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 |
|
A1 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,998,196 |
A→G |
13.2% |
Y454H (TAT→CAT) |
yhiP ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,998,196 | 0 | A | G | 13.2%
| 130.3
/ 13.1
| 53 | Y454H (TAT→CAT) | yhiP | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (20/26); new base G (4/3); total (24/29) |
| Fisher's exact test for biased strand distribution p-value = 6.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01 |
GGCACCATCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTAAATGTTGCCACATAGCCGCC > W3110S.gb/3998126‑3998265
|
ggCACCATCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGtata < 1:2492293/71‑1 (MQ=255)
aCCATCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGAc < 1:2373233/71‑1 (MQ=255)
aTCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACggg > 1:427950/1‑71 (MQ=255)
tCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGtata < 1:1117831/64‑1 (MQ=255)
tCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGtata < 1:200305/64‑1 (MQ=255)
tCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGc < 1:2384354/71‑1 (MQ=255)
tCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGc < 1:71217/71‑1 (MQ=255)
cAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGc > 1:2371781/1‑70 (MQ=255)
aaCAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATGGACGGGCaa < 1:194714/71‑1 (MQ=255)
aaCAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATGGACGGGCaa < 1:500804/71‑1 (MQ=255)
aaCAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATGGACGGGCaa < 1:2414662/71‑1 (MQ=255)
aaCAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGa > 1:2724321/1‑64 (MQ=255)
aaCAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGa > 1:436185/1‑64 (MQ=255)
aaCAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCaa > 1:1401279/1‑71 (MQ=255)
aTCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGtctc < 1:889782/71‑1 (MQ=255)
aTCACTACTGCAACGCCCAGCGTGACCAGACCAATCATACCAAACACGTTGGTATAGACGGGCAACGtct > 1:1211823/1‑70 (MQ=255)
actactGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGtata > 1:1906630/1‑53 (MQ=255)
actactGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAg > 1:216931/1‑71 (MQ=255)
actactGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAg > 1:1423069/1‑71 (MQ=255)
actactGCAACGCCCAGCGTGACCAGA‑CAATCTTACCAAACACGTTGGTATAGACGGG‑AACGTCTCAAGCg > 1:2486797/1‑71 (MQ=255)
ctactGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGc < 1:1012414/59‑1 (MQ=255)
ctGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCgg < 1:2655585/70‑1 (MQ=255)
ctGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCgg < 1:1407235/70‑1 (MQ=255)
ctGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGa > 1:2624921/1‑71 (MQ=255)
ctGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGa > 1:1265776/1‑71 (MQ=255)
aCGTCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGt < 1:1869772/71‑1 (MQ=255)
aCGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGt < 1:1077460/71‑1 (MQ=255)
aCGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGt < 1:132059/71‑1 (MQ=255)
cGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTa < 1:1056523/71‑1 (MQ=255)
ccAGCGTGACCAGACCAATCTTACCAAACACGTTGGtata < 1:1826789/40‑1 (MQ=255)
gCGTGACCAGTCCAATCTTACCAAACACGTTGGtata < 1:1664291/37‑1 (MQ=255)
gCGTGACCAGACCAATCTTACCAAAGACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAAtgttg < 1:1288685/71‑1 (MQ=255)
gCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAAtgttg < 1:774786/71‑1 (MQ=255)
gCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAAtgttg < 1:408818/71‑1 (MQ=255)
gTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAg > 1:428921/1‑53 (MQ=255)
gTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAAtgttgt > 1:843255/1‑70 (MQ=255)
gTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAAtgttgt > 1:2147194/1‑70 (MQ=255)
tGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAAtgttg < 1:496949/68‑1 (MQ=255)
tGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTcc < 1:265104/71‑1 (MQ=255)
accagaccaATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCgg > 1:664181/1‑71 (MQ=255)
cagaccaATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCg > 1:340662/1‑55 (MQ=255)
caATCTTACCAAACACGTTGGTATGGACGGGCAACGTCTCAAGCGGATCGGTAATGTAGTCCGGCACcgcg > 1:1015672/1‑71 (MQ=255)
tCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGt < 1:46528/49‑1 (MQ=255)
tCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCgg < 1:2375537/61‑1 (MQ=255)
cTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAAtgttgt > 1:2720286/1‑56 (MQ=255)
ttACCAAACACGTTGGTATGGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTaaa > 1:1513900/1‑71 (MQ=255)
ttACCAAACACGTTGGTATAGACGGGCAACGtctc > 1:1978626/1‑35 (MQ=255)
tACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAAtgttg < 1:74674/53‑1 (MQ=255)
aCCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTaaa < 1:2649076/69‑1 (MQ=255)
aCCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTaaa < 1:1661337/69‑1 (MQ=255)
aCCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTa < 1:464348/67‑1 (MQ=255)
ccAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGTGGTaaa < 1:364844/68‑1 (MQ=255)
cacGTTGGTATGGACGGGCAACGTCTCAAGCGGATCGGTaa > 1:1049181/1‑41 (MQ=255)
cacGTTGGTATGGACGGGCAACGTCTCAAGCGGATCGGTaa > 1:647033/1‑41 (MQ=255)
cacGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTAAATGTTGCca < 1:2656616/71‑1 (MQ=255)
acGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTAAATGTTGCca > 1:1703497/1‑70 (MQ=255)
ggTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTAAATGTTGCcaca > 1:1387314/1‑67 (MQ=255)
gTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTAAATGTTGCCACATAgcc < 1:346995/71‑1 (MQ=255)
gTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTAAATGTTGCCACATAgc < 1:1091969/70‑1 (MQ=255)
taGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTAAATGTTGCCACATAgccgcc < 1:1661757/71‑1 (MQ=255)
|
GGCACCATCAACAGCATCACTACTGCAACGCCCAGCGTGACCAGACCAATCTTACCAAACACGTTGGTATAGACGGGCAACGTCTCAAGCGGATCGGTAATGTTGTCCGGCACCGCGGTAAATGTTGCCACATAGCCGCC > W3110S.gb/3998126‑3998265
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
