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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
628,135 |
C→T |
40.4% |
Y195Y (TAC→TAT) |
kdsB → |
3‑deoxy‑manno‑octulosonate cytidylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 628,135 | 0 | C | T | 40.4%
| 40.7
/ 57.0
| 84 | Y195Y (TAC→TAT) | kdsB | 3‑deoxy‑manno‑octulosonate cytidylyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (32/18); new base T (12/22); total (44/40) |
| Fisher's exact test for biased strand distribution p-value = 1.42e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.98e-01 |
CGTTGGCGATAACTTCCTGCGTCATCTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCGTGT > minE/628069‑628191
|
cGTTGGCGATAACTTCCTGCGTCATCTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACg > 1:2742729/1‑68 (MQ=255)
aTCTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAg < 1:1799739/69‑1 (MQ=255)
aTCTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAg < 1:3300917/69‑1 (MQ=255)
aTCTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAg < 1:2766910/69‑1 (MQ=255)
aTCTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAg < 1:2828298/69‑1 (MQ=255)
cTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGaa < 1:3377016/69‑1 (MQ=255)
cTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGaa < 1:1312679/69‑1 (MQ=255)
ttGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGaa < 1:1244373/68‑1 (MQ=255)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:3308963/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:1880536/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:1880087/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:1742714/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:1708459/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:361037/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:1573196/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:636601/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:2565806/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:69766/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGtt > 1:2289208/1‑35 (MQ=37)
tATGGCTACCGAGCAGGCTTTATCCGTCGTTATGt > 1:528515/1‑35 (MQ=38)
gCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAAt > 1:663387/1‑67 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:2959569/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:3090586/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:2357298/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:953271/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:346333/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:348214/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:446810/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:530301/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:1438181/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:687548/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcagc > 1:757834/1‑69 (MQ=255)
cAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGagcag > 1:239853/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtg > 1:413389/1‑69 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtg > 1:2617713/1‑69 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtg > 1:1495765/1‑69 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtg > 1:194395/1‑69 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtg > 1:2000621/1‑69 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtg > 1:2193526/1‑69 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:2436881/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:1523286/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:586039/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:1169669/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:2948880/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:2051863/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:73348/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:2414729/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:219530/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgt > 1:2499301/1‑68 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCg > 1:1334146/1‑67 (MQ=255)
ttATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGATTCgt > 1:1731961/1‑68 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGATATGTTAGAGCAGCTTCgtgt < 1:191890/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:1922496/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:1651411/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:455903/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:468467/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:516021/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:2715316/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:1368077/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:2579488/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:104196/67‑1 (MQ=255)
tCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCgtgt < 1:2807491/67‑1 (MQ=255)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATTGAAATg < 1:3156/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:596453/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:1448877/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:639120/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:1364422/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:1165964/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:1075679/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:41270/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:375868/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:369146/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:1685770/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:174154/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:3408650/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:1826496/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:3103583/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:3076512/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:2998318/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:2964726/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:1974372/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:2647942/49‑1 (MQ=25)
ccGTCGTTATGTTACCTGGCAGCCAAGTCCGTTAGAACATATCGAAATg < 1:2591946/49‑1 (MQ=25)
gtcgtTATGTTACCTGTCAGCCAAGTCCGTTAGAACTTATCGAAATg < 1:2452928/47‑1 (MQ=255)
|
CGTTGGCGATAACTTCCTGCGTCATCTTGGTATTTATGGCTACCGTGCAGGCTTTATCCGTCGTTACGTCAACTGGCAGCCAAGTCCGTTAGAACACATCGAAATGTTAGAGCAGCTTCGTGT > minE/628069‑628191
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
