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 |
1,146,056 |
G→C |
23.8% |
P46A (CCG→GCG) |
chbF ← |
cryptic phospho‑beta‑glucosidase, NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,146,056 | 0 | G | C | 23.8%
| 101.3
/ 28.0
| 63 | P46A (CCG→GCG) | chbF | cryptic phospho‑beta‑glucosidase, NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base G (28/20); new base C (8/7); total (36/27) |
| Fisher's exact test for biased strand distribution p-value = 7.72e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.61e-01 |
AAGCTTCATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTTAATAA > minE/1145988‑1146121
|
aaGCTTCATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCgg < 1:2755424/69‑1 (MQ=255)
aaGCTTCATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCgg < 1:1382758/69‑1 (MQ=255)
aaGCTTCATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCgg < 1:559046/69‑1 (MQ=255)
aaGCTTCATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCgg < 1:1554428/69‑1 (MQ=255)
tCATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTac < 1:2284515/69‑1 (MQ=255)
tCATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTac < 1:3254858/69‑1 (MQ=255)
cATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTac < 1:1269294/68‑1 (MQ=255)
tCGGGACGCCATCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTacc < 1:2534330/67‑1 (MQ=255)
tCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTacc < 1:874969/67‑1 (MQ=255)
tCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTacc < 1:2180966/67‑1 (MQ=255)
tCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTacc < 1:2849793/67‑1 (MQ=255)
tCGGGACGCCAGCGTTATCAATCATCCGTTAGCAGAGATCGAAAATAATATCCAGTTTCGGTTTacc < 1:2356756/67‑1 (MQ=255)
cGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTaccac < 1:1120217/68‑1 (MQ=255)
cGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTaccac < 1:3247617/68‑1 (MQ=255)
cGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTaccac < 1:3435157/68‑1 (MQ=255)
aCGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCgg < 1:2015365/56‑1 (MQ=255)
atcaatcaTCCGTTGGCAGAGATCAAAAATAATATCCAGTTTCGCtt > 1:1343573/1‑47 (MQ=39)
atcaatcaTCCGTTGGCAGAGATCAAAAATAATATCCAGTTTCGCtt > 1:2796999/1‑47 (MQ=39)
atcaatcaTCCGTTGGCAGAGATCAAAAATAATATCCAGTTTCGCtt > 1:1339803/1‑47 (MQ=39)
atcaatcaTCCGTTGGCAGAGATCAAAAATAATATCCAGTTTCGCtt > 1:2539531/1‑47 (MQ=39)
atcaatcaTCCGTTGGCAGAGATCAAAAATAATATCCAGTTTCGCtt > 1:1271958/1‑47 (MQ=39)
atcaatcaTCCGTTGGCAGAGATCAAAAATAATATCCAGTTTCGCtt > 1:2138626/1‑47 (MQ=39)
atcaatcaTCCGTTGGCAGAGATCAAAAATAATATCCAGTTTCGCtt > 1:1178160/1‑47 (MQ=39)
atcaatcaTCCGTTGGCAGAGATCAAAAATAATATCCAGTTTCGCtt > 1:2258682/1‑47 (MQ=39)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGt > 1:2301189/1‑39 (MQ=255)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATcc > 1:3101218/1‑57 (MQ=255)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATcc > 1:2379098/1‑57 (MQ=255)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATcc > 1:691004/1‑57 (MQ=255)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATcc > 1:2519206/1‑57 (MQ=255)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATcc > 1:1779274/1‑57 (MQ=255)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATcc > 1:1918672/1‑57 (MQ=255)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATcc > 1:1414541/1‑57 (MQ=255)
atcCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATc > 1:1935402/1‑56 (MQ=255)
gaTCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:1210714/69‑1 (MQ=255)
gaTCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:2287865/69‑1 (MQ=255)
gaTCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:2968027/69‑1 (MQ=255)
gaTCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:2949591/69‑1 (MQ=255)
gaTCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:367670/69‑1 (MQ=255)
gaTCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:1132533/69‑1 (MQ=255)
gaTCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:2398913/69‑1 (MQ=255)
gaTCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:994138/69‑1 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGAt > 1:2501181/1‑68 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:733005/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:1752485/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:399642/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:910758/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:976854/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:989515/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:99993/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:2048190/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:1863516/1‑69 (MQ=255)
aataTCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATa > 1:2656666/1‑69 (MQ=255)
atatCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:2653804/58‑1 (MQ=255)
atatCCAGTTTCGCTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATaa < 1:2243945/69‑1 (MQ=255)
atatCCAGTTTCGCTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATaa < 1:99240/69‑1 (MQ=255)
atatCCAGTTTCGCTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATaa < 1:2046492/69‑1 (MQ=255)
atatCCAGTTTCGCTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATaa < 1:880895/69‑1 (MQ=255)
atatCCAGTTTCGCTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATaa < 1:40110/69‑1 (MQ=255)
atatCCAGTTTCGCTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATaa < 1:2740365/69‑1 (MQ=255)
atatCCAGTTTCGCTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATaa < 1:364980/69‑1 (MQ=255)
ttCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTtaata > 1:1993855/1‑69 (MQ=255)
tCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTtaataa > 1:2739879/1‑69 (MQ=255)
tCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTtaataa > 1:625462/1‑69 (MQ=255)
tCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTtaataa > 1:2610052/1‑69 (MQ=255)
tCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTtaataa > 1:369298/1‑69 (MQ=255)
tCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTtaataa > 1:1114736/1‑69 (MQ=255)
tCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTtaataa > 1:1589724/1‑69 (MQ=255)
tCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTtaataa > 1:3306848/1‑69 (MQ=255)
gTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCa < 1:1816261/45‑1 (MQ=255)
|
AAGCTTCATCGGGACGCCAGCGTTATCAATCATCCGTTGGCAGAGATCGAAAATAATATCCAGTTTCGGTTTACCACCTTCGACATCCACCAGCCATAATTCGCTGACCGGCAATTCGTGATAACGCTTAATAA > minE/1145988‑1146121
|
| 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
