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 |
|
A86 F1 I1 R1
|
15 |
50.6 |
3276358 |
95.9% |
3142027 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,164,097 |
C→T |
P1081L (CCG→CTG) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,164,097 | 0 | C | T | 97.4%
| 133.8
/ ‑3.0
| 38 | P1081L (CCG→CTG) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (17/20); total (17/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.11e-01 |
AAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCG > REL606/4164024‑4164167
|
aaaCGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGa < 2:797954/76‑1 (MQ=255)
aCGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATc < 1:45018/76‑1 (MQ=255)
aTCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGAGCAATTTCTAAGATCAACCAGATCGAAGata > 1:1276951/1‑76 (MQ=255)
tCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGatat < 1:1112154/76‑1 (MQ=255)
ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATg > 1:132165/1‑76 (MQ=255)
ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATg > 2:1196233/1‑76 (MQ=255)
catccTTGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGc < 2:130103/73‑1 (MQ=255)
tcTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCtt < 2:677890/75‑1 (MQ=255)
gcAAGGTGGCAGGTGGTCGCGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGa < 1:1415273/75‑1 (MQ=255)
aCAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGa > 2:179895/1‑76 (MQ=255)
aGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGaaaa < 1:661877/76‑1 (MQ=255)
tGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACgg > 2:1313180/1‑76 (MQ=255)
tGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACgg < 2:843379/76‑1 (MQ=255)
ggCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGt > 1:1505502/1‑76 (MQ=255)
gCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTa < 1:164251/76‑1 (MQ=255)
cAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTAc < 2:760161/76‑1 (MQ=255)
cAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTAc > 2:912061/1‑76 (MQ=255)
cAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTAc > 1:48708/1‑76 (MQ=255)
aGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACg < 1:620565/76‑1 (MQ=255)
aGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACg < 2:29378/76‑1 (MQ=255)
cgtcACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCgg > 1:379060/1‑76 (MQ=255)
gtcACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGt < 1:390565/76‑1 (MQ=255)
cGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGAc < 1:1615766/76‑1 (MQ=255)
tAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATc < 1:1017685/76‑1 (MQ=255)
aaCAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCg > 1:1351305/1‑76 (MQ=255)
cAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTa > 2:1222920/1‑76 (MQ=255)
gggTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTg < 1:455445/76‑1 (MQ=255)
gggTGTAATTTCTAAGATCAACCTGATCGAAGAGATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTg < 2:1437926/76‑1 (MQ=255)
gtAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAAcc > 1:1160060/1‑76 (MQ=255)
gtAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAAcc < 2:1396511/76‑1 (MQ=255)
gtAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAAcc > 1:1456262/1‑76 (MQ=255)
aTTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGc < 1:686212/76‑1 (MQ=255)
tttCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCt > 2:1055235/1‑76 (MQ=255)
tCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTgg > 1:5498/1‑76 (MQ=255)
cTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTggg < 1:1036338/76‑1 (MQ=255)
tAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGc > 1:1600889/1‑76 (MQ=255)
tAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGc > 2:1573876/1‑76 (MQ=255)
aGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGt < 2:1005173/76‑1 (MQ=255)
gATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTa < 1:821930/76‑1 (MQ=255)
aTCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTAc > 1:77367/1‑76 (MQ=255)
cAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCg < 2:366542/76‑1 (MQ=255)
|
AAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCG > REL606/4164024‑4164167
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
