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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,021,281 |
C→A |
43.5% |
R253R (CGC→CGA) |
fliK → |
flagellar hook‑length control protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,021,281 | 0 | C | A | 43.5%
| 72.3
/ 60.7
| 62 | R253R (CGC→CGA) | fliK | flagellar hook‑length control protein |
| Reads supporting (aligned to +/- strand): ref base C (25/10); new base A (12/15); total (37/25) |
| Fisher's exact test for biased strand distribution p-value = 3.97e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTTGAGTGCACCGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGTGAAGTGCAAATCTCCCTCA > W3110S.gb/2021211‑2021348
|
ttttGAGTGCACCGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGc < 1:1661460/71‑1 (MQ=255)
ttGAGTGCACCGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGc > 1:561195/1‑69 (MQ=255)
ttGAGTGCACCGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGc > 1:4826155/1‑69 (MQ=255)
ttGAGTGCACCGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGc > 1:4168907/1‑69 (MQ=255)
gAGTGCACCGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAg < 1:256182/70‑1 (MQ=255)
gAGTGCACCGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAg < 1:4953119/70‑1 (MQ=255)
ccGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAg > 1:3977129/1‑63 (MQ=255)
ccGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAg > 1:1804495/1‑63 (MQ=255)
ccGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGcaaca < 1:3843056/71‑1 (MQ=255)
cGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGcaacaa < 1:3932515/71‑1 (MQ=255)
cGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGcaaca > 1:206433/1‑70 (MQ=255)
cGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGcaac > 1:1403391/1‑69 (MQ=255)
cGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACACGCCAGGGGcaaca > 1:2981722/1‑70 (MQ=255)
gCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGCGGCAACaaa < 1:762156/71‑1 (MQ=255)
cTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACaaa < 1:2319085/70‑1 (MQ=255)
ggTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTg > 1:3108547/1‑70 (MQ=255)
ggTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTg > 1:277065/1‑70 (MQ=255)
ggTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTg > 1:2487668/1‑70 (MQ=255)
ttCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTg > 1:3232146/1‑68 (MQ=255)
ttCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCag < 1:4792362/71‑1 (MQ=255)
ttCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCag < 1:4025817/71‑1 (MQ=255)
ctcACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCagag > 1:2275644/1‑71 (MQ=255)
ctcACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCagag > 1:520427/1‑71 (MQ=255)
ctcACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCagag > 1:2495781/1‑71 (MQ=255)
ctcACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCagag > 1:3230181/1‑71 (MQ=255)
tcACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCag < 1:2376532/68‑1 (MQ=255)
aCGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGcaac < 1:2950661/57‑1 (MQ=255)
aCGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGtt > 1:746307/1‑70 (MQ=255)
aCGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGt < 1:5126307/69‑1 (MQ=255)
gAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGcaacaa > 1:156304/1‑57 (MQ=255)
gAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGcaacaa > 1:1983287/1‑57 (MQ=255)
gAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCAGAGTTGCg < 1:2846381/71‑1 (MQ=255)
acaaTCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCAcc > 1:1090187/1‑71 (MQ=255)
acaaTCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCAcc > 1:2083001/1‑71 (MQ=255)
acaaTCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCAcc > 1:1101366/1‑71 (MQ=255)
caaTCATTATGCCAGCATATTTCGCTGTTCACCCGCCAGGGGcaaca < 1:3735534/47‑1 (MQ=255)
caaTCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGcaaca < 1:2613132/47‑1 (MQ=255)
aTCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCg > 1:53781/1‑70 (MQ=255)
aTCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCg > 1:1448836/1‑70 (MQ=255)
aTCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCg > 1:698443/1‑70 (MQ=255)
tCATTAAGCCAGCATATTTAGCTGTTCACCCGACAGGGGcaaca < 1:4847527/44‑1 (MQ=255)
aTTAAGCCAGCATATTTCGCTGTTCACCCGCCAgg > 1:3459010/1‑35 (MQ=255)
aTTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACaaa > 1:4831484/1‑44 (MQ=255)
aTTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACaaa > 1:1111056/1‑44 (MQ=255)
aTTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGt > 1:4887262/1‑58 (MQ=255)
aTTAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTg < 1:3299722/47‑1 (MQ=255)
tAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACtaa > 1:2089546/1‑42 (MQ=38)
tAAGCCAGCATATTTCGCTGTTCACCCGACAGGGGCAACaaa > 1:2606780/1‑42 (MQ=255)
aGCATATTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGt < 1:308384/71‑1 (MQ=255)
gCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGt > 1:3637427/1‑70 (MQ=255)
cATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCaga > 1:320027/1‑41 (MQ=255)
atatTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGt > 1:3042790/1‑47 (MQ=255)
tatTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCa < 1:1968632/37‑1 (MQ=255)
tatTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCa < 1:3266119/37‑1 (MQ=255)
tatTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCa < 1:2842877/37‑1 (MQ=255)
tatTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCa < 1:1947326/37‑1 (MQ=255)
tatTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCAGAGTTGCGt < 1:2062904/46‑1 (MQ=255)
tatTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGc < 1:1034013/56‑1 (MQ=255)
tatTTCGCTGTTCACCCGACAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGc < 1:1956320/56‑1 (MQ=255)
tttCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGTGAAGTg > 1:1807731/1‑71 (MQ=255)
tttCGCTGTTCACCCGACAGGGGCAACAAAGTGCAGAGTTGCGTCt > 1:3433849/1‑46 (MQ=255)
tttCGCTGTTCACCCGACAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGTGAAGt > 1:202760/1‑70 (MQ=255)
ttCGCTGTTCACCCGCCAGGGGCAACAAAGTTCAGAGTTGCGTCTGc < 1:3065202/47‑1 (MQ=255)
gCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGTGAAGTGCaaa > 1:5061820/1‑71 (MQ=255)
cACCCGACAGGTGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGTGAAGTGCAAATCTccc > 1:4190731/1‑71 (MQ=255)
cGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGTGAAGTGCAAATCTCCCTCa > 1:2345650/1‑70 (MQ=255)
|
TTTTGAGTGCACCGCTGGGTTCTCACGAATGGCAACAATCATTAAGCCAGCATATTTCGCTGTTCACCCGCCAGGGGCAACAAAGTGCAGAGTTGCGTCTGCACCCGCAGGATTTAGGTGAAGTGCAAATCTCCCTCA > W3110S.gb/2021211‑2021348
|
| 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
