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 |
|
A81 F1 I1 R1
|
13 |
64.8 |
4113440 |
96.3% |
3961242 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,097,189 |
Δ2 bp |
coding (383‑384/846 nt) |
glpF ← |
glycerol facilitator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,097,187 | 0 | A | . | 93.0%
| 178.1
/ 8.9
| 43 | coding (386/846 nt) | glpF | glycerol facilitator |
| Reads supporting (aligned to +/- strand): ref base A (2/1); new base . (22/18); total (24/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01 |
| * | REL606 | 4,097,188 | 0 | C | . | 93.0%
| 180.5
/ 10.4
| 43 | coding (385/846 nt) | glpF | glycerol facilitator |
| Reads supporting (aligned to +/- strand): ref base C (2/1); new base . (22/18); total (24/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.54e-01 |
ACCATCTCAACTGCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAAC > REL606/4097112‑4097263
||
aCCATCTCAACTGCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCaa > 2:1840528/1‑76 (MQ=255)
cATCTCAACTGCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAact < 1:542619/76‑2 (MQ=255)
tctcAACTGCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAacttt < 1:1054588/76‑4 (MQ=255)
gCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTg > 1:1179940/1‑76 (MQ=255)
gCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTg > 1:1643574/1‑76 (MQ=255)
gCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTg > 2:1694721/1‑76 (MQ=255)
gCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTACCAGCCAGATCA‑‑ACTTTCAACGCTg > 1:358185/1‑76 (MQ=255)
gAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGcc > 1:994967/1‑76 (MQ=255)
aaaGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCcg > 1:698827/1‑76 (MQ=255)
aaaGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCcg > 2:1076929/1‑76 (MQ=255)
aGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCcgcg > 1:1075225/1‑76 (MQ=255)
gCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGa > 1:618383/1‑76 (MQ=255)
cTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAAc > 2:854730/1‑76 (MQ=255)
caAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAAtgt < 2:188097/76‑1 (MQ=255)
caAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAAtgt > 1:170819/1‑76 (MQ=255)
aaTTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGtgat < 2:1990371/76‑1 (MQ=255)
aTTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGtgatg > 1:285860/1‑76 (MQ=255)
ttGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGtgatga < 2:855911/76‑1 (MQ=255)
tGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAg < 2:1993037/76‑1 (MQ=255)
tGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAg > 1:737855/1‑76 (MQ=255)
atGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTc > 1:1063113/1‑76 (MQ=255)
ttggggTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAg < 2:761608/73‑1 (MQ=255)
tAGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGt < 1:1493492/76‑1 (MQ=255)
aGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAg > 2:1923818/1‑76 (MQ=255)
aGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTc > 1:574921/1‑76 (MQ=255)
aGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTc < 2:1770336/76‑1 (MQ=255)
aGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTc < 2:1168365/76‑1 (MQ=255)
aGGGTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTc > 2:1051218/1‑76 (MQ=255)
gggTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCg < 2:46408/76‑1 (MQ=255)
ggTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGa > 1:1960273/1‑76 (MQ=255)
ggTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGa > 1:743770/1‑76 (MQ=255)
ggTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGa < 1:1686523/76‑1 (MQ=255)
gTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGaa > 2:1628544/1‑76 (MQ=255)
gTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGaa < 2:1949854/76‑1 (MQ=255)
gTAAGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGaa < 2:610534/76‑1 (MQ=255)
aaGTAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGaaaa < 1:1592946/76‑1 (MQ=255)
tAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAaaata < 1:1958748/76‑1 (MQ=255)
tAGAGAAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAaaata > 1:2000721/1‑76 (MQ=255)
agaAAGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAaaataaat > 1:596057/1‑76 (MQ=255)
aaGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTgt < 2:566174/76‑1 (MQ=255)
aGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTgta > 2:1310818/1‑76 (MQ=255)
aGTGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTgta < 1:176620/76‑1 (MQ=255)
tGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTgtagt < 2:875859/76‑1 (MQ=255)
tGCCAGCCAGATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTgtagt > 2:928698/1‑76 (MQ=255)
ccagccagATCA‑‑ACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTaa < 2:618383/76‑1 (MQ=255)
cAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTa < 2:655042/76‑1 (MQ=255)
cacTTTCAACGCTGCCGCGAGCAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAAc < 1:1825111/76‑1 (MQ=255)
cacTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAAc < 1:1825128/76‑1 (MQ=255)
||
ACCATCTCAACTGCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAAC > REL606/4097112‑4097263
|
| 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
