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 |
|
A12 F1 I1 R1
|
18 |
38.4 |
2430560 |
95.7% |
2326045 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,166,437 |
C→T |
P493S (CCG→TCG) |
rpoC → |
DNA‑directed RNA polymerase subunit beta' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,166,437 | 0 | C | T | 97.1%
| 128.3
/ NA
| 35 | P493S (CCG→TCG) | rpoC | DNA‑directed RNA polymerase subunit beta' |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (18/16); total (18/17) |
| Fisher's exact test for biased strand distribution p-value = 4.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCACGTACCGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCCCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTGTACTACATGACCCGTGAC > REL606/4166364‑4166508
|
tCACGTACCGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTcg < 1:464720/76‑1 (MQ=255)
cACGTACCGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTcgg > 2:514130/1‑76 (MQ=255)
cACGTACCGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTcgg < 1:268315/76‑1 (MQ=255)
cGTACCGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCCcggcg < 1:78355/76‑1 (MQ=255)
gTACCGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTAGCAACAACATCCTGTCCTcggcga < 1:660134/76‑1 (MQ=255)
tACCGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTcggcgaa > 1:526169/1‑76 (MQ=255)
cGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTcggcgaacgg > 2:549976/1‑76 (MQ=255)
gACGCTGGAAGCCCAGCTAGANGCNCGTGCGCTGATGATGTCTACCNACAACGTNCNGTCCTcggcgaacggcgaa > 2:176691/1‑76 (MQ=255)
gCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCa > 1:425662/1‑76 (MQ=255)
ggAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAatc < 2:1169805/76‑1 (MQ=255)
gAAGCTGAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAatca < 2:56527/76‑1 (MQ=255)
aGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTcc > 2:948059/1‑76 (MQ=255)
gCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCg < 2:517366/76‑1 (MQ=255)
cTGGAAGCGCATGCGCTCATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACGAATCATCGTTCCGt > 1:97424/1‑76 (MQ=255)
gAAGCGCGTGCGCTTATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACGAATCATAGTTCCGtctc < 1:101667/76‑1 (MQ=255)
gAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGtctc < 1:850114/76‑1 (MQ=255)
gAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGtctc > 2:442198/1‑76 (MQ=255)
aaGCGCGTGCNCGAATGATGTNTACCAACAACATGCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCa > 2:1189386/1‑76 (MQ=255)
aaGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCa < 2:120102/76‑1 (MQ=255)
aaGCGCGTGCGCTGATGATGTCTACCAACAACAGCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCa < 2:307918/76‑1 (MQ=255)
aGCGCGTGCGCTGATGATGTCTACCGACGACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAg < 1:190130/76‑1 (MQ=255)
aGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAg < 2:1039296/76‑1 (MQ=255)
cgTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACg > 2:323346/1‑76 (MQ=255)
cgTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACg > 2:428310/1‑76 (MQ=255)
gTGCGCTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGt > 2:442808/1‑76 (MQ=255)
cgcTGATGATGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGt < 1:729496/76‑1 (MQ=255)
cTGATAATGTCTACCAACAACATCCTGTCCTCGGCGAACGCCGAAGCAATCATCGTTCCCTCTCAGGACGGCGTAc > 1:76908/1‑76 (MQ=255)
tgatgaTGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACt < 2:1112884/76‑1 (MQ=255)
tgatgaTGTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACt > 1:746031/1‑76 (MQ=255)
atgatgTCTACCAACAACATACTGTCCTCGGCGAATGGCTAACCAATCATCGTTCCGTCTCAGGACGTTGTACTgg < 2:965252/76‑1 (MQ=255)
gTCTACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTg < 2:526169/76‑1 (MQ=255)
tACCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTGtac > 2:819521/1‑76 (MQ=255)
aCCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTGtact > 2:278961/1‑76 (MQ=255)
aCCAACAACATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTGtact > 2:595888/1‑76 (MQ=255)
caacaaCATCCTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTGtactac < 2:111354/76‑1 (MQ=255)
ccTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTGTACTACATGACCCGt > 1:890740/1‑76 (MQ=255)
cTGTCCTCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTGTACTACATGACCCGTg > 2:1092576/1‑76 (MQ=255)
gTCCTCGGCGAAAGGCGAACCAATCATCGTTCCATCTCAGGACGTTGTACTGGGTCTGTACNACATGACCCGTGAc > 1:1039431/1‑76 (MQ=255)
|
TCACGTACCGCTGACGCTGGAAGCCCAGCTGGAAGCGCGTGCGCTGATGATGTCTACCAACAACATCCTGTCCCCGGCGAACGGCGAACCAATCATCGTTCCGTCTCAGGACGTTGTACTGGGTCTGTACTACATGACCCGTGAC > REL606/4166364‑4166508
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
