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 |
|
A78 F1 I1 R1
|
16 |
49.7 |
3184232 |
95.8% |
3050494 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,169,030 |
T→C |
I1357T (ATC→ACC) |
rpoC → |
DNA‑directed RNA polymerase subunit beta' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,169,030 | 0 | T | C | 98.0%
| 194.5
/ ‑4.5
| 49 | I1357T (ATC→ACC) | rpoC | DNA‑directed RNA polymerase subunit beta' |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base C (26/22); total (27/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
AAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCGGCTGC > REL606/4168961‑4169102
|
aaGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGc > 2:929859/1‑76 (MQ=255)
gcagcCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAg < 2:368627/76‑1 (MQ=255)
ccgcCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAgg < 2:420665/74‑1 (MQ=255)
cagcCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAgg < 1:652763/76‑1 (MQ=255)
cGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTAcc > 2:1499115/1‑76 (MQ=255)
tGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGt < 2:952959/76‑1 (MQ=255)
gCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGtt < 2:1042822/76‑1 (MQ=255)
gggCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTAc < 1:233019/76‑1 (MQ=255)
ggCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTAcg < 2:1040108/76‑1 (MQ=255)
gCAGACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTATCGGCTAcgc > 2:110787/1‑76 (MQ=255)
gCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTAcgc < 2:824692/76‑1 (MQ=255)
aaaCGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGt > 2:768325/1‑76 (MQ=255)
cgaACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAg < 2:668949/76‑1 (MQ=255)
gaACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAgg < 2:843767/76‑1 (MQ=255)
aaCTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGa < 1:1413441/76‑1 (MQ=255)
aCTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGAt < 2:1226305/76‑1 (MQ=255)
aCTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGAt < 2:967027/76‑1 (MQ=255)
tGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCg < 2:7761/76‑1 (MQ=255)
gcgcGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATGGt > 2:23874/1‑76 (MQ=255)
gcgcGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGt < 1:456104/76‑1 (MQ=255)
cgGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATg < 2:28313/76‑1 (MQ=255)
ggCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGc < 1:682533/76‑1 (MQ=255)
gCCTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCg > 1:142234/1‑76 (MQ=255)
cTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTc > 2:1079433/1‑76 (MQ=255)
cTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTc > 2:130740/1‑76 (MQ=255)
cTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTc < 2:1324366/76‑1 (MQ=255)
cTGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTc < 1:625322/76‑1 (MQ=255)
tGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCg > 1:920093/1‑76 (MQ=255)
tGAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCg < 1:308846/76‑1 (MQ=255)
gAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGc > 1:77293/1‑76 (MQ=255)
gAAAGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGc > 2:59889/1‑76 (MQ=255)
aaaGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGcc > 1:1059978/1‑76 (MQ=255)
aaaGAGAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGcc > 2:695491/1‑76 (MQ=255)
aaaGAGAACGTTATCGTGGGGCGTCTGATCCCGGCAGCTATAGGGTACGCGCACCACCTGGATTTTTTGCGTCGcc > 2:540503/1‑76 (MQ=255)
aaaGAGAACGTTATCGTGGCTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGcc < 1:643928/76‑1 (MQ=255)
agagAACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGt > 2:696524/1‑76 (MQ=255)
gagaACGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGtg > 2:1385993/1‑76 (MQ=255)
aCGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGtgctgc > 1:740738/1‑76 (MQ=255)
cGTTATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCg > 1:1503119/1‑76 (MQ=255)
ttATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCggg > 2:1498026/1‑76 (MQ=255)
ttATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCggg > 1:690866/1‑76 (MQ=255)
ttATCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGCCGCCGGGGCGCggg > 1:675094/1‑76 (MQ=255)
aTCGTGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCggggg > 1:1511425/1‑74 (MQ=255)
tGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGc > 2:201323/1‑76 (MQ=255)
tGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGGGAAGc > 2:1450204/1‑76 (MQ=255)
gggTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCt > 1:721405/1‑76 (MQ=255)
ggTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTc > 2:1519665/1‑76 (MQ=255)
gtcTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCGGc < 1:170142/76‑1 (MQ=255)
tGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCGGCTGc > 2:1026736/1‑76 (MQ=255)
tGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCGGCTGc > 2:1360722/1‑76 (MQ=255)
|
AAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCGGCTGC > REL606/4168961‑4169102
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
