTCCTCCCGAAACTgaag > 1:1101590/1‑68 (MQ=255)
ttttAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTGAAGAACa < 1:548213/68‑1 (MQ=255)
ttttAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTGAAGAACa < 1:494823/68‑1 (MQ=255)
ttttAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTGAAGAACa < 1:723439/68‑1 (MQ=255)
ttttAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTGAAGAACa < 1:15684/68‑1 (MQ=255)
ttttAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTGAAGAACa < 1:1801303/68‑1 (MQ=255)
ttttAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTGAAGAACa < 1:3360916/68‑1 (MQ=255)
|
GAACAACGCATGTGGAAAAAGTTACACTGCGAATATTCGGCACATAATTGCTGTTTGTTTTTTAATCAAGGTATCATGACATGTCCCAACCTCGCCCACTGCTCTCTCCTCCCGAAACTGAAGAACA > minE/1916619‑1916745
|
| 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
