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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
821,576 |
T→G |
34.9% |
intergenic (‑113/+341) |
ldrA ← / ← ldrC |
toxic polypeptide, small/toxic polypeptide, small |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 821,576 | 0 | T | G | 34.9%
| 63.2
/ 62.3
| 63 | intergenic (‑113/+341) | ldrA/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| Reads supporting (aligned to +/- strand): ref base T (22/19); new base G (11/11); total (33/30) |
| Fisher's exact test for biased strand distribution p-value = 7.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGCCACCAGGGATAAAGCCCCCGCA > minE/821507‑821642
|
aTGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGtttt < 1:1909009/71‑1 (MQ=34)
aTGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGttt > 1:4937720/1‑70 (MQ=35)
aacaTTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACctc > 1:4271205/1‑71 (MQ=34)
aacaTTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACctc > 1:1018866/1‑71 (MQ=34)
aacaTTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACctc > 1:762428/1‑71 (MQ=34)
acaTTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACctc < 1:5348219/70‑1 (MQ=35)
caTTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACctc < 1:2749988/69‑1 (MQ=35)
aTTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCtctc > 1:4164091/1‑70 (MQ=35)
ttGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACg > 1:1730592/1‑71 (MQ=34)
cGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGt < 1:753174/69‑1 (MQ=35)
gCTATTCTTGAATTG‑TTCTGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACct < 1:1570890/59‑1 (MQ=11)
gCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTg < 1:4483300/68‑1 (MQ=35)
gCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTg < 1:2987968/68‑1 (MQ=35)
gCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTg < 1:1553419/68‑1 (MQ=35)
gCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTg < 1:1546760/68‑1 (MQ=35)
gCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTg < 1:3472529/68‑1 (MQ=35)
cTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCggg > 1:1886804/1‑71 (MQ=34)
cTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCgg < 1:175163/70‑1 (MQ=35)
ttCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGt > 1:1870206/1‑71 (MQ=11)
ttCTTGAATTGTTCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGt > 1:1290788/1‑71 (MQ=11)
ttCTTGAATTG‑TTCAGGTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCaa < 1:1278158/60‑1 (MQ=11)
tCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGtt > 1:5693301/1‑71 (MQ=34)
cTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTAc > 1:2826786/1‑51 (MQ=35)
ttGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCATGTTTTACCTCTCAACGTGCGGGGGtt < 1:3721880/69‑1 (MQ=25)
ttGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGttt < 1:1544248/47‑1 (MQ=38)
ttGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa < 1:3133947/49‑1 (MQ=38)
ttGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGttt > 1:756040/1‑70 (MQ=35)
aGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTctct < 1:459328/71‑1 (MQ=34)
gtg‑tCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTAc > 1:759367/1‑45 (MQ=38)
tg‑tCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTtct < 1:1454530/67‑1 (MQ=35)
tg‑tCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTtct < 1:402836/67‑1 (MQ=35)
g‑tCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa > 1:2406855/1‑42 (MQ=38)
g‑tCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa > 1:3040576/1‑42 (MQ=38)
g‑tCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa > 1:3507434/1‑42 (MQ=38)
g‑tCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa > 1:3918708/1‑42 (MQ=38)
ttCTGG‑TTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTc < 1:2163854/69‑1 (MQ=11)
tCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCg < 1:3780151/55‑1 (MQ=35)
tGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa > 1:4328844/1‑39 (MQ=40)
tGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTa > 1:4371516/1‑39 (MQ=40)
tGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTtctc > 1:3455138/1‑64 (MQ=35)
gTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTAc > 1:875181/1‑38 (MQ=40)
gTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCtctc < 1:3748817/43‑1 (MQ=38)
gTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGc > 1:1714470/1‑70 (MQ=35)
gttCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGc < 1:4008734/68‑1 (MQ=255)
ttCAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAAc < 1:4248633/71‑1 (MQ=21)
cAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAAcc > 1:2561353/1‑70 (MQ=35)
cAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAAcc < 1:848013/70‑1 (MQ=35)
cAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAAcc < 1:1348151/70‑1 (MQ=35)
cAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCgg > 1:616431/1‑48 (MQ=255)
cAAGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCgg > 1:1947692/1‑48 (MQ=255)
aaGATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCa < 1:3345401/70‑1 (MQ=25)
gATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATg > 1:2076834/1‑71 (MQ=34)
gATTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATg < 1:2913665/71‑1 (MQ=21)
aTTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGc > 1:2321658/1‑71 (MQ=21)
aTTAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGc < 1:2163303/71‑1 (MQ=21)
tAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGcca > 1:2765249/1‑71 (MQ=21)
tAGCCCCCGTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGcca > 1:1831334/1‑71 (MQ=21)
gCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGccac < 1:1062496/70‑1 (MQ=35)
gTTCTGTTGTCAGGTTGTACCTCTCAACGTGCGTGGGTTTTCTCTTTCCAGCAACCAATGCCACCAGGGa > 1:4432181/1‑70 (MQ=255)
ttCTGTTGTCAGGTTGTACCTCTCAACGTTCggggg < 1:4297806/36‑1 (MQ=14)
ttCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGCCACCAGGGAt < 1:4036196/70‑1 (MQ=25)
ttCTGTTGTAAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCtt > 1:863469/1‑45 (MQ=255)
tCTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAAc > 1:5281153/1‑53 (MQ=16)
cTGTTGTCAGGTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGCCACCAGGGATa > 1:559051/1‑69 (MQ=14)
cTGTTGTCAGGTTGTACCTATCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGc > 1:205662/1‑58 (MQ=11)
ggTTGTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGCCACCAGGGATAAAGCCCCCGCa < 1:4729267/71‑1 (MQ=25)
aggtttACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGCCACCAGGGATAAAGCCCCCGc < 1:1827786/67‑1 (MQ=25)
|
ATGACAACATTTTGCGGCTATTCTTGAAGTG‑TCTGGTTTCAAGATTAGCCCCCGTTCTGTTGTCAGGTTTTACCTCTCAACGTGCGGGGGTTTTCTCTTTCCAGCAACCAATGCCACCAGGGATAAAGCCCCCGCA > minE/821507‑821642
|
| 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
