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 |
2,571,371 |
T→C |
26.7% |
intergenic (+139/‑1640) |
yibH → / → ysaB |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,571,371 | 0 | T | C | 26.7%
| 91.7
/ 38.6
| 60 | intergenic (+139/‑1640) | yibH/ysaB | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (16/28); new base C (6/10); total (22/38) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
CTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTT > minE/2571303‑2571440
|
cTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGAtttttt < 1:1809107/71‑1 (MQ=255)
cTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGAtttttt < 1:51191/71‑1 (MQ=255)
cTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGAtttttt < 1:1410050/71‑1 (MQ=255)
cGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATc > 1:466854/1‑71 (MQ=255)
atgatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCg < 1:1035998/71‑1 (MQ=255)
tgatTTTTCCTTTAATATCCAGCATGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTATcc > 1:602030/1‑71 (MQ=255)
gatTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTc > 1:334079/1‑71 (MQ=255)
atTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTc < 1:833991/70‑1 (MQ=255)
tccTTTAATATCCAGCATGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTATCCGTc > 1:1663272/3‑67 (MQ=255)
tccTTTAATATCCAGCATGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTg < 1:1699436/68‑1 (MQ=255)
ccTTTAATATCCAGCATGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTATCCGTCTTga < 1:2002593/69‑2 (MQ=255)
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)
gcaTGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTa < 1:3041316/45‑1 (MQ=255)
gcaTGTTAAGAAGTTCAGGGATAGCTGTGATCTCATTGGATTTCTTa < 1:3193494/45‑1 (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 < 1:209001/70‑1 (MQ=255)
ttAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACt < 1:3269259/70‑1 (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 < 1:3235391/71‑1 (MQ=255)
aTTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGatat < 1:3512756/71‑1 (MQ=255)
aTTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGata < 1:1621088/70‑1 (MQ=255)
ttGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATgatgat < 1:2860854/68‑1 (MQ=255)
ttGGATTTCTTATCCGTCTTGATCTGCCCGATGACCAGACTGTGCATTGTTGAGAACGCACTAATGacat > 1:2080036/1‑70 (MQ=255)
ttGGATTTCTTATCCGTCTTGATCTGCCCGATGACCAGACTGTGCATTGTTGAGAACGCACTAATGACATg < 1:260330/71‑1 (MQ=255)
ttGGATTTCTTATCCGTCTTGATCTGCCCGATGACCAGACTGTGCATTGTTGAGAACGCACTAATGACATg < 1:1646094/71‑1 (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)
|
CTTCGATGATTTTT‑CTTTAATATTCATTATGTTAATAAGTTC‑TGGATGAGTGTGCTCTCATTGGATTTTTTATCCGTCTTGTTCTGCCGCAGGATGAGACTATACATCGTCGAGATCGCAATGATGATATGAGTTGTT > minE/2571303‑2571440
|
| 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
