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 |
2,053,407 |
G→A |
52.1% |
P268P (CCG→CCA) |
cca → |
fused tRNA nucleotidyl transferase and 2'3'‑cyclic phosphodiesterase/2'nucleotidase/phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,053,407 | 0 | G | A | 52.1%
| 0.1
/ 62.1
| 71 | P268P (CCG→CCA) | cca | fused tRNA nucleotidyl transferase and 2'3'‑cyclic phosphodiesterase/2'nucleotidase/phosphatase |
| Reads supporting (aligned to +/- strand): ref base G (18/16); new base A (17/20); total (35/36) |
| Fisher's exact test for biased strand distribution p-value = 6.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.10e-01 |
TCGATGTCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGGTGTTAAGTTAGTGGAACAACTATGCCAGC > minE/2053340‑2053462
|
tCGATGTCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCcgc < 1:151279/69‑1 (MQ=255)
tGTCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtc < 1:232610/68‑1 (MQ=255)
tGTCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtc < 1:2287795/68‑1 (MQ=255)
tGTCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtc < 1:1348057/68‑1 (MQ=255)
tGTCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtc < 1:464950/68‑1 (MQ=255)
tGTCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtc < 1:725648/68‑1 (MQ=255)
tCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatc < 1:3257565/69‑1 (MQ=255)
tCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatc < 1:3178340/69‑1 (MQ=255)
tCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatc > 1:1960090/1‑69 (MQ=255)
tCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatc < 1:2203032/69‑1 (MQ=255)
tCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatc > 1:1539891/1‑69 (MQ=255)
tCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatc > 1:778673/1‑69 (MQ=255)
tCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatc < 1:1178357/69‑1 (MQ=255)
ccGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatc < 1:1478942/68‑1 (MQ=255)
cGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGtcatca < 1:3047859/68‑1 (MQ=255)
tCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCAtcatggtc > 1:2737251/1‑69 (MQ=255)
tCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCAtcatggtc > 1:2616315/1‑69 (MQ=255)
tCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCAtcatggtc > 1:2801904/1‑69 (MQ=255)
tCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCAtcatggtc > 1:2266793/1‑69 (MQ=255)
tCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCAtcatggtc > 1:1032969/1‑69 (MQ=255)
tCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCAtcatggtc > 1:1964394/1‑69 (MQ=255)
tCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCAtcatggtc > 1:794124/1‑69 (MQ=255)
tCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCAtcatggt < 1:2050657/68‑1 (MQ=255)
ttATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCATCATGGTCATGGCCcg > 1:3294204/1‑69 (MQ=255)
gATCTCTGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:441068/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGtcat > 1:1349049/1‑45 (MQ=37)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:3056728/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:601998/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:753797/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:925286/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:2440356/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:2436517/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:942928/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:2329782/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:210378/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:211063/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:2247627/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:1745103/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:2302922/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:2325875/1‑67 (MQ=255)
gATCTCGGTAAAGGACTGACGCCGCCAGAAATTTGGCCACGTCATCATGGTCATGGCCCGGCGGgtg > 1:2635322/1‑67 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGTCGGGTGTGAAGTTAg < 1:811403/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:702239/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:1504074/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:180411/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:1334773/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:182081/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:1980920/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:904269/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:1615137/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:1290842/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:2953406/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:2839180/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:2118679/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:2530560/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:237321/68‑1 (MQ=255)
tAAAGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGGGTGAAGTTAg < 1:2977978/68‑1 (MQ=255)
aaaGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:2529298/67‑1 (MQ=255)
aaaGGACTGACGCCGCCAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:2399757/67‑1 (MQ=255)
tGACGCCGCCAGAACTCTGGCCGCGTCAtcatggt < 1:2445201/35‑1 (MQ=255)
tGACGCCGCCAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGGTGTTAAGTTAGTGGaacaac < 1:1761707/69‑1 (MQ=255)
gccgccAGAACTTTGGCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:2037406/56‑1 (MQ=38)
gccgccAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGgtg > 1:922687/1‑47 (MQ=255)
gccgccAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGgtg > 1:898440/1‑47 (MQ=255)
gccgccAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGgtg > 1:1016192/1‑47 (MQ=255)
gccgccAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGgtg > 1:715245/1‑47 (MQ=255)
gccgccAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGgtg > 1:3255664/1‑47 (MQ=255)
gccgccAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGgtg > 1:3204799/1‑47 (MQ=255)
gccgccAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGgtg > 1:2056496/1‑47 (MQ=255)
cAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGGTGTTAAGTTAGTGGAACAACTATGCCAGc < 1:345814/69‑1 (MQ=255)
cAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGGTGTTAAGTTAGTGGAACAACTATGCCAGc < 1:2603323/69‑1 (MQ=255)
ggCCACGTCATCATGGTCATGGCCCGGCGGGTGTGAAGTTAg < 1:1678414/42‑1 (MQ=37)
|
TCGATGTCCGTTTCGCAACTTTATGCCACGATCTCGGTAAAGGGCTGACGCCGCCAGAACTCTGGCCGCGTCATCATGGTCATGGCCCGGCGGGTGTTAAGTTAGTGGAACAACTATGCCAGC > minE/2053340‑2053462
|
| 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
