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 |
|
A64 F1 I1 R1
|
17 |
58.5 |
3743480 |
96.8% |
3623688 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,145,987 |
G→A |
E42K (GAA→AAA) |
rpoD → |
RNA polymerase sigma factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,145,987 | 0 | G | A | 97.0%
| 256.1
/ ‑1.1
| 66 | E42K (GAA→AAA) | rpoD | RNA polymerase sigma factor |
| Reads supporting (aligned to +/- strand): ref base G (0/2); new base A (33/31); total (33/33) |
| Fisher's exact test for biased strand distribution p-value = 4.92e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
AAGGAGCAAGGCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGA > REL606/3145912‑3146059
|
aaGGAGCAAGGCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCg > 2:949734/1‑76 (MQ=255)
gAGCAAGGCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAg < 2:875139/76‑1 (MQ=255)
cAAGGCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGAca < 1:480944/76‑1 (MQ=255)
aaGGCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGAcat > 1:905227/1‑76 (MQ=255)
aGGCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGAcatc < 1:1500112/76‑1 (MQ=255)
gCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGAcatcat < 1:1504057/76‑1 (MQ=255)
gCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGAcatcat < 1:1607997/76‑1 (MQ=255)
cTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACatcatc > 2:1023120/1‑76 (MQ=255)
cTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACatcatc > 2:1327991/1‑76 (MQ=255)
tATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATcc > 1:859833/1‑76 (MQ=255)
tATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATcc > 2:568789/1‑76 (MQ=255)
aTCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCa > 1:162997/1‑76 (MQ=255)
aTCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCa > 1:1441197/1‑76 (MQ=255)
cTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCaaa < 2:1102337/76‑1 (MQ=255)
tGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAAt > 2:528636/1‑76 (MQ=255)
aCCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGa < 1:667919/76‑1 (MQ=255)
aCCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGa > 2:1109925/1‑76 (MQ=255)
cTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATc < 1:225213/76‑1 (MQ=255)
tATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCa < 2:1243280/76‑1 (MQ=255)
tATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCa < 1:377150/76‑1 (MQ=255)
tATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCa > 2:1408508/1‑76 (MQ=255)
tATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCa < 2:1763183/76‑1 (MQ=255)
aTGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCaa < 1:485645/76‑1 (MQ=255)
aTGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCaa > 2:222424/1‑76 (MQ=255)
ccGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGa < 2:411745/76‑1 (MQ=255)
cGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGAc < 1:138653/76‑1 (MQ=255)
gAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACa < 2:1209997/76‑1 (MQ=255)
aGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACAt > 1:1349235/1‑76 (MQ=255)
ggTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATg < 2:485143/76‑1 (MQ=255)
gTCAATGACCATCTGCCGGAAGATATCGTCGACTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATgg > 1:97023/1‑76 (MQ=255)
tCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATggg > 2:1435927/1‑76 (MQ=255)
tCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATggg > 2:892090/1‑76 (MQ=255)
aTGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCAt < 2:683663/76‑1 (MQ=255)
gACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTc > 1:1454429/1‑76 (MQ=255)
ccATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAg > 2:542054/1‑76 (MQ=255)
cATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAgg < 2:1084948/76‑1 (MQ=255)
cATCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAgg > 2:775252/1‑76 (MQ=255)
aTCTGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGt > 1:813621/1‑76 (MQ=255)
tGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGAt < 2:551257/76‑1 (MQ=255)
tGCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGAt < 2:578319/76‑1 (MQ=255)
gCCGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATg < 1:1162065/76‑1 (MQ=255)
ccGGAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATgg > 1:1694323/1‑76 (MQ=255)
ggAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGgaa > 1:1725646/1‑76 (MQ=255)
ggAAGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGgaa < 1:1708416/76‑1 (MQ=255)
aaGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGgaaga > 2:636010/1‑76 (MQ=255)
aaGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGgaaga > 1:401797/1‑76 (MQ=255)
aGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGgaagaa < 2:885058/76‑1 (MQ=255)
aGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGgaagaa < 1:383887/76‑1 (MQ=255)
aGATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGAGGgaagaa < 2:715163/76‑1 (MQ=255)
gATATCGTCGATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGaagaag > 1:1278150/1‑76 (MQ=255)
tcgATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGa < 1:1604122/76‑1 (MQ=255)
cgATTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGAt > 1:1806723/1‑76 (MQ=255)
aTTCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGc > 1:533501/1‑76 (MQ=255)
ttCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGcc > 2:111327/1‑76 (MQ=255)
ttCAGATCAGATCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGcc > 1:494349/1‑76 (MQ=255)
tcagatcagaTCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCg > 2:1856214/1‑76 (MQ=255)
tcagatcagaTCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCg < 2:607320/76‑1 (MQ=255)
cagatcagatCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCga > 1:728716/1‑76 (MQ=255)
cagatcagatCAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCga > 2:930721/1‑76 (MQ=255)
agatcagatcAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCgat > 1:42449/1‑76 (MQ=255)
atcagatcAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCgatga < 2:1686072/76‑1 (MQ=255)
gatcAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTg < 2:1124508/76‑1 (MQ=255)
gatcAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTg < 2:884067/76‑1 (MQ=255)
gatcAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTg < 1:717130/76‑1 (MQ=255)
atcAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGa < 2:875363/76‑1 (MQ=255)
atcAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGa < 1:995667/76‑1 (MQ=255)
atcAAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGa > 1:1584565/1‑76 (MQ=255)
|
AAGGAGCAAGGCTATCTGACCTATGCCGAGGTCAATGACCATCTGCCGGAAGATATCGTCGATTCAGATCAGATCGAAGACATCATCCAAATGATCAACGACATGGGCATTCAGGTGATGGAAGAAGCACCGGATGCCGATGATCTGA > REL606/3145912‑3146059
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
