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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,571,384 |
T→A |
14.3% |
intergenic (+152/‑1627) |
yibH → / → ysaB |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,571,384 | 0 | T | A | 14.3%
| 174.5
/ 21.2
| 70 | intergenic (+152/‑1627) | yibH/ysaB | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (20/40); new base A (4/6); total (24/46) |
| Fisher's exact test for biased strand distribution p-value = 7.27e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTTCCTCCTGCGACGG > minE/2571317‑2571453
|
cTTTAATATCCAGCATGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTACCCGTCTTGATc < 1:681628/71‑1 (MQ=255)
atttAATATCCAGCATGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATc > 1:1204721/2‑71 (MQ=255)
ttAATATCCAGCATGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTg > 1:1385251/1‑71 (MQ=255)
tAATATCCAGCATGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTGATCTgt > 1:3859165/1‑70 (MQ=255)
tatTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTAACCGTCTTGTTCTGCCGc < 1:1658843/70‑1 (MQ=255)
aTTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt < 1:2701468/70‑1 (MQ=255)
aTTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGAt < 1:3677991/70‑1 (MQ=255)
ttATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATga < 1:2009661/71‑1 (MQ=255)
tATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTc > 1:779794/1‑57 (MQ=255)
tATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGa > 1:2418661/1‑67 (MQ=255)
aTGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATgag < 1:3209317/70‑1 (MQ=255)
tGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGAc > 1:355609/1‑71 (MQ=255)
ttAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACt < 1:3269259/70‑1 (MQ=255)
ttAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACt < 1:209001/70‑1 (MQ=255)
aataaGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACtat < 1:257301/70‑1 (MQ=255)
ataaGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACtata < 1:2815788/70‑1 (MQ=255)
taaGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACa > 1:13632/1‑71 (MQ=255)
aaGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAt > 1:3522116/1‑71 (MQ=255)
gTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcg < 1:1944225/71‑1 (MQ=255)
tGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGa > 1:506791/1‑52 (MQ=255)
gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATga < 1:3675681/53‑1 (MQ=255)
gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACtat > 1:3271316/1‑59 (MQ=255)
gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCgag < 1:2084695/70‑1 (MQ=255)
gATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCga < 1:3808151/69‑1 (MQ=255)
gAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCg > 1:869814/1‑71 (MQ=255)
tgtgCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATga < 1:2270/47‑1 (MQ=255)
tgCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAat > 1:3041879/1‑70 (MQ=255)
ctctCATTGGATTTTTTATCCGTCTTGTTCTGCCGCa < 1:3611129/37‑1 (MQ=255)
tctcATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGa > 1:3002213/1‑39 (MQ=255)
tcATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATgaga > 1:2672705/1‑42 (MQ=255)
cATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACt < 1:1372972/43‑1 (MQ=255)
cATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACt < 1:254577/43‑1 (MQ=255)
cATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCaa > 1:3461047/1‑63 (MQ=255)
cATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGata > 1:29333/1‑71 (MQ=255)
aTTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAAtgatga < 1:2517521/68‑1 (MQ=255)
aTTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGatat < 1:3512756/71‑1 (MQ=255)
aTTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGatat < 1:3235391/71‑1 (MQ=255)
aTTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGata < 1:1621088/70‑1 (MQ=255)
ttGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATgatgat < 1:2860854/68‑1 (MQ=255)
ttGGATTTCTTATCCGTCTTGATCTGCCCGATGACCAGACTGTGCATTGTTGAGAACGCACTAATGacat > 1:2080036/1‑70 (MQ=255)
ttGGATTTCTTATCCGTCTTGATCTGCCCGATGACCAGACTGTGCATTGTTGAGAACGCACTAATGACATg < 1:1646094/71‑1 (MQ=255)
ttGGATTTCTTATCCGTCTTGATCTGCCCGATGACCAGACTGTGCATTGTTGAGAACGCACTAATGACATg < 1:260330/71‑1 (MQ=255)
tGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc < 1:3469100/50‑1 (MQ=255)
tGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc < 1:3769408/50‑1 (MQ=255)
tGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGatat > 1:1556753/1‑69 (MQ=255)
ggATTTCTTATCCGTCTTGATCTGTCCGATGACCAGACTGTGCATTGTTGAGAACGCACTAATGACATGa < 1:1184069/70‑1 (MQ=255)
ggATTTCTTATCCGTCTTGATCTGCCCGATGACGAGACTGTGCATTGTTGAGAACGCACTAATGACATGa < 1:2467650/70‑1 (MQ=255)
ggATTTCTTATCCGTCTTGATCTGCCCGATGACCAGACTGTGCATTGTTGAGAACGCACTAATGACATGa < 1:1156558/70‑1 (MQ=255)
gATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAgt < 1:1932645/71‑1 (MQ=255)
gATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAg < 1:1563958/70‑1 (MQ=255)
ttttttATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAgttg < 1:670240/71‑1 (MQ=255)
ttttttATCCGTCTTGTTCTGCCGCAGGATCAGACTATACATCGTCGAGATCGCAATGATGATAAGAgttg > 1:2667978/1‑71 (MQ=255)
tttttATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAgttg < 1:3012631/70‑1 (MQ=255)
ttttATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAgttgtt > 1:2647521/1‑71 (MQ=255)
ttATCCGTCTTGTTCTGCCGCAGGATGAGACTATACAtcgtc > 1:1731894/1‑42 (MQ=255)
tATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTtcc < 1:234069/70‑1 (MQ=255)
aTCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTtc > 1:332396/1‑68 (MQ=255)
tCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTtcctcc < 1:3341236/71‑1 (MQ=255)
ccGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAatgat < 1:2739097/52‑1 (MQ=255)
ccGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAatgat < 1:3576466/52‑1 (MQ=255)
tCTTGTTCTGCCGCTGGATGAGACTATACATCGTCGAGATCGCAatga < 1:3886979/48‑1 (MQ=255)
tCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGc < 1:592404/43‑1 (MQ=255)
tCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAatgatg < 1:2090128/50‑1 (MQ=255)
tCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAatgatg < 1:3506040/50‑1 (MQ=255)
tCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAatga < 1:1473688/48‑1 (MQ=255)
tCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAatga < 1:453366/48‑1 (MQ=255)
tCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTTCCTCCTGc > 1:419092/1‑70 (MQ=255)
cTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCg < 1:14261/41‑1 (MQ=255)
ttGTTCTGCCGCAGGATGAGACTATACATCGTCga > 1:3343464/1‑35 (MQ=255)
gTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAatga < 1:424019/44‑1 (MQ=255)
ttCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTTCCTCCTGCGACgg < 1:2401273/70‑1 (MQ=255)
|
CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTTCCTCCTGCGACGG > minE/2571317‑2571453
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
