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 |
940,401 |
G→A |
44.6% |
G124G (GGC→GGT) |
sfcA ← |
malate dehydrogenase, NAD‑requiring |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 940,401 | 0 | G | A | 44.6%
| 13.6
/ 49.9
| 65 | G124G (GGC→GGT) | sfcA | malate dehydrogenase, NAD‑requiring |
| Reads supporting (aligned to +/- strand): ref base G (10/26); new base A (19/10); total (29/36) |
| Fisher's exact test for biased strand distribution p-value = 2.97e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.60e-01 |
GTTCGGCACGTTTTGCAGAATATCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTGGGGTATAAATAA > minE/940341‑940468
|
gTTCGGCACGTTTTGCAGAATATCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTg < 1:2684202/68‑1 (MQ=255)
ttttGCAGAATATCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg < 1:1779543/69‑1 (MQ=255)
ttttGCAGAATATCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg < 1:297035/69‑1 (MQ=255)
ttttGCAGAATATCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg < 1:306775/69‑1 (MQ=255)
tttGCAGAATATCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg < 1:1122384/68‑1 (MQ=255)
tttGCAGAATATCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg < 1:3325951/68‑1 (MQ=255)
aaTATCGTCCATATTGTGCCGGTGCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg < 1:1371675/61‑1 (MQ=255)
atCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGaaa < 1:771632/68‑1 (MQ=255)
tCGTCCATATTGTGCCGGTTGTGGTAAGAGATAAACACGCCGCGTg < 1:1464977/46‑1 (MQ=255)
tCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGTCTCGTg < 1:5290/46‑1 (MQ=255)
tCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTg < 1:3136363/46‑1 (MQ=255)
tCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTg < 1:2663942/46‑1 (MQ=255)
tCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTg < 1:1950365/46‑1 (MQ=255)
tCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTg < 1:1885964/46‑1 (MQ=255)
tCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTg < 1:22132/46‑1 (MQ=255)
tCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGaaaaa > 1:2031424/1‑69 (MQ=255)
tCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCCTg < 1:764529/46‑1 (MQ=255)
gTCCATATTGTGCCGGTTCTGGTATGAGATAAACACGCCGCGTg < 1:2140125/44‑1 (MQ=255)
tatTGTGCCGGTTCTGGTAAGAGATAACCACGCCGCGTGAACGGCGGT‑‑ATCTCAGAAAAACGCTCACAg < 1:3348734/69‑1 (MQ=255)
tatTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTca < 1:2122315/68‑1 (MQ=255)
ttGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTg < 1:2902707/37‑1 (MQ=255)
ttGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg > 1:1033790/1‑48 (MQ=255)
ttGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg > 1:2322455/1‑48 (MQ=255)
ttGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg > 1:2366640/1‑48 (MQ=255)
ttGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg > 1:504910/1‑48 (MQ=255)
ttGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg > 1:1675100/1‑48 (MQ=255)
ttGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAg > 1:1610270/1‑48 (MQ=255)
ttCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCGGAAAAACGCTCACAGGCTGCGCCg < 1:1782487/69‑1 (MQ=255)
ttCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:378241/69‑1 (MQ=255)
ttCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:3377313/69‑1 (MQ=255)
ttCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:3297795/69‑1 (MQ=255)
ttCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:3272769/69‑1 (MQ=255)
ttCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:2928610/69‑1 (MQ=255)
ttCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:1578210/69‑1 (MQ=255)
tCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCt < 1:2138121/54‑1 (MQ=255)
tCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCt < 1:683760/54‑1 (MQ=255)
tCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCt < 1:1136567/54‑1 (MQ=255)
tCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCt < 1:3083983/54‑1 (MQ=255)
tCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:1323048/68‑1 (MQ=255)
tCTGGTAAGAGATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:2349789/68‑1 (MQ=255)
tGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGaaa < 1:2567149/46‑1 (MQ=255)
agagATAAACACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTgg > 1:1622742/1‑69 (MQ=255)
agagATAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCg < 1:1700107/61‑1 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:1021384/1‑69 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:2301314/1‑69 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:2300423/1‑69 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:440232/1‑69 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:1160123/1‑69 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:3225969/1‑69 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:3182210/1‑69 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:2489315/1‑69 (MQ=255)
gagaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:3040192/1‑69 (MQ=255)
agaTAAACACGCCGCGTGAACGGCGGTAGATCTCAGaaa < 1:1085631/39‑1 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:1867391/1‑67 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:540292/1‑67 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:607113/1‑67 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:2866682/1‑67 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:336988/1‑67 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:3349484/1‑67 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:136055/1‑67 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:1083420/1‑67 (MQ=255)
gaTAAACACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGATCACAGGCTGAGCCGACGGTTggg > 1:1534223/1‑67 (MQ=255)
gaTAAA‑ACACCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTggg > 1:1552546/1‑66 (MQ=255)
aaCACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTGGGGtata > 1:3091033/1‑68 (MQ=255)
aaCACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTGGGGtata > 1:280366/1‑68 (MQ=255)
cgccgcGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTGGGGTataaataa < 1:203366/69‑1 (MQ=255)
cgccgcGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTGGGGTataaataa < 1:892407/69‑1 (MQ=255)
|
GTTCGGCACGTTTTGCAGAATATCGTCCATATTGTGCCGGTTCTGGTAAGAGATAAACACGCCGCGTGAACGGCGGTAGATCTCAGAAAAACGCTCACAGGCTGCGCCGACGGTTGGGGTATAAATAA > minE/940341‑940468
|
| 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
